Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold313
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: 1192932
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 126135 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:483887 original size:31 final size:31
Alignment explanation
Indices: 483852--483914 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
483842 TTATTTTTGG
483852 ATGATGATGTAGTAAGCATTGTACACATTAA
1 ATGATGATGTAGTAAGCATTGTACACATTAA
483883 ATGATGATGTAGTAAGCATTGTACACATTAA
1 ATGATGATGTAGTAAGCATTGTACACATTAA
483914 A
1 A
483915 ACTGGTGGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.32
Consensus pattern (31 bp):
ATGATGATGTAGTAAGCATTGTACACATTAA
Found at i:489999 original size:29 final size:29
Alignment explanation
Indices: 489966--490084 Score: 220
Period size: 29 Copynumber: 4.1 Consensus size: 29
489956 AATGTACCAC
*
489966 GTGGATGTAAATGTACAAGTGCAATGAGA
1 GTGGATGTAAATGTACATGTGCAATGAGA
*
489995 GTGGATGTAACTGTACATGTGCAATGAGA
1 GTGGATGTAAATGTACATGTGCAATGAGA
490024 GTGGATGTAAATGTACATGTGCAATGAGA
1 GTGGATGTAAATGTACATGTGCAATGAGA
490053 GTGGATGTAAATGTACATGTGCAATGAGA
1 GTGGATGTAAATGTACATGTGCAATGAGA
490082 GTG
1 GTG
490085 TTCTATCTTG
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.27
Consensus pattern (29 bp):
GTGGATGTAAATGTACATGTGCAATGAGA
Found at i:524328 original size:17 final size:19
Alignment explanation
Indices: 524291--524329 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
524281 CTATATGATA
*
524291 ACATGCTATGTACTTGTGT
1 ACATGCTATGTACTAGTGT
524310 ACATGC-ATGTAC-AGTGT
1 ACATGCTATGTACTAGTGT
524327 ACA
1 ACA
524330 CCACGAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (19 bp):
ACATGCTATGTACTAGTGT
Found at i:527661 original size:139 final size:139
Alignment explanation
Indices: 527443--528117 Score: 1111
Period size: 139 Copynumber: 4.8 Consensus size: 139
527433 CAGTGAATTA
* *
527443 ATTTTGAAACCAAGTTCATTATATAAAAAGCATGATTGTACTCTTTAAAGGTTGGAAATTTTGTT
1 ATTTTGAAACCAAGTTCATTATATAAAAA--A-CA-TGTACTCTTTAGAGGTTGGAAATTTTGTT
*
527508 TTTATTTATGAAATTGCAACACTTAGCAAGGTGTTTATCAATATTGCATTCTGTTCCAGTGAATT
62 TTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTTCCAGTGAATT
*
527573 ATGTAAATTTGTT
127 ATTTAAATTTGTT
*
527586 ATTTTGAAAACAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGGAAATTTTGTTTTTA
1 ATTTTGAAACCAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGGAAATTTTGTTTTTA
*
527651 TTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTTTGTTCCAGTGAATTATTT
66 TTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTTCCAGTGAATTATTT
527716 AAATTTGTT
131 AAATTTGTT
*
527725 ATTTTGAAACCAAGTTCATTATATAAAAAACTTGTACTCTTTAGAGGTTGGAAATTTTGTTTTTG
1 ATTTTGAAACCAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGGAAATTTTGTTTTT-
*
527790 A-TTATGAAATTGCAACACTGAGCAATGTGTTTATCAATATTGCATTCTGTTCCAGTGAATTATT
65 ATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTTCCAGTGAATTATT
527854 TAAATTTGTT
130 TAAATTTGTT
* * * * *
527864 ATTTTGAAAACAAGTTCCTTATATAAAATACGTGTACTCTTTAGAGTTTGGAAATTTTGTTTTTA
1 ATTTTGAAACCAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGGAAATTTTGTTTTTA
527929 TTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTTCCAGTGAATTATTT
66 TTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTTCCAGTGAATTATTT
*
527994 AAATTTCTT
131 AAATTTGTT
* **
528003 ATTTTGAAACCAAGTTCATTATATAAAATATGTGTACTCTTTAGAGGTTGGAAATTTTGTTTTTG
1 ATTTTGAAACCAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGGAAATTTTGTTTTT-
* *
528068 A-TTATGAAATTGCAACACTGAGCAATGTGTTTATCAATATTGCTTTCTGT
65 ATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGT
528118 CTCACACCTG
Statistics
Matches: 506, Mismatches: 23, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
138 1 0.00
139 473 0.93
140 3 0.01
141 1 0.00
143 28 0.06
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (139 bp):
ATTTTGAAACCAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGGAAATTTTGTTTTTA
TTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTTCCAGTGAATTATTT
AAATTTGTT
Found at i:527876 original size:278 final size:276
Alignment explanation
Indices: 527302--528117 Score: 1307
Period size: 278 Copynumber: 3.0 Consensus size: 276
527292 ATGTTCAAAA
* *
527302 TATTTAAATTTTTTATTTTGAAACCAAGTTCATTATATAAAATACATGTACTCTTTAGAGTTTGG
1 TATTTAAATTTGTTATTTTGAAAACAAGTTCATTATATAAAATACATGTACTCTTTAGAGTTTGG
* *
527367 AAATTTTGTTTTTGA-ATATGAAATTGTAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGT
66 AAATTTTGTTTTT-ATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGT
527431 TCCAGTG-A--A-TT--A-----ATTTTGAAACCAAGTTCATTATATAAAAAGCATGATTGTACT
130 TCCAGTGAATTATTTAAATTTTTATTTTGAAACCAAGTTCATTATAT-AAAA--A--ATTGTACT
* * *
527485 CTTTAAAGGTTGGAAATTTTGTTTTT-ATTTATGAAATTGCAACACTTAGCAAGGTGTTTATCAA
190 CTTTAGAGGTTGGAAATTTTGTTTTTGA-TTATGAAATTGCAACACTGAGCAATGTGTTTATCAA
527549 TATTGCATTCTGTTCCAGTGAAT
254 TATTGCATTCTGTTCCAGTGAAT
* * *
527572 TATGTAAATTTGTTATTTTGAAAACAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGG
1 TATTTAAATTTGTTATTTTGAAAACAAGTTCATTATATAAAATACATGTACTCTTTAGAGTTTGG
*
527637 AAATTTTGTTTTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTTTGTT
66 AAATTTTGTTTTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTT
527702 CCAGTGAATTATTTAAATTTGTTATTTTGAAACCAAGTTCATTATATAAAAAACTTGTACTCTTT
131 CCAGTGAATTATTTAAATTT-TTATTTTGAAACCAAGTTCATTATATAAAAAA-TTGTACTCTTT
527767 AGAGGTTGGAAATTTTGTTTTTGATTATGAAATTGCAACACTGAGCAATGTGTTTATCAATATTG
194 AGAGGTTGGAAATTTTGTTTTTGATTATGAAATTGCAACACTGAGCAATGTGTTTATCAATATTG
527832 CATTCTGTTCCAGTGAAT
259 CATTCTGTTCCAGTGAAT
* *
527850 TATTTAAATTTGTTATTTTGAAAACAAGTTCCTTATATAAAATACGTGTACTCTTTAGAGTTTGG
1 TATTTAAATTTGTTATTTTGAAAACAAGTTCATTATATAAAATACATGTACTCTTTAGAGTTTGG
527915 AAATTTTGTTTTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTT
66 AAATTTTGTTTTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTT
*
527980 CCAGTGAATTATTTAAATTTCTTATTTTGAAACCAAGTTCATTATATAAAATATGTGTACTCTTT
131 CCAGTGAATTATTTAAATTT-TTATTTTGAAACCAAGTTCATTATATAAAAAAT-TGTACTCTTT
528045 AGAGGTTGGAAATTTTGTTTTTGATTATGAAATTGCAACACTGAGCAATGTGTTTATCAATATTG
194 AGAGGTTGGAAATTTTGTTTTTGATTATGAAATTGCAACACTGAGCAATGTGTTTATCAATATTG
*
528110 CTTTCTGT
259 CATTCTGT
528118 CTCACACCTG
Statistics
Matches: 510, Mismatches: 20, Indels: 24
0.92 0.04 0.04
Matches are distributed among these distances:
269 1 0.00
270 126 0.25
271 1 0.00
273 1 0.00
274 2 0.00
276 1 0.00
277 2 0.00
278 346 0.68
279 2 0.00
281 4 0.01
282 24 0.05
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (276 bp):
TATTTAAATTTGTTATTTTGAAAACAAGTTCATTATATAAAATACATGTACTCTTTAGAGTTTGG
AAATTTTGTTTTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTT
CCAGTGAATTATTTAAATTTTTATTTTGAAACCAAGTTCATTATATAAAAAATTGTACTCTTTAG
AGGTTGGAAATTTTGTTTTTGATTATGAAATTGCAACACTGAGCAATGTGTTTATCAATATTGCA
TTCTGTTCCAGTGAAT
Found at i:528054 original size:417 final size:407
Alignment explanation
Indices: 527302--528110 Score: 1275
Period size: 417 Copynumber: 2.0 Consensus size: 407
527292 ATGTTCAAAA
* * *
527302 TATTTAAATTTTTTATTTTGAAACCAAGTTCATTATATAAAATACATGTACTCTTTAGAGTTTGG
1 TATTTAAATTTGTTATTTTGAAACCAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGG
*
527367 AAATTTTGTTTTTGAATATGAAATTGTAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTT
66 AAATTTTGTTTTTGAATATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTT
*
527432 CCAGTGAATTAATTTTGAAACCAAGTTCATTATATAAAAAGCATGATTGTACTCTTTAAAGGTTG
131 CCAGTGAATTAATTTTGAAAACAAGTTCATTATATAAAAAGCA-GA-TGTACTCTTTAAAGGTTG
*
527497 GAAATTTTGTTTTTATTTATGAAATTGCAACACTTAGCAAGGTGTTTATCAATATTGCATTCTGT
194 GAAATTTTGTTTTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGT
*
527562 TCCAGTGAATTATGTAAATTTGTTATTTTGAAAACAAGTTCATTATATAAAAAACATGTACTCTT
259 TCCAGTGAATTATGTAAATTTCTTATTTTGAAAACAAGTTCATTATATAAAAAACATGTACTCTT
527627 TAGAGGTTGGAAATTTTGTTTTT-ATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATAT
324 TAGAGGTTGGAAATTTTGTTTTTGA-TTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATAT
527691 TGCATTTTGTTCCAGTGAAT
388 TGCATTTTGTTCCAGTGAAT
*
527711 TATTTAAATTTGTTATTTTGAAACCAAGTTCATTATATAAAAAACTTGTACTCTTTAGAGGTTGG
1 TATTTAAATTTGTTATTTTGAAACCAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGG
* *
527776 AAATTTTGTTTTTGATTATGAAATTGCAACACTGAGCAATGTGTTTATCAATATTGCATTCTGTT
66 AAATTTTGTTTTTGAATATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTT
*
527841 CCAGTGAATTATTTAAATTTGTTATTTTGAAAACAAGTTCCTTATATAAAATA-C-G-TGTACTC
131 CCAGTG-A--A-TT--A------ATTTTGAAAACAAGTTCATTATATAAAA-AGCAGATGTACTC
* *
527903 TTTAGAGTTTGGAAATTTTGTTTTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATA
183 TTTAAAGGTTGGAAATTTTGTTTTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATA
* * *
527968 TTGCATTCTGTTCCAGTGAATTATTTAAATTTCTTATTTTGAAACCAAGTTCATTATATAAAATA
248 TTGCATTCTGTTCCAGTGAATTATGTAAATTTCTTATTTTGAAAACAAGTTCATTATATAAAAAA
** *
528033 TGTGTACTCTTTAGAGGTTGGAAATTTTGTTTTTGATTATGAAATTGCAACACTGAGCAATGTGT
313 CATGTACTCTTTAGAGGTTGGAAATTTTGTTTTTGATTATGAAATTGCAACACTGAGCAAGGTGT
528098 TTATCAATATTGC
378 TTATCAATATTGC
528111 TTTCTGTCTC
Statistics
Matches: 367, Mismatches: 19, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
409 129 0.35
410 1 0.00
412 1 0.00
413 2 0.01
415 1 0.00
417 203 0.55
418 1 0.00
419 1 0.00
421 27 0.07
422 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (407 bp):
TATTTAAATTTGTTATTTTGAAACCAAGTTCATTATATAAAAAACATGTACTCTTTAGAGGTTGG
AAATTTTGTTTTTGAATATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTT
CCAGTGAATTAATTTTGAAAACAAGTTCATTATATAAAAAGCAGATGTACTCTTTAAAGGTTGGA
AATTTTGTTTTTATTTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGCATTCTGTTC
CAGTGAATTATGTAAATTTCTTATTTTGAAAACAAGTTCATTATATAAAAAACATGTACTCTTTA
GAGGTTGGAAATTTTGTTTTTGATTATGAAATTGCAACACTGAGCAAGGTGTTTATCAATATTGC
ATTTTGTTCCAGTGAAT
Found at i:533029 original size:54 final size:54
Alignment explanation
Indices: 532946--533148 Score: 343
Period size: 54 Copynumber: 3.8 Consensus size: 54
532936 AGGGAGATAC
* *
532946 GAAAATACGGCAAAACAACCAAGAAAGTCACGGTAAGTCTCGATAACGTGATTA
1 GAAAATACGGCAAAACAACCAAGAGAGTCACGGTAAGTCTCGATAACGTGATCA
* *
533000 GAAAATATGGCAACACAACCAAGAGAGTCACGGTAAGTCTCGATAACGTGATCA
1 GAAAATACGGCAAAACAACCAAGAGAGTCACGGTAAGTCTCGATAACGTGATCA
* * *
533054 GAAAATATGGCAAAATAACCAAGAGAGTCACGGTAAGTCTCGATAACATGATCA
1 GAAAATACGGCAAAACAACCAAGAGAGTCACGGTAAGTCTCGATAACGTGATCA
533108 GAAAATACGGCAAAACAACCAAGAGAGTCACGGTAAGTCTC
1 GAAAATACGGCAAAACAACCAAGAGAGTCACGGTAAGTCTC
533149 CTGGTGGGGG
Statistics
Matches: 140, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 140 1.00
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.16
Consensus pattern (54 bp):
GAAAATACGGCAAAACAACCAAGAGAGTCACGGTAAGTCTCGATAACGTGATCA
Found at i:534581 original size:104 final size:104
Alignment explanation
Indices: 534401--534608 Score: 398
Period size: 104 Copynumber: 2.0 Consensus size: 104
534391 TACTATATTA
*
534401 AGAACCTAATAAGGAACTAGCACAGAGAATGACAAAAAAGGTGATAATGTGATAATGAATAAATG
1 AGAACCAAATAAGGAACTAGCACAGAGAATGACAAAAAAGGTGATAATGTGATAATGAATAAATG
534466 TTTGTTGTGTAATCCTGTATTTCTTGAGAAAATTGGTGT
66 TTTGTTGTGTAATCCTGTATTTCTTGAGAAAATTGGTGT
*
534505 AGAACCAAATAAGGAACTAGCACAGAGAATGACATAAAAGGTGATAATGTGATAATGAATAAATG
1 AGAACCAAATAAGGAACTAGCACAGAGAATGACAAAAAAGGTGATAATGTGATAATGAATAAATG
534570 TTTGTTGTGTAATCCTGTATTTCTTGAGAAAATTGGTGT
66 TTTGTTGTGTAATCCTGTATTTCTTGAGAAAATTGGTGT
534609 GGTGTACACA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (104 bp):
AGAACCAAATAAGGAACTAGCACAGAGAATGACAAAAAAGGTGATAATGTGATAATGAATAAATG
TTTGTTGTGTAATCCTGTATTTCTTGAGAAAATTGGTGT
Found at i:547485 original size:102 final size:101
Alignment explanation
Indices: 547308--547512 Score: 401
Period size: 102 Copynumber: 2.0 Consensus size: 101
547298 AATTTGAGAT
547308 TAACAATTTAAAATACTTGGAAAACGTGAAGGCTTGGGGATAGAAAACACACAACTCGTAGGATA
1 TAACAATTTAAAATACTTGGAAAACGTGAAGGCTTGGGGATAGAAAACACACAACTCGTAGGATA
547373 AAAACCATATACCAATGCAAATCATGAGAGATCCTA
66 AAAACCATATACCAATGCAAATCATGAGAGATCCTA
547409 TNAACAATTTAAAATACTTGGAAAACGTGAAGGCTTGGGGATAGAAAACACACAACTCGTAGGAT
1 T-AACAATTTAAAATACTTGGAAAACGTGAAGGCTTGGGGATAGAAAACACACAACTCGTAGGAT
547474 AAAAACCATATACCAATGCAAATCATGAGAGATCCTA
65 AAAAACCATATACCAATGCAAATCATGAGAGATCCTA
547511 TA
1 TA
547513 TTTATAGCTG
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
101 2 0.02
102 101 0.98
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (101 bp):
TAACAATTTAAAATACTTGGAAAACGTGAAGGCTTGGGGATAGAAAACACACAACTCGTAGGATA
AAAACCATATACCAATGCAAATCATGAGAGATCCTA
Found at i:567739 original size:23 final size:23
Alignment explanation
Indices: 567713--567758 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
567703 TTGGTAACAC
567713 TGTTATAAAGATAAAATTTTATG
1 TGTTATAAAGATAAAATTTTATG
567736 TGTTATAAAGATAAAATTTTATG
1 TGTTATAAAGATAAAATTTTATG
567759 CTCGTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (23 bp):
TGTTATAAAGATAAAATTTTATG
Found at i:573469 original size:10 final size:11
Alignment explanation
Indices: 573442--573481 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
573432 TTAAGTTCTC
573442 CTTAAAGATAG
1 CTTAAAGATAG
573453 CTTAAAGAT-G
1 CTTAAAGATAG
* *
573463 GTTAAAGGTAG
1 CTTAAAGATAG
573474 CTTAAAGA
1 CTTAAAGA
573482 CGATCTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (11 bp):
CTTAAAGATAG
Found at i:573531 original size:11 final size:11
Alignment explanation
Indices: 573515--573555 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
573505 TATATGTGTT
573515 GCTTAAAGATG
1 GCTTAAAGATG
**
573526 GCTTAAAGAAA
1 GCTTAAAGATG
*
573537 GCGTAAAGATG
1 GCTTAAAGATG
573548 GCTTAAAG
1 GCTTAAAG
573556 GCAGCTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (11 bp):
GCTTAAAGATG
