Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1423
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: 1072665
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.29
Warning! 119513 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:342441 original size:16 final size:16
Alignment explanation
Indices: 342393--342433 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
342383 GCCGTGCGCC
*
342393 AAAAAAAAGAAAAAAA
1 AAAAAAAACAAAAAAA
342409 AAAAAAAACAAAAAAA
1 AAAAAAAACAAAAAAA
342425 AAAAAAAAC
1 AAAAAAAAC
342434 CAAGAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.93, C:0.05, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAA
Found at i:343435 original size:16 final size:17
Alignment explanation
Indices: 343400--343446 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
343390 CGCTACTATA
*
343400 TCATCGCGCCATCG-TG
1 TCATCGCGCTATCGCTG
343416 TCATCGCGCTATCGCT-
1 TCATCGCGCTATCGCTG
*
343432 TCATCGGGCTATCGC
1 TCATCGCGCTATCGC
343447 ACCATTGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.13, C:0.36, G:0.23, T:0.28
Consensus pattern (17 bp):
TCATCGCGCTATCGCTG
Found at i:344416 original size:15 final size:16
Alignment explanation
Indices: 344398--344429 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
344388 TTTTGAAAAC
344398 ATTTCTTT-TAATGAT
1 ATTTCTTTATAATGAT
344413 ATTTCTTTATAATGAT
1 ATTTCTTTATAATGAT
344429 A
1 A
344430 GAAATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTTCTTTATAATGAT
Found at i:344660 original size:42 final size:42
Alignment explanation
Indices: 344591--344670 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
344581 ATTGCAATTT
** * *
344591 TCTTGCATGTTAACATAGTTATGTTGCATGTTGACATAACTA
1 TCTTGCATGGCAACATAGTTATCTTGCATGTCGACATAACTA
*
344633 TCTTGCATGGCAACATATTTATCTTGCATGTCGACATA
1 TCTTGCATGGCAACATAGTTATCTTGCATGTCGACATA
344671 TTTGATAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (42 bp):
TCTTGCATGGCAACATAGTTATCTTGCATGTCGACATAACTA
Found at i:344669 original size:21 final size:21
Alignment explanation
Indices: 344587--344673 Score: 86
Period size: 21 Copynumber: 4.2 Consensus size: 21
344577 TTTGATTGCA
*
344587 ATTT-TCTTGCATGTTAACAT
1 ATTTATCTTGCATGTCAACAT
* * **
344607 AGTTATGTTGCATGTTGACAT
1 ATTTATCTTGCATGTCAACAT
** *
344628 AACTATCTTGCATGGCAACAT
1 ATTTATCTTGCATGTCAACAT
*
344649 ATTTATCTTGCATGTCGACAT
1 ATTTATCTTGCATGTCAACAT
344670 ATTT
1 ATTT
344674 GATAGAAAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
20 3 0.06
21 50 0.94
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (21 bp):
ATTTATCTTGCATGTCAACAT
Found at i:349186 original size:16 final size:16
Alignment explanation
Indices: 349165--349203 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
349155 ACAGCATGAT
349165 CTACCTGGTCTGAATC
1 CTACCTGGTCTGAATC
349181 CTACCTGGTCTGAATC
1 CTACCTGGTCTGAATC
*
349197 CTGCCTG
1 CTACCTG
349204 CTCCTTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (16 bp):
CTACCTGGTCTGAATC
Found at i:352956 original size:15 final size:16
Alignment explanation
Indices: 352914--352956 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
352904 TGAATTTTGA
352914 ATTTTGAAAAGAGTGC
1 ATTTTGAAAAGAGTGC
352930 ATTTTGAAAAGAGTGC
1 ATTTTGAAAAGAGTGC
352946 ATTTT-AAAAGA
1 ATTTTGAAAAGA
352957 TATATATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 6 0.22
16 21 0.78
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (16 bp):
ATTTTGAAAAGAGTGC
Found at i:355533 original size:14 final size:14
Alignment explanation
Indices: 355514--355541 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
355504 ATATAACATC
355514 ATTTAGTGTATTTA
1 ATTTAGTGTATTTA
355528 ATTTAGTGTATTTA
1 ATTTAGTGTATTTA
355542 TTTTTTAGAT
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:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (14 bp):
ATTTAGTGTATTTA
Found at i:356008 original size:84 final size:84
Alignment explanation
Indices: 355867--356035 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
355857 TTTCATTTAC
355867 AGATCAGAAATCTTCCTCTGGAAAACCTGATACAAAAGAGACTCGGCGAGTGCCTGGTATCAGAG
1 AGATCAGAAATCTTCCTCTGGAAAACCTGATACAAAAGAGACTCGGCGAGTGCCTGGTATCAGAG
355932 GTATCGCTGGATTGAAGAG
66 GTATCGCTGGATTGAAGAG
355951 AGATCAGAAATCTTCCTCTGGAAAACCTGATACAAAAGAGACTCGGCGAGTGCCTGGTATCAGAG
1 AGATCAGAAATCTTCCTCTGGAAAACCTGATACAAAAGAGACTCGGCGAGTGCCTGGTATCAGAG
356016 GTATCGCTGGATTGAAGAG
66 GTATCGCTGGATTGAAGAG
356035 A
1 A
356036 CGCTATTATT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (84 bp):
AGATCAGAAATCTTCCTCTGGAAAACCTGATACAAAAGAGACTCGGCGAGTGCCTGGTATCAGAG
GTATCGCTGGATTGAAGAG
Found at i:361251 original size:18 final size:18
Alignment explanation
Indices: 361224--361262 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
361214 GTCCGTTGTC
*
361224 TGTCGTCGGCGTTGGCGT
1 TGTCGGCGGCGTTGGCGT
*
361242 TGTCGGCGGCGTTGTCGT
1 TGTCGGCGGCGTTGGCGT
361260 TGT
1 TGT
361263 AAACTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.44, T:0.36
Consensus pattern (18 bp):
TGTCGGCGGCGTTGGCGT
Found at i:361668 original size:104 final size:104
Alignment explanation
Indices: 361488--361698 Score: 361
Period size: 104 Copynumber: 2.0 Consensus size: 104
361478 GTGTGGAGGC
* *
361488 ATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGAGGGTAGGGTGGGGCCACA
*
361553 ATAGGGGAATCAAATTTTACATAGGAATATATAGAGGAA
66 ATAGGGGAATCAAATTTTACATAGGAATATATAGAGAAA
361592 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCC-AGGGTAAGGGTGGGGCCAC
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGAGGGT-AGGGTGGGGCCAC
* *
361656 AATTGGGGAATCAAGTTTTACATAGGAATATATAGAGAAA
65 AATAGGGGAATCAAATTTTACATAGGAATATATAGAGAAA
361696 ATC
1 ATC
361699 TTTGAAAATC
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
103 4 0.04
104 97 0.96
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (104 bp):
ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGAGGGTAGGGTGGGGCCACA
ATAGGGGAATCAAATTTTACATAGGAATATATAGAGAAA
Found at i:361866 original size:166 final size:166
Alignment explanation
Indices: 361592--362565 Score: 1368
Period size: 166 Copynumber: 5.9 Consensus size: 166
361582 TATAGAGGAA
*
361592 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCC-AGGGTAAGGGTGGGGCCAC
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGT-AGGGTGGGGCCAC
* * *
361656 AATTGGGGAATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTGAAAATCTTCTTCTAAAAA
65 AATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAA
*
361721 ACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGC
130 ACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGC
361758 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
361823 ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAA
66 ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAA
** *
361888 CTATCGGGCC-GAAAAGCTCAAATTATAATGGAAGC
131 CTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGC
* *
361923 ATCCTCAAGTAGTGTTGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
* * *
361988 ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGGAAATCTTAAAAAATGTTCTTCTCAAAAA
66 ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAA
362053 CTA-TAGGCCAGAAAAGCTCAAATTAAAATGGAAGC
131 CTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGC
* * * * * *
362088 ATCCTCAGGTAGAGTAGATTCAAGTTTGTTCAAATCATAGTCACTGGGGGTATGGTGGGGCCACA
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
** * * * *
362153 AGAGGGGGGTGAAGTTTTACATAGGAATATATAGTGAAAATCTTTAAAAATCTTCTTCCCAAAAA
66 ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAA
*
362218 CTATTAGGCCAGGAAAGCTCAAATTAAAATGGAAGC
131 CTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGC
* *
362254 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGTTGGGGTCACA
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
** * * *
362319 AGAGGGGGGTCAAGTTTTACATAGGAATATATAGAGGAAATCTTTAAAAATCTTCTTCTCAAGAA
66 ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAA
* * * ** *
362384 CTATTAGGTCAGGAAAGCCCAAATTTGAGTGGAAGC
131 CTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGC
* * * * * * * *
362420 ATCC-CCAGATCGTATAGATTTAAGTTTGTTCAAATAATAGT--CCAGGGGTAGGGTGAGGCCA-
1 ATCCTCAAG-TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCAC
* * * * * * * * *
362481 AAATGGGGGATGAATTTTTACATACGAATATATATAGAAAATCTTTAAACATCTTCTTTTTAAAG
65 AATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAA
*
362546 ACTATTTGGCCAGAAAAGCT
130 ACTATTAGGCCAGAAAAGCT
362566 TAAACGTGTG
Statistics
Matches: 727, Mismatches: 77, Indels: 11
0.89 0.09 0.01
Matches are distributed among these distances:
163 68 0.09
164 20 0.03
165 295 0.41
166 340 0.47
167 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (166 bp):
ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAA
CTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGC
Found at i:362237 original size:331 final size:328
Alignment explanation
Indices: 361592--362565 Score: 1373
Period size: 331 Copynumber: 2.9 Consensus size: 328
361582 TATAGAGGAA
*
361592 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCC-AGGGTAAGGGTGGGGCCAC
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGT-AGGGTGGGGCCAC
* * * *
361656 AATTGGGGAATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTGAAAATCTTCTTCTAAAAA
65 AATTGGGGGATCAAGTTTTACATAGGAATATATAGAGGAAATCTTTAAAAATCTTCTTCTCAAAA
* *
361721 ACTATCAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAAGTAGTGTAGATTCAAGTTTG
130 ACTAT-AGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGAGTAGATTCAAGTTTG
* * *
361786 TTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAAT
194 TTCAAATCATAGT--CCGGGGGTAGGGTGGGGCCACAA-AGGGGGATGAAGTTTTACATAGGAAT
* ** *
361851 ATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATCGGGCC-GAAAAGCTCAAATTATA
256 ATATAGTGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAA
361915 ATGGAAGC
321 ATGGAAGC
* *
361923 ATCCTCAAGTAGTGTTGATTTAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
* *
361988 ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGGAAATCTTAAAAAATGTTCTTCTCAAAAA
66 ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGGAAATCTTTAAAAATCTTCTTCTCAAAAA
362053 CTATAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGAGTAGATTCAAGTTTGTT
131 CTATAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGAGTAGATTCAAGTTTGTT
* *
362118 CAAATCATAGTCACTGGGGGTATGGTGGGGCCACAAGAGGGGGGTGAAGTTTTACATAGGAATAT
196 CAAATCATAGTC-C-GGGGGTAGGGTGGGGCCACAA-AGGGGGATGAAGTTTTACATAGGAATAT
* *
362183 ATAGTGAAAATCTTTAAAAATCTTCTTCCCAAAAACTATTAGGCCAGGAAAGCTCAAATTAAAAT
258 ATAGTGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAAT
362248 GGAAGC
323 GGAAGC
* *
362254 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGTTGGGGTCACA
1 ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
** * *
362319 AGAGGGGGGTCAAGTTTTACATAGGAATATATAGAGGAAATCTTTAAAAATCTTCTTCTCAAGAA
66 ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGGAAATCTTTAAAAATCTTCTTCTCAAAAA
* * * ** * * * * *
362384 CTATTAGGTCAGGAAAGCCCAAATTTGAGTGGAAGCATCCCCAGATCGTA-TAGATTTAAGTTTG
131 CTA-TAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAG-AGTAGATTCAAGTTTG
* * * * *
362448 TTCAAATAATAGTCCAGGGGTAGGGTGAGGCCA-AAATGGGGGATGAATTTTTACATACGAATAT
194 TTCAAATCATAGTCCGGGGGTAGGGTGGGGCCACAAA-GGGGGATGAAGTTTTACATAGGAATAT
* * * * *
362512 ATA-TAGAAAATCTTTAAACATCTTCTTTTTAAAGACTATTTGGCCAGAAAAGCT
258 ATAGT-GAAAATCTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCT
362566 TAAACGTGTG
Statistics
Matches: 578, Mismatches: 57, Indels: 18
0.89 0.09 0.03
Matches are distributed among these distances:
328 3 0.01
329 72 0.12
330 170 0.29
331 267 0.46
332 65 0.11
333 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (328 bp):
ATCCTCAAGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACA
ATTGGGGGATCAAGTTTTACATAGGAATATATAGAGGAAATCTTTAAAAATCTTCTTCTCAAAAA
CTATAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGAGTAGATTCAAGTTTGTT
CAAATCATAGTCCGGGGGTAGGGTGGGGCCACAAAGGGGGATGAAGTTTTACATAGGAATATATA
GTGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGA
AGC
Found at i:366047 original size:30 final size:30
Alignment explanation
Indices: 366006--366099 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
365996 CAACTCAAAG
* *
366006 ACTTAAACAATCTATACAATCAATTTAACA
