Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold3
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1336734
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 151046 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:411232 original size:26 final size:25
Alignment explanation
Indices: 411192--411242 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
411182 TTTTATTTTA
*
411192 CAATCCTATCCTATCGTTTCGTGTAT
1 CAATCCTATCCTATC-TTGCGTGTAT
*
411218 CAATCCTATCGTATCTTGCGTGTAT
1 CAATCCTATCCTATCTTGCGTGTAT
411243 ATTGTTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (25 bp):
CAATCCTATCCTATCTTGCGTGTAT
Found at i:417740 original size:438 final size:438
Alignment explanation
Indices: 417294--418695 Score: 2348
Period size: 441 Copynumber: 3.2 Consensus size: 438
417284 ACACAAGATT
* * *
417294 GGTCAAGGTCAAAAATTAT-GGAGGCGTGCACTCCTTCTCAATACCATCTACCTATGTTCCAAGT
1 GGTCAAGGTCAAAAATT-TGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGT
* * *
417358 TTGAAGCCTTAATGTCAAAAGGTATCTAAGTTACCACCCAGACAAAATTTAATTATTTTTTCTTA
65 TTGAAGTCTTAATGTCAAAAGGTAT-TAAGTTACGACCCAGACAAAATTTAATTATTTTTTCTCA
417423 ATTTGACCTTGAGTAAAACAAGGTCAAG-CAAATATTAATCAATAGTACACCTCAGTGTATCTTT
129 ATTTGACCTTGAGTAAAACAAGGTCAAGTCAAATATTAATCAATAGTACACCTCAGTGTATCTTT
*
417487 ATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAATT
194 ATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAAGT
*
417552 TTTTTCTAATTTGACCTTGAAATAAAATTTTTAGGTCAAGGTCAAAATTTTTGTTAAGGTTCAAC
259 TTTTTCTAATTTGACCTTGAAATAAAATTTTTAGGTCAAGGTCAAAATTTTTGGTAAGGTTCAAC
*
417617 TAGACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGTTA
324 TGGACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGTTA
417682 TAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
389 TAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
*
417732 GGTCAAGGTCAAAAAATTT-AGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGT
1 GGTCAAGGTC-AAAAATTTGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGT
*
417796 TTGAAGTCTTAATGTCAAAAGGTATTTAAATTACGACCCAGACAAAATTTAATTATTTTTTCTCA
65 TTGAAGTCTTAATGTCAAAAGGTA-TTAAGTTACGACCCAGACAAAATTTAATTATTTTTTCTCA
* * * *
417861 ACTTGACCTTGAGTAAAACAAGGTCAAGGTCAAATATTTATGAATAGTACACCTCAATGTATCTT
129 ATTTGACCTTGAGTAAAACAAGGTCAA-GTCAAATATTAATCAATAGTACACCTCAGTGTATCTT
* **
417926 TATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCTAAGAATATTTAAAAGGTGAACAATGAAG
193 TATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAAG
* *
417991 TTTTTTCTGATTTGACCTTGAAATAAAATTTTAAGGTCAAGGTCACAAA-TTTTGGTAAGGTTCA
258 TTTTTTCTAATTTGACCTTGAAATAAAATTTTTAGGTCAAGGTCA-AAATTTTTGGTAAGGTTCA
418055 ACTGGACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGT
322 ACTGGACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGT
418120 TATAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
387 TATAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
* *
418172 GGTCAAGGTAAAAAATTTGGGTGGCATGCACTCCTTCTTAATACTATCTACCTATGTTCCAAGTT
1 GGTCAAGGTCAAAAATTTGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGTT
* *
418237 TGAAGTCTTAATGTCAAAAGATATTTAGATTACGACCCAGACAAAATTTAATTATTTTTTTCTCA
66 TGAAGTCTTAATGTCAAAAGGTATTAAG-TTACGACCCAGACAAAATTTAATTA-TTTTTTCTCA
* *
418302 ATTTGACCTTGAGTAAAACAAGGTCAGGGTCAAATATTAATCAATAGTACACCTAAGTGTATCTT
129 ATTTGACCTTGAGTAAAACAAGGTCA-AGTCAAATATTAATCAATAGTACACCTCAGTGTATCTT
418367 TATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAAG
193 TATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAAG
* *
418432 TTTTTTCTTATTTGACCTTGAAATAAAAATTTTAGGTCAAGGTCAAAATTTTTGGTAAGGTTCAA
258 TTTTTTCTAATTTGACCTTGAAATAAAATTTTTAGGTCAAGGTCAAAATTTTTGGTAAGGTTCAA
* * *
418497 CTGGACTATATACCATCTATCTATGATAC-CAGTTAAAAG-TTAGGATGTTTAAGGAGTCTTGTG
323 CTGGACTATATACCATCTATCTATGATACAC-GTTAAAAGATT-GTATGATGAAGGAGTCTTGTG
* * *
418560 TTATAGTCCAAACTCTATTTTTTATAAAACGCTTGACCTTGAAAAAGAAACTA
386 TTATAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
*
418613 GGTCAAGGTCAAAAATTTGGGTGGCGTGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGTT
1 GGTCAAGGTCAAAAATTTGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGTT
418678 TGAAGTCTTAATGTCAAA
66 TGAAGTCTTAATGTCAAA
418696 GTGTGTTTAA
Statistics
Matches: 905, Mismatches: 47, Indels: 21
0.93 0.05 0.02
Matches are distributed among these distances:
438 137 0.15
439 20 0.02
440 372 0.41
441 376 0.42
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (438 bp):
GGTCAAGGTCAAAAATTTGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGTT
TGAAGTCTTAATGTCAAAAGGTATTAAGTTACGACCCAGACAAAATTTAATTATTTTTTCTCAAT
TTGACCTTGAGTAAAACAAGGTCAAGTCAAATATTAATCAATAGTACACCTCAGTGTATCTTTAT
TGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAAGTTT
TTTCTAATTTGACCTTGAAATAAAATTTTTAGGTCAAGGTCAAAATTTTTGGTAAGGTTCAACTG
GACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGTTATA
GTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
Found at i:418075 original size:440 final size:439
Alignment explanation
Indices: 417294--418695 Score: 2361
Period size: 440 Copynumber: 3.2 Consensus size: 439
417284 ACACAAGATT
* * *
417294 GGTCAAGGTCAAAAATTAT-GGAGGCGTGCACTCCTTCTCAATACCATCTACCTATGTTCCAAGT
1 GGTCAAGGTCAAAAATT-TGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGT
* * * * *
417358 TTGAAGCCTTAATGTCAAAAGGTATCTAAGTTACCACCCAGACAAAATTTAATTATTTTTTCTTA
65 TTGAAGTCTTAATGTCAAAAGGTATTTAAATTACGACCCAGACAAAATTTAATTATTTTTTCTCA
*
417423 ATTTGACCTTGAGTAAAACAAGGTCAA-G-CAAATATTAATCAATAGTACACCTCAGTGTATCTT
130 ATTTGACCTTGAGTAAAACAAGGTCAAGGTCAAATATTAATCAATAGTACACCTCAATGTATCTT
*
417486 TATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAAT
195 TATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAAG
*
417551 TTTTTTCTAATTTGACCTTGAAATAAAATTTTTAGGTCAAGGTCAAAATTTTTGTTAAGGTTCAA
260 TTTTTTCTAATTTGACCTTGAAATAAAA-TTTTAGGTCAAGGTCAAAATTTTTGGTAAGGTTCAA
*
417616 CTAGACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGTT
324 CTGGACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGTT
417681 ATAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
389 ATAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
*
417732 GGTCAAGGTCAAAAAATTT-AGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGT
1 GGTCAAGGTC-AAAAATTTGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGT
417796 TTGAAGTCTTAATGTCAAAAGGTATTTAAATTACGACCCAGACAAAATTTAATTATTTTTTCTCA
65 TTGAAGTCTTAATGTCAAAAGGTATTTAAATTACGACCCAGACAAAATTTAATTATTTTTTCTCA
* * *
417861 ACTTGACCTTGAGTAAAACAAGGTCAAGGTCAAATATTTATGAATAGTACACCTCAATGTATCTT
130 ATTTGACCTTGAGTAAAACAAGGTCAAGGTCAAATATTAATCAATAGTACACCTCAATGTATCTT
* **
417926 TATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCTAAGAATATTTAAAAGGTGAACAATGAAG
195 TATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAAG
*
417991 TTTTTTCTGATTTGACCTTGAAATAAAATTTTAAGGTCAAGGTCACAAA-TTTTGGTAAGGTTCA
260 TTTTTTCTAATTTGACCTTGAAATAAAATTTT-AGGTCAAGGTCA-AAATTTTTGGTAAGGTTCA
418055 ACTGGACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGT
323 ACTGGACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGT
418120 TATAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
388 TATAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
* *
418172 GGTCAAGGTAAAAAATTTGGGTGGCATGCACTCCTTCTTAATACTATCTACCTATGTTCCAAGTT
1 GGTCAAGGTCAAAAATTTGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGTT
* *
418237 TGAAGTCTTAATGTCAAAAGATATTTAGATTACGACCCAGACAAAATTTAATTATTTTTTTCTCA
66 TGAAGTCTTAATGTCAAAAGGTATTTAAATTACGACCCAGACAAAATTTAATTA-TTTTTTCTCA
*
418302 ATTTGACCTTGAGTAAAACAAGGTCAGGGTCAAATATTAATCAATAGTACACCT-AAGTGTATCT
130 ATTTGACCTTGAGTAAAACAAGGTCAAGGTCAAATATTAATCAATAGTACACCTCAA-TGTATCT
418366 TTATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAA
194 TTATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAA
*
418431 GTTTTTTCTTATTTGACCTTGAAATAAAAATTTTAGGTCAAGGTCAAAATTTTTGGTAAGGTTCA
259 GTTTTTTCTAATTTGACCTTGAAAT-AAAATTTTAGGTCAAGGTCAAAATTTTTGGTAAGGTTCA
* * *
418496 ACTGGACTATATACCATCTATCTATGATAC-CAGTTAAAAG-TTAGGATGTTTAAGGAGTCTTGT
323 ACTGGACTATATACCATCTATCTATGATACAC-GTTAAAAGATT-GTATGATGAAGGAGTCTTGT
* * *
418559 GTTATAGTCCAAACTCTATTTTTTATAAAACGCTTGACCTTGAAAAAGAAACTA
386 GTTATAGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
*
418613 GGTCAAGGTCAAAAATTTGGGTGGCGTGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGTT
1 GGTCAAGGTCAAAAATTTGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGTT
418678 TGAAGTCTTAATGTCAAA
66 TGAAGTCTTAATGTCAAA
418696 GTGTGTTTAA
Statistics
Matches: 910, Mismatches: 42, Indels: 21
0.94 0.04 0.02
Matches are distributed among these distances:
438 138 0.15
439 20 0.02
440 375 0.41
441 369 0.41
442 8 0.01
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (439 bp):
GGTCAAGGTCAAAAATTTGGGTGGCATGCACTCCTTCTTAATACCATCTACCTATGTTCCAAGTT
TGAAGTCTTAATGTCAAAAGGTATTTAAATTACGACCCAGACAAAATTTAATTATTTTTTCTCAA
TTTGACCTTGAGTAAAACAAGGTCAAGGTCAAATATTAATCAATAGTACACCTCAATGTATCTTT
ATTGTTCTTTGTGTAAAGTTTGAAGTCCTTCTGTCAAAGAATATTTAGGAGGTGAACAATGAAGT
TTTTTCTAATTTGACCTTGAAATAAAATTTTAGGTCAAGGTCAAAATTTTTGGTAAGGTTCAACT
GGACTATATACCATCTATCTATGATACACGTTAAAAGATTGTATGATGAAGGAGTCTTGTGTTAT
AGTCCAGACTATATTTTTTATAAAACGCTTGACCTTGAAAAAGAAAATA
Found at i:418496 original size:19 final size:19
Alignment explanation
Indices: 418457--418492 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
418447 CCTTGAAATA
418457 AAAATTTTAGGTCAAGGTC
1 AAAATTTTAGGTCAAGGTC
*
418476 AAAATTTTTGGT-AAGGT
1 AAAATTTTAGGTCAAGGT
418493 TCAACTGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (19 bp):
AAAATTTTAGGTCAAGGTC
Found at i:420083 original size:437 final size:435
Alignment explanation
Indices: 419063--420479 Score: 2390
Period size: 437 Copynumber: 3.3 Consensus size: 435
419053 AATAAATGTG
* * *
419063 AGATGAACATTTTTGCTTCCTAAACATATAACAAAAAAATTT-TCAGTAAAGTGCTATGGAAGAA
1 AGATGAACATTTTTGCTTCTTAAACATATTAC-AAAACATTTCTCAGTAAAGTGCTATGGAAGAA
* *
419127 AGACTTTAGAGCCCTTTTGGTCCCTAAATTGAAGGGCCAGCCCCTTTTTGTTGGCATCATACGAA
65 AGACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGAA
*
419192 AGTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCCGTTTTTGAGC
130 AGTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCTGTTTTTGAGC
*
419257 TATCTGGGATATG-----A---GCCGACCCCTAATCTCTTTATTGGGGCCAGATAACGAAAATTT
195 TATCTGGGATATGAATTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAATTT
* *
419314 TATGATTGAATATTGTTTAAAACATCATTCTAAACATCTTTTATTCTCTATTGCTTTTCAAAATA
260 TATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTGCTTTTCAAAATA
419379 TTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTTTGGCCCCTTAAAACCCCTAATTA
325 TTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTTTGGCCCCTTAAAACCCCTAATTA
* *
419444 CGTAACGCATAACAAAAAGTTTTATGATGTATAGTTTTATTAGTGAA
390 CGTAACGCATAATAAAAA-TTTTATAATGTATAGTTTTATTAGTGAA
* * *
419491 AGATGAACATTTTTGCTTCTTAAACATATGACAAAACATTACTCAGTAAAGTGCTATGGAAGACA
1 AGATGAACATTTTTGCTTCTTAAACATATTACAAAACATTTCTCAGTAAAGTGCTATGGAAGAAA
419556 GACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGAAA
66 GACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGAAA
*
419621 GTTCTTTTGATATTAAACATATTTTGTTCAACAAGTCTTTAGAAATTCTTTGCTGTTTTTGAGCT
131 GTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCTGTTTTTGAGCT
*
419686 ATCTGGGATATGATATTTAAGGGGACGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAATT
196 ATCTGGGATATGA-ATTT-AGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAATT
* * *
419751 TTATAATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTCCTTTTTAAAAT
259 TTATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTGCTTTTCAAAAT
*
419816 ATTTGTCCTTTTTGAGATATATTCGATCGAAATTTTGGACTTTTGGCCCCTTAAAACCCCTAATT
324 ATTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTTTGGCCCCTTAAAACCCCTAATT
419881 ACGTAACGCATAATAAAAATTTTATAATGTATAGTTTTATTAGTGAA
389 ACGTAACGCATAATAAAAATTTTATAATGTATAGTTTTATTAGTGAA
*
419928 AGATGAACATTTTTGCTTCTTAAACATATTACAAAACATTTCTCAGTAAAGTGCTATAGAAGAAA
1 AGATGAACATTTTTGCTTCTTAAACATATTACAAAACATTTCTCAGTAAAGTGCTATGGAAGAAA
*
419993 GACTTTAGAACCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGAAA
66 GACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGAAA
**
420058 GTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCTGTTTAAGAGCT
131 GTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCTGTTTTTGAGCT
* *
420123 ATCTGGGAAAGGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAATT
196 ATCTGGGATATGA-A-TTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAATT
420188 TTATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTGCTTTTCAAAAT
259 TTATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTGCTTTTCAAAAT
*
420253 ATTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGATTTTTGGCCCCTTAAAACCCCTAATT
324 ATTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTTTGGCCCCTTAAAACCCCTAATT
*
420318 ACGTAACGCATAAT-AAAA-TTTATAATGTATAGTTTTATTAGTAAA
389 ACGTAACGCATAATAAAAATTTTATAATGTATAGTTTTATTAGTGAA
* * *
420363 AGATGAACATTTTTGCTTCTTAAACATATTACAAAATATTTCTCAGTAAAGGGCTATGGGAGAAA
1 AGATGAACATTTTTGCTTCTTAAACATATTACAAAACATTTCTCAGTAAAGTGCTATGGAAGAAA
* *
420428 GACTTTAGAGCCCTTTTGGCCCCT-TATTTAAGGGACCAGCCCCTTTTTCTTG
66 GACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGG-CCAGCCCCTTTTTCTTG
420480 TTATCAAACG
Statistics
Matches: 932, Mismatches: 44, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
427 7 0.01
428 190 0.20
434 8 0.01
435 128 0.14
436 4 0.00
437 410 0.44
438 185 0.20
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (435 bp):
AGATGAACATTTTTGCTTCTTAAACATATTACAAAACATTTCTCAGTAAAGTGCTATGGAAGAAA
GACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGAAA
GTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCTGTTTTTGAGCT
ATCTGGGATATGAATTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAATTTT
ATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTGCTTTTCAAAATAT
TTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTTTGGCCCCTTAAAACCCCTAATTAC
GTAACGCATAATAAAAATTTTATAATGTATAGTTTTATTAGTGAA
Found at i:422739 original size:146 final size:146
Alignment explanation
Indices: 422575--423260 Score: 984
Period size: 146 Copynumber: 4.7 Consensus size: 146
422565 CTTCATCAAT
** *
422575 TGACCTTGGGTCAAGGTCATGACACACCCTTAATTCATAAGCAATCTTTGTGTGAAGTAAAAACT
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAGAACT
* *
422640 TCCAATGCTTC-CCGTTAAGAAAGATATGGACCGGCCACAAATTTTGCATTTTTTCTGCCAGTGA
66 TCCAATGCTTCTCC-ATAAGAAAGATATGGACCGGACACAAATTTTGCATTTTTTCTGCCAGTGA
*
422704 CCTTGACCTTTCCCAAA
130 CCTTGACCTTGCCCAAA
* *
422721 TGACCTTGGGTCAAGGTCATGACAAACCCTTAGGTCATGAGCAATCTTTGTGT-AAGGTAAGAAC
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAA-GTAAGAAC
* * * * *
422785 ATT-AAATGCTTCTCCATAAGGAAGATATGGACCGGACAAAAATTTCGCACTTTTTCTGCCAGTG
65 -TTCCAATGCTTCTCCATAAGAAAGATATGGACCGGACACAAATTTTGCATTTTTTCTGCCAGTG
* *
422849 ACCTTGACCTTGCTCGAA
129 ACCTTGACCTTGCCCAAA
* * * *
422867 TGACCTTGGGTCAGGGTCATGACACACCCTTAGGTCATAAGGAATCATTGTGTGAAGTAAAAACT
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAGAACT
* * * * *
422932 TCCAATGTTTCCCCATAAGAAGGATATGGACCAGACACGAATTTTGCA-TTTTTCTGCCAGTGAC
66 TCCAATGCTTCTCCATAAGAAAGATATGGACCGGACACAAATTTTGCATTTTTTCTGCCAGTGAC
*
422996 CTTGACCTTTCCCAAA
131 CTTGACCTTGCCCAAA
* *
423012 TGACCTTGGGTCAAGGTCATGACACACCCGTAGGTCATAAGCAATCTTTTTGTGAAGTAAGAACT
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAGAACT
** * * * *
423077 TCCAATAATTCTCCATAAGAAAGATATGGAGCGGACACAATTTTTGTATTTTTTCTGCCAATGAC
66 TCCAATGCTTCTCCATAAGAAAGATATGGACCGGACACAAATTTTGCATTTTTTCTGCCAGTGAC
*
423142 CTTGACCTTGCCCGAA
131 CTTGACCTTGCCCAAA
*
423158 TGACCTTGGGTCAAGGTCATGATACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAGAACT
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAGAACT
* *
423223 TCCAATGTTTCTCCATAAGAAAGATATGGACTGGACAC
66 TCCAATGCTTCTCCATAAGAAAGATATGGACCGGACAC
423261 GATTGCACAG
Statistics
Matches: 476, Mismatches: 58, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
145 131 0.28
146 339 0.71
147 6 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (146 bp):
TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAGAACT
TCCAATGCTTCTCCATAAGAAAGATATGGACCGGACACAAATTTTGCATTTTTTCTGCCAGTGAC
CTTGACCTTGCCCAAA
Found at i:423103 original size:291 final size:292
Alignment explanation
Indices: 422575--423262 Score: 1049
Period size: 291 Copynumber: 2.4 Consensus size: 292
422565 CTTCATCAAT
**
422575 TGACCTTGGGTCAAGGTCATGACACACCCTTAATTCATAAGCAATCTTTGTGTGAAGTAAAAACT
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAAAACT
* ** * *
422640 TCCAATGCTTCCCGTTAAGAAAGATATGGACCGGCCACAAATTTTGCATTTTTTCTGCCAGTGAC
66 TCCAATGTTTCCCCATAAGAAAGATATGGACCGGACACGAATTTTGCATTTTTTCTGCCAGTGAC
* *
422705 CTTGACCTTTCCCAAATGACCTTGGGTCAAGGTCATGACAAACCCTTAGGTCATGAGCAATCTTT
