Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 28 of 100
Found at i:8163557 original size:38 final size:38
Alignment explanation
Indices: 8163499--8163575 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
8163489 GTCCGCAGCT
*
8163499 TGTTCCATGGGGGACCGTACTGGCGACTAAATATTTCG
1 TGTTCCATGGGGAACCGTACTGGCGACTAAATATTTCG
* *
8163537 TGTTCCATGGGGAACGGTACTGGTGACTAAATATTTCG
1 TGTTCCATGGGGAACCGTACTGGCGACTAAATATTTCG
8163575 T
1 T
8163576 CAAATGACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (38 bp):
TGTTCCATGGGGAACCGTACTGGCGACTAAATATTTCG
Found at i:8167325 original size:2 final size:2
Alignment explanation
Indices: 8167318--8167354 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8167308 TTTGCCATCA
*
8167318 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8167355 CTGTGTGTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8169627 original size:17 final size:16
Alignment explanation
Indices: 8169574--8169710 Score: 106
Period size: 17 Copynumber: 8.4 Consensus size: 16
8169564 TTATTTTTAT
*
8169574 TTTTATTATTTGTCTA
1 TTTTATTATTTATCTA
* *
8169590 -TTTATTA-ATATATA
1 TTTTATTATTTATCTA
8169604 TTTTTATTATTTATCTA
1 -TTTTATTATTTATCTA
8169621 CTTTTATTATTTAT-TA
1 -TTTTATTATTTATCTA
8169637 TTATTATTATTTATCTA
1 TT-TTATTATTTATCTA
*
8169654 TTTCTTTTATTTATCTAA
1 TTT-TATTATTTATCT-A
8169672 TTATT-TT-TGTTATCTA
1 TT-TTATTAT-TTATCTA
* *
8169688 -TTAATATATTTATCTT
1 TTTTAT-TATTTATCTA
8169704 TTTTATT
1 TTTTATT
8169711 TTGATTAATT
Statistics
Matches: 98, Mismatches: 10, Indels: 26
0.73 0.07 0.19
Matches are distributed among these distances:
14 5 0.05
15 11 0.11
16 31 0.32
17 46 0.47
18 4 0.04
19 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (16 bp):
TTTTATTATTTATCTA
Found at i:8169644 original size:33 final size:33
Alignment explanation
Indices: 8169564--8169689 Score: 113
Period size: 33 Copynumber: 3.9 Consensus size: 33
8169554 CAATTGACTT
* *
8169564 TTATTT-T-TATTTTTATTATTTGTCTA-TTTA
1 TTATTTATATATTATTATTATTTATCTATTTTA
* *
8169594 TTA-ATATATATTTTTATTATTTATCTACTTTTA
1 TTATTTATATATTATTATTATTTATCTA-TTTTA
*
8169627 TTATTTAT-TATTATTATTATTTATCTATTTCTT
1 TTATTTATATATTATTATTATTTATCTATTT-TA
*
8169660 TTATTTATCTAATTATT-TT-TGTTATCTATT
1 TTATTTATAT-ATTATTATTAT-TTATCTATT
8169690 AATATATTTA
Statistics
Matches: 82, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
29 1 0.01
30 4 0.05
31 18 0.22
32 3 0.04
33 35 0.43
34 15 0.18
35 6 0.07
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (33 bp):
TTATTTATATATTATTATTATTTATCTATTTTA
Found at i:8169698 original size:50 final size:50
Alignment explanation
Indices: 8169602--8169722 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 50
8169592 TATTAATATA
* *
8169602 TATTTTTATTATTTATCTACTTTTATTATTTATTATTATTATTATTTATC
1 TATTTTTATTATTTATCTAATTTTATTATTTATTATTAATATTATTTATC
8169652 TATTTCTT-TTATTTATCTAATTATT-TT-TGTTATCTATTAATA-TATTTATC
1 TATTT-TTATTATTTATCTAATT-TTATTAT-TTAT-TATTAATATTATTTATC
*
8169702 T-TTTTTATT-TTGAT-TAATTTT
1 TATTTTTATTATTTATCTAATTTT
8169723 CGGTTAAGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
46 2 0.03
47 5 0.08
48 6 0.10
49 6 0.10
50 33 0.52
51 11 0.17
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (50 bp):
TATTTTTATTATTTATCTAATTTTATTATTTATTATTAATATTATTTATC
Found at i:8170083 original size:19 final size:19
Alignment explanation
Indices: 8170047--8170083 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8170037 AATCTGGCAA
*
8170047 AATTTTTCAATGAATTTTG
1 AATTTTTCAACGAATTTTG
*
8170066 AATTTTTCAACGAGTTTT
1 AATTTTTCAACGAATTTT
8170084 TCAATCAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (19 bp):
AATTTTTCAACGAATTTTG
Found at i:8170180 original size:14 final size:14
Alignment explanation
Indices: 8170159--8170200 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
8170149 AATTGTTTAG
8170159 AGAGAAGGAGGAGAA
1 AGAGAAGG-GGAGAA
*
8170174 A-AGAAGGGAAGAA
1 AGAGAAGGGGAGAA
8170187 AGAGAAGGGGAGAA
1 AGAGAAGGGGAGAA
