Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 38 of 195
Found at i:8098616 original size:69 final size:69
Alignment explanation
Indices: 8098522--8098683 Score: 182
Period size: 69 Copynumber: 2.3 Consensus size: 69
8098512 GAATACCTTG
* * * *
8098522 CGAATCTTTAATTCCTGCAAATCTAAAAACT-TTGTAAATCTCCAATTCTTGTGAATCTAAAAGT
1 CGAATCTTCAATTCTTGCGAATCT-AAAACTCTTGCAAATCTCCAATTCTTGTGAATCTAAAAGT
8098586 TTTTA
65 TTTTA
* * * * * *
8098591 CGAATCTTCATTTCTTGCGAATCTAAAAGTCTTGCGAATCTCTAATTCTTGTGAATTTGAAAGTT
1 CGAATCTTCAATTCTTGCGAATCTAAAACTCTTGCAAATCTCCAATTCTTGTGAATCTAAAAGTT
*
8098656 TTTG
66 TTTA
* * *
8098660 CTAATCTCCAATTATTGCGAATCT
1 CGAATCTTCAATTCTTGCGAATCT
8098684 TCAATTCTTC
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
68 5 0.06
69 72 0.94
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (69 bp):
CGAATCTTCAATTCTTGCGAATCTAAAACTCTTGCAAATCTCCAATTCTTGTGAATCTAAAAGTT
TTTA
Found at i:8098640 original size:17 final size:17
Alignment explanation
Indices: 8098558--8098732 Score: 95
Period size: 17 Copynumber: 10.2 Consensus size: 17
8098548 AAACTTTGTA
* *
8098558 AATCTCCAATTCTTGTG
1 AATCTCAAATTCTTGCG
* * *
8098575 AATCTAAAAGTTTTTACG
1 AATCTCAAA-TTCTTGCG
*
8098593 AATCTTC-ATTTCTTGCG
1 AATC-TCAAATTCTTGCG
* *
8098610 AATCTAAAAGTCTTGCG
1 AATCTCAAATTCTTGCG
* *
8098627 AATCTCTAATTCTTGTG
1 AATCTCAAATTCTTGCG
* * * *
8098644 AATTTGAAAGTTTTTGCT
1 AATCTCAAA-TTCTTGCG
* *
8098662 AATCTCCAATTATTGCG
1 AATCTCAAATTCTTGCG
8098679 AATCTTC-AATTCTT-CTG
1 AATC-TCAAATTCTTGC-G
* * **
8098696 AATCTGAAAATCTTATG
1 AATCTCAAATTCTTGCG
*
8098713 AATCTCCAATTCTTGCG
1 AATCTCAAATTCTTGCG
8098730 AAT
1 AAT
8098733 TTAAAATTTT
Statistics
Matches: 114, Mismatches: 36, Indels: 16
0.69 0.22 0.10
Matches are distributed among these distances:
16 3 0.03
17 87 0.76
18 23 0.20
19 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
AATCTCAAATTCTTGCG
Found at i:8098666 original size:52 final size:52
Alignment explanation
Indices: 8098605--8098704 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 52
8098595 TCTTCATTTC
* * *
8098605 TTGCGAATCTAAAAGTCTTGCGAATC-TCTAATTCTTGTGAATTTGAAAGTTT
1 TTGCGAATCTAAAAGTATTGCGAATCTTC-AATTCTTCTGAATCTGAAAGTTT
* ** *
8098657 TTGCTAATCTCCAATTATTGCGAATCTTCAATTCTTCTGAATCTGAAA
1 TTGCGAATCTAAAAGTATTGCGAATCTTCAATTCTTCTGAATCTGAAA
8098705 ATCTTATGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 38 0.95
53 2 0.05
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (52 bp):
TTGCGAATCTAAAAGTATTGCGAATCTTCAATTCTTCTGAATCTGAAAGTTT
Found at i:8098740 original size:17 final size:17
Alignment explanation
Indices: 8098720--8098800 Score: 63
Period size: 17 Copynumber: 4.8 Consensus size: 17
8098710 ATGAATCTCC
*
8098720 AATTCTTGCGAATTTAA
1 AATTCTTACGAATTTAA
* ** **
8098737 AATTTTTATTAATTTTC
1 AATTCTTACGAATTTAA
8098754 AATTCTTACGAATTTAA
1 AATTCTTACGAATTTAA
* * **
8098771 AATTTTTATGAATTTTC
1 AATTCTTACGAATTTAA
*
8098788 AATTCTTGCGAAT
1 AATTCTTACGAAT
8098801 GATAAATTCT
Statistics
Matches: 46, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.49
Consensus pattern (17 bp):
AATTCTTACGAATTTAA
Found at i:8098808 original size:34 final size:34
Alignment explanation
Indices: 8098678--8098800 Score: 151
Period size: 34 Copynumber: 3.6 Consensus size: 34
8098668 CAATTATTGC
* * *
8098678 GAATCTTCAATTCTT-CTGAATCTGAAAA-TCTTAT
1 GAATTTTCAATTCTTGC-GAAT-TTAAAATTTTTAT
* *
8098712 GAATCTCCAATTCTTGCGAATTTAAAATTTTTAT
1 GAATTTTCAATTCTTGCGAATTTAAAATTTTTAT
* *
8098746 TAATTTTCAATTCTTACGAATTTAAAATTTTTAT
1 GAATTTTCAATTCTTGCGAATTTAAAATTTTTAT
8098780 GAATTTTCAATTCTTGCGAAT
1 GAATTTTCAATTCTTGCGAAT
8098801 GATAAATTCT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
33 5 0.06
34 72 0.92
35 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.46
Consensus pattern (34 bp):
GAATTTTCAATTCTTGCGAATTTAAAATTTTTAT
Found at i:8098814 original size:34 final size:34
Alignment explanation
Indices: 8098678--8098820 Score: 148
Period size: 34 Copynumber: 4.2 Consensus size: 34
8098668 CAATTATTGC
* *
8098678 GAATCTTCAATTCTT-CTGAATCTGAAAA-TCTTAT
1 GAATTTTCAATTCTTGC-GAAT-TTAAAATTCTTAT
* * *
8098712 GAATCTCCAATTCTTGCGAATTTAAAATTTTTAT
1 GAATTTTCAATTCTTGCGAATTTAAAATTCTTAT
* * *
8098746 TAATTTTCAATTCTTACGAATTTAAAATTTTTAT
1 GAATTTTCAATTCTTGCGAATTTAAAATTCTTAT
*
8098780 GAATTTTCAATTCTTGCGAA-TGATAAATTCTTAT
1 GAATTTTCAATTCTTGCGAATTTA-AAATTCTTAT
*
8098814 GGATTTT
1 GAATTTT
8098821 TGAATCCTGC
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
33 7 0.07
34 86 0.91
35 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (34 bp):
GAATTTTCAATTCTTGCGAATTTAAAATTCTTAT
Found at i:8098851 original size:41 final size:41
Alignment explanation
Indices: 8098805--8098888 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
8098795 GCGAATGATA
** *
8098805 AATTCTTATGGATTTTTGAATCCTGCGAATCTTTGAATTGC
1 AATTCTTATAAATTTTTGAATCATGCGAATCTTTGAATTGC
* * *
8098846 AATTCTTCTAAATTTTTGAATTATGTGAATCTTTGAATTGC
1 AATTCTTATAAATTTTTGAATCATGCGAATCTTTGAATTGC
8098887 AA
1 AA
8098889 ACCTTTGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (41 bp):
AATTCTTATAAATTTTTGAATCATGCGAATCTTTGAATTGC
Found at i:8099202 original size:31 final size:33
Alignment explanation
Indices: 8099167--8099230 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
8099157 TCAAATCTTT
*
8099167 CTTCGGCTCAATCCAAGTTATTC-A-TTTCAGA
1 CTTCGGCTCAATCCAAGTCATTCTATTTTCAGA
* *
8099198 CTTCGGTTCAATCCAGGTCATTCTATTTTCAGA
1 CTTCGGCTCAATCCAAGTCATTCTATTTTCAGA
8099231 TTTTAGCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 20 0.71
32 1 0.04
33 7 0.25
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (33 bp):
CTTCGGCTCAATCCAAGTCATTCTATTTTCAGA
Found at i:8099271 original size:86 final size:78
Alignment explanation
Indices: 8099180--8099746 Score: 255
Period size: 86 Copynumber: 6.9 Consensus size: 78
8099170 CGGCTCAATC
8099180 CAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCTATTTTCAGATTTTAGCTTATGCC
1 CAAGTTATTCATTTCA-ACTTCGGTTCAATCCAGGTCATTCTATTTT-AGATTTT-GCTTATGCC
*
8099245 AGATCCTTCTTTGGTTTATT
63 AGATCCTTCTTTAG----TT
* * * * * *
8099265 CTAAGTTATTCATTTCAAGCTTCAGTTCAGTCCAGGCCTTTC-AGTTTTAGATTTTGACTTTTGT
1 C-AAGTTATTCATTTCAA-CTTCGGTTCAATCCAGGTCATTCTA-TTTTAGATTTTG-CTTATGC
*
8099329 CAAATCCTTC-TTAGTT
62 CAGATCCTTCTTTAGTT
* * *
8099345 CAAGTTATTCATTTCAAACTTCGGTTCAATCCAGGTCATTCTGTTTTTGAATTTTGGCATATGCC
1 CAAGTTATTCATTTC-AACTTCGGTTCAATCCAGGTCATTCTATTTTAG-ATTTT-GCTTATGCC
8099410 AGATCCTTCTTCAGCTTAGTT
63 AGATCCTTC-T----TTAGTT
* * * * * * * * * * *
8099431 CAAGTAATCCCTTTCAGATTTTGATTAAATCCAAGTCATTCTGTTTTTGGATTTCGCTT-TG---
1 CAAGTTATTCATTTCA-ACTTCGGTTCAATCCAGGTCATTCT-ATTTTAGATTTTGCTTATGCCA
*
8099492 G-------TTTAGTC
64 GATCCTTCTTTAGTT
* * * ** * *
8099500 CAAGTCATTCATTTCAGACTTCAGTTTAATTTAGGTCATTCTATTTTTGGATTTTGACATATGCC
1 CAAGTTATTCATTTCA-ACTTCGGTTCAATCCAGGTCATTCTA-TTTTAGATTTTG-CTTATGCC
*
8099565 AGATCCTTCTTCGGCTTAGTC
63 AGATCCTTC-T----TTAGTT
* * * * *
8099586 CAAGTCATT-AGTTTCAGACTTCGGTTCAATCTAGGTCATTCTATTTTTAAATTTCGACATATGC
1 CAAGTTATTCA-TTTCA-ACTTCGGTTCAATCCAGGTCATTCTA-TTTTAGATTTTG-CTTATGC
*
8099650 CAGATCATT-TTTCAGCTTAGT
62 CAGATCCTTCTTT-AG--T--T
* * * * * * * *
8099671 CTAAGTTATTCATTTCAGACTTCAGTTTAGTCTAGGTCATTGTGTTTTAGATTTTAGCCTATGCT
1 C-AAGTTATTCATTTCA-ACTTCGGTTCAATCCAGGTCATTCTATTTTAGATTTT-GCTTATGCC
8099736 AGATCCTTCTT
63 AGATCCTTCTT
8099747 CGAGTCATTC
Statistics
Matches: 374, Mismatches: 64, Indels: 87
0.71 0.12 0.17
Matches are distributed among these distances:
69 47 0.13
70 2 0.01
71 2 0.01
73 1 0.00
74 1 0.00
79 38 0.10
80 25 0.07
81 4 0.01
82 1 0.00
83 1 0.00
84 7 0.02
85 52 0.14
86 187 0.50
87 6 0.02
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (78 bp):
CAAGTTATTCATTTCAACTTCGGTTCAATCCAGGTCATTCTATTTTAGATTTTGCTTATGCCAGA
TCCTTCTTTAGTT
Found at i:8099391 original size:79 final size:82
Alignment explanation
Indices: 8099180--8099420 Score: 258
Period size: 79 Copynumber: 2.9 Consensus size: 82
8099170 CGGCTCAATC
* *
8099180 CAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCTATTTTCAGATTTT-AGCTTATGC
1 CAAGTTATTCATTTCAAACTTCGGTTCAATCCAGGTCATTCTGTTTT-AGATTTTGAGCTTATGC
* *
8099244 CAGATCCTTCTTTGGTTTATT
65 CAAATCCTTCTTTAG--T-TT
* * * * * * * *
8099265 CTAAGTTATTCATTTCAAGCTTCAGTTCAGTCCAGGCCTTTCAGTTTTAGATTTTGA-CTTTTGT
1 C-AAGTTATTCATTTCAAACTTCGGTTCAATCCAGGTCATTCTGTTTTAGATTTTGAGCTTATGC
8099329 CAAATCCTTC-TTAG-TT
65 CAAATCCTTCTTTAGTTT
* *
8099345 CAAGTTATTCATTTCAAACTTCGGTTCAATCCAGGTCATTCTGTTTTTGAATTTTG-GCATATGC
1 CAAGTTATTCATTTCAAACTTCGGTTCAATCCAGGTCATTCTGTTTTAG-ATTTTGAGCTTATGC
*
8099409 CAGATCCTTCTT
65 CAAATCCTTCTT
8099421 CAGCTTAGTT
Statistics
Matches: 128, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
79 41 0.32
80 22 0.17
81 1 0.01
84 3 0.02
85 22 0.17
86 39 0.30
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (82 bp):
CAAGTTATTCATTTCAAACTTCGGTTCAATCCAGGTCATTCTGTTTTAGATTTTGAGCTTATGCC
AAATCCTTCTTTAGTTT
Found at i:8099624 original size:155 final size:155
Alignment explanation
Indices: 8099339--8099633 Score: 383
Period size: 155 Copynumber: 1.9 Consensus size: 155
8099329 CAAATCCTTC
* * * * *
8099339 TTAGTTCAAGTTATTCATTTCAAACTTCGGTTCAATCCAGGTCATTCTGTTTTTGAATTTTGGCA
1 TTAGTCCAAGTCATTCATTTCAAACTTCAGTTCAATCCAGGTCATTCTATTTTTGAATTTTGACA
* * * *
8099404 TATGCCAGATCCTTCTTCAGCTTAGTTCAAGTAATCCCTTTCAGATTTTGATTAAATCCAAGTCA
66 TATGCCAGATCCTTCTTCAGCTTAGTCCAAGTAATCACTTTCAGACTTCGATTAAATCCAAGTCA
*
8099469 TTCTGTTTTTGGATTTCGCTTTGGT
131 TTCTATTTTTGGATTTCGCTTTGGT
* * ** *
8099494 TTAGTCCAAGTCATTCATTTCAGACTTCAGTTTAATTTAGGTCATTCTATTTTTGGATTTTGACA
1 TTAGTCCAAGTCATTCATTTCAAACTTCAGTTCAATCCAGGTCATTCTATTTTTGAATTTTGACA
* * * * * * * *
8099559 TATGCCAGATCCTTCTTCGGCTTAGTCCAAGTCATTAGTTTCAGACTTCGGTTCAATCTAGGTCA
66 TATGCCAGATCCTTCTTCAGCTTAGTCCAAGTAATCACTTTCAGACTTCGATTAAATCCAAGTCA
8099624 TTCTATTTTT
131 TTCTATTTTT
8099634 AAATTTCGAC
Statistics
Matches: 117, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
155 117 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (155 bp):
TTAGTCCAAGTCATTCATTTCAAACTTCAGTTCAATCCAGGTCATTCTATTTTTGAATTTTGACA
TATGCCAGATCCTTCTTCAGCTTAGTCCAAGTAATCACTTTCAGACTTCGATTAAATCCAAGTCA
TTCTATTTTTGGATTTCGCTTTGGT
Found at i:8101262 original size:58 final size:60
