Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 20 of 228
Found at i:6667503 original size:43 final size:44
Alignment explanation
Indices: 6667390--6667504 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 44
6667380 TGAGATTTTC
* *
6667390 TGTAAGACCACGTCTGGGACATTGGCATCGATTTGAGACTTTCG
1 TGTAAGAACACGTCTGGGACATTGGCATCGATTTGAGACTTACG
* * *
6667434 TGTAAGATC-CTGTCTGGGACAGTGGCATCGATATT-TGA-TTACG
1 TGTAAGAACAC-GTCTGGGACATTGGCATCGAT-TTGAGACTTACG
* *
6667477 TGTAAGAACACATCTGAGACATTGGCAT
1 TGTAAGAACACGTCTGGGACATTGGCAT
6667505 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 27 0.45
44 31 0.52
45 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (44 bp):
TGTAAGAACACGTCTGGGACATTGGCATCGATTTGAGACTTACG
Found at i:6669427 original size:21 final size:21
Alignment explanation
Indices: 6669401--6669461 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
6669391 CGACACATAA
6669401 GTGCCTAAAACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* * *
6669422 GTGCCTGATACGACACACTAG
1 GTGCCTAAAACGACACACGAG
6669443 GTGCCTGAAATACGACACA
1 GTGCCT-AAA-ACGACACA
6669462 TAAAGTGCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 24 0.73
22 1 0.03
23 8 0.24
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.15
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:6669455 original size:23 final size:22
Alignment explanation
Indices: 6669388--6669519 Score: 119
Period size: 23 Copynumber: 6.0 Consensus size: 22
6669378 CCTGATCAGT
6669388 ATACGACACATAAGTGCCT-AA
1 ATACGACACATAAGTGCCTGAA
* *
6669409 A-ACGACACACGAGGTGCCTG--
1 ATACGACACA-TAAGTGCCTGAA
*
6669429 ATACGACACACTAGGTGCCTGAA
1 ATACGACACA-TAAGTGCCTGAA
*
6669452 ATACGACACATAAAGTGCCTGAG
1 ATACGACACAT-AAGTGCCTGAA
* *
6669475 ATACGACACATAAAGTGCTTGAT
1 ATACGACACAT-AAGTGCCTGAA
* *
6669498 GTACGACACATAAAGTGTCTGA
1 ATACGACACAT-AAGTGCCTGA
6669520 TCGGCAAGGC
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.09
21 26 0.27
22 1 0.01
23 59 0.62
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTGAA
Found at i:6670580 original size:3 final size:3
Alignment explanation
Indices: 6670572--6670612 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
6670562 ATGCATTAGT
*
6670572 TAA TAA TAA TAA TAA TAA TATA TTA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA
6670613 TTTAATTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:6670601 original size:13 final size:13
Alignment explanation
Indices: 6670572--6670612 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
6670562 ATGCATTAGT
6670572 TAATAATA-ATAA
1 TAATAATATATAA
*
6670584 TAATAATATATTA
1 TAATAATATATAA
6670597 TAATAATATAATAA
1 TAATAATAT-ATAA
6670611 TA
1 TA
6670613 TTTAATTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:6670811 original size:16 final size:17
Alignment explanation
Indices: 6670775--6670811 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
6670765 TAATATAATT
6670775 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
6670792 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
6670807 TATAA
1 TATAA
6670812 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:6675147 original size:25 final size:26
Alignment explanation
Indices: 6675118--6675173 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
6675108 TACACCGCAA
*
6675118 CTCTT-ATGAGCGTCCCG-TTATATGG
1 CTCTTCATGAGCGTCCCGATTA-AAGG
* *
6675143 CTCTTCGTGAGCTTCCCGATTAAAGG
1 CTCTTCATGAGCGTCCCGATTAAAGG
6675169 CTCTT
1 CTCTT
6675174 TGTAAGCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 5 0.19
26 18 0.69
27 3 0.12
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.36
Consensus pattern (26 bp):
CTCTTCATGAGCGTCCCGATTAAAGG
Found at i:6675154 original size:26 final size:25
Alignment explanation
Indices: 6675124--6675189 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
6675114 GCAACTCTTA
* *
6675124 TGAGCGTCCCGTTATATGGCTCTTCG
1 TGAGCTTCCCGTTA-AAGGCTCTTCG
*
6675150 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCG-TTAAAGGCTCTTCG
*
6675176 TAAGCTTCCCGTTA
1 TGAGCTTCCCGTTA
6675190 GTGCTCGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.09
26 29 0.83
27 3 0.09
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.35
Consensus pattern (25 bp):
TGAGCTTCCCGTTAAAGGCTCTTCG
Found at i:6675269 original size:24 final size:24
Alignment explanation
Indices: 6675235--6675285 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6675225 GTGCTTCCCA
*
6675235 TTAATTACTCTTCGGAGCTACCCG
1 TTAATTACTCTTCGAAGCTACCCG
* *
6675259 TTAATTGCTCTTTGAAGCTACCCG
1 TTAATTACTCTTCGAAGCTACCCG
6675283 TTA
1 TTA
6675286 TAGGCTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (24 bp):
TTAATTACTCTTCGAAGCTACCCG
Found at i:6675292 original size:24 final size:26
Alignment explanation
Indices: 6675250--6675313 Score: 89
Period size: 24 Copynumber: 2.6 Consensus size: 26
6675240 TACTCTTCGG
*
6675250 AGCTACCCGTTA-ATTGCTCTTTG-A
1 AGCTACCCGTTATATGGCTCTTTGTA
6675274 AGCTACCCGTTATA-GGCTCTTTGTA
1 AGCTACCCGTTATATGGCTCTTTGTA
*
6675299 AGCTTCCCGTTATAT
1 AGCTACCCGTTATAT
6675314 TACCCGGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 20 0.57
25 15 0.43
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (26 bp):
AGCTACCCGTTATATGGCTCTTTGTA
Found at i:6675325 original size:25 final size:25
Alignment explanation
Indices: 6675297--6675355 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
6675287 AGGCTCTTTG
*
6675297 TAAGCTTCCCGTTATATTACCCGGA
1 TAAGCTTCCCGTTATATTACCCAGA
* **
6675322 TAAGCTTTCCGTTATATTGTCCAGA
1 TAAGCTTCCCGTTATATTACCCAGA
6675347 TAAGCTTCC
1 TAAGCTTCC
6675356 TATTACAAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (25 bp):
TAAGCTTCCCGTTATATTACCCAGA
Found at i:6677227 original size:37 final size:37
Alignment explanation
Indices: 6677163--6677319 Score: 190
Period size: 37 Copynumber: 4.0 Consensus size: 37
6677153 TACGTATGAT
*
6677163 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
6677199 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
6677236 CACCTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
6677279 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6677319 C
1 C
6677320 GAAGCTATCA
Statistics
Matches: 105, Mismatches: 6, Indels: 19
0.81 0.05 0.15
Matches are distributed among these distances:
36 10 0.10
37 53 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 29 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:6677307 original size:46 final size:46
Alignment explanation
Indices: 6677240--6677458 Score: 276
Period size: 52 Copynumber: 4.5 Consensus size: 46
6677230 TGTAGCCACC
* **
6677240 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
6677286 TATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
6677332 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
6677384 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
6677436 TATCACTTTGTCACTTGATCAGA
1 TATCACTTTGTCACTTGATCAGA
6677459 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
46 65 0.41
49 1 0.01
50 1 0.01
51 3 0.02
52 90 0.56
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:6677355 original size:52 final size:52
Alignment explanation
Indices: 6677279--6677452 Score: 285
Period size: 52 Copynumber: 3.3 Consensus size: 52
6677269 TAGCTAAAGC
* * *
6677279 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
6677332 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
6677384 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
6677436 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
6677453 ATCAGAAGTA
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 96 0.84
53 18 0.16
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:6683693 original size:24 final size:24
Alignment explanation
Indices: 6683665--6683716 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6683655 TTAGTAAGTC
* *
6683665 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6683689 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6683713 AAAT
1 AAAT
6683717 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6687573 original size:12 final size:12
Alignment explanation
Indices: 6687558--6687582 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6687548 GGAAACCGCA
6687558 GAGGATACCGTG
1 GAGGATACCGTG
6687570 GAGGATACCGTG
1 GAGGATACCGTG
6687582 G
1 G
6687583 TGGAAACAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.44, T:0.16
Consensus pattern (12 bp):
GAGGATACCGTG
Found at i:6692066 original size:19 final size:19
Alignment explanation
Indices: 6692044--6692094 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
6692034 TATAAAAAAA
6692044 TAAAAAAATTAATTATTTT
1 TAAAAAAATTAATTATTTT
* *
6692063 TAAAGTAAA-TAATTTTTTT
1 TAAA-AAAATTAATTATTTT
6692082 TATAAAAAATTAA
1 TA-AAAAAATTAA
6692095 ATATATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAAAAAAATTAATTATTTT
Found at i:6695512 original size:106 final size:106
Alignment explanation
Indices: 6695399--6695611 Score: 426
Period size: 106 Copynumber: 2.0 Consensus size: 106
6695389 TATATATTTG
6695399 GTATAAAAATTATTCGAACTCAATCCGAGAAAGGTGAACTCTAGGTTAATATGCCACAATTTTGG
1 GTATAAAAATTATTCGAACTCAATCCGAGAAAGGTGAACTCTAGGTTAATATGCCACAATTTTGG
