Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 162 of 226
Found at i:50098068 original size:47 final size:47
Alignment explanation
Indices: 50097990--50098687 Score: 1200
Period size: 47 Copynumber: 14.7 Consensus size: 47
50097980 CCCTTCGGGA
* * * * * *
50097990 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50098037 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50098084 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50098131 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50098178 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50098225 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50098272 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50098319 CTTATCACATATATACACTTTCACATTCATCACCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCA-CATCGGCCATTAGGC
50098367 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50098414 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50098463 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50098510 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50098559 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50098606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50098653 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
50098688 AGAATCCTAA
Statistics
Matches: 624, Mismatches: 21, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 483 0.77
48 47 0.08
49 93 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50105089 original size:26 final size:27
Alignment explanation
Indices: 50105055--50105105 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
50105045 AATATTTCAA
50105055 ACATGAAA-TATAGTCT-TCAAATACAGT
1 ACATGAAATTATA-TCTAT-AAATACAGT
50105082 ACAT-AAATTATATCTATAAATACA
1 ACATGAAATTATATCTATAAATACA
50105106 TCGATAGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (27 bp):
ACATGAAATTATATCTATAAATACAGT
Found at i:50108809 original size:158 final size:158
Alignment explanation
Indices: 50108521--50108833 Score: 518
Period size: 158 Copynumber: 2.0 Consensus size: 158
50108511 TCTTTGATCC
* ** * *
50108521 ATGGTCTTACTCATTATTCTTGGCTGTCATAGCATCTTACCATAAATCCCACGAGTGAGTCTGTA
1 ATGGTCTTACTCATTATACCCGGCTATCATAGCATCTTACCACAAATCCCACGAGTGAGTCTGTA
50108586 AATATTATTATTTAATATTTATGAGCCAAATATAGTATAATATTAAAATTTTATATGATAAATTT
66 AATATTATTATTTAATATTTATGAGCCAAATATAGTATAATATTAAAATTTTATATGATAAATTT
50108651 TGTTAATTGAATGAATAATTAAGTACAA
131 TGTTAATTGAATGAATAATTAAGTACAA
* * *
50108679 ATGGTCTTACTCATTATACCCGGTTATCATAGCATCTTACCACAAATTCCACGAGTGAGTTTGTA
1 ATGGTCTTACTCATTATACCCGGCTATCATAGCATCTTACCACAAATCCCACGAGTGAGTCTGTA
* * *
50108744 AATATTATTATTTAATATTTATGAGTCAAATATAGTATAATATTGAATTTTTATATGATAAATTT
66 AATATTATTATTTAATATTTATGAGCCAAATATAGTATAATATTAAAATTTTATATGATAAATTT
*
50108809 TGTTAATTGAATGAATAGTTAAGTA
131 TGTTAATTGAATGAATAATTAAGTA
50108834 TAAGTGGTTT
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
158 143 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (158 bp):
ATGGTCTTACTCATTATACCCGGCTATCATAGCATCTTACCACAAATCCCACGAGTGAGTCTGTA
AATATTATTATTTAATATTTATGAGCCAAATATAGTATAATATTAAAATTTTATATGATAAATTT
TGTTAATTGAATGAATAATTAAGTACAA
Found at i:50110513 original size:13 final size:13
Alignment explanation
Indices: 50110495--50110653 Score: 83
Period size: 13 Copynumber: 11.8 Consensus size: 13
50110485 AGAAAAATAA
*
50110495 TATATGAATTGGT
1 TATATGAAATGGT
*
50110508 TATATGAATTGGT
1 TATATGAAATGGT
*
50110521 TATATGGATAAAT-GA
1 TATAT-G--AAATGGT
*
50110536 TATATGAAATGGG
1 TATATGAAATGGT
* *
50110549 TATATGAAAATAGA
1 TATATG-AAATGGT
50110563 TATATGAAATGGT
1 TATATGAAATGGT
*
50110576 TATATG-AATCAGT
1 TATATGAAAT-GGT
**
50110589 TATATGTAAA-AAT
1 TATATG-AAATGGT
*
50110602 GATATGTATAATGGT
1 TATATG-A-AATGGT
*
50110617 TATATG-AATCAGT
1 TATATGAAAT-GGT
* *
50110630 TATATGGAAATAGA
1 TATAT-GAAATGGT
50110644 TATATGAAAT
1 TATATGAAAT
50110654 AAAACATTGG
Statistics
Matches: 118, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
12 10 0.08
13 65 0.55
14 23 0.19
15 17 0.14
16 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.37
Consensus pattern (13 bp):
TATATGAAATGGT
Found at i:50110566 original size:14 final size:13
Alignment explanation
Indices: 50110530--50110571 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
50110520 TTATATGGAT
50110530 AAATGATATATG-
1 AAATGATATATGA
*
50110542 AAATGGGTATATGA
1 AAAT-GATATATGA
50110556 AAATAGATATATGA
1 AAAT-GATATATGA
50110570 AA
1 AA
50110572 TGGTTATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 4 0.16
13 7 0.28
14 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (13 bp):
AAATGATATATGA
Found at i:50110571 original size:27 final size:26
Alignment explanation
Indices: 50110508--50110583 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 26
50110498 ATGAATTGGT
*
50110508 TATATGAATTGGTTATATGGATAAATGA
1 TATATGAAATGGTTATAT-GA-AAATGA
*
50110536 TATATGAAATGGGTATATGAAAATAGA
1 TATATGAAATGGTTATATGAAAAT-GA
50110563 TATATGAAATGGTTATATGAA
1 TATATGAAATGGTTATATGAA
50110584 TCAGTTATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 24 0.55
28 16 0.36
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (26 bp):
TATATGAAATGGTTATATGAAAATGA
Found at i:50110602 original size:68 final size:67
Alignment explanation
Indices: 50110488--50110624 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 67
50110478 TCGGATGAGA
* ** *
50110488 AAAATAATATATGAATTGGTTATATGAATTGGTTATATGGATAAATGATATATGA-AATGGGTAT
1 AAAATAATATATGAAATGGTTATATGAATCAGTTATATGGAAAAATGATATAT-ATAATGGGTAT
50110552 ATG
65 ATG
* * *
50110555 AAAATAGATATATGAAATGGTTATATGAATCAGTTATATGTAAAAATGATATGTATAATGGTTAT
1 AAAATA-ATATATGAAATGGTTATATGAATCAGTTATATGGAAAAATGATATATATAATGGGTAT
50110620 ATG
65 ATG
50110623 AA
1 AA
50110625 TCAGTTATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
67 7 0.11
68 54 0.89
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (67 bp):
AAAATAATATATGAAATGGTTATATGAATCAGTTATATGGAAAAATGATATATATAATGGGTATA
TG
Found at i:50110640 original size:68 final size:67
Alignment explanation
Indices: 50110489--50110651 Score: 179
Period size: 68 Copynumber: 2.4 Consensus size: 67
50110479 CGGATGAGAA
* ** *
50110489 AAATA-ATATATGAATTGGTTATATGAATTGGTTATATGGATAAATGATATATGAAATGGGTATA
1 AAATAGATATATGAAATGGTTATATGAATCAGTTATATGGAAAAATGATATATGAAATGGGTATA
50110553 TG
66 TG
* * *
50110555 AAAATAGATATATGAAATGGTTATATGAATCAGTTATATGTAAAAATGATATGT-ATAATGGTTA
1 -AAATAGATATATGAAATGGTTATATGAATCAGTTATATGGAAAAATGATATATGA-AATGGGTA
50110619 TATG
64 TATG
* * *
50110623 -AATCAGTTATATGGAAATAGATATATGAA
1 AAAT-AGATATAT-GAAATGGTTATATGAA
50110652 ATAAAACATT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
66 3 0.04
67 13 0.16
68 66 0.80
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (67 bp):
AAATAGATATATGAAATGGTTATATGAATCAGTTATATGGAAAAATGATATATGAAATGGGTATA
TG
Found at i:50111190 original size:25 final size:25
Alignment explanation
Indices: 50111162--50111211 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
50111152 AATCCTTAAT
*
50111162 GTTATTTTTGTTGGTTTAGTAATTG
1 GTTATTTTGGTTGGTTTAGTAATTG
*
50111187 GTTATTTTGGTTGGTTTGGTAATTG
1 GTTATTTTGGTTGGTTTAGTAATTG
50111212 ATGGCATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.58
Consensus pattern (25 bp):
GTTATTTTGGTTGGTTTAGTAATTG
Found at i:50111375 original size:87 final size:87
Alignment explanation
Indices: 50111272--50111442 Score: 342
Period size: 87 Copynumber: 2.0 Consensus size: 87
50111262 GAATTGGTAC
50111272 ATACATGATAGGATAATTGATGAAATTCAATTGGTGATAAACTATCATTAGAGGCTTGGTATAAA
1 ATACATGATAGGATAATTGATGAAATTCAATTGGTGATAAACTATCATTAGAGGCTTGGTATAAA
50111337 TGATTGATAATAGCATATGATA
66 TGATTGATAATAGCATATGATA
50111359 ATACATGATAGGATAATTGATGAAATTCAATTGGTGATAAACTATCATTAGAGGCTTGGTATAAA
1 ATACATGATAGGATAATTGATGAAATTCAATTGGTGATAAACTATCATTAGAGGCTTGGTATAAA
50111424 TGATTGATAATAGCATATG
66 TGATTGATAATAGCATATG
50111443 TTAGTTGGAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (87 bp):
ATACATGATAGGATAATTGATGAAATTCAATTGGTGATAAACTATCATTAGAGGCTTGGTATAAA
TGATTGATAATAGCATATGATA
Found at i:50113592 original size:52 final size:52
Alignment explanation
Indices: 50113514--50113617 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
50113504 GCTTATAGTG
50113514 TTTGTACCTTAATCAATCATGTTTCCAATTAAGCTCAAGTATGTATTTCGTT
1 TTTGTACCTTAATCAATCATGTTTCCAATTAAGCTCAAGTATGTATTTCGTT
50113566 TTTGTACCTTAATCAATCATGTTTCCAATTAAGCTCAAGTATGTATTTCGTT
1 TTTGTACCTTAATCAATCATGTTTCCAATTAAGCTCAAGTATGTATTTCGTT
50113618 CATACATGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (52 bp):
TTTGTACCTTAATCAATCATGTTTCCAATTAAGCTCAAGTATGTATTTCGTT
Found at i:50120443 original size:23 final size:22
Alignment explanation
Indices: 50120403--50120445 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
50120393 AAATTATAAA
*
50120403 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
50120425 ATATAAGAAAAATATATATGT
1 ATATAA-AAAAATATATATGT
50120446 GTGTGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:50120484 original size:12 final size:12
Alignment explanation
Indices: 50120467--50120529 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
50120457 AAAAAATAAA
50120467 AAATATATATAT
1 AAATATATATAT
*
50120479 AAATATACATATTT
1 AAATAT--ATATAT
* *
50120493 TAATATGTA-A-
1 AAATATATATAT
50120503 AAATATATATAT
1 AAATATATATAT
*
50120515 AAGTATATATAT
1 AAATATATATAT
50120527 AAA
1 AAA
50120530 ATTATGAAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
10 7 0.18
11 1 0.03
12 21 0.54
14 10 0.26
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (12 bp):
AAATATATATAT
Found at i:50121196 original size:21 final size:21
Alignment explanation
Indices: 50121170--50121224 Score: 96
Period size: 19 Copynumber: 2.7 Consensus size: 21
50121160 AATCATATAT
50121170 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
50121191 TCTAAGATTG--TATATCATA
1 TCTAAGATTGCATATATCATA
50121210 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
50121225 CCTTGAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 19 0.59
21 13 0.41
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:50122913 original size:20 final size:20
Alignment explanation
Indices: 50122888--50122935 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
50122878 ATTTTCAAGG
* *
50122888 TATCGATAAAAGTTATAAAT
1 TATCGATAAAAGGTAAAAAT
**
50122908 TATCGATACTAGGTAAAAAT
1 TATCGATAAAAGGTAAAAAT
50122928 TATCGATA
1 TATCGATA
50122936 CCAATTTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (20 bp):
TATCGATAAAAGGTAAAAAT
Found at i:50125283 original size:79 final size:81
Alignment explanation
Indices: 50125115--50125299 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
50125105 GCTACTCGTT
* * *