Alignment explanation
Indices: 8101200--8101334 Score: 177
Period size: 59 Copynumber: 2.3 Consensus size: 60
8101190 AATAATTAAT
* *
8101200 TTTTCTTAAAAATAAAAATTTCAA-AAAAAATAATTTGAGGAAAAGTTAAAAGTATC-AA
1 TTTTCTTAAAAATAAAAATTTCAAGAAAAAATAATTTAAGAAAAAGTTAAAAGTATCGAA
* * * * *
8101258 TTTTCCTTGAAGAT-CAAATTTCAAGAAAAAATACTTTAAGAAAAAGTTAAAAGTATCGAT
1 TTTT-CTTAAAAATAAAAATTTCAAGAAAAAATAATTTAAGAAAAAGTTAAAAGTATCGAA
8101318 TTTTCTTAAAAATAAAA
1 TTTTCTTAAAAATAAAA
8101335 GTTTTCGAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
58 13 0.21
59 43 0.68
60 7 0.11
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (60 bp):
TTTTCTTAAAAATAAAAATTTCAAGAAAAAATAATTTAAGAAAAAGTTAAAAGTATCGAA
Found at i:8103881 original size:32 final size:32
Alignment explanation
Indices: 8103836--8103924 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
8103826 TTGAAAAATG
* * *
8103836 TTGCTCCCAAGCAAGAGCCTAAATTGCTCGTT
1 TTGCTCCCAAGCAAGAGCCTAAACTACTCGTA
* *
8103868 TTGCTCCCTAGCAAGAGCCTCAACTACTCGTA
1 TTGCTCCCAAGCAAGAGCCTAAACTACTCGTA
* * * *
8103900 TTGCTCCTAAGTATGAGCTTAAACT
1 TTGCTCCCAAGCAAGAGCCTAAACT
8103925 GTTCAAGTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (32 bp):
TTGCTCCCAAGCAAGAGCCTAAACTACTCGTA
Found at i:8110126 original size:24 final size:25
Alignment explanation
Indices: 8110075--8110134 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
8110065 ATTATATTGA
8110075 ATTTAG-T-ATTTTTAAAATTTGTT
1 ATTTAGTTAATTTTTAAAATTTGTT
*
8110098 GTTTAGTTAATTTTTATAAA-TT-TT
1 ATTTAGTTAATTTTTA-AAATTTGTT
*
8110122 ATTTAGTAAATTT
1 ATTTAGTTAATTT
8110135 GTTCGCATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.16
24 14 0.45
25 9 0.29
26 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (25 bp):
ATTTAGTTAATTTTTAAAATTTGTT
Found at i:8110743 original size:22 final size:22
Alignment explanation
Indices: 8110718--8110780 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
8110708 TAATTCATCA
* * *
8110718 ATAACTTAGTAGTAAATTAGTG
1 ATAAATTAGTAGTAAATAAATG
* *
8110740 ATAAATTATTTGTAAATAAATG
1 ATAAATTAGTAGTAAATAAATG
*
8110762 ATAATTTAGTAGTAAATAA
1 ATAAATTAGTAGTAAATAA
8110781 TTATTGATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.38
Consensus pattern (22 bp):
ATAAATTAGTAGTAAATAAATG
Found at i:8110960 original size:11 final size:11
Alignment explanation
Indices: 8110946--8110999 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
8110936 GATAACTTAG
8110946 TAATAAATTAA
1 TAATAAATTAA
8110957 TAATAACA-TAA
1 TAATAA-ATTAA
* *
8110968 TAGTAAATTAC
1 TAATAAATTAA
*
8110979 TAATAATTTAA
1 TAATAAATTAA
*
8110990 TAGTAAATTA
1 TAATAAATTA
8111000 GTTTTTGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
10 1 0.03
11 32 0.94
12 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:8110962 original size:22 final size:22
Alignment explanation
Indices: 8110795--8110999 Score: 76
Period size: 22 Copynumber: 9.3 Consensus size: 22
8110785 TGATTTTTTG
8110795 TAAATTAATAATAA-TATAATAA
1 TAAATTAATAATAACT-TAATAA
* ** * **
8110817 TATATGCATAATACCTTAATGG
1 TAAATTAATAATAACTTAATAA
* * **
8110839 TAAATCAATTATAA-TATAATTG
1 TAAATTAATAATAACT-TAATAA
* ** *
8110861 TAAATGAATAATAA-TATAGCAT
1 TAAATTAATAATAACT-TAATAA
** *
8110883 TAAATTAAGGATAACTTAACAA
1 TAAATTAATAATAACTTAATAA
* * **
8110905 -AAAATAAGTGATAACTTTGTAA
1 TAAATTAA-TAATAACTTAATAA
* * * *
8110927 TTAATTATTGATAACTTAGTAA
1 TAAATTAATAATAACTTAATAA
* *
8110949 TAAATTAATAATAACATAATAG
1 TAAATTAATAATAACTTAATAA
* * *
8110971 TAAATTACTAATAATTTAATAG
1 TAAATTAATAATAACTTAATAA
8110993 TAAATTA
1 TAAATTA
8111000 GTTTTTGTTT
Statistics
Matches: 137, Mismatches: 41, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
21 7 0.05
22 124 0.91
23 6 0.04
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
TAAATTAATAATAACTTAATAA
Found at i:8111067 original size:22 final size:22
Alignment explanation
Indices: 8111026--8111076 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
8111016 AATTAATTGA
*
8111026 TAGTAGTAAATCATAAATAATT
1 TAGTAGTAAATCATAAATAAAT
*
8111048 TAGTAGTAAATCA-ATGATAAAT
1 TAGTAGTAAATCATA-AATAAAT
8111070 TAGTAGT
1 TAGTAGT
8111077 TAATTATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.47, C:0.04, G:0.14, T:0.35
Consensus pattern (22 bp):
TAGTAGTAAATCATAAATAAAT
Found at i:8111124 original size:65 final size:66
Alignment explanation
Indices: 8111042--8111166 Score: 166
Period size: 65 Copynumber: 1.9 Consensus size: 66
8111032 TAAATCATAA
* * * *
8111042 ATAATTTAGTAGTAAATCAAT-GATAA-ATTAGTAGTTAATTATTGAAAACTTAA-AATAAAATC
1 ATAACTTAGTAATAAATC-ATCGATAATA-TAATAGTTAATTAGTGAAAACTTAATAATAAAATC
8111104 AGT
64 AGT
*
8111107 ATAACTTAGTAATAAATCATCGATAATATAATAGTTAATTAGTGATAACTTAATAATAAA
1 ATAACTTAGTAATAAATCATCGATAATATAATAGTTAATTAGTGAAAACTTAATAATAAA
8111167 TTATGCATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
64 2 0.04
65 43 0.83
66 7 0.13
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.35
Consensus pattern (66 bp):
ATAACTTAGTAATAAATCATCGATAATATAATAGTTAATTAGTGAAAACTTAATAATAAAATCAG
T
Found at i:8111160 original size:22 final size:22
Alignment explanation
Indices: 8111143--8111189 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8111133 TATAATAGTT
8111143 AATTAGTG-ATAACTTAATAATA
1 AATTA-TGCATAACTTAATAATA
*
8111165 AATTATGCATAATTTAAT-ATA
1 AATTATGCATAACTTAATAATA
8111186 AATT
1 AATT
8111190 TTTAATAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (22 bp):
AATTATGCATAACTTAATAATA
Found at i:8111187 original size:65 final size:64
Alignment explanation
Indices: 8111042--8111188 Score: 156
Period size: 65 Copynumber: 2.2 Consensus size: 64
8111032 TAAATCATAA
* * *
8111042 ATAATTTAGTAGTAAATCAATGATAAATTAGTAGTTAATTATTGAAAACTTAAAATAAAATCAGT
1 ATAATTTAGTA-TAAATCAATGATAAATTAATAGTTAATTAGTGAAAACTTAAAATAAAATCAGC
* * *
8111107 ATAACTTAGTAATAAATC-ATCGAT-AATATAATAGTTAATTAGTGATAACTTAATAAT-AAATT
1 ATAATTTAGT-ATAAATCAAT-GATAAAT-TAATAGTTAATTAGTGAAAACTTAA-AATAAAATC
8111169 ATGC
62 A-GC
*
8111173 ATAATTTAATATAAAT
1 ATAATTTAGTATAAAT
8111189 TTTTAATAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
64 5 0.07
65 51 0.74
66 13 0.19
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (64 bp):
ATAATTTAGTATAAATCAATGATAAATTAATAGTTAATTAGTGAAAACTTAAAATAAAATCAGC
Found at i:8111250 original size:44 final size:43
Alignment explanation
Indices: 8111173--8111270 Score: 106
Period size: 44 Copynumber: 2.3 Consensus size: 43
8111163 TAAATTATGC
* ** * * *
8111173 ATAATTTAATATAAATTTTTAATAACTTGGTAGTGAATTTTAT
1 ATAATTTAGTATAAATTGGTAATAACTTGGTAGTAAATATTAG
* *
8111216 ATAATTTAGTGATAAATTGGTAATAATTTTGTAGTAAATATTAG
1 ATAATTTAGT-ATAAATTGGTAATAACTTGGTAGTAAATATTAG
*
8111260 AAAATTTAGTA
1 ATAATTTAGTA
8111271 AATCAATGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 10 0.22
44 35 0.78
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (43 bp):
ATAATTTAGTATAAATTGGTAATAACTTGGTAGTAAATATTAG
Found at i:8111355 original size:41 final size:41
Alignment explanation
Indices: 8111310--8111390 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
8111300 AAAAAATATA
* * * * *
8111310 TAATAATAAATCATTGATAATTTAGTAGTAAATTAATAATC
1 TAATAATAAATCACTAACAATGTAATAGTAAATTAATAATC
*
8111351 TAATAATAAATCACTAACAATGTAATAGTAAATTACTAAT
1 TAATAATAAATCACTAACAATGTAATAGTAAATTAATAAT
8111391 AACTTAGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (41 bp):
TAATAATAAATCACTAACAATGTAATAGTAAATTAATAATC
Found at i:8111382 original size:22 final size:22
Alignment explanation
Indices: 8111310--8111426 Score: 82
Period size: 22 Copynumber: 5.5 Consensus size: 22
8111300 AAAAAATATA
* * * *
8111310 TAATAATAAATCATTGATAATT
1 TAATAGTAAATCACTAATAATG
* *
8111332 TAGTAGTAAAT---TAATAATC
1 TAATAGTAAATCACTAATAATG
* *
8111351 TAATAATAAATCACTAACAATG
1 TAATAGTAAATCACTAATAATG
*
8111373 TAATAGTAAATTACTAATAACT-
1 TAATAGTAAATCACTAATAA-TG
* * *
8111395 TAGTTGTAAATCAAT-ATAATG
1 TAATAGTAAATCACTAATAATG
8111416 TAATAGTAAAT
1 TAATAGTAAAT
8111427 TAGTTAATCA
Statistics
Matches: 73, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
19 15 0.21
20 1 0.01
21 13 0.18
22 43 0.59
23 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.36
Consensus pattern (22 bp):
TAATAGTAAATCACTAATAATG
Found at i:8111555 original size:21 final size:21
Alignment explanation
Indices: 8111517--8111557 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8111507 ACTTAGTGAT
*
8111517 AAATCACCAACAATTTAATAG
1 AAATCACCAACAACTTAATAG
* *
8111538 AAATCACCCATAACTTAATA
1 AAATCACCAACAACTTAATA
8111558 ATAAAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.24
Consensus pattern (21 bp):
AAATCACCAACAACTTAATAG
Found at i:8111591 original size:22 final size:23
Alignment explanation
Indices: 8111532--8111595 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
8111522 ACCAACAATT
**
8111532 TAATAGAAATCACCCATAACTTAA
1 TAATA-AAATCATTCATAACTTAA
*
8111556 TAATAAAATTATTCATAACTTAA
1 TAATAAAATCATTCATAACTTAA
**
8111579 TGGT-AAATCATTCATAA
1 TAATAAAATCATTCATAA
8111596 ATTAGAAGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.35
23 17 0.50
24 5 0.15
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (23 bp):
TAATAAAATCATTCATAACTTAA
Found at i:8111630 original size:22 final size:22
Alignment explanation
Indices: 8111547--8111654 Score: 74
Period size: 22 Copynumber: 4.9 Consensus size: 22
8111537 GAAATCACCC
* * * *
8111547 ATAACTTAATAATAAAATTATTC
1 ATAATTTAATAGT-AAATAATTA
* * * *
8111570 ATAACTTAATGGTAAATCATTC
1 ATAATTTAATAGTAAATAATTA
* *
8111592 ATAAATTAGA-AGCAAATAATTA
1 ATAATTTA-ATAGTAAATAATTA
* * *
8111614 ATAATTTAGTTGTAAATCATTA
1 ATAATTTAATAGTAAATAATTA
8111636 ATAATTTAATAGTAAATAA
1 ATAATTTAATAGTAAATAA
8111655 CTGCTAACTT
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
22 55 0.82
23 12 0.18
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (22 bp):
ATAATTTAATAGTAAATAATTA
Found at i:8112108 original size:22 final size:22
Alignment explanation
Indices: 8111990--8112133 Score: 76
Period size: 22 Copynumber: 6.5 Consensus size: 22
8111980 TTAATCTTTG
* * *
8111990 ATAACTTAATAATAAATCAATA
1 ATAATTTAATAGTAAATCAGTA
* * * *
8112012 GTAACTTAATAGTAAATGAGTG
1 ATAATTTAATAGTAAATCAGTA
* * *
8112034 ATAATTTAATAATAAATTAAT-
1 ATAATTTAATAGTAAATCAGTA
* * * ** * *
8112055 TTCATTTAGTAGTATTTAATTA
1 ATAATTTAATAGTAAATCAGTA