1 ACTTGAACAATCTATACAATCAATTCAACA
* * *
366036 GCTTGAACAATCGGT-TGC-ATCAATTCAATA
1 ACTTGAACAATC--TATACAATCAATTCAACA
* * *
366066 ACTTGAACAATCCATAAAATCAATTCAGCA
1 ACTTGAACAATCTATACAATCAATTCAACA
366096 ACTT
1 ACTT
366100 AAGGATTACG
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
29 1 0.02
30 45 0.92
31 2 0.04
32 1 0.02
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (30 bp):
ACTTGAACAATCTATACAATCAATTCAACA
Found at i:368764 original size:46 final size:45
Alignment explanation
Indices: 368708--369703 Score: 811
Period size: 46 Copynumber: 21.8 Consensus size: 45
368698 ATCAACAACT
* * * * * *
368708 TAAAAATCTGTACAATAAACTCAACGGCCAAAACAAAACAATGGC
1 TAAACATCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* * * * *
368753 TAAACACTCTGTACATTTAATTCTACGGCTAAAACAAATAAACAGC
1 TAAACA-TCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* * * *
368799 TAAACAGTTTGTACAATTAACTCAACGGCTAAAACAAATCAACAAC
1 TAAACA-TCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* *
368845 TAAACATTCTGTACAGTTTAA-TCCACGGCTAAATA-AAA-CAATACC
1 TAAACA-TCTGTACA-ATTAACTCCACGGCTAAA-ACAAATCAATAGC
* *
368890 TAAACATCAAGTACAGTTTAA-TCCACGG-TGAAAACAAATCAATAGC
1 TAAACATC-TGTACA-ATTAACTCCACGGCT-AAAACAAATCAATAGC
* * * * * * *
368936 TAAACATCATGTACAGTTAACCCCAAGGGTAAAACAAATTAACAAC
1 TAAACATC-TGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
** * * * *
368982 CCAACAATCTGTACAACAATTTACTCCATGGCGAAAACAAAACAATAGC
1 TAAAC-ATCTGT---ACAATTAACTCCACGGCTAAAACAAATCAATAGC
* * *
369031 T-AACATCCTGTACAGTTAACT-CATCAGCTAAAACAAATCAACAGC
1 TAAACAT-CTGTACAATTAACTCCA-CGGCTAAAACAAATCAATAGC
* * * * * * **
369076 TAAAAAATCTGTACAATAAACTCCATGGCGAATACAAATTACCAGC
1 T-AAACATCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* * ***
369122 TAAACAATCTGTACAATTTACTCCCCGGCTGTTACAAATC-A-A-C
1 TAAAC-ATCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* * * *
369165 -AAACATTCTGTACAATAAACTCCACGGCCAAAATAAATC-ATGAGT
1 TAAACA-TCTGTACAATTAACTCCACGGCTAAAACAAATCAAT-AGC
* * * ** *
369210 TAATCATCCAGTACAGTTAACTCCATTGCTAAAACAAATCAACAGC
1 TAAACAT-CTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* * * * *
369256 TAAACAATATGTACAA-AAACTCCACGGCAAAAAGAAAACAATAGC
1 TAAAC-ATCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* * * * *
369301 TAAACATTATGTACAGTTAACTCAACGGCTGAAACAAATCAACAGC
1 TAAACA-TCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* *
369347 TAAACAATCTGTACAA--AACTCCACGGCAAAAACAAAACAATAGC
1 TAAAC-ATCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* *
369391 TAAACATCATGTACAGTTAACTCCACGGCTAAAACAAATCAACAGC
1 TAAACATC-TGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* * *
369437 TAAACAGTCTGTACAATAAACTCCACGGCCAAAACAAAACAATAGC
1 TAAACA-TCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* * *
369483 TAAACATCCTGCACAGTTAACTCCACGGCTCAAACAAATCAATAGC
1 TAAACAT-CTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
** *
369529 TAAACATCATGTACAGGTAACTCCACGGCTAAAACAAATCAACAGC
1 TAAACATC-TGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
* *
369575 TAAACAGTCTGTACAATAAACTCCACGGCCAAAAC-AATGCAATAGC
1 TAAACA-TCTGTACAATTAACTCCACGGCTAAAACAAAT-CAATAGC
*
369621 TAAACATCCTGTACAATAAACTCCACGGCTAAAAC-AATGCAATAGC
1 TAAACAT-CTGTACAATTAACTCCACGGCTAAAACAAAT-CAATAGC
* *
369667 TAAACATCCTGTACAATTAACTCGACGGCTACAACAA
1 TAAACAT-CTGTACAATTAACTCCACGGCTAAAACAA
369704 TACTAGTATT
Statistics
Matches: 767, Mismatches: 144, Indels: 78
0.78 0.15 0.08
Matches are distributed among these distances:
41 1 0.00
42 30 0.04
43 4 0.01
44 43 0.06
45 114 0.15
46 518 0.68
47 26 0.03
48 7 0.01
49 24 0.03
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.20
Consensus pattern (45 bp):
TAAACATCTGTACAATTAACTCCACGGCTAAAACAAATCAATAGC
Found at i:368821 original size:92 final size:90
Alignment explanation
Indices: 368697--369703 Score: 903
Period size: 92 Copynumber: 11.0 Consensus size: 90
368687 AGCAAAAAAG
* * * *
368697 AATCAACAACTTAAAAATCTGTACAATAAACTCAACGGCCAAAACAAAACAATGGCTAAACACTC
1 AATCAACAGC-TAAACATCTGTACAATAAACTCCACGGCCAAAACAAAACAATAGCTAAACA-TC
* * *
368762 TGTACATTTAATTCTACGGCTAAAACA
64 TGTACAGTTAACTCCACGGCTAAAACA
* * * * * * * *
368789 AATAAACAGCTAAACAGTTTGTACAATTAACTCAACGGCTAAAACAAATCAACAACTAAACATTC
1 AATCAACAGCTAAACA-TCTGTACAATAAACTCCACGGCCAAAACAAAACAATAGCTAAACA-TC
368854 TGTACAGTTTAA-TCCACGGCTAAATA-A
64 TGTACAG-TTAACTCCACGGCTAAA-ACA
* * * * * ** *
368881 AA-CAATACCTAAACATCAAGTACAGTTTAA-TCCACGGTGAAAACAAATCAATAGCTAAACATC
1 AATCAACAGCTAAACATC-TGTACA-ATAAACTCCACGGCCAAAACAAAACAATAGCTAAACATC
* * *
368944 ATGTACAGTTAACCCCAAGGGTAAAACA
64 -TGTACAGTTAACTCCACGGCTAAAACA
* * ** * * *
368972 AATTAACAACCCAACAATCTGTACAACAATTTACTCCATGGCGAAAACAAAACAATAGCT-AACA
1 AATCAACAGCTAAAC-ATCTGTACAATAA---ACTCCACGGCCAAAACAAAACAATAGCTAAACA
*
369036 TCCTGTACAGTTAACT-CATCAGCTAAAACA
62 T-CTGTACAGTTAACTCCA-CGGCTAAAACA
* * * * ** **
369066 AATCAACAGCTAAAAAATCTGTACAATAAACTCCATGGCGAATACAAATTACCAGCTAAACAATC
1 AATCAACAGCT-AAACATCTGTACAATAAACTCCACGGCCAAAACAAAACAATAGCTAAAC-ATC
* * * ***
369131 TGTACAATTTACTCCCCGGCTGTTACA
64 TGTACAGTTAACTCCACGGCTAAAACA
* * * *
369158 AATC-A-A-C-AAACATTCTGTACAATAAACTCCACGGCCAAAATAAATC-ATGAGTTAATCATC
1 AATCAACAGCTAAACA-TCTGTACAATAAACTCCACGGCCAAAACAAAACAAT-AGCTAAACAT-
* **
369218 CAGTACAGTTAACTCCATTGCTAAAACA
63 CTGTACAGTTAACTCCACGGCTAAAACA
* * * *
369246 AATCAACAGCTAAACAATATGTACAA-AAACTCCACGGCAAAAAGAAAACAATAGCTAAACATTA
1 AATCAACAGCTAAAC-ATCTGTACAATAAACTCCACGGCCAAAACAAAACAATAGCTAAACA-TC
* *
369310 TGTACAGTTAACTCAACGGCTGAAACA
64 TGTACAGTTAACTCCACGGCTAAAACA
*
369337 AATCAACAGCTAAACAATCTGTAC-A-AAACTCCACGGCAAAAACAAAACAATAGCTAAACATCA
1 AATCAACAGCTAAAC-ATCTGTACAATAAACTCCACGGCCAAAACAAAACAATAGCTAAACATC-
369400 TGTACAGTTAACTCCACGGCTAAAACA
64 TGTACAGTTAACTCCACGGCTAAAACA
369427 AATCAACAGCTAAACAGTCTGTACAATAAACTCCACGGCCAAAACAAAACAATAGCTAAACATCC
1 AATCAACAGCTAAACA-TCTGTACAATAAACTCCACGGCCAAAACAAAACAATAGCTAAACAT-C
* *
369492 TGCACAGTTAACTCCACGGCTCAAACA
64 TGTACAGTTAACTCCACGGCTAAAACA
* * * * *
369519 AATCAATAGCTAAACATCATGTACAGGT-AACTCCACGGCTAAAACAAATCAACAGCTAAACAGT
1 AATCAACAGCTAAACATC-TGTACA-ATAAACTCCACGGCCAAAACAAAACAATAGCTAAACA-T
* * *
369583 CTGTACAATAAACTCCACGGCCAAAAC-
63 CTGTACAGTTAACTCCACGGCTAAAACA
* * **
369610 AATGCAATAGCTAAACATCCTGTACAATAAACTCCACGGCTAAAACAATGCAATAGCTAAACATC
1 AAT-CAACAGCTAAACAT-CTGTACAATAAACTCCACGGCCAAAACAAAACAATAGCTAAACAT-
* * *
369675 CTGTACAATTAACTCGACGGCTACAACA
63 CTGTACAGTTAACTCCACGGCTAAAACA
369703 A
1 A
369704 TACTAGTATT
Statistics
Matches: 754, Mismatches: 118, Indels: 85
0.79 0.12 0.09
Matches are distributed among these distances:
87 6 0.01
88 57 0.08
89 4 0.01
90 92 0.12
91 171 0.23
92 333 0.44
93 19 0.03
94 46 0.06
95 26 0.03
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.20
Consensus pattern (90 bp):
AATCAACAGCTAAACATCTGTACAATAAACTCCACGGCCAAAACAAAACAATAGCTAAACATCTG
TACAGTTAACTCCACGGCTAAAACA
Found at i:368905 original size:45 final size:46
Alignment explanation
Indices: 368829--368953 Score: 150
Period size: 45 Copynumber: 2.7 Consensus size: 46
368819 CTCAACGGCT
* * *
368829 AAAACAAATCAACAACTAAACATTC-TGTACAGTTTAATCCACGGCT-
1 AAAACAAATCAATACCTAAACA-TCAAGTACAGTTTAATCCACGG-TG
368875 AAATA-AAA-CAATACCTAAACATCAAGTACAGTTTAATCCACGGTG
1 AAA-ACAAATCAATACCTAAACATCAAGTACAGTTTAATCCACGGTG
* *
368920 AAAACAAATCAATAGCTAAACATCATGTACAGTT
1 AAAACAAATCAATACCTAAACATCAAGTACAGTT
368954 AACCCCAAGG
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 4 0.06
45 35 0.51
46 29 0.42
47 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (46 bp):
AAAACAAATCAATACCTAAACATCAAGTACAGTTTAATCCACGGTG
Found at i:372378 original size:22 final size:22
Alignment explanation
Indices: 372333--372380 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
372323 TTGAGTATGA
* *
372333 CTTCGTACTAAACGGAGTACGT
1 CTTCGTACTAAACCGAGCACGT
* *
372355 CTTCGTACTATACCGAGCATGT
1 CTTCGTACTAAACCGAGCACGT
372377 CTTC
1 CTTC
372381 AACATACGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (22 bp):
CTTCGTACTAAACCGAGCACGT
Found at i:372617 original size:2 final size:2
Alignment explanation
Indices: 372610--372642 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
372600 TCCTGCAATT
372610 TC TC TC TC 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 TC TC TC TC T
372643 AACTAGCCTT
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:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:375990 original size:20 final size:19
Alignment explanation
Indices: 375952--376004 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
375942 TTTACAATTC
375952 TTACTGAATC-AATTTCACAT
1 TTACTG-ATCTAA-TTCACAT
375972 ATTACTGATCTAATTCACAT
1 -TTACTGATCTAATTCACAT
375992 TTAGCTGAT-TAAT
1 TTA-CTGATCTAAT
376005 AAAGAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.23
20 15 0.50
21 8 0.27
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (19 bp):
TTACTGATCTAATTCACAT
Found at i:376804 original size:28 final size:28
Alignment explanation
Indices: 376703--376798 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
376693 TTAATGAATG
*
376703 GTCACATGACCTCATTTCAATGACCGAT
1 GTCACATGACCTCATTTCAATGACCAAT
* * *
376731 TTCACACGACCTGATTT-AAGTGACCAAT
1 GTCACATGACCTCATTTCAA-TGACCAAT
* *
376759 GTAACATGACCTCATTTCAATGACAAAT
1 GTCACATGACCTCATTTCAATGACCAAT
376787 GTCACATGACCT
1 GTCACATGACCT
376799 AGTTTCTTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.04
28 52 0.93
29 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (28 bp):
GTCACATGACCTCATTTCAATGACCAAT
Found at i:377331 original size:43 final size:43
Alignment explanation
Indices: 377265--377829 Score: 1058
Period size: 43 Copynumber: 13.1 Consensus size: 43
377255 AAATCAACAG
* *
377265 ACTATCTTCATCTGCCCTCATTGAGTGAGACTCATCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
377308 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
377351 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
*
377394 ACTACCTTCATCTTCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
*
377437 ACTACCTTCATCTTCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
377480 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
377523 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
*
377566 ACTACCTTCATCTTCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
*
377609 ACTACCTTCATCTTCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
377652 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
377695 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
*
377738 ACTACCTTCATCTTCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
*
377781 ACTACCTTCATCTTCCCTCATTGAGTGAGACTCACCCATGTTA
1 ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
377824 ACTACC
1 ACTACC
377830 CCGCTGTTGT
Statistics
Matches: 515, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 515 1.00
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (43 bp):
ACTACCTTCATCTGCCCTCATTGAGTGAGACTCACCCATGTTA
Found at i:378898 original size:45 final size:45
Alignment explanation
Indices: 378849--379101 Score: 260
Period size: 45 Copynumber: 5.3 Consensus size: 45
378839 CATATTATTG
* *
378849 AATGTGCCCCATCCTTACCAACTAATCCATGAACACACACCACTA
1 AATGTACCCCATCCTTACCATCTAATCCATGAACACACACCACTA
*
378894 AATGTACCCCATCCAAGTTCTCCTTACCATCTAATCCATG-A-ACACATCACTA
1 AATGTA--CC--CC-A----TCCTTACCATCTAATCCATGAACACACACCACTA
*
378946 AATGTACCCCATCCAAGTTCTTACCATCTAATCCATGAACACACACTACTA
1 AATGTACCCCAT-C-----CTTACCATCTAATCCATGAACACACACCACTA
* * *
378997 AATGTACCCCATTCTTAACCATCTTATCCATTAACACACACCACTA
1 AATGTACCCCATCCTT-ACCATCTAATCCATGAACACACACCACTA
*
379043 AATGTACCCAAAT-CTTACCATCTAATCCATGAACACACACCACTA
1 AATGTACCC-CATCCTTACCATCTAATCCATGAACACACACCACTA
379088 AATGTACCCCATCC
1 AATGTACCCCATCC
379102 CCATCGTCTC
Statistics
Matches: 175, Mismatches: 13, Indels: 40
0.77 0.06 0.18
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 45 0.26
46 38 0.22
47 5 0.03
48 2 0.01
49 20 0.11
50 4 0.02
51 21 0.12
52 16 0.09
53 1 0.01
54 19 0.11
ACGTcount: A:0.35, C:0.35, G:0.05, T:0.25
Consensus pattern (45 bp):
AATGTACCCCATCCTTACCATCTAATCCATGAACACACACCACTA
Found at i:378960 original size:52 final size:50
Alignment explanation
Indices: 378860--379101 Score: 244
Period size: 46 Copynumber: 4.9 Consensus size: 50
378850 ATGTGCCCCA
*
378860 TCCTTACCAACTAATCCATGAACACACACCACTAAATGTACCCCATCCAAGTT
