Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 125 of 182
Found at i:38397835 original size:127 final size:125
Alignment explanation
Indices: 38397610--38397856 Score: 345
Period size: 127 Copynumber: 2.0 Consensus size: 125
38397600 AATTTAATAA
* * **
38397610 AAATCTCGAAATAAGGCAATATTTCGCATTTTAGAAATTTGAGAAATCGTACCCTAACTTACAGG
1 AAATCTCGAAATAAGGCAATACTTCACATTTTAGAAATTCAAGAAATCGTACCCTAACTTACAGG
* * *
38397675 TTTCAGTTTTCTCGTTAAACGTAAATAGCAAAATATCCTTTTAAAATTTTAAAATGAAAG
66 TCTCAGTTTTCTCGTTAAACCTAAATAGAAAAATATCCTTTTAAAATTTTAAAATGAAAG
* * *
38397735 AAATCTCGATATAAGGCAATACTTCACATTTTTGGGAATTCAAGAAA-CTGTACCCTAACTTACG
1 AAATCTCGAAATAAGGCAATACTTCACA-TTTTAGAAATTCAAGAAATC-GTACCCTAACTTAC-
*
38397799 GGGTCTC-GATTTTCTCGTTAAACCTAAATAGAAAAATATCCTTTTAAAATTTTAAAAT
63 AGGTCTCAG-TTTTCTCGTTAAACCTAAATAGAAAAATATCCTTTTAAAATTTTAAAAT
38397857 ACAAAATTTT
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
125 26 0.24
126 29 0.27
127 52 0.49
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (125 bp):
AAATCTCGAAATAAGGCAATACTTCACATTTTAGAAATTCAAGAAATCGTACCCTAACTTACAGG
TCTCAGTTTTCTCGTTAAACCTAAATAGAAAAATATCCTTTTAAAATTTTAAAATGAAAG
Found at i:38401095 original size:30 final size:29
Alignment explanation
Indices: 38401034--38401095 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
38401024 TCTAACATGT
* * *
38401034 TTTTTTATGGCTTAACTAAAACCCTCTAA
1 TTTTTTAAGACTTAACTAAAACCCTCGAA
*
38401063 TTTTTTAAGACTTAACTATAACCCTCCGAA
1 TTTTTTAAGACTTAACTAAAACCCT-CGAA
38401093 TTT
1 TTT
38401096 ATAAATAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (29 bp):
TTTTTTAAGACTTAACTAAAACCCTCGAA
Found at i:38402770 original size:27 final size:27
Alignment explanation
Indices: 38402720--38402795 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
38402710 TGCAATAAAA
*
38402720 GCCTTTGTGGCTAAACATC-A-AAGGAAT
1 GCCTTTGTGGC-AAAC-TCTATAAGGAAC
38402747 GCCTTTGTGGCAAACTCTATAAGGAAC
1 GCCTTTGTGGCAAACTCTATAAGGAAC
*
38402774 GCCTTTGTGGCACACTCT-TAAG
1 GCCTTTGTGGCAAACTCTATAAG
38402796 AACCACATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
25 2 0.04
26 9 0.20
27 34 0.76
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (27 bp):
GCCTTTGTGGCAAACTCTATAAGGAAC
Found at i:38408264 original size:28 final size:29
Alignment explanation
Indices: 38408219--38408285 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
38408209 AGAGAATTGG
*
38408219 AAGCCTTTGTGGCAATCTATG-AAAATGA
1 AAGCCTTTGTAGCAATCTATGAAAAATGA
**
38408247 AAGCCTTTGTAGTGATCTATGAAAAATGA
1 AAGCCTTTGTAGCAATCTATGAAAAATGA
*
38408276 ATGCCTTTGT
1 AAGCCTTTGT
38408286 GGTGCACTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (29 bp):
AAGCCTTTGTAGCAATCTATGAAAAATGA
Found at i:38410599 original size:18 final size:18
Alignment explanation
Indices: 38410541--38410601 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
38410531 AGTGTAGATG
*
38410541 AAAAAAATAATGATATTT
1 AAAATAATAATGATATTT
* * * *
38410559 GAAAT-AT-TTTATATATA
1 AAAATAATAATGATAT-TT
38410576 AAAATAATAATGATATTT
1 AAAATAATAATGATATTT
38410594 AAAATAAT
1 AAAATAAT
38410602 TATTTGATTT
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
16 5 0.16
17 7 0.23
18 14 0.45
19 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATAATAATGATATTT
Found at i:38413065 original size:11 final size:10
Alignment explanation
Indices: 38413049--38413120 Score: 63
Period size: 11 Copynumber: 6.6 Consensus size: 10
38413039 TTAATATAAT
*
38413049 TTAATTTATA
1 TTAAATTATA
38413059 TTAAATTATA
1 TTAAATTATA
*
38413069 TTAAAATTGTTA
1 TT-AAATT-ATA
38413081 TTAAATTATA
1 TTAAATTATA
38413091 TTTAATAATTATA
1 -TT-A-AATTATA
*
38413104 TTAAAATATGA
1 TTAAATTAT-A
38413115 TTAAAT
1 TTAAAT
38413121 AATTTATTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
10 18 0.35
11 19 0.37
12 7 0.14
13 7 0.14
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (10 bp):
TTAAATTATA
Found at i:38413068 original size:22 final size:21
Alignment explanation
Indices: 38413047--38413108 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 21
38413037 TTTTAATATA
38413047 ATTTAATTTATATTAAATTAT
1 ATTTAATTTATATTAAATTAT
*
38413068 ATTAAAATTGT-TATTAAATTAT
1 ATT-TAATT-TATATTAAATTAT
38413090 ATTTAATAATTATATTAAA
1 ATTTAAT--TTATATTAAA
38413109 ATATGATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 6 0.18
22 19 0.56
23 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTTAATTTATATTAAATTAT
Found at i:38413121 original size:24 final size:22
Alignment explanation
Indices: 38413054--38413129 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 22
38413044 ATAATTTAAT
38413054 TTATATTAAATTATATTAA-AA
1 TTATATTAAATTATATTAATAA
*
38413075 TTGTTATTAAATTATATTTAATAA
1 TT-ATATTAAATTATA-TTAATAA
*
38413099 TTATATTAAAATATGATTAAATAA
1 TTATATTAAATTAT-ATT-AATAA
38413123 TT-TATTA
1 TTATATTA
38413130 TTTTTATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 2 0.04
22 12 0.26
23 21 0.45
24 12 0.26
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
TTATATTAAATTATATTAATAA
Found at i:38414273 original size:20 final size:21
Alignment explanation
Indices: 38414233--38414284 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
38414223 AAAAATAACT
38414233 ATAATATAAA-ATTCAAGAACA
1 ATAA-ATAAATATTCAAGAACA
38414254 A-AGAATAAATATTCAA-AACA
1 ATA-AATAAATATTCAAGAACA
38414274 ATAAATAAATA
1 ATAAATAAATA
38414285 AATGATAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.23
Consensus pattern (21 bp):
ATAAATAAATATTCAAGAACA
Found at i:38416782 original size:889 final size:888
Alignment explanation
Indices: 38415523--38417300 Score: 3502
Period size: 889 Copynumber: 2.0 Consensus size: 888
38415513 TTTTCCGTAT
38415523 TTTTCCTTTTTGTTTCGTGACAATGTCCGGCGAAACAGCATCGTCTTCCGGAATCATCTTGGAAG
1 TTTTCCTTTTTGTTTCGTGACAATGTCCGGCGAAACAGCATCGTCTTCCGGAATCATCTTGGAAG
38415588 GAATTGATGATGTGGAGGACTACGTTTCGGTGAGTACTTTTTGTAGTTCTTATGATTGTTTGGAT
66 GAATTGATGATGTGGAGGACTACGTTTCGGTGAGTACTTTTTGTAGTTCTTATGATTGTTTGGAT
38415653 GCTGAGAAAATATAGGAAAAAGAGTATGAATACTGAATACCATTGCATTTTTTTTTGTTTTCTCA
131 GCTGAGAAAATATAGGAAAAAGAGTATGAATACTGAATACCATTGCATTTTTTTTTGTTTTCTCA
*
38415718 ATGATTTAATTTAATTTTGATCTAATCAGAAAAGTTTTTAGTTAGTTTCTTTATTAAGGACTGAA
196 ATGATTTAATTTAATTTTGATCTAATCAGAAAAGTTTTTAGTTACTTTCTTTATTAAGGACTGAA
38415783 TTTAGGGTTATAAAGCAAGTTAAAATTTACTTACTATTTTAATTTTGAATAACAGTGCGTAAAAT
261 TTTAGGGTTATAAAGCAAGTTAAAATTTACTTACTATTTTAATTTTGAATAACAGTGCGTAAAAT
38415848 CTTAGTATTAAACGAAGTTGATCCATTTTTATGAGGTCTGAAAATCCACGAGTATATTTTCTGTT
326 CTTAGTATTAAACGAAGTTGATCCATTTTTATGAGGTCTGAAAATCCACGAGTATATTTTCTGTT
38415913 GTGTTATTGTTCTGAAAGTTTTTATACTTTTACTTTTTAGAAATTAGAGAGCTAAGAGTGAAAGA
391 GTGTTATTGTTCTGAAAGTTTTTATACTTTTACTTTTTAGAAATTAGAGAGCTAAGAGTGAAAGA
38415978 GATAATGAACTTTTAGTTTCCTCCATTTTCTTGGAGATCAAACAGTTGTATTCTTTCTTTTTCAT
456 GATAATGAACTTTTAGTTTCCTCCATTTTCTTGGAGATCAAACAGTTGTATTCTTTCTTTTTCAT
38416043 TTAGTCCGTTAAAATTGTTTGTTTTGATTGTGGTTATCTTACATTTGTTTGGTAGCTTGACAACT
521 TTAGTCCGTTAAAATTGTTTGTTTTGATTGTGGTTATCTTACATTTGTTTGGTAGCTTGACAACT
*
38416108 ATATGTGAAAAGAACACAAATTGTATCTGTCTTATTTATTTGTTTCCTCTTTTACTGTCTGTTTG
586 ATATGTGAAAAGAACACAAACTGTATCTGTCTTATTTATTTGTTTCCTCTTTTACTGTCTGTTTG
38416173 GTTGCTGAAAATTCCTATGAAACTAGCATAGTAATTGAAATTTCGTTTATTTACTCTATGAATAT
651 GTTGCTGAAAATTCCTATGAAACTAGCATAGTAATTGAAATTTCGTTTATTTACTCTATGAATAT
38416238 GTTACTTTCAACTGGAAATATGTTTTAACATTATTAACACATTAACTTTTGGTAAAAAAAATAGG
716 GTTACTTTCAACTGGAAATATGTTTTAACATTATTAACACATTAACTTTTGGTAAAAAAAATAGG
38416303 TTTATTATAGGTTACAATGGCTGTAATGACTGCGCCATAGCCAAAAAATAAAAAAAAGTGATGAT
781 TTTATTATAGGTTACAATGGCTGTAATGACTGCGCCATAGCCAAAAAATAAAAAAAAGTGATGAT
38416368 CTGCCCCTTTGATGTTTGCATTTGGTTGGCAGACCTTGATAAA
846 CTGCCCCTTTGATGTTTGCATTTGGTTGGCAGACCTTGATAAA
38416411 TTTTCCTTTTTGTTTCGTGACAATGTCCGGCGAAACAGCATCGTCTTCCGGAATCATCTTGGAAG
1 TTTTCCTTTTTGTTTCGTGACAATGTCCGGCGAAACAGCATCGTCTTCCGGAATCATCTTGGAAG
38416476 GAATTGATGATGTGGAGGACTACGTTTCGGTGAGTACTTTTTGTAGTTCTTATGATTGTTTGGAT
66 GAATTGATGATGTGGAGGACTACGTTTCGGTGAGTACTTTTTGTAGTTCTTATGATTGTTTGGAT
*
38416541 GCTGAGAAAATGTAGGAAAAAGAGTATGAATACTGAATACCATTGCATTTTTTTTTTGTTTTCTC
131 GCTGAGAAAATATAGGAAAAAGAGTATGAATACTGAATACCATTGCA-TTTTTTTTTGTTTTCTC
38416606 AATGATTTAATTTAATTTTGATCTAATCAGAAAAGTTTTTAGTTACTTTCTTTATTAAGGACTGA
195 AATGATTTAATTTAATTTTGATCTAATCAGAAAAGTTTTTAGTTACTTTCTTTATTAAGGACTGA
*
38416671 ATTTAGGGTTATAAAGCAAGTTAAAATTTACTTACTATTTTTATTTTGAATAACAGTGCGTAAAA
260 ATTTAGGGTTATAAAGCAAGTTAAAATTTACTTACTATTTTAATTTTGAATAACAGTGCGTAAAA
38416736 TCTTAGTATTAAACGAAGTTGATCCATTTTTATGAGGTCTGAAAATCCACGAGTATATTTTCTGT
325 TCTTAGTATTAAACGAAGTTGATCCATTTTTATGAGGTCTGAAAATCCACGAGTATATTTTCTGT
38416801 TGTGTTATTGTTCTGAAAGTTTTTATACTTTTACTTTTTAGAAATTAGAGAGCTAAGAGTGAAAG
390 TGTGTTATTGTTCTGAAAGTTTTTATACTTTTACTTTTTAGAAATTAGAGAGCTAAGAGTGAAAG
38416866 AGATAATGAACTTTTAGTTTCCTCCATTTTCTTGGAGATCAAACAGTTGTATTCTTTCTTTTTCA
455 AGATAATGAACTTTTAGTTTCCTCCATTTTCTTGGAGATCAAACAGTTGTATTCTTTCTTTTTCA
*
38416931 TTTAGTCCGTTAAAATTGTTTGTTTTGATTGTGGTTATCTTAGATTTGTTTGGTAGCTTGACAAC
520 TTTAGTCCGTTAAAATTGTTTGTTTTGATTGTGGTTATCTTACATTTGTTTGGTAGCTTGACAAC
38416996 TATATGTGAAAAGAACACAAACTGTATCTGTCTTATTTATTTGTTTCCTCTTTTACTGTCTGTTT
585 TATATGTGAAAAGAACACAAACTGTATCTGTCTTATTTATTTGTTTCCTCTTTTACTGTCTGTTT
38417061 GGTTGCTGAAAATTCCTATGAAACTAGCATAGTAATTGAAATTTCGTTTATTTACTCTATGAATA
650 GGTTGCTGAAAATTCCTATGAAACTAGCATAGTAATTGAAATTTCGTTTATTTACTCTATGAATA
38417126 TGTTACTTTCAACTGGAAATATGTTTTAACATTATTAACACATTAACTTTTGGTAAAAAAAATAG
715 TGTTACTTTCAACTGGAAATATGTTTTAACATTATTAACACATTAACTTTTGGTAAAAAAAATAG
38417191 GTTTATTATAGGTTACAATGGCTGTAATGACTGCGCCATAGCCAAAAAATAAAAAAAAGTGATGA
780 GTTTATTATAGGTTACAATGGCTGTAATGACTGCGCCATAGCCAAAAAATAAAAAAAAGTGATGA
38417256 TCTGCCCCTTTGATGTTTGCATTTGGTTGGCAGACCTTGATAAA
845 TCTGCCCCTTTGATGTTTGCATTTGGTTGGCAGACCTTGATAAA
38417300 T
1 T
38417301 ATAGGAGTTG
Statistics
Matches: 884, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
888 176 0.20
889 708 0.80
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (888 bp):
TTTTCCTTTTTGTTTCGTGACAATGTCCGGCGAAACAGCATCGTCTTCCGGAATCATCTTGGAAG
GAATTGATGATGTGGAGGACTACGTTTCGGTGAGTACTTTTTGTAGTTCTTATGATTGTTTGGAT
GCTGAGAAAATATAGGAAAAAGAGTATGAATACTGAATACCATTGCATTTTTTTTTGTTTTCTCA
ATGATTTAATTTAATTTTGATCTAATCAGAAAAGTTTTTAGTTACTTTCTTTATTAAGGACTGAA
TTTAGGGTTATAAAGCAAGTTAAAATTTACTTACTATTTTAATTTTGAATAACAGTGCGTAAAAT
CTTAGTATTAAACGAAGTTGATCCATTTTTATGAGGTCTGAAAATCCACGAGTATATTTTCTGTT
GTGTTATTGTTCTGAAAGTTTTTATACTTTTACTTTTTAGAAATTAGAGAGCTAAGAGTGAAAGA
GATAATGAACTTTTAGTTTCCTCCATTTTCTTGGAGATCAAACAGTTGTATTCTTTCTTTTTCAT
TTAGTCCGTTAAAATTGTTTGTTTTGATTGTGGTTATCTTACATTTGTTTGGTAGCTTGACAACT
ATATGTGAAAAGAACACAAACTGTATCTGTCTTATTTATTTGTTTCCTCTTTTACTGTCTGTTTG