50125115 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCG
* *
50125179 GATTTAGTAAGTCGCAC
65 GATATAGTAAGTAGCAC
* **
50125196 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCG
* **
50125258 GATATGGTCACTTAGCA-
65 GATATAGT-AAGTAGCAC
50125275 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
50125300 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.02
79 57 0.65
80 26 0.30
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
ATATAGTAAGTAGCAC
Found at i:50125299 original size:40 final size:40
Alignment explanation
Indices: 50125115--50125299 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
50125105 GCTACTCGTT
* *
50125115 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
50125155 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAGTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
50125195 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
50125234 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
50125275 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50125300 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 31 0.25
40 79 0.65
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:50126596 original size:85 final size:85
Alignment explanation
Indices: 50126467--50126645 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
50126457 TATTTTATTG
50126467 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
50126532 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
50126552 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
50126617 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
50126637 CCCATGCTC
1 CCCATGCTC
50126646 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:50133268 original size:79 final size:81
Alignment explanation
Indices: 50133126--50133308 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
50133116 TACTCGTTCA
** * *
50133126 AATGCCTTCGGGACACAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
* *
50133190 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
50133206 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
50133268 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
50133285 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
50133309 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.66
80 28 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:50133308 original size:40 final size:40
Alignment explanation
Indices: 50133105--50133308 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
50133095 CGGAATTTAA
** **
50133105 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACACAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
50133145 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
50133185 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
50133224 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
50133264 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
50133304 CCGGA
1 CCGGA
50133309 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 93 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:50134576 original size:85 final size:85
Alignment explanation
Indices: 50134477--50134655 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
50134467 TATTTTATTG
50134477 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
50134542 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
50134562 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
50134627 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
50134647 CCCATGCTC
1 CCCATGCTC
50134656 ATGGCCGACC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:50135265 original size:29 final size:29
Alignment explanation
Indices: 50135214--50135275 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
50135204 TGACATCCCC
* * *
50135214 CACCAGTACATAATACCTGATAAATATAG
1 CACCAGCACATAATACCTAATAAATATAA
* *
50135243 CACCAGCACATAGTTCCTAATAAATATAA
1 CACCAGCACATAATACCTAATAAATATAA
50135272 CACC
1 CACC
50135276 GGTAGAAGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.23
Consensus pattern (29 bp):
CACCAGCACATAATACCTAATAAATATAA
Found at i:50140039 original size:29 final size:29
Alignment explanation
Indices: 50140002--50140058 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
50139992 CACCTTGACA
* * *
50140002 CGAATTCTCAATGAACAAGTTCTTCACCG
1 CGAACTCTCAACGAACAAGTTCTCCACCG
50140031 CGAACTCTCAACGAACAAGTTCTCCACC
1 CGAACTCTCAACGAACAAGTTCTCCACC
50140059 TCTTCCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.33, G:0.12, T:0.23
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTCCACCG
Found at i:50144375 original size:16 final size:18
Alignment explanation
Indices: 50144354--50144391 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
50144344 TTCTATAGGG
50144354 ATTTTA-CTTT-TATTTT
1 ATTTTACCTTTATATTTT
50144370 ATTTTACCTTTATATTTT
1 ATTTTACCTTTATATTTT
50144388 ATTT
1 ATTT
50144392 AAATAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTACCTTTATATTTT
Found at i:50148308 original size:23 final size:23
Alignment explanation
Indices: 50148278--50148327 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
50148268 GAAGATGAGG
50148278 AAAAGG-AAAGGAGAGAGAAAAAA
1 AAAAGGAAAAGGAGA-AGAAAAAA
*
50148301 AAAAGGAAAAAGGAGAAGGAAAAA
1 AAAAGG-AAAAGGAGAAGAAAAAA
50148325 AAA
1 AAA
50148328 TAAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 10 0.42
25 8 0.33
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (23 bp):
AAAAGGAAAAGGAGAAGAAAAAA
Found at i:50156914 original size:20 final size:20
Alignment explanation
Indices: 50156877--50156914 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50156867 TTGTACGGGA
* *
50156877 TCGCACTTCGGTGTCTCTAT
1 TCGCACTTCAGTGCCTCTAT
50156897 TCGCACTTCAGTGCCTCT
1 TCGCACTTCAGTGCCTCT
50156915 GTATTTGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.34, G:0.18, T:0.37
Consensus pattern (20 bp):
TCGCACTTCAGTGCCTCTAT
Found at i:50160377 original size:12 final size:11
Alignment explanation
Indices: 50160354--50160385 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
50160344 TACAGTTTGG
50160354 CACATTGTTGA
1 CACATTGTTGA
50160365 CACATTAGTTGA
1 CACATT-GTTGA
50160377 CACATTGTT
1 CACATTGTT
50160386 CTCTATGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (11 bp):
CACATTGTTGA
Found at i:50168807 original size:22 final size:22
Alignment explanation
Indices: 50168774--50168816 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50168764 ATATTTGTTC
50168774 AATTCTAATTTGAATTCTTGGT
1 AATTCTAATTTGAATTCTTGGT
*
50168796 AATT-TAAGTTTGATTTCTTGG
1 AATTCTAA-TTTGAATTCTTGG
50168817 ACATAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (22 bp):
AATTCTAATTTGAATTCTTGGT
Found at i:50169609 original size:50 final size:50
Alignment explanation
Indices: 50169550--50169645 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
50169540 CGTCCTCCTG
50169550 CATTGATTACAATATTTATGCCGATCGAGTTAAGACTCAGTCGGCTCTTA
1 CATTGATTACAATATTTATGCCGATCGAGTTAAGACTCAGTCGGCTCTTA
* *
50169600 CATTGATTACAATATTTATGCTGGTCGAGTTAAGACTCAGTCGGCT
1 CATTGATTACAATATTTATGCCGATCGAGTTAAGACTCAGTCGGCT
50169646 AAAGTGAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (50 bp):
CATTGATTACAATATTTATGCCGATCGAGTTAAGACTCAGTCGGCTCTTA
Found at i:50170533 original size:16 final size:16
Alignment explanation
Indices: 50170509--50170550 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
50170499 TTTGGTTCGC
* *
50170509 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
50170525 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
50170541 TGTAATGGAA
1 TGTAATGGAA
50170551 AAGCTGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:50170816 original size:18 final size:17
Alignment explanation
Indices: 50170795--50170829 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50170785 TTATTATTAA
*
50170795 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
50170813 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50170830 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:50170966 original size:16 final size:16
Alignment explanation
Indices: 50170929--50170970 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50170919 TTAATCATAT
*
50170929 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
50170945 TT-AAATATATTATAA
1 TTAAAATATATTATAA
50170960 TTAAAATATAT
1 TTAAAATATAT
50170971 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:50170968 original size:154 final size:156
Alignment explanation
Indices: 50170682--50170995 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
50170672 TAGAATACCC
50170682 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
50170747 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
50170812 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAAAAA
* *
50170839 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
50170902 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
50170967 ATATAATTTAATAAAATTCTTAAAAA
131 ATATAATTTAATAAAATTCTTAAAAA
50170993 TTA
1 TTA
50170996 ATATTATATG
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 92 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAAAAA
Found at i:50170977 original size:14 final size:15
Alignment explanation
Indices: 50170938--50170979 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50170928 TTTAAACATA
*
50170938 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50170953 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50170967 A-TATAATTTAATA
1 ATTATAATTAAATA
50170980 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:50171063 original size:117 final size:121
Alignment explanation
Indices: 50170927--50171220 Score: 442
Period size: 120 Copynumber: 2.5 Consensus size: 121
50170917 ATTTAATCAT
*
50170927 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
50170991 AAT-TAA-TATTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 AATAAAATTATTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
50171046 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
50171109 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 AATAAAATTATTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
50171165 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
50171221 TAAAATTATT
Statistics
Matches: 162, Mismatches: 7, Indels: 12
0.90 0.04 0.07
Matches are distributed among these distances:
117 58 0.36
118 6 0.04
119 27 0.17
120 66 0.41
121 5 0.03
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (121 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
AATAAAATTATTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:50171094 original size:14 final size:15
Alignment explanation
Indices: 50171045--50171096 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50171035 GTAAAATATA
