Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 300 of 425
Found at i:93331438 original size:42 final size:43
Alignment explanation
Indices: 93331327--93331483 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
93331317 AGCTCTTACA
* *
93331327 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
** * *
93331370 ATGCCTCTGTCCCAGACAG-GGCCTTACATGAAATCAGATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGAAATCAAATATCG
* * *
93331412 AT-CCAAATGTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCA
1 ATGCC-AATGTCCCAGACGTGGTCTTACATG-AAATCA-AATATCG
* * * *
93331456 ATGCCAACGTTCCAGACATAGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
93331484 CGATAGCACA
Statistics
Matches: 90, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
41 3 0.03
42 23 0.26
43 38 0.42
44 24 0.27
45 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
Found at i:93338570 original size:42 final size:41
Alignment explanation
Indices: 93338453--93338570 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 41
93338443 ATACCAATGT
*
93338453 CATATACCAGATATGGTCTTACATGGGAA-CTCATATCGATGC
1 CATATCCCAGATATGGTCTTACAT--GAATCTCATATCGATGC
* * * *
93338495 CAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCGATTC
1 C-ATATCCCAGATATGGTCTTACATGAA-TCTCATATCGATGC
93338538 CATATCCCAGATATGGTCTTACATGTAATCTCA
1 CATATCCCAGATATGGTCTTACATG-AATCTCA
93338571 AATAAACCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.05
42 27 0.42
43 34 0.53
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACATGAATCTCATATCGATGC
Found at i:93341778 original size:48 final size:46
Alignment explanation
Indices: 93341682--93341778 Score: 140
Period size: 48 Copynumber: 2.1 Consensus size: 46
93341672 ACAGGACAAA
* *
93341682 AATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCAGATATATGGCATTGGAGACAGG
* *
93341728 AATGAGCCATGTAAGCCCATAATATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCAT-AT-CAGATATATGGCATTGGAGACAGG
93341776 AAT
1 AAT
93341779 AATTCATGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 19 0.42
47 2 0.04
48 24 0.53
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (46 bp):
AATGAGCCATGTAAGCCCATATCAGATATATGGCATTGGAGACAGG
Found at i:93343102 original size:43 final size:44
Alignment explanation
Indices: 93343037--93343122 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 44
93343027 GGGCGTGGGG
*
93343037 GCATTACAGATTACATGTAAGACCATGTCTGGGACATTGGCATT
1 GCATTACAGATTACATGCAAGACCATGTCTGGGACATTGGCATT
**
93343081 GCATT-CAGATTATGTGCAAGACCATGTCTGGGACATTGGCAT
1 GCATTACAGATTACATGCAAGACCATGTCTGGGACATTGGCAT
93343123 CGTTAATCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 34 0.87
44 5 0.13
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
GCATTACAGATTACATGCAAGACCATGTCTGGGACATTGGCATT
Found at i:93346375 original size:13 final size:13
Alignment explanation
Indices: 93346357--93346381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93346347 GGTTTGTTTA
93346357 TTAAACTAATTAT
1 TTAAACTAATTAT
93346370 TTAAACTAATTA
1 TTAAACTAATTA
93346382 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:93349784 original size:40 final size:40
Alignment explanation
Indices: 93349739--93349906 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
93349729 CGGAATATAA
93349739 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
93349779 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
93349819 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
93349859 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
93349899 CCGGATAT
1 CCGGATAT
93349907 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:93352169 original size:40 final size:40
Alignment explanation
Indices: 93352114--93352193 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
93352104 AAAGTTAGGT
93352114 TTCATGTTCATCCCCCACACTTAAGATGTACATTGCCCTC
1 TTCATGTTCATCCCCCACACTTAAGATGTACATTGCCCTC
93352154 TTCATGTTCATCCCCCACACTTAAGATGTACATTGCCCTC
1 TTCATGTTCATCCCCCACACTTAAGATGTACATTGCCCTC
93352194 AATGTACAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.35, G:0.10, T:0.33
Consensus pattern (40 bp):
TTCATGTTCATCCCCCACACTTAAGATGTACATTGCCCTC
Found at i:93352566 original size:17 final size:17
Alignment explanation
Indices: 93352544--93352603 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
93352534 TATGTCTTTC
* *
93352544 AAAATAAAATTGAAATG
1 AAAATAAAAATAAAATG
93352561 AAAATAAAAATCAAAA-G
1 AAAATAAAAAT-AAAATG
93352578 AAAAATAAAAATAAAAT-
1 -AAAATAAAAATAAAATG
93352595 AAAATAAAA
1 AAAATAAAA
93352604 CTACATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.24
17 15 0.39
18 14 0.37
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAATAAAAATAAAATG
Found at i:93352571 original size:12 final size:11
Alignment explanation
Indices: 93352544--93352603 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
93352534 TATGTCTTTC
*
93352544 AAAATAAAATT
1 AAAATAAAATA
*
93352555 GAAATGAAAATA
1 AAAAT-AAAATA
*
93352567 AAAATCAAAAGA
1 AAAAT-AAAATA
93352579 AAAATAAAA-A
1 AAAATAAAATA
93352589 TAAAATAAAATA
1 -AAAATAAAATA
93352601 AAA
1 AAA
93352604 CTACATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
10 1 0.02
11 20 0.49
12 20 0.49
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:93354162 original size:21 final size:23
Alignment explanation
Indices: 93354122--93354163 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
93354112 AGCCAAAGGC
93354122 TGTTGAATGGCAACGCACGGGCG
1 TGTTGAATGGCAACGCACGGGCG
*
93354145 TGTTG-ATGTCAA-GCACGGG
1 TGTTGAATGGCAACGCACGGG
93354164 TATGTGATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (23 bp):
TGTTGAATGGCAACGCACGGGCG
Found at i:93357993 original size:13 final size:13
Alignment explanation
Indices: 93357975--93357999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93357965 GGTTTGTTTA
93357975 TTAAACTAATTAT
1 TTAAACTAATTAT
93357988 TTAAACTAATTA
1 TTAAACTAATTA
93358000 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:93365584 original size:21 final size:21
Alignment explanation
Indices: 93365545--93365584 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
93365535 AATGCTTGAG
* *
93365545 ATTTTGAATGATTGTTGATGA
1 ATTTTGAAAGATTGATGATGA
*
93365566 ATTTTGAAAGCTTGATGAT
1 ATTTTGAAAGATTGATGAT
93365585 AGATATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (21 bp):
ATTTTGAAAGATTGATGATGA
Found at i:93368894 original size:23 final size:21
Alignment explanation
Indices: 93368863--93368905 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
93368853 CTACCTCAGT
93368863 AAGAAATTCACTGAATGTGAGAC
1 AAGAAATTCACT-AAT-TGAGAC
*
93368886 AAGATATTCACTAATTGAGA
1 AAGAAATTCACTAATTGAGA
93368906 AGCTGTGCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.26
Consensus pattern (21 bp):
AAGAAATTCACTAATTGAGAC
Found at i:93377008 original size:13 final size:13
Alignment explanation
Indices: 93376990--93377020 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
93376980 GCATGTCCTA
93376990 GTGTCACACGGGC
1 GTGTCACACGGGC
*
93377003 GTGTCACACGTGC
1 GTGTCACACGGGC
93377016 GTGTC
1 GTGTC
93377021 CCTTGGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.35, T:0.23
Consensus pattern (13 bp):
GTGTCACACGGGC
Found at i:93378171 original size:44 final size:44
Alignment explanation
Indices: 93378026--93378376 Score: 264
Period size: 44 Copynumber: 7.8 Consensus size: 44
93378016 AGTGAGTCTC
* *
93378026 ATCTCCCTGAAGTTGCAGTGGAGTAGACT-AAGCTACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* ** * * *
93378069 ATCTCCTTGAAGTCACAGTGGAGCAGATTGAAGATAGCGAATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATCTT
93378114 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* * *
93378158 ATCTCCCTAAAGTTGTAGTGAAGCAGATTGAAGCTACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* * * * * *
93378202 ATCTCCCTGAATTTG-AGGTAGAGTAGATTGAA-ATGATAAATCCT
1 ATCTCCCTGAAGTTGCA-GTGGAGCAGATTGAAGCT-ACAAATCTT
* * * * *
93378246 ATAC-CTCTGAAGTTGCAGTGG-GTCGGATT-ACATCAATCATAGCGAGTCTC
1 AT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGA-AGCTA-CA-A---A-TCTT
* * * * * *
93378296 GTGTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTACGAATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
* * * *
93378340 ATCTCCCTGAAGTTGCAGTAGAGTACATTGAAACTAC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC
93378377 CCCTGAAGTT
Statistics
Matches: 238, Mismatches: 52, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
43 28 0.12
44 137 0.58
45 42 0.18
46 1 0.00
48 1 0.00
49 2 0.01
50 26 0.11
51 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTT
Found at i:93383474 original size:27 final size:27
Alignment explanation
Indices: 93383444--93383529 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
93383434 TCAACAAATG
*
93383444 TTCATGTTCAATCAATATCAACTTATT
1 TTCATGTTCAATCATTATCAACTTATT
* * ** *
93383471 TTCAT-TTTAAGCATTATTCAACAAATG
1 TTCATGTTCAATCATTA-TCAACTTATT
93383498 TTCATGTTCAATCATTATCAACTTATT
1 TTCATGTTCAATCATTATCAACTTATT
93383525 TTCAT
1 TTCAT
93383530 TTTAAGCATT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 8 0.17
27 29 0.63
28 9 0.20
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (27 bp):
TTCATGTTCAATCATTATCAACTTATT
Found at i:93383517 original size:54 final size:55
Alignment explanation
Indices: 93383430--93383544 Score: 214
Period size: 54 Copynumber: 2.1 Consensus size: 55
93383420 TAATCTCTAC
93383430 TTATTCAACAAATGTTCATGTTCAATCAATATCAACTTATTTTCATTTTAAGCA-
1 TTATTCAACAAATGTTCATGTTCAATCAATATCAACTTATTTTCATTTTAAGCAT
*
