Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 218 of 318
Found at i:68559852 original size:41 final size:42
Alignment explanation
Indices: 68559743--68559904 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
68559733 ACCATACCAT
* * *
68559743 TGCCATATCCCAGATATGGTCTTATATGTAA-TCTTGTATCGA
1 TGCCATATCCCAGATATGGTCTTACACG-AAGTCTTATATCGA
*
68559785 TGCCAATAGCCCA-ACTATGGTCTTACACGAAGTCTTATATCGA
1 TGCC-ATATCCCAGA-TATGGTCTTACACGAAGTCTTATATCGA
* *
68559828 T-CCATATCCCAGATATGGTCTTACACGAAGTCTCATATTGA
1 TGCCATATCCCAGATATGGTCTTACACGAAGTCTTATATCGA
* * *
68559869 TGCCATACCCCAAATATGGTCTTACACGTAGTCTTA
1 TGCCATATCCCAGATATGGTCTTACACGAAGTCTTA
68559905 GTAACCCTAA
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
41 34 0.33
42 40 0.38
43 30 0.29
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
TGCCATATCCCAGATATGGTCTTACACGAAGTCTTATATCGA
Found at i:68562438 original size:2 final size:2
Alignment explanation
Indices: 68562433--68562463 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
68562423 TATATTTTTC
68562433 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
68562464 GAGAGAGAGA
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:68568897 original size:153 final size:153
Alignment explanation
Indices: 68568618--68568927 Score: 548
Period size: 153 Copynumber: 2.0 Consensus size: 153
68568608 ATACTTGCTC
* *
68568618 TGAAATGTAGTATTAAAGAATTCCCAATGTAACATTCCGAATTAGGGCCTAGTCAGAATAGTTGT
1 TGAAATGTAGTATTAAAGAATTCCCAATGTAACATCCCGAATTAGGGCCTAGTCAGAATAGTGGT
* *
68568683 TTCGGGACCACAAATCTGACGTTAAAATAATTATTTAATGATCATTATGAAGTCTACGATATGGG
66 TTCGGGACCACAAATCTAACATTAAAATAATTATTTAATGATCATTATGAAGTCTACGATATGGG
68568748 AATAAGCATGTGTTAAAGTTTCA
131 AATAAGCATGTGTTAAAGTTTCA
*
68568771 TGAAATGTAGTATTAAAGAATTCCCAATGTAACATCCCGAATTTGGGCCTAGTCAGAATAGTGGT
1 TGAAATGTAGTATTAAAGAATTCCCAATGTAACATCCCGAATTAGGGCCTAGTCAGAATAGTGGT
* *
68568836 TTCGGGACCACAAATCTAACATTAAAATAATTATTTTATGATCATTATGAAGTCTAGGATATGGG
66 TTCGGGACCACAAATCTAACATTAAAATAATTATTTAATGATCATTATGAAGTCTACGATATGGG
*
68568901 AATAATCATGTGTTAAAGTTTCA
131 AATAAGCATGTGTTAAAGTTTCA
68568924 TGAA
1 TGAA
68568928 GAAATTCTAT
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 149 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (153 bp):
TGAAATGTAGTATTAAAGAATTCCCAATGTAACATCCCGAATTAGGGCCTAGTCAGAATAGTGGT
TTCGGGACCACAAATCTAACATTAAAATAATTATTTAATGATCATTATGAAGTCTACGATATGGG
AATAAGCATGTGTTAAAGTTTCA
Found at i:68581716 original size:24 final size:24
Alignment explanation
Indices: 68581684--68581746 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
68581674 AATCTCAAAT
68581684 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
68581708 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
68581732 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
68581747 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:68583657 original size:37 final size:37
Alignment explanation
Indices: 68583593--68583668 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
68583583 TTACAAGACA
68583593 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
68583630 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
68583667 AA
1 AA
68583669 CATCGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:68587438 original size:19 final size:19
Alignment explanation
Indices: 68587388--68587440 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
68587378 ATATTTTTTT
*
68587388 ATTTTAT-TAATTGCAATA
1 ATTTTATATAATTTCAATA
* * *
68587406 ATTTTTTATTATTTTAATA
1 ATTTTATATAATTTCAATA
68587425 ATTTTATATAATTTCA
1 ATTTTATATAATTTCA
68587441 TTTAACATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTATATAATTTCAATA
Found at i:68587487 original size:21 final size:19
Alignment explanation
Indices: 68587450--68587489 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
68587440 ATTTAACATA
*
68587450 TTTTTATAATTTTAAAATT
1 TTTTTATAATTTAAAAATT
68587469 TTTTTATAAAATTTAAAAATT
1 TTTTTAT--AATTTAAAAATT
68587490 GATTAAGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTATAATTTAAAAATT
Found at i:68591698 original size:19 final size:20
Alignment explanation
Indices: 68591674--68591721 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
68591664 AAATAATAGT
68591674 TTGATTAAGATAA-TTAAAC
1 TTGATTAAGATAAGTTAAAC
*
68591693 TTGATTAAGTTAAGTTAAAC
1 TTGATTAAGATAAGTTAAAC
68591713 TTGATTAAG
1 TTGATTAAG
68591722 CCTAATTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGATTAAGATAAGTTAAAC
Found at i:68596274 original size:11 final size:11
Alignment explanation
Indices: 68596258--68596283 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
68596248 CATAACATAC
68596258 AAAACAATTTG
1 AAAACAATTTG
68596269 AAAACAATTTG
1 AAAACAATTTG
68596280 AAAA
1 AAAA
68596284 TTATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (11 bp):
AAAACAATTTG
Found at i:68596637 original size:2 final size:2
Alignment explanation
Indices: 68596630--68596662 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
68596620 AGATTTTTAA
68596630 AT 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 AT A
68596663 CATAAAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68598778 original size:44 final size:44
Alignment explanation
Indices: 68598715--68598831 Score: 135
Period size: 44 Copynumber: 2.7 Consensus size: 44
68598705 GGAGAACAGT
* * ***
68598715 TTGCTTCCTTACTACCTCAGAAAGATAAGACTACAATCTTTGGC
1 TTGCTCCCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAAC
* *
68598759 TTGCTCCCTTGCTACCTCAGGAAGATAAGGCTACAATCTTCAAC
1 TTGCTCCCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAAC
* * * *
68598803 CTGCTCTCTTGTTACCTCAGAGAGATAAG
1 TTGCTCCCTTGCTACCTCAGAAAGATAAG
68598832 GCTGGTGGCT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
TTGCTCCCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAAC
Found at i:68599100 original size:178 final size:178
Alignment explanation
Indices: 68598760--68599102 Score: 499
Period size: 178 Copynumber: 1.9 Consensus size: 178
68598750 ATCTTTGGCT
* * * *
68598760 TGCTCCCTTGCTACCTCAGGAAGATAAGGCTACAATCTTCAACCTGCTCTCTTGTTACCTCAGAG
1 TGCTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTCCAACCTGCTCTCTTGCTACCTCAGAG
* * *
68598825 AGATAAGGCTGGTGGCTAAAATTTACTCCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCG
66 AGATAAGGCTGGCGGCTAAAATCTACTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCG
* *
68598890 ATCTGCTTCACTACTATCTCAGGGAAATAAGATCTTCAATCTTCAGTC
131 ATATGCTTCACTACTATCTCAAGGAAATAAGATCTTCAATCTTCAGTC
* * *
68598938 TGCTTCCTTGCTACCTCAAGAAGATAAGACTACAATCTCCAACCTGCTCTCTTGCTACTTTAGAG
1 TGCTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTCCAACCTGCTCTCTTGCTACCTCAGAG
* * *
68599003 AGATAAGGCTGGCGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTCGCTATCTTCG
66 AGATAAGGCTGGCGGCTAAAATCTACTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCG
** * *
68599068 ATATGC-TCTACTGTTATCTTAAGGAGATAAGATCT
131 ATATGCTTC-ACTACTATCTCAAGGAAATAAGATCT
68599103 GTGAATTCAC
Statistics
Matches: 145, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
177 2 0.01
178 143 0.99
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (178 bp):
TGCTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTCCAACCTGCTCTCTTGCTACCTCAGAG
AGATAAGGCTGGCGGCTAAAATCTACTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCG
ATATGCTTCACTACTATCTCAAGGAAATAAGATCTTCAATCTTCAGTC
Found at i:68600292 original size:13 final size:13
Alignment explanation
Indices: 68600274--68600299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68600264 GCCTCTCCTC
68600274 TTTATTTTTTATT
1 TTTATTTTTTATT
68600287 TTTATTTTTTATT
1 TTTATTTTTTATT
68600300 AGGTCTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:68602568 original size:2 final size:2
Alignment explanation
Indices: 68602561--68602585 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68602551 AATGATTTAC
68602561 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 A
68602586 AACTAATAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68602843 original size:29 final size:28
Alignment explanation
Indices: 68602809--68602870 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
68602799 GGAATGAACT
68602809 ATATACAT-AATAGATTTGAAAAGAAATAG
1 ATATACATAAATAGATTT-AAAA-AAATAG
* *
68602838 ATATACCTAAATAGATTTAAAAAAATAT
1 ATATACATAAATAGATTTAAAAAAATAG
68602866 ATATA
1 ATATA
68602871 TATATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 10 0.33
29 11 0.37
30 9 0.30
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (28 bp):
ATATACATAAATAGATTTAAAAAAATAG
Found at i:68602872 original size:30 final size:29
Alignment explanation
Indices: 68602808--68602872 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
