Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold121
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: 1096690
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.30
Warning! 96926 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:405875 original size:2 final size:2
Alignment explanation
Indices: 405868--405893 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
405858 GCGTTCTACG
405868 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
405894 ATAGCGGGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:410125 original size:149 final size:150
Alignment explanation
Indices: 409925--410224 Score: 512
Period size: 149 Copynumber: 2.0 Consensus size: 150
409915 GAGTTTTCTC
* *
409925 TTCTTTTTCTTTTTGTTATTCACGCGTTTTCAAAACAACCTTAATTAATTTGTCTTCCAAGGATC
1 TTCTTTTTCTTTTTGTTATTCACACGTTTTCAAAACAACCTTAATTAATTTGTCTACCAAGGATC
*
409990 GGGTGCTCATTGAAATATCCTTTGTATGAATAATTATTTATAAATTAAAAACAATCATTTTTGGA
66 AGGTGCTCATTGAAATATCCTTTGTATGAATAATTATTTATAAATTAAAAACAATCATTTTTGGA
*
410055 AGATACGTGATTAACCAACA
131 AGAGACGTGATTAACCAACA
*
410075 TTCTTTTTC-TTTTGTTATTCACACGTTTTCAAAACAACCTTAATTGATTTGTCTACCAAGGATC
1 TTCTTTTTCTTTTTGTTATTCACACGTTTTCAAAACAACCTTAATTAATTTGTCTACCAAGGATC
* * *
410139 AGGTGCTCATTGAAATTTCCTTTGTATGAATAATTATTTATAAATTAAAATCAATCATTTTTTGA
66 AGGTGCTCATTGAAATATCCTTTGTATGAATAATTATTTATAAATTAAAAACAATCATTTTTGGA
*
410204 AGAGACGTGATTGACCAACA
131 AGAGACGTGATTAACCAACA
410224 T
1 T
410225 CCGTTCCACC
Statistics
Matches: 141, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
149 132 0.94
150 9 0.06
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (150 bp):
TTCTTTTTCTTTTTGTTATTCACACGTTTTCAAAACAACCTTAATTAATTTGTCTACCAAGGATC
AGGTGCTCATTGAAATATCCTTTGTATGAATAATTATTTATAAATTAAAAACAATCATTTTTGGA
AGAGACGTGATTAACCAACA
Found at i:414485 original size:2 final size:2
Alignment explanation
Indices: 414478--414529 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
414468 TTTCTCTTTT
414478 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
414520 TC TC TC TC TC
1 TC TC TC TC TC
414530 ATGAAAATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:415004 original size:2 final size:2
Alignment explanation
Indices: 414997--415040 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
414987 GTTAGTAGTT
414997 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
415039 GA
1 GA
415041 TTGGCCTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:415781 original size:46 final size:45
Alignment explanation
Indices: 415693--415781 Score: 106
Period size: 46 Copynumber: 2.0 Consensus size: 45
415683 TGTAATAATG
** **
415693 GGTGCGGATCAAAACCCTTGACTAGCAAAGATGTTTGTAAGGAGA
1 GGTGCGGATCAAAACCCTTGACTAGCAAAGATGGGTAAAAGGAGA
* * *
415738 GGTGCGGATCAGAAACCTTTGACTTGGAAAGATGGGTAAAAGGA
1 GGTGCGGATCA-AAACCCTTGACTAGCAAAGATGGGTAAAAGGA
415782 TGTTGTTCTA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 11 0.31
46 25 0.69
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.21
Consensus pattern (45 bp):
GGTGCGGATCAAAACCCTTGACTAGCAAAGATGGGTAAAAGGAGA
Found at i:418343 original size:13 final size:13
Alignment explanation
Indices: 418325--418352 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
418315 TCACATTATC
418325 TGTACATAGAGGT
1 TGTACATAGAGGT
418338 TGTACATAGAGGT
1 TGTACATAGAGGT
418351 TG
1 TG
418353 ATTCAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.32, T:0.32
Consensus pattern (13 bp):
TGTACATAGAGGT
Found at i:427857 original size:16 final size:16
Alignment explanation
Indices: 427838--427872 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
427828 ATTCCACTTA
427838 TTTTTTT-ATTTATTT
1 TTTTTTTCATTTATTT
*
427853 TTTTTTTCCTTTATTT
1 TTTTTTTCATTTATTT
427869 TTTT
1 TTTT
427873 CTACTATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTCATTTATTT
Found at i:427980 original size:1 final size:1
Alignment explanation
Indices: 427974--428002 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
427964 TTATGTGATA
427974 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
428003 ACATAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:432152 original size:56 final size:56
Alignment explanation
Indices: 431955--432141 Score: 259
Period size: 56 Copynumber: 3.3 Consensus size: 56
431945 CCCCTTTAAA
* * * *
431955 TGAGCAAATCTTGTACGAAACCTTCTTACAATGAAAATATGCAGTTGGTCT-GTAAG
1 TGAGCAAATCTTGTAAGAAACCTTCTTACATTGAAAATATGTAGTTGGT-TGGTACG
* * * *
432011 CGAGCAAATCTTGTAAGAAACATTCTTACGTTGAAAATATGTAGTTGGTTGATACG
1 TGAGCAAATCTTGTAAGAAACCTTCTTACATTGAAAATATGTAGTTGGTTGGTACG
* *
432067 TCAGCAAATCTTGTAAGAAACCTTCTTACATTGAAAATATGTTGTTGGTTGGTACG
1 TGAGCAAATCTTGTAAGAAACCTTCTTACATTGAAAATATGTAGTTGGTTGGTACG
*
432123 TGAACAAATCTTGTAAGAA
1 TGAGCAAATCTTGTAAGAA
432142 GGCCTCTTAC
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
55 1 0.01
56 113 0.99
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (56 bp):
TGAGCAAATCTTGTAAGAAACCTTCTTACATTGAAAATATGTAGTTGGTTGGTACG
Found at i:434377 original size:24 final size:25
Alignment explanation
Indices: 434337--434383 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
434327 AATAAAGTTT
434337 AATGTTTATTTCATTGTA-TTTACA
1 AATGTTTATTTCATTGTACTTTACA
*
434361 AATGTTTCTTT-ATTTGTACTTTA
1 AATGTTTATTTCA-TTGTACTTTA
434384 TGTAGTGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 15 0.75
25 4 0.20
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (25 bp):
AATGTTTATTTCATTGTACTTTACA
Found at i:435531 original size:152 final size:152
Alignment explanation
Indices: 435255--435565 Score: 595
Period size: 152 Copynumber: 2.0 Consensus size: 152
435245 CATGTATCCC
*
435255 ATGCATGCTAGAGAAGCAATCATGGAAAGAAGATGAAAAAACATCGCAACAATATAAAATAATAC
1 ATGCAGGCTAGAGAAGCAATCATGGAAAGAAGATGAAAAAACATCGCAACAATATAAAATAATAC
435320 GACTAAGAATTCTTTTCGCAGACAACTGGTCTCAGATATGTGCATGTAATATCAGCCCATTCTCC
66 GACTAAGAATTCTTTTCGCAGACAACTGGTCTCAGATATGTGCATGTAATATCAGCCCATTCTCC
435385 GCCATACATGGTATCTGAAACA
131 GCCATACATGGTATCTGAAACA
* *
435407 ATGCAGGCTCGAGAAGCAATCATGGAAAGAAGATGAAAAAACATCGCATCAATATAAAATAATAC
1 ATGCAGGCTAGAGAAGCAATCATGGAAAGAAGATGAAAAAACATCGCAACAATATAAAATAATAC
435472 GACTAAGAATTCTTTTCGCAGACAACTGGTCTCAGATATGTGCATGTAATATCAGCCCATTCTCC
66 GACTAAGAATTCTTTTCGCAGACAACTGGTCTCAGATATGTGCATGTAATATCAGCCCATTCTCC
435537 GCCATACATGGTATCTGAAACA
131 GCCATACATGGTATCTGAAACA
435559 ATGCAGG
1 ATGCAGG
435566 TTTCCGCCTC
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
152 156 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (152 bp):
ATGCAGGCTAGAGAAGCAATCATGGAAAGAAGATGAAAAAACATCGCAACAATATAAAATAATAC
GACTAAGAATTCTTTTCGCAGACAACTGGTCTCAGATATGTGCATGTAATATCAGCCCATTCTCC
GCCATACATGGTATCTGAAACA
Found at i:450969 original size:2 final size:2
Alignment explanation
Indices: 450962--451008 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
450952 TAAACATTAA
*
450962 AG AG AG AG AG AG AG AG GG 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
451004 AG AG A
1 AG AG A
451009 CTGTCGGTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 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):
AG
Found at i:451365 original size:2 final size:2
Alignment explanation
Indices: 451358--451384 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
451348 CTAAAAGAAC
451358 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
451385 GAATACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:451956 original size:21 final size:21
Alignment explanation
Indices: 451879--451972 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 21
451869 AATCTGCAAG
451879 ATGCAACATAATTATGACAAC
1 ATGCAACATAATTATGACAAC
* * * * **
451900 ACGCGACTTATTTATGTGAAC
1 ATGCAACATAATTATGACAAC
* ***
451921 ATGCAA-ATTATTTATTTTAAC
1 ATGCAACA-TAATTATGACAAC
451942 ATGCAACATAATTATGACAAC
1 ATGCAACATAATTATGACAAC
451963 ATGCAACATA
1 ATGCAACATA
451973 CATTTTCCTA
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
21 55 0.98
22 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (21 bp):
ATGCAACATAATTATGACAAC
Found at i:470414 original size:146 final size:145
Alignment explanation
Indices: 470167--470690 Score: 766
Period size: 146 Copynumber: 3.6 Consensus size: 145
470157 CTTCTTCAAT
* * * * * *
470167 TGACCTTGGGTCGAGGTCATGACACA-CCTTCA-GACTATAAGCAAT-CTTGATCTGAATTAAAA
1 TGACCTTGGGTCAAGGTCATGACACACCCTT-AGGTC-ATAAGCAATATTTG-TGTGAAGTAAGA
* * * * * *
470229 ACTTCCAATATTTGTCCATTAAAAAAATATAGACTGGACATGAATTTTGTACTTTTTCTGCCAGT
63 ACTTCCAATGTTTCTCCATTAAAAAGATATGGACCGGACACGAATTTTG-ACTTTTTCTGCCAGT
*
470294 GACCTTGGCCTTGCCCAAA
127 GACCTTGACCTTGCCCAAA
* *
470313 TGACCTTGGGTCAAGGACATGACACACCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAGAACT
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATATTTGTGTGAAGTAAGAACT
* *
470378 TCTAATGTTTCTCCATTAAAAAGATATGGACCGGACACGAATTTTGATTTTTTTCTGCCAGTGAC
66 TCCAATGTTTCTCCATTAAAAAGATATGGACCGGACACGAATTTTGA-CTTTTTCTGCCAGTGAC
*
470443 CTTGACTTTGCCCAAA
130 CTTGACCTTGCCCAAA
*
470459 TGACATTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATATTTGTGTGAAGTAAGAACT
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATATTTGTGTGAAGTAAGAACT
470524 TCCAATGTTTCTCCATTAAAAAGATATGGACCGGACACGAATTTTGAACTTTTTCTGCCAGTGAC
66 TCCAATGTTTCTCCATTAAAAAGATATGGACCGGACACGAATTTTG-ACTTTTTCTGCCAGTGAC
*
470589 CTTGACCTTGCCCGAA
130 CTTGACCTTGCCCAAA
* * *
470605 TGGCCTTGGATCAAGGTCATGACACACCCTTAGGTCATAAGCAATATTTGTGTGAAGTAAGAACC
1 TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATATTTGTGTGAAGTAAGAACT
470670 TCCAATGTTTCTCCATTAAAA
66 TCCAATGTTTCTCCATTAAAA
470691 CAAGAGGCCC
Statistics
Matches: 345, Mismatches: 28, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
145 1 0.00
146 334 0.97
147 10 0.03
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (145 bp):
TGACCTTGGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATATTTGTGTGAAGTAAGAACT
TCCAATGTTTCTCCATTAAAAAGATATGGACCGGACACGAATTTTGACTTTTTCTGCCAGTGACC
TTGACCTTGCCCAAA
Found at i:471480 original size:166 final size:166
Alignment explanation
Indices: 471034--471703 Score: 898
Period size: 166 Copynumber: 4.0 Consensus size: 166
471024 AAAGAATCAT
* * * * * *
471034 CTGGCTGATTAGCTTCTGAGAAG-AG--TTTTAAAGATTTACCCTATATATTCCTTTGTTAAACT
1 CTGGCTAATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATCATATGTTAAACT
* * * * * * *
471096 TTGACCCCCCATTGTGGCCTCACCCTACCCCTGAGGATCATGATTTTCACAACCTTGAATCTCCA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
* * *
471161 CTACCTGAGGATGCTTTCACACAAGTTTCAGCTTTC
131 CTACCTGAGGATGCATCCACACAAGTGTCAGCTTTC
* * * * * *
471197 CTGGCTGATTAGTTAGTTTCTGAAAAGAAGATTTTTAAATATTTACTCTGT-TTATACCTATGTA
1 CTGGCT-A--A-TTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAAT-CATATGTT
* * * * * *
471261 AAACATCGACCGCCCATTGTGGCCCAAACCTACCCCCAGGGGTCATGATTTTCACAAATTTGAAT
61 AAACTTCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAAT
* *
471326 CTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
126 CTACACTACCTGAGGATGCATCCACACAAGTGTCAGCTTTC
471367 CTGGCTAATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATCATATGTTAAACT
1 CTGGCTAATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATCATATGTTAAACT
*
471432 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATTTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
*
471497 CTACCTGAGGATGCATCCACACAAGTGTCAGGTTTC
131 CTACCTGAGGATGCATCCACACAAGTGTCAGCTTTC
** * * *
471533 CTGGCCGATTAGTTTGTGAGAAGAAGATTTTTAAAGATTTACTTTATATATTCATATGTTAAACT
1 CTGGCTAATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATCATATGTTAAACT
* * * *
471598 TCGACCCACCATTGGGGCCCCATCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATTTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
471663 CTACCTGAGGATGCATCCACACAAGTGTCAGCTTTC
131 CTACCTGAGGATGCATCCACACAAGTGTCAGCTTTC
471699 CTGGC
1 CTGGC
471704 NNNNNNNNNN
Statistics
Matches: 449, Mismatches: 49, Indels: 15
0.88 0.10 0.03
Matches are distributed among these distances:
163 6 0.01
166 301 0.67
167 17 0.04
168 2 0.00
169 3 0.01
170 120 0.27
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (166 bp):
CTGGCTAATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATAATCATATGTTAAACT
TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
CTACCTGAGGATGCATCCACACAAGTGTCAGCTTTC
Found at i:474614 original size:8 final size:8
Alignment explanation
Indices: 474603--474637 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
474593 TAAAAAGTTT
474603 ACAGACGG
1 ACAGACGG
474611 ACAGACGG
1 ACAGACGG
474619 ACAGACGG
1 ACAGACGG
*
474627 ACGGACGG
1 ACAGACGG
474635 ACA
1 ACA
474638 AGGTGATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.37, C:0.26, G:0.37, T:0.00
Consensus pattern (8 bp):
ACAGACGG
Found at i:478161 original size:179 final size:180
Alignment explanation
Indices: 477822--478444 Score: 875
Period size: 181 Copynumber: 3.4 Consensus size: 180
477812 TTGAAATGGA
* *
477822 GTACCCCATATGCAATATTTTGCC-AAAAATGACTAAATTCAAATGCTGGTATTTTTTTCATAAA
1 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAATTCAAAAGCTGGTATTTTTTTCAT-AA
* **
477886 TACCGGTAATCAGAAAT-AAAAGTCCTAGCAATATGCACACCTCTGATACATGAACAATTGATCT
65 -A----TAATCAGAAATCAAAA-TCCTAGCAATATGCACACCTCTGATATATTTACAATTGATCT
* *
477950 GCAAAAGACCAACTTCTTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
124 GCAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
*
478007 GTACCCTATATGCAATATTTTGCC-AAAAATGACTAAATTCAAATGCTGGTATTTTTTTCATAAA
1 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAATTCAAAAGCTGGTATTTTTTTCATAAA
* *
478071 -ATATCAGTAATCAAAATCCTAGCAATATGCACACCTCTGATATATTTATAATTGATCTGCAAAA
66 TA-ATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATTTACAATTGATCTGCAAAA
* * *
478135 GAACAATTTCCTATCTTGAGAACTGTAGGAGAAGTTATCCGTACAATGAGG
130 GAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
* *
478186 GTACCCTATATGCAATATTTTGCCAAAAAATGACGAAGTTCAAAAGCTGGTATTTATTTTCATAA
1 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAATTCAAAAGCTGGTATTT-TTTTCATAA
*
478251 ATAATC-GAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTT-CAATTGATCTGCAA
65 ATAATCAG-AAATCAAAATCCTAGCAATATGCACACCTCTGATATAT-TTACAATTGATCTGCAA
* **
478314 AAGAACAACTTCCTATCTTGAAAACTGTAGGAGGACTTATTTGTACAATGAGG
128 AAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
* * *
478367 GTACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA-CTTTTTCATAAA
1 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAATTCAAAAGCTGGTATTTTTTTCATAAA
*
478431 TCATCA-ATAATCAA
66 TAATCAGA-AATCAA
478445 TGTTAACTTT
Statistics
Matches: 403, Mismatches: 26, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
178 2 0.00
179 142 0.35
180 33 0.08
181 160 0.40
182 3 0.01
183 1 0.00
184 2 0.00
185 60 0.15
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (180 bp):
GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAATTCAAAAGCTGGTATTTTTTTCATAAA
TAATCAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATTTACAATTGATCTGCAAAAG
AACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGG
Found at i:481441 original size:11 final size:11
Alignment explanation
Indices: 481425--481458 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
481415 GAGTTTACTT
481425 TCTGGGTTTAC
1 TCTGGGTTTAC
481436 TCTGGGTTTAC
1 TCTGGGTTTAC
481447 T-TCGGGTTTAC
1 TCT-GGGTTTAC
481458 T
1 T
481459 AGAGTGGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 1 0.05
11 21 0.95
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.47
Consensus pattern (11 bp):
TCTGGGTTTAC
Found at i:481733 original size:11 final size:11
Alignment explanation
Indices: 481716--481747 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
481706 ATTTTCAAAA
481716 AGTAAACCCAG
1 AGTAAACCCAG
*
481727 TGTAAACCCAG
1 AGTAAACCCAG
481738 AGTAAACCCA
1 AGTAAACCCA
481748 AAAAGTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.16, T:0.12
Consensus pattern (11 bp):
AGTAAACCCAG
Found at i:492362 original size:2 final size:2
Alignment explanation
Indices: 492355--492396 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
492345 TGAATTTGTG
492355 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
492397 GACACTGTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:498867 original size:2 final size:2
Alignment explanation
Indices: 498854--498918 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
498844 AAAAGACTGA
*
498854 CT CT CT CA CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
498896 CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
498919 AAATAATTTG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.02, C:0.51, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:500499 original size:26 final size:26
Alignment explanation
Indices: 500372--500532 Score: 134
Period size: 26 Copynumber: 6.1 Consensus size: 26
500362 TGTATAATCT
*
500372 TACCTTTCATTAGTGAGGTATGACAAC
1 TACCTTTCATTAGTGAGGTATGAC-CC
* *
500399 -ACCTTTCATTGGTGAGGTATGTCCAC
1 TACCTTTCATTAGTGAGGTATGACC-C
**
500425 -ACCTTTCA-TAGGTGAGGTATGAATC
1 TACCTTTCATTA-GTGAGGTATGACCC
** *
500450 TACCTTTCATTTTTGAGGCATGACCC
1 TACCTTTCATTAGTGAGGTATGACCC
500476 TGA-CTTTCATTAGTGAGGTATGACCC
1 T-ACCTTTCATTAGTGAGGTATGACCC
* *
500502 TCCACCTTTC-TTTGATGAGGTATGATCC
1 T--ACCTTTCATTAG-TGAGGTATGACCC
500530 TAC
1 TAC
500533 ATGTACCTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 17
0.76 0.13 0.12
Matches are distributed among these distances:
25 2 0.02
26 82 0.76
27 6 0.06
28 18 0.17
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
TACCTTTCATTAGTGAGGTATGACCC
Found at i:502741 original size:2 final size:2
Alignment explanation
Indices: 502734--502771 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
502724 TGTACCCCAT
* *
502734 TC TC TC TC TC TC TC TC TC TC TC TC TC TG AC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
502772 CCATAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.47, G:0.03, T:0.47
Consensus pattern (2 bp):
TC
Found at i:503972 original size:36 final size:36
Alignment explanation
Indices: 503931--504000 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 36
503921 CACTTGGAGA
503931 TTAATATGCTAGAATATATAATAACT-GTCTAATGAG
1 TTAATATGCTAGAATATATAATAA-TAGTCTAATGAG
503967 TTAATATGCTAGAATATATAATAATAGTCTAATG
1 TTAATATGCTAGAATATATAATAATAGTCTAATG
504001 GGTTCAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (36 bp):
TTAATATGCTAGAATATATAATAATAGTCTAATGAG
Found at i:507575 original size:2 final size:2
Alignment explanation
Indices: 507570--507634 Score: 96
Period size: 2 Copynumber: 33.0 Consensus size: 2
507560 AAAACAAAAA
* * *
507570 CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT TT TT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
507612 CT CT CT CT CT CT CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT
507635 TCCCCCCCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
CT
Found at i:507642 original size:1 final size:1
Alignment explanation
Indices: 507636--507662 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
507626 CTCTCCTCTT
507636 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
507663 ATGAACTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:509482 original size:1 final size:1
Alignment explanation
Indices: 509476--509512 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
509466 TGCCGTTGAC
509476 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
509513 AATAATGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:509588 original size:2 final size:2
Alignment explanation
Indices: 509583--509621 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
509573 CTTTTTTATT
509583 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
509622 CACTTAGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:520353 original size:13 final size:13
Alignment explanation
Indices: 520335--520360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
520325 AACATGTCAA
520335 TTGTATTAAATAT
1 TTGTATTAAATAT
520348 TTGTATTAAATAT
1 TTGTATTAAATAT
520361 CTGGTACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TTGTATTAAATAT
Found at i:543327 original size:166 final size:166
Alignment explanation
Indices: 542274--543324 Score: 1951
Period size: 166 Copynumber: 6.3 Consensus size: 166
542264 NNNAAACATC
**
542274 CTTTTGTGTATGTATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATTTT
1 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACA-TTT
* * *
542339 TCATATGTATTTTTATGTTAAACTTTGAACCCCACCTGGGGCCCCAGTTTTGGTCCGAGGGTCAC
65 TCCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCAC
542404 GATTTTTACAATTTAGAATCTTCACTATATATACAAG
130 GATTTTTACAATTTAGAATCTTCACTATATATACAAG
*
542441 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACAATTT
1 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATTTT
542506 CCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
66 CCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
*
542571 ATTTTTACAATTTAAAATCTTCACTATATATACAAG
131 ATTTTTACAATTTAGAATCTTCACTATATATACAAG
542607 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGA-TTTTTAAACATTTT
1 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATTTT
542671 CCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
66 CCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
542736 ATTTTTACAATTTAGAATCTTCACTATATATACAAG
131 ATTTTTACAATTTAGAATCTTCACTATATATACAAG
* *
542772 CTTTTGTATAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGGAGATTTTTTAAACATTTT
1 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATTTT
* *
542837 CCTATGTATTTTTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTATGGTCCGAGGGTCACG
66 CCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
542902 ATTTTTACAATTTAGAATCTTCACTATATATACAAG
131 ATTTTTACAATTTAGAATCTTCACTATATATACAAG
* *
542938 CTTTTGTATAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGGAGATTTTTTAAACATTTT
1 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATTTT
*
543003 CCTATGTATTTTTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
66 CCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
543068 ATTTTTACAATTTAGAATCTTCACTATATATACAAG
131 ATTTTTACAATTTAGAATCTTCACTATATATACAAG
*
543104 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTAAAACATTTT
1 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATTTT
543169 CCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
66 CCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
543234 ATTTTTACAATTTAGAATCTTCACTATATATACAAG
131 ATTTTTACAATTTAGAATCTTCACTATATATACAAG
543270 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTT
1 CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTT
543325 AAAGATATGC
Statistics
Matches: 865, Mismatches: 18, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
165 161 0.19
166 645 0.75
167 59 0.07
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (166 bp):
CTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTTAAACATTTT
CCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACG
ATTTTTACAATTTAGAATCTTCACTATATATACAAG
Found at i:543518 original size:4 final size:4
Alignment explanation
Indices: 543497--543542 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
543487 AAAGTTTACA
* *
543497 GACG GACC GACA GACG GACG GACG GACG GACG GACG GAC- GACG GAC
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GAC
543543 AACGGGTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.28, C:0.28, G:0.43, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:555959 original size:23 final size:24
Alignment explanation
Indices: 555926--555974 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
555916 GTATCATAAT
555926 GAATTGAGAGAGAGAGAA-AGAGA
1 GAATTGAGAGAGAGAGAAGAGAGA
*
555949 GAATTGGGAGAGAGAGAAGAGAGA
1 GAATTGAGAGAGAGAGAAGAGAGA
555973 GA
1 GA
555975 GATAGAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.43, T:0.08
Consensus pattern (24 bp):
GAATTGAGAGAGAGAGAAGAGAGA
Found at i:555975 original size:34 final size:32
Alignment explanation
Indices: 555934--555995 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
555924 ATGAATTGAG
*
555934 AGAGAGAGAAAGAGAGAATTGGGAGAGAGAGA