93383484 TTATTCAACAAATGTTCATGTTCAATCATTATCAACTTATTTTCATTTTAAGCAT
1 TTATTCAACAAATGTTCATGTTCAATCAATATCAACTTATTTTCATTTTAAGCAT
93383539 TTATTC
1 TTATTC
93383545 CATGGCCATG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 53 0.90
55 6 0.10
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (55 bp):
TTATTCAACAAATGTTCATGTTCAATCAATATCAACTTATTTTCATTTTAAGCAT
Found at i:93383542 original size:27 final size:26
Alignment explanation
Indices: 93383459--93383539 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
93383449 GTTCAATCAA
93383459 TATCAACTTATTTTCATTTTAAGCAT
1 TATCAACTTATTTTCATTTTAAGCAT
** * * *
93383485 TATTCAACAAATGTTCATGTTCAATCAT
1 TA-TCAACTTATTTTCAT-TTTAAGCAT
93383513 TATCAACTTATTTTCATTTTAAGCAT
1 TATCAACTTATTTTCATTTTAAGCAT
93383539 T
1 T
93383540 TATTCCATGG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 10 0.23
27 24 0.56
28 9 0.21
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (26 bp):
TATCAACTTATTTTCATTTTAAGCAT
Found at i:93384151 original size:15 final size:16
Alignment explanation
Indices: 93384131--93384169 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
93384121 AATAATCGTT
93384131 TCATCAT-ATATATAG
1 TCATCATAATATATAG
*
93384146 TCATCATAAATATATAT
1 TCATCAT-AATATATAG
93384163 TCATCAT
1 TCATCAT
93384170 CATGATGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
17 14 0.67
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (16 bp):
TCATCATAATATATAG
Found at i:93384453 original size:2 final size:2
Alignment explanation
Indices: 93384446--93384479 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
93384436 ATGTCTTGTG
93384446 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93384480 AATTTTATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93387121 original size:83 final size:83
Alignment explanation
Indices: 93386983--93387184 Score: 291
Period size: 83 Copynumber: 2.4 Consensus size: 83
93386973 TTTTTTTCTT
* * *
93386983 TTATATTAAACATGACAAGGTTGGTGCTATATTAATCAATTTTGATTAGCTTTTCAATGGTCC-A
1 TTATATTAAACATGACAAGGTTAGTGTTATATTAATCAATTTTGATTAGATTTTCAATGGTCCAA
*
93387047 ACTTTAACCTCATTTTCCA
66 AC-TCAACCTCATTTTCCA
* *
93387066 TTTTATTAAACATGACAAGGTTACTGTTATATTAATCAATTTTGATTA-ATGTTTCAATGGTCCA
1 TTATATTAAACATGACAAGGTTAGTGTTATATTAATCAATTTTGATTAGAT-TTTCAATGGTCCA
93387130 AACTCAACCTCATTTTCCA
65 AACTCAACCTCATTTTCCA
* * *
93387149 TTATGTCAAACATGACAAGATTAGTGTTATATTAAT
1 TTATATTAAACATGACAAGGTTAGTGTTATATTAAT
93387185 TAACATCAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
82 1 0.01
83 102 0.96
84 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (83 bp):
TTATATTAAACATGACAAGGTTAGTGTTATATTAATCAATTTTGATTAGATTTTCAATGGTCCAA
ACTCAACCTCATTTTCCA
Found at i:93391273 original size:2 final size:2
Alignment explanation
Indices: 93391266--93391306 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
93391256 AGTGCAGTAC
93391266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93391307 TGAGACATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93392178 original size:18 final size:17
Alignment explanation
Indices: 93392145--93392179 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
93392135 TAAATAAGAT
*
93392145 ATTAAAAAATATAAAAC
1 ATTAAAAAAAATAAAAC
93392162 ATTAAAAAAAATCAAAAC
1 ATTAAAAAAAAT-AAAAC
93392180 CCAAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (17 bp):
ATTAAAAAAAATAAAAC
Found at i:93402491 original size:29 final size:28
Alignment explanation
Indices: 93402436--93402491 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
93402426 TCAGGTTTTT
* *
93402436 GGACACGGGTGTGTCTAGGCCGTGTGAG
1 GGACACGGGTATGTATAGGCCGTGTGAG
*
93402464 GGACACGGGTATGTGATTGGCCGTGTGA
1 GGACACGGGTATGT-ATAGGCCGTGTGA
93402492 AAACCCCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.16, C:0.16, G:0.45, T:0.23
Consensus pattern (28 bp):
GGACACGGGTATGTATAGGCCGTGTGAG
Found at i:93405811 original size:16 final size:16
Alignment explanation
Indices: 93405790--93405822 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
93405780 TGTCATGTGA
93405790 TAAGTAATTGTTGAAG
1 TAAGTAATTGTTGAAG
*
93405806 TAAGTACTTGTTGAAG
1 TAAGTAATTGTTGAAG
93405822 T
1 T
93405823 GGTTGAGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.39
Consensus pattern (16 bp):
TAAGTAATTGTTGAAG
Found at i:93407314 original size:9 final size:9
Alignment explanation
Indices: 93407300--93407332 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
93407290 AATTAAGTTG
93407300 ACTCGAATA
1 ACTCGAATA
*
93407309 ACTCGATTA
1 ACTCGAATA
93407318 ACTCGAATA
1 ACTCGAATA
93407327 ACTCGA
1 ACTCGA
93407333 TTCATTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:93407323 original size:18 final size:18
Alignment explanation
Indices: 93407300--93407334 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
93407290 AATTAAGTTG
93407300 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
93407318 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
93407335 CATTTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:93407449 original size:31 final size:31
Alignment explanation
Indices: 93407411--93407476 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
93407401 TTTGGGACAT
* *
93407411 GCCCGTGTGGGCAGGGCGTGTGGTCACACAC
1 GCCCGTGTGGGCAAGGCGTGCGGTCACACAC
93407442 GCCCGTGTGGGCAAGGCGTGCGGTCACACAC
1 GCCCGTGTGGGCAAGGCGTGCGGTCACACAC
93407473 GCCC
1 GCCC
93407477 ATGTCCCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.14, C:0.33, G:0.39, T:0.14
Consensus pattern (31 bp):
GCCCGTGTGGGCAAGGCGTGCGGTCACACAC
Found at i:93413794 original size:94 final size:93
Alignment explanation
Indices: 93413596--93413813 Score: 244
Period size: 94 Copynumber: 2.3 Consensus size: 93
93413586 TCACTTGTGT
* *
93413596 GAGCTAGTGTAAGACATGTCTGGGACATACATCGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGAT-AGAGCCAGTGTAAGACCATG
* * *
93413661 TCTGGGACCTAGCATCGGCATGGAGACGA
65 TCTGGGACATAGCATCGACATAGAGACGA
* * * * *
93413690 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GAT-GTGTCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATAGAGCCAGTGTAAGACCATG
* * *
93413753 TCTGGGACATAGCATTGACATAGATATGCTA
65 TCTGGGACATAGCATCGACATAGAGA--CGA
93413784 GAGCCT-GTGTAAGACCATGTCTGGGACATG
1 GAG-CTAGTGTAAGA-CATGTCTGGGACATG
93413814 GCACCGACAC
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
92 38 0.37
94 49 0.47
95 17 0.16
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAGAGCCAGTGTAAGACCATGT
CTGGGACATAGCATCGACATAGAGACGA
Found at i:93415175 original size:27 final size:27
Alignment explanation
Indices: 93415129--93415268 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
93415119 AACCACTACA
93415129 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
93415156 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
93415183 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
* * *
93415210 CA-GAGGACAGATATATGTGGCAGAAC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
93415236 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
93415263 CACCAG
1 CACCAG
93415269 GACGCTTCCT
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
26 29 0.30
27 67 0.70
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:93415225 original size:53 final size:54
Alignment explanation
Indices: 93415129--93415268 Score: 221
Period size: 53 Copynumber: 2.6 Consensus size: 54
93415119 AACCACTACA
* *
93415129 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAAC
* *
93415183 CACCAGATCAGATAATTGTGGCATAGCCA-GAGGACAGATATATGTGGCAGAAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAAC
93415236 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
93415269 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
53 55 0.70
54 24 0.30
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAAC
Found at i:93416881 original size:26 final size:26
Alignment explanation
Indices: 93416850--93416957 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
93416840 TGAAATGCCC
93416850 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
93416876 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
93416902 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
93416928 ATCATGGAACATTTACCT-AACCAATT
1 ATCATGGAACATTTACCTAAACC-ATT
93416954 ATCA
1 ATCA
93416958 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:93425893 original size:30 final size:30
Alignment explanation
Indices: 93425859--93425918 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
93425849 TAATGTGTAA
*
93425859 TATCCCAAATTAGGGCTTAATCGGAATAGT
1 TATCCCAAATTAGGGCCTAATCGGAATAGT
*
93425889 TATCCCGAATTAGGGCCTAATCGGAATAGT
1 TATCCCAAATTAGGGCCTAATCGGAATAGT
93425919 GGTTTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (30 bp):
TATCCCAAATTAGGGCCTAATCGGAATAGT
Found at i:93437473 original size:24 final size:23
Alignment explanation
Indices: 93437427--93437488 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
93437417 ACTATATAAA
*
93437427 AAATTAAAA-AATAT-TAAATTT
1 AAATTAAAATAATATAAAAATTT
*
93437448 AAATTTAAATAATATAAAAATATT
1 AAATTAAAATAATATAAAAAT-TT
93437472 AAATTAAAATAATATAA
1 AAATTAAAATAATATAA
93437489 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.23
22 5 0.14
23 4 0.11
24 18 0.51
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATTAAAATAATATAAAAATTT
Found at i:93437689 original size:2 final size:2
Alignment explanation
Indices: 93437684--93437708 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93437674 GAAAAAAGTT
93437684 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