68602798 AGGAATGAAC
*
68602808 TATATACATAATAGATTTGAAAAGAAATA
1 TATATACATAATAGATTTGAAAAAAAATA
* *
68602837 GATATACCTAAATAGATTT-AAAAAAATATA
1 TATATACAT-AATAGATTTGAAAAAAA-ATA
68602867 TATATA
1 TATATA
68602873 TATATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (29 bp):
TATATACATAATAGATTTGAAAAAAAATA
Found at i:68607269 original size:24 final size:24
Alignment explanation
Indices: 68607241--68607288 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
68607231 AGCGACTTGA
68607241 TAGTGTGATGCTACCTCCGATGAT
1 TAGTGTGATGCTACCTCCGATGAT
68607265 TAGTGTGATGCTACCTCCGATGAT
1 TAGTGTGATGCTACCTCCGATGAT
68607289 GTCTACCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (24 bp):
TAGTGTGATGCTACCTCCGATGAT
Found at i:68607296 original size:16 final size:15
Alignment explanation
Indices: 68607270--68607300 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
68607260 ATGATTAGTG
68607270 TGATGCTACCTCCGA
1 TGATGCTACCTCCGA
68607285 TGATGTCTACCTCCGA
1 TGATG-CTACCTCCGA
68607301 ACTAACCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.29
Consensus pattern (15 bp):
TGATGCTACCTCCGA
Found at i:68608601 original size:46 final size:46
Alignment explanation
Indices: 68608551--68608680 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 46
68608541 ACATCTCGTA
**
68608551 GCCGATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTTGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCT-CATCTCAAG
* *
68608597 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATCTCAAG
* *
68608643 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTC
68608681 ACAAATAACC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 46 0.62
47 14 0.19
48 14 0.19
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATCTCAAG
Found at i:68610536 original size:27 final size:27
Alignment explanation
Indices: 68610473--68610537 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
68610463 CTTCATAATC
*
68610473 TCCCATGTTTATTGTCCAAGAGGACTA
1 TCCCATGTTTAGTGTCCAAGAGGACTA
* *
68610500 -CCCAGAGTTTAGTGTCCTAA-TGGACTA
1 TCCCA-TGTTTAGTGTCC-AAGAGGACTA
68610527 TCCCATGTTTA
1 TCCCATGTTTA
68610538 ATGTGTTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 4 0.13
27 21 0.68
28 6 0.19
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
TCCCATGTTTAGTGTCCAAGAGGACTA
Found at i:68619390 original size:26 final size:26
Alignment explanation
Indices: 68619350--68619406 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
68619340 AAGCATCAAA
* *
68619350 TATAATCCTTAGCATATCTAAACACC
1 TATAATCCTTAGCATAGCCAAACACC
*
68619376 TATAATCCTTGGCATAGCCAAACACC
1 TATAATCCTTAGCATAGCCAAACACC
68619402 TATAA
1 TATAA
68619407 ACACATTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (26 bp):
TATAATCCTTAGCATAGCCAAACACC
Found at i:68619654 original size:3 final size:3
Alignment explanation
Indices: 68619646--68619692 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
68619636 ATATAAAATA
68619646 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
68619693 AGCCCAAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:68625215 original size:14 final size:14
Alignment explanation
Indices: 68625196--68625222 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
68625186 AAAAAGAATA
68625196 AGGAAGAAGAGAAG
1 AGGAAGAAGAGAAG
68625210 AGGAAGAAGAGAA
1 AGGAAGAAGAGAA
68625223 ACTAATGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
AGGAAGAAGAGAAG
Found at i:68630665 original size:294 final size:294
Alignment explanation
Indices: 68630104--68630691 Score: 867
Period size: 294 Copynumber: 2.0 Consensus size: 294
68630094 CTCCTGTAGA
* * * *
68630104 ATCAATCGCCTCAACTCTTTATTGTTAGGCACACAAATTCGATCCCTGAAACACAAAACCTTGTA
1 ATCAATCACCTCAACTCTTTATTGTTAGGCACACAAATTCGAGCCCTAAAACACAAAACCTTATA
* *
68630169 ACTACTTAAACTAAAATCCGAAGTTTCACTTGAATCAATCTGTTGCAGACGTTAAACTAGAGACT
66 ACTACTTAAACTAAAATCCGAAGTTTCACTTGAATCAATCTATTGCAGACGTTAAACTAGAGACA
*
68630234 TATCACTCAACTGTTTAGATCGAATCTAATTGACCCAAGTTGGTTTAACCTGTAATTTAGCTAGC
131 TATCACTCAACTGTTTAGATCGAATCTAATTGACCCAAGTTGGTTTAACCTGCAATTTAGCTAGC
*
68630299 AAACTCCCATCCTCGAAAAAACTCAGACGAGCGAACATCACCCTCAGATCAATCATCGCTCTACA
196 AAACTCCCATCCTCGAAAAAACTCAGACGAGCGAACATCACCCTCAGATCAATCATCACTCTACA
* *
68630364 TCTAAGAGCATCTACCACCACATTAGCTTTATCG
261 GCTAAGAGCATCTACCACCACATTAGCCTTATCG
* *
68630398 ATCAATCACCTCAACTCTTTGTTGTTAGGCACACAAA-TCTGAGCCCTAAAACACAAAGCCTTAT
1 ATCAATCACCTCAACTCTTTATTGTTAGGCACACAAATTC-GAGCCCTAAAACACAAAACCTTAT
* ** ** * *
68630462 -AGTTGTTCAAACTAAAATTTGAAGTTTCACTTGAATCAATCTATTGTAGATGTTAAACTAGAGA
65 AACTACTT-AAACTAAAATCCGAAGTTTCACTTGAATCAATCTATTGCAGACGTTAAACTAGAGA
* * *
68630526 CATATCACTCAACTGTTTAGCTTGAATCTAATTGACCCATGTTGGTTTAACCTGCAATTTAGCTA
129 CATATCACTCAACTGTTTAGATCGAATCTAATTGACCCAAGTTGGTTTAACCTGCAATTTAGCTA
* * * ** *
68630591 GCAGACTCCCATCCTC-AAACAAACTCAGACGAGCGAACATCGCCCTCATATCGGTCATTACTCT
194 GCAAACTCCCATCCTCGAAA-AAACTCAGACGAGCGAACATCACCCTCAGATCAATCATCACTCT
*
68630655 ACGGCTAAGAGCATCTACCACCACATTAGCCTTATCG
258 ACAGCTAAGAGCATCTACCACCACATTAGCCTTATCG
68630692 GAATGGTATT
Statistics
Matches: 262, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
293 9 0.03
294 253 0.97
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (294 bp):
ATCAATCACCTCAACTCTTTATTGTTAGGCACACAAATTCGAGCCCTAAAACACAAAACCTTATA
ACTACTTAAACTAAAATCCGAAGTTTCACTTGAATCAATCTATTGCAGACGTTAAACTAGAGACA
TATCACTCAACTGTTTAGATCGAATCTAATTGACCCAAGTTGGTTTAACCTGCAATTTAGCTAGC
AAACTCCCATCCTCGAAAAAACTCAGACGAGCGAACATCACCCTCAGATCAATCATCACTCTACA
GCTAAGAGCATCTACCACCACATTAGCCTTATCG
Found at i:68638777 original size:32 final size:32
Alignment explanation
Indices: 68638736--68638800 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
68638726 ACGATAAAAG
68638736 TATATAAAAAAAATCATTATAAAGTGAAGCTT
1 TATATAAAAAAAATCATTATAAAGTGAAGCTT
68638768 TATATAAAAAAAATCATTATAAAGTGAAGCTT
1 TATATAAAAAAAATCATTATAAAGTGAAGCTT
68638800 T
1 T
68638801 CACATTAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.32
Consensus pattern (32 bp):
TATATAAAAAAAATCATTATAAAGTGAAGCTT
Found at i:68642852 original size:14 final size:14
Alignment explanation
Indices: 68642833--68642859 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
68642823 ACGTTCGATT
68642833 CTTCATCAACAAAG
1 CTTCATCAACAAAG
68642847 CTTCATCAACAAA
1 CTTCATCAACAAA
68642860 CGTTCGATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.04, T:0.22
Consensus pattern (14 bp):
CTTCATCAACAAAG
Found at i:68650541 original size:21 final size:19
Alignment explanation
Indices: 68650461--68650557 Score: 94
Period size: 19 Copynumber: 5.2 Consensus size: 19
68650451 TTAAAATATT
*
68650461 AAAATATTAAAAAATTATTA
1 AAAATAGTAAAAAATTA-TA
*
68650481 AAATTAG-AAAAAA-TATA
1 AAAATAGTAAAAAATTATA
68650498 AAAATTA-TAAAAAA-TATA
1 AAAA-TAGTAAAAAATTATA
* **
68650516 AAATATTGTAAAATTTTATA
1 AAA-ATAGTAAAAAATTATA
68650536 AAAATAGTAAAAAATTATA
1 AAAATAGTAAAAAATTATA
68650555 AAA
1 AAA
68650558 TTTTATAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
17 5 0.08
18 18 0.29
19 28 0.44
20 12 0.19
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATAGTAAAAAATTATA
Found at i:68650578 original size:29 final size:29
Alignment explanation
Indices: 68650433--68650583 Score: 127
Period size: 29 Copynumber: 5.3 Consensus size: 29
68650423 ATAAAAAAAT
* * *
68650433 AAAAACTAT-AAATTTTATTTAAAATATTA
1 AAAAATTATAAAATTTTA-TAAAAATAGTA
* * * *
68650462 AAATATTAAAAAATTAT-TAAAATTAG-A
1 AAAAATTATAAAATTTTATAAAAATAGTA
*
68650489 AAAAA-TATAAAA-ATTATAAAAAATA-TA
1 AAAAATTATAAAATTTTAT-AAAAATAGTA
* *
68650516 AAATATTGTAAAATTTTATAAAAATAGTA
1 AAAAATTATAAAATTTTATAAAAATAGTA
*
68650545 AAAAATTATAAAATTTTAT-AAAATCGTA
1 AAAAATTATAAAATTTTATAAAAATAGTA
68650573 AGAAAATTATA
1 A-AAAATTATA
68650584 CAAAATATAA
Statistics
Matches: 96, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
25 1 0.01
26 7 0.07
27 16 0.17
28 28 0.29
29 38 0.40
30 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAATTATAAAATTTTATAAAAATAGTA
Found at i:68650589 original size:39 final size:37
Alignment explanation
Indices: 68650494--68650594 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 37
68650484 TTAGAAAAAA
* **
68650494 TATAAAAATTATAAAAAATATAAAATATTGTAAAATTT
1 TATAAAAATTAT-AAAAATATAAAATATTATAAAATCG
*
68650532 TATAAAAA-TAGTAAAAAATTATAAAATTTTATAAAATCG
1 TATAAAAATTA-T-AAAAA-TATAAAATATTATAAAATCG
68650571 TA-AGAAAATTATACAAAATATAAA
1 TATA-AAAATTATA-AAAATATAAA
68650595 GAAATATAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
37 2 0.04
38 23 0.43
39 27 0.50
40 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (37 bp):
TATAAAAATTATAAAAATATAAAATATTATAAAATCG
Found at i:68650632 original size:9 final size:9
Alignment explanation