6695464 TTCTATATATTTTTTTTCTTTTATGAATATCACATAATCCA
66 TTCTATATATTTTTTTTCTTTTATGAATATCACATAATCCA
6695505 GTATAAAAATTATTCGAACTCAATCCGAGAAAGGTGAACTCTAGGTTAATATGCCACAATTTTGG
1 GTATAAAAATTATTCGAACTCAATCCGAGAAAGGTGAACTCTAGGTTAATATGCCACAATTTTGG
6695570 TTCTATATATTTTTTTTCTTTTATGAATATCACATAATCCA
66 TTCTATATATTTTTTTTCTTTTATGAATATCACATAATCCA
6695611 G
1 G
6695612 CATTATATTT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (106 bp):
GTATAAAAATTATTCGAACTCAATCCGAGAAAGGTGAACTCTAGGTTAATATGCCACAATTTTGG
TTCTATATATTTTTTTTCTTTTATGAATATCACATAATCCA
Found at i:6696657 original size:140 final size:138
Alignment explanation
Indices: 6696399--6696678 Score: 357
Period size: 140 Copynumber: 2.0 Consensus size: 138
6696389 TATAACAAAA
* * * * * * * *
6696399 GTCGACATAGTGTTGGATAAAACTGACTTTTATTTAAGCGTTGCCTTAAGCATGCATATCCCGAC
1 GTCGACATAGTCTTGGACAAAACAGACTCTTATTTAACCGTTACCTCAAGCATGCATATCCCAAC
* * *
6696464 CCTTATACAAAGAGTTGGCTAAAGCATATATTGACAATTCTATCTCAAAACTTAGGAAAGTTTTG
66 CCTTATACAAAGAGTTGGCCAAAGCATATATCGACAATTCTATCTCAAAACTTA--AAAGTGTTG
6696529 GCCCAAAAGT
129 GCCCAAAAGT
* *
6696539 GTCGGCATAGTCTTGGACAAAACAGACTCTTATTTAACCGTTACCTCAAGCATGGATATCCCAAC
1 GTCGACATAGTCTTGGACAAAACAGACTCTTATTTAACCGTTACCTCAAGCATGCATATCCCAAC
* * * *
6696604 TCTTATACAAAGAGTTGGCCAAAGCGTATATCGGCAAGTT-TATC-CTAACACTTAAAAGTGTTG
66 CCTTATACAAAGAGTTGGCCAAAGCATATATCGACAA-TTCTATCTC-AAAACTTAAAAGTGTTG
6696667 GCCCAAAAGT
129 GCCCAAAAGT
6696677 GT
1 GT
6696679 TGTCTTAGGA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
138 20 0.17
139 1 0.01
140 98 0.81
141 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (138 bp):
GTCGACATAGTCTTGGACAAAACAGACTCTTATTTAACCGTTACCTCAAGCATGCATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCATATATCGACAATTCTATCTCAAAACTTAAAAGTGTTGGC
CCAAAAGT
Found at i:6706266 original size:21 final size:21
Alignment explanation
Indices: 6706242--6706281 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
6706232 AAGTTTATAG
6706242 ATTTTCAGGGAAGGACATAAA
1 ATTTTCAGGGAAGGACATAAA
6706263 ATTTTCAGGGAAGGACATA
1 ATTTTCAGGGAAGGACATA
6706282 GGATCTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (21 bp):
ATTTTCAGGGAAGGACATAAA
Found at i:6712880 original size:23 final size:23
Alignment explanation
Indices: 6712854--6712949 Score: 147
Period size: 23 Copynumber: 4.2 Consensus size: 23
6712844 GTTATTGATT
*
6712854 AGTGGTAACTACGGCTACATATC
1 AGTGGTAGCTACGGCTACATATC
* *
6712877 AGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTACGGCTACATATC
*
6712900 AGTGGTAGCTACGGCTACGTATC
1 AGTGGTAGCTACGGCTACATATC
*
6712923 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTACGGCTACATATC
6712946 AGTG
1 AGTG
6712950 TGGCACTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (23 bp):
AGTGGTAGCTACGGCTACATATC
Found at i:6712923 original size:46 final size:46
Alignment explanation
Indices: 6712854--6712949 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
6712844 GTTATTGATT
*
6712854 AGTGGTAACTACGGCTACATATCAGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAACTACGGCTACATATCAGTGGTAGCTTCGGCTACATATC
* *
6712900 AGTGGTAGCTACGGCTACGTATCAGTGGTAGCTTCGGCTACATATC
1 AGTGGTAACTACGGCTACATATCAGTGGTAGCTTCGGCTACATATC
6712946 AGTG
1 AGTG
6712950 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
AGTGGTAACTACGGCTACATATCAGTGGTAGCTTCGGCTACATATC
Found at i:6715525 original size:23 final size:23
Alignment explanation
Indices: 6715477--6715560 Score: 111
Period size: 23 Copynumber: 3.8 Consensus size: 23
6715467 GATCAGTATA
*
6715477 GACACAT-AAGTGCTTG-AA-AC
1 GACACATAAAGTGCCTGAAATAC
**
6715497 GACACACGAAGTGCCTGAAATAC
1 GACACATAAAGTGCCTGAAATAC
6715520 GACACATAAAGTGCCTGAAATAC
1 GACACATAAAGTGCCTGAAATAC
*
6715543 AACACATAAAGTGCCTGA
1 GACACATAAAGTGCCTGA
6715561 TCGGTAAAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
20 6 0.11
21 8 0.14
22 2 0.04
23 40 0.71
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.17
Consensus pattern (23 bp):
GACACATAAAGTGCCTGAAATAC
Found at i:6716282 original size:15 final size:13
Alignment explanation
Indices: 6716243--6716269 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6716233 TAATTACAAC
6716243 AATAATTTAATAT
1 AATAATTTAATAT
6716256 AATAATTTAATAT
1 AATAATTTAATAT
6716269 A
1 A
6716270 TATCTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTTAATAT
Found at i:6716442 original size:28 final size:30
Alignment explanation
Indices: 6716405--6716472 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 30
6716395 ATTATTTAAT
*
6716405 TAATAAATATCT-TTTACTT-AATAATAAA-
1 TAATAAATATCTATTTAATTAAATAA-AAAG
6716433 TAATAAATATCTATTTAATTAAATAAAAAG
1 TAATAAATATCTATTTAATTAAATAAAAAG
6716463 TAATTAAATA
1 TAA-TAAATA
6716473 AATCTATTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 12 0.34
29 9 0.26
30 8 0.23
31 6 0.17
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (30 bp):
TAATAAATATCTATTTAATTAAATAAAAAG
Found at i:6741868 original size:6 final size:6
Alignment explanation
Indices: 6741848--6741898 Score: 57
Period size: 6 Copynumber: 8.0 Consensus size: 6
6741838 GCGTATGGAT
* *
6741848 ATAAAA ATAATAAA ATGAAA ATAAAA ATAAAA ATAAAAA ATAATA ATAAAA
1 ATAAAA AT-A-AAA ATAAAA ATAAAA ATAAAA AT-AAAA ATAAAA ATAAAA
6741899 TGTTAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 26 0.68
7 7 0.18
8 5 0.13
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:6741877 original size:26 final size:25
Alignment explanation
Indices: 6741848--6741898 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
6741838 GCGTATGGAT
6741848 ATAAAAATAATAAAATGAA-AATAAAA
1 ATAAAAATAA-AAAAT-AATAATAAAA
6741874 ATAAAAATAAAAAATAATAATAAAA
1 ATAAAAATAAAAAATAATAATAAAA
6741899 TGTTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 2 0.08
25 12 0.50
26 10 0.42
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (25 bp):
ATAAAAATAAAAAATAATAATAAAA
Found at i:6741906 original size:18 final size:17
Alignment explanation
Indices: 6741853--6741921 Score: 70
Period size: 18 Copynumber: 4.0 Consensus size: 17
6741843 TGGATATAAA
6741853 AATAATAAAATGAAAAT
1 AATAATAAAATGAAAAT
* *
6741870 AAAAATAAAAATAAAAAAT
1 AATAAT-AAAAT-GAAAAT
*
6741889 AATAATAAAATGTTAAAT
1 AATAATAAAATG-AAAAT
6741907 AAT-ATAAAA-GAAAAT
1 AATAATAAAATGAAAAT
6741922 TAAAAAAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
15 4 0.09
16 1 0.02
17 11 0.26
18 17 0.40
19 10 0.23
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (17 bp):
AATAATAAAATGAAAAT
Found at i:6743703 original size:132 final size:131
Alignment explanation
Indices: 6743537--6744565 Score: 1621
Period size: 132 Copynumber: 7.8 Consensus size: 131
6743527 TCTTGTGGTT
* * *
6743537 TTCAATCTACTCCACTGCTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACC
*
6743602 ACAGGGAGGTAAAATTCACCATCTTTGATATGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
65 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
6743667 TC
130 TC
* *
6743669 TTCAATCTATTCCACTGCTGCCCAGAGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAGCC
1 TTCAATCTATTCCACTGCTGCCCAG-GAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
*
6743734 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCTACTACTGCTTAGGGAGACAAGATCTGAAA
65 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
6743799 TC
130 TC
*
6743801 TTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACC
1 TTCAATCTATTCCACTGCTGCCCAGG-AAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
6743866 ACAGGGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
65 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
6743931 TC
130 TC
*
6743933 TTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCA-GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * * * **
6743998 ACAGGGAGGTAAAATTCACCATCTTCGATCTGCTTCACT-GT-CTATGCAGGAAGGTAAGATCTG
65 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCT-T--AGGGAGACAAGATCTG
*
6744061 CAATC
127 AAATC
* * *
6744066 TTTAATCTATTCCACTGCTGTCCAGGGAAGTATAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCA-GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
6744131 ACAGGGAGGTAAAATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAAAATCTGAAA
65 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
6744196 TC
130 TC
* * *
6744198 TTCAATATATTCCACTGCTGCCTAGTGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAG-GAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
*
6744263 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
65 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
6744328 TC
130 TC
*
6744330 TTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACT
1 TTCAATCTATTCCACTGCTGCCCAGG-AAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
*
6744395 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
65 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
6744460 TC
130 TC
* * *
6744462 TTCAATCTATTCTACTGCTACCCAGGGAAGTAGAATTACTGGCTTCGATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCA-GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * * *
6744527 ACAAGGAGGTAAAATTCACCATCTTCGATTTGCTTCACT
65 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