50171045 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
50171060 TATTAAATATATTAT
1 AATTAAATATATTAT
50171075 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
50171088 AATTTAATA
1 AATTAAATA
50171097 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:50171111 original size:44 final size:43
Alignment explanation
Indices: 50171022--50171112 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
50171012 CTCAAATCAT
* * *
50171022 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
50171065 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
50171109 AATA
1 AATA
50171113 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:50171201 original size:15 final size:15
Alignment explanation
Indices: 50171181--50171219 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
50171171 AATAATTAAT
50171181 ATTAAATATGATTTA
1 ATTAAATATGATTTA
50171196 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
50171213 ATAAAAT
1 ATTAAAT
50171220 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:50171206 original size:17 final size:17
Alignment explanation
Indices: 50171186--50171219 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50171176 TTAATATTAA
*
50171186 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
50171203 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
50171220 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:50171362 original size:93 final size:92
Alignment explanation
Indices: 50171252--50171446 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
50171242 GATTATAGTT
* * *
50171252 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
50171315 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
50171345 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
50171410 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
50171437 TATGAATTTA
1 TATGAATTTA
50171447 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:50174076 original size:24 final size:24
Alignment explanation
Indices: 50174049--50174099 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
50174039 TGGGAAAAAC
50174049 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
50174073 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
50174097 ATT
1 ATT
50174100 TAAAACTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (24 bp):
ATTGGCAGATTAATTTAGGTCAGA
Found at i:50178551 original size:17 final size:19
Alignment explanation
Indices: 50178531--50178565 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50178521 ATTTTAATAT
50178531 ATGTA-TAT-ATTTATAAA
1 ATGTATTATAATTTATAAA
50178548 ATGTATTATAATTTATAA
1 ATGTATTATAATTTATAA
50178566 TTTATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (19 bp):
ATGTATTATAATTTATAAA
Found at i:50192513 original size:20 final size:20
Alignment explanation
Indices: 50192488--50192534 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
50192478 CAATTAAGTG
50192488 CTTTTATTGGATTTTCAAAA
1 CTTTTATTGGATTTTCAAAA
*
50192508 CTTTTATTGGATTTTCAAAT
1 CTTTTATTGGATTTTCAAAA
50192528 CTTTTAT
1 CTTTTAT
50192535 CTAATAGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (20 bp):
CTTTTATTGGATTTTCAAAA
Found at i:50195379 original size:37 final size:34
Alignment explanation
Indices: 50195299--50195379 Score: 83
Period size: 36 Copynumber: 2.3 Consensus size: 34
50195289 TCTTCTATTG
50195299 ATTTTTTTTGAATTTTAAAAAATATATAATTTTT
1 ATTTTTTTTGAATTTTAAAAAATATATAATTTTT
* *
50195333 ATATGTTTTTCTGAATTTT-GAAAATTTATATATATTTT
1 AT-T-TTTTT-TGAATTTTAAAAAATATATA-AT-TTTT
*
50195371 CTTTTTTTT
1 ATTTTTTTT
50195380 AAAAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
34 2 0.05
35 2 0.05
36 19 0.49
37 11 0.28
38 5 0.13
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (34 bp):
ATTTTTTTTGAATTTTAAAAAATATATAATTTTT
Found at i:50195458 original size:69 final size:69
Alignment explanation
Indices: 50195323--50195449 Score: 163
Period size: 67 Copynumber: 1.9 Consensus size: 69
50195313 TTAAAAAATA
* * *
50195323 TATAATTTTTATATGTTTTTCTGAATTTTGAAAATTTATATATATTTTCTTTTTTTTAAAAAAAT
1 TATAAATTTTATATGTTTTTCTGAATTTTAAAAATTTATACATATTTTCTTTTTTTTAAAAAAAT
50195388 TTGT
66 TTGT
* *
50195392 TATAAATTTTATATAGTTTTT-TTAA-TTTAAAAATTT-TACCTATTTT-TTATTTTTTAAA
1 TATAAATTTTATAT-GTTTTTCTGAATTTTAAAAATTTATACATATTTTCTT-TTTTTTAAA
50195450 TTATAATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
66 2 0.04
67 17 0.33
68 10 0.20
69 16 0.31
70 6 0.12
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (69 bp):
TATAAATTTTATATGTTTTTCTGAATTTTAAAAATTTATACATATTTTCTTTTTTTTAAAAAAAT
TTGT
Found at i:50196796 original size:29 final size:29
Alignment explanation
Indices: 50196764--50196841 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
50196754 ATGTTTAATA
50196764 TGGTACTTCT-ATTTCGAAAATATCCAATG
1 TGGTACTTCTAATTT-GAAAATATCCAATG
* * *
50196793 TGGTACTTGTAATTTGGAAATGTCCAATG
1 TGGTACTTCTAATTTGAAAATATCCAATG
* *
50196822 TAGTACTTGTAATTTAGAAA
1 TGGTACTTCTAATTT-GAAA
50196842 TGTTCAATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 35 0.83
30 7 0.17
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (29 bp):
TGGTACTTCTAATTTGAAAATATCCAATG
Found at i:50196842 original size:29 final size:29
Alignment explanation
Indices: 50196781--50196851 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
50196771 TCTATTTCGA
* * *
50196781 AAATATCCAATGTGGTACTTGTAATTTGG
1 AAATGTCCAATGTAGTACTTGTAATTTAG
50196810 AAATGTCCAATGTAGTACTTGTAATTTAG
1 AAATGTCCAATGTAGTACTTGTAATTTAG
*
50196839 AAATGTTCAATGT
1 AAATGTCCAATGT
50196852 GATAACTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (29 bp):
AAATGTCCAATGTAGTACTTGTAATTTAG
Found at i:50197154 original size:15 final size:16
Alignment explanation
Indices: 50197134--50197164 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
50197124 AAATTTAAAA
50197134 TTAATTTT-AATATTT
1 TTAATTTTAAATATTT
50197149 TTAATTTTAAATATTT
1 TTAATTTTAAATATTT
50197165 CTTTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTTTAAATATTT
Found at i:50218628 original size:9 final size:9
Alignment explanation
Indices: 50218611--50218647 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50218601 TGAGTTTTCG
50218611 AATTCGAAT
1 AATTCGAAT
*
50218620 AACTCGAAT
1 AATTCGAAT
50218629 AATTCGAAT
1 AATTCGAAT
50218638 AATTCGAAT
1 AATTCGAAT
50218647 A
1 A
50218648 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50218730 original size:30 final size:31
Alignment explanation
Indices: 50218696--50218756 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
50218686 AAACCTTTTT
* * *
50218696 ACTTTTCCCTCAAAATTTTTACTCCT-TCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
50218726 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
50218757 CTCCCAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.38
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
Found at i:50219049 original size:20 final size:18
Alignment explanation
Indices: 50218998--50219058 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
50218988 ACTCCCCCTA
*
50218998 TTTATTTTCTCTC-AAACT
1 TTTATTTTC-CCCAAAACT
50219016 TTTA--TTCCCCAAAACTT
1 TTTATTTTCCCCAAAAC-T
50219033 TTTATTTTCCTCCAAAACT
1 TTTATTTTCC-CCAAAACT
50219052 TTTATTT
1 TTTATTT
50219059 CTCACTAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 2 0.05
16 7 0.19
17 5 0.14
18 4 0.11
19 12 0.32
20 7 0.19
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATTTTCCCCAAAACT
Found at i:50219291 original size:39 final size:39
Alignment explanation
Indices: 50219248--50219392 Score: 201
Period size: 40 Copynumber: 3.8 Consensus size: 39
50219238 AAATATATTT
* * *
50219248 ATTTTTTAAATTTTAAAATATTTTTTACATACTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
50219287 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTA
50219327 ATTTTTTTAATTTTAAAATATTTTTAAAATAC--TTTT-
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
*
50219363 -TTTTTTTAATTTTTTAAA-ATTTTTAAAATA
1 ATTTTTTTAA-TTTTAAAATATTTTTAAAATA
50219393 AAAATGGGCC
Statistics
Matches: 100, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
35 21 0.21
36 7 0.07
37 4 0.04
39 29 0.29
40 39 0.39
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (39 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
Found at i:50219311 original size:11 final size:11
Alignment explanation
Indices: 50219297--50219363 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
50219287 ATTTTTTTAA
50219297 TTTTAAAATAT
1 TTTTAAAATAT
50219308 TTTTAAAATACT
1 TTTTAAAATA-T
**
50219320 TTTTTTAAT-T
1 TTTTAAAATAT
*
50219330 TTTT----TAA
1 TTTTAAAATAT
50219337 TTTTAAAATAT
1 TTTTAAAATAT
50219348 TTTTAAAATACT
1 TTTTAAAATA-T
50219360 TTTT
1 TTTT
50219364 TTTTTTAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
10 5 0.11
11 22 0.49
12 13 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50219324 original size:40 final size:40
Alignment explanation
Indices: 50219248--50219365 Score: 202
Period size: 40 Copynumber: 3.0 Consensus size: 40
50219238 AAATATATTT
* * *
50219248 ATTTTTTAAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
50219287 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
50219327 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT
50219366 TTTTAATTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 29 0.39
40 46 0.61
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:50219369 original size:29 final size:28
Alignment explanation
Indices: 50219305--50219386 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 28
50219295 AATTTTAAAA
**
50219305 TATTTTTAAAATACTTTTTTTAATTTTTT
1 TATTTTTAAAATA-TTTTTAAAATTTTTT
*
50219334 TAATTTTAAAATATTTTTAAAATACTTTTT
1 TATTTTTAAAATATTTTTAAAAT--TTTTT
50219364 T-TTTTT--AAT-TTTTTAAAATTTTT
1 TATTTTTAAAATATTTTTAAAATTTTT
50219387 AAAATAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
24 4 0.09
26 10 0.21
27 3 0.06
28 8 0.17
29 16 0.34
30 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (28 bp):
TATTTTTAAAATATTTTTAAAATTTTTT
Found at i:50225052 original size:18 final size:18
Alignment explanation
Indices: 50225017--50225054 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
50225007 GCAATACGTG
*
50225017 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
50225035 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
50225053 AC
1 AC
50225055 TGTTGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:50225997 original size:30 final size:30
Alignment explanation
Indices: 50225940--50225998 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
50225930 AGCTAGACTA
*
50225940 GAATTTTTAAATTTAAAAGGTAGAAGAATT
1 GAATTTTTAAATTAAAAAGGTAGAAGAATT
*
50225970 GAATTTTTAAATATAAAAATGTA-AAGAAT
1 GAATTTTTAAAT-TAAAAAGGTAGAAGAAT
50225999 ATATTCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.36