8112077 ATAAATTTAATAGTAAATCA-TAA
1 AT-AATTTAATAGTAAATCAGT-A
* * *
8112100 ATAATTTAATAATACATCAGTG
1 ATAATTTAATAGTAAATCAGTA
8112122 ATAATTTAATAG
1 ATAATTTAATAG
8112134 GTAATTATTG
Statistics
Matches: 90, Mismatches: 28, Indels: 8
0.71 0.22 0.06
Matches are distributed among these distances:
21 13 0.14
22 61 0.68
23 16 0.18
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCAGTA
Found at i:8112214 original size:16 final size:15
Alignment explanation
Indices: 8112189--8112222 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8112179 GTTAATCATT
*
8112189 AATAACTTAATAGTTA
1 AATAAATTAATAG-TA
8112205 AATAAATTAATAGTA
1 AATAAATTAATAGTA
8112220 AAT
1 AAT
8112223 TATAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (15 bp):
AATAAATTAATAGTA
Found at i:8112252 original size:20 final size:21
Alignment explanation
Indices: 8112218--8112275 Score: 100
Period size: 20 Copynumber: 2.8 Consensus size: 21
8112208 AAATTAATAG
*
8112218 TAAATTATAGATAATTTAGTA
1 TAAATTATTGATAATTTAGTA
8112239 TAAATT-TTGATAATTTAGTA
1 TAAATTATTGATAATTTAGTA
8112259 TAAATTATTGATAATTT
1 TAAATTATTGATAATTT
8112276 GATAACGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (21 bp):
TAAATTATTGATAATTTAGTA
Found at i:8112308 original size:22 final size:22
Alignment explanation
Indices: 8112218--8112308 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 22
8112208 AAATTAATAG
* *
8112218 TAAATTATAGATAATTTAGT-A
1 TAAATCATGGATAATTTAGTAA
* *
8112239 TAAAT-TTTGATAATTTAGT-A
1 TAAATCATGGATAATTTAGTAA
* *
8112259 TAAATTATTGATAATTT-GATAA
1 TAAATCATGGATAATTTAG-TAA
** *
8112281 CGAATCATGGTTAATTTAGTAA
1 TAAATCATGGATAATTTAGTAA
8112303 TAAATC
1 TAAATC
8112309 TATGATGATT
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
20 19 0.34
21 16 0.29
22 20 0.36
23 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (22 bp):
TAAATCATGGATAATTTAGTAA
Found at i:8112387 original size:22 final size:22
Alignment explanation
Indices: 8112362--8112404 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8112352 CAATGTTAAT
*
8112362 ATAATAGTAAATACA-TAATAAC
1 ATAATAATAAAT-CATTAATAAC
8112384 ATAATAATAAATCATTAATAA
1 ATAATAATAAATCATTAATAA
8112405 TTTAGATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAATAATAAATCATTAATAAC
Found at i:8112451 original size:22 final size:22
Alignment explanation
Indices: 8112426--8112479 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
8112416 ATTTTTATAG
8112426 CTTAGTAGTAAATTACTAATAA
1 CTTAGTAGTAAATTACTAATAA
* * *
8112448 CTTAATTGTAAATTAGTAATAA
1 CTTAGTAGTAAATTACTAATAA
*
8112470 TTTAGTAGTA
1 CTTAGTAGTA
8112480 TGTCATAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.41
Consensus pattern (22 bp):
CTTAGTAGTAAATTACTAATAA
Found at i:8113032 original size:57 final size:58
Alignment explanation
Indices: 8112944--8113220 Score: 389
Period size: 58 Copynumber: 4.8 Consensus size: 58
8112934 TTTTTTGTGC
*
8112944 AAGGAAAATTGATACTTTTAACTTTTCCTCAAAAA-CTTTTTTTGAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTT
* * ** * *
8113001 AAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAACCTTAATTTC
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTT
* *
8113059 GAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-CATTTTTTTGAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATC-TTTTTTTGAAAATTTATTTTT
*
8113117 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTGAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATC-TTTTTTTGAAAATTTATTTTT
* *
8113177 AA-GAAAGATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAGGAAA-ATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTT
8113221 TGGATTTTGT
Statistics
Matches: 194, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
57 33 0.17
58 101 0.52
59 14 0.07
60 46 0.24
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTT
Found at i:8113151 original size:116 final size:116
Alignment explanation
Indices: 8112943--8113220 Score: 416
Period size: 118 Copynumber: 2.4 Consensus size: 116
8112933 TTTTTTTGTG
* *
8112943 CAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAAC-TTTTTTTGAAAATTTATTTTTAAGGAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAATTTATTTTTAAGGAA
* *
8113007 AATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTTGAAACCTTAATTT
66 AATTGATACTTTCAACTTTTCCTCAAAAA-ACTTTTTTTGAAAACTTAATTT
*
8113058 CGAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAATTTATTTTTAAGGAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAATTTATTTTTAAGGAA
* *
8113123 AATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTGAAAATTTATTTT
66 AATTGATACTTTCAACTTTTCCTCAAAAAA-C-TTTTTTTGAAAACTTAATTT
* * * *
8113176 TAAGAAAGATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTT
8113221 TGGATTTTGT
Statistics
Matches: 147, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
115 35 0.24
116 55 0.37
118 57 0.39
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (116 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAATTTATTTTTAAGGAA
AATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTGAAAACTTAATTT
Found at i:8113247 original size:5 final size:5
Alignment explanation
Indices: 8113237--8113346 Score: 57
Period size: 5 Copynumber: 20.8 Consensus size: 5
8113227 TTGTTTAAAG
8113237 AAAAT AAAAT --AAT AAAAT AAAAT AAAAGT GAAAATAT AAAAT ATAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T --AAA-AT AAAAT A-AAAT
* * *
8113284 AAAAT AAAGA- AAAGT AAAACA AAAAT AAAAAT AAAAAT AAAGAT AAAAG
1 AAAAT AAA-AT AAAAT AAAA-T AAAAT -AAAAT -AAAAT AAA-AT AAAAT
* *
8113333 AATAT TAAAT AAAA
1 AAAAT AAAAT AAAA
8113347 CTAATCTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 26
0.69 0.08 0.22
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 43 0.52
6 28 0.34
8 4 0.05
9 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8113255 original size:13 final size:13
Alignment explanation
Indices: 8113237--8113261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8113227 TTGTTTAAAG
8113237 AAAATAAAATAAT
1 AAAATAAAATAAT
8113250 AAAATAAAATAA
1 AAAATAAAATAA
8113262 AAGTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:8113308 original size:6 final size:6
Alignment explanation
Indices: 8113237--8113331 Score: 63
Period size: 6 Copynumber: 15.5 Consensus size: 6
8113227 TTGTTTAAAG
*
8113237 AAAAT- AAAATA ATAAA-A TAAAATA AAAGTGA AAATATA AAATATA AAAA-A
1 AAAATA AAAATA A-AAATA -AAAATA AAAAT-A AAA-ATA AAA-ATA AAAATA
* * * *
8113287 ATAAAGA AAAGT- AAAACA AAAATA AAAATA AAAATA AAGATA AAA
1 A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
8113332 GAATATTAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
5 10 0.14
6 39 0.54
7 22 0.31
8 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:8114270 original size:21 final size:21
Alignment explanation
Indices: 8114188--8114292 Score: 71
Period size: 20 Copynumber: 5.2 Consensus size: 21
8114178 TCAGCCGGAT
8114188 AAATCAAAA-AAATAA-AA-A
1 AAATCAAAATAAATAACAATA
* * **
8114206 TAATCAAATAAAAATATTAATGA
1 AAATCAAA-ATAAATAACAAT-A
* *
8114229 AAAT-AAAATAAA-AAGATTA
1 AAATCAAAATAAATAACAATA
8114248 AAATCAAAA-AAATAACAGAT-
1 AAATCAAAATAAATAACA-ATA
*
8114268 AAATTAAAATAAATAACAATA
1 AAATCAAAATAAATAACAATA
8114289 AAAT
1 AAAT
8114293 AAACAGATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
18 7 0.10
19 9 0.13
20 25 0.37
21 19 0.28
22 3 0.04
23 4 0.06
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (21 bp):
AAATCAAAATAAATAACAATA
Found at i:8114288 original size:6 final size:5
Alignment explanation
Indices: 8114196--8114295 Score: 55
Period size: 5 Copynumber: 19.6 Consensus size: 5
8114186 ATAAATCAAA
* * *
8114196 AAAAT AAAA- ATAAT CAAAT AAAAAT ATTAAT GAAAAT AAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT -AAAAT A-AAAT -AAAAT AAAAT AAAAT
* * * *
8114242 AGATT AAAAT CAAA- AAAAT AACAGAT AAATT AAAAT -AAAT AACAAT
1 AAAAT AAAAT AAAAT AAAAT AA-A-AT AAAAT AAAAT AAAAT AA-AAT
8114288 AAAAT AAA
1 AAAAT AAA
8114296 CAGATAAAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
4 12 0.17
5 37 0.52
6 17 0.24
7 5 0.07
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:8114295 original size:20 final size:20
Alignment explanation
Indices: 8114228--8114295 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
8114218 AATATTAATG
* *
8114228 AAAATAAAATAAA-AAGATT
1 AAAATAAAATAAATAACAAT
8114247 AAAATCAAAA-AAATAACAGAT
1 AAAAT-AAAATAAATAACA-AT
*
8114268 AAATTAAAATAAATAACAAT
1 AAAATAAAATAAATAACAAT
8114288 AAAATAAA
1 AAAATAAA
8114296 CAGATAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 8 0.20
20 20 0.49
21 13 0.32
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.19
Consensus pattern (20 bp):
AAAATAAAATAAATAACAAT
Found at i:8114321 original size:32 final size:32
Alignment explanation
Indices: 8114256--8114324 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
8114246 TAAAATCAAA
*
8114256 AAAATAACAGATAAATTAAAATAAATAACAAT
1 AAAATAACAGATAAAATAAAATAAATAACAAT
* * *
8114288 AAAATAAACAGATAAAATATAAT-ACTAATAAT
1 AAAAT-AACAGATAAAATAAAATAAATAACAAT
8114320 AAAAT
1 AAAAT
8114325 CAATTATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (32 bp):
AAAATAACAGATAAAATAAAATAAATAACAAT
Found at i:8114796 original size:41 final size:41
Alignment explanation
Indices: 8114664--8114834 Score: 191
Period size: 42 Copynumber: 4.1 Consensus size: 41
8114654 CTGATCAAAA
* * * * * *
8114664 CTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAATGG
1 CTCCTCTAAATAGAGGCACCACGACTTT-GAAAAGTAAATTG
*
8114706 CTCCTCTAAATAGAGGCACCACGACTTTTGGAAAGTAAATTG
1 CTCCTCTAAATAGAGGCACCACGAC-TTTGAAAAGTAAATTG
* **
8114748 CTCCTCTAAATAGAAGCACCATAACTTTGAAAAGTAAATTG
1 CTCCTCTAAATAGAGGCACCACGACTTTGAAAAGTAAATTG
* * *
8114789 CTTCTCTAAACAGAGGCATCACGACTTT-AAAACGTAAATTG
1 CTCCTCTAAATAGAGGCACCACGACTTTGAAAA-GTAAATTG
8114830 CTCCT
1 CTCCT
8114835 TGACAATCAT
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
40 4 0.04
41 49 0.45
42 53 0.49
43 3 0.03
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (41 bp):
CTCCTCTAAATAGAGGCACCACGACTTTGAAAAGTAAATTG
Found at i:8114804 original size:83 final size:83
Alignment explanation
Indices: 8114664--8114834 Score: 211
Period size: 83 Copynumber: 2.1 Consensus size: 83
8114654 CTGATCAAAA
* * * *