6744566 GTCTATGCAG
Statistics
Matches: 828, Mismatches: 58, Indels: 22
0.91 0.06 0.02
Matches are distributed among these distances:
130 2 0.00
131 5 0.01
132 697 0.84
133 120 0.14
134 2 0.00
135 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (131 bp):
TTCAATCTATTCCACTGCTGCCCAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCA
CAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAAT
C
Found at i:6744167 original size:45 final size:44
Alignment explanation
Indices: 6743930--6744169 Score: 134
Period size: 45 Copynumber: 5.4 Consensus size: 44
6743920 AAGATCTGAA
* * * *
6743930 ATCTTCAATCTATTCCACTGCTACC-CAGGGAAGTAGAATT-ACT
1 ATCTTCAATCTACTCCACTG-TACCACAGGGAGGTAAAATTCACC
** *
6743973 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACC
1 ATCTTCAATCTACTCCACTGT-ACCACAGGGAGGTAAAATTCACC
* * * * * *
6744018 ATCTTCGATCTGCTTCACTGT-CTATGCAGGAAGGTAAGATCTGCA--
1 ATCTTCAATCTACTCCACTGTACCA--CAGGGAGGTAAAAT-T-CACC
* * ** * * *
6744063 ATCTTTAATCTATTCCACTGCTGTC-CAGGGAAGTATAATT-ACT
1 ATCTTCAATCTACTCCACTG-TACCACAGGGAGGTAAAATTCACC
** *
6744106 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACC
1 ATCTTCAATCTACTCCACTGT-ACCACAGGGAGGTAAAATTCACC
**
6744151 ATCTTTGATCTACTCCACT
1 ATCTTCAATCTACTCCACT
6744170 ACTGCTTAGG
Statistics
Matches: 141, Mismatches: 42, Indels: 26
0.67 0.20 0.12
Matches are distributed among these distances:
41 1 0.01
42 2 0.01
43 38 0.27
44 36 0.26
45 60 0.43
46 2 0.01
47 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTGTACCACAGGGAGGTAAAATTCACC
Found at i:6744492 original size:529 final size:529
Alignment explanation
Indices: 6743540--6744610 Score: 1939
Period size: 529 Copynumber: 2.0 Consensus size: 529
6743530 TGTGGTTTTC
6743540 AATCTACTCCACTGCTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACA
1 AATCTACTCCACTGCTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACA
* *
6743605 GGGAGGTAAAATTCACCATCTTTGATATGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCT
66 GGGAGGTAAAATTCACCATCTTTGATATACTCCACTACTGCTTAGGGAGACAAAATCTGAAATCT
* *
6743670 TCAATCTATTCCACTGCTGCCCAGAGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAGCCA
131 TCAATATATTCCACTGCTGCCCAGAGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCA
*
6743735 CAGGGAGGTAAAATTCACCATCTTTGATCTGCTCTACTACTGCTTAGGGAGACAAGATCTGAAAT
196 CAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAAT
6743800 CTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAAC
261 CTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAAC
6743865 CACAGGGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
326 CACAGGGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
6743930 ATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
391 ATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
* *
6743995 ACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCTTCACTGTCTATGCAGGAAGGTAAGATCT
456 ACCACAAGGAGGTAAAATTCACCATCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAGATCT
6744060 GCAATCTTT
521 GCAATCTTT
* *
6744069 AATCTATTCCACTGCTG-TCCAGGGA-AGTATAATTACTGGCTTCAATGTACTCCACTGTAACCA
1 AATCTACTCCACTGCTGCT-CAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCA
*
6744132 CAGGGAGGTAAAATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAAAATCTGAAAT
64 CAGGGAGGTAAAATTCACCATCTTTGATATACTCCACTACTGCTTAGGGAGACAAAATCTGAAAT
* *
6744197 CTTCAATATATTCCACTGCTGCCTAGTGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAAC
129 CTTCAATATATTCCACTGCTGCCCAGAGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAAC
*
6744262 CACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
194 CACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAA
*
6744327 ATCTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
259 ATCTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATA
* *
6744392 ACTACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTG
324 ACCACAGGGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTG
* *
6744457 AAATCTTCAATCTATTCTACTGCTACCCAGGGAAGTAGAATTACTGGCTTCGATGTACTCCACTG
389 AAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
*
6744522 TAACCACAAGGAGGTAAAATTCACCATCTTCGATTTGCTTCACTGTCTATGCAGGAAGGCAAGAT
454 TAACCACAAGGAGGTAAAATTCACCATCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAGAT
6744587 CTGCAATCTTT
519 CTGCAATCTTT
6744598 AATCTACTCCACT
1 AATCTACTCCACT
6744611 ACAACCGAGG
Statistics
Matches: 520, Mismatches: 20, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
528 2 0.00
529 518 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (529 bp):
AATCTACTCCACTGCTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACA
GGGAGGTAAAATTCACCATCTTTGATATACTCCACTACTGCTTAGGGAGACAAAATCTGAAATCT
TCAATATATTCCACTGCTGCCCAGAGAAGTAGAATTACTGGCTTTAATGTACTCCACTGTAACCA
CAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAAT
CTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAAC
CACAGGGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
ATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
ACCACAAGGAGGTAAAATTCACCATCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAGATCT
GCAATCTTT
Found at i:6745802 original size:21 final size:21
Alignment explanation
Indices: 6745778--6745819 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6745768 TTAGCCTCTC
*
6745778 CATTTTTACTTTTTCATTTTT
1 CATTTTCACTTTTTCATTTTT
*
6745799 CATTTTCATTTTTTCATTTTT
1 CATTTTCACTTTTTCATTTTT
6745820 TCACATCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (21 bp):
CATTTTCACTTTTTCATTTTT
Found at i:6745822 original size:8 final size:7
Alignment explanation
Indices: 6745778--6745819 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
6745768 TTAGCCTCTC
6745778 CATTTTT
1 CATTTTT
6745785 -ACTTTTT
1 CA-TTTTT
6745792 CATTTTT
1 CATTTTT
6745799 CA-TTTT
1 CATTTTT
6745805 CATTTTTT
1 CA-TTTTT
6745813 CATTTTT
1 CATTTTT
6745820 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 17 0.55
8 7 0.23
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:6753904 original size:19 final size:18
Alignment explanation
Indices: 6753855--6753905 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
6753845 AATTAAAATC
*
6753855 TTCAAAAAATATAAAAAA
1 TTCAAAAAATTTAAAAAA
6753873 -TCACAAAATATTTAGAAAAA
1 TTCA-AAAA-ATTTA-AAAAA
6753893 TTCAAAAAATTTA
1 TTCAAAAAATTTA
6753906 TAGTTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.11
18 4 0.14
19 9 0.32
20 9 0.32
21 3 0.11
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (18 bp):
TTCAAAAAATTTAAAAAA
Found at i:6753942 original size:16 final size:16
Alignment explanation
Indices: 6753921--6753960 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6753911 AAAATTTTAG
*
6753921 GAAAAT-TAAAAACTTT
1 GAAAATATAAAAA-TTC
6753937 GAAAATATAAAAATTC
1 GAAAATATAAAAATTC
6753953 GAAAATAT
1 GAAAATAT
6753961 TTAACAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (16 bp):
GAAAATATAAAAATTC
Found at i:6753976 original size:19 final size:20
Alignment explanation
Indices: 6753954--6753995 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6753944 TAAAAATTCG
6753954 AAAATATTTAACAAA-TCAA
1 AAAATATTTAACAAATTCAA
* *
6753973 AAAATATTTTAGAAATTCAA
1 AAAATATTTAACAAATTCAA
6753993 AAA
1 AAA
6753996 GTAAAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATATTTAACAAATTCAA
Found at i:6754054 original size:21 final size:20
Alignment explanation
Indices: 6754029--6754111 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
6754019 GATGATTTAA
*
6754029 TTTTTATATTTTTCTAAGTTT
1 TTTTTATATTTTTC-AAATTT
*
6754050 TTTTTATAGTTTTCAAATTT
1 TTTTTATATTTTTCAAATTT
* *
6754070 TTTGTA-ATTTTATAAAATTT
1 TTTTTATATTTT-TCAAATTT
***
6754090 TAAATATATTTTT-AAATTT
1 TTTTTATATTTTTCAAATTT
6754109 TTT
1 TTT
6754112 ATTTCTTAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 11 0.22
20 21 0.42
21 18 0.36
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTATATTTTTCAAATTT
Found at i:6754070 original size:20 final size:21
Alignment explanation
Indices: 6754029--6754072 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6754019 GATGATTTAA
* *
6754029 TTTTTATATTTTTCTAAGTTT
1 TTTTTATAGTTTTCTAAATTT
6754050 TTTTTATAGTTTTC-AAATTT
1 TTTTTATAGTTTTCTAAATTT
6754070 TTT
1 TTT
6754073 GTAATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTTATAGTTTTCTAAATTT
Found at i:6754159 original size:18 final size:19
Alignment explanation
Indices: 6754136--6754181 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
6754126 TTTTAAAATG
*
6754136 ATTTTTGAGTTTTTTTAT-
1 ATTTTTGAATTTTTTTATA
*
6754154 ATTTTTTAATTTTTTTATA
1 ATTTTTGAATTTTTTTATA
6754173 ATTTTTGAA
1 ATTTTTGAA
6754182 ATCTAGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
ATTTTTGAATTTTTTTATA
Found at i:6754689 original size:19 final size:18
Alignment explanation
Indices: 6754665--6754705 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
6754655 ATGATTAACG
*
6754665 TTAATTAATTAATGTTTAA
1 TTAATTAATTAAAG-TTAA
*
6754684 TTAATTCATTAAAGTTAA
1 TTAATTAATTAAAGTTAA
6754702 TTAA
1 TTAA
6754706 GGTTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (18 bp):
TTAATTAATTAAAGTTAA
Found at i:6761184 original size:25 final size:26
Alignment explanation