1 TCCTTACCATCTAATCCATGAACACA-A-CACTAAATGTACCCCATCCAAG-T
*
378913 CTCCTTACCATCTAATCCATGAACACATCACTAAATGTACCCCATCCAAGT
1 -TCCTTACCATCTAATCCATGAACACAACACTAAATGTACCCCATCCAAGT
378964 T-CTTACCATCTAATCCATGAACACACACTACTAAATGTA--CC--CC-A-T
1 TCCTTACCATCTAATCCATGAACACA-AC-ACTAAATGTACCCCATCCAAGT
* *
379009 T-CTTAACCATCTTATCCATTAACACACACCACTAAATGTA-CCCA---AA--
1 TCCTT-ACCATCTAATCCATGAACACA-A-CACTAAATGTACCCCATCCAAGT
379055 T-CTTACCATCTAATCCATGAACACACACCACTAAATGTACCCCATCC
1 TCCTTACCATCTAATCCATGAACACA-A-CACTAAATGTACCCCATCC
379102 CCATCGTCTC
Statistics
Matches: 170, Mismatches: 7, Indels: 27
0.83 0.03 0.13
Matches are distributed among these distances:
45 38 0.22
46 40 0.24
47 6 0.04
49 26 0.15
50 2 0.01
51 11 0.06
52 22 0.13
54 25 0.15
ACGTcount: A:0.36, C:0.35, G:0.05, T:0.25
Consensus pattern (50 bp):
TCCTTACCATCTAATCCATGAACACAACACTAAATGTACCCCATCCAAGT
Found at i:379001 original size:103 final size:95
Alignment explanation
Indices: 378862--379101 Score: 294
Period size: 91 Copynumber: 2.5 Consensus size: 95
378852 GTGCCCCATC
* *
378862 CTTACCAACTAATCCATGAACACACACCACTAAATGTACCCCATCCAAGTTCTCCTTACCATCTA
1 CTTACCATCTAATCCATGAACACACACCACTAAATGTACCCCATCC-A-TTCT--TAACCATCTA
* *
378927 ATCCA-TGA-ACACATCACTAAATGTACCCCATCCAAGTT
62 ATCCATTAACACACACCACTAAATGTA-CCCA---AA--T
* *
378965 CTTACCATCTAATCCATGAACACACACTACTAAATGTA--CC--CCATTCTTAACCATCTTATCC
1 CTTACCATCTAATCCATGAACACACACCACTAAATGTACCCCATCCATTCTTAACCATCTAATCC
379026 ATTAACACACACCACTAAATGTACCCAAAT
66 ATTAACACACACCACTAAATGTACCCAAAT
379056 CTTACCATCTAATCCATGAACACACACCACTAAATGTACCCCATCC
1 CTTACCATCTAATCCATGAACACACACCACTAAATGTACCCCATCC
379102 CCATCGTCTC
Statistics
Matches: 124, Mismatches: 7, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
91 38 0.31
93 4 0.03
95 15 0.12
96 6 0.05
97 20 0.16
98 1 0.01
99 2 0.02
101 2 0.02
103 36 0.29
ACGTcount: A:0.36, C:0.35, G:0.05, T:0.25
Consensus pattern (95 bp):
CTTACCATCTAATCCATGAACACACACCACTAAATGTACCCCATCCATTCTTAACCATCTAATCC
ATTAACACACACCACTAAATGTACCCAAAT
Found at i:382260 original size:27 final size:27
Alignment explanation
Indices: 382221--382291 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
382211 CCACATTCCT
*
382221 ATGGGATTGTGGGATCACTGACCATAA
1 ATGGGATTATGGGATCACTGACCATAA
*** *
382248 ATGGGATTATGGGATTGGTGACCATGA
1 ATGGGATTATGGGATCACTGACCATAA
*
382275 ATGAGATTATGGGATCA
1 ATGGGATTATGGGATCA
382292 GGTACCTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.28
Consensus pattern (27 bp):
ATGGGATTATGGGATCACTGACCATAA
Found at i:387100 original size:2 final size:2
Alignment explanation
Indices: 387093--387117 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
387083 TCTTTACATC
387093 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 A
387118 CAGACAGACA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:387122 original size:4 final size:4
Alignment explanation
Indices: 387115--387249 Score: 52
Period size: 4 Copynumber: 35.8 Consensus size: 4
387105 AGAGAGAGAG
* * * * * *
387115 AGAC AGAC AGAC AGAT GGAC AGAG ATAG AGAC AGAC AGAC AGAC ACAC
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
* * * * * * *
387163 ACAC A-A- AGA- AG-G AGAG AGAC AGAG AGAG AGAC ACAC ACAC AGAC
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
* * * * *
387207 --AC AGAG AGAG AGAT AGAC AGAC --AC AGAG AGGC AGAC AGAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
387250 GAGAGCAAGC
Statistics
Matches: 103, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
2 5 0.05
3 6 0.06
4 92 0.89
ACGTcount: A:0.50, C:0.19, G:0.29, T:0.02
Consensus pattern (4 bp):
AGAC
Found at i:387147 original size:12 final size:12
Alignment explanation
Indices: 387093--387253 Score: 69
Period size: 12 Copynumber: 13.4 Consensus size: 12
387083 TCTTTACATC
*
387093 AGAGAGAGAGAG
1 AGAGACAGAGAG
*
387105 AGAGAGAGAGAG
1 AGAGACAGAGAG
* *
387117 ACAGACAGACAG
1 AGAGACAGAGAG
*
387129 ATG-GACAGAGAT
1 A-GAGACAGAGAG
*
387141 AGAGACAGACAG
1 AGAGACAGAGAG
* * * *
387153 ACAGACACACAC
1 AGAGACAGAGAG
*
387165 ACA-A-AGAAGGAG
1 AGAGACAG-A-GAG
387177 AGAGACAGAGAG
1 AGAGACAGAGAG
* * *
387189 AGAGACACACAC
1 AGAGACAGAGAG
* *
387201 ACAGACACAGAG
1 AGAGACAGAGAG
* * *
387213 AGAGAGATAGAC
1 AGAGACAGAGAG
*
387225 AGACACAGAGAG
1 AGAGACAGAGAG
*
387237 -GCAGACAGACAG
1 AG-AGACAGAGAG
387249 AGAGA
1 AGAGA
387254 GCAAGCACTG
Statistics
Matches: 110, Mismatches: 31, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
10 1 0.01
11 4 0.04
12 100 0.91
13 3 0.03
14 2 0.02
ACGTcount: A:0.50, C:0.16, G:0.32, T:0.02
Consensus pattern (12 bp):
AGAGACAGAGAG
Found at i:387181 original size:36 final size:38
Alignment explanation
Indices: 387133--387229 Score: 126
Period size: 36 Copynumber: 2.6 Consensus size: 38
387123 AGACAGATGG
* *
387133 ACAGAGATAGAGACAGACAGACAGACACACACACAAAG
1 ACAGAGAGAGAGACAGACAGACAGACACACACACAAAC
* * *
387171 A-AG-GAGAGAGACAGAGAGAGAGACACACACACAGAC
1 ACAGAGAGAGAGACAGACAGACAGACACACACACAAAC
*
387207 ACAGAGAGAGAGATAGACAGACA
1 ACAGAGAGAGAGACAGACAGACA
387230 CAGAGAGGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
36 29 0.59
37 4 0.08
38 16 0.33
ACGTcount: A:0.52, C:0.20, G:0.27, T:0.02
Consensus pattern (38 bp):
ACAGAGAGAGAGACAGACAGACAGACACACACACAAAC
Found at i:387183 original size:32 final size:33
Alignment explanation
Indices: 387110--387231 Score: 95
Period size: 32 Copynumber: 3.6 Consensus size: 33
387100 GAGAGAGAGA
* *** *
387110 GAGAGAGACAGACAGACAGATGGACAGAGATA-
1 GAGAGAGACAGACAGACACACACACAGAGACAG
* *
387142 GAGACAGACAGACAGACACACACACAAAGA-AG
1 GAGAGAGACAGACAGACACACACACAGAGACAG
* *
387174 GAGAGAGACAGAGAGAGAGACACACACACAGACACAG
1 GAGAGAGAC----AGACAGACACACACACAGAGACAG
*
387211 AGAGAGAGATAGACAGACACA
1 -GAGAGAGACAGACAGACACA
387232 GAGAGGCAGA
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
31 1 0.01
32 32 0.45
34 10 0.14
36 18 0.25
37 2 0.03
38 8 0.11
ACGTcount: A:0.50, C:0.19, G:0.29, T:0.02
Consensus pattern (33 bp):
GAGAGAGACAGACAGACACACACACAGAGACAG
Found at i:387234 original size:18 final size:18
Alignment explanation
Indices: 387213--387254 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
387203 AGACACAGAG
*
387213 AGAGAGATAGACAGACAC
1 AGAGAGACAGACAGACAC
* *
387231 AGAGAGGCAGACAGACAG
1 AGAGAGACAGACAGACAC
387249 AGAGAG
1 AGAGAG
387255 CAAGCACTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.36, T:0.02
Consensus pattern (18 bp):
AGAGAGACAGACAGACAC
Found at i:387246 original size:22 final size:22
Alignment explanation
Indices: 387187--387249 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
387177 AGAGACAGAG
* * *
387187 AGAGAGACACACACACAGACAC
1 AGAGAGGCAGACAGACAGACAC
*
387209 AGAGAGAG-AGATAGACAGACAC
1 AGAGAG-GCAGACAGACAGACAC
387231 AGAGAGGCAGACAGACAGA
1 AGAGAGGCAGACAGACAGA
387250 GAGAGCAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.49, C:0.21, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAGAGGCAGACAGACAGACAC
Found at i:392215 original size:25 final size:25
Alignment explanation
Indices: 392181--392230 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
392171 AGGTACCAAT
392181 ATCCTCATCATATAATGTTTATTAG
1 ATCCTCATCATATAATGTTTATTAG
392206 ATCCTCATCATATAATGTTTATTAG
1 ATCCTCATCATATAATGTTTATTAG
392231 CTATATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (25 bp):
ATCCTCATCATATAATGTTTATTAG
Found at i:396440 original size:24 final size:24
Alignment explanation
Indices: 396412--396458 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
396402 AATCATGTTA
396412 CATTGGAAATCAATTTGG-TTATTT
1 CATTGGAAATCAA-TTGGATTATTT
396436 CATTGGAAATCAATTGGATTATT
1 CATTGGAAATCAATTGGATTATT
396459 CTCAAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.43
Consensus pattern (24 bp):
CATTGGAAATCAATTGGATTATTT
Found at i:410828 original size:17 final size:18
Alignment explanation
Indices: 410790--410830 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
410780 TCTTGATCAC
*
410790 GACATTTTCCCCGATAAT
1 GACATTTTCACCGATAAT
*
410808 GACATTTTTACCGAT-AT
1 GACATTTTCACCGATAAT
410825 GACATT
1 GACATT
410831 GGGCGCACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (18 bp):
GACATTTTCACCGATAAT
Found at i:418126 original size:78 final size:78
Alignment explanation
Indices: 417991--418139 Score: 237
Period size: 78 Copynumber: 1.9 Consensus size: 78
417981 CGTGATATTT
* * *
417991 CGTACTCTATCGCTAGACACATCTAGTGCAACTTTCCCGTTTCTTTCGTCCCAATCTAAATTTGA
1 CGTACTCTACCCCTAGACACATCTAGTGCAACTGTCCCGTTTCTTTCGTCCCAATCTAAATTTGA
418056 TCGCCAATTTGAA
66 TCGCCAATTTGAA
* *
418069 CGTACTCTACCCCTAGACACATTTGGTGCAACTGTCCCGTTTCTTTCGTCCTC-ATCTAAATTTG
1 CGTACTCTACCCCTAGACACATCTAGTGCAACTGTCCCGTTTCTTTCGTCC-CAATCTAAATTTG
418133 ATCGCCA
65 ATCGCCA
418140 CTGCACTACT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
78 64 0.98
79 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (78 bp):
CGTACTCTACCCCTAGACACATCTAGTGCAACTGTCCCGTTTCTTTCGTCCCAATCTAAATTTGA
TCGCCAATTTGAA
Found at i:434329 original size:2 final size:2
Alignment explanation
Indices: 434324--434367 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
434314 TCTCTCTAAA
434324 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
434366 TC
1 TC
434368 ATGTGTTTTA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:444860 original size:21 final size:21
Alignment explanation
Indices: 444834--445018 Score: 280
Period size: 21 Copynumber: 8.8 Consensus size: 21
444824 NNNNNNNNNN
* *
444834 GTAATGTTAAAGTACCATCAT
1 GTAATGTTAAAGTATCAGCAT
444855 GTAATGTTAAAGTATCAGCAT
1 GTAATGTTAAAGTATCAGCAT
*
444876 GTAATGTTGAAGTATCAGCAT
1 GTAATGTTAAAGTATCAGCAT
* *
444897 GTAATGTTAAAGTACCATCAT
1 GTAATGTTAAAGTATCAGCAT
444918 GTAATGTTAAAGTATCAGCAT
1 GTAATGTTAAAGTATCAGCAT
* *
444939 GTAATGTTGAAGTATCAGCAC
1 GTAATGTTAAAGTATCAGCAT
* *
444960 GTAATGTTAAAGTACCATCAT
1 GTAATGTTAAAGTATCAGCAT
444981 GTAATGTTAAAGTATCAGCAT
1 GTAATGTTAAAGTATCAGCAT
*
445002 GTAATGTTGAAGTATCA
1 GTAATGTTAAAGTATCA
445019 TCATATTATG
Statistics
Matches: 147, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 147 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (21 bp):
GTAATGTTAAAGTATCAGCAT
Found at i:444933 original size:63 final size:63
Alignment explanation
Indices: 444834--445018 Score: 361
Period size: 63 Copynumber: 2.9 Consensus size: 63
444824 NNNNNNNNNN
*
444834 GTAATGTTAAAGTACCATCATGTAATGTTAAAGTATCAGCATGTAATGTTGAAGTATCAGCAT
1 GTAATGTTAAAGTACCATCATGTAATGTTAAAGTATCAGCATGTAATGTTGAAGTATCAGCAC
444897 GTAATGTTAAAGTACCATCATGTAATGTTAAAGTATCAGCATGTAATGTTGAAGTATCAGCAC
1 GTAATGTTAAAGTACCATCATGTAATGTTAAAGTATCAGCATGTAATGTTGAAGTATCAGCAC
444960 GTAATGTTAAAGTACCATCATGTAATGTTAAAGTATCAGCATGTAATGTTGAAGTATCA
1 GTAATGTTAAAGTACCATCATGTAATGTTAAAGTATCAGCATGTAATGTTGAAGTATCA
445019 TCATATTATG
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 121 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (63 bp):
GTAATGTTAAAGTACCATCATGTAATGTTAAAGTATCAGCATGTAATGTTGAAGTATCAGCAC
Found at i:448794 original size:2 final size:2
Alignment explanation
Indices: 448789--448840 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
448779 GTACATGCAA
448789 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
448831 TC TC TC TC TC
1 TC TC TC TC TC
448841 GTGCATTAAA
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:449233 original size:2 final size:2
Alignment explanation
Indices: 449226--449270 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
449216 TCTATAACTC
449226 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
449268 AG A
1 AG A
449271 TATTTACATC
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:453909 original size:2 final size:2
Alignment explanation
Indices: 453902--453941 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
453892 AGATGAAAAG
453902 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
453942 TTAAAACATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:456461 original size:2 final size:2
Alignment explanation
Indices: 456454--456491 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
456444 TGACTCACAT
456454 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
456492 TTCATTAGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:460443 original size:16 final size:16
Alignment explanation
Indices: 460418--460448 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