8114664 CTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAATGGCTCCTCTAAATAGAGGCACCACG
1 CTCCTCTAAACAGAAGCACAATAACTTTGGAAAAATAAATGGCTCCTCTAAACAGAGGCACCACG
*
8114729 ACTTTTGGAAA-GTAAATTG
66 AC-TTT-AAAACGTAAATTG
* * * * * *
8114748 CTCCTCTAAATAGAAGCACCATAACTTT-GAAAAGTAAATTGCTTCTCTAAACAGAGGCATCACG
1 CTCCTCTAAACAGAAGCACAATAACTTTGGAAAAATAAATGGCTCCTCTAAACAGAGGCACCACG
8114812 ACTTTAAAACGTAAATTG
66 ACTTTAAAACGTAAATTG
8114830 CTCCT
1 CTCCT
8114835 TGACAATCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
81 3 0.04
82 16 0.21
83 33 0.44
84 23 0.31
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (83 bp):
CTCCTCTAAACAGAAGCACAATAACTTTGGAAAAATAAATGGCTCCTCTAAACAGAGGCACCACG
ACTTTAAAACGTAAATTG
Found at i:8115870 original size:17 final size:16
Alignment explanation
Indices: 8115848--8115910 Score: 76
Period size: 17 Copynumber: 3.9 Consensus size: 16
8115838 TTCATTCACT
8115848 TTTTTTCATTTATTTTC
1 TTTTTTCATTT-TTTTC
8115865 TTTTTTCATTTTTTTTC
1 TTTTTTCA-TTTTTTTC
*
8115882 ATTTTTT-A-TTTTTTA
1 -TTTTTTCATTTTTTTC
8115897 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
8115911 CATTTATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
14 6 0.15
15 7 0.17
16 5 0.12
17 14 0.34
18 9 0.22
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTCATTTTTTTC
Found at i:8115878 original size:8 final size:8
Alignment explanation
Indices: 8115848--8115915 Score: 79
Period size: 8 Copynumber: 8.4 Consensus size: 8
8115838 TTCATTCACT
8115848 TTTTTTCA
1 TTTTTTCA
8115856 TTTATTTTC-
1 -TT-TTTTCA
8115865 TTTTTTCA
1 TTTTTTCA
8115873 TTTTTTTTCA
1 --TTTTTTCA
8115883 TTTTTT-A
1 TTTTTTCA
8115890 TTTTTT-A
1 TTTTTTCA
8115897 TTTTTTCA
1 TTTTTTCA
8115905 TTTTTTCA
1 TTTTTTCA
8115913 TTT
1 TTT
8115916 ATTTTTTCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
7 19 0.35
8 20 0.37
9 2 0.04
10 13 0.24
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:8115879 original size:27 final size:25
Alignment explanation
Indices: 8115842--8115915 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 25
8115832 TCCTTTTTCA
* *
8115842 TTCACTTTTTTTCATTTATTTTCTTTT
1 TTCATTTTTTTTCA-TT-TTTTATTTT
8115869 TTCATTTTTTTTCATTTTTTATTTT
1 TTCATTTTTTTTCATTTTTTATTTT
8115894 TT-A--TTTTTTCATTTTTTCATTT
1 TTCATTTTTTTTCATTTTTT-ATTT
8115916 ATTTTTTCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
22 14 0.32
23 4 0.09
24 1 0.02
25 10 0.23
26 2 0.05
27 13 0.30
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (25 bp):
TTCATTTTTTTTCATTTTTTATTTT
Found at i:8115922 original size:14 final size:14
Alignment explanation
Indices: 8115835--8115922 Score: 74
Period size: 14 Copynumber: 6.2 Consensus size: 14
8115825 TGAGTCTTCC
* *
8115835 TTTTTCATTCACTT
1 TTTTTCATTTATTT
8115849 TTTTTCATTTATTT
1 TTTTTCATTTATTT
*
8115863 TCTTTT--TTCATTT
1 T-TTTTCATTTATTT
8115876 TTTTTCATTT-TTT
1 TTTTTCATTTATTT
* *
8115889 ATTTTTTATTTTTTCAT
1 -TTTTTCATTTATT--T
8115906 TTTTTCATTTATTT
1 TTTTTCATTTATTT
8115920 TTT
1 TTT
8115923 CAAGCATAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
12 4 0.07
13 10 0.17
14 28 0.47
15 6 0.10
16 11 0.18
17 1 0.02
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCATTTATTT
Found at i:8126398 original size:57 final size:57
Alignment explanation
Indices: 8126308--8126926 Score: 723
Period size: 57 Copynumber: 10.8 Consensus size: 57
8126298 TTTTTTATGC
* * *
8126308 AAGGAAAATTGATACTTTCAATTTTTTCC-C-AAAATATTTTTTGAAAACTTTAATTTC
1 AAGGAAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTGAAAA-TTTATTTTT
* * *
8126365 GAGGAAAATTGATGCTTCCAACTTTTCCTCAAAAA-ATTTTTTTGAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAAATTTATTTTT
* ** * *
8126422 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAACCTTAATTTC
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGAAAATTTATTTTT
* *
8126481 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGAAAATTTATTTTT
* * *
8126539 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAATCTTAATTTC
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAAAT-TTATTTTT
* * *
8126597 GA-GAAAATTGATACTTTCAACTTTTTCTCAAAAACTTTTTTTTGAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGAAAATTTATTTTT
* * * **
8126654 TAGAAAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTAAAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTGAAAATTTATTTTT
* * ** * *
8126711 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTCGAAAACTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTT
* *
8126768 AAGGAAAATTGATACTTTCAACTTTTCTTCAAAAAACTTTTTTTTTGAAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAA--TATTTTTTGAAAATTTATTTTT
* ** *
8126828 AAGGAAAATTGATATTTTCAACTTTTCCTCAAAAACGTTTTTTGAAATTTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTT
*
8126885 AA-GAAAAGTTGATACTTTCAACTTTTCC-CAAAAAAATTTTTT
1 AAGGAAAA-TTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
8126927 TTTAGATTTT
Statistics
Matches: 485, Mismatches: 60, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
56 23 0.05
57 242 0.50
58 118 0.24
59 55 0.11
60 47 0.10
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (57 bp):
AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTT
Found at i:8126563 original size:174 final size:172
Alignment explanation
Indices: 8126307--8126927 Score: 770
Period size: 174 Copynumber: 3.6 Consensus size: 172
8126297 TTTTTTTATG
* * * **
8126307 CAAGGAAAATTGATACTTTCAATTTTTTCC-C-AAAATATTTTTTGAAAACTTTAATTTCGAGGA
1 CAAGAAAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTGAAAA-TTTATTTTTAAGGA
* *
8126370 AAATTGATGCTTCCAACTTTTCCTCAAAAAATTTTTTTGAAAATTTATTTTTAAGGAAAATTGAT
64 AAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTGAAAATTTATTTTTAAGGAAAATTGAT
* ** *
8126435 ACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAACCTTAATTT
129 ACTTTCAACTTTTCCTCAAAAA-ATTTTTTTTGAAAATTTATTTT
*
8126480 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAAGGAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGAAAATTTATTTTTAAGGAA
* * **
8126545 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAATCTTAATTTCGA-GAAAATTGA
65 AATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTGAAAAT-TTATTTTTAAGGAAAATTGA
* *
8126608 TACTTTCAACTTTTTCTCAAAAACTTTTTTTTGAAAATTTATTTT
128 TACTTTCAACTTTTCCTCAAAAAATTTTTTTTGAAAATTTATTTT
** * ** *
8126653 TTAGAAAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTAAAAAATTTATTTTTAAGAAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTGAAAATTTATTTTTAAGGAA
* ** * *
8126717 AATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTCGAAAACTTATTTTTAAGGAAAATTGATA
65 AATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATA
*
8126782 CTTTCAACTTTTCTTCAAAAAACTTTTTTTTTGAAAATTTATTTT
130 CTTTCAACTTTTCCTCAAAAAA--TTTTTTTTGAAAATTTATTTT
* * * ** *
8126827 TAAGGAAAATTGATATTTTCAACTTTTCCTCAAAAACGTTTTTTGAAATTTTATTTTTAA-GAAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGGAAA
8126891 AGTTGATACTTTCAACTTTTCC-CAAAAAAATTTTTTT
66 A-TTGATACTTTCAACTTTTCCTC-AAAAAATTTTTTT
8126928 TTAGATTTTG
Statistics
Matches: 384, Mismatches: 51, Indels: 25
0.83 0.11 0.05
Matches are distributed among these distances:
171 13 0.03
172 91 0.24
173 76 0.20
174 175 0.46
175 29 0.08
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (172 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
TTTCAACTTTTCCTCAAAAAATTTTTTTTGAAAATTTATTTT
Found at i:8126929 original size:117 final size:115
Alignment explanation
Indices: 8126308--8126929 Score: 792
Period size: 117 Copynumber: 5.4 Consensus size: 115
8126298 TTTTTTATGC
* * *
8126308 AAGGAAAATTGATACTTTCAATTTTTTCCC--AAAA-TATTTTTTGAAAACTTTAATTTCGAGGA
1 AAGGAAAATTGATACTTTCAA-CTTTTCCCAAAAAATTTTTTTTTGAAAA-TTTAATTTCAAGGA
* * *
8126370 AAATTGATGCTTCCAACTTTTCCTCAAAAAATTTTTTTGAAAATTTATTTTT
64 AAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTT
* ** *
8126422 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAACCTTAATTTCAAGAAA
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAAAT-TTTTTTTTGAAAATTTAATTTCAAGGAA
8126487 AATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTT
65 AATTGATACTTTCAACTTTTCCTCAAAAAC-TTTTTTTGAAAATTTATTTTT
* * *
8126539 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAATCTTAATTTCGA-GAA
1 AAGGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTTGAAAAT-TTAATTTCAAGGAA
*
8126602 AATTGATACTTTCAACTTTTTCTCAAAAACTTTTTTTTGAAAATTTATTTTT
65 AATTGATACTTTCAACTTTTCCTCAAAAAC-TTTTTTTGAAAATTTATTTTT
* * * * ** * * *
8126654 TAGAAAAATTGATACTTTCAACTTTTTTCC-AAAAA-TATTTTTAAAAAATTTATTTTTAAGAAA
1 AAGGAAAATTGATACTTTCAAC-TTTTCCCAAAAAATTTTTTTTTGAAAATTTAATTTCAAGGAA
* * * *
8126717 AATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTCGAAAACTTATTTTT
65 AATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTT
* * *
8126768 AAGGAAAATTGATACTTTCAACTTTTCTTCAAAAAACTTTTTTTTTGAAAATTTATTTTTAAGGA
1 AAGGAAAATTGATACTTTCAACTTTTC-CCAAAAAA-TTTTTTTTTGAAAATTTAATTTCAAGGA
* * *
8126833 AAATTGATATTTTCAACTTTTCCTCAAAAACGTTTTTTGAAATTTTATTTTT
64 AAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTT
8126885 AA-GAAAAGTTGATACTTTCAACTTTTCCCAAAAAAATTTTTTTTT
1 AAGGAAAA-TTGATACTTTCAACTTTTCCC-AAAAAATTTTTTTTT
8126930 AGATTTTGTT
Statistics
Matches: 449, Mismatches: 44, Indels: 28
0.86 0.08 0.05
Matches are distributed among these distances:
113 11 0.02
114 72 0.16
115 125 0.28
116 77 0.17
117 164 0.37
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (115 bp):
AAGGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTTGAAAATTTAATTTCAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTT
Found at i:8126955 original size:5 final size:5
Alignment explanation
Indices: 8126945--8127072 Score: 61
Period size: 5 Copynumber: 25.0 Consensus size: 5
8126935 TTGTTTAAAG
8126945 AAAAT AAAAT -AAA- AAAAT AAAAT AAAAGT GAAAAT AAAA- AAAAT -AAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
* * * * *
8126992 AAAAT AAAGA- AAAGT AAAACA AAAAG AAAAGT AAAAC AAAAGGA AAAAT
1 AAAAT AAA-AT AAAAT AAAA-T AAAAT AAAA-T AAAAT AAAA--T AAAAT
* * *
8127041 AAAAAT AAAGAT AAAAG AATAT TAAAT AAAAT
1 -AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT
8127073 TAATCTAATA
Statistics
Matches: 94, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
4 16 0.17
5 49 0.52
6 21 0.22
7 8 0.09