131 CTTGACCTTTCCCAAATGACCTTGGGTCAAGGTCATGACAAACCCGTAGGTCATAAGCAATCTTT
** *
422770 GTGTAAGGTAAGAACATTAAATGCTTCTCCATAAGGAAGATATGGACCGGACAAAAATTTCGCAC
196 GTGTAAGGTAAGAACATTAAATAATTCTCCATAAGAAAGATATGGACCGGACAAAAATTTCGCAC
* *
422835 TTTTTCTGCCAGTGACCTTGACCTTGCTCGAA
261 TTTTTCTGCCAATGACCTTGACCTTGCCCGAA
* * *
422867 TGACCTTGGGTCAGGGTCATGACACACCCTTAGGTCATAAGGAATCATTGTGTGAAGTAAAAACT
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAAAACT
* *
422932 TCCAATGTTTCCCCATAAGAAGGATATGGACCAGACACGAATTTTGCA-TTTTTCTGCCAGTGAC
66 TCCAATGTTTCCCCATAAGAAAGATATGGACCGGACACGAATTTTGCATTTTTTCTGCCAGTGAC
*
422996 CTTGACCTTTCCCAAATGACCTTGGGTCAAGGTCATGACACACCCGTAGGTCATAAGCAATCTTT
131 CTTGACCTTTCCCAAATGACCTTGGGTCAAGGTCATGACAAACCCGTAGGTCATAAGCAATCTTT
* * * * * * *
423061 TTGTGAA-GTAAGAAC-TTCCAATAATTCTCCATAAGAAAGATATGGAGCGGACACAATTTTTGT
196 GTGT-AAGGTAAGAACATT-AAATAATTCTCCATAAGAAAGATATGGACCGGACAAAAATTTCGC
*
423124 ATTTTTTCTGCCAATGACCTTGACCTTGCCCGAA
259 ACTTTTTCTGCCAATGACCTTGACCTTGCCCGAA
* *
423158 TGACCTTGGGTCAAGGTCATGATACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAGAACT
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAAAACT
* *
423223 TCCAATGTTTCTCCATAAGAAAGATATGGACTGGACACGA
66 TCCAATGTTTCCCCATAAGAAAGATATGGACCGGACACGA
423263 TTGCACAGAC
Statistics
Matches: 357, Mismatches: 37, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
290 2 0.01
291 252 0.71
292 103 0.29
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (292 bp):
TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAAAACT
TCCAATGTTTCCCCATAAGAAAGATATGGACCGGACACGAATTTTGCATTTTTTCTGCCAGTGAC
CTTGACCTTTCCCAAATGACCTTGGGTCAAGGTCATGACAAACCCGTAGGTCATAAGCAATCTTT
GTGTAAGGTAAGAACATTAAATAATTCTCCATAAGAAAGATATGGACCGGACAAAAATTTCGCAC
TTTTTCTGCCAATGACCTTGACCTTGCCCGAA
Found at i:427489 original size:11 final size:11
Alignment explanation
Indices: 427472--427504 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
427462 ACGGAGAAAA
427472 CAAGTCCCACG
1 CAAGTCCCACG
*
427483 TAAGTCCCACG
1 CAAGTCCCACG
427494 CAAGTCCCACG
1 CAAGTCCCACG
427505 GCAAATGCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.27, C:0.42, G:0.18, T:0.12
Consensus pattern (11 bp):
CAAGTCCCACG
Found at i:433969 original size:2 final size:2
Alignment explanation
Indices: 433962--434010 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
433952 CAGGTACCGG
433962 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
434004 TC TC TC T
1 TC TC TC T
434011 GTATGTAGGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:437879 original size:16 final size:16
Alignment explanation
Indices: 437858--437890 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
437848 TGCTTTGCTG
*
437858 CTGTCGGTCGGTCGGT
1 CTGTCGGTCAGTCGGT
437874 CTGTCGGTCAGTCGGT
1 CTGTCGGTCAGTCGGT
437890 C
1 C
437891 CACCAACAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.27, G:0.39, T:0.30
Consensus pattern (16 bp):
CTGTCGGTCAGTCGGT
Found at i:438162 original size:161 final size:161
Alignment explanation
Indices: 437897--438394 Score: 799
Period size: 161 Copynumber: 3.1 Consensus size: 161
437887 GGTCCACCAA
437897 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
1 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
*
437962 TCATGATAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTTGACAGAGTTATGG
66 TCATGATAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGG
*
438027 CCCTTGGACAAAGAAAAATTCTAGTTTTTTG
131 CCCTTGGACATAGAAAAATTCTAGTTTTTTG
* *
438058 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTGTAAAGGTTTA
1 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
*
438123 TCATGATAATATCTAGGTCAAGTTTGATTTTGGGTACGATCGAGCAATTTTCGACAGAG-T-T--
66 TCATGATAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGG
* *
438184 -CTTTGGACGTAGAAAAATTCTAGTTTTTTG
131 CCCTTGGACATAGAAAAATTCTAGTTTTTTG
*
438214 CAGTTTCCGCTCATTTTCTTCGTAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
1 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
* * * *
438279 TCATGATAATATCTAGGTCAAGTTCGATATTGGGTATGATCCAGCAATTTTCAACAGAGTTATGG
66 TCATGATAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGG
* * *
438344 CCCTTGGACTTAGAAAAATTCCAGTTATTTG
131 CCCTTGGACATAGAAAAATTCTAGTTTTTTG
* * *
438375 AAGTTTACGTTCATTTTCTT
1 CAGTTTCCGCTCATTTTCTT
438395 TGTGGATGTT
Statistics
Matches: 310, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
156 143 0.46
157 1 0.00
158 1 0.00
159 1 0.00
160 1 0.00
161 163 0.53
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (161 bp):
CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
TCATGATAATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGG
CCCTTGGACATAGAAAAATTCTAGTTTTTTG
Found at i:443337 original size:5 final size:5
Alignment explanation
Indices: 443327--443390 Score: 53
Period size: 5 Copynumber: 13.2 Consensus size: 5
443317 CAAACTAAAT
* * * *
443327 CGAAA CGAAA CGAAA CCG-AA CGAAA CGAAA CCAAT CAAAA CGAAA CCAAA
1 CGAAA CGAAA CGAAA -CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA
*
443377 --AAT CGAAA CGAAA C
1 CGAAA CGAAA CGAAA C
443391 AAAAAAAACC
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 41 0.87
6 2 0.04
ACGTcount: A:0.58, C:0.25, G:0.14, T:0.03
Consensus pattern (5 bp):
CGAAA
Found at i:443350 original size:15 final size:14
Alignment explanation
Indices: 443330--443375 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
443320 ACTAAATCGA
443330 AACGAAACGAAACC
1 AACGAAACGAAACC
443344 GAACGAAACGAAACC
1 -AACGAAACGAAACC
*
443359 AATCAAAACGAAACC
1 AA-CGAAACGAAACC
443374 AA
1 AA
443376 AAATCGAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 2 0.07
15 27 0.93
ACGTcount: A:0.59, C:0.26, G:0.13, T:0.02
Consensus pattern (14 bp):
AACGAAACGAAACC
Found at i:443385 original size:13 final size:14
Alignment explanation
Indices: 443334--443385 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
443324 AATCGAAACG
*
443334 AAACGAAACCGAACG
1 AAACGAAACC-AACA
443349 AAACGAAACCAATCA
1 AAACGAAACCAA-CA
443364 AAACGAAACCAA-A
1 AAACGAAACCAACA
*
443377 AATCGAAAC
1 AAACGAAAC
443386 GAAACAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 23 0.68
ACGTcount: A:0.60, C:0.25, G:0.12, T:0.04
Consensus pattern (14 bp):
AAACGAAACCAACA
Found at i:443479 original size:2 final size:2
Alignment explanation
Indices: 443472--443526 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
443462 CTTAAGTTTG
* * *
443472 GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA AA GA AA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
443514 GA AA GA GA GA GA G
1 GA GA GA GA GA GA G
443527 GATGCTTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
GA
Found at i:444048 original size:3 final size:3
Alignment explanation
Indices: 444040--444065 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
444030 CTCCTTCAGT
444040 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
444066 ATCTATCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:444169 original size:2 final size:2
Alignment explanation
Indices: 444162--444190 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
444152 TTTTAAGGCA
444162 TC TC TC TC TC TC TC T- TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
444191 AACGTCTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:444182 original size:13 final size:13
Alignment explanation
Indices: 444164--444189 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
444154 TTAAGGCATC
444164 TCTCTCTCTCTCT
1 TCTCTCTCTCTCT
444177 TCTCTCTCTCTCT
1 TCTCTCTCTCTCT
444190 CAACGTCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (13 bp):
TCTCTCTCTCTCT
Found at i:444182 original size:15 final size:15
Alignment explanation
Indices: 444162--444190 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
444152 TTTTAAGGCA
444162 TCTCTCTCTCTCTCT
1 TCTCTCTCTCTCTCT
444177 TCTCTCTCTCTCTC
1 TCTCTCTCTCTCTC
444191 AACGTCTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (15 bp):
TCTCTCTCTCTCTCT
Found at i:447607 original size:173 final size:173
Alignment explanation
Indices: 447252--447737 Score: 638
Period size: 173 Copynumber: 2.8 Consensus size: 173
447242 NNNNNNNNNN
* *
447252 CTCAGGTAGTGTAGA-TTCAAGTTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGGGCCACAAT
1 CTCAGGTAGTGTAGATTTAAAG-TTGTGAAAATAATGACCCCCGGGGGTAGGGTGGGGCCACAAT
* *
447316 -----GGGGGG-GTCGAAGTTTTACTTAGGAATATATAGAGTAAATCTTTAAATATCTTCTTCTC
65 GGGGGGGGGGGTGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTC
* *
447375 AAAAACTTATCAGCCAGGAAAGCTGAAAATTGTGTGGAAGCAAT
130 AGAAACTAATCAGCCAGGAAAGCTGAAAATTGTGTGGAAGCAAT
* *
447419 CTCAGGTAGTGTAGATTTGAAGTTGTAAAAATAATGACCCCCGGGGGTAGGGTGGGGCCACAATG
1 CTCAGGTAGTGTAGATTTAAAGTTGTGAAAATAATGACCCCCGGGGGTAGGGTGGGGCCACAATG
* *
447484 GGGAGGGGGGGTGTCGAAGTTTAACATAGGAATATATA-AATAAATCTTTAAAAATCTTCTTCTC
66 GGG-GGGGGGGTGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTC
447548 AGAAACTAATCAGCC-GGAAAAGCT-AAAACTTGTGTGGAAGC-AT
130 AGAAACTAATCAGCCAGG-AAAGCTGAAAA-TTGTGTGGAAGCAAT
* * * * * * *
447591 CCTCCGGTAATGTAGATTCAAAGTTGTGAAAATTATGACCTCC-GGGGTAGGATGGGGCCACATT
1 -CTCAGGTAGTGTAGATTTAAAGTTGTGAAAATAATGACCCCCGGGGGTAGGGTGGGGCCACAAT
** *
447655 GGGGGGGGGGGGTGTTAAAGTTTTACATAGGAATATATAGAGTAAATCTTCAAAAATC-TCTTTC
65 -GGGGGGGGGGGTGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTC-TTC
447719 TCAGAAACTAATCAGCCAG
128 TCAGAAACTAATCAGCCAG
447738 ATGAGATGAT
Statistics
Matches: 281, Mismatches: 23, Indels: 23
0.86 0.07 0.07
Matches are distributed among these distances:
167 55 0.20
168 5 0.02
172 60 0.21
173 136 0.48
174 25 0.09
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (173 bp):
CTCAGGTAGTGTAGATTTAAAGTTGTGAAAATAATGACCCCCGGGGGTAGGGTGGGGCCACAATG
GGGGGGGGGGTGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCA
GAAACTAATCAGCCAGGAAAGCTGAAAATTGTGTGGAAGCAAT
Found at i:451273 original size:436 final size:441
Alignment explanation
Indices: 450450--451344 Score: 1315
Period size: 436 Copynumber: 2.0 Consensus size: 441
450440 CCCCTATAAC
**
450450 CCCTAATTACGCCATCAATGGGTGTGGCAATGAGTTTTACAAACTGATATTGTTACGATCAACAA
1 CCCTAATTACGTAATCAATGGGTGTGGCAATGAGTTTTACAAACTGATATTGTTACGATCAACAA
* * *
450515 CTTTGTTTCTATATGTATAATCATTACAAAATCTTGATCGTTTTTAAGTTATCTGAAATAGAGTT
66 CTTTGCTTCTATA--TAT-AGCATTACAAAATCTTGATCGTTTTTAAGTTATCTGAAATAGAGTG
* * * *
450580 TACAAATGTCTTTGCCCCTAATTTAAGGGGCAATCCCCTTTTACTTGAGTTCATTTGAAAGGTCT
128 TACAAATGTCTTTGCCCCTAATTAAAGAGGCAAGCCCATTTTACTTGAGTTCATTTGAAAGGTCT
* *
450645 CACGAATACTAACATTTTCTGTTCTCACACCTATCATAAATTGTTGTTCATTTTTGAGATACAAA
193 CACGAATACTAACATTTTCTGTTCTCACACCTATCATAAATTGTCGATCATTTTTGAGATACAAA
450710 TGATTGAATATATTTTAGGGGCCAACCCTCTAGATCCTTAATGGGGACAGACATTGGTGTTTTGA
258 TGATTGAATATATTTTAGGGGCCAACCCTCTAGATCCTTAATGGGGACAGACATTGGTGTTTTGA
** * * * * *
450775 CTAATGGGCTCGATTAAAATCATCAATGTAAACCTTTTCTTTTCTACAATGTTTCACAAAATATG
323 CTAATGGAATCGATTAAAATCATCAATGCAAACATTTTCTCTTCTACAACGTTACACAAAATATG
450840 TCTCCTTCTCTAGATATATTGCGTCAAAGTTTAAGCACTTTGGCC-CCAATAAAT
388 TCTCCTTCTCTAGATATATTGCGTCAAAGTTTAAGCACTTTGGCCACCAA-AAAT
***
450894 CCCTAATTACGTAATCAATGGGCT-TGGCAATGA-TTTTACCTGCTAGATATTGTTACGATCAAC
1 CCCTAATTACGTAATCAATGGG-TGTGGCAATGAGTTTTACAAACT-GATATTGTTACGATCAAC
* **
450957 AACTTTGCTTCTATA-AT-GCATTACAAAATCTTTATCGTTTTTAAGTTATCTTTAATAGAGTGT
64 AACTTTGCTTCTATATATAGCATTACAAAATCTTGATCGTTTTTAAGTTATCTGAAATAGAGTGT
* *
451020 ACGAGTGTC-TTGACCCCTAATTAAAGAGGCAAGCCCATTTTACTTGAGTTCATTTGAAAGGTCT
129 ACAAATGTCTTTG-CCCCTAATTAAAGAGGCAAGCCCATTTTACTTGAGTTCATTTGAAAGGTCT
* *
451084 CACGAATACTAACA-TTT-T-TTGTCACGCCTATCATAAATTGTCGATCATTTTTGAGATACAAA
193 CACGAATACTAACATTTTCTGTTCTCACACCTATCATAAATTGTCGATCATTTTTGAGATACAAA
* * *
451146 TGATTGTATATATTTTAGGGGCCAGCCCTCTAGATCCTTAATGGGGACAGACTTTGGTGTTTTGA
258 TGATTGAATATATTTTAGGGGCCAACCCTCTAGATCCTTAATGGGGACAGACATTGGTGTTTTGA
* * * *
451211 TTAATGGAATCGATTACAATCATCAATGCAAGCATTTTCTCTTCTAGAACGCTTAC-CAAAATAT
323 CTAATGGAATCGATTAAAATCATCAATGCAAACATTTTCTCTTCTACAACG-TTACACAAAATAT
* *
451275 GTCTCCTTCTCTAGATATATTGCGTCAAAGTTTAAGTACTTTGGCCACTAAAAAT
387 GTCTCCTTCTCTAGATATATTGCGTCAAAGTTTAAGCACTTTGGCCACCAAAAAT
451330 CCCTAATTACGTAAT
1 CCCTAATTACGTAAT
451345 NNNNNNNNNN
Statistics
Matches: 409, Mismatches: 37, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
436 215 0.53
437 7 0.02
438 6 0.01
439 109 0.27
441 2 0.00
443 8 0.02
444 61 0.15
445 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (441 bp):
CCCTAATTACGTAATCAATGGGTGTGGCAATGAGTTTTACAAACTGATATTGTTACGATCAACAA
CTTTGCTTCTATATATAGCATTACAAAATCTTGATCGTTTTTAAGTTATCTGAAATAGAGTGTAC
AAATGTCTTTGCCCCTAATTAAAGAGGCAAGCCCATTTTACTTGAGTTCATTTGAAAGGTCTCAC
GAATACTAACATTTTCTGTTCTCACACCTATCATAAATTGTCGATCATTTTTGAGATACAAATGA
TTGAATATATTTTAGGGGCCAACCCTCTAGATCCTTAATGGGGACAGACATTGGTGTTTTGACTA
ATGGAATCGATTAAAATCATCAATGCAAACATTTTCTCTTCTACAACGTTACACAAAATATGTCT
CCTTCTCTAGATATATTGCGTCAAAGTTTAAGCACTTTGGCCACCAAAAAT
Found at i:455743 original size:15 final size:15
Alignment explanation
Indices: 455725--455755 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
455715 CACCCTAGAG
455725 CCTGAACCCCTGACC
1 CCTGAACCCCTGACC
455740 CCTGAACCCCTGACC
1 CCTGAACCCCTGACC
455755 C
1 C
455756 AGGGGTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CCTGAACCCCTGACC
Found at i:456327 original size:168 final size:168
Alignment explanation
Indices: 455317--456316 Score: 1161
Period size: 168 Copynumber: 5.9 Consensus size: 168
455307 CACATGTGTT
* * * *
455317 GGAGTAGAGAAGAAGATTTTTTAAGATTTAA-AACAGTTTTACTATATGGCCATATTGACCCCAC
1 GGAGTAAAGAAGAAGATTTTCTAAGATTTAATAA-ATTTTTACTATATGGCCATATTGGCCCCAC
* * * * * * *
455381 CCTAGAGCCTGAACACCTAACCAAGGGGCCATGAATTTCACAGTTTTAGTAGA-GGCCATAATGG
65 CCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCC-TCATGG
** * ** ** * * *
455445 ACATCATAACCATATATTCAGTTTTTTGCTTACATGTGTG
129 ACATCATAACCATGCATTTAGTTTTTAACAAATATATATG
* * *
455485 GGAGTAGAGAAGACA-ATTTT-TAAGATTTAA-AACAGTTTTACTATATGGCCATATTGCCCCCC
1 GGAGTAAAGAAGA-AGATTTTCTAAGATTTAATAA-ATTTTTACTATATGGCCATATTG--GCCC
* * * ** * *
455547 CCCCCTAGAGCCTGAACACCTTACAAAGGGGTCATGAATTTTACAATTTTGGTAGAAGGCCTCAT
62 CACCCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCCTCAT
455612 GGACATCATAACCATGCATTTAGTTTTTAACAAATATATATG
127 GGACATCATAACCATGCATTTAGTTTTTAACAAATATATATG
* * * * *
455654 GAAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCACATTGGCCCCACC
1 GGAGTAAAGAAGAAGATTTTCTAAGATTTAATAAATTTTTACTATATGGCCATATTGGCCCCACC
*
455719 CTAGAGCCTGAACCCCTGACCCCTGAACCCCTGACCCAGGGGTCATGAATTTTACAATTTTGGTA
66 CT--A----G-A-----G---CCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTGGTA
*
455784 GAGGGCCTCATGGACATCATAATCATGCATTTAGTTTTTAACAAATATATATG
116 GAGGGCCTCATGGACATCATAACCATGCATTTAGTTTTTAACAAATATATATG
* * *
455837 GGAGTAAAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCACATTGGCCCCACC
1 GGAGTAAAGAAGAAGATTTTCTAAGATTTAATAAATTTTTACTATATGGCCATATTGGCCCCACC
* * * *
455902 CTAGAGCCTGAACCCCTTAACCAGGGGTCATGAATTTCATAATTTTGATAGAGGGCCTCATGGAC
66 CTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCCTCATGGAC
* *
455967 ATCATAATCATGCATTTAGTTTTAAACAAATATATATG
131 ATCATAACCATGCATTTAGTTTTTAACAAATATATATG
* * *
456005 GGAGTAGAA-AAGAAGATTTTCTAAGATTTAATACATTTTTGCTATTTGGCCATATTGGCCCCAC
1 GGAGTA-AAGAAGAAGATTTTCTAAGATTTAATAAATTTTTACTATATGGCCATATTGGCCCCAC
* * * *
456069 CCTAGATCCTGAACCCCTGACCCAGGGGTCAT-AATTTTAACAATTTAGGTAGAGGGCTTCATGG
65 CCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAA-TTTCACAATTTTGGTAGAGGGCCTCATGG
* *
456133 ATATCATAATCATGCATTTAGTTTTTTAA-AAATATATATG
129 ACATCATAACCATGCATTTAG-TTTTTAACAAATATATATG
* *
456173 GTAGTAAAGAAGAAGATTTTCTAAGATTTAATAAATTTTTACAATATGGCCATATTGGCCCCACC
1 GGAGTAAAGAAGAAGATTTTCTAAGATTTAATAAATTTTTACTATATGGCCATATTGGCCCCACC
* * * * *
456238 CTAGAGCCAGAACCCCTGACCCTGGGGCCATAAATTTCACAATTTTGGTAGAGGGCTTCATGGAC
66 CTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCCTCATGGAC
456303 ATCATAACCATGCA
131 ATCATAACCATGCA
456317 ACTGGTTTTT
Statistics
Matches: 740, Mismatches: 65, Indels: 54
0.86 0.08 0.06
Matches are distributed among these distances:
167 40 0.05
168 386 0.52
169 115 0.16
170 35 0.05
171 2 0.00
174 1 0.00
175 1 0.00
176 1 0.00
177 1 0.00
180 1 0.00
181 1 0.00
183 156 0.21
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (168 bp):
GGAGTAAAGAAGAAGATTTTCTAAGATTTAATAAATTTTTACTATATGGCCATATTGGCCCCACC
CTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCCTCATGGAC
ATCATAACCATGCATTTAGTTTTTAACAAATATATATG
Found at i:459824 original size:2 final size:2
Alignment explanation
Indices: 459817--459856 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
459807 AAAATGCACA
459817 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
459857 ACACACACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:463749 original size:24 final size:25