8170201 GGGAATTCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.25
14 17 0.71
15 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (14 bp):
AGAGAAGGGGAGAA
Found at i:8170474 original size:18 final size:16
Alignment explanation
Indices: 8170444--8170483 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
8170434 TTGGATTTTG
8170444 TATTTTTTATTTTATT
1 TATTTTTTATTTTATT
*
8170460 TATTGTTTTACTTTTTTT
1 TATT-TTTTA-TTTTATT
8170478 TATTTT
1 TATTTT
8170484 ATCAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (16 bp):
TATTTTTTATTTTATT
Found at i:8172237 original size:40 final size:40
Alignment explanation
Indices: 8172162--8172237 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
8172152 ATGTCATTTC
*
8172162 ATTCCTCATGTTCTAGCAATTTCATCTATGCATCATCTCT
1 ATTCCTCATGTTCTAGCAATTTCATATATGCATCATCTCT
8172202 ATTCCTCATGTTCTAGC-ATTATCATATCATG-ATCAT
1 ATTCCTCATGTTCTAGCAATT-TCATAT-ATGCATCAT
8172238 ATTTAACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
39 3 0.09
40 27 0.82
41 3 0.09
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (40 bp):
ATTCCTCATGTTCTAGCAATTTCATATATGCATCATCTCT
Found at i:8172389 original size:114 final size:118
Alignment explanation
Indices: 8172185--8172420 Score: 408
Period size: 114 Copynumber: 2.0 Consensus size: 118
8172175 TAGCAATTTC
*
8172185 ATCTATGCATCATCTCTATTCCTCATGTTCTAGCATTATCATATCATGATCATATTTAACATTAT
1 ATCTATGCATCATCTCTATTCCT-ATGTTCTAGCATTATCATATCATGATCATATTTAACACTAT
*
8172250 CGTTTGCATCATTTTCATATAGAAAAT-ATTTACCGCGTATCAGTTATTGATAA
65 CGTTTGCATCATTTTCATATAGAAAATAATTTACCGCATATCAGTTATTGATAA
*
8172303 ATCTATGCATCATCTCT-TT-CT-TGTTCTAGCATTATCATATCATGATCGTATTTAACACTATC
1 ATCTATGCATCATCTCTATTCCTATGTTCTAGCATTATCATATCATGATCATATTTAACACTATC
8172365 GTTTGCATCATTTTCATATAGAAAATAATTTACCGCATATCAGTTATTGATAA
66 GTTTGCATCATTTTCATATAGAAAATAATTTACCGCATATCAGTTATTGATAA
8172418 ATC
1 ATC
8172421 AGATCTCACA
Statistics
Matches: 114, Mismatches: 3, Indels: 5
0.93 0.02 0.04
Matches are distributed among these distances:
114 65 0.57
115 28 0.25
116 2 0.02
117 2 0.02
118 17 0.15
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.42
Consensus pattern (118 bp):
ATCTATGCATCATCTCTATTCCTATGTTCTAGCATTATCATATCATGATCATATTTAACACTATC
GTTTGCATCATTTTCATATAGAAAATAATTTACCGCATATCAGTTATTGATAA
Found at i:8175585 original size:29 final size:27
Alignment explanation
Indices: 8175544--8175616 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
8175534 AAGATGAGAA
* *
8175544 AAAAAAAAGAAAAAAAATGGTGAAAGGTG
1 AAAAAAAAGAAAAAAAA-GGGGAAA-ATG
**
8175573 AAAAAAATTAAAAAAAAGGGGAAAATG
1 AAAAAAAAGAAAAAAAAGGGGAAAATG
8175600 AAAAAAAAAGAAAAAAA
1 -AAAAAAAAGAAAAAAA
8175617 GATGAAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 2 0.05
28 20 0.54
29 15 0.41
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (27 bp):
AAAAAAAAGAAAAAAAAGGGGAAAATG
Found at i:8175623 original size:27 final size:27
Alignment explanation
Indices: 8175543--8175625 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
8175533 AAAGATGAGA
*
8175543 AAAAAAAAAGAAAAAAAATGGTGAAAGGTG
1 AAAAAAAAAG-AAAAAAA-GGTGAAA-ATG
* *
8175573 AAAAAAATTA-AAAAAAAGGGGAAAATG
1 AAAAAAA-AAGAAAAAAAGGTGAAAATG
*
8175600 AAAAAAAAAGAAAAAAAGATGAAAAT
1 AAAAAAAAAGAAAAAAAGGTGAAAAT
8175626 AGGAAAAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
26 1 0.02
27 23 0.51
28 6 0.13
29 7 0.16
30 7 0.16
31 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAAGGTGAAAATG
Found at i:8176985 original size:31 final size:31
Alignment explanation
Indices: 8176920--8176987 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
8176910 ATTTATAATC
* * * * * *
8176920 ATAATCAATTATTATATTTATATATTATTGA
1 ATAATCAATTAATAAATTAAAATATAATTAA
8176951 ATAATCAATTAATAAATTAAAATATAATTAA
1 ATAATCAATTAATAAATTAAAATATAATTAA
8176982 ATAATC
1 ATAATC
8176988 GAACAATACC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (31 bp):
ATAATCAATTAATAAATTAAAATATAATTAA