Found at i:573565 original size:22 final size:22
Alignment explanation
Indices: 573515--573567 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
573505 TATATGTGTT
573515 GCTTAAAGATGGCTTAAAGAAA
1 GCTTAAAGATGGCTTAAAGAAA
* **
573537 GCGTAAAGATGGCTTAAAGGCA
1 GCTTAAAGATGGCTTAAAGAAA
573559 GCTTAAAGA
1 GCTTAAAGA
573568 CTATCTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (22 bp):
GCTTAAAGATGGCTTAAAGAAA
Found at i:573637 original size:11 final size:11
Alignment explanation
Indices: 573621--573674 Score: 90
Period size: 11 Copynumber: 4.9 Consensus size: 11
573611 GTCCAAACTT
573621 CTTTAAGCCAC
1 CTTTAAGCCAC
*
573632 CTTTAAGCTAC
1 CTTTAAGCCAC
*
573643 CTTTAAGCTAC
1 CTTTAAGCCAC
573654 CTTTAAGCCAC
1 CTTTAAGCCAC
573665 CTTTAAGCCA
1 CTTTAAGCCA
573675 TTAAAAAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (11 bp):
CTTTAAGCCAC
Found at i:575018 original size:112 final size:112
Alignment explanation
Indices: 574821--575044 Score: 387
Period size: 112 Copynumber: 2.0 Consensus size: 112
574811 AACCCTGACT
*
574821 TGCACCTGGGCTCACGACACACATGTTGTGTATATCTTGTATATTCTGTGTTAGTTCCAGGGGTT
1 TGCACCTGGGCACACGACACACATGTTGTGTATATCTTGTATATTCTGTGTTAGTTCCAGGGGTT
*
574886 TTCTTAAGTTGGACAAACAATAGACTCTAATTAGATATACACAAACG
66 TTCTTAAGTTGAACAAACAATAGACTCTAATTAGATATACACAAACG
*
574933 TGCACCTGGGCACACGACACA-ACTGTTGTGTATATCTTGTATATTCTGTGTTAGTTCCATGGGT
1 TGCACCTGGGCACACGACACACA-TGTTGTGTATATCTTGTATATTCTGTGTTAGTTCCAGGGGT
* *
574997 TTTCTTAAGTTGAACTAACAATAGACTCTAATTAGATATACCCAAACG
65 TTTCTTAAGTTGAACAAACAATAGACTCTAATTAGATATACACAAACG
575045 AACTAAACTA
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 1 0.01
112 105 0.99
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (112 bp):
TGCACCTGGGCACACGACACACATGTTGTGTATATCTTGTATATTCTGTGTTAGTTCCAGGGGTT
TTCTTAAGTTGAACAAACAATAGACTCTAATTAGATATACACAAACG
Found at i:575265 original size:2 final size:2
Alignment explanation
Indices: 575258--575308 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
575248 CCGGATGAAA
575258 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
575300 AG AG AG AG A
1 AG AG AG AG A
575309 AATTTCATCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:581648 original size:18 final size:18
Alignment explanation
Indices: 581616--581667 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
581606 TAAATCGGAT
581616 AAAAACGAAATTTTAAC-A
1 AAAAACGAAATTTT-ACGA
581634 AAAAACGGAAA-TTTACGA
1 AAAAAC-GAAATTTTACGA
581652 AAAAACTCGAAATTTT
1 AAAAA--CGAAATTTT
581668 TTAATTTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 2 0.07
18 15 0.52
19 8 0.28
20 4 0.14
ACGTcount: A:0.56, C:0.12, G:0.10, T:0.23
Consensus pattern (18 bp):
AAAAACGAAATTTTACGA
Found at i:582800 original size:53 final size:52
Alignment explanation
Indices: 582735--582892 Score: 237
Period size: 51 Copynumber: 3.0 Consensus size: 52
582725 TATATTATTA
* * *
582735 TTAGGGTCTTCCGTTTCCAACGGAAGACCCTTTTGTTTTTCTTCGGATTCTT
1 TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTTTTCTACGGTTTCTT
* * *
582787 TTAAGGGTCTTCCGTTTCCACCAGAAGACCCTCTTGTTTTTCTACTGTTTC-T
1 TT-AGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTTTTCTACGGTTTCTT
*
582839 TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTCTACGGTTTCTT
1 TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTTTTCTACGGTTTCTT
582891 TT
1 TT
582893 TCTTTATTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 44 0.47
52 8 0.09
53 42 0.45
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.43
Consensus pattern (52 bp):
TTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTTTTCTACGGTTTCTT
Found at i:582996 original size:69 final size:64
Alignment explanation
Indices: 582838--583010 Score: 213
Period size: 64 Copynumber: 2.6 Consensus size: 64
582828 CTACTGTTTC
* * * *
582838 TTTAGGGTCTTCCGTTTCCAACGGAAGACCCTCTTGTTATTCTACGGTTTCTTTTTCTTTATTA
1 TTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTTCTACGGTTTCTTTTTCTTTATTA
**
582902 TTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTTGCT-TTGTTTCTTTTTCCCTATTA
1 TTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTT-CTACGGTTTCTTTTT--CT-TTA
582966 TTA
62 TTA
* *
582969 TTATTAAGGTCTTTCGTTTCAAACGGAAGACCTTATTGTTTT
1 -T-TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTT
583011 CGTTCGGGTT
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
64 47 0.49
65 2 0.02
66 2 0.02
67 6 0.06
68 1 0.01
69 37 0.39
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (64 bp):
TTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTTCTACGGTTTCTTTTTCTTTATTA
Found at i:585008 original size:2 final size:2
Alignment explanation
Indices: 585001--585043 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
584991 TATGAGTTAT
585001 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
585043 G
1 G
585044 TTAAGCAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:592971 original size:46 final size:46
Alignment explanation
Indices: 592919--593012 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
592909 TCAAACATCA
592919 ATCTGGTCATGAACAATTTCATTAAATCATTTAAACAAGAAAGGTT
1 ATCTGGTCATGAACAATTTCATTAAATCATTTAAACAAGAAAGGTT
592965 ATCTGGTCATGAACAATTTCATTAAATCATTTAAACAAGAAAGGTT
1 ATCTGGTCATGAACAATTTCATTAAATCATTTAAACAAGAAAGGTT
593011 AT
1 AT
593013 TGCAAAAATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (46 bp):
ATCTGGTCATGAACAATTTCATTAAATCATTTAAACAAGAAAGGTT
Found at i:596028 original size:146 final size:146
Alignment explanation
Indices: 595764--596199 Score: 811
Period size: 146 Copynumber: 3.0 Consensus size: 146
595754 TGTTCGATTC
*
595764 GTGTCCGGTCCATATCTTTCTTATGAAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTT
1 GTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTT
*
595829 ATGACCTAAGGGTGTGTCATGACCTTGAACCAAGGTCA-TTCGAGCAAGGTCAAGGTCACTGACA
66 ATGACCTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTAG-GCAAGGTCAAGGTCACTGACA
595893 GAAAAAGTGCAAAATGT
130 GAAAAAGTGCAAAATGT
*
595910 GTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATCGCTT
1 GTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTT
595975 ATGACCTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTAGGCAAGGTCAAGGTCACTGACAG
66 ATGACCTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTAGGCAAGGTCAAGGTCACTGACAG
*
596040 AAAAAGTGCAAAATTT
131 AAAAAGTGCAAAATGT
*
596056 GTGTCCGGTCCATATCTTTCTTATGGAAAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTT
1 GTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTT
596121 ATGACCTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTAGGCAAGGTCAAGGTCACTGACAG
66 ATGACCTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTAGGCAAGGTCAAGGTCACTGACAG
596186 AAAAAGTGCAAAAT
131 AAAAAGTGCAAAAT
596200 TNNNNNNNNN
Statistics
Matches: 283, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
146 280 0.99
147 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (146 bp):
GTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTT
ATGACCTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTAGGCAAGGTCAAGGTCACTGACAG
AAAAAGTGCAAAATGT
Found at i:619519 original size:2 final size:2
Alignment explanation
Indices: 619507--619545 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
619497 GCATCGCTGC
* *
619507 TG TG CG TG TG TG TG TT TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
619546 TCAGCTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:626016 original size:2 final size:2
Alignment explanation
Indices: 626009--626047 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
625999 TCAATGCAAA
626009 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
626048 ATGACTAGTC
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:626924 original size:20 final size:20
Alignment explanation
Indices: 626868--626954 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
626858 TCAAAAGCCG
*
626868 TACAGGGGATGTCAGGGGCAT
1 TACAGGGGATGACAGGGGC-T
* *
626889 GCACAGGGGTAT-ACAGTGGCT
1 -TACAGGGG-ATGACAGGGGCT
*
626910 TACAGGGGATGACAGGGGCG
1 TACAGGGGATGACAGGGGCT
* *
626930 TAGAGGGGGTGACAGGGGCT
1 TACAGGGGATGACAGGGGCT
626950 TACAG
1 TACAG
626955 TGGCACACAG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.04
20 35 0.66
21 1 0.02
22 13 0.25
23 2 0.04
ACGTcount: A:0.24, C:0.15, G:0.45, T:0.16
Consensus pattern (20 bp):
TACAGGGGATGACAGGGGCT
Found at i:626954 original size:50 final size:52
Alignment explanation
Indices: 626880--627006 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 52
626870 CAGGGGATGT
** *
626880 CAGGGGCATGCACAGGGGTATACAGTGGCTTACAGGGGA-TG-ACAGGGGCGTA
1 CAGGGG-ATG-ACAGGGGTATACAGTGGCACACAGGGGAGTGTACAGGGGCGCA
* *
626932 GAGGGGGTGACAGGGGCT-TACAGTGGCACACAGGGGATGTGTACAGGGGCGCA
1 CAGGGGATGACAGGGG-TATACAGTGGCACACAGGGGA-GTGTACAGGGGCGCA
626985 CAGGGGATGACA-GGGTATACAG
1 CAGGGGATGACAGGGGTATACAG
627007 GGGCTCTGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
50 24 0.38
51 4 0.06
52 15 0.24
53 20 0.32
ACGTcount: A:0.25, C:0.17, G:0.44, T:0.14
Consensus pattern (52 bp):
CAGGGGATGACAGGGGTATACAGTGGCACACAGGGGAGTGTACAGGGGCGCA
Found at i:626986 original size:23 final size:23
Alignment explanation
Indices: 626950--627035 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
626940 GACAGGGGCT
*
626950 TACAGTGGCACACAGGGGATGTG
1 TACAGGGGCACACAGGGGATGTG
*
626973 TACAGGGGCGCACAGGGGA--TG
1 TACAGGGGCACACAGGGGATGTG
* * * *
626994 -ACA-GGGTATACAGGGGCTCTG
1 TACAGGGGCACACAGGGGATGTG
*
627015 TACAGTGGCACACAGGGGATG
1 TACAGGGGCACACAGGGGATG
627036 ACAGTGAAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
19 10 0.21
20 3 0.06
21 4 0.08
22 3 0.06
23 28 0.58
ACGTcount: A:0.26, C:0.19, G:0.41, T:0.15
Consensus pattern (23 bp):
TACAGGGGCACACAGGGGATGTG
Found at i:629906 original size:30 final size:30
Alignment explanation
Indices: 629872--630036 Score: 181
Period size: 30 Copynumber: 5.5 Consensus size: 30
629862 ACTGTACTGC
*
629872 GAACTCGGCACACCTTCTCCTAGTGACAAG
1 GAACTCGGCACACCTTCTCCTAGTGATAAG
*
629902 GAACTCGGCACA-CTTGCTCCTAGTGACAAG
1 GAACTCGGCACACCTT-CTCCTAGTGATAAG
* *
629932 GAACTCGGCACACCTGCTCCTAGTGTTAAG
1 GAACTCGGCACACCTTCTCCTAGTGATAAG
* * * *
629962 GAACTTGGTACACCTGCTCCTAGCGATAAG
1 GAACTCGGCACACCTTCTCCTAGTGATAAG
* * * *
629992 GAACTTGGCA-AACTTGCCCCTAGTAATAAG
1 GAACTCGGCACACCTT-CTCCTAGTGATAAG
*
630022 GAACTCGACACACCT
1 GAACTCGGCACACCT
630037 GCTCTTAGCA
Statistics
Matches: 115, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
29 6 0.05
30 104 0.90
31 5 0.04
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (30 bp):
GAACTCGGCACACCTTCTCCTAGTGATAAG
Found at i:629965 original size:60 final size:60
Alignment explanation
Indices: 629872--630045 Score: 213
Period size: 60 Copynumber: 2.9 Consensus size: 60
629862 ACTGTACTGC
* * * *
629872 GAACTCGGCACACCTTCTCCTAGTGACAAGGAACTCGGCACACTTGCTCCTAGTGACAAG
1 GAACTCGGCACACCTGCTCCTAGTGATAAGGAACTCGGCACACCTGCTCCTAGCGACAAG
* * * *
629932 GAACTCGGCACACCTGCTCCTAGTGTTAAGGAACTTGGTACACCTGCTCCTAGCGATAAG
1 GAACTCGGCACACCTGCTCCTAGTGATAAGGAACTCGGCACACCTGCTCCTAGCGACAAG
* * * * * * *
629992 GAACTTGGCAAACTTGCCCCTAGTAATAAGGAACTCGACACACCTGCTCTTAGC
1 GAACTCGGCACACCTGCTCCTAGTGATAAGGAACTCGGCACACCTGCTCCTAGC
630046 AACGAGAAAC
Statistics
Matches: 96, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 96 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (60 bp):
GAACTCGGCACACCTGCTCCTAGTGATAAGGAACTCGGCACACCTGCTCCTAGCGACAAG
Found at i:630057 original size:90 final size:90
Alignment explanation
Indices: 629881--630059 Score: 214
Period size: 90 Copynumber: 2.0 Consensus size: 90
629871 CGAACTCGGC
* * * * * *
629881 ACACCTTCTCCTAGTGACAAGGAACTCGGCACACTTGCTCCTAGTGACAAGGAACTCGGCACACC
1 ACACCTGCTCCTAGCGACAAGGAACTCGGCAAACTTGCCCCTAGTAACAAGGAACTCGACACACC
**** *
629946 TGCTCCTAGTGTTAAGGAACTTGGT
66 TGCTCCTAGCAACAAGAAACTTGGT
* * *
629971 ACACCTGCTCCTAGCGATAAGGAACTTGGCAAACTTGCCCCTAGTAATAAGGAACTCGACACACC
1 ACACCTGCTCCTAGCGACAAGGAACTCGGCAAACTTGCCCCTAGTAACAAGGAACTCGACACACC
* *
630036 TGCTCTTAGCAACGAGAAACTTGG
66 TGCTCCTAGCAACAAGAAACTTGG
630060 CAAACCTTCT
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (90 bp):
ACACCTGCTCCTAGCGACAAGGAACTCGGCAAACTTGCCCCTAGTAACAAGGAACTCGACACACC
TGCTCCTAGCAACAAGAAACTTGGT
Found at i:633835 original size:22 final size:23
Alignment explanation
Indices: 633792--633835 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
633782 GCAGAAACTC
* *
633792 AAATCACAAAGAACGTAGGAAAT
1 AAATCACAAACAACATAGGAAAT
633815 AAATCAC-AACAACATAGGAAA
1 AAATCACAAACAACATAGGAAA
633836 CGGTAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.11
Consensus pattern (23 bp):
AAATCACAAACAACATAGGAAAT
Found at i:643644 original size:168 final size:167
Alignment explanation
Indices: 643396--643884 Score: 746
Period size: 167 Copynumber: 2.9 Consensus size: 167
643386 TGTGAGGAAT
* * * * *
643396 AAACTGAATGCATGGTTATGATGTCCATGAAGCCTTCTACCAAAATTGTGAAATTCATGGCCTCT
1 AAACTAAATGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
*
643461 GGTTCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTATTAAATCTT
66 GG-TCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTT
643526 AAAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
130 AAAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
*
643564 AAACTAAATGCATGATTATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
1 AAACTAAATGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
* *
643629 GCGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATTTGG-CATATAGTAAAAATGTATTAAATCTT
66 G-GTCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTT
*
643693 AGAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
130 AAAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
* * * ** *
643731 AAACTAAATACATGACTATGATGTCCATTAAGCCCTCTATTAAAATTGCGAAATTCATGACCCCT