Alignment explanation
Indices: 463697--463749 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
463687 ACCCTGTGTC
*
463697 TTGGCATATCTTTTTTGCCCTGTAA
1 TTGGCATATCTTTTGTGCCCTGTAA
463722 -TGGCATAT-TATTTGTGCCCTG-AA
1 TTGGCATATCT-TTTGTGCCCTGTAA
463745 TTGGC
1 TTGGC
463750 GAGTGTGACC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (25 bp):
TTGGCATATCTTTTGTGCCCTGTAA
Found at i:464079 original size:12 final size:12
Alignment explanation
Indices: 464061--464100 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
464051 GGAATCACCT
*
464061 TGTCCGTCTGTC
1 TGTCCGTCCGTC
*
464073 CGTCCGTCCGTC
1 TGTCCGTCCGTC
464085 TGTCCGTCCGTC
1 TGTCCGTCCGTC
464097 TGTC
1 TGTC
464101 TCTGCAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.40, G:0.25, T:0.35
Consensus pattern (12 bp):
TGTCCGTCCGTC
Found at i:464083 original size:16 final size:16
Alignment explanation
Indices: 464062--464101 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
464052 GAATCACCTT
464062 GTCCGTCTGTCCGTCC
1 GTCCGTCTGTCCGTCC
464078 GTCCGTCTGTCCGTCC
1 GTCCGTCTGTCCGTCC
*
464094 GTCTGTCT
1 GTCCGTCT
464102 CTGCAATCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.00, C:0.40, G:0.25, T:0.35
Consensus pattern (16 bp):
GTCCGTCTGTCCGTCC
Found at i:464101 original size:4 final size:4
Alignment explanation
Indices: 464062--464096 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
464052 GAATCACCTT
* *
464062 GTCC GTCT GTCC GTCC GTCC GTCT GTCC GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
464097 TGTCTCTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.43, G:0.26, T:0.31
Consensus pattern (4 bp):
GTCC
Found at i:464372 original size:146 final size:141
Alignment explanation
Indices: 464108--464455 Score: 563
Period size: 146 Copynumber: 2.4 Consensus size: 141
464098 GTCTCTGCAA
464108 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* *
464173 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCAATC--G---GG-CAAGGTCACTGAC
464238 AGAAAAAATAC-AAAAT
125 AGAAAAAATACAAAAAT
* *
464254 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTAGAAGTTCTTACTTCATACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
464319 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCAATCGGGCAAGGTCACTGACAGAAAA
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCAATCGGGCAAGGTCACTGACAGAAAA
*
464384 CATACAAAAAT
131 AATACAAAAAT
* * *
464395 TCGTGTCCGGTCCATATTTTTCTAATGGAGAAACATTGGAAGTTCTTACTTCACAAAAAGA
1 TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGA
464456 GGTCATTCGG
Statistics
Matches: 191, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
140 22 0.12
141 63 0.33
144 1 0.01
146 105 0.55
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (141 bp):
TCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCAATCGGGCAAGGTCACTGACAGAAAA
AATACAAAAAT
Found at i:464534 original size:107 final size:108
Alignment explanation
Indices: 464365--464562 Score: 283
Period size: 107 Copynumber: 1.8 Consensus size: 108
464355 GTCAATCGGG
* * *
464365 CAAGGTCACTGACAGAAAACATACAAAAATTCGTGTCCGGTCCATATTTTTCTAATGGAGAAACA
1 CAAGGTCACTGACAGAAAACATACAAAAATTCGGGTCCGGCCCATATCTTTCTAATGGAGAAACA
*
464430 TTGGAAGTTCTTACTTCACAAAAAGAGGTCATTCGGGCAAGGT
66 TTGGAAGTTCTTACGTCACAAAAAGAGGTCATTCGGGCAAGGT
* * * * *
464473 CAAGGTCACTGGCAGAAAA-AGT-GAAAAATTTGGGTCCGGCCCATATCTTTCTTATGGAGAAAT
1 CAAGGTCACTGACAGAAAACA-TACAAAAATTCGGGTCCGGCCCATATCTTTCTAATGGAGAAAC
*
464536 ATTGGAAGTTCTTACGTCACACAAAGA
65 ATTGGAAGTTCTTACGTCACAAAAAGA
464563 TTGCTTATGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
107 60 0.76
108 19 0.24
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (108 bp):
CAAGGTCACTGACAGAAAACATACAAAAATTCGGGTCCGGCCCATATCTTTCTAATGGAGAAACA
TTGGAAGTTCTTACGTCACAAAAAGAGGTCATTCGGGCAAGGT
Found at i:464645 original size:248 final size:248
Alignment explanation
Indices: 464207--464697 Score: 715
Period size: 248 Copynumber: 2.0 Consensus size: 248
464197 CCTTGACCCA
* *
464207 AGGTCATTCGGGCAAGGTCAAGGTCACTGGCAGAAAAAATACAAAATTCGTGTCCGGTCCATATC
1 AGGTCATTCGGGCAAGGTCAAGGTCACTGGCAGAAAAAATACAAAATTCGGGTCCGGCCCATATC
* *
464272 TTTCTTATGGAGAAACATTAGAAGTTCTTACTTCATACAAAGATTGCTTATGACCTAAGGGTGTG
66 TTTCTTATGGAGAAACATTAGAAGTTCTTACGTCACACAAAGATTGCTTATGACCTAAGGGTGTG
464337 TCATGACCTTGACCCAAGGTCAATCGGGCAAGGTCACTGACAGAAAACATACAAAAATTCGTGTC
131 TCATGACCTTGACCCAAGGTCAATCGGGCAAGGTCACTGACAGAAAACATACAAAAATTCGTGTC
* *
464402 CGGTCCA-TATTTTTCTAATGGAGAAACATTGGAA-GTTCTT-ACTTCACAAAAAG
196 CGGT-CATTATCTTTCTAATGGACAAACATT-GAATGTT-TTAACTTCACAAAAAG
* *
464455 AGGTCATTCGGGCAAGGTCAAGGTCACTGGCAGAAAAAGTGA-AAAATTTGGGTCCGGCCCATAT
1 AGGTCATTCGGGCAAGGTCAAGGTCACTGGCAGAAAAAAT-ACAAAATTCGGGTCCGGCCCATAT
* *
464519 CTTTCTTATGGAGAAATATTGGAAGTTCTTACGTCACACAAAGATTGCTTATGACCTAAGGGTGT
65 CTTTCTTATGGAGAAACATTAGAAGTTCTTACGTCACACAAAGATTGCTTATGACCTAAGGGTGT
* * * ** * * *
464584 GTCATGACCTTGATCCAAGGTCATTTGGGTCAAGGTCGTTGAGA-AAAATAGTGC-AAAATTCGT
130 GTCATGACCTTGACCCAAGGTCAATCGGG-CAAGGTCACTGACAGAAAACA-TACAAAAATTCGT
*
464647 GTCCGGTCATTATCTTTCTTATGGACAAACATTGAATGTTTTAACTTCACA
193 GTCCGGTCATTATCTTTCTAATGGACAAACATTGAATGTTTTAACTTCACA
464698 CAAATATTGC
Statistics
Matches: 218, Mismatches: 19, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
247 7 0.03
248 197 0.90
249 14 0.06
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (248 bp):
AGGTCATTCGGGCAAGGTCAAGGTCACTGGCAGAAAAAATACAAAATTCGGGTCCGGCCCATATC
TTTCTTATGGAGAAACATTAGAAGTTCTTACGTCACACAAAGATTGCTTATGACCTAAGGGTGTG
TCATGACCTTGACCCAAGGTCAATCGGGCAAGGTCACTGACAGAAAACATACAAAAATTCGTGTC
CGGTCATTATCTTTCTAATGGACAAACATTGAATGTTTTAACTTCACAAAAAG
Found at i:464831 original size:147 final size:147
Alignment explanation
Indices: 464455--464857 Score: 560
Period size: 141 Copynumber: 2.8 Consensus size: 147
464445 TCACAAAAAG
* * * * *
464455 AGGTCATTCGGGCAAGGTCAAGGTCACTGGCAG-AAAAAGTGAAAAATTTGGGTCCGGCCCA-TA
1 AGGTCATTTGGGCAAGGTCAAGGTCACTGGCAGAAAAAAGTGCAAAATTCGTGTCCGG-TCATTA
* * * * *
464518 TCTTTCTTATGGAGAAATATTGGAA-GTTCTTACGTCACACAAAGATTGCTTATGACCTAAGGGT
65 TCTTTCTTATGGAGAAACATT-GAATGTTCTTACTTCACACAAATATTGCTTAGGACCAAAGGGT
*
464582 GTGTCATGACCTTGATCCA
129 GTGTCATGACCTTGACCCA
464601 AGGTCATTTGGGTCAAGGTC---GT---T-G-AGAAAAATAGTGCAAAATTCGTGTCCGGTCATT
1 AGGTCATTTGGG-CAAGGTCAAGGTCACTGGCAGAAAAA-AGTGCAAAATTCGTGTCCGGTCATT
*
464658 ATCTTTCTTATGGACAAACATTGAATGTT-TTAACTTCACACAAATATTGCTTAGGACCAAAGGG
64 ATCTTTCTTATGGAGAAACATTGAATGTTCTT-ACTTCACACAAATATTGCTTAGGACCAAAGGG
464722 TGTGTCATGACCTTGACCCA
128 TGTGTCATGACCTTGACCCA
464742 AGGTCATTTGGGCAAGGTCAAGGTCACTGGCAGAAAAAAGTGCAAAATTCGTGTCCGGTCATTAT
1 AGGTCATTTGGGCAAGGTCAAGGTCACTGGCAGAAAAAAGTGCAAAATTCGTGTCCGGTCATTAT
*
464807 CTTTCTTATGGAGAAGCATTGAATGTTCTTACTTCACACAAATATTGCTTA
66 CTTTCTTATGGAGAAACATTGAATGTTCTTACTTCACACAAATATTGCTTA
464858 TGACGAACAG
Statistics
Matches: 228, Mismatches: 14, Indels: 29
0.84 0.05 0.11
Matches are distributed among these distances:
139 2 0.01
140 19 0.08
141 101 0.44
143 2 0.01
144 2 0.01
146 12 0.05
147 81 0.36
148 9 0.04
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (147 bp):
AGGTCATTTGGGCAAGGTCAAGGTCACTGGCAGAAAAAAGTGCAAAATTCGTGTCCGGTCATTAT
CTTTCTTATGGAGAAACATTGAATGTTCTTACTTCACACAAATATTGCTTAGGACCAAAGGGTGT
GTCATGACCTTGACCCA
Found at i:479013 original size:41 final size:41
Alignment explanation
Indices: 478963--479045 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
478953 GAAACAATTC
*
478963 TTTTTAAGATACAGTAAAAGGCTTGCCATACAATTAGATGG
1 TTTTCAAGATACAGTAAAAGGCTTGCCATACAATTAGATGG
479004 TTTTCAAGATACAGTAAAAGGCTTGCCATACAATTAGATGG
1 TTTTCAAGATACAGTAAAAGGCTTGCCATACAATTAGATGG
479045 T
1 T
479046 GTTTGGAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (41 bp):
TTTTCAAGATACAGTAAAAGGCTTGCCATACAATTAGATGG
Found at i:486556 original size:11 final size:11
Alignment explanation
Indices: 486540--486573 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
486530 TTGTGTATTA
486540 TCAATTACTTT
1 TCAATTACTTT
*
486551 TCAATTACATT
1 TCAATTACTTT
486562 TCAATTACTTT
1 TCAATTACTTT
486573 T
1 T
486574 TTCCAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (11 bp):
TCAATTACTTT
Found at i:490971 original size:2 final size:2
Alignment explanation
Indices: 490964--491031 Score: 122
Period size: 2 Copynumber: 35.0 Consensus size: 2
490954 TATCATGAGT
490964 GA GA GA GA GA GA GA GA GA GA -A GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
491005 GA GA GA GA GA GA GA GA -A GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
491032 TTACCTTGTC
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 62 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:492004 original size:2 final size:2
Alignment explanation
Indices: 491997--492049 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
491987 TCATCATTGT
* *
491997 AG AG AG AG AG AG AT AG AA AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
492039 AG AG AG AG AG A
1 AG AG AG AG AG A
492050 TTACCTTGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.53, C:0.00, G:0.45, T:0.02
Consensus pattern (2 bp):
AG
Found at i:496768 original size:62 final size:62
Alignment explanation
Indices: 496665--496789 Score: 178
Period size: 62 Copynumber: 2.0 Consensus size: 62
496655 AAATAAATGA
* * * * **
496665 ATTTCAAATTTACAATTAAAGTAAGAACAAAAGTTTTAGTAAAATAATATTGTGAGAGAGAG
1 ATTTCAAATTTACAATAAAAGTAAAAACAAAACTTTAAGTAAAATAATATCATGAGAGAGAG
* *
496727 ATTTCAAATTTACAATAAAAGTAAAAACAAAACTTTAAGTAATATGATATCATGAGAGAGAG
1 ATTTCAAATTTACAATAAAAGTAAAAACAAAACTTTAAGTAAAATAATATCATGAGAGAGAG
496789 A
1 A
496790 GAGAGAGAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.29
Consensus pattern (62 bp):
ATTTCAAATTTACAATAAAAGTAAAAACAAAACTTTAAGTAAAATAATATCATGAGAGAGAG
Found at i:496787 original size:2 final size:2
Alignment explanation
Indices: 496780--496825 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
496770 ATGATATCAT
496780 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
496822 GA GA
1 GA GA
496826 TTACAAACAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:497800 original size:2 final size:2
Alignment explanation
Indices: 497793--497846 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
497783 AAAAAGATAG
*
497793 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
497835 GA GA TA GA GA GA
1 GA GA GA GA GA GA
497847 AGGGTTCTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (2 bp):
GA
Found at i:503928 original size:16 final size:15
Alignment explanation
Indices: 503897--503927 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
503887 ATTTATATCG
503897 ATCAAATTCTATAAA
1 ATCAAATTCTATAAA
*
503912 ATCAAATTTTATAAA
1 ATCAAATTCTATAAA
503927 A
1 A
503928 ATAAAATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (15 bp):
ATCAAATTCTATAAA
Found at i:504162 original size:2 final size:2
Alignment explanation
Indices: 504157--504196 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
504147 TTTTATATAT
504157 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
504197 TAGATACCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:513238 original size:4 final size:4
Alignment explanation
Indices: 513231--513285 Score: 74
Period size: 4 Copynumber: 13.8 Consensus size: 4
513221 AACTGTGTGT
* * * *
513231 GTGC GTGC GTGC GTGC GTGC GTGC GTGA ATGC GTGC GTGA ATGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
513279 GTGC GTG
1 GTGC GTG
513286 TGTGTGTGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.07, C:0.20, G:0.47, T:0.25
Consensus pattern (4 bp):
GTGC
Found at i:518141 original size:10 final size:10
Alignment explanation
Indices: 518123--518177 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
518113 GATTCTGATA
518123 CACGAACGAT
1 CACGAACGAT
*
518133 CACGCACGAT
1 CACGAACGAT
*
518143 ACACGAACTAT
1 -CACGAACGAT
*
518154 CACGCACGAT
1 CACGAACGAT
*
518164 ACACGGACGAT
1 -CACGAACGAT
518175 CAC
1 CAC
518178 TAACTTACTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
10 20 0.54
11 17 0.46
ACGTcount: A:0.36, C:0.35, G:0.18, T:0.11
Consensus pattern (10 bp):
CACGAACGAT
Found at i:518143 original size:21 final size:21
Alignment explanation
Indices: 518119--518177 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
518109 GCACGATTCT
518119 GATACACGAACGATCACGCAC
1 GATACACGAACGATCACGCAC
*
518140 GATACACGAACTATCACGCAC
1 GATACACGAACGATCACGCAC
*
518161 GATACACGGACGATCAC
1 GATACACGAACGATCAC
518178 TAACTTACTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.32, G:0.19, T:0.12
Consensus pattern (21 bp):
GATACACGAACGATCACGCAC
Found at i:518173 original size:11 final size:11
Alignment explanation
Indices: 518119--518174 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
518109 GCACGATTCT
518119 GATACACGAAC
1 GATACACGAAC
*
518130 GAT-CACGCAC
1 GATACACGAAC
518140 GATACACGAAC
1 GATACACGAAC
* *
518151 TAT-CACGCAC
1 GATACACGAAC
*
518161 GATACACGGAC
1 GATACACGAAC
518172 GAT
1 GAT
518175 CACTAACTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
10 17 0.46
11 20 0.54
ACGTcount: A:0.38, C:0.30, G:0.20, T:0.12
Consensus pattern (11 bp):
GATACACGAAC
Found at i:519238 original size:21 final size:21
Alignment explanation
Indices: 519213--519263 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
519203 ATTTTCCTGA
*
519213 TACACGCACGATC-CCGCACGT
1 TACACGAACGATCACC-CACGT
519234 TACACGAACGATCACCCACGT
1 TACACGAACGATCACCCACGT
519255 TACACGAAC
1 TACACGAAC
519264 TATTTAACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.31, C:0.39, G:0.16, T:0.14
Consensus pattern (21 bp):
TACACGAACGATCACCCACGT
Found at i:522439 original size:21 final size:21
Alignment explanation
Indices: 522386--522470 Score: 89
Period size: 21 Copynumber: 3.8 Consensus size: 21
522376 CTACACCTCT
*
522386 AAAACGAACCGTACCGTTCCGTGC
1 AAAACGAACCGTACCGTT-C--AC
*
522410 AAGATACGAACCATACCGTTCAC
1 AA-A-ACGAACCGTACCGTTCAC
*
522433 AAAACGAAACGTACCGTTCAC
1 AAAACGAACCGTACCGTTCAC
*
522454 AAAGCGAACCGTACCGT
1 AAAACGAACCGTACCGT
522471 GCAAAAAGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
21 31 0.58
22 1 0.02
23 3 0.06
24 2 0.04
25 2 0.04
26 14 0.26
ACGTcount: A:0.36, C:0.31, G:0.18, T:0.15
Consensus pattern (21 bp):
AAAACGAACCGTACCGTTCAC
Found at i:522927 original size:2 final size:2
Alignment explanation
Indices: 522922--522954 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
522912 CGCGCGCGCA
522922 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
522955 TCTCGTTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:525827 original size:21 final size:21
Alignment explanation
Indices: 525790--525926 Score: 204
Period size: 21 Copynumber: 6.5 Consensus size: 21
525780 TTTAGCAAAG
*
525790 CGTACCGTGCA-AGAAGCGAAC
1 CGTACCGTTCACA-AAGCGAAC
* *
525811 CGTTCCGTTCACAAAGCGTAC
1 CGTACCGTTCACAAAGCGAAC
*
525832 CGTACCGTTCTCAAAGCGAAC
1 CGTACCGTTCACAAAGCGAAC
525853 CGTACCGTTCACAAAGCGAAC
1 CGTACCGTTCACAAAGCGAAC
* *
525874 CGTATCGTTCACAAAACGAAC
1 CGTACCGTTCACAAAGCGAAC
525895 CGTACCGTTCACAAAGCGAAC
1 CGTACCGTTCACAAAGCGAAC
525916 CGTACCGTTCA
1 CGTACCGTTCA
525927 NNNNNNNNNN
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
21 103 0.99
22 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.18
Consensus pattern (21 bp):
CGTACCGTTCACAAAGCGAAC
Found at i:555866 original size:14 final size:15
Alignment explanation
Indices: 555842--555871 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
555832 CTACAATCCA
555842 AAGCACAAATATGCT
1 AAGCACAAATATGCT
555857 AAGC-CAAATATGCT
1 AAGCACAAATATGCT
555871 A
1 A
555872 TTAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
AAGCACAAATATGCT
Found at i:556519 original size:144 final size:146
Alignment explanation
Indices: 556329--556604 Score: 373
Period size: 144 Copynumber: 1.9 Consensus size: 146
556319 TGGTAAGCCA
* * *
556329 TATATCATAATCCAACCGTACTGGACATGACAACATAGCACCCAACCATA-AGGGGGCTAAATGG
1 TATATCATAATCCAACCGTACTGAACATGAAAACATAGCACCCAACCATATA-GGGGCTAAACGG
* * * * *
556393 TTACCAGAAGATCCAAGCATGCTGGACA-TA-ACAACATAGCACCCAACCATA-TAGGGGCTCTT
65 CTACCAGAAGATCCAAGCATACCGGACATTACACAACATAGCACCCAA-CAAACTAGGGGCTATT
556455 TGGTAAGCCATACACATG
129 TGGTAAGCCATACACATG
*
556473 TATATCATAATCCAACCAG-ACTGAATATGAAAACATAGCACCCAACCATATAGGGGCTAAACGG
1 TATATCATAATCCAACC-GTACTGAACATGAAAACATAGCACCCAACCATATAGGGGCTAAACGG
* * * *
556537 CTACCATATGATCCAAGCATACCGGATATTACATAACATAGCACCCAACAAACTAGGGGCTATTT
65 CTACCAGAAGATCCAAGCATACCGGACATTACACAACATAGCACCCAACAAACTAGGGGCTATTT
556602 GGT
130 GGT
556605 TTACCAAGTA
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
144 78 0.68
145 7 0.06
146 29 0.25
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (146 bp):
TATATCATAATCCAACCGTACTGAACATGAAAACATAGCACCCAACCATATAGGGGCTAAACGGC