Found at i:8179712 original size:23 final size:25
Alignment explanation
Indices: 8179678--8179732 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
8179668 TCAAATTTAC
* *
8179678 TTTAT-TCTTTTCTCAAA-TTTT-A
1 TTTATATCATTTCTAAAACTTTTCA
*
8179700 TTTTTATCATTTCTAAAACTTTTCA
1 TTTATATCATTTCTAAAACTTTTCA
8179725 TTTATATC
1 TTTATATC
8179733 CTTATTGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 10 0.38
24 4 0.15
25 8 0.31
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTATATCATTTCTAAAACTTTTCA
Found at i:8181828 original size:52 final size:55
Alignment explanation
Indices: 8181766--8181871 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 55
8181756 ATTTTCCTGT
8181766 AAGTCAAACTTACCT-ATTAAG-AAT-CTTTT-TCCTTTTAGAATTCTT-CTTTTGC
1 AAGTCAAACTTACCTAATTAAGAAATCCTTTTCTCC--TTAGAATTCTTCCTTTTGC
8181818 AAGTCAAACTTACCTAATTAAGAAATCCTTTTCTCCTTAGAATTCTTCCTTTTG
1 AAGTCAAACTTACCTAATTAAGAAATCCTTTTCTCCTTAGAATTCTTCCTTTTG
8181872 GCAAAGTCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
52 15 0.31
53 6 0.12
54 14 0.29
55 11 0.22
56 3 0.06
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (55 bp):
AAGTCAAACTTACCTAATTAAGAAATCCTTTTCTCCTTAGAATTCTTCCTTTTGC
Found at i:8182995 original size:13 final size:13
Alignment explanation
Indices: 8182977--8183024 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
8182967 TTTAGGTATT
8182977 TTATTTTATTTTA
1 TTATTTTATTTTA
8182990 TTATTTTA-TTTA
1 TTATTTTATTTTA
*
8183002 TTTATTTGATTATCTA
1 -TTATTTTATT-T-TA
8183018 TTATTTT
1 TTATTTT
8183025 TTAAATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 4 0.14
13 15 0.52
14 1 0.03
15 7 0.24
16 2 0.07
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:8185828 original size:15 final size:16
Alignment explanation
Indices: 8185791--8185827 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
8185781 AATCCTTCGG
*
8185791 TTTTTTATTATTTAAA
1 TTTTTTACTATTTAAA
8185807 TTTTTTACTATTTAAA
1 TTTTTTACTATTTAAA
8185823 TTTTT
1 TTTTT
8185828 AGTTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTACTATTTAAA
Found at i:8185921 original size:6 final size:6
Alignment explanation
Indices: 8185905--8185964 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
8185895 ATAAAAATGG
* *
8185905 AGATAA A-ATAA AGATAA ATGAATAA AAAT-A A-ATAA ATATAA AGATAA
1 AGATAA AGATAA AGATAA A-G-ATAA AGATAA AGATAA AGATAA AGATAA
*
8185952 AGATAA ATATAA A
1 AGATAA AGATAA A
8185965 AAAGTGAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 2 0.04
5 9 0.20
6 29 0.63
7 1 0.02
8 5 0.11
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (6 bp):
AGATAA
Found at i:8185938 original size:41 final size:41
Alignment explanation
Indices: 8185885--8185964 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
8185875 AATCAAGATA
* **
8185885 AATAAACAAAATAAAAATGGAGATAAA-ATAAAGATAAATG
1 AATAAAAAAAATAAAAATAAAGATAAAGATAAAGATAAATG
* *
8185925 AATAAAAATAAATAAATATAAAGATAAAGATAAATATAAA
1 AATAAAAA-AAATAAAAATAAAGATAAAGATAAAGATAAA
8185965 AAAGTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 7 0.21
41 16 0.48
42 10 0.30
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.20
Consensus pattern (41 bp):
AATAAAAAAAATAAAAATAAAGATAAAGATAAAGATAAATG
Found at i:8185957 original size:18 final size:17
Alignment explanation
Indices: 8185869--8185965 Score: 72
Period size: 18 Copynumber: 5.5 Consensus size: 17
8185859 CTAAGAATAT
*
8185869 ATATAAAATCAAGATAA
1 ATATAAAATAAAGATAA
* * **
8185886 ATAAACAAAATAAAAATGG
1 AT--ATAAAATAAAGATAA
*
8185905 AGATAAAATAAAGATAA
1 ATATAAAATAAAGATAA
8185922 ATGAATAAAA-ATAA-ATAA
1 AT--ATAAAATA-AAGATAA
8185940 ATATAAAGATAAAGATAA
1 ATATAAA-ATAAAGATAA
8185958 ATATAAAA
1 ATATAAAA
8185966 AAGTGAAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
16 5 0.08
17 18 0.30
18 19 0.31
19 19 0.31
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (17 bp):
ATATAAAATAAAGATAA
Found at i:8187290 original size:38 final size:38
Alignment explanation
