Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 170 of 171
Found at i:50410099 original size:34 final size:34
Alignment explanation
Indices: 50410061--50410129 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
50410051 CCAAAAGAAC
*
50410061 ATAAACATATCAATGTCGGACACATGCATATCTA
1 ATAAACATATCAATGTCGGACACATACATATCTA
*
50410095 ATAAACATATCAATGTCGGACACATACATTTCTA
1 ATAAACATATCAATGTCGGACACATACATATCTA
50410129 A
1 A
50410130 CAAGTCAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (34 bp):
ATAAACATATCAATGTCGGACACATACATATCTA
Found at i:50417607 original size:16 final size:17
Alignment explanation
Indices: 50417588--50417623 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
50417578 CGAATGAAAC
*
50417588 AAACAATA-AGTGAAGG
1 AAACAATAGAGGGAAGG
50417604 AAACAATAGAGGGAAGG
1 AAACAATAGAGGGAAGG
50417621 AAA
1 AAA
50417624 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.58, C:0.06, G:0.28, T:0.08
Consensus pattern (17 bp):
AAACAATAGAGGGAAGG
Found at i:50418317 original size:17 final size:17
Alignment explanation
Indices: 50418297--50418351 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
50418287 TTATCTCTTA
50418297 ATATAATGAACTCTATG
1 ATATAATGAACTCTATG
*
50418314 ATATAATTTG-ACTCT-TA
1 ATATAA--TGAACTCTATG
50418331 ATATAATGAACTCTATG
1 ATATAATGAACTCTATG
50418348 ATAT
1 ATAT
50418352 TTTTACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 2 0.06
16 5 0.16
17 18 0.56
18 5 0.16
19 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (17 bp):
ATATAATGAACTCTATG
Found at i:50418329 original size:34 final size:34
Alignment explanation
Indices: 50418283--50418351 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 34
50418273 ATATAACGAT
50418283 TAATTTATCTCTTAATATAATGAACTCTATGATA
1 TAATTTATCTCTTAATATAATGAACTCTATGATA
50418317 TAATTTGA-CTCTTAATATAATGAACTCTATGATA
1 TAATTT-ATCTCTTAATATAATGAACTCTATGATA
50418351 T
1 T
50418352 TTTTACAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (34 bp):
TAATTTATCTCTTAATATAATGAACTCTATGATA
Found at i:50427526 original size:56 final size:56
Alignment explanation
Indices: 50427440--50427549 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
50427430 ACAGGGACGC
*
50427440 CACATCATCTGGCATCCCTTTCCAATTATTCAACGACAATTCAATATATTTTTTGG
1 CACATCATCTAGCATCCCTTTCCAATTATTCAACGACAATTCAATATATTTTTTGG
*
50427496 CACATCATCTAGCATCCCTTTTCAATTATTCAACGACAATTCAATATATTTTTT
1 CACATCATCTAGCATCCCTTTCCAATTATTCAACGACAATTCAATATATTTTTT
50427550 TCAATTTCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (56 bp):
CACATCATCTAGCATCCCTTTCCAATTATTCAACGACAATTCAATATATTTTTTGG
Found at i:50427707 original size:19 final size:20
Alignment explanation
Indices: 50427666--50427704 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
50427656 AAAGTTCAAA
*
50427666 GTTTAGGGTTTAAGGTTTGG
1 GTTTAGGGTTTAAGATTTGG
50427686 GTTTA-GGTTTAA-ATTTGG
1 GTTTAGGGTTTAAGATTTGG
50427704 G
1 G
50427705 GTTCAAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (20 bp):
GTTTAGGGTTTAAGATTTGG
Found at i:50429320 original size:3 final size:3
Alignment explanation
Indices: 50429312--50429340 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50429302 ATAACAATAC
50429312 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
50429341 GGGCCATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:50433579 original size:165 final size:166
Alignment explanation
Indices: 50433307--50433639 Score: 614
Period size: 165 Copynumber: 2.0 Consensus size: 166
50433297 GAATTTCAAC
*
50433307 CATTTCTTTCTTTTCCCTTCATTACTTACCCTTTGCGCTATAGATAATTTTGTTTCGATTCATTA
1 CATTTCTTTCTTTTCCCTTCATTACTTACCCTTTGCGCTATAGATAATTGTGTTTCGATTCATTA
*
50433372 TGTATTCGGGTTAATTTTAAGTTCGAATTATTCGGATTTGATGAG-TTTTAAAATCGAATATGAT
66 TGTATTCGGGTTAATTTTAAGTTCGAATTATTCGAATTTGATGAGTTTTTAAAATCGAATATGAT
50433436 ATCAATATGTCACTCATTGAGTACTTGTAAGAAGAA
131 ATCAATATGTCACTCATTGAGTACTTGTAAGAAGAA
50433472 CATTTCTTTCTTTTCCCTTCATTACTTACCCTTTGCGCTATAGATAATTGTGTTTCGATTCATTA
1 CATTTCTTTCTTTTCCCTTCATTACTTACCCTTTGCGCTATAGATAATTGTGTTTCGATTCATTA
** *
50433537 TGTATTCGGGTTAATTTTGCGTTTGAATTATTCGAATTTGATGAGTTTTTAAAATCGAATATGAT
66 TGTATTCGGGTTAATTTTAAGTTCGAATTATTCGAATTTGATGAGTTTTTAAAATCGAATATGAT
50433602 ATCAATATGTCACTCATTGAGTACTTGTAAGAAGAA
131 ATCAATATGTCACTCATTGAGTACTTGTAAGAAGAA
50433638 CA
1 CA
50433640 GTACAAGTCT
Statistics
Matches: 162, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
165 105 0.65
166 57 0.35
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (166 bp):
CATTTCTTTCTTTTCCCTTCATTACTTACCCTTTGCGCTATAGATAATTGTGTTTCGATTCATTA
TGTATTCGGGTTAATTTTAAGTTCGAATTATTCGAATTTGATGAGTTTTTAAAATCGAATATGAT
ATCAATATGTCACTCATTGAGTACTTGTAAGAAGAA
Found at i:50436478 original size:3 final size:3
Alignment explanation
Indices: 50436470--50436506 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
50436460 TGTAGTACAT
50436470 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
50436507 TAGCAAAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:50436498 original size:73 final size:73
Alignment explanation
Indices: 50436407--50436543 Score: 256
Period size: 73 Copynumber: 1.9 Consensus size: 73
50436397 AAGAATCAAG
**
50436407 GAAGAAGAAGAAGAAGAAGAAGAATTATAGCAAAGAGAGAGGCTAATGGAAGCTGTAGTACATAG
1 GAAGAAGAAGAAGAAGAAGAAGAAGAATAGCAAAGAGAGAGGCTAATGGAAGCTGTAGTACATAG
50436472 AAGAAGAA
66 AAGAAGAA
50436480 GAAGAAGAAGAAGAAGAAGAAGAAGAATAGCAAAGAGAGAGGCTAATGGAAGCTGTAGTACATA
1 GAAGAAGAAGAAGAAGAAGAAGAAGAATAGCAAAGAGAGAGGCTAATGGAAGCTGTAGTACATA
50436544 CAATTTGCTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.52, C:0.06, G:0.31, T:0.12
Consensus pattern (73 bp):
GAAGAAGAAGAAGAAGAAGAAGAAGAATAGCAAAGAGAGAGGCTAATGGAAGCTGTAGTACATAG
AAGAAGAA
Found at i:50447324 original size:22 final size:22
Alignment explanation
Indices: 50447298--50447339 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50447288 ATATTATTTT
50447298 TTATTTTAAAAAAATATTTATA
1 TTATTTTAAAAAAATATTTATA
**
50447320 TTATTTTAATTAAATATTTA
1 TTATTTTAAAAAAATATTTA
50447340 ATAATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATTTTAAAAAAATATTTATA
Found at i:50452462 original size:2 final size:2
Alignment explanation
Indices: 50452455--50452517 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
50452445 CATATACATT
50452455 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
50452497 TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
50452518 TCAATTTTCT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50462503 original size:42 final size:42
Alignment explanation
Indices: 50462394--50462522 Score: 168
Period size: 42 Copynumber: 3.1 Consensus size: 42
50462384 GTATCCATAC
* ** * *
50462394 CAGATAAGATCAAGGAATCTCAACCCTCAGATGAAGATGATG
1 CAGATAAGCTCAAGGAATCTCAAGTCTCAGATGTAGATGTTG
50462436 CAGATAAGCTCAAGGAATCTCAAGTCTCAGATGTAGATGTTG
1 CAGATAAGCTCAAGGAATCTCAAGTCTCAGATGTAGATGTTG
* * * * *
50462478 CGGATAAGCTGAAGGAATCTGAAGTCTCAGAAGTAGATATTG
1 CAGATAAGCTCAAGGAATCTCAAGTCTCAGATGTAGATGTTG
50462520 CAG
1 CAG
50462523 GTGACCTGCG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (42 bp):
CAGATAAGCTCAAGGAATCTCAAGTCTCAGATGTAGATGTTG
Found at i:50464584 original size:25 final size:25
Alignment explanation
Indices: 50464550--50464597 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
50464540 CAAATTGTGA
*
50464550 TAGCTCAAATACCCTAGTAGTACCT
1 TAGCTCAAATACCCTAGGAGTACCT
50464575 TAGCTCAAATACCCTAGGAGTAC
1 TAGCTCAAATACCCTAGGAGTAC
50464598 GAGCGTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
TAGCTCAAATACCCTAGGAGTACCT
Found at i:50465309 original size:23 final size:23
Alignment explanation
Indices: 50465283--50465328 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50465273 CAAATTGTGA
50465283 AAGATTCAAATTACAATATCGAT
1 AAGATTCAAATTACAATATCGAT
50465306 AAGATTCAAATTACAATATCGAT
1 AAGATTCAAATTACAATATCGAT
50465329 GTCGCGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (23 bp):
AAGATTCAAATTACAATATCGAT
Found at i:50469288 original size:15 final size:16
Alignment explanation
Indices: 50469270--50469299 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50469260 TTTGTTGTGT
50469270 TTTCA-ACAAATTTTC
1 TTTCACACAAATTTTC
50469285 TTTCACACAAATTTT
1 TTTCACACAAATTTT
50469300 TTTTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTCACACAAATTTTC
Found at i:50474618 original size:42 final size:42
Alignment explanation
Indices: 50474559--50474644 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
50474549 GTATCCATAC
*
50474559 CAGATAAGATCAAGGAATCTCAACTCTCAGATGAAGATGTTG
1 CAGATAAGATCAAGGAATCTCAACTCTCAGATGAAGATCTTG
* * *
50474601 CAGATAAGCTCAAGGAATCTCAAGTCTCAGATGTAGATCTTG
1 CAGATAAGATCAAGGAATCTCAACTCTCAGATGAAGATCTTG
50474643 CA
1 CA
50474645 TGTGACCTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (42 bp):
CAGATAAGATCAAGGAATCTCAACTCTCAGATGAAGATCTTG
Found at i:50481409 original size:27 final size:27
Alignment explanation
Indices: 50481368--50481425 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
50481358 CCAACGAACT
50481368 TAGCAGGTGTCAATCCTCAAGCTTATA
1 TAGCAGGTGTCAATCCTCAAGCTTATA
*
50481395 TAGCAGGTGTTAATCCTCAAGCTTATA
1 TAGCAGGTGTCAATCCTCAAGCTTATA
50481422 TAGC
1 TAGC
50481426 TACGCTAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
TAGCAGGTGTCAATCCTCAAGCTTATA
Found at i:50487175 original size:24 final size:24
Alignment explanation
Indices: 50486884--50487171 Score: 375
Period size: 24 Copynumber: 12.0 Consensus size: 24
50486874 TTAAACTCTG
*
50486884 TCTAGGCTCATAAGAGCTAATCAT
1 TCTAGGCTCGTAAGAGCTAATCAT
50486908 TCTAGGCTCGTAAGAGCTAAAT-AT
1 TCTAGGCTCGTAAGAGCT-AATCAT
* *
50486932 TCTAGGCTCGTAAGAGTTAAACAT
1 TCTAGGCTCGTAAGAGCTAATCAT
50486956 TCTAGGCTCGTAAGAGCTAATCAT
1 TCTAGGCTCGTAAGAGCTAATCAT
*
50486980 TCTAGGCTCGTAAGAGCTAAACAT
1 TCTAGGCTCGTAAGAGCTAATCAT
50487004 TCTAGGCTCGTAAGAGCTAATCAT
1 TCTAGGCTCGTAAGAGCTAATCAT
*
50487028 TCTAGGCTCGTAAAAGCTAAAT-AT
1 TCTAGGCTCGTAAGAGCT-AATCAT
* * *
50487052 TTTTGGCTTGTAAGAGCTAATCAT
1 TCTAGGCTCGTAAGAGCTAATCAT
* * * *
50487076 TCTGGGCTAGTACGAGCTAAACAT
1 TCTAGGCTCGTAAGAGCTAATCAT
* *
50487100 TCT-CGCTCGTAAGAGTTAATCAT
1 TCTAGGCTCGTAAGAGCTAATCAT
*
50487123 TCTAGGCTCATAAGAGCTAATCAT
1 TCTAGGCTCGTAAGAGCTAATCAT
* * *
50487147 TTTGGGCTCGTAAGAGCTAACCAT
1 TCTAGGCTCGTAAGAGCTAATCAT
50487171 T
1 T
50487172 TTGGACTAAT
Statistics
Matches: 230, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
23 23 0.10
24 201 0.87
25 6 0.03
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (24 bp):
TCTAGGCTCGTAAGAGCTAATCAT
Found at i:50491428 original size:24 final size:24
Alignment explanation
Indices: 50491396--50491542 Score: 258
Period size: 24 Copynumber: 6.1 Consensus size: 24
50491386 AAACTCTGTT
50491396 TGGGCTCGTAAGAGCTAATCATTC
1 TGGGCTCGTAAGAGCTAATCATTC
*
50491420 TGGGCTCGTAAGAGCTAAACATTC
1 TGGGCTCGTAAGAGCTAATCATTC
*
50491444 TAGGCTCGTAAGAGCTAATCATTC
1 TGGGCTCGTAAGAGCTAATCATTC
*
50491468 TGGGCTCATAAGAGCTAATCATTC
1 TGGGCTCGTAAGAGCTAATCATTC
*
50491492 TGGGCTCGTAAGAGTTAATCATTC
1 TGGGCTCGTAAGAGCTAATCATTC
50491516 TGGGCTCGTAAGAGCTAATCATTC
1 TGGGCTCGTAAGAGCTAATCATTC
50491540 TGG
1 TGG
50491543 ACTAATGTGG
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 115 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (24 bp):
TGGGCTCGTAAGAGCTAATCATTC
Found at i:50494423 original size:26 final size:26
Alignment explanation
Indices: 50494392--50494458 Score: 134
Period size: 26 Copynumber: 2.6 Consensus size: 26
50494382 CATGAGACAA
50494392 GATTTGATATGTTAAGCTATAAAAAT
1 GATTTGATATGTTAAGCTATAAAAAT
50494418 GATTTGATATGTTAAGCTATAAAAAT
1 GATTTGATATGTTAAGCTATAAAAAT
50494444 GATTTGATATGTTAA
1 GATTTGATATGTTAA
50494459 TAAAGATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.40
Consensus pattern (26 bp):
GATTTGATATGTTAAGCTATAAAAAT