TACCAGAAGATCCAAGCATACCGGACATTACACAACATAGCACCCAACAAACTAGGGGCTATTTG
GTAAGCCATACACATG
Found at i:560290 original size:2 final size:2
Alignment explanation
Indices: 560279--560321 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
560269 AGATAATCTC
560279 AG AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
560320 AG
1 AG
560322 TGCTTGTACG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:562599 original size:241 final size:240
Alignment explanation
Indices: 562176--562656 Score: 953
Period size: 241 Copynumber: 2.0 Consensus size: 240
562166 AGAATATCAA
562176 TGAATATCCAAGACCTTTAACTATGATTTTCATATAATATGATAAAGGTTGTTTCATAAAGGTGA
1 TGAATATCCAAGACCTTTAACTATGATTTTCATATAATATGATAAAGGTTGTTTCATAAAGGTGA
562241 TGCCTCGTCTTGGAGAGCTTTGTAATAGATCTGTGATTACCTATGTACTATTGTTAAAATGATTT
66 TGCCTCGTCTTGGAGAGCTTTGTAATAGATCTGTGATTACCTATGTACTATTGTTAAAATGATTT
562306 TGATTATTGTTAAAGTTAATCATTTTGAATTGATTGTGACAAATGAACATGCACGTAGAAGTATT
131 TGATTATTGTTAAAGTTAATCATTTTGAATTGATTGTGACAAATGAACATGCACGTAGAAGTATT
562371 TAGTGTGTATCCATCATAGGCGTCGGAACCGGGGGGCTAGGGGGG
196 TAGTGTGTATCCATCATAGGCGTCGGAACCGGGGGGCTAGGGGGG
562416 NTGAATATCCAAGACCTTTAACTATGATTTTCATATAATATGATAAAGGTTGTTTCATAAAGGTG
1 -TGAATATCCAAGACCTTTAACTATGATTTTCATATAATATGATAAAGGTTGTTTCATAAAGGTG
562481 ATGCCTCGTCTTGGAGAGCTTTGTAATAGATCTGTGATTACCTATGTACTATTGTTAAAATGATT
65 ATGCCTCGTCTTGGAGAGCTTTGTAATAGATCTGTGATTACCTATGTACTATTGTTAAAATGATT
562546 TTGATTATTGTTAAAGTTAATCATTTTGAATTGATTGTGACAAATGAACATGCACGTAGAAGTAT
130 TTGATTATTGTTAAAGTTAATCATTTTGAATTGATTGTGACAAATGAACATGCACGTAGAAGTAT
562611 TTAGTGTGTATCCATCATAGGCGTCGGAACCGGGGGGCTAGGGGGG
195 TTAGTGTGTATCCATCATAGGCGTCGGAACCGGGGGGCTAGGGGGG
562657 NNNNNNNNNN
Statistics
Matches: 240, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 240 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (240 bp):
TGAATATCCAAGACCTTTAACTATGATTTTCATATAATATGATAAAGGTTGTTTCATAAAGGTGA
TGCCTCGTCTTGGAGAGCTTTGTAATAGATCTGTGATTACCTATGTACTATTGTTAAAATGATTT
TGATTATTGTTAAAGTTAATCATTTTGAATTGATTGTGACAAATGAACATGCACGTAGAAGTATT
TAGTGTGTATCCATCATAGGCGTCGGAACCGGGGGGCTAGGGGGG
Found at i:611480 original size:12 final size:12
Alignment explanation
Indices: 611463--611492 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
611453 TGCTAAAACG
611463 CGGAACGGAAAA
1 CGGAACGGAAAA
*
611475 CGGAACGGAAAG
1 CGGAACGGAAAA
611487 CGGAAC
1 CGGAAC
611493 AGAAGGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.37, T:0.00
Consensus pattern (12 bp):
CGGAACGGAAAA
Found at i:612150 original size:16 final size:16
Alignment explanation
Indices: 612129--612163 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
612119 TTGCTAAAAA
612129 TACTAGTTTCACAAAT
1 TACTAGTTTCACAAAT
612145 TACTAGTTTCACAAAT
1 TACTAGTTTCACAAAT
612161 TAC
1 TAC
612164 CGGGTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (16 bp):
TACTAGTTTCACAAAT
Found at i:613053 original size:12 final size:12
Alignment explanation
Indices: 613036--613070 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
613026 ATATTTTCCA
613036 TTCCGTTCCGCT
1 TTCCGTTCCGCT
*
613048 TTCCGTTCCGTT
1 TTCCGTTCCGCT
613060 TTCCGTTCCGC
1 TTCCGTTCCGC
613071 GTTTTAGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.40, G:0.17, T:0.43
Consensus pattern (12 bp):
TTCCGTTCCGCT
Found at i:618586 original size:15 final size:16
Alignment explanation
Indices: 618552--618592 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
618542 TCAAAATCAG
*
618552 TTCGCTATATCCATGAA
1 TTCGTTATATCCA-GAA
618569 TTCGTTATATCC-GAA
1 TTCGTTATATCCAGAA
618584 TTCGTTATA
1 TTCGTTATA
618593 ACCGTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
17 11 0.48
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (16 bp):
TTCGTTATATCCAGAA
Found at i:620274 original size:12 final size:11
Alignment explanation
Indices: 620256--620285 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
620246 AAATGAAGCA
620256 AAAAAACAAAC
1 AAAAAACAAAC
620267 AAACAAACAAAC
1 AAA-AAACAAAC
620279 AAAAAAC
1 AAAAAAC
620286 CGTTTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAC
Found at i:633726 original size:6 final size:6
Alignment explanation
Indices: 633709--633773 Score: 85
Period size: 6 Copynumber: 10.8 Consensus size: 6
633699 AGTTTTGTAC
* * * *
633709 AGAGAG AAAGAG AGAGAG AGAGAG ACAGAG ACAGAG AGAGAG AGACAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
*
633757 AGAGAG AGAGAG GGAGA
1 AGAGAG AGAGAG AGAGA
633774 AATTGTCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.51, C:0.05, G:0.45, T:0.00
Consensus pattern (6 bp):
AGAGAG
Found at i:636919 original size:2 final size:2
Alignment explanation
Indices: 636912--636941 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
636902 TATTATTTTA
*
636912 AT AT AT AT AT AT AT AT NT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
636942 GCTTATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:637007 original size:2 final size:2
Alignment explanation
Indices: 637000--637038 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
636990 ATCAGCCTGC
637000 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
637039 ACAAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:642074 original size:26 final size:26
Alignment explanation
Indices: 642038--642090 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
642028 AATAAACATA
642038 AACTGCTTCCCA-GCCTTTATTCAATT
1 AACTGCTTCCCATG-CTTTATTCAATT
642064 AACTGCTTCCCATGCTTTATTCAATT
1 AACTGCTTCCCATGCTTTATTCAATT
642090 A
1 A
642091 TCTGGTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.40
Consensus pattern (26 bp):
AACTGCTTCCCATGCTTTATTCAATT
Found at i:687437 original size:21 final size:21
Alignment explanation
Indices: 687411--687477 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
687401 AAATATTTTT
687411 ATCTCGTAATTACGAGAAAAG
1 ATCTCGTAATTACGAGAAAAG
* * * **
687432 ATCTCGTTATTACGTGTTAATT
1 ATCTCGTAATTACGAG-AAAAG
* *
687454 ATCTCGCAATAACGAGAAAAG
1 ATCTCGTAATTACGAGAAAAG
687475 ATC
1 ATC
687478 GATAACCGGA
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (21 bp):
ATCTCGTAATTACGAGAAAAG
Found at i:687528 original size:2 final size:2
Alignment explanation
Indices: 687521--687553 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
687511 CTGTCATAAA
687521 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
687554 ACCAGGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:692650 original size:2 final size:2
Alignment explanation
Indices: 692643--692674 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
692633 AGAATTATTA
692643 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
692675 GTTTAACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:694955 original size:2 final size:2
Alignment explanation
Indices: 694948--694999 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
694938 AAAAAGCTTC
694948 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
694990 AG AG AG AG AG
1 AG AG AG AG AG
695000 GAGTGTTTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:697378 original size:161 final size:161
Alignment explanation
Indices: 697113--697926 Score: 1161
Period size: 161 Copynumber: 5.1 Consensus size: 161
697103 CAGTAACCGT
* * *
697113 TCATTTTCTTTGCAAAGGATGAACATATTGAAATGAAATTTGGTATAAAGGTTTATCATGATAAT
1 TCATTTTCTTCGCATAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTATCATGATAAT
* * *
697178 ATCTAGGTCAAGTTTGATATTGGGTTC-ATTTGAGCAATTTTTGACAGAGTTATGGCCCTTGGAC
66 ATCTAGGTCAAGTTTGATATTGGGTACGA-TCGAGCAATTTTCGACAGAGTTATGGCCCTTGGAC
*
697242 TTAGAAAAATTCGAGTTATTTGCAGTTTCCGC
130 TTAGAAAAATTCGAGTTATTTGCAGTTTCTGC
*
697274 TCATTTTCTGCGCATAGGAT-AGACATATTGAAATGAAATTTGGTATACAGGTTTATCATGATAA
1 TCATTTTCTTCGCATAGGATGA-ACATATTGAAATGAAATTTGGTATACAGGTTTATCATGATAA
* *
697338 TATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGTCAGAGTTATGGCCCATGGAC
65 TATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGGCCCTTGGAC
*
697403 TTACAAAAATTCGAGTTATTTGCAGTTTCTGC
130 TTAGAAAAATTCGAGTTATTTGCAGTTTCTGC
* *
697435 TCATTTTTTTCGCATAGGATAAACATATTGAAATGAAATTTGGTATACAGGTTTATCATGATAAT
1 TCATTTTCTTCGCATAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTATCATGATAAT
* *
697500 ATCTAGGTCAAGTTTGATATTGGGTACAATCGAGCAATTTTCAACAGAGTTATGGCCCTTGGACT
66 ATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGGCCCTTGGACT
*
697565 TAGAAAAATTTGAGTTATTTGCAGTTTCTGC
131 TAGAAAAATTCGAGTTATTTGCAGTTTCTGC
* * * *
697596 TCATTTTTTTCACATAGGATGAACATATTTAAATGAAATTTGGTATACAGGTTTATCATTATAAT
1 TCATTTTCTTCGCATAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTATCATGATAAT
* * * * * *
697661 ATCTAGGTCATGTTCGATATTGGGTATGATCGAGCAATTTTCAACAGAGTTAAGGCCCTTGAACT
66 ATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGGCCCTTGGACT
*
697726 TAGAAAAATTTGAGTTATTTGCAGTTTCTGC
131 TAGAAAAATTCGAGTTATTTGCAGTTTCTGC
* * * * * *
697757 TCATTTTCTTCACAGAGGGTGCACATATT-AATATGAAATTTAGTATACAGGTTTATC-TAAATA
1 TCATTTTCTTCGCATAGGATGAACATATTGAA-ATGAAATTTGGTATACAGGTTTATCAT-GATA
* * * * *
697820 ATATCTAGGTCAAGTTTGAT-TTTGGTATGATAGAGCAATTTCCGACAGAGTTATGCCCCTTGGA
64 ATATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGGCCCTTGGA
* ** * * *
697884 CTTAGAAAAATTCCAAATGTTTGCAGTTTATGT
129 CTTAGAAAAATTCGAGTTATTTGCAGTTTCTGC
697917 TCATTTTCTT
1 TCATTTTCTT
697927 TGTGGATGTT
Statistics
Matches: 597, Mismatches: 51, Indels: 11
0.91 0.08 0.02
Matches are distributed among these distances:
160 77 0.13
161 518 0.87
162 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (161 bp):
TCATTTTCTTCGCATAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTATCATGATAAT
ATCTAGGTCAAGTTTGATATTGGGTACGATCGAGCAATTTTCGACAGAGTTATGGCCCTTGGACT
TAGAAAAATTCGAGTTATTTGCAGTTTCTGC
Found at i:698207 original size:19 final size:19
Alignment explanation
Indices: 698185--698221 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
698175 CATTGCTTAC
698185 TGTGCTAGCCTGTGCTGCT
1 TGTGCTAGCCTGTGCTGCT
*
698204 TGTGCTTGCCTGTGCTGC
1 TGTGCTAGCCTGTGCTGC
698222 GGTCACTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.27, G:0.32, T:0.38
Consensus pattern (19 bp):
TGTGCTAGCCTGTGCTGCT
Found at i:699268 original size:25 final size:25
Alignment explanation
Indices: 699240--699292 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
699230 GTAAAGGTGT
*
699240 GATAGTCTTTAACTACAATACTATA
1 GATAGTCTCTAACTACAATACTATA
699265 GATAGTCTCTAACTACAATACTATA
1 GATAGTCTCTAACTACAATACTATA
699290 GAT
1 GAT
699293 GATTTCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (25 bp):
GATAGTCTCTAACTACAATACTATA
Found at i:716896 original size:22 final size:22
Alignment explanation
Indices: 716868--716918 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
716858 TTTTTGAAAA
*
716868 TTTGGGTCCACTCGTGATTTAC
1 TTTGGGTCCACTCGGGATTTAC
** *
716890 TTTGGGTTTACTCGGGGTTTAC
1 TTTGGGTCCACTCGGGATTTAC
716912 TTTGGGT
1 TTTGGGT
716919 TTACTCGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.10, C:0.16, G:0.29, T:0.45
Consensus pattern (22 bp):
TTTGGGTCCACTCGGGATTTAC
Found at i:716901 original size:11 final size:11
Alignment explanation
Indices: 716885--716923 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
716875 CCACTCGTGA
716885 TTTACTTTGGG
1 TTTACTTTGGG
**
716896 TTTACTCGGGG
1 TTTACTTTGGG
716907 TTTACTTTGGG
1 TTTACTTTGGG
716918 TTTACT
1 TTTACT
716924 CGAGAATTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.10, C:0.13, G:0.26, T:0.51
Consensus pattern (11 bp):
TTTACTTTGGG
Found at i:716936 original size:22 final size:22
Alignment explanation
Indices: 716886--716936 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
716876 CACTCGTGAT
* **
716886 TTACTTTGGGTTTACTCGGGGT
1 TTACTTTGGGTTTACTCGAGAA
716908 TTACTTTGGGTTTACTCGAGAA
1 TTACTTTGGGTTTACTCGAGAA
*
716930 TTGCTTT
1 TTACTTT
716937 TGGACTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.14, C:0.14, G:0.25, T:0.47
Consensus pattern (22 bp):
TTACTTTGGGTTTACTCGAGAA
Found at i:717141 original size:11 final size:12
Alignment explanation
Indices: 717127--717161 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
717117 GGTCCACTCT
717127 AGTAAACCCAG-
1 AGTAAACCCAGA
717138 AGTAAACCCAGAA
1 AGTAAACCCAG-A
717151 AGTAAACCCAG
1 AGTAAACCCAG
717162 GGTTTAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.49, C:0.26, G:0.17, T:0.09
Consensus pattern (12 bp):
AGTAAACCCAGA
Found at i:740624 original size:11 final size:11
Alignment explanation
Indices: 740596--740627 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
740586 ATTAGTGAAA
*
740596 ATTACACAAGG
1 ATTACATAAGG
740607 ATTACATAAGG
1 ATTACATAAGG
740618 ATTACATAAG
1 ATTACATAAG
740628 TGTTAATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (11 bp):
ATTACATAAGG
Found at i:740881 original size:2 final size:2
Alignment explanation
Indices: 740874--740898 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
740864 GCACCTCTAC
740874 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
740899 GTCGGCGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:742366 original size:2 final size:2
Alignment explanation
Indices: 742359--742432 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
742349 CTTGATAAAA
*
742359 TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
742401 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
742433 CAGGCTATGA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:745662 original size:2 final size:2
Alignment explanation
Indices: 745655--745700 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
745645 TGGTCGATAG
745655 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
745697 GA GA
1 GA GA
745701 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:759318 original size:166 final size:166
Alignment explanation
Indices: 758853--760372 Score: 1896
Period size: 166 Copynumber: 9.2 Consensus size: 166
758843 NNNNNNTTTA
* * * * *
758853 AGCTTTTCTGGCCAAATAGTCTTTAAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTAAG
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* * * ** * * *
758918 TAAAATTTCATCCCCC-ATTGTGGCCTCACCCTA-CCCC-TAGACTATTATTTAAACAAACTTGA
66 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* * * * * **
758980 ATCTATA-TGATCTGGGGAT-CCTCCACTCAAATTTG
131 ATCTACACT-ACCTGAGGATGCTTCCATTTTAATTTG
* * * *
759015 AGCTTTCCTGGCCTAATA-CTTTTGAGAAAAAGACTTTTAAAGATTTTCTCTATATA----TA--
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* *
759073 -AAAA--TGTATCCCCC-ATTGTGGCCCCGCCCTACCCCCTGGGACCATGATTTGAACAAACTTG
66 TAAAACTTG-ATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTG
* * * * ****
759134 AATCTACATTATCTGAGGATGGTTACACGCCAATTTG
130 AATCTACACTACCTGAGGATGCTTCCATTTTAATTTG
* * * * * *
759171 AG-ATTTCTTGGCCAAATAGTTATT-AAAAGAA-ATTTTTTAAAAGATTTTCTCTATATACTCTT
1 AGCTTTTC-TGGCCTAATAGTTTTTGAGAAGAAGA-TTTTT-AAAGATTTTCTCTATATATTCCT
* * * * *
759233 ATGTAAAAATTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACTATGATTTGAAGAAACG
63 ATGTAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACT
* *
759298 TGAATTTACCCTACCTGAGGATGCTTCCATTTTAATTTG
128 TGAATCTACACTACCTGAGGATGCTTCCATTTTAATTTG
* * * *
759337 AGCTTATCTGGCCTAATAGATTTTGAGAATAAGATTTTTAAAGATTTTCTCTATCTTTATTCCTA
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTA--TATATTCCTA
* *
759402 TATAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGATCATGATTTGAACAAACTT
64 TGTAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTT
* * * *
759467 AAATCTTCACTTCCTGAGCATGCTTCCATTTTAATTTG
129 GAATCTACACTACCTGAGGATGCTTCCATTTTAATTTG
* * * *
759505 AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAGGATTTTTTAAGATTTTCTCTATATATTCCTATT
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
** * * *
759570 TAAAACACGATCCCCCTATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTAAACAAACTTGA
66 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
759635 ATCTACACTACCTGAGGATGCTTCCACTCAAAGTTG
131 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTG
* *
759671 AGCTTTCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAATATTTTCTCTATATATTCCTATG
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* *
759736 TAAAACTTGATCCCCCAATTGTGGCCCCATCCTACCCCCGGGGACCATGATTTGAACAAACTTAA
66 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* * * *
759801 ATCTTCACTTCCTGAGCATGCTTCCAATTTAA-TTG
131 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTG
*
759836 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTCTTAAAGATTTTCTCTATATATTCCTATG
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* **
759901 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTATCCCCGGGGACCATGATTTGAACAATTTTGA
66 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* *
759966 ATCTACACTTCCTGAGGATGCTTCCATTTAAATTTG
131 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTG
*
760002 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCCATATATTCCTATG
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* * *
760067 TACAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGAACCATGATTTGAACAAATTTGA
66 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
760132 ATCTACACTACCTGAGGATGCTCCCATTTTAATTTG
131 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTG
*
760168 TGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
** * * *
760233 TAAAACTTGATCCCCCTCTTGTGGCCCCTCCCTACCCCCGGGGACCATTATTTGAACAAACGTGA
66 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* *** *
760298 ATCTACACTACCTGAGGATGCCTCCA-CACAAGTTTA
131 ATCTACACTACCTGAGGATGCTTCCATTTTAA-TTTG
*
760334 AGCTTTTCCGG-CTGAATAGTTTTTGAGAAGAAGATTTTT
1 AGCTTTTCTGGCCT-AATAGTTTTTGAGAAGAAGATTTTT
760373 GAAAAATACC
Statistics
Matches: 1182, Mismatches: 149, Indels: 50
0.86 0.11 0.04
Matches are distributed among these distances:
152 1 0.00
153 22 0.02
154 8 0.01
155 39 0.03
156 32 0.03
157 23 0.02
161 34 0.03
162 16 0.01
164 4 0.00
165 164 0.14
166 681 0.58
167 13 0.01
168 145 0.12
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (166 bp):
AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
ATCTACACTACCTGAGGATGCTTCCATTTTAATTTG
Found at i:760063 original size:497 final size:495
Alignment explanation
Indices: 758853--760372 Score: 1934
Period size: 497 Copynumber: 3.1 Consensus size: 495
758843 NNNNNNTTTA
* * * * *
758853 AGCTTTTCTGGCCAAATAGTCTTTAAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTAAG
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* * * ** * * *
758918 TAAAATTTCATCCCCC-ATTGTGGCCTCACCCTACCCC-TAGACTATTATTTAAACAAACTTGAA
66 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCGGGGACCATGATTTGAACAAACTTGAA
* * * * * * *
758981 TCTATA-TGAT-CTGGGGAT-CCTCCACTCAAATTTGAGCTTTCCTGGCCTAATA-CTTTTGAGA
131 TCTACACT--TCCTGAGGATGCTTCCATTTAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGA
* * *
759042 AAAAGACTTTTAAAGATTTTCT-C-TATA----TA-TAAAA-ATGTATCCCCCATTGTGGCCCCG
194 AGAAGATTTTTAAAGATTTTCTCCATATATTCCTATTAAAACATG-ATCCCCCATTGTGGCCCCA
* * * * *
759099 CCCTACCCCCT-GGGACCATGATTTGAACAAACTTGAATCTACATTATCTGAGGATGGTTACACG
258 CCCTA-CCCCTGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCACT
* * * * * *
759163 CCAATTTGAGATTTCTTGGCCAAATAGTTATT-AAAAGAA-ATTTTTTAAAAGATTTTCTCTATA
322 CAAATTTGAGCTTTCCTGGCCTAATAGTTTTTGAGAAGAAGA-TTTTT-AAAGATTTTCTCTATA
* * * * *
759226 TACTCTTATGTAAAAATTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACTATGATTTGA
385 TATTCCTATGTAAAACTTGATCCCCCTATTGTGGCCCCATCCTACCCCCGGGGACCATGATTTGA
* * *
759291 AGAAACGTGAAT-TTACCCTACCTGAGGATGCTTCCATTTTAATTTG
450 ACAAACGTGAATCTT-CACTACCTGAGGATGCTTCCAATTTAATTTG
* * * *
759337 AGCTTATCTGGCCTAATAGATTTTGAGAATAAGATTTTTAAAGATTTTCTCTATCTTTATTCCTA
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTA--TATATTCCTA
* *
759402 TATAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCCGGGGATCATGATTTGAACAAACTT
64 TGTAAAACTTGATCCCCCAATTGTGGCCCCACCCTA-CCCCGGGGACCATGATTTGAACAAACTT
* * * * *
759467 AAATCTTCACTTCCTGAGCATGCTTCCATTTTAATTTGAGCTTTTCTGGCCAAATAGTTTTTGAG
128 GAATCTACACTTCCTGAGGATGCTTCCATTTAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAG
* * * *
759532 AAGAGGATTTTTTAAGATTTTCTCTATATATTCCTATTTAAAACACGATCCCCCTATTGTGGCCC
193 AAGAAGATTTTTAAAGATTTTCTCCATATATTCCTA-TTAAAACATGATCCCCC-ATTGTGGCCC
*
759597 CACCCTACCCCTGGGGACCATGATTTAAACAAACTTGAATCTACACTACCTGAGGATGCTTCCAC
256 CACCCTACCCCTGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCAC
* *
759662 TCAAAGTTGAGCTTTCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAATATTTTCTCTATAT
321 TCAAATTTGAGCTTTCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATAT
*
759727 ATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCCATCCTACCCCCGGGGACCATGATTTGAA
386 ATTCCTATGTAAAACTTGATCCCCCTATTGTGGCCCCATCCTACCCCCGGGGACCATGATTTGAA
* * * *
759792 CAAACTTAAATCTTCACTTCCTGAGCATGCTTCCAATTTAA-TTG
451 CAAACGTGAATCTTCACTACCTGAGGATGCTTCCAATTTAATTTG
*
759836 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTCTTAAAGATTTTCTCTATATATTCCTATG
1 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
**
759901 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTATCCCCGGGGACCATGATTTGAACAATTTTGA
66 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTA-CCCCGGGGACCATGATTTGAACAAACTTGA
759966 ATCTACACTTCCTGAGGATGCTTCCATTTAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
130 ATCTACACTTCCTGAGGATGCTTCCATTTAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
* *
760031 GAAGATTTTTAAAGATTTTCTCCATATATTCCTATGTACAACTTGATCCCCCAATTGTGGCCCCA
195 GAAGATTTTTAAAGATTTTCTCCATATATTCCTAT-TAAAACATGATCCCCC-ATTGTGGCCCCA
* * * * * *
760096 CCCTACCCCCGGGAACCATGATTTGAACAAATTTGAATCTACACTACCTGAGGATGCTCCCATTT
258 CCCTACCCCTGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCACTC
* * *
760161 TAATTTGTGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATAT
323 AAATTTGAGCTTTCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATAT
* *
760226 TCCTATGTAAAACTTGATCCCCCTCTTGTGGCCCC-TCCCTACCCCCGGGGACCATTATTTGAAC
388 TCCTATGTAAAACTTGATCCCCCTATTGTGGCCCCAT-CCTACCCCCGGGGACCATGATTTGAAC
* * * *
760290 AAACGTGAATCTACACTACCTGAGGATGCCTCCACA--CAAGTTTA
452 AAACGTGAATCTTCACTACCTGAGGATGCTTCCA-ATTTAA-TTTG
*
760334 AGCTTTTCCGG-CTGAATAGTTTTTGAGAAGAAGATTTTT
1 AGCTTTTCTGGCCT-AATAGTTTTTGAGAAGAAGATTTTT
760373 GAAAAATACC
Statistics
Matches: 895, Mismatches: 112, Indels: 44
0.85 0.11 0.04
Matches are distributed among these distances:
484 46 0.05
486 23 0.03
487 16 0.02
488 5 0.01
489 29 0.03
490 29 0.03
491 26 0.03
493 4 0.00
496 4 0.00
497 396 0.44
498 37 0.04
499 69 0.08
500 197 0.22
501 13 0.01
502 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (495 bp):
AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
TAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCGGGGACCATGATTTGAACAAACTTGAA
TCTACACTTCCTGAGGATGCTTCCATTTAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAAG
AAGATTTTTAAAGATTTTCTCCATATATTCCTATTAAAACATGATCCCCCATTGTGGCCCCACCC
TACCCCTGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCACTCAAA
TTTGAGCTTTCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCC
TATGTAAAACTTGATCCCCCTATTGTGGCCCCATCCTACCCCCGGGGACCATGATTTGAACAAAC
GTGAATCTTCACTACCTGAGGATGCTTCCAATTTAATTTG
Found at i:760340 original size:332 final size:332
Alignment explanation
Indices: 758853--760372 Score: 1948
Period size: 331 Copynumber: 4.6 Consensus size: 332
758843 NNNNNNTTTA
* * * *
758853 AGCTTTTCTGGCCAAATAGTCTTTAAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTAAG
1 AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* * * ** * * *
758918 TAAAATTTCATCCCCC-ATTGTGGCCTCACCCTA-CCCC-TAGACTATTATTTAAACAAACTTGA
66 TAAAACTTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* * * * * *
758980 ATCTATA-TGATCTGGGGAT-CCTCCACTCAAATTTGAGCTTTCCTGGCCTAATA-CTTTTGAGA
131 ATCTACACT-ACCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGA
* * *
759042 AAAAGACTTTTAAAGATTTTCT-C-TATA----TA--TAAAA-ATGTATCCCCC-ATTGTGGCCC
195 AGAAGATTTTTAAAGATTTTCTCCATATATTCCTATGTAAAACTTG-ATCCCCCAATTGTGGCCC
* * * * * * * * *
759097 CGCCCTACCCCCTGGGACCATGATTTGAACAAACTTGAATCTACATTATCTGAGGATGGTTACAC
259 CACCCTACCCCCGGGGACCATGATTTGAACAAACTTAAATCTACACTACCTGAGCATGCTTCCAT
***
759162 GCCAATTTG
324 TTTAATTTG
* * * * *
759171 AG-ATTTCTTGGCCAAATAGTTATT-AAAAGAA-ATTTTTTAAAAGATTTTCTCTATATACTCTT
1 AGCTTTTC-TGGCCAAATAGTTTTTGAGAAGAAGA-TTTTT-AAAGATTTTCTCTATATATTCCT
* * * *
759233 ATGTAAAAATTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACTATGATTTGAAGAAACG
63 ATGTAAAACTTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACT
* * * ** * *
759298 TGAATTTACCCTACCTGAGGATGCTTCCATTTTAATTTGAGCTTATCTGGCCTAATAGATTTTGA
128 TGAATCTACACTACCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGA
* * * *
759363 GAATAAGATTTTTAAAGATTTTCTCTATCTTTATTCCTATATAAAACTTGATCCCCCAATTGTGG
193 GAAGAAGATTTTTAAAGATTTTCTCCA--TATATTCCTATGTAAAACTTGATCCCCCAATTGTGG
* * *
759428 CCCCACCCTACCCCCGGGGATCATGATTTGAACAAACTTAAATCTTCACTTCCTGAGCATGCTTC
256 CCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTAAATCTACACTACCTGAGCATGCTTC
759493 CATTTTAATTTG
321 CATTTTAATTTG
* * *
759505 AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAGGATTTTTTAAGATTTTCTCTATATATTCCTATT
1 AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
** * *
759570 TAAAACACGATCCCCCTATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTAAACAAACTTGA
66 TAAAACTTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* *
759635 ATCTACACTACCTGAGGATGCTTCCACTCAAAGTTGAGCTTTCCTGGCCTAATAGTTTTTGAGAA
131 ATCTACACTACCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
* *
759700 GAAGATTTTTAAATATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCCA
196 GAAGATTTTTAAAGATTTTCTCCATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCCA
* * * *
759765 TCCTACCCCCGGGGACCATGATTTGAACAAACTTAAATCTTCACTTCCTGAGCATGCTTCCAATT
261 CCCTACCCCCGGGGACCATGATTTGAACAAACTTAAATCTACACTACCTGAGCATGCTTCCATTT
759830 TAA-TTG
326 TAATTTG
* *
759836 AGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTCTTAAAGATTTTCTCTATATATTCCTATG
1 AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* * **
759901 TAAAACTTGATCCCCCAATTGTGGCCCCACCCTATCCCCGGGGACCATGATTTGAACAATTTTGA
66 TAAAACTTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* * *
759966 ATCTACACTTCCTGAGGATGCTTCCATTTAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
131 ATCTACACTACCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
*
760031 GAAGATTTTTAAAGATTTTCTCCATATATTCCTATGTACAACTTGATCCCCCAATTGTGGCCCCA
196 GAAGATTTTTAAAGATTTTCTCCATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCCA
* * * * *
760096 CCCTACCCCCGGGAACCATGATTTGAACAAATTTGAATCTACACTACCTGAGGATGCTCCCATTT
261 CCCTACCCCCGGGGACCATGATTTGAACAAACTTAAATCTACACTACCTGAGCATGCTTCCATTT
760161 TAATTTG
326 TAATTTG
* *
760168 TGCTTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
1 AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
* * * *
760233 TAAAACTTGATCCCCCTCTTGTGGCCCCTCCCTACCCCCGGGGACCATTATTTGAACAAACGTGA
66 TAAAACTTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* * * * *
760298 ATCTACACTACCTGAGGATGCCTCCACACAAGTTTAAGCTTTTCCGG-CTGAATAGTTTTTGAGA
131 ATCTACACTACCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCT-AATAGTTTTTGAGA
760362 AGAAGATTTTT
195 AGAAGATTTTT
760373 GAAAAATACC
Statistics
Matches: 1049, Mismatches: 127, Indels: 38
0.86 0.10 0.03
Matches are distributed among these distances:
316 1 0.00
317 16 0.02
318 53 0.05
319 16 0.02
320 4 0.00
321 31 0.03
322 29 0.03
323 28 0.03
327 3 0.00
331 305 0.29
332 291 0.28
333 12 0.01
334 245 0.23
335 14 0.01
336 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (332 bp):
AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
TAAAACTTGATCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
ATCTACACTACCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAGAA
GAAGATTTTTAAAGATTTTCTCCATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCCA
CCCTACCCCCGGGGACCATGATTTGAACAAACTTAAATCTACACTACCTGAGCATGCTTCCATTT
TAATTTG
Found at i:760562 original size:15 final size:15
Alignment explanation
Indices: 760542--760598 Score: 96
Period size: 15 Copynumber: 3.7 Consensus size: 15
760532 TGAAAAGTTA
760542 ACAACGACAACGACG
1 ACAACGACAACGACG
760557 ACAACGACAACGACG
1 ACAACGACAACGACG
760572 ACAACGACAACGACAG
1 ACAACGACAACGAC-G
760588 ACAACGGACAA
1 ACAAC-GACAA
760599 ATTGTGATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
15 29 0.73
16 6 0.15
17 5 0.12
ACGTcount: A:0.49, C:0.32, G:0.19, T:0.00
Consensus pattern (15 bp):
ACAACGACAACGACG
Found at i:762243 original size:6 final size:6
Alignment explanation
Indices: 762227--762299 Score: 69
Period size: 6 Copynumber: 12.0 Consensus size: 6
762217 GGTTGTGGGG
* * * *
762227 GTTTGT GTTTTT GTTTTTTT GTTGTT GTTGTT GTTTTT -TTTTT TTTTTT
1 GTTTTT GTTTTT G--TTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT
762276 GCTTTTT G-TTTT GTTTTT GTTTTT
1 G-TTTTT GTTTTT GTTTTT GTTTTT
762300 TATTTCGCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
5 10 0.17
6 36 0.62
7 6 0.10
8 6 0.10
ACGTcount: A:0.00, C:0.01, G:0.18, T:0.81
Consensus pattern (6 bp):
GTTTTT
Found at i:762266 original size:29 final size:26
Alignment explanation
Indices: 762227--762300 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 26
762217 GGTTGTGGGG
*
762227 GTTTGTGTTTTTGTTTTTTTGTTGTTGTT
1 GTTT-TGTTTTTGTTTTTTTGCT-TT-TT
* *
762256 GTTGTTTTTTTTTTTTTTTTGCTTTTT
1 GTT-TTGTTTTTGTTTTTTTGCTTTTT
762283 GTTTTGTTTTTGTTTTTT
1 GTTTTGTTTTTGTTTTTT
762301 ATTTCGCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 13 0.33
27 5 0.13
28 2 0.05
29 18 0.46
30 1 0.03
ACGTcount: A:0.00, C:0.01, G:0.18, T:0.81
Consensus pattern (26 bp):
GTTTTGTTTTTGTTTTTTTGCTTTTT
Found at i:762281 original size:11 final size:11
Alignment explanation
Indices: 762227--762298 Score: 71
Period size: 11 Copynumber: 6.5 Consensus size: 11
762217 GGTTGTGGGG
762227 GTTTGTGTTTTT
1 GTTT-TGTTTTT
762239 GTTTT-TTTGTT
1 GTTTTGTTT-TT
762250 GTTGTTGTTGTTT
1 GTT-TTGTT-TTT
762263 -TTTT-TTTTT
1 GTTTTGTTTTT
762272 -TTTTGCTTTTT
1 GTTTTG-TTTTT
762283 GTTTTGTTTTT
1 GTTTTGTTTTT
762294 GTTTT
1 GTTTT
762299 TTATTTCGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
9 7 0.13
10 5 0.09
11 23 0.43
12 13 0.25
13 4 0.08
14 1 0.02
ACGTcount: A:0.00, C:0.01, G:0.18, T:0.81
Consensus pattern (11 bp):
GTTTTGTTTTT
Found at i:764544 original size:130 final size:129
Alignment explanation
Indices: 764286--765363 Score: 1142
Period size: 130 Copynumber: 8.0 Consensus size: 129
764276 TAGGGAGCCT
* * * * *
764286 CTACCATAGGTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGCTTCGTGGACCAGGGTGT
1 CTACGATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
* * * * *
764351 ACTTGGTCGGTGAACACTACTCACTAGGCTAAGGACACCTCGATCGGTAAACATTACTTACTGGG
66 ACATGGTCGGTGAACACTACTCACTAGGCT-GGGACACCTCGATCGGTGAACACTACTCACTGGG
* *
764416 CTACGATAGCTCGCAAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
1 CTACGATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
* *
764481 ACTTTGTCGGTGAACACTACTCACTAGGCTAGGGACACCTCGATCGGTGAACACTACTCACTGGG
66 ACATGGTCGGTGAACACTACTCACTAGGCT-GGGACACCTCGATCGGTGAACACTACTCACTGGG
* * *
764546 CTACGACAGCTCGCGAGGCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
1 CTACGATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
* * *
764611 ACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCACGATTGGTGAACACTACTTACTGGG
66 ACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCTCGATCGGTGAACACTACTCACTGGG
*
764675 CTATGGAGCCTGATCTATCATAGCTCCCGAAGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTC
1 C--T--A--C-G-------ATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTC
* * * * * * *
764740 GGGGACCAAGGTGTACTTGGTCGGTAAACACTACTCACTAGGCAAGGGACAGCTCGATCGGTGAT
52 GGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGC-TGGGACACCTCGATCGGTGAA
764805 CACTACTCACTGGG
116 CACTACTCACTGGG
* * * * *
764819 CTACGATAGCTCACGAGGCCTTCCGAGT-AGGCAAGCAT-TTCGGAAAGCTTCGGGAACCAGGGT
1 CTACGATAGCTCCCGAGGCCTTCCGATTGA-GCAAGC-TCTTCGGAAGGTTTCGGGGACCAGGGT
* * * * *
764882 ACACATGGTCGGTGAACACTACTCACTGGGCTGGGACACCACGATTGGTGAACAATACTCACTGG
64 ATACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCTCGATCGGTGAACACTACTCACTGG
764947 G
129 G
*
764948 CTAGGGAGTCTGATCTACCATAGCTCCCGAGGCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTC
1 CT----A--C-G-------ATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTC
* *
765013 GGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCACGATTGGTGAAC
52 GGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCTCGATCGGTGAAC
765078 ACTACTCACTGGG
117 ACTACTCACTGGG
765091 CTATGGAGCCTGATCTACCATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTC
1 C--T--A--C-G-------ATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTC
* * * *
765156 GGGGACCAGGGTATACTTGGTCGGTGAACACTACTCACAAGGCTAGAGACACATCGATCGGTGAA
52 GGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGCT-GGGACACCTCGATCGGTGAA
765221 CACTACTCACTGGG
116 CACTACTCACTGGG
* * * * * *
765235 CTACGACAGCTCGCGAGGCCTTCCGAGT-AGGCAAGC-CTTTCGGAAAGCTTCGGGAACCAGGGT
1 CTACGATAGCTCCCGAGGCCTTCCGATTGA-GCAAGCTC-TTCGGAAGGTTTCGGGGACCAGGGT
* * * * *
765298 ACACATGGTCAGTGAACACTTCTCACTAGGCTGGCGACACC-CCAGCGGTGAACA-TAACTCACT
64 ATACATGGTCGGTGAACACTACTCACTAGGCTGG-GACACCTCGATCGGTGAACACT-ACTCACT
765361 GGG
127 GGG
765364 AACGCCTGAT
Statistics
Matches: 825, Mismatches: 83, Indels: 81
0.83 0.08 0.08
Matches are distributed among these distances:
128 1 0.00
129 88 0.11
130 361 0.44
131 2 0.00
133 2 0.00
135 2 0.00
136 2 0.00
137 2 0.00
138 2 0.00
140 2 0.00
142 3 0.00