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:8126980 original size:17 final size:16
Alignment explanation
Indices: 8126958--8127049 Score: 71
Period size: 17 Copynumber: 5.5 Consensus size: 16
8126948 ATAAAATAAA
*
8126958 AAAATAAAATAAAAGT
1 AAAATAAAAGAAAAGT
8126974 GAAAATAAAA-AAAA-T
1 -AAAATAAAAGAAAAGT
*
8126989 AAAAAAATAAAGAAAAGT
1 -AAAATA-AAAGAAAAGT
*
8127007 AAAACAAAAAGAAAAGT
1 AAAA-TAAAAGAAAAGT
* *
8127024 AAAACAAAAGGAAAAAT
1 AAAATAAAA-GAAAAGT
8127041 AAAAATAAA
1 -AAAATAAA
8127050 GATAAAAGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
15 6 0.09
16 11 0.17
17 37 0.58
18 10 0.16
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (16 bp):
AAAATAAAAGAAAAGT
Found at i:8126993 original size:34 final size:32
Alignment explanation
Indices: 8126945--8127016 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 32
8126935 TTGTTTAAAG
* *
8126945 AAAATAAAATAAAAAAATAAAATAAAAGTGAAAAT
1 AAAA-AAAATAAAAAAAT-AAAGAAAAGT-AAAAC
8126980 AAAAAAAATAAAAAAATAAAGAAAAGTAAAAC
1 AAAAAAAATAAAAAAATAAAGAAAAGTAAAAC
8127012 AAAAA
1 AAAAA
8127017 GAAAAGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 9 0.26
33 9 0.26
34 13 0.37
35 4 0.11
ACGTcount: A:0.81, C:0.01, G:0.06, T:0.12
Consensus pattern (32 bp):
AAAAAAAATAAAAAAATAAAGAAAAGTAAAAC
Found at i:8127050 original size:17 final size:17
Alignment explanation
Indices: 8127000--8127044 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
8126990 AAAAAATAAA
*
8127000 GAAAAGTAAAACAAAAA
1 GAAAAGTAAAACAAAAG
8127017 GAAAAGTAAAACAAAAG
1 GAAAAGTAAAACAAAAG
*
8127034 GAAAAATAAAA
1 GAAAAGTAAAA
8127045 ATAAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.07
Consensus pattern (17 bp):
GAAAAGTAAAACAAAAG
Found at i:8127993 original size:22 final size:20
Alignment explanation
Indices: 8127977--8128028 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
8127967 GAAAATAAAT
8127977 CAGATAAATCAAAAAAATTAA
1 CAGATAAATCAAAAAAA-TAA
*
8127998 CAGATAAATTAAAATTAAATAA
1 CAGATAAATCAAAA--AAATAA
8128020 CAGATAAAT
1 CAGATAAAT
8128029 TATAACATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 13 0.46
22 12 0.43
23 3 0.11
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (20 bp):
CAGATAAATCAAAAAAATAA
Found at i:8128008 original size:12 final size:12
Alignment explanation
Indices: 8127991--8128030 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
8127981 TAAATCAAAA
8127991 AAATTAACAGAT
1 AAATTAACAGAT
8128003 AAATTAA-A-ATT
1 AAATTAACAGA-T
8128014 AAA-TAACAGAT
1 AAATTAACAGAT
8128025 AAATTA
1 AAATTA
8128031 TAACATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (12 bp):
AAATTAACAGAT
Found at i:8128029 original size:22 final size:21
Alignment explanation
Indices: 8127968--8128030 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
8127958 AATATTAATG
* *
8127968 AAAATAAATCAGATAAATCAAA
1 AAAATTAA-CAGATAAATTAAA
8127990 AAAATTAACAGATAAATTAAA
1 AAAATTAACAGATAAATTAAA
8128011 ATTAAA-TAACAGATAAATTA
1 A--AAATTAACAGATAAATTA
8128031 TAACATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.35
22 21 0.57
23 3 0.08
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.24
Consensus pattern (21 bp):
AAAATTAACAGATAAATTAAA
Found at i:8128199 original size:17 final size:19
Alignment explanation
Indices: 8128173--8128211 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
8128163 TAAAAACAAT
8128173 AATAATAATAAAAATG-AA
1 AATAATAATAAAAATGTAA
8128191 AATAA-AATAAAAATGTAA
1 AATAATAATAAAAATGTAA
8128209 AAT
1 AAT
8128212 GTAAAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AATAATAATAAAAATGTAA
Found at i:8128203 original size:6 final size:6
Alignment explanation
Indices: 8128141--8128238 Score: 56
Period size: 6 Copynumber: 16.0 Consensus size: 6
8128131 TACATAAGAT
* * * * * * * *
8128141 AAAATT AAAAGA AAAATA TATATA AAAACA ATAATA ATAATA AAAATG
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
8128189 AAAAT- AAAATA AAAATGTA AAATGTA AAATACA AAAATA AAAA-A AAAATA
1 AAAATA AAAATA AAAA--TA AAA-ATA AAA-ATA AAAATA AAAATA AAAATA
8128239 GACTTACCTA
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
5 10 0.14
6 46 0.65
7 10 0.14
8 5 0.07
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:8128229 original size:20 final size:20
Alignment explanation
Indices: 8128193--8128230 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8128183 AAAATGAAAA
*
8128193 TAAAATAAAAATGTAAAATG
1 TAAAATAAAAATATAAAATG
8128213 TAAAATACAAAA-ATAAAA
1 TAAAATA-AAAATATAAAA
8128231 AAAAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
TAAAATAAAAATATAAAATG
Found at i:8128405 original size:22 final size:21
Alignment explanation
Indices: 8128377--8128427 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
8128367 ATTTTATAAC
* *
8128377 AAATCATCAGTAGCTTAGTAGT
1 AAATCATCA-TAACTTAGTAAT
*
8128399 AAATCATTCATAATTTAGTAAT
1 AAATCA-TCATAACTTAGTAAT
8128421 AAATCAT
1 AAATCAT
8128428 TAATAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.84
23 3 0.12
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (21 bp):
AAATCATCATAACTTAGTAAT
Found at i:8128482 original size:22 final size:22
Alignment explanation
Indices: 8128395--8128568 Score: 105
Period size: 22 Copynumber: 7.9 Consensus size: 22
8128385 AGTAGCTTAG
* *
8128395 TAGTAAATCATTCATAATTTAG
1 TAGTAAATCATTGATAATTTAA
* * * *
8128417 TAATAAATCATTAATAAATTAT
1 TAGTAAATCATTGATAATTTAA
* *
8128439 TAGTAAATCAATGCTAATTTAA
1 TAGTAAATCATTGATAATTTAA
8128461 TAGTAAATCATTGATAATTTAA
1 TAGTAAATCATTGATAATTTAA
* * * * * ** *
8128483 AAATATATTATCGATAGCTTAG
1 TAGTAAATCATTGATAATTTAA
* * **
8128505 TAGTAAATCGTTAATAACATAA
1 TAGTAAATCATTGATAATTTAA
* * * *
8128527 TAGTAAATCAATAAAAACTTAA
1 TAGTAAATCATTGATAATTTAA
* * *
8128549 TTGTCAATTATTGATAATTT
1 TAGTAAATCATTGATAATTT
8128569 TTTTTTATAC
Statistics
Matches: 111, Mismatches: 41, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 111 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (22 bp):
TAGTAAATCATTGATAATTTAA
Found at i:8129140 original size:16 final size:17
Alignment explanation
Indices: 8129119--8129152 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8129109 ATTAAATTTT
8129119 ATCAAAAGT-TATTAAA
1 ATCAAAAGTATATTAAA
*
8129135 ATCAAAATTATATTAAA
1 ATCAAAAGTATATTAAA
8129152 A
1 A
8129153 GTTATCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (17 bp):
ATCAAAAGTATATTAAA
Found at i:8129304 original size:2 final size:2
Alignment explanation
Indices: 8129299--8129325 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8129289 AAAAAACTAG
8129299 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8129326 GTTGAACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8131623 original size:2 final size:2
Alignment explanation
Indices: 8131616--8131666 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
8131606 AGATTGGAGG
8131616 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8131658 GA GA GA GA G
1 GA GA GA GA G
8131667 CATGGGTTCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8143152 original size:11 final size:11
Alignment explanation
Indices: 8143136--8143160 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8143126 CGTAGACTTG
8143136 TTGACTTTGTT
1 TTGACTTTGTT
8143147 TTGACTTTGTT
1 TTGACTTTGTT
8143158 TTG
1 TTG
8143161 CCGCTGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (11 bp):
TTGACTTTGTT
Found at i:8144735 original size:3 final size:3
Alignment explanation
Indices: 8144729--8144780 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
8144719 GAGTAAATTG
*
8144729 ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8144777 ATA A
1 ATA A
8144781 GTTAGTTGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8154833 original size:70 final size:70
Alignment explanation
Indices: 8154622--8154825 Score: 363
Period size: 70 Copynumber: 2.9 Consensus size: 70
8154612 ATTAAGAGAA
* *
8154622 AAAAAAATGAGATATCCTATATATACATAAAAAATCAAATAGCTTAAGTTTTTAGACTCAAGTGG
1 AAAAAAATGAGATGTCCTATATATACATAAAAAATCAAATAGCTTAAGTTTTTGGACTCAAGTGG
8154687 TGTCC
66 TGTCC
* *
8154692 AAAAAAATGAGATGTCCTATATATACATAAAAAATCAAATAGCTTAAGTTTTTGGCCTCAAATGG
1 AAAAAAATGAGATGTCCTATATATACATAAAAAATCAAATAGCTTAAGTTTTTGGACTCAAGTGG
8154757 TGTCC
66 TGTCC
*
8154762 AAAAAAATGAGATGTCTTATATATACATAAAAAATCAAATAGCTTAAGTTTTTGGACTCAAGTG
1 AAAAAAATGAGATGTCCTATATATACATAAAAAATCAAATAGCTTAAGTTTTTGGACTCAAGTG
8154826 ATATCCAACA
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 127 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (70 bp):
AAAAAAATGAGATGTCCTATATATACATAAAAAATCAAATAGCTTAAGTTTTTGGACTCAAGTGG
TGTCC
Found at i:8157778 original size:18 final size:18
Alignment explanation
Indices: 8157733--8157798 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
8157723 ATATTTGAAG
8157733 ATGATACATTTGTGGTGA
1 ATGATACATTTGTGGTGA
* * *
8157751 AGGGTGCATTTGTGGT-A
1 ATGATACATTTGTGGTGA
*
8157768 ATTGATACATTTGAGGTGGA
1 A-TGATACATTTGTGGT-GA
*
8157788 A-GATATATTTG
1 ATGATACATTTG
8157799 AGGAGGTGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
17 2 0.05
18 33 0.89
20 2 0.05
ACGTcount: A:0.27, C:0.05, G:0.30, T:0.38
Consensus pattern (18 bp):
ATGATACATTTGTGGTGA
Found at i:8157798 original size:36 final size:34
Alignment explanation
Indices: 8157700--8157799 Score: 96
Period size: 33 Copynumber: 2.9 Consensus size: 34
8157690 ACCTTTGTTC
*
8157700 TTGATACATTTAAGGTGGAAGATATATTTGAAGA
1 TTGATACATTTGAGGTGGAAGATATATTTGAAGA
* * ** **
8157734 -TGATACATTTGTGGT-GAAGGGTGCATTTGTGGTAA
1 TTGATACATTTGAGGTGGAA-GATATATTTGAAG--A
8157769 TTGATACATTTGAGGTGGAAGATATATTTGA
1 TTGATACATTTGAGGTGGAAGATATATTTGA
8157800 GGAGGTGGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
32 3 0.06
33 21 0.43
35 1 0.02
36 21 0.43
37 3 0.06
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.37
Consensus pattern (34 bp):
TTGATACATTTGAGGTGGAAGATATATTTGAAGA
Found at i:8157799 original size:18 final size:18
Alignment explanation
Indices: 8157771--8157826 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
8157761 TGTGGTAATT
8157771 GATACATTTGAGGTGGAA
1 GATACATTTGAGGTGGAA
* *
8157789 GATATATTTGAGGAGGTGGAG
1 GATACATTT---GAGGTGGAA
8157810 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
8157827 TAATAACCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 16 0.50