1 AGAGAGAGAGAGAGAGAATTGGGAGAGAGAGA
* *
555966 AGAGAGAGAGATAGAGAATTGGGATAGAGA
1 AGAGAGAGAGAGAGAGAATTGGGAGAGAGA
555996 ATTGGGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.42, T:0.10
Consensus pattern (32 bp):
AGAGAGAGAGAGAGAGAATTGGGAGAGAGAGA
Found at i:555991 original size:13 final size:13
Alignment explanation
Indices: 555975--556002 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
555965 AAGAGAGAGA
555975 GATAGAGAATTGG
1 GATAGAGAATTGG
555988 GATAGAGAATTGG
1 GATAGAGAATTGG
556001 GA
1 GA
556003 GAAATAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (13 bp):
GATAGAGAATTGG
Found at i:558394 original size:35 final size:35
Alignment explanation
Indices: 558343--558436 Score: 152
Period size: 35 Copynumber: 2.7 Consensus size: 35
558333 AACAGTCTAA
*
558343 CTACATGAAGGGCAAGTTTCACTGTATATGTTAAG
1 CTACAAGAAGGGCAAGTTTCACTGTATATGTTAAG
* *
558378 CTACAAGAAGGACAAGTTTCACTGTATATGTTTAG
1 CTACAAGAAGGGCAAGTTTCACTGTATATGTTAAG
*
558413 CTACAGGAAGGGCAAGTTTCACTG
1 CTACAAGAAGGGCAAGTTTCACTG
558437 GACATGTGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (35 bp):
CTACAAGAAGGGCAAGTTTCACTGTATATGTTAAG
Found at i:560603 original size:18 final size:18
Alignment explanation
Indices: 560577--560611 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
560567 CATACAACTT
* *
560577 TGGGGACCTATAATGACA
1 TGGGAACCTAAAATGACA
560595 TGGGAACCTAAAATGAC
1 TGGGAACCTAAAATGAC
560612 TCAAATTGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (18 bp):
TGGGAACCTAAAATGACA
Found at i:560645 original size:35 final size:32
Alignment explanation
Indices: 560592--560666 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 32
560582 ACCTATAATG
*
560592 ACATGGGAACCTAAAATGACTCAAATTGACATACA
1 ACATGGGGACCTAAAATGA--CAAATTGAC-TACA
** *
560627 ACATGGGGACCTTTAATGACATATTGACTACA
1 ACATGGGGACCTAAAATGACAAATTGACTACA
560659 ACATGGGG
1 ACATGGGG
560667 GTGGGGTGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 12 0.33
33 8 0.22
35 16 0.44
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (32 bp):
ACATGGGGACCTAAAATGACAAATTGACTACA
Found at i:560760 original size:15 final size:15
Alignment explanation
Indices: 560740--560792 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
560730 ACTTATAAAG
560740 ACATGTTGACATACA
1 ACATGTTGACATACA
* *
560755 ACATGTGGGACCTATAATA
1 ACATGT-TGA-C-AT-ACA
560774 ACATGTTGACATACA
1 ACATGTTGACATACA
560789 ACAT
1 ACAT
560793 AGGACCTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 12 0.40
16 4 0.13
17 2 0.07
18 4 0.13
19 8 0.27
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (15 bp):
ACATGTTGACATACA
Found at i:560803 original size:32 final size:33
Alignment explanation
Indices: 560717--560902 Score: 238
Period size: 34 Copynumber: 5.7 Consensus size: 33
560707 ATATGGGGGC
* *
560717 TACAACATGTGGGACTTATAAAGACATGTTGACA
1 TACAACA-GTGGGACCTATAATGACATGTTGACA
*
560751 TACAACATGTGGGACCTATAATAACATGTTGACA
1 TACAACA-GTGGGACCTATAATGACATGTTGACA
* *
560785 TACAACA-TAGGACCTATAATGACATATTGACA
1 TACAACAGTGGGACCTATAATGACATGTTGACA
*
560817 TACAACATGTGGGACCTGTAATGACATGTTGACA
1 TACAACA-GTGGGACCTATAATGACATGTTGACA
*
560851 TACAAC-GTAGGACCTATAAT---ATGTTGACA
1 TACAACAGTGGGACCTATAATGACATGTTGACA
560880 TACAACATGTGGGACCTATAATG
1 TACAACA-GTGGGACCTATAATG
560903 TGGGACATAT
Statistics
Matches: 135, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
29 15 0.11
31 13 0.10
32 41 0.30
34 66 0.49
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (33 bp):
TACAACAGTGGGACCTATAATGACATGTTGACA
Found at i:560825 original size:66 final size:66
Alignment explanation
Indices: 560728--560901 Score: 273
Period size: 66 Copynumber: 2.7 Consensus size: 66
560718 ACAACATGTG
* *
560728 GGACTTATAAAGACATGTTGACATACAACATGTGGGACCTATAATAACATGTTGACATACAACAT
1 GGACCTATAATGACATGTTGACATACAACATGTGGGACCTATAATAACATGTTGACATACAACAT
560793 A
66 A
* * * *
560794 GGACCTATAATGACATATTGACATACAACATGTGGGACCTGTAATGACATGTTGACATACAACGT
1 GGACCTATAATGACATGTTGACATACAACATGTGGGACCTATAATAACATGTTGACATACAACAT
560859 A
66 A
560860 GGACCTATAAT---ATGTTGACATACAACATGTGGGACCTATAAT
1 GGACCTATAATGACATGTTGACATACAACATGTGGGACCTATAAT
560902 GTGGGACATA
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
63 29 0.29
66 71 0.71
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (66 bp):
GGACCTATAATGACATGTTGACATACAACATGTGGGACCTATAATAACATGTTGACATACAACAT
A
Found at i:560831 original size:100 final size:96
Alignment explanation
Indices: 560717--560902 Score: 266
Period size: 100 Copynumber: 1.9 Consensus size: 96
560707 ATATGGGGGC
* *
560717 TACAACATGTGGGACTTATAAAGACATGTTGACATACAACATGTGGGACCTATAATAACATGTTG
1 TACAACATGTGGGACCTATAAAGACATGTTGACATACAAC--GTAGGACCTATAAT---ATGTTG
560782 ACATACAACA-TAGGACCTATAATGACATATTGACA
61 ACATACAACAGTAGGACCTATAATGACATATTGACA
* *
560817 TACAACATGTGGGACCTGTAATGACATGTTGACATACAACGTAGGACCTATAATATGTTGACATA
1 TACAACATGTGGGACCTATAAAGACATGTTGACATACAACGTAGGACCTATAATATGTTGACATA
*
560882 CAACATGTGGGACCTATAATG
66 CAACA-GTAGGACCTATAATG
560903 TGGGACATAT
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
95 16 0.20
97 13 0.16
98 13 0.16
100 37 0.47
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (96 bp):
TACAACATGTGGGACCTATAAAGACATGTTGACATACAACGTAGGACCTATAATATGTTGACATA
CAACAGTAGGACCTATAATGACATATTGACA
Found at i:562488 original size:15 final size:15
Alignment explanation
Indices: 562470--562501 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
562460 GTTGAGATTT
562470 TAAAGATTGATTTAA
1 TAAAGATTGATTTAA
562485 TAAAGATTGATTTAA
1 TAAAGATTGATTTAA
562500 TA
1 TA
562502 TATTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (15 bp):
TAAAGATTGATTTAA
Found at i:565801 original size:9 final size:9
Alignment explanation
Indices: 565787--565813 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
565777 TCACGCAGTG
565787 CTGATCCCA
1 CTGATCCCA
565796 CTGATCCCA
1 CTGATCCCA
565805 CTGATCCCA
1 CTGATCCCA
565814 ATTGCCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.44, G:0.11, T:0.22
Consensus pattern (9 bp):
CTGATCCCA
Found at i:566794 original size:14 final size:15
Alignment explanation
Indices: 566767--566795 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
566757 TGCTGAAATC
566767 AGATTCAGAATTAAT
1 AGATTCAGAATTAAT
566782 AGATTCA-AATTAAT
1 AGATTCAGAATTAAT
566796 TTCAAAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (15 bp):
AGATTCAGAATTAAT
Found at i:567405 original size:14 final size:14
Alignment explanation
Indices: 567386--567413 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
567376 ATATATCTAT
567386 TAAACTGTAAATTA
1 TAAACTGTAAATTA
567400 TAAACTGTAAATTA
1 TAAACTGTAAATTA
567414 AACTGCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
TAAACTGTAAATTA
Found at i:567415 original size:12 final size:12
Alignment explanation
Indices: 567384--567418 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
567374 ATATATATCT
567384 ATTAAACTGTAA
1 ATTAAACTGTAA
567396 ATTATAAACTGTAA
1 A-T-TAAACTGTAA
567410 ATTAAACTG
1 ATTAAACTG
567419 CATTATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 2 0.10
14 11 0.52
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (12 bp):
ATTAAACTGTAA
Found at i:574588 original size:2 final size:2
Alignment explanation
Indices: 574581--574609 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
574571 ACCGTTCAAA
574581 TC TC TC TC TC TC TC TC TC TC TC T- TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
574610 CTTCTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:574613 original size:8 final size:9
Alignment explanation
Indices: 574581--574616 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
574571 ACCGTTCAAA
574581 TCTCTC-TC
1 TCTCTCTTC
574589 TCTCTC-TC
1 TCTCTCTTC
574597 TCTCTCTTC
1 TCTCTCTTC
574606 TCTC-CTTC
1 TCTCTCTTC
574614 TCT
1 TCT
574617 TTTCTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (9 bp):
TCTCTCTTC
Found at i:578838 original size:81 final size:81
Alignment explanation
Indices: 578555--578881 Score: 419
Period size: 81 Copynumber: 4.0 Consensus size: 81
578545 AACACAACAG
*
578555 CTGTTTGAAATAGCTCCATCATGCATAC-TTGTCTAAACATCAATTTATTTGGCCTCCATTTAGA
1 CTGTTTGAAATAGCTCCATCATGCATACTTTGTCTAAACATCAATTTATTTGGCCTCCATTAAGA
*
578619 GGATTAAACAAAAATGA
66 GGATTAAA-AAAGATGA
* * *
578636 CTGTTTGAAACAGCTCCATCATGCAT-TTTTGTCTATATAAACATCAATTTGTTTGGCCTCCATT
1 CTGTTTGAAATAGCTCCATCATGCATACTTTGTC----TAAACATCAATTTATTTGGCCTCCATT
* * *
578700 TAGAGGATTGAAATAGATGA
62 AAGAGGATTAAAAAAGATGA
* * * *
578720 CAGTTTGAAATAGTTCCATCATGCATA-TTTGTTTAAACATCAATTTATTTGGCCTCCATTAAAA
1 CTGTTTGAAATAGCTCCATCATGCATACTTTGTCTAAACATCAATTTATTTGGCCTCCATTAAGA
578784 GGATTGAAAAAAGATGA
66 GGATT-AAAAAAGATGA
* * *
578801 CTGTTTGAAATAGTTCAATCATGCATACTTT-TCTAAACATCAATTTCATTGGGCCTCCATTAAG
1 CTGTTTGAAATAGCTCCATCATGCATACTTTGTCTAAACATCAATTT-ATTTGGCCTCCATTAAG
*
578865 AGGATTCAAAAAGATGA
65 AGGATTAAAAAAGATGA
578882 TAACATAACT
Statistics
Matches: 216, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
80 33 0.15
81 88 0.41
82 24 0.11
84 34 0.16
85 37 0.17
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (81 bp):
CTGTTTGAAATAGCTCCATCATGCATACTTTGTCTAAACATCAATTTATTTGGCCTCCATTAAGA
GGATTAAAAAAGATGA
Found at i:580138 original size:21 final size:21
Alignment explanation
Indices: 580113--580154 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
580103 GGTTTTGGGG
*
580113 GTTTTT-TTTTTGTGTTTTTT
1 GTTTTTGTTTTGGTGTTTTTT
580133 GTTTTTGTTTTGGTGTTTTTT
1 GTTTTTGTTTTGGTGTTTTTT
580154 G
1 G
580155 GGGTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (21 bp):
GTTTTTGTTTTGGTGTTTTTT
Found at i:580164 original size:21 final size:20
Alignment explanation
Indices: 580116--580164 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
580106 TTTGGGGGTT
* **
580116 TTTTTTTTGTGTTTTTTGTT
1 TTTTTTTGGTGTTTTTTGGG
580136 TTTGTTTTGGTGTTTTTTGGGG
1 TTT-TTTTGGTGTTTTTT-GGG
580158 TTTTTTT
1 TTTTTTT
580165 TTGGGGGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 17 0.71
22 4 0.17
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (20 bp):
TTTTTTTGGTGTTTTTTGGG
Found at i:580171 original size:1 final size:1
Alignment explanation
Indices: 580167--580194 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
580157 GTTTTTTTTT
580167 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
580195 TTGAACATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:583962 original size:33 final size:34
Alignment explanation
Indices: 583914--583982 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 34
583904 TCTATGGAAA
* * *
583914 TGAAAGCAAATTTGTTTTACTGAAATAGATACAC
1 TGAAAGCAAACTTGTTTAACCGAAATAGATACAC
583948 TGAAA-CAAACTTGTTTAACCGAAATAGATACAC
1 TGAAAGCAAACTTGTTTAACCGAAATAGATACAC
583981 TG
1 TG
583983 TACTACAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (34 bp):
TGAAAGCAAACTTGTTTAACCGAAATAGATACAC
Found at i:587612 original size:11 final size:11
Alignment explanation
Indices: 587596--587620 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
587586 ACATTTTGAA
587596 AAAATACAGGT
1 AAAATACAGGT
587607 AAAATACAGGT
1 AAAATACAGGT
587618 AAA
1 AAA
587621 TTTGTGTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (11 bp):
AAAATACAGGT
Found at i:592741 original size:2 final size:2
Alignment explanation
Indices: 592734--592785 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
592724 TAAAGCACAA
592734 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
592776 TC TC TC TC TC
1 TC TC TC TC TC
592786 CCCCCCCCCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:592791 original size:1 final size:1
Alignment explanation
Indices: 592785--592824 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
592775 CTCTCTCTCT
592785 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
592825 AAATGCCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:594763 original size:180 final size:180
Alignment explanation
Indices: 594368--595092 Score: 1301
Period size: 180 Copynumber: 4.0 Consensus size: 180
594358 ACCCTACATG
