Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 49 of 250
Found at i:15491971 original size:20 final size:20
Alignment explanation
Indices: 15491946--15491984 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15491936 TTTTGAAAAG
15491946 CTCTGTTTT-AAGTTACGATA
1 CTCTGTTTTCAA-TTACGATA
15491966 CTCTGTTTTCAATTACGAT
1 CTCTGTTTTCAATTACGAT
15491985 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
CTCTGTTTTCAATTACGATA
Found at i:15492126 original size:40 final size:40
Alignment explanation
Indices: 15492071--15492292 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
15492061 TTTTTCAAGC
* * *
15492071 TGTGTATCAGAAAAGCTCCCATGTGAGATTATGGATAAAT
1 TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
** * * *
15492111 TGTGTATCAGCAAAGCTTTCTTGTGAGTTTATGGATAAGC
1 TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
* *
15492151 TGTGTATCAGCAAAGTTCCCTTGTGAGCTTATGGATAAGT
1 TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
* * * * *
15492191 TGTGTATTAGCACAGCTCCCCTGTGAGC-TAAGGACAAGT
1 TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
* * ** *
15492230 TGTGCATCA-AAGAAGCTCCCCACATGAGCTTAAGTGATGAAGT
1 TGTGTATCAGCA-AAGCT-CCCATGTGAGCTTATG-GAT-AAGT
15492273 TGTGTATCAGCAAAGCTCCC
1 TGTGTATCAGCAAAGCTCCC
15492293 CATGCGACTT
Statistics
Matches: 148, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 20 0.14
40 100 0.68
41 4 0.03
42 5 0.03
43 17 0.11
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (40 bp):
TGTGTATCAGCAAAGCTCCCATGTGAGCTTATGGATAAGT
Found at i:15495039 original size:21 final size:21
Alignment explanation
Indices: 15495013--15495054 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15495003 GTGGAAAACA
*
15495013 ATGGGCAAACCTTAGGTGATG
1 ATGGGCAAACCTCAGGTGATG
15495034 ATGGGCAAACCTCAGGTGATG
1 ATGGGCAAACCTCAGGTGATG
15495055 CTGAGTTTAG
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:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (21 bp):
ATGGGCAAACCTCAGGTGATG
Found at i:15502992 original size:20 final size:22
Alignment explanation
Indices: 15502963--15503023 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
15502953 AATAAAATTG
*
15502963 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
15502983 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
15503005 TATTAATAATTTATTATTT
1 AAATAATAAATTA-TATTT
15503024 TAATAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 18 0.53
23 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:15503018 original size:16 final size:16
Alignment explanation
Indices: 15502997--15503029 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15502987 AATAAATTAT
15502997 ATTTATTATATTAATA
1 ATTTATTATATTAATA
*
15503013 ATTTATTATTTTAATA
1 ATTTATTATATTAATA
15503029 A
1 A
15503030 ATATAAATAA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTATTATATTAATA
Found at i:15505657 original size:17 final size:17
Alignment explanation
Indices: 15505637--15505688 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
15505627 TTTAAAAAAA
15505637 ATTTATG-ATCTTTTTAT
1 ATTTATGAAT-TTTTTAT
15505654 ATTTTATGAATTTTTTAT
1 A-TTTATGAATTTTTTAT
15505672 -TTT-TGAATATTTTTAT
1 ATTTATGAAT-TTTTTAT
15505688 A
1 A
15505689 ATTTTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 5 0.16
16 10 0.32
17 1 0.03
18 13 0.42
19 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (17 bp):
ATTTATGAATTTTTTAT
Found at i:15505661 original size:18 final size:18
Alignment explanation
Indices: 15505638--15505693 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
15505628 TTAAAAAAAA
*
15505638 TTTATGATCTTTTTATAT
1 TTTATGATATTTTTATAT
15505656 TTTATGA-ATTTTT-TAT
1 TTTATGATATTTTTATAT
15505672 TTT-TGAATATTTTTATAAT
1 TTTATG-ATATTTTTAT-AT
15505691 TTT
1 TTT
15505694 TAAATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 2 0.06
16 7 0.21
17 11 0.33
18 8 0.24
19 5 0.15
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTATGATATTTTTATAT
Found at i:15505672 original size:16 final size:15
Alignment explanation
Indices: 15505647--15505687 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
15505637 ATTTATGATC
15505647 TTTTTATATTTTATGAA
1 TTTTT-TATTTT-TGAA
15505664 TTTTTTATTTTTGAA
1 TTTTTTATTTTTGAA
15505679 TATTTTTAT
1 T-TTTTTAT
15505688 AATTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.22
16 13 0.57
17 5 0.22
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (15 bp):
TTTTTTATTTTTGAA
Found at i:15505897 original size:16 final size:16
Alignment explanation
Indices: 15505876--15505920 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
15505866 ATTTAGTTTA
15505876 AAAAAATTAAATTTTT
1 AAAAAATTAAATTTTT
*
15505892 AAAAAATATAAA-TATT
1 AAAAAAT-TAAATTTTT
15505908 -AAAAATTAAATTT
1 AAAAAATTAAATTT
15505921 CTCGTTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 10 0.40
17 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAAATTAAATTTTT
Found at i:15520140 original size:23 final size:24
Alignment explanation
Indices: 15520081--15520146 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
15520071 TCATAATCAA
* *
15520081 GAAGTTCATGAAGAACCATATCGG
1 GAAGTTCATAAAGAGCCATATCGG
* * *
15520105 GAAGCTCACAAAGAGCC-TATTGG
1 GAAGTTCATAAAGAGCCATATCGG
15520128 GAAGTTCATAAAGAGCCAT
1 GAAGTTCATAAAGAGCCAT
15520147 GTAACGGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 20 0.59
24 14 0.41
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (24 bp):
GAAGTTCATAAAGAGCCATATCGG
Found at i:15523439 original size:17 final size:17
Alignment explanation
Indices: 15523417--15523454 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
15523407 GAATTGGACT
15523417 TGTGGGCCACATGGGCG
1 TGTGGGCCACATGGGCG
*
15523434 TGTGGGCCACATGTGCG
1 TGTGGGCCACATGGGCG
15523451 TGTG
1 TGTG
15523455 ATATATGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.45, T:0.24
Consensus pattern (17 bp):
TGTGGGCCACATGGGCG
Found at i:15531747 original size:10 final size:10
Alignment explanation
Indices: 15531732--15531762 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
15531722 ATGACAATTT
15531732 TTTAAATATA
1 TTTAAATATA
15531742 TTTAAATATA
1 TTTAAATATA
15531752 -TTAAATATA
1 TTTAAATATA
15531761 TT
1 TT
15531763 ATTTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTAAATATA
Found at i:15531757 original size:9 final size:9
Alignment explanation
Indices: 15531733--15531763 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
15531723 TGACAATTTT
15531733 TTAAATATA
1 TTAAATATA
15531742 TTTAAATATA
1 -TTAAATATA
15531752 TTAAATATA
1 TTAAATATA
15531761 TTA
1 TTA
15531764 TTTATTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAAATATA
Found at i:15535194 original size:713 final size:713
Alignment explanation
Indices: 15533829--15535970 Score: 4257
Period size: 713 Copynumber: 3.0 Consensus size: 713
15533819 TTCGAGTTCA
15533829 TCACATAGAGCTTTAGGTAATAAGAAACAAGCCATCGTGTAAGTTGGTATAGCCTGAAGAATGGC
1 TCACATAGAGCTTTAGGTAATAAGAAACAAGCCATCGTGTAAGTTGGTATAGCCTGAAGAATGGC
15533894 CTTTATAAATACTTCTTTTCCACCCTGAGATAAATACCTATTACTCCAGTTATCAATACATTTTT
66 CTTTATAAATACTTCTTTTCCACCCTGAGATAAATACCTATTACTCCAGTTATCAATACATTTTT
*
15533959 TTAGTCGATCTTTCAAATTTTGAAAAGATTTTTTTTTCTCTGACCCACCATATTCGGAAATCCTA
131 TTAGTCGATCTTTCAAATTTTGAAAAGATTCTTTTTTCTCTGACCCACCATATTCGGAAATCCTA
15534024 GGTAACGTTCTGGTTCATTCGAACAGTGGACCCCAATAAATTGACAACCAATCTTTTATCTTTCT
196 GGTAACGTTCTGGTTCATTCGAACAGTGGACCCCAATAAATTGACAACCAATCTTTTATCTTTCT
15534089 CCGGTGTGTTTTTGCTAAAGAATACTATTGATTTGTCGAAATTAACACATTGACCCAAACAAGAT
261 CCGGTGTGTTTTTGCTAAAGAATACTATTGATTTGTCGAAATTAACACATTGACCCAAACAAGAT
15534154 TTGTATTCGCTTAGGATGTCTTTAAATAGATTTGCTCCCCTGCTTATTGCCTTCCCAAATAATAT
326 TTGTATTCGCTTAGGATGTCTTTAAATAGATTTGCTCCCCTGCTTATTGCCTTCCCAAATAATAT
15534219 GCAATCATCGATGAATAATAGATGGGATACCTGTGGGCCACTTCTACTTACCTTAACACCTTTTA
391 GCAATCATCGATGAATAATAGATGGGATACCTGTGGGCCACTTCTACTTACCTTAACACCTTTTA
15534284 AAAACCTTCCATTCGTCGCAAGTCTCAGTAGGCTCAATAGACCCTCACCATACACAAGAAATAAG
456 AAAACCTTCCATTCGTCGCAAGTCTCAGTAGGCTCAATAGACCCTCACCATACACAAGAAATAAG
15534349 AACAGACTTAACGGATCACCTTGTCTGAGTCCTCTGGTTGGTAGAAACTTATCACCAATATTCCC
521 AACAGACTTAACGGATCACCTTGTCTGAGTCCTCTGGTTGGTAGAAACTTATCACCAATATTCCC
15534414 ATTAATGACTACTGAATATGAAACAGTTGTAACATATTTAATAAGAGTGTCTATCCATCTTTGAG
586 ATTAATGACTACTGAATATGAAACAGTTGTAACATATTTAATAAGAGTGTCTATCCATCTTTGAG
15534479 CAAACCCCATTCGTATCATTATCTCTTTTATAAAATTCCATTCAACCCTATCATATTTTTTAC
651 CAAACCCCATTCGTATCATTATCTCTTTTATAAAATTCCATTCAACCCTATCATATTTTTTAC
15534542 TCACATAGAGCTTTAGGTAATAAGAAACAAGCCATCGTGTAAGTTGGTATAGCCTGAAGAATGGC
1 TCACATAGAGCTTTAGGTAATAAGAAACAAGCCATCGTGTAAGTTGGTATAGCCTGAAGAATGGC
15534607 CTTTATAAATACTTCTTTTCCACCCTGAGATAAATACCTATTACTCCAGTTATCAATACATTTTT
66 CTTTATAAATACTTCTTTTCCACCCTGAGATAAATACCTATTACTCCAGTTATCAATACATTTTT
*
15534672 TTAGTCGATCTTTCAAATTTTGAAAAGATTCTTTTTTCTCTGACCCACCATATTCAGAAATCCTA
131 TTAGTCGATCTTTCAAATTTTGAAAAGATTCTTTTTTCTCTGACCCACCATATTCGGAAATCCTA
15534737 GGTAACGTTCTGGTTCATTCGAACAGTGGACCCCAATAAATTGACAACCAATCTTTTATCTTTCT
196 GGTAACGTTCTGGTTCATTCGAACAGTGGACCCCAATAAATTGACAACCAATCTTTTATCTTTCT
15534802 CCGGTGTGTTTTTGCTAAAGAATACTATTGATTTGTCGAAATTAACACATTGACCCAAACAAGAT
261 CCGGTGTGTTTTTGCTAAAGAATACTATTGATTTGTCGAAATTAACACATTGACCCAAACAAGAT
*
15534867 TTGTATTCGCTTAAGATGTCTTTAAATAGATTTGCTCCCCTGCTTATTGCCTTCCCAAATAATAT
326 TTGTATTCGCTTAGGATGTCTTTAAATAGATTTGCTCCCCTGCTTATTGCCTTCCCAAATAATAT
15534932 GCAATCATCGATGAATAATAGATGGGATACCTGTGGGCCACTTCTACTTACCTTAACACCTTTTA
391 GCAATCATCGATGAATAATAGATGGGATACCTGTGGGCCACTTCTACTTACCTTAACACCTTTTA
15534997 AAAACCTTCCATTCGTCGCAAGTCTCAGTAGGCTCAATAGACCCTCACCATACACAAGAAATAAG
456 AAAACCTTCCATTCGTCGCAAGTCTCAGTAGGCTCAATAGACCCTCACCATACACAAGAAATAAG
15535062 AACAGACTTAACGGATCACCTTGTCTGAGTCCTCTGGTTGGTAGAAACTTATCACCAATATTCCC
521 AACAGACTTAACGGATCACCTTGTCTGAGTCCTCTGGTTGGTAGAAACTTATCACCAATATTCCC
15535127 ATTAATGACTACTGAATATGAAACAGTTGTAACATATTTAATAAGAGTGTCTATCCATCTTTGAG
586 ATTAATGACTACTGAATATGAAACAGTTGTAACATATTTAATAAGAGTGTCTATCCATCTTTGAG
15535192 CAAACCCCATTCGTATCATTATCTCTTTTATAAAATTCCATTCAACCCTATCATATTTTTTAC
651 CAAACCCCATTCGTATCATTATCTCTTTTATAAAATTCCATTCAACCCTATCATATTTTTTAC
15535255 TCACATAGAGCTTTAGGTAATAAGAAACAAGCCATCGTGTAAGTTGGTATAGCCTGAAGAATGGC
1 TCACATAGAGCTTTAGGTAATAAGAAACAAGCCATCGTGTAAGTTGGTATAGCCTGAAGAATGGC
15535320 CTTTATAAATACTTCTTTTCCACCCTGAGATAAATACCTATTACTCCAGTTATCAATACATTTTT