Found at i:50496409 original size:16 final size:16
Alignment explanation
Indices: 50496388--50496421 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50496378 TATAATGTTT
* *
50496388 TATAATTTTTATTTTA
1 TATAATTTATATATTA
50496404 TATAATTTATATATTA
1 TATAATTTATATATTA
50496420 TA
1 TA
50496422 AAAATTTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATATATTA
Found at i:50496491 original size:19 final size:17
Alignment explanation
Indices: 50496469--50496538 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 17
50496459 TATTTTTAGT
50496469 TTTTATAATTATTTTTGAA
1 TTTTAT-ATT-TTTTTGAA
*
50496488 TTTTATATTTTATATGAAA
1 TTTTATATTTT-TTTG-AA
*
50496507 TTTTATAATTTTTTTTAA
1 TTTTAT-ATTTTTTTGAA
50496525 TTTATATATTTTTT
1 TTT-TATATTTTTT
50496539 AATTTAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
17 2 0.05
18 18 0.41
19 19 0.43
20 5 0.11
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTATATTTTTTTGAA
Found at i:50496538 original size:16 final size:17
Alignment explanation
Indices: 50496517--50496550 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
50496507 TTTTATAATT
50496517 TTTTTTAATTT-ATATA
1 TTTTTTAATTTAATATA
50496533 TTTTTTAATTTAATATA
1 TTTTTTAATTTAATATA
50496550 T
1 T
50496551 ATTTAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTAATTTAATATA
Found at i:50505353 original size:31 final size:31
Alignment explanation
Indices: 50505313--50505376 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
50505303 AAATTGATAT
*
50505313 TGAACTATTCAAAAGTTTTCATTGAAGTTAC
1 TGAACTATTCAAAAGTTTTCATTGAAGTCAC
* * * *
50505344 TGAATTATTCGAAAGTTTTTATTTAAGTCAC
1 TGAACTATTCAAAAGTTTTCATTGAAGTCAC
50505375 TG
1 TG
50505377 GGTAATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTGAAGTCAC
Found at i:50512746 original size:7 final size:7
Alignment explanation
Indices: 50512734--50512759 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50512724 AGATTATTAG
50512734 ATAAATT
1 ATAAATT
50512741 ATAAATT
1 ATAAATT
50512748 ATAAATT
1 ATAAATT
50512755 ATAAA
1 ATAAA
50512760 AAATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
ATAAATT
Found at i:50517555 original size:17 final size:16
Alignment explanation
Indices: 50517516--50517557 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
50517506 AATTGAATCG
50517516 GATTTTATAATTTTTAA
1 GATTTT-TAATTTTTAA
*
50517533 GA-TTTTAATTTTTAT
1 GATTTTTAATTTTTAA
50517548 GAATTTTTAA
1 G-ATTTTTAA
50517558 GTCTTAATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 10 0.45
16 4 0.18
17 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
GATTTTTAATTTTTAA
Found at i:50517564 original size:24 final size:24
Alignment explanation
Indices: 50517518--50517565 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
50517508 TTGAATCGGA
*
50517518 TTTTATAATTTTTAAGATTTTAAT
1 TTTTATAATTTTTAAGATCTTAAT
50517542 TTTTATGAATTTTTAAG-TCTTAAT
1 TTTTAT-AATTTTTAAGATCTTAAT
50517566 GCATAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTTATAATTTTTAAGATCTTAAT
Found at i:50519075 original size:29 final size:30
Alignment explanation
Indices: 50519027--50519085 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
50519017 GAATTGGATC
* *
50519027 AAATGAAAATTTCATGTATA-AAGTTACACA
1 AAATCAAAATTTCATATATATAA-TTACACA
50519057 AAATCAAAATTT-ATATATATAATTACACA
1 AAATCAAAATTTCATATATATAATTACACA
50519086 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATCAAAATTTCATATATATAATTACACA
Found at i:50523267 original size:14 final size:14
Alignment explanation
Indices: 50523248--50523277 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50523238 TAAATTTTTT
50523248 ATCGAGTTTTTCGA
1 ATCGAGTTTTTCGA
50523262 ATCGAGTTTTTCGA
1 ATCGAGTTTTTCGA
50523276 AT
1 AT
50523278 TGAATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.43
Consensus pattern (14 bp):
ATCGAGTTTTTCGA
Found at i:50523545 original size:21 final size:20
Alignment explanation
Indices: 50523519--50523560 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
50523509 ACGTGACAAA
*
50523519 TACAATGAGAATATTTTTCTT
1 TACAATGACAATA-TTTTCTT
*
50523540 TACAATGCCAATATTTTCTT
1 TACAATGACAATATTTTCTT
50523560 T
1 T
50523561 GTTTTAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (20 bp):
TACAATGACAATATTTTCTT
Found at i:50532182 original size:17 final size:17
Alignment explanation
Indices: 50532143--50532175 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50532133 TGTTAAATGT
*
50532143 ATTATTATATCTAAAAA
1 ATTATTATATATAAAAA
50532160 ATTATTATATATAAAA
1 ATTATTATATATAAAA
50532176 TAATATTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTATTATATATAAAAA
Found at i:50535218 original size:15 final size:15
Alignment explanation
Indices: 50535198--50535247 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
50535188 TCATGGAAGA
*
50535198 TTTTCTTTCTTTCTT
1 TTTTCTTTCTTCCTT
50535213 TTTTCTTTCTTCCTT
1 TTTTCTTTCTTCCTT
* *
50535228 CTTTCTTCTCTCCCTT
1 TTTTCTT-TCTTCCTT
50535244 TTTT
1 TTTT
50535248 GTTGTCTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 20 0.67
16 10 0.33
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCTTTCTTCCTT
Found at i:50535219 original size:11 final size:11
Alignment explanation
Indices: 50535200--50535236 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
50535190 ATGGAAGATT
50535200 TTCTTTCTTTC
1 TTCTTTCTTTC
*
50535211 TTTTTTCTTTC
1 TTCTTTCTTTC
*
50535222 TTCCTTCTTTC
1 TTCTTTCTTTC
50535233 TTCT
1 TTCT
50535237 CTCCCTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (11 bp):
TTCTTTCTTTC
Found at i:50538766 original size:22 final size:23
Alignment explanation
Indices: 50538738--50538793 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
50538728 TGCACAAATG
*
50538738 AACGGAGAGCACCGAA-GTGCTA
1 AACGGAGAGCACCAAATGTGCTA
50538760 AACGGAGAGCA-CAAATGTGCTA
1 AACGGAGAGCACCAAATGTGCTA
*
50538782 AACAGAGAGCAC
1 AACGGAGAGCAC
50538794 TTTACGTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.41, C:0.21, G:0.29, T:0.09
Consensus pattern (23 bp):
AACGGAGAGCACCAAATGTGCTA
Found at i:50538843 original size:27 final size:26
Alignment explanation
Indices: 50538782--50538845 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
50538772 AAATGTGCTA
**
50538782 AACAGAGAGCACTTTACGTGCTAAAT
1 AACAGAGAGCACAATACGTGCTAAAT
*
50538808 AATCGGAGAGCACAATACGTGCTAAAAT
1 AA-CAGAGAGCACAATACGTGCT-AAAT
50538836 AACAGAGAGC
1 AACAGAGAGC
50538846 GCGCTAGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.06
27 24 0.75
28 6 0.19
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (26 bp):
AACAGAGAGCACAATACGTGCTAAAT
Found at i:50540765 original size:43 final size:43
Alignment explanation
Indices: 50540699--50540783 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
50540689 ATTACAAAAA
* * *
50540699 GGAAGACTCGTGTCTCGGCTAGAGCATGAGATTATTCATAAAG
1 GGAAGACTCATGTCTCAGCTAGAGCATAAGATTATTCATAAAG
* * * * *
50540742 GGAAGACTTATGTCTCAGTTAGAGTATAAGATTGTTTATAAA
1 GGAAGACTCATGTCTCAGCTAGAGCATAAGATTATTCATAAA
50540784 AGATGTAACA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (43 bp):
GGAAGACTCATGTCTCAGCTAGAGCATAAGATTATTCATAAAG
Found at i:50542527 original size:6 final size:6
Alignment explanation
Indices: 50542516--50542554 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
50542506 TTTGTGAGCA
* * *
50542516 AAATTG AAATTG AAAGTG AAAGTG AAATTG GAATTG AAA
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAA
50542555 GTGATATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (6 bp):
AAATTG
Found at i:50542541 original size:12 final size:12
Alignment explanation
Indices: 50542520--50542558 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
50542510 TGAGCAAAAT
50542520 TGAAATTGAAAG
1 TGAAATTGAAAG
* *
50542532 TGAAAGTGAAAT
1 TGAAATTGAAAG
*
50542544 TGGAATTGAAAG
1 TGAAATTGAAAG
50542556 TGA
1 TGA
50542559 TATGAATTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (12 bp):
TGAAATTGAAAG
Found at i:50542543 original size:18 final size:18
Alignment explanation
Indices: 50542520--50542558 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
50542510 TGAGCAAAAT
50542520 TGAAATTGAAAGTGAAAG
1 TGAAATTGAAAGTGAAAG
* *
50542538 TGAAATTGGAATTGAAAG
1 TGAAATTGAAAGTGAAAG
50542556 TGA
1 TGA
50542559 TATGAATTGT
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:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (18 bp):
TGAAATTGAAAGTGAAAG
Found at i:50544201 original size:21 final size:21
Alignment explanation
Indices: 50544163--50544202 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50544153 TTTGGAAATC
* * *
50544163 TACTTGTTTGTTTTGGTAGTG
1 TACTTGTGTGTATCGGTAGTG
50544184 TACTTGTGTGTATCGGTAG
1 TACTTGTGTGTATCGGTAG
50544203 AAGTACAGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.07, G:0.30, T:0.50
Consensus pattern (21 bp):
TACTTGTGTGTATCGGTAGTG
Found at i:50545924 original size:27 final size:27
Alignment explanation
Indices: 50545870--50545925 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
50545860 AAAATTAACA
***
50545870 AATACTATTAAATAGTAATTTTTTTTG
1 AATACTATTAAATAGTAATTTAAATTG
50545897 AATA-TATTAAATAGTAATTTAAAATTG
1 AATACTATTAAATAGTAATTT-AAATTG
50545924 AA
1 AA
50545926 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (27 bp):
AATACTATTAAATAGTAATTTAAATTG
Found at i:50551491 original size:111 final size:113
Alignment explanation
Indices: 50551295--50551599 Score: 434
Period size: 115 Copynumber: 2.6 Consensus size: 113
50551285 TGAAATTTGT
* * * * * * * *
50551295 TTTTTATAATAATCCTAATATAAATCAACTTGTTCATGTAAACTAAATAAAAGATTTACTCAAAA
1 TTTTTATAAGAATCCTAATATAAATCAACCTCTTTATAT-ATC-CAATAAGAGATTTACTCAAAA
*
50551360 TAAAAATTAATAAAATATAT-AAAAAAAACTTGGAATT-ATTAAAAACCC
64 TAAAAATCAATAAAATATATAAAAAAAAACTTGGAATTAATTAAAAACCC
50551408 TTTTTATAAGAATCCTAATATAAATCAACCTCTTTATATATCCAATAAGAGATTTACTCAAAATA
1 TTTTTATAAGAATCCTAATATAAATCAACCTCTTTATATATCCAATAAGAGATTTACTCAAAATA
50551473 AAAATCAATAAAATATATAAAAAAAAAAACTTGGAATTAATTAAAAACCC
66 AAAATCAATAAAATATAT--AAAAAAAAACTTGGAATTAATTAAAAACCC
50551523 TTTTTATAAGAATCCTAATATAAATCAACCTCTTTATATATATCCAAATAAGAGATTTACTCAAA
1 TTTTTATAAGAATCCTAATATAAATCAACCTC-TT-TATATATCC-AATAAGAGATTTACTCAAA
*
50551588 ACAAAAACTCAA
63 ATAAAAA-TCAA
50551600 CCATAAGATA
Statistics
Matches: 174, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
111 38 0.22
112 2 0.01
113 34 0.20
114 17 0.10
115 43 0.25
116 2 0.01
117 9 0.05
118 25 0.14
119 4 0.02
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (113 bp):
TTTTTATAAGAATCCTAATATAAATCAACCTCTTTATATATCCAATAAGAGATTTACTCAAAATA
AAAATCAATAAAATATATAAAAAAAAACTTGGAATTAATTAAAAACCC
Found at i:50553486 original size:32 final size:32
Alignment explanation
Indices: 50553431--50553491 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
50553421 AAATATCTCA
*
50553431 ATTTGATTTGATTCCAATCAAATTGATTTTCG
1 ATTTGATTTGATTACAATCAAATTGATTTTCG
* * *
50553463 ATTTGATTTGATTATATTTAAATTGATTT
1 ATTTGATTTGATTACAATCAAATTGATTT
50553492 AAAAGCTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTTGATTTGATTACAATCAAATTGATTTTCG
Found at i:50563958 original size:12 final size:12
Alignment explanation
Indices: 50563938--50563971 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50563928 ATTTGTGATC
*
50563938 AAAATTGAAAGT
1 AAAAGTGAAAGT
50563950 AAAAGTGAAAGT
1 AAAAGTGAAAGT
*
50563962 GAAAGTGAAA
1 AAAAGTGAAA
50563972 TTGGAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.18
Consensus pattern (12 bp):
AAAAGTGAAAGT
Found at i:50563960 original size:6 final size:6
Alignment explanation
Indices: 50563943--50563987 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
50563933 TGATCAAAAT
* * * *
50563943 TGAAAG TAAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
50563988 TATGAATTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (6 bp):
TGAAAG