Consensus pattern (30 bp):
GAATTTTTAAATTAAAAAGGTAGAAGAATT
Found at i:50230017 original size:44 final size:43
Alignment explanation
Indices: 50229954--50230079 Score: 121
Period size: 44 Copynumber: 2.9 Consensus size: 43
50229944 TTATGGTAAA
* * *
50229954 TTTAATCCGAC-CTACTGCAACTTCAGAAGTATAGGATTCATCA-T
1 TTTAATCCG-CTCCACTGCAACTTCAGAAG-ATAGGATTAAT-AGC
* *
50229998 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTAATAGC
1 TTTAATCCGCTCCACTGCAACTTCA-GAAGATAGGATTAATAGC
** *
50230042 TTTAATCTACTCCGCTGCAACTTCAGAGAGATAGGATT
1 TTTAATCCGCTCCACTGCAACTTCAGA-AGATAGGATT
50230080 TGCTATCCTC
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
43 3 0.04
44 62 0.91
45 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (43 bp):
TTTAATCCGCTCCACTGCAACTTCAGAAGATAGGATTAATAGC
Found at i:50230282 original size:132 final size:132
Alignment explanation
Indices: 50230134--50230392 Score: 421
Period size: 132 Copynumber: 2.0 Consensus size: 132
50230124 TAGTGGCTTC
* *
50230134 AATCTGCTTCCCTACTACTTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCTACTACTGCTT
1 AATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTT
* *
50230199 AGAGAGACAGGATCTACAATCTTCGACCTACTCCACTACTGCTTAGGGAA-ATAGGACTGGTGAT
66 AGAGAGACAAGATCTACAATCTTCGACCTACTCCACTACTGCTCA-GGAAGATAGGACTGGTGAT
50230263 TTA
130 TTA
*
50230266 AATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTT
1 AATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTT
* * * *
50230331 AGGGAGATAAGATCTACAATCTTCGACCTACTCCACTGCTGCTCAGGAAGATAGGGCTGGTG
66 AGAGAGACAAGATCTACAATCTTCGACCTACTCCACTACTGCTCAGGAAGATAGGACTGGTG
50230393 CTTTCTATCT
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
131 4 0.03
132 113 0.97
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
AATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTT
AGAGAGACAAGATCTACAATCTTCGACCTACTCCACTACTGCTCAGGAAGATAGGACTGGTGATT
TA
Found at i:50230354 original size:44 final size:45
Alignment explanation
Indices: 50230159--50230383 Score: 151
Period size: 44 Copynumber: 5.1 Consensus size: 45
50230149 TACTTTGGAA
** * *
50230159 AGATAAGAT-TCACCGTCTTCGATCTGCTCTACTACTGCTTAGAG
1 AGATAAGATCTCACAATCTTCGATCTGCTCCACTACTGCTTAGGG
* * * *
50230203 AGACAGGATCT-ACAATCTTCGACCTACTCCACTACTGCTTAGGG
1 AGATAAGATCTCACAATCTTCGATCTGCTCCACTACTGCTTAGGG
* * **** ** *
50230247 AAATAGGA-CTGGTGAT-TTAAATCTGCTTCC-CTACTACCTT-GGG
1 AGATAAGATCTCACAATCTTCGATCTGC-TCCACTACT-GCTTAGGG
**
50230290 AAGATAAGAT-TCACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATCTCACAATCTTCGATCTGCTCCACTACTGCTTAGGG
* * * * *
50230335 AGATAAGATCT-ACAATCTTCGACCTACTCCACTGCTGCTCAGGA
1 AGATAAGATCTCACAATCTTCGATCTGCTCCACTACTGCTTAGGG
50230379 AGATA
1 AGATA
50230384 GGGCTGGTGC
Statistics
Matches: 136, Mismatches: 35, Indels: 20
0.71 0.18 0.10
Matches are distributed among these distances:
43 16 0.12
44 102 0.75
45 18 0.13
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (45 bp):
AGATAAGATCTCACAATCTTCGATCTGCTCCACTACTGCTTAGGG
Found at i:50234392 original size:51 final size:51
Alignment explanation
Indices: 50234316--50234600 Score: 303
Period size: 51 Copynumber: 5.6 Consensus size: 51
50234306 GATGAACACG
* * * * *
50234316 TGTGTAGCACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGATCACA
* * * * * *
50234367 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTTG-TCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATTGATCACA
* * * *
50234418 TGTGTAGTATTGTGTGAAGGCTACTACGTGTACAGATAAATGA-TGAACACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATTGATCACA
* * *
50234469 TGTGTAGTACTAAGTGAAGGCTACTACGTGAACCG-TAAA-ATTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGATCACA
*
50234519 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGATCACA
* *
50234569 TGTGTAGTACTATGTGAAGGTTATTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
50234601 TCGAATGATA
Statistics
Matches: 196, Mismatches: 33, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
50 89 0.45
51 103 0.53
52 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGATCACA
Found at i:50234488 original size:102 final size:100
Alignment explanation
Indices: 50234312--50234598 Score: 357
Period size: 102 Copynumber: 2.8 Consensus size: 100
50234302 TATCGATGAA
* *
50234312 CACGTGTGTAGCACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-CGATAAATAATGATCACATGTGTAGTAC
* * *
50234377 TAAGTGAAGGCTACTATGTGTACCG-AGAAGTTTTTG-T
65 TAAGTGAAGGCTACTACGTGAACCGTA-AA--ATTTGAT
* * *
50234414 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGTACAGATAAATGATGAACACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAC-GATAAATAATGATCACATGTGTAGTAC
50234479 TAAGTGAAGGCTACTACGTGAACCGTAAAATTTGAT
65 TAAGTGAAGGCTACTACGTGAACCGTAAAATTTGAT
* * *
50234515 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-CGATAAATA-ATGATCACATGTGTAGTA
* * *
50234578 CTATGTGAAGGTTATTACGTG
64 CTAAGTGAAGGCTACTACGTG
50234599 TATCGAATGA
Statistics
Matches: 163, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
100 42 0.26
101 36 0.22
102 84 0.52
103 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACGATAAATAATGATCACATGTGTAGTACT
AAGTGAAGGCTACTACGTGAACCGTAAAATTTGAT
Found at i:50237963 original size:23 final size:23
Alignment explanation
Indices: 50237927--50237981 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
50237917 ATGAAGGATG
**
50237927 AATGAGAGAAAATTGAAATGTGA
1 AATGAGAGTTAATTGAAATGTGA
*
50237950 AATGGGAGTTAATTGAAATGTGA
1 AATGAGAGTTAATTGAAATGTGA
50237973 AATGAGAGT
1 AATGAGAGT
50237982 GGGTATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.25
Consensus pattern (23 bp):
AATGAGAGTTAATTGAAATGTGA
Found at i:50240800 original size:22 final size:20
Alignment explanation
Indices: 50240752--50240801 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
50240742 TATCTGACAA
*
50240752 ATACTTATATATCTATCAAT
1 ATACTTATATATCAATCAAT
*
50240772 ATCACTTTTATATACAATCAATT
1 AT-ACTTATATAT-CAATCAA-T
50240795 ATACTTA
1 ATACTTA
50240802 CCTCAACATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.08
21 9 0.38
22 10 0.42
23 3 0.12
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (20 bp):
ATACTTATATATCAATCAAT
Found at i:50241011 original size:41 final size:41
Alignment explanation
Indices: 50240966--50241106 Score: 201
Period size: 41 Copynumber: 3.4 Consensus size: 41
50240956 TGATTCAATA
* * * *
50240966 CACCGGCATTAAACCTGCTACAGGTAAGGTCTAAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTAAAATATTT
* * *
50241007 CACCGGTATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTAAAATATTT
* *
50241048 CACCGGTATTAAGCCTGCTAGACGTAAAGTCCAAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTAAAATATTT
50241089 CACCGGCATTAAGCCTGC
1 CACCGGCATTAAGCCTGC
50241107 AGGCACAAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTAAAATATTT
Found at i:50241052 original size:82 final size:81
Alignment explanation
Indices: 50240966--50241123 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
50240956 TGATTCAATA
* * * *
50240966 CACCGGCATTAAACCTGCTACAGGTAAGGTCTAAAATATTTCACCGGTATTAAGCCTGCTAGACA
1 CACCGGCATTAAACCTGCTACACGTAAAGTCCAAAATATTTCACCGGCATTAAGCCTGC-AGACA
* *
50241031 TAAAGTCTGAAATATTT
65 CAAAGCCTGAAATATTT
* * * *
50241048 CACCGGTATTAAGCCTGCTAGACGTAAAGTCCAAAATATTTCACCGGCATTAAGCCTGCAGGCAC
1 CACCGGCATTAAACCTGCTACACGTAAAGTCCAAAATATTTCACCGGCATTAAGCCTGCAGACAC
50241113 AAAGCCTGAAA
66 AAAGCCTGAAA
50241124 ATCTCATATA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 14 0.21
82 52 0.79
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (81 bp):
CACCGGCATTAAACCTGCTACACGTAAAGTCCAAAATATTTCACCGGCATTAAGCCTGCAGACAC
AAAGCCTGAAATATTT
Found at i:50241125 original size:41 final size:42
Alignment explanation
Indices: 50240998--50241125 Score: 174
Period size: 41 Copynumber: 3.1 Consensus size: 42
50240988 GGTAAGGTCT
*
50240998 AAAATATTTCACCGGTATTAAGCCTGCTAGACATAAAGTCTG
1 AAAATATTTCACCGGTATTAAGCCTGCTAGACATAAAGCCTG
*
50241040 -AAATATTTCACCGGTATTAAGCCTGCTAGACGTAAAGTCC--
1 AAAATATTTCACCGGTATTAAGCCTGCTAGACATAAAG-CCTG
* * *
50241080 AAAATATTTCACCGGCATTAAGCCTGC-AGGCACAAAGCCTG
1 AAAATATTTCACCGGTATTAAGCCTGCTAGACATAAAGCCTG
50241121 AAAAT
1 AAAAT
50241126 CTCATATACA
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
39 2 0.03
40 7 0.09
41 66 0.87
42 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (42 bp):
AAAATATTTCACCGGTATTAAGCCTGCTAGACATAAAGCCTG
Found at i:50241448 original size:64 final size:65
Alignment explanation
Indices: 50241287--50241500 Score: 188
Period size: 65 Copynumber: 3.3 Consensus size: 65
50241277 CTCAAAGAAT
50241287 TTGTAAC-TAATATTC-AAGCCACATATGTATATAAAATTCATACATTAAAATTCAACTTAAGAA
1 TTGTAACAT-ATATTCGAA-CCACATATGTATATAAAATTCATACATTAAAATTCAACTTAAGAA
*
50241350 AT
64 AC
* * * * *
50241352 TTGTAACCTATATTTGAACCACACATGTATATAAAATTTATACATT-GAATTCAACTTAAG-AAC
1 TTGTAACATATATTCGAACCACATATGTATATAAAATTCATACATTAAAATTCAACTTAAGAAAC
* * * * * *
50241415 TTG-AATATATATTCGAATCACACATATATATATATGAAATTCATA-ATATTAAGTTCAGCTCAA
1 TTGTAACATATATTCGAA-C-CACATATGTATATA--AAATTCATACAT-TAAAATTCAACTTAA
*
50241478 TAAAC
61 GAAAC
* *
50241483 TTGTATCATAAATTCGAA
1 TTGTAACATATATTCGAA
50241501 ATTTAACCAT
Statistics
Matches: 120, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
62 11 0.09
63 6 0.05
64 25 0.21
65 40 0.33
66 12 0.10
67 9 0.08
68 6 0.05
69 11 0.09
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (65 bp):
TTGTAACATATATTCGAACCACATATGTATATAAAATTCATACATTAAAATTCAACTTAAGAAAC
Found at i:50245973 original size:15 final size:15
Alignment explanation
Indices: 50245953--50245982 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50245943 TCTCTAGGCA
*
50245953 TTCATTTCATGCATT
1 TTCATTACATGCATT
50245968 TTCATTACATGCATT
1 TTCATTACATGCATT
50245983 AAAGTCCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (15 bp):
TTCATTACATGCATT
Found at i:50248679 original size:6 final size:6
Alignment explanation
Indices: 50248668--50248724 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
50248658 GGGGGGAAGA
* * *
50248668 AAAATC AAAATC AAAATC AAAAGC ATAAA-G AAAA-A AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC A-AAATC AAAATC AAAATC AAAATC
*
50248715 AAAGTC AAAA
1 AAAATC AAAA
50248725 AATGAAAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
5 7 0.16
6 33 0.77
7 3 0.07
ACGTcount: A:0.70, C:0.12, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:50248739 original size:21 final size:20
Alignment explanation
Indices: 50248701--50248753 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
50248691 CATAAAGAAA
* * *
50248701 AAAAAATCAAAATCAAAGTC
1 AAAAAATGAAAATAAAAGAC
*
50248721 AAAAAATGAAAATGAAAAGAG
1 AAAAAATGAAAAT-AAAAGAC
*
50248742 AAAAAAAGAAAA
1 AAAAAATGAAAA