93437709 GTTTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93440703 original size:17 final size:18
Alignment explanation
Indices: 93440661--93440706 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
93440651 TATCATTTAC
**
93440661 CATTTATCAAGCATTATT
1 CATTTATCGGGCATTATT
*
93440679 -ATTGATCGGGCATT-TT
1 CATTTATCGGGCATTATT
93440695 CATTTATCGGGC
1 CATTTATCGGGC
93440707 TATAACGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (18 bp):
CATTTATCGGGCATTATT
Found at i:93442338 original size:102 final size:102
Alignment explanation
Indices: 93441876--93442498 Score: 733
Period size: 102 Copynumber: 6.0 Consensus size: 102
93441866 AATTTTTTTT
* * *
93441876 ATTTTTTTAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTCTGTG
1 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
* *
93441941 TTTAGCTTAGTG-TT-TTGTGATTTTTTATTAATGTA
66 TTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTA
** * *
93441976 ATTTTTTTTAATTA-TTTAATAGTTATTTTGTTTGTAATTCATGATTAGGTTATAAATTGTTTGT
1 ATTTTTTAAAATTATTTTAA-AGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGT
*
93442040 GTTTAGTTTAGTG-TT-TTGTGATTTTTTATGAATCTA
65 GTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTA
* * * *
93442076 ATTTTTTTTATTTTTTTAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAAT
1 A--TTTTTTA------AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAAT
*
93442141 TGTTTGTGTTTAGTTTAGTGTTTACTGTGATTTTTTTATGAATGTAA
58 TGTTTGTGTTTAGTTTAGTGTTTATTGTGA-TTTTTTATGAATGT-A
* ** *
93442188 ATTTTTT-TAATTATTTTAAAGTTATTTTGTTAGTAATTTATGGCTAGGTTATAAATTTTTTGTG
1 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
*
93442252 TTTAGTTTAGTGTTTATTATGATTTTTTATGAATGTA
66 TTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTA
* *
93442289 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGTA
1 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
* * * *
93442354 TTTAGTTTACTTTTTATTGTGACTTTTTATAAATGTAA
66 TTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGT-A
** * *
93442392 ATTTTAAAAAAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGATTATAAATT-ATT
1 ATTTT---TTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTT
** * * *
93442456 -TGTTTAGTTTAACGTGTAATGTGATTTGTTAT-AATGTA
63 GTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTA
93442494 ATTTT
1 ATTTT
93442499 ATTTGTTTTT
Statistics
Matches: 460, Mismatches: 44, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
99 4 0.01
100 88 0.19
101 8 0.02
102 110 0.24
103 84 0.18
104 24 0.05
105 2 0.00
106 49 0.11
108 58 0.13
109 7 0.02
110 11 0.02
111 13 0.03
112 2 0.00
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (102 bp):
ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
TTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTA
Found at i:93442448 original size:311 final size:308
Alignment explanation
Indices: 93441876--93442466 Score: 812
Period size: 311 Copynumber: 1.9 Consensus size: 308
93441866 AATTTTTTTT
* *
93441876 ATTTTTTTAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTCTGTG
1 ATTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGACTAGGTTATAAATTGTCTGTG
* * **
93441941 TTTAGCTTAGTGTTTTGTGATTTTTTATTAATGTAATTTTTTTTAATTATTTAATAGTTATTTTG
66 TTTAGCTTAGTGTTTTATGATTTTTTATGAATGTAATTTTTTAAAATTATTTAATAGTTATTTTG
* * * *
93442006 TTTGTAATTCATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGA
131 TTAGTAATTCATGATTAGGTTATAAATTGTTTGTATTTAGTTTAGTGTTTTGTGACTTTTTATAA
* ****** *
93442071 ATCTAATTTTTTTTATTTTTTTAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTA
196 ATCTAA--TATTTTATAAAAAAAATTATTTTAAAGTCATTTTGTTAGTAATTTATGATTAGATTA
*
93442136 TAAATTGTTTGTGTTTAGTTTAGTGTTTACTGTGATTTTTTTATGAATGTAA
259 TAAATT-ATT-TGTTTAGTTTAGTGTTTACTGTGATTTTTTTATGAATGTAA
* * *
93442188 ATTTTTTT-AATTATTTTAAAGTTATTTTGTTAGTAATTTATGGCTAGGTTATAAATTTTTTGTG
1 ATTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGACTAGGTTATAAATTGTCTGTG
*
93442252 TTTAGTTTAGTGTTTATTATGATTTTTTATGAATGTAATTTTTTAAAATTATTTTAA-AGTTATT
66 TTTAGCTTAGTG-TT-TTATGATTTTTTATGAATGTAATTTTTTAAAATTA-TTTAATAGTTATT
* * * *
93442316 TTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGTATTTAGTTTACTTTTTATTGTGACTTTT
128 TTGTTAGTAATTCATGATTAGGTTATAAATTGTTTGTATTTAGTTTA-GTGTT-TTGTGACTTTT
* *
93442381 TATAAATGTAA-ATTTTA-AAAAAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGA
191 TATAAATCTAATATTTTATAAAAAAAATTATTTTAAAGTCATTTTGTTAGTAATTTATGATTAGA
93442444 TTATAAATTATTTGTTTAGTTTA
256 TTATAAATTATTTGTTTAGTTTA
93442467 ACGTGTAATG
Statistics
Matches: 245, Mismatches: 29, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
309 11 0.04
310 2 0.01
311 109 0.44
312 15 0.06
313 81 0.33
314 8 0.03
315 19 0.08
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (308 bp):
ATTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGACTAGGTTATAAATTGTCTGTG
TTTAGCTTAGTGTTTTATGATTTTTTATGAATGTAATTTTTTAAAATTATTTAATAGTTATTTTG
TTAGTAATTCATGATTAGGTTATAAATTGTTTGTATTTAGTTTAGTGTTTTGTGACTTTTTATAA
ATCTAATATTTTATAAAAAAAATTATTTTAAAGTCATTTTGTTAGTAATTTATGATTAGATTATA
AATTATTTGTTTAGTTTAGTGTTTACTGTGATTTTTTTATGAATGTAA
Found at i:93442494 original size:205 final size:204
Alignment explanation
Indices: 93441878--93442498 Score: 634
Period size: 208 Copynumber: 3.0 Consensus size: 204
93441868 TTTTTTTTAT
* * * * * *
93441878 TTTTTTAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTCTGTGTT
1 TTTTTTAAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATTGTTTGTATT
* * * * ***
93441943 TAGCTTAGTGTTT--TGTGAT-TTTTTATTAATGTAATTTTTTTTAATTA-TTTAATAGTTATTT
66 TAGTTTACTGTTTACTGTGATCTTTTTATAAATGTAAATTTTAAAAATTATTTTAA-AGTTATTT
* * * * ** * *
93442004 TGTTTGTAATTCATGATTAGGTTATAAATTGT-TTGTGTTTAGTTT-A-GTGTTTTGTGATTTTT
130 TGTTAGTAATTTATGACTAGATTATAAATT-TATTGTGTTTAGTTTAACGTGTAATATGATTTGT
*
93442066 TATGAATCTAA
194 TATGAATGTAA
93442077 TTTTTTTTATTTTTTTAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATT
1 --TTTTTTA-------AATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATT
* * * * ***
93442142 GTTTGTGTTTAGTTTAGTGTTTACTGTGATTTTTTTATGAATGTAAATTTTTTTAATTATTTTAA
57 GTTTGTATTTAGTTTACTGTTTACTGTGATCTTTTTATAAATGTAAATTTTAAAAATTATTTTAA
* * * ** * *
93442207 AGTTATTTTGTTAGTAATTTATGGCTAGGTTATAAATTTTTTGTGTTTAGTTTAGTGTTTATTAT
122 AGTTATTTTGTTAGTAATTTATGACTAGATTATAAATTTATTGTGTTTAGTTTAACGTGTAATAT
*
93442272 GATTTTTTATGAATGTAA
187 GATTTGTTATGAATGTAA
* *
93442290 TTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGTAT
1 TTTTTT-AAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATTGTTTGTAT
* *
93442355 TTAGTTTACTTTTTATTGTGA-CTTTTTATAAATGTAAATTTTAAAAAAAAATTATTTTAAAGTT
65 TTAGTTTACTGTTTACTGTGATCTTTTTATAAATGTAAATTTT----AAAAATTATTTTAAAGTT
* *
93442419 ATTTTGTTAGTAATTTATGATTAGATTATAAA-TTATT-TGTTTAGTTTAACGTGTAATGTGATT
126 ATTTTGTTAGTAATTTATGACTAGATTATAAATTTATTGTGTTTAGTTTAACGTGTAATATGATT
93442482 TGTTAT-AATGTAA
191 TGTTATGAATGTAA
93442495 TTTT
1 TTTT
93442499 ATTTGTTTTT
Statistics
Matches: 363, Mismatches: 38, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
201 7 0.02
204 19 0.05
205 83 0.23
206 26 0.07
207 4 0.01
208 109 0.30
210 7 0.02
211 79 0.22
212 6 0.02
213 23 0.06
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (204 bp):
TTTTTTAAATTATTTTAAAGTCATTTTGTTAGTAATTTATGGTTAGATTATAAATTGTTTGTATT
TAGTTTACTGTTTACTGTGATCTTTTTATAAATGTAAATTTTAAAAATTATTTTAAAGTTATTTT
GTTAGTAATTTATGACTAGATTATAAATTTATTGTGTTTAGTTTAACGTGTAATATGATTTGTTA
TGAATGTAA
Found at i:93442859 original size:13 final size:13
Alignment explanation
Indices: 93442841--93442865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93442831 GACCCTCTAG
93442841 AAATTAATTATCA
1 AAATTAATTATCA
93442854 AAATTAATTATC
1 AAATTAATTATC
93442866 TCAGATTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAATTATCA
Found at i:93445039 original size:40 final size:40
Alignment explanation
Indices: 93444992--93445191 Score: 197
Period size: 40 Copynumber: 5.0 Consensus size: 40
93444982 CAAAAAATGT
* * * * *
93444992 CGCTATAGATCTAGCATCAGCGGCACTTTTTGAAAAATGC
1 CGCTATAGATCGAGCATTAGCGACACTTTCTGAAAAACGC
* ***
93445032 CACTATAGATCGAGCATTAGCGGTGCTTTCTGAAAAACGC
1 CGCTATAGATCGAGCATTAGCGACACTTTCTGAAAAACGC
* * * *
93445072 CGCTATAGATCGAGCAGTAGTGACGCTTTCTAAAAAACGC
1 CGCTATAGATCGAGCATTAGCGACACTTTCTGAAAAACGC
*
93445112 CGCTATAGATCGAGCATTAGCGACACTTTC--AAATGACGC
1 CGCTATAGATCGAGCATTAGCGACACTTTCTGAAA-AACGC
* * * * * *
93445151 CGCTATAGGTCGACCATTAGTGGCGCTTTTTGAAAAACGC
1 CGCTATAGATCGAGCATTAGCGACACTTTCTGAAAAACGC
93445191 C
1 C
93445192 ACAAAAAAAA
Statistics
Matches: 133, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
38 3 0.02
39 28 0.21
40 99 0.74
41 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (40 bp):
CGCTATAGATCGAGCATTAGCGACACTTTCTGAAAAACGC
Found at i:93445179 original size:79 final size:79
Alignment explanation
Indices: 93445024--93445193 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
93445014 GCACTTTTTG
* *** *
93445024 AAAAATGCCACTATAGATCGAGCATTAGCGGTGCTTTCTGAAAAACGCCGCTATAGATCGAGCAG
1 AAAAACGCCACTATAGATCGAGCATTAGCGACACTTTC-GAAAAACGCCGCTATAGATCGACCAG
93445089 TAGTGACGCTTTCTA
65 TAGTGACGCTTTCTA
* * * *
93445104 AAAAACGCCGCTATAGATCGAGCATTAGCGACACTTTC-AAATGACGCCGCTATAGGTCGACCAT
1 AAAAACGCCACTATAGATCGAGCATTAGCGACACTTTCGAAA-AACGCCGCTATAGATCGACCAG
* * *
93445168 TAGTGGCGCTTTTTG
65 TAGTGACGCTTTCTA
93445183 AAAAACGCCAC
1 AAAAACGCCAC
93445194 AAAAAAAATT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 3 0.04
79 40 0.53
80 33 0.43
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (79 bp):
AAAAACGCCACTATAGATCGAGCATTAGCGACACTTTCGAAAAACGCCGCTATAGATCGACCAGT