66 CTTTATAAATACTTCTTTTCCACCCTGAGATAAATACCTATTACTCCAGTTATCAATACATTTTT
15535385 TTAGTCGATCTTTCAAATTTTGAAAAGATTCTTTTTTCTCTGACCCACCATATTCGGAAATCCTA
131 TTAGTCGATCTTTCAAATTTTGAAAAGATTCTTTTTTCTCTGACCCACCATATTCGGAAATCCTA
15535450 GGTAACGTTCTGGTTCATTCGAACAGTGGACCCCAATAAATTGACAACCAATCTTTTATCTTTCT
196 GGTAACGTTCTGGTTCATTCGAACAGTGGACCCCAATAAATTGACAACCAATCTTTTATCTTTCT
15535515 CCGGTGTGTTTTTGCTAAAGAATACTATTGATTTGTCGAAATTAACACATTGACCCAAACAAGAT
261 CCGGTGTGTTTTTGCTAAAGAATACTATTGATTTGTCGAAATTAACACATTGACCCAAACAAGAT
15535580 TTGTATTCGCTTAGGATGTCTTTAAATAGATTTGCTCCCCTGCTTATTGCCTTCCCAAATAATAT
326 TTGTATTCGCTTAGGATGTCTTTAAATAGATTTGCTCCCCTGCTTATTGCCTTCCCAAATAATAT
15535645 GCAATCATCGATGAATAATAGATGGGATACCTGTGGGCCACTTCTACTTACCTTAACACCTTTTA
391 GCAATCATCGATGAATAATAGATGGGATACCTGTGGGCCACTTCTACTTACCTTAACACCTTTTA
15535710 AAAACCTTCCATTCGTCGCAAGTCTCAGTAGGCTCAATAGACCCTCACCATACACAAGAAATAAG
456 AAAACCTTCCATTCGTCGCAAGTCTCAGTAGGCTCAATAGACCCTCACCATACACAAGAAATAAG
15535775 AACAGACTTAACGGATCACCTTGTCTGAGTCCTCTGGTTGGTAGAAACTTATCACCAATATTCCC
521 AACAGACTTAACGGATCACCTTGTCTGAGTCCTCTGGTTGGTAGAAACTTATCACCAATATTCCC
15535840 ATTAATGACTACTGAATATGAAACAGTTGTAACATATTTAATAAGAGTGTCTATCCATCTTTGAG
586 ATTAATGACTACTGAATATGAAACAGTTGTAACATATTTAATAAGAGTGTCTATCCATCTTTGAG
15535905 CAAACCCCATTCGTATCATTATCTCTTTTATAAAATTCCATTCAACCCTATCATATTTTTTAC
651 CAAACCCCATTCGTATCATTATCTCTTTTATAAAATTCCATTCAACCCTATCATATTTTTTAC
15535968 TCA
1 TCA
15535971 TATCGAGTTT
Statistics
Matches: 1424, Mismatches: 5, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
713 1424 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (713 bp):
TCACATAGAGCTTTAGGTAATAAGAAACAAGCCATCGTGTAAGTTGGTATAGCCTGAAGAATGGC
CTTTATAAATACTTCTTTTCCACCCTGAGATAAATACCTATTACTCCAGTTATCAATACATTTTT
TTAGTCGATCTTTCAAATTTTGAAAAGATTCTTTTTTCTCTGACCCACCATATTCGGAAATCCTA
GGTAACGTTCTGGTTCATTCGAACAGTGGACCCCAATAAATTGACAACCAATCTTTTATCTTTCT
CCGGTGTGTTTTTGCTAAAGAATACTATTGATTTGTCGAAATTAACACATTGACCCAAACAAGAT
TTGTATTCGCTTAGGATGTCTTTAAATAGATTTGCTCCCCTGCTTATTGCCTTCCCAAATAATAT
GCAATCATCGATGAATAATAGATGGGATACCTGTGGGCCACTTCTACTTACCTTAACACCTTTTA
AAAACCTTCCATTCGTCGCAAGTCTCAGTAGGCTCAATAGACCCTCACCATACACAAGAAATAAG
AACAGACTTAACGGATCACCTTGTCTGAGTCCTCTGGTTGGTAGAAACTTATCACCAATATTCCC
ATTAATGACTACTGAATATGAAACAGTTGTAACATATTTAATAAGAGTGTCTATCCATCTTTGAG
CAAACCCCATTCGTATCATTATCTCTTTTATAAAATTCCATTCAACCCTATCATATTTTTTAC
Found at i:15539305 original size:52 final size:49
Alignment explanation
Indices: 15539232--15539343 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 49
15539222 AATGGTAAAA
* * * * *
15539232 TAAAAAATTTAATCCTTAACATTTATATATTATATCAATTTAATCGTAATTC
1 TAAAAAAATTAACCCTGAACATTTACATATTATATC--TTCAAT-GTAATTC
* *
15539284 TAAAAAAATTAACCCTGAACATTTACATATTATATCTTCAATTTGATTC
1 TAAAAAAATTAACCCTGAACATTTACATATTATATCTTCAATGTAATTC
15539333 TAAAAAAATTA
1 TAAAAAAATTA
15539344 TAAATTTCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 16 0.30
50 5 0.09
52 32 0.60
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (49 bp):
TAAAAAAATTAACCCTGAACATTTACATATTATATCTTCAATGTAATTC
Found at i:15540072 original size:21 final size:21
Alignment explanation
Indices: 15540013--15540072 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 21
15540003 AAATAAAAGA
15540013 GAAAAACTTAAGGTTTTATAGG
1 GAAAAACTT-AGGTTTTATAGG
*
15540035 GAATTAAC-T-GGTTTTTATA-G
1 GAA-AAACTTAGG-TTTTATAGG
15540055 GAAAAACTTAGGTCTTTA
1 GAAAAACTTAGGT-TTTA
15540073 CAAGAAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
19 3 0.10
20 8 0.26
21 13 0.42
22 4 0.13
23 3 0.10
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (21 bp):
GAAAAACTTAGGTTTTATAGG
Found at i:15547280 original size:63 final size:63
Alignment explanation
Indices: 15547203--15547327 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
15547193 AGAGAATAAA
*
15547203 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAAGATACAGTTAGTTTCTTGC
1 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAACATACAGTTAGTTTCTTGC
15547266 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAACATACAGTTAGTTTCTTG
1 ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAACATACAGTTAGTTTCTTG
15547328 GATTGCAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (63 bp):
ATGAACTGTATTCATGCAAGATTAATTATCAGAAATTCCTAAAACATACAGTTAGTTTCTTGC
Found at i:15549361 original size:29 final size:31
Alignment explanation
Indices: 15549311--15549370 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
15549301 TTTATGTTAA
*
15549311 TTATAAATATAATTATAATTATATTATTTTT
1 TTATAAATATAATTATAATTATATTAATTTT
*
15549342 TTATAAATA-ACTTAT-ATTATATTAATTTT
1 TTATAAATATAATTATAATTATATTAATTTT
15549371 AAAAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 13 0.48
30 5 0.19
31 9 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TTATAAATATAATTATAATTATATTAATTTT
Found at i:15549620 original size:85 final size:84
Alignment explanation
Indices: 15549463--15549629 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 84
15549453 TTTTTAAATT
* * *
15549463 TTTTTTAAAAAAGCAATTAAGTCCTTATTTTTTTTTCACTCAATTGGGTACTTAAACTTTTAAAA
1 TTTTTTAAAAAAGCAATTAAGTCC---TTTTTTTTGCACTCAATTAGGTACTTAAACTTTCAAAA
*
15549528 TGCATCAAAAAAGCCCTCAAAA
63 TACATCAAAAAAGCCCTCAAAA
* *
15549550 TTTTTTAAATAAAGCAATTAAGGTCC-TTTTTTTGCACTCAATTAGGTACTTGAA-TTGTCAATA
1 TTTTTTAAA-AAAGCAATTAA-GTCCTTTTTTTTGCACTCAATTAGGTACTTAAACTT-TCAAAA
*
15549613 TATATCAAAAAAGCCCT
63 TACATCAAAAAAGCCCT
15549630 TTCACTGTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
84 2 0.03
85 44 0.63
87 9 0.13
88 11 0.16
89 4 0.06
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (84 bp):
TTTTTTAAAAAAGCAATTAAGTCCTTTTTTTTGCACTCAATTAGGTACTTAAACTTTCAAAATAC
ATCAAAAAAGCCCTCAAAA
Found at i:15549833 original size:10 final size:9
Alignment explanation
Indices: 15549797--15549876 Score: 63
Period size: 9 Copynumber: 8.4 Consensus size: 9
15549787 TAAATCAGAA
15549797 AAAAATTAT
1 AAAAATTAT
*
15549806 AAAAATCAT
1 AAAAATTAT
15549815 AAAAATTAT
1 AAAAATTAT
15549824 AAAAATTTATT
1 AAAAA-TTA-T
**
15549835 AAAAGCGTA-
1 AAAA-ATTAT
15549844 AAAAATTAT
1 AAAAATTAT
* *
15549853 AAAATATAGAA
1 AAAA-AT-TAT
15549864 AAAAATTAT
1 AAAAATTAT
15549873 AAAA
1 AAAA
15549877 TTTTATAAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
8 2 0.04
9 34 0.62
10 7 0.13
11 12 0.22
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15549837 original size:29 final size:28
Alignment explanation
Indices: 15549796--15549907 Score: 73
Period size: 29 Copynumber: 4.2 Consensus size: 28
15549786 ATAAATCAGA
*
15549796 AAAAAATTATAAAAATCAT-AAAAATTAT
1 AAAAAATTAT-AAAAGCATAAAAAATTAT
* *
15549824 AAAAATTTATTAAAAGCGTAAAAAATTAT
1 AAAAAATTA-TAAAAGCATAAAAAATTAT
15549853 --AAAA-TAT---AG-A-AAAAAATTAT
1 AAAAAATTATAAAAGCATAAAAAATTAT
**
15549873 AAAATTTTAT-AAAGTCATAAGAAAATTAT
1 AAAAAATTATAAAAG-CATAA-AAAATTAT
15549902 AAAAAA
1 AAAAAA
15549908 GGAAAGAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
20 10 0.16
22 4 0.06
23 3 0.05
25 3 0.05
26 2 0.03
27 4 0.06
28 16 0.25
29 22 0.34
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (28 bp):
AAAAAATTATAAAAGCATAAAAAATTAT
Found at i:15549872 original size:49 final size:46
Alignment explanation
Indices: 15549796--15549906 Score: 134
Period size: 49 Copynumber: 2.3 Consensus size: 46
15549786 ATAAATCAGA
* *
15549796 AAAAAATTATAAAAATCATAAAAATTATAAAAATTTATTAAAAG-CGT
1 AAAAAATTATAAAAATCAAAAAAATTATAAAAATTTA-T-AAAGTCAT
* *
15549843 AAAAAATTATAAAATATAGAAAAAAATTATAAAATTTTATAAAGTCAT
1 AAAAAATTATAAAA-AT-CAAAAAAATTATAAAAATTTATAAAGTCAT
15549891 AAGAAAATTATAAAAA
1 AA-AAAATTATAAAAA
15549907 AGGAAAGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
47 18 0.32
48 8 0.14
49 30 0.54
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (46 bp):
AAAAAATTATAAAAATCAAAAAAATTATAAAAATTTATAAAGTCAT
Found at i:15550075 original size:21 final size:21
Alignment explanation
Indices: 15550026--15550068 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15550016 CACACGCCAT
15550026 GTTGTATTGCTACACATGATG
1 GTTGTATTGCTACACATGATG
15550047 GTTGTATTGCTACACATGATG
1 GTTGTATTGCTACACATGATG
15550068 G
1 G
15550069 CTTTATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (21 bp):
GTTGTATTGCTACACATGATG
Found at i:15550516 original size:93 final size:92
Alignment explanation
Indices: 15550354--15550729 Score: 265
Period size: 93 Copynumber: 4.1 Consensus size: 92
15550344 CAAAGGGTTA
* * * * *
15550354 TTTTAATACATTTTGACAGATTAAGTACCCAATTGAATGC-AAAAAAAAAGTA--GGCTTAATTG
1 TTTTTATACATTTTAAAAG-TTAAGTACCCAATTGAGTGCAAAAAAAAAAGCAGGGGCTTAA-TG
* *
15550416 CTTCTTTTTTTTTTGAAAAAGTTTGAGGTCT
64 --GCTTTTTTTTTTGAAAAAGTTTGAGGTAT
* * *
15550447 TTTTTATACATTTTGAAAGTTCAAGTACACAATTGAGTGCAAAAAAAAAAGCAGGGGTTTAATGG
1 TTTTTATACATTTTAAAAGTT-AAGTACCCAATTGAGTGCAAAAAAAAAAGCAGGGGCTTAATGG
* * * *
15550512 C---TTTTATTAAAAAAATTTTAGGGTAT
65 CTTTTTTTTTTGAAAAAGTTTGA-GGTAT
* * * **
15550538 TTTTGATGCATTTTAAAAGTTCAAGCACCCAATTGAGTGCAAAAGAAAAAAAATAAAGGGGCTTA
1 TTTTTATACATTTTAAAAGTT-AAGTACCCAATTGAGTGC--AA-AAAAAAAA-GCAGGGGCTTA
* *
15550603 ATGGCTTTTTATTTTTTGAAAAAGATTGAAGGTCT
61 ATGGC-TTTT-TTTTTTGAAAAAGTTTG-AGGTAT
* * * * ** *
15550638 TTTTGT-TGCATTTTAAAAATT-A-TACCCAATTGAGTG-GAAAAAAAAACCAGAAGCTTAATTG
1 TTTT-TATACATTTTAAAAGTTAAGTACCCAATTGAGTGCAAAAAAAAAAGCAGGGGCTTAATGG
*
15550699 CTTTTTTTTTT--TAAAGTTTGAGG-AT
65 CTTTTTTTTTTGAAAAAGTTTGAGGTAT
15550724 TTTTTA
1 TTTTTA
15550730 CAATATTTTT
Statistics
Matches: 228, Mismatches: 38, Indels: 41
0.74 0.12 0.13
Matches are distributed among these distances:
85 1 0.00
86 5 0.02
87 3 0.01
88 7 0.03
90 21 0.09
91 43 0.19
92 13 0.06
93 44 0.19
94 20 0.09
95 15 0.07
96 6 0.03
97 13 0.06
98 1 0.00
99 1 0.00
100 34 0.15
101 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (92 bp):
TTTTTATACATTTTAAAAGTTAAGTACCCAATTGAGTGCAAAAAAAAAAGCAGGGGCTTAATGGC
TTTTTTTTTTGAAAAAGTTTGAGGTAT
Found at i:15551070 original size:29 final size:29
Alignment explanation
Indices: 15551037--15551094 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
15551027 GTCCTTATTT
15551037 TTTATTTTATAAGATTATGTCTAAACTAA
1 TTTATTTTATAAGATTATGTCTAAACTAA
15551066 TTTATTTTATAAGATTATGTCTAAACTAA
1 TTTATTTTATAAGATTATGTCTAAACTAA
15551095 CTCTTTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (29 bp):
TTTATTTTATAAGATTATGTCTAAACTAA
Found at i:15552193 original size:35 final size:35