50248754 GGAGAGGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (20 bp):
AAAAAATGAAAATAAAAGAC
Found at i:50249608 original size:7 final size:7
Alignment explanation
Indices: 50249596--50249645 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
50249586 CAAAAAAATG
50249596 TGAAAAA
1 TGAAAAA
50249603 TGAAAAA
1 TGAAAAA
50249610 TGAAAACA
1 TGAAAA-A
*
50249618 --AAGAA
1 TGAAAAA
50249623 TGAAAAA
1 TGAAAAA
50249630 TGAAAAA
1 TGAAAAA
50249637 -GTAAAAA
1 TG-AAAAA
50249644 TG
1 TG
50249646 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
5 1 0.03
6 4 0.11
7 29 0.81
8 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.16, T:0.14
Consensus pattern (7 bp):
TGAAAAA
Found at i:50251144 original size:50 final size:50
Alignment explanation
Indices: 50251090--50251548 Score: 288
Period size: 50 Copynumber: 9.2 Consensus size: 50
50251080 GCAATGGAAC
* * * * *
50251090 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * ** *
50251140 AGATTAAAGCTACAACAACGAATCTTAC-TCCCCAGTAGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCC-G-ACATTGCAGTTAAAA
* * * *
50251190 AGATTAACGCCACAACGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** *
50251240 AGATTAAAGCTACCACAGTGAATCTTACTT-CTC-A-AGTGGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACA-T--TGCAGTTAAAA
* * * *
50251290 AGATTAATGCCATAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** *
50251340 AGATTAAAGCTACCACAGTGAATCTTACTT-CTCAAGC-TGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGA-CAT-TGCAGTTAAAA
* * *
50251390 CGATTAACGCCACAAC-GACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAG-CGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * *** * ** *
50251440 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGATGGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** *
50251490 AGATTGAAA-CTACAACAACGAATCTTGCTTCCTCGACATCACAGTTAAAC
1 AGATT-AAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
50251540 AGATTAAAG
1 AGATTAAAG
50251549 TTACGAGTTA
Statistics
Matches: 299, Mismatches: 92, Indels: 36
0.70 0.22 0.08
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 16 0.05
50 260 0.87
51 17 0.06
52 2 0.01
53 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:50251235 original size:100 final size:100
Alignment explanation
Indices: 50251079--50251548 Score: 615
Period size: 100 Copynumber: 4.7 Consensus size: 100
50251069 CCTCTGAGGT
* * * * *
50251079 TGCAATGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * *
50251144 TAAAGCTACAACAACGAATCTTAC-TCCCCAGTAGA
66 TAAAGCTACAACAGCGAATCTTACTTCCCAAGT-GG
*
50251179 TGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * *
50251244 TAAAGCTACCACAGTGAATCTTACTTCTCAAGTGG
66 TAAAGCTACAACAGCGAATCTTACTTCCCAAGTGG
* * *
50251279 TGTAGTGGAACAGATTAATGCCATAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * *
50251344 TAAAGCTACCACAGTGAATCTTACTTCTCAAGCT-G
66 TAAAGCTACAACAGCGAATCTTACTTCCCAAG-TGG
* *
50251379 TGCAGTGGAACCGATTAACGCCACAACGACGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
50251444 TAAAGCTACAACAGCGAATCTTACTTCCC-AGATGG
66 TAAAGCTACAACAGCGAATCTTACTTCCCAAG-TGG
* * * ** * ** *
50251479 TGTAGTGGAACAGATTGAA-ACTACAACAACGAATCTTGCTTCCTCGACATCACAGTTAAACAGA
1 TGCAGTGGAACAGATT-AACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
50251543 TTAAAG
65 TTAAAG
50251549 TTACGAGTTA
Statistics
Matches: 332, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
99 3 0.01
100 320 0.96
101 9 0.03
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (100 bp):
TGCAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
TAAAGCTACAACAGCGAATCTTACTTCCCAAGTGG
Found at i:50253048 original size:3 final size:3
Alignment explanation
Indices: 50253040--50253080 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
50253030 TAATATCTCC
*
50253040 ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT A
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
50253081 GTTTTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:50258989 original size:15 final size:15
Alignment explanation
Indices: 50258971--50258999 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50258961 TTTTTAATTG
50258971 ATGGTTTGTTAAATA
1 ATGGTTTGTTAAATA
50258986 ATGGTTTGTTAAAT
1 ATGGTTTGTTAAAT
50259000 GTTTCGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
ATGGTTTGTTAAATA
Found at i:50275284 original size:31 final size:31
Alignment explanation
Indices: 50275241--50275303 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
50275231 TCGTCACACA
50275241 TGTCTCTCGAGAAGCGCAATATTAAAAAGCC
1 TGTCTCTCGAGAAGCGCAATATTAAAAAGCC
*
50275272 TGTCTC-CTGAGAAGTGCAATATTAAAAAGCC
1 TGTCTCTC-GAGAAGCGCAATATTAAAAAGCC
50275303 T
1 T
50275304 CAAGTCCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (31 bp):
TGTCTCTCGAGAAGCGCAATATTAAAAAGCC
Found at i:50280631 original size:51 final size:52
Alignment explanation
Indices: 50280555--50280659 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 52
50280545 ATATAAATAA
50280555 AATTATTAATATATAGATTTAGGGA-TTTTTTGGATGATTTTAATTTTTGAT
1 AATTATTAATATATAGATTTAGGGATTTTTTTGGATGATTTTAATTTTTGAT
*
50280606 AATTATTATTATATA-AGTTTAGGGATTTTTTTTTGGATGATTTTAATTTTTGAT
1 AATTATTAATATATAGA-TTTAGGGA--TTTTTTTGGATGATTTTAATTTTTGAT
50280660 TTGAGAGTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
50 1 0.02
51 22 0.45
54 26 0.53
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (52 bp):
AATTATTAATATATAGATTTAGGGATTTTTTTGGATGATTTTAATTTTTGAT
Found at i:50281432 original size:14 final size:15
Alignment explanation
Indices: 50281405--50281433 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50281395 TTATATTCTA
50281405 TATATGTATCATTAT
1 TATATGTATCATTAT
50281420 TATATGT-TCATTAT
1 TATATGTATCATTAT
50281434 GCTTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (15 bp):
TATATGTATCATTAT
Found at i:50304129 original size:30 final size:31
Alignment explanation
Indices: 50304087--50304147 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
50304077 GGGTTGGGAG
* *
50304087 GGGAAGGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
50304118 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
50304148 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:50304210 original size:9 final size:9
Alignment explanation
Indices: 50304196--50304232 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50304186 TATAGTTTGA
50304196 TATTCGAAT
1 TATTCGAAT
50304205 TATTCGAAT
1 TATTCGAAT
*
50304214 TATTCGAGT
1 TATTCGAAT
50304223 TATTCGAAT
1 TATTCGAAT
50304232 T
1 T
50304233 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:50308444 original size:19 final size:19
Alignment explanation
Indices: 50308422--50308496 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 19
50308412 TAAAGATCAA
50308422 TAAAAATTATAAAAATAAG
1 TAAAAATTATAAAAATAAG
**
50308441 TAAATTTTAATAAAAAT-A-
1 TAAAAATT-ATAAAAATAAG
50308459 TAAAAATTTATTAAAAATTAGAAG
1 TAAAAA-TTA-TAAAAA-T--AAG
*
50308483 AAAAAATTATAAAA
1 TAAAAATTATAAAA
50308497 TATATAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
18 5 0.12
19 15 0.35
20 9 0.21
22 5 0.12
23 4 0.09
24 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
TAAAAATTATAAAAATAAG
Found at i:50308569 original size:19 final size:20
Alignment explanation
Indices: 50308547--50308586 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
50308537 GTAAGAAAAT
50308547 TATAAAAAATAT-AAAGAAA
1 TATAAAAAATATAAAAGAAA
**
50308566 TATAAAATTTATAAAAGAAA
1 TATAAAAAATATAAAAGAAA
50308586 T
1 T
50308587 TTATAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
TATAAAAAATATAAAAGAAA
Found at i:50308588 original size:13 final size:13
Alignment explanation
Indices: 50308570--50308594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50308560 AAGAAATATA
50308570 AAATTTATAAAAG
1 AAATTTATAAAAG
50308583 AAATTTATAAAA
1 AAATTTATAAAA
50308595 CTTATCGTAC
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTATAAAAG
Found at i:50308803 original size:20 final size:20
Alignment explanation
Indices: 50308780--50308845 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 20
50308770 TTTTGATGCA
50308780 TTTTATAATTTTTTTATGAT
1 TTTTATAATTTTTTTATGAT
***
50308800 TTTTATAAAATTTTACAAT-AT
1 TTTTAT--AATTTTTTTATGAT
*
50308821 TTTTATAA--TTTTTACGAT
1 TTTTATAATTTTTTTATGAT
50308839 TTTTATA
1 TTTTATA
50308846 TTTGTAACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
17 3 0.08
18 9 0.25
19 2 0.06
20 6 0.17
21 8 0.22
22 8 0.22
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTTTTATGAT
Found at i:50312054 original size:28 final size:29
Alignment explanation
Indices: 50312013--50312077 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
50312003 CAATAATTTT
*
50312013 TTTTTCTATTTTTTAATAAAATTTAA-ATA
1 TTTTTATATTTTTTAATAAAATTTAATA-A
*
50312042 TTTTTATA-TTTTTATTAAAATTTAATAA
1 TTTTTATATTTTTTAATAAAATTTAATAA
50312070 TTTTTATA
1 TTTTTATA
50312078 ACTTCCATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 25 0.76
29 8 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTTATATTTTTTAATAAAATTTAATAA
Found at i:50312407 original size:91 final size:89
Alignment explanation
Indices: 50312281--50312531 Score: 262
Period size: 91 Copynumber: 2.8 Consensus size: 89
50312271 TAAATTTTTG
* * * * *
50312281 TTTTTGAAAAAATTTGA-GAGCTTTTTTAATACATTTTAAAAGTTCAAGTACTCAATTGAGTACA
1 TTTTTTAAAAAGTTTGATGA-CATTTTTAATGCATTTTGAAAGTTCAAGTACTCAATTGAGT-CA
**
50312345 AAAGAAAAAAGTAGGGACTTAATTACT
64 AAA-AAAAAAGTAAAGACTTAATTACT
* *
50312372 CTTTTTT-TAAAGTTTGATGACCTTTTTAATGCATTTTGAAAGTTCAAGTACTCAATTGAGTGC-
1 -TTTTTTAAAAAGTTTGATGACATTTTTAATGCATTTTGAAAGTTCAAGTACTCAATTGAGT-CA
*
50312435 --AAAAAAAGTAAAGACTTAATTGCT
64 AAAAAAAAAGTAAAGACTTAATTACT
* * * * * *
50312459 TTTTTTGAAAAAGTTTGATGTCATTTTTGATGCAATTTGAAAGTTTAAATAC-CAATTGAGTGAA
1 TTTTTT-AAAAAGTTTGATGACATTTTTAATGCATTTTGAAAGTTCAAGTACTCAATTGAGTCAA
50312523 AAAAAAAAG
65 AAAAAAAAG
50312532 AGTTTAATTA
Statistics
Matches: 135, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
86 6 0.04
87 29 0.21
88 38 0.28
89 8 0.06
91 47 0.35
92 7 0.05
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (89 bp):
TTTTTTAAAAAGTTTGATGACATTTTTAATGCATTTTGAAAGTTCAAGTACTCAATTGAGTCAAA
AAAAAAAGTAAAGACTTAATTACT
Found at i:50312499 original size:88 final size:87
Alignment explanation
Indices: 50312303--50312560 Score: 249
Period size: 88 Copynumber: 2.9 Consensus size: 87
50312293 TTTGAGAGCT
* * * * **
50312303 TTTTTAATACATTTTAAAAGTTCAAGTACTCAATTGAGTACAAAAGAAAAAAGTAGGGACTTAAT
1 TTTTTAATGCAATTTGAAAGTTCAAGTACTCAATTGAGTGC---A-AAAAAAGTAAAGACTTAAT
* *
50312368 TACTCTTTTTTTAAAGTTTGATGACC
62 TACTCTTTTTTAAAAGTTTGATGACA
* *
50312394 TTTTTAATGCATTTTGAAAGTTCAAGTACTCAATTGAGTGCAAAAAAAGTAAAGACTTAATTGCT