Indices: 6761126--6761185 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
6761116 AGCCTTATCA
*
6761126 GGAAGCTCGCAAAGAGCCAATTAACG
1 GGAAGCTCACAAAGAGCCAATTAACG
*
6761152 GGAAGCTCACGAAGAGCC-A-TAATCG
1 GGAAGCTCACAAAGAGCCAATTAA-CG
6761177 GGAAGCTCA
1 GGAAGCTCA
6761186 TAAGAGCTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 3 0.10
25 12 0.39
26 16 0.52
ACGTcount: A:0.37, C:0.23, G:0.28, T:0.12
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCAATTAACG
Found at i:6763198 original size:57 final size:55
Alignment explanation
Indices: 6763121--6763312 Score: 141
Period size: 57 Copynumber: 3.5 Consensus size: 55
6763111 GAGTAATGTA
*
6763121 GCGTAAGACTAT--ATGAAAGATGTCATGACAGCATAGTACATGGTAAAGGTATATG
1 GCGTAAGACCATGGATGAAAGATGTCATGA-AGC-TAGTACATGGTAAAGGTATATG
* * * *
6763176 GCGTAAGACCATGGATGAAAGAT-ACTATG-A-C-AGT-C-TGGTATGAGGTACATA
1 GCGTAAGACCATGGATGAAAGATGTC-ATGAAGCTAGTACATGGTA-AAGGTATATG
* * * *
6763227 GCGTAAGACCATGGACGAAAGATGTCATGATAGTGTGGTACATGTTAACA-GTATATG
1 GCGTAAGACCATGGATGAAAGATGTCATGA-AG-CTAGTACATGGTAA-AGGTATATG
* * * *
6763284 GCGTAATACTATGGATGATAGATGCCATG
1 GCGTAAGACCATGGATGAAAGATGTCATG
6763313 GCAGTTTGGT
Statistics
Matches: 106, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
50 5 0.05
51 33 0.31
52 4 0.04
53 1 0.01
54 1 0.01
55 12 0.11
56 3 0.03
57 42 0.40
58 5 0.05
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (55 bp):
GCGTAAGACCATGGATGAAAGATGTCATGAAGCTAGTACATGGTAAAGGTATATG
Found at i:6763289 original size:108 final size:108
Alignment explanation
Indices: 6763084--6763368 Score: 337
Period size: 108 Copynumber: 2.7 Consensus size: 108
6763074 GTTACACTGA
*
6763084 ATGAAAGATGCCATGGCAGTCTGGTATGA-GTA-ATGTAGCGTAAGACTAT--ATGAAAGATGTC
1 ATGAAAGATGCCATGGCAGTCTGGTATGAGGTACA--TAGCGTAAGACCATGGATGAAAGATGTC
6763145 ATGACAGCATAGTACATGGTAAAGGTATATGGCGTAAGACCATGG
64 ATGACAGCATAGTACATGGTAAAGGTATATGGCGTAAGACCATGG
* * * *
6763190 ATGAAAGATACTATGACAGTCTGGTATGAGGTACATAGCGTAAGACCATGGACGAAAGATGTCAT
1 ATGAAAGATGCCATGGCAGTCTGGTATGAGGTACATAGCGTAAGACCATGGATGAAAGATGTCAT
* ** * * * *
6763255 GATAGTGTGGTACATGTTAACA-GTATATGGCGTAATACTATGG
66 GACAGCATAGTACATGGTAA-AGGTATATGGCGTAAGACCATGG
* * ** * *
6763298 ATGATAGATGCCATGGCAGTTTGGTATGAGGTACGCAGTGTAATACCATGGATGAAAGATGTCAT
1 ATGAAAGATGCCATGGCAGTCTGGTATGAGGTACATAGCGTAAGACCATGGATGAAAGATGTCAT
*
6763363 GGCAGC
66 GACAGC
6763369 TCGATATAAG
Statistics
Matches: 149, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
106 39 0.26
107 3 0.02
108 106 0.71
109 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (108 bp):
ATGAAAGATGCCATGGCAGTCTGGTATGAGGTACATAGCGTAAGACCATGGATGAAAGATGTCAT
GACAGCATAGTACATGGTAAAGGTATATGGCGTAAGACCATGG
Found at i:6765912 original size:43 final size:43
Alignment explanation
Indices: 6765857--6765951 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
6765847 GGGACACATG
6765857 CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACA
1 CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACA
*
6765900 CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACG
1 CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACA
*
6765943 TCCGTGTGG
1 CCCGTGTGG
6765952 GCATTCAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.18
Consensus pattern (43 bp):
CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACA
Found at i:6768437 original size:21 final size:21
Alignment explanation
Indices: 6768413--6768459 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
6768403 CAAATAATGC
6768413 AATAAACCTAAAGAAAATTAA
1 AATAAACCTAAAGAAAATTAA
6768434 AATAAACCTAAAGAAAATTAA
1 AATAAACCTAAAGAAAATTAA
6768455 AATAA
1 AATAA
6768460 CATTTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.68, C:0.09, G:0.04, T:0.19
Consensus pattern (21 bp):
AATAAACCTAAAGAAAATTAA
Found at i:6768898 original size:9 final size:9
Alignment explanation
Indices: 6768884--6769058 Score: 74
Period size: 9 Copynumber: 18.4 Consensus size: 9
6768874 CATGTGACAA
6768884 AAAAATTAT
1 AAAAATTAT
6768893 AAAAA-TA-
1 AAAAATTAT
* *
6768900 AAAACTAAT
1 AAAAATTAT
*
6768909 AAAACTTAT
1 AAAAATTAT
*
6768918 AAAACTTATT
1 AAAAATTA-T
*
6768928 AAAATTTAAT
1 AAAAATT-AT
6768938 AAAAAATTA-
1 -AAAAATTAT
*
6768947 AAAATTTAAT
1 AAAAATT-AT
6768957 AAAAA-TAT
1 AAAAATTAT
6768965 ACAAATATT-T
1 A-AAA-ATTAT
*
6768975 AAAATTTATT
1 AAAAATTA-T
*
6768985 AAAAATTAG
1 AAAAATTAT
*
6768994 AAATATATAT
1 AAAAAT-TAT
6769004 ATAAAATCGTA-
1 A-AAAAT--TAT
6769015 AAAAATATAT
1 AAAAAT-TAT
*
6769025 AAAATTTTAT
1 AAAA-ATTAT
*
6769035 AAAAATCATAA
1 AAAAAT--TAT
6769046 AAAAATTAT
1 AAAAATTAT
6769055 AAAA
1 AAAA
6769059 TGCATAAAAA
Statistics
Matches: 128, Mismatches: 19, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
7 4 0.03
8 14 0.11
9 43 0.34
10 43 0.34
11 22 0.17
12 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6768997 original size:27 final size:28
Alignment explanation
Indices: 6768947--6768999 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
6768937 TAAAAAATTA
6768947 AAAATTTAATAAAAATATACAAATATTT
1 AAAATTTAATAAAAATATACAAATATTT
* *
6768975 AAAATTTATTAAAAAT-TAGAAATAT
1 AAAATTTAATAAAAATATACAAATAT
6769000 ATATATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
AAAATTTAATAAAAATATACAAATATTT
Found at i:6769038 original size:19 final size:19
Alignment explanation
Indices: 6768914--6769047 Score: 55
Period size: 19 Copynumber: 6.9 Consensus size: 19
6768904 CTAATAAAAC
6768914 TTATAAAACT-TATTAAAATT
1 TTATAAAA-TATA-TAAAATT
* *
6768934 TAATAAAAAAT-TAAAAATT
1 TTATAAAATATAT-AAAATT
* *
6768953 TAATAAAA-ATATACAAATA
1 TTATAAAATATATA-AAATT
* *
6768972 TT-TAAAATTTATTAAAA-A
1 TTATAAAATATA-TAAAATT
* *
6768990 TTAGAAATATATATATAAAATC
1 TTA-TAA-A-ATATATAAAATT
* *
6769012 GTAAAAAATATATAAAATT
1 TTATAAAATATATAAAATT
6769031 TTATAAAA-ATCATAAAA
1 TTATAAAATAT-ATAAAA
6769048 AAATTATAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
18 14 0.16
19 48 0.53
20 13 0.14
21 9 0.10
22 6 0.07
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (19 bp):
TTATAAAATATATAAAATT
Found at i:6769040 original size:30 final size:31
Alignment explanation
Indices: 6769001--6769059 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
6768991 TAGAAATATA
*
6769001 TATATAAAATCGT-AAAAAATATATAAAATTT
1 TATATAAAATCATAAAAAAAT-TATAAAATTT
6769032 TATA-AAAATCATAAAAAAATTATAAAAT
1 TATATAAAATCATAAAAAAATTATAAAAT
6769060 GCATAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (31 bp):
TATATAAAATCATAAAAAAATTATAAAATTT
Found at i:6769064 original size:20 final size:20
Alignment explanation
Indices: 6769031--6769068 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6769021 ATATAAAATT
6769031 TTATAAAAATCATAAAAAAA
1 TTATAAAAATCATAAAAAAA
6769051 TTAT-AAAATGCATAAAAA
1 TTATAAAAAT-CATAAAAA
6769069 GACCTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
TTATAAAAATCATAAAAAAA
Found at i:6769067 original size:50 final size:50
Alignment explanation
Indices: 6768967--6769068 Score: 118
Period size: 50 Copynumber: 2.0 Consensus size: 50
6768957 AAAAATATAC
* * * * *
6768967 AAATATTTAAAATTTATTAAAAATTAGAAATATATATATAAAATCGTAAA
1 AAATATATAAAATTTATTAAAAATCAGAAAAAAATATATAAAATCATAAA
*
6769017 AAATATATAAAATTT-TATAAAAATCATAAAAAAAT-TATAAAATGCATAAA
1 AAATATATAAAATTTAT-TAAAAATCAGAAAAAAATATATAAAAT-CATAAA
6769067 AA
1 AA
6769069 GACCTTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
49 9 0.20
50 35 0.80
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (50 bp):
AAATATATAAAATTTATTAAAAATCAGAAAAAAATATATAAAATCATAAA
Found at i:6769417 original size:9 final size:9
Alignment explanation
Indices: 6769342--6769418 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
6769332 ATAAATTTTC
*
6769342 TTTTATGAT
1 TTTTATTAT
*
6769351 TTTTATAAT
1 TTTTATTAT
*
6769360 TTTTATTAAAA
1 TTTTATT--AT
*
6769371 TTTAATTAT
1 TTTTATTAT
* *
6769380 TTTTATAAC
1 TTTTATTAT
6769389 TTTTATTGAT
1 TTTTATT-AT
*
6769399 TTTTA--GT
1 TTTTATTAT
6769406 TTTTATTAT
1 TTTTATTAT
6769415 TTTT
1 TTTT
6769419 GCCACATATC
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
7 6 0.12
9 32 0.63
10 6 0.12
11 7 0.14
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (9 bp):
TTTTATTAT
Found at i:6773397 original size:16 final size:16
Alignment explanation
Indices: 6773376--6773407 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6773366 ATTGGATTAA
*
6773376 GAAAATTATTTAATTT
1 GAAAATTAATTAATTT
6773392 GAAAATTAATTAATTT
1 GAAAATTAATTAATTT
6773408 ATTTAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
GAAAATTAATTAATTT
Found at i:6782133 original size:21 final size:22
Alignment explanation
Indices: 6782107--6782153 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6782097 CTCTGCTCAA
*
6782107 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
6782128 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
6782150 ACTC
1 ACTC
6782154 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:6782474 original size:12 final size:12
Alignment explanation
Indices: 6782457--6782483 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6782447 TTGAGCGTAC
6782457 GTCACAGCCTCA
1 GTCACAGCCTCA
6782469 GTCACAGCCTCA
1 GTCACAGCCTCA
6782481 GTC
1 GTC