Indices: 68650452--68650615 Score: 88
Period size: 9 Copynumber: 17.7 Consensus size: 9
68650442 AAATTTTATT
68650452 TAAAATATTA
1 TAAAA-ATTA
*
68650462 -AAATATTA
1 TAAAAATTA
68650470 -AAAAATTA
1 TAAAAATTA
*
68650478 TTAAAATTA
1 TAAAAATTA
* *
68650487 GAAAAAATA
1 TAAAAATTA
68650496 TAAAAATTA
1 TAAAAATTA
*
68650505 TAAAAAATA
1 TAAAAATTA
*
68650514 TAAAATATTG
1 TAAAA-ATTA
*
68650524 TAAAATTTTA
1 TAAAA-ATTA
68650534 TAAAAA-TA
1 TAAAAATTA
68650542 GTAAAAAATTA
1 -T-AAAAATTA
*
68650553 T-AAAATTT
1 TAAAAATTA
68650561 TATAAAATCGTA
1 TA-AAAAT--TA
68650573 -AGAAAATTA
1 TA-AAAATTA
68650582 TACAAAA-TA
1 TA-AAAATTA
*
68650591 TAAAGAAATA
1 TAAA-AATTA
**
68650601 TAAATTTTA
1 TAAAAATTA
68650610 TAAAAA
1 TAAAAA
68650616 AAATTTATAA
Statistics
Matches: 119, Mismatches: 23, Indels: 25
0.71 0.14 0.15
Matches are distributed among these distances:
8 22 0.18
9 51 0.43
10 37 0.31
11 8 0.07
12 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:68650797 original size:19 final size:20
Alignment explanation
Indices: 68650775--68650864 Score: 57
Period size: 19 Copynumber: 4.8 Consensus size: 20
68650765 TTTTTATGAC
68650775 TTTTATA-AAATTTTACAAT
1 TTTTATATAAATTTTACAAT
***
68650794 TTTT-TATTTTTTTTACAAT
1 TTTTATATAAATTTTACAAT
* * * *
68650813 TTGTATAGAAA--ATATAAT
1 TTTTATATAAATTTTACAAT
*
68650831 TTTTA-ATAAATTTTAAAAT
1 TTTTATATAAATTTTACAAT
*
68650850 TTTTAT-TAAAATTTA
1 TTTTATATAAATTTTA
68650865 ATAAATTTTC
Statistics
Matches: 51, Mismatches: 15, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
17 4 0.08
18 11 0.22
19 34 0.67
20 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTATATAAATTTTACAAT
Found at i:68650844 original size:10 final size:10
Alignment explanation
Indices: 68650826--68650873 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
68650816 TATAGAAAAT
*
68650826 ATAATTTTTA
1 ATAAATTTTA
68650836 ATAAATTTTA
1 ATAAATTTTA
*
68650846 A-AATTTTTA
1 ATAAATTTTA
* *
68650855 TTAAAATTTA
1 ATAAATTTTA
68650865 ATAAATTTT
1 ATAAATTTT
68650874 CTAAAATTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATAAATTTTA
Found at i:68650865 original size:19 final size:20
Alignment explanation
Indices: 68650826--68650883 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
68650816 TATAGAAAAT
*
68650826 ATAATTTTTAATAAATTTTA
1 ATAATTTTTAATAAAATTTA
*
68650846 A-AATTTTTATTAAAATTTA
1 ATAATTTTTAATAAAATTTA
* *
68650865 ATAAATTTT-CTAAAATTTA
1 ATAATTTTTAATAAAATTTA
68650884 TTTTTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 26 0.79
20 7 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAATTTTTAATAAAATTTA
Found at i:68651173 original size:22 final size:23
Alignment explanation
Indices: 68651129--68651174 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
68651119 TTTGAAAACC
*
68651129 TTTTATTTATAACTCTAATATTT
1 TTTTATTTATAACTCTAAAATTT
68651152 TTTTATATTAT-ACT-TAAAATTT
1 TTTTAT-TTATAACTCTAAAATTT
68651174 T
1 T
68651175 ATTCAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 9 0.43
24 4 0.19
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTATTTATAACTCTAAAATTT
Found at i:68651522 original size:3 final size:3
Alignment explanation
Indices: 68651514--68651559 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
68651504 ATAGATTAAC
68651514 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
68651560 AAAAAATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:68656771 original size:3 final size:3
Alignment explanation
Indices: 68656763--68656791 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
68656753 TTAAATGAAT
68656763 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
68656792 TGCATGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:68660343 original size:42 final size:42
Alignment explanation
Indices: 68660294--68660401 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 42
68660284 TGAGATTATG
* * **
68660294 TGTAAGACCATATTTGAGATATGACATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGATCCCA
* * *
68660336 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGACATCGATATGAGATCCCA
68660379 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
68660402 GCAATGGTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 19 0.34
43 37 0.66
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGATCCCA
Found at i:68667000 original size:21 final size:22
Alignment explanation
Indices: 68666976--68667018 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
68666966 CCCTTTAGTG
*
68666976 GTATTGCGATATCCA-CTTCAA
1 GTATCGCGATATCCACCTTCAA
*
68666997 GTATCGTGATATCCACCTTCAA
1 GTATCGCGATATCCACCTTCAA
68667019 AGAGGACCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
GTATCGCGATATCCACCTTCAA
Found at i:68672147 original size:46 final size:46
Alignment explanation
Indices: 68672097--68672271 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
68672087 TGGTTGAGCA
68672097 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68672143 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
68672188 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
68672236 CCCG-ACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68672272 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 34 0.31
46 32 0.29
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68672212 original size:47 final size:47
Alignment explanation
Indices: 68672094--68672263 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 47
68672084 GGATGGTTGA
*
68672094 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
68672142 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
* *
68672185 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
68672235 GC--CCG-ACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
68672264 GCTTATGGGC
Statistics
Matches: 106, Mismatches: 7, Indels: 21
0.79 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 27 0.25
46 32 0.30
47 29 0.27
48 5 0.05
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:68678555 original size:48 final size:48
Alignment explanation
Indices: 68678482--68678578 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
68678472 CTCACACACT
* * *
68678482 AAGTGCTACTATCATGGCCCGAAGCCAAATCAATGTATCTCCCACCCG
1 AAGTGCTAATATCATGGCCCAAAGCCAAATCAATGAATCTCCCACCCG
*
68678530 AAGTGCTAATATCATGGCCCAAAGCCAAATCAATGAATCTCGCACCCG
1 AAGTGCTAATATCATGGCCCAAAGCCAAATCAATGAATCTCCCACCCG
68678578 A
1 A
68678579 TGTGTAACAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (48 bp):
AAGTGCTAATATCATGGCCCAAAGCCAAATCAATGAATCTCCCACCCG
Found at i:68679964 original size:21 final size:20
Alignment explanation
Indices: 68679940--68679978 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
68679930 CTTGTATAAC
68679940 TATCATCAAACATTCAAAATT
1 TATCATCAAACA-TCAAAATT
*
68679961 TATCATTAAACATCAAAA
1 TATCATCAAACATCAAAA
68679979 CACATGCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (20 bp):
TATCATCAAACATCAAAATT
Found at i:68681852 original size:28 final size:28
Alignment explanation
Indices: 68681783--68681883 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
68681773 GACAAGATTG
* * * *
68681783 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
68681813 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
68681841 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
68681870 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
68681884 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:68689807 original size:28 final size:28
Alignment explanation
Indices: 68689738--68689838 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
68689728 GACAAGATTG
* * * *
68689738 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
68689768 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
68689796 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
68689825 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
68689839 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:68692583 original size:29 final size:29
Alignment explanation
Indices: 68692543--68692615 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
68692533 AAAATTGTAC
* *
68692543 AGCACTAAGTGTGCGAGTTTGATTATATA-
1 AGCACTAAGTGTGCGAG-TTGAATACATAT
68692572 AGCACTAAGTGTGCGAGTTGAATACATAT
1 AGCACTAAGTGTGCGAGTTGAATACATAT
68692601 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68692616 GATTCACTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 9 0.22
29 32 0.78
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTGAATACATAT
Found at i:68700498 original size:28 final size:28
Alignment explanation
Indices: 68700429--68700529 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
68700419 GACAAGATTG
* * * *
68700429 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