143 295 0.36
144 62 0.08
145 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (129 bp):
CTACGATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
ACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCTCGATCGGTGAACACTACTCACTGGG
Found at i:764778 original size:273 final size:273
Alignment explanation
Indices: 764433--765237 Score: 1141
Period size: 273 Copynumber: 2.9 Consensus size: 273
764423 AGCTCGCAAG
*
764433 GCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACTTTGTCGGTGAACAC
1 GCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACTTGGTCGGTGAACAC
*
764498 TACTCACTAGGCTAGGGACACCTCGATCGGTGAACACTACTCACTGGGCTACGACAGCTCGCGAG
66 TACTCACTAGGCTAGGGACACCTCGATCGGTGAACACTACTCACTGGGCTACGACAGCTCACGAG
764563 GCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACAC
131 GCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACAC
* * *
764628 TACTCACTAGGCTGGGACACCACGATTGGTGAACACTACTTACTGGGCTATGGAGCCTGATCTAT
196 TACTCACTAGGCTGGGACACCACGATTGGTGAACACTACTCACTGGGCTAGGGAGCCTGATCTAC
764693 CATAGCTCCCGAA
261 CATAGCTCCCGAA
* * *
764706 GCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAAGGTGTACTTGGTCGGTAAACAC
1 GCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACTTGGTCGGTGAACAC
* * * *
764771 TACTCACTAGGCAAGGGACAGCTCGATCGGTGATCACTACTCACTGGGCTACGATAGCTCACGAG
66 TACTCACTAGGCTAGGGACACCTCGATCGGTGAACACTACTCACTGGGCTACGACAGCTCACGAG
* * * * *
764836 GCCTTCCGA-GTAGGCAAGCAT-TTCGGAAAGCTTCGGGAACCAGGGTACACATGGTCGGTGAAC
131 GCCTTCCGATTTA-GCAAGC-TCTTCGGAAGGTTTCGGGGACCAGGGTATACATGGTCGGTGAAC
* * *
764899 ACTACTCACTGGGCTGGGACACCACGATTGGTGAACAATACTCACTGGGCTAGGGAGTCTGATCT
194 ACTACTCACTAGGCTGGGACACCACGATTGGTGAACACTACTCACTGGGCTAGGGAGCCTGATCT
*
764964 ACCATAGCTCCCGAG
259 ACCATAGCTCCCGAA
* *
764979 GCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACAC
1 GCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACTTGGTCGGTGAACAC
* *
765044 TACTCACTAGGCT-GGGACACCACGATTGGTGAACACTACTCACTGGGCTATGGAGCCTGATCTA
66 TACTCACTAGGCTAGGGACACCTCGATCGGTGAACACTACTCACTGGGC--T--A--C-G----A
* * *
765108 CCATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACT
120 -C--AGCTCACGAGGCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACA
* * *
765173 TGGTCGGTGAACACTACTCACAAGGCTAGAGACA-CATCGATCGGTGAACACTACTCACTGGGCT
182 TGGTCGGTGAACACTACTCACTAGGCT-GGGACACCA-CGATTGGTGAACACTACTCACTGGGCT
765237 A
245 A
765238 CGACAGCTCG
Statistics
Matches: 467, Mismatches: 45, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
272 33 0.07
273 319 0.68
274 2 0.00
276 1 0.00
278 1 0.00
279 1 0.00
283 1 0.00
285 1 0.00
286 76 0.16
287 32 0.07
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (273 bp):
GCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACTTGGTCGGTGAACAC
TACTCACTAGGCTAGGGACACCTCGATCGGTGAACACTACTCACTGGGCTACGACAGCTCACGAG
GCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACAC
TACTCACTAGGCTGGGACACCACGATTGGTGAACACTACTCACTGGGCTAGGGAGCCTGATCTAC
CATAGCTCCCGAA
Found at i:765084 original size:143 final size:143
Alignment explanation
Indices: 764819--765237 Score: 637
Period size: 143 Copynumber: 2.9 Consensus size: 143
764809 ACTCACTGGG
* * * * * *
764819 CTACGATAGCTCACGAGGCCTTCCGA-GTAGGCAAGCAT-TTCGGAAAGCTTCGGGAACCAGGGT
1 CTACCATAGCTCCCGAGGCCTTCCGATTTA-GCAAGC-TCTTCGGAAGGTTTCGGGGACCAGGGT
* * *
764882 ACACATGGTCGGTGAACACTACTCACTGGGCTGGGACACCACGATTGGTGAACAATACTCACTGG
64 ATACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCACGATTGGTGAACACTACTCACTGG
*
764947 GCTAGGGAGTCTGAT
129 GCTAGGGAGCCTGAT
764962 CTACCATAGCTCCCGAGGCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
1 CTACCATAGCTCCCGAGGCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
765027 ACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCACGATTGGTGAACACTACTCACTGGGC
66 ACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCACGATTGGTGAACACTACTCACTGGGC
*
765092 TATGGAGCCTGAT
131 TAGGGAGCCTGAT
*
765105 CTACCATAGCTCCCGAGGCCTTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
1 CTACCATAGCTCCCGAGGCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
* * * *
765170 ACTTGGTCGGTGAACACTACTCACAAGGCTAGAGACA-CATCGATCGGTGAACACTACTCACTGG
66 ACATGGTCGGTGAACACTACTCACTAGGCT-GGGACACCA-CGATTGGTGAACACTACTCACTGG
765234 GCTA
129 GCTA
765238 CGACAGCTCG
Statistics
Matches: 256, Mismatches: 16, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
142 1 0.00
143 221 0.86
144 34 0.13
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.22
Consensus pattern (143 bp):
CTACCATAGCTCCCGAGGCCTTCCGATTTAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTAT
ACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCACGATTGGTGAACACTACTCACTGGGC
TAGGGAGCCTGAT
Found at i:765115 original size:416 final size:411
Alignment explanation
Indices: 764051--765363 Score: 1750
Period size: 416 Copynumber: 3.2 Consensus size: 411
764041 CTTAATTGAA
* * * *
764051 AACC-GGGTACACGTGGTCAGTGAACACTACTAGATCACTACGCTGGGGACACAACGATCGGTGA
1 AACCAGGGTACACATGGTCAGTGAACACTAC----TCACTAGGCTAGGGACACCACGATCGGTGA
* * *
764115 ACACTACTCACTGAGCTAGGGACACCTGTTCTAGCATAGCTCCCGAGGCCTTCCGA-TTGGACAA
62 ACAATACTCACTGGGCTAGGG--A-CTG-TCTA-CATAGCTCCCGAGGCCTTCCGATTTAG-CAA
* * * *** * **
764179 GCACTTCGGAATGCTTCGATAACAAGGGTACGCATGGTCGGTGAACACTACTCACTAGGCTAGGG
121 GCTCTTCGGAAGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGCT-GGG
* ** * *
764244 ACACCTCGATCAGTGAACACTACTCACTGGGCTAGGGAGCC---TCTACCATAGGTCCCGAGGCC
185 ACACCACGATTGGTGAACACTACTCACTGGGCTATGGAGCCTGATCTACCATAGCTCCCGAGGCC
* *
764306 TTCCGATTGAGCAAGCTCTTCGGAAGGCTTCGTGGACCAGGGTGTACTTGGTCGGTGAACACTAC
250 TTCCGATTGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTGTACTTGGTCGGTGAACACTAC
* * * *
764371 TCACTAGGCTAA-GGACACCTCGATCGGTAAACATTACTTACTGGGCTACGATAGCTCGCAAGGC
315 TCACTAGGC-AAGGGACA-CTCGATCGGTGAACACTACTCACTGGGCTACGATAGCTCGCGAGGC
* * *
764435 CTTCCGA-TTGAGCAAGCTCTTCGGAAGGTTTCGGG
378 CTTCCGAGTAG-GCAAGCT-TTCGGAAAGCTTCGGG
* * * * * * *
764470 GACCAGGGTATACTTTGTCGGTGAACACTACTCACTAGGCTAGGGACACCTCGATCGGTGAACAC
1 AACCAGGGTACACATGGTCAGTGAACACTACTCACTAGGCTAGGGACACCACGATCGGTGAACAA
*
764535 TACTCACTGGGCT----AC-G---AC--AGCTCGCGAGGCCTTCCGATTTAGCAAGCTCTTCGGA
66 TACTCACTGGGCTAGGGACTGTCTACATAGCTCCCGAGGCCTTCCGATTTAGCAAGCTCTTCGGA
764590 AGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCACGATT
131 AGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCACGATT
* * *
764655 GGTGAACACTACTTACTGGGCTATGGAGCCTGATCTATCATAGCTCCCGAAGCCTTCCGATTGAG
196 GGTGAACACTACTCACTGGGCTATGGAGCCTGATCTACCATAGCTCCCGAGGCCTTCCGATTGAG
* *
764720 CAAGCTCTTCGGAAGGTTTCGGGGACCAAGGTGTACTTGGTCGGTAAACACTACTCACTAGGCAA
261 CAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTGTACTTGGTCGGTGAACACTACTCACTAGGCAA
* *
764785 GGGACAGCTCGATCGGTGATCACTACTCACTGGGCTACGATAGCTCACGAGGCCTTCCGAGTAGG
326 GGGACA-CTCGATCGGTGAACACTACTCACTGGGCTACGATAGCTCGCGAGGCCTTCCGAGTAGG
764850 CAAGCATTTCGGAAAGCTTCGGG
390 CAAGC-TTTCGGAAAGCTTCGGG
* * *
764873 AACCAGGGTACACATGGTCGGTGAACACTACTCACTGGGCT-GGGACACCACGATTGGTGAACAA
1 AACCAGGGTACACATGGTCAGTGAACACTACTCACTAGGCTAGGGACACCACGATCGGTGAACAA
764937 TACTCACTGGGCTAGGGAGTCTGATCTACCATAGCTCCCGAGGCCTTCCGATTTAGCAAGCTCTT
66 TACTCACTGGGCTAGGGA--CTG-TCTA-CATAGCTCCCGAGGCCTTCCGATTTAGCAAGCTCTT
765002 CGGAAGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCAC
127 CGGAAGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCAC
765067 GATTGGTGAACACTACTCACTGGGCTATGGAGCCTGATCTACCATAGCTCCCGAGGCCTTCCGAT
192 GATTGGTGAACACTACTCACTGGGCTATGGAGCCTGATCTACCATAGCTCCCGAGGCCTTCCGAT
* *
765132 TGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTATACTTGGTCGGTGAACACTACTCACAAG
257 TGAGCAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTGTACTTGGTCGGTGAACACTACTCACTAG
* * *
765197 GCTAGAGACACATCGATCGGTGAACACTACTCACTGGGCTACGACAGCTCGCGAGGCCTTCCGAG
322 GCAAGGGACAC-TCGATCGGTGAACACTACTCACTGGGCTACGATAGCTCGCGAGGCCTTCCGAG
765262 TAGGCAAGCCTTTCGGAAAGCTTCGGG
386 TAGGCAAG-CTTTCGGAAAGCTTCGGG
* * *
765289 AACCAGGGTACACATGGTCAGTGAACACTTCTCACTAGGCT-GGCGACACC-CCAGCGGTGAAC-
1 AACCAGGGTACACATGGTCAGTGAACACTACTCACTAGGCTAGG-GACACCACGATCGGTGAACA
765351 ATAACTCACTGGG
65 AT-ACTCACTGGG
765364 AACGCCTGAT
Statistics
Matches: 798, Mismatches: 70, Indels: 55
0.86 0.08 0.06
Matches are distributed among these distances:
400 39 0.05
401 73 0.09
402 38 0.05
403 197 0.25
404 4 0.01
406 1 0.00
408 2 0.00
409 2 0.00
410 1 0.00
413 1 0.00
414 1 0.00
415 3 0.00
416 404 0.51
417 7 0.01
419 3 0.00
420 22 0.03
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (411 bp):
AACCAGGGTACACATGGTCAGTGAACACTACTCACTAGGCTAGGGACACCACGATCGGTGAACAA
TACTCACTGGGCTAGGGACTGTCTACATAGCTCCCGAGGCCTTCCGATTTAGCAAGCTCTTCGGA
AGGTTTCGGGGACCAGGGTATACATGGTCGGTGAACACTACTCACTAGGCTGGGACACCACGATT
GGTGAACACTACTCACTGGGCTATGGAGCCTGATCTACCATAGCTCCCGAGGCCTTCCGATTGAG
CAAGCTCTTCGGAAGGTTTCGGGGACCAGGGTGTACTTGGTCGGTGAACACTACTCACTAGGCAA
GGGACACTCGATCGGTGAACACTACTCACTGGGCTACGATAGCTCGCGAGGCCTTCCGAGTAGGC
AAGCTTTCGGAAAGCTTCGGG
Found at i:767787 original size:2 final size:2
Alignment explanation
Indices: 767780--767817 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
767770 TTCAACGGTA
*
767780 AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
767818 GGGGGGGGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:771908 original size:185 final size:183
Alignment explanation
Indices: 771596--771948 Score: 634
Period size: 185 Copynumber: 1.9 Consensus size: 183
771586 GTATATATGC
771596 TTTTTTAAAATGGGGAATATACAATCATGTTAAGCTTTTGAATCAATTTATTTTAACAGAGGTTG
1 TTTTTTAAAATGGGGAATATACAATCATGTTAAGCTTTTGAATCAATTTATTTTAACAGAGGTTG
* * *
771661 GAATTCTATATTACATGTAATAATATCATTGTAAATTTTTTGATGTATACATTTTTTGGTTTGAT
66 AAATTCTATATTACATGTAATAATATCATTGTAAATGTTTTGATGTATACATATTTTGGTTTGAT
771726 TTAAAGGGCAATATAAGCTGCAATTTTCATATTGAAGATTACTATTAAATGTGCT
131 TT--AGGGCAATATAAGCTGCAATTTTCATATTGAAGATTACTATTAAATGTGCT
*
771781 TTTTTTAAAATGGGGAATATACAATCATGTTAATCTTTTGAATCAATTTATTTTAACAGAGGTTG
1 TTTTTTAAAATGGGGAATATACAATCATGTTAAGCTTTTGAATCAATTTATTTTAACAGAGGTTG
771846 AAATTCTATATTACATGTAATAATATCATTGTAAATGTTTTGATGTATACATATTTTGGTTTGAT
66 AAATTCTATATTACATGTAATAATATCATTGTAAATGTTTTGATGTATACATATTTTGGTTTGAT
* *
771911 TTAGGGCAATATGAGCTGCAATTTTGATATTGAAGATT
131 TTAGGGCAATATAAGCTGCAATTTTCATATTGAAGATT
771949 CCAAATGTTA
Statistics
Matches: 162, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
183 34 0.21
185 128 0.79
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (183 bp):
TTTTTTAAAATGGGGAATATACAATCATGTTAAGCTTTTGAATCAATTTATTTTAACAGAGGTTG
AAATTCTATATTACATGTAATAATATCATTGTAAATGTTTTGATGTATACATATTTTGGTTTGAT
TTAGGGCAATATAAGCTGCAATTTTCATATTGAAGATTACTATTAAATGTGCT
Found at i:774437 original size:170 final size:164
Alignment explanation
Indices: 774242--774705 Score: 564
Period size: 170 Copynumber: 2.8 Consensus size: 164
774232 GCCAAATGAT
774242 GCCCCACCCTACCCCTC-AGGGTCATGATTTTCATAACTTTGAATCTTCACTACCTGAGGATGCT
1 GCCCCACCCTACCCC-CGAGGGTCATGATTTTCA-AACTTTGAATCTTCACTACCTGAGGATGCT
* * *
774306 TCTACACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTAAG-GAGAATATTTTTAAAAATTTACT
64 TCTACACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAG-GAAGATTTTTAAAGATTTACT
*
774370 CAATATATTCATATGCCAAAAAAAAATGCAACCCCCATTGTG
128 CAATATATTC---T--CAAAAAAAAATGCAACCCCCATAGTG
* *
774412 GCCCCACCCTACCCCCGAGGGTCATGATTTTCACAACTTTGAATTTTCACTACCTGAGAATGCTT
1 GCCCCACCCTACCCCCGAGGGTCATGATTTTCA-AACTTTGAATCTTCACTACCTGAGGATGCTT
* * * * *
774477 CCACACAAGTTTCAGCTTTTCTTGCTTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTTACTCT
65 CTACACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTTACTCA
*** * **
774542 ATATATTCTCATTTAAAAATTCAATTCCCATAGTG
130 ATATATTCTCAAAAAAAAATGCAACCCCCATAGTG
* * *
774577 GCTCCATCCTACCCTCG-GGAGTCATGAATTTTACAAA-TTTGAATCTAT-ACTACCTG-GGAAT
1 GCCCCACCCTACCCCCGAGG-GTCATG-ATTTT-CAAACTTTGAATCT-TCACTACCTGAGG-AT
774638 GCTTCCT-CACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTT
61 GCTT-CTACACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTT
774702 ACTC
125 ACTC
774706 TATACATTTC
Statistics
Matches: 259, Mismatches: 27, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
164 3 0.01
165 119 0.46
166 9 0.03
167 3 0.01
169 1 0.00
170 123 0.47
171 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (164 bp):
GCCCCACCCTACCCCCGAGGGTCATGATTTTCAAACTTTGAATCTTCACTACCTGAGGATGCTTC
TACACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTTACTCAA
TATATTCTCAAAAAAAAATGCAACCCCCATAGTG
Found at i:774658 original size:165 final size:165
Alignment explanation
Indices: 774242--774709 Score: 563
Period size: 165 Copynumber: 2.8 Consensus size: 165
774232 GCCAAATGAT
*
774242 GCCCCACCCTACCCCTCAGGGTCATGATTTT-CATAACTTTGAATCTTCACTACCTGAGG-ATGC
1 GCCCCACCCTA-CCCTCGGGGTCATGATTTTACA-AA-TTTGAATCTTCACTACCTG-GGAATGC
* * *
774305 TT-CTACACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTAAG-GAGAATATTTTTAAAAATTTA
62 TTCCT-CACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAG-GAAGATTTTTAAAGATTTA
* *
774368 CTCAATATATTCATATGCCAAAAAAAAATGCAACCCCCATTGTG
125 CTCTATATATTC--AT-CCAAAAAAAAATGCAACCCCCATAGTG
* * * *
774412 GCCCCACCCTACCCCCGAGGGTCATGATTTTCACAACTTTGAATTTTCACTACCTGAGAATGCTT
1 GCCCCACCCTACCCTCG-GGGTCATGATTTT-ACAAATTTGAATCTTCACTACCTGGGAATGCTT
* * * *
774477 CCACACAAGTTTCAGCTTTTCTTGCTTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTTACTCT
64 CCTCACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTTACTCT
*** * **
774542 ATATATTC-T-CATTTAAAAATTCAATTCCCATAGTG
129 ATATATTCATCCAAAAAAAAATGCAACCCCCATAGTG
* *
774577 GCTCCATCCTACCCTCGGGAGTCATGAATTTTACAAATTTGAATCTAT-ACTACCTGGGAATGCT
1 GCCCCACCCTACCCTCGGG-GTCATG-ATTTTACAAATTTGAATCT-TCACTACCTGGGAATGCT
774641 TCCTCACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTTACTC
63 TCCTCACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTTACTC
774706 TATA
128 TATA
774710 CATTTCTATA
Statistics
Matches: 259, Mismatches: 30, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
164 2 0.01
165 131 0.51
166 6 0.02
167 1 0.00
169 5 0.02
170 109 0.42
171 3 0.01
172 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (165 bp):
GCCCCACCCTACCCTCGGGGTCATGATTTTACAAATTTGAATCTTCACTACCTGGGAATGCTTCC
TCACAAGTTTCAGCTTTCCTGGCCTAATGGTTTCTGAGAGGAAGATTTTTAAAGATTTACTCTAT
ATATTCATCCAAAAAAAAATGCAACCCCCATAGTG
Found at i:777197 original size:437 final size:437
Alignment explanation
Indices: 776383--777564 Score: 2087
Period size: 437 Copynumber: 2.7 Consensus size: 437
776373 AATAAATGTG
* *
776383 AAAGATGAACATTTTTGCTTCCTAAACATATAACAAAACATTTTTCAGTAAAGTGCTATGGAAGA
1 AAAGATGAACATTTTTGCTTCTTAAACATATAACAAAACATTTCTCAGTAAAGTGCTATGGAAGA
*
776448 CAGACTTTAGAGCCCTTTTGGTCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGA
66 CAGACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGA
776513 AAGTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCCGTTTTTGAG
131 AAGTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCCGTTTTTGAG
* *
776578 CTATCTGGGATATGACGTTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAAATAACGAAAA
196 CTATCTGGGATATGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAA
*
776643 TTTTATGATTGAATATTGTTTAAAACATCATTCTAAACATCTTTTATTCTATATTGCTTTTCAAA
261 TTTTATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTGCTTTTCAAA
*
776708 ATATTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTTTGGCCCCTTAAAACCCCTAA
326 ATATTTGTCCTTTTTGAGATATATTCGATCGAAATTTTGGACTTTTGGCCCCTTAAAACCCCTAA
776773 TTACGTAACGCATAACAAAGA-ATTTATAATGTATAGTTTAATTAGTA
391 TTACGTAACGCATAACAAA-ATATTTATAATGTATAGTTTAATTAGTA
* * * * *
776820 AAAGATGAACATGTTTGTTTCTTAAACAAATGACAAAATATTTCTCAGTAAAGTGCTATGGAAGA
1 AAAGATGAACATTTTTGCTTCTTAAACATATAACAAAACATTTCTCAGTAAAGTGCTATGGAAGA
*
776885 CAGACTTTAGAGCCCTTATGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGA
66 CAGACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGA
776950 AAGTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCCGTTTTTGAG
131 AAGTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCCGTTTTTGAG
* * *
777015 CTATCTGGGATATGATATTTAAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAC
196 CTATCTGGGATATGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAA
*
777080 TTTTATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTGCTTTTTAAA
261 TTTTATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTGCTTTTCAAA
777145 ATATTTGTCCTTTTTGAGATATATTCGATCGAAATTTTGGACTTTTGGCCCCTTAAAACCCCTAA
326 ATATTTGTCCTTTTTGAGATATATTCGATCGAAATTTTGGACTTTTGGCCCCTTAAAACCCCTAA
* * * *
777210 TTACGTAACGCATAATAAAATTTTTATAATGTATAGTTTTATTAGTG
391 TTACGTAACGCATAACAAAATATTTATAATGTATAGTTTAATTAGTA
* *
777257 AAAGATGAACATTTTTGCTTCTTAAACATATCACAAAACATTTCTCAGTAAAGTGCTATAGAAGA
1 AAAGATGAACATTTTTGCTTCTTAAACATATAACAAAACATTTCTCAGTAAAGTGCTATGGAAGA