6782484 CAAAACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.41, G:0.19, T:0.19
Consensus pattern (12 bp):
GTCACAGCCTCA
Found at i:6796064 original size:27 final size:27
Alignment explanation
Indices: 6796022--6796073 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
6796012 GAAATGTGAA
*
6796022 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
6796049 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
6796074 AGTTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:6796161 original size:26 final size:26
Alignment explanation
Indices: 6796126--6796175 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6796116 AAATAAAAAG
*
6796126 GGGGTTGCTATGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
*
6796152 GGGGTTGCTAAGTGTTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
6796176 GATTAAGTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:6796196 original size:102 final size:103
Alignment explanation
Indices: 6795945--6796208 Score: 390
Period size: 103 Copynumber: 2.6 Consensus size: 103
6795935 GTTGTACATA
** *
6795945 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
6796010 TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGTTGCTATGTGCTGATTCCCCC
*
6796048 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
6796112 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATT-CCCC
65 TCTGAAATGAAAAA-GGGGTTGCTATGTGCTGATTCCCCC
* * * *
6796150 AAGGGGTTGCTAAGTGTTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
6796209 AATAACGGTT
Statistics
Matches: 146, Mismatches: 12, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
102 60 0.41
103 86 0.59
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGTTGCTATGTGCTGATTCCCCC
Found at i:6803188 original size:103 final size:104
Alignment explanation
Indices: 6802959--6803224 Score: 410
Period size: 103 Copynumber: 2.6 Consensus size: 104
6802949 GTTGTACATA
** * *
6802959 AAGGGGTTGCTGTGTGTTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
6803024 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
6803063 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
6803127 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
6803166 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
6803225 AATAACGGTT
Statistics
Matches: 148, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:6807956 original size:3 final size:3
Alignment explanation
Indices: 6807950--6807993 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6807940 ATTACATCCA
6807950 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6807994 AACATGTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6814967 original size:30 final size:30
Alignment explanation
Indices: 6814931--6814996 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
6814921 TTGCCTTGTT
6814931 CTTGCAAACTTCCTCAATGTGGCCAAGTTG
1 CTTGCAAACTTCCTCAATGTGGCCAAGTTG
*
6814961 CTTGCAAACTTTCTCAATGTGGCCAAGTTG
1 CTTGCAAACTTCCTCAATGTGGCCAAGTTG
6814991 CTTGCA
1 CTTGCA
6814997 GCTTCTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (30 bp):
CTTGCAAACTTCCTCAATGTGGCCAAGTTG
Found at i:6827495 original size:20 final size:20
Alignment explanation
Indices: 6827470--6827530 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
6827460 TATTGTTGCA
6827470 CCACCATGCTGCTGTCCCTT
1 CCACCATGCTGCTGTCCCTT
*
6827490 CCACCATGCTGTTGTCCCTT
1 CCACCATGCTGCTGTCCCTT
* *
6827510 CCACCAGGCTGCTCTCCCTT
1 CCACCATGCTGCTGTCCCTT
6827530 C
1 C
6827531 AATGAGAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.10, C:0.46, G:0.15, T:0.30
Consensus pattern (20 bp):
CCACCATGCTGCTGTCCCTT
Found at i:6827750 original size:60 final size:61
Alignment explanation
Indices: 6827669--6827789 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 61
6827659 AATGTAATTT
* * *
6827669 TTTTTTGCTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAA
1 TTTTTTGCTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAA
*
6827730 TTTTTTG-TGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAA
1 TTTTTTGCTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAA
6827790 ATTGTTCTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
60 49 0.88
61 7 0.12
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (61 bp):
TTTTTTGCTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAA
Found at i:6828286 original size:21 final size:23
Alignment explanation
Indices: 6828239--6828286 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
6828229 TTGATTTTTT
* **
6828239 ATTTATTTAAAAATGTTTATTTG
1 ATTTATTTAAAAATGTTGATTAA
6828262 ATTTA-TT-AAAATGTTGATTAA
1 ATTTATTTAAAAATGTTGATTAA
6828283 ATTT
1 ATTT
6828287 GTTGTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 15 0.68
22 2 0.09
23 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
ATTTATTTAAAAATGTTGATTAA
Found at i:6830117 original size:6 final size:6
Alignment explanation
Indices: 6830109--6830173 Score: 112
Period size: 6 Copynumber: 10.8 Consensus size: 6
6830099 TCATGCACCA
* *
6830109 GAGCCA GAGCCA GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG
1 GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG
6830157 GAGCCG GAGCCG GAGCC
1 GAGCCG GAGCCG GAGCC
6830174 AGAGGCAGAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.20, C:0.34, G:0.46, T:0.00
Consensus pattern (6 bp):
GAGCCG
Found at i:6833908 original size:27 final size:27
Alignment explanation
Indices: 6833864--6833952 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
6833854 GCCCCACCAT
* * * *
6833864 TCGCGCCTCTGAGTTAGGCACAACTAG
1 TCGCGCCTATCAGATAGGCTCAACTAG
* *
6833891 TCGCGCCTGTCAGATAGGCTCAATTAG
1 TCGCGCCTATCAGATAGGCTCAACTAG
*
6833918 TTGCGCCTATCAGATAGGCTCAACTAG
1 TCGCGCCTATCAGATAGGCTCAACTAG
6833945 TCGCGCCT
1 TCGCGCCT
6833953 CGTATCTATA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (27 bp):
TCGCGCCTATCAGATAGGCTCAACTAG
Found at i:6834077 original size:52 final size:51
Alignment explanation
Indices: 6834013--6834122 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 51
6834003 TTATTAAACG
* * * *
6834013 AAAAAAAATTAATATACAAAATTGATTCGTGCCTATCTGATAGGCGCGATT
1 AAAAAAAATTAATATAAAAAATTGATTCGCGCCTATCAGATAGACGCGATT
*
6834064 AAAAAAAATTTAATATAAAAAATTGATTCGCGCCTGTCAGATAGACGCGATT
1 AAAAAAAA-TTAATATAAAAAATTGATTCGCGCCTATCAGATAGACGCGATT
6834116 AAAAAAA
1 AAAAAAA
6834123 CATACCATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 8 0.15
52 45 0.85
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (51 bp):
AAAAAAAATTAATATAAAAAATTGATTCGCGCCTATCAGATAGACGCGATT
Found at i:6834617 original size:22 final size:22
Alignment explanation
Indices: 6834592--6834643 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
6834582 TTAAAAATAA
*
6834592 AAATATTTTTAATAA-TTTTTAG
1 AAATATTTTT-ATAACTTCTTAG
*
6834614 AAATAATTTTATAACTTCTTAG
1 AAATATTTTTATAACTTCTTAG
6834636 -AATATTTT
1 AAATATTTT
6834644 AAATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (22 bp):
AAATATTTTTATAACTTCTTAG
Found at i:6838687 original size:43 final size:43
Alignment explanation
Indices: 6838626--6838713 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
6838616 AGCGTTTCTC
6838626 TTTTGTGGCTGTTCCTTTATTTTAGCTGTTTGAAATCTGAAAT
1 TTTTGTGGCTGTTCCTTTATTTTAGCTGTTTGAAATCTGAAAT
6838669 TTTTGTGGCTGTTCCTTTATTTTAGCTGTTTGAAATCTGAAAT
1 TTTTGTGGCTGTTCCTTTATTTTAGCTGTTTGAAATCTGAAAT
6838712 TT
1 TT
6838714 CCTATAACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (43 bp):
TTTTGTGGCTGTTCCTTTATTTTAGCTGTTTGAAATCTGAAAT
Found at i:6838973 original size:16 final size:17
Alignment explanation
Indices: 6838940--6838973 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6838930 GTAAGGAAAG
6838940 AGGGATGTGAGAGAGTT
1 AGGGATGTGAGAGAGTT
*
6838957 AGGGATG-GAGAGGGTT
1 AGGGATGTGAGAGAGTT
6838973 A
1 A
6838974 TTTCTGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.50, T:0.21
Consensus pattern (17 bp):
AGGGATGTGAGAGAGTT
Found at i:6851234 original size:41 final size:40
Alignment explanation
Indices: 6851122--6851234 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 40
6851112 TCGGATAATT
*
6851122 CGAAGTAATAAATTTGACACCCAATGTCTCATCG-GCTAAAC
1 CGAAGT-ATAAA-TTGACACCCAATGTCTCATCGAACTAAAC
* * * * * *
6851163 TGAAG-A-AAATTGGCACCCAGTGCCTCATCGAATTAACC
1 CGAAGTATAAATTGACACCCAATGTCTCATCGAACTAAAC
6851201 CGAAGTAGTAAATTGACACCCAATGTCTCATCGA
1 CGAAGTA-TAAATTGACACCCAATGTCTCATCGA
6851235 CTCTAAGTCG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
37 18 0.32
38 11 0.19
39 2 0.04
41 26 0.46
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (40 bp):
CGAAGTATAAATTGACACCCAATGTCTCATCGAACTAAAC
Found at i:6856805 original size:25 final size:25
Alignment explanation
Indices: 6856765--6856844 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
6856755 TTCATATTCA
6856765 GGAATGCTCATACGAGCACATA-AACG
1 GGAA-GCTCATACGAGC-CATATAACG
* *
6856791 GGAAGCTCATTCGAGCCATATAATG
1 GGAAGCTCATACGAGCCATATAACG
** *
6856816 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATACGAGCCATATAACG
6856841 GGAA
1 GGAA
6856845 ACTTATGAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 4 0.09
25 39 0.83
26 4 0.09
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCATATAACG
Found at i:6856856 original size:25 final size:25
Alignment explanation
Indices: 6856778--6856860 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
6856768 ATGCTCATAC
* **
6856778 GAGCACATA-AACGGGAAGCTCATTC
1 GAGC-CATATAACGGGAAACTCATGA
* * *
6856803 GAGCCATATAATGGGAAGCTCATGT
1 GAGCCATATAACGGGAAACTCATGA
* *
6856828 GAGCCATGTAACGGGAAACTTATGA
1 GAGCCATATAACGGGAAACTCATGA
6856853 GAGCCATA
1 GAGCCATA
6856861 ATCAGGAAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
24 4 0.08
25 44 0.92
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAACTCATGA
Found at i:6857137 original size:24 final size:25
Alignment explanation
Indices: 6857081--6857128 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
6857071 GGGAAGCTTG
*
6857081 TGAGAGCTAAATATCAGGATGCTCA
1 TGAGAGCTAAATAACAGGATGCTCA
6857106 TGAGAGCT-AATAACAGGATGCTC
1 TGAGAGCTAAATAACAGGATGCTC
6857129 TTTCGAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (25 bp):
TGAGAGCTAAATAACAGGATGCTCA
Found at i:6859821 original size:21 final size:22
Alignment explanation
Indices: 6859797--6859841 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6859787 AGAAAAAGAG
6859797 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
6859818 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
6859840 AA
1 AA
6859842 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:6862270 original size:35 final size:35
Alignment explanation
Indices: 6862183--6862424 Score: 307
Period size: 35 Copynumber: 7.1 Consensus size: 35
6862173 GTCCAAAAAG
* * *
6862183 AAATAATACATGAACAGGAGAGATTCCCTGCAA-G
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
*
6862217 AAATGAT--GTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
* *
6862250 AAATAATCCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
* *
6862284 AAATGAT--GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
* *
6862317 AAATAATGTGTGAACAGGAGAGATTTCCTGCAACA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
*
6862352 AAATAATGCGTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
* * * *
6862387 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
6862422 AAA
1 AAA
6862425 GACAAGTGAA
Statistics
Matches: 184, Mismatches: 18, Indels: 11
0.86 0.08 0.05
Matches are distributed among these distances:
32 46 0.25
33 12 0.07
34 12 0.07
35 114 0.62
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.19
Consensus pattern (35 bp):
AAATAATGCGTGAACAGGAGAGATTCCCTGCAACA
Found at i:6862291 original size:67 final size:67
Alignment explanation
Indices: 6862183--6862423 Score: 356
Period size: 67 Copynumber: 3.6 Consensus size: 67
6862173 GTCCAAAAAG
* * *
6862183 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
6862248 CA
66 CA
*
6862250 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
6862315 CA
66 CA
* * * *
6862317 AAATAATGTGTGAACAGGAGAGATTTCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTG
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAA-GAAATGAT--GTGAACAGGAAAGATTCCCTG
6862382 CAACA
63 CAACA
* * *
6862387 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAA
6862424 AGACAAGTGA
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
67 94 0.60
68 6 0.04
69 3 0.02
70 54 0.34
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (67 bp):
AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
CA
Found at i:6869595 original size:25 final size:25
Alignment explanation
Indices: 6869565--6869699 Score: 98
Period size: 25 Copynumber: 5.4 Consensus size: 25
6869555 GCACATAAAG
* *
6869565 GGGAAGCTCATTTGAGCTATATAAC
1 GGGAAGCTCATGTGAGCCATATAAC
* *
6869590 GTGAAGCTCATGTGAGCCATGTAAC
1 GGGAAGCTCATGTGAGCCATATAAC
* *
6869615 GGGAAGCTCATGAGAGCCATA-ATC
1 GGGAAGCTCATGTGAGCCATATAAC
** * * * *
6869639 GGGAAATTAAAGCGAGCCA-ATATC
1 GGGAAGCTCATGTGAGCCATATAAC
*
6869663 GGGAAGCTC-TAGAGAGCCA-ATTAATC
1 GGGAAGCTCAT-GTGAGCCATA-TAA-C
6869689 GGGAAGCTCAT
1 GGGAAGCTCAT
6869700 AAAAGAGCCT
Statistics
Matches: 86, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.01
24 33 0.38
25 41 0.48
26 10 0.12
27 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (25 bp):
GGGAAGCTCATGTGAGCCATATAAC
Found at i:6872285 original size:9 final size:9
Alignment explanation
Indices: 6872267--6872323 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
6872257 ACTAGTATAT
*
6872267 CATAAAATA
1 CATAACATA
6872276 CATAACATA
1 CATAACATA
*
6872285 CATAATATA
1 CATAACATA
6872294 TCAT-ACAATA
1 -CATAAC-ATA
6872304 CATAACATA
1 CATAACATA
*
6872313 CATAATATA
1 CATAACATA
6872322 CA
1 CA
6872324 CACTAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 33 0.80
10 8 0.20
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (9 bp):
CATAACATA
Found at i:6872297 original size:28 final size:28
Alignment explanation
Indices: 6872254--6872321 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
6872244 ACATAATATC
*
6872254 CATAC-TAGTATATCATAAAATACATAA
1 CATACATAATATATCATAAAATACATAA
*
6872281 CATACATAATATATCATACAATACATAA
1 CATACATAATATATCATAAAATACATAA
6872309 CATACATAATATA
1 CATACATAATATA
6872322 CACACTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 5 0.13
28 33 0.87
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (28 bp):
CATACATAATATATCATAAAATACATAA
Found at i:6872313 original size:14 final size:14
Alignment explanation
Indices: 6872267--6872314 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
6872257 ACTAGTATAT
*
6872267 CATAAAATACATAA
1 CATACAATACATAA
6872281 CATAC-ATA-ATATA
1 CATACAATACATA-A
6872294 TCATACAATACATAA
1 -CATACAATACATAA
6872309 CATACA
1 CATACA
6872315 TAATATACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 3 0.10
13 4 0.14
14 15 0.52
15 4 0.14
16 3 0.10
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (14 bp):
CATACAATACATAA
Found at i:6872331 original size:28 final size:28
Alignment explanation
Indices: 6872254--6872331 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
6872244 ACATAATATC
* * *
6872254 CATAC-TAGTATATCATAAAATACATAA
1 CATACATAATATATCACACAATACATAA
*
6872281 CATACATAATATATCATACAATACATAA
1 CATACATAATATATCACACAATACATAA
6872309 CATACATAATATA-CACACTAATA
1 CATACATAATATATCACAC-AATA
6872332 TATCATAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 9 0.20
28 37 0.80
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.28
Consensus pattern (28 bp):
CATACATAATATATCACACAATACATAA
Found at i:6872334 original size:68 final size:67
Alignment explanation
Indices: 6872235--6872365 Score: 192
Period size: 68 Copynumber: 1.9 Consensus size: 67
6872225 AGGGTCTGAC
* * * *
6872235 ACATACCATACATAATATCCATACTAGTATATCATAAAATACATAACATACA-TAATATATCATA
1 ACATAACATACATAATATACACACTAATATATCATAAAAT--ATAACATACACTAATATATCATA
6872299 CAAT
64 CAAT
*
6872303 ACATAACATACATAATATACACACTAATATATCATAACATATAACATACACTAATATATCATA
1 ACATAACATACATAATATACACACTAATATATCATAAAATATAACATACACTAATATATCATA
6872366 TCATTTTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
66 10 0.18
67 12 0.21
68 35 0.61
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (67 bp):
ACATAACATACATAATATACACACTAATATATCATAAAATATAACATACACTAATATATCATACA
AT
Found at i:6872339 original size:22 final size:25
Alignment explanation
Indices: 6872309--6872365 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
6872299 CAATACATAA
6872309 CATACATAATATAC-ACACTAATATAT
1 CATACAT-ATA-ACAACACTAATATAT
6872335 CATAACATATAACATACACTAATATAT
1 CAT-ACATATAACA-ACACTAATATAT
6872362 CATA
1 CATA
6872366 TCATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
25 2 0.07
26 7 0.25
27 19 0.68
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (25 bp):
CATACATATAACAACACTAATATAT
Found at i:6877970 original size:17 final size:18
Alignment explanation
Indices: 6877940--6877985 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
6877930 ATTTAAATTG
6877940 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
6877958 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
6877974 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
6877986 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:6880696 original size:24 final size:23
Alignment explanation
Indices: 6880651--6880707 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
6880641 TATTTGCGCA
6880651 ATTTTTTATTTATTATCATTATT
1 ATTTTTTATTTATTATCATTATT
*
6880674 ATTTTTTATTCTCGTTATC-TTATT
1 ATTTTTTATT-T-ATTATCATTATT
*
6880698 ATTTCTTATT
1 ATTTTTTATT
6880708 ATTTTTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 10 0.33
24 15 0.50
25 5 0.17
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTTTTTATTTATTATCATTATT
Found at i:6880845 original size:38 final size:39
Alignment explanation
Indices: 6880787--6880860 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
6880777 AATTACATCA
*
6880787 TTTATTTATTATTATCATGAT-ATGATTATTAATATTAAT
1 TTTATTTATTATAATCATGATGATGATTA-TAATATTAAT
* *
6880826 TTTA-TTATTATAATGATGATGATTATTATAATATT
1 TTTATTTATTATAATCATGATGATGATTATAATATT
6880861 CTTTCATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 21 0.68
39 10 0.32
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (39 bp):
TTTATTTATTATAATCATGATGATGATTATAATATTAAT