68700459 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
68700487 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
68700516 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
68700530 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:68708429 original size:28 final size:28
Alignment explanation
Indices: 68708360--68708460 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
68708350 GACAAGATTG
* * * *
68708360 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
68708390 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
68708418 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
68708447 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
68708461 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:68711118 original size:16 final size:14
Alignment explanation
Indices: 68711087--68711113 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
68711077 TATGTGATAT
68711087 GTGTGAAAATTTTC
1 GTGTGAAAATTTTC
68711101 GTGTGAAAATTTT
1 GTGTGAAAATTTT
68711114 ATCGTTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (14 bp):
GTGTGAAAATTTTC
Found at i:68724680 original size:47 final size:47
Alignment explanation
Indices: 68724611--68724972 Score: 211
Period size: 47 Copynumber: 7.7 Consensus size: 47
68724601 GTATAATGCT
*
68724611 GATGCCATGTCCCAGCCATGGTCTTACACTAGCTCATCCATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTC
** * *
68724658 GATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATTGAAATCGAGATT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCA-T-CCATCAAG-TC
* * ** *
68724707 GACGCCATGTCTCAGACATGGTCTTACACTAGCTC-TCACATATCCTTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C--AT-CAAGTC
* * * * *
68724757 AATGCCATGTCCCAGACATGGTCTTACACT-GACACCTCTAT-ACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCCATCAAGT--C
* * * * *
68724805 GATGCCATGTCCCAAACATGGTCTTACATTAAG-ACAT-C-TCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-AGCTCATCCATC-AAGTC
* * *
68724851 GATG-CATGTCCAAGACAT-GTCTTACACTGGCTTACAT--ATCGAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC-T-CATCCATC-AAGTC
68724897 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTC-TCAA-TGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CATCAAGT-C
68724942 TGATGCCATGTCCCAGACAT-GTCTTACACTA
1 -GATGCCATGTCCCAGACATGGTCTTACACTA
68724973 ACACACAAAA
Statistics
Matches: 248, Mismatches: 38, Indels: 58
0.72 0.11 0.17
Matches are distributed among these distances:
43 2 0.01
44 10 0.04
45 16 0.06
46 54 0.22
47 57 0.23
48 40 0.16
49 32 0.13
50 33 0.13
51 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTC
Found at i:68724897 original size:46 final size:47
Alignment explanation
Indices: 68724712--68724972 Score: 184
Period size: 46 Copynumber: 5.5 Consensus size: 47
68724702 AGATTGACGC
* * *** *
68724712 CATGTCTCAGACATGGTCTTACACTAGCTCTCACATATCCTTGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATCTCGAAGCCGATG
* * *
68724761 CCATGTCCCAGACATGGTCTTACACT-GACACCT-CTAT-ACG-TGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAG-C-TCTAC-ATCTCGAAGCCGATG
* * *
68724809 CCATGTCCCAAACATGGTCTTACATTAAG----ACATCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACT-AGCTCTACATCTCGAAGCCGATG
* * *
68724855 CATGTCCAAGACATGTCTTACACTGGCT-TACATATCGAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAAGCCGATG
* *
68724901 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTC-AATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAA-GCCGATG
68724947 CCATGTCCCAGACATGTCTTACACTA
1 -CATGTCCCAGACATGTCTTACACTA
68724973 ACACACAAAA
Statistics
Matches: 177, Mismatches: 20, Indels: 31
0.78 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 11 0.06
45 17 0.10
46 58 0.33
47 26 0.15
48 31 0.18
49 3 0.02
50 28 0.16
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAAGCCGATG
Found at i:68724971 original size:93 final size:93
Alignment explanation
Indices: 68724611--68724971 Score: 312
Period size: 99 Copynumber: 3.8 Consensus size: 93
68724601 GTATAATGCT
* *
68724611 GATGCCATGTCCCAGCCATGGTCTTACACTAGCTCATC-CATCAAGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGC-TCAAGCCGATGCCATGTCCCAGAC
** * **
68724675 ATGGTCTTACACTGACTATTGAAATCGAGATT
64 ATGGTCTTACACTGACT-TACATATCGAG-CC
* * * ** *
68724707 GACGCCATGTCTCAGACATGGTCTTACACTAGCTCTCACATATCCTTGCCAATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGC---T-CAAGCCGATGCCATGTCCCAG
* *
68724772 ACATGGTCTTACACTGAC--ACCTCTATACGTGCC
62 ACATGGTCTTACACTGACTTA-C-ATAT-CGAGCC
* * *
68724805 GATGCCATGTCCCAAACATGGTCTTACATTAAGACATCTCG-T--AGCCGATG-CATGTCCAAGA
1 GATGCCATGTCCCAGACATGGTCTTACACT-AG-C-TCTCGCTCAAGCCGATGCCATGTCCCAGA
*
68724866 CAT-GTCTTACACTGGCTTACATATCGAAGCC
63 CATGGTCTTACACTGACTTACATATCG-AGCC
*
68724897 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCTGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCG-CTCAA-GCCGATGCCATGTCCCAGAC
68724960 AT-GTCTTACACT
64 ATGGTCTTACACT
68724972 AACACACAAA
Statistics
Matches: 217, Mismatches: 29, Indels: 41
0.76 0.10 0.14
Matches are distributed among these distances:
87 5 0.02
88 1 0.00
89 3 0.01
90 9 0.04
91 16 0.07
92 28 0.13
93 37 0.17
94 7 0.03
95 2 0.01
96 33 0.15
97 1 0.00
98 30 0.14
99 40 0.18
100 1 0.00
101 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCTCAAGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGACTTACATATCGAGCC
Found at i:68729512 original size:27 final size:28
Alignment explanation
Indices: 68729455--68729524 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
68729445 AAATTTGTAC
**
68729455 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
68729483 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
68729510 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68729525 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:68729533 original size:27 final size:27
Alignment explanation
Indices: 68729455--68729536 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
68729445 AAATTTGTAC
* *
68729455 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
68729483 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
68729510 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
68729537 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:68737435 original size:27 final size:28
Alignment explanation
Indices: 68737378--68737447 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
68737368 AAATTTGTAC
**
68737378 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
68737406 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
68737433 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68737448 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:68737456 original size:27 final size:27
Alignment explanation
Indices: 68737378--68737459 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
68737368 AAATTTGTAC
* *
68737378 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
68737406 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
68737433 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
68737460 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:68742177 original size:30 final size:30
Alignment explanation
Indices: 68742143--68742202 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
68742133 TATTTTATCA
*
68742143 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
68742173 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
68742203 CTTGTTAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:68751893 original size:49 final size:49
Alignment explanation
Indices: 68751821--68752052 Score: 311
Period size: 49 Copynumber: 4.7 Consensus size: 49
68751811 CTGGTGCGCA
* *
68751821 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
* ** *
68751870 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGGTACACG
* * * * *
68751920 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGGTACACG
* *
68751971 TAGTAGCCTGCTCTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
*
68752020 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
68752053 TTACAATAGC
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 72 0.46
50 48 0.31
51 37 0.24
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
Found at i:68752043 original size:100 final size:99
Alignment explanation
Indices: 68751821--68752052 Score: 331
Period size: 100 Copynumber: 2.3 Consensus size: 99
68751811 CTGGTGCGCA
* * * *
68751821 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
*
68751886 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * *
68751920 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCTCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** *
68751985 TAGTACTACACATGCGACC-AATTATCTGGTACACG