460408 TGTGAATATC
*
460418 ATTAGTACTAAAAAAA
1 ATTAGAACTAAAAAAA
460434 ATTAGAACTAAAAAA
1 ATTAGAACTAAAAAA
460449 TTCTCTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (16 bp):
ATTAGAACTAAAAAAA
Found at i:472007 original size:18 final size:18
Alignment explanation
Indices: 471984--472019 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
471974 TTACACATAC
471984 CCTTGTGTGTGTATATAT
1 CCTTGTGTGTGTATATAT
*
472002 CCTTGTGTGTGTGTATAT
1 CCTTGTGTGTGTATATAT
472020 ATACACAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.25, T:0.50
Consensus pattern (18 bp):
CCTTGTGTGTGTATATAT
Found at i:479008 original size:15 final size:15
Alignment explanation
Indices: 478988--479043 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
478978 TGGCTACACT
478988 CCTCCTAGTACAACC
1 CCTCCTAGTACAACC
479003 CCTCCTAGTACAA--
1 CCTCCTAGTACAACC
*
479016 --TCATAGGTAC-ACC
1 CCTCCTA-GTACAACC
479029 CCTCCTAGTACAACC
1 CCTCCTAGTACAACC
479044 ATAGGTACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
11 5 0.15
12 4 0.12
14 4 0.12
15 20 0.61
ACGTcount: A:0.29, C:0.41, G:0.09, T:0.21
Consensus pattern (15 bp):
CCTCCTAGTACAACC
Found at i:479234 original size:26 final size:26
Alignment explanation
Indices: 478995--479223 Score: 368
Period size: 26 Copynumber: 8.8 Consensus size: 26
478985 ACTCCTCCTA
*
478995 GTACAACCCCTCCTAGTACAATCATAG
1 GTAC-ACCCCTCCTAGTACAACCATAG
479022 GTACACCCCTCCTAGTACAACCATAG
1 GTACACCCCTCCTAGTACAACCATAG
* *
479048 GTACACCCCTCTTAATACAACCATAG
1 GTACACCCCTCCTAGTACAACCATAG
479074 GTACACCCCTCCTAGTACAACCATAG
1 GTACACCCCTCCTAGTACAACCATAG
*
479100 GTACACCCCACCTAGTACAACCATAG
1 GTACACCCCTCCTAGTACAACCATAG
* **
479126 GTACACCCATTTTAGTACAACCATAG
1 GTACACCCCTCCTAGTACAACCATAG
*
479152 GTTCACCCCTCCTAGTACAACCATAG
1 GTACACCCCTCCTAGTACAACCATAG
*
479178 GTACACCCCTCCTAGTACAACCATAA
1 GTACACCCCTCCTAGTACAACCATAG
479204 GTACACCCCTCCTAGTACAA
1 GTACACCCCTCCTAGTACAA
479224 GCTTGAGTAC
Statistics
Matches: 186, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
26 182 0.98
27 4 0.02
ACGTcount: A:0.32, C:0.36, G:0.10, T:0.21
Consensus pattern (26 bp):
GTACACCCCTCCTAGTACAACCATAG
Found at i:479244 original size:26 final size:27
Alignment explanation
Indices: 479158--479329 Score: 90
Period size: 26 Copynumber: 6.6 Consensus size: 27
479148 ATAGGTTCAC
* * *
479158 CCCTCCTAGTACAACCAT-AGGTACA-C
1 CCCTCCTAGTACAAGCTTGA-GTACATT
* * * *
479184 CCCTCCTAGTACAACCATAAGTACA-C
1 CCCTCCTAGTACAAGCTTGAGTACATT
479210 CCCTCCTAGTACAAGCTTGAGTACATT
1 CCCTCCTAGTACAAGCTTGAGTACATT
* * *
479237 CCCT-CTAGTACAAGTTTGGGTACA-C
1 CCCTCCTAGTACAAGCTTGAGTACATT
** * * * * *
479262 CCCTGATAGTATATGCTTAAATAC--C
1 CCCTCCTAGTACAAGCTTGAGTACATT
* *
479287 CCCTACTAGTACAAGCTTGGGTACATT
1 CCCTCCTAGTACAAGCTTGAGTACATT
* *
479314 -CCTCCTTGTCCAAGCT
1 CCCTCCTAGTACAAGCT
479330 AGGGTACAGC
Statistics
Matches: 116, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
25 22 0.19
26 89 0.77
27 5 0.04
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (27 bp):
CCCTCCTAGTACAAGCTTGAGTACATT
Found at i:479272 original size:52 final size:51
Alignment explanation
Indices: 479204--479311 Score: 119
Period size: 52 Copynumber: 2.1 Consensus size: 51
479194 ACAACCATAA
* * * * *
479204 GTACACCCCTCCTAGTACAAGCTTGAGTACATTCCCT-CTAGTACAAGTTTGG
1 GTACACCCCTCATAGTACAAGCTTAAATAC--CCCCTACTAGTACAAGCTTGG
* * *
479256 GTACACCCCTGATAGTATATGCTTAAATACCCCCTACTAGTACAAGCTTGG
1 GTACACCCCTCATAGTACAAGCTTAAATACCCCCTACTAGTACAAGCTTGG
479307 GTACA
1 GTACA
479312 TTCCTCCTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 4 0.09
51 19 0.40
52 24 0.51
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (51 bp):
GTACACCCCTCATAGTACAAGCTTAAATACCCCCTACTAGTACAAGCTTGG
Found at i:490602 original size:36 final size:36
Alignment explanation
Indices: 490536--490628 Score: 168
Period size: 36 Copynumber: 2.5 Consensus size: 36
490526 GTTTTTGAAT
490536 AAGTTTTCAAATCTTATAAAAGTTTTCAAATCTTATAA
1 AAGTTTTCAAATCTTAT--AAGTTTTCAAATCTTATAA
490574 AAGTTTTCAAATCTTATAAGTTTTCAAATCTTATAA
1 AAGTTTTCAAATCTTATAAGTTTTCAAATCTTATAA
490610 AAGTTTTCAAATCTTATAA
1 AAGTTTTCAAATCTTATAA
490629 AAGTTTTATA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 38 0.69
38 17 0.31
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (36 bp):
AAGTTTTCAAATCTTATAAGTTTTCAAATCTTATAA
Found at i:490645 original size:19 final size:19
Alignment explanation
Indices: 490536--490635 Score: 186
Period size: 19 Copynumber: 5.4 Consensus size: 19
490526 GTTTTTGAAT
490536 AAGTTTTCAAATCTTATAA
1 AAGTTTTCAAATCTTATAA
490555 AAGTTTTCAAATCTTATAA
1 AAGTTTTCAAATCTTATAA
490574 AAGTTTTCAAATCTTAT--
1 AAGTTTTCAAATCTTATAA
490591 AAGTTTTCAAATCTTATAA
1 AAGTTTTCAAATCTTATAA
490610 AAGTTTTCAAATCTTATAA
1 AAGTTTTCAAATCTTATAA
490629 AAGTTTT
1 AAGTTTT
490636 ATAGTCTTAT
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.22
19 62 0.78
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (19 bp):
AAGTTTTCAAATCTTATAA
Found at i:495156 original size:2 final size:2
Alignment explanation
Indices: 495151--495203 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
495141 TCCCCCCCCC
495151 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
495193 CT CT CT CT CT C
1 CT CT CT CT CT C
495204 ATCATTTTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:508176 original size:2 final size:2
Alignment explanation
Indices: 508169--508221 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
508159 TTTGAAGGTA
508169 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
508211 AG AG AG AG AG A
1 AG AG AG AG AG A
508222 ATTGTCTGGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:525596 original size:28 final size:28
Alignment explanation
Indices: 525466--526097 Score: 1098
Period size: 28 Copynumber: 23.1 Consensus size: 28
525456 ACTATCACAG
*
525466 TATGTGTAAATACATGAAAGTTTC--TC
1 TATGTGTAAATACATTAAAGTTTCTATC
* *
525492 --TGTGGAAATACATGAAAGTTTC--TC
1 TATGTGTAAATACATTAAAGTTTCTATC
525516 --TGTGTAAATACATTAAAGTTTC--TC
1 TATGTGTAAATACATTAAAGTTTCTATC
* *
525540 --TGTATAAAGACATTAAAGTTTC--TC
1 TATGTGTAAATACATTAAAGTTTCTATC
*
525564 --TGTGTAAATACATTTAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525590 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525618 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525646 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525674 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525702 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525730 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525758 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525786 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525814 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525842 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525870 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525898 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525926 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525954 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
525982 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
526010 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
526038 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
526066 TATGTGTAAATACATTAAAGTTTCTATC
1 TATGTGTAAATACATTAAAGTTTCTATC
526094 TATG
1 TATG
526098 NNNNNNNNNN
Statistics
Matches: 593, Mismatches: 9, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
24 86 0.15
26 2 0.00
28 505 0.85
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (28 bp):
TATGTGTAAATACATTAAAGTTTCTATC
Found at i:526558 original size:24 final size:24
Alignment explanation
Indices: 526410--526556 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
526400 TATCACAGTA
*
526410 TGTGTAAATACATGAAAGTTTCTC
1 TGTGTAAATACATTAAAGTTTCTC
* *
526434 TGTGGAAATACATGAAAGTTTCTC
1 TGTGTAAATACATTAAAGTTTCTC
526458 TGTGTAAATACATTAAAGTTTCTC
1 TGTGTAAATACATTAAAGTTTCTC
* *
526482 TGTATAAAGACATTAAAGTTTCTC
1 TGTGTAAATACATTAAAGTTTCTC
*
526506 TGTGTAAATACATTTAAGTTTCTATC
1 TGTGTAAATACATTAAAGTTTC--TC
526532 TATGTGTAAATACATTAAAGTTTCT
1 --TGTGTAAATACATTAAAGTTTCT
526557 ATCTATGGGA
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
24 86 0.78
26 3 0.03
28 21 0.19
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (24 bp):
TGTGTAAATACATTAAAGTTTCTC
Found at i:529647 original size:24 final size:24
Alignment explanation
Indices: 529619--529669 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
529609 CGCGAAAACC
*
529619 AGACCAACAGCTGACACTGCACCA
1 AGACCAACAGCTGACACTACACCA
*
529643 AGACCAACAGCTGTCACTACACCA
1 AGACCAACAGCTGACACTACACCA
529667 AGA
1 AGA
529670 GGAGTAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.35, G:0.16, T:0.10
Consensus pattern (24 bp):
AGACCAACAGCTGACACTACACCA
Found at i:537472 original size:1 final size:1
Alignment explanation
Indices: 537466--537491 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
537456 NNNNNNNNGT
537466 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
537492 TGACGCACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:538017 original size:18 final size:18
Alignment explanation
Indices: 537926--538846 Score: 369
Period size: 18 Copynumber: 50.9 Consensus size: 18
537916 GACTCTTGAG
*
537926 GGATAGTCTTTG-ACATAT
1 GGATAGTCTCTGTA-ATAT
* *
537944 GGATAGTCTTTGTAACAT
1 GGATAGTCTCTGTAATAT
** *
537962 AAATACTCTCTGTAATAT
1 GGATAGTCTCTGTAATAT
*
537980 GGATAGTCTATATATGTAATAT
1 GGATAGTC----TCTGTAATAT
538002 GGATAGTCTCTGTAATAT
1 GGATAGTCTCTGTAATAT
* *
538020 GGATTA-TCTCTTTACTAT
1 GGA-TAGTCTCTGTAATAT
538038 AGG-TAGTCTCTGTAATAT
1 -GGATAGTCTCTGTAATAT
*
538056 GGATAATCTCTGTAATAT
1 GGATAGTCTCTGTAATAT
538074 GGATAGTCTCTGTAATAT
1 GGATAGTCTCTGTAATAT
538092 GGACTA---T-TG----AT
1 GGA-TAGTCTCTGTAATAT
*
538103 GGATAGTCTTTG-ATATAT
1 GGATAGTCTCTGTA-ATAT
* *
538121 GGATAGTCTTTGTAATAA
1 GGATAGTCTCTGTAATAT
** * *
538139 AAATACTCTCTGTATTAT
1 GGATAGTCTCTGTAATAT
* *
538157 GGATAGTCTATATATATGTCATAT
1 GGATAGTC------TCTGTAATAT
538181 GGATAGTCTCTGTAATAT
1 GGATAGTCTCTGTAATAT
* *
538199 GGATAGTCTCTTTACTAT
1 GGATAGTCTCTGTAATAT
* *
538217 AGG-GAGTATCTGTAATAT
1 -GGATAGTCTCTGTAATAT
538235 GGATAGTCTCTGTAATAT
1 GGATAGTCTCTGTAATAT
538253 GGATAGTCTCTGTAATAT
1 GGATAGTCTCTGTAATAT
*
538271 GG--A--CTCT-T--GAT
1 GGATAGTCTCTGTAATAT
*
538282 GGATAGTCTTTG-ATATAT
1 GGATAGTCTCTGTA-ATAT
* *
538300 GAATAATCTCTGTTAAATAT
1 GGATAGTCTCTG-T-AATAT
*
538320 AGATAGTCTCTGTAATAT
1 GGATAGTCTCTGTAATAT
* *
538338 GAATAGTATCTGTAATAT
1 GGATAGTCTCTGTAATAT
*
538356 GGATAGTCTCTGAAATA-
1 GGATAGTCTCTGTAATAT
* *
538373 GAAATAGTCTTTGTAATAAGTACAT
1 G-GATAGTCTCTG---TAA-T--AT
* **
538398 GTATAGTC-AAGTTAATAT
1 GGATAGTCTCTG-TAATAT
* *
538416 GGATAGTCTCTGCAATAA
1 GGATAGTCTCTGTAATAT
** * *
538434 ATATAGTCTCTGCAAGAT
1 GGATAGTCTCTGTAATAT
**
538452 ATATAGTCTCTGTACATGTAATAT
1 GGATAG--TC--T-C-TGTAATAT
* *
538476 GAATTA-TCTCTGTAATAC
1 GGA-TAGTCTCTGTAATAT
* * *
538494 AGATTAGTGTCTGTAATCT
1 GGA-TAGTCTCTGTAATAT
* * *
538513 CGATAATATCTGTAATA-
1 GGATAGTCTCTGTAATAT
* * *
538530 -GA-AAT-AC-GT-ACAT
1 GGATAGTCTCTGTAATAT
* * *
538543 GTATAGTCACTTTAATAT
1 GGATAGTCTCTGTAATAT
* * *
538561 AGATTGTCTCTGAAATAT
1 GGATAGTCTCTGTAATAT
* * ** *
538579 CGAGAAACTCTGTAAAAT
1 GGATAGTCTCTGTAATAT
*
538597 TGATAGTCTCTGTAATAT
1 GGATAGTCTCTGTAATAT
* **
538615 GGATAGTTTCTGTTGTAT
1 GGATAGTCTCTGTAATAT
** * *
538633 TAATAGTCTCTATAATGT
1 GGATAGTCTCTGTAATAT
* *
538651 GAATAGTCTATGTAATAT
1 GGATAGTCTCTGTAATAT
*
538669 GGATAGTCTCTGAAATA-
1 GGATAGTCTCTGTAATAT
* *
538686 GAAATAGTCTCTGTAAAAT
1 G-GATAGTCTCTGTAATAT
* *
538705 GTATAGTCACT-TGAATAT
1 GGATAGTCTCTGT-AATAT
* * *
538723 AGAAAGTCTCTGAAATAT
1 GGATAGTCTCTGTAATAT
* ** *
538741 CTG-TAAACTCTGTAAAAT
1 -GGATAGTCTCTGTAATAT
*
538759 GGATAGTCTCTCTAATAT
1 GGATAGTCTCTGTAATAT
*
538777 GGATAGTCTTTGTAATAT
1 GGATAGTCTCTGTAATAT
** * * * *
538795 ATATAGTATTTATAATTT
1 GGATAGTCTCTGTAATAT
*
538813 GGATAGTTTCTGTAATAT
1 GGATAGTCTCTGTAATAT
* * *
538831 TGATAATCTTTGTAAT
1 GGATAGTCTCTGTAAT
538847 GAAAATAATT
Statistics
Matches: 670, Mismatches: 166, Indels: 134
0.69 0.17 0.14
Matches are distributed among these distances:
10 2 0.00
11 9 0.01
12 2 0.00
13 5 0.01
14 8 0.01
15 10 0.01
16 6 0.01
17 11 0.02
18 513 0.77
19 26 0.04
20 17 0.03