Alignment explanation
Indices: 15552147--15552217 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
15552137 AGATTTGATC
15552147 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
1 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
15552182 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
1 TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
15552217 T
1 T
15552218 ATACTCTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (35 bp):
TTCCAGGTGTTTTATTACAAGAAGATCTCTGCTAT
Found at i:15552604 original size:13 final size:13
Alignment explanation
Indices: 15552586--15552611 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15552576 CGTGAATAAA
15552586 TTTCTATATCCAT
1 TTTCTATATCCAT
15552599 TTTCTATATCCAT
1 TTTCTATATCCAT
15552612 CTCTATTTTT
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:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTCTATATCCAT
Found at i:15557448 original size:21 final size:20
Alignment explanation
Indices: 15557401--15557449 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
15557391 TAAAACAAAT
*
15557401 AAAGTAAATAAAGAATAAACA
1 AAAG-AAATAAAGAATAAAAA
15557422 AAAGAAA-AAAGAATAGAAAA
1 AAAGAAATAAAGAATA-AAAA
15557442 GAAAGAAA
1 -AAAGAAA
15557450 GAGGGGGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 6 0.24
21 11 0.44
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (20 bp):
AAAGAAATAAAGAATAAAAA
Found at i:15557500 original size:12 final size:12
Alignment explanation
Indices: 15557483--15557507 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15557473 AAACAAATAA
15557483 AGAAAGAAAAAG
1 AGAAAGAAAAAG
15557495 AGAAAGAAAAAG
1 AGAAAGAAAAAG
15557507 A
1 A
15557508 AGGAGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:15567649 original size:40 final size:40
Alignment explanation
Indices: 15567570--15567827 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
15567560 AAGCCAAGTA
* * * * *
15567570 CCTTCGGGATTTA-ACCGGGTATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
15567609 CCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15567649 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15567689 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
15567729 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
15567769 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
15567809 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15567828 TTATCATCCA
Statistics
Matches: 201, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.06
40 188 0.94
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15575853 original size:40 final size:39
Alignment explanation
Indices: 15575771--15575896 Score: 181
Period size: 38 Copynumber: 3.3 Consensus size: 39
15575761 TACTCGCTCG
* *
15575771 AATGCCTTCGGGACATAGCCCGGATA-A-TAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA-A
15575809 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAAA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGC-AA
15575849 AATGCCTTC-GGACTTAGCCCGGA-ATAGTAACTCGC-A
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAA
15575885 AATGCCTTCGGG
1 AATGCCTTCGGG
15575897 CCGGCCCACT
Statistics
Matches: 82, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
36 10 0.12
37 2 0.02
38 37 0.45
39 15 0.18
40 17 0.21
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAA
Found at i:15585253 original size:40 final size:39
Alignment explanation
Indices: 15585169--15585352 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
15585159 TTTGAATGAT
* * * *
15585169 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15585209 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
15585249 TCCGGGCTAAG-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
15585287 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
15585328 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
15585353 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15604619 original size:19 final size:21
Alignment explanation
Indices: 15604582--15604622 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15604572 TCAAGATTAA
15604582 ATTAAATTAAATATTAAATATT
1 ATTAAATTAAATA-TAAATATT
15604604 ATTAAATT-AATA-AAATATT
1 ATTAAATTAAATATAAATATT
15604623 TATCTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAATTAAATATAAATATT
Found at i:15605789 original size:39 final size:39
Alignment explanation
Indices: 15605673--15605792 Score: 177
Period size: 39 Copynumber: 3.1 Consensus size: 39
15605663 GGATTCCATT
* * *
15605673 CCAGCACGTAGCCTGCGGACTTCAAGTCTGGATATATTT
1 CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
*
15605712 CCAGCACATAGCCTGCGGACTTCAAGTCCAGATATATTC
1 CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
* * *
15605751 CCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTC
1 CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
15605790 CCA
1 CCA
15605793 ATATCATGCA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (39 bp):
CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
Found at i:15612336 original size:39 final size:39
Alignment explanation
Indices: 15612281--15612400 Score: 159
Period size: 39 Copynumber: 3.1 Consensus size: 39
15612271 AGATTCCATT
* *
15612281 CCAGCACGTAGCCTGCGGACTTCAAGTTTGGATATATTT
1 CCAGCACATAGCCTGCGGACTTCAAGTTTGGATATATTC
* **
15612320 TCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
1 CCAGCACATAGCCTGCGGACTTCAAGTTTGGATATATTC
* * * *
15612359 CCAGCATACAGCCTGCGGACCTCATGTTTGGATATATTC
1 CCAGCACATAGCCTGCGGACTTCAAGTTTGGATATATTC
15612398 CCA
1 CCA
15612401 ATATCATGTA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (39 bp):
CCAGCACATAGCCTGCGGACTTCAAGTTTGGATATATTC
Found at i:15617860 original size:13 final size:13
Alignment explanation
Indices: 15617838--15617871 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
15617828 ATGTTTGGAA
15617838 ATGT-ATGTTTTT
1 ATGTAATGTTTTT
15617850 ATGTAATGTTTTT
1 ATGTAATGTTTTT
15617863 ACTGTAATG
1 A-TGTAATG
15617872 CACTGTAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 9 0.45
14 7 0.35
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.56
Consensus pattern (13 bp):
ATGTAATGTTTTT
Found at i:15617862 original size:14 final size:14
Alignment explanation
Indices: 15617842--15617871 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
15617832 TTGGAAATGT
15617842 ATGTTTTTA-TGTA
1 ATGTTTTTACTGTA
15617855 ATGTTTTTACTGTA
1 ATGTTTTTACTGTA
15617869 ATG
1 ATG
15617872 CACTGTAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.23, C:0.03, G:0.17, T:0.57
Consensus pattern (14 bp):
ATGTTTTTACTGTA
Found at i:15619061 original size:27 final size:26
Alignment explanation
Indices: 15619031--15619108 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
15619021 ACGATCCCGG
* * *
15619031 TGGAGTACTCCGTGTTTATTTTTCTGA
1 TGGACTAC-CCGTGTTTATTGTCCTGA
*
15619058 TGGACTACCCTGTGTTTATTGTCCTGT
1 TGGACTACCC-GTGTTTATTGTCCTGA
15619085 TGGACTACCCCGTGTTTATTGTCC
1 TGGACTA-CCCGTGTTTATTGTCC
15619109 CAACGAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.04
27 40 0.89
28 3 0.07
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.44
Consensus pattern (26 bp):
TGGACTACCCGTGTTTATTGTCCTGA
Found at i:15619118 original size:27 final size:27
Alignment explanation
Indices: 15619061--15619120 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
15619051 TTTCTGATGG
* **** *
15619061 ACTACCCTGTGTTTATTGTCCTGTTGG
1 ACTACCCCGTGTTTATTGTCCCAACGA
15619088 ACTACCCCGTGTTTATTGTCCCAACGA
1 ACTACCCCGTGTTTATTGTCCCAACGA
15619115 ACTACC
1 ACTACC
15619121 AAAGGATGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (27 bp):
ACTACCCCGTGTTTATTGTCCCAACGA
Found at i:15619247 original size:45 final size:45
Alignment explanation
Indices: 15619125--15619253 Score: 159
Period size: 45 Copynumber: 2.9 Consensus size: 45
15619115 ACTACCAAAG
* * * * *
15619125 GATGCCATAGCATCTTTCAGCTATGGTCTTAATAATATTTATCAT
1 GATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTAACAT
* * * *
15619170 GATGCCATAACATATTTTAGCTACGGTGTTACTCATTTTTAACAT
1 GATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTAACAT
* *
15619215 GATGTCATAACATCTTTCAACTATGGTCTTACTCATTTT
1 GATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTT
15619254 AGGCATATAG
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (45 bp):
GATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTAACAT
Found at i:15625368 original size:21 final size:21
Alignment explanation
Indices: 15625344--15625426 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 21
15625334 CGAAGACGCC
*
15625344 AACAGAAGCTTATAAGAGCTT
1 AACAGAAGCTCATAAGAGCTT
* * *
15625365 AACAGAAGCTCGTGAGAGATT
1 AACAGAAGCTCATAAGAGCTT
* * *
15625386 AACAGAAGCTCGTGAGTGCTT
1 AACAGAAGCTCATAAGAGCTT
*
15625407 AACAGAAGCTCATAAAAGCT
1 AACAGAAGCTCATAAGAGCT
15625427 GATCCACCAA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTT
Found at i:15628128 original size:40 final size:40
Alignment explanation
Indices: 15628058--15628314 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
15628048 AAGCCAAGTA
* * * * *
15628058 CCTTCGGGATTTA-ACCGGGTATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
15628097 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15628137 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15628177 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15628216 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
15628256 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
15628296 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15628315 TTATCATCCA
Statistics
Matches: 203, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
39 52 0.26
40 151 0.74
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15628199 original size:79 final size:80
Alignment explanation
Indices: 15628058--15628314 Score: 378
Period size: 79 Copynumber: 3.2 Consensus size: 80
15628048 AAGCCAAGTA
* * * * * *
15628058 CCTTCGGGATTTA-ACCGGGTATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
15628121 GTAACTCGCACCAATG
65 GTAACTCGCACAAATG
15628137 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
15628201 TAACTCGCACAAATG
66 TAACTCGCACAAATG
15628216 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
* * *
15628280 GTCACTAGCGCAAATG
65 GTAACTCGCACAAATG