64 TAGTACTACACACGCGACCTAACCATCTGATACACG
68752020 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
68752053 TTACAATAGC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 30 0.25
100 47 0.40
101 41 0.35
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:68752733 original size:30 final size:30
Alignment explanation
Indices: 68752699--68752758 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
68752689 CTTTAATACG
68752699 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
68752729 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
68752759 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:68758834 original size:43 final size:44
Alignment explanation
Indices: 68758714--68758834 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 44
68758704 AGCTCGTACA
* * *
68758714 ATGCCAACGTCCCAAACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAAATATCG
* * * * * *
68758757 ATGCCACTATCCTAGATAGGGTCTTACACG-AAATCAAATA-CG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAAATATCG
*
68758799 ATGTCAATGTCCCAAACATGGTCTTACACGTAAATC
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATC
68758835 TCAAATTGAT
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (44 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAAATATCG
Found at i:68760190 original size:22 final size:22
Alignment explanation
Indices: 68760164--68760208 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
68760154 ATTATGTGTA
68760164 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
68760186 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
68760208 T
1 T
68760209 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:68760628 original size:24 final size:25
Alignment explanation
Indices: 68760584--68760635 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
68760574 ACCCATCTCA
*
68760584 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCTCTCATTGTTC
68760609 TCTCTTCA-TTCTCT-TCCATTGTTC
1 TCTCTTCACTTCTCTCT-CATTGTTC
68760633 TCT
1 TCT
68760636 ATTTTCTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 16 0.64
25 8 0.32
ACGTcount: A:0.08, C:0.35, G:0.02, T:0.56
Consensus pattern (25 bp):
TCTCTTCACTTCTCTCTCATTGTTC
Found at i:68774696 original size:25 final size:25
Alignment explanation
Indices: 68774668--68774717 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
68774658 CGAAATAGGG
*
68774668 TTACGGAGAATTACCATAAAATTGT
1 TTACAGAGAATTACCATAAAATTGT
* *
68774693 TTACAGAGCATTAGCATAAAATTGT
1 TTACAGAGAATTACCATAAAATTGT
68774718 AACTTAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (25 bp):
TTACAGAGAATTACCATAAAATTGT
Found at i:68782349 original size:12 final size:12
Alignment explanation
Indices: 68782332--68782361 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
68782322 GGACACGCAG
68782332 CCGTGTCCAAGC
1 CCGTGTCCAAGC
*
68782344 CCGTGTCCATGC
1 CCGTGTCCAAGC
68782356 CCGTGT
1 CCGTGT
68782362 AACTCTCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.40, G:0.27, T:0.23
Consensus pattern (12 bp):
CCGTGTCCAAGC
Found at i:68783419 original size:40 final size:40
Alignment explanation
Indices: 68783364--68783500 Score: 220
Period size: 40 Copynumber: 3.4 Consensus size: 40
68783354 AAACATGGAA
*
68783364 ACGTATGTGCAATCAGTGGTACCAAAGTACAAATAGGGGC
1 ACGTATGTGCAATCAGGGGTACCAAAGTACAAATAGGGGC
*
68783404 ACGTATGTGCAATCAGGGGTACCGAAGTACAAATAGGGGC
1 ACGTATGTGCAATCAGGGGTACCAAAGTACAAATAGGGGC
* * *
68783444 ACGTATATGCAATCAGGGGTACCAAGGTACAGATAGGGGC
1 ACGTATGTGCAATCAGGGGTACCAAAGTACAAATAGGGGC
*
68783484 ACGTGTGTGCAATCAGG
1 ACGTATGTGCAATCAGG
68783501 TATAAGTACC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.19
Consensus pattern (40 bp):
ACGTATGTGCAATCAGGGGTACCAAAGTACAAATAGGGGC
Found at i:68783441 original size:20 final size:20
Alignment explanation
Indices: 68783381--68783442 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
68783371 TGCAATCAGT
*
68783381 GGTACCAAAGTACAAATAGG
1 GGTACCGAAGTACAAATAGG
* * *
68783401 GGCA-CGTATGTGC-AATCAGG
1 GGTACCG-AAGTACAAAT-AGG
68783421 GGTACCGAAGTACAAATAGG
1 GGTACCGAAGTACAAATAGG
68783441 GG
1 GG
68783443 CACGTATATG
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
19 4 0.13
20 22 0.71
21 5 0.16
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.16
Consensus pattern (20 bp):
GGTACCGAAGTACAAATAGG
Found at i:68783461 original size:20 final size:20
Alignment explanation
Indices: 68783398--68783462 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
68783388 AAGTACAAAT
*
68783398 AGGGGCACGTATGTGCAATC
1 AGGGGCACGTATATGCAATC
* *
68783418 AGGGGTACCG-A-AGTACAAAT-
1 AGGGGCA-CGTATA-TGC-AATC
68783438 AGGGGCACGTATATGCAATC
1 AGGGGCACGTATATGCAATC
68783458 AGGGG
1 AGGGG
68783463 TACCAAGGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
19 5 0.15
20 23 0.68
21 6 0.18
ACGTcount: A:0.31, C:0.17, G:0.35, T:0.17
Consensus pattern (20 bp):
AGGGGCACGTATATGCAATC
Found at i:68785739 original size:45 final size:47
Alignment explanation
Indices: 68785686--68785796 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 47
68785676 TCCATATAGG
* *
68785686 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTTTATTTATATTGTTAGAACAAGGTGTTTCAACCTT
* ** *
68785731 ATTACACTTAATCTATTTGATATTGGTTAGAACAAGGTGTTTCAACCTT
1 ACTACACTTCTTTTATTT-ATATT-GTTAGAACAAGGTGTTTCAACCTT
*
68785780 ACTACACTCCTTTTATT
1 ACTACACTTCTTTTATT
68785797 AGAATATAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
45 14 0.27
47 4 0.08
49 33 0.65
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (47 bp):
ACTACACTTCTTTTATTTATATTGTTAGAACAAGGTGTTTCAACCTT
Found at i:68795128 original size:17 final size:17
Alignment explanation
Indices: 68795088--68795134 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
68795078 CAGAAGCTCG
68795088 ATAAAATAATTATAATA
1 ATAAAATAATTATAATA
68795105 A-AGAAATAA-TATTAATA
1 ATA-AAATAATTA-TAATA
*
68795122 ATAAAATTATTAT
1 ATAAAATAATTAT
68795135 TTAAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
16 3 0.12
17 19 0.76
18 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAAAATAATTATAATA
Found at i:68797542 original size:14 final size:13
Alignment explanation
Indices: 68797515--68797540 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68797505 TAAAAGTATT
68797515 TAATTTTTTAAAA
1 TAATTTTTTAAAA
68797528 TAATTTTTTAAAA
1 TAATTTTTTAAAA
68797541 ATTTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAATTTTTTAAAA
Found at i:68800440 original size:21 final size:21
Alignment explanation
Indices: 68800414--68800454 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
68800404 GCTTTTCTGC
68800414 TGCTGGGTTGATCTTCATTTT
1 TGCTGGGTTGATCTTCATTTT
68800435 TGCTGGGTTGATCTTCATTT
1 TGCTGGGTTGATCTTCATTT
68800455 GTTTGCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (21 bp):
TGCTGGGTTGATCTTCATTTT
Found at i:68804997 original size:28 final size:28
Alignment explanation
Indices: 68804965--68805022 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
68804955 TATCTTCCAT
68804965 TAAAATTCATTCTTACAAACCAATCAAG
1 TAAAATTCATTCTTACAAACCAATCAAG
68804993 TAAAATTCATTCTTACAAACCAATCAAG
1 TAAAATTCATTCTTACAAACCAATCAAG
68805021 TA
1 TA
68805023 TGATTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (28 bp):
TAAAATTCATTCTTACAAACCAATCAAG
Found at i:68806135 original size:13 final size:13
Alignment explanation
Indices: 68806117--68806141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68806107 TAAAATAAAA
68806117 GAAATAAAGAAAT
1 GAAATAAAGAAAT
68806130 GAAATAAAGAAA
1 GAAATAAAGAAA
68806142 AAGGAAAGAA
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:68811597 original size:29 final size:28
Alignment explanation
Indices: 68811564--68811678 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 28
68811554 GCATGAGTGT
*
68811564 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCC-AATGGGCCATATG
* *
68811593 AATATGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCC-AATGGGCCATATG
* * *
68811622 AATATAAACTGGGCCAGATGGGTCATATG
1 AATATGAATTGGGCCA-ATGGGCCATATG
* *
68811651 AATGTG-ATTGGGACCAGTGGGCCATATG
1 AATATGAATTGGG-CCAATGGGCCATATG
68811679 CATGTATCTA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
28 16 0.23
29 55 0.77
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (28 bp):
AATATGAATTGGGCCAATGGGCCATATG
Found at i:68814267 original size:18 final size:19
Alignment explanation
Indices: 68814234--68814282 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
68814224 CAGTAGTCGG
68814234 CCAAGGTGGTGCTCAA-CCA
1 CCAAGG-GGTGCTCAACCCA
*
68814253 CCAAGGGGTGGTCAACTGCCA
1 CCAAGGGGTGCTCAAC--CCA
68814274 CCAAGGGGT
1 CCAAGGGGT
68814283 CGTGGCCAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