GTTGCTGAAAATTCCTATGAAACTAGCATAGTAATTGAAATTTCGTTTATTTACTCTATGAATAT
GTTACTTTCAACTGGAAATATGTTTTAACATTATTAACACATTAACTTTTGGTAAAAAAAATAGG
TTTATTATAGGTTACAATGGCTGTAATGACTGCGCCATAGCCAAAAAATAAAAAAAAGTGATGAT
CTGCCCCTTTGATGTTTGCATTTGGTTGGCAGACCTTGATAAA
Found at i:38419926 original size:13 final size:13
Alignment explanation
Indices: 38419908--38419945 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
38419898 ACACTCAAAT
*
38419908 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
38419921 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
38419934 TTCTGAAAAGCA
1 TTCTCAAAAGCA
38419946 ATGAAGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:38421403 original size:25 final size:25
Alignment explanation
Indices: 38421369--38421473 Score: 110
Period size: 25 Copynumber: 4.3 Consensus size: 25
38421359 ACCTTAGCGC
*
38421369 GCTCTCTGATTGTTAGCACATTGGT
1 GCTCTCTGATTATTAGCACATTGGT
* *
38421394 GCTCTCTGATTATTAGCACGTTTGT
1 GCTCTCTGATTATTAGCACATTGGT
** *
38421419 GCTCTCTGATTATTAGCATGTTAGT
1 GCTCTCTGATTATTAGCACATTGGT
*
38421444 GCTCATC--A--ATTAGCACATTTGT
1 GCTC-TCTGATTATTAGCACATTGGT
38421466 GCTCTCTG
1 GCTCTCTG
38421474 TTCATCCGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.03
22 15 0.22
24 1 0.01
25 49 0.71
26 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATTGGT
Found at i:38421446 original size:50 final size:47
Alignment explanation
Indices: 38421369--38421473 Score: 122
Period size: 50 Copynumber: 2.2 Consensus size: 47
38421359 ACCTTAGCGC
* * *
38421369 GCTCTCTGATTGTTAGCACATTGGTGCTC-TCTGATTATTAGCACGTTTGT
1 GCTCTCTGATTATTAGCACATTAGTGCTCATC--A--ATTAGCACATTTGT
**
38421419 GCTCTCTGATTATTAGCATGTTAGTGCTCATCAATTAGCACATTTGT
1 GCTCTCTGATTATTAGCACATTAGTGCTCATCAATTAGCACATTTGT
38421466 GCTCTCTG
1 GCTCTCTG
38421474 TTCATCCGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
47 21 0.43
49 1 0.02
50 25 0.51
51 2 0.04
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (47 bp):
GCTCTCTGATTATTAGCACATTAGTGCTCATCAATTAGCACATTTGT
Found at i:38423822 original size:24 final size:23
Alignment explanation
Indices: 38423773--38423822 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
38423763 AACTAAACTA
* **
38423773 AAATTACAATTGAAAAGAAACCT
1 AAATTACAATAGAAAAGAAAAAT
*
38423796 AAATTACAAATAGAAAATAAAAAT
1 AAATTAC-AATAGAAAAGAAAAAT
38423820 AAA
1 AAA
38423823 CAAGCAATGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.66, C:0.08, G:0.06, T:0.20
Consensus pattern (23 bp):
AAATTACAATAGAAAAGAAAAAT
Found at i:38426912 original size:19 final size:20
Alignment explanation
Indices: 38426888--38426927 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38426878 AGTGTGGCAC
38426888 TATCTG-CAATATTCCAATG
1 TATCTGTCAATATTCCAATG
* *
38426907 TATCTGTTAATATTCTAATG
1 TATCTGTCAATATTCCAATG
38426927 T
1 T
38426928 GTTCAACAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (20 bp):
TATCTGTCAATATTCCAATG
Found at i:38429484 original size:12 final size:13
Alignment explanation
Indices: 38429467--38429495 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38429457 AGATGAGCAA
38429467 AATTTGGC-TTTT
1 AATTTGGCTTTTT
38429479 AATTTGGCTTTTT
1 AATTTGGCTTTTT
38429492 AATT
1 AATT
38429496 CATTTAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (13 bp):
AATTTGGCTTTTT
Found at i:38432606 original size:22 final size:22
Alignment explanation
Indices: 38432554--38432606 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
38432544 GTTGTTGTTA
* * *
38432554 TGTTATTGTTTTGTTACTATTC
1 TGTTATTATATTGCTACTATTC
* * *
38432576 CGTTTTTATATTGCTACTATTT
1 TGTTATTATATTGCTACTATTC
38432598 TGTTATTAT
1 TGTTATTAT
38432607 TGTTTGAATA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.11, T:0.62
Consensus pattern (22 bp):
TGTTATTATATTGCTACTATTC
Found at i:38436073 original size:36 final size:35
Alignment explanation
Indices: 38436012--38436083 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 35
38436002 TTTTATATTT
38436012 TTATGTTAATTTTTCAAATTTATTTTATAAA-AAATA
1 TTATGTTAATTTTT-AAATTTATTTT-TAAATAAATA
*
38436048 TTATGTTAATTTTT-ATTTTACATTTTTAAATAAATA
1 TTATGTTAATTTTTAAATTT--ATTTTTAAATAAATA
38436084 ACAGTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 4 0.12
35 4 0.12
36 24 0.75
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (35 bp):
TTATGTTAATTTTTAAATTTATTTTTAAATAAATA
Found at i:38437595 original size:12 final size:12
Alignment explanation
Indices: 38437575--38437626 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
38437565 TCGGAAATCA
*
38437575 TATATATAAAGT
1 TATAAATAAAGT
*
38437587 TATAAATAAAAAT
1 TATAAAT-AAAGT
*
38437600 CATATATATAAAGT
1 --TATAAATAAAGT
38437614 TATAAATAAAGT
1 TATAAATAAAGT
38437626 T
1 T
38437627 CGATTGATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 18 0.56
13 4 0.12
14 4 0.12
15 6 0.19
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (12 bp):
TATAAATAAAGT
Found at i:38437599 original size:27 final size:27
Alignment explanation
Indices: 38437569--38437623 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
38437559 CTATATTCGG
38437569 AAATCATATATATAAAGTTATAAATAA
1 AAATCATATATATAAAGTTATAAATAA
38437596 AAATCATATATATAAAGTTATAAATAA
1 AAATCATATATATAAAGTTATAAATAA
38437623 A
1 A
38437624 GTTCGATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (27 bp):
AAATCATATATATAAAGTTATAAATAA
Found at i:38448218 original size:28 final size:30
Alignment explanation
Indices: 38448187--38448251 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
38448177 TTTTATAGGC
*
38448187 TATTTA-TTTCATATTAAAATTGTTAA-AT
1 TATTTAGTTTAATATTAAAATTGTTAATAT
38448215 TATTTAGTTTTAATATTAAAATTGTTAATAT
1 TATTTAG-TTTAATATTAAAATTGTTAATAT
38448246 TCATTT
1 T-ATTT
38448252 TTAATATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 6 0.19
30 19 0.59
31 3 0.09
32 4 0.12
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (30 bp):
TATTTAGTTTAATATTAAAATTGTTAATAT
Found at i:38448255 original size:28 final size:30
Alignment explanation
Indices: 38448197--38448258 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 30
38448187 TATTTATTTC
*
38448197 ATATTAAAATTGTTAAATTATTTAGTTTTA
1 ATATTAAAATTGTTAAATTATTCAGTTTTA
*
38448227 ATATTAAAATTGTT-AA-TATTCATTTTTA
1 ATATTAAAATTGTTAAATTATTCAGTTTTA
38448255 ATAT
1 ATAT
38448259 GTGTAATCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 14 0.47
29 2 0.07
30 14 0.47
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (30 bp):
ATATTAAAATTGTTAAATTATTCAGTTTTA
Found at i:38448551 original size:29 final size:28
Alignment explanation
Indices: 38448519--38448579 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
38448509 AAAGCCAGTT
38448519 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** *
38448548 TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
38448576 TTTT
1 TTTT
38448580 CTGGGAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:38448836 original size:40 final size:40
Alignment explanation
Indices: 38448781--38448869 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
38448771 TCTAATCCTC
38448781 TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
1 TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
*
38448821 TCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
38448861 TCAATTTCC
1 TCAATTTCC
38448870 CCTCAATTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (40 bp):
TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATT
Found at i:38448903 original size:10 final size:10
Alignment explanation
Indices: 38448883--38448930 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
38448873 CAATTTCATT
38448883 TTTTAAAATAA
1 TTTT-AAATAA
38448894 TTTTAAATAA
1 TTTTAAATAA
**
38448904 TTTTAAATTT
1 TTTTAAATAA
38448914 TTTTAATATAA
1 TTTTAA-ATAA
38448925 TTTTAA
1 TTTTAA
38448931 TTTTTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 20 0.62
11 12 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:38448908 original size:21 final size:22
Alignment explanation
Indices: 38448883--38448930 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
38448873 CAATTTCATT
38448883 TTTTAAAATAATTTTAA-ATAA
1 TTTTAAAATAATTTTAATATAA
**
38448904 TTTT-AAATTTTTTTAATATAA
1 TTTTAAAATAATTTTAATATAA
38448925 TTTTAA
1 TTTTAA
38448931 TTTTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 10 0.43
21 12 0.52
22 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAAAATAATTTTAATATAA
Found at i:38448917 original size:20 final size:21
Alignment explanation
Indices: 38448894--38448939 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
38448884 TTTAAAATAA
38448894 TTTTAA-ATAATTTTAAATTT
1 TTTTAATATAATTTTAAATTT
*
38448914 TTTTAATATAATTTTAATTTT
1 TTTTAATATAATTTTAAATTT
38448935 TTTTA
1 TTTTA
38448940 TATTTTCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTAATATAATTTTAAATTT
Found at i:38448942 original size:20 final size:21
Alignment explanation
Indices: 38448894--38448942 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
38448884 TTTAAAATAA
*
38448894 TTTTAAATAATTTTAAATTTT
1 TTTTATATAATTTTAAATTTT
*
38448915 TTTAATATAATTTT-AATTTT
1 TTTTATATAATTTTAAATTTT
38448935 TTTTATAT
1 TTTTATAT
38448943 TTTCATCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATATAATTTTAAATTTT
Found at i:38450361 original size:28 final size:28
Alignment explanation
Indices: 38450318--38450372 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
38450308 ATGGTAAGCC
*
38450318 GTATTTACTTATGCCAGAGGAGAGGCAA
1 GTATTTACTTACGCCAGAGGAGAGGCAA
38450346 GTATTTACTTACGCCAGAGGAGAGGCA
1 GTATTTACTTACGCCAGAGGAGAGGCA
38450373 GCGGCAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (28 bp):
GTATTTACTTACGCCAGAGGAGAGGCAA
Found at i:38450598 original size:18 final size:18
Alignment explanation
Indices: 38450575--38450618 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
38450565 ATGCCAGGTG
* *
38450575 TGTTTCCTAGCCCTTATA
1 TGTTTCCTAACCCTTACA
38450593 TGTTTCCTAACCCTTACA
1 TGTTTCCTAACCCTTACA
*
38450611 TGTATCCT
1 TGTTTCCT
38450619 TTTCCGAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.30, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTTTCCTAACCCTTACA
Found at i:38451196 original size:125 final size:123
Alignment explanation
Indices: 38450916--38451261 Score: 520
Period size: 125 Copynumber: 2.8 Consensus size: 123
38450906 CAAACTTGCG
* *
38450916 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCCCAAATAGCATCCTGGTA
1 ACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
* *
38450981 GAGGCGATTTTATACTATTTGCTCAAAAACGT--TAAAAAAATTTTCTTACATGACCT
66 GAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTTTCTTACATGACCT
* * *
38451037 ACTGTAGCAAAACCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAACATCCTAGTA
1 ACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
* * *
38451102 GA-GCCAATTTATACTATTTGCTCAGAAATGTCAAAAAAAAATTTATTTCTTACATGACCT
66 GAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAA--T-TTTCTTACATGACCT
* *
38451162 ACTGTAGCAAAATCGCATCCACGAGGGCATGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
1 ACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
38451227 GAGGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 GAGGCGATTTTATACTATTTG-CTCAGAAACGTCAA
38451262 CTCGAAATAA
Statistics
Matches: 200, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
120 25 0.12
121 62 0.31
122 7 0.04
124 1 0.00
125 77 0.38
126 27 0.14
127 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (123 bp):
ACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
GAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTTTCTTACATGACCT
Found at i:38457213 original size:187 final size:188
Alignment explanation
Indices: 38456882--38457250 Score: 546
Period size: 187 Copynumber: 2.0 Consensus size: 188
38456872 TCTGTTCCGA
* * * *
38456882 TAGTAAATCGAAATAATAAACTTTAGGTTCAGTTTTGGTGTAAATTTCGATTGGTACCGTTCATA
1 TAGTAAATCGAAACAACAAACTTTAGGTTCAGTTTTGGTGTAAATTTCGAATCGTACCGTTCATA
* * *
38456947 CTAGTCAATTTTATCAATATTGATTGAAATATGGTGTATCGTTCGGTACCAAAGAAATTGAAAGT
66 CCAGTCAATTTTATCAATATTGATTGAAATATGGTCTATCGATCGGTACCAAAGAAATTGAAAGT
*
38457012 GTAGATATTAATATAATCATTTTCAAAATAGAAGTACCATATTAAAAGATTTGTTCTGG
131 GTAGATACTAATATAATCATTTTCAAAATAGAAGTACCAT-TTAAAAGATTTGTTCTGG
* * *
38457071 TAGTAAATCGGAACAACAAACTTTAGGTTTAGTTTTGG-GTAAATTTC-AATCGTACTGTTCATA
1 TAGTAAATCGAAACAACAAACTTTAGGTTCAGTTTTGGTGTAAATTTCGAATCGTACCGTTCATA
* * * * *
38457134 CCAGTCGATTTTGTCAGTATTGATTGAAATATGGTCTATTGAT-GAGTGCCAAAGAAATTGAAAG
66 CCAGTCAATTTTATCAATATTGATTGAAATATGGTCTATCGATCG-GTACCAAAGAAATTGAAAG
*
38457198 TTTAGATACTAATATAATCATTTTCAAAATAGAAGTACCATTTAAAAGATTTG
130 TGTAGATACTAATATAATCATTTTCAAAATAGAAGTACCATTTAAAAGATTTG
38457251 ATAACAGATG
Statistics
Matches: 162, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
186 13 0.08
187 106 0.65
188 9 0.06
189 34 0.21
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (188 bp):
TAGTAAATCGAAACAACAAACTTTAGGTTCAGTTTTGGTGTAAATTTCGAATCGTACCGTTCATA
CCAGTCAATTTTATCAATATTGATTGAAATATGGTCTATCGATCGGTACCAAAGAAATTGAAAGT
GTAGATACTAATATAATCATTTTCAAAATAGAAGTACCATTTAAAAGATTTGTTCTGG
Found at i:38460019 original size:21 final size:22
Alignment explanation
Indices: 38459993--38460041 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
38459983 TGTAAAAAAA
38459993 AAATCTTC-TTTAACATCTCTT
1 AAATCTTCATTTAACATCTCTT
* *
38460014 AAATC-TCATTTAACTTCTTTT
1 AAATCTTCATTTAACATCTCTT
38460035 AAATCTT
1 AAATCTT
38460042 ATTATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 21 0.88
22 1 0.04
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATCTTCATTTAACATCTCTT
Found at i:38461146 original size:26 final size:25
Alignment explanation
Indices: 38461124--38461174 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
38461114 ACTAGAATAA
38461124 AAACA-AAAACAAAAGAAAAAGAAAA
1 AAACAGAAAACAAAA-AAAAAGAAAA
* *
38461149 AAAGAGAAAAGAAAAAAAAATGAAAA
1 AAACAGAAAACAAAAAAAAA-GAAAA
38461175 CCTAAGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (25 bp):
AAACAGAAAACAAAAAAAAAGAAAA
Found at i:38461173 original size:16 final size:15
Alignment explanation
Indices: 38461123--38461174 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
38461113 TACTAGAATA
*
38461123 AAAACAAAAACAAAAG
1 AAAAGAAAAA-AAAAG
*
38461139 AAAAAGAAAAAAAGAG
1 -AAAAGAAAAAAAAAG
38461155 AAAAGAAAAAAAAATG
1 AAAAGAAAAAAAAA-G
38461171 AAAA
1 AAAA
38461175 CCTAAGCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.42
16 9 0.29
17 9 0.29
ACGTcount: A:0.83, C:0.04, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:38465489 original size:16 final size:17
Alignment explanation
Indices: 38465451--38465488 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
38465441 CTATGGTTGC
38465451 TAAAATAGTGGGGGATG
1 TAAAATAGTGGGGGATG
38465468 TAAAATAGTGGGGGATG
1 TAAAATAGTGGGGGATG
38465485 TAAA
1 TAAA
38465489 TCTTAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.37, T:0.24
Consensus pattern (17 bp):
TAAAATAGTGGGGGATG
Found at i:38467321 original size:89 final size:89
Alignment explanation
Indices: 38467149--38467376 Score: 249
Period size: 89 Copynumber: 2.5 Consensus size: 89
38467139 GTAACCATCT
* * * * * * * * * * *
38467149 GATAACATGCCAATTTGCTCATAAGAGCTATTCCAACCGATAATACACCAGATGCATATAATACA
1 GATAACACGCCAAATTACTCATAAGACCT-TTCCAATCGATAACACGCCAGAT--ACACAGTGCA
*
38467214 AAGCCCGTAGGCTAAATATTCTCCCCT
63 AAGCCCGTAGGCTAAATATTCTCCCCC
* * *
38467241 GATAACATGTCAAATTACTCATAAGACCTTTGCAATCGATAACACGCCAGATACACAGTGCAAAG
1 GATAACACGCCAAATTACTCATAAGACCTTTCCAATCGATAACACGCCAGATACACAGTGCAAAG
*
38467306 CCCGTAGTCTAAATATTCTCCCCC
66 CCCGTAGGCTAAATATTCTCCCCC
** * *
38467330 GATAACACGCCATTTTGCTCATAAGAGCTTTCCAATCGATAACACGC
1 GATAACACGCCAAATTACTCATAAGACCTTTCCAATCGATAACACGC
38467377 TAGAATCTCT
Statistics
Matches: 115, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
89 71 0.62
91 19 0.17
92 25 0.22
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (89 bp):
GATAACACGCCAAATTACTCATAAGACCTTTCCAATCGATAACACGCCAGATACACAGTGCAAAG
CCCGTAGGCTAAATATTCTCCCCC
Found at i:38468005 original size:19 final size:19
Alignment explanation
Indices: 38467981--38468029 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
38467971 ATTATGTTTT
38467981 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
38468000 TATATTATATTATATTATA
1 TATATTATATTATATTATA
38468019 TATATATATAT
1 TATAT-TATAT
38468030 ATAGCAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:38468398 original size:29 final size:30
Alignment explanation
Indices: 38468339--38468396 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
38468329 TCCGAGCCTT
*
38468339 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
38468369 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
38468397 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:38468626 original size:13 final size:13
Alignment explanation
Indices: 38468608--38468639 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
38468598 TTTCCAGCAA
38468608 TTATGAATTTATT
1 TTATGAATTTATT
38468621 TTATGAATTTATT
1 TTATGAATTTATT
*
38468634 TGATGA
1 TTATGA
38468640 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:38468847 original size:50 final size:50
Alignment explanation
Indices: 38468734--38468975 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
38468724 ATTTGGGTAA
* * *
38468734 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
38468790 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
38468840 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
38468890 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
38468940 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
38468976 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:38468923 original size:100 final size:103
Alignment explanation
Indices: 38468734--38468983 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
38468724 ATTTGGGTAA
38468734 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
38468799 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
38468840 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
38468902 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
38468940 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
38468984 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:38482651 original size:16 final size:17
Alignment explanation
Indices: 38482619--38482651 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38482609 AAGCACTAAA
38482619 TTTGTATTGATTGATCT
1 TTTGTATTGATTGATCT
*
38482636 TTTGTCTTGA-TGATCT
1 TTTGTATTGATTGATCT
38482652 CTCTTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.09, G:0.18, T:0.58
Consensus pattern (17 bp):
TTTGTATTGATTGATCT
Found at i:38482925 original size:21 final size:21
Alignment explanation
Indices: 38482896--38482937 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38482886 AATACTTGGT
*
38482896 AAAATGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
38482917 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
38482938 TAATTTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:38486787 original size:102 final size:102
Alignment explanation
Indices: 38486657--38486854 Score: 308
Period size: 102 Copynumber: 1.9 Consensus size: 102
38486647 ATGAGTCGGT
* * *
38486657 GAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCG
1 GAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCA
* * * *
38486722 ATGATTTGGGGAATCGGCGCTTAGCAACCCCTCGGGG
66 ATGAGTCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
38486759 GAATCAACACTTAGCAACCGCC-TTCACATTTAAGATACGGTGGAATTAGCACTTAGCAACCACC
1 GAATCAACACTTAGCAACC-CCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACC
38486823 AATGAGTCGGGGAATCAGCACTTAGCAACCCC
65 AATGAGTCGGGGAATCAGCACTTAGCAACCCC
38486855 CTTCACATTT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 85 0.98
103 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (102 bp):
GAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCA
ATGAGTCGGGGAATCAGCACTTAGCAACCCCTCGGGG
Found at i:38486817 original size:42 final size:41
Alignment explanation
Indices: 38486758--38486894 Score: 155
Period size: 42 Copynumber: 3.5 Consensus size: 41
38486748 ACCCCTCGGG
*
38486758 GGAATCAACACTTAGCAACCGCCTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACC-CCTTCACATTTAAGATACGGT
* * *
38486800 GGAATTAGCACTTAGCAACCAC--CA-A--TGAG-T-CGG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAAGATACGGT
*
38486833 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACTGT
1 GGAATCAGCACTTAGCAA-CCCCTTCACATTTAAGATACGGT
38486875 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
38486895 ACCAATGAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
33 17 0.22
34 6 0.08
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 5 0.06
42 36 0.46
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTCACATTTAAGATACGGT
Found at i:38486848 original size:75 final size:75
Alignment explanation
Indices: 38486756--38486932 Score: 309
Period size: 75 Copynumber: 2.4 Consensus size: 75
38486746 CAACCCCTCG
* * *
38486756 GGGGAATCAACACTTAGCAACCGCCTTCACATTTAAGATACGGTGGAATTAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
38486821 CCAATGAGTC
66 CCAATGAATC
*
38486831 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACTGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