Found at i:6880850 original size:18 final size:17
Alignment explanation
Indices: 6880794--6880857 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
6880784 TCATTTATTT
*
6880794 ATTATTATCATGATATG
1 ATTATTATAATGATATG
* * * *
6880811 ATTATTAATATTAATTTT
1 ATTATT-ATAATGATATG
6880829 ATTATTATAATGATGATG
1 ATTATTATAATGAT-ATG
6880847 ATTATTATAAT
1 ATTATTATAAT
6880858 ATTCTTTCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (17 bp):
ATTATTATAATGATATG
Found at i:6881903 original size:37 final size:37
Alignment explanation
Indices: 6881862--6881935 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
6881852 AGCTTCTGGA
6881862 GTTGTGTCCAACCATGAAACATTTGTGGCATTTTGTC
1 GTTGTGTCCAACCATGAAACATTTGTGGCATTTTGTC
*
6881899 GTTGTGTCCAACCATGTAACATTTGTGGCATTTTGTC
1 GTTGTGTCCAACCATGAAACATTTGTGGCATTTTGTC
6881936 TTTCTCCCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (37 bp):
GTTGTGTCCAACCATGAAACATTTGTGGCATTTTGTC
Found at i:6883519 original size:15 final size:15
Alignment explanation
Indices: 6883501--6883530 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6883491 ATAAAGATTA
6883501 TAATAATAATAAAAG
1 TAATAATAATAAAAG
6883516 TAATAATAATAAAAG
1 TAATAATAATAAAAG
6883531 AAAGAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
TAATAATAATAAAAG
Found at i:6883538 original size:15 final size:15
Alignment explanation
Indices: 6883505--6883539 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6883495 AGATTATAAT
* *
6883505 AATAATAAAAGTAAT
1 AATAATAAAAGAAAG
6883520 AATAATAAAAGAAAG
1 AATAATAAAAGAAAG
6883535 AATAA
1 AATAA
6883540 AGAAAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
AATAATAAAAGAAAG
Found at i:6883538 original size:18 final size:18
Alignment explanation
Indices: 6883500--6883539 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6883490 TATAAAGATT
*
6883500 ATAATAATAATAAAAGTA
1 ATAATAATAAAAAAAGTA
6883518 ATAATAATAAAAGAAAG-A
1 ATAATAATAAAA-AAAGTA
6883536 ATAA
1 ATAA
6883540 AGAAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
ATAATAATAAAAAAAGTA
Found at i:6888273 original size:5 final size:5
Alignment explanation
Indices: 6888263--6888291 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6888253 AGAAATATAT
6888263 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
6888292 TATGTCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:6893504 original size:46 final size:46
Alignment explanation
Indices: 6893454--6893608 Score: 211
Period size: 46 Copynumber: 3.4 Consensus size: 46
6893444 TTACTTATTT
* * * * *
6893454 GGGTTAAACCTACACGAATCGGATAATAGTACCTGGTCACCCATTA
1 GGGTTGAACCTACACAAATCAGATAATAGTGCCTGGTCACCCGTTA
* * *
6893500 GGGTTGAACCTACACAAATCAGATAATAGTGTCTGATCACCTGTTA
1 GGGTTGAACCTACACAAATCAGATAATAGTGCCTGGTCACCCGTTA
* *
6893546 GGGTTGAACCTACACAAATCATATAATAGTGCCTAGTCACCCGTTA
1 GGGTTGAACCTACACAAATCAGATAATAGTGCCTGGTCACCCGTTA
*
6893592 GGGCTGAACCTACACAA
1 GGGTTGAACCTACACAA
6893609 CAAATAGCCT
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (46 bp):
GGGTTGAACCTACACAAATCAGATAATAGTGCCTGGTCACCCGTTA
Found at i:6905906 original size:9 final size:9
Alignment explanation
Indices: 6905889--6905940 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
6905879 TTTTGGTTAA
6905889 AAATTAACC
1 AAATTAACC
*
6905898 AAATAAACC
1 AAATTAACC
*
6905907 GAATTAACC
1 AAATTAACC
* *
6905916 AACTTATCC
1 AAATTAACC
*
6905925 GAATTAACC
1 AAATTAACC
*
6905934 GAATTAA
1 AAATTAA
6905941 TCGAATTGAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.23
Consensus pattern (9 bp):
AAATTAACC
Found at i:6905913 original size:18 final size:18
Alignment explanation
Indices: 6905890--6905947 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
6905880 TTTGGTTAAA
*
6905890 AATTAACCAAATAAACCG
1 AATTAACCAAATTAACCG
* *
6905908 AATTAACCAACTTATCCG
1 AATTAACCAAATTAACCG
* *
6905926 AATTAACCGAATTAATCG
1 AATTAACCAAATTAACCG
6905944 AATT
1 AATT
6905948 GAATCACTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.26
Consensus pattern (18 bp):
AATTAACCAAATTAACCG
Found at i:6910527 original size:31 final size:31
Alignment explanation
Indices: 6910489--6910579 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
6910479 ACATTCTTGA
*
6910489 GGTTATTTCAGATTCTTGATCACCAAAACTT
1 GGTTATTTCAGATTCTTGATCATCAAAACTT
*
6910520 -GTGTATTT--TATTCTTGATCATCAAAACTT
1 GGT-TATTTCAGATTCTTGATCATCAAAACTT
*
6910549 GGTTCTTTCAGATTCTTGATCATCAAAACTT
1 GGTTATTTCAGATTCTTGATCATCAAAACTT
6910580 TTGTTGTGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
29 23 0.44
30 4 0.08
31 25 0.48
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (31 bp):
GGTTATTTCAGATTCTTGATCATCAAAACTT
Found at i:6910533 original size:29 final size:29
Alignment explanation
Indices: 6910500--6910579 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 29
6910490 GTTATTTCAG
*
6910500 ATTCTTGATCACCAAAACTTGTGTAT-TTT-
1 ATTCTTGATCATCAAAACTTG-GT-TCTTTA
6910529 ATTCTTGATCATCAAAACTTGGTTCTTTCA
1 ATTCTTGATCATCAAAACTTGGTTCTTT-A
6910559 GATTCTTGATCATCAAAACTT
1 -ATTCTTGATCATCAAAACTT
6910580 TTGTTGTGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 1 0.02
28 5 0.11
29 20 0.43
31 20 0.43
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (29 bp):
ATTCTTGATCATCAAAACTTGGTTCTTTA
Found at i:6917237 original size:17 final size:18
Alignment explanation
Indices: 6917217--6917264 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
6917207 AAAAACTTCT
6917217 AAAAATTCAAAAAT-TAA
1 AAAAATTCAAAAATGTAA
*
6917234 AAAAATT-AAAATTGTAA
1 AAAAATTCAAAAATGTAA
*
6917251 AAATATTCATAAAA
1 AAAAATTCA-AAAA
6917265 AATAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 5 0.20
17 16 0.64
18 1 0.04
19 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAATTCAAAAATGTAA
Found at i:6917342 original size:29 final size:27
Alignment explanation
Indices: 6917309--6917377 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
6917299 CAAAAATACA
*
6917309 AAAAAATTATTAAATTATTAAGAAAATTT
1 AAAAAATTATAAAATTA-T-AGAAAATTT
* *
6917338 AAAAAGTTATAAAATTATATAAAATTT
1 AAAAAATTATAAAATTATAGAAAATTT
*
6917365 TAAAAATTA-AAAA
1 AAAAAATTATAAAA
6917378 GGTTATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.11
27 15 0.43
28 1 0.03
29 15 0.43
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (27 bp):
AAAAAATTATAAAATTATAGAAAATTT
Found at i:6917350 original size:10 final size:9
Alignment explanation
Indices: 6917198--6917387 Score: 56
Period size: 10 Copynumber: 20.3 Consensus size: 9
6917188 AAATGGTTAG
6917198 AAAATTATTA
1 AAAATTA-TA
*
6917208 AAAACTTCTA
1 AAAA-TTATA
*
6917218 AAAATT-CA
1 AAAATTATA
6917226 AAAATTA-A
1 AAAATTATA
*
6917234 AAAA--ATT
1 AAAATTATA
*
6917241 AAAATTGTAA
1 AAAATTAT-A
6917251 AAATATTCATAA
1 AAA-ATT-AT-A
*
6917263 AAAATAATAA
1 AAAATTAT-A
*
6917273 AAATATTTTA
1 AAA-ATTATA
*
6917283 AAAATTCACA
1 AAAATT-ATA
*
6917293 AAAA-TACA
1 AAAATTATA
* *
6917301 AAAATACAAA
1 AAAAT-TATA
6917311 AAAATTAT-
1 AAAATTATA
*
6917319 TAAATTATTAA
1 AAAATTA-T-A
6917330 GAAAATT-TA
1 -AAAATTATA
6917339 AAAAGTTAT-
1 AAAA-TTATA
6917348 AAAATTATA
1 AAAATTATA
*
6917357 TAAAATTTTA
1 -AAAATTATA
6917367 AAAATTA-A
1 AAAATTATA
*
6917375 AAAGGTTATA
1 AAA-ATTATA
6917385 AAA
1 AAA
6917388 CAAAAATAGA
Statistics
Matches: 138, Mismatches: 20, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
6 1 0.01
7 4 0.03
8 37 0.27
9 25 0.18
10 50 0.36
11 10 0.07
12 11 0.08
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:6917400 original size:22 final size:24
Alignment explanation
Indices: 6917366--6917410 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
6917356 ATAAAATTTT
*
6917366 AAAAATTAAAAAGGTTA-TAAAAC
1 AAAAATTAAAAAGATTATTAAAAC
*
6917389 AAAAA-TAGAAAGATTATTAAAA
1 AAAAATTAAAAAGATTATTAAAA
6917411 TACAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (24 bp):
AAAAATTAAAAAGATTATTAAAAC
Found at i:6918937 original size:19 final size:17
Alignment explanation
Indices: 6918913--6918947 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
6918903 GAACATGTTA
6918913 TATATAAAGAAGAGAAAAT
1 TATATAAA-AAGA-AAAAT
6918932 TATATAAAAAGAAAAA
1 TATATAAAAAGAAAAA
6918948 GAGATAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (17 bp):
TATATAAAAAGAAAAAT
Found at i:6921143 original size:19 final size:20
Alignment explanation
Indices: 6921119--6921160 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6921109 AAGTAACTTA
6921119 TATATTAATTAAA-AATTAC
1 TATATTAATTAAATAATTAC
* *
6921138 TATATTTATTAAATATTTAC
1 TATATTAATTAAATAATTAC
6921158 TAT
1 TAT
6921161 TTTATTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATTAATTAAATAATTAC
Found at i:6921429 original size:44 final size:44
Alignment explanation
Indices: 6921361--6921469 Score: 164
Period size: 44 Copynumber: 2.5 Consensus size: 44
6921351 TGCTATTACA
* * *
6921361 ATTCTATTCCATTCAACCAAATACAACAATATTATTACAATTCT
1 ATTCCATTCCATTCAACCAAATACAACAATATTACTACAACTCT
* *
6921405 ATTCCATTCCATTCAACTAAATACAATAATATTACTACAACTCT
1 ATTCCATTCCATTCAACCAAATACAACAATATTACTACAACTCT
*
6921449 ATTCCATTCTATTCAACCAAA
1 ATTCCATTCCATTCAACCAAA
6921470 CAATTAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (44 bp):
ATTCCATTCCATTCAACCAAATACAACAATATTACTACAACTCT