AGTGACGCTTTCTA
Found at i:93448907 original size:24 final size:24
Alignment explanation
Indices: 93448878--93449064 Score: 311
Period size: 24 Copynumber: 7.8 Consensus size: 24
93448868 CTTATTATGT
**
93448878 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
* *
93448902 TAGCACACATAGTTCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
93448926 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
93448950 TCGCGCACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
**
93448974 TCGCACACATAGTGCCATAGTGGA
1 TCGCACACATAGTGCCATAGTAAA
93448998 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
93449022 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
93449046 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
93449065 TATTTCCAGC
Statistics
Matches: 151, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 151 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:93453428 original size:6 final size:6
Alignment explanation
Indices: 93453417--93453452 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
93453407 TATTTTACTA
*
93453417 TTATTT TTATTT TTACTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
93453453 AAATTTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:93453432 original size:18 final size:18
Alignment explanation
Indices: 93453405--93453449 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
93453395 TTTGAGTCCC
93453405 TTTA-TTTTACTATTATT
1 TTTATTTTTACTATTATT
*
93453422 TTTATTTTTACTTTTATT
1 TTTATTTTTACTATTATT
93453440 TTTATTTTTA
1 TTTATTTTTA
93453450 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTACTATTATT
Found at i:93453458 original size:18 final size:18
Alignment explanation
Indices: 93453405--93453461 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
93453395 TTTGAGTCCC
93453405 TTTA-TTTTACTATT-ATT
1 TTTATTTTTACT-TTAATT
*
93453422 TTTATTTTTACTTTTATT
1 TTTATTTTTACTTTAATT
*
93453440 TTTATTTTTA-TTTAAAT
1 TTTATTTTTACTTTAATT
93453457 TTTAT
1 TTTAT
93453462 CGTGTCTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 16 0.44
18 20 0.56
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTTACTTTAATT
Found at i:93455306 original size:30 final size:30
Alignment explanation
Indices: 93455270--93455326 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
93455260 TAGGCACTTC
* *
93455270 CACACGGGTAAACCACATGCCCGTGTGAGG
1 CACACGGGCAAACCACATGCCCATGTGAGG
*
93455300 CACACGGGCAGACCACATGCCCATGTG
1 CACACGGGCAAACCACATGCCCATGTG
93455327 TCATGGTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.12
Consensus pattern (30 bp):
CACACGGGCAAACCACATGCCCATGTGAGG
Found at i:93456469 original size:40 final size:40
Alignment explanation
Indices: 93456409--93456512 Score: 165
Period size: 40 Copynumber: 2.6 Consensus size: 40
93456399 GCTTTAGTGT
*
93456409 CATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAG
1 CATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAG
*
93456449 CATTAGCGACGCTTTCTGAAAAACGCCGCTATAGATCGAG
1 CATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAG
*
93456489 CATTAGC-AGCGCTTTTTAAAAAAC
1 CATTAGCGA-CGCTTTTTGAAAAAC
93456513 ACCGAAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.02
40 58 0.98
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (40 bp):
CATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAG
Found at i:93456947 original size:7 final size:7
Alignment explanation
Indices: 93456937--93457083 Score: 97
Period size: 7 Copynumber: 20.4 Consensus size: 7
93456927 TATTATTATA
93456937 GTTTAGG
1 GTTTAGG
93456944 GTTTAGG
1 GTTTAGG
93456951 GTTTAGG
1 GTTTAGG
93456958 GTTTAGG
1 GTTTAGG
93456965 GTTTAGG
1 GTTTAGG
93456972 GTTTAGG
1 GTTTAGG
93456979 GTTACTA--
1 GTT--TAGG
* *
93456986 TTTTAAG
1 GTTTAGG
*
93456993 GTTTATG
1 GTTTAGG
*
93457000 GATTATGG
1 GTTTA-GG
93457008 GTTTAGG
1 GTTTAGG
* *
93457015 GATTATG
1 GTTTAGG
*
93457022 GTTTAAGA
1 GTTT-AGG
93457030 G-TTAGG
1 GTTTAGG
93457036 GTTTA-G
1 GTTTAGG
93457042 GTGTTAGG
1 GT-TTAGG
*
93457050 GGTTAGTG
1 GTTTAG-G
93457058 G-TTAGGG
1 GTTTA-GG
*
93457065 GTTATGGG
1 GTT-TAGG
93457073 GTTTAAGG
1 GTTT-AGG
93457081 GTT
1 GTT
93457084 AATGGGACAA
Statistics
Matches: 111, Mismatches: 15, Indels: 27
0.73 0.10 0.18
Matches are distributed among these distances:
5 2 0.02
6 6 0.05
7 77 0.69
8 23 0.21
9 3 0.03
ACGTcount: A:0.18, C:0.01, G:0.39, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:93457012 original size:15 final size:14
Alignment explanation
Indices: 93456992--93457026 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
93456982 ACTATTTTAA
*
93456992 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
93457006 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
93457021 GGTTTA
1 GGTTTA
93457027 AGAGTTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:93457111 original size:14 final size:14
Alignment explanation
Indices: 93457033--93457112 Score: 61
Period size: 14 Copynumber: 5.4 Consensus size: 14
93457023 TTTAAGAGTT
*
93457033 AGGGTTTAGGTGTTA
1 AGGG-TTAGGGGTTA
* *
93457048 GGGGTTAGTGGTTA
1 AGGGTTAGGGGTTA
*
93457062 GGGGTTATGGGGTTTA
1 AGGGTTA-GGGG-TTA
* **
93457078 AGGGTTAATGGGACA
1 AGGGTT-AGGGGTTA
93457093 AGGGTTAGGGGTTA
1 AGGGTTAGGGGTTA
93457107 AGGGTT
1 AGGGTT
93457113 TCAGGTTTAA
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
14 26 0.51
15 13 0.25
16 11 0.22
17 1 0.02
ACGTcount: A:0.20, C:0.01, G:0.46, T:0.33
Consensus pattern (14 bp):
AGGGTTAGGGGTTA
Found at i:93457510 original size:16 final size:16
Alignment explanation
Indices: 93457441--93457487 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
93457431 ATATTAAATA
93457441 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTAAAG
93457457 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTAAAG
93457473 ATTTCAAATTTTAAA
1 ATTTCAAATTTTAAA
93457488 TAATTTTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (16 bp):
ATTTCAAATTTTAAAG
Found at i:93459324 original size:17 final size:16
Alignment explanation
Indices: 93459293--93459326 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
93459283 TTAGTTAATC
*
93459293 TTTTATTTTCTTTTTT
1 TTTTATTTTCGTTTTT
93459309 TTTTATTTTTCGTTTTT
1 TTTTA-TTTTCGTTTTT
93459326 T
1 T
93459327 AAATTACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTATTTTCGTTTTT
Found at i:93459988 original size:24 final size:24
Alignment explanation
Indices: 93459961--93460007 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
93459951 ATTATTATTG
*
93459961 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTCTCATCCGTTTTATCAC
*
93459985 AAATATTTTCATCCGTTTTATCA
1 AAATATTCTCATCCGTTTTATCA
93460008 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (24 bp):
AAATATTCTCATCCGTTTTATCAC
Found at i:93460258 original size:14 final size:14
Alignment explanation
Indices: 93460239--93460269 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
93460229 GTGTTAGTCG
93460239 ATAATGCCATTACC
1 ATAATGCCATTACC
93460253 ATAATGCCATTACC
1 ATAATGCCATTACC
93460267 ATA
1 ATA
93460270 TTAAGACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (14 bp):
ATAATGCCATTACC
Found at i:93460410 original size:15 final size:15
Alignment explanation
Indices: 93460386--93460440 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
93460376 ATTTGGATTA
*
93460386 ATTTATTTAAATATT
1 ATTTAATTAAATATT
* *
93460401 GTTTAATTAAA-ATA
1 ATTTAATTAAATATT
*
93460415 ATTTATTTAAATATT
1 ATTTAATTAAATATT
93460430 ATTTAATTAAA
1 ATTTAATTAAA
93460441 ATAATTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:93460419 original size:29 final size:29
Alignment explanation
Indices: 93460384--93460447 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
93460374 TAATTTGGAT
*
93460384 TAATTTATTTAAATATTGTTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
93460413 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
93460442 TAATTT
1 TAATTT
93460448 TTTTCCATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAATTAAAA
Found at i:93460605 original size:15 final size:15
Alignment explanation
Indices: 93460580--93460634 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
93460570 ATTTGGATTA
*
93460580 ATTTACTTAAATATT
1 ATTTAATTAAATATT
* *
93460595 ATTTAACTAAA-ATA
1 ATTTAATTAAATATT
*
93460609 ATTTATTTAAATATT
1 ATTTAATTAAATATT
93460624 ATTTAATTAAA
1 ATTTAATTAAA
93460635 AAAATTCATG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:93460612 original size:29 final size:29
Alignment explanation
Indices: 93460578--93460640 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
93460568 TAATTTGGAT
93460578 TAATTTACTTAAATATTATTTAACTAAAA
1 TAATTTACTTAAATATTATTTAACTAAAA
* *
93460607 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTACTTAAATATTATTTAACTAAAA
*
93460636 AAATT
1 TAATT
93460641 CATGTGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
TAATTTACTTAAATATTATTTAACTAAAA
Found at i:93460759 original size:188 final size:190
Alignment explanation
Indices: 93460288--93460806 Score: 843
Period size: 188 Copynumber: 2.7 Consensus size: 190
93460278 AGGTTCAATC
93460288 TTATTTTTA-ATTT-TTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
1 TTATTTTTATATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
* *
93460351 TATACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTGTTTAATTAAAATAA
66 TATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA
*
93460416 TTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGCGACTTTCCACATCGTCAAATT
131 TTTATTTAAATATTATTTAATTAAAATAA---TATTCCATGCGACTTTCCACATCGTCAAATT
*