21 6 0.01
22 21 0.03
23 2 0.00
24 29 0.04
25 3 0.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (18 bp):
GGATAGTCTCTGTAATAT
Found at i:538257 original size:179 final size:177
Alignment explanation
Indices: 537895--538372 Score: 689
Period size: 179 Copynumber: 2.7 Consensus size: 177
537885 TGGACCCCTG
* * *
537895 ATGGATAGTTTCTGTAATATGGACTCTTGAGGGATAGTCTTTGACATATGGATAGTCTTTGTAAC
1 ATGGATAGTCTCTGTAATATGGACTCTTGATGGATAGTCTTTGATATATGGATAGTCTTTGTAAC
*
537960 ATAAATACTCTCTGTAATATGGATAGTCTATATATGTAATATGGATAGTCTCTGTAATATGGATT
66 AAAAATACTCTCTGTAATATGGATAGTCTATATATGTAATATGGATAGTCTCTGTAATATGGATT
* *
538025 ATCTCTTTACTATAGGTAGTCTCTGTAATATGGATAATCTCTGTAAT
131 ATCTCTTTACTATAGGGAGTATCTGTAATATGGATAATCTCTGTAAT
* *
538072 ATGGATAGTCTCTGTAATATGGACTATTGATGGATAGTCTTTGATATATGGATAGTCTTTGTAAT
1 ATGGATAGTCTCTGTAATATGGACTCTTGATGGATAGTCTTTGATATATGGATAGTCTTTGTAAC
* *
538137 AAAAATACTCTCTGTATTATGGATAGTCTATATATATGTCATATGGATAGTCTCTGTAATATGGA
66 AAAAATACTCTCTGTAATATGGATAGTC--TATATATGTAATATGGATAGTCTCTGTAATATGGA
*
538202 -TAGTCTCTTTACTATAGGGAGTATCTGTAATATGGATAGTCTCTGTAAT
129 TTA-TCTCTTTACTATAGGGAGTATCTGTAATATGGATAATCTCTGTAAT
* * *
538251 ATGGATAGTCTCTGTAATATGGACTCTTGATGGATAGTCTTTGATATATGAATAATCTCTGTTAA
1 ATGGATAGTCTCTGTAATATGGACTCTTGATGGATAGTCTTTGATATATGGATAGTCTTTG-TAA
* * * * *
538316 -ATATAGATAGTCTCTGTAATATGAATAG----TATCTGTAATATGGATAGTCTCTGAAATA
65 CA-A-AAATACTCTCTGTAATATGGATAGTCTATATATGTAATATGGATAGTCTCTGTAATA
538373 GAAATAGTCT
Statistics
Matches: 273, Mismatches: 22, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
175 26 0.10
177 86 0.32
178 2 0.01
179 135 0.49
180 4 0.01
181 20 0.07
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (177 bp):
ATGGATAGTCTCTGTAATATGGACTCTTGATGGATAGTCTTTGATATATGGATAGTCTTTGTAAC
AAAAATACTCTCTGTAATATGGATAGTCTATATATGTAATATGGATAGTCTCTGTAATATGGATT
ATCTCTTTACTATAGGGAGTATCTGTAATATGGATAATCTCTGTAAT
Found at i:538338 original size:38 final size:35
Alignment explanation
Indices: 538283--538369 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 35
538273 ACTCTTGATG
* *
538283 GATAGTCTTTGATATATGAATAATCTCTGTTAAATATA
1 GATAGTCTCTGA-ATATGAATAATATCTG-T-AATATA
* *
538321 GATAGTCTCTGTAATATGAATAGTATCTGTAATATG
1 GATAGTCTCTG-AATATGAATAATATCTGTAATATA
538357 GATAGTCTCTGAA
1 GATAGTCTCTGAA
538370 ATAGAAATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
35 2 0.05
36 16 0.36
37 1 0.02
38 24 0.55
39 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (35 bp):
GATAGTCTCTGAATATGAATAATATCTGTAATATA
Found at i:539030 original size:18 final size:18
Alignment explanation
Indices: 539009--539058 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
538999 CAGTCACGGC
*
539009 AATATGGATAGTCT-ATGT
1 AATATGGATAGTCTCGT-T
539027 AATATGGATAGTCTCGTT
1 AATATGGATAGTCTCGTT
*
539045 TATATGGATAGTCT
1 AATATGGATAGTCT
539059 TTTTAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (18 bp):
AATATGGATAGTCTCGTT
Found at i:539127 original size:29 final size:29
Alignment explanation
Indices: 539073--539128 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
539063 AATTTTGATC
* **
539073 TTTGATGGATAGTCTCTGTATTATGGACT
1 TTTGATGGATAGTCACTGTAAAATGGACT
539102 TTTGATGGATAGTCACTGTAAAATGGA
1 TTTGATGGATAGTCACTGTAAAATGGA
539129 TAGCCTCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (29 bp):
TTTGATGGATAGTCACTGTAAAATGGACT
Found at i:539673 original size:20 final size:21
Alignment explanation
Indices: 539650--539690 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
539640 TTTAAGGTCT
539650 AGAAAT-AATACATTTATTGA
1 AGAAATAAATACATTTATTGA
*
539670 AGAAATACAATACCTTTATTG
1 AGAAATA-AATACATTTATTG
539691 TAGATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (21 bp):
AGAAATAAATACATTTATTGA
Found at i:546046 original size:11 final size:12
Alignment explanation
Indices: 546021--546057 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
546011 TGCTGATAAT
546021 TATTATCGAAAG
1 TATTATCGAAAG
546033 TATTATCG-AAG
1 TATTATCGAAAG
*
546044 TATTATCAAAAG
1 TATTATCGAAAG
546056 TA
1 TA
546058 AACAATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (12 bp):
TATTATCGAAAG
Found at i:557388 original size:2 final size:2
Alignment explanation
Indices: 557381--557459 Score: 149
Period size: 2 Copynumber: 39.5 Consensus size: 2
557371 TTTGATTGTT
*
557381 GA GA GA GA GA GA GA GA GA TA 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
557423 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 G
557460 TTATTGAATG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.01
Consensus pattern (2 bp):
GA
Found at i:566279 original size:12 final size:13
Alignment explanation
Indices: 566262--566300 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
566252 TTTTGTGTCG
566262 AAAAATAA-AAAA
1 AAAAATAATAAAA
566274 AAAAATAATAAAA
1 AAAAATAATAAAA
566287 AAAAATGAATAAAA
1 AAAAAT-AATAAAA
566301 GGAAAATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 8 0.32
13 10 0.40
14 7 0.28
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAATAATAAAA
Found at i:575292 original size:2 final size:2
Alignment explanation
Indices: 575287--575345 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
575277 TTTCTACACT
575287 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
575329 GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA G
575346 CACCCACTCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:582022 original size:13 final size:13
Alignment explanation
Indices: 582004--582030 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
581994 TGATTAATAT
582004 ATGTAGTGTTTTG
1 ATGTAGTGTTTTG
582017 ATGTAGTGTTTTG
1 ATGTAGTGTTTTG
582030 A
1 A
582031 AGGATCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (13 bp):
ATGTAGTGTTTTG
Found at i:588011 original size:12 final size:12
Alignment explanation
Indices: 587994--588018 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
587984 ATGAATTTAG
587994 ATGATTTAATTA
1 ATGATTTAATTA
588006 ATGATTTAATTA
1 ATGATTTAATTA
588018 A
1 A
588019 AAAATTATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGATTTAATTA
Found at i:604415 original size:33 final size:34
Alignment explanation
Indices: 604266--604417 Score: 107
Period size: 33 Copynumber: 4.6 Consensus size: 34
604256 TGAACCACAA
* * ** **
604266 AACAGGTGCCTTGAATTACAACATGAACTTCCC-
1 AACAGGTGCCCTGACTTACTCCATGAAAGTCCCT
* * * *
604299 AACAGGAGCCAC-GACTTGC-CCATTAAAGTCCCC
1 AACAGGTGCC-CTGACTTACTCCATGAAAGTCCCT
* *
604332 AACTGGTGCCCTGACTTACTCCATGAAAGTCTCT
1 AACAGGTGCCCTGACTTACTCCATGAAAGTCCCT
** ** *
604366 -ACAGGAACCCCAACTTAC-CCCTGAAAGTCCCT
1 AACAGGTGCCCTGACTTACTCCATGAAAGTCCCT
604398 AACAGGTGCCCTGACTTACT
1 AACAGGTGCCCTGACTTACT
604418 GGTACCCTGA
Statistics
Matches: 88, Mismatches: 25, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
32 22 0.25
33 55 0.62
34 11 0.12
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (34 bp):
AACAGGTGCCCTGACTTACTCCATGAAAGTCCCT
Found at i:604452 original size:50 final size:49
Alignment explanation
Indices: 604378--604512 Score: 234
Period size: 50 Copynumber: 2.7 Consensus size: 49
604368 AGGAACCCCA
*
604378 ACTTACCCCTGAAAGTCCCTAACAGGTGCCCTGACTTACTGGTACCCTG
1 ACTTACCCATGAAAGTCCCTAACAGGTGCCCTGACTTACTGGTACCCTG
604427 ACTTACCCAATGAAAGTCCCTAACAGGTGCCCTGACTTACTGGTACCCTG
1 ACTTACCC-ATGAAAGTCCCTAACAGGTGCCCTGACTTACTGGTACCCTG
*
604477 ACTTACCCCATGAAAGTCGCTAACAGGTGCCCTGAC
1 ACTTA-CCCATGAAAGTCCCTAACAGGTGCCCTGAC
604513 CTACCCTATG
Statistics
Matches: 82, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
49 8 0.10
50 71 0.87
51 3 0.04
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (49 bp):
ACTTACCCATGAAAGTCCCTAACAGGTGCCCTGACTTACTGGTACCCTG
Found at i:604518 original size:34 final size:34
Alignment explanation
Indices: 604472--604543 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
604462 CTTACTGGTA
* *
604472 CCCTGACTTACCCCATGAAAGTCGCTAACAGGTG
1 CCCTGACCTACCCCATGAAAGTCCCTAACAGGTG
*
604506 CCCTGACCTACCCTATGAAAGTCCCTAACAGGTG
1 CCCTGACCTACCCCATGAAAGTCCCTAACAGGTG
604540 CCCT
1 CCCT
604544 AGCTGACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (34 bp):
CCCTGACCTACCCCATGAAAGTCCCTAACAGGTG
Found at i:625550 original size:17 final size:17
Alignment explanation
Indices: 625528--625561 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
625518 GAAGTCTTCT
625528 TTTGATTATAAATATCC
1 TTTGATTATAAATATCC
625545 TTTGATTATAAATATCC
1 TTTGATTATAAATATCC
625562 ATTCTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTGATTATAAATATCC
Found at i:643738 original size:17 final size:16
Alignment explanation
Indices: 643701--643735 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
643691 ATAGATAAGT
643701 AATACATGTATTAAAA
1 AATACATGTATTAAAA
643717 AATACATG-ATTAAAA
1 AATACATGTATTAAAA
643732 AATA
1 AATA
643736 TACTTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AATACATGTATTAAAA
Found at i:644827 original size:20 final size:20
Alignment explanation
Indices: 644802--644842 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
644792 ACACAAGGTA
644802 GCTAATCCCGTGTACACTGG
1 GCTAATCCCGTGTACACTGG
644822 GCTAATCCCGTGTACACTGG
1 GCTAATCCCGTGTACACTGG
644842 G
1 G
644843 ATTTCGACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.24
Consensus pattern (20 bp):
GCTAATCCCGTGTACACTGG
Found at i:645352 original size:10 final size:10
Alignment explanation
Indices: 645337--645364 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
645327 GTTTACAAAA
645337 CAAAGATTTT
1 CAAAGATTTT
645347 CAAAGATTTT
1 CAAAGATTTT
645357 CAAAGATT
1 CAAAGATT
645365 ACTCTGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (10 bp):
CAAAGATTTT
Found at i:645841 original size:11 final size:11
Alignment explanation
Indices: 645825--645850 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
645815 TAACAGTATG
645825 TATTTTTTTTT
1 TATTTTTTTTT
645836 TATTTTTTTTT
1 TATTTTTTTTT
645847 TATT
1 TATT
645851 AAAAAACCTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (11 bp):
TATTTTTTTTT
Found at i:647321 original size:135 final size:134
Alignment explanation
Indices: 647066--647324 Score: 369
Period size: 136 Copynumber: 1.9 Consensus size: 134
647056 AAATACTTGT
*
647066 TTTTGTTGAAAAATAGTGTATGGTTATATAAAAAATGTCTTCATCTATTAAAACAAGATATTTTT
1 TTTTGTTGAAAAATAGTGTATGGTTATATAAAAAATGTCTTCATC--TTAAAACAAGACATTTTT
* * *
647131 ATGACAAAAAAAGAGTTGTTTCCCTTTACATTGCTATGGGTGTCTTGCTAATGAAAGTTTTTTTG
64 ATGACAAAAAAAGAGTTGTTCCCCTTTACATTGCTACGAGTGTCTTGCTAATGAAAGTTTTTTTG
647196 TTTTTG
129 TTTTTG
* * **
647202 TTTTGTTGAAAAATAGTGTATGGTTATATAAAAATTGTCTTCATC-T-GAATGAGACATTTTTAT
1 TTTTGTTGAAAAATAGTGTATGGTTATATAAAAAATGTCTTCATCTTAAAACAAGACATTTTTAT
* *
647265 GACAAAAATATTTGAGTTGTTCCCCTTTACATTGCTGCGAGTGTCTTGCTAATGAAAGTT
66 GACAAAAA-A--AGAGTTGTTCCCCTTTACATTGCTACGAGTGTCTTGCTAATGAAAGTT
647325 GCAGCTGGAT
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
132 21 0.19
133 2 0.02
135 43 0.39
136 44 0.40
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (134 bp):
TTTTGTTGAAAAATAGTGTATGGTTATATAAAAAATGTCTTCATCTTAAAACAAGACATTTTTAT
GACAAAAAAAGAGTTGTTCCCCTTTACATTGCTACGAGTGTCTTGCTAATGAAAGTTTTTTTGTT
TTTG
Found at i:649778 original size:2 final size:2
Alignment explanation
Indices: 649773--649807 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
649763 ACACACCCCC
649773 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
649808 CACACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:665788 original size:146 final size:144
Alignment explanation
Indices: 665602--665873 Score: 445
Period size: 146 Copynumber: 1.9 Consensus size: 144
665592 TTTTGAACAA
** *
665602 TGACCTTGACCTTGCCCAAATGCCTTGGGTCAAGGTCATGACACATCCTTAGGTCATAAGCAATC
1 TGACCTTGACCTTGCCCAAATGCCTAAGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATC
* *
665667 TTTGTGTGAAGTAAGAACTTCCAATGTTTCTCCATAAGAAAGATATGGACCGGACACGAATTTTG
66 TATGTGTGAAGTAAGAACTTACAATGTTTCTCCATAAGAAAGATATGGACCGGACAC-AATTTTG
665732 CACATTTTCTGCCAC
130 CACATTTTCTGCCAC
* * * *
665747 TGACCTTGACCTTGTCCGAATGACCTAAGGTCATGGTCATGACCCACCCTTAGGTCATAAGCAAT
1 TGACCTTGACCTTGCCCAAATG-CCTAAGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAAT
665812 CTATGTGTGAAGTAAGAACTTACAATGTTTCTCCATAAGAAAGATATGGACCGGACACAATT
65 CTATGTGTGAAGTAAGAACTTACAATGTTTCTCCATAAGAAAGATATGGACCGGACACAATT
665874 GCACAGACGG