Found at i:6936049 original size:9 final size:9
Alignment explanation
Indices: 6936020--6936064 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
6936010 AAGTTATATA
*
6936020 TATAAATAT
1 TATAATTAT
6936029 TAT-ATGTA-
1 TATAAT-TAT
6936037 TATAATTAT
1 TATAATTAT
6936046 TATAATTAT
1 TATAATTAT
6936055 TATAATTAT
1 TATAATTAT
6936064 T
1 T
6936065 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:6936428 original size:15 final size:17
Alignment explanation
Indices: 6936410--6936441 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6936400 CAGAACAGAA
6936410 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
6936425 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
6936442 GGGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:6944320 original size:26 final size:25
Alignment explanation
Indices: 6944291--6944339 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
6944281 GGCCCGACCC
* *
6944291 ATTTTTAAAATAAACATTAAAAATTT
1 ATTTTAAAAATAAA-AATAAAAATTT
6944317 ATTTTAAAAATAAAAATAAAAAT
1 ATTTTAAAAATAAAAATAAAAAT
6944340 AAATATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
ATTTTAAAAATAAAAATAAAAATTT
Found at i:6944352 original size:26 final size:25
Alignment explanation
Indices: 6944293--6944352 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
6944283 CCCGACCCAT
* *
6944293 TTTTAAAATAAACATTAAAAATTTA
1 TTTTAAAATAAACAATAAAAATATA
6944318 TTTTAAAAATAAA-AATAAAAATAAATA
1 TTTT-AAAATAAACAATAAAAAT--ATA
6944345 TTTTAAAA
1 TTTTAAAA
6944353 GTATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 12 0.40
26 12 0.40
27 6 0.20
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
TTTTAAAATAAACAATAAAAATATA
Found at i:6945929 original size:20 final size:19
Alignment explanation
Indices: 6945904--6946033 Score: 72
Period size: 20 Copynumber: 6.6 Consensus size: 19
6945894 CTCCAATATT
*
6945904 TTTTTGATATTCCCTCGTAA
1 TTTTTGATATT-CCTCATAA
6945924 TTTTTGATACATT-CTCATAA
1 TTTTTGAT--ATTCCTCATAA
* **
6945944 TTTTTTG-TACTTCTTGTTAA
1 -TTTTTGATA-TTCCTCATAA
* *
6945964 TTTTT-TTATTCCCTCATAG
1 TTTTTGATATT-CCTCATAA
*
6945983 TTTTTGATATTTCCTCGT-A
1 TTTTTGATA-TTCCTCATAA
6946002 TTTTATGATACTTCCTCATAA
1 TTTT-TGATA-TTCCTCATAA
6946023 TTATTTG-TATT
1 TT-TTTGATATT
6946034 GTTTCGAAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
18 3 0.04
19 24 0.28
20 40 0.47
21 13 0.15
22 5 0.06
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTTTGATATTCCTCATAA
Found at i:6946163 original size:21 final size:22
Alignment explanation
Indices: 6946114--6946155 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6946104 TTGGTACACC
6946114 CTCAT-AA-TTTTTTGTATGGT
1 CTCATAAATTTTTTTGTATGGT
6946134 CTCATAAATTTTTTTGTATGGT
1 CTCATAAATTTTTTTGTATGGT
6946156 TTTGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (22 bp):
CTCATAAATTTTTTTGTATGGT
Found at i:6946630 original size:20 final size:20
Alignment explanation
Indices: 6946607--6946649 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
6946597 GATTGTGAAT
6946607 AATTATAA-AGGAATACCAAA
1 AATTATAAGA-GAATACCAAA
*
6946627 AATTATTAGAGAATACCAAA
1 AATTATAAGAGAATACCAAA
6946647 AAT
1 AAT
6946650 AATGAGGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (20 bp):
AATTATAAGAGAATACCAAA
Found at i:6946711 original size:56 final size:58
Alignment explanation
Indices: 6946620--6946731 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 58
6946610 TATAAAGGAA
** *
6946620 TACCAAAAATTATTAGAGAATACCAAAAATAATGAGG-GAGTACTAAAAA-CATGGAG
1 TACCAAAAATTAAAAGAGAATACCAAAAATAATGAGGTGAGTACCAAAAAGCATGGAG
* * * *
6946676 TACCAAAAATTAAAAGGGAATGCCAATAATTATGAGGTGAGTACCAAAAAGCATGG
1 TACCAAAAATTAAAAGAGAATACCAAAAATAATGAGGTGAGTACCAAAAAGCATGG
6946732 GAGATTACCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 31 0.66
57 11 0.23
58 5 0.11
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.20
Consensus pattern (58 bp):
TACCAAAAATTAAAAGAGAATACCAAAAATAATGAGGTGAGTACCAAAAAGCATGGAG
Found at i:6947858 original size:66 final size:66
Alignment explanation
Indices: 6947759--6947968 Score: 298
Period size: 66 Copynumber: 3.2 Consensus size: 66
6947749 GTTCGCTAGA
* * *
6947759 ACAGTAAATACAAAATAGAGATAACCTGTTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
6947824 G
66 G
*
6947825 ACAGTAAACACAAAATAGAGATAGTCC-GCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTA
1 ACAGTAAACACAAAATAGAGATAG-CCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTG
6947889 GG
65 GG
* * * * * *
6947891 ACAATAAACAAAAAATAGAGATAGCCTGCTAGGACAGTAAAAACAGAGA-AGAGATAGTTCGTTG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGA-ACAGAGAAAGTCCGTTG
6947955 GG
65 GG
6947957 ACAGTAAACACA
1 ACAGTAAACACA
6947969 GATAAAGTTC
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
65 2 0.02
66 123 0.96
67 3 0.02
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.16
Consensus pattern (66 bp):
ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
G
Found at i:6947970 original size:33 final size:33
Alignment explanation
Indices: 6947759--6947970 Score: 196
Period size: 33 Copynumber: 6.4 Consensus size: 33
6947749 GTTCGCTAGA
* * * *
6947759 ACAGTAAATACAAAATAGAGATA-ACCTGTTAGG
1 ACAGTAAACACAGAACAGAGATAGTCC-GTTAGG
* * *
6947792 ACAGTAAACATAGAACAGAGAAAGTCCGTTGGG
1 ACAGTAAACACAGAACAGAGATAGTCCGTTAGG
* * *
6947825 ACAGTAAACACAAAATAGAGATAGTCCGCTAGG
1 ACAGTAAACACAGAACAGAGATAGTCCGTTAGG
* *
6947858 ACAGTAAACATAGAACAGAGAAAGTCCGTTAGG
1 ACAGTAAACACAGAACAGAGATAGTCCGTTAGG
* * * * *
6947891 ACAATAAACAAAAAATAGAGATAG-CCTGCTAGG
1 ACAGTAAACACAGAACAGAGATAGTCC-GTTAGG
* * *
6947924 ACAGTAAAAACAGAGA-AGAGATAGTTCGTTGGG
1 ACAGTAAACACAGA-ACAGAGATAGTCCGTTAGG
6947957 ACAGTAAACACAGA
1 ACAGTAAACACAGA
6947971 TAAAGTTCGT
Statistics
Matches: 143, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
32 2 0.01
33 137 0.96
34 4 0.03
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.16
Consensus pattern (33 bp):
ACAGTAAACACAGAACAGAGATAGTCCGTTAGG
Found at i:6948026 original size:28 final size:28
Alignment explanation
Indices: 6947946--6948031 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 28
6947936 GAGAAGAGAT
* * *
6947946 AGTTCGTTGGGACAGTAAACACAGATAA
1 AGTTCGTCGGGACAGTAAACACAGGTTA
* * *
6947974 AGTTCGTCAGGACAGTAGATACAGGTTA
1 AGTTCGTCGGGACAGTAAACACAGGTTA
* *
6948002 AGTTCGTCGGGAAAGTAAACACAGGGTA
1 AGTTCGTCGGGACAGTAAACACAGGTTA
6948030 AG
1 AG
6948032 CCCGTTGGGA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (28 bp):
AGTTCGTCGGGACAGTAAACACAGGTTA
Found at i:6949664 original size:22 final size:21
Alignment explanation
Indices: 6949629--6949673 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
6949619 AGATCGAATG
*
6949629 TGAAATCAATGGTTATATTTA
1 TGAAATCAATGGTTATATATA
* *
6949650 TGAAATGCTATGGTTTTATATA
1 TGAAAT-CAATGGTTATATATA
6949672 TG
1 TG
6949674 CTTAGATGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (21 bp):
TGAAATCAATGGTTATATATA
Found at i:6951626 original size:24 final size:25
Alignment explanation
Indices: 6951590--6951659 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
6951580 CTCTCTCTCA
* *
6951590 AGCACTATAACGGGAAGCTCAT-TG
1 AGCAATATAACGGGAAGCTCATCCG
** *
6951614 AGCCTTATAACGGGAAGCTTATCCG
1 AGCAATATAACGGGAAGCTCATCCG
6951639 AGCAATATAACGGGAAGCTCA
1 AGCAATATAACGGGAAGCTCA
6951660 CAAAGAGCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 19 0.50
25 19 0.50
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.20
Consensus pattern (25 bp):
AGCAATATAACGGGAAGCTCATCCG
Found at i:6951807 original size:26 final size:25
Alignment explanation
Indices: 6951594--6951808 Score: 85
Period size: 25 Copynumber: 8.7 Consensus size: 25
6951584 CTCTCAAGCA
**
6951594 CTATAACGGGAAGCT--CATTGAGC
1 CTATAACGGGAAGCTCACAAAGAGC
* *
6951617 CTTATAACGGGAAGCTTATC--CGAGC
1 C-TATAACGGGAAGCTCA-CAAAGAGC
*
6951642 AATATAACGGGAAGCTCACAAAGAGC
1 -CTATAACGGGAAGCTCACAAAGAGC
*
6951668 CTATAAC-AGATAGCTC-CAAAGAG-
1 CTATAACGGGA-AGCTCACAAAGAGC
* * ** *
6951691 -TAATTAACGGGTAGCAC-CGGATAGC
1 CT-A-TAACGGGAAGCTCACAAAGAGC
* **
6951716 CATATAACGGGAAGTTCA-AGTGAG-
1 C-TATAACGGGAAGCTCACAAAGAGC
6951740 -TACTAACGGGAAGCTCACAAAGAGC
1 CTA-TAACGGGAAGCTCACAAAGAGC
* ** *
6951765 CTTTAATCAAGAAGCTCACGAAGAGC
1 CTATAA-CGGGAAGCTCACAAAGAGC
*
6951791 CATATAACGGGACGCTCA
1 C-TATAACGGGAAGCTCA
6951809 TAAGAGCTGC
Statistics
Matches: 142, Mismatches: 29, Indels: 39
0.68 0.14 0.19
Matches are distributed among these distances:
22 3 0.02
23 15 0.11
24 40 0.28
25 47 0.33
26 31 0.22
27 6 0.04
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (25 bp):
CTATAACGGGAAGCTCACAAAGAGC
Found at i:6954627 original size:29 final size:30
Alignment explanation
Indices: 6954557--6954630 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 30
6954547 TATCCAATGT
6954557 AACATCATTTACTTTAGATATTGAAAAAAAA
1 AACATCATTTACTTTAGATATT-AAAAAAAA
* * *
6954588 AACATAATTTACTTTGGATATT-AAAGAAA
1 AACATCATTTACTTTAGATATTAAAAAAAA
6954617 AACATCATTTACTT
1 AACATCATTTACTT
6954631 GAATATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 19 0.49
31 20 0.51
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (30 bp):
AACATCATTTACTTTAGATATTAAAAAAAA
Done.