93460479 TTATTTTTATGATTTCTTTTTCATGAAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTT
1 TTATTTTTAT-ATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTT
* *
93460544 TTATACACAATTTTTTAAATTACATAATTTGGATTAATTTACTTAAATATTATTTAACTAAAATA
65 TTATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATA
* *
93460609 ATTTATTTAAATATTATTTAATTAAAA-AA-ATT-CATGTGATTTTCCACATCGTCAAATT
130 ATTTATTTAAATATTATTTAATTAAAATAATATTCCATGCGACTTTCCACATCGTCAAATT
* *
93460667 TTATTTTTATTATTTCTTTTTCTTGGAACAAAGTTGACATTTCATCTTATACGGTTTTCACCTTT
1 TTATTTTTA-TATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTT
* *
93460732 TTATACATAATTTTTTAAATTACATAATTTGGATTAATTTATTTAATTATTATTTAATTAAAATA
65 TTATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATA
93460797 ATTT-TTTAAA
130 ATTTATTTAAA
93460807 GAGAAATAAT
Statistics
Matches: 309, Mismatches: 15, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
187 6 0.02
188 149 0.48
189 3 0.01
191 9 0.03
193 6 0.02
194 136 0.44
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (190 bp):
TTATTTTTATATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
TATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA
TTTATTTAAATATTATTTAATTAAAATAATATTCCATGCGACTTTCCACATCGTCAAATT
Found at i:93460862 original size:27 final size:27
Alignment explanation
Indices: 93460831--93460887 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
93460821 ATCTTAATGT
*
93460831 TAAATATACATCATATAATAACTTACA
1 TAAATATAAATCATATAATAACTTACA
* *
93460858 TAAATATAAATTATATCATAACTTACA
1 TAAATATAAATCATATAATAACTTACA
93460885 TAA
1 TAA
93460888 CTTATATACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAATATAAATCATATAATAACTTACA
Found at i:93460886 original size:9 final size:9
Alignment explanation
Indices: 93460874--93461132 Score: 72
Period size: 9 Copynumber: 30.1 Consensus size: 9
93460864 TAAATTATAT
93460874 CATAACTTA
1 CATAACTTA
93460883 CATAACTTA
1 CATAACTTA
* *
93460892 TATACCTTA
1 CATAACTTA
93460901 CATAA--TA
1 CATAACTTA
*
93460908 CATAAATGT-
1 CATAACT-TA
**
93460917 -ATTCCTTA
1 CATAACTTA
93460925 CATAA--TA
1 CATAACTTA
93460932 CATAA---A
1 CATAACTTA
*
93460938 TATAACTTA
1 CATAACTTA
*
93460947 CAAAACTTA
1 CATAACTTA
93460956 CATAAC--A
1 CATAACTTA
*
93460963 CATAA-ATA
1 CATAACTTA
* * *
93460971 TATATCATA
1 CATAACTTA
93460980 TCATAACTTA
1 -CATAACTTA
*
93460990 AATAACTTA
1 CATAACTTA
93460999 CATAA--TA
1 CATAACTTA
*
93461006 CATAA-ATA
1 CATAACTTA
* * *
93461014 TATATCATA
1 CATAACTTA
93461023 TCATAACTTA
1 -CATAACTTA
*
93461033 CATACCTTA
1 CATAACTTA
*
93461042 CATAAATGT-
1 CATAACT-TA
*
93461051 CTATGA--TA
1 C-ATAACTTA
93461059 TCATAACTTA
1 -CATAACTTA
**
93461069 CATGCCTTA
1 CATAACTTA
*
93461078 CATAAATGT-
1 CATAACT-TA
* *
93461087 -ATATCATA
1 CATAACTTA
93461095 TCATAACTTA
1 -CATAACTTA
93461105 CATAACTTA
1 CATAACTTA
*
93461114 CAAAACTTA
1 CATAACTTA
*
93461123 CTTAACTTA
1 CATAACTTA
93461132 C
1 C
93461133 GTAATACATA
Statistics
Matches: 182, Mismatches: 43, Indels: 50
0.66 0.16 0.18
Matches are distributed among these distances:
6 5 0.03
7 30 0.16
8 18 0.10
9 103 0.57
10 26 0.14
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:93460889 original size:36 final size:36
Alignment explanation
Indices: 93460848--93461115 Score: 181
Period size: 36 Copynumber: 7.3 Consensus size: 36
93460838 ACATCATATA
*
93460848 ATAACTTACATAAATATAAATTATATCATAACTTAC
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
* ** * * **
93460884 ATAACTTATATACCTTACATAATACATAAATGTATTCCTTAC
1 ATAACTTACATA-AATATA-AAT-CAT--AT-CATAACTTAC
* *
93460926 ATAA--TACATAAATAT-AA-CTTA-CAAAACTTAC
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
* *
93460957 ATAAC--ACATAAATATATATCATATCATAACTTAA
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
93460991 ATAACTTACATAATACATAAATATATATCATATCATAACTTAC
1 ATAACTTACAT-A-A-AT--ATA-A-ATCATATCATAACTTAC
* * ** *
93461034 ATACCTTACATAAATGTCTATGATATCATAACTTAC
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
** * *
93461070 ATGCCTTACATAAATGTATATCATATCATAACTTAC
1 ATAACTTACATAAATATAAATCATATCATAACTTAC
93461106 ATAACTTACA
1 ATAACTTACA
93461116 AAACTTACTT
Statistics
Matches: 180, Mismatches: 33, Indels: 38
0.72 0.13 0.15
Matches are distributed among these distances:
31 20 0.11
32 1 0.01
33 4 0.02
34 13 0.07
35 2 0.01
36 72 0.40
37 6 0.03
38 5 0.03
39 6 0.03
40 7 0.04
41 6 0.03
42 12 0.07
43 26 0.14
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (36 bp):
ATAACTTACATAAATATAAATCATATCATAACTTAC
Found at i:93460987 original size:43 final size:43
Alignment explanation
Indices: 93460939--93461046 Score: 173
Period size: 43 Copynumber: 2.5 Consensus size: 43
93460929 ATACATAAAT
93460939 ATAACTTACAAAACTTACATAACACATAAATATATATCATATC
1 ATAACTTACAAAACTTACATAACACATAAATATATATCATATC
*
93460982 ATAACTTA-AATAACTTACATAATACATAAATATATATCATATC
1 ATAACTTACAA-AACTTACATAACACATAAATATATATCATATC
* *
93461025 ATAACTTACATACCTTACATAA
1 ATAACTTACAAAACTTACATAA
93461047 ATGTCTATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
42 2 0.03
43 57 0.95
44 1 0.02
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (43 bp):
ATAACTTACAAAACTTACATAACACATAAATATATATCATATC
Found at i:93470005 original size:43 final size:42
Alignment explanation
Indices: 93469930--93470251 Score: 198
Period size: 43 Copynumber: 7.3 Consensus size: 42
93469920 TCTGCTAAAA
* * ** *
93469930 TTAGTGGCGTTTTTTAGAAAAGTACCGTTAAAGGTCACGTTCT
1 TTAGCGGCG-TTTGTAGAAAAGCGCCGCTAAAGGTCACGTTCT
* *
93469973 TTAGCAGCGTTTGTATGAAAAGCGTCGCTAAAGGTCACTAAAGGTCACGTTCT
1 TTAGCGGCGTTTGTA-GAAAAGCGCCGCTAAA-G---------GTCACGTTCT
* * *
93470026 TTAGCGGCATCTTCG-AGAAAAGCGCCGCTAAATGTCATGTTCT
1 TTAGCGGCGT-TT-GTAGAAAAGCGCCGCTAAAGGTCACGTTCT
* * * * * *
93470069 TTAGCGACGTTTGTATGAAAAACGTCGCTATAGGTTACGTTAT
1 TTAGCGGCGTTTGTA-GAAAAGCGCCGCTAAAGGTCACGTTCT
* * *
93470112 TTAGCGGCATTTTTGAGAAAAGCGCCTCTAAAGGTCACGTTCT
1 TTAGCGGCGTTTGT-AGAAAAGCGCCGCTAAAGGTCACGTTCT
* * * * *
93470155 TTAGCGGCATTTGTATAAAAAGCACTGCTAAAGGTCACATTCT
1 TTAGCGGCGTTTGTA-GAAAAGCGCCGCTAAAGGTCACGTTCT
* * * * * *
93470198 TTAACAGCGCTTTCTA-AAAAACGCCGCTAAAAGTCATGTTCT
1 TTAGCGGCG-TTTGTAGAAAAGCGCCGCTAAAGGTCACGTTCT
93470240 TTAGCGGCGTTT
1 TTAGCGGCGTTT
93470252 TTTATATAAA
Statistics
Matches: 213, Mismatches: 48, Indels: 38
0.71 0.16 0.13
Matches are distributed among these distances:
41 4 0.02
42 36 0.17
43 129 0.61
44 7 0.03
53 33 0.15
54 3 0.01
55 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTGTAGAAAAGCGCCGCTAAAGGTCACGTTCT
Found at i:93470046 original size:53 final size:53
Alignment explanation
Indices: 93469958--93470062 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
93469948 AAAGTACCGT
* *
93469958 TAAAGGTCACGTTCTTTAGCAGCGTTTGTATGAAAAGCGTCGCTAAAGGTCAC
1 TAAAGGTCACGTTCTTTAGCAGCATTTGTATGAAAAGCGCCGCTAAAGGTCAC
* *
93470011 TAAAGGTCACGTTCTTTAGCGGCATCTTCG-A-GAAAAGCGCCGCTAAATGTCA
1 TAAAGGTCACGTTCTTTAGCAGCAT-TT-GTATGAAAAGCGCCGCTAAAGGTCA
93470063 TGTTCTTTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 42 0.91
54 3 0.07
55 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (53 bp):
TAAAGGTCACGTTCTTTAGCAGCATTTGTATGAAAAGCGCCGCTAAAGGTCAC
Found at i:93470242 original size:85 final size:86
Alignment explanation
Indices: 93470010--93470247 Score: 236
Period size: 86 Copynumber: 2.8 Consensus size: 86
93470000 CTAAAGGTCA
* * * *
93470010 CTAAAGGTCACGTTCTTTAGCGGCATCTTC-GAGAAAAGCGCCGCTAAATGTCATGTTCTTTAGC
1 CTAAAGGTCACATTATTTAACGGCAT-TTCTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGC
* * *
93470074 GACGTTTGTATGAAAAACGTCG
65 GGCATTTGTATGAAAAACCTCG
* * * * * * * *
93470096 CTATAGGTTACGTTATTTAGCGGCATTTTTGAGAAAAGCGCCTCTAAAGGTCACGTTCTTTAGCG
1 CTAAAGGTCACATTATTTAACGGCATTTCTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCG
93470161 GCATTTGTAT-AAAAAGCACT-G
66 GCATTTGTATGAAAAA-C-CTCG
* *
93470182 CTAAAGGTCACATTCTTTAACAGCGC-TTTCT-A-AAAAACGCCGCTAAAAGTCATGTTCTTTAG
1 CTAAAGGTCACATTATTTAAC-G-GCATTTCTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAG
93470244 CGGC
64 CGGC
93470248 GTTTTTTATA
Statistics
Matches: 127, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
85 37 0.29
86 82 0.65
87 6 0.05
88 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (86 bp):
CTAAAGGTCACATTATTTAACGGCATTTCTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCG
GCATTTGTATGAAAAACCTCG
Found at i:93470254 original size:129 final size:128
Alignment explanation
Indices: 93470010--93470253 Score: 280
Period size: 129 Copynumber: 1.9 Consensus size: 128
93470000 CTAAAGGTCA
* * * ** *
93470010 CTAAAGGTCACGTTCTTTAGCGGCATCTTCGAGAAAAGCGCCGCTAAATGTCATGTTCTTTAGCG
1 CTAAAGGTCACGTTCTTTAGCGGCATCTTCGAAAAAAGCACCGCTAAAGGTCACATTCTTTAACG
* * * * *
93470075 ACGTTTGTATGAAAAACGTCGCTATAGGTTACGTTATTTAGCGGCATTTTTGAGAAAAGCGCCT
66 ACGTTTCTA-GAAAAACGCCGCTAAAAGTCACGTTATTTAGCGGCATTTTTGAGAAAAGCGCCT
*
93470139 CTAAAGGTCACGTTCTTTAGCGGCAT-TT-GTATAAAAAGCACTGCTAAAGGTCACATTCTTTAA
1 CTAAAGGTCACGTTCTTTAGCGGCATCTTCG-A-AAAAAGCACCGCTAAAGGTCACATTCTTTAA
* * *
93470202 C-AGCGCTTTCTA-AAAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTTT
64 CGA-CG-TTTCTAGAAAAACGCCGCTAAAAGTCACGTTATTTAGCGGCATTTTT
93470254 TATATAAAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
127 1 0.01
128 37 0.39
129 53 0.55
130 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (128 bp):
CTAAAGGTCACGTTCTTTAGCGGCATCTTCGAAAAAAGCACCGCTAAAGGTCACATTCTTTAACG
ACGTTTCTAGAAAAACGCCGCTAAAAGTCACGTTATTTAGCGGCATTTTTGAGAAAAGCGCCT
Found at i:93472356 original size:38 final size:38
Alignment explanation
