Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 53 of 128
Found at i:16838079 original size:25 final size:25
Alignment explanation
Indices: 16838045--16838097 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
16838035 TTTTTTTAAG
*
16838045 AATTGATTGTTTGTAATTAAATTCA
1 AATTAATTGTTTGTAATTAAATTCA
*
16838070 AATTAATTGTTTGTAATTGAATTCA
1 AATTAATTGTTTGTAATTAAATTCA
16838095 AAT
1 AAT
16838098 AAGTAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (25 bp):
AATTAATTGTTTGTAATTAAATTCA
Found at i:16841219 original size:20 final size:21
Alignment explanation
Indices: 16841194--16841242 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
16841184 ATTACATTTG
16841194 CATTTCCCAATTCCC-CTCCC
1 CATTTCCCAATTCCCACTCCC
* * *
16841214 CATTTCCCATTTCCCATTTCC
1 CATTTCCCAATTCCCACTCCC
16841235 CATTTCCC
1 CATTTCCC
16841243 GACCCCTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.14, C:0.49, G:0.00, T:0.37
Consensus pattern (21 bp):
CATTTCCCAATTCCCACTCCC
Found at i:16841222 original size:7 final size:7
Alignment explanation
Indices: 16841194--16841242 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
16841184 ATTACATTTG
16841194 CATTTCC
1 CATTTCC
*
16841201 CAATTCC
1 CATTTCC
* *
16841208 C-CTCCC
1 CATTTCC
16841214 CATTTCC
1 CATTTCC
16841221 CATTTCC
1 CATTTCC
16841228 CATTTCC
1 CATTTCC
16841235 CATTTCC
1 CATTTCC
16841242 C
1 C
16841243 GACCCCTATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
6 4 0.11
7 32 0.89
ACGTcount: A:0.14, C:0.49, G:0.00, T:0.37
Consensus pattern (7 bp):
CATTTCC
Found at i:16848495 original size:126 final size:126
Alignment explanation
Indices: 16848270--16848500 Score: 320
Period size: 126 Copynumber: 1.8 Consensus size: 126
16848260 AGCTCTACTC
*
16848270 ATATTTGTTAAGATTAGCAGAGTAAATGAATAGCTTAGAACCCCACTCGATCTTTTGATGTGAAG
1 ATATTTGTTAAGATTAGCAGAGCAAATGAATAGCTTAGAACCCCACTCGATCTTTTGATGTGAAG
* *
16848335 ATAGATGACAACCCAAGCACCTGATCTCGGTTACTCAATCAATCACATCTCTAGATGATTA
66 ATAGATGAAAACCCAAGCACCTGACCTCGGTTACTCAATCAATCACATCTCTAGATGATTA
* * * **** *
16848396 ATATTTGTTAAGATTAGCAGAGCAAGTGCATAGCTTATAATGTGACTTGATCTTTTGATGTGAAG
1 ATATTTGTTAAGATTAGCAGAGCAAATGAATAGCTTAGAACCCCACTCGATCTTTTGATGTGAAG
* * *
16848461 ATATATGAAAACCCAAGCACTTGACC-CTGGTTACTTAATC
66 ATAGATGAAAACCCAAGCACCTGACCTC-GGTTACTCAATC
16848501 GGTCACGATT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
125 1 0.01
126 89 0.99
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (126 bp):
ATATTTGTTAAGATTAGCAGAGCAAATGAATAGCTTAGAACCCCACTCGATCTTTTGATGTGAAG
ATAGATGAAAACCCAAGCACCTGACCTCGGTTACTCAATCAATCACATCTCTAGATGATTA
Found at i:16849928 original size:19 final size:19
Alignment explanation
Indices: 16849904--16849941 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16849894 CTTGATTGTT
16849904 TAATAGAACTATTTTGTAA
1 TAATAGAACTATTTTGTAA
16849923 TAATAGAACTATTTTGTAA
1 TAATAGAACTATTTTGTAA
16849942 AGTAGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (19 bp):
TAATAGAACTATTTTGTAA
Found at i:16853619 original size:23 final size:25
Alignment explanation
Indices: 16853568--16853620 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
16853558 AACTCATTCC
*
16853568 GAGCTAAAGAACGGTAAGCTCTATT
1 GAGCTAAAGAACGGTAAGCTCTATA
16853593 GAGCT-AA-AACGGTAAGCTC-ATAA
1 GAGCTAAAGAACGGTAAGCTCTAT-A
16853616 GAGCT
1 GAGCT
16853621 GATATATCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 17 0.65
24 2 0.08
25 5 0.19
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (25 bp):
GAGCTAAAGAACGGTAAGCTCTATA
Found at i:16856798 original size:25 final size:25
Alignment explanation
Indices: 16856770--16856855 Score: 75
Period size: 25 Copynumber: 3.2 Consensus size: 25
16856760 ATTAACTATG
16856770 CATTTCAATTTTTAATTATCGTTTT
1 CATTTCAATTTTTAATTATCGTTTT
* * *
16856795 CATTTCAA-TTTCAATCCACGATCAATAATTT
1 CATTTCAATTTTTAAT----TATC-GT--TTT
16856826 CATTTCAATTTTTAATTATCGTTTT
1 CATTTCAATTTTTAATTATCGTTTT
16856851 CATTT
1 CATTT
16856856 TTATTTCGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
24 6 0.13
25 16 0.34
27 1 0.02
28 6 0.13
29 1 0.02
31 11 0.23
32 6 0.13
ACGTcount: A:0.28, C:0.16, G:0.03, T:0.52
Consensus pattern (25 bp):
CATTTCAATTTTTAATTATCGTTTT
Found at i:16860528 original size:22 final size:22
Alignment explanation
Indices: 16860501--16860562 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
16860491 GTACGGGTTT
** *
16860501 AACACTTTTGTGCTCTCTGTTC
1 AACACTTCGGTGCTCTCTGATC
*
16860523 ATCACTTCGGTGCTCTCTGATC
1 AACACTTCGGTGCTCTCTGATC
16860545 AACACTTCGGTGCTCTCT
1 AACACTTCGGTGCTCTCT
16860563 TCTTAGCAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.15, C:0.31, G:0.16, T:0.39
Consensus pattern (22 bp):
AACACTTCGGTGCTCTCTGATC
Found at i:16865552 original size:23 final size:23
Alignment explanation
Indices: 16865521--16865618 Score: 90
Period size: 23 Copynumber: 4.3 Consensus size: 23
16865511 AAACATGTGT
* *
16865521 TATTTTGTAAAGCCTTTATGGTG
1 TATTCTGTAAAGCCTTTATGGCG
*
16865544 TATTCTGTAAATCCTTTGA-GGCG
1 TATTCTGTAAAGCCTTT-ATGGCG
* * * *
16865567 TATTCTGTAATGCATTTGTGGCA
1 TATTCTGTAAAGCCTTTATGGCG
* * *
16865590 TAATCTGTAAAACCTTTGTGGCG
1 TATTCTGTAAAGCCTTTATGGCG
16865613 TATTCT
1 TATTCT
16865619 ATAATGCCCT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 58 0.98
24 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (23 bp):
TATTCTGTAAAGCCTTTATGGCG
Found at i:16865642 original size:46 final size:46
Alignment explanation
Indices: 16865547--16865635 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
16865537 TATGGTGTAT
* * * *
16865547 TCTGTAAATCCTTTGAGGCGTATTCTGTAATGCATTTGTGGCATAA
1 TCTGTAAAACCTTTGAGGCGTATTCTATAATGCACTTGAGGCATAA
* *
16865593 TCTGTAAAACCTTTGTGGCGTATTCTATAATGCCCTTGAGGCA
1 TCTGTAAAACCTTTGAGGCGTATTCTATAATGCACTTGAGGCA
16865636 AGATCTGGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (46 bp):
TCTGTAAAACCTTTGAGGCGTATTCTATAATGCACTTGAGGCATAA
Found at i:16882673 original size:95 final size:95
Alignment explanation
Indices: 16882541--16882775 Score: 328
Period size: 95 Copynumber: 2.5 Consensus size: 95
16882531 AATGAGATCA
* * *
16882541 TTCATGATGTCAAATCGAATGAACCTAGGCTGTGATCTTAAATTAGCA-AGCTATTTAGAGTAGC
1 TTCATGATATCAAATCGAATGAACATAGGCTGTGATCTTAAATCA-CAGAGCTATTTAGAGTAGC
* *
16882605 GATATTGAATCAGCTAACTCAAAGAAAATTT
65 GATATTGAATCAGCTAACTCAAAAAAAATTG
* * * *
16882636 TTCATGATATCAAATCGAATGAACTTAGGTTGCGATCTTATATCACAGAGCTATTTAGAGTAGCG
1 TTCATGATATCAAATCGAATGAACATAGGCTGTGATCTTAAATCACAGAGCTATTTAGAGTAGCG
*
16882701 ATATTGATTCAGCTAACTCAAAAAAAATTG
66 ATATTGAATCAGCTAACTCAAAAAAAATTG
* ** *
16882731 TTCATGATATTAAATTTAATGAACATAGGCTGTGATATTAAATCA
1 TTCATGATATCAAATCGAATGAACATAGGCTGTGATCTTAAATCA
16882776 ACGATTCTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
94 2 0.02
95 120 0.98
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (95 bp):
TTCATGATATCAAATCGAATGAACATAGGCTGTGATCTTAAATCACAGAGCTATTTAGAGTAGCG
ATATTGAATCAGCTAACTCAAAAAAAATTG
Found at i:16883087 original size:95 final size:94
Alignment explanation
Indices: 16882924--16883272 Score: 380
Period size: 95 Copynumber: 3.7 Consensus size: 94
16882914 ATTAACCGTG
* * * * *
16882924 ATCTTAAATTAGCAAGCTATTTGGAGTAGTGATATTGAATCAACTATCTCAAAGAAAATTGTTCA
1 ATCTTAAATCAACGAGCTATTTGGAGTAGTGATATTAAATCAACTAACTCAAAGAAAATTGTTCA
*
16882989 TGATATTAAATCGAATGAACTTAGGTTGC
66 TGATATTAAATCGAATAAACTTAGGTTGC
* * * * * *
16883018 AATCTTAAATCAGCGAGCTGTATGGCGTAGTGATATTAAATTAGCTAACTCAAAGAAAATTGTTC
1 -ATCTTAAATCAACGAGCTATTTGGAGTAGTGATATTAAATCAACTAACTCAAAGAAAATTGTTC
* *
16883083 ATGATATTAAATCAAATAAACTTAGGCTGC
65 ATGATATTAAATCGAATAAACTTAGGTTGC
* ** * * * *
16883113 GATATTAAATCAACGAGCTATTTACAGTAGCGAAATTGAATCAACTAACTC--AGAAAATTGTTA
1 -ATCTTAAATCAACGAGCTATTTGGAGTAGTGATATTAAATCAACTAACTCAAAGAAAATTGTTC
*
16883176 ATGATATTAAATCGATTAAACTTAGGCTATG-
65 ATGATATTAAATCGAATAAACTTAGG-T-TGC
** * * * * *
16883207 ATCTTAAATCAACTTGCTGTTTGGAGAACTGATGTTAAATCAACTAACTCAAAGAAAATTTTTCA
1 ATCTTAAATCAACGAGCTATTTGGAGTAGTGATATTAAATCAACTAACTCAAAGAAAATTGTTCA
16883272 T
66 T
16883273 AATAGATAAA
Statistics
Matches: 207, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
93 73 0.35
95 134 0.65
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (94 bp):
ATCTTAAATCAACGAGCTATTTGGAGTAGTGATATTAAATCAACTAACTCAAAGAAAATTGTTCA
TGATATTAAATCGAATAAACTTAGGTTGC
Found at i:16890941 original size:58 final size:58
Alignment explanation
Indices: 16890871--16891116 Score: 199
Period size: 58 Copynumber: 4.2 Consensus size: 58
16890861 TCATTTAGTT
* * * * * *
16890871 AAGATAGCCACAAGGGCATCCATTTAACATAGATCACTAAAAAGGCTTCCATTTAATA
1 AAGATCGCCACAAAGGCATCCATTTAACAGAGATCACCAAAAAGACTTCCATTTAACA
* * * * * * * * *
16890929 GAGATCTCCACAAAGGCTTTCATTTAATAGAGATCTCCAAAAATACTTTCATTTAATA
1 AAGATCGCCACAAAGGCATCCATTTAACAGAGATCACCAAAAAGACTTCCATTTAACA
* * ** * * * * *
16890987 GAGATCTCCACAAAGGTTTCTATTTAACAGAAATCACTATAAAG-CTTTTCATTTAACA
1 AAGATCGCCACAAAGGCATCCATTTAACAGAGATCACCAAAAAGAC-TTCCATTTAACA
* * * * *
16891045 AAGATCGCCAC-AAGGTATTCCATTTAATACAGATCGCCACAAAGACTTCCATTTAACA
1 AAGATCGCCACAAAGGCA-TCCATTTAACAGAGATCACCAAAAAGACTTCCATTTAACA
16891103 AAGATCGCCACAAA
1 AAGATCGCCACAAA
16891117 TGCTTTCTTT
Statistics
Matches: 150, Mismatches: 34, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
57 6 0.04
58 141 0.94
59 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (58 bp):
AAGATCGCCACAAAGGCATCCATTTAACAGAGATCACCAAAAAGACTTCCATTTAACA
Found at i:16890992 original size:87 final size:86
Alignment explanation
Indices: 16890889--16891128 Score: 221
Period size: 87 Copynumber: 2.8 Consensus size: 86
16890879 CACAAGGGCA
* * * * * *
16890889 TCCATTTAACATAGATCACTAAAAAGGCTTCCATTTAATAGAGATCTCCACAAAGGCTTTCATTT
1 TCCATTTAATACAGATCACCACAAAGGCTTCCATTTAACAGAGATCACCACAAA-GCTTTCATTT
* * *
16890954 AATAGAGATCTCCA-AAAATACT
65 AACAAAGATCGCCACAAAATA-T
* * * * * * * *
16890976 TTCATTTAATAGAGATCTCCACAAAGGTTTCTATTTAACAGAAATCACTATAAAGCTTTTCATTT
1 TCCATTTAATACAGATCACCACAAAGGCTTCCATTTAACAGAGATCACCACAAAGC-TTTCATTT
**
16891041 AACAAAGATCGCCACAAGGTAT
65 AACAAAGATCGCCACAAAATAT
* * * * *
16891063 TCCATTTAATACAGATCGCCACAAAGACTTCCATTTAACAAAGATCGCCACAAATGCTTTCTTTT
1 TCCATTTAATACAGATCACCACAAAGGCTTCCATTTAACAGAGATCACCACAAA-GCTTTCATTT
16891128 A
65 A
16891129 GAAATAGCCA
Statistics
Matches: 120, Mismatches: 30, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
86 2 0.02
87 112 0.93
88 6 0.05
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (86 bp):
TCCATTTAATACAGATCACCACAAAGGCTTCCATTTAACAGAGATCACCACAAAGCTTTCATTTA
ACAAAGATCGCCACAAAATAT
Found at i:16891109 original size:29 final size:29
Alignment explanation
Indices: 16890871--16891121 Score: 166
Period size: 29 Copynumber: 8.7 Consensus size: 29
16890861 TCATTTAGTT
* * *
16890871 AAGATAGCCACAAGGGCATCCATTTAACA
1 AAGATCGCCACAAAGGCTTCCATTTAACA
* * * * *
16890900 TAGATCACTAAAAAGGCTTCCATTTAATA
1 AAGATCGCCACAAAGGCTTCCATTTAACA
* * * *
16890929 GAGATCTCCACAAAGGCTTTCATTTAATA
1 AAGATCGCCACAAAGGCTTCCATTTAACA
* * * ** * *
16890958 GAGATCTCCAAAAATACTTTCATTTAATA
1 AAGATCGCCACAAAGGCTTCCATTTAACA
* * * *
16890987 GAGATCTCCACAAAGGTTTCTATTTAACA
1 AAGATCGCCACAAAGGCTTCCATTTAACA
* * * *
16891016 GAA-ATCACTATAAA-GCTTTTCATTTAACA
1 -AAGATCGCCACAAAGGC-TTCCATTTAACA
* *
16891045 AAGATCGCCAC-AAGGTATTCCATTTAATA
1 AAGATCGCCACAAAGG-CTTCCATTTAACA
* *
16891074 CAGATCGCCACAAAGACTTCCATTTAACA
1 AAGATCGCCACAAAGGCTTCCATTTAACA
*
16891103 AAGATCGCCACAAATGCTT
1 AAGATCGCCACAAAGGCTT
16891122 TCTTTTAGAA
Statistics
Matches: 173, Mismatches: 43, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
28 5 0.03
29 164 0.95
30 4 0.02
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.28
Consensus pattern (29 bp):
AAGATCGCCACAAAGGCTTCCATTTAACA
Found at i:16891128 original size:29 final size:28
Alignment explanation
Indices: 16890849--16891128 Score: 150
Period size: 29 Copynumber: 9.7 Consensus size: 28
16890839 AACAGAACTT
* *** *
16890849 GCCACAAAGCATTCATTTAGTTAAGATA
1 GCCACAAAGCTTTCATTTAACAAAGATC
* * * *
16890877 GCCACAAGGGCATCCATTTAACATAGATC
1 GCCACAA-AGCTTTCATTTAACAAAGATC
* * * * * *
16890906 ACTAAAAAGGCTTCCATTTAATAGAGATC
1 GCCACAAA-GCTTTCATTTAACAAAGATC
* * *
16890935 TCCACAAAGGCTTTCATTTAATAGAGATC
1 GCCACAAA-GCTTTCATTTAACAAAGATC
* * * * *
16890964 TCCAAAAATACTTTCATTTAATAGAGATC
1 GCCACAAA-GCTTTCATTTAACAAAGATC
* *
16890993 TCCACAAAGGTTTCTATTTAACAGAA-ATC
1 GCCACAAAGCTTTC-ATTTAACA-AAGATC
* * *
16891022 ACTATAAAGCTTTTCATTTAACAAAGATC
1 GCCACAAAGC-TTTCATTTAACAAAGATC
* * *
16891051 GCCAC-AAGGTATTCCATTTAATACAGATC
1 GCCACAAAGCT-TT-CATTTAACAAAGATC
*
16891080 GCCACAAAGACTTCCATTTAACAAAGATC
1 GCCACAAAG-CTTTCATTTAACAAAGATC
*
16891109 GCCACAAATGCTTTCTTTTA
1 GCCACAAA-GCTTTCATTTA
16891129 GAAATAGCCA
Statistics
Matches: 199, Mismatches: 42, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
27 1 0.01
28 18 0.09
29 169 0.85
30 10 0.05
31 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (28 bp):
GCCACAAAGCTTTCATTTAACAAAGATC
Found at i:16897155 original size:29 final size:28
Alignment explanation
Indices: 16897098--16897161 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
16897088 TACATAGTAC
16897098 ATATATATGTATGGTTCTACTATACATA
1 ATATATATGTATGGTTCTACTATACATA
* * * *
16897126 ATATATATGTGTGGGTTTTATTATATATA
1 ATATATATGTAT-GGTTCTACTATACATA
16897155 ATATATA
1 ATATATA