Found at i:50563982 original size:18 final size:18
Alignment explanation
Indices: 50563939--50563987 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
50563929 TTTGTGATCA
*
50563939 AAATTGAAAGTAAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
50563957 AAAGTGAAAGTGAAATTG
1 AAATTGAAAGTGAAAGTG
*
50563975 GAATTGAAAGTGA
1 AAATTGAAAGTGA
50563988 TATGAATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:50565458 original size:12 final size:11
Alignment explanation
Indices: 50565415--50565467 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
50565405 TTTTACTTTG
*
50565415 AAATTAAATTT
1 AAATTAATTTT
**
50565426 ATTTTAATTTT
1 AAATTAATTTT
*
50565437 AAATTTATTTT
1 AAATTAATTTT
50565448 AAATTCAATTTT
1 AAATT-AATTTT
50565460 AAAATTAA
1 -AAATTAA
50565468 ATTTGAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
11 21 0.64
12 7 0.21
13 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (11 bp):
AAATTAATTTT
Found at i:50565460 original size:17 final size:16
Alignment explanation
Indices: 50565415--50565458 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
50565405 TTTTACTTTG
50565415 AAATTAAATTTATTTT
1 AAATTAAATTTATTTT
*
50565431 AATTTTAAATTTATTTT
1 AA-ATTAAATTTATTTT
*
50565448 AAATTCAATTT
1 AAATTAAATTT
50565459 TAAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATTAAATTTATTTT
Found at i:50565495 original size:29 final size:29
Alignment explanation
Indices: 50565418--50565495 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
50565408 TACTTTGAAA
* * *
50565418 TTAAATT-TATTTTAATTTTAAATTTATT
1 TTAAATTCAATTTTAATATTAAATTTAAT
*
50565446 TTAAATTCAATTTTAAAATTAAATTTGAAT
1 TTAAATTCAATTTTAATATTAAATTT-AAT
* *
50565476 TTAACTTGAA-TTTAATATTA
1 TTAAATTCAATTTTAATATTA
50565496 TTATAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 7 0.17
29 24 0.59
30 10 0.24
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (29 bp):
TTAAATTCAATTTTAATATTAAATTTAAT
Found at i:50566338 original size:3 final size:3
Alignment explanation
Indices: 50566324--50566375 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
50566314 CAACATCAAT
*
50566324 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
50566373 TAA
1 TAA
50566376 ATAAAAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:50567601 original size:60 final size:60
Alignment explanation
Indices: 50567363--50567639 Score: 341
Period size: 60 Copynumber: 4.6 Consensus size: 60
50567353 TAAGTTGTCC
* * *
50567363 AAAAATTACATTTTGACCCCAAAACTTTCCCCAAAA-TATATTGTAACC-CTAAAACTTTCT
1 AAAAATTACATTTTGACCCCAAAACTTT-TCCAAAATTATATTTTGACCTC-AAAACTTTCT
* *
50567423 AAAAATTACATTTTGACCCCAAAACTTTCCCAAAATTATATTTTGACCTCGAAACTTTCT
1 AAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCTCAAAACTTTCT
*
50567483 AAAAATTACATTTTGGCCCCAAAACTTTTCCAAAATTATATTTTGACCTCAAAACTTTTCT
1 AAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCTCAAAAC-TTTCT
* *
50567544 -AAAATTACATTTTGACCCAAAAACTTTTCCAAAATTACATTTTGA-CTCCAAAACTTT-T
1 AAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCT-CAAAACTTTCT
* * * * * *
50567602 CCAAAGTTATACTTTGACCCCGAAACTTTT-AAAAATTA
1 -AAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTA
50567640 CCATTTTTAC
Statistics
Matches: 196, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
58 1 0.01
59 19 0.10
60 170 0.87
61 6 0.03
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (60 bp):
AAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCTCAAAACTTTCT
Found at i:50567631 original size:30 final size:30
Alignment explanation
Indices: 50567364--50567652 Score: 307
Period size: 30 Copynumber: 9.6 Consensus size: 30
50567354 AAGTTGTCCA
*
50567364 AAAATTACATTTTGACCCCAAAACTTTCCCC
1 AAAATTACATTTTGACCCCAAAACTTT-TCC
* * * * *
50567395 AAAA-TATATTGTAACCCTAAAAC-TTTCTA
1 AAAATTACATTTTGACCCCAAAACTTTTC-C
*
50567424 AAAATTACATTTTGACCCCAAAACTTTCCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * * *
50567454 AAAATTATATTTTGACCTCGAAAC-TTTCTA
1 AAAATTACATTTTGACCCCAAAACTTTTC-C
*
50567484 AAAATTACATTTTGGCCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
50567514 AAAATTATATTTTGACCTCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
50567544 AAAATTACATTTTGACCCAAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
50567574 AAAATTACATTTTGACTCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * * * *
50567604 AAAGTTATACTTTGACCCCGAAACTTTT-A
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
50567633 AAAATTACCATTTTTACCCC
1 AAAATTA-CATTTTGACCCC
50567653 TAAATTTCCC
Statistics
Matches: 210, Mismatches: 42, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
28 1 0.00
29 15 0.07
30 183 0.87
31 11 0.05
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:50568745 original size:21 final size:22
Alignment explanation
Indices: 50568706--50568746 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
50568696 TTATTTTATT
* *
50568706 TTTCTTGAAAATGACATAATTG
1 TTTCTTGAAAAGGAAATAATTG
50568728 TTTCTT-AAAAGGAAATAAT
1 TTTCTTGAAAAGGAAATAAT
50568747 GGCTAGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (22 bp):
TTTCTTGAAAAGGAAATAATTG
Found at i:50572957 original size:15 final size:12
Alignment explanation
Indices: 50572926--50572954 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
50572916 AGAAGAAGTA
50572926 AAAGAGGAGAAG
1 AAAGAGGAGAAG
50572938 AAAGAGGAGAAG
1 AAAGAGGAGAAG
50572950 AAAGA
1 AAAGA
50572955 AGATGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (12 bp):
AAAGAGGAGAAG
Found at i:50581367 original size:5 final size:5
Alignment explanation
Indices: 50581352--50581382 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
50581342 ACTTTGATGA
50581352 CTTTT CTTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT C-TTTT CTTTT CTTTT CTTTT CTTTT
50581383 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
CTTTT
Found at i:50587385 original size:36 final size:36
Alignment explanation
Indices: 50587353--50587440 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
50587343 CTAAAATTTT
*
50587353 ACTCAAACTCGGTCCAGATAAAAATGTTAAAATTCGG
1 ACTC-AACTCGGCCCAGATAAAAATGTTAAAATTCGG
* *
50587390 GCTCAACTCGGCCCAGATAAAAATGTTGAAATTCGG
1 ACTCAACTCGGCCCAGATAAAAATGTTAAAATTCGG
* *
50587426 GCTCATCTCGGCCCA
1 ACTCAACTCGGCCCA
50587441 CTCATATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 44 0.94
37 3 0.06
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (36 bp):
ACTCAACTCGGCCCAGATAAAAATGTTAAAATTCGG
Found at i:50587697 original size:22 final size:22
Alignment explanation
Indices: 50587650--50587694 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
50587640 ATATTCAAAC
50587650 AATAATAACAAATTAGTAGTCA
1 AATAATAACAAATTAGTAGTCA
50587672 AATAATAACTAAATT-GTAG-CA
1 AATAATAAC-AAATTAGTAGTCA
50587693 AA
1 AA
50587695 ATAGTGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 13 0.59
23 5 0.23
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.27
Consensus pattern (22 bp):
AATAATAACAAATTAGTAGTCA
Found at i:50587743 original size:19 final size:19
Alignment explanation
Indices: 50587703--50587744 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
50587693 AAATAGTGAG
* *
50587703 AAAACAACAAGAAAGCAGC
1 AAAACAACAAGAAAACAAC
*
50587722 AAAATAACAAGAAAACAAC
1 AAAACAACAAGAAAACAAC
50587741 AAAA
1 AAAA
50587745 ATTTTTGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.17, G:0.10, T:0.02
Consensus pattern (19 bp):
AAAACAACAAGAAAACAAC
Found at i:50592749 original size:20 final size:22
Alignment explanation
Indices: 50592726--50592772 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
50592716 AAATAAATTA
*
50592726 TTAATAATGATAATAA-TAA-T
1 TTAATAATCATAATAATTAACT
*
50592746 TTAATTATCATAATAATTAACT
1 TTAATAATCATAATAATTAACT
50592768 TTAAT
1 TTAAT
50592773 TATTGTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 3 0.13
22 6 0.26
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (22 bp):
TTAATAATCATAATAATTAACT
Found at i:50592750 original size:17 final size:17
Alignment explanation
Indices: 50592730--50592763 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50592720 AAATTATTAA
50592730 TAATGATAATAATAATT
1 TAATGATAATAATAATT
* *
50592747 TAATTATCATAATAATT
1 TAATGATAATAATAATT
50592764 AACTTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
TAATGATAATAATAATT
Found at i:50622894 original size:22 final size:21
Alignment explanation
Indices: 50622858--50622915 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
50622848 ATACAAATGA
50622858 AAAAAAAAT-CA-TTTTTTAT
1 AAAAAAAATCCATTTTTTTAT
*
50622877 CAAAAAAATTCCATTTTTTTAT
1 -AAAAAAAATCCATTTTTTTAT
50622899 AAAAAAAATCCATTTTT
1 AAAAAAAATCCATTTTT
50622916 AAATACATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 8 0.24
21 18 0.53
22 8 0.24
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAAAAATCCATTTTTTTAT
Found at i:50623308 original size:30 final size:30
Alignment explanation
Indices: 50623274--50623338 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
50623264 ACTTATTTTA
* **
50623274 TTGTTAATTTTGTTCTTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAGAGACAT
50623304 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAGACAT
50623334 TTGTT
1 TTGTT
50623339 TGTTAAGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGACAT
Found at i:50627645 original size:17 final size:17
Alignment explanation
Indices: 50627618--50627650 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50627608 AAATAGAGAC
50627618 TTTTTATTTTATTAGTTT
1 TTTTTATTTTA-TAGTTT
50627636 TTTTTA-TTTATAGTT
1 TTTTTATTTTATAGTT
50627651 GAAATTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTTATTTTATAGTTT
Found at i:50638197 original size:28 final size:29
Alignment explanation
Indices: 50638143--50638205 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
50638133 CAAATAATTT
50638143 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAATA
* *
50638172 TAAAATT-TTTAATTTATTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAATA
50638200 TAAAAT
1 TAAAAT
50638206 AAAAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAAAATTATTAAAATTATTTTTTAAAATA
Found at i:50638245 original size:7 final size:6
Alignment explanation
Indices: 50638218--50638257 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
50638208 AAAATATAAA
* *
50638218 TTTTCT TTTTCT TTTTAT TTTTGCT TTTTCC TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTT-CT TTTTCT TTTTCT TTT
50638258 AATCTTTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:50638246 original size:19 final size:18
Alignment explanation
Indices: 50638218--50638257 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
50638208 AAAATATAAA
*
50638218 TTTTCTTTTTCTTTTTAT
1 TTTTCTTTTTCCTTTTAT
*
50638236 TTTTGCTTTTTCCTTTTCT
1 TTTT-CTTTTTCCTTTTAT
50638255 TTT
1 TTT
50638258 AATCTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTTCCTTTTAT
Found at i:50639713 original size:25 final size:24
Alignment explanation
Indices: 50639679--50639728 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
50639669 TTTATAAAGG
50639679 AAATTAAAAAAATTTATATTTAAAA
1 AAATT-AAAAAATTTATATTTAAAA
* *
50639704 AAATTTAAAAATTTATATTTTAAA
1 AAATTAAAAAATTTATATTTAAAA
50639728 A
1 A
50639729 TCATTTGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATTAAAAAATTTATATTTAAAA
Found at i:50646893 original size:15 final size:17
Alignment explanation
Indices: 50646863--50646895 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
50646853 CTTTAATTTT
50646863 TAAATTAGACAAATAGA
1 TAAATTAGACAAATAGA
50646880 TAAATTA-A-AAATAGA
1 TAAATTAGACAAATAGA
50646895 T
1 T
50646896 GGATTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (17 bp):
TAAATTAGACAAATAGA
Found at i:50648112 original size:51 final size:51
Alignment explanation
Indices: 50648057--50648164 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