Indices: 93472314--93472401 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 38
93472304 GTCCAACCCA
*
93472314 ACACACCATGTGGGGATAAAATCGACCCACCCATCCCT
1 ACACACCATATGGGGATAAAATCGACCCACCCATCCCT
* * ** *
93472352 ACACACCATATATGGGGATACAATCGTCTTATCCATCCCT
1 ACACACC--ATATGGGGATAAAATCGACCCACCCATCCCT
93472392 ACACACCATA
1 ACACACCATA
93472402 AGGTACCGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
38 10 0.24
40 32 0.76
ACGTcount: A:0.33, C:0.34, G:0.12, T:0.20
Consensus pattern (38 bp):
ACACACCATATGGGGATAAAATCGACCCACCCATCCCT
Found at i:93472377 original size:40 final size:40
Alignment explanation
Indices: 93472324--93472401 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
93472314 ACACACCATG
93472324 TGGGGATAAAATCGACCCACCCATCCCTACACACCATATA
1 TGGGGATAAAATCGACCCACCCATCCCTACACACCATATA
* * ** *
93472364 TGGGGATACAATCGTCTTATCCATCCCTACACACCATA
1 TGGGGATAAAATCGACCCACCCATCCCTACACACCATA
93472402 AGGTACCGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCATCCCTACACACCATATA
Found at i:93472851 original size:18 final size:18
Alignment explanation
Indices: 93472805--93472847 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
93472795 AACCCAGATT
* *
93472805 CCCACATGCCTGTGTAGG
1 CCCACACGCCCGTGTAGG
93472823 CCCACACGCCCGTGT-GG
1 CCCACACGCCCGTGTAGG
93472840 CCCACACG
1 CCCACACG
93472848 GCCCATTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.16, C:0.44, G:0.26, T:0.14
Consensus pattern (18 bp):
CCCACACGCCCGTGTAGG
Found at i:93475816 original size:115 final size:115
Alignment explanation
Indices: 93475633--93475887 Score: 298
Period size: 115 Copynumber: 2.3 Consensus size: 115
93475623 TTTATAATAG
* * * *
93475633 TTACTAACAAAATAACTTTCAAATAAATTAAAAAAAAATTAAAAGATTGCATTCATAACCTAATA
1 TTACTAACAAAATAACTTTAAAATAAATTAAAAAAAAAGTAAAAGATTACATTCATAACCTAACA
*
93475698 AATCACAATAAACCA-TAAACCTTAAACAAACAATTAACCTAATCACAAAAC
66 AATCACAATAAAACATTAAA--TTAAACAAACAATTAACCTAATCACAAAAC
* * **
93475749 TTACTGACAGAATAACTTTAAAATAAATT-AAAAATTAGTAAAA-ATTTACATTCATAACCTAAC
1 TTACTAACAAAATAACTTTAAAATAAATTAAAAAAAAAGTAAAAGA-TTACATTCATAACCTAAC
* *
93475812 AAATCACAATAAAACATTAAATTAAACAAATAATT----T-AT-A-ATAA-
65 AAATCACAATAAAACATTAAATTAAACAAACAATTAACCTAATCACAAAAC
*
93475855 TAACTAACAAAATAACTTTAAAATAAATTAAAA
1 TTACTAACAAAATAACTTTAAAATAAATTAAAA
93475888 TCAACATAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
106 26 0.21
107 6 0.05
108 1 0.01
109 2 0.02
110 1 0.01
114 14 0.11
115 42 0.34
116 30 0.25
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (115 bp):
TTACTAACAAAATAACTTTAAAATAAATTAAAAAAAAAGTAAAAGATTACATTCATAACCTAACA
AATCACAATAAAACATTAAATTAAACAAACAATTAACCTAATCACAAAAC
Found at i:93475887 original size:10 final size:11
Alignment explanation
Indices: 93475863--93475908 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
93475853 AATAACTAAC
*
93475863 AAAATAACTTT
1 AAAATAACATT
93475874 AAAATAA-ATT
1 AAAATAACATT
93475884 AAAATCAACA-T
1 AAAAT-AACATT
*
93475895 AAAATAACAAT
1 AAAATAACATT
93475906 AAA
1 AAA
93475909 CAAACTACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 11 0.35
11 19 0.61
12 1 0.03
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAACATT
Found at i:93476146 original size:27 final size:27
Alignment explanation
Indices: 93476116--93476178 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
93476106 CAAAATTGTT
*
93476116 TCACTGGTGCTACCTATCAAACAGGGG
1 TCACTGGTGCCACCTATCAAACAGGGG
** * * * *
93476143 TCACCAGTGCCGCCTATTAGATAGGGG
1 TCACTGGTGCCACCTATCAAACAGGGG
93476170 TCACTGGTG
1 TCACTGGTG
93476179 TCGCTTATCA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (27 bp):
TCACTGGTGCCACCTATCAAACAGGGG
Found at i:93476193 original size:27 final size:27
Alignment explanation
Indices: 93476128--93476194 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
93476118 ACTGGTGCTA
*
93476128 CCTATCAAACAGGGGTCACCAGTGCCG
1 CCTATCAAATAGGGGTCACCAGTGCCG
* * ** *
93476155 CCTATTAGATAGGGGTCACTGGTGTCG
1 CCTATCAAATAGGGGTCACCAGTGCCG
*
93476182 CTTATCAAATAGG
1 CCTATCAAATAGG
93476195 CACCACCCCT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (27 bp):
CCTATCAAATAGGGGTCACCAGTGCCG
Found at i:93476320 original size:22 final size:23
Alignment explanation
Indices: 93476292--93476342 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
93476282 AAGCATCACT
93476292 AATAAAATAAT-ATTTTTTTAAA
1 AATAAAATAATAATTTTTTTAAA
*
93476314 AATAAAA-AATAATTTTTTTTAA
1 AATAAAATAATAATTTTTTTAAA
93476336 AA-AAAAT
1 AATAAAAT
93476343 TTGTGGTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATAAAATAATAATTTTTTTAAA
Found at i:93476433 original size:28 final size:28
Alignment explanation
Indices: 93476375--93476459 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 28
93476365 GGCACCATCG
* *
93476375 CTACTGACAAAACATTTTCGTATTTAATC
1 CTACTGACATACCATTTT-GTATTTAATC
*
93476404 CTACTGGCATACCATTTTGTATTTAATC
1 CTACTGACATACCATTTTGTATTTAATC
* **
93476432 CTATTGACATTTCATTTTTGTATTTAAT
1 CTACTGACATACCA-TTTTGTATTTAAT
93476460 TTTTTTTACA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 20 0.42
29 28 0.58
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (28 bp):
CTACTGACATACCATTTTGTATTTAATC
Found at i:93477560 original size:22 final size:22
Alignment explanation
Indices: 93477532--93477576 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
93477522 TTCACCCTAT
*
93477532 CAAGCTTTAGTGTCGCGACATC
1 CAAGCTTTAGTGTCACGACATC
* *
93477554 CAAGCTTTGGTGTCATGACATC
1 CAAGCTTTAGTGTCACGACATC
93477576 C
1 C
93477577 TTAACAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (22 bp):
CAAGCTTTAGTGTCACGACATC
Found at i:93482245 original size:34 final size:34
Alignment explanation
Indices: 93482196--93482296 Score: 121
Period size: 34 Copynumber: 3.0 Consensus size: 34
93482186 TAAGAATATC
* *
93482196 TATTACTATCATATTGATCTGTTATAAGCATGCT
1 TATTGCTACCATATTGATCTGTTATAAGCATGCT
** * *
93482230 TATTGCTACTGTATTGATTTGTTATAAGCATGTT
1 TATTGCTACCATATTGATCTGTTATAAGCATGCT
* **
93482264 TATTGCTACCATATTGAACTACTATAAGCATGC
1 TATTGCTACCATATTGATCTGTTATAAGCATGC
93482297 CATATTGCAT
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.43
Consensus pattern (34 bp):
TATTGCTACCATATTGATCTGTTATAAGCATGCT
Found at i:93483853 original size:45 final size:45
Alignment explanation
Indices: 93483804--93483925 Score: 129
Period size: 45 Copynumber: 2.7 Consensus size: 45
93483794 TTATGAGTAG
* * * *
93483804 TTTATCTGCACCGATGAGTAGTTTATCCACATCGTATTAGTAGCT
1 TTTATCTGCACCGATGAGTGGTTTATCCACACCGTATTAGCAACT
* * * *
93483849 TTTATCTACACCAATGAATGGTTTATCAACACCGTATTAGCAACT
1 TTTATCTGCACCGATGAGTGGTTTATCCACACCGTATTAGCAACT
* * *
93483894 TTTTTCAGCA-CGAATAAGTGGTTTATCCACAC
1 TTTATCTGCACCG-ATGAGTGGTTTATCCACAC
93483926 ATTACTAGCA
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (45 bp):
TTTATCTGCACCGATGAGTGGTTTATCCACACCGTATTAGCAACT
Found at i:93485529 original size:27 final size:26
Alignment explanation
Indices: 93485455--93485531 Score: 127
Period size: 26 Copynumber: 2.9 Consensus size: 26
93485445 CTCTCTATGT
*
93485455 TTTTCTTTTCAAGAATTTCTCATGAG
1 TTTTCTTTTCAAGAATTTCTCTTGAG
93485481 TTTTCTTTTCAAGAATTTCTCTTGAG
1 TTTTCTTTTCAAGAATTTCTCTTGAG
*
93485507 TTTTCTTTTAGAAGAATTTCTCTTG
1 TTTTCTTTT-CAAGAATTTCTCTTG
93485532 GAGAGGAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 34 0.71
27 14 0.29
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (26 bp):
TTTTCTTTTCAAGAATTTCTCTTGAG
Found at i:93486147 original size:20 final size:19
Alignment explanation
Indices: 93486105--93486147 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
93486095 GAAAAAGAGG
* * *
93486105 AAAAAAAATAGAAAACTAC
1 AAAAAAAAAAGAAAAATAA
93486124 AAAAAAAAAAGAAAAAATAA
1 AAAAAAAAAAG-AAAAATAA
93486144 AAAA
1 AAAA
93486148 TATTTTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.07
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAATAA
Found at i:93487570 original size:19 final size:18
Alignment explanation
Indices: 93487522--93487571 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
93487512 TTCATCTATA
*
93487522 TTGTTTCATT-TTTTTTT
1 TTGTTTCATTGTTTTTTC
*
93487539 TTGTTATTA-TGTTTTGTTC
1 TTGTT-TCATTGTTTT-TTC
93487558 TTGTTTCATTGTTT
1 TTGTTTCATTGTTT
93487572 CTAATCTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 12 0.46
ACGTcount: A:0.08, C:0.06, G:0.12, T:0.74
Consensus pattern (18 bp):
TTGTTTCATTGTTTTTTC
Found at i:93488067 original size:3 final size:3
Alignment explanation
Indices: 93488059--93488084 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
93488049 GTTTTCAAAG
93488059 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
93488085 CAAAATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:93488233 original size:20 final size:20
Alignment explanation
Indices: 93488210--93488262 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
93488200 AATATATTTT
*
93488210 TTTTTAATTTTTTATAAA-TA
1 TTTTTAATTTTTGA-AAATTA
*
93488230 TTTTGAA-TTTTGAAAATTA
1 TTTTTAATTTTTGAAAATTA
93488249 TTTTGTAATTTTTG
1 TTTT-TAATTTTTG
93488263 TTGAGAGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 3 0.11
19 11 0.41
20 8 0.30
21 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTTAATTTTTGAAAATTA
Found at i:93494093 original size:53 final size:55
Alignment explanation
Indices: 93494013--93494125 Score: 185
Period size: 53 Copynumber: 2.1 Consensus size: 55
93494003 AAAACAAATG
**
93494013 TAAATATGTGATCATTCTTCTATCTTTTTCTTTTTTT-AAAAAAAAA-TAGATGT
1 TAAATATGCCATCATTCTTCTATCTTTTTCTTTTTTTAAAAAAAAAATTAGATGT
*
93494066 TAAATATGCCATCATTCTTTTATCTTTTTCTTTTTTTAAAAAAAAAATTAGATGT