1 AAACTAAATGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
* * * * * *
643796 GGGTCATGGGTTCAGGCTCTAGGGTGAGGCCAATATGGCTAGATAGTAAAAATATTTTAAATCTT
66 -GGTCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTT
643861 AAAAAATCTTCTTCTCTACTCCCA
130 AAAAAATCTTCTTCTCTACTCCCA
643885 CTCATGTTGG
Statistics
Matches: 293, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
167 153 0.52
168 139 0.47
169 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (167 bp):
AAACTAAATGCATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
GGTCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTA
AAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
Found at i:643954 original size:168 final size:167
Alignment explanation
Indices: 643396--643957 Score: 752
Period size: 168 Copynumber: 3.4 Consensus size: 167
643386 TGTGAGGAAT
* * * * * *
643396 AAACTGAATGCATGGTTATGATGTCCATGAAGCCTTCTACCAAAATTGTGAAATTCATGGCCTCT
1 AAACTAAATACATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
* *
643461 GGTTCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTATTAAATCTT
66 GGGTCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGG-CATATAGTAAAAATGTATTAAATCTT
643526 AAAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
130 AAAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
* *
643564 AAACTAAATGCATGATTATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
1 AAACTAAATACATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
* * *
643629 GCGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATTTGGCATATAGTAAAAATGTATTAAATCTTA
66 GGGTCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCATATAGTAAAAATGTATTAAATCTTA
*
643694 GAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
131 AAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
* * ** *
643731 AAACTAAATACATGACTATGATGTCCATTAAGCCCTCTATTAAAATTGCGAAATTCATGACCCCT
1 AAACTAAATACATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
* * * * *
643796 GGGTCATGGGTTCAGGCTCTAGGGTGAGGCCAATATGGCTAGATAGTAAAAATATTTTAAATCTT
66 GGGTCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGGC-ATATAGTAAAAATGTATTAAATCTT
* * * ***
643861 AAAAAATCTTCTTCTCTACTCCCACT-CATGTTGGCAAA
130 AAAAAATCTTCTTCTCTACTCCCA-TATATATTTGTTTA
* * * *
643899 AAACTGAATAAATGGTTATGATGTCCACT-AA-CTCCTCTACCTAAATTGTGAAATTCATG
1 AAACTAAATACATGATTATGATGTCCA-TGAAGC-CCTCTACCAAAATTGTGAAATTCATG
643958 GCCTCAGGGG
Statistics
Matches: 349, Mismatches: 41, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
167 156 0.45
168 191 0.55
169 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (167 bp):
AAACTAAATACATGATTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCT
GGGTCACGGGTTCAGGCTCTAGGGTGGGGCCAATATGGCATATAGTAAAAATGTATTAAATCTTA
AAAAATCTTCTTCTCTACTCCCATATATATTTGTTTA
Found at i:652493 original size:14 final size:15
Alignment explanation
Indices: 652474--652509 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
652464 GAAGTACCAC
652474 ATATATTT-TTTAAA
1 ATATATTTATTTAAA
652488 ATATATTTACTTTAAA
1 ATATATTTA-TTTAAA
652504 ATATAT
1 ATATAT
652510 CTCAGGATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
16 12 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATATTTATTTAAA
Found at i:656352 original size:220 final size:220
Alignment explanation
Indices: 655970--656416 Score: 779
Period size: 220 Copynumber: 2.0 Consensus size: 220
655960 TTCGCATAAT
655970 ATATTTACATCTTGCAAACATTTCCCCTCTAAAGTATTTCTTTTTAAAAATCGATTATAATTTAT
1 ATATTTACATCTTGCAAACATTTCCCCTCTAAAGTATTTCTTTTTAAAAATCGATTATAATTTAT
*
656035 TTCGAGATTGAGGAAACTAAAATATAACTGACCAAATAATGATTAATTTATTTAAATAAGATGTG
66 TTCGAGATTGAGGAAACTAAAATATAACTGACCAAATAATGATTAATTTATTCAAATAAGATGTG
* *
656100 ACGCCAGCAACAAGCAAAAGATCGACCGCAACAAAATTTGTGTCCTTAAACAAAATAAAGAATTG
131 ACGCCAGCAACAAGCAAAAGATCAACCGCAACAAAATTTGTGTCCTTAAACAAAATAAAGAATTA
656165 GTTATTATAAATGTTAAGGACTTTC
196 GTTATTATAAATGTTAAGGACTTTC
*
656190 ATATTTACATCTTGCAAGCATTTCCCCTCTAAAGTATTTCTTTTTAAAAATCGATTATAATTTAT
1 ATATTTACATCTTGCAAACATTTCCCCTCTAAAGTATTTCTTTTTAAAAATCGATTATAATTTAT
* * *
656255 TTCGAGATTGAGGAAACTAAAATCTACCTGACCAAATAATGATTAATTTATTCAAATATGATGTG
66 TTCGAGATTGAGGAAACTAAAATATAACTGACCAAATAATGATTAATTTATTCAAATAAGATGTG
*
656320 ACG-CAGGCAACAAGCAAAATATCAACCGCAACAAAATTTGTGTCCTTAAACAAAATAAAGAATT
131 ACGCCA-GCAACAAGCAAAAGATCAACCGCAACAAAATTTGTGTCCTTAAACAAAATAAAGAATT
* *
656384 AGTTATTATAACTTTTAAGGACTTTC
195 AGTTATTATAAATGTTAAGGACTTTC
*
656410 AAATTTA
1 ATATTTA
656417 TGCGTATGCA
Statistics
Matches: 215, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
219 2 0.01
220 213 0.99
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (220 bp):
ATATTTACATCTTGCAAACATTTCCCCTCTAAAGTATTTCTTTTTAAAAATCGATTATAATTTAT
TTCGAGATTGAGGAAACTAAAATATAACTGACCAAATAATGATTAATTTATTCAAATAAGATGTG
ACGCCAGCAACAAGCAAAAGATCAACCGCAACAAAATTTGTGTCCTTAAACAAAATAAAGAATTA
GTTATTATAAATGTTAAGGACTTTC
Found at i:659355 original size:24 final size:24
Alignment explanation
Indices: 659323--659371 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
659313 AACTGAAGTG
659323 GGACAGACAGACGGACGGACGGAC
1 GGACAGACAGACGGACGGACGGAC
659347 GGACAGACAGACGGACGGACGGAC
1 GGACAGACAGACGGACGGACGGAC
659371 G
1 G
659372 CAGAGGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.43, T:0.00
Consensus pattern (24 bp):
GGACAGACAGACGGACGGACGGAC
Found at i:659363 original size:4 final size:4
Alignment explanation
Indices: 659332--659371 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
659322 GGGACAGACA
* *
659332 GACG GACG GACG GACG GACA GACA GACG GACG GACG GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
659372 CAGAGGAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.45, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:660098 original size:4 final size:4
Alignment explanation
Indices: 660083--660116 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
660073 ATCACTTTTT
*
660083 GTCC GT-C GTCC GTCC GTCC GTCC GTCT GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
660117 TGTCTGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.00, C:0.44, G:0.26, T:0.29
Consensus pattern (4 bp):
GTCC
Found at i:660121 original size:12 final size:12
Alignment explanation
Indices: 660089--660123 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
660079 TTTTGTCCGT
*
660089 CGTCCGTCCGTC
1 CGTCCGTCTGTC
660101 CGTCCGTCTGTC
1 CGTCCGTCTGTC
*
660113 CGTCTGTCTGT
1 CGTCCGTCTGT
660124 AAACTTTTTA
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:0.26, T:0.34
Consensus pattern (12 bp):
CGTCCGTCTGTC
Found at i:662077 original size:12 final size:12
Alignment explanation
Indices: 662056--662097 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
662046 ATATTTTGTT
662056 CGTC-GTCCGTC
1 CGTCTGTCCGTC
*
662067 TGTCTGTCCGTC
1 CGTCTGTCCGTC
*
662079 CGTCTGTCTGTC
1 CGTCTGTCCGTC
662091 CGTCTGT
1 CGTCTGT
662098 AAACTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 3 0.11
12 24 0.89
ACGTcount: A:0.00, C:0.36, G:0.26, T:0.38
Consensus pattern (12 bp):
CGTCTGTCCGTC
Found at i:662080 original size:16 final size:16
Alignment explanation
Indices: 662059--662094 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
662049 TTTTGTTCGT
662059 CGTCCGTCTGTCTGTC
1 CGTCCGTCTGTCTGTC
662075 CGTCCGTCTGTCTGTC
1 CGTCCGTCTGTCTGTC
662091 CGTC
1 CGTC
662095 TGTAAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.39, G:0.25, T:0.36
Consensus pattern (16 bp):
CGTCCGTCTGTCTGTC
Found at i:664472 original size:2 final size:2
Alignment explanation
Indices: 664465--664507 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
664455 TAAGGATTCA
664465 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
664507 T
1 T
664508 GTGAAATGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:664863 original size:21 final size:21
Alignment explanation
Indices: 664837--664925 Score: 97
Period size: 21 Copynumber: 4.1 Consensus size: 21
664827 AATTTTTTTT
664837 ATCTCGTAATTACGAGAAAAG
1 ATCTCGTAATTACGAGAAAAG
** **
664858 ATCTCGTTGTTACACGAGTAAATT
1 ATCTCGTAATT--ACGAG-AAAAG
*
664882 ATCTCGTTATTACGAGAAAAG
1 ATCTCGTAATTACGAGAAAAG
*
664903 ATTTCGTAATTACGAGAAAAG
1 ATCTCGTAATTACGAGAAAAG
664924 AT
1 AT
664926 ATTTTTCTCG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
21 33 0.59
22 5 0.09
23 5 0.09
24 13 0.23
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (21 bp):
ATCTCGTAATTACGAGAAAAG
Found at i:664941 original size:27 final size:24
Alignment explanation
Indices: 664838--664952 Score: 84
Period size: 21 Copynumber: 4.9 Consensus size: 24
664828 ATTTTTTTTA
*
664838 TCTCGTAATTACGAGAAAAG--A-
1 TCTCGTTATTACGAGAAAAGATAT
* * *
664859 TCTCGTTGTTACACGAGTAAA-TTA-
1 TCTCGTTATT--ACGAGAAAAGATAT
664883 TCTCGTTATTACGAGAAAAG--AT
1 TCTCGTTATTACGAGAAAAGATAT
*
664905 T-TCGTAATTACGAGAAAAGATATTTT
1 TCTCGTTATTACGAGAAAAGATA---T
664931 TCTCGTTATTACGAGAAAAGAT
1 TCTCGTTATTACGAGAAAAGAT
664953 TTATATAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
21 26 0.35
22 9 0.12
23 9 0.12
24 10 0.13
26 2 0.03
27 19 0.25
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (24 bp):
TCTCGTTATTACGAGAAAAGATAT
Found at i:665421 original size:21 final size:21
Alignment explanation
Indices: 665392--665523 Score: 77
Period size: 21 Copynumber: 6.2 Consensus size: 21
665382 CATTTTAAAT
665392 AGATCTTTTCTCGAAATAACG
1 AGATCTTTTCTCGAAATAACG
* *
665413 AGATTTTTTCTCGTAATAACG
1 AGATCTTTTCTCGAAATAACG
* *** ** **
665434 AGATAATCAACTCGTTATTGCG
1 AGAT-CTTTTCTCGAAATAACG
* * *
665456 TGATCGTTTCTCGTAATAA-G
1 AGATCTTTTCTCGAAATAACG
* *
665476 AAGATCTTTTCTCGTAATTACG
1 -AGATCTTTTCTCGAAATAACG
* *
665498 AGATATTTATCTCGTAATAACG
1 AGATCTTT-TCTCGAAATAACG
665520 AGAT
1 AGAT
665524 AATTAAAGGG
Statistics
Matches: 84, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
20 1 0.01
21 53 0.63
22 30 0.36
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (21 bp):
AGATCTTTTCTCGAAATAACG
Found at i:667399 original size:47 final size:47
Alignment explanation
Indices: 667345--667658 Score: 479
Period size: 47 Copynumber: 6.9 Consensus size: 47
667335 GGACACCCTG
*
667345 TACATACCAGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTA
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTA
667392 TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTA
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTA
*
667439 TACATACCGGTAGGGGTGTAAATG-C-CAC-----AC---TCTATTA
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTA
*
667476 TACATACCTGTAGGGGTGTAAATGCCACACTGGGGACTGTTCTATTA
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTA
* *
667523 TACATACCTGTAGGGGTGTAATTGCCACACTGGGGACTGTTCTATTA
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTA
* *
667570 TACATACCTGTAGGGTTGTAAATGCCACACTGGGGACTGTTCTATTA
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTA
667617 TACATACCTGTAGGGGTGTAAATGCCACACTGGACG-CTGTTC
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGA-GACTGTTC
667659 CAGCAATCTG
Statistics
Matches: 248, Mismatches: 8, Indels: 22
0.89 0.03 0.08
Matches are distributed among these distances:
37 30 0.12
38 1 0.00
39 3 0.01
40 2 0.01
44 2 0.01
45 3 0.01
46 1 0.00
47 205 0.83
48 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (47 bp):
TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTA
Found at i:667482 original size:37 final size:37
Alignment explanation
Indices: 667432--667506 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
667422 TGGAGACTGT
667432 TCTATTATACATACCGGTAGGGGTGTAAATGCCACAC
1 TCTATTATACATACCGGTAGGGGTGTAAATGCCACAC
*
667469 TCTATTATACATACCTGTAGGGGTGTAAATGCCACAC
1 TCTATTATACATACCGGTAGGGGTGTAAATGCCACAC
667506 T
1 T
667507 GGGGACTGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (37 bp):
TCTATTATACATACCGGTAGGGGTGTAAATGCCACAC
Found at i:667583 original size:131 final size:135
Alignment explanation
Indices: 667345--667658 Score: 476
Period size: 131 Copynumber: 2.3 Consensus size: 135
667335 GGACACCCTG
*
667345 TACATACCAGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTATACATACCTGTAGGGGTG
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTATACATACCTGTAGGGGTG
667410 TAAATGCCACACTGGAGACTGTTCTATTATACATACCGGTAGGGGTGTAAATG-C-CAC-AC-TC
66 TAAATGCCACACTGGAGACTGTTCTATTATACATACCGGTAGGGGTGTAAATGCCACACGACTTC
667471 TATTA
131 TATTA
*
667476 TACATACCTGTAGGGGTGTAAATGCCACACTGGGGACTGTTCTATTATACATACCTGTAGGGGTG
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTATACATACCTGTAGGGGTG
* * * *
667541 TAATTGCCACACTGGGGACTGTTCTATTATACATACCTGTAGGGTTGTAAATGCCACACTGGGGA
66 TAAATGCCACACTGGAGACTGTTCTATTATACATACCGGTAGGGGTGTAAATGCCACAC----GA
667606 CTGTTCTATTA
127 C--TTCTATTA
667617 TACATACCTGTAGGGGTGTAAATGCCACACTGGACG-CTGTTC
1 TACATACCTGTAGGGGTGTAAATGCCACACTGGA-GACTGTTC
667659 CAGCAATCTG
Statistics
Matches: 165, Mismatches: 7, Indels: 12
0.90 0.04 0.07
Matches are distributed among these distances:
131 112 0.68
132 1 0.01
133 3 0.02
138 2 0.01
141 46 0.28
142 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (135 bp):
TACATACCTGTAGGGGTGTAAATGCCACACTGGAGACTGTTCTATTATACATACCTGTAGGGGTG
TAAATGCCACACTGGAGACTGTTCTATTATACATACCGGTAGGGGTGTAAATGCCACACGACTTC
TATTA
Found at i:668372 original size:59 final size:59
Alignment explanation
Indices: 668284--668530 Score: 399
Period size: 59 Copynumber: 4.2 Consensus size: 59
668274 TATACAGTTT
668284 TGACACAAGTAT--GGTACTACTGAATCATTCTGTGACATATGTGTACATGTACAGTAC
1 TGACACAAGTATACGGTACTACTGAATCATTCTGTGACATATGTGTACATGTACAGTAC
668341 TGACACAAGTATACGGTACTACTGAATCATTCTGTGACATATGTGTACATGTACAGTAC
1 TGACACAAGTATACGGTACTACTGAATCATTCTGTGACATATGTGTACATGTACAGTAC
* * * *
668400 TAACACATGTATACGATACTACTGAATCATTCTGTGACATATGTGTATATGTACAGTAC
1 TGACACAAGTATACGGTACTACTGAATCATTCTGTGACATATGTGTACATGTACAGTAC