21 16 0.50
ACGTcount: A:0.30, C:0.04, G:0.38, T:0.29
Consensus pattern (18 bp):
GATACATTTGAGGTGGAA
Found at i:8157804 original size:21 final size:21
Alignment explanation
Indices: 8157780--8157822 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8157770 TGATACATTT
*
8157780 GAGGTGGAAGATATATTTGAG
1 GAGGTGGAAGATACATTTGAG
*
8157801 GAGGTGGAGGATACATTTGAG
1 GAGGTGGAAGATACATTTGAG
8157822 G
1 G
8157823 TGGATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.42, T:0.26
Consensus pattern (21 bp):
GAGGTGGAAGATACATTTGAG
Found at i:8158180 original size:6 final size:6
Alignment explanation
Indices: 8158169--8158229 Score: 95
Period size: 6 Copynumber: 10.2 Consensus size: 6
8158159 CCAAAATTCG
**
8158169 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CTTCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
*
8158217 CACCAT CATCAT C
1 CACCAT CACCAT C
8158230 TAGACTTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (6 bp):
CACCAT
Found at i:8161693 original size:26 final size:26
Alignment explanation
Indices: 8161644--8161692 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
8161634 TTTCAAAAAT
*
8161644 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
8161670 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
8161693 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:8161942 original size:19 final size:20
Alignment explanation
Indices: 8161918--8161955 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8161908 AACAACAAAA
*
8161918 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
8161937 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
8161956 TAATACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:8162276 original size:38 final size:39
Alignment explanation
Indices: 8162190--8162281 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
8162180 CCCACCCCAT
** *
8162190 CAATCCCTTTCCATCTTCCCCCCAACATCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACATCCCACCACACC
8162229 CAATCCCTCCCCACCTTCCCCCCAA-AGTCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACA-TCCCACCACACC
8162268 CAAT-CCTCCCCACC
1 CAATCCCTCCCCACC
8162282 CCATCCAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
38 11 0.22
39 38 0.78
ACGTcount: A:0.23, C:0.60, G:0.01, T:0.16
Consensus pattern (39 bp):
CAATCCCTCCCCACCTTCCCCCCAACATCCCACCACACC
Found at i:8162279 original size:19 final size:19
Alignment explanation
Indices: 8162218--8162291 Score: 53
Period size: 19 Copynumber: 3.8 Consensus size: 19
8162208 CCCCCAACAT
8162218 CCCACCACACCCAATCCCTC
1 CCCACCACACCCAAT-CCTC
* * **
8162238 CCCACCTTCCCCCCAA-AGT-
1 CCCACC--ACACCCAATCCTC
8162257 CCCACCACACCCAATCCTC
1 CCCACCACACCCAATCCTC
* *
8162276 CCCACCCCATCCAATC
1 CCCACCACACCCAATC
8162292 TTTCCACGTG
Statistics
Matches: 40, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
17 6 0.15
18 1 0.03
19 20 0.50
20 7 0.17
22 6 0.15
ACGTcount: A:0.24, C:0.62, G:0.01, T:0.12
Consensus pattern (19 bp):
CCCACCACACCCAATCCTC
Found at i:8164276 original size:22 final size:23
Alignment explanation
Indices: 8164224--8164277 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
8164214 TATTTGATAA
8164224 AAAATTAGTTAATCAATGAAAAAT
1 AAAATTA-TTAATCAATGAAAAAT
* *
8164248 -AATTTATTGATCAAT-AAAAAT
1 AAAATTATTAATCAATGAAAAAT
8164269 AAAATTATT
1 AAAATTATT
8164278 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 6 0.23
22 15 0.58
23 5 0.19
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (23 bp):
AAAATTATTAATCAATGAAAAAT
Found at i:8164414 original size:15 final size:15
Alignment explanation
Indices: 8164394--8164443 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
8164384 TAAATAATGT
*
8164394 TATATTAATAAACAA
1 TATATTAATAAATAA
*
8164409 TATATTATTAATATAA
1 TATATTAATAA-ATAA
8164425 TATATTAATAAATAA
1 TATATTAATAAATAA
8164440 TATA
1 TATA
8164444 AAAATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
TATATTAATAAATAA
Found at i:8164452 original size:31 final size:30
Alignment explanation
Indices: 8164394--8164456 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
8164384 TAAATAATGT
** *
8164394 TATATTAATAAACAATATATTATTAATATAA
1 TATATTAATAAACAATATAAAAATAATA-AA
*
8164425 TATATTAATAAATAATATAAAAATAATAAA
1 TATATTAATAAACAATATAAAAATAATAAA
8164455 TA
1 TA
8164457 GTTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
TATATTAATAAACAATATAAAAATAATAAA
Found at i:8164556 original size:16 final size:16
Alignment explanation
Indices: 8164537--8164591 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
8164527 TTTTAACATT
8164537 AATAATTTTAATAATA
1 AATAATTTTAATAATA
8164553 AATAA-TTT--TAAT-
1 AATAATTTTAATAATA
*
8164565 -AT-AGTTTAATAATA
1 AATAATTTTAATAATA
8164579 AATAATTTTAATA
1 AATAATTTTAATA
8164592 TTTTAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
10 1 0.03
11 5 0.16
13 8 0.25
15 5 0.16
16 13 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
AATAATTTTAATAATA
Found at i:8164610 original size:26 final size:24
Alignment explanation
Indices: 8164535--8164601 Score: 107
Period size: 26 Copynumber: 2.7 Consensus size: 24
8164525 TTTTTTAACA
8164535 TTAATAATTTTAATAATAAATAATT
1 TTAAT-ATTTTAATAATAAATAATT
8164560 TTAATATAGTTTAATAATAAATAATT
1 TTAATAT--TTTAATAATAAATAATT
8164586 TTAATATTTTAATAAT
1 TTAATATTTTAATAAT
8164602 TATATTAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
24 11 0.28
25 5 0.12
26 24 0.60
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TTAATATTTTAATAATAAATAATT
Found at i:8176663 original size:50 final size:50
Alignment explanation
Indices: 8176594--8176689 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
8176584 TATTAGATCG
* *
8176594 AAACAAATTGAAATCTATTGAATACATGTTATTTTGTTATTTTTATTATA
1 AAACAAATTGAAATATATTGAATACAGGTTATTTTGTTATTTTTATTATA
**
8176644 AAACAAATTGAAATATATTGAATATGGGTTATTTTGTTATTTTTAT
1 AAACAAATTGAAATATATTGAATACAGGTTATTTTGTTATTTTTAT
8176690 CTTAATTGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (50 bp):
AAACAAATTGAAATATATTGAATACAGGTTATTTTGTTATTTTTATTATA
Found at i:8176996 original size:128 final size:126
Alignment explanation
Indices: 8176747--8176978 Score: 349
Period size: 128 Copynumber: 1.8 Consensus size: 126
8176737 TAAAAATTTT
*
8176747 AAAAAAAATCTAAAATACCAAAAACTTGAACAAAAAAAAGAAAACAAAAAAAGAGACATATTATA
1 AAAAAAAATCTAAAAAACCAAAAACTTGAACAAAAAAAAGAAAACAAAAAAAGAGACATATTATA
* * * *
8176812 TGAATACTTGAGATGAAATGAAATATCTTAAATCTGTCTCTAACTAGATCCTAATTTAAAA
66 TGAATACTCGAGATGAAATGAAACACCTTAAATCTATCTCTAACTAGATCCTAATTTAAAA
* * *
8176873 AAAAAAAATCTAAAAAATCCAAAAACTTTAACAAAAAAAATGAAAACAAAAGAAGAGACATGTTA
1 AAAAAAAATCTAAAAAA-CCAAAAACTTGAACAAAAAAAA-GAAAACAAAAAAAGAGACATATTA
*
8176938 TATGAATACTCGAGATGTAAT-AGAACACCTTAAATCTATCT
64 TATGAATACTCGAGATGAAATGA-AACACCTTAAATCTATCT
8176979 TTAATTGGAT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
126 16 0.17
127 22 0.23
128 56 0.60
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.23
Consensus pattern (126 bp):
AAAAAAAATCTAAAAAACCAAAAACTTGAACAAAAAAAAGAAAACAAAAAAAGAGACATATTATA
TGAATACTCGAGATGAAATGAAACACCTTAAATCTATCTCTAACTAGATCCTAATTTAAAA
Found at i:8177005 original size:128 final size:126
Alignment explanation
Indices: 8176743--8177006 Score: 334
Period size: 128 Copynumber: 2.1 Consensus size: 126
8176733 AATTTAAAAA
*
8176743 TTTTAAAAAAAATCTAAAATACCAAAAACTTGAACAAAAAAAAGAAAACAAAAAAAGAGACATAT
1 TTTTAAAAAAAATCTAAAAAACCAAAAACTTGAACAAAAAAAAGAAAACAAAAAAAGAGACATAT
* * * *
8176808 TATATGAATACTTGAGATGAAATGAAATATCTTAAATCTGTCTCTAACTAGATCCTAATTT
66 TATATGAATACTCGAGATGAAATGAAACACCTTAAATCTATCTCTAACTAGATCCTAATTT
**** * *
8176869 AAAAAAAAAAAATCTAAAAAATCCAAAAACTTTAACAAAAAAAATGAAAACAAAAGAAGAGACAT
1 TTTTAAAAAAAATCTAAAAAA-CCAAAAACTTGAACAAAAAAAA-GAAAACAAAAAAAGAGACAT
* * * * *
8176934 GTTATATGAATACTCGAGATGTAAT-AGAACACCTTAAATCTATCTTTAATTGGAT-CTCAATTT
64 ATTATATGAATACTCGAGATGAAATGA-AACACCTTAAATCTATCTCTAACTAGATCCT-AATTT
8176997 TTTTAAAAAA
1 TTTTAAAAAA
8177007 TTGATTCAAT
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
126 16 0.14
127 24 0.21
128 74 0.65
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.27
Consensus pattern (126 bp):
TTTTAAAAAAAATCTAAAAAACCAAAAACTTGAACAAAAAAAAGAAAACAAAAAAAGAGACATAT
TATATGAATACTCGAGATGAAATGAAACACCTTAAATCTATCTCTAACTAGATCCTAATTT
Found at i:8183949 original size:21 final size:21
Alignment explanation
Indices: 8183902--8183949 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
8183892 AGGTTTTCCC
**
8183902 TTGATGCAGGGAGGATGTCAT
1 TTGATGCAGCAAGGATGTCAT
* *
8183923 TGGATGCAGCAAGGATGTCTT
1 TTGATGCAGCAAGGATGTCAT
8183944 TTGATG
1 TTGATG
8183950 ATCCAAGATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.35, T:0.31
Consensus pattern (21 bp):
TTGATGCAGCAAGGATGTCAT
Found at i:8183956 original size:21 final size:22
Alignment explanation
Indices: 8183932--8183977 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
8183922 TTGGATGCAG
*
8183932 CAAGGAT-GTCTTTTGATGATC
1 CAAGGATAGTCTTTTGATGAAC
*
8183953 CAA-GATATTCTTTTGATGAAC
1 CAAGGATAGTCTTTTGATGAAC
8183974 CAAG
1 CAAG
8183978 AGCTTCCTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (22 bp):
CAAGGATAGTCTTTTGATGAAC
Found at i:8190281 original size:38 final size:38
Alignment explanation
Indices: 8190239--8190312 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 38
8190229 TGAATTTTCT
* *
8190239 TTTATTTGTATATGTGTA-TATATATT-TTATTTATCTTG
1 TTTATTAGTATAT-TATATTAT-TATTGTTATTTATCTTG
*
8190277 TTTATTAGTTTATTATATTATTATTGTTATTTATCT
1 TTTATTAGTATATTATATTATTATTGTTATTTATCT
8190313 ATTTATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 7 0.23
38 24 0.77
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (38 bp):
TTTATTAGTATATTATATTATTATTGTTATTTATCTTG
Found at i:8191827 original size:125 final size:125
Alignment explanation
Indices: 8191581--8191828 Score: 283
Period size: 125 Copynumber: 2.0 Consensus size: 125
8191571 TAGAAGGTTC
* * * *
8191581 AAAAAAATAATTTTCAATAAAGCCTTACCAACATATTAGAAGATAATTTTATTTTCAAAATAAGG
1 AAAAAAATAATTTTCAATAAAGCCTTACCAACATATTAAAAGACAACTTTATTTTCAAAATAAGA
* *
8191646 TTTTACTAACATATTAGAGAACCTTAAGAATTTTTCATAAAAAATAAATTTGAAAAAAAAT
66 TTTTACTAACATATTAGAGAA-CTTAAGAATTTTTAATAAAAAATAAATTTAAAAAAAAAT
* * * *
8191707 AAAAAAA-AGTTTTTAATAAAGCCTTACC-ACTATATTAAAAGGCAACTTTATTTTTAAAATAAG