1 TTTTTAATGCAATTTGAAAGTTCAAGTACTCAATTGAGTGCAAAAAAAGTAAAGACTTAATTACT
*
50312459 -TTTTTTGAAAAAGTTTGATGTCA
66 CTTTTTT--AAAAGTTTGATGACA
* * * *
50312482 TTTTTGATGCAATTTGAAAGTTTAAATAC-CAATTGAGTG-AAAAAAA--AAAGAGTTTAATTAA
1 TTTTTAATGCAATTTGAAAGTTCAAGTACTCAATTGAGTGCAAAAAAAGTAAAGA-CTTAATT-A
* *
50312543 AT-TCTTTTAAAAGTTTGA
64 CTCTTTTTTAAAAGTTTGA
50312561 AAACTTTTTA
Statistics
Matches: 146, Mismatches: 17, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
84 15 0.10
85 6 0.04
86 19 0.13
87 30 0.21
88 38 0.26
91 38 0.26
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (87 bp):
TTTTTAATGCAATTTGAAAGTTCAAGTACTCAATTGAGTGCAAAAAAAGTAAAGACTTAATTACT
CTTTTTTAAAAGTTTGATGACA
Found at i:50320549 original size:12 final size:12
Alignment explanation
Indices: 50320532--50320561 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50320522 CTAAACAATG
50320532 CAATAATCCTAA
1 CAATAATCCTAA
50320544 CAATAATCCTAA
1 CAATAATCCTAA
*
50320556 AAATAA
1 CAATAA
50320562 AATTCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (12 bp):
CAATAATCCTAA
Found at i:50320845 original size:24 final size:24
Alignment explanation
Indices: 50320813--50320861 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50320803 CACATAAAAG
50320813 TAAGTCATTTTAGAGTATTGTCAA
1 TAAGTCATTTTAGAGTATTGTCAA
50320837 TAAGTCATTTTAGAGTATTGTCAA
1 TAAGTCATTTTAGAGTATTGTCAA
50320861 T
1 T
50320862 GGCTCTAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (24 bp):
TAAGTCATTTTAGAGTATTGTCAA
Found at i:50333757 original size:21 final size:21
Alignment explanation
Indices: 50333733--50333779 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
50333723 CTTGCCCGTG
*
50333733 TGGCCCACAAAGCTTGGCTCA
1 TGGCCCACAAAGCCTGGCTCA
**
50333754 TGGCCCACACGGCCTGGCTCA
1 TGGCCCACAAAGCCTGGCTCA
50333775 TGGCC
1 TGGCC
50333780 TACACGCCCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.38, G:0.28, T:0.17
Consensus pattern (21 bp):
TGGCCCACAAAGCCTGGCTCA
Found at i:50346187 original size:3 final size:3
Alignment explanation
Indices: 50346179--50346222 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
50346169 ATGTACAAGC
*
50346179 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
50346223 GATGTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:50348600 original size:42 final size:42
Alignment explanation
Indices: 50348511--50348755 Score: 348
Period size: 42 Copynumber: 5.8 Consensus size: 42
50348501 TAGAAAAAAA
* * * *
50348511 GCCGCTACAGATCATGTTCTTTAGCGACGTTTTTTTCCTAAGC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAGC
* *
50348554 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGT
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGC
*
50348596 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTGTCTAAGC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGC
* *
50348638 GCCGCTAAAGAACATTATCTTTAGCGGC-TTTTTTGTCTAATC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-TCTAAGC
* *
50348680 GCCGCTAAAGAACATTATCTTTAGCGGTGTTTTTTTCTAAGC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGC
* *
50348722 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
50348756 GTACAAAAAG
Statistics
Matches: 183, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
41 5 0.03
42 140 0.77
43 38 0.21
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (42 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGC
Found at i:50348756 original size:84 final size:83
Alignment explanation
Indices: 50348472--50348757 Score: 337
Period size: 84 Copynumber: 3.4 Consensus size: 83
50348462 ACAAAAACGT
* *** * * *
50348472 CGCTAAAG-ACTATGTTCTTTAGCGGCGC-TTAGAAAAAAAGCCGCTACAGATCATGT-TCTTTA
1 CGCTAAAGAAC-ATGTTCTTTAGCGGCGCTTTTG-TCTAATGCCGCTAAAGAACAT-TATCTTTA
*
50348534 GCGACGTTTTTTTCCTAAGCGC
63 GCGGCGTTTTTTT-CTAAGCGC
* * * *
50348556 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGTGCCGCTAAAGAACATGATCTTTAGC
1 CGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGTCTAA-TGCCGCTAAAGAACATTATCTTTAGC
*
50348621 GGCGTTTTTGTCTAAGCGC
65 GGCGTTTTTTTCTAAGCGC
**
50348640 CGCTAAAGAACAT-TATCTTTAGCGGCTTTTTTGTCTAATCGCCGCTAAAGAACATTATCTTTAG
1 CGCTAAAGAACATGT-TCTTTAGCGGCGCTTTTGTCTAAT-GCCGCTAAAGAACATTATCTTTAG
*
50348704 CGGTGTTTTTTTCTAAGCGC
64 CGGCGTTTTTTTCTAAGCGC
50348724 CGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGT
1 CGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGT
50348758 ACAAAAAGGC
Statistics
Matches: 174, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
83 1 0.01
84 138 0.79
85 35 0.20
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (83 bp):
CGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGTCTAATGCCGCTAAAGAACATTATCTTTAGCG
GCGTTTTTTTCTAAGCGC
Found at i:50349165 original size:21 final size:21
Alignment explanation
Indices: 50349137--50349187 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
50349127 TTCTTTTGAA
*
50349137 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
50349158 CCTTTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
50349179 CCTCTGCTT
1 CCTCTGCTT
50349188 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:50356807 original size:29 final size:29
Alignment explanation
Indices: 50356765--50356939 Score: 201
Period size: 29 Copynumber: 6.4 Consensus size: 29
50356755 CCAACTGATG
50356765 AGGTTA-GGTTAGGGTTTTTAATTAGGTT
1 AGGTTAGGGTTAGGGTTTTTAATTAGGTT
50356793 AGGTTAGGGTTAGGGTTTTTAATTAGGTT
1 AGGTTAGGGTTAGGGTTTTTAATTAGGTT
50356822 AGGTTAGGGTTAGGGTTTTTAATTAGG--
1 AGGTTAGGGTTAGGGTTTTTAATTAGGTT
* * **
50356849 -GTTTA-AGTTAGGG-TTTTAATTAAATT
1 AGGTTAGGGTTAGGGTTTTTAATTAGGTT
*
50356875 AGGTTAGGGTTAGGATTTTTAATT-GG--
1 AGGTTAGGGTTAGGGTTTTTAATTAGGTT
**
50356901 -GGTTTA-GGTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTAGGGTTTTTAATTAGGTT
50356929 AGGTTAGGGTT
1 AGGTTAGGGTT
50356940 TTTATTACAT
Statistics
Matches: 123, Mismatches: 12, Indels: 23
0.78 0.08 0.15
Matches are distributed among these distances:
24 9 0.07
25 25 0.20
26 7 0.06
27 4 0.03
28 15 0.12
29 63 0.51
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (29 bp):
AGGTTAGGGTTAGGGTTTTTAATTAGGTT
Found at i:50356853 original size:11 final size:12
Alignment explanation
Indices: 50356831--50356870 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
50356821 TAGGTTAGGG
50356831 TTAGGGTTTTTAA
1 TTAGGG-TTTTAA
50356844 TTAGGG-TTTAA
1 TTAGGGTTTTAA
50356855 GTTAGGGTTTTAA
1 -TTAGGGTTTTAA
50356868 TTA
1 TTA
50356871 AATTAGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.20
12 9 0.36
13 11 0.44
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (12 bp):
TTAGGGTTTTAA
Found at i:50356877 original size:53 final size:54
Alignment explanation
Indices: 50356765--50356939 Score: 246
Period size: 53 Copynumber: 3.2 Consensus size: 54
50356755 CCAACTGATG
* **
50356765 AGGTTA-GGTTAGGGTTTTTAATTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAGGTT
1 AGGTTAGGGTTAGGGTTTTTAATTAGG---GTTTA-GGTTAGGGTTTTTAATTAAATT
*
50356822 AGGTTAGGGTTAGGGTTTTTAATTAGGGTTTAAGTTAGGG-TTTTAATTAAATT
1 AGGTTAGGGTTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTTTTTAATTAAATT
* *
50356875 AGGTTAGGGTTAGGATTTTTAATTGGGGTTTAGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTTTTTAATTAAATT
50356929 AGGTTAGGGTT
1 AGGTTAGGGTT
50356940 TTTATTACAT
Statistics
Matches: 109, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
53 48 0.44
54 31 0.28
55 4 0.04
57 6 0.06
58 20 0.18
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (54 bp):
AGGTTAGGGTTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTTTTTAATTAAATT
Found at i:50356967 original size:25 final size:25
Alignment explanation
Indices: 50356939--50357052 Score: 98
Period size: 25 Copynumber: 4.7 Consensus size: 25
50356929 AGGTTAGGGT
50356939 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
50356964 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
50356987 --AAATAAC-TCGAA-AAACTTTCTA
1 TTTTATTACATCAAATAAAC-TTCTA
**
50357009 TGCGTATTACATCAAATAAACTTCTA
1 T-TTTATTACATCAAATAAACTTCTA
50357035 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
50357053 TAAATTTAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
20 6 0.09
21 6 0.09
22 2 0.03
23 2 0.03
24 4 0.06
25 35 0.51
26 10 0.14
27 4 0.06
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.39
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:50358100 original size:7 final size:7
Alignment explanation
Indices: 50358090--50358142 Score: 106
Period size: 7 Copynumber: 7.6 Consensus size: 7
50358080 TTATATACAT
50358090 AATACTA
1 AATACTA
50358097 AATACTA
1 AATACTA
50358104 AATACTA
1 AATACTA
50358111 AATACTA
1 AATACTA
50358118 AATACTA
1 AATACTA
50358125 AATACTA
1 AATACTA
50358132 AATACTA
1 AATACTA
50358139 AATA
1 AATA
50358143 TCTATTTGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:50358321 original size:20 final size:20
Alignment explanation
Indices: 50358283--50358321 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50358273 TTTTATTTTT
*
50358283 TAAAATCTACATAATAATTG
1 TAAAATCTACATAAAAATTG
50358303 TAAAATCTA-ATATAAAATT
1 TAAAATCTACATA-AAAATT
50358322 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATCTACATAAAAATTG
Found at i:50359372 original size:11 final size:11
Alignment explanation
Indices: 50359356--50359391 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
50359346 GAATTTTGGA
50359356 AGGAAATTGAG
1 AGGAAATTGAG
50359367 AGGAAATTGAG
1 AGGAAATTGAG
50359378 AGGAAATATGAG
1 AGGAAAT-TGAG
50359390 AG
1 AG
50359392 AGGATTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:50359387 original size:51 final size:52
Alignment explanation
Indices: 50359253--50359376 Score: 182
Period size: 51 Copynumber: 2.4 Consensus size: 52
50359243 TATTTTAAAA
* *
50359253 AAGGAAATTGAGAGCAAATTGAAATTAAATAT-GAGTTTGAGAGATTTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGAGTTTGAGAGAATTTTGG
* *
50359304 AATGAATTTGAGAGGAAATTGAAATTAAATATGGA-TTT-ATGAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGAGTTTGA-GAGAATTTTGG
50359355 AAGGAAATTGAGAGGAAATTGA
1 AAGGAAATTGAGAGGAAATTGA
50359377 GAGGAAATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
50 1 0.02
51 62 0.95
52 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.26, T:0.31
Consensus pattern (52 bp):
AAGGAAATTGAGAGGAAATTGAAATTAAATATGGAGTTTGAGAGAATTTTGG
Found at i:50359709 original size:5 final size:5
Alignment explanation
Indices: 50359666--50359705 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
50359656 ACATATAATA
*
50359666 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT CAAAAC AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
50359706 CAAATCCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:50360972 original size:21 final size:21