15628296 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15628315 TTATCATCCA
Statistics
Matches: 164, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
79 91 0.55
80 73 0.45
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:15628269 original size:119 final size:120
Alignment explanation
Indices: 15628058--15628314 Score: 378
Period size: 119 Copynumber: 2.2 Consensus size: 120
15628048 AAGCCAAGTA
* * * * *
15628058 CCTTCGGGATTTA-ACCGGGTATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATA
* *
15628121 GTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
65 GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTAACTAGCACAAATG
*
15628177 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
* *
15628241 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAATG
66 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTAACTAGCACAAATG
15628296 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15628315 TTATCATCCA
Statistics
Matches: 124, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
118 8 0.06
119 103 0.83
120 13 0.10
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTAACTAGCACAAATG
Found at i:15636335 original size:40 final size:40
Alignment explanation
Indices: 15636265--15636518 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
15636255 AAGCCAAGTA
* * * * *
15636265 CCTTCGGGATTTAACCAGG-TATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
15636304 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15636344 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15636384 CCTTCGGGAC-T---CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
15636420 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
15636460 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
15636500 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15636519 TTATCATCCA
Statistics
Matches: 195, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
36 34 0.17
37 1 0.01
39 18 0.09
40 142 0.73
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15636420 original size:76 final size:78
Alignment explanation
Indices: 15636265--15636518 Score: 320
Period size: 76 Copynumber: 3.2 Consensus size: 78
15636255 AAGCCAAGTA
* * * * *
15636265 CCTTCGGGATTTAACCAGG-TATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATA--CCGGATATA
*
15636328 GTAACTCGCACCAATG
63 GTAACTCGCACAAATG
15636344 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC-T-CCGGATATAGTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACATACCGGATATAGTA
15636407 ACTCGCACAAATG
66 ACTCGCACAAATG
* *
15636420 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACATA--CCGGATA-TA
* * *
15636484 GTCACTAGCGCAAATG
63 GTAACTCGCACAAATG
15636500 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15636519 TTATCATCCA
Statistics
Matches: 157, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
76 73 0.46
77 1 0.01
79 19 0.12
80 64 0.41
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACATACCGGATATAGTA
ACTCGCACAAATG
Found at i:15636498 original size:116 final size:116
Alignment explanation
Indices: 15636291--15636510 Score: 352
Period size: 116 Copynumber: 1.9 Consensus size: 116
15636281 AGGTATAGCT
* * * *
15636291 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGAACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
*
15636356 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTCCGGATATAGTA
66 AGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTCCGGATATAGTA
*
15636407 ACTCGCACAAATGCCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGAACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
15636472 AGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACT
66 AGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACT
15636511 TAGCCCGGTT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
115 1 0.01
116 94 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (116 bp):
ACTCGCACAAATGCCTTCGGAACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTCCGGATATAGTA
Found at i:15645349 original size:21 final size:21
Alignment explanation
Indices: 15645300--15645349 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
15645290 CAGCCATCTT
*
15645300 AAGGAGCAAAGCGAAAGAACG
1 AAGGAGCCAAGCGAAAGAACG
*
15645321 AAGGAGCCTAGCGAAAGAACG
1 AAGGAGCCAAGCGAAAGAACG
15645342 AAGGAGCC
1 AAGGAGCC
15645350 CTCATCAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.46, C:0.18, G:0.34, T:0.02
Consensus pattern (21 bp):
AAGGAGCCAAGCGAAAGAACG
Found at i:15658696 original size:16 final size:16
Alignment explanation
Indices: 15658675--15658707 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15658665 AGAATGACAT
15658675 ATGGATTTCTTGTTTA
1 ATGGATTTCTTGTTTA
15658691 ATGGATTTCTTGTTTA
1 ATGGATTTCTTGTTTA
15658707 A
1 A
15658708 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (16 bp):
ATGGATTTCTTGTTTA
Found at i:15659691 original size:17 final size:17
Alignment explanation
Indices: 15659642--15659691 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
15659632 TGTTATAATG
* *
15659642 TATGCTAATTAGATTCT
1 TATGTTAATTAGATTTT
*
15659659 TAT-TT-ATAAGGATTTT
1 TATGTTAATTA-GATTTT
15659675 TATGTTAATTAGATTTT
1 TATGTTAATTAGATTTT
15659692 ATTATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 11 0.42
18 3 0.12
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (17 bp):
TATGTTAATTAGATTTT
Found at i:15659901 original size:29 final size:29
Alignment explanation
Indices: 15659868--15659925 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
15659858 ACATTATTTT
**
15659868 TATAAAATAAAATATTGAATTACAAAATA
1 TATAAAATAAAATATAAAATTACAAAATA
* *
15659897 TATAAAATAAATTATAAAATTATAAAATA
1 TATAAAATAAAATATAAAATTACAAAATA
15659926 ATTTAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
TATAAAATAAAATATAAAATTACAAAATA
Found at i:15659922 original size:20 final size:21
Alignment explanation
Indices: 15659885--15659926 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
15659875 TAAAATATTG
15659885 AATTACAAAATATATAAAATA
1 AATTACAAAATATATAAAATA
*
15659906 AATTATAAAAT-TATAAAATA
1 AATTACAAAATATATAAAATA
15659926 A
1 A
15659927 TTTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTACAAAATATATAAAATA
Found at i:15668634 original size:3 final size:3
Alignment explanation
Indices: 15668626--15668672 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
15668616 ATGTTAACTC
15668626 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15668673 TTGAAAAAAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15671091 original size:22 final size:23
Alignment explanation
Indices: 15671066--15671109 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
15671056 AGAACCGAAT
*
15671066 TATACAT-AAATAAATTTAAAAA
1 TATACATAAAAAAAATTTAAAAA
*
15671088 TATATATAAAAAAAATTTAAAA
1 TATACATAAAAAAAATTTAAAA
15671110 GAGAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TATACATAAAAAAAATTTAAAAA
Found at i:15671347 original size:3 final size:3
Alignment explanation
Indices: 15671339--15671382 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
15671329 AATTGAAACA
15671339 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15671383 AGAAGTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15672945 original size:45 final size:45
Alignment explanation
Indices: 15672850--15672946 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
15672840 GGTGGCTAAA
** *
15672850 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCCATTTCCG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTAACATTTCAG
15672895 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAAC-TTTCAG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA-CT-TAACATTTCAG
15672941 -TCTGCT
1 ATCTGCT
15672947 TCTTGCAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
45 38 0.81
46 7 0.15
47 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTTAACATTTCAG
Found at i:15673325 original size:176 final size:176
Alignment explanation
Indices: 15672597--15673326 Score: 1081
Period size: 176 Copynumber: 4.1 Consensus size: 176
15672587 TAGTCTTACA
** * * * * * *
15672597 GCAACTTCAAGAAGATAAGGTTTGTGA-CTTCAACCTGCTCCACTACAATTTCAGGGAGACAAAG
1 GCAACTTCAAGAAGATAAGACTTGT-ATCTTCAACCTGCT-CTCTGCAACTTCAGAGAGATAAGG
* *
15672661 TCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTGCTC
64 TTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTC
* *
15672726 CATAGCTGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCT
129 CATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
* * * * * * *
15672774 GCAACTTCAGGAAGATAAGACCTATATCTTCAACCTGCGCTCTTGCTACCTCAGAGAGATAAGGC
1 GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTC-TGCAACTTCAGAGAGATAAGGT
*
15672839 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCCAT-TTCCGATCTGCTC
65 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTT-CGATCTGCTC
** *
15672903 CATAGCCGATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCTT
129 CATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
* * *
15672951 GCAACTTAAAGAAGATAAGACTAG-AGTCTTCAACCTGCTCTTTGCAACTTCAGAGAGATAAGGT
1 GCAACTTCAAGAAGATAAGACTTGTA-TCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGT
* *
15673015 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGATCTACTCC
65 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCC
*
15673080 ATAGCCGATACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCT
130 ATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
*
15673127 GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAATTTCAGAGAGATAAGGTT
1 GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
* *
15673192 GGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCA
66 GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
*
15673257 TAGCCGATACATGGAGATAAGATCTGCAA-TTCTCAGTTTGCTTCCT
131 TAGCCGATACATGGAGATAAGATCTGCAACTT-TCAGTCTGCTTCCT
15673303 GCAACTTCAAGAAGATAAGACTTG
1 GCAACTTCAAGAAGATAAGACTTG
15673327 CGTATTAAGC
Statistics
Matches: 499, Mismatches: 47, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
175 2 0.00
176 313 0.63
177 184 0.37
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (176 bp):
GCAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
GGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
TAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCT
Found at i:15673353 original size:353 final size:354