* *
594368 TATATGCAACATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCATAAATTATCG
1 TATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCATAAATTATCA
* *
594433 GAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTTTTAAATCTGCAAAAGAA
66 GAAATCAAAATCCTAGCAATATGCACACCTCTGACATATGTACAA---TT-GATCTGCAAAAGAA
*
594498 CAATTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCC
127 CAACTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCC
594552 TATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTA-TTTTTTCGATAAATTATC
1 TATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTC-ATAAATTATC
594616 AGAAATCAAAATCCTAGCAATATGCACACCTCTGACATATGTACAATTGATCTGCAAAAGAACAA
65 AGAAATCAAAATCCTAGCAATATGCACACCTCTGACATATGTACAATTGATCTGCAAAAGAACAA
594681 CTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCC
130 CTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCC
*
594732 TATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCATAAATTATCG
1 TATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCATAAATTATCA
* *
594797 GAAATCAAAATCCTAGCAATGTGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAAC
66 GAAATCAAAATCCTAGCAATATGCACACCTCTGACATATGTACAATTGATCTGCAAAAGAACAAC
594862 TTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCC
131 TTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCC
594912 TATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTA-TTTTTTCGATAAATTATC
1 TATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTC-ATAAATTATC
594976 AGAAATCAAAATCCTAGCAATATGCACACCTCTGACATATGTACAATTGATCTGCAAAAGAACAA
65 AGAAATCAAAATCCTAGCAATATGCACACCTCTGACATATGTACAATTGATCTGCAAAAGAACAA
*
595041 CTTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCC
130 CTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCC
595092 T
1 T
595093 TTTGGCAGCC
Statistics
Matches: 526, Mismatches: 12, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
179 7 0.01
180 404 0.77
181 9 0.02
183 7 0.01
184 99 0.19
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (180 bp):
TATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCATAAATTATCA
GAAATCAAAATCCTAGCAATATGCACACCTCTGACATATGTACAATTGATCTGCAAAAGAACAAC
TTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCC
Found at i:601206 original size:2 final size:2
Alignment explanation
Indices: 601199--601241 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
601189 TAGATATAGT
*
601199 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG 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
601241 G
1 G
601242 GACGACGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:612745 original size:166 final size:166
Alignment explanation
Indices: 612471--613483 Score: 1139
Period size: 166 Copynumber: 6.2 Consensus size: 166
612461 GGTATTTTTC
* * * * * * * *
612471 AAAAATCTTCTTCTCAAAAACTATTCGGCCTGAAAAGCTAAAACTTGTGTGGAGGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAGA
* * **
612536 TAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTTGGGCCACAAGAAGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTGGGGGA
*
612601 TCAAGTTTTACATAGGAATATATTGAGAAAATCTTT
131 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
612637 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAGA
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAGA
**
612702 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAAAGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTGGGGGA
* * * *
612767 TGAATTTTTACATAGGAATTTATAGAGAAAATCTTA
131 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
* * * *
612803 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAT-AATGGAATCATCTTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATT-TGAGTGGAAGCATCCTCAG
* * * * * *
612867 GTAG-GTTAGATTCAAGCTCGTTCAAATCATGTTCCCCGGGGGTAGGATGGGGCCA-AAATGGGG
65 ATAGTG-TAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGT-GGG
612930 GGATCAAGTTTTACATAGGAATATATAGAG---------
128 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
* * *
612960 -AAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAATGGAAGCATTCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAGA
* * *
613024 TATTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGTGGGGCCACAATTGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTGGGGGA
613089 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
131 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
* * * * * *
613125 AAAAATCTTCTTCTCAAAAACTATTTGACCAAGAAAGCTCAAATTGGCG-GGTAACCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGG-AAGCATCCTCAG
* * * *
613189 ATAATGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGCGGGGCCACAA-TTGGGG
65 ATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTGGGGG
* *
613253 AT-ACA-TTTT---T----ATACATAGAGAAAATCTCTA
130 ATCA-AGTTTTACATAGGAATATATAGAGAAAATCT-TT
* * * *
613283 AAAAATCTTCTTCTC-AAAACTATTAGGCCAGGAAAGCCCAAATCTGAGTGGAAGCAT-TTCCAA
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCT-CAG
* * * * * * * * * *
613346 ATTGTATAGATTCAAGTTTTTTAAAATGATAGT--CCAGTGGTATGGTGAGGCCAC-AGTGGGGG
65 ATAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTGGGGG
* *
613408 ATGAATTTTTACATAGGAATATATAGAGAAAATCTTT
130 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
* * * * * *
613445 AAAAATCTTCTTTTTAAAGACCATTTGGCCAGAAAAGCT
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCT
613484 TTAACTTGTG
Statistics
Matches: 727, Mismatches: 88, Indels: 67
0.82 0.10 0.08
Matches are distributed among these distances:
154 1 0.00
155 24 0.03
156 143 0.20
157 79 0.11
158 18 0.02
159 1 0.00
161 1 0.00
162 14 0.02
163 34 0.05
164 5 0.01
165 14 0.02
166 392 0.54
167 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (166 bp):
AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAGA
TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAAGTGGGGGA
TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
Found at i:613048 original size:322 final size:319
Alignment explanation
Indices: 612471--613483 Score: 1182
Period size: 322 Copynumber: 3.1 Consensus size: 319
612461 GGTATTTTTC
* * * * **
612471 AAAAATCTTCTTCTCAAAAACTATTCGGCCTGAAAAGCTAAAACTTGTGTGGAGGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTTGGCCAGAAAAGCTCAAA-TT-TATGGAACCATCCTCAGG
* *
612536 TAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTTGGGCCACAA-GAAGGGG
64 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATG-AGGGG
612600 ATCAAGTTTTACATAGGAATATATTGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATTAGG
128 ATCAAGTTTTACATAGGAATATA-T-AG---A-----AAAAATCTTCTTCTCAAAAACTATTAGG
* *
612665 CCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAGATAGTGTAGATTCAAGTTTGTTCAAATCA
183 CCAGGAAAGCTCAAATTTGAGTGGAAGCATTCTCAG-TATTGTAGATTCAAGTTTGTTCAAATCA
* *
612730 TGGTCCCCGGGGGTAGGGTGGGGCCACAAAAGGGGGATGAATTTTTACATAGGAATTTATAGAGA
247 TGGTCCCCGGGGGTAGGGTGGGGCCACAAATGGGGGATGAATTTTTACATAGGAATATATAGAGA
*
612795 AAATCTTA
312 AAATCTTT
* * *
612803 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTATAATGGAATCATCTTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTTGGCCAGAAAAGCTCAAATT-T-ATGGAACCATCCTCAGG
* * * * * *
612868 TAG-GTTAGATTCAAGCTCGTTCAAATCATGTTCCCCGGGGGTAGGATGGGGCCAAAATGGGGGG
64 TAGTG-TAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGAGGGG
*
612932 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGC
128 ATCAAGTTTTACATAGGAATATATAGAAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGC
* *
612997 TCAAATTTGAATGGAAGCATTCTCAGGTATTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGG
193 TCAAATTTGAGTGGAAGCATTCTCA-GTATTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGG
* * *
613062 GGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT
257 GGGTAGGGTGGGGCCACAAATGGGGGATGAATTTTTACATAGGAATATATAGAGAAAATCTTT
* ***
613125 AAAAATCTTCTTCTCAAAAACTATTTGACCA-AGAAAGCTCAAATTGGCGGGTAACCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTTGGCCAGA-AAAGCTCAAATT-TATGG-AACCATCCTCAG
* * * * *
613189 ATAATGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGGTAGGGCGGGGCCACAAT-TGGGG
63 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGAGGGG
** * * **
613253 ATACATTTTTATACATAGAGAAAATCTCTAAAAAATCTTCTTCTC-AAAACTATTAGGCCAGGAA
128 AT-CAAGTTT-TACATAG-GAATATATAGAAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAA
* * * * * * *
613317 AGCCCAAATCTGAGTGGAAGCATT-TCCA-AATTGTATAGATTCAAGTTTTTTAAAATGATAGT-
190 AGCTCAAATTTGAGTGGAAGCATTCT-CAGTATTG--TAGATTCAAGTTTGTTCAAATCATGGTC
* * * * *
613379 -CCAGTGGTATGGTGAGGCCAC-AGTGGGGGATGAATTTTTACATAGGAATATATAGAGAAAATC
252 CCCGGGGGTAGGGTGGGGCCACAAATGGGGGATGAATTTTTACATAGGAATATATAGAGAAAATC
613442 TTT
317 TTT
* * * *
613445 AAAAATCTTCTTTTTAAAGACCATTTGGCCAGAAAAGCT
1 AAAAATCTTCTTCTCAAAAACTATTTGGCCAGAAAAGCT
613484 TTAACTTGTG
Statistics
Matches: 594, Mismatches: 73, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
320 74 0.12
321 30 0.05
322 258 0.43
323 74 0.12
324 21 0.04
327 1 0.00
330 2 0.00
331 5 0.01
332 128 0.22
333 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (319 bp):
AAAAATCTTCTTCTCAAAAACTATTTGGCCAGAAAAGCTCAAATTTATGGAACCATCCTCAGGTA
GTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGAGGGGATC
AAGTTTTACATAGGAATATATAGAAAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCA
AATTTGAGTGGAAGCATTCTCAGTATTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGT
AGGGTGGGGCCACAAATGGGGGATGAATTTTTACATAGGAATATATAGAGAAAATCTTT
Found at i:618635 original size:161 final size:161
Alignment explanation
Indices: 618366--618875 Score: 662
Period size: 161 Copynumber: 3.1 Consensus size: 161
618356 CAACAGTTTC
*
618366 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTA
1 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTAGTATACAGGTTTA
* * *** * *
618431 TCTTGATAATATTTAGGTCAAGTTCGTTATTGGGTACGATCGAGCAATTTTCAACAGAGTTATTG
66 TCATGATAATATCTAGGTCAAGTTAAATATTGGGTATGATCGAGCAATTTTCGACAGAGTTATTG
* * *
618496 CTCTTGGACATAGAAAAGTTCTAGTTATTTG
131 CCCTTGGACATAGAAAAATTCCAGTTATTTG
618527 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTAGTATACAGGTTTA
1 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTAGTATACAGGTTTA
* * *
618592 TCATGATAATATCTAGATCAAGTTAAATATTGGGTATGATCGAGCAATTTTTGACAGAGTTATGG
66 TCATGATAATATCTAGGTCAAGTTAAATATTGGGTATGATCGAGCAATTTTCGACAGAGTTATTG
* *
618657 CCCTCGGACATAGAAAAATTCCAGTTATATG
131 CCCTTGGACATAGAAAAATTCCAGTTATTTG
* * * * * * *
618688 CAGTTTCCGCTCATTTTCTTCGCAGAGGGTGCACATATTGATATAAAATCTAGTAAACAGTTTTA
1 CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTAGTATACAGGTTTA
* * *
618753 TCTGAATACGACCTAATATCTAGGTCAAGTTTAATTTTGGGTATTATCGAGCAATTTTCGACAGA
66 TC---AT--GA--TAATATCTAGGTCAAGTTAAATATTGGGTATGATCGAGCAATTTTCGACAGA
* **
618818 GTTA-TGCCCCTTGGACTTAGAAAAATTCCAAATATTTG
124 GTTATTG-CCCTTGGACATAGAAAAATTCCAGTTATTTG
* *
618856 CAGTTTACGTTCATTTTCTT
1 CAGTTTCCGCTCATTTTCTT
618876 TGTGGATGTT
Statistics
Matches: 305, Mismatches: 36, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
161 205 0.67
164 2 0.01
166 2 0.01
167 1 0.00
168 95 0.31
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (161 bp):
CAGTTTCCGCTCATTTTCTTCGCAGAGGATGAACATATTGAAATGAAATTTAGTATACAGGTTTA
TCATGATAATATCTAGGTCAAGTTAAATATTGGGTATGATCGAGCAATTTTCGACAGAGTTATTG
CCCTTGGACATAGAAAAATTCCAGTTATTTG
Found at i:634684 original size:17 final size:17
Alignment explanation
Indices: 634662--634696 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
634652 ATTCGTAAAT
634662 TACAATCTAAGTTCATC
1 TACAATCTAAGTTCATC
*
634679 TACAATCTAAGTTTATC
1 TACAATCTAAGTTCATC
634696 T
1 T
634697 GTCTGCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (17 bp):
TACAATCTAAGTTCATC
Found at i:642485 original size:1 final size:1
Alignment explanation
Indices: 642442--642476 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
642432 AATTTAACAA
642442 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
642477 ACAATTTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:646327 original size:166 final size:166
Alignment explanation