* * * * *
668459 TGACACAAGTATACAGTACTACTGAATCATTCTGTGATACAAGTGTACATATACAGTAC
1 TGACACAAGTATACGGTACTACTGAATCATTCTGTGACATATGTGTACATGTACAGTAC
668518 TGACACAAGTATA
1 TGACACAAGTATA
668531 TATATGTGTA
Statistics
Matches: 175, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
57 12 0.07
59 163 0.93
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (59 bp):
TGACACAAGTATACGGTACTACTGAATCATTCTGTGACATATGTGTACATGTACAGTAC
Found at i:669402 original size:62 final size:62
Alignment explanation
Indices: 669305--669525 Score: 370
Period size: 62 Copynumber: 3.6 Consensus size: 62
669295 CTCTTTATAC
* *
669305 ATCACTAGAACCTACATGAACCTTCACCTTTTCTAGTTGTTTAATTGATTGCTCCATTGTTT
1 ATCACTAGAACCTACATGTACCTTCACCTTTTCTAGTTGTTTCATTGATTGCTCCATTGTTT
*
669367 ATCACTAGAACCTTCATGTACCTTCACCTTTTCTAGTTGTTTCATTGATTGCTCCATTGTTT
1 ATCACTAGAACCTACATGTACCTTCACCTTTTCTAGTTGTTTCATTGATTGCTCCATTGTTT
* *
669429 ATCCCTAGAACCTACATGTACCTTCACATTTTCTAGTTGTTTCATTGATTGCTCCATTGTTT
1 ATCACTAGAACCTACATGTACCTTCACCTTTTCTAGTTGTTTCATTGATTGCTCCATTGTTT
* * *
669491 ATCCCTAGAACCTACATGTACCCTCACCGTTTCTA
1 ATCACTAGAACCTACATGTACCTTCACCTTTTCTA
669526 TTTTATCCCT
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 150 1.00
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (62 bp):
ATCACTAGAACCTACATGTACCTTCACCTTTTCTAGTTGTTTCATTGATTGCTCCATTGTTT
Found at i:671325 original size:77 final size:77
Alignment explanation
Indices: 671201--672032 Score: 1527
Period size: 77 Copynumber: 10.9 Consensus size: 77
671191 TGCCCATGTA
671201 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671266 ATGGTGTGTGTG
66 ATGGTGTGTGTG
671278 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671343 ATGGTGTGTGTG
66 ATGGTGTGTGTG
* * *
671355 GGTGGGTGGGGGATGTCTGAGTTACTTACCCCTGTGTAGTGGACCCTGTGACACTGATCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671420 ATGGTGTGTGTG
66 ATGGTGTGTGTG
*
671432 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACATTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671497 AT-G-GTGTGT-
66 ATGGTGTGTGTG
* *
671506 -GTGGGTGGGGGATGTCTGAGGTACTTACCCTTGTGTAGTGGATGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671570 ATGGTGTGTGTG
66 ATGGTGTGTGTG
671582 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671647 ATGGTGTGTGTG
66 ATGGTGTGTGTG
671659 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671724 ATGGTGTGTGTG
66 ATGGTGTGTGTG
* *
671736 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGAACGCTGTGACATTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671801 AT-G-GTGTGT-
66 ATGGTGTGTGTG
671810 -GTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671874 ATGGTGTGTGTG
66 ATGGTGTGTGTG
*
671886 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGAAGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671951 ATGGTGTGTGTG
66 ATGGTGTGTGTG
671963 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
672028 ATGGT
66 ATGGT
672033 AGCTGGGGTC
Statistics
Matches: 729, Mismatches: 18, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
73 127 0.17
74 2 0.00
75 24 0.03
76 2 0.00
77 574 0.79
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (77 bp):
GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
ATGGTGTGTGTG
Found at i:671597 original size:227 final size:230
Alignment explanation
Indices: 671201--672032 Score: 1507
Period size: 227 Copynumber: 3.6 Consensus size: 230
671191 TGCCCATGTA
671201 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671266 ATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACA
66 ATGGTGTGTGT-GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACA
*
671331 CTGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGTTACTTACCCCTGTGTAGTG
130 CTGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTG
* *
671396 GACCCTGTGACACTGATCACCATTATGGTGTGTGTG
195 GACGCTGTGACACTGACCACCATTATGGTGTGTGTG
*
671432 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACATTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
* *
671497 AT-G-GTGTGT-GTGGGTGGGGGATGTCTGAGGTACTTACCCTTGTGTAGTGGATGCTGTGACAC
66 ATGGTGTGTGTGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACAC
671559 TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGG
131 TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGG
671624 ACGCTGTGACACTGACCACCATTATGGTGTGTGTG
196 ACGCTGTGACACTGACCACCATTATGGTGTGTGTG
671659 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
*
671724 ATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGAACGCTGTGACA
66 ATGGTGTGTGT-GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACA
*
671789 TTGACCACCATTAT-G-GTGTGT--GTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTG
130 CTGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTG
671850 GACGCTGTGACACTGACCACCATTATGGTGTGTGTG
195 GACGCTGTGACACTGACCACCATTATGGTGTGTGTG
*
671886 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGAAGCTGTGACACTGACCACCATT
1 GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
671951 ATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACA
66 ATGGTGTGTGT-GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACA
672016 CTGACCACCATTATGGT
130 CTGACCACCATTATGGT
672033 AGCTGGGGTC
Statistics
Matches: 581, Mismatches: 14, Indels: 14
0.95 0.02 0.02
Matches are distributed among these distances:
227 431 0.74
228 2 0.00
229 18 0.03
230 2 0.00
231 128 0.22
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (230 bp):
GGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATT
ATGGTGTGTGTGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACAC
TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGG
ACGCTGTGACACTGACCACCATTATGGTGTGTGTG
Found at i:671751 original size:304 final size:304
Alignment explanation
Indices: 671202--672032 Score: 1599
Period size: 304 Copynumber: 2.7 Consensus size: 304
671192 GCCCATGTAG
671202 GTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATTA
1 GTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATTA
671267 TGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACAC
66 TGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACAC
*
671332 TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGTTACTTACCCCTGTGTAGTGG
131 TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGG
* *
671397 ACCCTGTGACACTGATCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACC
196 ACGCTGTGACACTGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACC
*
671462 CCTGTGTAGTGGACGCTGTGACATTGACCACCATTATGGTGTGT
261 CCTGTGTAGTGAACGCTGTGACATTGACCACCATTATGGTGTGT
* *
671506 GTGGGTGGGGGATGTCTGAGGTACTTACCCTTGTGTAGTGGATGCTGTGACACTGACCACCATTA
1 GTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATTA
671571 TGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACAC
66 TGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACAC
671636 TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGG
131 TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGG
671701 ACGCTGTGACACTGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACC
196 ACGCTGTGACACTGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACC
671766 CCTGTGTAGTGAACGCTGTGACATTGACCACCATTATGGTGTGT
261 CCTGTGTAGTGAACGCTGTGACATTGACCACCATTATGGTGTGT
671810 GTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATTA
1 GTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATTA
*
671875 TGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGAAGCTGTGACAC
66 TGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACAC
671940 TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGG
131 TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGG
672005 ACGCTGTGACACTGACCACCATTATGGT
196 ACGCTGTGACACTGACCACCATTATGGT
672033 AGCTGGGGTC
Statistics
Matches: 518, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
304 518 1.00
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (304 bp):
GTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACACTGACCACCATTA
TGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGGACGCTGTGACAC
TGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACCCCTGTGTAGTGG
ACGCTGTGACACTGACCACCATTATGGTGTGTGTGGGTGGGTGGGGGATGTCTGAGGTACTTACC
CCTGTGTAGTGAACGCTGTGACATTGACCACCATTATGGTGTGT
Found at i:672567 original size:46 final size:46
Alignment explanation
Indices: 672500--672611 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
672490 GGACCCGCCA
* *
672500 CTGTCAAACATTAACAAATTATATCAGTGTATCAATGGAACTTTCT
1 CTGTCAAACATCAACAAATTATATCAGTGTATCAATGAAACTTTCT
*
672546 CTGTCAAACATCAACAAATTATATCAGTGTATCATTGAAACTTTCT
1 CTGTCAAACATCAACAAATTATATCAGTGTATCAATGAAACTTTCT
* *
672592 CTGTCAAACTTCAAAAAATT
1 CTGTCAAACATCAACAAATT
672612 TTACATGTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (46 bp):
CTGTCAAACATCAACAAATTATATCAGTGTATCAATGAAACTTTCT
Found at i:679949 original size:36 final size:36
Alignment explanation
Indices: 679904--680548 Score: 888
Period size: 36 Copynumber: 17.9 Consensus size: 36
679894 ATTTAGTAAT
* * * *
679904 ATACACCGTATCAAATAAACACAGACTCGGAGTAAT
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
* *
679940 ATACGCCGTAACAAATAAACACAGA-T-----TAAT
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
* *
679970 ATACACCGTAACAAATAAATACAGACTCAGAGTAATACC
1 ATACACCGTAACAAATAAACACAGACTCAGACT-A-A-C
* * * *
680009 AGGTATACACTGTAACAATTAAACACAGACTCAGAGTAAGT
1 ----ATACACCGTAACAAATAAACACAGACTCAGACTAA-C
* * *
680050 ATACACCGTAACAAATAAACACAGACTCGGAGTAAT
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
* * *
680086 ATACACCGTAACAATTAAACACCGACTCGGACTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
*
680122 ATACACCGTAACAAATAAACACAGTCTCAGACTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
*
680158 ATACACCGTAACAAATAAACACAGACTCAGATTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
*
680194 ATACACCGTAACAAATAAACACAGACTCAAACTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
* *
680230 ATACACCGTAACAAATAAACACAGACTCGGACTAAT
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
*
680266 ATACACCGTAACAAATAAACACAGACTCAGATTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
680302 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
680338 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
*
680374 ATACACCGTAACAAATAAACACAGACTCAGATTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
*
680410 ATACACCGTAACAAATAAACACAGACTCAAACTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
* *
680446 ATACACCGTCACAAATAAACACAGACTCAAACTAAC
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
* * * *
680482 ATACACCGTCACAAATAAACACAGACTCGGAGTAAT
1 ATACACCGTAACAAATAAACACAGACTCAGACTAAC
680518 ATACACCGTAACAAATAAACACAGACTCAGA
1 ATACACCGTAACAAATAAACACAGACTCAGA
680549 TTAAAACTAC
Statistics
Matches: 554, Mismatches: 42, Indels: 26
0.89 0.07 0.04
Matches are distributed among these distances:
30 27 0.05
31 1 0.00
35 1 0.00
36 459 0.83
37 33 0.06
38 1 0.00
41 1 0.00
42 1 0.00
43 30 0.05
ACGTcount: A:0.48, C:0.25, G:0.10, T:0.16
Consensus pattern (36 bp):
ATACACCGTAACAAATAAACACAGACTCAGACTAAC
Found at i:679970 original size:30 final size:30
Alignment explanation
Indices: 679900--679994 Score: 109
Period size: 30 Copynumber: 3.0 Consensus size: 30
679890 GATCATTTAG
*
679900 TAATATACACCGTATCAAATAAACACAGACT
1 TAATATACACCGTAACAAATAAACACAGA-T
*
679931 CGGAGTAATATACGCCGTAACAAATAAACACAGAT
1 -----TAATATACACCGTAACAAATAAACACAGAT
*
679966 TAATATACACCGTAACAAATAAATACAGA
1 TAATATACACCGTAACAAATAAACACAGA
679995 CTCAGAGTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
30 27 0.49
35 1 0.02
36 27 0.49
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (30 bp):
TAATATACACCGTAACAAATAAACACAGAT
Found at i:680440 original size:16 final size:16
Alignment explanation
Indices: 680421--680509 Score: 52
Period size: 16 Copynumber: 5.1 Consensus size: 16
680411 TACACCGTAA
680421 CAAATAAACACAGACT
1 CAAATAAACACAGACT
* * *
680437 CAAACTAACATACACCGTCA
1 CAAA-T-A-A-ACACAGACT
680457 CAAATAAACACAGACT
1 CAAATAAACACAGACT
* * *
680473 CAAACTAACATACACCGTCA
1 CAAA-T-A-A-ACACAGACT
680493 CAAATAAACACAGACT
1 CAAATAAACACAGACT
680509 C
1 C
680510 GGAGTAATAT
Statistics
Matches: 53, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
16 21 0.40
17 4 0.08
18 4 0.08
19 4 0.08
20 20 0.38
ACGTcount: A:0.51, C:0.30, G:0.06, T:0.13
Consensus pattern (16 bp):
CAAATAAACACAGACT
Found at i:684184 original size:47 final size:47
Alignment explanation
Indices: 684080--684499 Score: 691
Period size: 47 Copynumber: 9.2 Consensus size: 47
684070 ACCTACAATC
* *
684080 TATCG-TAACAGAATCACGATAGACAGCGATA-A-AAC--TACAAAA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
*
684122 TATCGTTATCAGAATCACGATAAACAGCGATATACACCTATACAAAA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
684169 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
684216 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
684263 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
*
684310 TATCGTTAACAGAATCACGATAGACAGCG--ATACACCTATACAAAA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
684355 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
* *
684402 TATCGTTATCAGAATCACGATAGACAGCG--ATACACCTATACAAAA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
**
684447 TATCGTTAACAGAATCACGATGGACAGCG--ATACACCTATACAAAA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
684492 TATCGTTA
1 TATCGTTA
684500 CATGGTTACT
Statistics
Matches: 361, Mismatches: 10, Indels: 11
0.95 0.03 0.03
Matches are distributed among these distances:
42 5 0.01
43 24 0.07
44 1 0.00
45 113 0.31
47 218 0.60
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (47 bp):
TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAA
Found at i:684404 original size:92 final size:93