Alignment explanation
Indices: 15672597--15673367 Score: 1117
Period size: 353 Copynumber: 2.2 Consensus size: 354
15672587 TAGTCTTACA
** * * *
15672597 GCAACTTCAAGAAGATAAGGTTTGTG-ACTTCAACCTGCTCCACTA-CAATTTCAGGGAGACAAA
1 GCAACTTCAAGAAGATAAGACTTGAGTA-TTCAACCTGCTCCAC-AGCAACTTCAGGGAGATAAA
*
15672660 GTCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTGCT
64 GTCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTACT
* * *
15672725 CCATAGCTGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAGGAAGAT
129 CCATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGAT
*
15672790 AAGACCTATATCTTCAACCTGCGCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTG
194 AAGACCTATATCTTCAACCTGCGCTCTTGCAACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTG
*
15672855 CTCCATAGCCGATACATGGAGATAAGACTTGCCATTTCCGATCTGCTCCATAGCCGATACATGGA
259 CTCCATAGCCAATACATGGAGATAAGACTTGCCATTTCCGATCTGCTCCATAGCCGATACATGGA
* *
15672920 GATAAGATCTATAACTTTCAGTCTGCTTCTT
324 GATAAGATCTACAACTTTCAGTCTGCTTCCT
* * * *** * *
15672951 GCAACTTAAAGAAGATAAGACTAGAGTCTTCAACCTGCT-CTTTGCAACTTCAGAGAGATAAGGT
1 GCAACTTCAAGAAGATAAGACTTGAGTATTCAACCTGCTCCACAGCAACTTCAGGGAGATAAAGT
* * *
15673015 TGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGATCTACTCC
66 CGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTACTCC
*
15673080 ATAGCCGATACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAA
131 ATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAA
* * * ** *
15673145 GACTTGTATCTTCAACCTGCTCTC-TGCAATTTCAGAGAGATAAGGTTGGTGGCTAAAATCTGCT
196 GACCTATATCTTCAACCTGCGCTCTTGCAACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCT
15673209 CCATAGCCAATACATGGAGATAAGA-TTCGCCATCTT-CGATCTGCTCCATAGCCGATACATGGA
261 CCATAGCCAATACATGGAGATAAGACTT-GCCAT-TTCCGATCTGCTCCATAGCCGATACATGGA
* *
15673272 GATAAGATCTGCAA-TTCTCAGTTTGCTTCCT
324 GATAAGATCTACAACTT-TCAGTCTGCTTCCT
* *
15673303 GCAACTTCAAGAAGATAAGACTTGCGTATT-AAGCCTGTTCCACAGCAACTTCAGGGAGATAAAG
1 GCAACTTCAAGAAGATAAGACTTGAGTATTCAA-CCTGCTCCACAGCAACTTCAGGGAGATAAAG
15673367 T
65 T
15673368 TTGTAATCTT
Statistics
Matches: 367, Mismatches: 43, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
351 6 0.02
352 147 0.40
353 182 0.50
354 32 0.09
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (354 bp):
GCAACTTCAAGAAGATAAGACTTGAGTATTCAACCTGCTCCACAGCAACTTCAGGGAGATAAAGT
CGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCGATCTACTCC
ATAGCCGATACATGGAGATAAGATCTGCAACTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAA
GACCTATATCTTCAACCTGCGCTCTTGCAACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCT
CCATAGCCAATACATGGAGATAAGACTTGCCATTTCCGATCTGCTCCATAGCCGATACATGGAGA
TAAGATCTACAACTTTCAGTCTGCTTCCT
Found at i:15685800 original size:3 final size:3
Alignment explanation
Indices: 15685792--15685842 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
15685782 AATAACAAAG
15685792 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15685840 TAA
1 TAA
15685843 AGTAATTCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15692141 original size:40 final size:40
Alignment explanation
Indices: 15692086--15692269 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
15692076 ATTTGAATGA
* *
15692086 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGATTT
*
15692126 TATCCGGGCTAAGTCCCGAAGGCATTTATGCAAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGATTT
* * * *
15692166 TATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGATTT
* * * *
15692206 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGATTT
* *
15692246 TACCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCA
15692270 ATTGTGCTTG
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 130 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGATTT
Found at i:15692224 original size:80 final size:80
Alignment explanation
Indices: 15692085--15692296 Score: 241
Period size: 80 Copynumber: 2.7 Consensus size: 80
15692075 CATTTGAATG
* * * * *
15692085 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
15692150 TTTATGCAAG-TGATT
66 TTTATGCAAGTTG-CT
* *
15692165 TTATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
15692229 ATTTGTGCGAGTTGCT
65 ATTTATGCAAGTTGCT
* * * ** *
15692245 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
15692297 ATTCCGAAGA
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 8 0.07
80 98 0.88
81 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCAAGTTGCT
Found at i:15695060 original size:29 final size:27
Alignment explanation
Indices: 15695042--15695111 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
15695032 ATATTAAGTC
15695042 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
15695069 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
15695097 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
15695112 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:15695105 original size:28 final size:28
Alignment explanation
Indices: 15695042--15695139 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
15695032 ATATTAAGTC
*
15695042 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15695069 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15695097 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15695126 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15695140 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15703173 original size:37 final size:37
Alignment explanation
Indices: 15703123--15703201 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
15703113 TTATTACGAA
* *
15703123 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
15703160 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
15703197 GTCTT
1 GTCTT
15703202 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:15703398 original size:47 final size:47
Alignment explanation
Indices: 15703320--15703887 Score: 938
Period size: 47 Copynumber: 12.1 Consensus size: 47
15703310 CCCTTCGGGA
* * * * * * * *
15703320 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*** *
15703367 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
15703414 CTTATCACATATATACATTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
15703461 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
15703508 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
15703555 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
15703602 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
15703649 CTTATCACACATATACACTTTCACATTCATCACATCGGCTTTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
15703696 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
15703743 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
15703790 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
15703837 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
15703884 CTTA
1 CTTA
15703888 CTATCATTTC
Statistics
Matches: 496, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 496 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:15705120 original size:22 final size:22
Alignment explanation
Indices: 15705095--15705137 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15705085 ACCCCTCCCT
15705095 TTTTATTTCTTTATTACTAACC
1 TTTTATTTCTTTATTACTAACC
* *
15705117 TTTTATTTTTTTATTTCTAAC
1 TTTTATTTCTTTATTACTAAC
15705138 ATAAATCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATTTCTTTATTACTAACC
Found at i:15706920 original size:19 final size:19
Alignment explanation
Indices: 15706898--15706935 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15706888 AAATGACGAG
15706898 GTATGAATTAGCTTGAGTT
1 GTATGAATTAGCTTGAGTT
*
15706917 GTATGAATTAGTTTGAGTT
1 GTATGAATTAGCTTGAGTT
15706936 TTATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (19 bp):
GTATGAATTAGCTTGAGTT
Found at i:15713079 original size:32 final size:33
Alignment explanation
Indices: 15713008--15713085 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
15712998 CATGGAATCC
* *
15713008 ATAGAGTAAGTCCGTTGGGATAGTAAATAGGGA
1 ATAGAGTAAGTCCGCTGGGATAGTAAACAGGGA
* **
15713041 ACAGAGTAAG-CCGCT-GGACTAGTAAACATTGA
1 ATAGAGTAAGTCCGCTGGGA-TAGTAAACAGGGA
15713073 ATAGAGTAAGTCC
1 ATAGAGTAAGTCC
15713086 ACCAGGACAG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
31 3 0.08
32 23 0.62
33 11 0.30
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (33 bp):
ATAGAGTAAGTCCGCTGGGATAGTAAACAGGGA
Found at i:15714764 original size:163 final size:163
Alignment explanation
Indices: 15714469--15714807 Score: 491
Period size: 163 Copynumber: 2.1 Consensus size: 163
15714459 CCCGTGTCTC
* * *
15714469 AGGCCATGTAGCTTTCGAACTAGAGACACACGGTCGTGTTATAGCCTGTGTCCTCACCCGTGTAA
1 AGGCCGTGTAACTTTCGAACTAGAGACACACGGTCGTGTTATAGCCTGTGTCATCACCCGTGTAA
* ** *
15714534 CTCACTGAGTAGGGTCACACGGTTGTGTCACACGCCCGTGTGTCAAGCCGTGTAACTTTCAAAAT
66 CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAAGCCATGTAACTTTCAAAAT
* * *
15714599 AGCCCTACACGCCTATGTACCAGGTAGTGTGCT
131 AGCCCTACACACCCATGTACCAGGTAGCGTGCT
* * *
15714632 AGGCTGTGTAACTTTTGAACTAGAGACACACGGTCGTGTTCTAGCCTGTGTCATCACCCGTGTAA
1 AGGCCGTGTAACTTTCGAACTAGAGACACACGGTCGTGTTATAGCCTGTGTCATCACCCGTGTAA
* ** *
15714697 CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAGGTTATGTAACTCTT-GAAA
66 CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAAGCCATGTAACT-TTCAAAA
* *
15714761 TAGCCCTACACACCCGTGTGCCAGGTAGCGTGCT
130 TAGCCCTACACACCCATGTACCAGGTAGCGTGCT
15714795 AGGCCGTGTAACT
1 AGGCCGTGTAACT
15714808 GTCTGACTTG
Statistics
Matches: 155, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
163 153 0.99
164 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (163 bp):
AGGCCGTGTAACTTTCGAACTAGAGACACACGGTCGTGTTATAGCCTGTGTCATCACCCGTGTAA
CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAAGCCATGTAACTTTCAAAAT
AGCCCTACACACCCATGTACCAGGTAGCGTGCT
Found at i:15728258 original size:29 final size:29
Alignment explanation
Indices: 15728189--15728295 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
15728179 TCCACATACC
* * *
15728189 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAACCATA
15728217 T-TCA-ATGGCCCATTAGGCCCAAACCACT-
1 TGT-ATATGGCCCATTAGGCCCAAACCA-TA
*
15728245 TGTATATGGCCCATTAGGCCCAAATCATA
1 TGTATATGGCCCATTAGGCCCAAACCATA
* **
15728274 TTTATATGGCCTGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