38486896 CCAATGAATC
66 CCAATGAATC
38486906 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
38486933 TATATTCAAT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 97 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATC
Found at i:38490611 original size:21 final size:21
Alignment explanation
Indices: 38490570--38490612 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
38490560 TTATTATAGT
* *
38490570 TAACATTATTTTAATATAAAA
1 TAACATTAATTTAATAGAAAA
38490591 TAACATATAATTTAA-AGAAAA
1 TAACAT-TAATTTAATAGAAAA
38490612 T
1 T
38490613 TCCTTCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
TAACATTAATTTAATAGAAAA
Found at i:38491681 original size:21 final size:21
Alignment explanation
Indices: 38491653--38491696 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
38491643 AAATTAAATA
38491653 TTAAAAAAAAT-TTTAAAAGT
1 TTAAAAAAAATATTTAAAAGT
*
38491673 TTAAAAAAATTATTTAAAAGT
1 TTAAAAAAAATATTTAAAAGT
38491694 TTA
1 TTA
38491697 TTTTTCGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
TTAAAAAAAATATTTAAAAGT
Found at i:38492455 original size:18 final size:18
Alignment explanation
Indices: 38492434--38492475 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
38492424 AAAAATAAAC
* *
38492434 TTTTAAATATTTTTTTAT
1 TTTTAAAGATTTTTTAAT
*
38492452 TTTTAAAGCTTTTTTAAT
1 TTTTAAAGATTTTTTAAT
38492470 TTTTAA
1 TTTTAA
38492476 CAAGTATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTAAAGATTTTTTAAT
Found at i:38502312 original size:20 final size:19
Alignment explanation
Indices: 38502271--38502313 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
38502261 TTTATAATGG
38502271 TTTCGAATGAATAATTTAAA
1 TTTCGAATGAAT-ATTTAAA
38502291 TTTCGAATTGAAT-TTTATAA
1 TTTCGAA-TGAATATTTA-AA
38502311 TTT
1 TTT
38502314 AAATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (19 bp):
TTTCGAATGAATATTTAAA
Found at i:38502430 original size:9 final size:9
Alignment explanation
Indices: 38502396--38502440 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
38502386 AAATAACAAA
38502396 AAAATTT-T
1 AAAATTTAT
38502404 -AAATTTCA-
1 AAAATTT-AT
38502412 AAATATTTAT
1 AAA-ATTTAT
38502422 AAAATTTAT
1 AAAATTTAT
38502431 AAAATTTAT
1 AAAATTTAT
38502440 A
1 A
38502441 TTTTTAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
7 6 0.19
9 19 0.59
10 7 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AAAATTTAT
Found at i:38502713 original size:23 final size:23
Alignment explanation
Indices: 38502669--38502714 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38502659 TATAACAATA
***
38502669 TTTTAATTTAACATGTTTAATTT
1 TTTTAATTTAACATGAACAATTT
*
38502692 TTTTAATTTAACTTGAACAATTT
1 TTTTAATTTAACATGAACAATTT
38502715 CACTTTAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTAATTTAACATGAACAATTT
Found at i:38503551 original size:25 final size:26
Alignment explanation
Indices: 38503503--38503551 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
38503493 ATTTTTTTAT
**
38503503 TGAAAAACAAAAATTTAGTTGTCGAC
1 TGAAAAACAAAAATTTAGGAGTCGAC
*
38503529 TGAAAAACAAAAA-TTGGGAGTCG
1 TGAAAAACAAAAATTTAGGAGTCG
38503552 CCACCGACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.22
Consensus pattern (26 bp):
TGAAAAACAAAAATTTAGGAGTCGAC
Found at i:38506000 original size:26 final size:27
Alignment explanation
Indices: 38505971--38506022 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
38505961 TCCACGTTAG
* *
38505971 TTGGGCTAGGTTAATTGGGT-TTTGGT
1 TTGGGCAAGGTTAAGTGGGTATTTGGT
38505997 TTGGGCAAGGTTAAGTGGGTATTTGG
1 TTGGGCAAGGTTAAGTGGGTATTTGG
38506023 GATCTGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.15, C:0.04, G:0.40, T:0.40
Consensus pattern (27 bp):
TTGGGCAAGGTTAAGTGGGTATTTGGT
Found at i:38514250 original size:191 final size:195
Alignment explanation
Indices: 38513910--38514303 Score: 571
Period size: 191 Copynumber: 2.0 Consensus size: 195
38513900 AAGTTTCTAA
* ** **
38513910 AACAAAACGAGCATGCATGCCTGAGAAAGTGAACCATTCGTAATTGCGCATGATCGTAGATGAAC
1 AACAAAACGAGCACGCATGCCTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAAC
* ** * *
38513975 CCACCAATAGCATATAAGGCATTTCTGGGTGGAAATGCTAAATAAAGTATGAGTTTGAGTCCAAT
66 CCAACAATAG-ATATAA-G-AACTCTGGGTGGAAATGCTAAATAAAGCACGAGTTTGAGTCCAAT
* *
38514040 AATGTATAAAACTTGGGTTTAAGTCTGTTTATACGCAATTGTGCATGGCTCTTCTTCTCAAATAA
128 AATGTATAAAACTTGGGTTTAAGTATGTTTATACGCAATTGTGCATGGCTCTTCTTCCCAAATAA
38514105 CTC
193 CTC
* *
38514108 AACAAAACGAGCGCGCATGCTTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAAC
1 AACAAAACGAGCACGCATGCCTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAAC
* *
38514173 CCAATAAT-G-TATAA-AACT-TGGGTGGAAATGCTAAATAAAGCACGCGTTTGAGTCCAATAAT
66 CCAACAATAGATATAAGAACTCTGGGTGGAAATGCTAAATAAAGCACGAGTTTGAGTCCAATAAT
* *
38514234 GTATAAAACTTGGGTTTAAGTATGTTTATACGCAATTGTGTATGGCTCTTCTTCCCAAATAACTT
131 GTATAAAACTTGGGTTTAAGTATGTTTATACGCAATTGTGCATGGCTCTTCTTCCCAAATAACTC
38514299 AACAA
1 AACAA
38514304 CCCCCCTCAT
Statistics
Matches: 178, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
191 106 0.60
192 2 0.01
195 5 0.03
197 1 0.01
198 64 0.36
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (195 bp):
AACAAAACGAGCACGCATGCCTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAAC
CCAACAATAGATATAAGAACTCTGGGTGGAAATGCTAAATAAAGCACGAGTTTGAGTCCAATAAT
GTATAAAACTTGGGTTTAAGTATGTTTATACGCAATTGTGCATGGCTCTTCTTCCCAAATAACTC
Found at i:38514809 original size:6 final size:6
Alignment explanation
Indices: 38514798--38514823 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38514788 AAAAATAATT
38514798 AATTAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AA
38514824 AAAGAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:38519783 original size:27 final size:27
Alignment explanation
Indices: 38519744--38520020 Score: 331
Period size: 27 Copynumber: 10.2 Consensus size: 27
38519734 TTAATGGGCC
*
38519744 TAAAATTACCGAAATACCCTTGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* *
38519771 TAAAATTATCGAAATACTCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* * *
38519798 TAAAATTACTGAAATACACTTGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* *
38519825 TAAAATTACCAAAATACCCTTGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* *
38519852 TAAAATTAACGAAATACCCTTGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
38519879 TAAAATTACCGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
*** * *
38519906 TAAAATTATTAAAATACCCCCGAAGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* * *
38519933 TAAAATTATCGAAATATCCTAGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
38519960 TAAAATTACCGAAATA-CCTCCGATGGG
1 TAAAATTACCGAAATACCCT-CGATGGG
* * * *
38519987 TAAAATTACTGTAATACCCCCGTAAGGG
1 TAAAATTACCGAAATACCCTCG-ATGGG
38520015 TAAAAT
1 TAAAAT
38520021 GACTGCTAGG
Statistics
Matches: 216, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.01
27 201 0.93
28 12 0.06
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGATGGG
Found at i:38520190 original size:27 final size:27
Alignment explanation
Indices: 38520140--38520199 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
38520130 ATGGAGGAAG
* * *
38520140 TACTGTTTCTAGTGGCTCTGCCACA-A
1 TACTGTTACTAGTGACTCTACCACATA
*
38520166 TTACTGTTACTAGTGACTTTACCACATA
1 -TACTGTTACTAGTGACTCTACCACATA
38520194 TACTGT
1 TACTGT
38520200 ACTGACAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (27 bp):
TACTGTTACTAGTGACTCTACCACATA
Found at i:38526131 original size:23 final size:22
Alignment explanation
Indices: 38526079--38526131 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38526069 TCCACGTCTT
*
38526079 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38526101 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38526124 TTTCTTTT
1 TTTCTTTT
38526132 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38527948 original size:27 final size:27
Alignment explanation
Indices: 38527915--38528083 Score: 178
Period size: 27 Copynumber: 6.2 Consensus size: 27
38527905 GTAATGGGCC
*
38527915 TAAAATTATCGAAATACCCTTGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* ** * *
38527942 AAAAATTATAAAAATACCCTCAATGAG
1 TAAAATTATCGAAATACCCTCGATGGG
* *
38527969 TAAAATTATTGAAATACCCTCGAAGGG
1 TAAAATTATCGAAATACCCTCGATGGG
*
38527996 TAAAATTATCGAAATACCCTCGATAGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * *
38528023 TTAAATTATCGAAATACCCCCAATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * *
38528050 TAAAATTA-CTGTAATACCCCCGTTAGGG
1 TAAAATTATC-GAAATACCCTCGAT-GGG
38528078 TAAAAT
1 TAAAAT
38528084 GAATGCTAGG
Statistics
Matches: 117, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 107 0.91
28 9 0.08
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTCGATGGG
Found at i:38528053 original size:81 final size:82
Alignment explanation
Indices: 38527915--38528083 Score: 223
Period size: 81 Copynumber: 2.1 Consensus size: 82
38527905 GTAATGGGCC
* * * *
38527915 TAAAATTATCGAAATACCCTTGATGGGAAAAATTATAAAAATACCCTCAATGAGTAAAATTATTG
1 TAAAATTATCGAAATACCCTCGATAGGAAAAATTATAAAAATACCCCCAATGAGTAAAATTACTG
*
38527980 AAATACCCTCG-AAGGG
66 AAATACCCCCGTAAGGG
** ** *
38527996 TAAAATTATCGAAATACCCTCGATAGGTTAAATTATCGAAATACCCCCAATGGGTAAAATTACTG
1 TAAAATTATCGAAATACCCTCGATAGGAAAAATTATAAAAATACCCCCAATGAGTAAAATTACTG
* *
38528061 TAATACCCCCGTTAGGG
66 AAATACCCCCGTAAGGG
38528078 TAAAAT
1 TAAAAT
38528084 GAATGCTAGG
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 65 0.87
82 10 0.13
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (82 bp):
TAAAATTATCGAAATACCCTCGATAGGAAAAATTATAAAAATACCCCCAATGAGTAAAATTACTG
AAATACCCCCGTAAGGG
Found at i:38529381 original size:30 final size:29
Alignment explanation
Indices: 38529316--38529382 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
38529306 GGCCCAAGAA
* * **
38529316 TAAATAATCAAAATTTGAAGGGTTAAAGTG
1 TAAAT-ATAAAAAATTGAAGGGCCAAAGTG
*
38529346 AAAATATAAAAAATTGAAGGGCCAATAGTG
1 TAAATATAAAAAATTGAAGGGCCAA-AGTG
38529376 TAAATAT
1 TAAATAT
38529383 TTTAAGGGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (29 bp):
TAAATATAAAAAATTGAAGGGCCAAAGTG
Found at i:38531473 original size:22 final size:22
Alignment explanation
Indices: 38531448--38531490 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
38531438 AATACTTATC
* *
38531448 ATTTTGCACTTCGGTGGCTACA
1 ATTTTGCACTACGGTGCCTACA
38531470 ATTTTGCACTACGGTGCCTAC
1 ATTTTGCACTACGGTGCCTAC
38531491 TGTCCTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (22 bp):
ATTTTGCACTACGGTGCCTACA
Found at i:38532292 original size:18 final size:18
Alignment explanation
Indices: 38532269--38532305 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38532259 TTAGTACTGT
* *