Indices: 8187232--8187308 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
8187222 GTCCGCAGCT
*
8187232 TGTTCCATGGGGGACCGTACTGGCGACTAAATATTTCG
1 TGTTCCATGGGGAACCGTACTGGCGACTAAATATTTCG
* *
8187270 TGTTCCATGGGGAACGGTACTGGTGACTAAATATTTCG
1 TGTTCCATGGGGAACCGTACTGGCGACTAAATATTTCG
8187308 T
1 T
8187309 CAAATGACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (38 bp):
TGTTCCATGGGGAACCGTACTGGCGACTAAATATTTCG
Found at i:8191054 original size:2 final size:2
Alignment explanation
Indices: 8191047--8191075 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8191037 TTTGCCATCA
8191047 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8191076 CTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8193347 original size:17 final size:16
Alignment explanation
Indices: 8193294--8193430 Score: 106
Period size: 17 Copynumber: 8.4 Consensus size: 16
8193284 TTATTTTTAT
*
8193294 TTTTATTATTTGTCTA
1 TTTTATTATTTATCTA
* *
8193310 -TTTATTA-ATATATA
1 TTTTATTATTTATCTA
8193324 TTTTTATTATTTATCTA
1 -TTTTATTATTTATCTA
8193341 CTTTTATTATTTAT-TA
1 -TTTTATTATTTATCTA
8193357 TTATTATTATTTATCTA
1 TT-TTATTATTTATCTA
*
8193374 TTTCTTTTATTTATCTAA
1 TTT-TATTATTTATCT-A
8193392 TTATT-TT-TGTTATCTA
1 TT-TTATTAT-TTATCTA
* *
8193408 -TTAATATATTTATCTT
1 TTTTAT-TATTTATCTA
8193424 TTTTATT
1 TTTTATT
8193431 TTGATTAATT
Statistics
Matches: 98, Mismatches: 10, Indels: 26
0.73 0.07 0.19
Matches are distributed among these distances:
14 5 0.05
15 11 0.11
16 31 0.32
17 46 0.47
18 4 0.04
19 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (16 bp):
TTTTATTATTTATCTA
Found at i:8193364 original size:33 final size:33
Alignment explanation
Indices: 8193284--8193409 Score: 113
Period size: 33 Copynumber: 3.9 Consensus size: 33
8193274 CAATTGACTT
* *
8193284 TTATTT-T-TATTTTTATTATTTGTCTA-TTTA
1 TTATTTATATATTATTATTATTTATCTATTTTA
* *
8193314 TTA-ATATATATTTTTATTATTTATCTACTTTTA
1 TTATTTATATATTATTATTATTTATCTA-TTTTA
*
8193347 TTATTTAT-TATTATTATTATTTATCTATTTCTT
1 TTATTTATATATTATTATTATTTATCTATTT-TA
*
8193380 TTATTTATCTAATTATT-TT-TGTTATCTATT
1 TTATTTATAT-ATTATTATTAT-TTATCTATT
8193410 AATATATTTA
Statistics
Matches: 82, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
29 1 0.01
30 4 0.05
31 18 0.22
32 3 0.04
33 35 0.43
34 15 0.18
35 6 0.07
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (33 bp):
TTATTTATATATTATTATTATTTATCTATTTTA
Found at i:8193418 original size:50 final size:50
Alignment explanation
Indices: 8193322--8193442 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 50
8193312 TATTAATATA
* *
8193322 TATTTTTATTATTTATCTACTTTTATTATTTATTATTATTATTATTTATC
1 TATTTTTATTATTTATCTAATTTTATTATTTATTATTAATATTATTTATC
8193372 TATTTCTT-TTATTTATCTAATTATT-TT-TGTTATCTATTAATA-TATTTATC
1 TATTT-TTATTATTTATCTAATT-TTATTAT-TTAT-TATTAATATTATTTATC
*
8193422 T-TTTTTATT-TTGAT-TAATTTT
1 TATTTTTATTATTTATCTAATTTT
8193443 CGGTTAAGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
46 2 0.03
47 5 0.08
48 6 0.10
49 6 0.10
50 33 0.52
51 11 0.17
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (50 bp):
TATTTTTATTATTTATCTAATTTTATTATTTATTATTAATATTATTTATC
Found at i:8193803 original size:19 final size:19
Alignment explanation
Indices: 8193767--8193803 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8193757 AATCTGGCAA
*
8193767 AATTTTTCAATGAATTTTG
1 AATTTTTCAACGAATTTTG
*
8193786 AATTTTTCAACGAGTTTT
1 AATTTTTCAACGAATTTT
8193804 TCAATCAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (19 bp):
AATTTTTCAACGAATTTTG
Found at i:8196112 original size:117 final size:117
Alignment explanation
Indices: 8195906--8196141 Score: 445
Period size: 117 Copynumber: 2.0 Consensus size: 117
8195896 AGCATTTCAT
*
8195906 TCTATGCATCATCTCTATTCTCATGTTCTAGCATTATCATATCATGATCATATTTAACATTATCG
1 TCTATGCATCATCTCTATTCTCATGTTCTAGCATTATCATATCATGATCATATTTAACACTATCG
*
8195971 TTTGCATCATTTTCATATAGAAAATATTTACCGCGTATCAGTTATTGATAAA
66 TTTGCATCATTTTCATATAGAAAATATTTACCGCATATCAGTTATTGATAAA