Alignment explanation
Indices: 50360933--50360972 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50360923 ACGTTAATAA
*
50360933 AAAATTAAAAAAATCAAAATT
1 AAAATTAAAAAAATAAAAATT
*
50360954 AAAATTAAAAATATAAAAA
1 AAAATTAAAAAAATAAAAA
50360973 ATTTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATTAAAAAAATAAAAATT
Found at i:50361678 original size:22 final size:22
Alignment explanation
Indices: 50361653--50361744 Score: 141
Period size: 22 Copynumber: 4.2 Consensus size: 22
50361643 AAATTCAATA
50361653 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
50361675 TCAA-TTCCTTTCAAAAATTCTC
1 TCAATTTCC-TTCAAAAATTCTC
* *
50361697 TCAATTCCCTTCAAAATTTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
50361719 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
50361741 TCAA
1 TCAA
50361745 ACTCTCAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
21 4 0.06
22 56 0.89
23 3 0.05
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:50361750 original size:30 final size:30
Alignment explanation
Indices: 50361716--50361774 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
50361706 TTCAAAATTT
* *
50361716 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
50361746 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
50361775 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:50361760 original size:52 final size:51
Alignment explanation
Indices: 50361694--50361796 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
50361684 TTCAAAAATT
* * *
50361694 CTCTCAATTCCCTT-CAAAATTTCTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
50361746 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
50361797 TCCATATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:50361785 original size:21 final size:22
Alignment explanation
Indices: 50361746--50361787 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50361736 TTCTCTCAAA
50361746 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
50361768 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
50361788 ATCTCCAAAT
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:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:50361893 original size:29 final size:30
Alignment explanation
Indices: 50361831--50361893 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
50361821 TAAATTTCAT
* *
50361831 TTTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
*
50361861 TTTTTTAA-ATAATTTTAAAATTTTTAATA
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
50361890 TTTT
1 TTTT
50361894 CAACAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:50363875 original size:21 final size:21
Alignment explanation
Indices: 50363826--50363875 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
50363816 CAGATGCCGA
50363826 ACCGGAAGAACAACAATCACC
1 ACCGGAAGAACAACAATCACC
* * *
50363847 ACCCGAAGAAGAACAATCGCC
1 ACCGGAAGAACAACAATCACC
*
50363868 TCCGGAAG
1 ACCGGAAG
50363876 CTAGAGGAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.32, G:0.20, T:0.06
Consensus pattern (21 bp):
ACCGGAAGAACAACAATCACC
Found at i:50364235 original size:149 final size:151
Alignment explanation
Indices: 50364050--50364900 Score: 916
Period size: 149 Copynumber: 5.6 Consensus size: 151
50364040 ACATTATTTG
* *
50364050 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAACCTAACCCT-ACTTAATTAAAAACCCT
1 ATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTAAAAA--CT
* *
50364114 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAA-T-TT-
63 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCTAACTATTA
*
50364176 AATTAAAAACCCTAACATAACTCA
128 AATTAAAAACCCTAACATAACTTA
* * * *
50364200 ATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACCCT-ACTTAATTAAAAACT---
1 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTAAAAACTAAC
*
50364261 -CTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAATTAA
66 CCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCTAAC-T-ATTAA
50364325 ATTAAAAACCCTAACATAACTTA
129 ATTAAAAACCCTAACATAACTTA
* *
50364348 ATTAAAAACCCTAA-C---CCT-ACTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAA--
1 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA-TTAA--AAACT
50364406 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCTAACTTAAT
63 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCTAAC-T-AT
50364471 TAAATTAAAAACCCTAACATAACTTA
126 TAAATTAAAAACCCTAACATAACTTA
* * *
50364497 ATTAAAACCCCTAA-C---CCT-ACTTAATTAAAAACCATAACCCTAACCTAATTTAATTAAA--
1 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAA-TTAA--AAACT
* *
50364555 AACCCTAACCTAATTTAATTAAAAACCCTAAGATAACTTAATTAAAAAACCTAACCTAACTTAAT
63 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCTAAC-T-AT
*
50364620 TAAATTAAAAACCCTAACCCT-ACTTA
126 TAAATTAAAAACCCTAA-CATAACTTA
**
50364646 ATTAAAAACCCTAAACCTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAATT--AAA--AA
1 ATTAAAAACCCT-AACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTAAAAACTAA
* * * * *
50364706 CCCTAACATAACTTAATTAAAAACCCTAACATAAC-TAATTAAAAACCCTAAGCTAATTTAATTT
65 CCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCTAA-CT-ATTA
* *
50364770 AATTAAAAACCCTAACCCTAACCTA
128 AATTAAAAACCCTAA-CATAACTTA
* * *
50364795 ATTTAATTGAAATCTCTAACCTAACCTAATTTAATTAAAAACCCCAACCCTAACCTATTTTACAT
1 A-TTAA---AAA-CCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA-ATT--A-
* *
50364860 GAAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAAC
57 -AAAA--CTAACCCTAACCTAATTTAATTAAAAACCCTAAC
50364901 CCTAACCTAA
Statistics
Matches: 619, Mismatches: 43, Indels: 63
0.85 0.06 0.09
Matches are distributed among these distances:
143 72 0.12
144 7 0.01
145 5 0.01
147 8 0.01
148 79 0.13
149 321 0.52
150 21 0.03
151 1 0.00
153 34 0.05
154 21 0.03
155 19 0.03
161 3 0.00
165 28 0.05
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (151 bp):
ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTAAAAACTAAC
CCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCTAACTATTAAAT
TAAAAACCCTAACATAACTTA
Found at i:50364443 original size:126 final size:127
Alignment explanation
Indices: 50364045--50364923 Score: 730
Period size: 126 Copynumber: 6.9 Consensus size: 127
50364035 TTTTGACATT
* * * *
50364045 ATTTGATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAACCTAACCCT-ACTTAATTAAAA
1 ATTTAATTAAAAACCCTAA-CCTAACTTAATTTAATTAAAAACCCTAA-CATAACTTAATTAAAA
*
50364109 ACCCTAACCCTAACCTAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCTAACC
64 ACCCTAACCCTAACTTAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC
50364170 TA
126 TA
* * * *
50364172 ATTTAATTAAAAACCCTAACATAACTCAA-TTAA--AAAACCTAACCTAACTTAA-TTAAATTAA
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAA---ACCCTAACATAACTT-AATTAA
*
50364233 AAACCCTAACCCT-ACTTAATTAAAAA--CT----CTAACCTAATTTAATTAAAAACCCTAACAT
62 AAACCCTAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCT
50364291 A
127 A
* * *
50364292 ACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAAAAC
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAC
*
50364357 CCTAACCCT-ACTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTA
66 CCTAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTA
* *
50364418 ATTTAATTAAAAACCCTAA-C--A--TAACTTAATTAAAAACCCTAACCTAACTTAATTAAATTA
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACATAAC----TT-AATTA
* * * *
50364478 AAAACCCTAA-CATAACTTAATTAAAACCCCTAACCCT-ACTTAA-TTAA-AAACCATAACCCTA
61 AAAACCCTAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAA--A-AACCCTA
50364539 ACCTA
123 ACCTA
* *
50364544 ATTTAATTAAAAACCCTAA-C---C-TAATTTAATTAAAAACCCTAAGATAACTTAATTAAAAAA
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAC
* *
50364604 CCTAA-CCTAACTTAATTAAATTAAAAACCCTAACCCT-ACTTAA-TTAA--AAACCCTAAACCT
66 CCTAACCCTAAC----TT-AATTAAAAACCCTAACCCTAACCTAATTTAATTAAA----AACCCT
50364664 AACCTA
122 AACCTA
50364670 ATTTAATTAAAAACCCTAA-C---C-TAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAC
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAC
* * **
50364730 CCTAA-CATAAC-TAATTAAAAACCCTAA-GCTAATTTAATTTAATTAAAAACCCTAACCCTAAC
66 CCTAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATT--AAA----AACCCTAAC
50364792 CTA
125 CTA
* * * * * * * *
50364795 ATTTAATTGAAATCTCTAACCTAACCTAATTTAATTAAAAACCCCAACCCTAACCTATTTTACAT
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAA-CATAACTTA-ATT--A-
*
50364860 GAAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAAAC
61 -AAAACCCTAACCCTAA-C----TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
50364924 TCTTACCCTG
Statistics
Matches: 641, Mismatches: 51, Indels: 109
0.80 0.06 0.14
Matches are distributed among these distances:
119 2 0.00
120 117 0.18
121 53 0.08
122 7 0.01
123 12 0.02
124 8 0.01
125 62 0.10
126 281 0.44
127 18 0.03
129 1 0.00
130 20 0.03
131 7 0.01
132 2 0.00
134 1 0.00
136 10 0.02
137 4 0.01
138 4 0.01
142 3 0.00
143 15 0.02
144 14 0.02
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (127 bp):
ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAC
CCTAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTA
Found at i:50364784 original size:23 final size:23
Alignment explanation
Indices: 50364062--50364768 Score: 661
Period size: 23 Copynumber: 28.9 Consensus size: 23
50364052 TAAAAACCCT
50364062 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
50364085 AAACCTAACCCT-ACTTAATTAAAAA
1 AACCCTAA-CCTAATTTAATT--AAA
50364110 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
50364137 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
50364160 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* * *
50364183 AACCCTAACATAACTCAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
50364206 AAACCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
*
50364234 AACCCTAACCCT-ACTTAATTAAA
1 AACCCTAA-CCTAATTTAATTAAA
*
50364257 AACTCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
50364280 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
50364303 AAACCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
* *
50364331 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
50364354 AACCCTAACCCT-ACTTAATTAAA
1 AACCCTAA-CCTAATTTAATTAAA
50364377 AACCCTAACCTTAACCTAATTTAATTAAA
1 AA--C---CC-TAACCTAATTTAATTAAA
50364406 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
50364429 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
50364452 AACCCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
* *
50364480 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
50364503 ACCCCTAACCCT-ACTTAATTAAAAACCA
1 AACCCTAA-CCTAATTTAATT---AA--A
50364531 TAACCCTAACCTAATTTAATTAAA
1 -AACCCTAACCTAATTTAATTAAA
50364555 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