19 6 0.23
21 12 0.46
ACGTcount: A:0.24, C:0.29, G:0.33, T:0.14
Consensus pattern (19 bp):
CCAAGGGGTGCTCAACCCA
Found at i:68815938 original size:16 final size:16
Alignment explanation
Indices: 68815896--68815938 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
68815886 ATGAATCGCC
*
68815896 AAAAGCTAAAATGCCA
1 AAAAGCTGAAATGCCA
* *
68815912 AAAAGCCGAAATGCCG
1 AAAAGCTGAAATGCCA
*
68815928 AAGAGCTGAAA
1 AAAAGCTGAAA
68815939 GTTGGGCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCTGAAATGCCA
Found at i:68816187 original size:29 final size:29
Alignment explanation
Indices: 68816154--68816268 Score: 153
Period size: 29 Copynumber: 4.0 Consensus size: 29
68816144 GTATTAGTAT
*
68816154 AATATGAATTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCCAATGGGCCATATG
* *
68816183 AATATGAATTGGGCCCAGTGGGCCATAAG
1 AATATGAATTGGGCCCAATGGGCCATATG
* *
68816212 AATATGAACTAGG-CCAGATGGGCCATATG
1 AATATGAATTGGGCCCA-ATGGGCCATATG
*
68816241 AATGTG-ATTGGGCCCAATGGGCCATATG
1 AATATGAATTGGGCCCAATGGGCCATATG
68816269 CATGTATGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
28 19 0.26
29 55 0.74
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (29 bp):
AATATGAATTGGGCCCAATGGGCCATATG
Found at i:68819874 original size:45 final size:45
Alignment explanation
Indices: 68819823--68819911 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
68819813 GCAAGTGATC
*
68819823 ACAATGTAGAAGTTGTCCTTCGGCAAAGAATCAGGAAGGAACCCT
1 ACAATGTAGAAGTTGTCCTTAGGCAAAGAATCAGGAAGGAACCCT
68819868 ACAATGTAGAAGTTGTCCTTAGGCAAAGAATCAGGAAGGAACCC
1 ACAATGTAGAAGTTGTCCTTAGGCAAAGAATCAGGAAGGAACCC
68819912 CACGCATCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (45 bp):
ACAATGTAGAAGTTGTCCTTAGGCAAAGAATCAGGAAGGAACCCT
Found at i:68821560 original size:14 final size:15
Alignment explanation
Indices: 68821541--68821588 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 15
68821531 AATTCTCATA
68821541 TTTAATTTATTT-AT
1 TTTAATTTATTTAAT
68821555 TTTAATTTATTTAAT
1 TTTAATTTATTTAAT
*
68821570 TTTGAATTTGGTTTAAT
1 TTT-AATTT-ATTTAAT
68821587 TT
1 TT
68821589 ATGTTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 12 0.40
15 5 0.17
16 5 0.17
17 8 0.27
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTAATTTATTTAAT
Found at i:68825835 original size:25 final size:24
Alignment explanation
Indices: 68825806--68825861 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
68825796 ATGAATAGAA
*
68825806 TTTTTAATAAAATTATTAATTTACT
1 TTTTTAATAAAATAATTAATTTA-T
* * *
68825831 TTTTTTATGAAATAATTTATTTAT
1 TTTTTAATAAAATAATTAATTTAT
68825855 TTTTTAA
1 TTTTTAA
68825862 AATAAACAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTTAATAAAATAATTAATTTAT
Found at i:68825847 original size:21 final size:21
Alignment explanation
Indices: 68825822--68825866 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
68825812 ATAAAATTAT
*
68825822 TAATTTACTTT-TTTTATGAAA
1 TAATTTA-TTTATTTTATAAAA
*
68825843 TAATTTATTTATTTTTTAAAA
1 TAATTTATTTATTTTATAAAA
68825864 TAA
1 TAA
68825867 ACAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TAATTTATTTATTTTATAAAA
Found at i:68827037 original size:20 final size:20
Alignment explanation
Indices: 68827008--68827045 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
68826998 CAATTTATAA
68827008 AAAAAACTCAAAAAAATTAT
1 AAAAAACTCAAAAAAATTAT
* *
68827028 AAAAAGCTCATAAAAATT
1 AAAAAACTCAAAAAAATT
68827046 CAAAACAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAAACTCAAAAAAATTAT
Found at i:68828896 original size:20 final size:18
Alignment explanation
Indices: 68828853--68828885 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
68828843 TTAATAAAAA
68828853 ATTT-AACTATATTAATT
1 ATTTGAACTATATTAATT
68828870 ATTTGAACTA-ATTAAT
1 ATTTGAACTATATTAAT
68828886 AATATTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (18 bp):
ATTTGAACTATATTAATT
Found at i:68834898 original size:126 final size:125
Alignment explanation
Indices: 68834661--68835177 Score: 615
Period size: 126 Copynumber: 4.1 Consensus size: 125
68834651 AGCACCCTTG
* * * * * *
68834661 ACTATTGTAGAAAAAGTGTGTCGACATGAGAG-TTTTTTCATCAATTTTGCTGATAGTGCATCCT
1 ACTACTGTAGAAAAAGAGCGTCGACATGGGAGCTTTTTTCAT-AATTTTACTGACAGTGCATCCT
* * * *
68834725 GCTTGAAGCGTTTTTGACTCTATTTGTTCAGAACCATCTTTTTAAAATTATTTTTTCAAGA
65 GCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAGA
* * *
68834786 ACTACTGTAGAAAAAGAGCGTCGATATGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCAT
1 ACTACTGTAGAAAAAGAGCGTCGACATGGGAGCTTTTTTCAT-AATTTTACTGACAGTGCATCCT
* *
68834851 GCCTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATT-TTTTTTCAAGA
65 GCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAGA
* * * * *
68834911 ACTACTATAGAAAAATAGCGTCCACATGGGAGCTTTTTTCGGTAATTTTATTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGCGTCGACATGGGAGCTTTTTTC-ATAATTTTACTGACAGTGCATCCT
* * * * * * *
68834976 ACTTGAAGCGCTTCTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTTTAGGA
65 GCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAGA
* * ** * * * * * *
68835037 ATTACTGTAAAAAAAGAATGTCTACGTGTGAGCTTTTTTTAGTATTTTTACTGATAGTGCATCCT
1 ACTACTGTAGAAAAAGAGCGTCGACATGGGAGCTTTTTTCA-TAATTTTACTGACAGTGCATCCT
* * * *
68835102 GCTTGAAGCGTTTTTTACACTATTTGTTTAGAACCGTATTCTCAAAATTATTTTTTCAGGA
65 GCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAGA
68835163 ACTACTGTAGAAAAA
1 ACTACTGTAGAAAAA
68835178 AAATCCTTAT
Statistics
Matches: 333, Mismatches: 55, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
125 135 0.41
126 198 0.59
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (125 bp):
ACTACTGTAGAAAAAGAGCGTCGACATGGGAGCTTTTTTCATAATTTTACTGACAGTGCATCCTG
CTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAAGA
Found at i:68835137 original size:251 final size:252
Alignment explanation
Indices: 68834715--68835177 Score: 642
Period size: 251 Copynumber: 1.8 Consensus size: 252
68834705 TTTTGCTGAT
* * * * * *
68834715 AGTGCATCCTGCTTGAAGCGTTTTTGACTCTATTTGTTCAGAACCATCTTTTTAAAATTATTTTT
1 AGTGCATCCTACTTGAAGCGCTTCTGACACTATTTGTTCAGAAACATCTTTTCAAAATTATTTTT
* * * *
68834780 TCAAGAACTACTGTAGAAAAAGAGCGTCGATATGGGAGCTTTTTTCATCAATTTTGCTGACAGTG
66 TCAAGAACTACTGTAAAAAAAGAACGTCGACATGGGAGCTTTTTTCATCAATTTTACTGACAGTG
*
68834845 CATCATGCCTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATT-TTTTTTCAA
131 CATCATGCCTGAAGCATTTTTGACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAA
68834909 GAACTACTATAGAAAAATAGCGTCCACATGGGAGCTTTTTTCGGTAATTTTATTGAC
196 GAACTACTATAGAAAAATAGCGTCCACATGGGAGCTTTTTTCGGTAATTTTATTGAC
*
68834966 AGTGCATCCTACTTGAAGCGCTTCTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTT
1 AGTGCATCCTACTTGAAGCGCTTCTGACACTATTTGTTCAGAAACATCTTTTCAAAATTATTTTT
* * * * * * * * * *
68835031 TTAGGAATTACTGTAAAAAAAGAATGTCTACGTGTGAGCTTTTTTTAGT-ATTTTTACTGATAGT
66 TCAAGAACTACTGTAAAAAAAGAACGTCGACATGGGAGCTTTTTTCA-TCAATTTTACTGACAGT
* * * * *
68835095 GCATCCTGCTTGAAGCGTTTTTTACACTATTTGTTTAGAACCGTATTCTCAAAATTATTTTTTCA
130 GCATCATGCCTGAAGCATTTTTGACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCA
* *
68835160 GGAACTACTGTAGAAAAA
195 AGAACTACTATAGAAAAA
68835178 AAATCCTTAT
Statistics
Matches: 181, Mismatches: 29, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
251 156 0.86
252 25 0.14
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (252 bp):
AGTGCATCCTACTTGAAGCGCTTCTGACACTATTTGTTCAGAAACATCTTTTCAAAATTATTTTT
TCAAGAACTACTGTAAAAAAAGAACGTCGACATGGGAGCTTTTTTCATCAATTTTACTGACAGTG
CATCATGCCTGAAGCATTTTTGACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAA
GAACTACTATAGAAAAATAGCGTCCACATGGGAGCTTTTTTCGGTAATTTTATTGAC
Found at i:68835282 original size:34 final size:33
Alignment explanation
Indices: 68835233--68835343 Score: 143
Period size: 34 Copynumber: 3.3 Consensus size: 33
68835223 CACAATATTC
68835233 TTTTTTAAAAA-ACTAAACCCTAATTTAATTAA
1 TTTTTTAAAAACACTAAACCCTAATTTAATTAA
* *
68835265 TTTTCTTAAAAACACTAAACCCTAGTTTAATTTA
1 TTTT-TTAAAAACACTAAACCCTAATTTAATTAA
* * *
68835299 TTTATTTTAAACCCCTAAACCCTAATTTAATTAA
1 TTT-TTTAAAAACACTAAACCCTAATTTAATTAA
*
68835333 TTTTTAAAAAA
1 TTTTTTAAAAA
68835344 GAACACTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
32 4 0.06
33 12 0.18
34 49 0.74
35 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.01, T:0.41
Consensus pattern (33 bp):
TTTTTTAAAAACACTAAACCCTAATTTAATTAA
Found at i:68835490 original size:24 final size:24
Alignment explanation
Indices: 68835449--68835496 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
68835439 TTATTTTAAC
* * *
68835449 AAAACCCGAACCCTAAAAATCATA
1 AAAACCCGAAACCAAAAAACCATA
*
68835473 AAAACCCTAAACCAAAAAACCATA
1 AAAACCCGAAACCAAAAAACCATA
68835497 GGGACTAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.58, C:0.29, G:0.02, T:0.10