15728296 GTCACATTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
27 15 0.23
28 9 0.14
29 42 0.64
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAACCATA
Found at i:15731197 original size:29 final size:29
Alignment explanation
Indices: 15731155--15731214 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
15731145 GTTATTTTGA
15731155 GATCTAGAATTATTGTTACCTATGTATTG
1 GATCTAGAATTATTGTTACCTATGTATTG
15731184 GATCTAGAATTATTGTTACCTATGTATTG
1 GATCTAGAATTATTGTTACCTATGTATTG
15731213 GA
1 GA
15731215 CTTGTTTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.43
Consensus pattern (29 bp):
GATCTAGAATTATTGTTACCTATGTATTG
Found at i:15734610 original size:20 final size:22
Alignment explanation
Indices: 15734580--15734627 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
15734570 GAATATGTTG
*
15734580 TAAACTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
15734602 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
15734623 TAAAT
1 TAAAT
15734628 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:15735323 original size:33 final size:33
Alignment explanation
Indices: 15735277--15735409 Score: 157
Period size: 33 Copynumber: 4.1 Consensus size: 33
15735267 CCTAAAAGGT
*
15735277 TACA-TTTGAAAAGGTTATGTACACTTTGTGTG
1 TACACTTTGAAAAGGTTATGTATACTTTGTGTG
*
15735309 TACACTTTGAAAAGGTTATGTATACTTCGTGTG
1 TACACTTTGAAAAGGTTATGTATACTTTGTGTG
* *
15735342 TACAC-TTGAAAAGGTTAGGTATA-TTCTGTGTA
1 TACACTTTGAAAAGGTTATGTATACTT-TGTGTG
** *
15735374 TAC-CATTTGAAAAGGAAATGTATACTTTCTGTG
1 TACAC-TTTGAAAAGGTTATGTATACTTTGTGTG
15735407 TAC
1 TAC
15735410 TGCTTGAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
31 3 0.03
32 28 0.33
33 53 0.62
34 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (33 bp):
TACACTTTGAAAAGGTTATGTATACTTTGTGTG
Found at i:15735372 original size:65 final size:65
Alignment explanation
Indices: 15735277--15735421 Score: 170
Period size: 65 Copynumber: 2.2 Consensus size: 65
15735267 CCTAAAAGGT
* * * **
15735277 TACATTTGAAAAGGTTATGTACACTTTGTGTGTA-CACTTTGAAAAGGTTATGTATAC-TTCGTG
1 TACACTTGAAAAGGTTAGGTACACTTTGTGTATACCA-TTTGAAAAGGAAATGTATACTTTC-TG
15735340 TG
64 TG
*
15735342 TACACTTGAAAAGGTTAGGTATA-TTCTGTGTATACCATTTGAAAAGGAAATGTATACTTTCTGT
1 TACACTTGAAAAGGTTAGGTACACTT-TGTGTATACCATTTGAAAAGGAAATGTATACTTTCTGT
15735406 G
65 G
*
15735407 TACTGCTTGAAAAGG
1 TAC-ACTTGAAAAGG
15735422 AACGTACACC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 2 0.03
65 52 0.75
66 15 0.22
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.37
Consensus pattern (65 bp):
TACACTTGAAAAGGTTAGGTACACTTTGTGTATACCATTTGAAAAGGAAATGTATACTTTCTGTG
Found at i:15737643 original size:58 final size:56
Alignment explanation
Indices: 15737521--15737644 Score: 131
Period size: 58 Copynumber: 2.2 Consensus size: 56
15737511 TCAGTGTTCC
* * *
15737521 TTTCTAAATGAATTCATTTCTCATTTTCATTTCCATTTTGGAGAAAACCACATTTA
1 TTTCCAAATGAATTCATTTCTCATTTTCATTTCCATTTTGGAGAAAACCACAATCA
* * * * * ***
15737577 TTTACAAATGATTTCATTTCTGTATTTTGATTTTCATTTTTGGAGAAAACTTTAATCA
1 TTTCCAAATGAATTCATTTCT-CATTTTCATTTCCA-TTTTGGAGAAAACCACAATCA
15737635 TTTCCAAATG
1 TTTCCAAATG
15737645 TTTACTATTT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
56 18 0.33
57 11 0.20
58 25 0.46
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.47
Consensus pattern (56 bp):
TTTCCAAATGAATTCATTTCTCATTTTCATTTCCATTTTGGAGAAAACCACAATCA
Found at i:15743607 original size:20 final size:21
Alignment explanation
Indices: 15743584--15743624 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15743574 ATTATGTTCT
*
15743584 TTCC-ATTTAAATAAATAACA
1 TTCCTATTTAAAAAAATAACA
15743604 TTCCTATTTAAAAAAATAACA
1 TTCCTATTTAAAAAAATAACA
15743625 ATTATTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (21 bp):
TTCCTATTTAAAAAAATAACA
Found at i:15744318 original size:22 final size:23
Alignment explanation
Indices: 15744290--15744338 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
15744280 AATAACACAT
15744290 AAATTCTACACA-AAAAAAAAAC
1 AAATTCTACACATAAAAAAAAAC
*
15744312 AAATTCTACACATAAAAAATAAC
1 AAATTCTACACATAAAAAAAAAC
15744335 AAAT
1 AAAT
15744339 AAAAATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.18
Consensus pattern (23 bp):
AAATTCTACACATAAAAAAAAAC
Found at i:15748008 original size:35 final size:30
Alignment explanation
Indices: 15747933--15747989 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
15747923 ATTAAATGGC
15747933 ATGAAATGTATATGAAATAGTATGTTTGGT
1 ATGAAATGTATATGAAATAGTATGTTTGGT
15747963 ATGAAATGTATATGAAATAGTATGTTT
1 ATGAAATGTATATGAAATAGTATGTTT
15747990 TGGCTGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.40
Consensus pattern (30 bp):
ATGAAATGTATATGAAATAGTATGTTTGGT
Found at i:15748402 original size:43 final size:43
Alignment explanation
Indices: 15748354--15748449 Score: 183
Period size: 43 Copynumber: 2.2 Consensus size: 43
15748344 GACCTGGTAC
15748354 ACAGGCGTGTGTGGCCACTTTGAAGGGCACACGGGCTAGACAT
1 ACAGGCGTGTGTGGCCACTTTGAAGGGCACACGGGCTAGACAT
*
15748397 ACAGGCGTGTGTGGCCACTTTGAAGGTCACACGGGCTAGACAT
1 ACAGGCGTGTGTGGCCACTTTGAAGGGCACACGGGCTAGACAT
15748440 ACAGGCGTGT
1 ACAGGCGTGT
15748450 CGTCGGCCGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.20
Consensus pattern (43 bp):
ACAGGCGTGTGTGGCCACTTTGAAGGGCACACGGGCTAGACAT
Found at i:15751580 original size:12 final size:12
Alignment explanation
Indices: 15751563--15751587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15751553 ATGTAAGTGA
15751563 TCTTGATGATTT
1 TCTTGATGATTT
15751575 TCTTGATGATTT
1 TCTTGATGATTT
15751587 T
1 T
15751588 TTTTGGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:15752451 original size:47 final size:45
Alignment explanation
Indices: 15752306--15752517 Score: 166
Period size: 47 Copynumber: 4.6 Consensus size: 45
15752296 GAGGGCTAGA
* *
15752306 GTAAGACATGTCTGGGACATGCATCAGCC-ACATTATGATTGCCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCTA-A-GATGATAGCCAGT
* * * * *
15752352 GTAAGACCATGTTTGGGACATGGCATC-GACGTAGAGATCAGT-GCTAGA
1 GTAAGA-CATGTCTGGGACAT-GCATCAG-CCTA-AGATGA-TAGCCAGT
15752400 GTAAGACATGTCTGGGACATGCATCAGCCTCAACGATGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCT-AA-GATGATAGCCAGT
* * * * *
15752447 GTAAGACGTGTCTGAGACATGCATC-GGCTAAGCTTCG-T-GCTAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCTAAG-AT-GATAGCCAGT
*
15752491 GTAAGACATGTCTGGAACATGCATCAG
1 GTAAGACATGTCTGGGACATGCATCAG
15752518 TACGTATACA
Statistics
Matches: 134, Mismatches: 20, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
44 28 0.21
45 5 0.04
46 19 0.14
47 60 0.45
48 19 0.14
49 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCAGCCTAAGATGATAGCCAGT
Found at i:15752466 original size:94 final size:91
Alignment explanation
Indices: 15752300--15752517 Score: 278
Period size: 94 Copynumber: 2.4 Consensus size: 91
15752290 TTATATGAGG
** * *
15752300 GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATTGCCAGTGTAAGACCATGTT
1 GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCACACGATGATAGCCAGTGTAAGACCATGTC
*
15752365 TGGGACATGGCATCGACGTAGAG-ATCAGT
66 TGAGACAT-GCATCGAC-TA-AGCATC-GT
* *
15752394 GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCTCAACGATGATAGCCAGTGTAAGA-CGTGT
1 GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCAC-ACGATGATAGCCAGTGTAAGACCATGT
* *
15752458 CTGAGACATGCATCGGCTAAGCTTCGT
65 CTGAGACATGCATCGACTAAGCATCGT
* *
15752485 GCTAGTGTAAGACATGTCTGGAACATGCATCAG
1 GCTAGAGTAAGACATGTCTGGGACATGCATCAG
15752518 TACGTATACA
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
91 35 0.32
92 4 0.04
93 7 0.06
94 47 0.42
95 18 0.16
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (91 bp):
GCTAGAGTAAGACATGTCTGGGACATGCATCAGCCACACGATGATAGCCAGTGTAAGACCATGTC
TGAGACATGCATCGACTAAGCATCGT
Found at i:15753498 original size:37 final size:37
Alignment explanation
Indices: 15753439--15753540 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
15753429 AGCTCAGACG
* *
15753439 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
15753476 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
15753513 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
15753541 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:15753737 original size:47 final size:47
Alignment explanation
Indices: 15753659--15753881 Score: 331
Period size: 47 Copynumber: 4.7 Consensus size: 47
15753649 CCCTTCGGGA
* * * ** * *
15753659 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
* *
15753706 CCTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
15753753 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
*
15753800 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
*
15753847 CTTATCACATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
15753882 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.01
47 161 0.99
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
Found at i:15753761 original size:22 final size:22
Alignment explanation
Indices: 15753734--15753809 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
15753724 TTTCACATTC
15753734 ATCACATCAGCCATTAGGCCTT
1 ATCACATCAGCCATTAGGCCTT
* ** *** *
15753756 ATCACATATATACACTTTCACATT
1 ATCACAT-CAGCCA-TTAGGCCTT
15753780 CATCACATCAGCCATTAGGCCTT
1 -ATCACATCAGCCATTAGGCCTT
15753803 ATCACAT
1 ATCACAT
15753810 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (22 bp):
ATCACATCAGCCATTAGGCCTT
Found at i:15759139 original size:40 final size:40
Alignment explanation
Indices: 15759036--15759180 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
15759026 TACTCGAATG
* *
15759036 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
15759077 ACATCCGGACTAAGAT-CAGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
15759117 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
15759157 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
15759181 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 27 0.30
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:15766264 original size:12 final size:12
Alignment explanation
Indices: 15766247--15766271 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15766237 ATGTAAGTGA
15766247 TCTTGATGATTT
1 TCTTGATGATTT
15766259 TCTTGATGATTT
1 TCTTGATGATTT
15766271 T
1 T
15766272 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:15766787 original size:56 final size:56