38532269 TTTGAATTGGTTTTAAAA
1 TTTGAAATGGTTTGAAAA
38532287 TTTGAAATGGTTTGAAAA
1 TTTGAAATGGTTTGAAAA
38532305 T
1 T
38532306 AGTGCAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (18 bp):
TTTGAAATGGTTTGAAAA
Found at i:38533754 original size:5 final size:5
Alignment explanation
Indices: 38533744--38533800 Score: 105
Period size: 5 Copynumber: 11.2 Consensus size: 5
38533734 TAGAAATATA
38533744 AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT
1 AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT
38533794 AGTAAT A
1 AG-AAT A
38533801 TTATTCAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 47 0.92
6 4 0.08
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (5 bp):
AGAAT
Found at i:38536361 original size:11 final size:11
Alignment explanation
Indices: 38536336--38536378 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
38536326 TATAAATGTT
38536336 TTTTATTTAATA
1 TTTTA-TTAATA
*
38536348 TTTTATTAAGA
1 TTTTATTAATA
*
38536359 TTTTTAGTAATA
1 -TTTTATTAATA
38536371 TTTTATTA
1 TTTTATTA
38536379 TTAAATGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 12 0.46
12 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (11 bp):
TTTTATTAATA
Found at i:38546560 original size:20 final size:22
Alignment explanation
Indices: 38546535--38546575 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
38546525 TGGCCTCTTT
38546535 GGATTTATA-T-TTTTAATTTG
1 GGATTTATATTGTTTTAATTTG
*
38546555 GGATTTTTATTGTTTTAATTT
1 GGATTTATATTGTTTTAATTT
38546576 ATAACTGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (22 bp):
GGATTTATATTGTTTTAATTTG
Found at i:38553029 original size:17 final size:18
Alignment explanation
Indices: 38553007--38553042 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
38552997 GAATTAGGCC
38553007 GTGTGGG-CCACACAGGT
1 GTGTGGGCCCACACAGGT
38553024 GTGTGGGCCCACACAGGT
1 GTGTGGGCCCACACAGGT
38553042 G
1 G
38553043 AACCACACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.17
Consensus pattern (18 bp):
GTGTGGGCCCACACAGGT
Found at i:38556788 original size:12 final size:11
Alignment explanation
Indices: 38556756--38556788 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
38556746 CCCTTCCTCA
38556756 TTATTTTATTT
1 TTATTTTATTT
38556767 TTA-TTTATTT
1 TTATTTTATTT
38556777 TTATTCTTATTT
1 TTATT-TTATTT
38556789 CTATGCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:38556822 original size:28 final size:28
Alignment explanation
Indices: 38556767--38556824 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
38556757 TATTTTATTT
* *
38556767 TTATTTATTTTTATTCTTATTTCTATGC
1 TTATTTATTTTTATTCGTATTTATATGC
38556795 TTATTTATTTTTATT-GTATTTATCATGC
1 TTATTTATTTTTATTCGTATTTAT-ATGC
38556823 TT
1 TT
38556825 TTTTTCTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (28 bp):
TTATTTATTTTTATTCGTATTTATATGC
Found at i:38558429 original size:21 final size:22
Alignment explanation
Indices: 38558399--38558452 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
38558389 ACTGATTTTA
38558399 TTTTTATTTTTAGCTT-TA-TT
1 TTTTTATTTTTAGCTTATAGTT
38558419 TTTTCTATTTTT-GCTTATAGTT
1 TTTT-TATTTTTAGCTTATAGTT
*
38558441 GTTTTATTTTTA
1 TTTTTATTTTTA
38558453 TTTTCTTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 8 0.28
21 16 0.55
22 5 0.17
ACGTcount: A:0.15, C:0.06, G:0.07, T:0.72
Consensus pattern (22 bp):
TTTTTATTTTTAGCTTATAGTT
Found at i:38572935 original size:16 final size:15
Alignment explanation
Indices: 38572910--38572943 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
38572900 AAAGTTGATA
*
38572910 ATAATTAATATATATT
1 ATAATAAATATA-ATT
38572926 ATAATAAATATAATT
1 ATAATAAATATAATT
38572941 ATA
1 ATA
38572944 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:38573061 original size:29 final size:30
Alignment explanation
Indices: 38573003--38573062 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
38572993 TGTATTTAAA
* *
38573003 AATATTTACAAAAAGAGACAACTAATTTTT
1 AATATTTACAAAAAGAGACAACAAAATTTT
38573033 AATATTTACAAAAAGAG-CAACAAAATTTT
1 AATATTTACAAAAAGAGACAACAAAATTTT
38573062 A
1 A
38573063 CAAATAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACAAAATTTT
Found at i:38583104 original size:50 final size:50
Alignment explanation
Indices: 38582992--38583233 Score: 252
Period size: 50 Copynumber: 4.7 Consensus size: 50
38582982 ATTTGGGTAA
* * * *
38582992 AGAGATCCCATGTAAGACCATATCTGGGACATGACATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--GAG---ATG
*
38583048 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGGGTTGGCA-CGAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
* * * *
38583098 AGAGGTCTCATGTAACACCATGCCTGGAACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * *
38583148 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
38583198 AGAACATCCCATGTAAGACCATGTCTAGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
38583234 TTTGACATGT
Statistics
Matches: 159, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
50 88 0.55
51 30 0.19
52 1 0.01
53 2 0.01
54 1 0.01
56 37 0.23
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:38585751 original size:19 final size:20
Alignment explanation
Indices: 38585723--38585769 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
38585713 TAAAGTTTAC
*
38585723 AAGAAAATGTTGATAA-AT-A
1 AAGAATATGTTGA-AAGATAA
38585742 AAGAATATGTTGAAAGATAA
1 AAGAATATGTTGAAAGATAA
38585762 AAGAATAT
1 AAGAATAT
38585770 ATGAATATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.26
Consensus pattern (20 bp):
AAGAATATGTTGAAAGATAA
Found at i:38586289 original size:22 final size:22
Alignment explanation
Indices: 38586264--38586315 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
38586254 GCTTATCGTC
*
38586264 TTGCACTTTAGCACTTACTGTT
1 TTGCACTTTAGCACCTACTGTT
* **
38586286 TTGCACTTTGGTGCCTACTGTT
1 TTGCACTTTAGCACCTACTGTT
38586308 TTGCACTT
1 TTGCACTT
38586316 CGGTGCTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (22 bp):
TTGCACTTTAGCACCTACTGTT
Found at i:38586320 original size:22 final size:22
Alignment explanation
Indices: 38586279--38586346 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
38586269 CTTTAGCACT
*
38586279 TACTGTTTTGCACTTTGGTGCC
1 TACTGTTTTGCACTTCGGTGCC
*
38586301 TACTGTTTTGCACTTCGGTGCT
1 TACTGTTTTGCACTTCGGTGCC
* * *
38586323 TAGTGATTTGGACTTCGGTGCC
1 TACTGTTTTGCACTTCGGTGCC
38586345 TA
1 TA
38586347 ATATTCTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.12, C:0.21, G:0.25, T:0.43
Consensus pattern (22 bp):
TACTGTTTTGCACTTCGGTGCC
Found at i:38594622 original size:22 final size:21
Alignment explanation
Indices: 38594596--38594636 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
38594586 ATTGTTTATG
38594596 TTTATGTTTATATTATTATTTA
1 TTTATGTTTAT-TTATTATTTA
*
38594618 TTTATGTTTATTTCTTATT
1 TTTATGTTTATTTATTATT
38594637 CTTATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTATGTTTATTTATTATTTA
Found at i:38597976 original size:42 final size:42
Alignment explanation
Indices: 38597914--38597996 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
38597904 AATGAGACCG
*
38597914 TGTGAGCCATATGGCCAGGGACACGGGCGTGTAGT-CAGGCTA
1 TGTGAGCCACATGGCCAGGGACACGGGCGTGTA-TCCAGGCTA
** * *
38597956 TGTGAGCCACATGGGTAGGGACATGGGTGTGTATCCAGGCT
1 TGTGAGCCACATGGCCAGGGACACGGGCGTGTATCCAGGCT
38597997 GTGTAACTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.20, C:0.19, G:0.39, T:0.22
Consensus pattern (42 bp):
TGTGAGCCACATGGCCAGGGACACGGGCGTGTATCCAGGCTA
Found at i:38598072 original size:42 final size:42
Alignment explanation
Indices: 38598025--38598184 Score: 135
Period size: 42 Copynumber: 3.8 Consensus size: 42
38598015 GTTTTAGAAA
* *
38598025 CACACGGCCAGGGACATAGGCGTGTGCCCAGGCCGTGTGAGC
1 CACACGGCCAAGGACATAGGCGTGTGCCCAGGCCATGTGAGC
* * *
38598067 CACACGAG-CAATGG-TATAGGCGTGTGCCTAGGCCATGTGAAC
1 CACACG-GCCAA-GGACATAGGCGTGTGCCCAGGCCATGTGAGC
* * * * * ** *
38598109 AACATGGGCAACGACATAGGCGTGTTCCCAGATCATGTGAGG
1 CACACGGCCAAGGACATAGGCGTGTGCCCAGGCCATGTGAGC
* * * *
38598151 CACACGGGCAAGGACATGGGGGTGTGTCCAGGCC
1 CACACGGCCAAGGACATAGGCGTGTGCCCAGGCC
38598185 GTTTAACTCA
Statistics
Matches: 90, Mismatches: 24, Indels: 8
0.74 0.20 0.07
Matches are distributed among these distances:
41 2 0.02
42 85 0.94
43 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.16
Consensus pattern (42 bp):
CACACGGCCAAGGACATAGGCGTGTGCCCAGGCCATGTGAGC
Found at i:38599191 original size:20 final size:20
Alignment explanation
Indices: 38599166--38599251 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
38599156 ATATATGCTA
38599166 TGTTCTGCTCTGCTCCATTC
1 TGTTCTGCTCTGCTCCATTC
* *
38599186 TGTTCTGTTCTG-TTCAGTAT-
1 TGTTCTGCTCTGCTCCA-T-TC
* * *
38599206 TGCTCTGCTCTGTTCCATTT
1 TGTTCTGCTCTGCTCCATTC
* * *
38599226 TATTCTGTTCTGCTCTATTC
1 TGTTCTGCTCTGCTCCATTC
*
38599246 GGTTCT
1 TGTTCT
38599252 ATTCTGTTTG
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
19 4 0.08
20 41 0.84
21 4 0.08
ACGTcount: A:0.07, C:0.26, G:0.16, T:0.51
Consensus pattern (20 bp):
TGTTCTGCTCTGCTCCATTC
Found at i:38599237 original size:25 final size:25
Alignment explanation
Indices: 38599209--38599259 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
38599199 TCAGTATTGC
* *
38599209 TCTGCTCTGTTCCATTTTATTCTGT
1 TCTGCTCTATTCCATTCTATTCTGT
**
38599234 TCTGCTCTATTCGGTTCTATTCTGT
1 TCTGCTCTATTCCATTCTATTCTGT
38599259 T
1 T
38599260 TGAATTGCGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.08, C:0.24, G:0.14, T:0.55
Consensus pattern (25 bp):
TCTGCTCTATTCCATTCTATTCTGT
Found at i:38614352 original size:28 final size:28
Alignment explanation
Indices: 38614301--38614403 Score: 170
Period size: 28 Copynumber: 3.7 Consensus size: 28
38614291 AACAATACAG
* *
38614301 TGTGGGCCTTAGTCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATATAGTAACAA
*
38614329 TGTGGGCCTTAGCCCACTATAGTAACAA
1 TGTGGGCCTTAGCCCAATATAGTAACAA
*
38614357 TGTGGGCCTTAGCCCAATATAGTAGCAA
1 TGTGGGCCTTAGCCCAATATAGTAACAA
38614385 TGTGGGCCTTAGCCCAATA
1 TGTGGGCCTTAGCCCAATA
38614404 CAGTTCCGGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATATAGTAACAA
Found at i:38615526 original size:24 final size:24
Alignment explanation
Indices: 38615501--38615547 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
38615491 CCCAAATCCC
38615501 AATATTCACTCCTCAAATCTCTCCA
1 AATA-TCACTCCTCAAATCTCTCCA
* *
38615526 AATATCCCTCCTCAATTCTCTC
1 AATATCACTCCTCAAATCTCTC
38615548 TATGACCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.34
Consensus pattern (24 bp):
AATATCACTCCTCAAATCTCTCCA
Found at i:38616403 original size:16 final size:16
Alignment explanation
Indices: 38616382--38616412 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38616372 TTCACTATAA