1 TAAATATGCCATCATTCTTCTATCTTTTTCTTTTTTTAAAAAAAAAATTAGATGT
93494121 TAAAT
1 TAAAT
93494126 GTAAGTTTAC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 34 0.62
54 9 0.16
55 12 0.22
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (55 bp):
TAAATATGCCATCATTCTTCTATCTTTTTCTTTTTTTAAAAAAAAAATTAGATGT
Found at i:93498722 original size:23 final size:22
Alignment explanation
Indices: 93498680--93498721 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
93498670 ATTAAACTTA
93498680 AAATTTAAAATATAAAAAAATT
1 AAATTTAAAATATAAAAAAATT
*
93498702 AAATTTCAAATATAAAAAAA
1 AAATTTAAAATATAAAAAAA
93498722 AAATAAGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATTTAAAATATAAAAAAATT
Found at i:93504928 original size:30 final size:28
Alignment explanation
Indices: 93504894--93504951 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
93504884 ATTTTAGGCC
*
93504894 AAAACTAAAATTAATCTATTTAAAAATATA
1 AAAACTAAAATTAATC-AATT-AAAATATA
*
93504924 AAAACTAAACTTAATCAATTAAAATATA
1 AAAACTAAAATTAATCAATTAAAATATA
93504952 GATGAAATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 8 0.31
29 3 0.12
30 15 0.58
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAACTAAAATTAATCAATTAAAATATA
Found at i:93513696 original size:53 final size:53
Alignment explanation
Indices: 93513615--93513765 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
93513605 CTTACACGGT
* *
93513615 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
93513670 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
93513723 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
93513766 GCACTTATCA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:93521207 original size:53 final size:53
Alignment explanation
Indices: 93521126--93521276 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
93521116 CTTACACGGT
* *
93521126 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
93521181 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
93521234 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
93521277 GCACTTATCA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:93523868 original size:53 final size:53
Alignment explanation
Indices: 93523787--93523937 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
93523777 CTTACACGGT
* *
93523787 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
93523842 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
93523895 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
93523938 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:93531378 original size:53 final size:52
Alignment explanation
Indices: 93531297--93531446 Score: 203
Period size: 53 Copynumber: 2.8 Consensus size: 52
93531287 CTTACACGGT
*
93531297 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATA-CCCAG-CTATGGTCTTATACGGAATCACATTA
*
93531352 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATA-CCCAGCTATGGTCTTATACGGAATCACATTA
** *
93531405 TCACATTGCACCGATGCCATACCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATACCCAGCTATGGTCTTATACGG
93531447 GGCACTTATC
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
52 21 0.24
53 60 0.68
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (52 bp):
TCACATTATACCGATGCCATACCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:93532695 original size:10 final size:10
Alignment explanation
Indices: 93532680--93532707 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
93532670 ACCATTTCAC
93532680 AAATTCTTCT
1 AAATTCTTCT
93532690 AAATTCTTCT
1 AAATTCTTCT
93532700 AAATTCTT
1 AAATTCTT
93532708 ACTTGACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (10 bp):
AAATTCTTCT
Found at i:93534112 original size:14 final size:15
Alignment explanation
Indices: 93534090--93534126 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
93534080 ATATTAACTA
*
93534090 AATCCAAATT-TAAT
1 AATCAAAATTCTAAT
93534104 AATCAAAATTCTAAT
1 AATCAAAATTCTAAT
93534119 -ATCAAAAT
1 AATCAAAAT
93534127 AGACTACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (15 bp):
AATCAAAATTCTAAT
Found at i:93536598 original size:27 final size:25
Alignment explanation
Indices: 93536541--93536600 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
93536531 ATATAAATAA
*
93536541 TTAAATATGTATTTTTAATAATATT
1 TTAAATATATATTTTTAATAATATT
** *
93536566 GAAAATATAATATTTTATATTAATATT
1 TTAAATAT-ATATTTT-TAATAATATT
93536593 TTAAATAT
1 TTAAATAT
93536601 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 6 0.22
26 6 0.22
27 15 0.56
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (25 bp):
TTAAATATATATTTTTAATAATATT
Found at i:93537016 original size:29 final size:31
Alignment explanation
Indices: 93536948--93537016 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
93536938 GAATTATTCA
* *
93536948 AAAGTTT-TCATTTAAGTCGCTAAACTGTTC
1 AAAGTTTCTCATTTAAGTCACTAAACTGATC
*
93536978 GAAAGTTTCT-ATTTAAGTCACTAGACTGAT-
1 -AAAGTTTCTCATTTAAGTCACTAAACTGATC
93537008 AAAGTTTCT
1 AAAGTTTCT
93537017 TTTTTCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.26
31 24 0.71
32 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (31 bp):
AAAGTTTCTCATTTAAGTCACTAAACTGATC
Found at i:93542554 original size:45 final size:46
Alignment explanation
Indices: 93542505--93542592 Score: 108
Period size: 45 Copynumber: 1.9 Consensus size: 46
93542495 CCCTGATAAT
*
93542505 AACTCTTCA-GAGTTACCTGTTAAGCTC-AATGAGCTTCATGTTCTA
1 AACTCTT-ATGAGTTACCTGTTAAGCTCGAATAAGCTTCATGTTCTA
* * * *
93542550 AACTCTTATGAGTTTCTTGTTTAGCTCGAATAAGCTTCCTGTT
1 AACTCTTATGAGTTACCTGTTAAGCTCGAATAAGCTTCATGTT
93542593 ACATGGCTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 1 0.03
45 22 0.61
46 13 0.36
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (46 bp):
AACTCTTATGAGTTACCTGTTAAGCTCGAATAAGCTTCATGTTCTA
Found at i:93544735 original size:3 final size:3
Alignment explanation
Indices: 93544727--93544782 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
93544717 AATTTATTGC
93544727 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
93544775 ATT ATT AT
1 ATT ATT AT
93544783 AACATAAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:93550036 original size:32 final size:32
Alignment explanation
Indices: 93549995--93550056 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
93549985 GCCATGGTAG
* *
93549995 GGGTCGTAGAGTGGCTTGAGCTGAGTCTTTAA
1 GGGTCGTAGAGAGGCTCGAGCTGAGTCTTTAA
93550027 GGGTCGTAGAGAGGCTCGAGCTGAGTCTTT
1 GGGTCGTAGAGAGGCTCGAGCTGAGTCTTT
93550057 CGTATCTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.15, G:0.39, T:0.29
Consensus pattern (32 bp):
GGGTCGTAGAGAGGCTCGAGCTGAGTCTTTAA
Found at i:93555948 original size:40 final size:40
Alignment explanation
Indices: 93555886--93555962 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
93555876 TACGGTATTC
* *
93555886 TTGGTGTGTAGGGTTAGATGGGTTGATTTTATCCCCATAT
1 TTGGTGTGTAGGGTGAGATGGGTCGATTTTATCCCCATAT
93555926 TTGGTGTGTAGGGATGAG-TGGGTCGATTTTATCCCCA
1 TTGGTGTGTAGGG-TGAGATGGGTCGATTTTATCCCCA
93555963 CATAGTGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 31 0.91
41 3 0.09
ACGTcount: A:0.17, C:0.12, G:0.32, T:0.39
Consensus pattern (40 bp):
TTGGTGTGTAGGGTGAGATGGGTCGATTTTATCCCCATAT
Found at i:93567498 original size:39 final size:39
Alignment explanation
Indices: 93567421--93567499 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
93567411 ATTCACATAA
* *
93567421 AATTTTAGTTGAAATCAAATTTTGAATTTGATCCGTGAT
1 AATTTTAGTTGAAATCAAATTTCGAATTCGATCCGTGAT
* * *
93567460 AATTTTAGTTGAAATCGAATTTCGAATTCGTTCTGTGAT
1 AATTTTAGTTGAAATCAAATTTCGAATTCGATCCGTGAT
93567499 A
1 A
93567500 CCCTCATCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (39 bp):
AATTTTAGTTGAAATCAAATTTCGAATTCGATCCGTGAT
Found at i:93573693 original size:26 final size:26
Alignment explanation
Indices: 93573660--93573769 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
93573650 TGATACAAAT
93573660 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
93573686 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93573712 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93573738 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93573764 TGATAA
1 TGATAA
93573770 GAATTCATGT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93579434 original size:26 final size:26
Alignment explanation
Indices: 93579391--93579499 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
93579381 TGATACAAAT
93579391 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
93579416 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93579442 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93579468 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93579494 TGATAA
1 TGATAA
93579500 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 7 0.09
26 71 0.91
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93589022 original size:2 final size:2
Alignment explanation
Indices: 93589015--93589045 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
93589005 AGTCATTACA
93589015 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93589046 ATTAGGTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93589277 original size:2 final size:2
Alignment explanation
Indices: 93589270--93589297 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
93589260 TTACTTTTAG
93589270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93589298 TTAATAGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93591961 original size:42 final size:42
Alignment explanation