1 AAAAAAATAATTTTCAATAAAGCCTTACCAAC-ATATTAAAAGACAACTTTATTTTCAAAATAAG
* * *
8191770 ATTTTA-TCAATATATTGGAGAA-TATATG-ATTTTTAA-ATAAAAATATAATTTAAAAAAAA
65 ATTTTACT-AACATATTAGAGAACT-TAAGAATTTTTAATA-AAAAATA-AATTTAAAAAAAA
8191829 TAGTTTCCTA
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
122 1 0.01
123 15 0.14
124 18 0.17
125 63 0.61
126 7 0.07
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (125 bp):
AAAAAAATAATTTTCAATAAAGCCTTACCAACATATTAAAAGACAACTTTATTTTCAAAATAAGA
TTTTACTAACATATTAGAGAACTTAAGAATTTTTAATAAAAAATAAATTTAAAAAAAAAT
Found at i:8196613 original size:12 final size:12
Alignment explanation
Indices: 8196587--8196625 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
8196577 TTACTGGGGC
*
8196587 AAAAAATAAATGA
1 AAAAAAGAAA-GA
8196600 AAAAAAGAAAGA
1 AAAAAAGAAAGA
8196612 AAAAAAGAAA-A
1 AAAAAAGAAAGA
8196623 AAA
1 AAA
8196626 TATCTTGTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 4 0.16
12 12 0.48
13 9 0.36
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:8198307 original size:63 final size:63
Alignment explanation
Indices: 8198223--8198351 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 63
8198213 TTACTTTAAC
* ** * *
8198223 TCAGTTTGGTCACATTCATTTTCAACTTTGGCTAAGTTCGATCAC-TTTATCTTTGACCTTGGT
1 TCAGTCTGGTCACATTCATTTTCAACTTTAACTAAGTT-GATCACTTTTATCCTTGACCTTAGT
* * *
8198286 TCAGTCTGGTTACTTTCATTTTCAACTTTAACTTAGTTGATCACTTTTATCCTTGACCTTAGT
1 TCAGTCTGGTCACATTCATTTTCAACTTTAACTAAGTTGATCACTTTTATCCTTGACCTTAGT
8198349 TCA
1 TCA
8198352 ATCCGATTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 6 0.11
63 51 0.89
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (63 bp):
TCAGTCTGGTCACATTCATTTTCAACTTTAACTAAGTTGATCACTTTTATCCTTGACCTTAGT
Found at i:8198367 original size:63 final size:63
Alignment explanation
Indices: 8198237--8198367 Score: 165
Period size: 63 Copynumber: 2.1 Consensus size: 63
8198227 TTTGGTCACA
** * * * * * *
8198237 TTCATTTTCAACTTTGGCTAAGTTCGATCACTTTATCTTTGACCTTGGTTCAGTCTGGTTACT
1 TTCATTTTCAACTTTAACTAAGTTCGATCACTTTATCCTTGACCTTAGTTCAATCCGATTACC
*
8198300 TTCATTTTCAACTTTAACTTAGTT-GATCACTTTTATCCTTGACCTTAGTTCAATCCGATTACC
1 TTCATTTTCAACTTTAACTAAGTTCGATCAC-TTTATCCTTGACCTTAGTTCAATCCGATTACC
8198363 TTCAT
1 TTCAT
8198368 CATTTAACTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 6 0.10
63 52 0.90
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (63 bp):
TTCATTTTCAACTTTAACTAAGTTCGATCACTTTATCCTTGACCTTAGTTCAATCCGATTACC
Found at i:8199866 original size:24 final size:23
Alignment explanation
Indices: 8199825--8199879 Score: 92
Period size: 25 Copynumber: 2.3 Consensus size: 23
8199815 AGTCGAGCCA
8199825 ATTTTTTGGTATATTTTTATTTT
1 ATTTTTTGGTATATTTTTATTTT
8199848 CATTTTTCTGGTATATTTTTATTTT
1 -ATTTTT-TGGTATATTTTTATTTT
8199873 ATTTTTT
1 ATTTTTT
8199880 TTCATTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 1 0.03
24 12 0.40
25 17 0.57
ACGTcount: A:0.16, C:0.04, G:0.07, T:0.73
Consensus pattern (23 bp):
ATTTTTTGGTATATTTTTATTTT
Found at i:8199874 original size:5 final size:5
Alignment explanation
Indices: 8199864--8199953 Score: 64
Period size: 5 Copynumber: 17.6 Consensus size: 5
8199854 TCTGGTATAT
*
8199864 TTTTA TTTTA TTTT- TTTTCA -TTTA TTATTA TTAT- TTTTA TTTTA TTAATCTA
1 TTTTA TTTTA TTTTA TTTT-A TTTTA TT-TTA TTTTA TTTTA TTTTA TT--T-TA
*
8199916 -TTTA TTTGTT TCTTTA TTTTA TTTTA TTTTA -TTTA TTT
1 TTTTA TTT-TA T-TTTA TTTTA TTTTA TTTTA TTTTA TTT
8199954 GTTGACTTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
4 14 0.20
5 40 0.58
6 9 0.13
7 4 0.06
8 2 0.03
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:8199920 original size:23 final size:21
Alignment explanation
Indices: 8199865--8199952 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 21
8199855 CTGGTATATT
8199865 TTTATT-TTATTT-TTTTTCA
1 TTTATTATTATTTATTTTTCA
8199884 TTTATTATTA-TTATTTTT-A
1 TTTATTATTATTTATTTTTCA
8199903 TTTTATTAATCTATTTATTTGTTTC-
1 -TTTATT-AT-TATTTA-TT-TTTCA
8199928 TTTATT-TTATTT-TATTTT-A
1 TTTATTATTATTTAT-TTTTCA
8199947 TTTATT
1 TTTATT
8199953 TGTTGACTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 22
0.73 0.00 0.28
Matches are distributed among these distances:
19 19 0.33
20 15 0.26
21 7 0.12
22 3 0.05
23 3 0.05
24 8 0.14
25 3 0.05
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.75
Consensus pattern (21 bp):
TTTATTATTATTTATTTTTCA
Found at i:8199952 original size:4 final size:4
Alignment explanation
Indices: 8199865--8200025 Score: 50
Period size: 4 Copynumber: 39.8 Consensus size: 4
8199855 CTGGTATATT
* * *
8199865 TTTA TTTTA TTT- TTT- TTCA TTTA -TTA -TTA TTATT TTTA TTTTA TTAA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA -TTTA TTTA
* * * * * *
8199912 TCTA TTTA TTTG TTTC TTTA TTTTA TTTTA TTTTA TTTA TTTG TTGA CTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA
* * * *
8199963 TTTG TTTG TTT- TTT- CTTA GTTA TTTTA TTT- TCTTGA TTTGA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA T-TT-A TTT-A TTTA
*
8200007 TTTA TGTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
8200026 GTAAAGATTT
Statistics
Matches: 122, Mismatches: 23, Indels: 23
0.73 0.14 0.14
Matches are distributed among these distances:
3 18 0.15
4 71 0.58
5 32 0.26
6 1 0.01
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:8200438 original size:13 final size:13
Alignment explanation
Indices: 8200419--8200469 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
8200409 ATCTACTTAA
8200419 ATATATTAAAATT
1 ATATATTAAAATT
* *
8200432 TTATATTAAAATA
1 ATATATTAAAATT
*
8200445 ATATATAAAAATT
1 ATATATTAAAATT
* *
8200458 AAAAATTAAAAT
1 ATATATTAAAAT
8200470 CGAGAACCGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:8200463 original size:33 final size:33
Alignment explanation
Indices: 8200384--8200464 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 33
8200374 TTTTTATAAA
* *
8200384 ATAAAAA-TAATAATTTTATATCAAAATCTACT
1 ATAAAAATTAAAAATTTTATATCAAAATATACT
*
8200416 -TAAATATATT-AAAATTTTATATTAAAATAATA-T
1 ATAAA-A-ATTAAAAATTTTATATCAAAAT-ATACT
8200449 ATAAAAATTAAAAATT
1 ATAAAAATTAAAAATT
8200465 AAAATCGAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
31 4 0.10
32 4 0.10
33 25 0.62
34 7 0.17
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (33 bp):
ATAAAAATTAAAAATTTTATATCAAAATATACT
Found at i:8200465 original size:26 final size:26
Alignment explanation
Indices: 8200418--8200469 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
8200408 AATCTACTTA
* ** *
8200418 AATATATTAAAATTTTATATTAAAAT
1 AATATATAAAAATTAAAAATTAAAAT
8200444 AATATATAAAAATTAAAAATTAAAAT
1 AATATATAAAAATTAAAAATTAAAAT
8200470 CGAGAACCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AATATATAAAAATTAAAAATTAAAAT
Found at i:8200791 original size:127 final size:123
Alignment explanation
Indices: 8200644--8200904 Score: 319
Period size: 127 Copynumber: 2.1 Consensus size: 123
8200634 AAAAAAGAAA
* *
8200644 TTTCAATAAAACCTTTCCAACATATTAAAAAGCAATTTTATTTTTAAAATAAAGTTTTACCAATA
1 TTTCAATAAAACCTTACCAACATATTAAAAAGCAATTTTATTTTTAAAATAAAGTTTTACCAACA
* *
8200709 TA-TCGAAAAACCTTATAAATTTTTTATAA-AAAATAGATTTTAAGAAAAAGAAAAAGAATAGT
66 TATTCGAAAAA-CTTAT-AA-TTTTTA-AATAAAATAGAATTTAAAAAAAAG-AAAA-AATAGT
* ** * * *
8200771 TTTCAATAAAGCCTTACCAACATATTGGAAGGTAATTTTATTTTTAAAATAAAGTTTTACTAACA
1 TTTCAATAAAACCTTACCAACATATTAAAAAGCAATTTTATTTTTAAAATAAAGTTTTACCAACA
* * * *
8200836 TATTGGAGAAACTTATGATTTTTAAATAAAATATAATTTAAAAAAAAGAAAAAATAGT
66 TATTCGAAAAACTTATAATTTTTAAATAAAATAGAATTTAAAAAAAAGAAAAAATAGT
*
8200894 TTTCCATAAAA
1 TTTCAATAAAA
8200905 TCCTACAAAT
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
123 15 0.13
124 6 0.05
125 24 0.21
126 1 0.01
127 64 0.55
128 6 0.05
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (123 bp):
TTTCAATAAAACCTTACCAACATATTAAAAAGCAATTTTATTTTTAAAATAAAGTTTTACCAACA
TATTCGAAAAACTTATAATTTTTAAATAAAATAGAATTTAAAAAAAAGAAAAAATAGT
Found at i:8200957 original size:38 final size:38
Alignment explanation
Indices: 8200901--8201007 Score: 151
Period size: 38 Copynumber: 2.8 Consensus size: 38
8200891 AGTTTTCCAT
* * * *
8200901 AAAATCCTACAAATATATTGGGGGATAATTTCAAGTAG
1 AAAATCTTACCAACATATTGGGAGATAATTTCAAGTAG
* *
8200939 AAAATCTTACCAACATATTGGGTGATGATTTCAAGTAG
1 AAAATCTTACCAACATATTGGGAGATAATTTCAAGTAG
*
8200977 AAAATCTTACCAACATATTGGAAGATAATTT
1 AAAATCTTACCAACATATTGGGAGATAATTT
8201008 TGAAAATAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (38 bp):
AAAATCTTACCAACATATTGGGAGATAATTTCAAGTAG
Found at i:8201662 original size:358 final size:358
Alignment explanation
Indices: 8201005--8201724 Score: 1311
Period size: 358 Copynumber: 2.0 Consensus size: 358
8200995 TGGAAGATAA
* *
8201005 TTTTGAAAATAAAGTGTTTTTATAAAATTAGATTTTGAATTTTTAATGATGGAATTACTACGAGC
1 TTTTGAAAATAAAGTGTTTTTATAAAATTAGATTTTGAATTTTCAATGATGGAATTACTAAGAGC
*
8201070 ATTACAAATAACAATCGCTATGTAAATTCTAGGTGAGAAATCTCTTCTAAATTTTATCAATATAT
66 ATTACAAATAACAATCGCTATGTAAAATCTAGGTGAGAAATCTCTTCTAAATTTTATCAATATAT
8201135 TGGAGAATTTAGATATAAAATTTTGATACCAAGGTTTTGAATCTCATTTGATTATCACAAACTAA
131 TGGAGAATTTAGATATAAAATTTTGATACCAAGGTTTTGAATCTCATTTGATTATCACAAACTAA
*
8201200 AGTTTTTTTTTTAAAATATTAATGAATCCAATGATGGAGCATTATCAAAACATGGCAAATAGTTT
196 AGTTTTTTTTTTAAAATATTAATGAATCCAATGACGGAGCATTATCAAAACATGGCAAATAGTTT
8201265 CCTTGAATACTCTTGAGGGAAGGAAATGTTCTTGAATTATTACCAACATATTGGAGTAATTTAAG
261 CCTTGAATACTCTTGAGGGAAGGAAATGTTCTTGAATTATTACCAACATATTGGAGTAATTTAAG
8201330 GATAGTTTCCAATATTAAATTATTTGGTAAGGT
326 GATAGTTTCCAATATTAAATTATTTGGTAAGGT
8201363 TTTTGAAAATAAAGTGTTTTTATAAAATTAGATTTTGAATTTTCAATGATGGAATTACTAAGAGC
1 TTTTGAAAATAAAGTGTTTTTATAAAATTAGATTTTGAATTTTCAATGATGGAATTACTAAGAGC
*
8201428 ATTACAAATAACAATCGCTATGTAAAATCTAGGTGAGAAATC-CTTTTTAAATTTTATCAATATA
66 ATTACAAATAACAATCGCTATGTAAAATCTAGGTGAGAAATCTC-TTCTAAATTTTATCAATATA
*
8201492 TTGGAGAATTTAGATAT-AAATTTTCGATATCAAGGTTTTGAATCTCATTTGATTATCACAAACT
130 TTGGAGAATTTAGATATAAAATTTT-GATACCAAGGTTTTGAATCTCATTTGATTATCACAAACT
* *
8201556 AAAGTTTTTTTCTTT-AAATATTAATGATTCCAATGACGGAGCATTATCAAAGCATGGCAAATAG
194 AAAGTTTTTTT-TTTAAAATATTAATGAATCCAATGACGGAGCATTATCAAAACATGGCAAATAG
8201620 TTTCCTTGAATACTCTTGAGGGAAGGAAATGTTCTTGAATTATTACCAACATATTGGAGTAATTT
258 TTTCCTTGAATACTCTTGAGGGAAGGAAATGTTCTTGAATTATTACCAACATATTGGAGTAATTT
*