Consensus pattern (24 bp):
AAAACCCGAAACCAAAAAACCATA
Found at i:68836603 original size:8 final size:8
Alignment explanation
Indices: 68836590--68836627 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
68836580 TAAGTAAATA
68836590 TATTATAT
1 TATTATAT
68836598 TATTATAT
1 TATTATAT
* *
68836606 AATAATA-
1 TATTATAT
68836613 TATTATAT
1 TATTATAT
68836621 TATTATA
1 TATTATA
68836628 AGAAATAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TATTATAT
Found at i:68837691 original size:40 final size:40
Alignment explanation
Indices: 68837570--68837711 Score: 148
Period size: 40 Copynumber: 3.6 Consensus size: 40
68837560 GACTTCAAGT
* *
68837570 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATATATT
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGGAT-TATC
* * *
68837611 CGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGC
1 CGATGAGGCACTGGGTGTCAAATTATTACTTCGGATTATC
* **
68837648 CGATG-GGACATTGGGTGTCAAATTATTACTTCACATTATC
1 CGATGAGG-CACTGGGTGTCAAATTATTACTTCGGATTATC
* *
68837688 CGATGAGGCATTGGGTGCCAAATT
1 CGATGAGGCACTGGGTGTCAAATT
68837712 GGTGTGTTTG
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
36 2 0.02
37 15 0.18
38 13 0.15
39 2 0.02
40 34 0.40
41 18 0.21
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (40 bp):
CGATGAGGCACTGGGTGTCAAATTATTACTTCGGATTATC
Found at i:68841504 original size:10 final size:10
Alignment explanation
Indices: 68841483--68841610 Score: 70
Period size: 10 Copynumber: 12.8 Consensus size: 10
68841473 CCAATAGAAG
68841483 TTATAGAAAAA
1 TTATA-AAAAA
68841494 TTATAAAAAA
1 TTATAAAAAA
68841504 TTATAGAAAAA
1 TTATA-AAAAA
* *
68841515 -TATTTAAAAT
1 TTA-TAAAAAA
*
68841525 TTATTAAAAA
1 TTATAAAAAA
*
68841535 -TAGAAAAAAA
1 TTA-TAAAAAA
68841545 TTAT-AAAAA
1 TTATAAAAAA
* * *
68841554 TCA-CAAAAG
1 TTATAAAAAA
68841563 TTAT-AAAAA
1 TTATAAAAAA
* *
68841572 -TAGTAAAGTAT
1 TTA-TAAA-AAA
68841583 TTATAAAAAA
1 TTATAAAAAA
*
68841593 TTGTAAAAAA
1 TTATAAAAAA
68841603 TTATAAAA
1 TTATAAAA
68841611 TATATAGTGA
Statistics
Matches: 90, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
8 2 0.02
9 20 0.22
10 46 0.51
11 20 0.22
12 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:68841523 original size:21 final size:21
Alignment explanation
Indices: 68841483--68841553 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
68841473 CCAATAGAAG
68841483 TTATAGAAAAAT-TATAAAAAA
1 TTATAGAAAAATAT-TAAAAAA
* *
68841504 TTATAGAAAAATATTTAAAAT
1 TTATAGAAAAATATTAAAAAA
* **
68841525 TTAT-TAAAAATAGAAAAAAA
1 TTATAGAAAAATATTAAAAAA
68841545 TTATA-AAAA
1 TTATAGAAAA
68841554 TCACAAAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
20 19 0.46
21 21 0.51
22 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (21 bp):
TTATAGAAAAATATTAAAAAA
Found at i:68841696 original size:20 final size:20
Alignment explanation
Indices: 68841483--68841697 Score: 67
Period size: 20 Copynumber: 10.9 Consensus size: 20
68841473 CCAATAGAAG
*
68841483 TTATAGAAAAATTATAAAAAA
1 TTATA-AAAAATTATAAAATA
*
68841504 TTATAGAAAAATATTTAAAAT-
1 TTATA-AAAAAT-TATAAAATA
* * *
68841525 TTATTAAAAA-TAGAAAAAAA
1 TTATAAAAAATTA-TAAAATA
* * *
68841545 TTAT-AAAAATCACAAAA-G
1 TTATAAAAAATTATAAAATA
*
68841563 TTAT-AAAAA-TAGTAAAGTA
1 TTATAAAAAATTA-TAAAATA
* *
68841582 TTTATAAAAAATTGTAAAAAA
1 -TTATAAAAAATTATAAAATA
* **
68841603 TTATAAAATA-TATAGTGATA
1 TTATAAAAAATTATA-AAATA
* * *
68841623 -TAGAAAAAATTAT-AACTT
1 TTATAAAAAATTATAAAATA
* *
68841641 TTTTATAAAA-TAGT-AAA-A
1 TTATAAAAAATTA-TAAAATA
* ** *
68841659 GTATAAAATTTTAAAAAATA
1 TTATAAAAAATTATAAAATA
68841679 TTATAAAAAATTATAAAAT
1 TTATAAAAAATTATAAAAT
68841698 TAAATAGAGG
Statistics
Matches: 136, Mismatches: 42, Indels: 33
0.64 0.20 0.16
Matches are distributed among these distances:
17 1 0.01
18 21 0.15
19 37 0.27
20 44 0.32
21 26 0.19
22 7 0.05
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (20 bp):
TTATAAAAAATTATAAAATA
Found at i:68842667 original size:10 final size:10
Alignment explanation
Indices: 68842654--68842794 Score: 73
Period size: 9 Copynumber: 14.3 Consensus size: 10
68842644 ATTTATAAAA
68842654 TTTTATAATT
1 TTTTATAATT
*
68842664 TTTTCT-ATAT
1 TTTTATAAT-T
* *
68842674 TTCTAT-ATA
1 TTTTATAATT
68842683 TTTTATAATTT
1 TTTTATAA-TT
*
68842694 TTTTATGA-T
1 TTTTATAATT
68842703 TTTTATAAATTT
1 TTTTAT-AA-TT
*
68842715 TTTTCTAATT
1 TTTTATAATT
* *
68842725 TTTAATAA-A
1 TTTTATAATT
68842734 TTTTA-AATT
1 TTTTATAATT
**
68842743 TTTTATTAAAA
1 TTTTA-TAATT
*
68842754 TTTAATAA-T
1 TTTTATAATT
68842763 TTTTATAA-T
1 TTTTATAATT
*
68842772 TTTTATAA-C
1 TTTTATAATT
68842781 TTTTATTAATT
1 TTTTA-TAATT
68842792 TTT
1 TTT
68842795 ATTTTATTAT
Statistics
Matches: 99, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
8 2 0.02
9 44 0.44
10 28 0.28
11 19 0.19
12 6 0.06
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:68842686 original size:29 final size:29
Alignment explanation
Indices: 68842651--68842715 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
68842641 AACATTTATA
68842651 AAATTTTATAATTTTTTCTAT-ATTTCTAT
1 AAATTTTATAATTTTTT-TATGATTTCTAT
* *
68842680 ATATTTTATAATTTTTTTATGATTTTTAT
1 AAATTTTATAATTTTTTTATGATTTCTAT
68842709 AAATTTT
1 AAATTTT
68842716 TTTCTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (29 bp):
AAATTTTATAATTTTTTTATGATTTCTAT
Found at i:68842699 original size:11 final size:11
Alignment explanation
Indices: 68842683--68842727 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
68842673 TTTCTATATA
68842683 TTTTATAATTT
1 TTTTATAATTT
*
68842694 TTTTATGATTT
1 TTTTATAATTT
*
68842705 TTATA-AATTT
1 TTTTATAATTT
*
68842715 TTTTCTAATTT
1 TTTTATAATTT
68842726 TT
1 TT
68842728 AATAAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:68842715 original size:21 final size:21
Alignment explanation
Indices: 68842683--68842737 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
68842673 TTTCTATATA
*
68842683 TTTTAT-AATTTTTTTATGAT
1 TTTTATAAATTTTTTTATAAT
*
68842703 TTTTATAAATTTTTTTCTAAT
1 TTTTATAAATTTTTTTATAAT
68842724 TTTTAATAAATTTT
1 TTTT-ATAAATTTT
68842738 AAATTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 6 0.19
21 16 0.52
22 9 0.29
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTATAAATTTTTTTATAAT
Found at i:68842744 original size:18 final size:19
Alignment explanation
Indices: 68842651--68842796 Score: 75
Period size: 19 Copynumber: 7.5 Consensus size: 19
68842641 AACATTTATA
**
68842651 AAATTTTATAATTTTTTCT
1 AAATTTTATAATTTTTAAT
*
68842670 ATATTTCTATATATTTTATAAT
1 AAATTT-TATA-ATTTT-TAAT
** *
68842692 -TTTTTTATGATTTTT-AT
1 AAATTTTATAATTTTTAAT
*
68842709 AAATTTTTTTCTAATTTTTAAT
1 AAA---TTTTATAATTTTTAAT
*
68842731 AAATTTTA-AATTTTTTATT
1 AAATTTTATAA-TTTTTAAT
*
68842750 AAAATTTAATAATTTTT-AT
1 -AAATTTTATAATTTTTAAT
* * *
68842769 AATTTTTATAACTTTTATT
1 AAATTTTATAATTTTTAAT
*
68842788 AATTTTTAT
1 AAATTTTAT
68842797 TTTATTATTA
Statistics
Matches: 98, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.02
18 16 0.16
19 32 0.33
20 19 0.19
21 22 0.22
22 7 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.63
Consensus pattern (19 bp):
AAATTTTATAATTTTTAAT
Found at i:68842776 original size:29 final size:29
Alignment explanation
Indices: 68842701--68842796 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 29
68842691 TTTTTTTATG
* *
68842701 ATTTTTATAAATTTTTTTCTAATTTTTAATA
1 ATTTTTAT-AATTTTTAT-TAAATTTTAATA
* *
68842732 AATTTTA-AATTTTTTATTAAAATTTAATA
1 ATTTTTATAA-TTTTTATTAAATTTTAATA
* *
68842761 ATTTTTATAATTTTTA-TAACTTTTATTA
1 ATTTTTATAATTTTTATTAAATTTTAATA
68842789 ATTTTTAT
1 ATTTTTAT
68842797 TTTATTATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
28 17 0.31
29 24 0.44
30 8 0.15
31 6 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (29 bp):
ATTTTTATAATTTTTATTAAATTTTAATA
Found at i:68842795 original size:10 final size:10
Alignment explanation
Indices: 68842683--68842797 Score: 80
Period size: 10 Copynumber: 11.7 Consensus size: 10
68842673 TTTCTATATA
68842683 TTTTA-TAAT
1 TTTTATTAAT
68842692 TTTT-TTATGAT
1 TTTTATTA--AT
*
68842703 TTTTATAAAT
1 TTTTATTAAT
*
68842713 TTTTTTCTAAT
1 TTTTAT-TAAT
* *
68842724 TTTTAATAAA
1 TTTTATTAAT
68842734 TTTTA--AATT
1 TTTTATTAA-T
*
68842743 TTTTATTAAA
1 TTTTATTAAT
* *
68842753 ATTTAATAAT
1 TTTTATTAAT
68842763 TTTTA-TAAT
1 TTTTATTAAT
*
68842772 TTTTA-TAAC
1 TTTTATTAAT
68842781 TTTTATTAAT
1 TTTTATTAAT
68842791 TTTTATT
1 TTTTATT
68842798 TTATTATTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
8 2 0.02
9 28 0.34
10 36 0.43
11 15 0.18
12 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:68843281 original size:22 final size:22
Alignment explanation
Indices: 68843250--68843291 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