Alignment explanation
Indices: 15766701--15766875 Score: 341
Period size: 56 Copynumber: 3.1 Consensus size: 56
15766691 ACAAGGGATG
*
15766701 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
15766757 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
15766813 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
15766869 ATGGGCA
1 ATGGGCA
15766876 TTAAACTAAT
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:15768239 original size:40 final size:40
Alignment explanation
Indices: 15768001--15768225 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
15767991 TCGAATGATG
* * * *
15768001 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15768041 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15768081 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15768120 TCCGGGTTAAGTCCCGAAGGAATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15768160 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15768201 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15768226 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15770253 original size:47 final size:46
Alignment explanation
Indices: 15770188--15770498 Score: 179
Period size: 47 Copynumber: 6.6 Consensus size: 46
15770178 GAGGGCTAGA
* *
15770188 GTAAGACATGTTTGGGACATGCATCAGCCATATTATGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCATATTATGATAGCCAGT
* * * * * *
15770234 GTAAGACCATGTCTGGGACACGGCATTGGTGCAGA-GATGAGT-GCTAGT
1 GTAAGA-CATGTCTGGGACA-TGCATCGG-CCATATTATGA-TAGCCAGT
**
15770282 GTAAGACATGTCTGGGACATGCATCGGCC-TCAACGATGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCAT--ATTATGATAGCCAGT
* * *
15770329 GTAAGACGTGTCTGGGACATGCATCGGCTA-AGCTT-TG-T-GCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCATA--TTATGATAGCCAGT
* * * * * * *
15770373 GTAAGACTTGTCTGGGACATGCATTGGTACGTATATACGAGAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGG-CCATAT-TATGATAGCCAGT
* * ** * * *
15770421 GTAAGACCATGTCTGAGATATGGCATCAACC-TCGATAAAGATAGCCGGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCAT--ATTATGATAGCCAGT
15770470 GTAAGACCATGTCTGGGACATGGCATCGG
1 GTAAGA-CATGTCTGGGACAT-GCATCGG
15770499 TAACTTCACC
Statistics
Matches: 203, Mismatches: 41, Indels: 39
0.72 0.14 0.14
Matches are distributed among these distances:
44 31 0.15
45 4 0.02
46 18 0.09
47 62 0.31
48 33 0.16
49 49 0.24
50 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCCATATTATGATAGCCAGT
Found at i:15770389 original size:91 final size:93
Alignment explanation
Indices: 15770176--15770396 Score: 254
Period size: 94 Copynumber: 2.4 Consensus size: 93
15770166 ATTGGGTTAT
* * * **
15770176 ATGAGGGCTAGAGTAAGACATGTTTGGGACATGCATCAGCCATATTATGATAGCCAGTGTAAGAC
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACGATGATAGCCAGTGTAAGAC
*
15770241 CATGTCTGGGACACGGCATTGGTGCAGAG
66 CATGTCTGGGACACGGCATCGGT-CAGAG
*
15770270 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAACGATGATAGCCAGTGTAAG
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACGATGATAGCCAGTGTAAG
* *
15770334 A-CGTGTCTGGGACA-TGCATCGG-CTA-AG
64 ACCATGTCTGGGACACGGCATCGGTC-AGAG
* ** *
15770361 CTTTGTGCTAGTGTAAGACTTGTCTGGGACATGCAT
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCAT
15770397 TGGTACGTAT
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 35 0.32
92 1 0.01
93 7 0.06
94 49 0.44
95 19 0.17
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (93 bp):
ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACGATGATAGCCAGTGTAAGAC
CATGTCTGGGACACGGCATCGGTCAGAG
Found at i:15771365 original size:55 final size:55
Alignment explanation
Indices: 15771248--15771365 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
15771238 TTAAACTTTT
* * * * * * *
15771248 AAATCAGGATTGCCCATGGTTAGGCCACATGGGCGTGTGCCATAGCCATGTCTTT
1 AAATCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCCCTA
* * * *
15771303 AAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTGCCCTA
1 AAATCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCCCTA
15771358 AAATCAGT
1 AAATCAGT
15771366 GTCGCACACG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (55 bp):
AAATCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCCCTA
Found at i:15772276 original size:41 final size:41
Alignment explanation
Indices: 15772189--15772382 Score: 178
Period size: 41 Copynumber: 4.7 Consensus size: 41
15772179 ATACTCGATA
** ** * *
15772189 TCTCGCATGCTAAGTGCCAATGTATAGCTGAAGCTAT-TATAA
1 TCTCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCT-TAG
* *
15772231 TCTCGCACACTAAGTGCCTTACATAGCCGAAGCTATCTTGG
1 TCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTAG
* *
15772272 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTAT-TATAA
1 TCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCT-TAG
* * * *
15772313 TCTCACACACTAAGTGCCATAAATAGTCGAAGCTATC-TCG
1 TCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTAG
** * *
15772353 AATCGCACACTAACTGCCAAACATAGCCGA
1 TCTCGCACACTAAGTGCCATACATAGCCGA
15772383 TTTGTTGTTG
Statistics
Matches: 125, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 25 0.20
41 83 0.66
42 17 0.14
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTAG
Found at i:15772327 original size:82 final size:81
Alignment explanation
Indices: 15772189--15772382 Score: 244
Period size: 82 Copynumber: 2.4 Consensus size: 81
15772179 ATACTCGATA
** * * * * *
15772189 TCTCGCATGCTAAGTGCCAATGTATAGCTGAAGCTATTATAATCTCGCACACTAAGTGCCTTACA
1 TCTCGCACACTAAGTGCC-ATATATAGCCGAAGCTATTATAATCTCACACACTAAGTGCCATAAA
*
15772254 TAGCCGAAGCTATCTTGG
65 TAGCCGAAGCTATC-TCG
15772272 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATTATAATCTCACACACTAAGTGCCATAAAT
1 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATTATAATCTCACACACTAAGTGCCATAAAT
*
15772337 AGTCGAAGCTATCTCG
66 AGCCGAAGCTATCTCG
** * * *
15772353 AATCGCACACTAACTGCCAAACATAGCCGA
1 TCTCGCACACTAAGTGCCATATATAGCCGA
15772383 TTTGTTGTTG
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 27 0.28
82 54 0.56
83 16 0.16
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (81 bp):
TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATTATAATCTCACACACTAAGTGCCATAAAT
AGCCGAAGCTATCTCG
Found at i:15773795 original size:37 final size:37
Alignment explanation
Indices: 15773745--15773826 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
15773735 GTAAACCCAT
* *
15773745 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAGATCAG
1 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAAATCAA
15773782 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAAATCAA
1 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAAATCAA
15773819 TTAACTCC
1 TTAACTCC
15773827 CAGGTGTCGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (37 bp):
TTAACTCCAATTGGCTTTTTTCCTCTTGAAAAATCAA
Found at i:15783652 original size:30 final size:30
Alignment explanation
Indices: 15783618--15783689 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
15783608 GAATTTGATC
15783618 AAATTAAAATTTCATTTATAAAATTGCACA
1 AAATTAAAATTTCATTTATAAAATTGCACA
15783648 AAATTAAAATTTCATTTATAAAATTGCACA
1 AAATTAAAATTTCATTTATAAAATTGCACA
15783678 AAATTAAAATTT
1 AAATTAAAATTT
15783690 ATGTATACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (30 bp):
AAATTAAAATTTCATTTATAAAATTGCACA
Found at i:15783657 original size:16 final size:16
Alignment explanation
Indices: 15783636--15783688 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
15783626 ATTTCATTTA
15783636 TAAAATTGCACAAAAT
1 TAAAATTGCACAAAAT
* ***
15783652 TAAAATTTCA-TTTA-
1 TAAAATTGCACAAAAT
15783666 TAAAATTGCACAAAAT
1 TAAAATTGCACAAAAT
15783682 TAAAATT
1 TAAAATT
15783689 TATGTATACA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
14 9 0.33
15 2 0.07
16 16 0.59
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (16 bp):
TAAAATTGCACAAAAT
Found at i:15784028 original size:20 final size:20
Alignment explanation
Indices: 15784003--15784063 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
15783993 ATGACATGTG
15784003 ATATTTTTAATTAAATAAAA
1 ATATTTTTAATTAAATAAAA
**
15784023 ATATTTAAAATTAAAT---A
1 ATATTTTTAATTAAATAAAA
*
15784040 ATATTTTTAATTAAATAAAT
1 ATATTTTTAATTAAATAAAA
15784060 ATAT
1 ATAT
15784064 AGATGATGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 15 0.45
20 18 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTTTAATTAAATAAAA
Found at i:15784044 original size:17 final size:17
Alignment explanation
Indices: 15784018--15784057 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15784008 TTTAATTAAA
15784018 TAAA-AATATTTAAAAT
1 TAAATAATATTTAAAAT
**
15784034 TAAATAATATTTTTAAT
1 TAAATAATATTTAAAAT
15784051 TAAATAA
1 TAAATAA
15784058 ATATATAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAATATTTAAAAT
Found at i:15784621 original size:29 final size:29
Alignment explanation
Indices: 15784570--15784625 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
15784560 ATACATTCTT
* * *
15784570 TTATATTTATATATTGTATAAATAAATAA
1 TTATATTTATATAATATAAAAATAAATAA
*
15784599 TTATATTTATCTAATATAAAAATAAAT
1 TTATATTTATATAATATAAAAATAAAT
15784626 TGGTGTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
TTATATTTATATAATATAAAAATAAATAA
Found at i:15789640 original size:15 final size:15
Alignment explanation
Indices: 15789618--15789665 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
15789608 TTTTGAGCAA
15789618 TTTA-ATTTTTTTCT
1 TTTATATTTTTTTCT
15789632 TTTATATTTTTTTAACT
1 TTTATATTTTTTT--CT
*
15789649 TTCAT-TTTTTTTCT
1 TTTATATTTTTTTCT
15789663 TTT
1 TTT
15789666 TTTTCCATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 8 0.28
15 8 0.28
16 7 0.24
17 6 0.21
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATATTTTTTTCT
Found at i:15797673 original size:26 final size:26
Alignment explanation
Indices: 15797605--15797675 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
15797595 TCTCATACCT
*
15797605 ATTTT-CCACCTAACAAAATTTTGACG
1 ATTTTACC-CCTAATAAAATTTTGACG
** *
15797631 ATTTTACCCCTGGTAAAATTTTGATG
1 ATTTTACCCCTAATAAAATTTTGACG
* *
15797657 ATTTTGCCCTTAATAAAAT
1 ATTTTACCCCTAATAAAAT
15797676 GCCGAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
26 34 0.94
27 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACG
Found at i:15797832 original size:6 final size:6
Alignment explanation