50648047 GTCGTCAAAT
* * * * * *
50648057 TTTACATATTTTGTCAAATTGA-TTTTAATTTAAGACATTTAACCCACAACA
1 TTTACATATTCTATC-AATTGAGTCTTAATTTAACAAATTCAACCCACAACA
* *
50648108 TTTACATATTCTATCAATTTAGTCTTGATTTAACAAATTCAACCCACAACA
1 TTTACATATTCTATCAATTGAGTCTTAATTTAACAAATTCAACCCACAACA
50648159 TTTACA
1 TTTACA
50648165 CAGAATATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 5 0.10
51 43 0.90
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (51 bp):
TTTACATATTCTATCAATTGAGTCTTAATTTAACAAATTCAACCCACAACA
Found at i:50651533 original size:21 final size:21
Alignment explanation
Indices: 50651508--50651549 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
50651498 GCGTGCTATG
* *
50651508 TGTGCATCATGTTGACGTACA
1 TGTGCATCATGCTAACGTACA
50651529 TGTGCATCATGCTAACGTACA
1 TGTGCATCATGCTAACGTACA
50651550 ATGACCAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (21 bp):
TGTGCATCATGCTAACGTACA
Found at i:50654708 original size:52 final size:52
Alignment explanation
Indices: 50654627--50654915 Score: 411
Period size: 52 Copynumber: 5.6 Consensus size: 52
50654617 TGCATATTTA
* * * * *
50654627 ATACTCACGATGACACAGAGTCATTGGACCTCTTATTCTGTAAAGGAATCAT
1 ATACTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
* **
50654679 ACACTCACGATGACACATAGTCACCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
* * * * *
50654731 ATACTTACGATGACACGTAGTCATCGAACCTCATAATCCGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
*
50654783 ATACTCACAATGACACATAGTCATTGGACCTCATAATCCGTAAAGGATTC--
1 ATACTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
* *
50654833 ATACTCATGATGACACGTAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
*
50654885 ATACTCACGATGACACATAGTCATTAGACCT
1 ATACTCACGATGACACATAGTCATTGGACCT
50654916 TTCTCATTTA
Statistics
Matches: 209, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
50 47 0.22
52 162 0.78
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
Found at i:50656973 original size:23 final size:23
Alignment explanation
Indices: 50656945--50657063 Score: 123
Period size: 23 Copynumber: 5.1 Consensus size: 23
50656935 GAAACAATAG
50656945 GCACACAAAGTGCTAAACAGAGA
1 GCACACAAAGTGCTAAACAGAGA
* * * *
50656968 GTACACAAAGTACTGATCAGAGA
1 GCACACAAAGTGCTAAACAGAGA
*
50656991 GCACACACAGTGCTAATAACAGAGA
1 GCACACAAAGTGCT-A-AACAGAGA
* *
50657016 GCACGA-GACGTGCTAAACAGAGA
1 GCAC-ACAAAGTGCTAAACAGAGA
* *
50657039 GCACACACAGTGCTAATCAGAGA
1 GCACACAAAGTGCTAAACAGAGA
50657062 GC
1 GC
50657064 GCGCTAGTGT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.01
23 57 0.75
24 1 0.01
25 16 0.21
26 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.24, T:0.12
Consensus pattern (23 bp):
GCACACAAAGTGCTAAACAGAGA
Found at i:50660239 original size:21 final size:21
Alignment explanation
Indices: 50660212--50660270 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
50660202 ACAGTGCAGA
**
50660212 CTTCTACCGATACCTATGACAG
1 CTTCTACCGATACAAATGA-AG
50660234 -TTCTACCGATACAAATGAAG
1 CTTCTACCGATACAAATGAAG
*
50660254 CTTCTACCGAAACAAAT
1 CTTCTACCGATACAAAT
50660271 CATGTTTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (21 bp):
CTTCTACCGATACAAATGAAG
Found at i:50660279 original size:21 final size:21
Alignment explanation
Indices: 50660234--50660283 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
50660224 CCTATGACAG
* *
50660234 TTCTACCGATACAAATGAAGC
1 TTCTACCGAAACAAATCAAGC
* *
50660255 TTCTACCGAAACAAATCATGT
1 TTCTACCGAAACAAATCAAGC
50660276 TTCTACCG
1 TTCTACCG
50660284 GTACTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (21 bp):
TTCTACCGAAACAAATCAAGC
Found at i:50661099 original size:52 final size:52
Alignment explanation
Indices: 50661020--50661259 Score: 345
Period size: 52 Copynumber: 4.6 Consensus size: 52
50661010 TTCTCATTTA
* *
50661020 ATACTCATGATGACACATAGTCATCGAACCTCATAATCCGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * ** *
50661072 GTACTCACGATGACACATAGTCATCGAACCTTGTAATCCGTTAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* *
50661124 ATACTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * *
50661176 ATACTTACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* *
50661228 ATAACTCATGATGACACAGAGTCATCGGACCT
1 AT-ACTCACGATGACACATAGTCATCGGACCT
50661260 TTTACATTTA
Statistics
Matches: 169, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
52 143 0.85
53 26 0.15
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
Found at i:50664282 original size:17 final size:17
Alignment explanation
Indices: 50664239--50664317 Score: 95
Period size: 17 Copynumber: 4.6 Consensus size: 17
50664229 GCCCAACGGG
50664239 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
* *
50664256 AATTAGATTTATTTTAA
1 ATTTAAATTTATTTTAA
* * *
50664273 GTTTAAATTTACTTAAA
1 ATTTAAATTTATTTTAA
*
50664290 ATTTAAATTTATTATAA
1 ATTTAAATTTATTTTAA
*
50664307 ATTTAAGTTTA
1 ATTTAAATTTA
50664318 AATCTATTTA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:50664294 original size:23 final size:22
Alignment explanation
Indices: 50664268--50664331 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
50664258 TTAGATTTAT
50664268 TTTAAGTTTAAATTTACTTAAAA
1 TTTAAGTTTAAATTTA-TTAAAA
*
50664291 TTTAAATTT--A-TTA-T-AAA
1 TTTAAGTTTAAATTTATTAAAA
*
50664308 TTTAAGTTTAAATCTATTTAAAA
1 TTTAAGTTTAAATTTA-TTAAAA
50664331 T
1 T
50664332 AATGTCCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
17 11 0.34
18 1 0.03
19 1 0.03
20 5 0.16
21 1 0.03
22 1 0.03
23 12 0.38
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (22 bp):
TTTAAGTTTAAATTTATTAAAA
Found at i:50666107 original size:29 final size:29
Alignment explanation
Indices: 50666075--50666353 Score: 199
Period size: 29 Copynumber: 9.5 Consensus size: 29
50666065 TCGAACTTCT
50666075 CAAAATTCCATTTTTACCCCTGATTTTTC
1 CAAAATTCCATTTTTACCCCTGATTTTTC
* * **
50666104 CAAAATTTACATTTTTACCCCCCGAACTTTC
1 CAAAA-TTCCATTTTTA-CCCCTGATTTTTC
* * * * *
50666135 TAAATTTCTATTTTTAACCCTAATTTTTC
1 CAAAATTCCATTTTTACCCCTGATTTTTC
* * * * **
50666164 TAAAATTTACATTTTTACCCTTAAACTTTC
1 CAAAA-TTCCATTTTTACCCCTGATTTTTC
*
50666194 CAAAATTCCATTTTTGA-CCTTGATTTTTC
1 CAAAATTCCATTTTT-ACCCCTGATTTTTC
* **
50666223 CAAAAATTACATTTTTACCCCTGAACTTTC
1 C-AAAATTCCATTTTTACCCCTGATTTTTC
* *
50666253 CAAAATTCCATTTTAACCCC-AATTTTTC
1 CAAAATTCCATTTTTACCCCTGATTTTTC
* * **
50666281 CAAAAATTAC-TATTTACCCCT-AAATTTC
1 C-AAAATTCCATTTTTACCCCTGATTTTTC
* *
50666309 CAAAAATTCCATTTTGACCTC-GATTTTTC
1 C-AAAATTCCATTTTTACCCCTGATTTTTC
50666338 CAAAATTTACCATTTT
1 CAAAA-TT-CCATTTT
50666354 GCCCCCAAAC
Statistics
Matches: 193, Mismatches: 45, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
28 32 0.17
29 76 0.39
30 72 0.37
31 13 0.07
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.43
Consensus pattern (29 bp):
CAAAATTCCATTTTTACCCCTGATTTTTC
Found at i:50666119 original size:30 final size:30
Alignment explanation
Indices: 50666075--50666353 Score: 200
Period size: 30 Copynumber: 9.5 Consensus size: 30
50666065 TCGAACTTCT
*
50666075 CAAAA-TTCCATTTTTACCCCTGATTTTTC
1 CAAAATTTACATTTTTACCCCTGATTTTTC
* **
50666104 CAAAATTTACATTTTTACCCCCCGAACTTT-
1 CAAAATTTACATTTTTA-CCCCTGATTTTTC
* * *
50666134 CTAAATTT-CTATTTTTAACCCTAATTTTTC
1 CAAAATTTAC-ATTTTTACCCCTGATTTTTC
* * * **
50666164 TAAAATTTACATTTTTACCCTTAAACTTTC
1 CAAAATTTACATTTTTACCCCTGATTTTTC
* *
50666194 CAAAA-TTCCATTTTTGA-CCTTGATTTTTC
1 CAAAATTTACATTTTT-ACCCCTGATTTTTC
* **
50666223 CAAAAATTACATTTTTACCCCTGAACTTTC
1 CAAAATTTACATTTTTACCCCTGATTTTTC
* * *
50666253 CAAAA-TTCCATTTTAACCCC-AATTTTTC
1 CAAAATTTACATTTTTACCCCTGATTTTTC
* * **
50666281 CAAAAATTAC-TATTTACCCCT-AAATTTC
1 CAAAATTTACATTTTTACCCCTGATTTTTC
* * * *
50666309 CAAAAATTCCATTTTGACCTC-GATTTTTC
1 CAAAATTTACATTTTTACCCCTGATTTTTC
50666338 CAAAATTTACCATTTT
1 CAAAATTTA-CATTTT
50666354 GCCCCCAAAC
Statistics
Matches: 194, Mismatches: 43, Indels: 25
0.74 0.16 0.10
Matches are distributed among these distances:
28 32 0.16
29 72 0.37
30 80 0.41
31 10 0.05
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.43
Consensus pattern (30 bp):
CAAAATTTACATTTTTACCCCTGATTTTTC
Found at i:50666140 original size:59 final size:58
Alignment explanation
Indices: 50666043--50666506 Score: 367
Period size: 59 Copynumber: 7.9 Consensus size: 58
50666033 CACTAAACTA
* * * *
50666043 TCCAAGATTTACATTTTTATCCTCGAACTTCTCAAAATTCCATTTTTACCCCTGATTTT
1 TCCAAAATTTACATTTTTACCCCCAAACTT-TCAAAATTCCATTTTTACCCCTGATTTT
* * * * *
50666102 TCCAAAATTTACATTTTTACCCCCCGAACTTTCTAAATTTCTATTTTTAACCCTAATTTT
1 TCCAAAATTTACATTTTTA-CCCCCAAACTTTC-AAAATTCCATTTTTACCCCTGATTTT
* ** *
50666162 TCTAAAATTTACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTGA-CCTTGATTTT
1 TCCAAAATTTACATTTTTACCCCCAAACTTT-CAAAATTCCATTTTT-ACCCCTGATTTT
* ** * *
50666221 TCCAAAAATTACATTTTTACCCCTGAACTTTCCAAAATTCCATTTTAACCCC-AATTTT
1 TCCAAAATTTACATTTTTACCCCCAAACTTT-CAAAATTCCATTTTTACCCCTGATTTT
* * * * *
50666279 TCCAAAAATTAC-TATTTACCCCTAAA-TTTCCAAAAATTCCATTTTGACCTC-GATTTT
1 TCCAAAATTTACATTTTTACCCCCAAACTTT-C-AAAATTCCATTTTTACCCCTGATTTT
* * * ** *
50666336 TCCAAAATTTACCA-TTTTGCCCCCAAACTTCTAAAAATTCTATTTTTAATCTTGATTTT
1 TCCAAAATTTA-CATTTTTACCCCCAAACTT-TCAAAATTCCATTTTTACCCCTGATTTT
* * *
50666395 TCCAAAAATTACCA-TTTTACCCCCAAACTTTCAAAAATTCAATTTTTGACCTCT-ATATATAT
1 TCCAAAATTTA-CATTTTTACCCCCAAACTTTC-AAAATTCCATTTTT-ACCCCTGAT-T-T-T
* *
50666457 CCCAAAA-TTAC-TATTTTACCCCCAAA-TGTAT-AAAATTCCATTTTAACCCC
1 TCCAAAATTTACAT-TTTTACCCCCAAACT-T-TCAAAATTCCATTTTTACCCC
50666507 AAACTTTCCC
Statistics
Matches: 335, Mismatches: 50, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
56 5 0.01
57 44 0.13
58 43 0.13
59 148 0.44
60 69 0.21
61 18 0.05
62 8 0.02
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (58 bp):
TCCAAAATTTACATTTTTACCCCCAAACTTTCAAAATTCCATTTTTACCCCTGATTTT
Found at i:50666441 original size:29 final size:29
Alignment explanation
Indices: 50666068--50666441 Score: 154
Period size: 29 Copynumber: 12.8 Consensus size: 29
50666058 TTTATCCTCG
*
50666068 AACTTCTC-AAAATTCCATTTTTACCCCTG
1 AACTT-TCAAAAATTCCATTTTTACCCCTA
** * * **
50666097 ATTTTTCCAAAATTTACATTTTTACCCCCCG
1 AACTTT-CAAAAATTCCATTTTTA-CCCCTA
* * * *
50666128 AACTTTCTAAATTTCTATTTTTAACCCTA
1 AACTTTCAAAAATTCCATTTTTACCCCTA
** * * *
50666157 ATTTTTCTAAAATTTACATTTTTACCCTTA
1 AACTTTC-AAAAATTCCATTTTTACCCCTA
* * *
50666187 AACTTTCCAAAATTCCATTTTTGA-CCTTG
1 AACTTTCAAAAATTCCATTTTT-ACCCCTA
** * *
50666216 ATTTTTCCAAAAATTACATTTTTACCCCTG
1 AACTTT-CAAAAATTCCATTTTTACCCCTA
* *
50666246 AACTTTCCAAAATTCCATTTTAACCCC-A
1 AACTTTCAAAAATTCCATTTTTACCCCTA
** * *
50666274 ATTTTTCCAAAAATTAC-TATTTACCCCTA
1 AACTTT-CAAAAATTCCATTTTTACCCCTA
* * *
50666303 AA-TTTCCAAAAATTCCATTTTGACCTC-G
1 AACTTT-CAAAAATTCCATTTTTACCCCTA
** * * *
50666331 ATTTTTCCAAAATTTACCA-TTTTGCCCCCA
1 AACTTT-CAAAAATT-CCATTTTTACCCCTA
* ** * *
50666361 AAC-TTCTAAAAATTCTATTTTTAATCTTG
1 AACTTTC-AAAAATTCCATTTTTACCCCTA
** *
50666390 ATTTTTCCAAAAATTACCA-TTTTACCCCCA
1 AACTTT-CAAAAATT-CCATTTTTACCCCTA
*
50666420 AACTTTCAAAAATTCAATTTTT
1 AACTTTCAAAAATTCCATTTTT
50666442 GACCTCTATA
Statistics
Matches: 250, Mismatches: 76, Indels: 38
0.69 0.21 0.10
Matches are distributed among these distances:
28 32 0.13
29 111 0.44
30 95 0.38
31 12 0.05
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.42
Consensus pattern (29 bp):
AACTTTCAAAAATTCCATTTTTACCCCTA
Found at i:50669817 original size:24 final size:24
Alignment explanation
Indices: 50669724--50669850 Score: 93
Period size: 24 Copynumber: 5.4 Consensus size: 24
50669714 ATAACATCCA
* *
50669724 AACAACCAAAATAACAATC-AAAAC
1 AACAACAAAAATAACAA-CAAAAAT
* *
50669748 AGCAGA-AAAAATAACAAC-AAAAC
1 AACA-ACAAAAATAACAACAAAAAT
* *
50669771 AACAACAAAAACAACAATAAAAAT
1 AACAACAAAAATAACAACAAAAAT
* *
50669795 AATAGCAAAAATAACAACAAAAAT
1 AACAACAAAAATAACAACAAAAAT