Indices: 645765--646888 Score: 1745
Period size: 166 Copynumber: 6.8 Consensus size: 166
645755 GTGAATATGC
* * * * * * * * *
645765 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
* * * * * *
645830 ATATGGTATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGGGATAAATAGCTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
645895 AATCTTTGA-GGAAAATTTGTTTGAAAATTTTGGCTA
131 AATCTTTGACGG-AAATTTGTTTGAAAATTTTGGCTA
* * * * *
645931 AAAA-AAACAAAGTCATTATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
* * *
645995 ATATGGCATGCCTAAACAAATAATGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
* * *
646060 ATTCTTTGACAGAAATTTG-TT-AAAATTTTGGCAA
131 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
*
646094 AAAATAAACAAAGTCGTCATTTGACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
* *
646159 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
646224 AATCTTTGACGGAAATTTGTTTGAAAATTTTTGCTA
131 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
*
646260 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCTCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
*
646325 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCCTCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
* * *
646390 ATTCTTTGACAGAAATTTGTTTGAAAATTTTGGCAA
131 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
* *
646426 AAAATAAACAAAGTCGTCATTTGACAGGAAGTTGACGTCTGATTGGTACAAAAATACATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
*
646491 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
646556 AATCTTTGACGGAAATTTGTTTGAAAATTTTTGCTA
131 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
646592 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
* * *
646657 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCAACTGGGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
* *
646722 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
131 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCT-A
* * *
646759 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGATGTCCGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
* *
646824 ATATGGCATGCCT-TAACAAACACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
66 ATATGGCATGCCTAT-ACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
646888 A
130 A
646889 TAAATGCGAC
Statistics
Matches: 887, Mismatches: 65, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
163 16 0.02
164 133 0.15
165 128 0.14
166 489 0.55
167 121 0.14
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (166 bp):
AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACG
ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
Found at i:646921 original size:4 final size:4
Alignment explanation
Indices: 646919--646978 Score: 75
Period size: 4 Copynumber: 15.0 Consensus size: 4
646909 GTTACGGACG
* * * * *
646919 GACA GACA GACG GACA GACA GACA GACA GACG GACA GACG GACG GACG
1 GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA
646967 GACA GACA GACA
1 GACA GACA GACA
646979 CACAAGGGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.42, C:0.25, G:0.33, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:649735 original size:2 final size:2
Alignment explanation
Indices: 649728--649781 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
649718 GTATTAAGTT
649728 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
649770 GA GA GA GA GA GA
1 GA GA GA GA GA GA
649782 TTTTTTATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:651475 original size:2 final size:2
Alignment explanation
Indices: 651468--651492 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
651458 CCTTGTTTCA
651468 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
651493 GTGTTTGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:656398 original size:1 final size:1
Alignment explanation
Indices: 656392--656438 Score: 67
Period size: 1 Copynumber: 47.0 Consensus size: 1
656382 TGAACGCCGA
***
656392 CCCCCCCCCCCCCCCCCCCCCCCCCNNNCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
656439 GGCAACATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.94, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:660489 original size:16 final size:16
Alignment explanation
Indices: 660468--660524 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
660458 TACAGGGTTG
660468 TTTTCGCCCCATGTTA
1 TTTTCGCCCCATGTTA
660484 TTTTCGCCCCATGTTA
1 TTTTCGCCCCATGTTA
*
660500 TTTTTGCCCCATGTTA
1 TTTTCGCCCCATGTTA
*
660516 TTTTTGCCC
1 TTTTCGCCC
660525 TTCAACACTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.11, C:0.30, G:0.12, T:0.47
Consensus pattern (16 bp):
TTTTCGCCCCATGTTA
Found at i:674118 original size:180 final size:180
Alignment explanation
Indices: 673806--674164 Score: 515
Period size: 180 Copynumber: 2.0 Consensus size: 180
673796 GCCAAAAGGG
* * * *
673806 TACCCTCATTGTACGGATAACTCCTCATACAGTTTTTAAGATAAGAAGTTTTTCTTTTGCAGATC
1 TACCCTCATTGTAAGGATAACTCCTCATACAGTTCTCAAGATAAGAAGTTGTTCTTTTGCAGATC
* * *
673871 AATTGTACATATTTCAGAAGGATGCATATTGCTAAGATTTTGATTTCCGATAATTTATGACAAAA
66 AATTGCACATATTTCAGAAGGATGCATATTGCTAAGATTTTGATTTCCGATAATTAATGAAAAAA
673936 ATACCAGATTTTGAACATAGTCATTTTTGGGCAAAATATTGCATATAGGT
131 ATACCAGATTTTGAACATAGTCATTTTTGGGCAAAATATTGCATATAGGT
* * * * *
673986 TACCCTCATTGTAAGGATGACTCTTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCATATC
1 TACCCTCATTGTAAGGATAACTCCTCATACAGTTCTCAAGATAAGAAGTTGTTCTTTTGCAGATC
* *
674051 AATTGCACATATATT-AG-AGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTAATGAAAA
66 AATTGCACATAT-TTCAGAAGG-ATGCATATTGCTAAGATTTTGATTTCCGATAATTAATGAAAA
* * * * *
674114 AAATACCAGCTTTTGAACTTGGTCATTTTTTGGCAAAATATTGCATTTAGG
129 AAATACCAGATTTTGAACATAGTCATTTTTGGGCAAAATATTGCATATAGG
674165 GTACTCCATT
Statistics
Matches: 158, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
179 3 0.02
180 153 0.97
181 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (180 bp):
TACCCTCATTGTAAGGATAACTCCTCATACAGTTCTCAAGATAAGAAGTTGTTCTTTTGCAGATC
AATTGCACATATTTCAGAAGGATGCATATTGCTAAGATTTTGATTTCCGATAATTAATGAAAAAA
ATACCAGATTTTGAACATAGTCATTTTTGGGCAAAATATTGCATATAGGT
Found at i:678717 original size:24 final size:24
Alignment explanation
Indices: 678642--678718 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
678632 TCTATATATA
678642 TCAAAGCCATCTGAAAGGTCAATG
1 TCAAAGCCATCTGAAAGGTCAATG
* * * *
678666 TCAAA--AAACTGAGA-GTCCTAGATA
1 TCAAAGCCATCTGAAAGGT-C-A-ATG
678690 TCAAAGCCATCTGAAAGGTCAATG
1 TCAAAGCCATCTGAAAGGTCAATG
678714 TCAAA
1 TCAAA
678719 ACACTGTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
21 2 0.05
22 7 0.18
23 1 0.03
24 19 0.49
25 1 0.03
26 7 0.18
27 2 0.05
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (24 bp):
TCAAAGCCATCTGAAAGGTCAATG
Found at i:686066 original size:1 final size:1
Alignment explanation
Indices: 686048--686092 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
686038 TATAAGCGTG
* * * *
686048 TTTTTTATTTTGTGTTTTTTTTTTTTTTTTTTTTATTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
686093 GGTGAGTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.04, C:0.00, G:0.04, T:0.91
Consensus pattern (1 bp):
T
Found at i:686087 original size:14 final size:14
Alignment explanation
Indices: 686048--686092 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
686038 TATAAGCGTG
*
686048 TTTTTTATTTTGTGT
1 TTTTTTATTTT-TTT
686063 TTTTTT-TTTTTTT
1 TTTTTTATTTTTTT
686076 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
686090 TTT
1 TTT
686093 GGTGAGTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 8 0.29
14 14 0.50
15 6 0.21
ACGTcount: A:0.04, C:0.00, G:0.04, T:0.91
Consensus pattern (14 bp):
TTTTTTATTTTTTT
Found at i:688133 original size:2 final size:2
Alignment explanation
Indices: 688126--688165 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
688116 TATCCGGTTA
688126 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
688166 GTATTACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:690318 original size:1 final size:1
Alignment explanation
Indices: 690312--690342 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
690302 CATTGGAAAT
*
690312 GGGGGGGGGGGGGGGGGGGGGGGGGGAGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
690343 TGAGGGCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:690357 original size:11 final size:11
Alignment explanation
Indices: 690343--690368 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
690333 GGGGGAGGGG
690343 TGAGGGCAAAA
1 TGAGGGCAAAA
690354 TGAGGGCAAAA
1 TGAGGGCAAAA
690365 TGAG
1 TGAG
690369 ATAACTCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.08, G:0.38, T:0.12
Consensus pattern (11 bp):
TGAGGGCAAAA
Found at i:694978 original size:69 final size:65
Alignment explanation
Indices: 694801--694985 Score: 216
Period size: 69 Copynumber: 2.8 Consensus size: 65
694791 AAAGTCCAAG
* * *
694801 GTTTCCAACGAAAGACCTTATTGTTTTCGTTCGGTTTCTTTTTC--CCTATTATTAAGGTATTCC
1 GTTTCCAACGGAAGACCTTACTGTTTTCGTTCTGTTTCTTTTTCTTCCTATTATTAAGGTATTCC
* **
694864 GTCTT-CAGCGGAAGACCTTACTGTTTTTC-TTCTGTTTCTCATTCTTCTATATTATTATTAAGG
1 GT-TTCCAACGGAAGACCTTACTG-TTTTCGTTCTGTTTCT--TT-TTCT-TCCTATTATTAAGG
*
694927 TCTTCC
60 TATTCC
694933 GTTTCCAACGGAAGACCTTACTGTTTTCGTTCTGTTTCTTTTTCTTCGCTATT
1 GTTTCCAACGGAAGACCTTACTGTTTTCGTTCTGTTTCTTTTTCTTC-CTATT
694986 TTTCTTTTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 19
0.78 0.08 0.15
Matches are distributed among these distances:
63 26 0.26
64 7 0.07
65 3 0.03
66 11 0.11
67 2 0.02
68 7 0.07
69 45 0.45
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.48
Consensus pattern (65 bp):
GTTTCCAACGGAAGACCTTACTGTTTTCGTTCTGTTTCTTTTTCTTCCTATTATTAAGGTATTCC
Found at i:696692 original size:437 final size:435
Alignment explanation
Indices: 695859--696710 Score: 1020
Period size: 437 Copynumber: 1.9 Consensus size: 435
695849 AAGGGACCAA
695859 AGGGCTCTAAAGTTTTATTATCTATAGCCCTTTACTGAGGGATATATTTTGTGAAAGGTTATAGA
1 AGGGCTCTAAAGTTTTATTATCTATAGCCCTTTACTGAGGGA-ATATTTTGTGAAAGGTTATAGA
* * * * * * *
695924 AGCAGATATGTTTATCGTAAGGTTATGTATCCAAACATTGTTATGATTTTATCATGTGTTACGTA
65 AGCAAATATGTTAATCGTAAGGTTATGTATCCAAACAATGTAATAATTTGATCATGTGTTACGAA
* * * * *
695989 ATTAGGAGTTTTAAGGGGTCAGAAGTCCAAAATTTTGATCACCCATATTTAGAAAGGAAAAATAT
130 ATAAGGAGTTTTAAGAGGTCAGAAGTCCAAAACTTTGATCACCCATATTCAAAAAGGAAAAATAT
* * * * *
696054 TTTGAAATGCAGTATTAAAGAAAAGATGCTCAAAATGATGTAATAAAAATATGCAATCTTCAAAA
195 TTTGAAATGCAGTATT-AAGAAAAGATACTCAAAATGAGGTAATAAAAACATACAACCTTCAAAA
* * * * * * *
696119 ATTCGTTTAACTCCCCTATAAGGAGAAACTGGATCGGCCCCTAAAACGTTCTTTCCCACATATCT
259 ATTCGTTCAACACCCCAAAAAGGAGAAACGGGATCGGACCCGAAAACGTTCTTTCCCACATATCT
* * * *
696184 CAAAAACGGTAACAAATGTCTAAACACTTGATGATCAAAATGTGTTAGGAATTAAATGACCTTTC
324 CAAAAACGGTAACAAATGTCTAAACACTTGATGAACAAAATATCTTACGAATTAAATGACCTTTC
*
696249 ATTTGATATCAAGACA-AAGGGGCTGTCCCCGCAAATAAGGAGACTAG
389 ATTTGATAGCAAGA-AGAAGGGGCTGTCCCCGCAAATAAGGAGACTAG
* *
696296 AGGGCTCTAAAGTTTTTTTTTTATCTTTAGCCCTTTACTGAGGG-ATATTTTGTGAAAGGTTATA
1 AGGGCTCTAAAG---TTTTATTATCTATAGCCCTTTACTGAGGGAATATTTTGTGAAAGGTTATA
** * *
696360 GAAGCAAATATGTTAATTTTATA-GTTATTTATCCAAGCAATGTAATAATTTGATCATGTGTTAC
63 GAAGCAAATATGTTAATCGTA-AGGTTATGTATCCAAACAATGTAATAATTTGATCATGTGTTAC
* * * *
696424 GAAATAAGGCGTTTT-AGAGGTCA-AGAGTCTAAAACTTTGATCATCTATATCTCAAAAAGGAAA
127 GAAATAAGGAGTTTTAAGAGGTCAGA-AGTCCAAAACTTTGATCACCCATAT-TCAAAAAGG-AA
* *
696487 AAATATTTTGAAATGCAGTA-T-AGAAAAGATACTCAAAATGAGGTACTTAACAACATACAACCT
189 AAATATTTTGAAATGCAGTATTAAGAAAAGATACTCAAAATGAGGTA-ATAAAAACATACAACCT
* * * * **
696550 TCAAAATTTTGTTCAGCGACCCCAAAAAGGAGATAA-GGGATCGGACCCGAAAAC-TTTTTTTTC
253 TCAAAAATTCGTTCAAC-ACCCCAAAAAGGAGA-AACGGGATCGGACCCGAAAACGTTCTTTCCC
* * * * * * * * *
696613 AGATATCTCAAGAACTGTGACGAATTTCTAAACACTTGTTGAACGATATATCTTACGAATTAAAT
316 ACATATCTCAAAAACGGTAACAAATGTCTAAACACTTGATGAACAAAATATCTTACGAATTAAAT
696678 GACCTTTCATTTGATAGCAAGAAGAAGGGGCTG
381 GACCTTTCATTTGATAGCAAGAAGAAGGGGCTG
696711 GTCTCTCAAA
Statistics
Matches: 348, Mismatches: 56, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