16897162 CGGTTATAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (28 bp):
ATATATATGTATGGTTCTACTATACATA
Found at i:16897382 original size:14 final size:14
Alignment explanation
Indices: 16897363--16897396 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16897353 CTGTTGATAG
16897363 TGCACATCTATGCA
1 TGCACATCTATGCA
*
16897377 TGCACATTTATGCA
1 TGCACATCTATGCA
16897391 TGCACA
1 TGCACA
16897397 AATCCATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (14 bp):
TGCACATCTATGCA
Found at i:16899644 original size:14 final size:15
Alignment explanation
Indices: 16899615--16899644 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16899605 TAAAATTTAG
16899615 TTTTCTTTTATGTTA
1 TTTTCTTTTATGTTA
16899630 TTTTCTTTT-TGTTA
1 TTTTCTTTTATGTTA
16899644 T
1 T
16899645 CATTACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTATGTTA
Found at i:16902814 original size:23 final size:22
Alignment explanation
Indices: 16902788--16902836 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
16902778 ACATTAATTT
*
16902788 ACCTAGTTT-TAACACTTTAAAAC
1 ACCTAGTTTCTAAC-C-TAAAAAC
*
16902811 ACCTATTTTCTAACCTAAAAAC
1 ACCTAGTTTCTAACCTAAAAAC
16902833 ACCT
1 ACCT
16902837 TAGCTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 10 0.43
23 9 0.39
24 4 0.17
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.33
Consensus pattern (22 bp):
ACCTAGTTTCTAACCTAAAAAC
Found at i:16905096 original size:13 final size:13
Alignment explanation
Indices: 16905078--16905107 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16905068 TCCAGCAACA
16905078 ATGAATTTATTTC
1 ATGAATTTATTTC
*
16905091 ATGAATTTATTTG
1 ATGAATTTATTTC
16905104 ATGA
1 ATGA
16905108 TGATCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:16905261 original size:50 final size:50
Alignment explanation
Indices: 16905202--16905394 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
16905192 ATTGGGGTAA
*
16905202 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCTAAATG
1 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGAAATG
* *
16905252 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGAAATG
** * * * *
16905302 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGAACCGACATG
1 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGAAATG
** * *
16905352 AGTACATCCCATGTAAGATCATGTATGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCA
16905395 TGTTATTATC
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 93 0.75
51 31 0.25
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGAAATG
Found at i:16909807 original size:14 final size:15
Alignment explanation
Indices: 16909777--16909808 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
16909767 TTGAAATTTA
16909777 ATTTTCTTTTATGTT
1 ATTTTCTTTTATGTT
16909792 ATTTTCTTTT-TGTT
1 ATTTTCTTTTATGTT
16909806 ATT
1 ATT
16909809 ATTACTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.75
Consensus pattern (15 bp):
ATTTTCTTTTATGTT
Found at i:16913457 original size:40 final size:40
Alignment explanation
Indices: 16913376--16913527 Score: 159
Period size: 40 Copynumber: 3.8 Consensus size: 40
16913366 AGCGGCATTT
*
16913376 TTAGCGGCGTTTGGATA-AAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGTTT-G-TAGAAAAGCGCCACTAAAAATCAAGCA
* ** *
16913417 TTAGCGGCGTTTGTAGAAAAGTGCCACTAAAGGTCGAGCA
1 TTAGCGGCGTTTGTAGAAAAGCGCCACTAAAAATCAAGCA
* * *
16913457 TTAGCGGCGCTTTTTGGAAAA-CGCCGCTAAAAAT-AAGCA
1 TTAGCGGCG-TTTGTAGAAAAGCGCCACTAAAAATCAAGCA
* *
16913496 TTAGCGGCGTTTTTTGAAAAGCGCCAC-AAAAA
1 TTAGCGGCGTTTGTAGAAAAGCGCCACTAAAAA
16913528 GCCTAAGCCC
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
38 15 0.16
39 20 0.21
40 38 0.40
41 21 0.22
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTGTAGAAAAGCGCCACTAAAAATCAAGCA
Found at i:16913621 original size:41 final size:41
Alignment explanation
Indices: 16913563--16913847 Score: 401
Period size: 41 Copynumber: 7.0 Consensus size: 41
16913553 TGAGTTTTTG
*
16913563 GGGCCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
*
16913604 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * *
16913645 GGGCCTTTAGCAGCGCTTTTT-AAAAAACGCCGCTAATGCTT
1 GGGCCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTC
16913686 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * * *
16913727 AGACCTTTAGCGGCATTTTTGAAGAAGTGTCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
16913768 AGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAGTGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
16913809 GGGCCTTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
16913848 CCGTTTTTGA
Statistics
Matches: 216, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
40 5 0.02
41 206 0.95
42 5 0.02
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:16921467 original size:18 final size:18
Alignment explanation
Indices: 16921444--16921503 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
16921434 TCACAAGACT
16921444 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
16921462 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
16921479 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
16921497 AATGTAA
1 AATGTAA
16921504 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:16921750 original size:43 final size:43
Alignment explanation
Indices: 16921702--16921864 Score: 254
Period size: 43 Copynumber: 3.8 Consensus size: 43
16921692 AAGTCATGTT
*
16921702 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
* * *
16921745 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCCTAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
** *
16921788 TTTAATGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
*
16921831 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
16921865 TTAGCGACGC
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
Found at i:16923431 original size:68 final size:69
Alignment explanation
Indices: 16923272--16923441 Score: 218
Period size: 68 Copynumber: 2.5 Consensus size: 69
16923262 GTGAAAGAGT
* * ** *
16923272 TTGCGCCCAGTGCTAGTTAGATAAACCGATAAATGTGTGTCCAGCAATAGTTAGACAAACTGACG
1 TTGCGCCCAGCGCTAGTTGGATAAACCGACGAATGTGTGTCCAGCAATAGTCAGACAAACTGACG
*
16923337 GAAG
66 GAAA
* * * *
16923341 TTGCACCCAGCGCTAGTCGGATAAACCGACGAATGTGTG-CCTAGCACT-GTCAGATAAACTGAC
1 TTGCGCCCAGCGCTAGTTGGATAAACCGACGAATGTGTGTCC-AGCAATAGTCAGACAAACTGAC
16923404 GGAAA
65 GGAAA
*
16923409 TTGCGCCCAACGCTAGTTGGATAAACCGACGAA
1 TTGCGCCCAGCGCTAGTTGGATAAACCGACGAA
16923442 ATGATTAGTG
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
68 49 0.56
69 38 0.44
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (69 bp):
TTGCGCCCAGCGCTAGTTGGATAAACCGACGAATGTGTGTCCAGCAATAGTCAGACAAACTGACG
GAAA
Found at i:16923767 original size:30 final size:31
Alignment explanation
Indices: 16923722--16923784 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
16923712 ATGATGGATG
16923722 TTATGAATCGAAGACGTCTACTCAGTGATCT
1 TTATGAATCGAAGACGTCTACTCAGTGATCT
16923753 TTATGAAT-GAAGACGTCTACTCAGTGATCT
1 TTATGAATCGAAGACGTCTACTCAGTGATCT
16923783 TT
1 TT
16923785 TCCTTTCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (31 bp):
TTATGAATCGAAGACGTCTACTCAGTGATCT
Found at i:16930802 original size:21 final size:21
Alignment explanation
Indices: 16930761--16930802 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16930751 AATTTAAAAT
*
16930761 AATATATATTATTTACTTAAA
1 AATATATATTATTTACATAAA
*
16930782 AATATTTATTATTATA-ATAAA
1 AATATATATTATT-TACATAAA
16930803 TTAGTTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATATATTATTTACATAAA
Found at i:16931958 original size:28 final size:28
Alignment explanation
Indices: 16931926--16932028 Score: 77
Period size: 28 Copynumber: 3.6 Consensus size: 28
16931916 TAAAAAGAAA
16931926 AATAAAAGTTATAAAATAATTAAAAT-TT
1 AATAAAA-TTATAAAATAATTAAAATATT
* * *
16931954 AATAAAAATATTTAAAT-ATTTAAATATT
1 AATAAAATTA-TAAAATAATTAAAATATT
* ** *
16931982 ATTAAAAATTATAAAATTTTATATAAATCTT
1 AAT-AAAATTATAAAATAAT-TA-AAATATT
16932013 AA-AAAATTATAAAATA
1 AATAAAATTATAAAATA
16932029 TATAGAAATA
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
27 9 0.16
28 21 0.36
29 20 0.34
30 1 0.02
31 7 0.12
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
AATAAAATTATAAAATAATTAAAATATT
Found at i:16931963 original size:20 final size:21
Alignment explanation
Indices: 16931938--16931976 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16931928 TAAAAGTTAT
16931938 AAAATAATTAAA-ATTTAATA
1 AAAATAATTAAATATTTAATA
*
16931958 AAAATATTTAAATATTTAA
1 AAAATAATTAAATATTTAA
16931977 ATATTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATAATTAAATATTTAATA
Found at i:16931996 original size:19 final size:18
Alignment explanation
Indices: 16931928--16931999 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
16931918 AAAAGAAAAA
* *
16931928 TAAAAGTTATAAAATAAT
1 TAAAAATTATAAAATTAT
* *
16931946 TAAAATTTAATAAAAATATT
1 TAAAAATT-ATAAAATTA-T
*
16931966 TAAATATT-TAAATATTAT
1 TAAAAATTATAAA-ATTAT
16931984 TAAAAATTATAAAATT
1 TAAAAATTATAAAATT
16932000 TTATATAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 22 0.51
19 14 0.33
20 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (18 bp):
TAAAAATTATAAAATTAT
Found at i:16932103 original size:19 final size:20
Alignment explanation
Indices: 16932081--16932126 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
16932071 TAACAATATC
*
16932081 ATAAAAAACGTAAAGAAA-T
1 ATAAAAAACGTAAAAAAATT
* *
16932100 ATAAAATATGTAAAAAAATT
1 ATAAAAAACGTAAAAAAATT
16932120 ATAAAAA
1 ATAAAAA
16932127 TGTTCATACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (20 bp):
ATAAAAAACGTAAAAAAATT
Found at i:16932248 original size:397 final size:397
Alignment explanation
Indices: 16931798--16932591 Score: 1588
Period size: 397 Copynumber: 2.0 Consensus size: 397
16931788 TCAAAAAAGC
16931798 AATTAAGCCATTGCTCTTTTTTTTTTTTGCACTCAATTGGGTACTTGAACCAACCTAATTTTTTT
1 AATTAAGCCATTGCTCTTTTTTTTTTTTGCACTCAATTGGGTACTTGAACCAACCTAATTTTTTT
16931863 TAGTTAAAATCATCACGTGTTACAACCACAGCATGACATGTGGCAAATAATTATAAAAAGAAAAA
66 TAGTTAAAATCATCACGTGTTACAACCACAGCATGACATGTGGCAAATAATTATAAAAAGAAAAA
16931928 TAAAAGTTATAAAATAATTAAAATTTAATAAAAATATTTAAATATTTAAATATTATTAAAAATTA
131 TAAAAGTTATAAAATAATTAAAATTTAATAAAAATATTTAAATATTTAAATATTATTAAAAATTA
16931993 TAAAATTTTATATAAATCTTAAAAAATTATAAAATATATAGAAATATAGCAAAAAAATTATAAAA
196 TAAAATTTTATATAAATCTTAAAAAATTATAAAATATATAGAAATATAGCAAAAAAATTATAAAA
16932058 TCTTATAAAGTTGTAACAATATCATAAAAAACGTAAAGAAATATAAAATATGTAAAAAAATTATA
261 TCTTATAAAGTTGTAACAATATCATAAAAAACGTAAAGAAATATAAAATATGTAAAAAAATTATA
16932123 AAAATGTTCATACTAAAAGAAGCATTTTAAAATTTTTCTATAACTTTTATTAATTTTTATTTTTT
326 AAAATGTTCATACTAAAAGAAGCATTTTAAAATTTTTCTATAACTTTTATTAATTTTTATTTTTT
16932188 ATCATTT
391 ATCATTT
16932195 AATTAAGCCATTGCTCTTTTTTTTTTTTGCACTCAATTGGGTACTTGAACCAACCTAATTTTTTT
1 AATTAAGCCATTGCTCTTTTTTTTTTTTGCACTCAATTGGGTACTTGAACCAACCTAATTTTTTT
16932260 TAGTTAAAATCATCACGTGTTACAACCACAGCATGACATGTGGCAAATAATTATAAAAAGAAAAA
66 TAGTTAAAATCATCACGTGTTACAACCACAGCATGACATGTGGCAAATAATTATAAAAAGAAAAA
16932325 TAAAAGTTATAAAATAATTAAAATTTAATAAAAATATTTAAATATTTAAATATTATTAAAAATTA
131 TAAAAGTTATAAAATAATTAAAATTTAATAAAAATATTTAAATATTTAAATATTATTAAAAATTA
16932390 TAAAATTTTATATAAATCTTAAAAAATTATAAAATATATAGAAATATAGCAAAAAAATTATAAAA
196 TAAAATTTTATATAAATCTTAAAAAATTATAAAATATATAGAAATATAGCAAAAAAATTATAAAA
16932455 TCTTATAAAGTTGTAACAATATCATAAAAAACGTAAAGAAATATAAAATATGTAAAAAAATTATA
261 TCTTATAAAGTTGTAACAATATCATAAAAAACGTAAAGAAATATAAAATATGTAAAAAAATTATA
16932520 AAAATGTTCATACTAAAAGAAGCATTTTAAAATTTTTCTATAACTTTTATTAATTTTTATTTTTT
326 AAAATGTTCATACTAAAAGAAGCATTTTAAAATTTTTCTATAACTTTTATTAATTTTTATTTTTT
16932585 ATCATTT
391 ATCATTT
16932592 TTCGCCACAA
Statistics
Matches: 397, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
397 397 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (397 bp):
AATTAAGCCATTGCTCTTTTTTTTTTTTGCACTCAATTGGGTACTTGAACCAACCTAATTTTTTT
TAGTTAAAATCATCACGTGTTACAACCACAGCATGACATGTGGCAAATAATTATAAAAAGAAAAA
TAAAAGTTATAAAATAATTAAAATTTAATAAAAATATTTAAATATTTAAATATTATTAAAAATTA
TAAAATTTTATATAAATCTTAAAAAATTATAAAATATATAGAAATATAGCAAAAAAATTATAAAA
TCTTATAAAGTTGTAACAATATCATAAAAAACGTAAAGAAATATAAAATATGTAAAAAAATTATA
AAAATGTTCATACTAAAAGAAGCATTTTAAAATTTTTCTATAACTTTTATTAATTTTTATTTTTT
ATCATTT
Found at i:16932355 original size:28 final size:28
Alignment explanation
Indices: 16932323--16932425 Score: 77
Period size: 28 Copynumber: 3.6 Consensus size: 28
16932313 TAAAAAGAAA
16932323 AATAAAAGTTATAAAATAATTAAAAT-TT
1 AATAAAA-TTATAAAATAATTAAAATATT
* * *
16932351 AATAAAAATATTTAAAT-ATTTAAATATT
1 AATAAAATTA-TAAAATAATTAAAATATT
* ** *
16932379 ATTAAAAATTATAAAATTTTATATAAATCTT
1 AAT-AAAATTATAAAATAAT-TA-AAATATT
16932410 AA-AAAATTATAAAATA
1 AATAAAATTATAAAATA
16932426 TATAGAAATA
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
27 9 0.16
28 21 0.36
29 20 0.34
30 1 0.02
31 7 0.12
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
AATAAAATTATAAAATAATTAAAATATT
Found at i:16932360 original size:20 final size:21
Alignment explanation
Indices: 16932335--16932373 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16932325 TAAAAGTTAT
16932335 AAAATAATTAAA-ATTTAATA
1 AAAATAATTAAATATTTAATA
*
16932355 AAAATATTTAAATATTTAA
1 AAAATAATTAAATATTTAA
16932374 ATATTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATAATTAAATATTTAATA
Found at i:16932393 original size:19 final size:18
Alignment explanation
Indices: 16932325--16932396 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
16932315 AAAAGAAAAA
* *
16932325 TAAAAGTTATAAAATAAT
1 TAAAAATTATAAAATTAT
* *
16932343 TAAAATTTAATAAAAATATT
1 TAAAAATT-ATAAAATTA-T
*
16932363 TAAATATT-TAAATATTAT
1 TAAAAATTATAAA-ATTAT
16932381 TAAAAATTATAAAATT
1 TAAAAATTATAAAATT
16932397 TTATATAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 22 0.51
19 14 0.33
20 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (18 bp):
TAAAAATTATAAAATTAT
Found at i:16932500 original size:19 final size:20
Alignment explanation
Indices: 16932478--16932523 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
16932468 TAACAATATC
*
16932478 ATAAAAAACGTAAAGAAA-T
1 ATAAAAAACGTAAAAAAATT
* *
16932497 ATAAAATATGTAAAAAAATT
1 ATAAAAAACGTAAAAAAATT
16932517 ATAAAAA
1 ATAAAAA
16932524 TGTTCATACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (20 bp):
ATAAAAAACGTAAAAAAATT
Found at i:16933015 original size:16 final size:16
Alignment explanation
Indices: 16932992--16933041 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
16932982 CATGGTAGGA
16932992 AAGAAAAATGAAAAA-
1 AAGAAAAATGAAAAAG
*
16933007 AATGAAAAAAGAAAAAG
1 AA-GAAAAATGAAAAAG
*
16933024 AAGAGAAAATGAGAAAG
1 AAGA-AAAATGAAAAAG
16933041 A
1 A
16933042 TGTGTATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 14 0.48
17 13 0.45
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (16 bp):
AAGAAAAATGAAAAAG
Found at i:16933040 original size:23 final size:23
Alignment explanation
Indices: 16932990--16933041 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
16932980 TGCATGGTAG
16932990 GAAAGAAAAATGAAAAAAATGAA
1 GAAAGAAAAATGAAAAAAATGAA
*
16933013 AAAAGAAAAA-GAAGAGAAAATG-A
1 GAAAGAAAAATGAA-A-AAAATGAA
16933036 GAAAGA
1 GAAAGA
16933042 TGTGTATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 3 0.12
23 16 0.64
24 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (23 bp):
GAAAGAAAAATGAAAAAAATGAA
Found at i:16937531 original size:17 final size:17
Alignment explanation
Indices: 16937505--16937540 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16937495 GTGTGTTTTG
*
16937505 TTTTGGCTGCATGACAT
1 TTTTGACTGCATGACAT
*
16937522 TTTTGACTGCATGGCAT
1 TTTTGACTGCATGACAT
16937539 TT
1 TT
16937541 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTTGACTGCATGACAT
Found at i:16939942 original size:18 final size:19
Alignment explanation
Indices: 16939905--16939947 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
16939895 TGACCAAATG
16939905 TTCTTTCATTCTTTACGA-
1 TTCTTTCATTCTTTACGAT
**
16939923 TTCTTTCATTCTTTTGGAT
1 TTCTTTCATTCTTTACGAT
16939942 TTCTTT
1 TTCTTT
16939948 TGCCAAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.12, C:0.19, G:0.07, T:0.63
Consensus pattern (19 bp):
TTCTTTCATTCTTTACGAT
Found at i:16940914 original size:13 final size:13
Alignment explanation
Indices: 16940896--16940933 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
16940886 GAGTCGTAAA
*
16940896 AAAATGAAAAGTG
1 AAAATGAAAAATG
16940909 AAAATGAAAAATG
1 AAAATGAAAAATG
16940922 AAGAATGAAAAA
1 AA-AATGAAAAA
16940934 GTAAAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:16940920 original size:20 final size:20
Alignment explanation
Indices: 16940895--16940932 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16940885 TGAGTCGTAA
16940895 AAAAATGAA-AAGTGAAAATG
1 AAAAATGAAGAA-TGAAAATG
16940915 AAAAATGAAGAATGAAAA
1 AAAAATGAAGAATGAAAA
16940933 AGTAAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (20 bp):
AAAAATGAAGAATGAAAATG
Found at i:16940939 original size:20 final size:20
Alignment explanation
Indices: 16940895--16940940 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
16940885 TGAGTCGTAA
*
16940895 AAAAATGAAAAGTGAAAATG
1 AAAAATGAAAAGTGAAAAAG
16940915 AAAAATGAAGAA-TGAAAAAG
1 AAAAATGAA-AAGTGAAAAAG
*
16940935 TAAAAT
1 AAAAAT
16940941 AGAGAGGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAATGAAAAGTGAAAAAG
Found at i:16942284 original size:44 final size:44
Alignment explanation
Indices: 16942228--16942867 Score: 608
Period size: 44 Copynumber: 14.5 Consensus size: 44
16942218 GCAGATTAAA
* * *
16942228 AAGA-AGCAGATCTTATCTTCATGTAGTGGCGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
* *** * *
16942271 AAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
* * * *
16942316 AAGAAAGCAGATATT-TACTTCATGTATTGGTGTGAAGTAGATCA
1 AAGATAGCAGATCTTGT-CTTCATGTATTGGCGTGAAGTAGATCG
* * *
16942360 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCA
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
*
16942404 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
* *** * * *
16942448 AAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
* * * *
16942493 ATGAAAGTAGATCTTGTCTTAATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
* * * * **
16942537 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGCGGATCG
1 AAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
***
16942582 AAGATA-CAGATCTTGTCTTCCCATACTGTGGC--GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATGTA-T-TGGCGTGAAGTAGATCG
* * *
16942625 AAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCG
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
* * * * * * *
16942669 AAGATAGCAAATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
*** * * * *
16942714 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
* *
16942758 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATAG
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
* * * * *
16942802 AAGATAGCAGATCTTATCTTCCTGTACTGGCAGTGAAATAGATCA
1 AAGATAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCG
16942847 AAGATAGCAGATCTTGTCTTC
1 AAGATAGCAGATCTTGTCTTC
16942868 CCATATCGGT
Statistics
Matches: 492, Mismatches: 91, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
42 4 0.01
43 19 0.04
44 315 0.64
45 151 0.31
46 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
Found at i:16942486 original size:133 final size:134
Alignment explanation
Indices: 16942227--16942895 Score: 861
Period size: 133 Copynumber: 5.0 Consensus size: 134
16942217 AGCAGATTAA
* * *
16942227 AAAG-AAGCAGATCTTATCTTCATGTAGTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
* * * * *** * *
16942291 CCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATATT-TACTTCATGTATTGGT-GTGAAGT
66 CCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCTTGT-CTTCCCATACTGGTGGCGAAGT
16942354 AGATC
130 AGATC
* *
16942359 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCAAAGAAAGCAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
* * *
16942424 CATGTATTGG-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
66 CCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
16942488 GATC
131 GATC
* * * * *
16942492 GATGAAAGTAGATCTTGTCTTAATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
* ** *
16942557 CCTATATTGGTAGCGAAGCGGATCGAAGATA-CAGATCTTGTCTTCCCATACT-GTGGCGAAGTA
66 CCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
16942620 GATC
131 GATC
* * * * * *
16942624 GAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAAATCCTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
* * *
16942689 CCTATATTGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
66 CCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
16942753 GATC
131 GATC
*
16942757 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT-AGAAGATAGCAGATCTTATCT
1 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA-AAGATAGCAGATCTTGTCT
* * * * * *
16942821 TCCTGTACTGGCAGTGAAATAGATCAAAGATAGCAGATCTTGTCTTCCCATA-TCGGTGGCGAAG
65 TCCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACT-GGTGGCGAAG
16942885 TAGATC
129 TAGATC
*
16942891 GAAGA
1 AAAGA
16942896 TACAAGTCTT
Statistics
Matches: 473, Mismatches: 55, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
132 164 0.35
133 254 0.54
134 55 0.12
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (134 bp):
AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
CCTATATTGGTAGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
GATC
Found at i:16942530 original size:177 final size:178
Alignment explanation
Indices: 16942227--16942867 Score: 704
Period size: 177 Copynumber: 3.6 Consensus size: 178
16942217 AGCAGATTAA
* * * * *
16942227 AAAG-AAGCAGATCTTATCTTCATGTAGTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* *
16942291 CCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATATT-TACTTCATGTATTGGTGTGAAGTA
66 CCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGT-CTTCATGTATTGGAGTGAAGTA
* * * * * *
16942355 GATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAATAGATC
130 GATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
16942403 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * * * *
16942468 CCCATACTGGTGGCGAAGTAGATCGATGAAAGTAGATCTTGTCTTAATGTATTGGCGTGAAGTAG
66 CCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGAGTGAAGTAG
* **
16942533 ATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGCGGATC
131 ATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *** *
16942581 GAAGATA-CAGATCTTGTCTTCCCATACTGTGGC--GAAGTAGATCGAAGAAAGTAGATCTTGTC
1 AAAGAAAGCAGATCTTGTCTTCATGTA-T-TGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTC
*** * * * * * * * * *
16942643 TTCATGTATTGG-CGTGAAATAGATCGAAGATAGCAAATCCTGTCTTCCTATATTGGTAGCGAAG
64 TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-AGTGAAG
* * * * *
16942707 TGGATCGAAG-ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
128 TAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
16942757 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATAGAAGATAGCAGATCTTATCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
** ** * * *
16942822 CCTGTACTGGCAGTGAAATAGATCAAAGATAGCAGATCTTGTCTTC
66 CCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
16942868 CCATATCGGT
Statistics
Matches: 389, Mismatches: 66, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
175 4 0.01
176 76 0.20
177 259 0.67
178 46 0.12
179 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (178 bp):
AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
CCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGAGTGAAGTAG
ATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
Found at i:16942631 original size:221 final size:221
Alignment explanation
Indices: 16942260--16942867 Score: 706
Period size: 221 Copynumber: 2.7 Consensus size: 221
16942250 GTAGTGGCGT
* * ** *
16942260 GAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGA-AGCAGATCTTGTCTTAACATACTGGTCGTGAAGTAGATCGAAGAAAGCA
* * * *
16942325 GATATT-TACTTCATGTATTGGTGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTA-T-
65 GATCTTGT-CTTCATGTATTGGTGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTG
*
16942387 TGGCGTGAAATAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
129 TGGC--GAAATAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGA
* * *
16942452 AAGCAGATCTTGTCTTCCCATACTGGTGGC
192 AAGCAAATCCTGTCTTCCCATACTGGTAGC
* * ** * *
16942482 GAAGTAGATCGATGAAAGTAGATCTTGTCTTAATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGAAG-AAGCAGATCTTGTCTTAACATACTGGTCGTGAAGTAGATCGAAGAAAGCA
* * * ** **
16942546 GATCTTGTCTTCCTATATTGGTAGCGAAGCGGATCGAAGATA-CAGATCTTGTCTTCCCATACTG
65 GATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTG
* * * *
16942610 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATA
129 TGGCGAAATAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGAAA
* *
16942675 GCAAATCCTGTCTTCCTATATTGGTAGC
194 GCAAATCCTGTCTTCCCATACTGGTAGC
* * ** * * *
16942703 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAG
1 GAAGTAGATCGAAGAAGCAGATCTTGTCTTAACATACTGGTCGTGAAGTAGATCGAAGAAAGCAG
* * *
16942768 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATAGAAGATAGCAGATCTTATCTTCCTGTACTG-G
66 ATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGTG
* *
16942832 CAGTGAAATAGATCAAAGATAGCAGATCTTGTCTTC
131 --GCGAAATAGATCAAAGAAAGCAGATCTTGTCTTC
16942868 CCATATCGGT
Statistics
Matches: 317, Mismatches: 60, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
220 35 0.11
221 202 0.64
222 75 0.24
223 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (221 bp):
GAAGTAGATCGAAGAAGCAGATCTTGTCTTAACATACTGGTCGTGAAGTAGATCGAAGAAAGCAG
ATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTGTG
GCGAAATAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGAAAGC
AAATCCTGTCTTCCCATACTGGTAGC
Found at i:16942909 original size:89 final size:90
Alignment explanation
Indices: 16942231--16942897 Score: 672
Period size: 89 Copynumber: 7.5 Consensus size: 90
16942221 GATTAAAAAG
* * * * *
16942231 AAGCAGATCTTATCTTCATGTAGTGG-CGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCA
1 AAGCAGATCTTGTCTTCATGTATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
16942295 TACTGGTGGTGAAGTAGATCGAAGA
66 TACTGGTGGTGAAGTAGATCGAAGA
* * * *
16942320 AAGCAGATATT-TACTTCATGTATTGGT-GTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCAT
1 AAGCAGATCTTGT-CTTCATGTATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCT
* * * * *
16942383 GTATTGG-CGTGAAATAGATCAAAGA
65 ATACTGGTGGTGAAGTAGATCGAAGA
* *
16942408 AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCA
1 AAGCAGATCTTGTCTTCATGTATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
* *
16942472 TACTGGTGGCGAAGTAGATCGATGA
66 TACTGGTGGTGAAGTAGATCGAAGA
* *
16942497 AAGTAGATCTTGTCTTAATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
1 AAGCAGATCTTGTCTTCATGTATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
* * * **
16942561 TATTGGTAGCGAAGCGGATCGAAGA
66 TACTGGTGGTGAAGTAGATCGAAGA
* *** * * * * * * *
16942586 TA-CAGATCTTGTCTTCCCATACT-GTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATG
1 AAGCAGATCTTGTCTTCATGTATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
* * *
16942649 TATTGG-CGTGAAATAGATCGAAGA
66 TACTGGTGGTGAAGTAGATCGAAGA
* * * * * * * * *
16942673 TAGCAAATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCA
1 AAGCAGATCTTGTCTTCATGTATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
* *
16942737 TACTGGTGGCGAAGTAGATCAAAGA
66 TACTGGTGGTGAAGTAGATCGAAGA
* * *
16942762 AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATAGAAGATAGCAGATCTTATCTTCCTG
1 AAGCAGATCTTGTCTTCATGTATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
** * *
16942826 TACTGGCAGTGAAATAGATCAAAGA
66 TACTGGTGGTGAAGTAGATCGAAGA
* *** * * *
16942851 TAGCAGATCTTGTCTTCCCATATCGGTGGCGAAGTAGATCGAAGATA
1 AAGCAGATCTTGTCTTCATGTATTGGTCGTGAAGTAGATCGAAGATA
16942898 CAAGTCTTAT
Statistics
Matches: 478, Mismatches: 89, Indels: 21
0.81 0.15 0.04
Matches are distributed among these distances:
87 16 0.03
88 181 0.38
89 264 0.55
90 17 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (90 bp):
AAGCAGATCTTGTCTTCATGTATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
TACTGGTGGTGAAGTAGATCGAAGA
Found at i:16971993 original size:41 final size:41
Alignment explanation
Indices: 16971922--16972171 Score: 270
Period size: 41 Copynumber: 6.1 Consensus size: 41
16971912 AGAATATTTT
* * *
16971922 TGAATTACACATATGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * ** *
16971963 TAAATTGCACTTACGTGCCCCTGTTTGTACTTCAGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* *
16972004 TGAATTGCACATA-GTTGCCCCTATTTGTACTTTGG-CCCCC
1 TGAATTGCACATACG-TGCCCCTGTTTGTACTTTGGTACCCC
** * * *
16972044 TTGAATAACACATATGTGCCCATATTTGTACTTTGGTACCCC
1 -TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* *
16972086 TGAATTGCACATATGCGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * *
16972127 CGAATTGCACATGCGTGCCCCTGTCTGTACTTTAGTGCCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
16972168 TGAA
1 TGAA
16972172 GCACTTGTTT
Statistics
Matches: 175, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
40 4 0.02
41 166 0.95
42 5 0.03
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
Found at i:16972146 original size:123 final size:123
Alignment explanation
Indices: 16971921--16972159 Score: 327
Period size: 123 Copynumber: 1.9 Consensus size: 123
16971911 AAGAATATTT
* * * * *
16971921 TTGAATTACACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAATTGCACTTACGTGCCCCTG
1 TTGAATAACACATATGTGCCCATATTTGTACTTCGGTACCCCTAAATTGCACATACGCGCCCCTG
** * *
16971986 TTTGTACTTCAGTACCCTTGAATTGCACATAGTTGCCCCTATTTGTACTTTGGCCCCC
66 TTTGTACTTCAGTACCCCCGAATTGCACATAGGTGCCCCTATCTGTACTTTGGCCCCC
* * *
16972044 TTGAATAACACATATGTGCCCATATTTGTACTTTGGTACCCCTGAATTGCACATATGCGCCCCTG
1 TTGAATAACACATATGTGCCCATATTTGTACTTCGGTACCCCTAAATTGCACATACGCGCCCCTG
** *
16972109 TTTGTACTTTGGTACCCCCGAATTGCACAT-GCGTGCCCCTGTCTGTACTTT
66 TTTGTACTTCAGTACCCCCGAATTGCACATAG-GTGCCCCTATCTGTACTTT
16972160 AGTGCCCCTG
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
122 1 0.01
123 99 0.99
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (123 bp):
TTGAATAACACATATGTGCCCATATTTGTACTTCGGTACCCCTAAATTGCACATACGCGCCCCTG
TTTGTACTTCAGTACCCCCGAATTGCACATAGGTGCCCCTATCTGTACTTTGGCCCCC
Found at i:16975985 original size:19 final size:20
Alignment explanation
Indices: 16975963--16976000 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
16975953 TCGATACTAA
*
16975963 AATTTCTAA-TAAATACCAT
1 AATTTCTAACCAAATACCAT
16975982 AATTTCTAACCAAATACCA
1 AATTTCTAACCAAATACCA
16976001 AAATCTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTTCTAACCAAATACCAT
Found at i:16976363 original size:15 final size:15
Alignment explanation
Indices: 16976301--16976363 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
16976291 TGGTTAATTA
16976301 TAATTAA-TTTTAAAT
1 TAATTAAGTTTT-AAT
*
16976316 TAATTAAGGTTTAAT
1 TAATTAAGTTTTAAT
* * * *
16976331 TAAATAAATTATGAT
1 TAATTAAGTTTTAAT
*
16976346 TAATTAAGTTTTAGT
1 TAATTAAGTTTTAAT
16976361 TAA
1 TAA
16976364 AAGTATAAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
15 33 0.92
16 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (15 bp):
TAATTAAGTTTTAAT
Found at i:16977087 original size:5 final size:5
Alignment explanation
Indices: 16977077--16977149 Score: 137
Period size: 5 Copynumber: 14.6 Consensus size: 5
16977067 ACTTACTACT
*
16977077 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATA TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
16977127 TTATG TTATG TTATG TTATG TTA
1 TTATG TTATG TTATG TTATG TTA
16977150 ATGTGTGCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 66 1.00
ACGTcount: A:0.22, C:0.00, G:0.18, T:0.60
Consensus pattern (5 bp):
TTATG
Found at i:16977582 original size:30 final size:30
Alignment explanation
Indices: 16977548--16977748 Score: 280
Period size: 30 Copynumber: 6.7 Consensus size: 30
16977538 GTAATCTCGA
*
16977548 TATAATGTCAGCTTTTGTGAGCAAATCTAT
1 TATAATGTCAGCTTGTGTGAGCAAATCTAT
*
16977578 TATAATGTCAACTTGTGTGAG-AAATTCTAT
1 TATAATGTCAGCTTGTGTGAGCAAA-TCTAT
* * *
16977608 TATAATGTTAGCTTGTGTAAGCAAATCAAT
1 TATAATGTCAGCTTGTGTGAGCAAATCTAT
*
16977638 TATAATGTCAACTTGTGTGAG-AAATTCTAT
1 TATAATGTCAGCTTGTGTGAGCAAA-TCTAT
* *
16977668 TATAATATCAGCTTGTGTGAGAAAATCTAT
1 TATAATGTCAGCTTGTGTGAGCAAATCTAT
* *
16977698 TATAATGTCAACTTGTGTGAGCAATTCTAT
1 TATAATGTCAGCTTGTGTGAGCAAATCTAT
16977728 TATAATGTCAGCTTGTGTGAG
1 TATAATGTCAGCTTGTGTGAG
16977749 TAACCTTATC
Statistics
Matches: 150, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
29 6 0.04
30 138 0.92
31 6 0.04
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (30 bp):
TATAATGTCAGCTTGTGTGAGCAAATCTAT
Found at i:16977776 original size:90 final size:89
Alignment explanation
Indices: 16977548--16977778 Score: 284
Period size: 90 Copynumber: 2.6 Consensus size: 89
16977538 GTAATCTCGA
* * * *
16977548 TATAATGTCAGCTTTTGTGAGCAAATCTATTATAATGTCAACTTGTGTGAGAAATTCTATTATAA
1 TATAATGTCAGCTTGTGTGAG-AAATCTATTATAAAGTCAGCTTGTGTGAGAAAATCTATTATAA
* *
16977613 TGTTAGCTTGTGTAAGCAAATCAAT
65 TGTCAACTTGTGTAAGCAAATCAAT
*
16977638 TATAATGTCAACTTGTGTGAGAAATTCTATTATAATA-TCAGCTTGTGTGAGAAAATCTATTATA
1 TATAATGTCAGCTTGTGTGAGAAA-TCTATTATAA-AGTCAGCTTGTGTGAGAAAATCTATTATA
* * *
16977702 ATGTCAACTTGTGTGAGCAATTCTAT
64 ATGTCAACTTGTGTAAGCAAATCAAT
* * * * *
16977728 TATAATGTCAGCTTGTGTGAGTAACCTTATCATAAAGTTAGCTCGTGTGAG
1 TATAATGTCAGCTTGTGTGAGAAATC-TATTATAAAGTCAGCTTGTGTGAG
16977779 CAATATAATC
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
89 5 0.04
90 116 0.96
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (89 bp):
TATAATGTCAGCTTGTGTGAGAAATCTATTATAAAGTCAGCTTGTGTGAGAAAATCTATTATAAT
GTCAACTTGTGTAAGCAAATCAAT
Found at i:16977782 original size:60 final size:60
Alignment explanation
Indices: 16977548--16977748 Score: 339
Period size: 60 Copynumber: 3.4 Consensus size: 60
16977538 GTAATCTCGA
*
16977548 TATAATGTCAGCTTTTGTGAGCAAATCTATTATAATGTCAACTTGTGTGAGAAATTCTAT
1 TATAATGTCAGCTTGTGTGAGCAAATCTATTATAATGTCAACTTGTGTGAGAAATTCTAT
* * *
16977608 TATAATGTTAGCTTGTGTAAGCAAATCAATTATAATGTCAACTTGTGTGAGAAATTCTAT
1 TATAATGTCAGCTTGTGTGAGCAAATCTATTATAATGTCAACTTGTGTGAGAAATTCTAT
* * *
16977668 TATAATATCAGCTTGTGTGAGAAAATCTATTATAATGTCAACTTGTGTGAGCAATTCTAT
1 TATAATGTCAGCTTGTGTGAGCAAATCTATTATAATGTCAACTTGTGTGAGAAATTCTAT
16977728 TATAATGTCAGCTTGTGTGAG
1 TATAATGTCAGCTTGTGTGAG
16977749 TAACCTTATC
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 130 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (60 bp):
TATAATGTCAGCTTGTGTGAGCAAATCTATTATAATGTCAACTTGTGTGAGAAATTCTAT
Found at i:16980030 original size:303 final size:304
Alignment explanation
Indices: 16979223--16980079 Score: 1304
Period size: 298 Copynumber: 2.8 Consensus size: 304
16979213 AGTATCTTTT
*
16979223 TTTTTTTTGCTGGTCTTGGGTAAGTTTTAGTTCAGAGCTAATTGGTTAGTAGCTTTTGTTTTCTT
1 TTTTTTTTGCTGGTCTTGGGTAAGTTTTGGTTCAGAGCTAATTGGTTAGTAGCTTTTGTTTTCTT
* *
16979288 TAAATTATATTTCTATGTTATTAGTTTTATCTGCTTAGTACTTGGAGACTCTACATTATTAATTG
66 TAAACTATATTTCTATGTTATTAGTTTTATCTGCTTGGTACTTGGAGACTCTACA-TATTAATTG
*
16979353 TATTTCTGATGTGGGTTTTGCATAATTTCTGCTAACAACTTGGTCTTACTCAAATTTGGATCTAA
130 TATTTCTGATGTGGGTTTTGCATAATTTCTGCTAACAACTTGGTTTTACTCAAATTTGGATCTAA
*
16979418 AACCGTTTTATTTCTTCACTCTGCATGTTACTGCTAGTGAAAAGGGCCTTCCTTTTTATTCCAAA
195 AACCGTTTTATTTCTTCACTCTGCATGTTACTGCTGGTGAAAAGGGCCTTCCTTTTTATTCCAAA
*
16979483 TTATTCTTTCTTATTGTTGATTTTGTGCCGAATCACCTTCCAATC
260 TTATTCTTTCTTATTGTTGATTTTGTGCCGAATCACCTTCCAATA
* * *
16979528 TTTCTTTTTGCTGGTATTGGATAAGTTTTGGTTCA-AGCTAATTGGTTAGTAGCTTTTGTATTCT
1 TTT-TTTTTGCTGGTCTTGGGTAAGTTTTGGTTCAGAGCTAATTGGTTAGTAGCTTTTGTTTTCT
* * *
16979592 TTAAACTATATTTTTATGTTATTAGTTTTATCTGCTTGGTACTTTGAGAGTCTAC------ATTG
65 TTAAACTATATTTCTATGTTATTAGTTTTATCTGCTTGGTACTTGGAGACTCTACATATTAATTG
*
16979651 TATATCTGATGTGGGTTTTGCATAATTTCTGCTAACAACTTGGTTTTACTCAAATTTGGATCTAA
130 TATTTCTGATGTGGGTTTTGCATAATTTCTGCTAACAACTTGGTTTTACTCAAATTTGGATCTAA
* * * * *
16979716 AACCGTTTTATTTTTTCGCTCTGCGTGTTATTGCTGGTGAAAAGGGCCTTCCTTTTTATTCCAGA
195 AACCGTTTTATTTCTTCACTCTGCATGTTACTGCTGGTGAAAAGGGCCTTCCTTTTTATTCCAAA
** *
16979781 TTATTCTTTCTTACTT-TTGATTTTGTGTTGAA-CTACCTTGCAA-A
260 TTATTCTTTCTTA-TTGTTGATTTTGTGCCGAATC-ACCTTCCAATA
*
16979825 TTTTTTTTGCTGGTCTTGGGTAAATTTTGGTTCAGAGCTAATTGGTTAGTAGCTTTTGTTTTCTT
1 TTTTTTTTGCTGGTCTTGGGTAAGTTTTGGTTCAGAGCTAATTGGTTAGTAGCTTTTGTTTTCTT
* *
16979890 TAAACCATATCTCTATGTTATTAG-TTTATCTGCTTGGTACTTGGAGACTCTACATGATTAATTG
66 TAAACTATATTTCTATGTTATTAGTTTTATCTGCTTGGTACTTGGAGACTCTACAT-ATTAATTG
* *
16979954 TATTTCTAATGTGGGTTTTGCATAATTTCTGCTAAGAACTTGGTTTTACTCAAATTTGGATCTAA
130 TATTTCTGATGTGGGTTTTGCATAATTTCTGCTAACAACTTGGTTTTACTCAAATTTGGATCTAA
*** * * *
16980019 AATTATTTTATTTCTTCACTCTGCATGTTACTACTGGTGAAAATGGCTTTCCTTTTTATTC
195 AACCGTTTTATTTCTTCACTCTGCATGTTACTGCTGGTGAAAAGGGCCTTCCTTTTTATTC
16980080 TTTTGTAATT
Statistics
Matches: 498, Mismatches: 43, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
296 55 0.11
297 54 0.11
298 161 0.32
299 2 0.00
303 117 0.23
305 81 0.16
306 28 0.06
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.47
Consensus pattern (304 bp):
TTTTTTTTGCTGGTCTTGGGTAAGTTTTGGTTCAGAGCTAATTGGTTAGTAGCTTTTGTTTTCTT
TAAACTATATTTCTATGTTATTAGTTTTATCTGCTTGGTACTTGGAGACTCTACATATTAATTGT
ATTTCTGATGTGGGTTTTGCATAATTTCTGCTAACAACTTGGTTTTACTCAAATTTGGATCTAAA
ACCGTTTTATTTCTTCACTCTGCATGTTACTGCTGGTGAAAAGGGCCTTCCTTTTTATTCCAAAT
TATTCTTTCTTATTGTTGATTTTGTGCCGAATCACCTTCCAATA
Found at i:16983142 original size:87 final size:87
Alignment explanation
Indices: 16982996--16983167 Score: 308
Period size: 87 Copynumber: 2.0 Consensus size: 87
16982986 TATGTTTGAC
*
16982996 ATCTTTAAATTTTTGCGTATAGTTCCTATACAATGGGAACATGTGAGGGACATGGAACCCATTCT
1 ATCTTTAAATTTTTGCGTATAGGTCCTATACAATGGGAACATGTGAGGGACATGGAACCCATTCT
16983061 TCCTTCCATGATTAGAAGGCAT
66 TCCTTCCATGATTAGAAGGCAT
* * *
16983083 ATCTTTAAATTTTTGCGTATAGGTCTTATGCAATGGGAACATGTGAGGGGCATGGAACCCATTCT
1 ATCTTTAAATTTTTGCGTATAGGTCCTATACAATGGGAACATGTGAGGGACATGGAACCCATTCT
16983148 TCCTTCCATGATTAGAAGGC
66 TCCTTCCATGATTAGAAGGC
16983168 CCCTAGTAAG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (87 bp):
ATCTTTAAATTTTTGCGTATAGGTCCTATACAATGGGAACATGTGAGGGACATGGAACCCATTCT
TCCTTCCATGATTAGAAGGCAT
Found at i:16984842 original size:20 final size:20
Alignment explanation
Indices: 16984817--16984856 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16984807 AGAAAAGTTG
16984817 TTATACACTTGCATCCTTGT
1 TTATACACTTGCATCCTTGT
16984837 TTATACACTTGCATCCTTGT
1 TTATACACTTGCATCCTTGT
16984857 AATCTACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.45
Consensus pattern (20 bp):
TTATACACTTGCATCCTTGT
Found at i:16987673 original size:13 final size:13
Alignment explanation
Indices: 16987655--16987710 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
16987645 AATTTAGAAT
16987655 TATTTAGTGATAA
1 TATTTAGTGATAA
*
16987668 TATTTAGTGGTAA
1 TATTTAGTGATAA
*
16987681 TATTTA--GA-AT
1 TATTTAGTGATAA
16987691 TATTTAGTGATAA
1 TATTTAGTGATAA
16987704 TATTTAG
1 TATTTAG
16987711 GAAAAATCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 7 0.19
11 1 0.03
12 2 0.06
13 26 0.72
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:16991546 original size:694 final size:695
Alignment explanation
Indices: 16988218--16992406 Score: 7093
Period size: 694 Copynumber: 6.0 Consensus size: 695
16988208 GCGTGTCTAA
* * **
16988218 GTGGGAAAAGCCAGTTGGATTCCGTTAAGAGAGATAGAGATCAAATTTAAATGACCCACACGGTT
1 GTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAAATTTAAATGACTCACGTGGTT
*
16988283 GAGGCCGTTGATTCGAGCTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTGTGAACAC
66 GAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTGTGAACAC
*
16988348 GTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACAGAGATTGACTACATAAG
131 GTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACATAAG
* *
16988413 GAAAATTTGGCGATCGGGATGTTCTTGGCCGCTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
196 GAAAATTTGGCGATCGGGACGTTCTTGGTCGCTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
*
16988478 ATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTAAGGTTAAGCTTAAAAAAATATTTTT
261 ATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTAAGGCTAAGCTTAAAAAAATA--TTT
16988543 TATTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATTCTT-GAATCTATTTTTATTTTA
324 TATTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATT-TTCGAATCTATTTTTATTTTA
* * *
16988607 TTTTATTTTTCGTATTTATTTATTGTATTATCGTAATCAATTTAAACCCTCCATTTTTATTTTTT
388 TTTTATTTTTCGTATTTCTTTATTTTATTATCTTAATCAATTTAAACCCTCCATTTTTA------
* * *
16988672 TTTTTATTTTTAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACAACAGCAATTCTGG
447 TTTTTATTTTCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGG
*
16988737 TCACGAAAAAAGTGAAATTAGATAGCCAATCCCTATGGATTTGACCCTACTACTTTATACTACCA
512 TCACGAAAAAAGTGAAATTAGATAGCCAATCCCTATGGATTCGACCCTACTACTTTATACTACCA
* * *
16988802 TTTACAATTA-TTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCTATCAAATTTTCTCGCC
577 TTTACTATTATTTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCGCGCC
16988866 ATTGCCAGGAATTGGTGAAATTTTCTAATTTTTATTTGTTTTCTTTATGACCAG
642 ATTGCCAGGAATTGGTGAAATTTTCTAATTTTTATTTGTTTTCTTTATGACCAG
* *
16988920 GTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAGATTTAAATGACTCACATGGTT
1 GTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAAATTTAAATGACTCACGTGGTT
*
16988985 GAGGCCGTTGATTCGAGTTGGGTTTTTCAGACCGCAAGGCTGTCGAAATCTTAAATTGTGAACAC
66 GAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTGTGAACAC
*
16989050 GTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACGTAAG
131 GTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACATAAG
* *
16989115 GAAAATTTGGCGATCGGGACGTTTTTGGTCACTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
196 GAAAATTTGGCGATCGGGACGTTCTTGGTCGCTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
16989180 ATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTAAGGCTAAGCTTAAAAAAATATTTTA
261 ATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTAAGGCTAAGCTTAAAAAAATATTTTA
16989245 TTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATTTTCGAATCTATTTTTATTTTATTT
326 TTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATTTTCGAATCTA----T-TTTTATTT
* *
16989310 TATTTTATTTTTTGTATTTCTTTATTTTATTAACTTAATCAATTTAAACCCTCCATTTTTATTTT
386 TATTTTATTTTTCGTATTTCTTTATTTTATTATCTTAATCAATTTAAACCCTCCATTTTTATTTT
16989375 TATTTTCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGGTCAC
451 TATTTTCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGGTCAC
*
16989440 GAAAAAAGTGAAATTAGATAGCCAATCCCTATGGATTCGATCCTACTACTTTATACTACCATTTA
516 GAAAAAAGTGAAATTAGATAGCCAATCCCTATGGATTCGACCCTACTACTTTATACTACCATTTA
*
16989505 CTATTATTTTGTCGTAGGAATTTATTTTTGATGGTTTTAACGCCCATCAAATTTTCGCGCCATTG
581 CTATTATTTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCGCGCCATTG
* *
16989570 CCAGGAATTGGTGAAATTTTCTAATTTTTGTTTGTTTTCTTTATGGCCAG
646 CCAGGAATTGGTGAAATTTTCTAATTTTTATTTGTTTTCTTTATGACCAG
** * **
16989620 GTGGGAAAAGCCAGTTGGATTTTGTCAAGAGAGATAGAGATCAAATTTAAATGACCCACGCAGTT
1 GTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAAATTTAAATGACTCACGTGGTT
* *
16989685 GACGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCAAAATCTTAAATTGTGAACAC
66 GAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTGTGAACAC
* * *
16989750 GTGTAGCGCAGTTAGAAATTTGGAAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTATATAAG
131 GTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACATAAG
* *
16989815 GAAAATTTGGTGATCGGGACGTTCTTGGTTGCTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
196 GAAAATTTGGCGATCGGGACGTTCTTGGTCGCTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
* *
16989880 ATTTTAAGGAACGATTCAAGATTGGAGTACACCGAGGGTAAGGCTAAGCTT-AAAAAA-A-TTTA
261 ATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTAAGGCTAAGCTTAAAAAAATATTTTA
*
16989942 TTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTTCATTTTCGAATCTATTTTTATTTTATTT
326 TTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATTTTCGAATCTA----T-TTTTATTT
* *
16990007 TATTTTATTTTTCATATTTCTTTATTTTATTATCTTAATCAAGTTAAACCCTCCATTTTTATTTT
386 TATTTTATTTTTCGTATTTCTTTATTTTATTATCTTAATCAATTTAAACCCTCC------ATTTT
16990072 TATTTTTATTTTCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCT
445 TATTTTTATTTTCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCT
* * *
16990137 GGTCACGAAAAAACTTAAATTAGATAGCCAATCCCTATGGATTTGACCCTACTACTTTATACTAC
510 GGTCACGAAAAAAGTGAAATTAGATAGCCAATCCCTATGGATTCGACCCTACTACTTTATACTAC
*
16990202 CATTTACAATTA-TTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCGCG
575 CATTTACTATTATTTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCGCG
16990266 CCATTGCCAGGAATTGGTGAAATTTTCTAATTTTTATTTGTTTTCTTTATGACC-G
640 CCATTGCCAGGAATTGGTGAAATTTTCTAATTTTTATTTGTTTTCTTTATGACCAG
16990321 AGTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAAATTTAAATGACTCACGTGGT
1 -GTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAAATTTAAATGACTCACGTGGT
*
16990386 TGAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTATGAACA
65 TGAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTGTGAACA
*
16990451 CGTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACGTAA
130 CGTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACATAA
** *
16990516 GGAAAATTTGGCGATCTAGACGTTCTTGGTCGCTATAACAAGCTTATTGCTAGGAAGGGAAAATC
195 GGAAAATTTGGCGATCGGGACGTTCTTGGTCGCTATAACCAGCTTATTGCTAGGAAGGGAAAATC
*
16990581 TATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTTAGGCTAAGCTT-AAAAAATATTTT
260 TATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTAAGGCTAAGCTTAAAAAAATATTTT
16990645 ATTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATTTTCGAATCTATTTTTATTTTATT
325 ATTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATTTTCGAATCTATTTTTATTTTATT
16990710 TTATTTTTCGTATTTCTTTATTTTATTATCTTAATCAATTTAAACCCTCCATTTTTATTTTTATT
390 TTATTTTTCGTATTTCTTTATTTTATTATCTTAATCAATTTAAACCCTCCATTTTTATTTTTATT
16990775 TTCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGGTCACGAAA
455 TTCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGGTCACGAAA
* * *
16990840 AAACTTAAATTAGATAGCCAATCCCTATGGATTTGACCCTACTACTTTATACTACCATTTACTAT
520 AAAGTGAAATTAGATAGCCAATCCCTATGGATTCGACCCTACTACTTTATACTACCATTTACTAT
* *
16990905 TATTTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCCCGCCAATGCCAG
585 TATTTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCGCGCCATTGCCAG
* * *
16990970 GAATTGGTGAAATTTTCTAATTTTTATTTGTTTTCCTTGTGATCAG
650 GAATTGGTGAAATTTTCTAATTTTTATTTGTTTTCTTTATGACCAG
** * ** *
16991016 GTAAGAATAGCCAGTTGGATTCCACCAAGAAAGATAGAGATCAAATTTAAATGACTCA-GTGGTT
1 GTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAAATTTAAATGACTCACGTGGTT
* *
16991080 GAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGTTGTTGAAATCTTAAATTGTGAACAC
66 GAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTGTGAACAC
**
16991145 GTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACAAAGATTGACTACATAAG
131 GTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACATAAG
* * * *
16991210 GAAAATTTGCCGATCGGGACGTTCTTGGTCACTATAACTAGCTTATTGCTAGGAAGAGAAAATCT
196 GAAAATTTGGCGATCGGGACGTTCTTGGTCGCTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
* * *
16991275 ATTATAAGGATCGATTCAAGATTAGAGTACACCGAGGCTTAGGCTAAGCTTAAAAAAATATTTTA
261 ATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTAAGGCTAAGCTTAAAAAAATATTTTA
*
16991340 TTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTTCATTTTCGAATCTATTTTTATTTTATTT
326 TTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATTTTCGAATCTATTTTTATTTTATTT
*
16991405 TATTTTTCGTATTTCTTTATTTTATTATCTTAATCAATTTAAACCCTCTATTTTTATTTTTATTT
391 TATTTTTCGTATTTCTTTATTTTATTATCTTAATCAATTTAAACCCTCCATTTTTATTTTTATTT
16991470 TCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGGTCACGAAAA
456 TCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGGTCACGAAAA
* *
16991535 AAGTGAAATTAGATAGCCAATCCCTATGGATCCGATCCTACTACTTTATACTACCATTTACTATT
521 AAGTGAAATTAGATAGCCAATCCCTATGGATTCGACCCTACTACTTTATACTACCATTTACTATT
* *
16991600 ATTTTGTCATAGGAATTTATTTTTGATGGTTTTAACGCCCATCAAATTTTCGCGCCATTGCCAGG
586 ATTTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCGCGCCATTGCCAGG
* *
16991665 AATTGGTGAAATTTTCTAATTTTTGTTTGTTTTCTTTATGGCCAG
651 AATTGGTGAAATTTTCTAATTTTTATTTGTTTTCTTTATGACCAG
16991710 GTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAAATTTAAATGACTCACGTGGTT
1 GTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAAATTTAAATGACTCACGTGGTT
16991775 GAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTGTGAACAC
66 GAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTGTGAACAC
*
16991840 GTGTATCGCAGTTAGAAATTTGGAAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACATAAG
131 GTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACATAAG
* * *
16991905 GAAAATTTGGTGATCGAGACGTTCTTGGTTGCTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
196 GAAAATTTGGCGATCGGGACGTTCTTGGTCGCTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
* *
16991970 ATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGCCTAAGGCTAAGCTTAAAAAAA-AATTTA
261 ATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTAAGGCTAAGCTTAAAAAAATATTTTA
* * *
16992034 TTTATCCATTTGTTTTATTTTCTTAAATTTAGTTTTGCATTTTCGAATCTGTTTTTAATTTATTT
326 TTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATTTTCGAATCTATTTTTATTTTATTT
* *
16992099 TATTTTTTGTATTTATTTATTTTATTATCTTAATCAATTTAAACCCTCCATTTTTATTTTTATTT
391 TATTTTTCGTATTTCTTTATTTTATTATCTTAATCAATTTAAACCCTCCATTTTTATTTTTATTT
*
16992164 TCAACATTTCTATGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGGTCACGAAAA
456 TCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGGTCACGAAAA
*
16992229 AAGTGAAATTAGATAGCCAATCCCTATGGATTCAACCCTACTACTTTATACTACCATTTACTATT
521 AAGTGAAATTAGATAGCCAATCCCTATGGATTCGACCCTACTACTTTATACTACCATTTACTATT
* *
16992294 ATCTCGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCGCGCCATTGCCAGG
586 ATTTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCGCGCCATTGCCAGG
* * *
16992359 AATTGGTGAAATTTTCTAATTTTTGTTTGTTTTCTTTAGGTCCAG
651 AATTGGTGAAATTTTCTAATTTTTATTTGTTTTCTTTATGACCAG
16992404 GTG
1 GTG
16992407 AGAATCAGGG
Statistics
Matches: 3300, Mismatches: 167, Indels: 48
0.94 0.05 0.01
Matches are distributed among these distances:
693 384 0.12
694 933 0.28
695 244 0.07
697 118 0.04
698 1 0.00
699 202 0.06
700 448 0.14
701 1 0.00
702 707 0.21
703 143 0.04
704 55 0.02
705 64 0.02
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (695 bp):
GTGGGAAAAGCCAGTTGGATTCCGTCAAGAGAGATAGAGATCAAATTTAAATGACTCACGTGGTT
GAGGCCGTTGATTCGAGTTGGGTTTTTCAGATCGCAAGGCTGTCGAAATCTTAAATTGTGAACAC
GTGTATCGCAGTTAGAAATTTGGCAAGAGTCAGTTTGCAGGTCGTACCGAGATTGACTACATAAG
GAAAATTTGGCGATCGGGACGTTCTTGGTCGCTATAACCAGCTTATTGCTAGGAAGGGAAAATCT
ATTTTAAGGATCGATTCAAGATTGGAGTACACCGAGGCTAAGGCTAAGCTTAAAAAAATATTTTA
TTTATCCATTTGTTTTATTTTCTTAAATTTATTTTTGCATTTTCGAATCTATTTTTATTTTATTT
TATTTTTCGTATTTCTTTATTTTATTATCTTAATCAATTTAAACCCTCCATTTTTATTTTTATTT
TCAACATTTCTACGCACAGGTCGTGGGCACGACTGTGACCACGACAGCGATTCTGGTCACGAAAA
AAGTGAAATTAGATAGCCAATCCCTATGGATTCGACCCTACTACTTTATACTACCATTTACTATT
ATTTTGTCGTAGGAATTTATTTTTGGTGGTTTTAACGCCCATCAAATTTTCGCGCCATTGCCAGG
AATTGGTGAAATTTTCTAATTTTTATTTGTTTTCTTTATGACCAG
Found at i:16992685 original size:25 final size:25
Alignment explanation
Indices: 16992651--16992701 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16992641 ACTGTTCAAG
16992651 TTAAAGTCGGGATTGATACATTTAT
1 TTAAAGTCGGGATTGATACATTTAT
16992676 TTAAAGTCGGGATTGATACATTTAT
1 TTAAAGTCGGGATTGATACATTTAT
16992701 T
1 T
16992702 GCCTACTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (25 bp):
TTAAAGTCGGGATTGATACATTTAT
Found at i:17000287 original size:6 final size:6
Alignment explanation
Indices: 17000276--17000329 Score: 92
Period size: 6 Copynumber: 9.0 Consensus size: 6
17000266 TTAAACCCCC
17000276 TATTTT TATTTTT TATTTT TA-TTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TA-TTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
17000324 TATTTT
1 TATTTT
17000330 CAGCATTTCG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.11
6 35 0.76
7 6 0.13
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:17000302 original size:18 final size:18
Alignment explanation
Indices: 17000279--17000329 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
17000269 AACCCCCTAT
17000279 TTTTATTTTTTATTTTTA
1 TTTTATTTTTTATTTTTA
17000297 TTTTA-TTTTTATTTTTA
1 TTTTATTTTTTATTTTTA
17000314 TTTT-TATTTTTATTTT
1 TTTTAT-TTTTTATTTT
17000330 CAGCATTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTATTTTTTATTTTTA
Found at i:17002936 original size:118 final size:118
Alignment explanation
Indices: 17002710--17002941 Score: 281
Period size: 118 Copynumber: 2.0 Consensus size: 118
17002700 CGAGGCCAGA
* * *
17002710 CCTATTCCATTTAGAAAACGAGCCTTATTTTTTGTCCAATCCCATTTTTTGGGCCTATACCTTTT
1 CCTATTCCATTTAGAAAACGAGCCTTATTTTTTATCCAAGCCCATTTTTTGAGCCTATACCTTTT
* * * * * *
17002775 CCTAAACCCTCCCACTTTTTGGGATGGTCTTTAGGCTTGGGCAGGTGGCCTGG
66 CCCAAACCCTCCCACTTTTTGGGATAGCCTTCAGGCCTAGGCAGGTGGCCTGG
* **