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
145 24 0.21
146 93 0.79
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (144 bp):
TGACCTTGACCTTGCCCAAATGCCTAAGGTCAAGGTCATGACACACCCTTAGGTCATAAGCAATC
TATGTGTGAAGTAAGAACTTACAATGTTTCTCCATAAGAAAGATATGGACCGGACACAATTTTGC
ACATTTTCTGCCAC
Found at i:668818 original size:161 final size:160
Alignment explanation
Indices: 668527--668992 Score: 618
Period size: 161 Copynumber: 2.9 Consensus size: 160
668517 GAAACATCCA
* * ** ** * *
668527 CGAAGAAAATGAACGTAAACTGCAAATATTTGGAATTTTTCTAAGTCCAAGGGGCATAA---ATC
1 CGAAGAAAATGAGCGGAAACTGCAAATAACTCAAATTTTTCTAAGTCCAAGGGCCATAACCTGTC
* * ** * * * *
668589 GGAAATTGCTCTATCACACCCAAAATCAAACTTGACCTAAATATTATTAAGATAAACCTGCATAC
66 GAAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGATATTATCAAGATAAACCTGTATAC
668654 CAAATTTCATATT-AATATGTGCACCCTCTG
131 CAAATTTCAT-TTCAATATGTGCACCCTCTG
668684 CGAAGAAAATGAGCGGAAACTGCAAATAACTCAAATTTTTCTAAGTCCAAGGGCCATAACGCTGT
1 CGAAGAAAATGAGCGGAAACTGCAAATAACTCAAATTTTTCTAAGTCCAAGGGCCATAAC-CTGT
*
668749 CGAAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGATATTATCACGATAAACCTGTATA
65 CGAAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGATATTATCAAGATAAACCTGTATA
*
668814 CCAAATTTCATTTCAATATGTTCACCCTCTG
130 CCAAATTTCATTTCAATATGTGCACCCTCTG
**
668845 CGAA-AAAATTGAGCGGAAACTGCAAATAACTCAAATTTTTCTAAGTCCAAACGCCATAACTCTG
1 CGAAGAAAA-TGAGCGGAAACTGCAAATAACTCAAATTTTTCTAAGTCCAAGGGCCATAAC-CTG
* * * * * *
668909 TCGAAAATTGCTCGATCGTATCCAATATCGAACTCGACCTAGATATAATCATGATAAAGCTGTAT
64 TCGAAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGATATTATCAAGATAAACCTGTAT
*
668974 GCCAAATTTCATTTCAATA
129 ACCAAATTTCATTTCAATA
668993 AGTTAATCCT
Statistics
Matches: 275, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
157 52 0.19
160 6 0.02
161 217 0.79
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (160 bp):
CGAAGAAAATGAGCGGAAACTGCAAATAACTCAAATTTTTCTAAGTCCAAGGGCCATAACCTGTC
GAAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGATATTATCAAGATAAACCTGTATAC
CAAATTTCATTTCAATATGTGCACCCTCTG
Found at i:678343 original size:15 final size:15
Alignment explanation
Indices: 678323--678352 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
678313 ATTTCTTACC
678323 GGTTTGCCCATTCAA
1 GGTTTGCCCATTCAA
678338 GGTTTGCCCATTCAA
1 GGTTTGCCCATTCAA
678353 ACAGCTCGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (15 bp):
GGTTTGCCCATTCAA
Found at i:681932 original size:85 final size:85
Alignment explanation
Indices: 681789--682045 Score: 514
Period size: 85 Copynumber: 3.0 Consensus size: 85
681779 ATTGTTTTTA
681789 AATTATGTGTAAGAGATTTTACGAGTGTCTTGGCGCCTAATTGAAGGGGCCAGCCCCTCTTTCTT
1 AATTATGTGTAAGAGATTTTACGAGTGTCTTGGCGCCTAATTGAAGGGGCCAGCCCCTCTTTCTT
681854 GAGTGCATTCAAACAGTCTC
66 GAGTGCATTCAAACAGTCTC
681874 AATTATGTGTAAGAGATTTTACGAGTGTCTTGGCGCCTAATTGAAGGGGCCAGCCCCTCTTTCTT
1 AATTATGTGTAAGAGATTTTACGAGTGTCTTGGCGCCTAATTGAAGGGGCCAGCCCCTCTTTCTT
681939 GAGTGCATTCAAACAGTCTC
66 GAGTGCATTCAAACAGTCTC
681959 AATTATGTGTAAGAGATTTTACGAGTGTCTTGGCGCCTAATTGAAGGGGCCAGCCCCTCTTTCTT
1 AATTATGTGTAAGAGATTTTACGAGTGTCTTGGCGCCTAATTGAAGGGGCCAGCCCCTCTTTCTT
682024 GAGTGCATTCAAACAGTCTC
66 GAGTGCATTCAAACAGTCTC
682044 AA
1 AA
682046 GAATGCTAAC
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 172 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (85 bp):
AATTATGTGTAAGAGATTTTACGAGTGTCTTGGCGCCTAATTGAAGGGGCCAGCCCCTCTTTCTT
GAGTGCATTCAAACAGTCTC
Found at i:685070 original size:59 final size:59
Alignment explanation
Indices: 684948--685106 Score: 227
Period size: 59 Copynumber: 2.7 Consensus size: 59
684938 ATAAACAGTG
* *
684948 CGAAAACAATAAGGTCTTCCGCTGGAAAC-GAAAGACC-T--TAATAATAAGAAATCGTA
1 CGAAAACTATAAGGTCTTCCGTTGGAAACGGAAA-ACCTTAATAATAATAAGAAATCGTA
*
685004 CGAAAACTATAAGGTCTTCCGTTGGATACGGAAAACCTTAATAATAATAAGAAATCGTA
1 CGAAAACTATAAGGTCTTCCGTTGGAAACGGAAAACCTTAATAATAATAAGAAATCGTA
* * *
685063 CGAAAACTATAAGCTCTTCTGTTGGAAACGGAAGACCTTAATAA
1 CGAAAACTATAAGGTCTTCCGTTGGAAACGGAAAACCTTAATAA
685107 AGAATTGAAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 29 0.32
57 5 0.05
59 58 0.63
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (59 bp):
CGAAAACTATAAGGTCTTCCGTTGGAAACGGAAAACCTTAATAATAATAAGAAATCGTA
Found at i:698964 original size:2 final size:2
Alignment explanation
Indices: 698957--698993 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
698947 TATTTTGTTA
698957 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
698994 AAAGGACTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:721552 original size:2 final size:2
Alignment explanation
Indices: 721545--721574 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
721535 ACAATATTTC
721545 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
721575 TTGTTTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:730483 original size:165 final size:166
Alignment explanation
Indices: 729399--730574 Score: 1647
Period size: 166 Copynumber: 7.1 Consensus size: 166
729389 TTTGACCCCC
* * * *
729399 CCCCCCATTGTGGCCCCACCCCACCCCTGGGGATCATTATTTTCACAACTTTGAATCTACACTAC
1 CCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
* * *
729464 CTGAGAATGCTTTCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATTTTTA
66 CTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGATTTTTA
* *
729529 AAGATTTATTCTGT-T-TATTCCTATGTAAAACATCGA
131 AAGATTTA--CTGTATATATTCCTATGTTAAACTTCGA
* * * * * *
729565 CCTCCCATTGTGGCCCAAACCTACCCCCAGGGGTC---ATTTTCACAAATTTGAATCTCCACTAC
1 CCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
** *
729627 CTGAGGATGCTTCCACACAAGTTTCAATTTTCCTGG-C---TGGTTTCTGAGAAGAAGATTTTTA
66 CTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGATTTTTA
* * * * *
729688 AAGATTTACTCTTTATAATCATATGTTAAACTTTGA
131 AAGATTTACTGTATATATTCCTATGTTAAACTTCGA
* ** * * *
729724 CCCCCCATTGTGGCCCCAACCTACCCCTAGGGGTTATTATTTTCACAACTTTGAATCTACACTTC
1 CCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
* * * *
729789 CTGAGGATGCTTCCACAAAAGTTCCAGCTTTGCC-GGCGGATTAGTTTTTGAGAAGAAGATTTTT
66 CTGAGGATGCTTCCACACAAGTTTCAGCTTT-CCTGGCCGATTAGTTTCTGAGAAGAAGATTTTT
729853 AAAGATTTACTGTATATATTCCTATGTTAAACTTCGA
130 AAAGATTTACTGTATATATTCCTATGTTAAACTTCGA
* *
729890 TCCCCCATTGTGGCCCCACCCTACCCCCGGGGGCCATGATTTTCACAACTTTGAATCTACACTAC
1 CCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
* * *
729955 CTGAAGATGCTTCCACACAAGTGTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATTTTTA
66 CTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGATTTTTA
* *
730020 AAGATTTACTGTATATATTCCTATGTAAAACTTTGA
131 AAGATTTACTGTATATATTCCTATGTTAAACTTCGA
* *
730056 TCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACACTAC
1 CCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
* * * *
730121 CTGAGGATGCTTCCACAAAAGTTCCAGCTTTGCC-GGCGGATTAGTTTTTGAGAAGAAGATTTTT
66 CTGAGGATGCTTCCACACAAGTTTCAGCTTT-CCTGGCCGATTAGTTTCTGAGAAGAAGATTTTT
730185 AAAGATTTACTGTATATATTCCTATGTTAAACTTCGA
130 AAAGATTTACTGTATATATTCCTATGTTAAACTTCGA
* *
730222 TCCCCCATTGTGGCCCCACCCTATCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
1 CCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
* * *
730287 CTGAGAATGCTTCTACACAAGTCTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGATTTTTA
66 CTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGATTTTTA
* * * *
730352 AAGATTTACTTTTTATATTCATATGTTAAACGTCGA
131 AAGATTTACTGTATATATTCCTATGTTAAACTTCGA
* * * *
730388 CCCCCCATTGT-GTCCCACCATATCCCTGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
1 CCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
*
730452 CTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCCGATTAGTTTCTGAGGAGAAGATTTTTA
66 CTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGATTTTTA
* * * * *
730517 AATATTTACTCTATATATTCATTTGTTAAACTTCAA
131 AAGATTTACTGTATATATTCCTATGTTAAACTTCGA
730553 CCCCCCATTGTGGCCCCACCCT
1 CCCCCCATTGTGGCCCCACCCT
730575 CAGGTGAGCT
Statistics
Matches: 901, Mismatches: 95, Indels: 28
0.88 0.09 0.03
Matches are distributed among these distances:
157 3 0.00
158 1 0.00
159 78 0.09
162 53 0.06
163 59 0.07
165 156 0.17
166 549 0.61
167 2 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (166 bp):
CCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTAC
CTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGATTTTTA
AAGATTTACTGTATATATTCCTATGTTAAACTTCGA
Found at i:732006 original size:12 final size:12
Alignment explanation
Indices: 731989--732016 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
731979 AAAGTTTACA
731989 GACGGACAGACG
1 GACGGACAGACG
732001 GACGGACAGACG
1 GACGGACAGACG
732013 GACG
1 GACG
732017 ACGGACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.25, G:0.43, T:0.00
Consensus pattern (12 bp):
GACGGACAGACG
Found at i:737473 original size:13 final size:13
Alignment explanation
Indices: 737455--737479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
737445 TTTTTTTTTA
737455 GAGAGAGAGAGAG
1 GAGAGAGAGAGAG
737468 GAGAGAGAGAGA
1 GAGAGAGAGAGA
737480 TATTTTAGTT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (13 bp):
GAGAGAGAGAGAG
Found at i:739735 original size:69 final size:66
Alignment explanation
Indices: 739654--739860 Score: 229
Period size: 69 Copynumber: 3.1 Consensus size: 66
739644 CAAAGAAAAA
***
739654 AAAATAATTAATAGGAGAAAAGAAACAAAGCAATAACAATAAGGTCTTTCGTTGGAAACGGAAGA
1 AAAATAA-TAATA-GAGAAAAGAAACAAAGCAATAACAATAAGGTCCACCGTT-GAAACGGAAGA
739719 CCTT
63 CCTT
* * ** *
739723 AAAATTAATAATAGAGGTAAAGAAACAAAGCAATAACAATAAGGTCCCCCGTTGTTATGGAAGAC
1 AAAA-TAATAATAGA-GAAAAGAAACAAAGCAATAACAATAAGGTCCACCGTTGAAACGGAAGAC
739788 CTT
64 CTT
* * * *
739791 --AATAATTATAGAGAAAAAGAAAAAAAAGCAATAACAATAAGGTCGACCGTTGAAACGGACGAC
1 AAAATAATAATAGAG-AAAAG-AAACAAAGCAATAACAATAAGGTCCACCGTTGAAACGGAAGAC
739854 CTT
64 CTT
739857 AAAA
1 AAAA
739861 ATATGATTTC
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
64 1 0.01
65 13 0.11
66 41 0.35
68 16 0.14
69 42 0.36
70 3 0.03
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (66 bp):
AAAATAATAATAGAGAAAAGAAACAAAGCAATAACAATAAGGTCCACCGTTGAAACGGAAGACCT
T
Found at i:739841 original size:66 final size:66
Alignment explanation
Indices: 739655--739859 Score: 225
Period size: 66 Copynumber: 3.0 Consensus size: 66
739645 AAAGAAAAAA
***
739655 AAATAATTAATAG-GAGAAAAGAAACAAAGCAATAACAATAAGGTCTTTCGTTGGAAACGGAAGA
1 AAATAATT-ATAGAGA-AAAAGAAACAAAGCAATAACAATAAGGTCCACCGTT-GAAACGGAAGA
739719 CCTT
63 CCTT
* ** * ** *
739723 AAAATTAATAATAGAGGTAAAGAAACAAAGCAATAACAATAAGGTCCCCCGTTGTTATGGAAGAC
1 -AAA-TAATTATAGAGAAAAAGAAACAAAGCAATAACAATAAGGTCCACCGTTGAAACGGAAGAC
739788 CTT
64 CTT
* * *
739791 -AATAATTATAGAGAAAAAGAAAAAAAAGCAATAACAATAAGGTCGACCGTTGAAACGGACGACC
1 AAATAATTATAGAGAAAAAG-AAACAAAGCAATAACAATAAGGTCCACCGTTGAAACGGAAGACC
739855 TT
65 TT
739857 AAA
1 AAA
739860 AATATGATTT
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
65 14 0.12
66 41 0.36
67 2 0.02
68 12 0.11
69 39 0.35
70 5 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (66 bp):
AAATAATTATAGAGAAAAAGAAACAAAGCAATAACAATAAGGTCCACCGTTGAAACGGAAGACCT
T
Found at i:740290 original size:12 final size:12
Alignment explanation
Indices: 740275--740301 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
740265 CTGCTGTCTT
740275 TTGTGCTGATAA
1 TTGTGCTGATAA
740287 TTGTGCTGATAA
1 TTGTGCTGATAA
740299 TTG
1 TTG
740302 AGACCTAAGC
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:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (12 bp):
TTGTGCTGATAA
Found at i:744497 original size:12 final size:12
Alignment explanation
Indices: 744480--744506 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
744470 ACGGAAGAGT
744480 GACAGACGGACG
1 GACAGACGGACG
744492 GACAGACGGACG
1 GACAGACGGACG
744504 GAC
1 GAC
744507 GGACATAGTG
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:0.33, C:0.26, G:0.41, T:0.00
Consensus pattern (12 bp):
GACAGACGGACG
Found at i:748195 original size:136 final size:138
Alignment explanation
Indices: 747950--748248 Score: 460
Period size: 136 Copynumber: 2.2 Consensus size: 138
747940 AAATAAATGA
* * * * * * *
747950 AAAATATCAATAAATTGAGGGAGCCTAGATTGGCATCCTTACATTAAAGTTGAGGGAGTCGAAAT
1 AAAATTTCAATAAA-TGAGGGAGCCTAGACTGACATCCCTAAATAAAAATTGAGGGAGTCGAAAT
*
748015 CAGATATCCCCATCAAACAAGGGGGGAGCCAGACATTCAAACTAAATGCCTTGTAAATGGGCATC