436 24 0.07
437 153 0.44
438 119 0.34
439 25 0.07
440 27 0.08
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (435 bp):
AGGGCTCTAAAGTTTTATTATCTATAGCCCTTTACTGAGGGAATATTTTGTGAAAGGTTATAGAA
GCAAATATGTTAATCGTAAGGTTATGTATCCAAACAATGTAATAATTTGATCATGTGTTACGAAA
TAAGGAGTTTTAAGAGGTCAGAAGTCCAAAACTTTGATCACCCATATTCAAAAAGGAAAAATATT
TTGAAATGCAGTATTAAGAAAAGATACTCAAAATGAGGTAATAAAAACATACAACCTTCAAAAAT
TCGTTCAACACCCCAAAAAGGAGAAACGGGATCGGACCCGAAAACGTTCTTTCCCACATATCTCA
AAAACGGTAACAAATGTCTAAACACTTGATGAACAAAATATCTTACGAATTAAATGACCTTTCAT
TTGATAGCAAGAAGAAGGGGCTGTCCCCGCAAATAAGGAGACTAG
Found at i:700931 original size:2 final size:2
Alignment explanation
Indices: 700924--700992 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
700914 GACACAACTA
700924 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
700966 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
700993 TTATTGAGGG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:701291 original size:2 final size:2
Alignment explanation
Indices: 701286--701334 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
701276 GAGAGCGCTG
701286 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
701328 CT CT CT C
1 CT CT CT C
701335 CGACGGCAGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:702568 original size:2 final size:2
Alignment explanation
Indices: 702561--702623 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
702551 ATTGGAACTC
*
702561 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA 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
*
702603 AG AA AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG A
702624 AGGGGAGGGG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:703480 original size:2 final size:2
Alignment explanation
Indices: 703473--703537 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
703463 NNNNNNNNNN
703473 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
703515 CT CT CT CT CT CT CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT
703538 TACAAAACCC
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:703959 original size:2 final size:2
Alignment explanation
Indices: 703952--704020 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
703942 TGTTCGATCT
703952 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
703994 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
704021 CTAAACCGAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:704849 original size:2 final size:2
Alignment explanation
Indices: 704844--704891 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
704834 CCAACCACAC
704844 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
704886 AG AG AG
1 AG AG AG
704892 GAAGACATTC
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):
AG
Found at i:712745 original size:13 final size:13
Alignment explanation
Indices: 712727--712751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
712717 GACTTGAATG
712727 AAAGAGAGAAAGA
1 AAAGAGAGAAAGA
712740 AAAGAGAGAAAG
1 AAAGAGAGAAAG
712752 TGAATCGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AAAGAGAGAAAGA
Found at i:718671 original size:128 final size:128
Alignment explanation
Indices: 718114--722697 Score: 6591
Period size: 128 Copynumber: 35.8 Consensus size: 128
718104 TTTTAAAGAA
* * * *
718114 GTTTTGTTGACATCGTGAAGAAGTTTCCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * *
718179 ATGTCACTGTGACGAATGTGTGACAAGGAAACGCAAC--GTTTGTATTTGTTATATGTACAGAC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAG-TTGTATTTGTTATCTGTGCAGCC
**
718241 GTTTTC-TGACATCATGAAGAAGTTCGTTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * ** *
718305 ATGCCACTGTGACGAATGTGTGACAAGGAAACGCAAC--GTTTGTATTTGTTATATGTATAGAC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAG-TTGTATTTGTTATCTGTGCAGCC
718367 GTTTTC-TGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * *
718431 ATGCCACTGTGACGAATGTGTGACAAGGAAACGCAACAAAGTTATATTTGTTATCTGTGCACCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAAC-AAGTTGTATTTGTTATCTGTGCAGCC
* * *
718495 GTTTTCTTGATATCATGAAGAAGTCCCCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTTT-A
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
718559 ATTGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
66 A-TGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* * * * *
718623 GCTTTCTTGACATCATAAAGAAGTTCGCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTTTAA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
*
718688 ATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* * * *
718751 GCTTTCTTGACATCATAAAGAAGTTCGCTTAGCAATCCCTTATCAGA-TTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * *
718815 ATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACAGGTTGTATTTATTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
** * * * *
718878 GTTTTGATGACATTATGAAAAAGTTCCCTTGGCGATCCCTTATCAGACTTCCGTCCAGTGTTTAA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * *
718943 ATGACACTGTGGCGAATGTGCGACAAGGAAACGCAACACGTTGTATTTGTTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* * *
719006 GTGTTCTTGACATAATGAAGAAGTTCCCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* **
719071 ATGACACTGTGACGAATGTGTGACATGGAAACGCAACAAGTTGTATTTGTTATCTGTTG-AAAC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTG-TGCAGCC
* *
719134 GTTTTCTTGACATCATGAAGAAGTTCGCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* *
719199 ATGACACTGTGACGAATGTGTGACATGGAAACGCAACAAGTTGTATTTGTTATCTGTTG-AGAC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTG-TGCAGCC
* *
719262 GTTTTCTTGACATCATGAAGAAGTTCGCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * * * *
719327 ATGACACTGTGACGAATGTGTGACATGGAAACGCATCCAGTT-TTTTTGTTATATGTACAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
*
719389 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGTTCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * *
719454 ATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACACGTTGTATTTGTTATCTGTGAAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
** * *
719517 ACTTTCTTGACATCATGAAGAAGTTCCATTAGCGATCCCTTATCAGACTTCCGTCCAGTATTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * * * *
719582 ATGCCACTGTGACGAATGTGTGACAAGGAAACGCATCCAA-TTTTATTTGGTATCTGTACACCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCA-ACAAGTTGTATTTGTTATCTGTGCAGCC
* *
719645 GTTATCTTGACATCATGAAGAAGTTCCCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * ** *
719710 ATGACACTGTGACGAATGAGTGATAAGGAAACGCAACAAGTTGTATTCGTTATCTGTATAGAC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* * *
719773 GTTTTATTGACGTCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGATTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * * * *
719838 ATGACACTGTGACGAATGTGTGACAAGGAAACGCATCCAGTTTTATTTGTTATCTATACAGTC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* * *
719901 GTTTTCTTGACACCATGAAAAAGTTCCCTTAGCGATCCCTTATCAGACTTGCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* *
719966 ATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACACGTTGTATTTGTTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
*
720029 GCTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
*
720094 ATGACACTGTGACGAATGCGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
*
720157 GCTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * * * * *
720222 ATGACACTGTGACGAATATGTGACATGGAAACGCATCCAGTT-TTTTTGTTATATGTACAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
720284 GTTTTCTTGACATCATGAAGAAGTTCCCTGT-GCGATCCCTTATCAGACTTCCGTCCAGTGTTTG
1 GTTTTCTTGACATCATGAAGAAGTTCCCT-TAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTG
* *
720348 AATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACACGTTGTATTTGTTATCTGTGCAGCC
65 AATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
** *
720412 ACTTTCTTGACATCATGAAGAAGTTCCATTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * * * *
720477 ATGCCACTGTGACGAATGTGTGACAAGGAAACGCATCCAA-TTTTATTTGGTATCTGTACACCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCA-ACAAGTTGTATTTGTTATCTGTGCAGCC
* *
720540 GTTATCTTGACATCATGAAGAAGTTCCCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * ** *
720605 ATGACACTGTGACGAATGAGTGATAAGGAAACGCAACAAGTTGTATTCGTTATCTGTATAGAC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* *
720668 GTTTTATTGACATCATGAAGAAGTTCCCTGT-GCGATCCCTTATCAGAATTCCGTCCAGTGTTTG
1 GTTTTCTTGACATCATGAAGAAGTTCCCT-TAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTG
* *
720732 AATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACACGTTGTATTTGTTATCTGTGCAGCC
65 AATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* * *
720796 GCTTTCTTGACATCATGAAGAAGTTCCCTAAGCGATCCCTTATCAGACTTCCGTCTAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * *
720861 ATGACACTGTGACGAATGAGTGACAAGGAAATGCAACGAA-TTTTATTTGTTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAAC-AAGTTGTATTTGTTATCTGTGCAGCC
** * * *
720924 GTTTTGATGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATAAGGCTTCCGTCCAGTGTTTAA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * * *
720989 ATGTCCCTGTGACTAA-GTTGTGACAAGGAAACGCAACACGTTGTATTTGTTATCTGTACAGCC
66 ATGACACTGTGACGAATG-TGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
*
721052 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGGCTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * *
721117 ATGTCACTGTGACGAATGTGTGACATGGAAACGCAACAAGTTGTA-TTGTTATTTGTTG-AGAC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTG-TGCAGCC
*
721179 GTTTTCTTGACATCATGAAGAAGTTCGCTT-GTCGATCCCTTATCAGACTTCCGTCCAGTGTTTG
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAG-CGATCCCTTATCAGACTTCCGTCCAGTGTTTG
* * *
721243 AATGACACTGTGACGAATGTGTGACAAGGAAACGCATCCAGTTGT-TTTGTTATCTGTACAGCC
65 AATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
** ** * * *
721306 GTTTTGATGACATTGTGAAAAAGTTCCCTTGGCGATCCCTTATCAGACCTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* *
721371 ATGACACTGTGACGAATGTATGACAAGGAAACACAACAAGTTGTATTTGTTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* * * *
721434 GTTTTGATT-ACATAATGAAGAAGTTCCCTTGGCGATCCCTTATCAGACTTCCGTCCAGTGTTTA
1 GTTTT-CTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTG
* *
721498 AATGTCACTGTGACGAATGAGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
65 AATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* *
721562 GCTTTCTTGACATCATGAAGAAGAAGTTCCCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTT
1 GTTTTCTTGACATCAT---GAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTT
* *
721627 TGAATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACAGGTTGTATTTGTTATCTGTGCAGC
63 TGAATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGC
721692 C
128 C
** ** * * *
721693 GTTTTGATGACATTGTGAAAAAGTTCCCTTGGCGATCCCTTATCAGACCTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
*
721758 ATGACACTGTGACGAATGTGTGACAAGGAAATGCAACAAGTTGTATTTGTTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* *
721821 GCTTTCTTGACATCGTGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* *
721886 ATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACACGTTGTATTTGTTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* *
721949 GCTTTCTTGACATCATGAAGAAGAAGTTCCCTTAGCAATCCCTTATCAGACTTCCGTCCAGTGTT
1 GTTTTCTTGACATCAT---GAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTT
* * * *
722014 GGAATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACAGGTTGTATTTGTTATCTGAGCAGC
63 TGAATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGC
722079 C
128 C
** * * *
722080 GTTTTGATGACATTATGAAAAAGTTCCCTTGGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
*
722145 ATGTCACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
* *
722208 GTGTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAAACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * *
722273 ATGACACTGTGACAAATGTGTGACATGGAAACGCAACAAGTTGTATTTGTTATCTGTTG-AGAC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTG-TGCAGCC