Alignment explanation
Indices: 684080--684499 Score: 687
Period size: 92 Copynumber: 4.6 Consensus size: 93
684070 ACCTACAATC
* * *
684080 TATCG-TAACAGAATCACGATAGACAGCGATA-A-AAC--TACAAAATATCGTTATCAGAATCAC
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAATATCGTTAACAGAATCAC
684140 GATAAACAGCGATATACACCTATACAAAA
66 GATAAACAGCGA-ATACACCTATACAAAA
684169 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAATATCGTTAACAGAATCAC
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAATATCGTTAACAGAATCAC
684234 GATAAACAGCGATATACACCTATACAAAA
66 GATAAACAGCGA-ATACACCTATACAAAA
684263 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAATATCGTTAACAGAATCAC
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAATATCGTTAACAGAATCAC
*
684328 GATAGACAGCG-ATACACCTATACAAAA
66 GATAAACAGCGAATACACCTATACAAAA
*
684355 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAATATCGTTATCAGAATCAC
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAATATCGTTAACAGAATCAC
*
684420 GATAGACAGCG-ATACACCTATACAAAA
66 GATAAACAGCGAATACACCTATACAAAA
**
684447 TATCGTTAACAGAATCACGATGGACAGCG--ATACACCTATACAAAATATCGTTA
1 TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAATATCGTTA
684500 CATGGTTACT
Statistics
Matches: 319, Mismatches: 7, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
89 5 0.02
90 49 0.15
91 1 0.00
92 136 0.43
94 128 0.40
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (93 bp):
TATCGTTAACAGAATCACGATAAACAGCGATATACACCTATACAAAATATCGTTAACAGAATCAC
GATAAACAGCGAATACACCTATACAAAA
Found at i:689375 original size:22 final size:20
Alignment explanation
Indices: 689336--689375 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
689326 AGAACTACAT
*
689336 TTATCTGTTGTGTTTTGTCA
1 TTATCTGTTGTGTGTTGTCA
689356 TTATCCTGTGTGTGTGTTGT
1 TTAT-CTGT-TGTGTGTTGT
689376 TAGTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.07, C:0.10, G:0.25, T:0.57
Consensus pattern (20 bp):
TTATCTGTTGTGTGTTGTCA
Found at i:695715 original size:46 final size:46
Alignment explanation
Indices: 695662--695901 Score: 300
Period size: 46 Copynumber: 5.0 Consensus size: 46
695652 ACACTGACTC
*
695662 AGGCTGTAGAATGAGATCCAGATACATGTATAATATCCATGGAATT
1 AGGCTGTAGAATGAGATCCTGATACATGTATAATATCCATGGAATT
* * *
695708 AGGCTGTAGACTGAGATCCTGATACTTGTATAATATCCCTGCCTGGAATT
1 AGGCTGTAGAATGAGATCCTGATACATGTATAATAT--C--CATGGAATT
* *
695758 AGGCTGTAGAATGAGATCCTGATACATTTATAATATCAATGGAATT
1 AGGCTGTAGAATGAGATCCTGATACATGTATAATATCCATGGAATT
* * * *
695804 AGGCTGAAGACTGAGATCCTGATACTTGTATAATATCCCTGCCTGGAATT
1 AGGCTGTAGAATGAGATCCTGATACATGTATAATAT--C--CATGGAATT
* *
695854 AGGCTGTAGAATGAGATCCTGATACATTTATAATATCAATGGAATT
1 AGGCTGTAGAATGAGATCCTGATACATGTATAATATCCATGGAATT
695900 AG
1 AG
695902 ACTGNTATCA
Statistics
Matches: 165, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
46 81 0.49
48 4 0.02
50 80 0.48
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (46 bp):
AGGCTGTAGAATGAGATCCTGATACATGTATAATATCCATGGAATT
Found at i:695826 original size:96 final size:96
Alignment explanation
Indices: 695662--695901 Score: 444
Period size: 96 Copynumber: 2.5 Consensus size: 96
695652 ACACTGACTC
* * * *
695662 AGGCTGTAGAATGAGATCCAGATACATGTATAATATCCATGGAATTAGGCTGTAGACTGAGATCC
1 AGGCTGTAGAATGAGATCCTGATACATTTATAATATCAATGGAATTAGGCTGAAGACTGAGATCC
695727 TGATACTTGTATAATATCCCTGCCTGGAATT
66 TGATACTTGTATAATATCCCTGCCTGGAATT
695758 AGGCTGTAGAATGAGATCCTGATACATTTATAATATCAATGGAATTAGGCTGAAGACTGAGATCC
1 AGGCTGTAGAATGAGATCCTGATACATTTATAATATCAATGGAATTAGGCTGAAGACTGAGATCC
695823 TGATACTTGTATAATATCCCTGCCTGGAATT
66 TGATACTTGTATAATATCCCTGCCTGGAATT
695854 AGGCTGTAGAATGAGATCCTGATACATTTATAATATCAATGGAATTAG
1 AGGCTGTAGAATGAGATCCTGATACATTTATAATATCAATGGAATTAG
695902 ACTGNTATCA
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 140 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (96 bp):
AGGCTGTAGAATGAGATCCTGATACATTTATAATATCAATGGAATTAGGCTGAAGACTGAGATCC
TGATACTTGTATAATATCCCTGCCTGGAATT
Found at i:695947 original size:17 final size:17
Alignment explanation
Indices: 695918--695974 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
695908 ATCAAATAAT
*
695918 AGTAAATGTAAGTATTG
1 AGTAAACGTAAGTATTG
* *
695935 AGTTAACGTAAGTATCG
1 AGTAAACGTAAGTATTG
**
695952 AGTAAACAAAAGTATTG
1 AGTAAACGTAAGTATTG
*
695969 TGTAAA
1 AGTAAA
695975 AGTATGTAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (17 bp):
AGTAAACGTAAGTATTG
Found at i:696404 original size:17 final size:16
Alignment explanation
Indices: 696384--696445 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
696374 AGCAAAATTT
696384 AGTATCGAGTAAACGGA
1 AGTATCGAGTAAA-GGA
*
696401 AGTATCGAGTTAAAGTA
1 AGTATCGAG-TAAAGGA
* **
696418 ATTATCGAGTAAATAA
1 AGTATCGAGTAAAGGA
696434 AGTATC-AGTAAA
1 AGTATCGAGTAAA
696446 CATTAGATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
15 6 0.15
16 10 0.26
17 19 0.49
18 4 0.10
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (16 bp):
AGTATCGAGTAAAGGA
Found at i:696490 original size:26 final size:26
Alignment explanation
Indices: 696433--696565 Score: 239
Period size: 26 Copynumber: 5.1 Consensus size: 26
696423 CGAGTAAATA
696433 AAGTATCAGTAAACATTAGATAATTGT
1 AAGTATCAGTAAACATTAG-TAATTGT
*
696460 TAGTATCAGTAAACATTAGTAATTGT
1 AAGTATCAGTAAACATTAGTAATTGT
696486 AAGTATCAGTAAACATTAGTAATTGT
1 AAGTATCAGTAAACATTAGTAATTGT
696512 AAGTATCAGTAAACATTAGTAATTGT
1 AAGTATCAGTAAACATTAGTAATTGT
*
696538 AAATATCAGTAAACATTAGTAATTGT
1 AAGTATCAGTAAACATTAGTAATTGT
696564 AA
1 AA
696566 ACGCAAGAAT
Statistics
Matches: 103, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
26 85 0.83
27 18 0.17
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (26 bp):
AAGTATCAGTAAACATTAGTAATTGT
Found at i:709814 original size:2 final size:2
Alignment explanation
Indices: 709807--709851 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
709797 TAATAACAAT
709807 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
709849 GA G
1 GA G
709852 TCCGTATGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:712742 original size:42 final size:42
Alignment explanation
Indices: 712695--712948 Score: 499
Period size: 42 Copynumber: 6.0 Consensus size: 42
712685 TTGTGATCCT
712695 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
1 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
712737 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
1 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
712779 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
1 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
*
712821 TGCTAGATGTACAATGTACGTTATATACCATTGACCTAGTTG
1 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
712863 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
1 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
712905 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
1 TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
712947 TG
1 TG
712949 AATGAATAAA
Statistics
Matches: 210, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 210 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (42 bp):
TGCTAGATGTACAATGTACGTTATATACCACTGACCTAGTTG
Found at i:716193 original size:23 final size:23
Alignment explanation
Indices: 716060--716194 Score: 99
Period size: 23 Copynumber: 5.4 Consensus size: 23
716050 TCATCTACAT
*
716060 CATCTTCATCGACATGACCATCA
1 CATCTTCATCGACATCACCATCA
* *
716083 TCATCATCGTCGTCATCATCACCATAACA
1 -CATCTTCATCG--A-CATCACCAT--CA
* * * *
716112 TCATCGTCGTCATCAACATGAACATCG
1 -CATC-T--TCATCGACATCACCATCA
*
716139 CATCGTCATCGACATCACCATCA
1 CATCTTCATCGACATCACCATCA
*
716162 CATCGTCATCGACATCACCATCA
1 CATCTTCATCGACATCACCATCA
716185 CATCTTCATC
1 CATCTTCATC
716195 TTCTCAACAT
Statistics
Matches: 88, Mismatches: 15, Indels: 17
0.73 0.12 0.14
Matches are distributed among these distances:
23 46 0.52
24 9 0.10
26 5 0.06
27 9 0.10
29 14 0.16
30 1 0.01
32 4 0.05
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.26
Consensus pattern (23 bp):
CATCTTCATCGACATCACCATCA
Found at i:722457 original size:4 final size:4
Alignment explanation
Indices: 722448--722485 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
722438 GTTACCCTGT
*
722448 TCCG TCCG TCCG TCCG TCTG TCCG TCCG TCCG TCCG TC
1 TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG TC
722486 TGTCACGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.24, T:0.29
Consensus pattern (4 bp):
TCCG
Found at i:741729 original size:18 final size:18
Alignment explanation
Indices: 741706--741802 Score: 176
Period size: 18 Copynumber: 5.4 Consensus size: 18
741696 ATGATAAGTG
741706 GATGGGATAACTGTTATA
1 GATGGGATAACTGTTATA
741724 GATGGGATAACTGTTATA
1 GATGGGATAACTGTTATA
741742 GATGGGATAACTGTTATA
1 GATGGGATAACTGTTATA
741760 GATGGGATAACTGTTATA
1 GATGGGATAACTGTTATA
* *
741778 GATGGAATAACTGTTAAA
1 GATGGGATAACTGTTATA
741796 GATGGGA
1 GATGGGA
741803 AACCATGCAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 76 1.00
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (18 bp):
GATGGGATAACTGTTATA
Found at i:750811 original size:2 final size:2
Alignment explanation
Indices: 750804--750851 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
750794 TTAAAAGCAT
750804 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
750846 GA GA GA
1 GA GA GA
750852 TTTTCAGTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:752904 original size:40 final size:40
Alignment explanation
Indices: 752859--752945 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
752849 GAATGGGAAG
* * *
752859 TGGTGAGTTACATAGTAATACACAGAGGTTACAGTTACAA
1 TGGTGAGTCACAGAGTAATACACAGAGATTACAGTTACAA
**
752899 TGGTGAGTCACAGAGTAATACATGGAGATTACAGTTACAA
1 TGGTGAGTCACAGAGTAATACACAGAGATTACAGTTACAA
752939 TGGTGAG
1 TGGTGAG
752946 ACTAAACAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (40 bp):
TGGTGAGTCACAGAGTAATACACAGAGATTACAGTTACAA
Found at i:754196 original size:9 final size:9
Alignment explanation
Indices: 754182--754211 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
754172 TAGCAACTCG
754182 CAGGGTTCA
1 CAGGGTTCA
754191 CAGGGTTCA
1 CAGGGTTCA
*
754200 CAGGGCTCA
1 CAGGGTTCA
754209 CAG
1 CAG
754212 AGCTCATCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.23, C:0.27, G:0.33, T:0.17
Consensus pattern (9 bp):
CAGGGTTCA
Found at i:760500 original size:19 final size:19
Alignment explanation
Indices: 760476--760516 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
760466 GTACTAATTG
760476 TCACATGGTGTGTTCTTTA
1 TCACATGGTGTGTTCTTTA
760495 TCACATGGTGTGTTCTTTA
1 TCACATGGTGTGTTCTTTA
760514 TCA
1 TCA
760517 GTTGACCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (19 bp):
TCACATGGTGTGTTCTTTA
Found at i:762101 original size:26 final size:26
Alignment explanation
Indices: 762072--762417 Score: 461
Period size: 26 Copynumber: 13.4 Consensus size: 26
762062 TGATTTGGTG
* *
762072 AGATAGGGATTTGTAGTGATAGAGAA
1 AGATAGGGATATGTAGTGATAGAGGA
* *
762098 AGATAGGGAT-TAATAATGATAGAGGA
1 AGATAGGGATAT-GTAGTGATAGAGGA
*
762124 AGAT-GGAGAAATGTAGTGAT-GAAGGA
1 AGATAGG-GATATGTAGTGATAG-AGGA
*
762150 AGATAGGGAAATGTAGTGATAGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
*
762176 AGATAGGGA-A-AT-GTGATAGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
*
762199 AGATAGAGATATGTAGTGATAGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
* *
762225 AGATAGAGATATGTAGTGATGGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
* *
762251 AGATAAGGAAATGTAGTGATAGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
*
762277 AGATAGAGATATGTAGTGATAGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
* *
762303 AGATATGGATCTGTAGTGATAGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
*
762329 AGATAGGGAAATGTAGTGATAGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
*
762355 AGATAGGGAAATGTAGTGATAGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
*
762381 AGATAGGGAAATGTAGTGATAGAGGA
1 AGATAGGGATATGTAGTGATAGAGGA
762407 AGATAGGGATA
1 AGATAGGGATA
762418 GAGTAAGATA
Statistics
Matches: 287, Mismatches: 24, Indels: 18
0.87 0.07 0.05
Matches are distributed among these distances:
23 19 0.07
24 2 0.01
25 6 0.02
26 256 0.89
27 4 0.01
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.21
Consensus pattern (26 bp):
AGATAGGGATATGTAGTGATAGAGGA
Found at i:762170 original size:52 final size:52
Alignment explanation
Indices: 762072--762570 Score: 615
Period size: 52 Copynumber: 9.9 Consensus size: 52
762062 TGATTTGGTG
** * *
762072 AGATAGGGATTTGTAGTGATAGAGAAAGATAGGGATTAA--TAATGATAGAGGA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGA--AATGTAGTGATAGAGGA
762124 AGAT-GGAGAAATGTAGTGAT-GAAGGAAGATAGGGAAATGTAGTGATAGAGGA
1 AGATAGG-GAAATGTAGTGATAG-AGGAAGATAGGGAAATGTAGTGATAGAGGA
* *
762176 AGATAGGGAAA--T-GTGATAGAGGAAGATAGAGATATGTAGTGATAGAGGA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
* * * *
762225 AGATAGAGATATGTAGTGATGGAGGAAGATAAGGAAATGTAGTGATAGAGGA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
* * * **
762277 AGATAGAGATATGTAGTGATAGAGGAAGATATGGATCTGTAGTGATAGAGGA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
762329 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
*
762381 AGATAGGGAAATGTAGTGATAGAGGAAGAT------A-G--G-GATAGAGTA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
*
762423 AGATAGGGATATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
** **
762475 AGATAGGGATTTGTAGTGATAGAGGAAGATAGGGATTTGTAGTGATAGAGGA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
* *
762527 AGATA-GGAAA-AT-GTGATAGAGGAAGATAGAGAAATGTAGTGATA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATA
762571 TAGTTAGATA
Statistics
Matches: 395, Mismatches: 33, Indels: 41
0.84 0.07 0.09
Matches are distributed among these distances:
42 37 0.09
43 1 0.00
45 1 0.00
46 1 0.00
48 1 0.00
49 72 0.18
50 5 0.01
51 8 0.02
52 267 0.68
53 2 0.01
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.22
Consensus pattern (52 bp):
AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGA
Found at i:762180 original size:78 final size:75
Alignment explanation
Indices: 762072--762570 Score: 572
Period size: 78 Copynumber: 6.6 Consensus size: 75
762062 TGATTTGGTG
** * * *
762072 AGATAGGGATTTGTAGTGATAGAGAAAGATAGGGATTAATAATGATAGAGGAAGATGGAGAAATG
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGA--AATAGTGATAGAGGAAGATGG-GATATG
762137 TAGTGAT-GAAGGA
63 TAGTGATAG-AGGA
*
762150 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAAT-GTGATAGAGGAAGATAGAGATATGTA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATAGTGATAGAGGAAGAT-GGGATATGTA
762214 GTGATAGAGGA
65 GTGATAGAGGA
* * * * *
762225 AGATAGAGATATGTAGTGATGGAGGAAGATAAGGAAATGTAGTGATAGAGGAAGATAGAGATATG
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAA--TAGTGATAGAGGAAGAT-GGGATATG
762290 TAGTGATAGAGGA
63 TAGTGATAGAGGA
* ** *
762303 AGATATGGATCTGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATG
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAA--TAGTGATAGAGGAAGAT-GGGATATG
762368 TAGTGATAGAGGA
63 TAGTGATAGAGGA
* *
762381 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGG--ATAGAG-TA-A-G-ATA-GGGATATGTAG
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATAGTGATAGAGGAAGATGGGATATGTAG
762439 TGATAGAGGA
66 TGATAGAGGA
** *
762449 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGATTTGTAGTGATAGAGGAAGATAGGGATTTG
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGA--AATAGTGATAGAGGAAGAT-GGGATATG
762514 TAGTGATAGAGGA
63 TAGTGATAGAGGA
* *
762527 AGATA-GGAAA-AT-GTGATAGAGGAAGATAGAGAAATGTAGTGATA
1 AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAA--TAGTGATA
762571 TAGTTAGATA
Statistics
Matches: 373, Mismatches: 31, Indels: 37
0.85 0.07 0.08
Matches are distributed among these distances:
68 54 0.14
70 2 0.01
71 1 0.00
72 5 0.01
73 4 0.01
74 5 0.01
75 91 0.24
76 9 0.02
77 6 0.02
78 196 0.53
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.22
Consensus pattern (75 bp):
AGATAGGGAAATGTAGTGATAGAGGAAGATAGGGAAATAGTGATAGAGGAAGATGGGATATGTAG
TGATAGAGGA
Found at i:762417 original size:16 final size:16
Alignment explanation
Indices: 762398--762433 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
762388 GAAATGTAGT
762398 GATAGAGGAAGATAGG
1 GATAGAGGAAGATAGG
*
762414 GATAGAGTAAGATAGG
1 GATAGAGGAAGATAGG
762430 GATA
1 GATA
762434 TGTAGTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (16 bp):
GATAGAGGAAGATAGG
Found at i:762418 original size:120 final size:120
Alignment explanation
Indices: 762294--762533 Score: 417
Period size: 120 Copynumber: 2.0 Consensus size: 120
762284 GATATGTAGT
* *
762294 GATAGAGGAAGATATGGATCTGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGAT
1 GATAGAGGAAGATAGGGATATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGAT
762359 AGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGATAGG
66 AGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGATAGG
*
762414 GATAGAGTAAGATAGGGATATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGAT
1 GATAGAGGAAGATAGGGATATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGAT
** **
762479 AGGGATTTGTAGTGATAGAGGAAGATAGGGATTTGTAGTGATAGAGGAAGATAGG
66 AGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGATAGG
762534 AAAATGTGAT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 113 1.00
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (120 bp):
GATAGAGGAAGATAGGGATATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGAT
AGGGAAATGTAGTGATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGATAGG
Found at i:762419 original size:42 final size:42
Alignment explanation
Indices: 762372--762457 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
762362 GAAATGTAGT
762372 GATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGATAGG
1 GATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGATAGG
* *
762414 GATAGAGTAAGATAGGGATATGTAGTGATAGAGGAAGATAGG
1 GATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGATAGG
762456 GA
1 GA
762458 AATGTAGTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.19
Consensus pattern (42 bp):
GATAGAGGAAGATAGGGAAATGTAGTGATAGAGGAAGATAGG
Found at i:762580 original size:26 final size:26
Alignment explanation
Indices: 762414--762570 Score: 221
Period size: 26 Copynumber: 6.2 Consensus size: 26
762404 GGAAGATAGG
* *
762414 GATAGAGTAAGATAGGGATATGTAGT
1 GATAGAGGAAGATAGGGAAATGTAGT
762440 GATAGAGGAAGATAGGGAAATGTAGT
1 GATAGAGGAAGATAGGGAAATGTAGT
**
762466 GATAGAGGAAGATAGGGATTTGTAGT
1 GATAGAGGAAGATAGGGAAATGTAGT
**
762492 GATAGAGGAAGATAGGGATTTGTAGT
1 GATAGAGGAAGATAGGGAAATGTAGT
*
762518 GATAGAGGAAGATA-GGAAA-AT-GT
1 GATAGAGGAAGATAGGGAAATGTAGT
*
762541 GATAGAGGAAGATAGAGAAATGTAGT
1 GATAGAGGAAGATAGGGAAATGTAGT
762567 GATA
1 GATA
762571 TAGTTAGATA
Statistics
Matches: 119, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
23 16 0.13
24 5 0.04
25 4 0.03
26 94 0.79
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.23
Consensus pattern (26 bp):
GATAGAGGAAGATAGGGAAATGTAGT
Found at i:765099 original size:43 final size:43
Alignment explanation
Indices: 765038--765152 Score: 185
Period size: 43 Copynumber: 2.7 Consensus size: 43
765028 TTACCAAAAT
*
765038 ATGATGATATCAAATATTGAAAATTGATTTATACAGAGGATAC
1 ATGATGATATCAAATATTGAGAATTGATTTATACAGAGGATAC
* * *
765081 ATGATGATATAAAATATTGAGAATTGATCTATACAGAGGATAT
1 ATGATGATATCAAATATTGAGAATTGATTTATACAGAGGATAC
*
765124 ATGATAATATCAAATATTGAGAATTGATT
1 ATGATGATATCAAATATTGAGAATTGATT
765153 ATCATTTTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (43 bp):
ATGATGATATCAAATATTGAGAATTGATTTATACAGAGGATAC
Found at i:765902 original size:161 final size:161
Alignment explanation
Indices: 765637--766032 Score: 603
Period size: 161 Copynumber: 2.5 Consensus size: 161
765627 CGGTCCACCA
* * *
765637 ACAGTTTCCAATCATTTTCTTCGCAAAGGATGAACATATTGGAATGAAATTTGGTATACAGGTTT
1 ACAGTTTCCACTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTT
* * *
765702 ATCATGATAATATCTAGGTCAAGTTTAATATTGGGTACAATCAAGTAATATTCTACAGAGTTATG
66 ATCATGATAATATCTAGGTCAAGGTCAATATTGGGTACAATCAAGTAATATTCGACAGAGTTATG
*
765767 GCCCTTGGACGTAGAAAAATTCCAGTTATTT
131 GCCCTTGGACATAGAAAAATTCCAGTTATTT
* * *
765798 ACAGTTTCCGCTCATTTTCTTCACAGAGGATGAACATATTGAAATGAAATTTGATATACAGGTTT
1 ACAGTTTCCACTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTT
* * ** *
765863 ATCATGATAATATCTAGGTCAAGGTCGATATTTGGTACAATTGAGTAATTTTCGACAGAGTTATG
66 ATCATGATAATATCTAGGTCAAGGTCAATATTGGGTACAATCAAGTAATATTCGACAGAGTTATG
*
765928 GCCCTTGGATATAGAAAAATTCCAGTTATTT
131 GCCCTTGGACATAGAAAAATTCCAGTTATTT
* * * *
765959 GCAGTTTGCACTCATTTTCTTCGCAGAGGATGAACATATTGATATGAAATTTGGTATACAGCTTT
1 ACAGTTTCCACTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTT
*
766024 GTCATGATA
66 ATCATGATA
766033 TTGGGTATGA
Statistics
Matches: 211, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
161 211 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (161 bp):
ACAGTTTCCACTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTT
ATCATGATAATATCTAGGTCAAGGTCAATATTGGGTACAATCAAGTAATATTCGACAGAGTTATG
GCCCTTGGACATAGAAAAATTCCAGTTATTT
Found at i:769265 original size:41 final size:41
Alignment explanation
Indices: 769208--769455 Score: 406
Period size: 41 Copynumber: 6.0 Consensus size: 41
769198 TTTTTTTAAA
769208 GTAACATTGAATATGGTAGTCAAAAATTTTAAAATTTATGT
1 GTAACATTGAATATGGTAGTCAAAAATTTTAAAATTTATGT
* *
769249 GTAACATTGAATATGGTAGTCAAAATTTTTAAAAATTATGT
1 GTAACATTGAATATGGTAGTCAAAAATTTTAAAATTTATGT
*
769290 GTAACATTGAATATGGTAGTCTAAAATTTTAAAATTTATGT
1 GTAACATTGAATATGGTAGTCAAAAATTTTAAAATTTATGT
* *
769331 GTAACATATTGAATATGGTAGTCAAAAATTTTAAAATCTATGC
1 GTAAC--ATTGAATATGGTAGTCAAAAATTTTAAAATTTATGT
* *
769374 GTAACATTGAATATGGTAGTCAAAAATTTTGAAATTTTTGT
1 GTAACATTGAATATGGTAGTCAAAAATTTTAAAATTTATGT
*
769415 GTAACATTGAATATGGTAGTCAAAATTTTTAAAATTTATGT
1 GTAACATTGAATATGGTAGTCAAAAATTTTAAAATTTATGT
769456 ATAGTGTTAC
Statistics
Matches: 190, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
41 152 0.80
43 38 0.20
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (41 bp):
GTAACATTGAATATGGTAGTCAAAAATTTTAAAATTTATGT
Found at i:769435 original size:125 final size:125
Alignment explanation
Indices: 769213--769455 Score: 416
Period size: 125 Copynumber: 1.9 Consensus size: 125
769203 TTAAAGTAAC
* * *
769213 ATTGAATATGGTAGTCAAAAATTTTAAAATTTATGTGTAACATTGAATATGGTAGTCAAAATTTT
1 ATTGAATATGGTAGTCAAAAATTTTAAAATCTATGCGTAACATTGAATATGGTAGTCAAAAATTT
769278 TAAAAATTATGTGTAACATTGAATATGGTAGTCTAAAA-TTTTAAAATTTATGTGTAACAT
66 TAAAAATTATGTGTAACATTGAATATGGTAGTC-AAAATTTTTAAAATTTATGTGTAACAT
769338 ATTGAATATGGTAGTCAAAAATTTTAAAATCTATGCGTAACATTGAATATGGTAGTCAAAAATTT
1 ATTGAATATGGTAGTCAAAAATTTTAAAATCTATGCGTAACATTGAATATGGTAGTCAAAAATTT
* * *
769403 TGAAATTTTTGTGTAACATTGAATATGGTAGTCAAAATTTTTAAAATTTATGT
66 TAAAAATTATGTGTAACATTGAATATGGTAGTCAAAATTTTTAAAATTTATGT
769456 ATAGTGTTAC
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
124 4 0.04
125 107 0.96
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (125 bp):
ATTGAATATGGTAGTCAAAAATTTTAAAATCTATGCGTAACATTGAATATGGTAGTCAAAAATTT
TAAAAATTATGTGTAACATTGAATATGGTAGTCAAAATTTTTAAAATTTATGTGTAACAT
Found at i:780764 original size:26 final size:26
Alignment explanation
Indices: 780709--780764 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
780699 GCTGAAAAAG
* *
780709 AAAAGCAAATCAAATAAAAAAAACCC
1 AAAAGCAAAGCAAATAAAAAAAACCA
780735 AAAAGCAAAGCAAA-AAACAGAAAA-CA
1 AAAAGCAAAGCAAATAAA-A-AAAACCA
780761 AAAA
1 AAAA
780765 TAAACCACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 3 0.12
26 19 0.73
27 4 0.15
ACGTcount: A:0.73, C:0.16, G:0.07, T:0.04
Consensus pattern (26 bp):
AAAAGCAAAGCAAATAAAAAAAACCA
Found at i:780877 original size:16 final size:16
Alignment explanation
Indices: 780858--780905 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
780848 ACACCCCCCG
780858 CAAAAAAAAACAACAA
1 CAAAAAAAAACAACAA
* * *
780874 CAAAAAACACCAAAAA
1 CAAAAAAAAACAACAA
* *
780890 CAAACAAAAGCAACAA
1 CAAAAAAAAACAACAA
780906 ATGTACAACG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.75, C:0.23, G:0.02, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAACAACAA
Found at i:786785 original size:2 final size:2
Alignment explanation
Indices: 786778--786832 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
786768 TGTATACAAC
786778 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
786820 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
786833 TTATTTTCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:788966 original size:43 final size:43
Alignment explanation
Indices: 788905--788989 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
788895 GTGTCGCCTT
788905 AACTCTAGCATAATGTTTGAGCGCAAAGATTAGTATTTATGTG
1 AACTCTAGCATAATGTTTGAGCGCAAAGATTAGTATTTATGTG
* * *
788948 AACTCTGGCATAATGTTTGAGCGCAATGATTATTATTTATGT
1 AACTCTAGCATAATGTTTGAGCGCAAAGATTAGTATTTATGT
788990 TATAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (43 bp):
AACTCTAGCATAATGTTTGAGCGCAAAGATTAGTATTTATGTG
Found at i:796116 original size:57 final size:57
Alignment explanation
Indices: 796027--796197 Score: 288
Period size: 57 Copynumber: 3.0 Consensus size: 57
796017 TTTTTTACAT
796027 TTACATTTCGCGAGGTTTTGAATTCGCTCGAACACAGTTGTTTTTAAGAGATAAAAA
1 TTACATTTCGCGAGGTTTTGAATTCGCTCGAACACAGTTGTTTTTAAGAGATAAAAA
* * * *
796084 TTACATTTCGCGAGGTTTTGAATTCGCCCGAACTCAGTTGTTTTTAAAAGATAAAGA
1 TTACATTTCGCGAGGTTTTGAATTCGCTCGAACACAGTTGTTTTTAAGAGATAAAAA
*
796141 TTACATTTCGCGAGGTTTTGAATTCGCTCGAACACAGTTGATGTTTAAGAGATAAAA
1 TTACATTTCGCGAGGTTTTGAATTCGCTCGAACACAGTTG-TTTTTAAGAGATAAAA
796198 CGTACCATTA
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 91 0.88
58 13 0.12
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (57 bp):
TTACATTTCGCGAGGTTTTGAATTCGCTCGAACACAGTTGTTTTTAAGAGATAAAAA
Found at i:826303 original size:70 final size:70
Alignment explanation
Indices: 826220--826361 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
826210 TACTTGTGTA
*
826220 TCATTGGTTTTAAATATTTTTTCCTGAGTGGCAATATTTTTTCAATGCTACAAATTAATAAAAAT
1 TCATTGGTTTTAAATATTTTTCCCTGAGTGGCAATATTTTTTCAATGCTACAAATTAATAAAAAT
826285 CGTTT
66 CGTTT
826290 TCATTGGTTTTAAATATTTTTCCCTGAGTGGCAATATTTTTTCAATGCTACAAATTAATAAAAAT
1 TCATTGGTTTTAAATATTTTTCCCTGAGTGGCAATATTTTTTCAATGCTACAAATTAATAAAAAT
826355 CGTTT
66 CGTTT
826360 TC
1 TC
826362 CAAAACGATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (70 bp):
TCATTGGTTTTAAATATTTTTCCCTGAGTGGCAATATTTTTTCAATGCTACAAATTAATAAAAAT
CGTTT
Found at i:826652 original size:45 final size:45
Alignment explanation
Indices: 826597--826688 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 45
826587 TTCATTGTAT
*
826597 TAGACATTTTTGTACCCATTAAAAATGTT-TCAATTTTCATGCACA
1 TAGACATTTTTGTACCCATTAAAAATGTTAT-AAATTTCATGCACA
* *
826642 TAGACGTTTTTGTACCCATTAAAAATGTTATAAATTTCATGTACA
1 TAGACATTTTTGTACCCATTAAAAATGTTATAAATTTCATGCACA
826687 TA
1 TA
826689 TATATGTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 42 0.98
46 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (45 bp):
TAGACATTTTTGTACCCATTAAAAATGTTATAAATTTCATGCACA
Found at i:826699 original size:45 final size:45
Alignment explanation
Indices: 826597--826699 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
826587 TTCATTGTAT
* *
826597 TAGACATTTTTGTACCCATTAAAAATGTTTCAATTTTCATGCACA
1 TAGACATGTTTGTACCCATTAAAAATGTTTCAAATTTCATGCACA
* * *
826642 TAGACGTTTTTGTACCCATTAAAAATGTTAT-AAATTTCATGTACA
1 TAGACATGTTTGTACCCATTAAAAATGTT-TCAAATTTCATGCACA
* *
826687 TATATATGTTTGT