65 CAGACATCCCCATCAAACAAGGGGGGAGCCAGACATTCAAACTAAATGCCTTGTAAATGGGCATC
748080 CCC-AAA-T
130 CCCAAAATT
* *
748087 AAAATTTCAATAAATGAGGGAGCCTAGGCTGACATCCCTAAATAAAAATTGAGGGAGTCTAAATC
1 AAAATTTCAATAAATGAGGGAGCCTAGACTGACATCCCTAAATAAAAATTGAGGGAGTCGAAATC
748152 AGACATCCCCATCAAACAAGGGGGGAGCCAGACATTCAAACTAAATGCCTTGTAAATGGGCATCC
66 AGACATCCCCATCAAACAAGGGGGGAGCCAGACATTCAAACTAAATGCCTTGTAAATGGGCATCC
748217 CCAAAATT
131 CCAAAATT
* *
748225 AGAA-TTCAAAAAATGAGGGAGCCT
1 AAAATTTCAATAAATGAGGGAGCCT
748249 TAAAATTGGG
Statistics
Matches: 148, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
136 109 0.74
137 35 0.24
138 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (138 bp):
AAAATTTCAATAAATGAGGGAGCCTAGACTGACATCCCTAAATAAAAATTGAGGGAGTCGAAATC
AGACATCCCCATCAAACAAGGGGGGAGCCAGACATTCAAACTAAATGCCTTGTAAATGGGCATCC
CCAAAATT
Found at i:751145 original size:4 final size:4
Alignment explanation
Indices: 751123--751172 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
751113 ATCACATTTT
* * *
751123 GTCC GT-C GTCC GTCT GTCC GTCC GTCT GTCC GTCC GTCC GTCT GTCC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC
751170 GTC
1 GTC
751173 TGTAAACTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.00, C:0.42, G:0.26, T:0.32
Consensus pattern (4 bp):
GTCC
Found at i:751146 original size:12 final size:12
Alignment explanation
Indices: 751129--751175 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
751119 TTTTGTCCGT
751129 CGTCCGTCTGTC
1 CGTCCGTCTGTC
751141 CGTCCGTCTGTC
1 CGTCCGTCTGTC
*
751153 CGTCCGTCCGTC
1 CGTCCGTCTGTC
*
751165 TGTCCGTCTGT
1 CGTCCGTCTGT
751176 AAACTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.00, C:0.40, G:0.26, T:0.34
Consensus pattern (12 bp):
CGTCCGTCTGTC
Found at i:755857 original size:18 final size:18
Alignment explanation
Indices: 755818--755862 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
755808 TTAGGTTTGC
* * *
755818 GGGGATGTTATCCATTGT
1 GGGGATGTTAACCATCGA
755836 GGGGATGTTAACCATCGA
1 GGGGATGTTAACCATCGA
*
755854 GGGGGTGTT
1 GGGGATGTT
755863 GCCTGCTGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.11, G:0.40, T:0.31
Consensus pattern (18 bp):
GGGGATGTTAACCATCGA
Found at i:756777 original size:4 final size:4
Alignment explanation
Indices: 756768--756802 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
756758 GAATCACCTT
* *
756768 GTCC GTCC GTCC GTCT GTCC GTCC GTCT GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
756803 TGTCTGTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.43, G:0.26, T:0.31
Consensus pattern (4 bp):
GTCC
Found at i:756789 original size:12 final size:12
Alignment explanation
Indices: 756772--756809 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
756762 CACCTTGTCC
756772 GTCCGTCCGTCT
1 GTCCGTCCGTCT
756784 GTCCGTCCGTCT
1 GTCCGTCCGTCT
*
756796 GTCCGTCTGTCT
1 GTCCGTCCGTCT
756808 GT
1 GT
756810 TCAATTCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.37, G:0.26, T:0.37
Consensus pattern (12 bp):
GTCCGTCCGTCT
Found at i:757081 original size:146 final size:146
Alignment explanation
Indices: 756812--757503 Score: 1079
Period size: 146 Copynumber: 4.7 Consensus size: 146
756802 CTGTCTGTTC
*
756812 AATTCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAATAT
1 AATTCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGAT
756877 TGCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAAGTCAAGGTCACT
66 TGCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAAGTCAAGGTCACT
756942 GGCAGAAAAAGTTCAA
131 GGCAGAAAAAGTTCAA
* * *
756958 AATTTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACTCAAATAT
1 AATTCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGAT
* * *
757023 TGCTTATGACCTAAGGGTGTGTCGTGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACT
66 TGCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAAGTCAAGGTCACT
757088 GGCAGAAAAAGTTCAA
131 GGCAGAAAAAGTTCAA
757104 AATTCGTGTCCGGTCCATATCTTT-TTAATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGA
1 AATTCGTGTCCGGTCCATATCTTTCTT-ATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGA
*
757168 -TGACTTATGACCTAAGGGTGTGTCATGACCATGACCCAAGGTCATTTGGGCAAAGTCAAGGTCA
65 TTG-CTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAAGTCAAGGTCA
* **
757232 CTGGAAGAAAAAAATCAA
129 CTGGCAGAAAAAGTTCAA
* *
757250 AATTCGGGTTCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGAT
1 AATTCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGAT
* * * *
757315 TGCTTATGACCTAAGGGTGTGTCATGCCCTTGATCCAAGGTCATTTGGGCAAGGCCAAGGTCACT
66 TGCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAAGTCAAGGTCACT
*
757380 GGCAGAAAAAGTACAA
131 GGCAGAAAAAGTTCAA
* * * * * *
757396 AATTCATGTCCAGTCCATATCTTT-TTAATGGACAAATATTGGAAGTTCTTAATTCACACCAAGA
1 AATTCGTGTCCGGTCCATATCTTTCTT-ATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGA
*
757460 TTGCTTAT-AGTCTGAA-GGTGTGTCATGACCTTGACCCAAGGTCA
65 TTGCTTATGA-CCT-AAGGGTGTGTCATGACCTTGACCCAAGGTCA
757504 ATTGAGGAAG
Statistics
Matches: 502, Mismatches: 37, Indels: 14
0.91 0.07 0.03
Matches are distributed among these distances:
145 7 0.01
146 489 0.97
147 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (146 bp):
AATTCGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGAT
TGCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAAGTCAAGGTCACT
GGCAGAAAAAGTTCAA
Found at i:762904 original size:63 final size:63
Alignment explanation
Indices: 762800--762927 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
762790 TGTTTAATTG
762800 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTGTACTAATTCTGTTGGAAATTCTTCATTATTA
1 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTGTACTAATTCTGTTGGAAATTCTTCATTATTA
*
762863 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTGTACTGATTCTGTTGGAAATTCTTCATTATTA
1 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTGTACTAATTCTGTTGGAAATTCTTCATTATTA
762926 TT
1 TT
762928 TTTCTTCTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (63 bp):
TTAAGGTCTTCCGTTTCCAACGGAAGACCTTGTACTAATTCTGTTGGAAATTCTTCATTATTA
Found at i:789004 original size:17 final size:17
Alignment explanation
Indices: 788982--789016 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
788972 GCATTGGATA
*
788982 AGTTATCAGAAGTTATC
1 AGTTATCAGAAGATATC
788999 AGTTATCAGAAGATATC
1 AGTTATCAGAAGATATC
789016 A
1 A
789017 ACGGGAAGTA
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:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (17 bp):
AGTTATCAGAAGATATC
Found at i:798423 original size:436 final size:437
Alignment explanation
Indices: 797714--798728 Score: 1500
Period size: 436 Copynumber: 2.3 Consensus size: 437
797704 TTTTACAAAC
* * * * * *
797714 AGATATTGCTGCGATCAACAACTTTGTTTTTATAATGCATTACAAAATCTTGATCATTTTTAACG
1 AGATATTGGTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTTATCGTTTTTAA-G
** * * **** *
797779 -TATGAGTAATAGAGTTTAGGAGT-CTATTGGCCCCTAATTTTAGAGGCCAGCCCCTTTTTCTTG
65 TTATCTGTAATAGAGTTTACGAGTGC-CTTGGCCCCTAAAAAAAGGGGCCAGCCCCTTTTTCTTG
* * * * **
797842 ATTT-TAT-ACGAAAGGTCTCATGAATACTAACATTTTTGGTTCTTACATTCATCTAAAATTGAT
129 ATTTCTTTGA--AAAGGGCTCAAGAATACAAACATTTTTGGTTCTTACACCCATCTAAAATTGAT
* *
797905 GATTACTTTTGAGATACAATTGATTGAATATTTTAGGGGCCAGCCCTCTAGATCCTTAATGGGGA
192 GATCACTTTTGAGATACAAATGATTGAATATTTTAGGGGCCAGCCCTCTAGATCCTTAATGGGGA
* * *
797970 CAGAAATTCGTGTTTTGATAAGTAGAATCAATTTAAATCATTTAATCAAACATTTTCTCTTCTTT
257 CAGAAATTCGCGTTTTGATAAGTAGAATCAACTTAAATCATTTAATCAAACATTTTCTCTTCTAT
* *
798035 GATGTCTAACAAAATATGTATACTTCTCTAGTTATTTTTGGTCAAAGTTTTAGTACTTTGGCACC
322 GATGTCTAACAAAATATGTATACTTCTCTAGTTATTTTTCGTCAAAGTTTAAGTACTTTGGCACC
* *
798100 TAAAAATCCCTAATTATG-AATGAATGGGCGTGGCAATAATTTTTTCGAAT
387 TAAAAATCCCTAATTACGTAATAAATGGGCGTGGCAATAATTTTTTCGAAT
798150 AGATATTGGTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTTATCGTTTTTAAGT
1 AGATATTGGTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTTATCGTTTTTAAGT
* * * *
798215 TTTTTGTAATAGAGTTAACGAGTGCCTTGGTCCCTAAAAAAAGGGGCCAGCCCCTTTTTCTTGAT
66 TATCTGTAATAGAGTTTACGAGTGCCTTGGCCCCTAAAAAAAGGGGCCAGCCCCTTTTTCTTGAT
* * * *
798280 TTCTTTGAAAAGGGCTTAAGAATACAAACATTTTTTGTTCTTACACCCATGTAAAATTGTTGATC
131 TTCTTTGAAAAGGGCTCAAGAATACAAACATTTTTGGTTCTTACACCCATCTAAAATTGATGATC
*
798345 ATTTTTGAGATACAAATGATTGAATATTTTAGGGGCCAGCCCTCTAGATCCTTAATGGGGACAGA
196 ACTTTTGAGATACAAATGATTGAATATTTTAGGGGCCAGCCCTCTAGATCCTTAATGGGGACAGA
* * * *
798410 AATTCGCGTTTTGATCAGTGGAATTAACTTAAATCATTTATTCAAACATTTTCTCTTCTATGATG
261 AATTCGCGTTTTGATAAGTAGAATCAACTTAAATCATTTAATCAAACATTTTCTCTTCTATGATG
* *
798475 TTTAACAAAATATGTATACTTCTCTAGTTATTTTTCGTCAAAGTTTAAGTACTTTGGCCCCTAAA
326 TCTAACAAAATATGTATACTTCTCTAGTTATTTTTCGTCAAAGTTTAAGTACTTTGGCACCTAAA
* **
798540 ATTCCCTAATTACGTAATAAATGGGCGTGGCAATGCTTTTTTCGAAT
391 AATCCCTAATTACGTAATAAATGGGCGTGGCAATAATTTTTTCGAAT
798587 AGATATTGGTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTTATCGTTTTTAAGT
1 AGATATTGGTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTTATCGTTTTTAAGT
*
798652 TATCTGTAATAGAGTTTACGAGTGCCTTGGCCCCTAAAAAAAGGGGCCAGCCCCTTTTTCTTAAT
66 TATCTGTAATAGAGTTTACGAGTGCCTTGGCCCCTAAAAAAAGGGGCCAGCCCCTTTTTCTTGAT
* *
798717 TTCGTTGGAAAG
131 TTCTTTGAAAAG
798729 AACTTATGAT
Statistics
Matches: 520, Mismatches: 54, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
435 1 0.00
436 351 0.68
437 167 0.32
438 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (437 bp):
AGATATTGGTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTTATCGTTTTTAAGT
TATCTGTAATAGAGTTTACGAGTGCCTTGGCCCCTAAAAAAAGGGGCCAGCCCCTTTTTCTTGAT
TTCTTTGAAAAGGGCTCAAGAATACAAACATTTTTGGTTCTTACACCCATCTAAAATTGATGATC
ACTTTTGAGATACAAATGATTGAATATTTTAGGGGCCAGCCCTCTAGATCCTTAATGGGGACAGA
AATTCGCGTTTTGATAAGTAGAATCAACTTAAATCATTTAATCAAACATTTTCTCTTCTATGATG
TCTAACAAAATATGTATACTTCTCTAGTTATTTTTCGTCAAAGTTTAAGTACTTTGGCACCTAAA
AATCCCTAATTACGTAATAAATGGGCGTGGCAATAATTTTTTCGAAT
Found at i:799990 original size:56 final size:56
Alignment explanation
Indices: 799905--800021 Score: 216
Period size: 56 Copynumber: 2.1 Consensus size: 56
799895 TGGAAAAAAA
*
799905 AATAATAATAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT
1 AATAATAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT
*
799961 AATAATAAGAAACAGTACGAAAACTATAAGGTCTTCCGTTGGAAACGGAAGACCTT
1 AATAATAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT
800017 AATAA
1 AATAA
800022 ACACGTCAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (56 bp):
AATAATAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT
Found at i:802198 original size:45 final size:42
Alignment explanation
Indices: 802124--802211 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 42
802114 CAGTATTCTG
** *
802124 AAGAAGAAGAAGATATTAACATTTAATAATTACATTAAATAAT
1 AAGAAGAAGAAGATATTAACAACTAATAATAACATTAAA-AAT
* *
802167 AAGAAGAAGGAGATACATTAACAACTAATAATAACGTTAAAAAT
1 AAGAAGAAGAAGAT--ATTAACAACTAATAATAACATTAAAAAT
802211 A
1 A
802212 TAAAACTAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
43 13 0.34
44 4 0.11
45 21 0.55
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (42 bp):
AAGAAGAAGAAGATATTAACAACTAATAATAACATTAAAAAT
Found at i:821898 original size:384 final size:384
Alignment explanation
Indices: 821172--821906 Score: 949
Period size: 384 Copynumber: 1.9 Consensus size: 384
821162 ATTTGAGAAA
* * * * * * * *
821172 CAAAAATGTTCATTGTACAGCTGTTTATCTACACTGTACCCTAATTTAAACATTTGTTACGTAAT
1 CAAAAATATTCATTGTACAGCTGTTCATCTACACAGGACCATAATCTAAACATATGTTACATAAT
*
821237 TAGGGGTTTCAAGGGAACAGGAGACCAAAACTTTGATCATTAATATCTTGAAAAGGAGAAATATT
66 TAGGGGTTTCAAGGGAACAGAAGACCAAAACTTTGATCATTAATATCTTGAAAAGGAGAAATATT
* * * * * * * *
821302 TTTAAAAGCAATGTTGAACAAAATTTGCTTAAAATAATGTTCTTTAGAACTTGGTACCTTAAAAG
131 TTGAAAAGCAATGTAGAACAAAAGTTGCTCAAAATAATGTTCTTAACAACTTGATACCTAAAAAG
* * *
821367 TTATGGTTTATGGCCCCAGTAAGAAGTTTAAGGGTCGGTCCCTAAAACACTGTTGTTCAGATATC
196 TTATCGTTGATGGCCCCAGTAAGAAGTTGAAGGGTCGGTCCCTAAAACACTGTTGTTCAGATATC
* * * * * *
821432 TCCAAATCGGTCAACAATTTCTGGACACTTATTAAACAAAATATGTTTATAATTATAAGATCTTT
261 TCCAAATCGGTAAACAACTTCTGAACACTTATTAAACAAAATATATTTATAATTACAAGACCTTT
* *
821497 TATTTAATATTAAGAAAAAGGGGCTGGTCCCTCAAATTAGAGGCCAAGAGCGCTCTAAG
326 CATTTAATATCAAGAAAAAGGGGCTGGTCCCTCAAATTAGAGGCCAAGAGCGCTCTAAG
*
821556 CAAAAATATTCATTGTACAGCTGTTCATCTATACAGGACCAT-A-CTAAAGTCATATGTTACATA