* **
722336 GTTTTCTTGACATCATGAAGAAGTTCGCTTAGAAATCCCTTATCAGACTTCCGTCCAGTGTTTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
* * * * * * * * *
722401 ATGTCACTGTGACGAATGTGTGACAAGGAAATGCAGCAAATT-TCAATTCTTATTTGAAG-AGAC
66 ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGT-ATTTGTTATCTG-TGCAGCC
** * * * *
722464 GTTAACTTGACATTATTAAGAAGTTCCCTTGGCGATTCCTTATCA-ACCTTCCGTCCAGTGTTTG
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGA-CTTCCGTCCAGTGTTTG
* * * *
722528 AATGACACTGGGACGAATGTGTGACAAGGAAACGCAACGAA-TTTTATTTGTTATCTGTACATCC
65 AATGACACTGTGACGAATGTGTGACAAGGAAACGCAAC-AAGTTGTATTTGTTATCTGTGCAGCC
* * * * *
722592 GTTTTCTTGATATCATGAAGAAGTTCCCTTAACTATTCCTTATCAAACTTCCGTCCAGTG-TTGA
1 GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTG-
* * * *
722656 AATGTCACTTTGACAAATGTGTGTA-AAGGAAACACATACAAG
65 AATGACACTGTGACGAATGTGTG-ACAAGGAAACGCA-ACAAG
722698 ATTTTCGTTT
Statistics
Matches: 4034, Mismatches: 375, Indels: 94
0.90 0.08 0.02
Matches are distributed among these distances:
126 215 0.05
127 585 0.15
128 2886 0.72
129 110 0.03
131 238 0.06
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (128 bp):
GTTTTCTTGACATCATGAAGAAGTTCCCTTAGCGATCCCTTATCAGACTTCCGTCCAGTGTTTGA
ATGACACTGTGACGAATGTGTGACAAGGAAACGCAACAAGTTGTATTTGTTATCTGTGCAGCC
Found at i:730586 original size:130 final size:130
Alignment explanation
Indices: 730353--730617 Score: 521
Period size: 130 Copynumber: 2.0 Consensus size: 130
730343 TTTATTCGCG
730353 TGCGAGAAACTTTTGCGAGGTTAGCGAGAGCCTTGTTGTCGCGAATATTTCTCGCCACAAACCAA
1 TGCGAGAAACTTTTGCGAGGTTAGCGAGAGCCTTGTTGTCGCGAATATTTCTCGCCACAAACCAA
730418 TCCTTTGTCTATAGTTTTTATAACAATACAGGTCTGGATAAGGCTTGGTCGCGAACATTAGTCAT
66 TCCTTTGTCTATAGTTTTTATAACAATACAGGTCTGGATAAGGCTTGGTCGCGAACATTAGTCAT
*
730483 TGCGAGAAACTTTTGCGAGGTTAGCGAGAGCCTTGTTGTCGCGAATATTTCTCGCCACGAACCAA
1 TGCGAGAAACTTTTGCGAGGTTAGCGAGAGCCTTGTTGTCGCGAATATTTCTCGCCACAAACCAA
730548 TCCTTTGTCTATAGTTTTTATAACAATACAGGTCTGGATAAGGCTTGGTCGCGAACATTAGTCAT
66 TCCTTTGTCTATAGTTTTTATAACAATACAGGTCTGGATAAGGCTTGGTCGCGAACATTAGTCAT
730613 TGCGA
1 TGCGA
730618 ACCAGTTTAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 134 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (130 bp):
TGCGAGAAACTTTTGCGAGGTTAGCGAGAGCCTTGTTGTCGCGAATATTTCTCGCCACAAACCAA
TCCTTTGTCTATAGTTTTTATAACAATACAGGTCTGGATAAGGCTTGGTCGCGAACATTAGTCAT
Found at i:735734 original size:2 final size:2
Alignment explanation
Indices: 735729--735773 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
735719 ACAATATATT
735729 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
735771 TG T
1 TG T
735774 ATATATATAT
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:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:737052 original size:15 final size:14
Alignment explanation
Indices: 737032--737061 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
737022 TTATAATTGT
737032 ATTTAAGTTTTTAAA
1 ATTTAAG-TTTTAAA
737047 ATTTAAGTTTTAAA
1 ATTTAAGTTTTAAA
737061 A
1 A
737062 ACCGATGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATTTAAGTTTTAAA
Found at i:737062 original size:15 final size:15
Alignment explanation
Indices: 737032--737062 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
737022 TTATAATTGT
*
737032 ATTTAAGTTTTTAAA
1 ATTTAAGTTTTAAAA
737047 ATTTAAGTTTTAAAA
1 ATTTAAGTTTTAAAA
737062 A
1 A
737063 CCGATGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
ATTTAAGTTTTAAAA
Found at i:741603 original size:15 final size:15
Alignment explanation
Indices: 741575--741604 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
741565 TAGCAAAAAA
741575 TAAAGGACATTTTTT
1 TAAAGGACATTTTTT
741590 TAAACGGACATTTTT
1 TAAA-GGACATTTTT
741605 ATTCTTTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (15 bp):
TAAAGGACATTTTTT
Found at i:745936 original size:12 final size:12
Alignment explanation
Indices: 745919--745945 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
745909 GGAATCACCT
745919 TGTCCGTCCGTC
1 TGTCCGTCCGTC
745931 TGTCCGTCCGTC
1 TGTCCGTCCGTC
745943 TGT
1 TGT
745946 ATGTGCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.37, G:0.26, T:0.37
Consensus pattern (12 bp):
TGTCCGTCCGTC
Found at i:746276 original size:145 final size:146
Alignment explanation
Indices: 745957--746369 Score: 609
Period size: 145 Copynumber: 2.8 Consensus size: 146
745947 TGTGCAATCA
* * *
745957 TGTCCGGTCCATATCTTTCTTATAAAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTA
1 TGTCTGGTCCATATCTTTCTTATAGAGAAACATTTGAAGTTCTTACTTCACACAAAGATTGCTTA
* *
746022 TGACCTAAAGGTGTGTCATGACCTTGACCTAAGGTCATTCAGGCAAGGTCAAGGTCACTGGCAGA
66 TGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCAGGCAAGGTCAAGGTCACTGGCAGA
*
746087 AAAAATGCAAAATTCG
131 AAAAATACAAAATTCG
*
746103 TGTCTGGTCCATATCTTTCTTATGGAGAAACATTTGAAGTTCTTACTTCACACAAAGATTGCTTA
1 TGTCTGGTCCATATCTTTCTTATAGAGAAACATTTGAAGTTCTTACTTCACACAAAGATTGCTTA
* * * *
746168 TGACGTAAGGGTGTGTCATG-TCTTGACCCAGGGTCGTT-AGGGCAAGGTCAAGGTCACTGGCAG
66 TGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCA-GGCAAGGTCAAGGTCACTGGCAG
746231 AAAAAATACAAAATTCG
130 AAAAAATACAAAATTCG
* * * * *
746248 TGTCTGGTCCATATATTCCTTATTGAGAAGCA-TTGAATGTTCTTACTTCACACAAATATTGCTT
1 TGTCTGGTCCATATCTTTCTTATAGAGAAACATTTGAA-GTTCTTACTTCACACAAAGATTGCTT
* *
746312 ATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCAATTGAGG-AAGTTCAAGGTCA
65 ATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTC-ATTCAGGCAAGGTCAAGGTCA
746370 TTATTTCAAA
Statistics
Matches: 241, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
144 6 0.02
145 126 0.52
146 104 0.43
147 4 0.02
148 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (146 bp):
TGTCTGGTCCATATCTTTCTTATAGAGAAACATTTGAAGTTCTTACTTCACACAAAGATTGCTTA
TGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCAGGCAAGGTCAAGGTCACTGGCAGA
AAAAATACAAAATTCG
Found at i:756180 original size:21 final size:21
Alignment explanation
Indices: 756151--756192 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
756141 ATGAAACCAT
756151 ATTAATTTTATTCGTCTGCTA
1 ATTAATTTTATTCGTCTGCTA
*
756172 ATTACTTTTATTCGTCTGCTA
1 ATTAATTTTATTCGTCTGCTA
756193 GTCTTTACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (21 bp):
ATTAATTTTATTCGTCTGCTA
Found at i:758820 original size:2 final size:2
Alignment explanation
Indices: 758813--758845 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
758803 AGTCAGAACC
758813 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
758846 ACCAAATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:764183 original size:21 final size:21
Alignment explanation
Indices: 764104--764183 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 21
764094 AATTCAGCTT
* * *
764104 GTGACATCACCTATTCAGTTA
1 GTGATATCATCTATTCAGTAA
* *
764125 GTGATGTCATCTGTTCAGTAA
1 GTGATATCATCTATTCAGTAA
764146 GTGATATCTACCATCTATTCAGTAA
1 GTGATA--T--CATCTATTCAGTAA
764171 GTGATATCATCTA
1 GTGATATCATCTA
764184 CCATCTATTC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 27 0.56
23 2 0.04
25 19 0.40
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (21 bp):
GTGATATCATCTATTCAGTAA
Found at i:764191 original size:28 final size:28
Alignment explanation
Indices: 764132--764264 Score: 236
Period size: 28 Copynumber: 4.9 Consensus size: 28
764122 TTAGTGATGT
*
764132 CATCTGTTCAGTAAGTG--AT-ATCTAC
1 CATCTATTCAGTAAGTGATATCATCTAC
764157 CATCTATTCAGTAAGTGATATCATCTAC
1 CATCTATTCAGTAAGTGATATCATCTAC
764185 CATCTATTCAGTAAGTGATATCATCTAC
1 CATCTATTCAGTAAGTGATATCATCTAC
764213 CATCTATTCAGTAAGTGATATCATCTAC
1 CATCTATTCAGTAAGTGATATCATCTAC
764241 CATCTATTCAGTAAGTGATATCAT
1 CATCTATTCAGTAAGTGATATCAT
764265 TTATTCAGTA
Statistics
Matches: 104, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
25 16 0.15
27 2 0.02
28 86 0.83
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (28 bp):
CATCTATTCAGTAAGTGATATCATCTAC
Found at i:764211 original size:21 final size:21
Alignment explanation
Indices: 764185--764284 Score: 56
Period size: 28 Copynumber: 4.1 Consensus size: 21
764175 TATCATCTAC
764185 CATCTATTCAGTAAGTGATAT
1 CATCTATTCAGTAAGTGATAT
764206 CATCTACCATCTATTCAGTAAGTGATAT
1 CA--T--C---TATTCAGTAAGTGATAT
764234 CATCTACCATCTATTCAGTAAGTGATAT
1 CATCT---A--T-T-CAGTAAGTGATAT
* *
764262 CATTTATTCAGTAGGTGATAT
1 CATCTATTCAGTAAGTGATAT
764283 CA
1 CA
764285 CATATTTAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 28
0.68 0.02 0.30
Matches are distributed among these distances:
21 17 0.27
22 1 0.02
23 2 0.03
24 2 0.03
25 2 0.03
26 2 0.03
27 1 0.02
28 36 0.57
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (21 bp):
CATCTATTCAGTAAGTGATAT
Found at i:764290 original size:21 final size:21
Alignment explanation
Indices: 764245--764290 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
764235 ATCTACCATC
**
764245 TATTCAGTAAGTGATATCATT
1 TATTCAGTAAGTGATATCACA
*
764266 TATTCAGTAGGTGATATCACA
1 TATTCAGTAAGTGATATCACA
764287 TATT
1 TATT
764291 TAAATCAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (21 bp):
TATTCAGTAAGTGATATCACA
Found at i:764670 original size:2 final size:2
Alignment explanation
Indices: 764665--764704 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
764655 AGTGTGTATG
764665 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
764705 CATTCATTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:767535 original size:32 final size:32
Alignment explanation
Indices: 767281--767535 Score: 395
Period size: 32 Copynumber: 8.0 Consensus size: 32
767271 CATAGTCTAA
** * * *
767281 TACATGTAATTGCCAGCAATTGCACTA-TCTAG
1 TACATGTAATTGTTATCAGTTGCAC-AGTCTTG
767313 TACATGTAATTGTTATCAGTTGCACAGTCTTG
1 TACATGTAATTGTTATCAGTTGCACAGTCTTG
*
767345 TACATGTAATTGTTATCAGTTGCACTGTCTTG
1 TACATGTAATTGTTATCAGTTGCACAGTCTTG
* *
767377 TACATGTAATTGTTATCAGTTGCACAGTATTA
1 TACATGTAATTGTTATCAGTTGCACAGTCTTG
*
767409 TACATGTAATTGTTATCAGTTGTACAGTCTTG
1 TACATGTAATTGTTATCAGTTGCACAGTCTTG
*
767441 TACATGTAATTGTTATCAGTTGTACAGTCTTG
1 TACATGTAATTGTTATCAGTTGCACAGTCTTG
767473 TACATGTAATTGTTATCAGTTGCACAGTCTTG
1 TACATGTAATTGTTATCAGTTGCACAGTCTTG
*
767505 TACATGTAATTGTTATCAGTTGCACTGTCTT
1 TACATGTAATTGTTATCAGTTGCACAGTCTT
767536 AAAGAAAGAA
Statistics
Matches: 208, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
31 1 0.00
32 207 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (32 bp):
TACATGTAATTGTTATCAGTTGCACAGTCTTG
Found at i:777375 original size:55 final size:55
Alignment explanation
Indices: 777309--777412 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
777299 ATGCTTAACC
* * * *
777309 ATTCCATGTTCAAAACCTAGTTTGAACTTTGTAGGTCTTAACTTTATTAAAAACA
1 ATTCCATGTTCAAAACCTAGCTTGAACTATGTAGGTCTAAACTTGATTAAAAACA
777364 ATTCCATGTTCAAAACCTAGCTTGAACTATGTAGGTCTAAACTTGATTA
1 ATTCCATGTTCAAAACCTAGCTTGAACTATGTAGGTCTAAACTTGATTA
777413 CTAAAAAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (55 bp):
ATTCCATGTTCAAAACCTAGCTTGAACTATGTAGGTCTAAACTTGATTAAAAACA
Found at i:778794 original size:14 final size:14
Alignment explanation
Indices: 778775--778802 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
778765 AATTATAAAA
778775 GCCCCAGTGGATTC
1 GCCCCAGTGGATTC
778789 GCCCCAGTGGATTC
1 GCCCCAGTGGATTC
778803 AAACCCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.36, G:0.29, T:0.21
Consensus pattern (14 bp):
GCCCCAGTGGATTC
Found at i:787326 original size:32 final size:32
Alignment explanation
Indices: 787285--787362 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
787275 AGTTATGTGG
*
787285 ACTGTTTACAATATAACTTCTTAGTGGTGTAC
1 ACTGTTTACAATATAACTTCTCAGTGGTGTAC
* **
787317 ACTGTTTACAATATAACTTGTCAGTGGTGTGG
1 ACTGTTTACAATATAACTTCTCAGTGGTGTAC
*
787349 ACCGTTTACAATAT
1 ACTGTTTACAATAT
787363 CAAATGATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (32 bp):
ACTGTTTACAATATAACTTCTCAGTGGTGTAC
Found at i:787458 original size:32 final size:32
Alignment explanation
Indices: 787421--787496 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
787411 AGTTCTGTTA
* *
787421 ACAATATGACTTGTTAATGGTGTA-AGCTGTTT