** *
50669819 AACAACATCAA-AACAATAAAAA-
1 AACAACAAAAATAACAACAAAAAT
*
50669841 AACACCAAAA
1 AACAACAAAA
50669851 CAATAAAAAA
Statistics
Matches: 82, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
22 8 0.10
23 29 0.35
24 44 0.54
25 1 0.01
ACGTcount: A:0.71, C:0.19, G:0.02, T:0.08
Consensus pattern (24 bp):
AACAACAAAAATAACAACAAAAAT
Found at i:50669831 original size:15 final size:12
Alignment explanation
Indices: 50669724--50669825 Score: 93
Period size: 12 Copynumber: 8.6 Consensus size: 12
50669714 ATAACATCCA
*
50669724 AACAACCAAAAT
1 AACAACAAAAAT
*
50669736 AACAATC-AAAAC
1 AACAA-CAAAAAT
*
50669748 AGCAGA-AAAAAT
1 AACA-ACAAAAAT
*
50669760 AACAAC-AAAAC
1 AACAACAAAAAT
*
50669771 AACAACAAAAAC
1 AACAACAAAAAT
*
50669783 AACAATAAAAAT
1 AACAACAAAAAT
* *
50669795 AATAGCAAAAAT
1 AACAACAAAAAT
50669807 AACAACAAAAAT
1 AACAACAAAAAT
50669819 AACAACA
1 AACAACA
50669826 TCAAAACAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
11 11 0.15
12 60 0.82
13 2 0.03
ACGTcount: A:0.71, C:0.19, G:0.03, T:0.08
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:50669849 original size:19 final size:19
Alignment explanation
Indices: 50669822--50669879 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
50669812 CAAAAATAAC
*
50669822 AACATCAAAACAATAAAAA
1 AACACCAAAACAATAAAAA
50669841 AACACCAAAACAATAAAAA
1 AACACCAAAACAATAAAAA
*
50669860 AA-ACCAAAACAGTAAAAA
1 AACACCAAAACAATAAAAA
50669878 AA
1 AA
50669880 AGTATCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
18 17 0.46
19 20 0.54
ACGTcount: A:0.74, C:0.17, G:0.02, T:0.07
Consensus pattern (19 bp):
AACACCAAAACAATAAAAA
Found at i:50669879 original size:18 final size:18
Alignment explanation
Indices: 50669827--50669880 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
50669817 ATAACAACAT
50669827 CAAAACAATAAAAAAACAC
1 CAAAACAATAAAAAAA-AC
50669846 CAAAACAATAAAAAAAAC
1 CAAAACAATAAAAAAAAC
*
50669864 CAAAACAGTAAAAAAAA
1 CAAAACAATAAAAAAAA
50669881 GTATCAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 18 0.53
19 16 0.47
ACGTcount: A:0.76, C:0.17, G:0.02, T:0.06
Consensus pattern (18 bp):
CAAAACAATAAAAAAAAC
Found at i:50669880 original size:19 final size:19
Alignment explanation
Indices: 50669827--50669895 Score: 86
Period size: 18 Copynumber: 3.6 Consensus size: 19
50669817 ATAACAACAT
*
50669827 CAAAACAATAAAAAAACAC
1 CAAAACAATAAAAAAAAAC
50669846 CAAAACAAT-AAAAAAAAC
1 CAAAACAATAAAAAAAAAC
* *
50669864 CAAAACAGTAAAAAAAAGTAT
1 CAAAACAATAAAAAAAA--AC
50669885 CAAAACAATAA
1 CAAAACAATAA
50669896 TATAATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.37
19 16 0.37
21 11 0.26
ACGTcount: A:0.72, C:0.16, G:0.03, T:0.09
Consensus pattern (19 bp):
CAAAACAATAAAAAAAAAC
Found at i:50672329 original size:21 final size:21
Alignment explanation
Indices: 50672299--50672351 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
50672289 CCTTGTAACT
* *
50672299 TCTACCGATACAAGTACATAA
1 TCTACCGATACAAGCACACAA
*
50672320 TCTACGGATACAAGCACACAA
1 TCTACCGATACAAGCACACAA
*
50672341 TCTACCAATAC
1 TCTACCGATAC
50672352 TTCCACATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.28, G:0.09, T:0.21
Consensus pattern (21 bp):
TCTACCGATACAAGCACACAA
Found at i:50673073 original size:52 final size:52
Alignment explanation
Indices: 50672980--50673320 Score: 430
Period size: 52 Copynumber: 6.6 Consensus size: 52
50672970 CATTACACTT
* * * * ** ***
50672980 TATACTCACGATGACACATAGTCGTAGGACCTCTTGTTCCGTAAAGGAAAAA
1 TATACTCACGATGACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCA
* ** * * *
50673032 TACACTCACGATGACATATATTCACCGGACCTTATAATCCGTAAAGGATTCA
1 TATACTCACGATGACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCA
* * * *
50673084 TATACTCATGATGACACGTAATCATCGAACCTCATAATCCATAAAGGATTCA
1 TATACTCACGATGACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCA
* ** * *
50673136 TATACTCACGATGACATGTAGTCATCGGACCTCATAATCTATAAAGAATTTA
1 TATACTCACGATGACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCA
*
50673188 TATACTCACGATGACACGTAGCCATCGGACCTCATAATCCGTAAAGGATTCA
1 TATACTCACGATGACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCA
*
50673240 TATACTCACGATGACACGTAGTCATCAGACCTCATAATCCGTAAAGGATTCA
1 TATACTCACGATGACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCA
* *
50673292 TATAATCACGATGACACATAGTCATCGGA
1 TATACTCACGATGACACGTAGTCATCGGA
50673321 GCTTTCTCAT
Statistics
Matches: 249, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 249 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.26
Consensus pattern (52 bp):
TATACTCACGATGACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCA
Found at i:50678254 original size:38 final size:38
Alignment explanation
Indices: 50678200--50678314 Score: 176
Period size: 38 Copynumber: 3.0 Consensus size: 38
50678190 TAAATGTTAA
* *
50678200 CATGTGGCACACGTGGCATACCATGTGTTACTGTCTGG
1 CATGTGACACACGTGGCATGCCATGTGTTACTGTCTGG
* * *
50678238 CATGTGACACAGGTGGCATGCCATGTGTTATTGTTTGG
1 CATGTGACACACGTGGCATGCCATGTGTTACTGTCTGG
*
50678276 CATGTGACACACGTGGAATGCCATGTGTTACTGTCTGG
1 CATGTGACACACGTGGCATGCCATGTGTTACTGTCTGG
50678314 C
1 C
50678315 TATTCATCAG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (38 bp):
CATGTGACACACGTGGCATGCCATGTGTTACTGTCTGG
Found at i:50680616 original size:21 final size:20
Alignment explanation
Indices: 50680592--50680642 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
50680582 TTTTGATTAT
50680592 TTAATTTTAAAAAATTATAAA
1 TTAATTTTAAAAAATTA-AAA
**
50680613 TTAATTATTAAACTATTAAAA
1 TTAATT-TTAAAAAATTAAAA
*
50680634 TTATTTTTA
1 TTAATTTTA
50680643 TATAATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 3 0.12
21 14 0.54
22 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAATTTTAAAAAATTAAAA
Found at i:50688518 original size:13 final size:13
Alignment explanation
Indices: 50688500--50688524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50688490 AGCACTACCT
50688500 CTCTCTCTCTCTC
1 CTCTCTCTCTCTC
50688513 CTCTCTCTCTCT
1 CTCTCTCTCTCT
50688525 TCATCTTTAT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (13 bp):
CTCTCTCTCTCTC
Found at i:50690104 original size:11 final size:11
Alignment explanation
Indices: 50690090--50690114 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50690080 AGCCTTTTGC
50690090 TTTTCTTTTCT
1 TTTTCTTTTCT
50690101 TTTTCTTTTCT
1 TTTTCTTTTCT
50690112 TTT
1 TTT
50690115 AACCTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:50690108 original size:16 final size:16
Alignment explanation
Indices: 50690083--50690114 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50690073 AGCACTCAGC
50690083 CTTTTGCTTTTCTTTT
1 CTTTTGCTTTTCTTTT
*
50690099 CTTTTTCTTTTCTTTT
1 CTTTTGCTTTTCTTTT
50690115 AACCTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (16 bp):
CTTTTGCTTTTCTTTT
Found at i:50715042 original size:30 final size:29
Alignment explanation
Indices: 50714980--50715056 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
50714970 TGGTCTAATG
* * * *
50714980 TGCAATTGTATACATGAACTTTGATTTTA
1 TGCAATTTTATACATTAAATTTGATTTGA
50715009 TGCAATTTTATACATTAAATTTCGATTTGA
1 TGCAATTTTATACATTAAATTT-GATTTGA
*
50715039 TGCAATTCTTATAAATTA
1 TGCAATT-TTATACATTA
50715057 TTAACACAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 19 0.46
30 13 0.32
31 9 0.22
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (29 bp):
TGCAATTTTATACATTAAATTTGATTTGA
Found at i:50715254 original size:29 final size:31
Alignment explanation
Indices: 50715180--50715267 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 31
50715170 ATTAAATCAA
* * * *
50715180 AATTAAAGTTTCAAGTATACATTTGAACCAC
1 AATTAAAGTTTCATGTATATAATTGCACCAC
* * *
50715211 AATTAGAGTTTCATGTGTATGATTGCACCA-
1 AATTAAAGTTTCATGTATATAATTGCACCAC
50715241 AATTAAAG-TTCATGTATATAATTGCAC
1 AATTAAAGTTTCATGTATATAATTGCAC
50715268 ATTAAATCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 17 0.36
30 7 0.15
31 23 0.49
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (31 bp):
AATTAAAGTTTCATGTATATAATTGCACCAC
Found at i:50721854 original size:25 final size:23
Alignment explanation
Indices: 50721825--50721870 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
50721815 GTTGGATCCA
50721825 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
50721850 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
50721871 TTCTAACTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:50723519 original size:2 final size:2
Alignment explanation
Indices: 50723512--50723549 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
50723502 AAATATGTAA
50723512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50723550 GATCGTTTCT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50728458 original size:12 final size:11
Alignment explanation
Indices: 50728441--50728487 Score: 67
Period size: 12 Copynumber: 4.0 Consensus size: 11
50728431 TTCGATGAAG
50728441 AAAATAAATAAA
1 AAAATAAA-AAA
50728453 AAAATAAAGAAA
1 AAAATAAA-AAA
50728465 AAAATAAAAATA
1 AAAATAAAAA-A
50728477 AAAATAAAAAA
1 AAAATAAAAAA
50728488 GAGAAAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 3 0.09
12 30 0.91
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:50728471 original size:20 final size:20
Alignment explanation
Indices: 50728438--50728487 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
50728428 GAATTCGATG
50728438 AAGAAAATAAATAAAAA-AATA
1 AAGAAAA-AAATAAAAATAA-A
50728459 AAGAAAAAAATAAAAATAAA
1 AAGAAAAAAATAAAAATAAA
*
50728479 AATAAAAAA
1 AAGAAAAAA
50728488 GAGAAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.12
Consensus pattern (20 bp):
AAGAAAAAAATAAAAATAAA
Found at i:50728479 original size:5 final size:6
Alignment explanation
Indices: 50728441--50728486 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
50728431 TTCGATGAAG
50728441 AAAATA AATAA-A AAAATA AAGAA-A AAAATA AAAATA AAAATA AAAA
1 AAAATA AA-AATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAAA
50728487 AGAGAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 4 0.11
6 28 0.78
7 4 0.11
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:50729678 original size:46 final size:46
Alignment explanation
Indices: 50729611--50729747 Score: 197
Period size: 46 Copynumber: 3.0 Consensus size: 46
50729601 AAGACCTTCC
*
50729611 AGTCAAGAGGGGCAAATTGAAGGCACATTCCAATCTTTTACCCTTA
1 AGTCAAGAGGGGCAGATTGAAGGCACATTCCAATCTTTTACCCTTA
* * *
50729657 AGTCAAGAGGGGCAGATTGAAGCCATATTTCAATCTTTTACCCTTA
1 AGTCAAGAGGGGCAGATTGAAGGCACATTCCAATCTTTTACCCTTA
* * *
50729703 AATCAAGAGGGGCAGATTGAA-G-TCATTCTAATCTTTTACCCTTA
1 AGTCAAGAGGGGCAGATTGAAGGCACATTCCAATCTTTTACCCTTA
50729747 A
1 A
50729748 TCTGTAATGA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 19 0.23
46 62 0.77
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (46 bp):
AGTCAAGAGGGGCAGATTGAAGGCACATTCCAATCTTTTACCCTTA
Found at i:50731035 original size:41 final size:40
Alignment explanation
Indices: 50730988--50731087 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 40
50730978 CGACCGTGAG
** *
50730988 TCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAGA
1 TCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGA
** *
50731028 TTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAGA
1 -TCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGA
*
50731066 CCGATGAGACACTGGGTGTCAC
1 TCGATGAGACACTGGGTGTCAC
50731088 TTTATTGCTT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
37 10 0.21
38 18 0.38
39 4 0.09
40 4 0.09
41 11 0.23
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGA
Found at i:50731080 original size:37 final size:38
Alignment explanation
Indices: 50731013--50731091 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
50731003 GTGTCATTAT
* **
50731013 TTTACTTCGGATAGATTCGATGAGGTACTGGGTACCAC