1 TAGACATGTTTGT
826700 GCACGTTCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 49 0.98
46 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (45 bp):
TAGACATGTTTGTACCCATTAAAAATGTTTCAAATTTCATGCACA
Found at i:835765 original size:32 final size:31
Alignment explanation
Indices: 835728--835840 Score: 142
Period size: 32 Copynumber: 3.6 Consensus size: 31
835718 CAGTCTGATT
*
835728 TGAAACCGATTTTGTAG-AAATAAAAATATTA
1 TGAAACCTATTTTGT-GCAAATAAAAATATTA
*
835759 GTGAAACCTATTTTGTGCAAATAAAAATATCA
1 -TGAAACCTATTTTGTGCAAATAAAAATATTA
* *
835791 --AACCCTATTTTGTGCATATAAAAATATTA
1 TGAAACCTATTTTGTGCAAATAAAAATATTA
835820 TTGAAACCTATTTTGTGCAAA
1 -TGAAACCTATTTTGTGCAAA
835841 AACATATTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
29 26 0.37
31 1 0.01
32 43 0.61
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (31 bp):
TGAAACCTATTTTGTGCAAATAAAAATATTA
Found at i:835842 original size:29 final size:28
Alignment explanation
Indices: 835749--835860 Score: 109
Period size: 29 Copynumber: 3.7 Consensus size: 28
835739 TTGTAGAAAT
835749 AAAAATATTAGTGAAACCTATTTTGTGCA
1 AAAAATATTA-TGAAACCTATTTTGTGCA
* *
835778 AATAAA-AATATCAAACCCTATTTTGTGCATA
1 AA-AAATATTATGAAA-CCTATTTTGTGC--A
835809 TAAAAATATTATTGAAACCTATTTTGTGCA
1 -AAAAATATTA-TGAAACCTATTTTGTGCA
*
835839 AAAACATATTACTGGAACCTAT
1 AAAA-ATATTA-TGAAACCTAT
835861 AAATCATGGA
Statistics
Matches: 69, Mismatches: 6, Indels: 15
0.77 0.07 0.17
Matches are distributed among these distances:
28 4 0.06
29 21 0.30
30 19 0.28
31 4 0.06
32 17 0.25
33 4 0.06
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (28 bp):
AAAAATATTATGAAACCTATTTTGTGCA
Found at i:835858 original size:30 final size:32
Alignment explanation
Indices: 835728--835860 Score: 136
Period size: 32 Copynumber: 4.3 Consensus size: 32
835718 CAGTCTGATT
* * *
835728 TGAAACCGATTTTGTAG-AAATAAAAATATTAG
1 TGAAACCTATTTTGT-GCATATAAAAATATTAC
*
835760 TGAAACCTATTTTGTGCAAATAAAAATA-T-C
1 TGAAACCTATTTTGTGCATATAAAAATATTAC
*
835790 --AAACCCTATTTTGTGCATATAAAAATATTAT
1 TGAAA-CCTATTTTGTGCATATAAAAATATTAC
*
835821 TGAAACCTATTTTGTGCA-A-AAACATATTAC
1 TGAAACCTATTTTGTGCATATAAAAATATTAC
*
835851 TGGAACCTAT
1 TGAAACCTAT
835861 AAATCATGGA
Statistics
Matches: 88, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
28 3 0.03
29 22 0.25
30 19 0.22
31 3 0.03
32 38 0.43
33 3 0.03
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (32 bp):
TGAAACCTATTTTGTGCATATAAAAATATTAC
Found at i:844949 original size:2 final size:2
Alignment explanation
Indices: 844942--845002 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
844932 TTAATATACA
*
844942 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
844984 AC AG AG AG AA AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
845003 AAATAAGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.54, C:0.02, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:845648 original size:60 final size:61
Alignment explanation
Indices: 845526--845701 Score: 178
Period size: 60 Copynumber: 2.9 Consensus size: 61
845516 ATATGTATAT
* * * * * *
845526 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTGATTGTTAGGTTT-TTTCTTTCTTA
1 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTCTTCCCTA
845586 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTT-TTCCCTA
1 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTCTTCCCTA
* * * * * *
845646 TTATTAGGGTTTTCCGTTTTTCAACGGAAAACCCTT-CTGTTATTCTACTGTTTCTT
1 TTA--A-GGTCTTCCG-TTTCCAACGGAAGA-CCTTATTGTTATTCTTCGGTTTCTT
845702 ATTATTATTT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
60 53 0.54
61 3 0.03
62 1 0.01
63 8 0.08
64 29 0.30
65 4 0.04
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (61 bp):
TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTCTTCCCTA
Found at i:859715 original size:92 final size:92
Alignment explanation
Indices: 859558--859738 Score: 353
Period size: 92 Copynumber: 2.0 Consensus size: 92
859548 TAAAAGAAGA
*
859558 TCTTATGCAATAAGTATTTGTTACTTGTTATTTTAAAGCTTTAATGGGCAGGTGATGTGTTGTCT
1 TCTTATGCAATAAGTATTTGTTACTTGTTATTTTAAAGCTCTAATGGGCAGGTGATGTGTTGTCT
859623 TTGTTAATAAATCAGTGAAACAAATGT
66 TTGTTAATAAATCAGTGAAACAAATGT
859650 TCTTATGCAATAAGTATTTGTTACTTGTTATTTTAAAGCTCTAATGGGCAGGTGATGTGTTGTCT
1 TCTTATGCAATAAGTATTTGTTACTTGTTATTTTAAAGCTCTAATGGGCAGGTGATGTGTTGTCT
859715 TTGTTAATAAATCAGTGAAACAAA
66 TTGTTAATAAATCAGTGAAACAAA
859739 CGTTTAATTA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (92 bp):
TCTTATGCAATAAGTATTTGTTACTTGTTATTTTAAAGCTCTAATGGGCAGGTGATGTGTTGTCT
TTGTTAATAAATCAGTGAAACAAATGT
Found at i:868204 original size:2 final size:2
Alignment explanation
Indices: 868197--868247 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
868187 AATTGAACAT
868197 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
868239 TC TC TC TC T
1 TC TC TC TC T
868248 GCATGTTGTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:868822 original size:20 final size:19
Alignment explanation
Indices: 868771--868824 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
868761 TCTGTAGCTT
*
868771 GTGTCTTGGTGACTTCAAA
1 GTGTCTTGGTGACTTAAAA
**
868790 GTGTCTTTATGACTTAATAA
1 GTGTCTTGGTGACTTAA-AA
868810 GTGTCTTGGTGACTT
1 GTGTCTTGGTGACTT
868825 TTAGCTGACC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (19 bp):
GTGTCTTGGTGACTTAAAA
Found at i:870312 original size:163 final size:159
Alignment explanation
Indices: 870092--870550 Score: 422
Period size: 166 Copynumber: 2.8 Consensus size: 159
870082 TTGTGACCCC
* * * ** *
870092 ATCCTACCCCCCGGGAATCATGATTTGAATAAACTTGAATT-ACTACCTGCCGATGCTTCCAAAC
1 ATCCTA-CCCCAGGG-ATCATGATTTTAA-AACCTTGAATTCACTACCTGAGGATGCTTCCACAC
* * * * *
870156 AAGTTTCAGCTTTCCTGCCCAAATGGTTGTTGAGAAGA-TTTTTAAAGATTTAGTCTATATTTTC
63 AAGTTTCAACTTTCCTG-CCAAATGGTTCTTGAGAAGAGTTTTTAAAAATTTACTCTATATATTC
*
870220 CTAAATAAAAAAAT-AACCCCCCATCGTTGCTCC-
127 CTAAAT-AAAAAATCAACCCCCCATCGTGGC-CCT
* *
870253 ATCCTACCCTCAGGTATCATGATTTTAACAACCTTGAATCTACACTACCTGAGGATGCTTCTACA
1 ATCCTACCC-CAGGGATCATGATTTTAA-AACCTTGAAT-T-CACTACCTGAGGATGCTTCCACA
* * *
870318 TAAGTTTCAACTTTCCTTGCCTAATGGTTTTTGAGAAGAAGTTTTTAAAAATTTACTCTATATAT
62 CAAGTTTCAACTTTCC-TGCCAAATGGTTCTTGAGAAG-AGTTTTTAAAAATTTACTCTATATAT
** ** ** *
870383 TCCTATGTAAAAGTTCGCCCCCCCCATTGTGGCCCT
125 TCCTAAATAAAAAATC-AACCCCCCATCGTGGCCCT
* * * * *
870419 ATCCTACCCCCGGGAGTTATGATTTTCAAACCTTTAAATTTGCACTACCTGAGGATGCTTTCACA
1 ATCCTACCCCAGGGA-TCATGATTTTAAAACC-TTGAA-TT-CACTACCTGAGGATGCTTCCACA
* * *
870484 CAAGTTTCAACTTTCCTGGCCAAATGGTTCTTGAGAAGAAGATTTTAAAAAATTTATTCTTTATA
62 CAAGTTTCAACTTTCCT-GCCAAATGGTTCTTGAGAAG-AG-TTTTTAAAAATTTACTCTATATA
870549 TT
124 TT
870551 TTTATTTCCT
Statistics
Matches: 245, Mismatches: 38, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
160 24 0.10
161 10 0.04
163 49 0.20
164 8 0.03
165 38 0.16
166 93 0.38
167 23 0.09
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (159 bp):
ATCCTACCCCAGGGATCATGATTTTAAAACCTTGAATTCACTACCTGAGGATGCTTCCACACAAG
TTTCAACTTTCCTGCCAAATGGTTCTTGAGAAGAGTTTTTAAAAATTTACTCTATATATTCCTAA
ATAAAAAATCAACCCCCCATCGTGGCCCT
Found at i:870921 original size:16 final size:16
Alignment explanation
Indices: 870892--870932 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
870882 AGAGAGACAA
* *
870892 ACGGATAGAAGGACGG
1 ACGGACAGACGGACGG
870908 ACGGACAGACGGACGG
1 ACGGACAGACGGACGG
870924 AC-GACAGAC
1 ACGGACAGAC
870933 AAAATGTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.37, C:0.22, G:0.39, T:0.02
Consensus pattern (16 bp):
ACGGACAGACGGACGG
Found at i:872332 original size:21 final size:21
Alignment explanation
Indices: 872308--872349 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
872298 ATTTTGATGA
* *
872308 GATATAATTTACACTTTAAGG
1 GATATAACTTACACTTGAAGG
872329 GATATAACTTACACTTGAAGG
1 GATATAACTTACACTTGAAGG
872350 CCTCATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (21 bp):
GATATAACTTACACTTGAAGG
Found at i:874080 original size:166 final size:162
Alignment explanation
Indices: 873715--874082 Score: 373
Period size: 164 Copynumber: 2.2 Consensus size: 162
873705 CTTGTTTAGT
* *
873715 AGCATTCTCAGGTAGTGTAAATTTGAAGTTGTGAAAATCAAGACCCCCGGGGGTAAGGTTGGGCC
1 AGCATTCTCAGGTAGTGTAAA-TTAAAGTTGTGAAAATCAAGACCCCCGAGGGTAAGGTTGGGCC
** * *
873780 AAAATGGGGGTCGAATTTTTACATAGGAATATATAGTGTAAATCTTTTAAAAAAATTTCTCAGAA
65 AAAATGGACGTCGAATTTTTACATAGGAATATATAGAGTAAATCTTTGAAAAAAATTTCTCAGAA
*
873845 ACCATAAGGCCAGGAAAGCTGAAACTTACATGAA
130 ACCATAA-GCCAGGAAAACTGAAACTTACATGAA
* * * * * * *
873879 AGCATTCTTAGGTAGTGTAAATTATTAGCTGTGAAAATCATGACCCTCGAGGGTAGGGTTGGGCT
1 AGCATTCTCAGGTAGTGTAAATTA-AAGTTGTGAAAATCAAGACCCCCGAGGGTAAGGTTGGGCC
* * * *
873944 ACAATGGAACGTCGACTTTTTACATAGGAATATATAGAGTAAATC-TTGACAAATCATTTTCTCA
65 AAAATGG-ACGTCGAATTTTTACATAGGAATATATAGAGTAAATCTTTGA-AAA-AAATTTCTCA
** * * ** *
874008 -AGAGTCATTTAA-TCGGGAAAACTGAAACTTATGTGGA
127 GA-AACCA--TAAGCCAGGAAAACTGAAACTTACATGAA
* * *
874045 AGCATCCTCAGTTAGTGTAGATTCAAAGTTGTGAAAAT
1 AGCATTCTCAGGTAGTGTAAATT-AAAGTTGTGAAAAT
874083 GGATCTCGGG
Statistics
Matches: 165, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
163 2 0.01
164 62 0.38
165 37 0.22
166 60 0.36
167 1 0.01
168 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (162 bp):
AGCATTCTCAGGTAGTGTAAATTAAAGTTGTGAAAATCAAGACCCCCGAGGGTAAGGTTGGGCCA
AAATGGACGTCGAATTTTTACATAGGAATATATAGAGTAAATCTTTGAAAAAAATTTCTCAGAAA
CCATAAGCCAGGAAAACTGAAACTTACATGAA
Found at i:879899 original size:168 final size:168
Alignment explanation
Indices: 879498--879962 Score: 648
Period size: 170 Copynumber: 2.7 Consensus size: 168
879488 GTTGCATAGT
* * *
879498 TATGATGTCCATGCA-GCCCTCTACCAAAATTGTGGAATTCATGACCCCTGTGTTAAGGGTTCAG
1 TATGATGTCCATG-AGGCCCTCTA-CAAAATTGTGAAATTCATGACCCCTGGGTTAGGGGTTCAG
* * * * *
879562 ACTCTAGGGTGGGGCCAGTATGGCCATATAGTAAATATGTATTAAATCTTAGAAAATATTCCTCT
64 GCTCTAGGGTGGGACCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCCTCT
*** * * *
879627 CTACTCCCATATTTGTTTTTGTTCAAAACTAAATGCCTAAA
129 CTACTCCCA-ATGCATATTTGTTAAAAACTAAATGCATAAA
*
879668 TATGATGTCCATGAGGCCCTCTACAAAAGTTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGG
1 TATGATGTCCATGAGGCCCTCTACAAAA-TTGTGAAATTCATGACCCCTGGGTTAGGGGTTCAGG
* *
879733 CTCTAGGGTGGGACCAATATGGCCATATGGTAAAAATGTATTACATCTTAGAAAATCTTCCTCTC
65 CTCTAGGGTGGGACCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCCTCTC
*
879798 TACTCCC-ATGCATATTTGTTAAAAACTAAATGCAT-GA
130 TACTCCCAATGCATATTTGTTAAAAACTAAATGCATAAA
*
879835 TCATGATGTCTATGAGGCCCTCTACTAAAATTGTGAAATTCATGACCCCTGGGTTAGGGGTTCAG
1 T-ATGATGTCCATGAGGCCCTCTAC-AAAATTGTGAAATTCATGACCCCTGGGTTAGGGGTTCAG
* *
879900 GCTCTAGGATGGGACCAATATGGCCATATATAGTAAAAATGTATTAAATCTTAAAAAATCTTC
64 GCTCTAGGGTGGGACCAATATGGCC--ATATAGTAAAAATGTATTAAATCTTAGAAAATCTTC
879963 TCTACTCCCA
Statistics
Matches: 265, Mismatches: 24, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
167 2 0.01
168 102 0.38
169 10 0.04
170 151 0.57
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (168 bp):
TATGATGTCCATGAGGCCCTCTACAAAATTGTGAAATTCATGACCCCTGGGTTAGGGGTTCAGGC
TCTAGGGTGGGACCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCCTCTCT
ACTCCCAATGCATATTTGTTAAAAACTAAATGCATAAA
Found at i:880063 original size:167 final size:167
Alignment explanation
Indices: 879499--880067 Score: 490
Period size: 170 Copynumber: 3.4 Consensus size: 167
879489 TTGCATAGTT
* * * * * * *
879499 ATGATGTCCATGCAG-CCCTCTACCAAAATTGTGGAATTCATGACCCCTGTGTTAAGGGTTCAGA
1 ATGATGTCCATG-AGACCCTCTACTAAAATTATGAAATTCATGACCCCTGGGTCAGGGGTTCAGG
* * * * * *
879563 CTCTAGGGTGGGGCCAGTATGGCCATATAGTAAATATGTATTAAATCTTAGAAAATATTCCTCTC
65 CTCTAGGATGGGACCAATATGGCCATATAGTAAAAATGTATTAAATCTTAAAAAATCTT-CTCTC
* ** * ** *** ** * *
879628 TACTCCCATATTTGTTTTTGTTCAAAACTAAATGCCTAAAT-
129 TACTCCCACA--CATATGGGCAAAAAACTAAACACAT-GATC
* *
879669 ATGATGTCCATGAGGCCCTCTAC-AAAAGTTGTGAAATTCATGACCCCTGGGTCAGGGGTTCAGG
1 ATGATGTCCATGAGACCCTCTACTAAAA-TTATGAAATTCATGACCCCTGGGTCAGGGGTTCAGG
* * * *
879733 CTCTAGGGTGGGACCAATATGGCCATATGGTAAAAATGTATTACATCTTAGAAAATCTTCCTCTC
65 CTCTAGGATGGGACCAATATGGCCATATAGTAAAAATGTATTAAATCTTAAAAAATCTT-CTCTC
** ** ** **
879798 TACTCCCATGCATATTTGTTAAAAACTAAATGCATGATC
129 TACTCCCACACATATGGGCAAAAAACTAAACACATGATC
* * * *
879837 ATGATGTCTATGAGGCCCTCTACTAAAATTGTGAAATTCATGACCCCTGGGTTAGGGGTTCAGGC
1 ATGATGTCCATGAGACCCTCTACTAAAATTATGAAATTCATGACCCCTGGGTCAGGGGTTCAGGC
879902 TCTAGGATGGGACCAATATGGCCATATATAGTAAAAATGTATTAAATCTTAAAAAATC-T-TCTC
66 TCTAGGATGGGACCAATATGGCC--ATATAGTAAAAATGTATTAAATCTTAAAAAATCTTCTCTC
* * * * *
879965 TACTCCCACACATGTGGGCAAAAAACTGAACACGTGGTT
129 TACTCCCACACATATGGGCAAAAAACTAAACACATGATC
* * *
880004 ATGATGTCCACT-A-ACTCCTCTA-TCGAAATTATGACATTCATGTA-TCCTGGGTCAGGGGTTC
1 ATGATGTCCA-TGAGAC-CCTCTACT-AAAATTATGAAATTCATG-ACCCCTGGGTCAGGGGTTC
880065 AGG
62 AGG
880068 ACATGAGGGG
Statistics
Matches: 345, Mismatches: 44, Indels: 23
0.84 0.11 0.06
Matches are distributed among these distances:
166 2 0.01
167 81 0.23
168 102 0.30
169 11 0.03
170 149 0.43
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (167 bp):
ATGATGTCCATGAGACCCTCTACTAAAATTATGAAATTCATGACCCCTGGGTCAGGGGTTCAGGC
TCTAGGATGGGACCAATATGGCCATATAGTAAAAATGTATTAAATCTTAAAAAATCTTCTCTCTA
CTCCCACACATATGGGCAAAAAACTAAACACATGATC
Found at i:888129 original size:418 final size:410
Alignment explanation
Indices: 887156--888142 Score: 1238
Period size: 414 Copynumber: 2.4 Consensus size: 410
887146 GAGTTACCTT
*
887156 AATGCAGTTTTGAAGATGGATATTCACCAAGATGTCAATCACTGTAAAAAGACTACATATCACCT
1 AATGCAGTTTTGAAGATGGATATTCACC-AGAAGTCAATCACTGTAAAAAGACTACATATCACCT
* * * * * **
887221 TACACTCATTAGGAGAC-TAGAGGTCACCTAAGGTCTGAAATCAATAAAGTTTTAATATTTTTAT
65 TACATTCATAAGG-GACATCGAGGTCACCTTAGGTCCGAAATCAATAAAGTAATAAT-TTTTTAT
* * * ** * *