*
38616382 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
38616398 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
38616413 GTATAAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:38617402 original size:62 final size:59
Alignment explanation
Indices: 38617332--38617448 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
38617322 AGTGATTATC
* * ** * *
38617332 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGTTAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTCAATCTAAAATTTATCTTG-A--TAAATATTATATTAATTTAATAAGAT
38617394 TTAATATTAAATTCAATCTAAAATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTCAATCTAAAATTTATCTTGATAAATATTATATTAATTTAATA
38617449 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
61 1 0.02
62 28 0.57
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTCAATCTAAAATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:38619730 original size:20 final size:20
Alignment explanation
Indices: 38619705--38619742 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
38619695 CATTGAAAGT
38619705 GTAATATTTAAGGACCCTAA
1 GTAATATTTAAGGACCCTAA
38619725 GTAATATTTAAGGACCCT
1 GTAATATTTAAGGACCCT
38619743 TTGGTTAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (20 bp):
GTAATATTTAAGGACCCTAA
Found at i:38632644 original size:16 final size:16
Alignment explanation
Indices: 38632613--38632669 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 16
38632603 TTTATGTGGT
38632613 TTTTTA-ATTTTATTG
1 TTTTTATATTTTATTG
38632628 TTTTTATATTATT-TTG
1 TTTTTATATT-TTATTG
* *
38632644 TGTTTAT-TTTTAAT-
1 TTTTTATATTTTATTG
*
38632658 TTTTCATATTTT
1 TTTTTATATTTT
38632670 TCAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 7 0.21
15 13 0.38
16 12 0.35
17 2 0.06
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTTATATTTTATTG
Found at i:38639309 original size:37 final size:37
Alignment explanation
Indices: 38639251--38639328 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
38639241 TTCTAAATGA
* * *
38639251 AACATGCCAATCGCTCGTAAGAGCTAATCCACTCAAT
1 AACATGCCAATCGCTCATAAGAGCCAATCCACCCAAT
*
38639288 AACATGCCAGAT-GCTCATAAGAGCCAATCCACCCGAT
1 AACATGCCA-ATCGCTCATAAGAGCCAATCCACCCAAT
38639325 AACA
1 AACA
38639329 CACTAATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 34 0.94
38 2 0.06
ACGTcount: A:0.37, C:0.31, G:0.14, T:0.18
Consensus pattern (37 bp):
AACATGCCAATCGCTCATAAGAGCCAATCCACCCAAT
Found at i:38651078 original size:22 final size:22
Alignment explanation
Indices: 38651050--38651094 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
38651040 ATCTCGCAGC
38651050 TTATGTGGTTTTACCAATTCAA
1 TTATGTGGTTTTACCAATTCAA
*
38651072 TTATGTGGTTTTTCCAATTCAA
1 TTATGTGGTTTTACCAATTCAA
38651094 T
1 T
38651095 CTTCCAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.49
Consensus pattern (22 bp):
TTATGTGGTTTTACCAATTCAA
Found at i:38675850 original size:27 final size:28
Alignment explanation
Indices: 38675820--38676054 Score: 230
Period size: 27 Copynumber: 8.5 Consensus size: 28
38675810 ATATTAAGTC
* *
38675820 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
38675847 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
38675875 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
38675903 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
** ** *
38675931 CGCACACTTAGTGCCGCATGGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* **
38675958 CGCACACTTAGTGC-ATCATATTC-ATTT
1 CGCACACTTAGTGCTA-CATAATCAAACT
* * **
38675985 CGCACACTTAGTGCAACATAGTC-AGGT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
38676012 CGCACACTTAGTGCTGTACA-ATTTAAACC
1 CGCACACTTAGTGC--TACATAATCAAACT
38676041 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38676055 CAATCTCATG
Statistics
Matches: 182, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
27 83 0.46
28 81 0.45
29 18 0.10
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:38675909 original size:56 final size:55
Alignment explanation
Indices: 38675820--38676054 Score: 249
Period size: 56 Copynumber: 4.3 Consensus size: 55
38675810 ATATTAAGTC
* *
38675820 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
* *
38675875 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTATATAATCAAACT
** ** * * **
38675931 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTC-ATTT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTAT-ATAATCAAACT
* * ** * * * *
38675985 CGCACACTTAGTGCAACATAGTCAGGTCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAA-TCAAACT
38676041 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38676055 CAATCTCATG
Statistics
Matches: 150, Mismatches: 25, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
54 41 0.27
55 45 0.30
56 64 0.43
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:38678134 original size:21 final size:23
Alignment explanation
Indices: 38678098--38678139 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
38678088 CATGCGACTC
38678098 ATTAAGTTATTGTTTGATTGCAT
1 ATTAAGTTATTGTTTGATTGCAT
*
38678121 ATTAAG-TA-TGTTTGGTTGC
1 ATTAAGTTATTGTTTGATTGC
38678140 GATGCCACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 2 0.11
23 6 0.33
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (23 bp):
ATTAAGTTATTGTTTGATTGCAT
Found at i:38680640 original size:22 final size:22
Alignment explanation
Indices: 38680614--38680658 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
38680604 ATATCAACAC
38680614 AAATAT-AATCGCATACATATCA
1 AAATATCAATCGCA-ACATATCA
*
38680636 AAATATCAATCTCAACATATCA
1 AAATATCAATCGCAACATATCA
38680658 A
1 A
38680659 TCATCCTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (22 bp):
AAATATCAATCGCAACATATCA
Found at i:38684399 original size:23 final size:24
Alignment explanation
Indices: 38684358--38684404 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
38684348 TTGTCCACGA
** *
38684358 TATTGGCAGTTTGTTTGCA-TATT
1 TATTGGCAGTTCCTCTGCACTATT
38684381 TATTGGCAGTTCCTCTGCACTATT
1 TATTGGCAGTTCCTCTGCACTATT
38684405 ACACTGGTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (24 bp):
TATTGGCAGTTCCTCTGCACTATT
Found at i:38689351 original size:19 final size:20
Alignment explanation
Indices: 38689327--38689364 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38689317 TGATATGTGG
*
38689327 TTGTC-ATGCCTAGGCTAAC
1 TTGTCAATGCCTAGCCTAAC
38689346 TTGTCAATGCCTAGCCTAA
1 TTGTCAATGCCTAGCCTAA
38689365 GAGCTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (20 bp):
TTGTCAATGCCTAGCCTAAC
Found at i:38694912 original size:37 final size:37
Alignment explanation
Indices: 38694851--38694923 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
38694841 ATTGTATTCC
*
38694851 CTTGAAATATGTAGATGTCCAGGAAACTTG-AAGCTCA
1 CTTGAAATATGGAGATGTCCAGGAAAC-TGAAAGCTCA
* * *
38694888 CTTGAAATATGGGGATTTCTAGGAAACTGAAAGCTC
1 CTTGAAATATGGAGATGTCCAGGAAACTGAAAGCTC
38694924 TTAGTGTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 2 0.06
37 29 0.94
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (37 bp):
CTTGAAATATGGAGATGTCCAGGAAACTGAAAGCTCA
Found at i:38697417 original size:11 final size:11
Alignment explanation
Indices: 38697400--38697434 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
38697390 TGTGCTATAT
38697400 TTAATACAATA
1 TTAATACAATA
*
38697411 TTGATACAATA
1 TTAATACAATA
38697422 TTTAATACAATA
1 -TTAATACAATA
38697434 T
1 T
38697435 GAAGTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (11 bp):
TTAATACAATA
Found at i:38697429 original size:12 final size:12
Alignment explanation
Indices: 38697396--38697434 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
38697386 AATTTGTGCT
38697396 ATATTTAATACA
1 ATATTTAATACA
*
38697408 ATA-TTGATACA
1 ATATTTAATACA
38697419 ATATTTAATACA
1 ATATTTAATACA
38697431 ATAT
1 ATAT
38697435 GAAGTCGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (12 bp):
ATATTTAATACA
Found at i:38698503 original size:18 final size:18
Alignment explanation
Indices: 38698480--38698526 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
38698470 GAAAAATACC
38698480 AAAGAAAAATAGAAGATA
1 AAAGAAAAATAGAAGATA
38698498 AAAGAAAAATAGAAGATA
1 AAAGAAAAATAGAAGATA
38698516 AAAGAAAAATA
1 AAAGAAAAATA
38698527 AACCTAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (18 bp):
AAAGAAAAATAGAAGATA
Found at i:38705719 original size:17 final size:17
Alignment explanation
Indices: 38705690--38705736 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
38705680 AGAAAGTAAC
*
38705690 AATAAAAA-CAACTAAA
1 AATAAAAATAAACTAAA
38705706 AATAAAAATAAACTAAA
1 AATAAAAATAAACTAAA
38705723 AA-AATAAATAAACT
1 AATAA-AAATAAACT
38705737 CAATGATCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (17 bp):
AATAAAAATAAACTAAA
Found at i:38707887 original size:16 final size:16
Alignment explanation
Indices: 38707866--38707896 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38707856 CTACGAATGT
*
38707866 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
38707882 AAAATACAAAAGACA
1 AAAATACAAAAGACA
38707897 TATTAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:38714968 original size:100 final size:98
Alignment explanation
Indices: 38714707--38715400 Score: 503
Period size: 100 Copynumber: 6.9 Consensus size: 98
38714697 TTCGTAGCTT
* * * *
38714707 TGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATTTG
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATT--CCATTGTGGCTTTAATCTG
* * * * *
38714772 C-TCTACTACACTAG-CTGAGCG-AGTGAGATTCG-TCGT
64 CTTC-ACTGCA-TTGCCTG-G-GAAGTAAGATTTGCT-GC
* * * * * *
38714808 TGT-GACTTTAATCCTTTTATCTGCAATGTCGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCT
1 TGTAG-CTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATT--CCATTGTGGCTTTAATCT
* * * * * *
38714872 GCTTCACTGCGTTGCCAGGGAAGTAACACTCGCCGC
63 GCTTCACTGCATTGCCTGGGAAGTAAGATTTGCTGC
* * * * * *
38714908 TGTGGCTTTAGTCTTTTTAACTACAATTTCGGGGAAGCAAGATATGCCATTGTGGTTTTAATCTA
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGAT-T-CCATTGTGGCTTTAATCTG
* * *
38714973 CTCCACTGCATTGCCTGGGAGGTTAGATTTGCTGC
64 CTTCACTGCATTGCCTGGGAAGTAAGATTTGCTGC
* *
38715008 TATAGCTTTAATCTTTTTAACTGCAATATCGGGGTAGCAAGATTCACATTTGTGGCTTTAATCTG
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATTC-CA-TTGTGGCTTTAATCTG
* * * *
38715073 C-TCTGCTGCATCGCCTGGGGAGTAAGATTTGCTGT
64 CTTC-ACTGCATTGCCTGGGAAGTAAGATTTGCTGC
* * *
38715108 TGTAGCTTTAATCTTTTTAACTGTAATATCGGGGAAGCAAGATTCACCGTTGTGGTTTTAATCTG
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATT--CCATTGTGGCTTTAATCTG
* * * *
38715173 -TTCCGCTGCATCGCCTAGGG-AGTAAGATTCGCTAC
64 CTT-CACTGCATTGCCT-GGGAAGTAAGATTTGCTGC