Indices: 93591914--93591996 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
93591904 CAATAGAGTG
93591914 AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTTT
1 AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTTT
93591956 AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTT
1 AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTT
93591997 CTTACTAGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (42 bp):
AGCACTTTATAAGATCTAACTGATAACTGAATAAGGTTCTTT
Found at i:93592494 original size:2 final size:2
Alignment explanation
Indices: 93592489--93592530 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
93592479 CAGTGTGTAT
* *
93592489 TG TG TG TA TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
93592531 AGCAAAAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.05, C:0.00, G:0.45, T:0.50
Consensus pattern (2 bp):
TG
Found at i:93592504 original size:10 final size:10
Alignment explanation
Indices: 93592481--93592527 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
93592471 TGGAAGGTCA
93592481 GTGTGTATTGT
1 GTGTGTA-TGT
*
93592492 GTGTATATGT
1 GTGTGTATGT
*
93592502 GTGTGTGTGT
1 GTGTGTATGT
*
93592512 GTGTGTGTGT
1 GTGTGTATGT
93592522 GTGTGT
1 GTGTGT
93592528 GTGAGCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
10 27 0.82
11 6 0.18
ACGTcount: A:0.06, C:0.00, G:0.43, T:0.51
Consensus pattern (10 bp):
GTGTGTATGT
Found at i:93598534 original size:40 final size:40
Alignment explanation
Indices: 93598480--93598685 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 40
93598470 GCTCGATTGT
* * * * *
93598480 CTTCGGGACA-TAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGA-ATTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
93598520 CTTTGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAACCCGGTTTTAGTAACTCGCACAAATGC
* *
93598560 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
93598600 CTTCGGGACTTAACTCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAACCCGGTTTTAGTAACTCGCACAAATGC
* * * * * *
93598640 CTTCGGGAATTGACCCAGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAACCCGGTTTTAGTAAC-TCGCACAAATGC
93598681 CTTCG
1 CTTCG
93598686 AGACTTAGCC
Statistics
Matches: 143, Mismatches: 21, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 127 0.89
41 15 0.10
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (40 bp):
CTTCGGGAATTAACCCGGTTTTAGTAACTCGCACAAATGC
Found at i:93600681 original size:70 final size:70
Alignment explanation
Indices: 93600568--93600699 Score: 255
Period size: 70 Copynumber: 1.9 Consensus size: 70
93600558 TGAACTCTAA
93600568 CTCCCCCTAAACATCCACACGTCACTCCCCAAACACCTAGGTGGCGCCACATGCCACTTTACCAT
1 CTCCCCCTAAACATCCACACGTCACTCCCCAAACACCTAGGTGGCGCCACATGCCACTTTACCAT
93600633 TTTGG
66 TTTGG
*
93600638 CTCCCCTTAAACATCCACACGTCACTCCCCAAACACCTAGGTGGCGCCACATGCCACTTTAC
1 CTCCCCCTAAACATCCACACGTCACTCCCCAAACACCTAGGTGGCGCCACATGCCACTTTAC
93600700 TACATATCTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.20
Consensus pattern (70 bp):
CTCCCCCTAAACATCCACACGTCACTCCCCAAACACCTAGGTGGCGCCACATGCCACTTTACCAT
TTTGG
Found at i:93605873 original size:45 final size:43
Alignment explanation
Indices: 93605759--93605933 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 43
93605749 CGCTATATGT
* * * * *
93605759 AACGCCGTTAAAGATCATGACATTTAGTGGCG--TTTTTAAAA
1 AACGCCGCTAAAGACCAAGACTTTTAGCGGCGTTTTTTTAAAA
* * * *
93605800 AAAGCACTGCTAAAAGTCCTAGTC-TTTAGCGGCGTTTTTTTCAAACA
1 AACGC-C-GCT-AAAGACCAAGACTTTTAGCGGCGTTTTTTT-AAA-A
* * * *
93605847 AACGCCGCTAAAGACTAGGACTTTTAGCGGTGCTTTTTTAAAA
1 AACGCCGCTAAAGACCAAGACTTTTAGCGGCGTTTTTTTAAAA
*
93605890 AACGCCGCTAAAGACCAAGACTTTTAGTGGCG-TTTTTTAAAA
1 AACGCCGCTAAAGACCAAGACTTTTAGCGGCGTTTTTTTAAAA
93605932 AA
1 AA
93605934 GAGTCGCTAA
Statistics
Matches: 106, Mismatches: 20, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
41 4 0.04
42 13 0.12
43 40 0.38
44 17 0.16
45 23 0.22
46 4 0.04
47 5 0.05
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (43 bp):
AACGCCGCTAAAGACCAAGACTTTTAGCGGCGTTTTTTTAAAA
Found at i:93605903 original size:43 final size:43
Alignment explanation
Indices: 93605824--93605986 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 43
93605814 AGTCCTAGTC
*
93605824 TTTAGCGGCGTTTTTTTCAAACAAACGCCGCTAAAGACTAGGACT
1 TTTAGCGGCGCTTTTTT-AAA-AAACGCCGCTAAAGACTAGGACT
* * *
93605869 TTTAGCGGTGCTTTTTTAAAAAACGCCGCTAAAGACCAAGACT
1 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACTAGGACT
* * * * * * *
93605912 TTTAGTGGCG-TTTTTTAAAAAAGAGTCGCTAAAAATTGGGACC
1 TTTAGCGGCGCTTTTTTAAAAAA-CGCCGCTAAAGACTAGGACT
* * *
93605955 TTTAGCGGCGCTTTTATAAAAAATGCCACTAA
1 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
93605987 TTTGCCCAGT
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
42 12 0.12
43 56 0.58
44 14 0.14
45 15 0.15
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACTAGGACT
Found at i:93606308 original size:21 final size:21
Alignment explanation
Indices: 93606284--93606327 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
93606274 GTTCTGCTCT
93606284 GCCTCCCACGCTGCTGCCTCC
1 GCCTCCCACGCTGCTGCCTCC
*
93606305 GCCTCCCGCGCTGCTGCCTCC
1 GCCTCCCACGCTGCTGCCTCC
93606326 GC
1 GC
93606328 TCTAAGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.57, G:0.23, T:0.18
Consensus pattern (21 bp):
GCCTCCCACGCTGCTGCCTCC
Found at i:93606921 original size:17 final size:19
Alignment explanation
Indices: 93606884--93606921 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
93606874 TACAATATAG
*
93606884 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATCATTTAA
93606903 TAGTAAAAAT-TCA-TTAA
1 TAGTAAAAATATCATTTAA
93606920 TA
1 TA
93606922 CTATATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
TAGTAAAAATATCATTTAA
Found at i:93608852 original size:38 final size:38
Alignment explanation
Indices: 93608810--93608886 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
93608800 ATCTTCGTGA
93608810 GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
1 GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
93608848 GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
1 GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
93608886 G
1 G
93608887 TTAAAAACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (38 bp):
GCGTGAACGAGATCTTAAGACTTGTTTGTACTCACTAT
Found at i:93611916 original size:9 final size:9
Alignment explanation
Indices: 93611902--93612068 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
93611892 ATGTATTAGT
93611902 TAAGTTATG
1 TAAGTTATG
93611911 TAAGTTGTTATG
1 TAA---GTTATG
* *
93611923 TACGTTTTG
1 TAAGTTATG
*
93611932 TGAGTTATG
1 TAAGTTATG
*
93611941 TAAATTATG
1 TAAGTTATG
93611950 TAAGTTATG
1 TAAGTTATG
*
93611959 TGAGTTATG
1 TAAGTTATG
93611968 TAAGTTGTTATG
1 TAA---GTTATG
*
93611980 TAAATTATG
1 TAAGTTATG
93611989 TAAGTTATG
1 TAAGTTATG
*
93611998 TGAGTTATG
1 TAAGTTATG
93612007 TAATTTGTTATG
1 TAA---GTTATG
*
93612019 TAAATTATG
1 TAAGTTATG
*
93612028 TAAGTTATA
1 TAAGTTATG
*
93612037 TGAGTTATG
1 TAAGTTATG
93612046 TAAGTTATG
1 TAAGTTATG
* *
93612055 TAATTTATT
1 TAAGTTATG
93612064 TAAGT
1 TAAGT
93612069 AATGATCAAT
Statistics
Matches: 126, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
9 100 0.79
12 26 0.21
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:93611978 original size:39 final size:39
Alignment explanation
Indices: 93611935--93612051 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
93611925 CGTTTTGTGA
93611935 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
*
93611974 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAATTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
*
93612013 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
93612052 ATGTAATTTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:93612052 original size:48 final size:48
Alignment explanation
Indices: 93611902--93612060 Score: 171
Period size: 48 Copynumber: 3.3 Consensus size: 48
93611892 ATGTATTAGT
* * * * *
93611902 TAAGTTATGTAAGTTGTTATGTACGTTTTGTGAGTTATGTAAATTATG
1 TAAGTTATGTAATTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
* *
93611950 TAAGTTATGTGA---GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAATTTGTTATGTAA---GTTATGTAAGTTATGTAAGTTATG
* * * *
93611998 TGAGTTATGTAATTTGTTATGTAAATTATGTAAGTTATATGAGTTATG
1 TAAGTTATGTAATTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
93612046 TAAGTTATGTAATTT
1 TAAGTTATGTAATTT
93612061 ATTTAAGTAA
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
45 8 0.09
48 75 0.82
51 9 0.10
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (48 bp):
TAAGTTATGTAATTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:93612553 original size:18 final size:21
Alignment explanation
Indices: 93612512--93612553 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
93612502 ATACTTATTC
93612512 ATAATTAAGTTGAATCAAATA
1 ATAATTAAGTTGAATCAAATA
*
93612533 ATAATTAAGTTGAACCAAATA
1 ATAATTAAGTTGAATCAAATA
93612554 TAAAAACTTA
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:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (21 bp):
ATAATTAAGTTGAATCAAATA
Found at i:93612652 original size:23 final size:23
Alignment explanation
Indices: 93612626--93612675 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
93612616 GTTCAAGTTT
*
93612626 ATTTAAAGGGCTGTAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
93612649 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
93612672 ATTT
1 ATTT
93612676 GATTAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Done.