Indices: 15797821--15797851 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
15797811 TGCAAAAGGA
15797821 TCATTT TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT T
15797852 TGGAAACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:15814715 original size:26 final size:26
Alignment explanation
Indices: 15814679--15814747 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
15814669 CCTGCACATA
*
15814679 TATGCTCACACGAGCTGTGAAATGAG
1 TATGCTCACACGAGCTGAGAAATGAG
* * *
15814705 TATGCTTACACGAGTTGAGAAATGGG
1 TATGCTCACACGAGCTGAGAAATGAG
* * *
15814731 TCTTCTCACATGAGCTG
1 TATGCTCACACGAGCTG
15814748 TGCGGTGGAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
TATGCTCACACGAGCTGAGAAATGAG
Found at i:15817242 original size:18 final size:18
Alignment explanation
Indices: 15817219--15817254 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15817209 TAAGATTGTG
15817219 ATACAATGAACCTGGTCA
1 ATACAATGAACCTGGTCA
*
15817237 ATACAATGAACTTGGTCA
1 ATACAATGAACCTGGTCA
15817255 TAGTTGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (18 bp):
ATACAATGAACCTGGTCA
Found at i:15818863 original size:14 final size:15
Alignment explanation
Indices: 15818839--15818867 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15818829 TGTGATTATT
15818839 ATGATGATTGATATG
1 ATGATGATTGATATG
15818854 ATGA-GATTGATATG
1 ATGATGATTGATATG
15818868 TTAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (15 bp):
ATGATGATTGATATG
Found at i:15823741 original size:26 final size:26
Alignment explanation
Indices: 15823711--15823768 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
15823701 CATTATGTTA
* *
15823711 GAAAGTCTCGAAATCTTTATTTAATT
1 GAAAGACTCGAAATCTCTATTTAATT
15823737 GAAAGACTCGAAATCTCTATTTAATT
1 GAAAGACTCGAAATCTCTATTTAATT
*
15823763 AAAAGA
1 GAAAGA
15823769 ATTGTATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (26 bp):
GAAAGACTCGAAATCTCTATTTAATT
Found at i:15826021 original size:22 final size:24
Alignment explanation
Indices: 15825977--15826022 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15825967 GGGTAGGACT
* *
15825977 TTTTCTGAGAAATCCACATTATTG
1 TTTTCTGAAAAATACACATTATTG
15826001 TTTTCTGAAAAATAC-CA-TATTG
1 TTTTCTGAAAAATACACATTATTG
15826023 GCATAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 2 0.10
24 13 0.65
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTCTGAAAAATACACATTATTG
Found at i:15837426 original size:22 final size:20
Alignment explanation
Indices: 15837369--15837428 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
15837359 GTAACAAAAG
15837369 AATAAAAATGACTAAACTAAA
1 AATAAAAAT-ACTAAACTAAA
* *
15837390 AAGAAAGTAAAACTAAACTAAA
1 AATAAA--AATACTAAACTAAA
15837412 AACCTAAAAATACTAAA
1 AA--TAAAAATACTAAA
15837429 ACGGCTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 5 0.16
22 21 0.68
23 2 0.06
24 3 0.10
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.17
Consensus pattern (20 bp):
AATAAAAATACTAAACTAAA
Found at i:15845894 original size:19 final size:20
Alignment explanation
Indices: 15845852--15845896 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
15845842 TTTTATAAAA
**
15845852 TTTTATAAAATAATTTATTTT
1 TTTTATAAAAT-ATTTATGGT
15845873 TTTTATAAAAT-TTTATGGT
1 TTTTATAAAATATTTATGGT
15845892 TTTTA
1 TTTTA
15845897 ATACATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
21 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTATAAAATATTTATGGT
Found at i:15849390 original size:51 final size:50
Alignment explanation
Indices: 15849312--15849486 Score: 219
Period size: 51 Copynumber: 3.5 Consensus size: 50
15849302 ACGGACACCC
* * *
15849312 AGTGGCCTGCACATAGTACCACTCTTGTAGTCAAAGCTACCTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCAAAGCTACCTTCTTCACAA
* * *
15849363 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCCATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTG-TCAAAGCTA-CCTTCTTCACAA
* * * *
15849415 AGTGG-CTTCACATAGTACCACACTTGTGACCAAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAA
15849463 AGTGGCCTTCACATAGTACCACAC
1 AGTGGCCTTCACATAGTACCACAC
15849487 CTGAGTCACT
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
48 13 0.12
49 18 0.17
50 7 0.06
51 56 0.51
52 15 0.14
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAA
Found at i:15855684 original size:51 final size:50
Alignment explanation
Indices: 15855606--15855780 Score: 219
Period size: 51 Copynumber: 3.5 Consensus size: 50
15855596 ACAGATACCC
* * * *
15855606 AGTGGCCTGCACATAGTACCACTCTTGTAGTCAAAGCTACCTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GACAAAGCTACCTTCTTCACAA
* * *
15855657 AGTGGCCTTCACATAGTACCACGCTTGTGACTAAAGCCATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGAC-AAAGCTA-CCTTCTTCACAA
* * *
15855709 AGTGG-CTTCACATAGTACCACACTTGTGACCAAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACAAAGCTACCTTCTTCACAA
15855757 AGTGGCCTTCACATAGTACCACAC
1 AGTGGCCTTCACATAGTACCACAC
15855781 CTGAGTCACT
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
48 13 0.12
49 18 0.17
50 7 0.06
51 56 0.51
52 15 0.14
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACAAAGCTACCTTCTTCACAA
Found at i:15861519 original size:155 final size:155
Alignment explanation
Indices: 15861237--15861548 Score: 597
Period size: 155 Copynumber: 2.0 Consensus size: 155
15861227 GCCATGGAAT
15861237 TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATGGACATG
1 TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATGGACATG
15861302 AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
66 AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
15861367 AAGGGAAAAATAGAGCAAAATTTGC
131 AAGGGAAAAATAGAGCAAAATTTGC
*
15861392 TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAACTGGACATG
1 TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATGGACATG
*
15861457 AATAGTAAAAATTTGAAAGAAAAGCCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
66 AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
*
15861522 AAGGGAAAAATGGAGCAAAATTTGC
131 AAGGGAAAAATAGAGCAAAATTTGC
15861547 TT
1 TT
15861549 ATCTTCTCCA
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 154 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (155 bp):
TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATGGACATG
AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
AAGGGAAAAATAGAGCAAAATTTGC
Found at i:15863116 original size:29 final size:30
Alignment explanation
Indices: 15863082--15863145 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
15863072 CAAGTAGTTG
15863082 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
* *
15863111 AAGCTAGTTTAAGTTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
15863141 AAGCT
1 AAGCT
15863146 TCCGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:15868896 original size:25 final size:25
Alignment explanation
Indices: 15868859--15868906 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
15868849 CAACATCGTC
15868859 AGCTACAGCTCTATCGGGATCCATT
1 AGCTACAGCTCTATCGGGATCCATT
*
15868884 AGCTACAGGTCTATCGGGATCCA
1 AGCTACAGCTCTATCGGGATCCA
15868907 AGAATTCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (25 bp):
AGCTACAGCTCTATCGGGATCCATT
Found at i:15875055 original size:29 final size:29
Alignment explanation
Indices: 15874988--15875065 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 29
15874978 TAAATACATG
*
15874988 CATATGACCCA-CTTGGCCCAATCTCATTT
1 CATATGACCCATC-AGGCCCAATCTCATTT
*
15875017 -ATATGGCCCATCAGGCCCAAT-TCATATT
1 CATATGACCCATCAGGCCCAATCTCAT-TT
*
15875045 CATATGACCCATTAGGCCCAA
1 CATATGACCCATCAGGCCCAA
15875066 ATCACCTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 4 0.10
28 19 0.45
29 19 0.45
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (29 bp):
CATATGACCCATCAGGCCCAATCTCATTT
Found at i:15875078 original size:29 final size:29
Alignment explanation
Indices: 15874989--15875099 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 29
15874979 AAATACATGC
*
15874989 ATATGACCCACTT-GGCCC-AATCTCATTT
1 ATATGACCCA-TTAGGCCCAAATCACATTT
* * * * *
15875017 ATATGGCCCATCAGGCCCAATTCATATTC
1 ATATGACCCATTAGGCCCAAATCACATTT
*
15875046 ATATGACCCATTAGGCCCAAATCACCTTT
1 ATATGACCCATTAGGCCCAAATCACATTT
* *
15875075 ATATGGCCCGTTAGGCCCAAATCAC
1 ATATGACCCATTAGGCCCAAATCAC
15875100 CTTATATTCA
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
27 1 0.01
28 14 0.21
29 52 0.78
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.27
Consensus pattern (29 bp):
ATATGACCCATTAGGCCCAAATCACATTT
Found at i:15875100 original size:29 final size:29
Alignment explanation
Indices: 15875046--15875106 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
15875036 ATTCATATTC
*
15875046 ATATGACCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
*
15875075 ATATGGCCCGTTAGGCCCAAATCACC-TT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
15875103 ATAT
1 ATAT
15875107 TCATACTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTTT
Found at i:15879541 original size:29 final size:28
Alignment explanation
Indices: 15879472--15879578 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 28
15879462 TACATACATG
15879472 CATATGGCCCACTT-GGCCCAATTTCATTT
1 CATATGGCCCA-TTAGGCCCAA-TTCATTT
*
15879501 -ATTTGGCCCATTAGGCCCAATTCATATT
1 CATATGGCCCATTAGGCCCAATTCAT-TT
*
15879529 CATATGGCCCATTAGGCCCAAATCACCTTT
1 CATATGGCCCATTAGGCCCAATTCA--TTT
*
15879559 -ATATGGCCCGTTAGGCCCAA
1 CATATGGCCCATTAGGCCCAA
15879579 ATAACCTTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
27 7 0.10
28 18 0.26
29 41 0.59
30 2 0.03
31 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATTCATTT
Found at i:15879579 original size:29 final size:29
Alignment explanation
Indices: 15879473--15879590 Score: 118
Period size: 29 Copynumber: 4.1 Consensus size: 29
15879463 ACATACATGC
*
15879473 ATATGGCCCACTT-GGCCCAATTTCA--TTT
1 ATATGGCCCA-TTAGGCCCAA-ATCACCTTT
* * ** *
15879501 ATTTGGCCCATTAGGCCCAATTCATATTC
1 ATATGGCCCATTAGGCCCAAATCACCTTT
15879530 ATATGGCCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
* *
15879559 ATATGGCCCGTTAGGCCCAAATAACC-TT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
15879587 ATAT
1 ATAT
15879591 TTATAACTCA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.08
28 22 0.28
29 50 0.64
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.31
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTTT
Done.