* * * * *
38715208 TGCAGCTTTAATCTTTTTAACTGCAATGTCAGGGACGCAAGATTCACCGA-TGTGACTTTAATCT
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATT--CC-ATTGTGGCTTTAATCT
* * * * ** *
38715272 G-TTCCACTGCACTACCAGGGAGGTAAGATTCACTAC
63 GCTT-CACTGCATTGCCTGGGAAGTAAGATTTGCTGC
* * * * *
38715308 TGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAAATTCATCGTTGTGGCTTTAATCT-
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATTC--CATTGTGGCTTTAATCTG
* *
38715372 ATTCCACTGCACTGCCTGGG-AGATAAGAT
64 CTT-CACTGCATTGCCTGGGAAG-TAAGAT
38715401 CTGTAATTCT
Statistics
Matches: 490, Mismatches: 81, Indels: 45
0.80 0.13 0.07
Matches are distributed among these distances:
98 2 0.00
99 9 0.02
100 405 0.83
101 71 0.14
102 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (98 bp):
TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATTCCATTGTGGCTTTAATCTGCT
TCACTGCATTGCCTGGGAAGTAAGATTTGCTGC
Found at i:38715063 original size:200 final size:199
Alignment explanation
Indices: 38714707--38715400 Score: 634
Period size: 200 Copynumber: 3.5 Consensus size: 199
38714697 TTCGTAGCTT
* * * *
38714707 TGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGAT-TCACCGTTGTGGCTTTAATTT
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATAT-ACCGTTGTGGTTTTAATCT
** * * * * *** * *
38714771 GCTCTACTACACTAG-CTGAGCGA-GTGAGATTCG-T-CGTTGTGACTTTAATCCTTTTATCTGC
65 ATTCCACTGCA-TTGCCTG-G-GAGGTAAGATTCGCTAC-TACAG-CTTTAATCTTTTTAACTGC
** *
38714832 AATGTCGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGCGTTGCCAGGGAAGTA
125 AATGTCG-GGGAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGCATTGCCAGGGAAGTA
* * *
38714897 ACACTCGCCGC
189 AGATTCGCTGC
* * * * * *
38714908 TGTGGCTTTAGTCTTTTTAACTACAATTTCGGGGAAGCAAGATATGCCATTGTGGTTTTAATCTA
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATATACCGTTGTGGTTTTAATCTA
* * * * * *
38714973 CTCCACTGCATTGCCTGGGAGGTTAGATTTGCTGCTATAGCTTTAATCTTTTTAACTGCAATATC
66 TTCCACTGCATTGCCTGGGAGGTAAGATTCGCTACTACAGCTTTAATCTTTTTAACTGCAATGTC
** * * * *
38715038 GGGGTAGCAAGATTCACATTTGTGGCTTTAATCTGC-TCTGCTGCATCGCCTGGGGAGTAAGATT
131 GGGG-AGCAAGATTCACCGTTGTGGCTTTAATCTGCTTC-ACTGCATTGCCAGGGAAGTAAGATT
* *
38715102 TGCTGT
194 CGCTGC
*
38715108 TGTAGCTTTAATCTTTTTAACTGTAATATCGGGGAAGCAAGAT-TCACCGTTGTGGTTTTAATCT
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATAT-ACCGTTGTGGTTTTAATCT
* * * *
38715172 GTTCCGCTGCATCGCCTAGGGA-GTAAGATTCGCTACTGCAGCTTTAATCTTTTTAACTGCAATG
65 ATTCCACTGCATTGCCT-GGGAGGTAAGATTCGCTACTACAGCTTTAATCTTTTTAACTGCAATG
* * * * * *
38715236 TCAGGGACGCAAGATTCACCGATGTGACTTTAATCTG-TTCCACTGCACTACCAGGGAGGTAAGA
129 TCGGGGA-GCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CACTGCATTGCCAGGGAAGTAAGA
* *
38715300 TTCACTAC
192 TTCGCTGC
* * * * * *
38715308 TGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAAAT-TCATCGTTGTGGCTTTAATCT
1 TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATAT-ACCGTTGTGGTTTTAATCT
* *
38715372 ATTCCACTGCACTGCCTGGGAGATAAGAT
65 ATTCCACTGCATTGCCTGGGAGGTAAGAT
38715401 CTGTAATTCT
Statistics
Matches: 400, Mismatches: 80, Indels: 27
0.79 0.16 0.05
Matches are distributed among these distances:
199 11 0.03
200 315 0.79
201 72 0.18
202 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (199 bp):
TGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATATACCGTTGTGGTTTTAATCTA
TTCCACTGCATTGCCTGGGAGGTAAGATTCGCTACTACAGCTTTAATCTTTTTAACTGCAATGTC
GGGGAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGCATTGCCAGGGAAGTAAGATTCG
CTGC
Found at i:38715366 original size:50 final size:49
Alignment explanation
Indices: 38714706--38715371 Score: 208
Period size: 50 Copynumber: 13.3 Consensus size: 49
38714696 ATTCGTAGCT
* * * *
38714706 TTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCA-CG
* * * * * *
38714756 TTGTGGCTTTAAT-TTGCTCT-ACTACACTAGCTGAGCGAGTG--AGATTCGTCG
1 TTGTGGCTTTAATCTT--TTTAACTGCAAT-G-TCAGGGAG-GCAAGATTC-ACG
* * * * *
38714807 TTGTGACTTTAATCCTTTTATCTGCAATGTC-GAGAAAGCAAGATTCACCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAG-GGAGGCAAGATTCA-CG
** * ** * * * * * *
38714857 TTGTGGCTTTAATCTGCTTCACTGCGTTGCCAGGGAAGTAACACTCGCCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTC-ACG
* * * * * * *
38714907 CTGTGGCTTTAGTCTTTTTAACTACAATTTCGGGGAAGCAAGATATGC-CA
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGAT-T-CACG
* ** ** * * * ** **
38714957 TTGTGGTTTTAATCTACTCCACTGCATTGCCTGGGAGGTTAGATTTGCTG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCAC-G
* * * * * *
38715007 CTATAGCTTTAATCTTTTTAACTGCAATATCGGGGTA-GCAAGATTCACAT
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGG-AGGCAAGATTCAC-G
* * * * * * **
38715057 TTGTGGCTTTAATCTGCTCT-GCTGC-ATCGCCTGGG-GAGTAAGATTTGCTG
1 TTGTGGCTTTAATCT-TTTTAACTGCAAT-GTCAGGGAG-GCAAGATTCAC-G
* * * * *
38715107 TTGTAGCTTTAATCTTTTTAACTGTAATATCGGGGAAGCAAGATTCACCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCA-CG
* * *** * * *
38715157 TTGTGGTTTTAATCTGTTCCGCTGC-ATCGCCTAGGGA-GTAAGATTCGC-
1 TTGTGGCTTTAATCTTTTTAACTGCAAT-GTC-AGGGAGGCAAGATTCACG
** *
38715205 TACTGCAGCTTTAATCTTTTTAACTGCAATGTCAGGGACGCAAGATTCACCG
1 T--TGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCA-CG
* * * ** * ** *
38715257 ATGTGACTTTAATCTGTTCCACTGCACTACCAGGGAGGTAAGATTCAC-
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACG
* *
38715305 TACTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAAATTCATCG
1 T--TGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCA-CG
38715357 TTGTGGCTTTAATCT
1 TTGTGGCTTTAATCT
38715372 ATTCCACTGC
Statistics
Matches: 420, Mismatches: 157, Indels: 78
0.64 0.24 0.12
Matches are distributed among these distances:
48 3 0.01
49 19 0.05
50 346 0.82
51 44 0.10
52 7 0.02
53 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (49 bp):
TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACG
Found at i:38715561 original size:44 final size:44
Alignment explanation
Indices: 38715509--38715875 Score: 167
Period size: 44 Copynumber: 7.9 Consensus size: 44
38715499 ATCCGCTTCA
38715509 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCG
* * * *
38715553 CTATAATCTCAGGGAGAT-GAGATTTCTGGCTTCAATCTGATGCGATCTTCTCTA
1 CTGTAATCTCAGGGAGATAG-GATTACTAGCTTCAATC---T--G--C-TC-C-G
* ** * * * *
38715607 CTGTAA-CTTCAGAGAGATAAAATCCT-TTA-TTTTAATCTGCTCCA
1 CTGTAATC-TCAGGGAGATAGGAT--TACTAGCTTCAATCTGCTCCG
*
38715651 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCG
1 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCG
* * *
38715695 CTGTAATCTCAGGGAGAT-GAGATTTCTGGCTTCAATCTGATGCGATCTACTCTA
1 CTGTAATCTCAGGGAGATAG-GATTACTAGCTTCAATC---T--G--CT-C-C-G
* * * * * * *
38715749 CTCTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAAT-TCGCTCCA
1 CTGTAATC-TCAGGGAGATAGGAT--TACTAGCTTCAATCT-GCTCCG
*
38715793 CTGTAATCTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCG
* * * *
38715837 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTAAATCTG
1 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
38715876 TTTCCTTACA
Statistics
Matches: 243, Mismatches: 43, Indels: 74
0.68 0.12 0.21
Matches are distributed among these distances:
42 2 0.01
43 6 0.02
44 158 0.65
45 5 0.02
46 3 0.01
47 5 0.02
49 4 0.02
50 1 0.00
51 4 0.02
52 3 0.01
53 4 0.02
54 44 0.18
55 2 0.01
56 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCG
Found at i:38715703 original size:142 final size:142
Alignment explanation
Indices: 38715447--38715875 Score: 734
Period size: 142 Copynumber: 3.0 Consensus size: 142
38715437 GAGATAAGAC
* * * *
38715447 CTGATACGATCTACTTTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTTCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
*
38715512 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATGAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATGAGATT
38715577 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
38715589 CTGATGCGATCTTCTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
*
38715654 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATGAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATGAGATT
38715719 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
38715731 CTGATGCGATCTACTCTACTCTAACTTCAGAGAGATAAGATCCTTTATTTTAAT-TCGCTCCACT
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCT-GCTCCACT
* *
38715795 GTAATCTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
65 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATGAGAT
*
38715860 TTCTGGCTTAAAT
130 TTCTGGCTTCAAT
38715873 CTG
1 CTG
38715876 TTTCCTTACA
Statistics
Matches: 271, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 1 0.00
142 270 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATGAGATT
TCTGGCTTCAAT
Found at i:38717209 original size:7 final size:7
Alignment explanation
Indices: 38717199--38717265 Score: 95
Period size: 7 Copynumber: 9.7 Consensus size: 7
38717189 CTATTTTTAC
38717199 TTTTTCA
1 TTTTTCA
38717206 TTTTTTCA
1 -TTTTTCA
38717214 TTTTTCA
1 TTTTTCA
38717221 TTTTTCA
1 TTTTTCA
38717228 -TTTTCA
1 TTTTTCA
38717234 -TTTTCA
1 TTTTTCA
38717240 -TTTTCA
1 TTTTTCA
38717246 TTTTTTCA
1 -TTTTTCA
38717254 TTTTTCA
1 TTTTTCA
38717261 TTTTT
1 TTTTT
38717266 TCTAACTTAG
Statistics
Matches: 57, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.32
7 26 0.46
8 13 0.23
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:38718137 original size:10 final size:10
Alignment explanation
Indices: 38718122--38718163 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
38718112 TCTCTTTTTC
38718122 TTTTTCCTTT
1 TTTTTCCTTT
38718132 TTTTTCCTTT
1 TTTTTCCTTT
38718142 TTTCCTT-CTTT
1 TTT--TTCCTTT
*
38718153 TTTTTCATTT
1 TTTTTCCTTT
38718163 T
1 T
38718164 CATTTTGACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 2 0.07
10 17 0.61
11 7 0.25
12 2 0.07
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCCTTT
Found at i:38729872 original size:28 final size:29
Alignment explanation
Indices: 38729832--38729896 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
38729822 TGCGCTAGAA
*
38729832 AAAGAAAAGATTTTGTAACAAAACTCTG-
1 AAAGGAAAGATTTTGTAACAAAACTCTGC
* ** *
38729860 AAAGGAAATATTTTGTGGCAAAACTTTGC
1 AAAGGAAAGATTTTGTAACAAAACTCTGC
38729889 AAAGGAAA
1 AAAGGAAA
38729897 CTCTTGATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 23 0.74
29 8 0.26
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (29 bp):
AAAGGAAAGATTTTGTAACAAAACTCTGC
Found at i:38729970 original size:57 final size:57
Alignment explanation
Indices: 38729871--38730052 Score: 181
Period size: 57 Copynumber: 3.2 Consensus size: 57
38729861 AAGGAAATAT
* * * * * *
38729871 TTTGTGGCAAAACTTTGCAAAGGAAACTCTTGATAGTAAACCTCCA-AAAGGAAAGCC