1 TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
* **
50731051 TTTACTTCGGCTAGA-CCGATGAGACACTGGGTGTCAC
1 TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
50731088 TTTA
1 TTTA
50731092 TTGCTTCGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 21 0.60
38 14 0.40
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (38 bp):
TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
Found at i:50738184 original size:37 final size:38
Alignment explanation
Indices: 50738117--50738195 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
50738107 GTGTCATTAT
* **
50738117 TTTACTTCGGATAGATTCGATGAGGTACTGGGTACCAC
1 TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
* **
50738155 TTTACTTCGGCTAGA-CCGATGAGACACTGGGTGTCAC
1 TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
50738192 TTTA
1 TTTA
50738196 TTCCTTCGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 21 0.60
38 14 0.40
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (38 bp):
TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
Found at i:50739247 original size:44 final size:46
Alignment explanation
Indices: 50739184--50739308 Score: 159
Period size: 45 Copynumber: 2.8 Consensus size: 46
50739174 CAGATTTAAG
* * *
50739184 ATTCCAATCTTTAATCCCTAAGTCAAGAGGGGTAGATTAAAG-C-C
1 ATTCCAATATTTTACCCCTAAGTCAAGAGGGGTAGATTAAAGCCAC
*
50739228 ATTCCAATATTTTACCCCTAA-TCAAGAGGGGTAGATTGAAGCCAC
1 ATTCCAATATTTTACCCCTAAGTCAAGAGGGGTAGATTAAAGCCAC
* * *
50739273 ATTCTAATTTTTTACCCCT-AGTCAAGAGGGATAGAT
1 ATTCCAATATTTTACCCCTAAGTCAAGAGGGGTAGAT
50739309 CAAAACTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
43 19 0.27
44 20 0.28
45 32 0.45
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (46 bp):
ATTCCAATATTTTACCCCTAAGTCAAGAGGGGTAGATTAAAGCCAC
Found at i:50740326 original size:209 final size:209
Alignment explanation
Indices: 50739318--50741975 Score: 2830
Period size: 209 Copynumber: 12.7 Consensus size: 209
50739308 TCAAAACTTT
* * * ** * * *
50739318 TCTTCTTGATGAGATACAAAGAAGT-GAACCAATTTAATGAAGCGATGCTCAATGTGAATGAGAC
1 TCTTCCTGATGAGATACTAAGAAGTAG-ACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAAC
* * * * * *
50739382 TTCAAA-CCCTACCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTC
65 TTCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTT
* ** * *
50739446 CTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTTTTGATGAGATACAGAGAAGTGGGTTGAA
130 CTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAA
* ** *
50739511 ACAAAGAGGCAATCT
195 ACAATGAGGCGGTCA
* * * * * * * * *
50739526 TTTTCCTGATGAGATAC-AGAGAAATACACCAAATCAATGAAGCAAAGTTCAAT-AGAATGAGAC
1 TCTTCCTGATGAGATACTA-AGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAAC
* * * ** * ** * * *
50739589 TTTAAA-CCCCATCTTCCTTATGAGATATAGAGAAGTAAGTCAAAGCAATAAAACGATCATCTTC
65 TTCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTT
* * * * * * *
50739653 CTGATAAGATATAAAGAAGT-ATACCAAATCCGTCTTCTTAATGAGATATAAAGAAGTGGATTAA
130 CTGATGAGATACAGAGAAGTGA-ACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAA
* *
50739717 AACAATGAGGCAGTAA
194 AACAATGAGGCGGTCA
* * * * **
50739733 TCTTCCTGATGAGATATTGAGAAGTAGACCAAATTGATTAAGCGAAGCTCAATACGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * *
50739798 TCAAA-CCCCATCTTCCTAATGAGATACA-AAAAATGGGTCGAAGCAATAAAGTGGTAATCTTCC
66 TCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTTC
* * ** *
50739861 TGATGAGACACAGAGAAGTGAACAAAATTTGTCTTCCTGATGAGATACAGAAAAGTGGATTAAAA
131 TGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAA
* *
50739926 TAATGAGGTGGTCA
196 CAATGAGGCGGTCA
* * * * * **
50739940 TATTCATGATGAGATACTGAGAAGTAGACCTAATCGATGATGCGAAGCTCAATACGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * *
50740005 TCAAAT-CCTATCTTCCTGGTGAGATACAGAGAAGTAGGTCGAAGCAATAAAGTGGTAATCTTGT
66 TCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTT-T
* ** * * * * * * *
50740069 -TGACGAGACGCAAAAAAGTGAACCAAATCCGTGTTTCTCATGAGATACAAAGAAGCGGATTAAA
130 CTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAA
*
50740133 ACAATGAGGTGGTCA
195 ACAATGAGGCGGTCA
50740148 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
** *
50740213 TCAAATCCTTATCTTCCTGATGAGATACAGAGAAGTGAGTCGAAGCAATAAAGTGGTAATCTTTC
66 TCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTTC
* * * * * *
50740278 TGACGAGA-AGTAGAGAAGTGAACCAAATCCGTCTTCTTGATGAGATACAAAAAAGTGAATTAAA
131 TGATGAGATA-CAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAA
* *
50740342 ATAATGAGGCGGTTA
195 ACAATGAGGCGGTCA
* * ** * *
50740357 TCTTCCTGATAAGATACTAAGAAGTAGACCAAATCAATTTAGCGAAGCTCAATGTGAATGAAGCT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * *
50740422 TCAAATCCCCATTTTCCTGATGAAATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTCC
66 TCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTTC
* * ** *
50740487 TAACGAGACGCAAAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAA
131 TGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAA
**
50740552 CAATGAGGCAATCA
196 CAATGAGGCGGTCA
* * * * *
50740566 TCTTCCTGATGAGATACTGAGAAGTGGACCAAATCGATAAAGCAAAGCTTAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * *
50740631 TCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCA-CTTTC
66 TCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTT-
* * ** * * *
50740695 CTGAGGAGATACAGAGAAGAGAACCAAATCTATCTTCCTAATGAGATAAAGAGAAGTAGATTAAA
130 CTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAA
* * *
50740760 CCAA-GAAGCGGCCA
195 ACAATGAGGCGGTCA
* * * * * *
50740774 TCTTTCTAATGAGATACAAAGAAGTAGACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * * * *
50740839 TCCAA-CGCTCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAACCAATAAAGTGATAATC-TT
66 TCAAATC-CCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTT
* **
50740902 CTTGACGAGACGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAA
130 C-TGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAA
* *
50740967 AACAATGAGACAGTCA
194 AACAATGAGGCGGTCA
* *
50740983 TCTTCCTGATGAGATACTGAGAAGCAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * * * * *
50741048 TCAAATCTCCATCTTCTTGATAAGATACAAAGAAATGGGTCAAAGCAATAAAGTGATAATC-TTC
66 TCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTTC
* * *
50741112 TTGATGAGATGCAGAGAAGTGAACCAAATTCGTCTTCCTTATGAGATACAGAGAAGTGGATTAAA
131 -TGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAA
* *
50741177 ATAATGAGGCAGTCA
195 ACAATGAGGCGGTCA
* * *
50741192 TCTCCCTGATGAGATACTAAAAAGTAGACCAAATCGATAAAGCGAAGCTCAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * * * *
50741257 TCAAAT-CTCATCTTCCT-ATTGAGATATAGAAAAATGGATCGAAGCAATAAAGTGGTAATATTT
66 TCAAATCCCCATCTTCCTGA-TGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTT
* * * * *
50741320 CTGACGAGATGCAGAGAAGTGAACCAATTCCGTCTTCTTGATGAGATACAGAGAAGTGGATTACA
130 CTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAA
* * **
50741385 ACAATGACGTGACCA
195 ACAATGAGGCGGTCA
* * * **
50741400 TCTTCCTGATAAGATATTGAGAAGTAGACCAAATCGATTTAGCGAAGCTCAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * * ** *
50741465 TTAAATCCCCATCTTCCTGATAAGATACAAAGAAGTGGGTCAAAGCAATAAAGCAGTCA-CTTTC
66 TCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTTC
* *
50741529 TTGATGAGATACAGAGAAGTGAACCAAATTCATCTTCCTGATGAGATACAGAGAAGTGGATTAAA
131 -TGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAA
* *
50741594 GCAA-GAAGCGGTCA
195 ACAATGAGGCGGTCA
* * * *
50741608 TCTTCTTGATGAGATAC-AGAGAAGTAGACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAAC
1 TCTTCCTGATGAGATACTA-AGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAAC
* * * * * *
50741672 TTC-CATCGCTCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAGCAATAAAGCGGTCATCTT
65 TTCAAATC-CCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTT
* * * *
50741736 CCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCACCTTCCTGATGAGATACAGAG
129 TCTGATGAGATACAGAGAAGT--G---AA-C--CAAATCCGT---CTTCCTGATGAGATACAGAG
* * * *
50741801 AAATGGATTAAACCAA-GAAGCGATCA
183 AAGTGGATTAAAACAATGAGGCGGTCA
* * * * *
50741827 TCTTCCTGATGAGATACAAAGAAGTAAACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAAC-
* * * *
50741892 TTC-AA-CGTCTATCTTCTTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGCT-GTCATCT
65 TTCAAATC-CCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAG-TGGTAATCT
*
50741954 TTTTGATGAGATACAGAGAAGT
128 TTCTGATGAGATACAGAGAAGT
50741976 AGACCAAGAA
Statistics
Matches: 2074, Mismatches: 335, Indels: 71
0.84 0.14 0.03
Matches are distributed among these distances:
207 345 0.17
208 710 0.34
209 830 0.40
210 3 0.00
213 2 0.00
214 1 0.00
216 4 0.00
219 174 0.08
220 5 0.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (209 bp):
TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
TCAAATCCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTTC
TGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAA
CAATGAGGCGGTCA
Found at i:50740632 original size:626 final size:626
Alignment explanation
Indices: 50739318--50741975 Score: 2875
Period size: 626 Copynumber: 4.2 Consensus size: 626
50739308 TCAAAACTTT
* * * ** * * *
50739318 TCTTCTTGATGAGATACAAAGAAGT-GAACCAATTTAATGAAGCGATGCTCAATGTGAATGAGAC
1 TCTTCCTGATGAGATACTAAGAAGTAG-ACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAAC
* * * * * *
50739382 TTCAAACCCTACCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCATCTTCC
65 TTCAAATCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTTC
* * * * * *
50739447 TGATGAGATACAGAGAAGTGGACCAAATCCGTCTTTTTGATGAGATACAGAGAAGTGGGTTGAAA
130 TGACGAGATACAGAGAAGTGAACCAAATCCGTCTTTCTGATGAGATACAAAGAAGTGGATTAAAA
* * * * * * * * *
50739512 CAAAGAGGCAATCTTTTTCCTGATGAGATAC-AGAGAAATACACCAAATCAATGAAGCAAAGTTC
195 CAATGAGGCGACCATCTTCCTGATGAGATACTA-AGAAGTAGACCAAATCAATGAAGCGAAGCTC
* * * * * * * *
50739576 AAT-AGAATGAGACTTTAAACCCCATCTTCCTTATGAGATATAGAGAAGTAAGTCAAAGCAATAA
259 AATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAATAA
* * * ** * * * * *
50739640 AACGATCATC-TTCCTGATAAGATATAAAGAAGT-ATACCAAATCCGTCTTCTTAATGAGATATA
324 AGCGATAATCTTTCTTGACGAGATACAGAGAAGTGA-ACCAAATCCGTCTTCCTGATGAGATACA
* * * *
50739703 AAGAAGTGGATTAAAACAATGAGGCAGTAATCTTCCTGATGAGATATTGAGAAGTAGACCAAATT
388 AAGAAGTGGATTAAAACAATGAGGCAGTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATC
* * ** * * *
50739768 GATTAAGCGAAGCTCAATACGAGTGAAACTTCAAA-CCCCATCTTCCTAATGAGATACA-AAAAA
453 AATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAATCCCCATCTTCCTGATGAAATACAGAGAAA
* **
50739831 TGGGTCGAAGCAATAAAGTGGTAATCTTCCTGATGAGACACAGAGAAGTGAACAAAATTTGTCTT
518 TGGGTCGAAGCAATAAAGTGGTAATCTTCCTGATGAGACACAGAGAAGTGAACCAAATCCGTCTT
* * ***
50739896 CCTGATGAGATACAGAAAAGTGGATTAAAATAATGAGGTGGTCA
583 CCTGATGAGATACAGAGAAGTGGATTAAAACAATGAGGCAATCA
* * * * * **
50739940 TATTCATGATGAGATACTGAGAAGTAGACCTAATCGATGATGCGAAGCTCAATACGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* *
50740005 TCAAATCCTATCTTCCTGGTGAGATACAGAGAAGTAGGTCGAAGCAATAAAGTGGTAATCTTGT-
66 TCAAATCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTT-TC
** * * * * *
50740069 TGACGAGACGCAAAAAAGTGAACCAAATCCGTGTTTCTCATGAGATACAAAGAAGCGGATTAAAA
130 TGACGAGATACAGAGAAGTGAACCAAATCCGTCTTTCTGATGAGATACAAAGAAGTGGATTAAAA
* ** *
50740134 CAATGAGGTGGTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCA
195 CAATGAGGCGACCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAGCGAAGCTCA
** * *
50740199 ATGTGAGTGAAACTTCAAATCCTTATCTTCCTGATGAGATACAGAGAAGTGAGTCGAAGCAATAA
260 ATGTGAGTGAAACTTCAAA-CCCCATCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAATAA
* * * *
50740264 AGTGGTAATCTTTC-TGACGAGA-AGTAGAGAAGTGAACCAAATCCGTCTTCTTGATGAGATACA
324 AGCGATAATCTTTCTTGACGAGATA-CAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACA
* * * * * *
50740327 AAAAAGTGAATTAAAATAATGAGGCGGTTATCTTCCTGATAAGATACTAAGAAGTAGACCAAATC