*
8196023 TCTATGCATCATCTCTATTCTCATGTTCTAGCATTATCATATCATGATCGTATTTAACACTATCG
1 TCTATGCATCATCTCTATTCTCATGTTCTAGCATTATCATATCATGATCATATTTAACACTATCG
8196088 TTTGCATCATTTTCATATAGAAAATATTTACCGCATATCAGTTATTGATAAA
66 TTTGCATCATTTTCATATAGAAAATATTTACCGCATATCAGTTATTGATAAA
8196140 TC
1 TC
8196142 AGATCTCACA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.42
Consensus pattern (117 bp):
TCTATGCATCATCTCTATTCTCATGTTCTAGCATTATCATATCATGATCATATTTAACACTATCG
TTTGCATCATTTTCATATAGAAAATATTTACCGCATATCAGTTATTGATAAA
Found at i:8199301 original size:28 final size:27
Alignment explanation
Indices: 8199261--8199352 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 27
8199251 AGATGAGAAA
* * *
8199261 AAAAAAAGAAAAAAAATGGTGAAAGGTG
1 AAAAAAAGAAAAAAAAAGGGGAAA-ATG
**
8199289 AAAAAAATTAAAAAAAAGGGGAAAATG
1 AAAAAAAGAAAAAAAAAGGGGAAAATG
* **
8199316 AAAAAAAAAGAAAAAAAAGATGAAAATAG
1 AAAAAAAGA-AAAAAAAAGGGGAAAAT-G
*
8199345 GAAAAAAG
1 AAAAAAAG
8199353 GAATACTCAA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 9 0.18
28 35 0.69
29 7 0.14
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.09
Consensus pattern (27 bp):
AAAAAAAGAAAAAAAAAGGGGAAAATG
Found at i:8199301 original size:29 final size:27
Alignment explanation
Indices: 8199260--8199334 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
8199250 AAGATGAGAA
* *
8199260 AAAAAAAAGAAAAAAAATGGTGAAAGGTG
1 AAAAAAAAGAAAAAAAA-GGGGAAA-ATG
**
8199289 AAAAAAATTAAAAAAAAGGGGAAAATG
1 AAAAAAAAGAAAAAAAAGGGGAAAATG
8199316 AAAAAAAAAGAAAAAAAAG
1 -AAAAAAAAGAAAAAAAAG
8199335 ATGAAAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 2 0.05
28 22 0.56
29 15 0.38
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (27 bp):
AAAAAAAAGAAAAAAAAGGGGAAAATG
Found at i:8199349 original size:29 final size:28
Alignment explanation
Indices: 8199260--8199351 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
8199250 AAGATGAGAA
*
8199260 AAAAAAAAGAAAAAAAATGGTG-AAAGGTG
1 AAAAAAAAGAAAAAAAA-GGTGAAAATG-G
** * *
8199289 AAAAAAATTAAAAAAAAGGGGAAAATGA
1 AAAAAAAAGAAAAAAAAGGTGAAAATGG
*
8199317 AAAAAAAAGAAAAAAAAGATGAAAATAGG
1 AAAAAAAAGAAAAAAAAGGTGAAAAT-GG
8199346 AAAAAA
1 AAAAAA
8199352 GGAATACTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
28 25 0.49
29 26 0.51
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (28 bp):
AAAAAAAAGAAAAAAAAGGTGAAAATGG
Found at i:8200794 original size:43 final size:42
Alignment explanation
Indices: 8200740--8200821 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
8200730 GCCTTTGAAC
* * *
8200740 TCAAATAAAAAGCTTTGAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATAAAAAGCTTTAAATTTTTAGATATGAAT-TCCAAAAT
*
8200783 TCAAATGAAAAGCTTTAAATTTTTAGATATGAATTCCAA
1 TCAAATAAAAAGCTTTAAATTTTTAGATATGAATTCCAA
8200822 GTTTTCCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 5 0.14
43 30 0.86
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (42 bp):
TCAAATAAAAAGCTTTAAATTTTTAGATATGAATTCCAAAAT
Found at i:8201221 original size:82 final size:82
Alignment explanation
Indices: 8201135--8201472 Score: 305
Period size: 82 Copynumber: 4.1 Consensus size: 82
8201125 CAATTTAATT
* * *
8201135 TTTTTCAAAGTTC-TGTTGCCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTCGTGGTGCCTCT
1 TTTTTCAAAG-TCATGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCT
8201199 ATTTAGAGGAGCAATTTA
65 ATTTAGAGGAGCAATTTA
* * * * * * *
8201217 TTTTTCAAAGTCGTGGTTGCCTCTCTTTAGAGGAACAATTTACTTTTCAAAGTTGTAGTGCCTTT
1 TTTTTCAAAGTCAT-GTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCT
8201282 ATTTAGAGGAGC-ATTTA
65 ATTTAGAGGAGCAATTTA
* * * * * * ***
8201299 TTTTT-GAAGTCACGGTGCTTCTGCTTAGAGAATTTATTTA-TTTTCCAAAGTCGTTGAGCCTCT
1 TTTTTCAAAGTCATGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTTGAGCCTCT
*
8201362 AATTAGAGGAGCCAA-TTA
65 ATTTAGAGGAG-CAATTTA
* ** * * * *
8201380 TTTTTTAAAGTCAT-TAAACCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTTT
1 TTTTTCAAAGTCATGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCT
* *
8201444 GA-TTAGGGGAGCCATTTA
65 -ATTTAGAGGAGCAATTTA
8201462 -TTTTCAAAGTC
1 TTTTTCAAAGTC
8201473 GTAGAGTCTT
Statistics
Matches: 209, Mismatches: 37, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
79 4 0.02
80 43 0.21
81 28 0.13
82 73 0.35
83 61 0.29
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (82 bp):
TTTTTCAAAGTCATGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTA
TTTAGAGGAGCAATTTA
Found at i:8201256 original size:42 final size:41
Alignment explanation
Indices: 8201135--8201474 Score: 262
Period size: 41 Copynumber: 8.3 Consensus size: 41
8201125 CAATTTAATT
* * *
8201135 TTTTTCAAAGTTC-TGTTGCCTCTGTTTAGAGGAGTAATTTA
1 TTTTTCAAAG-TCGTGGTGCCTCTATTTAGAGGAGCAATTTA
*
8201176 CTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA
1 TTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA
* *
8201217 TTTTTCAAAGTCGTGGTTGCCTCTCTTTAGAGGAACAATTTA
1 TTTTTCAAAGTCGTGG-TGCCTCTATTTAGAGGAGCAATTTA
* * * *
8201259 CTTTTCAAAGTTGTAGTGCCTTTATTTAGAGGAGC-ATTTA
1 TTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA
* ** * ** * ***
8201299 TTTTT-GAAGTCACGGTGCTTCTGCTTAGAGAATTTATTTA
1 TTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA
* * * *
8201339 TTTTCCAAAGTCGTTGAGCCTCTAATTAGAGGAGCCAA-TTA
1 TTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAG-CAATTTA
* * **** *
8201380 TTTTTTAAAGTCATTAAACCTCTGA-TTAGAGGAGCCATTTA
1 TTTTTCAAAGTCGTGGTGCCTCT-ATTTAGAGGAGCAATTTA
* * * * *
8201421 TTTTTCAAAGTCGTTGAGCCTTTGA-TTAGGGGAGCCATTTA
1 TTTTTCAAAGTCGTGGTGCCTCT-ATTTAGAGGAGCAATTTA
8201462 -TTTTCAAAGTCGT
1 TTTTTCAAAGTCGT
8201475 AGAGTCTTTG
Statistics
Matches: 241, Mismatches: 51, Indels: 15
0.79 0.17 0.05
Matches are distributed among these distances:
39 17 0.07
40 35 0.15
41 151 0.63
42 38 0.16
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (41 bp):
TTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA
Found at i:8201462 original size:163 final size:162
Alignment explanation
Indices: 8201171--8201465 Score: 364
Period size: 163 Copynumber: 1.8 Consensus size: 162
8201161 TAGAGGAGTA
* * * **
8201171 ATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTTG
1 ATTTACTTTTCAAAGTCGTGGAGCCTCTAATTAGAGGAGCAATTTATTTTTCAAAGTCAT-GTAA
* * *
8201236 CCTCTCTTTAGAGGAACAATTTACTTTTCAAAGTTGTAGTGCCTTTATTTAGAGGAGCATTTATT
65 CCTCTCATTAGAGGAACAATTTACTTTTCAAAGTCGTAGAGCCTTTATTTAGAGGAGCATTTATT
8201301 TTTGAAGTCACGGTGCTTCTGCTTAGAGAATTT
130 TTTGAAGTCACGGTGCTTCTGCTTAGAGAATTT
* *
8201334 ATTTA-TTTTCCAAAGTCGTTGAGCCTCTAATTAGAGGAGCCAA-TTATTTTTTAAAGTCAT-TA
1 ATTTACTTTT-CAAAGTCGTGGAGCCTCTAATTAGAGGAG-CAATTTATTTTTCAAAGTCATGT-
* * * * * *
8201396 AACCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTTTGA-TTAGGGGAGCCATT
63 AACCTCTCATTAGAGGAACAATTTACTTTTCAAAGTCGTAGAGCCTTT-ATTTAGAGGAG-CATT
8201460 TATTTT
126 TATTTT
8201466 CAAAGTCGTA
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
161 1 0.01
162 50 0.45
163 57 0.51
164 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (162 bp):
ATTTACTTTTCAAAGTCGTGGAGCCTCTAATTAGAGGAGCAATTTATTTTTCAAAGTCATGTAAC
CTCTCATTAGAGGAACAATTTACTTTTCAAAGTCGTAGAGCCTTTATTTAGAGGAGCATTTATTT
TTGAAGTCACGGTGCTTCTGCTTAGAGAATTT
Found at i:8201484 original size:40 final size:41
Alignment explanation
Indices: 8201152--8201527 Score: 251
Period size: 41 Copynumber: 9.1 Consensus size: 41
8201142 AAGTTCTGTT
* ** * * *
8201152 GCCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTCGTGGT
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTAGA
* * *
8201193 GCCTCT-ATTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTT
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTTCAAAGTCGTAG-A
** * * * * *
8201235 GCCTCTCTTTAGAGGAACAATTTACTTTTCAAAGTTGTAGT
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTAGA
* * *** *
8201276 GCCT-TTATTTAGAGGAG-CATTTATTTTT-GAAGTCACGGT
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTTCAAAGTCGTAGA
* * * *** * *
8201315 GCTTCTGCTTAGAGAATTTATTTATTTTCCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTAGA
* * * *
8201356 GCCTCTAATTAGAGGAGCCAATTATTTTTTAAAGTCATTA-A
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTC-GTAGA
* *
8201397 ACCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTAGA
* *
8201438 GCCTTTGATTAGGGGAGCCATTTA-TTTTCAAAGTCGTAGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTAGA
* * * ** *
8201478 GTCTTTGTTTAGAGGAGCTTTGTTTATTTTTTCAAAGTCATAGA
1 GCCTCTGATTAGAGGAGC--CATTTA-TTTTTCAAAGTCGTAGA
8201522 GCCTCT
1 GCCTCT
8201528 ACTTATAGGA
Statistics
Matches: 262, Mismatches: 60, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
39 16 0.06
40 51 0.19
41 136 0.52
42 40 0.15
44 19 0.07
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (41 bp):
GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTAGA
Found at i:8201771 original size:5 final size:6
Alignment explanation
Indices: 8201757--8201875 Score: 98
Period size: 6 Copynumber: 19.0 Consensus size: 6
8201747 CCCAATTGGC
* **
8201757 TTTTAT TTTTAT TTTTAT TTTTAT TATTTGT CTATTTAT TAATAT ATTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT -T-TTTAT TTTTAT -TTTTAT
* **
8201808 TTTTAT TTTTAT TTTT-T TATCTAT TAATAT TTTTAT TTTTAT TTTTATT
1 TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
*
8201857 TTTTAT TATTAT TATTTAT
1 TTTTAT TTTTAT T-TTTAT
8201876 CTATTTCTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
5 6 0.07
6 61 0.66
7 19 0.21
8 6 0.07
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:8201841 original size:30 final size:30
Alignment explanation
Indices: 8201807--8201895 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 30
8201797 AATATATTTT
8201807 TTTTTATTTTTATTTTTTTATCTATTAATA
1 TTTTTATTTTTATTTTTTTATCTATTAATA
* * *
8201837 TTTTTATTTTTATTTTTATTTTTTATTATTA
1 TTTTTATTTTTATTTTT-TTATCTATTAATA
*
8201868 TTATTTATCTATTTCTTTTATTTATCTA
1 TT-TTTAT-T-TTTATTTT-TTTATCTA
8201896 ATTATTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 17 0.35
31 12 0.25
32 5 0.10
33 1 0.02
34 12 0.25
35 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTTTATTTTTATTTTTTTATCTATTAATA
Found at i:8201858 original size:36 final size:35
Alignment explanation
Indices: 8201760--8201873 Score: 151
Period size: 36 Copynumber: 3.1 Consensus size: 35
8201750 AATTGGCTTT
8201760 TATTTTTATTTTTATTTTTATTATTTGTCTATTTATTAA
1 TATTTTTATTTTTATTTTTATT-TTT-T-TA-TTATTAA
8201799 TATATTTT-TTTTTATTTTTATTTTTTTATCTATTAA
1 TAT-TTTTATTTTTATTTTTATTTTTTTAT-TATTAA
*
8201835 TATTTTTATTTTTATTTTTA-TTTTTTATTATTAT
1 TATTTTTATTTTTATTTTTATTTTTTTATTATTAA
8201869 TATTT
1 TATTT
8201874 ATCTATTTCT
Statistics
Matches: 71, Mismatches: 1, Indels: 11
0.86 0.01 0.13
Matches are distributed among these distances:
34 10 0.14
35 13 0.18
36 23 0.32
37 1 0.01
38 3 0.04
39 17 0.24
40 4 0.06
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (35 bp):
TATTTTTATTTTTATTTTTATTTTTTTATTATTAA
Found at i:8201881 original size:36 final size:35
Alignment explanation
Indices: 8201759--8201873 Score: 142
Period size: 39 Copynumber: 3.2 Consensus size: 35
8201749 CAATTGGCTT
* *
8201759 TTATTTTTATTTTTATTTTTATTATTTGTCTATTTA
1 TTATTTTTATTTTTATTTTTATTTTTTATCTA-TTA
*
8201795 TTAATATATTTTTTTTTATTTTTATTTTTTTATCTATTA
1 TT-AT-T-TTTATTTTTATTTTTA-TTTTTTATCTATTA
*
8201834 ATATTTTTATTTTTATTTTTATTTTTTAT-TATTA
1 TTATTTTTATTTTTATTTTTATTTTTTATCTATTA
8201868 TTATTT
1 TTATTT
8201874 ATCTATTTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
34 10 0.14
35 8 0.12
36 17 0.25
37 3 0.04
38 3 0.04
39 19 0.28
40 9 0.13
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.76
Consensus pattern (35 bp):
TTATTTTTATTTTTATTTTTATTTTTTATCTATTA
Found at i:8201886 original size:28 final size:25
Alignment explanation
Indices: 8201759--8201875 Score: 78
Period size: 28 Copynumber: 4.4 Consensus size: 25
8201749 CAATTGGCTT
8201759 TTATTTTTATTTTTA-TTTTTATTA
1 TTATTTTTATTTTTATTTTTTATTA