1 TTTGTGGAAAAACTCTGCAAAGGAAAATCTT-ATGGCAAACCTCTACAAAGGAAAGCC
* *
38729928 TTTGTGGAAAAACTCTGCAAAGGAAAATCTCTATGGCGAACCTCTACAGAGG-AAGCC
1 TTTGTGGAAAAACTCTGCAAAGGAAAATCT-TATGGCAAACCTCTACAAAGGAAAGCC
** * ** *
38729985 TTTGTGGCGAACCTCTGC-AAGGAAAGCCTTTATGGCAAACCTCTACAAAGGAAAACC
1 TTTGTGGAAAAACTCTGCAAAGGAAAATC-TTATGGCAAACCTCTACAAAGGAAAGCC
38730042 TTTGTAGGAAA
1 TTTGT-GGAAA
38730053 CCTTTATAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
56 27 0.26
57 67 0.66
58 8 0.08
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (57 bp):
TTTGTGGAAAAACTCTGCAAAGGAAAATCTTATGGCAAACCTCTACAAAGGAAAGCC
Found at i:38729997 original size:28 final size:29
Alignment explanation
Indices: 38729908--38730099 Score: 178
Period size: 28 Copynumber: 6.8 Consensus size: 29
38729898 TCTTGATAGT
* *
38729908 AAACCTCCA-AAAGGAAAGCCTTTGTGGA
1 AAACCTCTACAAAGGAAAGCCTTTGTGGC
* * ** * *
38729936 AAAACTCTGCAAAGGAAAATCTCTATGGC
1 AAACCTCTACAAAGGAAAGCCTTTGTGGC
* *
38729965 GAACCTCTACAGAGG-AAGCCTTTGTGGC
1 AAACCTCTACAAAGGAAAGCCTTTGTGGC
* * *
38729993 GAACCTCTGC-AAGGAAAGCCTTTATGGC
1 AAACCTCTACAAAGGAAAGCCTTTGTGGC
*
38730021 AAACCTCTACAAAGGAAAACCTTTGTAGG-
1 AAACCTCTACAAAGGAAAGCCTTTGT-GGC
* *
38730050 AAACCTTTATAAAGGAAAGCCTTTGTGGC
1 AAACCTCTACAAAGGAAAGCCTTTGTGGC
* *
38730079 -AACCTCTAAAAAAGAAAGCCT
1 AAACCTCTACAAAGGAAAGCCT
38730100 CATGGCAATA
Statistics
Matches: 130, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
27 3 0.02
28 64 0.49
29 61 0.47
30 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (29 bp):
AAACCTCTACAAAGGAAAGCCTTTGTGGC
Found at i:38730055 original size:85 final size:85
Alignment explanation
Indices: 38729918--38730085 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
38729908 AAACCTCCAA
* * * * *
38729918 AAGGAAAGCCTTTGTGGAAAAACTCTGCAAAGGAAAATCTCTATGGCGAACCTCTACAGAGG-AA
1 AAGGAAAGCCTTTATGGAAAAACTCTACAAAGGAAAACCTCTATGGCAAACCTCTACAAAGGAAA
38729982 GCCTTTGTGGCGAACCTCTGC
66 GCCTTTGTGGC-AACCTCTGC
* * * * * *
38730003 AAGGAAAGCCTTTATGGCAAACCTCTACAAAGGAAAACCTTTGTAGG-AAACCTTTATAAAGGAA
1 AAGGAAAGCCTTTATGGAAAAACTCTACAAAGGAAAACCTCTAT-GGCAAACCTCTACAAAGGAA
38730067 AGCCTTTGTGGCAACCTCT
65 AGCCTTTGTGGCAACCTCT
38730086 AAAAAAGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 55 0.79
86 15 0.21
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (85 bp):
AAGGAAAGCCTTTATGGAAAAACTCTACAAAGGAAAACCTCTATGGCAAACCTCTACAAAGGAAA
GCCTTTGTGGCAACCTCTGC
Found at i:38738940 original size:9 final size:9
Alignment explanation
Indices: 38738926--38738956 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38738916 GTTAAACGAA
38738926 TCGAGTTAT
1 TCGAGTTAT
*
38738935 TCGAGTTAA
1 TCGAGTTAT
38738944 TCGAGTTAT
1 TCGAGTTAT
38738953 TCGA
1 TCGA
38738957 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:38739582 original size:17 final size:17
Alignment explanation
Indices: 38739562--38739608 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
38739552 CACATTTTAT
38739562 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
38739579 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
38739597 A-TATTTATATTA
1 ATTATTTATATTA
38739609 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:38745877 original size:127 final size:125
Alignment explanation
Indices: 38745596--38746165 Score: 865
Period size: 127 Copynumber: 4.5 Consensus size: 125
38745586 GATAAAATCA
* * * * * * *
38745596 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTTGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
38745661 AGGT-TGTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAATGCTTC
66 AGGTAT-TGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
*
38745721 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCCCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
38745786 TGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTTTTAAAAAACGCTTC
66 AGGTATTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TTTAAAAAACGCTTC
*
38745848 AAGCAGGATGCTTTATGAGAAGGATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
38745913 TGGTATTGGAAGAAATAATTTCGAGTTTACGATTCTGAGTAAATAGTTTTAAAAAACGCTTC
66 AGGTATTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TTTAAAAAACGCTTC
38745975 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
38746040 AGGTATTGGAAAAATAATTTCGACTTGACGTTCCTGAGCAAATAGTAT-AAAATCGCTTC
66 AGGTATTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* *
38746099 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
38746164 AG
66 AG
38746166 CATGTTTGGG
Statistics
Matches: 414, Mismatches: 28, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
124 75 0.18
125 67 0.16
126 63 0.15
127 209 0.50
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTATTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:38747238 original size:22 final size:22
Alignment explanation
Indices: 38747212--38747694 Score: 547
Period size: 22 Copynumber: 22.3 Consensus size: 22
38747202 CCAATAAGGA
*
38747212 TAGGGTTTTTAATTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747234 TAGGGTTTTTAAGTTAAAGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
38747256 TAGGGTTTTTAAGTTAAAGGG-T
1 TAGGGTTTTTAAGTT-AAGGGTT
38747278 TAGGGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
* ** * *
38747300 TATGGTTTAAAATTTAAAGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747322 TAGGGTTTTTAATTTAAGGG-T
1 TAGGGTTTTTAAGTTAAGGGTT
* *
38747343 TACGGTTTTTAAGTTAAAGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
* *
38747365 TAGGGTTTTAAAGTTAAGAG-T
1 TAGGGTTTTTAAGTTAAGGGTT
* *
38747386 TAGGATTTTTAAGTTAAGAGTT
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747408 TAGGG-TTTTAATTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
* *
38747429 TAGAGTTTTAAAGTTTTAA-GGTT
1 TAGGGTTTTTAAG--TTAAGGGTT
* **
38747452 TAGGGTTTTTAATTTAAGATTT
1 TAGGGTTTTTAAGTTAAGGGTT
* * *
38747474 TAAGATTTTTAAGTTAAGTG-T
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747495 TAGGG-TTTTAATTTAAGGG-T
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747515 TAGGATTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
* *
38747537 TATGGTTTTTAATTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747559 TAGGGTTTTTAGGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747581 TAGAGTTTTTAAGTTAAGGG-T
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747602 TAGGGTTTTTAGGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747624 TATGGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAGGGTT
* * *
38747646 TAAGGTTTTGAATTTAAGGG-T
1 TAGGGTTTTTAAGTTAAGGGTT
*
38747667 TAAGGTTTTTAAGTTAAGGG-T
1 TAGGGTTTTTAAGTTAAGGGTT
38747688 TAGGGTT
1 TAGGGTT
38747695 AGGGTTAGGG
Statistics
Matches: 389, Mismatches: 61, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.04
21 126 0.32
22 224 0.58
23 18 0.05
24 4 0.01
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (22 bp):
TAGGGTTTTTAAGTTAAGGGTT
Found at i:38747364 original size:43 final size:43
Alignment explanation
Indices: 38747212--38747694 Score: 492
Period size: 43 Copynumber: 11.2 Consensus size: 43
38747202 CCAATAAGGA
* * * *
38747212 TAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTT
1 TAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAA-TTTAAGGGT
* *
38747256 TAGGGTTTTTAAGTTAAAGGGTTAGGGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTTAAGGG-T
* ** *
38747300 TATGGTTTAAAATTTAAAGGTTTAGGGTTTTTAATTTAAGGGT
1 TAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTTAAGGGT
* * * *
38747343 TACGGTTTTTAAGTTAAAGGTTTAGGGTTTTAAAGTTAAGAGT
1 TAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTTAAGGGT
*
38747386 TAGGATTTTTAAGTT-AAGAGTTTAGGG-TTTTAATTTAAGGGTT
1 TAGGGTTTTTAAGTTAAAG-GTTTAGGGTTTTTAATTTAAGGG-T
* * * **
38747429 TAGAGTTTTAAAGTTTTAAGGTTTAGGGTTTTTAATTTAAGATTT
1 TAGGGTTTTTAAG-TTAAAGGTTTAGGGTTTTTAATTTAAG-GGT
* *
38747474 TAAGATTTTTAAGTT-AA-GTGTTAGGG-TTTTAATTTAAGGGT
1 TAGGGTTTTTAAGTTAAAGGT-TTAGGGTTTTTAATTTAAGGGT
* * *
38747515 TAGGATTTTTAAGTTAAGGGTTTATGGTTTTTAATTTAAGGGTT
1 TAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTTAAGGG-T
* * * *
38747559 TAGGGTTTTTAGGTTAAGGGTTTAGAGTTTTTAAGTTAAGGGT
1 TAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTTAAGGGT
* * * *
38747602 TAGGGTTTTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTT
1 TAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTTAAGGG-T
* * * * * *
38747646 TAAGGTTTTGAA-TTTAAGGGTTAAGGTTTTTAAGTTAAGGGT
1 TAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTTAAGGGT
38747688 TAGGGTT
1 TAGGGTT
38747695 AGGGTTAGGG
Statistics
Matches: 373, Mismatches: 53, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
41 15 0.04
42 41 0.11
43 164 0.44
44 128 0.34
45 25 0.07
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (43 bp):
TAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTTAAGGGT
Found at i:38747379 original size:87 final size:86
Alignment explanation
Indices: 38747215--38747694 Score: 538
Period size: 87 Copynumber: 5.5 Consensus size: 86
38747205 ATAAGGATAG
* * * *
38747215 GGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAAGGGTTA
1 GGTTTTTAAGTTAA-GGTTTAGGGTTTTTAA-TTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTTA
*
38747280 GGGTTTTTAAGTTAAGGGTTTAT
64 GGGTTTTTAAGTTAAGGGTTTAA
** * *
38747303 GGTTTAAAATTTAAAGGTTTAGGGTTTTTAATTTAAGGGTTACGGTTTTTAAGTTAAAGGTTTAG
1 GGTTTTTAAGTT-AAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTTAG
* *
38747368 GGTTTTAAAGTTAAGAG-TT-A
65 GGTTTTTAAGTTAAGGGTTTAA
* * *
38747388 GGATTTTTAAGTTAAGAGTTTAGGG-TTTTAATTTAAGGGTTTAGAGTTTTAAAGTTTTAAGGTT
1 GG-TTTTTAAGTTAAG-GTTTAGGGTTTTTAATTTAAGGG-TTAGGGTTTTTAAG-TTAAAGGTT
* **
38747452 TAGGGTTTTTAATTTAAGATTTTAA
62 TAGGGTTTTTAAGTTAAGGGTTTAA
* * * *
38747477 GATTTTTAAGTTAA-GTGTTAGGG-TTTTAATTTAAGGGTTAGGATTTTTAAGTTAAGGGTTTAT
1 GGTTTTTAAGTTAAGGT-TTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTTAG
* *
38747540 GGTTTTTAATTTAAGGGTTTAG
65 GGTTTTTAAGTTAAGGGTTTAA
* * * * * *
38747562 GGTTTTTAGGTTAAGGGTTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAT
1 GGTTTTTAAGTTAA-GGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTTAG
38747627 GGTTTTTAAGTTAAGGGTTTAA
65 GGTTTTTAAGTTAAGGGTTTAA
* * * * *
38747649 GGTTTTGAATTTAAGGGTTAAGGTTTTTAAGTTAAGGGTTAGGGTT
1 GGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTT
38747695 AGGGTTAGGG
Statistics
Matches: 338, Mismatches: 43, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
85 59 0.17
86 75 0.22
87 160 0.47
88 40 0.12
89 4 0.01
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.46
Consensus pattern (86 bp):
GGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTTAGG
GTTTTTAAGTTAAGGGTTTAA
Done.