17002828 CCTATTCTATTTAGAAAAC-ATGCCTTATTTTTTAT-CAAGCCCATTTTTTGAGCCTATATTTTT
1 CCTATTCCATTTAGAAAACGA-GCCTTATTTTTTATCCAAGCCCATTTTTTGAGCCTATA-CCTT
** *
17002891 TTCCCAAACCCTCTTACTTTTTGGGCA-AGCCTTCGGGCCTAGGCAGGTGGC
64 TTCCCAAACCCTCCCACTTTTTGGG-ATAGCCTTCAGGCCTAGGCAGGTGGC
17002942 TCGACCCATA
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
117 22 0.23
118 73 0.76
119 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (118 bp):
CCTATTCCATTTAGAAAACGAGCCTTATTTTTTATCCAAGCCCATTTTTTGAGCCTATACCTTTT
CCCAAACCCTCCCACTTTTTGGGATAGCCTTCAGGCCTAGGCAGGTGGCCTGG
Found at i:17010600 original size:40 final size:40
Alignment explanation
Indices: 17010556--17010634 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
17010546 TCTAACGAAT
*
17010556 ATTAGAGTCTTAAAATATATCAAACTTCTTATCCTAATAA
1 ATTAGAGTCCTAAAATATATCAAACTTCTTATCCTAATAA
*
17010596 ATTAGAGTCCTAAAATATATCAAACTTTTTATCCTAATA
1 ATTAGAGTCCTAAAATATATCAAACTTCTTATCCTAATA
17010635 GACACCCACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (40 bp):
ATTAGAGTCCTAAAATATATCAAACTTCTTATCCTAATAA
Found at i:17011864 original size:21 final size:20
Alignment explanation
Indices: 17011795--17011870 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 20
17011785 AATTAGATTG
* *
17011795 ATTTAAA-ATAAAATTATTAA
1 ATTTAAATATTAAATTA-AAA
17011815 ATTTAAAT-TTAAATTAAAA
1 ATTTAAATATTAAATTAAAA
* *
17011834 ATTAAAAAATATTAATATTAAAT
1 ATT--TAAATATTAA-ATTAAAA
17011857 ATTTAAATATTAAA
1 ATTTAAATATTAAA
17011871 AAATATTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
19 5 0.11
20 15 0.33
21 13 0.28
22 4 0.09
23 9 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTAAATATTAAATTAAAA
Found at i:17030097 original size:21 final size:21
Alignment explanation
Indices: 17030071--17030110 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17030061 CTATCATTCT
*
17030071 TTTTCTTTCACTTAATTATTG
1 TTTTCTTTCACTCAATTATTG
17030092 TTTTCTTTCACTCAATTAT
1 TTTTCTTTCACTCAATTAT
17030111 CAATTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTCTTTCACTCAATTATTG
Found at i:17032304 original size:27 final size:27
Alignment explanation
Indices: 17032273--17032330 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
17032263 CGTACAAAAT
17032273 AACAAATATATAAGCAAATAAAATTAA
1 AACAAATATATAAGCAAATAAAATTAA
*
17032300 AACAAGTATATAAGCAAATAAAATTAA
1 AACAAATATATAAGCAAATAAAATTAA
17032327 AACA
1 AACA
17032331 TTCTTTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.66, C:0.09, G:0.05, T:0.21
Consensus pattern (27 bp):
AACAAATATATAAGCAAATAAAATTAA
Found at i:17032371 original size:12 final size:13
Alignment explanation
Indices: 17032356--17032384 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17032346 AATGAAAATG
17032356 TAAATAAAT-AAA
1 TAAATAAATAAAA
17032368 TAAATAAATAAAA
1 TAAATAAATAAAA
17032381 TAAA
1 TAAA
17032385 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:17034295 original size:40 final size:40
Alignment explanation
Indices: 17034240--17034341 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 40
17034230 CTTCTTCGCA
* * * *
17034240 GCAATTTCAGGGAGATAAGATTGGTTTAACCTGCTCCACT
1 GCAACTTCAGAGAGATAAGATTGATATAACCTGCTCCACT
* * * *
17034280 GCAACTTCAGAGAGATAAGGTTTGATATGATCTGCTCTACT
1 GCAACTTCAGAGAGATAA-GATTGATATAACCTGCTCCACT
17034321 GCAACTTCAGAGAGATAAGAT
1 GCAACTTCAGAGAGATAAGAT
17034342 CTGTAATTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 18 0.35
41 34 0.65
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (40 bp):
GCAACTTCAGAGAGATAAGATTGATATAACCTGCTCCACT
Found at i:17034480 original size:50 final size:50
Alignment explanation
Indices: 17034400--17035038 Score: 552
Period size: 50 Copynumber: 12.8 Consensus size: 50
17034390 GATTCGTTAT
* * * *
17034400 CTTCAATCTATTTAAGTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
** * * *
17034450 CTTCAATCTATTCCACTGCACTGCCAGGGAAG---TATTCGCTGTCGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
* * * * *
17034497 CTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTTGCCGTTGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
* ** ** * * *
17034547 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTTGCTGTCGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
* * * *
17034597 CTTCAATCTATTTAACTGCAATGTC-GGAGAAACAAGATTCACTATTGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGG-GAAGCAAGATTCGCTGTTGTAG
* ** ** * * *
17034647 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTCGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
* * *
17034697 CTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAGATTCGCCT-TTGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCG-CTGTTGTAG
* * * ** * * * *
17034747 CTTCAATCTGTTTCACTGGACCGCTAGGGAAGTAAGATTAGTTGTTGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
* * * *
17034797 CTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
* *** * * * *
17034847 CTTCAATCTGTTCT-ACTGCACCACCAGAGAAGTAAGATTCGCGGTCGTAG
1 CTTCAATCTATT-TAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
* * * *
17034897 CTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCACTATTGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
* ** ** * * *
17034947 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTCGTAG
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
* * *
17034997 CTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAGATTCGC
1 CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGC
17035039 CTTTGTCCAC
Statistics
Matches: 455, Mismatches: 125, Indels: 18
0.76 0.21 0.03
Matches are distributed among these distances:
47 39 0.09
49 4 0.01
50 407 0.89
51 5 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (50 bp):
CTTCAATCTATTTAACTGCAATGCCAGGGAAGCAAGATTCGCTGTTGTAG
Found at i:17034645 original size:100 final size:100
Alignment explanation
Indices: 17034355--17035036 Score: 966
Period size: 100 Copynumber: 6.9 Consensus size: 100
17034345 TAATTTATAA
* * ** * *
17034355 CTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATT--C-GT--TATCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAA
* *
17034415 GTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAG
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
* * *
17034450 CTTCAATCTATTCCACTGCACTGCCAGGGAAGT---ATTCGCTGTCGTAGCTTCAATCTGTTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAA
* * **
17034512 CTGCAATGTCAGGGAAGTAAGATTTGCCGTTGTAG
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
*
17034547 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTTGCTGTCGTAGCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAA
* * **
17034612 CTGCAATGTCGGAGAAACAAGATTCACTATTGTAG
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
*
17034647 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTCGTAGCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAA
* * *
17034712 CTGTAATGTCGGGGAAGCAAGATTCGCCTTTGTAG
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
* * * * * *
17034747 CTTCAATCTGTTTCACTGGACCGCTAGGGAAGTAAGATTAGTTGTTGTAGCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAA
17034812 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
* * * *
17034847 CTTCAATCTGTTCTACTGCACCACCAGAGAAGTAAGATTCGCGGTCGTAGCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAA
**
17034912 CTGCAATGTCGGGGAAGCAAGATTCACTATTGTAG
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
*
17034947 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTCGTAGCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAA
*
17035012 CTGTAATGTCGGGGAAGCAAGATTC
66 CTGCAATGTCGGGGAAGCAAGATTC
17035037 GCCTTTGTCC
Statistics
Matches: 518, Mismatches: 61, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
92 3 0.01
94 1 0.00
95 28 0.05
97 78 0.15
100 408 0.79
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (100 bp):
CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAA
CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAG
Found at i:17034806 original size:200 final size:200
Alignment explanation
Indices: 17034355--17035289 Score: 1243
Period size: 200 Copynumber: 4.8 Consensus size: 200
17034345 TAATTTATAA
* * ** * *
17034355 CTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATT--C-GT--TATCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTAGCTGTCGTAGCTTCAATCTATTTAA
* * * *
17034415 GTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTGCACTGCCAGGGA
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
* * * *
17034480 AGT---ATTCGCTGTCGTAGCTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTTGCCGT
131 AGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGT
17034542 TGTAG
196 TGTAG
*
17034547 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTTGCTGTCGTAGCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTAGCTGTCGTAGCTTCAATCTATTTAA
* * **
17034612 CTGCAATGTCGGAGAAACAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
* * *
17034677 AGTAAGATTCACTGTCGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAGATTCGCCTT
131 AGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGT
17034742 TGTAG
196 TGTAG
* * * * *
17034747 CTTCAATCTGTTTCACTGGACCGCTAGGGAAGTAAGATTAGTTGTTGTAGCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTAGCTGTCGTAGCTTCAATCTATTTAA
* * *
17034812 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCTACTGCACCACCAGAGA
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
* * **
17034877 AGTAAGATTCGCGGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCACTAT
131 AGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGT
17034942 TGTAG
196 TGTAG
17034947 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCA-CTGTCGTAGCTTCAATCTATTTA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATT-AGCTGTCGTAGCTTCAATCTATTTA
* *
17035011 ACTGTAATGTCGGGGAAGCAAGATT---C------GC--C--TTTG-TCCACTGCACC-CCAGGG
65 ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGG
* * * * * *
17035061 AAGTAAGATTTGCCGTTGTGGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCG
130 AAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
17035126 TTGTAG
195 TTGTAG
* *
17035132 CTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAA
1 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTAGCTGTCGTAGCTTCAATCTATTTAA
* * * *
17035197 CTGCAATGTCAGGGAAGCAAAATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGG
66 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
* *
17035262 AGTAAGATTCGCTGTTGTAACTTCAATC
131 AGTAAGATTCGCTGTCGTAGCTTCAATC
17035290 CGTTCCACTG
Statistics
Matches: 650, Mismatches: 68, Indels: 42
0.86 0.09 0.06
Matches are distributed among these distances:
185 152 0.23
186 10 0.02
187 3 0.00
189 1 0.00
191 2 0.00
192 34 0.05
194 3 0.00
195 2 0.00
196 1 0.00
197 78 0.12
198 3 0.00
199 11 0.02
200 349 0.54
201 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (200 bp):
CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTAGCTGTCGTAGCTTCAATCTATTTAA
CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGA
AGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGT
TGTAG
Found at i:17035105 original size:85 final size:86
Alignment explanation
Indices: 17034958--17035121 Score: 258
Period size: 85 Copynumber: 1.9 Consensus size: 86
17034948 TTCAATCTGT
* *
17034958 TCCACTGCACCGCCAGGGAAGTAAGATTCACTGTCGTAGCTTCAATCTATTTAACTGTAATGTCG
1 TCCACTGCACCGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTATTTAACTGCAATGTCG
*
17035023 GGGAAGCAAGATTCGCCTTTG
66 GGGAAACAAGATTCGCCTTTG
** * *
17035044 TCCACTGCACC-CCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATTTAACTGCAATGTCG
1 TCCACTGCACCGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTATTTAACTGCAATGTCG
17035108 GGGAAACAAGATTC
66 GGGAAACAAGATTC
17035122 ACCGTTGTAG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
85 60 0.85
86 11 0.15
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (86 bp):
TCCACTGCACCGCCAGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTATTTAACTGCAATGTCG
GGGAAACAAGATTCGCCTTTG
Found at i:17035187 original size:185 final size:186
Alignment explanation
Indices: 17034861--17035221 Score: 598
Period size: 185 Copynumber: 1.9 Consensus size: 186
17034851 AATCTGTTCT
*
17034861 ACTGCACCACCAGAGAAGTAAGATTCGCGGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGG
1 ACTGCACCACCAGAGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGG
* * *
17034926 AAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTG
66 AAACAAGATTCACCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCACTG
* * *
17034991 TCGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAGATTCGCCTTTGTCC
131 TCGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAAATTCGCCTTTGTCC
* * * *
17035047 ACTGCACC-CCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATTTAACTGCAATGTCGGGG
1 ACTGCACCACCAGAGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGG
* *
17035111 AAACAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGCTG
66 AAACAAGATTCACCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCACTG
17035176 TCGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAAATTC
131 TCGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAAATTC
17035222 ACTGTTGTAG
Statistics
Matches: 162, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
185 154 0.95
186 8 0.05
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (186 bp):
ACTGCACCACCAGAGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTTAACTGCAATGTCGGGG
AAACAAGATTCACCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCACTG
TCGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAAATTCGCCTTTGTCC
Found at i:17035229 original size:100 final size:100
Alignment explanation
Indices: 17035044--17035289 Score: 386
Period size: 100 Copynumber: 2.5 Consensus size: 100
17035034 TTCGCCTTTG
* * * *
17035044 TCCACTGCACC-CCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATTTAACTGCAATGTCG
1 TCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCA
*
17035108 GGGAAACAAGATTCACCGTTGTAGCTTCAATCTAT
66 GGGAAACAAAATTCACCGTTGTAGCTTCAATCTAT
*
17035143 TCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAACTGCAATGTCA
1 TCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCA
* * *
17035208 GGGAAGCAAAATTCACTGTTGTAGCTTCAATCTGT
66 GGGAAACAAAATTCACCGTTGTAGCTTCAATCTAT
* *
17035243 TCCACTGCACCGCCAGGGGAGTAAGATTCGCTGTTGTAACTTCAATC
1 TCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATC
17035290 CGTTCCACTG
Statistics
Matches: 134, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 11 0.08
100 123 0.92
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (100 bp):
TCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCA
GGGAAACAAAATTCACCGTTGTAGCTTCAATCTAT
Found at i:17035250 original size:50 final size:50
Alignment explanation
Indices: 17035055--17035307 Score: 236
Period size: 50 Copynumber: 5.1 Consensus size: 50
17035045 CCACTGCACC
* ** * * **
17035055 CCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATTTAACTGCAATG
1 CCAGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCAATG
* * * * **
17035105 TCGGGGAAACAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCG
1 CCAGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCAATG
* * * **
17035155 CCAGGGAAGTAAGATTCGCTGTCGTAGCTTCAATCTATTTAACTGCAATG
1 CCAGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCAATG
* * * **
17035205 TCAGGGAAGCAAAATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACCG
1 CCAGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCAATG
* * * * ** *
17035255 CCAGGGGAGTAAGATTCGCTGTTGTAACTTCAATCCGTTCCACTGTAATG
1 CCAGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCAATG
17035305 CCA
1 CCA
17035308 AAAAGATAGG
Statistics
Matches: 161, Mismatches: 42, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 161 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
CCAGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCAATG
Found at i:17035302 original size:285 final size:285
Alignment explanation
Indices: 17034772--17035304 Score: 877
Period size: 285 Copynumber: 1.9 Consensus size: 285
17034762 CTGGACCGCT
** *
17034772 AGGGAAGTAAGATTAGTTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTC
1 AGGGAAGTAAGATTAGCCGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTC
* *
17034837 ACCGTTGTAGCTTCAATCTGTTCTACTGCACCACCAGAGAAGTAAGATTCGCGGTCGTAGCTTCA
66 ACCGTTGTAGCTTCAATCTATTCCACTGCACCACCAGAGAAGTAAGATTCGCGGTCGTAGCTTCA
* *
17034902 ATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCA
131 ATCTATTTAACTGCAATGTCAGGGAAGCAAAATTCACTATTGTAGCTTCAATCTGTTCCACTGCA
* * *
17034967 CCGCCAGGGAAGTAAGATTCACTGTCGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAA
196 CCGCCAGGGAAGTAAGATTCACTGTCGTAACTTCAATCCATTCAACTGTAATGTCGGGGAAGCAA
17035032 GATTCGCCTTTGTCCACTGCACCCC
261 GATTCGCCTTTGTCCACTGCACCCC
* *
17035057 AGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTC
1 AGGGAAGTAAGATTAGCCGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTC
* * *
17035122 ACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTCGTAGCTTCA
66 ACCGTTGTAGCTTCAATCTATTCCACTGCACCACCAGAGAAGTAAGATTCGCGGTCGTAGCTTCA
*
17035187 ATCTATTTAACTGCAATGTCAGGGAAGCAAAATTCACTGTTGTAGCTTCAATCTGTTCCACTGCA
131 ATCTATTTAACTGCAATGTCAGGGAAGCAAAATTCACTATTGTAGCTTCAATCTGTTCCACTGCA
* * * * *
17035252 CCGCCAGGGGAGTAAGATTCGCTGTTGTAACTTCAATCCGTTCCACTGTAATG
196 CCGCCAGGGAAGTAAGATTCACTGTCGTAACTTCAATCCATTCAACTGTAATG
17035305 CCAAAAAGAT
Statistics
Matches: 227, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
285 227 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (285 bp):
AGGGAAGTAAGATTAGCCGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTC
ACCGTTGTAGCTTCAATCTATTCCACTGCACCACCAGAGAAGTAAGATTCGCGGTCGTAGCTTCA
ATCTATTTAACTGCAATGTCAGGGAAGCAAAATTCACTATTGTAGCTTCAATCTGTTCCACTGCA
CCGCCAGGGAAGTAAGATTCACTGTCGTAACTTCAATCCATTCAACTGTAATGTCGGGGAAGCAA
GATTCGCCTTTGTCCACTGCACCCC
Found at i:17040661 original size:12 final size:13
Alignment explanation
Indices: 17040646--17040674 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17040636 AATGAAAATG
17040646 TAAATAAAT-AAA
1 TAAATAAATAAAA
17040658 TAAATAAATAAAA
1 TAAATAAATAAAA
17040671 TAAA
1 TAAA
17040675 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:17042542 original size:16 final size:16
Alignment explanation
Indices: 17042521--17042566 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
17042511 GAGTGGAAAG
17042521 AAAATTGGAAGGATGA
1 AAAATTGGAAGGATGA
*
17042537 AAAATTGAAAGG-TAGA
1 AAAATTGGAAGGAT-GA
*
17042553 AAACTT-GAAGGATG
1 AAAATTGGAAGGATG
17042567 GAAAGCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.50, C:0.02, G:0.28, T:0.20
Consensus pattern (16 bp):
AAAATTGGAAGGATGA
Found at i:17046593 original size:8 final size:8
Alignment explanation
Indices: 17046580--17046607 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
17046570 TAAAAATATG
17046580 TATATAGA
1 TATATAGA
17046588 TATATAGA
1 TATATAGA
17046596 TATATAGA
1 TATATAGA
17046604 TATA
1 TATA
17046608 AGTTATAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (8 bp):
TATATAGA
Found at i:17052342 original size:78 final size:78
Alignment explanation
Indices: 17052181--17052467 Score: 366
Period size: 78 Copynumber: 3.7 Consensus size: 78
17052171 AATTGTATTC
* * *
17052181 TGTTTCAAACAGAAATTCAATTGAACAATCCTGTTTCAGGA-TTTATTCCTGTTGTTTAATAGGA
1 TGTTTCAAACAGAAAATCAATTGAACAATCCTGTTTCAGGATTTTATTCCTGTCGTTTAACAGGA
*
17052245 TTTGTTTAATTTT
66 TTTGTTTGATTTT
* * *
17052258 TGTTTCAAATAGAAAATCAATTAAACAATCCTGTTTTAGGATTTTATTCCTGTCGTTTAACAGGA
1 TGTTTCAAACAGAAAATCAATTGAACAATCCTGTTTCAGGATTTTATTCCTGTCGTTTAACAGGA
17052323 TTTGTTTGATTTT
66 TTTGTTTGATTTT
* * * *
17052336 TGTTTCAAACAGAAAATCAATTGAACAAAT-TTGTTTCAGGATTTTATTCCTATCATTTAACAAG
1 TGTTTCAAACAGAAAATCAATTGAAC-AATCCTGTTTCAGGATTTTATTCCTGTCGTTTAACAGG
*
17052400 ATTTGTTTGGTTTTTTT
65 ATTTGTTT-G--ATTTT
* * *
17052417 TGTTTCAAACAG-AAATCAATTGAATAATTCTGTTTTAGGATTCTT-TTCCTG
1 TGTTTCAAACAGAAAATCAATTGAACAATCCTGTTTCAGGATT-TTATTCCTG
17052468 CCATTCAATA
Statistics
Matches: 184, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
77 37 0.20
78 94 0.51
79 7 0.04
80 28 0.15
81 18 0.10
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.45
Consensus pattern (78 bp):
TGTTTCAAACAGAAAATCAATTGAACAATCCTGTTTCAGGATTTTATTCCTGTCGTTTAACAGGA
TTTGTTTGATTTT
Found at i:17052508 original size:16 final size:16
Alignment explanation
Indices: 17052483--17052515 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17052473 CAATAGAATT
*
17052483 TATTCGATTTCTGTTG
1 TATTCAATTTCTGTTG
17052499 TATTCAATTTCTGTTG
1 TATTCAATTTCTGTTG
17052515 T
1 T
17052516 TACCAGAAAT
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:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (16 bp):
TATTCAATTTCTGTTG
Found at i:17059109 original size:12 final size:12
Alignment explanation
Indices: 17059092--17059121 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17059082 GGGGAAAGTA
17059092 AAAAAAAACAAG
1 AAAAAAAACAAG
*
17059104 AAAAAAAAGAAG
1 AAAAAAAACAAG
17059116 AAAAAA
1 AAAAAA
17059122 GATGAACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAG
Found at i:17067208 original size:52 final size:52
Alignment explanation
Indices: 17067130--17067239 Score: 211
Period size: 52 Copynumber: 2.1 Consensus size: 52
17067120 CCTCCTTCAC
17067130 ACCAACACTTCACTTATCCACCAGACCAACAAGCCCATTCTGTTAATTATTT
1 ACCAACACTTCACTTATCCACCAGACCAACAAGCCCATTCTGTTAATTATTT
17067182 ACCAACACTTCACTTATCCACCAGACCAACAAGCCCATTCTGTTAATTATTT
1 ACCAACACTTCACTTATCCACCAGACCAACAAGCCCATTCTGTTAATTATTT
*
17067234 GCCAAC
1 ACCAAC
17067240 TTTTACTTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.33, C:0.34, G:0.06, T:0.27
Consensus pattern (52 bp):
ACCAACACTTCACTTATCCACCAGACCAACAAGCCCATTCTGTTAATTATTT
Found at i:17067451 original size:25 final size:26
Alignment explanation
Indices: 17067423--17067478 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
17067413 GCATTACAAA
*
17067423 TTCAATCCATTTAATACTTC-TATTT
1 TTCAATCCATTCAATACTTCATATTT
* * *
17067448 TTCAATTCATTCCATATTTCATATTT
1 TTCAATCCATTCAATACTTCATATTT
17067474 TTCAA
1 TTCAA
17067479 AATTTACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.52
Consensus pattern (26 bp):
TTCAATCCATTCAATACTTCATATTT
Found at i:17084900 original size:21 final size:20
Alignment explanation
Indices: 17084876--17084932 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
17084866 AAAAAATAGT
17084876 AAATTTGAATTAAATGCATTG
1 AAATTTGAATTAAAT-CATTG
***
17084897 AAATAACAACTTAAATCATTG
1 AAATTTGAA-TTAAATCATTG
*
17084918 AAGTTTGACATTAAA
1 AAATTTGA-ATTAAA
17084933 ACTTAAACTT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (20 bp):
AAATTTGAATTAAATCATTG
Found at i:17098984 original size:43 final size:43
Alignment explanation
Indices: 17098923--17099012 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
17098913 TCTCTAAAAA
17098923 AACCCTTTTCGTCTCTTTTTTTAACCCTTTCTTGTTATTTTAT
1 AACCCTTTTCGTCTCTTTTTTTAACCCTTTCTTGTTATTTTAT
17098966 AACCCTTTTCGTCTCTTTTTTTAACCCTTTCTTGTTATTTTAT
1 AACCCTTTTCGTCTCTTTTTTTAACCCTTTCTTGTTATTTTAT
17099009 AACC
1 AACC
17099013 TGTTCTAGGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.16, C:0.24, G:0.04, T:0.56
Consensus pattern (43 bp):
AACCCTTTTCGTCTCTTTTTTTAACCCTTTCTTGTTATTTTAT
Found at i:17098996 original size:21 final size:22
Alignment explanation
Indices: 17098923--17098995 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
17098913 TCTCTAAAAA
17098923 AACCCTTTTCGTCTCTTTTTTT
1 AACCCTTTTCGTCTCTTTTTTT
*
17098945 AACCC-TTTC-T-TGTTATTTTAT
1 AACCCTTTTCGTCTCTT-TTTT-T
17098966 AACCCTTTTCGTCTCTTTTTTT
1 AACCCTTTTCGTCTCTTTTTTT
17098988 AACCCTTT
1 AACCCTTT
17098996 CTTGTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 3 0.07
20 5 0.11
21 10 0.23
22 18 0.41
23 5 0.11
24 3 0.07
ACGTcount: A:0.14, C:0.26, G:0.04, T:0.56
Consensus pattern (22 bp):
AACCCTTTTCGTCTCTTTTTTT
Found at i:17099006 original size:22 final size:22
Alignment explanation
Indices: 17098938--17099006 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
17098928 TTTTCGTCTC
17098938 TTTTTTTAACCCTTTCTTGTTA
1 TTTTTTTAACCCTTTCTTGTTA
* * *
17098960 -TTTTATAACCCTTT-TCGTCTC
1 TTTTTTTAACCCTTTCTTGT-TA
17098981 TTTTTTTAACCCTTTCTTGTTA
1 TTTTTTTAACCCTTTCTTGTTA
17099003 TTTT
1 TTTT
17099007 ATAACCTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.08
21 14 0.37
22 18 0.47
23 3 0.08
ACGTcount: A:0.13, C:0.20, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTTTTTAACCCTTTCTTGTTA
Found at i:17099018 original size:21 final size:21
Alignment explanation
Indices: 17098939--17099012 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
17098929 TTTCGTCTCT
*
17098939 TTTTTTAACCCTTTCTTGTTA
1 TTTTATAACCCTTTCTTGTTA
*
17098960 TTTTATAACCCTTTTCGTCTCTT-
1 TTTTATAACCC-TTTC-T-TGTTA
17098983 TTTT-TAACCCTTTCTTGTTA
1 TTTTATAACCCTTTCTTGTTA
17099003 TTTTATAACC
1 TTTTATAACC
17099013 TGTTCTAGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 3 0.07
20 5 0.11
21 19 0.42
22 10 0.22
23 5 0.11
24 3 0.07
ACGTcount: A:0.16, C:0.22, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTATAACCCTTTCTTGTTA
Found at i:17102118 original size:25 final size:25
Alignment explanation
Indices: 17102090--17102145 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
17102080 ATGTAATAGA
17102090 AAGCTCATGTAAGTTGTATAACGGG
1 AAGCTCATGTAAGTTGTATAACGGG
*
17102115 AAGCTCATGTGAGTTGTATAACGGG
1 AAGCTCATGTAAGTTGTATAACGGG
17102140 AAGCTC
1 AAGCTC
17102146 TTGCGAGACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (25 bp):
AAGCTCATGTAAGTTGTATAACGGG
Found at i:17102225 original size:25 final size:25
Alignment explanation
Indices: 17102111--17102226 Score: 87
Period size: 25 Copynumber: 4.7 Consensus size: 25
17102101 AGTTGTATAA
* **
17102111 CGGGAAGCTCATGTGAGTTGTATAA-
1 CGGGAAGCTCATGAGAGTCAT-TAAT
* * *
17102136 CGGGAAGCTCTTGCGAGACAATT-AT
1 CGGGAAGCTCATGAGAGTC-ATTAAT
* *
17102161 CGGGAAGCTCAT-ACGAGCCATAAAT
1 CGGGAAGCTCATGA-GAGTCATTAAT
* *
17102186 -GAGAAGCTCAAGAGAGTCATTAAT
1 CGGGAAGCTCATGAGAGTCATTAAT
17102210 CGGGAAGCTCATGAGAG
1 CGGGAAGCTCATGAGAG
17102227 CCAAGTATCG
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
24 21 0.30
25 48 0.69
26 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGTCATTAAT
Found at i:17102236 original size:25 final size:25
Alignment explanation
Indices: 17102136--17102254 Score: 93
Period size: 25 Copynumber: 4.8 Consensus size: 25
17102126 AGTTGTATAA
* * *
17102136 CGGGAAGCTCTTGCGAGACAATTAT
1 CGGGAAGCTCATGAGAGCCAATTAT
*
17102161 CGGGAAGCTCAT-ACGAGCC-ATAAAT
1 CGGGAAGCTCATGA-GAGCCAAT-TAT
* * *
17102186 -GAGAAGCTCAAGAGAGTC-ATTAAT