887285 CTAAAGGGAGACCAGAGGCCACCTTATATCATTTTACAAGATGGGACAATTCACCAGAATTTAGC
128 CTATAGGGAGACTAGAGGTCACCTTATGCCATTTTACAAGATGGGACAATTCACCAGAATTCAAC
* * *
887350 CGCTGTAGGGAGACCAGTGGTCACCTTAAGTGGAAAATCCATTAGGAGACCAGAGGTAACCTTAG
193 CGCTGTAGGGAGACCAGGGGTCACCTTAAGTAGAAAATCCATTAAGAGACCAGAGGTAACCTTAG
* * * *
887415 GTCCTACACCAGTAAAATAACTTTGTTAATCTAAAGAGTACGGGTCACTTTAAGTGAACTTTCCA
258 GCCCTACACCAATAAAATAACTTTGTTAATCTAAAGAGCACGGGTCACTTAAAGTGAACTTTCCA
* * * * *
887480 CAATAACAATAGGTTATCTTAGGTCCTACATGTACATTAATGAAGTACTGGAATAAGTTTGTAAA
323 CAATAACAAGAGGTCATCTTAGGTCCTACA-GTAC--TAATGAAATAATGAAATAAGTTTGTAAA
*
887545 TCTATAGGAAGACAAGAGGTCATTTA
385 TCTATAAGAAGACAAGAGGTCATTTA
* * * *
887571 AATGCAGTTCTGAAGATGGATATTCACCAGAATCTCAATCACTGTAAAAAGATTACATATCAGCT
1 AATGCAGTTTTGAAGATGGATATTCACCAGAA-GTCAATCACTGTAAAAAGACTACATATCACCT
* * *
887636 TACATTCATAA-GGA-AACGAGCTCACCTTAGGTCCGAAATCAATAAAGTAATAATTTCTTATCT
65 TACATTCATAAGGGACATCGAGGTCACCTTAGGTCCGAAATCAATAAAGTAATAATTTTTTATCT
* * *
887699 ATAGAGAGACTAGAGGTCACCTTATGCCATTTTACATGATGGGACAATTCACCGGAATTCAACCG
130 ATAGGGAGACTAGAGGTCACCTTATGCCATTTTACAAGATGGGACAATTCACCAGAATTCAACCG
* *
887764 CTGTGGGGGGGGGGGGGACCAGGGGTCACCTTAAGTAGAAAATCCATTAAGAGACCAGAGGTAAC
195 CTGT-------AGGGAGACCAGGGGTCACCTTAAGTAGAAAATCCATTAAGAGACCAGAGGTAAC
* * * *
887829 CTTAGGCCCTA-AGCCAATAAATTAATTTTGTT-ATTTAAAGAGCATGGGTCACTTAAAGTGAAC
253 CTTAGGCCCTACA-CCAATAAAATAACTTTGTTAATCTAAAGAGCACGGGTCACTTAAAGTGAAC
887892 TATT-CACAATAACACTAGAGGTCATCTTAGGTCCTACA-T-C-AATGAAATAATGAAATAAGTT
317 T-TTCCACAATAACA--AGAGGTCATCTTAGGTCCTACAGTACTAATGAAATAATGAAATAAGTT
887953 TGTAAATCTATAAGAAGACAAGAGGTCATCTT-
379 TGTAAATCTATAAGAAGACAAGAGGTCAT-TTA
* * * * * *
887985 TATGCAGTTTTGTAGATGTATATTCATCAGAAGTCAATCACTGTAAGAAGACTAAATATCACCTT
1 AATGCAGTTTTGAAGATGGATATTCACCAGAAGTCAATCACTGTAAAAAGACTACATATCACCTT
* *
888050 ACATTCATAAGGTGACATCTTAGGTCATCTTAGGTCCGAAATCAATAAAGTAATAATTTTGTTAT
66 ACATTCATAAGG-GACATC-GAGGTCACCTTAGGTCCGAAATCAATAAAGTAATAATTTT-TTAT
888115 CTATAGGGAGACTAGAGGTCACCTTATG
128 CTATAGGGAGACTAGAGGTCACCTTATG
888143 TTAAGATTTT
Statistics
Matches: 493, Mismatches: 60, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
412 67 0.14
413 72 0.15
414 78 0.16
415 69 0.14
416 2 0.00
417 37 0.08
418 71 0.14
419 77 0.16
420 20 0.04
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (410 bp):
AATGCAGTTTTGAAGATGGATATTCACCAGAAGTCAATCACTGTAAAAAGACTACATATCACCTT
ACATTCATAAGGGACATCGAGGTCACCTTAGGTCCGAAATCAATAAAGTAATAATTTTTTATCTA
TAGGGAGACTAGAGGTCACCTTATGCCATTTTACAAGATGGGACAATTCACCAGAATTCAACCGC
TGTAGGGAGACCAGGGGTCACCTTAAGTAGAAAATCCATTAAGAGACCAGAGGTAACCTTAGGCC
CTACACCAATAAAATAACTTTGTTAATCTAAAGAGCACGGGTCACTTAAAGTGAACTTTCCACAA
TAACAAGAGGTCATCTTAGGTCCTACAGTACTAATGAAATAATGAAATAAGTTTGTAAATCTATA
AGAAGACAAGAGGTCATTTA
Found at i:888200 original size:418 final size:412
Alignment explanation
Indices: 887156--888248 Score: 1241
Period size: 418 Copynumber: 2.6 Consensus size: 412
887146 GAGTTACCTT
*
887156 AATGCAGTTTTGAAGATGGATATTCACCAAGATGTCAATCACTGTAAAAAGACTACATATCACCT
1 AATGCAGTTTTGAAGATGGATATTCACC-AGAAGTCAATCACTGTAAAAAGACTACATATCACCT
* * * * * **
887221 TACACTCATTAGGAGAC-TAGAGGTCACCTAAGGTCTGAAATCAATAAAGTTTTAATATTTTTAT
65 TACATTCATAAGG-GACATCGAGGTCACCTTAGGTCCGAAATCAATAAAGTAATAAT-TTTTTAT
* * * * *
887285 CTAAAGGGAGACCAGAGGCCACCTTA--TATCATTTTACAA-GATGGGACAATTCACCAGAATTT
128 CTATAGGGAGACTAGAGGTCACCTTATGTAACATTTTACAATGATGGGACAATTCACCAGAATTC
* * * *
887347 AGCCGCTGTAGGGAGACCAGTGGTCACCTTAAGTGGAAAATCCATTAGGAGACCAGAGGTAACCT
193 AG-CGTTGTAGGGGGACCAGGGGTCACCTTAAGTGGAAAATCCATTAAGAGACCAGAGGTAACCT
* * * *
887412 TAGGTCCTACACCAGTAAAATAACTTTGTTAATCTAAAGAGTACGGGTCACTTTAAGTGAACTTT
257 TAGGCCCTACACCAATAAAATAACTTTGTTAATCTAAAGAGCACGGGTCACTTAAAGTGAACTTT
* * * * *
887477 CCACAATAACAATAGGTTATCTTAGGTCCTACATGTACATTAATGAAGTACTGGAATAAGTTTGT
322 CCACAATAACAAGAGGTCATCTTAGGTCCTACA-GTAC--TAATGAAATAATGAAATAAGTTTGT
*
887542 AAATCTATAGGAAGACAAGAGGTCATTTA
384 AAATCTATAAGAAGACAAGAGGTCATTTA
* * * *
887571 AATGCAGTTCTGAAGATGGATATTCACCAGAATCTCAATCACTGTAAAAAGATTACATATCAGCT
1 AATGCAGTTTTGAAGATGGATATTCACCAGAA-GTCAATCACTGTAAAAAGACTACATATCACCT
* * *
887636 TACATTCATAA-GGA-AACGAGCTCACCTTAGGTCCGAAATCAATAAAGTAATAATTTCTTATCT
65 TACATTCATAAGGGACATCGAGGTCACCTTAGGTCCGAAATCAATAAAGTAATAATTTTTTATCT
* * *
887699 ATAGAGAGACTAGAGGTCACCTTATG--CCATTTTAC-ATGATGGGACAATTCACCGGAATTCAA
130 ATAGGGAGACTAGAGGTCACCTTATGTAACATTTTACAATGATGGGACAATTCACCAGAATTC-A
* ** *
887761 CCGCTGTGGGGGGGGGGGGGACCAGGGGTCACCTTAAGTAGAAAATCCATTAAGAGACCAGAGGT
194 --GC-GT----TGTAGGGGGACCAGGGGTCACCTTAAGTGGAAAATCCATTAAGAGACCAGAGGT
* * * *
887826 AACCTTAGGCCCTA-AGCCAATAAATTAATTTTGTT-ATTTAAAGAGCATGGGTCACTTAAAGTG
252 AACCTTAGGCCCTACA-CCAATAAAATAACTTTGTTAATCTAAAGAGCACGGGTCACTTAAAGTG
887889 AACTATT-CACAATAACACTAGAGGTCATCTTAGGTCCTACA-T-C-AATGAAATAATGAAATAA
316 AACT-TTCCACAATAACA--AGAGGTCATCTTAGGTCCTACAGTACTAATGAAATAATGAAATAA
887950 GTTTGTAAATCTATAAGAAGACAAGAGGTCATCTT-
378 GTTTGTAAATCTATAAGAAGACAAGAGGTCAT-TTA
* * * * * *
887985 TATGCAGTTTTGTAGATGTATATTCATCAGAAGTCAATCACTGTAAGAAGACTAAATATCACCTT
1 AATGCAGTTTTGAAGATGGATATTCACCAGAAGTCAATCACTGTAAAAAGACTACATATCACCTT
* *
888050 ACATTCATAAGGTGACATCTTAGGTCATCTTAGGTCCGAAATCAATAAAGTAATAATTTTGTTAT
66 ACATTCATAAGG-GACATC-GAGGTCACCTTAGGTCCGAAATCAATAAAGTAATAATTTT-TTAT
* * * *
888115 CTATAGGGAGACTAGAGGTCACCTTATGTTAAGATTTTACAAGGTTGATCGAGAC-CTTCAACAG
128 CTATAGGGAGACTAGAGGTCACCTTATG-TAACATTTTACAA---TGAT-GGGACAATTCACCAG
* *
888179 AATTCAGCGATTGTAGGGGGACCAGGGGTCACCTTAAGTGGAATAT-CAATAAGGAGACCAGAGG
188 AATTCAGCG-TTGTAGGGGGACCAGGGGTCACCTTAAGTGGAAAATCCATTAA-GAGACCAGAGG
*
888243 TCACCT
251 TAACCT
888249 CAAGTTCTAA
Statistics
Matches: 572, Mismatches: 73, Indels: 63
0.81 0.10 0.09
Matches are distributed among these distances:
411 1 0.00
412 57 0.10
413 73 0.13
414 79 0.14
415 71 0.12
416 2 0.00
417 42 0.07
418 117 0.20
419 78 0.14
420 20 0.03
421 8 0.01
422 4 0.01
424 1 0.00
425 15 0.03
426 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (412 bp):
AATGCAGTTTTGAAGATGGATATTCACCAGAAGTCAATCACTGTAAAAAGACTACATATCACCTT
ACATTCATAAGGGACATCGAGGTCACCTTAGGTCCGAAATCAATAAAGTAATAATTTTTTATCTA
TAGGGAGACTAGAGGTCACCTTATGTAACATTTTACAATGATGGGACAATTCACCAGAATTCAGC
GTTGTAGGGGGACCAGGGGTCACCTTAAGTGGAAAATCCATTAAGAGACCAGAGGTAACCTTAGG
CCCTACACCAATAAAATAACTTTGTTAATCTAAAGAGCACGGGTCACTTAAAGTGAACTTTCCAC
AATAACAAGAGGTCATCTTAGGTCCTACAGTACTAATGAAATAATGAAATAAGTTTGTAAATCTA
TAAGAAGACAAGAGGTCATTTA
Found at i:891367 original size:10 final size:10
Alignment explanation
Indices: 891352--891376 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
891342 GAGACCAGAG
891352 GTCACCTAAT
1 GTCACCTAAT
891362 GTCACCTAAT
1 GTCACCTAAT
891372 GTCAC
1 GTCAC
891377 TTTACAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (10 bp):
GTCACCTAAT
Found at i:906924 original size:60 final size:60
Alignment explanation
Indices: 906830--906948 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
906820 TAATTAAATT
* *
906830 GAAAAAGAAACAATAGAATAATAGAAGGGTCTTCCGCT-GAAGACGGAAGACCCTAATAAA
1 GAAAAAGAAACAATAGAATAAAAGAAGGGCCTTCCGCTGGAA-ACGGAAGACCCTAATAAA
** * *
906890 GAAAAAGAAACCGTAGAATAACAAG-AGGGCCTTCCGTTGGAAACGGAAGACCCTGATAA
1 GAAAAAGAAACAATAGAATAA-AAGAAGGGCCTTCCGCTGGAAACGGAAGACCCTAATAA
906949 TAGGGAAACA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
60 46 0.90
61 5 0.10
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (60 bp):
GAAAAAGAAACAATAGAATAAAAGAAGGGCCTTCCGCTGGAAACGGAAGACCCTAATAAA
Found at i:910449 original size:21 final size:20
Alignment explanation
Indices: 910423--910481 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
910413 AAAACAATAC
910423 TCCTATAGGAAATTTCAAATT
1 TCCTATAGG-AATTTCAAATT
* *
910444 TCCTATCGGAA-TACAAGAATT
1 TCCTATAGGAATTTC-A-AATT
910465 TCCTATAGGAATTTCAA
1 TCCTATAGGAATTTCAA
910482 TTCCGATAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 2 0.06
20 4 0.13
21 23 0.74
22 2 0.06
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (20 bp):
TCCTATAGGAATTTCAAATT
Found at i:910685 original size:20 final size:22
Alignment explanation
Indices: 910651--910690 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
910641 TAGGAGAATC
910651 ATTTCTCCTACGGGA-ATTATT
1 ATTTCTCCTACGGGACATTATT
*
910672 ATTT-TCCTATGGGACATTA
1 ATTTCTCCTACGGGACATTA
910691 ATTTTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (22 bp):
ATTTCTCCTACGGGACATTATT
Found at i:913000 original size:17 final size:17
Alignment explanation
Indices: 912978--913013 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
912968 ACTTCCTGTT
912978 CAAAGAGGGGCCAGGAC
1 CAAAGAGGGGCCAGGAC
912995 CAAAGAGGGGCCAGGAC
1 CAAAGAGGGGCCAGGAC
913012 CA
1 CA
913014 CTCCTGGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.25, G:0.39, T:0.00
Consensus pattern (17 bp):
CAAAGAGGGGCCAGGAC
Found at i:915368 original size:21 final size:20
Alignment explanation
Indices: 915342--915400 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
915332 AAAACAATAC
915342 TCCTATAGGAAATTTCAAATT
1 TCCTATAGG-AATTTCAAATT
* *
915363 TCCTATCGGAA-TACAAGAATT
1 TCCTATAGGAATTTC-A-AATT
915384 TCCTATAGGAATTTCAA
1 TCCTATAGGAATTTCAA
915401 TTCCGATAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 2 0.06
20 4 0.13
21 23 0.74
22 2 0.06
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (20 bp):
TCCTATAGGAATTTCAAATT
Found at i:917700 original size:37 final size:36
Alignment explanation
Indices: 917659--917827 Score: 183
Period size: 37 Copynumber: 4.8 Consensus size: 36
917649 TCATCTTTCA
* *
917659 TCTCGTAGCCAGTTACTAGTAGCTGGCTTTTCTTACT
1 TCTCGTAGCCAGTTACTAGTAGCTAGCTTTTTTTA-T
*
917696 TCTCGTAGCCAGTTACTAGTAGCCAG------TTA-
1 TCTCGTAGCCAGTTACTAGTAGCTAGCTTTTTTTAT
* * * *
917725 -CTAGTAGCTAGTTACTAGTAGCTAACTTTTATTTAA
1 TCTCGTAGCCAGTTACTAGTAGCTAGCTTTT-TTTAT
917761 TCTCGTAGCCAGTTACTAGTAGCTAGCTTTTTTTACT
1 TCTCGTAGCCAGTTACTAGTAGCTAGCTTTTTTTA-T
*
917798 TCTCGTAGCCAGTTACTAGTAGCTAACTTT
1 TCTCGTAGCCAGTTACTAGTAGCTAGCTTT
917828 ACCTATCTCA
Statistics
Matches: 111, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
28 21 0.19
31 3 0.03
35 3 0.03
36 4 0.04
37 80 0.72
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (36 bp):
TCTCGTAGCCAGTTACTAGTAGCTAGCTTTTTTTAT
Found at i:917748 original size:14 final size:14
Alignment explanation
Indices: 917700--917746 Score: 85
Period size: 14 Copynumber: 3.4 Consensus size: 14
917690 CTTACTTCTC
917700 GTAGCCAGTTACTA
1 GTAGCCAGTTACTA
917714 GTAGCCAGTTACTA
1 GTAGCCAGTTACTA
*
917728 GTAGCTAGTTACTA
1 GTAGCCAGTTACTA
917742 GTAGC
1 GTAGC
917747 TAACTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (14 bp):
GTAGCCAGTTACTA
Found at i:917820 original size:51 final size:51
Alignment explanation
Indices: 917663--917820 Score: 151
Period size: 51 Copynumber: 3.1 Consensus size: 51
917653 CTTTCATCTC
* *
917663 GTAGCCAGTTACTAGTAGCTGGCTTTTCTTACTTCTCGTAGCCAGTTACTA
1 GTAGCCAGTTACTAGTAGCTAGCTTTTATTACTTCTCGTAGCCAGTTACTA
* * * ** *** * *
917714 GTAGCCAGTTACTAGTAGCTAG-TTACTAGTAGCTAACTTTTATTTA-AT-CTC
1 GTAGCCAGTTACTAGTAGCTAGCTT-TTATTA-CT-TCTCGTAGCCAGTTACTA
*
917765 GTAGCCAGTTACTAGTAGCTAGCTTTTTTTACTTCTCGTAGCCAGTTACTA
1 GTAGCCAGTTACTAGTAGCTAGCTTTTATTACTTCTCGTAGCCAGTTACTA
917816 GTAGC
1 GTAGC
917821 TAACTTTACC
Statistics
Matches: 78, Mismatches: 23, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
49 5 0.06
50 5 0.06
51 58 0.74
52 5 0.06
53 5 0.06
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (51 bp):
GTAGCCAGTTACTAGTAGCTAGCTTTTATTACTTCTCGTAGCCAGTTACTA
Found at i:924058 original size:21 final size:21
Alignment explanation
Indices: 924006--924081 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
923996 TGGTACATGT
*
924006 ATATCATTTATATGCAAT-AGTA
1 ATATCA-TTATATGCAGTGA-TA
**
924028 ATATTTTTATATGCAGTGATA
1 ATATCATTATATGCAGTGATA
*
924049 ATATCATTATTTGCAGTTG-TA
1 ATATCATTATATGCAG-TGATA
*
924070 ATGTCATTATAT
1 ATATCATTATAT
924082 TCACTGCTAG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
21 37 0.84
22 7 0.16
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (21 bp):
ATATCATTATATGCAGTGATA
Found at i:924303 original size:21 final size:20
Alignment explanation
Indices: 924277--924703 Score: 386
Period size: 21 Copynumber: 20.9 Consensus size: 20
924267 TTATTTCATG
924277 TGAAGATGGTGCTTTTATTTA
1 TGAAGATGGTGCTTTT-TTTA
* *
924298 TGAAGACGGTGCTTTATTATA
1 TGAAGATGGTGCTTT-TTTTA
924319 TGAAGATGGTGCTTTTTTATA
1 TGAAGATGGTGCTTTTTT-TA
*
924340 TGAATATGGTGCTTTATTTTA
1 TGAAGATGGTGCTTT-TTTTA
* *
924361 AGAAGATGGTGC-TTTTTAA
1 TGAAGATGGTGCTTTTTTTA
* * *
924380 TG-TGAAGGTGCTTTTTTATG
1 TGAAGATGGTGCTTTTTT-TA
* *
924400 TGAAGATGGTGCATTGTTATA
1 TGAAGATGGTGC-TTTTTTTA
*
924421 TGAAGATGGTGCTTTGTTATA
1 TGAAGATGGTGCTTT-TTTTA
* *
924442 TGAAGATGGTGCTTTAATATA
1 TGAAGATGGTGCTTT-TTTTA
924463 TGAAGATGGTGC-TTTTTTA
1 TGAAGATGGTGCTTTTTTTA
* *
924482 TG-TGAAGGTGCTTTTTTTA
1 TGAAGATGGTGCTTTTTTTA
*
924501 TGTGAAGATGGTGCTTTGTTATA
1 --TGAAGATGGTGCTTT-TTTTA
*
924524 TGAAGATGGTGCTTTGTTATA
1 TGAAGATGGTGCTTT-TTTTA
*
924545 TGAAGATGGTGCTTTTTTATG
1 TGAAGATGGTGCTTTTTT-TA
* *
924566 TGAAGATGATGCTTTTTTATG
1 TGAAGATGGTGCTTTTTT-TA
*
924587 TGAAGATGGTGCTTTGTTATA
1 TGAAGATGGTGCTTT-TTTTA
924608 TGAAGATGGTGCTTTATTATT-
1 TGAAGATGGTGCTTT-TT-TTA
*
924629 TGAAGATGGTGCTTTTTTAGA
1 TGAAGATGGTGCTTTTTT-TA
*
924650 TAAAGATGGTGCTTTTTTATA
1 TGAAGATGGTGCTTTTTT-TA
* *
924671 TG-TGATAGTGC--TTTTTA
1 TGAAGATGGTGCTTTTTTTA
*
924688 T-ATGATGGTGCTTTTT
1 TGAAGATGGTGCTTTTT
924704 AATGTGAAGG
Statistics
Matches: 342, Mismatches: 43, Indels: 44
0.80 0.10 0.10
Matches are distributed among these distances:
17 11 0.03
18 18 0.05
19 26 0.08
20 21 0.06
21 241 0.70
22 21 0.06
23 4 0.01
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (20 bp):
TGAAGATGGTGCTTTTTTTA
Done.