68843240 AATTCAAACA
* *
68843250 AAATGTTGATTGTGCCACCATG
1 AAATGCTGATTATGCCACCATG
*
68843272 AAATGCTGATTATGCTACCA
1 AAATGCTGATTATGCCACCA
68843292 CATGTATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (22 bp):
AAATGCTGATTATGCCACCATG
Found at i:68846558 original size:18 final size:19
Alignment explanation
Indices: 68846524--68846559 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68846514 GTACATCCCC
68846524 ACAAACAACATGAATACAA
1 ACAAACAACATGAATACAA
*
68846543 ACAAATAACA-GAATACA
1 ACAAACAACATGAATACA
68846560 GTTATTCAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.19, G:0.06, T:0.11
Consensus pattern (19 bp):
ACAAACAACATGAATACAA
Found at i:68847760 original size:16 final size:15
Alignment explanation
Indices: 68847721--68847777 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
68847711 AACCACTAAT
*
68847721 CGAAAAAGAAGAAAA
1 CGAAGAAGAAGAAAA
68847736 CGAAGAAGAAGAAAGA
1 CGAAGAAGAAGAAA-A
*
68847752 CGGAGAAGAAGGGAAAA
1 CGAAGAAGAA--GAAAA
*
68847769 AGAAGAAGA
1 CGAAGAAGA
68847778 GAAGTTCGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 13 0.37
16 10 0.29
17 8 0.23
18 4 0.11
ACGTcount: A:0.63, C:0.05, G:0.32, T:0.00
Consensus pattern (15 bp):
CGAAGAAGAAGAAAA
Found at i:68848296 original size:25 final size:26
Alignment explanation
Indices: 68848258--68848324 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 26
68848248 GTTACACCCC
* *
68848258 AGCTCTCTTGAGCTTTCT-GATAGTT
1 AGCTCTCATAAGCTTTCTCGATAGTT
*
68848283 AGCTCTCATAAGCTTT-TCGATATTT
1 AGCTCTCATAAGCTTTCTCGATAGTT
* * *
68848308 GGCTCGCAAAAGCTTTC
1 AGCTCTCATAAGCTTTC
68848325 GGTATACAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (26 bp):
AGCTCTCATAAGCTTTCTCGATAGTT
Found at i:68853834 original size:13 final size:13
Alignment explanation
Indices: 68853818--68853849 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
68853808 TTCAACCTAA
68853818 GTGCCTAACCAAT
1 GTGCCTAACCAAT
68853831 GTGCCTAACCAAT
1 GTGCCTAACCAAT
68853844 GTGCCT
1 GTGCCT
68853850 TCATTGGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (13 bp):
GTGCCTAACCAAT
Found at i:68856977 original size:9 final size:10
Alignment explanation
Indices: 68856936--68856978 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
68856926 ATGGGACAAG
68856936 AAATCATTAA
1 AAATCATTAA
* *
68856946 AAATTAGTAA
1 AAATCATTAA
68856956 AAATCATTAA
1 AAATCATTAA
68856966 AAA-CATTAA
1 AAATCATTAA
68856975 AAAT
1 AAAT
68856979 TTGTAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (10 bp):
AAATCATTAA
Found at i:68856999 original size:17 final size:18
Alignment explanation
Indices: 68856965--68857002 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
68856955 AAAATCATTA
68856965 AAAACATTAAAAATTTGT
1 AAAACATTAAAAATTTGT
68856983 AAAA-ATTATAAAA-TTGT
1 AAAACATTA-AAAATTTGT
68857000 AAA
1 AAA
68857003 CTTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAACATTAAAAATTTGT
Found at i:68857654 original size:9 final size:9
Alignment explanation
Indices: 68857642--68857675 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
68857632 CCATTTTACC
68857642 ATTTTTAAT
1 ATTTTTAAT
68857651 ATTTTTAAT
1 ATTTTTAAT
* *
68857660 AGTTTTAAC
1 ATTTTTAAT
68857669 ATTTTTA
1 ATTTTTA
68857676 GTTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:68857784 original size:35 final size:35
Alignment explanation
Indices: 68857735--68857813 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 35
68857725 TTTTTACAAC
*
68857735 TTTTTAATATTTAAAATA-ATTTTAACAAATTTTTT-
1 TTTTAAAT-TTTAAAATACATTTTAAC-AATTTTTTA
* *
68857770 TTTCTAAATTTTAAAATACTTTTTTACAATTTTTTA
1 TTT-TAAATTTTAAAATACATTTTAACAATTTTTTA
68857806 TTTTAAAT
1 TTTTAAAT
68857814 AAGTTTTACA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
35 25 0.66
36 13 0.34
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (35 bp):
TTTTAAATTTTAAAATACATTTTAACAATTTTTTA
Found at i:68858311 original size:2 final size:2
Alignment explanation
Indices: 68858299--68858332 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
68858289 GAAGAAGCTA
*
68858299 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68858333 TTCAAGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:68858850 original size:35 final size:35
Alignment explanation
Indices: 68858799--68858868 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
68858789 AAAAGTTAGT
*
68858799 GTAGTCAAAGAGATTAGTGTTACCAACATACCACG
1 GTAGTCAAAGAAATTAGTGTTACCAACATACCACG
68858834 GTAGTCAAAGAAATTAGTGTTACCAACATACCACG
1 GTAGTCAAAGAAATTAGTGTTACCAACATACCACG
68858869 TCAGCCGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (35 bp):
GTAGTCAAAGAAATTAGTGTTACCAACATACCACG
Found at i:68866676 original size:2 final size:2
Alignment explanation
Indices: 68866669--68866706 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
68866659 AGGGGAATTA
68866669 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68866707 GAAGTAATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68866964 original size:16 final size:19
Alignment explanation
Indices: 68866933--68866974 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
68866923 TTTTTTGATT
*
68866933 TATTTTTATAAATAT-AGA
1 TATTTTTATAAATATAAAA
68866951 TATTTTT-T-AATATAAAA
1 TATTTTTATAAATATAAAA
68866968 TATTTTT
1 TATTTTT
68866975 GTTTACCCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTTTTATAAATATAAAA
Found at i:68867115 original size:17 final size:17
Alignment explanation
Indices: 68867093--68867126 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
68867083 CTAAACAATT
68867093 GTACTAATTTAGTATTC
1 GTACTAATTTAGTATTC
68867110 GTACTAATTTAGTATTC
1 GTACTAATTTAGTATTC
68867127 TTGATATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
GTACTAATTTAGTATTC
Found at i:68867931 original size:6 final size:6
Alignment explanation
Indices: 68867908--68867945 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
68867898 TTTTTATGTA
*
68867908 ATAATT GTAATT -TAAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT AT-AATT ATAATT ATAATT ATAATT AT
68867946 CACAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 1 0.03
6 27 0.93
7 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:68871384 original size:14 final size:14
Alignment explanation
Indices: 68871365--68871391 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
68871355 TTATCAGCTC
68871365 TTATTATTTTATTA
1 TTATTATTTTATTA
68871379 TTATTATTTTATT
1 TTATTATTTTATT
68871392 TCAAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:68876267 original size:20 final size:20
Alignment explanation
Indices: 68876220--68876268 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
68876210 CAACTCAACC
* *
68876220 TTAGCTCCATGAGTTCGAAT
1 TTAGCTCGATGAGTTCAAAT
* *
68876240 AT-GCTCGATGAGTTTAAAT
1 TTAGCTCGATGAGTTCAAAT
68876259 TTAGCTCGAT
1 TTAGCTCGAT
68876269 CTAATTTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (20 bp):
TTAGCTCGATGAGTTCAAAT
Found at i:68876435 original size:27 final size:27
Alignment explanation
Indices: 68876417--68876486 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
68876407 AATGCATGCT
68876417 TTTAATATGTCTTAGTTAATACATATC
1 TTTAATATGTCTTAGTTAATACATATC
* * **
68876444 TTTAATTTGTCTTAGCTTATTACATAAA
1 TTTAATATGTCTTAG-TTAATACATATC
*
68876472 TTTAATATGTTTTAG
1 TTTAATATGTCTTAG
68876487 CTTCAGTCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (27 bp):
TTTAATATGTCTTAGTTAATACATATC
Found at i:68879842 original size:15 final size:16
Alignment explanation
Indices: 68879817--68879848 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
68879807 TGAAAATAAA
68879817 ATGAGAAAAGAAAAAT
1 ATGAGAAAAGAAAAAT
68879833 ATGA-AAAAGAAAAAT
1 ATGAGAAAAGAAAAAT
68879848 A
1 A
68879849 ATTTGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (16 bp):
ATGAGAAAAGAAAAAT
Found at i:68886437 original size:22 final size:23
Alignment explanation
Indices: 68886398--68886440 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
68886388 GAAATCCTAC
68886398 CCATCCACCCTCTACACTCCACT
1 CCATCCACCCTCTACACTCCACT
*
68886421 CCATCCAGCC-CTACACTCCA
1 CCATCCACCCTCTACACTCCA
68886441 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.56, G:0.02, T:0.19
Consensus pattern (23 bp):
CCATCCACCCTCTACACTCCACT
Found at i:68886686 original size:27 final size:27
Alignment explanation
Indices: 68886648--68886700 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
68886638 AGTTATACAT
68886648 CTCATAAGGGCATAATAGTCATTTTAC
1 CTCATAAGGGCATAATAGTCATTTTAC
* * *
68886675 CTCATAGGGGCATATTAGTTATTTTA
1 CTCATAAGGGCATAATAGTCATTTTA
68886701 TTAATTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (27 bp):
CTCATAAGGGCATAATAGTCATTTTAC
Done.