388 AAGAAGTGGATTAAAACAATGAGGCAGTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATC
** * * * *
50740392 AATTTAGCGAAGCTCAATGTGAATGAAGCTTCAAATCCCCATTTTCCTGATGAAATACAGAGAAG
453 AATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAATCCCCATCTTCCTGATGAAATACAGAGAAA
* * * *
50740457 TGGGTCGAAGCAATAAAGTGGTAATCTTCCTAACGAGACGCAAAGAAGTGAACCAAATCCGTCTT
518 TGGGTCGAAGCAATAAAGTGGTAATCTTCCTGATGAGACACAGAGAAGTGAACCAAATCCGTCTT
50740522 CCTGATGAGATACAGAGAAGTGGATTAAAACAATGAGGCAATCA
583 CCTGATGAGATACAGAGAAGTGGATTAAAACAATGAGGCAATCA
* * * * *
50740566 TCTTCCTGATGAGATACTGAGAAGTGGACCAAATCGATAAAGCAAAGCTTAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * * *
50740631 TCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCA-CTTTC
66 TCAAAT-CCTATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTT-
* * ** * * *
50740695 CTGAGGAGATACAGAGAAGAGAACCAAATCTATCTTCCTAATGAGATA-AAGAGAAGTAGATTAA
129 CTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTTCTGATGAGATACAA-AGAAGTGGATTAA
* * * * * * *
50740759 ACCAA-GAAGCGGCCATCTTTCTAATGAGATACAAAGAAGTAGACCAATTCAATGAAGCGAAGCT
193 AACAATGAGGCGACCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAGCGAAGCT
* * * * *
50740823 CAACGTGAGTGAAACTTCCAACGCTCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAACCAAT
258 CAATGTGAGTGAAACTTCAAAC-CCCATCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAAT
* **
50740888 AAAGTGATAATC-TTCTTGACGAGACGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATAC
322 AAAGCGATAATCTTTCTTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATAC
* * * *
50740952 AGAGAAGTGGATTAAAACAATGAGACAGTCATCTTCCTGATGAGATACTGAGAAGCAGACCAAAT
387 AAAGAAGTGGATTAAAACAATGAGGCAGTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAAT
* * * *
50741017 CGATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAATCTCCATCTTCTTGAT-AAGATACAAAGA
452 CAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAATCCCCATCTTCCTGATGAA-ATACAGAGA
* * * ** *
50741081 AATGGGTCAAAGCAATAAAGTGATAATCTTCTTGATGAGATGCAGAGAAGTGAACCAAATTCGTC
516 AATGGGTCGAAGCAATAAAGTGGTAATCTTCCTGATGAGACACAGAGAAGTGAACCAAATCCGTC
* * *
50741146 TTCCTTATGAGATACAGAGAAGTGGATTAAAATAATGAGGCAGTCA
581 TTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAGGCAATCA
* * *
50741192 TCTCCCTGATGAGATACTAAAAAGTAGACCAAATCGATAAAGCGAAGCTCAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * * *
50741257 TCAAAT-CTCATCTTCCT-ATTGAGATATAGAAAAATGGATCGAAGCAATAAAGTGGTAATATTT
66 TCAAATCCT-ATCTTCCTGA-TGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTT
* * * *
50741320 CTGACGAGATGCAGAGAAGTGAACCAATTCCGTC-TTCTTGATGAGATACAGAGAAGTGGATTAC
129 CTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTTC-TGATGAGATACAAAGAAGTGGATTAA
* * * * * * **
50741384 AACAATGACGTGACCATCTTCCTGATAAGATATTGAGAAGTAGACCAAATCGATTTAGCGAAGCT
193 AACAATGAGGCGACCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAGCGAAGCT
* * *
50741449 CAATGTGAGTGAAACTTTAAATCCCCATCTTCCTGATAAGATACAAAGAAGTGGGTCAAAGCAAT
258 CAATGTGAGTGAAACTTCAAA-CCCCATCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAAT
* * * *
50741514 AAAGC-AGTCA-CTTTCTTGATGAGATACAGAGAAGTGAACCAAATTCATCTTCCTGATGAGATA
322 AAAGCGA-TAATCTTTCTTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATA
* * * * *
50741577 CAGAGAAGTGGATTAAAGCAA-GAAGCGGTCATCTTCTTGATGAGATAC-AGAGAAGTAGACCAA
386 CAAAGAAGTGGATTAAAACAATGAGGCAGTCATCTTCCTGATGAGATACTA-AGAAGTAGACCAA
* * * * * *
50741640 TTCAATGAAGCGAAGCTCAACGTGAGTGAAACTTC-CATCGCTCATCTTCTTGATGAGATACAGA
450 ATCAATGAAGCGAAGCTCAATGTGAGTGAAACTTCAAATC-CCCATCTTCCTGATGAAATACAGA
* * * * *
50741704 GAAGTGGATCGAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAA
514 GAAATGGGTCGAAGCAATAAAGTGGTAATCTTCCTGATGAGACACAGAGAAGT--G---AA-C--
* * * * * * *
50741769 TAAAGCGGTCACCTTCCTGATGAGATACAGAGAAATGGATTAAACCAA-GAAGCGATCA
571 CAAATCCGT---CTTCCTGATGAGATACAGAGAAGTGGATTAAAACAATGAGGCAATCA
* * * * *
50741827 TCTTCCTGATGAGATACAAAGAAGTAAACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAACT
1 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAAC-
* * *
50741892 TTCAACGT-CTATCTTCTTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGCT-GTCATCTT
65 TTCAA-ATCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAG-TGGTAATCTT
* *
50741955 TTTGATGAGATACAGAGAAGT
128 TCTGACGAGATACAGAGAAGT
50741976 AGACCAAGAA
Statistics
Matches: 1706, Mismatches: 285, Indels: 76
0.83 0.14 0.04
Matches are distributed among these distances:
622 210 0.12
623 15 0.01
624 177 0.10
625 254 0.15
626 779 0.46
627 98 0.06
630 2 0.00
631 1 0.00
633 5 0.00
635 63 0.04
636 97 0.06
637 5 0.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (626 bp):
TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
TCAAATCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGTGGTAATCTTTCT
GACGAGATACAGAGAAGTGAACCAAATCCGTCTTTCTGATGAGATACAAAGAAGTGGATTAAAAC
AATGAGGCGACCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAA
TGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAATAAAG
CGATAATCTTTCTTGACGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAG
AAGTGGATTAAAACAATGAGGCAGTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAAT
GAAGCGAAGCTCAATGTGAGTGAAACTTCAAATCCCCATCTTCCTGATGAAATACAGAGAAATGG
GTCGAAGCAATAAAGTGGTAATCTTCCTGATGAGACACAGAGAAGTGAACCAAATCCGTCTTCCT
GATGAGATACAGAGAAGTGGATTAAAACAATGAGGCAATCA
Found at i:50740986 original size:417 final size:417
Alignment explanation
Indices: 50739318--50741975 Score: 2863
Period size: 417 Copynumber: 6.4 Consensus size: 417
50739308 TCAAAACTTT
* ** * ** * * *
50739318 TCTTCTTGATGAGATACAAAGAAGT-GAACCAATTTAATGAAGCGATGCTCAATGTGAATGAGAC
1 TCTTCCTGATGAGATACTGAGAAGTAG-ACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAAC
* * * *
50739382 TTCAAA-CCCTACCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCA-TCTT
65 TTCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCACT-TT
* * ** * *
50739445 CCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTTTTGATGAGATACAGAGAAGTGGGTTGA
129 CCTGATGAGATACAGAGAAGTGAACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAA
* * ** * * * * * *
50739510 AACAAAGAGGCAATC-TTTTTCCTGATGAGATACAGAGAAATACACCAAATCAATGAAGCAAAGT
194 AACAATGAAGCGGTCATCTTT-CTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGC
* * * * * * * ** *
50739574 TCAAT-AGAATGAGACTTTAAACCCCATCTTCCTTATGAGATATAGAGAAGTAAGTCAAAGCAAT
258 TCAATGTGAGTGAAACTTCAAACCTCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAAT
** * * ** *** * * *
50739638 AAAACGATCATCTTCCTGATAAGATATAAAGAAGT-ATACCAAATCCGTCTTCTTAATGAGATAT
323 AAAGTGGTAATCTTCCTGACGAGACGCAAAGAAGTGA-ACCAAATCCGTCTTCCTGATGAGATAC
* *
50739702 AAAGAAGTGGATTAAAACAATGAGGCAGTAA
387 AGAGAAGTGGATTAAAACAATGAGGCAGTCA
* * * **
50739733 TCTTCCTGATGAGATATTGAGAAGTAGACCAAATTGATTAAGCGAAGCTCAATACGAGTGAAACT
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * *
50739798 TCAAA-CCCCATCTTCCTAATGAGATACAAA-AAATGGGTCGAAGCAATAAAGTGGT-AATCTTC
66 TCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCACT-TTC
* * * *
50739860 CTGATGAGACACAGAGAAGTGAACAAAATTTGTCTTCCTGATGAGATACAGAAAAGTGGATTAAA
130 CTGATGAGATACAGAGAAGTGAACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAAA
* * * * ** * * *
50739925 ATAATGAGGTGGTCAT-ATTCATGATGAGATACTGAGAAGTAGACCTAATCGATGATGCGAAGCT
195 ACAATGAAGCGGTCATCTTTC-TGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCT
** * *
50739989 CAATACGAGTGAAACTTCAAATCCT-ATCTTCCTGGTGAGATACAGAGAAGTAGGTCGAAGCAAT
259 CAATGTGAGTGAAACTTCAAA-CCTCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAAT
** * * * *
50740053 AAAGTGGTAATCTTGTTGACGAGACGCAAAAAAGTGAACCAAATCCGTGTTTCTCATGAGATACA
323 AAAGTGGTAATCTTCCTGACGAGACGCAAAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACA
* * **
50740118 AAGAAGCGGATTAAAACAATGAGGTGGTCA
388 GAGAAGTGGATTAAAACAATGAGGCAGTCA
*
50740148 TCTTCCTGATGAGATACTAAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
** * * * *
50740213 TCAAATCCTTATCTTCCTGATGAGATACAGAGAAGTGAGTCGAAGCAATAAAGTGGTAATCTTT-
66 TCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCA-CTTTC
* * * * * * *
50740277 CTGACGAGA-AGTAGAGAAGTGAACCAAATCCGTCTTCTTGATGAGATACAAAAAAGTGAATTAA
130 CTGATGAGATA-CAGAGAAGTGAACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAA
* * * * * * **
50740341 AATAATGAGGCGGTTATCTTCCTGATAAGATACTAAGAAGTAGACCAAATCAATTTAGCGAAGCT
194 AACAATGAAGCGGTCATCTTTCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCT
* * * * *
50740406 CAATGTGAATGAAGCTTCAAATCCCCATTTTCCTGATGAAATACAGAGAAGTGGGTCGAAGCAAT
259 CAATGTGAGTGAAACTTCAAA-CCTCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAAT
*
50740471 AAAGTGGTAATCTTCCTAACGAGACGCAAAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACA
323 AAAGTGGTAATCTTCCTGACGAGACGCAAAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACA
*
50740536 GAGAAGTGGATTAAAACAATGAGGCAATCA
388 GAGAAGTGGATTAAAACAATGAGGCAGTCA
* * * *
50740566 TCTTCCTGATGAGATACTGAGAAGTGGACCAAATCGATAAAGCAAAGCTTAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
*
50740631 TCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCACTTTCC
66 TCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCACTTTCC
* * * * * * *
50740696 TGAGGAGATACAGAGAAGAGAACCAAATCTATCTTCCTAATGAGATAAAGAGAAGTAGATTAAAC
131 TGATGAGATACAGAGAAGTGAACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAA
* * *
50740761 CAA-GAAGCGGCCATCTTTCTAATGAGATACAAAGAAGTAGACCAATTCAATGAAGCGAAGCTCA
196 CAATGAAGCGGTCATCTTTCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCA
* * * * *
50740825 ACGTGAGTGAAACTTCCAACGCTCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAACCAATAA
261 ATGTGAGTGAAACTTCAAAC-CTCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAA
* * *
50740890 AGTGATAATCTTCTTGACGAGACGCAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGA
325 AGTGGTAATCTTCCTGACGAGACGCAAAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGA
*
50740955 GAAGTGGATTAAAACAATGAGACAGTCA
390 GAAGTGGATTAAAACAATGAGGCAGTCA
*
50740983 TCTTCCTGATGAGATACTGAGAAGCAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * * * * *
50741048 TCAAATCTCCATCTTCTTGATAAGATACAAAGAAATGGGTCAAAGCAATAAAGTGAT-AATCTTC
66 TCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCACT-TTC
* * *
50741112 TTGATGAGATGCAGAGAAGTGAACCAAAT-TCGTCTTCCTTATGAGATACAGAGAAGTGGATTAA
130 CTGATGAGATACAGAGAAGTGAACCAAATCT-GTCTTCCTGATGAGATACAGAGAAGTGGATTAA
* * * ** * *
50741176 AATAATGAGGCAGTCATCTCCCTGATGAGATACTAAA-AAGTAGACCAAATCGATAAAGCGAAGC
194 AACAATGAAGCGGTCATCTTTCTGATGAGATAC-AAAGAAGTAGACCAAATCAATGAAGCGAAGC
* * * * *
50741240 TCAATGTGAGTGAAACTTCAAATCTCATCTTCCT-ATTGAGATATAGAAAAATGGATCGAAGCAA
258 TCAATGTGAGTGAAACTTCAAACCTCATCTTCCTGA-TGAGATACAGAGAAGTGGGTCGAAGCAA
* * * * * *
50741304 TAAAGTGGTAATATTTCTGACGAGATGCAGAGAAGTGAACCAATTCCGTCTTCTTGATGAGATAC
322 TAAAGTGGTAATCTTCCTGACGAGACGCAAAGAAGTGAACCAAATCCGTCTTCCTGATGAGATAC
* *
50741369 AGAGAAGTGGATTACAACAATGACGTG-A-CCA
387 AGAGAAGTGGATTAAAACAATGA-G-GCAGTCA
* * **
50741400 TCTTCCTGATAAGATATTGAGAAGTAGACCAAATCGATTTAGCGAAGCTCAATGTGAGTGAAACT
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
* * ** *
50741465 TTAAATCCCCATCTTCCTGATAAGATACAAAGAAGTGGGTCAAAGCAATAAAGCAGTCACTTTCT
66 TCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCACTTTCC
*
50741530 TGATGAGATACAGAGAAGTGAACCAAAT-TCATCTTCCTGATGAGATACAGAGAAGTGGATTAAA
131 TGATGAGATACAGAGAAGTGAACCAAATCT-GTCTTCCTGATGAGATACAGAGAAGTGGATTAAA
* * *
50741594 GCAA-GAAGCGGTCATC-TTCTTGATGAGATACAGAGAAGTAGACCAATTCAATGAAGCGAAGCT
195 ACAATGAAGCGGTCATCTTTC-TGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCT
* * * * *
50741657 CAACGTGAGTGAAACTTCCATCGCTCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAGCAAT
259 CAATGTGAGTGAAACTTCAAAC-CTCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAAT
* * * ** * * * *