1 CGGGAAGCTCATGAGAGCCAATT-AT
*
17102210 CGGGAAGCTCATGAGAGCCAAGTAT
1 CGGGAAGCTCATGAGAGCCAATTAT
* *
17102235 CGGAAAGCTCGTGAGAGCCA
1 CGGGAAGCTCATGAGAGCCA
17102255 TATAACGAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
24 19 0.26
25 53 0.72
26 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCAATTAT
Found at i:17104173 original size:29 final size:29
Alignment explanation
Indices: 17104107--17104173 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
17104097 AGAATAGCAT
*
17104107 CTTCGGTTCTCCTACTTATACCTCTCTGA
1 CTTCGGTTCTCCTACTTATACCTCTCTCA
*
17104136 TTTCGGTTCTCCTACTTATAACC-CTCTCA
1 CTTCGGTTCTCCTACTTAT-ACCTCTCTCA
*
17104165 CTTCTGTTC
1 CTTCGGTTC
17104174 ACCAATTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 30 0.91
30 3 0.09
ACGTcount: A:0.13, C:0.34, G:0.09, T:0.43
Consensus pattern (29 bp):
CTTCGGTTCTCCTACTTATACCTCTCTCA
Found at i:17108911 original size:2 final size:2
Alignment explanation
Indices: 17108900--17108956 Score: 64
Period size: 2 Copynumber: 29.5 Consensus size: 2
17108890 TTAATTAATC
* * * *
17108900 AT AT AT -T AT AT AT CT AT AT CT AT -T AT CT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17108940 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
17108957 AGCATAAGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17109560 original size:3 final size:3
Alignment explanation
Indices: 17109552--17109621 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
17109542 TTTATGTTTT
17109552 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17109600 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
17109622 AGATCAAGTN
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17110978 original size:125 final size:125
Alignment explanation
Indices: 17110756--17111006 Score: 484
Period size: 125 Copynumber: 2.0 Consensus size: 125
17110746 TGTTGCAATT
*
17110756 CCGGCCTCTGCCTTCTTGTTCCTGTACTACACCTTGCTCTTGTGGTGCTGTTACCACTGCTCGTT
1 CCGGCCTCTGCCTTCTTGTTCCTGTACTACACATTGCTCTTGTGGTGCTGTTACCACTGCTCGTT
17110821 CTTATCATACGCAAAATTATGTGATTCGGTTTCTCAAAGGATTAAATGATTTTTATTCTG
66 CTTATCATACGCAAAATTATGTGATTCGGTTTCTCAAAGGATTAAATGATTTTTATTCTG
*
17110881 CCGGCCTCTGCCTTCTTGTTCTTGTACTACACATTGCTCTTGTGGTGCTGTTACCACTGCTCGTT
1 CCGGCCTCTGCCTTCTTGTTCCTGTACTACACATTGCTCTTGTGGTGCTGTTACCACTGCTCGTT
17110946 CTTATCATACGCAAAATTATGTGATTCGGTTTCTCAAAGGATTAAATGATTTTTATTCTG
66 CTTATCATACGCAAAATTATGTGATTCGGTTTCTCAAAGGATTAAATGATTTTTATTCTG
17111006 C
1 C
17111007 TGTGCGATCT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (125 bp):
CCGGCCTCTGCCTTCTTGTTCCTGTACTACACATTGCTCTTGTGGTGCTGTTACCACTGCTCGTT
CTTATCATACGCAAAATTATGTGATTCGGTTTCTCAAAGGATTAAATGATTTTTATTCTG
Found at i:17112505 original size:53 final size:54
Alignment explanation
Indices: 17112438--17112546 Score: 211
Period size: 53 Copynumber: 2.0 Consensus size: 54
17112428 AAACTTCTTG
17112438 TACTGAAACTCTTCAACAAAATGGCTTAGTTGAGCGTAAACATCAACACATTCT
1 TACTGAAACTCTTCAACAAAATGGCTTAGTTGAGCGTAAACATCAACACATTCT
17112492 TACT-AAACTCTTCAACAAAATGGCTTAGTTGAGCGTAAACATCAACACATTCT
1 TACTGAAACTCTTCAACAAAATGGCTTAGTTGAGCGTAAACATCAACACATTCT
17112545 TA
1 TA
17112547 ATGTGGCTCG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 51 0.93
54 4 0.07
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (54 bp):
TACTGAAACTCTTCAACAAAATGGCTTAGTTGAGCGTAAACATCAACACATTCT
Found at i:17113013 original size:3 final size:3
Alignment explanation
Indices: 17112999--17113030 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
17112989 ACAAAGAACC
*
17112999 CCA CCC CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
17113031 TTCTCCTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.72, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:17116868 original size:28 final size:28
Alignment explanation
Indices: 17116828--17116902 Score: 123
Period size: 28 Copynumber: 2.6 Consensus size: 28
17116818 ACCATAATCA
17116828 AATTTGTTATTAACTTTCATTCCCTCAT
1 AATTTGTTATTAACTTTCATTCCCTCAT
17116856 AATTTGTTATTAACTTTCATTCCCTCAT
1 AATTTGTTATTAACTTTCATTCCCTCAT
*
17116884 AATTTATTTATTAATCTTT
1 AATTT-GTTATTAA-CTTT
17116903 TATAATCAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 33 0.75
29 7 0.16
30 4 0.09
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTTGTTATTAACTTTCATTCCCTCAT
Found at i:17117093 original size:31 final size:31
Alignment explanation
Indices: 17117058--17117145 Score: 140
Period size: 31 Copynumber: 2.8 Consensus size: 31
17117048 TTTTGAAGGT
* *
17117058 TGAGGGAATAAAATTTTGGGGGGAAAATAAA
1 TGAGGGAGTAAAATTTTGGAGGGAAAATAAA
*
17117089 TGAGGGAGTAAAATTTTGGAGGAAAAATAAA
1 TGAGGGAGTAAAATTTTGGAGGGAAAATAAA
*
17117120 TGGGGGAGTAAAATTTTGGAGGGAAA
1 TGAGGGAGTAAAATTTTGGAGGGAAA
17117146 TATTAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (31 bp):
TGAGGGAGTAAAATTTTGGAGGGAAAATAAA
Found at i:17120861 original size:3 final size:3
Alignment explanation
Indices: 17120855--17120881 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17120845 ACGATGGCAG
17120855 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
17120882 CAGTGGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:17124108 original size:54 final size:54
Alignment explanation
Indices: 17124042--17124148 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
17124032 ATCTCCTTTT
* * * *
17124042 GAACAGTAGTCTCCCCCTGAGTAGTAGCTTCCCGTTGAACAATGGTGTTTTCTG
1 GAACAGTAGTCTCCCCCTAAATAGTAGCTTCCCCTTGAACAATGATGTTTTCTG
*
17124096 GAACAGTAGTCTCCCCTTAAATAGTAGCTTCCCCTTGAACAATGATGTTTTCT
1 GAACAGTAGTCTCCCCCTAAATAGTAGCTTCCCCTTGAACAATGATGTTTTCT
17124149 AGAATAAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (54 bp):
GAACAGTAGTCTCCCCCTAAATAGTAGCTTCCCCTTGAACAATGATGTTTTCTG
Found at i:17131275 original size:16 final size:15
Alignment explanation
Indices: 17131264--17131318 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
17131254 AATAAATAAT
17131264 AAAAAAAGTAAAAAA
1 AAAAAAAGTAAAAAA
* *
17131279 AAAATTATA-TAACAAA
1 AAAA--AAAGTAAAAAA
17131295 AAAAAAAGTAAAGAAA
1 AAAAAAAGTAAA-AAA
17131311 AAAAAAAG
1 AAAAAAAG
17131319 ACAAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
14 2 0.06
15 7 0.22
16 21 0.66
17 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (15 bp):
AAAAAAAGTAAAAAA
Found at i:17131299 original size:31 final size:32
Alignment explanation
Indices: 17131248--17131314 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 32
17131238 TTTAAAGTAG
17131248 AAAATTAATAAATAATAAAAAAAGTAAA-AAA
1 AAAATTAATAAATAATAAAAAAAGTAAAGAAA
17131279 AAAATTATATAACA-AA-AAAAAAAGTAAAGAAA
1 AAAATTA-ATAA-ATAATAAAAAAAGTAAAGAAA
17131311 AAAA
1 AAAA
17131315 AAAGACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
31 19 0.58
32 13 0.39
33 1 0.03
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (32 bp):
AAAATTAATAAATAATAAAAAAAGTAAAGAAA
Found at i:17131314 original size:19 final size:19
Alignment explanation
Indices: 17131273--17131317 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
17131263 TAAAAAAAGT
* * * *
17131273 AAAAAAAAAATTATATAAC
1 AAAAAAAAAAGTAAAGAAA
17131292 AAAAAAAAAAGTAAAGAAA
1 AAAAAAAAAAGTAAAGAAA
17131311 AAAAAAA
1 AAAAAAA
17131318 GACAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.11
Consensus pattern (19 bp):
AAAAAAAAAAGTAAAGAAA
Found at i:17131546 original size:33 final size:33
Alignment explanation
Indices: 17131504--17131577 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
17131494 GATAATTATT
**
17131504 TTATATAATC-AATTAATATTTTTATATTTAAAA
1 TTATATAATCTAATTAAT-TTGATATATTTAAAA
* *
17131537 TTATTTAATCTAATTCATTTGATATATTTAAATA
1 TTATATAATCTAATTAATTTGATATATTTAAA-A
*
17131571 TTTTATA
1 TTATATA
17131578 TATTAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (33 bp):
TTATATAATCTAATTAATTTGATATATTTAAAA
Found at i:17131578 original size:17 final size:16
Alignment explanation
Indices: 17131518--17131585 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
17131508 ATAATCAATT
17131518 AATATTTTTATATTTA
1 AATATTTTTATATTTA
*
17131534 AA-ATTATTTA-ATCTA
1 AATATT-TTTATATTTA
* *
17131549 ATTCATTTGATATATTTA
1 AAT-ATTT-TTATATTTA
17131567 AATA-TTTTATATATTA
1 AATATTTTTATAT-TTA
17131583 AAT
1 AAT
17131586 TTAAACAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
15 13 0.32
16 15 0.38
17 6 0.15
18 6 0.15
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (16 bp):
AATATTTTTATATTTA
Found at i:17134064 original size:43 final size:42
Alignment explanation
Indices: 17133998--17134126 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 42
17133988 ATAGGATTTC
17133998 CGATATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
17134041 CGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGA-TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
*
17134084 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
17134127 TGTACGAGTT
Statistics
Matches: 77, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
42 3 0.04
43 68 0.88
44 6 0.08
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
CGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:17135215 original size:23 final size:22
Alignment explanation
Indices: 17135101--17135225 Score: 106
Period size: 23 Copynumber: 5.5 Consensus size: 22
17135091 NNNNNNNNNN
17135101 TGCCCAATTTGTTACATAATGC
1 TGCCCAATTTGTTACATAATGC
* * * *
17135123 TGTCCAATTTTGATGCTTAAATGC
1 TGCCCAA-TTTGTTACAT-AATGC
*
17135147 TGCCCAATTTATTACATAATGC
1 TGCCCAATTTGTTACATAATGC
* * * *
17135169 TGTCCAATTTTGATGCTTAAATGC
1 TGCCCAA-TTTGTTACAT-AATGC
*
17135193 TGCCCAGTTTGTTACATATATGC
1 TGCCCAATTTGTTACATA-ATGC
*
17135216 TGTCCAATTT
1 TGCCCAATTT
17135226 TGATGCTTAA
Statistics
Matches: 77, Mismatches: 21, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
22 18 0.23
23 38 0.49
24 21 0.27
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (22 bp):
TGCCCAATTTGTTACATAATGC
Found at i:17135234 original size:47 final size:46
Alignment explanation
Indices: 17135101--17135246 Score: 265
Period size: 46 Copynumber: 3.2 Consensus size: 46
17135091 NNNNNNNNNN
17135101 TGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGC
1 TGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGC
*
17135147 TGCCCAATTTATTACATAATGCTGTCCAATTTTGATGCTTAAATGC
1 TGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGC
*
17135193 TGCCCAGTTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGC
1 TGCCCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGC
17135240 TGCCCAA
1 TGCCCAA
17135247 ACTGTTTTAT
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 61 0.64
47 34 0.36
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGC
Found at i:17135259 original size:47 final size:46
Alignment explanation
Indices: 17135119--17135269 Score: 198
Period size: 47 Copynumber: 3.2 Consensus size: 46
17135109 TTGTTACATA
*
17135119 ATGCTGTCCAATTTTGATGCTTAAATGCTGCCC-AAT-TTATTACAT
1 ATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAAATGTT-TTATAT
** **
17135164 AATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAGTTTGTTACATAT
1 -ATGCTGTCCAATTTTGATGCTTAAATGCTGCCCA-AATGTTTTATAT
17135212 ATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAAACTGTTTTATAT
1 ATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAAA-TGTTTTATAT
*
17135259 ATGCTGACCAA
1 ATGCTGTCCAA
17135270 ATTCATGAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
46 33 0.36
47 52 0.57
48 4 0.04
49 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (46 bp):
ATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAAATGTTTTATAT
Found at i:17135288 original size:93 final size:92
Alignment explanation
Indices: 17135101--17135292 Score: 255
Period size: 93 Copynumber: 2.1 Consensus size: 92
17135091 NNNNNNNNNN
17135101 TGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTATTACATAA
1 TGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTATTACATAA
* * * ** *
17135166 TGCTGTCCAATTTTGATGCTTAAATGC
66 TGCTGACCAATATTCATGAATAAAAGC
* *
17135193 TGCCCAGTTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAAACTGTT-TTAT
1 TGCCCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGCTGCCC-AA-T-TTATTAC
17135257 AT-ATGCTGACCAA-ATTCATGAATAAAAGC
62 ATAATGCTGACCAATATTCATGAATAAAAGC
17135286 TGCCCAA
1 TGCCCAA
17135293 ATAGGGTAGA
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
92 17 0.20
93 50 0.57
94 12 0.14
95 6 0.07
96 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (92 bp):
TGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTATTACATAA
TGCTGACCAATATTCATGAATAAAAGC
Found at i:17136783 original size:14 final size:15
Alignment explanation
Indices: 17136764--17136794 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17136754 TACGTATTTA
17136764 ATTTTTAATTAATGT
1 ATTTTTAATTAATGT
*
17136779 ATTTTTAATTATTGT
1 ATTTTTAATTAATGT
17136794 A
1 A
17136795 ATTATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTTTTAATTAATGT
Found at i:17147602 original size:46 final size:46
Alignment explanation
Indices: 17147535--17147653 Score: 238
Period size: 46 Copynumber: 2.6 Consensus size: 46
17147525 NNNNNNNTAT
17147535 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
17147581 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
17147627 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17147654 AGTACTCAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Done.