1 ACAATATGACTTGTCAATGGTGTACA-CCGTTT
* * *
787453 GCAATATAACTTGTCAGTGGTGTACACCGTTT
1 ACAATATGACTTGTCAATGGTGTACACCGTTT
787485 ACAATATGACTT
1 ACAATATGACTT
787497 ACCAGTTATG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (32 bp):
ACAATATGACTTGTCAATGGTGTACACCGTTT
Found at i:787736 original size:32 final size:32
Alignment explanation
Indices: 787700--787762 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
787690 GGTAGTGAAG
787700 ACCGTTTACAATAAAAATTGACAGTTATGTAC
1 ACCGTTTACAATAAAAATTGACAGTTATGTAC
* * *
787732 ACCGTTTACAATATAAATTGACCGTTCTGTA
1 ACCGTTTACAATAAAAATTGACAGTTATGTA
787763 GATTGTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
ACCGTTTACAATAAAAATTGACAGTTATGTAC
Found at i:787821 original size:32 final size:32
Alignment explanation
Indices: 787775--787886 Score: 152
Period size: 32 Copynumber: 3.5 Consensus size: 32
787765 TTGTTATGAG
787775 TTGTCAGTGATATAGACTGATTACAGTATAAA
1 TTGTCAGTGATATAGACTGATTACAGTATAAA
* * * * * * *
787807 TTGTCAGTGGTATAGAATGTTTCCAGCATGAG
1 TTGTCAGTGATATAGACTGATTACAGTATAAA
787839 TTGTCAGTGATATAGACTGATTACAGTATAAA
1 TTGTCAGTGATATAGACTGATTACAGTATAAA
*
787871 TTGTCAGTGGTATAGA
1 TTGTCAGTGATATAGA
787887 TTGAGCATGA
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (32 bp):
TTGTCAGTGATATAGACTGATTACAGTATAAA
Found at i:790623 original size:22 final size:22
Alignment explanation
Indices: 790597--790645 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
790587 GAACTAATAA
*
790597 CATTTGTGCCTAACTATGAATT
1 CATTTGTGCCTAACTATGAAAT
* *
790619 CATTTGTGCCTACCTTTGAAAT
1 CATTTGTGCCTAACTATGAAAT
790641 CATTT
1 CATTT
790646 TTGAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.43
Consensus pattern (22 bp):
CATTTGTGCCTAACTATGAAAT
Found at i:793801 original size:2 final size:2
Alignment explanation
Indices: 793796--793854 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
793786 TAAATCACCA
793796 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
*
793838 AA AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
793855 ATCAACGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:799359 original size:11 final size:12
Alignment explanation
Indices: 799331--799363 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
799321 TATACATGAA
*
799331 TTTCATTTTTTG
1 TTTCATTTATTG
799343 TTTCATTTATT-
1 TTTCATTTATTG
799354 TTTCATTTAT
1 TTTCATTTAT
799364 ATATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTCATTTATTG
Found at i:803910 original size:27 final size:28
Alignment explanation
Indices: 803865--803919 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
803855 TGTACACACC
803865 CCCTCCAAAAAAAAAATATTAATAGACT
1 CCCTCCAAAAAAAAAATATTAATAGACT
803893 CCCTCC-AAAAAAAAATATTAATAGACT
1 CCCTCCAAAAAAAAAATATTAATAGACT
803920 ATGTATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.53, C:0.22, G:0.04, T:0.22
Consensus pattern (28 bp):
CCCTCCAAAAAAAAAATATTAATAGACT
Found at i:804779 original size:14 final size:15
Alignment explanation
Indices: 804750--804783 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
804740 GATGTTAATA
*
804750 TAATAATAATATATT
1 TAATAATAATAAATT
804765 TAATAA-AATAAATT
1 TAATAATAATAAATT
804779 TAATA
1 TAATA
804784 TACAAATTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAAATT
Found at i:805164 original size:41 final size:41
Alignment explanation
Indices: 805107--805187 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
805097 ACTTCCAAAT
* *
805107 GGAGAAAAGATGTAAATAATTTCACTTTTGTATCTCCGAAG
1 GGAGAAAAGATGTAAATAATTTCAATTTTGAATCTCCGAAG
805148 GGAGAAAAGATGTAAATAATTTCAATTTTGAATCTCCGAA
1 GGAGAAAAGATGTAAATAATTTCAATTTTGAATCTCCGAA
805188 CAATGTATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.31
Consensus pattern (41 bp):
GGAGAAAAGATGTAAATAATTTCAATTTTGAATCTCCGAAG
Found at i:807619 original size:21 final size:21
Alignment explanation
Indices: 807589--808003 Score: 314
Period size: 21 Copynumber: 19.8 Consensus size: 21
807579 AACAATATTT
* *
807589 CTTTCTCGAATAAACGCGAAA
1 CTTTCGCGAATAAACGCGTAA
* *
807610 CATTCGCGAATAATCGCGTAA
1 CTTTCGCGAATAAACGCGTAA
* **
807631 CTTTCGCGAGTAAACGCAAAA
1 CTTTCGCGAATAAACGCGTAA
807652 CTTTCGCG-ATAAAACGCGTAA
1 CTTTCGCGAAT-AAACGCGTAA
*
807673 CTTTCGCG-ATAAAACGCGTTA
1 CTTTCGCGAAT-AAACGCGTAA
*
807694 GTTTCGCGAATAAACGCGTAA
1 CTTTCGCGAATAAACGCGTAA
*
807715 CTTTCGCG-ATACAACGCGTTA
1 CTTTCGCGAATA-AACGCGTAA
* *
807736 CTTTAGCGAATAAACGCGAAA
1 CTTTCGCGAATAAACGCGTAA
*
807757 CTTTCGCG-ATATAACGCGTTA
1 CTTTCGCGAATA-AACGCGTAA
* * * *
807778 GTTTCGTG-ATATAACGGGTTA
1 CTTTCGCGAATA-AACGCGTAA
* * *
807799 GTTTCGCGAGTAAACGCGAAA
1 CTTTCGCGAATAAACGCGTAA
*
807820 CTTTCGC-AATATAACGCGTTA
1 CTTTCGCGAATA-AACGCGTAA
*
807841 GTTTCGCGAATAAACGCGTAA
1 CTTTCGCGAATAAACGCGTAA
* *
807862 CTTTTGCG-ATATAACGCGTTA
1 CTTTCGCGAATA-AACGCGTAA
* *
807883 CTTTAGCGAATAAACGCGAAA
1 CTTTCGCGAATAAACGCGTAA
*
807904 CTTTCGCG-ATATGACGCG-ATA
1 CTTTCGCGAATA-AACGCGTA-A
* * * *
807925 GTTTCG-GGATATAACGCTTTA
1 CTTTCGCGAATA-AACGCGTAA
* * * *
807946 TTTTTGCGAAT-ACCGCGAAA
1 CTTTCGCGAATAAACGCGTAA
*
807966 CTTTCGCG-ATATAACGCATAA
1 CTTTCGCGAATA-AACGCGTAA
*
807987 CTTTCGCAAATAAACGC
1 CTTTCGCGAATAAACGC
808004 AAAACTTAAA
Statistics
Matches: 314, Mismatches: 62, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.01
20 29 0.09
21 263 0.84
22 20 0.06
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (21 bp):
CTTTCGCGAATAAACGCGTAA
Found at i:808322 original size:21 final size:21
Alignment explanation
Indices: 808294--808714 Score: 372
Period size: 21 Copynumber: 20.0 Consensus size: 21
808284 AAATATTTTG
808294 TTCG-GAATAAACGCGAAACT
1 TTCGCGAATAAACGCGAAACT
808314 TTCGCGAATAAACGCGAAACT
1 TTCGCGAATAAACGCGAAACT
* * * **
808335 TTTGC-AATATAGCCCGTTACT
1 TTCGCGAATA-AACGCGAAACT
808356 TTCGCGAATAAACGCGAAACT
1 TTCGCGAATAAACGCGAAACT
* *
808377 TTCGCAAATAAACGCGTAACT
1 TTCGCGAATAAACGCGAAACT
*
808398 TTTGCG-ATATAACGCGAAACT
1 TTCGCGAATA-AACGCGAAACT
*
808419 TTCGCGAATAAATGCGAAACT
1 TTCGCGAATAAACGCGAAACT
* ** *
808440 TTCGCG-ATATAATGCGTTAGT
1 TTCGCGAATA-AACGCGAAACT
* *
808461 TTCGCAAATAAACGCGAAATT
1 TTCGCGAATAAACGCGAAACT
*
808482 TTCGCAAATAAACGCGAAACT
1 TTCGCGAATAAACGCGAAACT
* *
808503 TTTGCAAATAAACGCGAAACT
1 TTCGCGAATAAACGCGAAACT
808524 TTCGC-AGATAAACGCGAAACT
1 TTCGCGA-ATAAACGCGAAACT
* *
808545 TTCGCG-ATATAACACGTAACT
1 TTCGCGAATA-AACGCGAAACT
808566 TTCGCGAATAAACGCGAAACT
1 TTCGCGAATAAACGCGAAACT
** *
808587 TTCGCG-ATATAACGCGTTAGT
1 TTCGCGAATA-AACGCGAAACT
* *** *
808608 TTCGTG-ATATAACGCTTTAGT
1 TTCGCGAATA-AACGCGAAACT
*
808629 TTCGCGAATGAACGCGAAACT
1 TTCGCGAATAAACGCGAAACT
* * *
808650 TTTGCGATTTAACGCGAAACT
1 TTCGCGAATAAACGCGAAACT
* * *
808671 TTCGCGATTTTAAGGCGAAACT
1 TTCGCGA-ATAAACGCGAAACT
* * *
808693 TTCGCGATTTAATGCGAAACT
1 TTCGCGAATAAACGCGAAACT
808714 T
1 T
808715 ATATATATAT
Statistics
Matches: 338, Mismatches: 49, Indels: 27
0.82 0.12 0.07
Matches are distributed among these distances:
20 21 0.06
21 282 0.83
22 35 0.10
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (21 bp):
TTCGCGAATAAACGCGAAACT
Found at i:809592 original size:21 final size:21
Alignment explanation
Indices: 809568--810085 Score: 461
Period size: 21 Copynumber: 24.7 Consensus size: 21
809558 ATAATGGTTT
*
809568 CGCGTTTATTCGCGAAAGTAA
1 CGCGTTTATTCGCGAAAGTTA
* *
809589 CGCGTTTATTTGCGAAAGTTT
1 CGCGTTTATTCGCGAAAGTTA
*
809610 TGCG-TTATTTCGCGAAAGTTA
1 CGCGTTTA-TTCGCGAAAGTTA
* * *
809631 CGCATTTATTCGAGAAACTTA
1 CGCGTTTATTCGCGAAAGTTA
* * *
809652 TGCGTTTATTCGCGAAACTAA
1 CGCGTTTATTCGCGAAAGTTA
* * *
809673 CGCG-TCATATCGCGAAACTAA
1 CGCGTTTAT-TCGCGAAAGTTA
809694 CGCG-TTATATCGCGAAAG-TA
1 CGCGTTTAT-TCGCGAAAGTTA
809714 TCGCGTTTATTCGCGAAAG-TA
1 -CGCGTTTATTCGCGAAAGTTA
* *
809735 TCGCG-TAATATCGCGAAAGTTT
1 -CGCGTTTAT-TCGCGAAAGTTA
* * * *
809757 TGCGCTTATTCGCAAAATTTA
1 CGCGTTTATTCGCGAAAGTTA
* *
809778 CGCGTTTATTCGCGAAACTAA
1 CGCGTTTATTCGCGAAAGTTA
809799 CGCG-TTATATCGCGAAAGTTA
1 CGCGTTTAT-TCGCGAAAGTTA
809820 CGCGTTTATTCGCGAAAGTTA
1 CGCGTTTATTCGCGAAAGTTA
* *
809841 CGCG-TTATATCGCAAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTA
* * * *
809862 TGCGTTTATTTGCAAAATTTA
1 CGCGTTTATTCGCGAAAGTTA
* *
809883 CGCGTTTATTCGCGAAACTAA
1 CGCGTTTATTCGCGAAAGTTA
809904 CGCG-TTATATCGCGAAAG-TA
1 CGCGTTTAT-TCGCGAAAGTTA
* *
809924 TCGCGTTTATTCGCAAAAGTAA
1 -CGCGTTTATTCGCGAAAGTTA
*
809946 CGCG-TTATATCGCGAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTA
* *
809967 TGCGTTTATTCGC-ATAATTTA
1 CGCGTTTATTCGCGA-AAGTTA
* *
809988 CGCGTTTATTCGCGAAACTAA
1 CGCGTTTATTCGCGAAAGTTA
*
810009 CGCG-TTATATCGCGAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTA
*
810030 CGCGTCTATTCGCGAAAGTTA
1 CGCGTTTATTCGCGAAAGTTA
*
810051 CGCG-TTATATCGCGAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTA
810072 CGCGTTTATTCGCG
1 CGCGTTTATTCGCG
810086 GAAAAAAATA
Statistics
Matches: 409, Mismatches: 64, Indels: 48
0.79 0.12 0.09
Matches are distributed among these distances:
20 35 0.09
21 338 0.83
22 36 0.09
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (21 bp):
CGCGTTTATTCGCGAAAGTTA
Found at i:809715 original size:11 final size:11
Alignment explanation
Indices: 809701--809754 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
809691 TAACGCGTTA
809701 TATCGCGAAAG
1 TATCGCGAAAG
**
809712 TATCGCG--TT
1 TATCGCGAAAG
809721 TATTCGCGAAAG
1 TA-TCGCGAAAG
*
809733 TATCGCGTAA-
1 TATCGCGAAAG
809743 TATCGCGAAAG
1 TATCGCGAAAG
809754 T
1 T
809755 TTTGCGCTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 2 0.06
10 14 0.42
11 15 0.45
12 2 0.06
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (11 bp):
TATCGCGAAAG
Found at i:809766 original size:105 final size:105
Alignment explanation
Indices: 809568--810084 Score: 740
Period size: 105 Copynumber: 4.9 Consensus size: 105
809558 ATAATGGTTT
* * * *
809568 CGCGTTTATTCGCGAAAGTAACGCGTT-TATTTGCGAAAGTTTTGCG-TTATTTCGCGAAAGTTA
1 CGCGTTTATTCGCGAAACTAACGCGTTATA-TCGCGAAAGTATCGCGTTTA-TTCGCGAAAGTTA
* * * * * * *
809631 CGCATT-TATTCGAGAAACTTATGCGTTTATTCGCGAAACTAA
64 CGCGTTATA-TCGCGAAAGTTTTGCGTTTATTCGCAAAATTTA
*
809673 CGCG-TCATATCGCGAAACTAACGCGTTATATCGCGAAAGTATCGCGTTTATTCGCGAAAG-TAT
1 CGCGTTTAT-TCGCGAAACTAACGCGTTATATCGCGAAAGTATCGCGTTTATTCGCGAAAGTTA-
* *
809736 CGCGTAATATCGCGAAAGTTTTGCGCTTATTCGCAAAATTTA
64 CGCGTTATATCGCGAAAGTTTTGCGTTTATTCGCAAAATTTA
809778 CGCGTTTATTCGCGAAACTAACGCGTTATATCGCGAAAGT-TACGCGTTTATTCGCGAAAGTTAC
1 CGCGTTTATTCGCGAAACTAACGCGTTATATCGCGAAAGTAT-CGCGTTTATTCGCGAAAGTTAC
* *
809842 GCGTTATATCGCAAAAGTTTTGCGTTTATTTGCAAAATTTA
65 GCGTTATATCGCGAAAGTTTTGCGTTTATTCGCAAAATTTA
* *
809883 CGCGTTTATTCGCGAAACTAACGCGTTATATCGCGAAAGTATCGCGTTTATTCGCAAAAGTAACG
1 CGCGTTTATTCGCGAAACTAACGCGTTATATCGCGAAAGTATCGCGTTTATTCGCGAAAGTTACG
*
809948 CGTTATATCGCGAAAGTTTTGCGTTTATTCGCATAATTTA
66 CGTTATATCGCGAAAGTTTTGCGTTTATTCGCAAAATTTA
* *
809988 CGCGTTTATTCGCGAAACTAACGCGTTATATCGCGAAAGTTTCGCGTCTATTCGCGAAAGTTACG
1 CGCGTTTATTCGCGAAACTAACGCGTTATATCGCGAAAGTATCGCGTTTATTCGCGAAAGTTACG
*
810053 CGTTATATCGCGAAAGTTTCGCGTTTATTCGC
66 CGTTATATCGCGAAAGTTTTGCGTTTATTCGC
810085 GGAAAAAAAT
Statistics
Matches: 374, Mismatches: 29, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
104 6 0.02
105 355 0.95
106 13 0.03
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (105 bp):
CGCGTTTATTCGCGAAACTAACGCGTTATATCGCGAAAGTATCGCGTTTATTCGCGAAAGTTACG
CGTTATATCGCGAAAGTTTTGCGTTTATTCGCAAAATTTA
Found at i:810464 original size:36 final size:37
Alignment explanation
Indices: 810431--810531 Score: 102
Period size: 38 Copynumber: 2.7 Consensus size: 37
810421 TTATGCTATT
810431 TGACTGTCTA-TGAAACTGCTATAAG-TCTATGCTAAA
1 TGACTGTC-AGTGAAACTGCTATAAGTTCTATGCTAAA
* *
810467 TGACTGTCAGTGTAACTGCTTTAAGTTTCTATGCTAAA
1 TGACTGTCAGTGAAACTGCTATAAG-TTCTATGCTAAA
* *
810505 -GA-AGTGCTAATGAAACTGCTATAAGTT
1 TGACTGT-C-AGTGAAACTGCTATAAGTT
810532 TGTTTTGCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
35 1 0.02
36 23 0.43
37 5 0.09
38 25 0.46
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (37 bp):
TGACTGTCAGTGAAACTGCTATAAGTTCTATGCTAAA
Done.