** *
50364578 AACCCTAAGATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
50364601 AAACCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
*
50364629 AACCCTAACCCT-ACTTAATTAAA
1 AACCCTAA-CCTAATTTAATTAAA
50364652 AACCCTAAACCTAACCTAATTTAATTAAA
1 AA--C----CCTAACCTAATTTAATTAAA
50364681 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
50364704 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
50364727 AACCCTAACATAA-CTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
50364749 AACCCTAAGCTAATTTAATT
1 AACCCTAACCTAATTTAATT
50364769 TAATTAAAAA
Statistics
Matches: 577, Mismatches: 52, Indels: 110
0.78 0.07 0.15
Matches are distributed among these distances:
22 22 0.04
23 368 0.64
24 18 0.03
25 5 0.01
26 4 0.01
27 12 0.02
28 82 0.14
29 66 0.11
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:50364902 original size:58 final size:57
Alignment explanation
Indices: 50364045--50364923 Score: 513
Period size: 51 Copynumber: 17.2 Consensus size: 57
50364035 TTTTGACATT
* * *
50364045 ATTTGATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAACCTAACCCT-A-C--
1 ATTTAATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
50364099 --TTAATTAAAAACCCTAACCCTAACCTAATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
50364149 ATTTAATT-AAAA----ACCCTAACCTAATTTAATTAAAAACCCTAA-CATAA-CTCA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCT-A
* *
50364200 A-TTAA---AAAA-CCTAACCTAACTTAATTAAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
50364248 --TTAATT-AAAA-ACT---CTAACCTAATTTAATTAAAAACCCTAA-CATAACTTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
50364297 A-TTAA---AAAA-CCTAACCTAACTTAATTAAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * *
50364343 ACTTAATTAAAAACCCTAA-C---CCT-ACTTAATTAAAAACCCTAACCTTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
50364395 ATTTAATT-AAAA----ACCCTAACCTAATTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * *
50364441 ACTTAATTAAAAACCCTAACCTAACTTAATTAAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
50364492 ACTTAATT-AAAA-CC---CCTAACCCT-ACTTAATTAAAAACCATAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAA-CCTAATTTAATTAAAAACCCTAACCCTAACCTA
* ** *
50364544 ATTTAATT-AAAA----ACCCTAACCTAATTTAATTAAAAACCCTAA-GATAACTTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
50364595 A-TTAA---AAAA-CCTAACCTAACTTAATTAAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
50364643 --TTAATTAAAAACCCTAAACCTAACCTAATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTGAAAACCCT-AACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
50364693 ATTTAATTAAAAACCCTAA-C--A--TAACTTAATTAAAAACCCTAA-CATAA-CTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* **
50364743 A-TT-A---AAAACCCTAAGCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
50364795 ATTTAATTGAAATCTCTAACCTAACCTAATTTAATTAAAAACCCCAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
50364852 TTTTACA-TGAAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTA-ATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
50364910 ATTTAATTAAAAAC
1 ATTTAATTGAAAAC
50364924 TCTTACCCTG
Statistics
Matches: 667, Mismatches: 64, Indels: 184
0.73 0.07 0.20
Matches are distributed among these distances:
45 12 0.02
46 115 0.17
47 24 0.04
48 29 0.04
49 10 0.01
50 60 0.09
51 166 0.25
52 145 0.22
53 2 0.00
54 1 0.00
57 57 0.09
58 46 0.07
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (57 bp):
ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:50364931 original size:29 final size:29
Alignment explanation
Indices: 50364045--50364980 Score: 552
Period size: 23 Copynumber: 36.3 Consensus size: 29
50364035 TTTTGACATT
*
50364045 ATTTGATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364074 ATTTAATTAAAAAACCTAACCCT-A-C--
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364099 --TTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364126 ATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364149 ATTTAATTAAAAA-CC---C--TAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364172 ATTTAATTAAAAACCCTAA-CATAA-CTCA
1 ATTTAATTAAAAACCCTAACCCTAACCT-A
*
50364200 A-TT-A--AAAAA-CCTAA-CCTAACTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364223 ATTAAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364248 --TTAATTAAAAACTCTAA-CC-----TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364269 ATTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* * *
50364292 ACTTAATTAAAAAACCTAA-CCTAACTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364320 ATTAAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364343 ACTTAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364368 --TTAATTAAAAACCCTAACCTTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364395 ATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364418 ATTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
50364441 ACTTAATTAAAAACCCTAA-CCTAACTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364469 ATTAAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
50364492 ACTTAATTAAAACCCCTAACCCT-A-C--
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364517 --TTAATTAAAAACCATAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364544 ATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364567 ATTTAATTAAAAACCCTAA----GA--TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* * *
50364590 ACTTAATTAAAAAACCTAA-CCTAACTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364618 ATTAAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364643 --TTAATTAAAAACCCTAAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364670 ATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364693 ATTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364716 ACTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* * **
50364739 A-CTAATTAAAAACCCTAA-GCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
50364766 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* * *
50364795 ATTTAATTGAAATCTCTAA-CCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
50364823 ATTTAATTAAAAACCCCAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
50364852 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAACCCTAACCTA
* *
50364881 TTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* * * **
50364910 ATTTAATTAAAAACTCTTACCCTGATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* * * *
50364939 TCATTTTATTTGAAATCCCAAACCCTAACCTA
1 --A-TTTAATTAAAAACCCTAACCCTAACCTA
50364971 ATTTAATTAA
1 ATTTAATTAA
50364981 TGTAAAAACC
Statistics
Matches: 731, Mismatches: 74, Indels: 204
0.72 0.07 0.20
Matches are distributed among these distances:
22 19 0.03
23 339 0.46
24 15 0.02
25 26 0.04
26 6 0.01
27 29 0.04
28 109 0.15
29 166 0.23
30 2 0.00
31 1 0.00
32 19 0.03
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.29
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:50366696 original size:125 final size:125
Alignment explanation
Indices: 50366474--50366730 Score: 356
Period size: 125 Copynumber: 2.1 Consensus size: 125
50366464 CCACGAGGGC
*
50366474 GCGATTTGATACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGAGCAACTGTAGC
1 GCGATTTGATACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACACGAGCAACTGTAGC
* * * **
50366539 GAAATCGCGACCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 GAAATCGCGACCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * * * *
50366599 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAATTTTATTTCTTACACGA-CCACTGTA
1 GCGATTTGATACTATTTACTCAG-AAACGTCAAAAAAAA-ATTATTTCCTACACGAGCAACTGTA
* * *
50366663 GCGAAATCGCG-TCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTGGTAGAA
64 GCGAAATCGCGACCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
50366724 GCGATTT
1 GCGATTT
50366731 CCCACTATTT
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 70 0.60
126 33 0.28
127 13 0.11
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (125 bp):
GCGATTTGATACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACACGAGCAACTGTAGC
GAAATCGCGACCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:50386316 original size:30 final size:30
Alignment explanation
Indices: 50386282--50386339 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
50386272 TGGAACTAAT
50386282 AATGCAAGATGAATTAAGTTAACAGAGAAG
1 AATGCAAGATGAATTAAGTTAACAGAGAAG
50386312 AATGCAAGATGAATTAAGTTAACAGAGA
1 AATGCAAGATGAATTAAGTTAACAGAGA
50386340 CTTGAGCTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.22, T:0.21
Consensus pattern (30 bp):
AATGCAAGATGAATTAAGTTAACAGAGAAG
Found at i:50393114 original size:44 final size:44
Alignment explanation
Indices: 50393055--50393187 Score: 203
Period size: 44 Copynumber: 3.0 Consensus size: 44
50393045 AGGAAAGTAA
* * *
50393055 GATTCGCAATTTTCAACCTATTCCACTGCTAACCAGGGAGATAG
1 GATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAG
50393099 GATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAG
1 GATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAG
* * * *
50393143 GATTCACAATCTTCATCCTATTCCATTGTTGTCCAGGGAGATAG
1 GATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAG
50393187 G
1 G
50393188 GTTGGGGTTA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 82 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
GATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAG
Found at i:50393317 original size:44 final size:45
Alignment explanation
Indices: 50393198--50393507 Score: 159
Period size: 44 Copynumber: 7.0 Consensus size: 45
50393188 GTTGGGGTTA
* * * *
50393198 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
1 TCGATCTGCTTCGCTGTCAGTCCAGGAAGGCAAGAGCTGCTATCT
** * * ** * * *
50393243 TTAACCTGCTCCGCTG-CAACCCAGGGAGGCAAG-GCTGGTGTCT
1 TCGATCTGCTTCGCTGTCAGTCCAGGAAGGCAAGAGCTGCTATCT
* *
50393286 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTAT-T
1 TCGATCTGCTTCGCTGTCAGTCCAGGAAGGCAAGAGCTGCTATCT
* * * * ** * * *
50393330 TTGAACCTACTCCGCTG-CAACCCAGGGAGGCAAG-GCTGGTGTCT
1 TCG-ATCTGCTTCGCTGTCAGTCCAGGAAGGCAAGAGCTGCTATCT
** * * *
50393374 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTT
1 TCGATCTGCTTCGCTGTCAGTCCAGGAAGGCAAGAGCTGCTATCT
** * * ** * *
50393419 TTAACCTGCTCCGCTG-CAACCCAGGGAGGCAAG-GCTAG-TGTCT
1 TCGATCTGCTTCGCTGTCAGTCCAGGAAGGCAAGAGCT-GCTATCT
* * * * **
50393462 TCAATCAGCTTCACTGTCAGTACAGGAAGGCAAGATTTGCTATCT
1 TCGATCTGCTTCGCTGTCAGTCCAGGAAGGCAAGAGCTGCTATCT
50393507 T
1 T
50393508 TAACCTGCTC
Statistics
Matches: 181, Mismatches: 74, Indels: 20
0.66 0.27 0.07
Matches are distributed among these distances:
43 49 0.27
44 81 0.45
45 51 0.28
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (45 bp):
TCGATCTGCTTCGCTGTCAGTCCAGGAAGGCAAGAGCTGCTATCT
Done.