1 CAAAAATATTCATTGTACAGCTGTTCATCTACACAGGACCATAATCTAAA--CATATGTTACATA
** * * *
821619 ATTAGGGGTTTCAAGGGGCCATAAGTCCAAAACTTTGATCATTATTATCTTGAAAAGGAGAAATA
64 ATTAGGGGTTTCAAGGGAACAGAAGACCAAAACTTTGATCATTAATATCTTGAAAAGGAGAAATA
* * *
821684 TTTTGAAAAGCATTGTAGAACAAACGTTGCTCAAAATAATGTTCTTAACAATTTGATACCTAAAA
129 TTTTGAAAAGCAATGTAGAACAAAAGTTGCTCAAAATAATGTTCTTAACAACTTGATACCTAAAA
* * *
821749 ATTTTTCGTTGATGGCCCCAGTAAGGAGTTGAAGGGTCGGTCCCTAAAACA-TAGTTGTTCCA-A
194 AGTTATCGTTGATGGCCCCAGTAAGAAGTTGAAGGGTCGGTCCCTAAAACACT-GTTGTT-CAGA
* * * * * * * *
821812 TATCT-CTAGTACGGTAAACAACTTGTGAACACTTGTTGAACAAAATATATTTATATTTGCGAGA
257 TATCTCCAAAT-CGGTAAACAACTTCTGAACACTTATTAAACAAAATATATTTATAATTACAAGA
*
821876 CCTTTCATTTGATATCAAGAAAAAGGGGCTG
321 CCTTTCATTTAATATCAAGAAAAAGGGGCTG
821907 AACCCTTACA
Statistics
Matches: 297, Mismatches: 49, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
382 4 0.01
383 5 0.02
384 286 0.96
385 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (384 bp):
CAAAAATATTCATTGTACAGCTGTTCATCTACACAGGACCATAATCTAAACATATGTTACATAAT
TAGGGGTTTCAAGGGAACAGAAGACCAAAACTTTGATCATTAATATCTTGAAAAGGAGAAATATT
TTGAAAAGCAATGTAGAACAAAAGTTGCTCAAAATAATGTTCTTAACAACTTGATACCTAAAAAG
TTATCGTTGATGGCCCCAGTAAGAAGTTGAAGGGTCGGTCCCTAAAACACTGTTGTTCAGATATC
TCCAAATCGGTAAACAACTTCTGAACACTTATTAAACAAAATATATTTATAATTACAAGACCTTT
CATTTAATATCAAGAAAAAGGGGCTGGTCCCTCAAATTAGAGGCCAAGAGCGCTCTAAG
Found at i:823032 original size:1 final size:1
Alignment explanation
Indices: 823026--823062 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
823016 CTCATTGCTG
* *
823026 CCCCCCCCCCCCCCCCTCCCCCCCCCCCCCCCGCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
823063 GCTGACAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.95, G:0.03, T:0.03
Consensus pattern (1 bp):
C
Found at i:823062 original size:15 final size:16
Alignment explanation
Indices: 823027--823062 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
823017 TCATTGCTGC
823027 CCCCCCCCCCCCCCCT
1 CCCCCCCCCCCCCCCT
*
823043 CCCCCCCCCCCCCCCG
1 CCCCCCCCCCCCCCCT
823059 CCCC
1 CCCC
823063 GCTGACAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.94, G:0.03, T:0.03
Consensus pattern (16 bp):
CCCCCCCCCCCCCCCT
Found at i:824757 original size:437 final size:436
Alignment explanation
Indices: 823837--824775 Score: 1071
Period size: 437 Copynumber: 2.1 Consensus size: 436
823827 AGTTATAATG
** * *
823837 AAAAGACTTTGTAGCCCTTTTTGGCCCCTAATTTGAGGGGT-CAGTCCTTTTTTCTTGATATCAA
1 AAAAGACTTTAAAGCCC-TCTTGGCCCCTAATTTGA-GGGTCCAG-CCCTTTTTCTTGATATCAA
* ** * *
823901 ATGAAAGGTATCGTAAATATTAACATATTTTGTTTAACAAGTATTCACGAATTATTAACCGTTCT
63 ATAAAAGGTATCGTAAATAACAACACATTTTGTTTAACAAGTATTCACGAATTATTAACCGCTCT
* * * *
823966 AGAGATATCCGAACAACTGTGTTTTAGGGGCCGACCCTTAAACTCCTTACCAGGCCCTCCAACAA
128 AAAGATATCCGAACAAATGTGTTTTAGGGGCCGACCCTTAAAATCCTTACCAGGCCCACCAACAA
* * * * *
824031 AAAAATAATAGATCCCATATCGTTAAGAACATTATTTTGAGCAACTTTTCTTCTTCAATGCTTTT
193 AAAAATAATAGATCCCATATCATTAAGAACATAATTCTAAGCAACTTTTCTTCTTCAATGCTTAT
* * * * *
824096 CAAAATATTTCTCCTTTTCTAGATATTTATAATCAAAGTTTTGGAAATCTGGCCCTTTGAAACCC
258 CAAAATATTTCTCCTATTCTAGATATTTAAAATCAAAGTTTGGGAAATCTGGCCCCTTCAAACCC
** * *
824161 CTAATTACGTAACATATGACTTACATATGGTACCGAATAGATAAACAACCGTACAATAAACATTT
323 CTAATTACGTAACATATGACTTACATATACTACCGAATACATAAACAACCGTAAAATAAACATTT
**
824226 TTCATTCTATAATTGATAACAAATTATTTTTCAGTAAAGAGTTATTATT
388 TTCATTCTATAATTGATAACAAATTATTTTTCAGTAAAGAGTTATTACA
** ** *
824275 AAAAGACTTTAAAGCCCTCTTGGCCCCTTCTTAAAGGGGCCAGCCCTTATTTCTTGATATCAAAT
1 AAAAGACTTTAAAGCCCTCTTGGCCCCTAATTTGAGGGTCCAGCCCTT-TTTCTTGATATCAAAT
* * * * * *
824340 AAAAGGTCTTGTAAATAACAACACATTTTGTTTATCAAGTGTTCA-GAAATTGTTGACCGCTCTA
65 AAAAGGTATCGTAAATAACAACACATTTTGTTTAACAAGTATTCACG-AATTATTAACCGCTCTA
* ** *
824404 AAGATATCTGAACAAATGTGTTTTAGGGGCCGACCCTTAAAATCCTTACTGGGGCCACCAAC-AA
129 AAGATATCCGAACAAATGTGTTTTAGGGGCCGACCCTTAAAATCCTTACCAGGCCCACCAACAAA
* * * ** * ** ** * *
824468 AAATTATTTAGGTGGCATATTATTTGGAACATAATTCTAAGCATTTTTTGTTCTAT-AATTCTTA
194 AAAATA-ATAGATCCCATATCATTAAGAACATAATTCTAAGCAACTTTTCTTCT-TCAATGCTTA
**
824532 TCAAAATATTTCTCCTATTCTAGATA-TTAAAGATCAAAGTTTGGGACTTCTGGCCCCTTCAAAC
257 TCAAAATATTTCTCCTATTCTAGATATTTAAA-ATCAAAGTTTGGGAAATCTGGCCCCTTCAAAC
** *** * * * * *
824596 CCCTAATTACGTAACATATGACTTAGGTATACTTTTGTATACATACACAGCTGTAAAATGAACAT
321 CCCTAATTACGTAACATATGACTTACATATACTACCGAATACATAAACAACCGTAAAATAAACAT
* *
824661 TTTTGC-TTCTATAATTGATAACAAATTATTTTTCAGTAAATAGTTATTGCA
386 TTTT-CATTCTATAATTGATAACAAATTATTTTTCAGTAAAGAGTTATTACA
* * * * *
824712 AAAATACTTTAGAGCCCTCTTGGCCCCTAATTTGAGAGTCCAGCCCCTTTTTCCTGAAATCAAA
1 AAAAGACTTTAAAGCCCTCTTGGCCCCTAATTTGAGGGTCCAG-CCCTTTTTCTTGATATCAAA
824776 CGAAAGTCCT
Statistics
Matches: 413, Mismatches: 80, Indels: 17
0.81 0.16 0.03
Matches are distributed among these distances:
436 19 0.05
437 372 0.90
438 22 0.05
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (436 bp):
AAAAGACTTTAAAGCCCTCTTGGCCCCTAATTTGAGGGTCCAGCCCTTTTTCTTGATATCAAATA
AAAGGTATCGTAAATAACAACACATTTTGTTTAACAAGTATTCACGAATTATTAACCGCTCTAAA
GATATCCGAACAAATGTGTTTTAGGGGCCGACCCTTAAAATCCTTACCAGGCCCACCAACAAAAA
AATAATAGATCCCATATCATTAAGAACATAATTCTAAGCAACTTTTCTTCTTCAATGCTTATCAA
AATATTTCTCCTATTCTAGATATTTAAAATCAAAGTTTGGGAAATCTGGCCCCTTCAAACCCCTA
ATTACGTAACATATGACTTACATATACTACCGAATACATAAACAACCGTAAAATAAACATTTTTC
ATTCTATAATTGATAACAAATTATTTTTCAGTAAAGAGTTATTACA
Found at i:825211 original size:12 final size:11
Alignment explanation
Indices: 825196--825231 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
825186 AAAAAGTCAG
825196 AAAAAAAAAAT
1 AAAAAAAAAAT
825207 AAAAAAAAAAT
1 AAAAAAAAAAT
**
825218 AAAATTAAAAT
1 AAAAAAAAAAT
825229 AAA
1 AAA
825232 CTAGAGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:826486 original size:436 final size:434
Alignment explanation
Indices: 825715--826644 Score: 1190
Period size: 436 Copynumber: 2.1 Consensus size: 434
825705 AAGCCCCTTC
* * **
825715 GTTGAGGGGCCAGCCCTTTTTTCTTTATATCAAATAAAAGGTCTCGCAAATATAAACATATTTTT
1 GTTGAGGGGCCAGCCCCTTTTTCTTTATATCAAATTAAAGGTCTCGCAAATATAAACATATTTAG
* * * * * *
825780 TTCAACATGTATTTACGAATTGTTAAACGTTTCCAGATATCTGAACAGCTGTGTTCTAGGGGTCG
66 TTCAACAAGTATTCACAAACTGTTAAACGTTTCCAGATATCTGAACAGATGTGTTCTAGGGGCCG
* * *** * * *
825845 ACCCTTTAACTCCTTATCGGGGCCACCAACAAATTTTTTTAATTGTCATATTGTTAAGAATATTA
131 ACCCTTAAAATCCTTATCGGGGCCACCAACAAATGAATTTAAGTGGCATATTGTTAAGAACATTA
* * * *
825910 TTCTTAACATTTTGTGTTTTACATTGCTTTTCAAAATATTTCTCCTTTTTCAGATATTAATGATC
196 TTCTTAACACTTTGTGTTCTACATTACTTTTCAAAATATTTCTCCTTTTTCAGATATAAATGATC
* *
825975 AAAGTTTTGAACTTCTGGCCCCTTGAAACCCCTAATTACGTAACATATGACTTAGCTATGGTACT
261 AAAGTTTTGAACTTCTGGCCCCTTGAAACCCCTAATTACGAAACATATGACTAAGCTATGGTACT
* * * * *
826040 GTAAAGATAAACAGCTGTACAGTGAACATTTTTGCTTTTATTATTAATAACAAATTTTTGTGCAG
326 GTAAAGATAAACAGCTGTACAATAAACATTTTTGCTTCTATGATTAATAACAAATTATTGTGCAG
* * *
826105 TAAAGAGTTATTGTAACAACATTTTAAATCCCTCTTGGCCCCTAA
391 TAAA-AGTTATTGTAACAACACTTTAAAGCCCTCTCGGCCCCTAA
* **
826150 GTTGAGGGACCAGCCCCTTTTTCTTGCTATCAAATTAAAGGTCTCGCAAATATAAACATATTTAG
1 GTTGAGGGGCCAGCCCCTTTTTCTTTATATCAAATTAAAGGTCTCGCAAATATAAACATATTTAG
* * * * ** *
826215 TTCACCAAGTGTTCACAAACTGTTAACCGTTCTCGAGATATCTGTATTA-ATGTGTTTTAGGGGC
66 TTCAACAAGTATTCACAAACTGTTAAACGTT-TCCAGATATCTG-AACAGATGTGTTCTAGGGGC
* *
826279 CGACCCTTAAAATCCTTAGT-GGGGCCATCATCAAA-GAATTTAAGGTGGCATATTG-TACAGAA
129 CGACCCTTAAAATCCTTA-TCGGGGCCACCAACAAATGAATTTAA-GTGGCATATTGTTA-AGAA
* *
826341 CATTATT-TTGAGCAACTTT-TGTTCTACATTACTTTTCAAAATGTTTCTCCTTTTTTC-GATAT
191 CATTATTCTT-AAC-ACTTTGTGTTCTACATTACTTTTCAAAATATTTCTCC-TTTTTCAGATAT
*
826403 AAATGATCAAAGTTTTGAACTTCTGGCCCCTTGAAACCCCTAATTACGAAATATATGACTAAGCT
253 AAATGATCAAAGTTTTGAACTTCTGGCCCCTTGAAACCCCTAATTACGAAACATATGACTAAGCT
* * *
826468 ATGGTACTGTATAGATAAACAGTTGTACAATAAACATTTTTGCTTCTATGATTGATAACAAATTA
318 ATGGTACTGTAAAGATAAACAGCTGTACAATAAACATTTTTGCTTCTATGATTAATAACAAATTA
* * * * *
826533 TTGTTCAGTAAATGTTATTGTAAGAATACTTTAGAGCCCTCTCGGCCCCTAA
383 TTGTGCAGTAAAAGTTATTGTAACAACACTTTAAAGCCCTCTCGGCCCCTAA
* * * *
826585 TTTGAGGGGCCAGCCCCTTTTTCCTTTATATTAAATTAAAGGTCTTGCAAAAATAAACAT
1 GTTGAGGGGCCAGCCCCTTTTT-CTTTATATCAAATTAAAGGTCTCGCAAATATAAACAT
826645 CTTTTGCATT
Statistics
Matches: 424, Mismatches: 62, Indels: 17
0.84 0.12 0.03
Matches are distributed among these distances:
435 144 0.34
436 267 0.63
437 13 0.03
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (434 bp):
GTTGAGGGGCCAGCCCCTTTTTCTTTATATCAAATTAAAGGTCTCGCAAATATAAACATATTTAG
TTCAACAAGTATTCACAAACTGTTAAACGTTTCCAGATATCTGAACAGATGTGTTCTAGGGGCCG
ACCCTTAAAATCCTTATCGGGGCCACCAACAAATGAATTTAAGTGGCATATTGTTAAGAACATTA
TTCTTAACACTTTGTGTTCTACATTACTTTTCAAAATATTTCTCCTTTTTCAGATATAAATGATC
AAAGTTTTGAACTTCTGGCCCCTTGAAACCCCTAATTACGAAACATATGACTAAGCTATGGTACT
GTAAAGATAAACAGCTGTACAATAAACATTTTTGCTTCTATGATTAATAACAAATTATTGTGCAG
TAAAAGTTATTGTAACAACACTTTAAAGCCCTCTCGGCCCCTAA
Found at i:829247 original size:43 final size:43
Alignment explanation
Indices: 829199--829283 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
829189 AACGACTGGA
829199 TCAGTACTGAAACATCGTATAAAAACGTTATATATACATGTAG
1 TCAGTACTGAAACATCGTATAAAAACGTTATATATACATGTAG
829242 TCAGTACTGAAACATCGTATAAAAACGTTATATATACATGTA
1 TCAGTACTGAAACATCGTATAAAAACGTTATATATACATGTA
829284 CTCTGTAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (43 bp):
TCAGTACTGAAACATCGTATAAAAACGTTATATATACATGTAG
Found at i:829559 original size:23 final size:24
Alignment explanation
Indices: 829522--829583 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 24
829512 ATGGTTCTCG
829522 CACGCTTTGAT-CGAAACGATT-TA
1 CACGCTTTG-TCCGAAACGATTCTA
*
829545 CACGCTTTGTCCG-AA--ATTCTG
1 CACGCTTTGTCCGAAACGATTCTA
829566 CACGCTTTGTCCGAAACG
1 CACGCTTTGTCCGAAACG
829584 CTAAACGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 3 0.09
21 14 0.42
22 5 0.15
23 11 0.33
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (24 bp):
CACGCTTTGTCCGAAACGATTCTA
Found at i:829601 original size:21 final size:21
Alignment explanation
Indices: 829577--829625 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
829567 ACGCTTTGTC
* *
829577 CGAAACGCTAAACGGTTTACA
1 CGAAACGCTAAACGATTCACA
**
829598 CGAAACGCTTCACGATTCACA
1 CGAAACGCTAAACGATTCACA
829619 CGAAACG
1 CGAAACG
829626 GTTAACACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.16
Consensus pattern (21 bp):
CGAAACGCTAAACGATTCACA
Found at i:832610 original size:11 final size:11
Alignment explanation
Indices: 832594--832634 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
832584 TAGGCAAGTC
832594 CTTAAAGGTGG
1 CTTAAAGGTGG
832605 CTTAAAGGTGG
1 CTTAAAGGTGG
*
832616 CGTAAAGGTGG
1 CTTAAAGGTGG
832627 CTTAAAGG
1 CTTAAAGG
832635 ATATACAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.37, T:0.24
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:832731 original size:11 final size:11
Alignment explanation
Indices: 832715--832753 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
832705 TTAAAGTCAC
832715 CTTTAAGCCAT
1 CTTTAAGCCAT
* *
832726 CTTTAAGCTAC
1 CTTTAAGCCAT
832737 CTTTAAG-CAT
1 CTTTAAGCCAT
832747 CTTTAAG
1 CTTTAAG
832754 TGGCATTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (11 bp):
CTTTAAGCCAT
Found at i:832749 original size:21 final size:22
Alignment explanation
Indices: 832713--832753 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
832703 TCTTAAAGTC
832713 ACCTTTAAGCCATCTTTAAGCT
1 ACCTTTAAGCCATCTTTAAGCT
832735 ACCTTTAAG-CATCTTTAAG
1 ACCTTTAAGCCATCTTTAAG
832754 TGGCATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (22 bp):
ACCTTTAAGCCATCTTTAAGCT
Found at i:833162 original size:2 final size:2
Alignment explanation
Indices: 833155--833182 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
833145 ATCGGTGAAA
833155 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
833183 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:834888 original size:11 final size:11
Alignment explanation
Indices: 834872--834914 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
834862 GATTTTTTAA
834872 TGGCTTAAAGG
1 TGGCTTAAAGG
834883 TGGCTTAAAGG
1 TGGCTTAAAGG
*
834894 TAGCTTAAAGG
1 TGGCTTAAAGG
834905 TGGCTTAAAG
1 TGGCTTAAAG
834915 AAGTTTGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.28
Consensus pattern (11 bp):
TGGCTTAAAGG
Done.