50741722 AAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCACCTTCCT
323 AAAGTGGTAATCTTCCTGACGAGACGCAAAGAAGT--G---AA-C--CAAATCCGT---CTTCCT
* * *
50741787 GATGAGATACAGAGAAATGGATTAAACCAA-GAAGC-GATCA
377 GATGAGATACAGAGAAGTGGATTAAAACAATGAGGCAG-TCA
** * * * *
50741827 TCTTCCTGATGAGATACAAAGAAGTAAACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAACT
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAAC-
* * * * *
50741892 TTC-AA-CGTCTATCTTCTTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGCT-GTCATCT
65 TTCAAATC-CCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAG-TGGTCA-CT
*
50741954 TT-TTGATGAGATACAGAGAAGT
127 TTCCTGATGAGATACAGAGAAGT
50741976 AGACCAAGAA
Statistics
Matches: 1898, Mismatches: 298, Indels: 82
0.83 0.13 0.04
Matches are distributed among these distances:
413 2 0.00
414 133 0.07
415 262 0.14
416 95 0.05
417 870 0.46
418 358 0.19
419 6 0.00
422 2 0.00
423 1 0.00
425 6 0.00
426 1 0.00
427 124 0.07
428 38 0.02
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (417 bp):
TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAAACT
TCAAATCCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGTGGTCACTTTCC
TGATGAGATACAGAGAAGTGAACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAA
CAATGAAGCGGTCATCTTTCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCA
ATGTGAGTGAAACTTCAAACCTCATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAA
GTGGTAATCTTCCTGACGAGACGCAAAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAG
AAGTGGATTAAAACAATGAGGCAGTCA
Found at i:50741752 original size:48 final size:48
Alignment explanation
Indices: 50741681--50741851 Score: 245
Period size: 48 Copynumber: 3.6 Consensus size: 48
50741671 CTTCCATCGC
* *
50741681 TCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAGCAATAAAGCGG
1 TCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGG
*
50741729 TCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGG
1 TCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGG
* * * * * *
50741777 TCACCTTCCTGATGAGATACAGAGAAATGGATTAAACCAA-GAAGCGA
1 TCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGG
*
50741824 TCATCTTCCTGATGAGATACAAAGAAGT
1 TCATCTTCCTGATGAGATACAGAGAAGT
50741852 AAACCAATTC
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 30 0.27
48 80 0.73
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (48 bp):
TCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGG
Found at i:50741870 original size:95 final size:96
Alignment explanation
Indices: 50741685--50741858 Score: 233
Period size: 95 Copynumber: 1.8 Consensus size: 96
50741675 CATCGCTCAT
* * * * *
50741685 CTTCTTGATGAGATACAGAGAAGTGGATCGAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAATGGATCAAACCAATAAAGCGATCATCTTCCTGATGAGATACA
* ****
50741750 GAGAAGTGGGTCAAAGCAATAAAGCGGTCAC
66 AAGAAGTAAACCAAAGCAATAAAGCGGTCAC
* *
50741781 CTTCCTGATGAGATACAGAGAAATGGATTAAACCAA-GAAGCGATCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAATGGATCAAACCAATAAAGCGATCATCTTCCTGATGAGATACA
50741845 AAGAAGTAAACCAA
66 AAGAAGTAAACCAA
50741859 TTCAATGAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 35 0.53
96 31 0.47
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.21
Consensus pattern (96 bp):
CTTCCTGATGAGATACAGAGAAATGGATCAAACCAATAAAGCGATCATCTTCCTGATGAGATACA
AAGAAGTAAACCAAAGCAATAAAGCGGTCAC
Found at i:50741941 original size:219 final size:219
Alignment explanation
Indices: 50741562--50741975 Score: 704
Period size: 219 Copynumber: 1.9 Consensus size: 219
50741552 CCAAATTCAT
* * * * *
50741562 CTTCCTGATGAGATACAGAGAAGTGGATTAAAGCAAGAAGCGGTCATCTTCTTGATGAGATACAG
1 CTTCCTGATGAGATACAGAGAAATGGATTAAACCAAGAAGCGATCATCTTCCTGATGAGATACAA
* *
50741627 AGAAGTAGACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAACTTCCATCGCTCATCTTCTTG
66 AGAAGTAAACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAACTTCCAACGCTCATCTTCTTG
50741692 ATGAGATACAGAGAAGTGGATCGAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGT
131 ATGAGATACAGAGAAGTGGATCGAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGT
50741757 GGGTCAAAGCAATAAAGCGGTCAC
196 GGGTCAAAGCAATAAAGCGGTCAC
50741781 CTTCCTGATGAGATACAGAGAAATGGATTAAACCAAGAAGCGATCATCTTCCTGATGAGATACAA
1 CTTCCTGATGAGATACAGAGAAATGGATTAAACCAAGAAGCGATCATCTTCCTGATGAGATACAA
*
50741846 AGAAGTAAACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAACTTTCAACG-TCTATCTTCTT
66 AGAAGTAAACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAACTTCCAACGCTC-ATCTTCTT
* * **
50741910 GATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGCTGTCATCTTTTTGATGAGATACAGAGAAG
130 GATGAGATACAGAGAAGTGGATCGAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAG
50741975 T
195 T
50741976 AGACCAAGAA
Statistics
Matches: 182, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
218 2 0.01
219 180 0.99
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (219 bp):
CTTCCTGATGAGATACAGAGAAATGGATTAAACCAAGAAGCGATCATCTTCCTGATGAGATACAA
AGAAGTAAACCAATTCAATGAAGCGAAGCTCAACGTGAGTGAAACTTCCAACGCTCATCTTCTTG
ATGAGATACAGAGAAGTGGATCGAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGT
GGGTCAAAGCAATAAAGCGGTCAC
Found at i:50747169 original size:30 final size:30
Alignment explanation
Indices: 50747149--50747239 Score: 98
Period size: 30 Copynumber: 2.9 Consensus size: 30
50747139 ACAATAGACA
50747149 AATAACAAATAA-AATAAAATAAATAATAAT
1 AATAAC-AATAATAATAAAATAAATAATAAT
50747179 AATAACAATAATAATAAAATAATGATAA-AACT
1 AATAACAATAATAATAAAATAA--ATAATAA-T
*
50747211 AAATAACAAATAATAATAAGA-AAATAATA
1 -AATAAC-AATAATAATAAAATAAATAATA
50747240 TTAAAATAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
29 5 0.09
30 16 0.30
31 6 0.11
32 6 0.11
33 8 0.15
34 12 0.23
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (30 bp):
AATAACAATAATAATAAAATAAATAATAAT
Found at i:50747178 original size:3 final size:3
Alignment explanation
Indices: 50747156--50747248 Score: 63
Period size: 3 Copynumber: 31.7 Consensus size: 3
50747146 ACAAATAACA
*
50747156 AAT AA- AAT AA- AAT AAAT AAT AAT AAT AAC AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
50747199 AAT GAT AA- AACT AAAT AACA AAT AAT AAT AAG AA- AAT AAT ATT AA-
1 AAT AAT AAT AA-T -AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
50747244 AAT AA
1 AAT AA
50747249 CAAAAAGTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
2 12 0.17
3 51 0.72
4 6 0.08
5 2 0.03
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:50747993 original size:117 final size:117
Alignment explanation
Indices: 50747743--50747995 Score: 278
Period size: 117 Copynumber: 2.2 Consensus size: 117
50747733 GTGACGATCG
* * * ** *
50747743 TGTATTATTTCGAGATTTTAGAAA-ATAAGACTCCAATGGTCGCACGGTCTTGGAACACGCCCGT
1 TGTATTATTTCGAAATTTCATAAATA-AAG-CTCCAGCGGTCGCACGATCTTGGAACACGCCCGT
* * * * *
50747807 GTGTGGCGATCGTGGACTTATCTTCGCTTCTCCCACACTCGTGTCTCCAGACCG
64 GTGTGGCGACCGTGGACCTATCTTCGCTTCTCCCACACCCGTGTCTCAAGACCA
* *
50747861 TGTATTATTTTGAAATTTCATAAATAAAGCTCCAGCGGTCGCACGATCTTGGAACACGCCGGTGT
1 TGTATTATTTCGAAATTTCATAAATAAAGCTCCAGCGGTCGCACGATCTTGGAACACGCCCGTGT
* * * *
50747926 GTTGTGACCGTGGGCCTGTCTTCGCTTCTCCCACACCCGTGTCGAT-AAGA-CA
66 GTGGCGACCGTGGACCTATCTTCGCTTCTCCCACACCCGTGTC--TCAAGACCA
* *
50747978 TGTGTTGTTTCGAAATTT
1 TGTATTATTTCGAAATTT
50747996 TACAAAATTC
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
117 84 0.75
118 26 0.23
119 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (117 bp):
TGTATTATTTCGAAATTTCATAAATAAAGCTCCAGCGGTCGCACGATCTTGGAACACGCCCGTGT
GTGGCGACCGTGGACCTATCTTCGCTTCTCCCACACCCGTGTCTCAAGACCA
Found at i:50748132 original size:75 final size:77
Alignment explanation
Indices: 50747965--50748134 Score: 188
Period size: 75 Copynumber: 2.3 Consensus size: 77
50747955 CCCACACCCG
* ** * * * *
50747965 TGTCGATAAGACATGTGTTGTTTCGAAATTTTACAAAATTCAGCTTCAGTAGACACATGGTCAGT
1 TGTCTATAAGACATGTGTCATTTCGAAATTCTACAAAATTAAGCTTCAGTAGACACACGGTCACT
50748030 CACACGCTCGTA
66 CACACGCTCGTA
** * *
50748042 --TCTATAAGATGTGTGTCATTTCGAAATTCTGCAAAATTAAGC-TCTAGTAGATACACGGTCAC
1 TGTCTATAAGACATGTGTCATTTCGAAATTCTACAAAATTAAGCTTC-AGTAGACACACGGTCAC
50748104 TCACACGC-C-TA
65 TCACACGCTCGTA
*
50748115 TGTCTATAGGACATGTGTCA
1 TGTCTATAAGACATGTGTCA
50748135 CACACGGTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
73 2 0.03
74 3 0.04
75 71 0.93
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (77 bp):
TGTCTATAAGACATGTGTCATTTCGAAATTCTACAAAATTAAGCTTCAGTAGACACACGGTCACT
CACACGCTCGTA
Found at i:50787166 original size:22 final size:22
Alignment explanation
Indices: 50787119--50787166 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
50787109 TTTTTCTCAC
*
50787119 TATTATGTTGCTATTATTTCAT
1 TATTATGTTGCTATTATTTCAA
* *
50787141 TATTATGTTGTTATTATTTGAA
1 TATTATGTTGCTATTATTTCAA
50787163 TATT
1 TATT
50787167 GTATAACTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.60
Consensus pattern (22 bp):
TATTATGTTGCTATTATTTCAA
Found at i:50789008 original size:30 final size:30
Alignment explanation
Indices: 50788967--50789166 Score: 105
Period size: 30 Copynumber: 6.7 Consensus size: 30
50788957 TTTGGAAAGT
*
50788967 TCGAGGGTAAAATGGTAATTTTCGATGAAA
1 TCGAGGGTAAAATGGTAATTTTAGATGAAA
* * *
50788997 TCGAGGTTAAAATGG-AATTTTAGAAG-AT
1 TCGAGGGTAAAATGGTAATTTTAGATGAAA
* * *
50789025 TCGGGGGGTAAAATGGTAATTTTTGGTGAAA
1 TC-GAGGGTAAAATGGTAATTTTAGATGAAA
* *
50789056 TCG-GGGTTAAAAATAG-AATTTTAGA--ATAT
1 TCGAGGG-T-AAAATGGTAATTTTAGATGA-AA
* * ***
50789085 TC-AGGGGTAAAATGGTAATTTTTGGAAGTTT
1 TCGA-GGGTAAAATGGTAA-TTTTAGATGAAA
* *
50789116 TCGAGGTTAAAAATGG-AATTTTAGA--ATAT
1 TCGAGGGT-AAAATGGTAATTTTAGATGA-AA
*
50789145 TCGGGGGTAAAATGGTAATTTT
1 TCGAGGGTAAAATGGTAATTTT
50789167 TGGAAGTTTT
Statistics
Matches: 130, Mismatches: 24, Indels: 33
0.70 0.13 0.18
Matches are distributed among these distances:
28 17 0.13
29 42 0.32
30 46 0.35
31 17 0.13
32 8 0.06
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (30 bp):
TCGAGGGTAAAATGGTAATTTTAGATGAAA
Found at i:50789176 original size:60 final size:60
Alignment explanation
Indices: 50788910--50789172 Score: 306
Period size: 60 Copynumber: 4.5 Consensus size: 60
50788900 TGTGGATACC
* * * * *
50788910 CGGGGGCAAAATGGTGA-TTTTGG-TGAAAT-TAGTGTTAAAAATGGAATTTTGGAA-AGTT
1 CGGGGGTAAAATGGTAATTTTTGGAAGAAATCGAG-GTTAAAAATGGAATTTTAGAATA-TT
* * * *
50788968 CGAGGGTAAAATGGTAA-TTTTCGATGAAATCGAGGTT-AAAATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGAAGAAATCGAGGTTAAAAATGGAATTTTAGAATATT
* * *
50789026 CGGGGGGTAAAATGGTAATTTTTGG-TGAAATCGGGGTTAAAAATAGAATTTTAGAATATT
1 C-GGGGGTAAAATGGTAATTTTTGGAAGAAATCGAGGTTAAAAATGGAATTTTAGAATATT
* ***
50789086 CAGGGGTAAAATGGTAATTTTTGGAAGTTTTCGAGGTTAAAAATGGAATTTTAGAATATT
1 CGGGGGTAAAATGGTAATTTTTGGAAGAAATCGAGGTTAAAAATGGAATTTTAGAATATT
50789146 CGGGGGTAAAATGGTAATTTTTGGAAG
1 CGGGGGTAAAATGGTAATTTTTGGAAG
50789173 TTTTGGGGTC
Statistics
Matches: 179, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
58 38 0.21
59 59 0.33
60 82 0.46
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (60 bp):
CGGGGGTAAAATGGTAATTTTTGGAAGAAATCGAGGTTAAAAATGGAATTTTAGAATATT
Found at i:50789180 original size:29 final size:30
Alignment explanation
Indices: 50789088--50789194 Score: 91
Period size: 30 Copynumber: 3.6 Consensus size: 30
50789078 AGAATATTCA
50789088 GGGGT-AAAATGGTAATTTTTGGAAGTTTT
1 GGGGTAAAAATGGTAATTTTTGGAAGTTTT
* * *
50789117 CGAGGTTAAAAATGG-AA-TTTTAGAA-TATTCG
1 -G-GGGTAAAAATGGTAATTTTTGGAAGT-TT-T
50789148 GGGGT-AAAATGGTAATTTTTGGAAGTTTT
1 GGGGTAAAAATGGTAATTTTTGGAAGTTTT
* *
50789177 GGGGTCAGAAT-GTAATTT
1 GGGGTAAAAATGGTAATTT
50789195 CCTAAAACTT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
28 7 0.11
29 18 0.29
30 24 0.39
31 6 0.10
32 7 0.11
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.37
Consensus pattern (30 bp):
GGGGTAAAAATGGTAATTTTTGGAAGTTTT
Done.