*
777322 AAGACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGA
66 CAGACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGA
**
777387 AAGTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCCGTTTAAGAG
131 AAGTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCCGTTTTTGAG
* * *
777452 CTATCTTGGAAAGGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAA
196 CTATCTGGGATATGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAA
777517 TTTTATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATT
261 TTTTATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATT
777565 AGGGTCTTCC
Statistics
Matches: 707, Mismatches: 37, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
436 1 0.00
437 706 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (437 bp):
AAAGATGAACATTTTTGCTTCTTAAACATATAACAAAACATTTCTCAGTAAAGTGCTATGGAAGA
CAGACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGA
AAGTTCTTTTGATATTAAACATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGCCGTTTTTGAG
CTATCTGGGATATGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACGAAAA
TTTTATGATTGAATATTGTTTAAAACATCATTCTAAGCATCTTTTATTCTATATTGCTTTTCAAA
ATATTTGTCCTTTTTGAGATATATTCGATCGAAATTTTGGACTTTTGGCCCCTTAAAACCCCTAA
TTACGTAACGCATAACAAAATATTTATAATGTATAGTTTAATTAGTA
Found at i:777627 original size:53 final size:53
Alignment explanation
Indices: 777567--777713 Score: 170
Period size: 53 Copynumber: 2.6 Consensus size: 53
777557 CTTTTATTAG
* *
777567 GGTCTTCCGTTTTCAACGGAAGACCCTCTTGTTATTC-TTCGGTTTCTTTTTAA
1 GGTCTTCCGTTTCCAACGGAAGACCCTATTGTT-TTCGTTCGGTTTCTTTTTAA
*
777620 GGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTTCGGTTTCTTTTTCCCTATTTAA
1 GGTCTTCCGTTTCCAACGGAAGACCCTATTGTTTTCGTTCGGTTTC----T---T-TTTAA
*
777681 GGTCTTCCGTTTCCAACGGAAGACCTTATTGTT
1 GGTCTTCCGTTTCCAACGGAAGACCCTATTGTT
777714 ATTGCTTTGT
Statistics
Matches: 82, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
52 3 0.04
53 39 0.48
57 1 0.01
60 1 0.01
61 38 0.46
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.44
Consensus pattern (53 bp):
GGTCTTCCGTTTCCAACGGAAGACCCTATTGTTTTCGTTCGGTTTCTTTTTAA
Found at i:777710 original size:61 final size:61
Alignment explanation
Indices: 777615--777738 Score: 207
Period size: 61 Copynumber: 2.0 Consensus size: 61
777605 TCGGTTTCTT
777615 TTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTT-TT-CGTTCGGTTTCTTTTTCCCTA
1 TTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGC-TT-GGTTTCTTTTTCCCTA
*
777676 TTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTTGTTTCTTTTTCCCTA
1 TTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTGGTTTCTTTTTCCCTA
777737 TT
1 TT
777739 ATTATTCTTG
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
61 55 0.92
62 4 0.07
63 1 0.02
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (61 bp):
TTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTGCTTGGTTTCTTTTTCCCTA
Found at i:778986 original size:437 final size:436
Alignment explanation
Indices: 778171--779560 Score: 1928
Period size: 437 Copynumber: 3.2 Consensus size: 436
778161 ATATTTACAA
* *
778171 GACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCGAAGTAGGGGACCAAAGGGCTCTAA
1 GACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAATTAGGGGACCAAAGGGCTCTAA
*
778236 AGTCTTTCATCTCTAGCCCTTTCCTGAGGGATATTTTGTGAACAGTTATAGAAGCAAATATGTTT
66 AGTCTTTCATCTGTAGCCCTTTCCTGAGGGATATTTTGTGAACAGTTATAGAAGCAAATATGTTT
778301 ATCTTACAGTTATGTATCCAAGCAATGTAATGATTTTATCATGTGTTACGTAATTAGGGGTTTTT
131 ATCTTACAGTTATGTATCCAAGCAATGTAATGATTTTATCATGTGTTACGTAATTAGGGGTTTTT
*
778366 AGGGGCCAAAAGTCCAGAATTTTGATCACATTTATCTCCGAAAGGAAAAATATTTTGAAATGCAG
196 AGGGGCCAAAAGTCCAGAATTTTGATCACATTTATCTCCGAAAGAAAAAATATTTTGAAATGCAG
* *
778431 TATAGAAGAAAAGATGCTCAGAATGAGGTATTAAATCATATGCAATTTTCAAATTTTTGTTTAAC
261 TATAGAAGAAAAGATGCTCAGAATGATGTATTAAATCATATGCAATTTTCAAA-ATTTGTTTAAC
* *
778496 GGCCCCTATAAGGAGTCAAGGGATCGGCCCCTAAAATGTTCTTTCCTATATATCTCAAGAACGGT
325 GGCCCCTATAAGGAGTTAAGGGATCGGCCCCTAAAATGTTCTTTCCCATATATCTCAAGAACGGT
* * * *
778561 AACGAATTTCTAAACAGTTGTTGAACAAAATGGGTTTGGAGTTAAAT
390 AACGAATTTCTAAACACTTGTTGAACAAAATGTGTTTAGAATTAAAT
* * *
778608 GACCTTTAATTTGATAACAAGAAAAACGGGCTGGCCCCTCAAATTAGGGGACCAAAGGGCTCTAA
1 GACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAATTAGGGGACCAAAGGGCTCTAA
* * *
778673 AGTCTTTCATCTGTAACCCTTTCCTGAGGGATATTTTGAGAACAGTTATAGAAGCAAATATGTTG
66 AGTCTTTCATCTGTAGCCCTTTCCTGAGGGATATTTTGTGAACAGTTATAGAAGCAAATATGTTT
* *
778738 ATTTTACAGTTATGTATCCAAGCAATGTAATGATTTTATCATGTGTTACGTAATTAAGGGTTTTT
131 ATCTTACAGTTATGTATCCAAGCAATGTAATGATTTTATCATGTGTTACGTAATTAGGGGTTTTT
*
778803 AGGGGCCAAAATTCCAGAATTTTGATCACATTTATCTCCGAAAGAAAAAATATTTTGAAATGCAG
196 AGGGGCCAAAAGTCCAGAATTTTGATCACATTTATCTCCGAAAGAAAAAATATTTTGAAATGCAG
*
778868 TATAGAAGAAAAAATGCTCAGAATGATGTATTAAATCATATGCAATTTTCAAAATTTCGTTTAAC
261 TATAGAAGAAAAGATGCTCAGAATGATGTATTAAATCATATGCAATTTTCAAAATTT-GTTTAAC
* *
778933 GGCCCCTATAAGGAGTTAAGGGATCGGCCCCTAAAATGTCCTTTCCCATATATCTCTAGAACGGT
325 GGCCCCTATAAGGAGTTAAGGGATCGGCCCCTAAAATGTTCTTTCCCATATATCTCAAGAACGGT
* *
778998 GACGAATTTCTAAACACTTGTTGAACAAAATTTGTTTAGAATTAAAT
390 AACGAATTTCTAAACACTTGTTGAACAAAATGTGTTTAGAATTAAAT
* * * * * **
779045 GGCCTTTCATTTAATATCAAGAAAAAGGGGCTGGTCCCTAAAATAAGGGGGTCAAAGGGCTCTAA
1 GACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAATTAGGGGACCAAAGGGCTCTAA
* * * *
779110 AGTCTTTAATCTGTAGCCCTTTACTGAGAGATATTTTGTGAA-ATGTTATAGAAGCAAATGTGTT
66 AGTCTTTCATCTGTAGCCCTTTCCTGAGGGATATTTTGTGAACA-GTTATAGAAGCAAATATGTT
* * *
779174 TATCTTATAGTTATGTATTCAAGCAATGTAATGATTTTATCATGTGTT-TGTAATTAGGGGTTTT
130 TATCTTACAGTTATGTATCCAAGCAATGTAATGATTTTATCATGTGTTACGTAATTAGGGGTTTT
* * * *
779238 TAGGGGCCAAAAGTCTAAAATGTTGATTTCCCA--TATCTCCG-AA-AAAAAA-A--TTGAAATG
195 TAGGGGCCAAAAGTCCAGAATTTTGA--TCACATTTATCTCCGAAAGAAAAAATATTTTGAAATG
* * * * * * * * *
779296 CAGTACAGAACAAAAGTTGTTTAAAATGATGT-TCTTAA-CAATATGCAACCTTT-AAACGTTTG
258 CAGTATAGAAGAAAAGATGCTCAGAATGATGTAT-TAAATC-ATATGCAA-TTTTCAAA-ATTTG
* * * * * ** * *
779358 ATAAACGGCCCCT-TAAAGGGGATAAGAGATCGGCCCCTAAAACCTTCTTTCTC--ATATCTCCA
319 TTTAACGGCCCCTAT-AAGGAGTTAAGGGATCGGCCCCTAAAATGTTCTTTCCCATATATCTCAA
* * * * *
779420 GAACGGTAACGAATTTCAAAACATTTGTTGAATAAAATGTGTTCAGATTTAAAT
383 GAACGGTAACGAATTTCTAAACACTTGTTGAACAAAATGTGTTTAGAATTAAAT
** *
779474 GACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTTGAATTAGGGGATCAAAGGGCTCTAA
1 GACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAATTAGGGGACCAAAGGGCTCTAA
* * *
779539 AATCTTTTATCTATAGCCCTTT
66 AGTCTTTCATCTGTAGCCCTTT
779561 AATGAGAGCC
Statistics
Matches: 854, Mismatches: 90, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
429 132 0.15
430 3 0.00
431 90 0.11
432 6 0.01
433 1 0.00
434 6 0.01
435 2 0.00
436 48 0.06
437 562 0.66
438 4 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (436 bp):
GACCTTTCATTTGATATCAAGAAAAAGGGGCTGGCCCCTCAAATTAGGGGACCAAAGGGCTCTAA
AGTCTTTCATCTGTAGCCCTTTCCTGAGGGATATTTTGTGAACAGTTATAGAAGCAAATATGTTT
ATCTTACAGTTATGTATCCAAGCAATGTAATGATTTTATCATGTGTTACGTAATTAGGGGTTTTT
AGGGGCCAAAAGTCCAGAATTTTGATCACATTTATCTCCGAAAGAAAAAATATTTTGAAATGCAG
TATAGAAGAAAAGATGCTCAGAATGATGTATTAAATCATATGCAATTTTCAAAATTTGTTTAACG
GCCCCTATAAGGAGTTAAGGGATCGGCCCCTAAAATGTTCTTTCCCATATATCTCAAGAACGGTA
ACGAATTTCTAAACACTTGTTGAACAAAATGTGTTTAGAATTAAAT
Found at i:781152 original size:437 final size:435
Alignment explanation
Indices: 780394--781592 Score: 1855
Period size: 437 Copynumber: 2.7 Consensus size: 435
780384 TTTATAATGT
* * *
780394 CAAGAGCTTTCATTTGAAATTATAAAAAAGGGGCTGGCCCTTCAAAGAAGGGGCTGAGGGGGCTC
1 CAAGAGCTTTCATTTGAAATCA-AGAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTC
* * * *
780459 TAAAGTATTTTAATGATTACTTTTTACTGTGAAATATTTTGTTATACGTTATAGAAGCAATTATG
65 TAAAGTCTTTTCATGATAAC-TTTTACTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATG
* * * * *
780524 TTCATTTTAACGTAATTCACCTACACATGGCAATTATTTACTCCTATGTTACGTAATTAGGGGTT
129 TTCATTCTAACGTTATTCACCTATACATGGCAATCATTTACTCCTATGTTACGTAATTAGGGATT
**
780589 TTAAGGGGCCAGAAGTCCAAAACTTTGATCCTCAATATCTCAAAATGGAGGAAAATTTTGATGAG
194 TTAAGGGGCCAGAAGTCCAAAACTTTGATCCTCAATATCTCAAAATGGAGGAAAATTTTGAAAAG
*
780654 CAATATTGAACAAAAGATGCTCAAAATATTGAGCTTAACAATGTACAACCATTTATTCTTTGTTA
259 CAATATTGAACAAAAGATGCTCAAAATATTGAGCTTAACAATGTACAACCATATATTCTTTGTTA
* *
780719 TGCGGTCCTTAAAGGGAGTTACAGAGTCGGCCCCTAAAACGACCCTTTAAAGATATCTCGAGAAC
324 TGCGGTCCTTAAAGGGAGTTACAGAGTCGGCCCCTAAAACAACCCTTTAAAGAGATCTCGAGAAC
*
780784 GGTACAAAATTTGTAA-TTACTTGTTGAACAAAATGTGTTTGAATTGA
389 GGTACAAAATTTGTAAGAT-CTTGTTGAACAAAATGTGTTTGAATTGA
*
780831 CAAGAGCTTTTATTTGAAATCAAGAAAATGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTC
1 CAAGAGCTTTCATTTGAAATCAAGAAAA-GGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTC
*
780896 TAAAGTCTTTTCATGATAACTTTATACTGTGAAATATTTTGTGATACATTATAGAAGCAATTATG
65 TAAAGTCTTTTCATGATAACTTT-TACTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATG
* * * * *
780961 TTCATTCTACCGTTATTCACCTATACATGGCAATCATTTCCTCCTATCTTACGTCATTAAGGATT
129 TTCATTCTAACGTTATTCACCTATACATGGCAATCATTTACTCCTATGTTACGTAATTAGGGATT
* **
781026 TTAAGGGGCCAGAAGTCCAAAACTTTGATGCTGGATATCTCAAAATGGAGGAAAATTTTGAAAAG
194 TTAAGGGGCCAGAAGTCCAAAACTTTGATCCTCAATATCTCAAAATGGAGGAAAATTTTGAAAAG
* *
781091 CAATATTGAACAAAAGATGCTCAAAATATTGAGCTTAACAATCTGCAACCATA-ATTTCTTTGTT
259 CAATATTGAACAAAAGATGCTCAAAATATTGAGCTTAACAATGTACAACCATATA-TTCTTTGTT
781155 ATGCGGTCCTTAAAGGGAGTTACAGAGTCGGCCCCTAAAACAACCCTTTAAAGAGATCTCGAGAA
323 ATGCGGTCCTTAAAGGGAGTTACAGAGTCGGCCCCTAAAACAACCCTTTAAAGAGATCTCGAGAA
781220 CGGTACAAAATTTGTAAGATCTTGTTGAACAAAATGTGTTTGAATTGA
388 CGGTACAAAATTTGTAAGATCTTGTTGAACAAAATGTGTTTGAATTGA
* * *
781268 CAAGAGCTTTCATTTGAAATCAAGAAAAGGGGCTTGCCCTTCAAGTAAGGGGCCGAGGGGGCTCT
1 CAAGAGCTTTCATTTGAAATCAAGAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCT
*
781333 AAAGTCTTTTCATGATAACTTTTCACTGTGAAATATTTTGTGATACGCTATAGAAGCAATTATGT
66 AAAGTCTTTTCATGATAACTTTT-ACTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGT
* * * *
781398 TCATTCTAACGTTATTCACCTATACATGACAATCATTTACTCATATGGTATGTAATTAGGGATTT
130 TCATTCTAACGTTATTCACCTATACATGGCAATCATTTACTCCTATGTTACGTAATTAGGGATTT
* ** * * * * *
781463 TAAGGGGCCAGAAATCCATCACTTTAATCCTCAATATCTCGAAATAGAGGAAAGTTCTGGAAAA-
195 TAAGGGGCCAGAAGTCCAAAACTTTGATCCTCAATATCTCAAAATGGAGGAAAATT-TTGAAAAG
* * * *
781527 CAGTATTGAACAAAAGATGCTCAAAATAATGTGCTTAACAATGTACAACCATATATTGTTTGTTA
259 CAATATTGAACAAAAGATGCTCAAAATATTGAGCTTAACAATGTACAACCATATATTCTTTGTTA
781592 T
324 T
781593 ATGGATCCTA
Statistics
Matches: 693, Mismatches: 62, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
435 1 0.00
436 264 0.38
437 427 0.62
438 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (435 bp):
CAAGAGCTTTCATTTGAAATCAAGAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCT
AAAGTCTTTTCATGATAACTTTTACTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTT
CATTCTAACGTTATTCACCTATACATGGCAATCATTTACTCCTATGTTACGTAATTAGGGATTTT
AAGGGGCCAGAAGTCCAAAACTTTGATCCTCAATATCTCAAAATGGAGGAAAATTTTGAAAAGCA
ATATTGAACAAAAGATGCTCAAAATATTGAGCTTAACAATGTACAACCATATATTCTTTGTTATG
CGGTCCTTAAAGGGAGTTACAGAGTCGGCCCCTAAAACAACCCTTTAAAGAGATCTCGAGAACGG
TACAAAATTTGTAAGATCTTGTTGAACAAAATGTGTTTGAATTGA
Found at i:782948 original size:437 final size:437
Alignment explanation
Indices: 782340--783483 Score: 1695
Period size: 437 Copynumber: 2.6 Consensus size: 437
782330 TTTATGGGAC
* * * *
782340 ATCAAGAAAAAGGGGCTGACTCTTCAAATAAGGGGCTGAGGGGACTCTAAAGACTTTT-TATGAT
1 ATCAAGAAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTAT-TGAT
* * **
782404 AACTTTTTACTGTGAAATATTTTGTGATACGCTATTTAAGCAATTATGTTCATTCTAAGGTTATT
65 AACTTTTTACCGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAAGGTTATT
* * * *
782469 TACATACACATGGCAATTATTTACTCCTTTGTCACGTAATTAGGAATTTTAAGGGGCCAGAAGTC
130 TACCTATACATGGCAATCATTTACTCCTTTGTCACGTAATTAGGGATTTTAAGGGGCCAGAAGTC
* *
782534 CAAAACTTTGATGCTCAATATCTCAAAATGGAGGAAAATTTTGAAAAGCAATATTGAACAAAATA
195 CAAAACTTTGATGCTCAATATCTCAAAATGGAGGAAACTTTTGAAAAGCAATATTGAACAAAAGA
* *
782599 TGCTCAAAATATTGAGCTTAACAAT-ATGCATCCACAATTTCTTTGTTATGCGGTCC-CTAAAAG
260 TGCTCAAAATATTGAGCTTAACAATAAT-CAACCACAATTTCGTTGTTATGCGG-CCTCTAAAAG
782662 GAGTTACAGGGTCGGCCCCTAAAACAACCCTTTCAATATACCTCGAGAACGGTAAAAAATATGTA
323 GAGTTACAGGGTCGGCCCCTAAAACAACCCTTTCAATATACCTCGAGAACGGTAAAAAATATGTA
* *
782727 AGTACTTGTTGAACAAAAAGTGTTTGAGGTGACAAGAGCTTCCATTTGAA
388 AGTACTTGTTGAACAAAAAGTGTTTGAAGTGACAAGAGCTTCCATATGAA
* * *
782777 ATCAAGAAAAAGGGACTGGCCCTTCAAATAAGGGGCTGAGGGGGTTCTTAAGTCTTTTATTGATA
1 ATCAAGAAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTATTGATA
* *
782842 ACTTTTTACCGTGAAATATTTTGT-ATTACATTATAGAAGCAATTATGTTCATTCTAACGTTATT
66 ACTTTTTACCGTGAAATATTTTGTGA-TACGTTATAGAAGCAATTATGTTCATTCTAAGGTTATT
* *
782906 TACCTATACATGACAACCATTTACTCCTTTGTCACGTAATTAGGGATTTTAAGGGGCCAGAAGTC
130 TACCTATACATGGCAATCATTTACTCCTTTGTCACGTAATTAGGGATTTTAAGGGGCCAGAAGTC
* * * * *
782971 CAAAACTTTGATGCTCAATATCGT-AAAATGGAGTAAACTTTTGATAAGCAATATTCAACAGACG
195 CAAAACTTTGATGCTCAATATC-TCAAAATGGAGGAAACTTTTGAAAAGCAATATTGAACAAAAG
* * * **
783035 ATGCTAAAAATATTGAGCTTAACAATAATCAACCATAATTTCGTTGTTATGCGGCCTTTAACGGG
259 ATGCTCAAAATATTGAGCTTAACAATAATCAACCACAATTTCGTTGTTATGCGGCCTCTAAAAGG
* * * * * * *
783100 ATTTACAGGGTCGGCCCCTAAAACGACCCTTTCAATATACCTCGATAATGGTACAACATTTGTAA
324 AGTTACAGGGTCGGCCCCTAAAACAACCCTTTCAATATACCTCGAGAACGGTAAAAAATATGTAA
* *
783165 GTACTTGTTGAACAAAAAGTGTTTGAATTGACAAGAGCTTTCATATGAA
389 GTACTTGTTGAACAAAAAGTGTTTGAAGTGACAAGAGCTTCCATATGAA
* * * *
783214 ACCAAGAAAAAGGGGCTAGCCCTTCAAATAAGGGTCTGAGGGGGCTCTAAAGTCTTTTAATGATA
1 ATCAAGAAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTATTGATA
783279 ACTTTTTACCGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAAGGTTATTT
66 ACTTTTTACCGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAAGGTTATTT
* * * * * *
783344 ACCTTTACATGGCAATCATGTACTCCTTTGTTATGTAATTAGGGGTTTTAAGGGACCAGAAGTCC
131 ACCTATACATGGCAATCATTTACTCCTTTGTCACGTAATTAGGGATTTTAAGGGGCCAGAAGTCC
* * *
783409 AAGACTTTGATGCTTAATATCTCAAAATGGAGGAAACTTTTGAAAAGCAACATTGAACAAAAGAT
196 AAAACTTTGATGCTCAATATCTCAAAATGGAGGAAACTTTTGAAAAGCAATATTGAACAAAAGAT
783474 GCTCAAAATA
261 GCTCAAAATA
783484 ATGTGCGACC
Statistics
Matches: 630, Mismatches: 70, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
436 4 0.01
437 621 0.99
438 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (437 bp):
ATCAAGAAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTATTGATA
ACTTTTTACCGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAAGGTTATTT
ACCTATACATGGCAATCATTTACTCCTTTGTCACGTAATTAGGGATTTTAAGGGGCCAGAAGTCC
AAAACTTTGATGCTCAATATCTCAAAATGGAGGAAACTTTTGAAAAGCAATATTGAACAAAAGAT
GCTCAAAATATTGAGCTTAACAATAATCAACCACAATTTCGTTGTTATGCGGCCTCTAAAAGGAG
TTACAGGGTCGGCCCCTAAAACAACCCTTTCAATATACCTCGAGAACGGTAAAAAATATGTAAGT
ACTTGTTGAACAAAAAGTGTTTGAAGTGACAAGAGCTTCCATATGAA
Found at i:785197 original size:146 final size:146
Alignment explanation
Indices: 784931--785502 Score: 821
Period size: 146 Copynumber: 3.9 Consensus size: 146
784921 TTGGTATGTT
*
784931 TTCAAAATTCGTGTCCGGTTCATATCTTTTTAATGGAGAAACATTGGAAGTTCTTACTTCACACA
1 TTCAAAATTCGTGTCCGGTCCATATCTTTTTAATGGAGAAACATTGGAAGTTCTTACTTCACACA
* * * *
784996 AATATTGCTTATGACCTAAGGGTGCGTCATGACCTTGACCAAAGGTCATTCGGGCAAGGTCAAGG
66 AAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGG
*
785061 TCAGTGGCAGAAAAAG
131 TCACTGGCAGAAAAAG
785077 TTCAAAATTCGTGTCCGGTCCATATCTTTTTAATGGAGAAACATTGGAAGTTCTTACTTCACACA
1 TTCAAAATTCGTGTCCGGTCCATATCTTTTTAATGGAGAAACATTGGAAGTTCTTACTTCACACA
* * *
785142 AAGATTGCTTATGACGTTAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAAGTCAAGG
66 AAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGG
*
785207 TCACTGGCAGAAAAAAA
131 TCACTGGCAG-AAAAAG
* *
785224 ATCAAAATTTGTGTCCGGTCCATATCTTTCTT-ATGGAGAAACATTGGAAGTTCTTACTTCACAC
1 TTCAAAATTCGTGTCCGGTCCATATCTTT-TTAATGGAGAAACATTGGAAGTTCTTACTTCACAC
* *
785288 AAAGATTGCTTATGACCTAAGAGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGCCAAG
65 AAAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAG
*
785353 GTCACTGGCAGTAAAAG
130 GTCACTGGCAGAAAAAG
* * * * * * * *
785370 TACAAAATTCATGTCCTGTCCATACCTTTTTAATGGACACATATTGGAAGTTCTTAATTCACATC
1 TTCAAAATTCGTGTCCGGTCCATATCTTTTTAATGGAGAAACATTGGAAGTTCTTACTTCACA-C
* * *
785435 -AAGATTGCTTAT-AGTCTGAA-GGTGTGTCATGACCTTGACCCAAGGTCAATTGAGG-AAGATC
65 AAAGATTGCTTATGA-CCT-AAGGGTGTGTCATGACCTTGACCCAAGGTCATTTG-GGCAAGGTC
785496 AAGGTCA
127 AAGGTCA
785503 TTGTTTTTAA
Statistics
Matches: 385, Mismatches: 34, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
145 3 0.01
146 240 0.62
147 140 0.36
148 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (146 bp):
TTCAAAATTCGTGTCCGGTCCATATCTTTTTAATGGAGAAACATTGGAAGTTCTTACTTCACACA
AAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGG
TCACTGGCAGAAAAAG
Found at i:785461 original size:293 final size:293
Alignment explanation
Indices: 784932--785482 Score: 867
Period size: 293 Copynumber: 1.9 Consensus size: 293
784922 TGGTATGTTT
*
784932 TCAAAATTCGTGTCCGGTTCATATCTTTTTAATGGAGAAACATTGGAAGTTCTTACTTCACACAA
1 TCAAAATTCGTGTCCGGTCCATATCTTTTTAATGGAGAAACATTGGAAGTTCTTACTTCACACAA
* * *
784997 ATATTGCTTATGACCTAAGGGTGCGTCATGACCTTGACCAAAGGTCATTCGGGCAAGGTCAAGGT
66 AGATTGCTTATGACCTAAGAGTGCGTCATGACCTTGACCAAAGGTCATTCGGGCAAGGCCAAGGT
* * * * *
785062 CAGTGGCAGAAAAAGTTCAAAATTCGTGTCCGGTCCATATCTTTTTAATGGAGAAACATTGGAAG
131 CACTGGCAGAAAAAGTACAAAATTCATGTCCGGTCCATACCTTTTTAATGGACAAACATTGGAAG
* *
785127 TTCTTACTTCACACAAAGATTGCTTATGACGTTAGGGTGTGTCATGACCTTGACCCAAGGTCATT
196 TTCTTAATTCACACAAAGATTGCTTATGACGTTAAGGTGTGTCATGACCTTGACCCAAGGTCATT
785192 TGGGCAAAGTCAAGGTCACTGGCAGAAAAAAAA
261 TGGGCAAAGTCAAGGTCACTGGCAGAAAAAAAA
*
785225 TCAAAATTTGTGTCCGGTCCATATCTTTCTT-ATGGAGAAACATTGGAAGTTCTTACTTCACACA
1 TCAAAATTCGTGTCCGGTCCATATCTTT-TTAATGGAGAAACATTGGAAGTTCTTACTTCACACA
* * *
785289 AAGATTGCTTATGACCTAAGAGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGCCAAGG
65 AAGATTGCTTATGACCTAAGAGTGCGTCATGACCTTGACCAAAGGTCATTCGGGCAAGGCCAAGG
* * * *
785354 TCACTGGCAGTAAAAGTACAAAATTCATGTCCTGTCCATACCTTTTTAATGGACACATATTGGAA
130 TCACTGGCAGAAAAAGTACAAAATTCATGTCCGGTCCATACCTTTTTAATGGACAAACATTGGAA
785419 GTTCTTAATTCACATC-AAGATTGCTTAT-A-GTCTGAAGGTGTGTCATGACCTTGACCCAAGGT
195 GTTCTTAATTCACA-CAAAGATTGCTTATGACGT-T-AAGGTGTGTCATGACCTTGACCCAAGGT
785481 CA
257 CA
785483 ATTGAGGAAG
Statistics
Matches: 235, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
291 2 0.01
292 2 0.01
293 228 0.97
294 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (293 bp):
TCAAAATTCGTGTCCGGTCCATATCTTTTTAATGGAGAAACATTGGAAGTTCTTACTTCACACAA
AGATTGCTTATGACCTAAGAGTGCGTCATGACCTTGACCAAAGGTCATTCGGGCAAGGCCAAGGT
CACTGGCAGAAAAAGTACAAAATTCATGTCCGGTCCATACCTTTTTAATGGACAAACATTGGAAG
TTCTTAATTCACACAAAGATTGCTTATGACGTTAAGGTGTGTCATGACCTTGACCCAAGGTCATT
TGGGCAAAGTCAAGGTCACTGGCAGAAAAAAAA
Found at i:786730 original size:12 final size:13
Alignment explanation
Indices: 786713--786741 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
786703 CATTCATGCC
786713 CTGCTGACATC-T
1 CTGCTGACATCTT
786725 CTGCTGACATCTT
1 CTGCTGACATCTT
786738 CTGC
1 CTGC
786742 CTTAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.34
Consensus pattern (13 bp):
CTGCTGACATCTT
Found at i:786899 original size:21 final size:21
Alignment explanation
Indices: 786874--786935 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
786864 GTACATCGGA
786874 ATCCTCGCCAGAGAAATCCTT
1 ATCCTCGCCAGAGAAATCCTT
786895 ATCCTCGCCAGAGAAATCCTT
1 ATCCTCGCCAGAGAAATCCTT
* *
786916 ATCCTTGTCAGAGAAATCCT
1 ATCCTCGCCAGAGAAATCCT
786936 CGCCAGAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.26
Consensus pattern (21 bp):
ATCCTCGCCAGAGAAATCCTT
Found at i:786990 original size:19 final size:15
Alignment explanation
Indices: 786924--786978 Score: 101
Period size: 15 Copynumber: 3.7 Consensus size: 15
786914 TTATCCTTGT
*
786924 CAGAGAAATCCTCGC
1 CAGAGAAATCCTCTC
786939 CAGAGAAATCCTCTC
1 CAGAGAAATCCTCTC
786954 CAGAGAAATCCTCTC
1 CAGAGAAATCCTCTC
786969 CAGAGAAATC
1 CAGAGAAATC
786979 GACTGACTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.36, C:0.31, G:0.16, T:0.16
Consensus pattern (15 bp):
CAGAGAAATCCTCTC
Found at i:789983 original size:75 final size:75
Alignment explanation
Indices: 789860--790008 Score: 289
Period size: 75 Copynumber: 2.0 Consensus size: 75
789850 ATACTATTTG
789860 GTGAATTTATCCTTTAATATCTTACATGTAAAACCAATACTTTGTAGTACGAATGTGTTTTTGTG
1 GTGAATTTATCCTTTAATATCTTACATGTAAAACCAATACTTTGTAGTACGAATGTGTTTTTGTG
789925 AATGTGTAAT
66 AATGTGTAAT
*
789935 GTGAATTTATCCTTTAATATCTTGCATGTAAAACCAATACTTTGTAGTACGAATGTGTTTTTGTG
1 GTGAATTTATCCTTTAATATCTTACATGTAAAACCAATACTTTGTAGTACGAATGTGTTTTTGTG
790000 AATGTGTAA
66 AATGTGTAA
790009 GTAAACATTT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (75 bp):
GTGAATTTATCCTTTAATATCTTACATGTAAAACCAATACTTTGTAGTACGAATGTGTTTTTGTG
AATGTGTAAT
Found at i:801483 original size:39 final size:40
Alignment explanation
Indices: 801421--801553 Score: 142
Period size: 39 Copynumber: 3.1 Consensus size: 40
801411 GCCATTACAC
801421 ACCTATTTGTAAAGCAGTAATCCTGTTCCTCCAGTCAAGG
1 ACCTATTTGTAAAGCAGTAATCCTGTTCCTCCAGTCAAGG
*
801461 ACCTATTTGT-AAGCAGTTATCCTGTTCCTCCAGTCAAGCAG
1 ACCTATTTGTAAAGCAGTAATCCTGTTCCTCCAGTCAAG--G
* *
801502 TATTCCTGTTCCTCCAGTCAAGCAGTAATCCTGTTCCTCCAGTCAAGG
1 -A--CCTATT--T---GTAAAGCAGTAATCCTGTTCCTCCAGTCAAGG
801550 ACCT
1 ACCT
801554 TGTGGTCATA
Statistics
Matches: 79, Mismatches: 3, Indels: 17
0.80 0.03 0.17
Matches are distributed among these distances:
39 27 0.34
40 10 0.13
41 1 0.01
42 1 0.01
44 5 0.06
45 3 0.04
46 1 0.01
47 1 0.01
48 1 0.01
49 2 0.03
50 27 0.34
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (40 bp):
ACCTATTTGTAAAGCAGTAATCCTGTTCCTCCAGTCAAGG
Found at i:801508 original size:25 final size:25
Alignment explanation
Indices: 801471--801548 Score: 131
Period size: 25 Copynumber: 3.1 Consensus size: 25
801461 ACCTATTTGT
801471 AAGCAGT-TATCCTGTTCCTCCAGTC
1 AAGCAGTAT-TCCTGTTCCTCCAGTC
801496 AAGCAGTATTCCTGTTCCTCCAGTC
1 AAGCAGTATTCCTGTTCCTCCAGTC
*
801521 AAGCAGTAATCCTGTTCCTCCAGTC
1 AAGCAGTATTCCTGTTCCTCCAGTC
801546 AAG
1 AAG
801549 GACCTTGTGG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 50 0.98
26 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (25 bp):
AAGCAGTATTCCTGTTCCTCCAGTC
Found at i:806464 original size:38 final size:37
Alignment explanation
Indices: 806362--806467 Score: 96
Period size: 38 Copynumber: 2.9 Consensus size: 37
806352 TGGGCATTAA
* *
806362 ATTACCATTACCATTACTTGATTTTTCTTGAAGTAATGC
1 ATTACCATTACCATTACTT--TTTTTATTAAAGTAATGC
* * *
806401 ATTA-CATTACCATTAC----ATGAGTAAAGTAATGC
1 ATTACCATTACCATTACTTTTTTTATTAAAGTAATGC
*
806433 ATTACCATTACCATTACTTTTTTTTTTTAAAGTAA
1 ATTACCATTACCATTAC-TTTTTTTATTAAAGTAA
806468 AGCTAATAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
32 15 0.29
33 12 0.23
38 21 0.40
39 4 0.08
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.42
Consensus pattern (37 bp):
ATTACCATTACCATTACTTTTTTTATTAAAGTAATGC
Found at i:812062 original size:172 final size:172
Alignment explanation
Indices: 811776--812443 Score: 1095
Period size: 172 Copynumber: 3.9 Consensus size: 172
811766 TGTTGGATGA
*
811776 GACTTTGACCACAATAATGACTCTGTTTTATCCAAAAATTGACCTTGTAAGCGCTCTCATGCCTA
1 GACTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACCTTGTAAGCGCTCTCATGCCTA
* *
811841 CAAATTTTGACGGATTTTCATTAAATTTATACAAAATGTTTATACCACTATTACCTTGGTCAAGT
66 CAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATACCACTAATACCTTGGTCAAGT
* *
811906 TTGAAAATCAGCGTTGGTCGATCCTTTTTGTTGGAGTTATGG
131 TCGAAAATCAGCATTGGTCGATCCTTTTTGTTGGAGTTATGG
*
811948 GACTTTGACCACAATAAAGACTCCGTTTTATCCAAAAATTGACCTTGTAAGCGCTCTCATGCCTA
1 GACTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACCTTGTAAGCGCTCTCATGCCTA
* *
812013 CAAATTTTGTCGGATTTTCATTAAATTTATACCAAATGTTTATACCACTAATACTTTGGTCAAGT
66 CAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATACCACTAATACCTTGGTCAAGT
* *
812078 TCGAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATCG
131 TCGAAAATCAGCATTGGTCGATCCTTTTTGTTGGAGTTATGG
*
812120 GACTTTGACCACAATAATGACTCCGTTTTATCCAAAAAATGACCTTGTAAGCGCTCTCATGCCTA
1 GACTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACCTTGTAAGCGCTCTCATGCCTA
* * * *
812185 CAAATTTTGACAGATTTTCATTAAATTTATACCAAATATTTTTACCACTAATACTTTGGTCAAGT
66 CAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATACCACTAATACCTTGGTCAAGT
812250 TCGAAAATCAGCATTGGTCGATCCTTTTTGTTGGAGTTATGG
131 TCGAAAATCAGCATTGGTCGATCCTTTTTGTTGGAGTTATGG
* ** *
812292 GACTTTGACCACAGTAATGACTCCAG-TTTATCTGAAAATTGGCCTTGTAAGCGCTCTCATGCCT
1 GACTTTGACCACAATAATGACTCC-GTTTTATCCAAAAATTGACCTTGTAAGCGCTCTCATGCCT
* * *
812356 ACAAATTTTGTCGGATTTTCATTAAATTTATACTAAATGTTTTTACCACTAATACCTTGGTCAAG
65 ACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATACCACTAATACCTTGGTCAAG
** *
812421 TTCCTAAATCAGCCTTGGTCGAT
130 TTCGAAAATCAGCATTGGTCGAT
812444 AGACTCGATA
Statistics
Matches: 464, Mismatches: 31, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
172 463 1.00
173 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (172 bp):
GACTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACCTTGTAAGCGCTCTCATGCCTA
CAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATACCACTAATACCTTGGTCAAGT
TCGAAAATCAGCATTGGTCGATCCTTTTTGTTGGAGTTATGG
Found at i:813976 original size:18 final size:18
Alignment explanation
Indices: 813948--813991 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
813938 ATGACATATA
*
813948 GCGTAATTAACGCTAAACT
1 GCGT-ATTAACCCTAAACT
*
813967 GCGTATTAACCCTGAACT
1 GCGTATTAACCCTAAACT
813985 GCGTATT
1 GCGTATT
813992 GTCGCATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (18 bp):
GCGTATTAACCCTAAACT
Found at i:816181 original size:15 final size:15
Alignment explanation
Indices: 816161--816189 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
816151 ACATGTAAAC
816161 AAAGCTTTTGTTTAT
1 AAAGCTTTTGTTTAT
816176 AAAGCTTTTGTTTA
1 AAAGCTTTTGTTTA
816190 CATTTTGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (15 bp):
AAAGCTTTTGTTTAT
Found at i:818801 original size:147 final size:143
Alignment explanation
Indices: 818214--818856 Score: 725
Period size: 140 Copynumber: 4.5 Consensus size: 143
818204 AACTGTTGGC
* * * *
818214 CATAAGCAATATTTGTGTGAAGTAAGAACATTCAATGCTTCTCCATTAGAAAGATAAT-GACCGG
1 CATAAGCAATCTTTGTGTGAAGTAAGAACTTTCAATGTTTCTCCATAAGAAAGAT-ATGGACCGG
* * **
818278 ACACGAATTTTGCACTTTTTCTGGCAGTGACCTTGACCTTGCCCAAATGACCTTGGTTCAAGGTC
65 ACACGAATTTTGCATTTTTTCTGCCA---ACCTTGACCTTGCCCAAATGACCTTGAATCAAGGTC
818343 ATGACACACCCTCT-GGT
127 ATGACACACCCT-TAGGT
* * * * * *
818360 CCTAAACAATATTTGTGTGAAATTAGAACATTCAATGTTTCTCCATAAGAAAGATAAT-GACCGG
1 CATAAGCAATCTTTGTGTGAAGTAAGAACTTTCAATGTTTCTCCATAAGAAAGAT-ATGGACCGG
* *
818424 ACGCGAATTTTGCACTATTTTTC--CCAA-C--AACCTTGCCCAAATGACCTTGAATCAAGGTCA
65 ACACGAATTTTGCA-T-TTTTTCTGCCAACCTTGACCTTGCCCAAATGACCTTGAATCAAGGTCA
*
818484 AGACACACCCTTAGGT
128 TGACACACCCTTAGGT
* * * * * *
818500 CATAAGCAATCTTTTTTGTGAATTAAGAACTTCCAATGTCT-TCCATAACAAAGATATGGACGGG
1 CATAAGCAATC-TTTGTGTGAAGTAAGAACTTTCAATGTTTCTCCATAAGAAAGATATGGACCGG
* * * **
818564 ACACAAATTTTGTATTTTTTCTG-C--CCTTGACCTTGCCCGAATGACCTTGGGTCAAGGTCATG
65 ACACGAATTTTGCATTTTTTCTGCCAACCTTGACCTTGCCCAAATGACCTTGAATCAAGGTCATG
* *
818626 ATACACCCATAGGT
130 ACACACCCTTAGGT
* ** *
818640 CATAAGCAATCTTTGTGTGAAGTGAGAACTTTCAATAATTCTCCATATGAAAGATATGGACCGGA
1 CATAAGCAATCTTTGTGTGAAGTAAGAACTTTCAATGTTTCTCCATAAGAAAGATATGGACCGGA
** *
818705 CACGAATTTTATATTTTTTTCTGCCAGTGACCTTGACCTTGCCCGAATGACCTTGAATCAAGGTC
66 CACGAATTTTGCA-TTTTTTCTGCCA---ACCTTGACCTTGCCCAAATGACCTTGAATCAAGGTC
*
818770 ATGACACACCCTTAAGT
127 ATGACACACCCTTAGGT
**
818787 CATAAGCAATCTTTGTGTGAAGTAAGAACTACCAATGTTTCTCCATAAGAAAGATATGGACCGGA
1 CATAAGCAATCTTTGTGTGAAGTAAGAACTTTCAATGTTTCTCCATAAGAAAGATATGGACCGGA
818852 CACGA
66 CACGA
818857 TTATTACAGA
Statistics
Matches: 422, Mismatches: 57, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
138 7 0.02
139 27 0.06
140 163 0.39
141 32 0.08
142 2 0.00
143 1 0.00
146 73 0.17
147 111 0.26
148 6 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (143 bp):
CATAAGCAATCTTTGTGTGAAGTAAGAACTTTCAATGTTTCTCCATAAGAAAGATATGGACCGGA
CACGAATTTTGCATTTTTTCTGCCAACCTTGACCTTGCCCAAATGACCTTGAATCAAGGTCATGA
CACACCCTTAGGT
Found at i:830256 original size:2 final size:2
Alignment explanation
Indices: 830249--830287 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
830239 GGTCAATTAT
830249 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
830288 TTGAAAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:830716 original size:92 final size:91
Alignment explanation
Indices: 830608--830790 Score: 357
Period size: 92 Copynumber: 2.0 Consensus size: 91
830598 GAGGTCTTTC
830608 CTCTTTATTATTTTTTATGCTTACGATGAGGTACAGAATACCTAATAACTTGCTAGATTGTTCAA
1 CTCTTTATTATTTTTTATGCTTACGATGAGGTACAGAATACCTAATAACTTGCTAGATTGTTCAA
830673 TAGGTATACAATTTGGTCAGCAAGGT
66 TAGGTATACAATTTGGTCAGCAAGGT
830699 NCTCTTTATTATTTTTTATGCTTACGATGAGGTACAGAATACCTAATAACTTGCTAGATTGTTCA
1 -CTCTTTATTATTTTTTATGCTTACGATGAGGTACAGAATACCTAATAACTTGCTAGATTGTTCA
830764 ATAGGTATACAATTTGGTCAGCAAGGT
65 ATAGGTATACAATTTGGTCAGCAAGGT
830791 ATGACTTTCA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (91 bp):
CTCTTTATTATTTTTTATGCTTACGATGAGGTACAGAATACCTAATAACTTGCTAGATTGTTCAA
TAGGTATACAATTTGGTCAGCAAGGT
Found at i:832191 original size:2 final size:2
Alignment explanation
Indices: 832184--832213 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
832174 GACAATTGCC
832184 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
832214 GAGGGAGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:835798 original size:4 final size:4
Alignment explanation
Indices: 835789--835823 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
835779 ATACAGGAAT
* *
835789 AGAC AGAC AGAC GGAC AGAC AGAC AGAC AGCC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
835824 GATAGACAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.46, C:0.26, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAC
Found at i:835835 original size:10 final size:10
Alignment explanation
Indices: 835789--835845 Score: 51
Period size: 10 Copynumber: 5.3 Consensus size: 10
835779 ATACAGGAAT
835789 AGACAGACAG
1 AGACAGACAG
835799 ACGGACAGACAG
1 A--GACAGACAG
*
835811 ACAGACAGCCAG
1 --AGACAGACAG
*
835823 AGATAGACAG
1 AGACAGACAG
*
835833 AGACATACAG
1 AGACAGACAG
835843 AGA
1 AGA
835846 AAGCGAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
10 20 0.53
12 17 0.45
14 1 0.03
ACGTcount: A:0.47, C:0.21, G:0.28, T:0.04
Consensus pattern (10 bp):
AGACAGACAG
Found at i:836831 original size:2 final size:2
Alignment explanation
Indices: 836826--836857 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
836816 GAGACACCAA
836826 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
836858 NAGATACGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:840756 original size:14 final size:14
Alignment explanation
Indices: 840737--840763 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
840727 TGGTGACCCC
840737 CTTTCTCTCTCTCT
1 CTTTCTCTCTCTCT
840751 CTTTCTCTCTCTC
1 CTTTCTCTCTCTC
840764 CCTCAACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (14 bp):
CTTTCTCTCTCTCT
Found at i:843593 original size:13 final size:13
Alignment explanation
Indices: 843575--843609 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
843565 CAACTAAACC
843575 CTGGGTTTACTTT
1 CTGGGTTTACTTT
843588 CTGGGTTTAC-TT
1 CTGGGTTTACTTT
843600 C-GGGTTTACT
1 CTGGGTTTACT
843610 AGAGTGGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 3 0.14
13 10 0.48
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.49
Consensus pattern (13 bp):
CTGGGTTTACTTT
Found at i:859767 original size:172 final size:172
Alignment explanation
Indices: 859467--859921 Score: 768
Period size: 172 Copynumber: 2.6 Consensus size: 172
859457 GCAGTATACT
* * **
859467 AGTATCGACCAAGGCTGATTTAGGAACTTGACC-AAGGTATTAGTGGTATAAACATTTGGTATAA
1 AGTATCGAACAATGCTGATTTTCGAACTTGACCGAA-GTATTAGTGGTATAAACATTTGGTATAA
* * * *
859531 ATTTCATGTAAATCCGTCAAAATTTGTAGACATGAGAGCGCTTACAAGGTGAATTTTGGGATAAA
65 ATTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTACAAGGTCAATTTTGGGATAAA
*
859596 ACAGAGTCATTATTGTTGTCAAAGTCCCATAACTCCAACAAAA
130 ACAGAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAA
*
859639 AGTATCGAACAATGCTGATTTTCGTACTTGACCGAAGTATTAGTGGTATAAACATTTGGTATAAA
1 AGTATCGAACAATGCTGATTTTCGAACTTGACCGAAGTATTAGTGGTATAAACATTTGGTATAAA
* *
859704 TTTAATGAAAATCCATCAAAATTTGTAGGCATGAGAGCGCTTACAAGGTCAATTTTTGGATAAAA
66 TTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTACAAGGTCAATTTTGGGATAAAA
859769 CAGAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAA
131 CAGAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAA
*
859811 AGTATCGAACAATGCTGATTTTCGAACTTGACCGAAGTATTAGTGGTATAAATATTTGGTATAAA
1 AGTATCGAACAATGCTGATTTTCGAACTTGACCGAAGTATTAGTGGTATAAACATTTGGTATAAA
*
859876 TTTTATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTACAA
66 TTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTACAA
859922 AAAAGTGTGA
Statistics
Matches: 266, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
172 264 0.99
173 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (172 bp):
AGTATCGAACAATGCTGATTTTCGAACTTGACCGAAGTATTAGTGGTATAAACATTTGGTATAAA
TTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTACAAGGTCAATTTTGGGATAAAA
CAGAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAA
Done.