8201685 AAGGATAGTTTCTAATATTAAATTATTTGGTAAGGT
323 AAGGATAGTTTCCAATATTAAATTATTTGGTAAGGT
8201721 TTTT
1 TTTT
8201725 AAGGCTTTTG
Statistics
Matches: 350, Mismatches: 9, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
357 8 0.02
358 339 0.97
359 3 0.01
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (358 bp):
TTTTGAAAATAAAGTGTTTTTATAAAATTAGATTTTGAATTTTCAATGATGGAATTACTAAGAGC
ATTACAAATAACAATCGCTATGTAAAATCTAGGTGAGAAATCTCTTCTAAATTTTATCAATATAT
TGGAGAATTTAGATATAAAATTTTGATACCAAGGTTTTGAATCTCATTTGATTATCACAAACTAA
AGTTTTTTTTTTAAAATATTAATGAATCCAATGACGGAGCATTATCAAAACATGGCAAATAGTTT
CCTTGAATACTCTTGAGGGAAGGAAATGTTCTTGAATTATTACCAACATATTGGAGTAATTTAAG
GATAGTTTCCAATATTAAATTATTTGGTAAGGT
Found at i:8204576 original size:23 final size:22
Alignment explanation
Indices: 8204546--8204609 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
8204536 ACAAAACCTA
8204546 TAATTTTAATTTTAA-TGTGATGT
1 TAATTTTAATTTTAATTG-GAT-T
*
8204569 TAATTTTAATTTGAACTTGGATT
1 TAATTTTAATTTTAA-TTGGATT
8204592 TAACTTTTAATTTTAATT
1 TAA-TTTTAATTTTAATT
8204610 ATGGACTCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
23 20 0.56
24 14 0.39
25 2 0.06
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (22 bp):
TAATTTTAATTTTAATTGGATT
Found at i:8205603 original size:16 final size:17
Alignment explanation
Indices: 8205575--8205608 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8205565 CTTTATGAGT
*
8205575 TTTTAATAAAAATTAAA
1 TTTTAATAAAAATAAAA
8205592 TTTTAA-AAAAATAAAA
1 TTTTAATAAAAATAAAA
8205608 T
1 T
8205609 AATAATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTTAATAAAAATAAAA
Found at i:8205722 original size:3 final size:3
Alignment explanation
Indices: 8205714--8205770 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
8205704 AAAATTTTTA
8205714 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8205762 AAT AAT AAT
1 AAT AAT AAT
8205771 TTTGTGAGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8207407 original size:3 final size:3
Alignment explanation
Indices: 8207399--8207463 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
8207389 TATATTTTGC
8207399 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8207447 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
8207464 TCTTTTTTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8207683 original size:22 final size:22
Alignment explanation
Indices: 8207658--8207700 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8207648 TTGTCTGTTC
**
8207658 CCTAAAAATTGCCCTAAGGATG
1 CCTAAAAATTGAACTAAGGATG
*
8207680 CCTATAAATTGAACTAAGGAT
1 CCTAAAAATTGAACTAAGGAT
8207701 CGAAGGAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (22 bp):
CCTAAAAATTGAACTAAGGATG
Found at i:8212832 original size:14 final size:14
Alignment explanation
Indices: 8212821--8212854 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
8212811 AAAAAAAAGT
8212821 AAAAAA-GCAAAAA
1 AAAAAAGGCAAAAA
8212834 AAAAAAGGCAAAAA
1 AAAAAAGGCAAAAA
8212848 AGAAAAA
1 A-AAAAA
8212855 AATAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 8 0.42
15 5 0.26
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAGGCAAAAA
Found at i:8212834 original size:21 final size:21
Alignment explanation
Indices: 8212810--8212856 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
8212800 AAAGGTATGC
*
8212810 AAAAAAAAA-GTAAAAAAGCAA
1 AAAAAAAAAGGCAAAAAAG-AA
8212831 AAAAAAAAAGGCAAAAAAGAA
1 AAAAAAAAAGGCAAAAAAGAA
8212852 AAAAA
1 AAAAA
8212857 TAATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGGCAAAAAAGAA
Found at i:8212835 original size:22 final size:21
Alignment explanation
Indices: 8212810--8212856 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
8212800 AAAGGTATGC
*
8212810 AAAAAAAAAGTAAAAAAGCAAA
1 AAAAAAAAAGCAAAAAAG-AAA
*
8212832 AAAAAAAAGGCAAAAAAGAAA
1 AAAAAAAAAGCAAAAAAGAAA
8212853 AAAA
1 AAAA
8212857 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGCAAAAAAGAAA
Found at i:8213717 original size:65 final size:65
Alignment explanation
Indices: 8213595--8213813 Score: 221
Period size: 64 Copynumber: 3.4 Consensus size: 65
8213585 ACAGTCCAGA
* * * *
8213595 TCATTTTTTGACTCATGGTTTCATCCTAATCATTTATTTTT-GACATCGCCTCAATCCTAGTCAC
1 TCATTTTTTGACTCATGGTTTCATCCCAATCATTTATTTTTAG-CCTCGACTCGATCCTAGTCAC
8213659 T
65 T
* * * * * **
8213660 TCATTTTTTAACTTATGATTTTATCCCAGTCATTTATTTTTAGCCTCGACTCGATCCTAGTCTTT
1 TCATTTTTTGACTCATGGTTTCATCCCAATCATTTATTTTTAGCCTCGACTCGATCCTAGTCACT
* * * * * * *
8213725 TTA-TTTTTGACTCGTGGTTTCGTCTCAATTATTTATTTTCTA-CCTTGACTCGATCCTAGTCGC
1 TCATTTTTTGACTCATGGTTTCATCCCAATCATTTATTTT-TAGCCTCGACTCGATCCTAGTCAC
8213788 T
65 T
*
8213789 TCA-TTTTTGACTCTTGGTTTCATCC
1 TCATTTTTTGACTCATGGTTTCATCC
8213814 TGGTCATCTG
Statistics
Matches: 124, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
64 67 0.54
65 56 0.45
66 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (65 bp):
TCATTTTTTGACTCATGGTTTCATCCCAATCATTTATTTTTAGCCTCGACTCGATCCTAGTCACT
Found at i:8213948 original size:120 final size:121
Alignment explanation
Indices: 8213732--8214171 Score: 408
Period size: 120 Copynumber: 3.7 Consensus size: 121
8213722 TTTTTATTTT
* * ** * * * *
8213732 TGACTCGTGGTTTCGTCTCAATTATTTATTTTCTACCTTGACTCGATCCTAGTCGCTTCAT-TTT
1 TGACTCATGGTTTCATCTTGATCATTTATTTTCTACCTCGACTTGATCCTAGTCACTTCATATTT
* ** * * * *
8213796 TGACTCTTGG-TTTCATCCTGGTCATCTGATCTTGGCTTAGTCTAGATAATTTGTTA
66 TGACTCATGGTTTTGTTTC-GGTCACCTGATCTTGGCTTAGTCTAGATCATTTCTTA
* * * *
8213852 TGACTCATGGTTTCATCATGATCATTCATGTTCTACCTCGACTTGATCCTAGTTACTTCAT-TTT
1 TGACTCATGGTTTCATCTTGATCATTTATTTTCTACCTCGACTTGATCCTAGTCACTTCATATTT
* * * * * *
8213916 TGACTTATGGTTTTGTTTCGATCACCTAATCTTAGCTCAGTCCAGATCATTTCTTA
66 TGACTCATGGTTTTGTTTCGGTCACCTGATCTTGGCTTAGTCTAGATCATTTCTTA
* * * * * * * *
8213972 TGACTCATGGTTTTATTTTTAGTCATTTTTTTTCGACCTTGACTTGGTCCTGGTCGA-TTCATAT
1 TGACTCATGGTTTCATCTTGA-TCATTTATTTTCTACCTCGACTTGATCCTAGTC-ACTTCATAT
* * * *
8214036 TTTAACTCATGATTTTGTCTCGGTCACCTGATCTTGACTTAGT-TCAGATCATTTCTTA
64 TTTGACTCATGGTTTTGTTTCGGTCACCTGATCTTGGCTTAGTCT-AGATCATTTCTTA
** * * *
8214094 TGACTTGTGGTTTCATCTTGATCATTTATTTTC-AACTCGACTT-AGTCCTGGTCATTTCATATT
1 TGACTCATGGTTTCATCTTGATCATTTATTTTCTACCTCGACTTGA-TCCTAGTCACTTCATATT
8214157 TTGACTCATGGTTTT
65 TTGACTCATGGTTTT
8214172 CCCGATCATT
Statistics
Matches: 255, Mismatches: 58, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
119 1 0.00
120 143 0.56
121 46 0.18
122 65 0.25
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (121 bp):
TGACTCATGGTTTCATCTTGATCATTTATTTTCTACCTCGACTTGATCCTAGTCACTTCATATTT
TGACTCATGGTTTTGTTTCGGTCACCTGATCTTGGCTTAGTCTAGATCATTTCTTA
Found at i:8214436 original size:3 final size:3
Alignment explanation
Indices: 8214428--8214535 Score: 103
Period size: 3 Copynumber: 35.0 Consensus size: 3
8214418 TATATTGTAC
* *
8214428 ATT ATT ATT ATT ATT A-T ACTGT ACAT AGTT TATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-T-T A-TT A-TT -ATT ATT ATT ATT ATT
* ** *
8214474 ATT ATT ATT ATT ATT ATT ATT ATT ATC AAA ATT ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8214522 ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT
8214536 TTTCTTTCTT
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
2 4 0.05
3 75 0.85
4 5 0.06
5 4 0.05
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:8214869 original size:15 final size:15
Alignment explanation
Indices: 8214849--8214878 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8214839 ACAGTAAGGG
8214849 TTTTTGGAACTTTGA
1 TTTTTGGAACTTTGA
*
8214864 TTTTTGGAATTTTGA
1 TTTTTGGAACTTTGA
8214879 ATTCGTTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (15 bp):
TTTTTGGAACTTTGA
Found at i:8215418 original size:13 final size:13
Alignment explanation
Indices: 8215402--8215426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8215392 TTTCTAATTT
8215402 ATTTTATTTTTTG
1 ATTTTATTTTTTG
8215415 ATTTTATTTTTT
1 ATTTTATTTTTT
8215427 AGATCATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
ATTTTATTTTTTG
Found at i:8216666 original size:132 final size:130
Alignment explanation
Indices: 8216498--8216747 Score: 342
Period size: 131 Copynumber: 1.9 Consensus size: 130
8216488 ACATCTATGA
**
8216498 AAACATCTTTATATGTACATTATTTCATTTGTTTGGAAAAATATTTGCC-TGTTCAATTTTGTAC
1 AAACATCTTTATATGTACATTATTTCATTTCCTTGGAAAAAT-TTTGCCAT-TTCAATTTTGTAC
* * * * *
8216562 ATAGTTTTGGATATGAATTTTTGTT-TTCATTTATGTATTGTATACAAGTATTTGCAATAGATCC
64 ATAGTTTTGAATAAGAATTCTTGTTGTT-A-CTATGTATTGCATACAAGTATTTGCAATAGATCC
8216626 ATGT
127 ATGT
* * *
8216630 AAACATCTTTGTATGTACGTTATTTCATTTCCTTGGAAAAATTTTGCCATTTCAATTTTGTATAT
1 AAACATCTTTATATGTACATTATTTCATTTCCTTGGAAAAATTTTGCCATTTCAATTTTGTACAT
* *
8216695 AGTTTTGAATAAGAATTCTTGTTGTTACTATGTATTGCATATATGTATTTGCA
66 AGTTTTGAATAAGAATTCTTGTTGTTACTATGTATTGCATACAAGTATTTGCA
8216748 TATACAATTT
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
130 22 0.21
131 41 0.39
132 41 0.39
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (130 bp):
AAACATCTTTATATGTACATTATTTCATTTCCTTGGAAAAATTTTGCCATTTCAATTTTGTACAT
AGTTTTGAATAAGAATTCTTGTTGTTACTATGTATTGCATACAAGTATTTGCAATAGATCCATGT
Found at i:8216741 original size:13 final size:14
Alignment explanation
Indices: 8216723--8216751 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8216713 TTGTTGTTAC
8216723 TATGTA-TTGCATA
1 TATGTATTTGCATA
8216736 TATGTATTTGCATA
1 TATGTATTTGCATA
8216750 TA
1 TA
8216752 CAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (14 bp):
TATGTATTTGCATA
Found at i:8220151 original size:18 final size:19
Alignment explanation
Indices: 8220113--8220155 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
8220103 AAAGAAAGTT
8220113 ACAAAAAATCAAATCAAATC
1 ACAAAAAATCAAATC-AATC
*
8220133 ACAAAAGATCAAATC-ATC
1 ACAAAAAATCAAATCAATC
8220151 ACAAA
1 ACAAA
8220156 TTCGGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
20 14 0.64
ACGTcount: A:0.63, C:0.21, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAAAAAATCAAATCAATC
Found at i:8221005 original size:3 final size:3
Alignment explanation
Indices: 8220997--8221038 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8220987 AAATTTTTTA
8220997 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8221039 TTTATGAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.