* * *
8201783 TT-TGTCTATTTATTAATATATTTT-TTT
1 TTATTTTTATTT-TT-AT-T-TTTTATTA
* *
8201810 TTATTTTTATTTTTTTATCTATTAATATTT
1 TTATTTTTA--TTTTTAT-T-TT-TTATTA
8201840 TTATTTTTATTTTTATTTTTTATTA
1 TTATTTTTATTTTTATTTTTTATTA
8201865 TTATTATTTAT
1 TTATT-TTTAT
8201876 CTATTTCTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
23 7 0.10
24 4 0.05
25 10 0.14
26 7 0.10
27 6 0.08
28 21 0.29
29 3 0.04
30 15 0.21
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (25 bp):
TTATTTTTATTTTTATTTTTTATTA
Found at i:8201891 original size:17 final size:17
Alignment explanation
Indices: 8201815--8201938 Score: 82
Period size: 16 Copynumber: 7.5 Consensus size: 17
8201805 TTTTTTTATT
8201815 TTTATTTT-TTTATCTA
1 TTTATTTTATTTATCTA
* *
8201831 TTAATATT-TTTAT-T-
1 TTTATTTTATTTATCTA
*
8201845 TTTATTTTTATTT-TTTA
1 TTTA-TTTTATTTATCTA
8201862 -TTATTATTATTTATCTA
1 TTTATT-TTATTTATCTA
*
8201879 TTTCTTTTATTTATCTA
1 TTTATTTTATTTATCTA
* *
8201896 ATTATTTTTTGTTATCTA
1 TTTATTTTAT-TTATCTA
* * *
8201914 -TTAATATATTTATCTTT
1 TTTATTTTATTTATC-TA
8201931 TTTATTTT
1 TTTATTTT
8201939 GATTAATTTT
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
14 3 0.04
15 7 0.08
16 29 0.35
17 28 0.34
18 16 0.19
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTATTTTATTTATCTA
Found at i:8201930 original size:45 final size:40
Alignment explanation
Indices: 8201764--8201931 Score: 138
Period size: 36 Copynumber: 4.2 Consensus size: 40
8201754 GGCTTTTATT
* * * *
8201764 TTTAT-TTTTATTTTTATTATTTGTCTATTTATTAATATA
1 TTTATCTTTTATTTTTATTTTTTTTTTATCTATTAATATA
* *
8201803 TTT-TTTTTTATTTTTA---TTTTTTTATCTATTAATATT
1 TTTATCTTTTATTTTTATTTTTTTTTTATCTATTAATATA
* *
8201839 TTTAT-TTTTATTTTTATTTTTTATTATTAT-TATTTATCTA
1 TTTATCTTTTATTTTTATTTTTT-TT-TTATCTATTAATATA
8201879 -TT-TCTTTTATTTATCTAATTATTTTTTGTTATCTATTAATATA
1 TTTATCTTTTATTT-T-T-ATT-TTTTTT-TTATCTATTAATATA
8201922 TTTATCTTTT
1 TTTATCTTTT
8201932 TTATTTTGAT
Statistics
Matches: 104, Mismatches: 10, Indels: 24
0.75 0.07 0.17
Matches are distributed among these distances:
36 30 0.29
37 1 0.01
38 2 0.02
39 27 0.26
40 10 0.10
41 5 0.05
42 9 0.09
43 12 0.12
44 2 0.02
45 6 0.06
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (40 bp):
TTTATCTTTTATTTTTATTTTTTTTTTATCTATTAATATA
Found at i:8206115 original size:2 final size:2
Alignment explanation
Indices: 8206104--8206138 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8206094 TATTGCACGC
8206104 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8206139 GTATGCATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8209606 original size:91 final size:91
Alignment explanation
Indices: 8209462--8209646 Score: 370
Period size: 91 Copynumber: 2.0 Consensus size: 91
8209452 GCAATAACGG
8209462 ACCGTTATTGCCGCTATTCTGTTTTCCTACACGGATCTAATAGTTCAATAAAAAAATAAAATTTC
1 ACCGTTATTGCCGCTATTCTGTTTTCCTACACGGATCTAATAGTTCAATAAAAAAATAAAATTTC
8209527 AAGTTTCAACCATTTAGCATTTCGGC
66 AAGTTTCAACCATTTAGCATTTCGGC
8209553 ACCGTTATTGCCGCTATTCTGTTTTCCTACACGGATCTAATAGTTCAATAAAAAAATAAAATTTC
1 ACCGTTATTGCCGCTATTCTGTTTTCCTACACGGATCTAATAGTTCAATAAAAAAATAAAATTTC
8209618 AAGTTTCAACCATTTAGCATTTCGGC
66 AAGTTTCAACCATTTAGCATTTCGGC
8209644 ACC
1 ACC
8209647 CAAATTCAAA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 94 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (91 bp):
ACCGTTATTGCCGCTATTCTGTTTTCCTACACGGATCTAATAGTTCAATAAAAAAATAAAATTTC
AAGTTTCAACCATTTAGCATTTCGGC
Found at i:8209997 original size:20 final size:20
Alignment explanation
Indices: 8209972--8210013 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
8209962 AAGCACGTGA
8209972 GGAGGGATTGGGTGGGATAG
1 GGAGGGATTGGGTGGGATAG
*
8209992 GGAGGGATTGGGTGGGGTAG
1 GGAGGGATTGGGTGGGATAG
8210012 GG
1 GG
8210014 TGTAGGGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.64, T:0.19
Consensus pattern (20 bp):
GGAGGGATTGGGTGGGATAG
Found at i:8210034 original size:34 final size:35
Alignment explanation
Indices: 8209991--8210061 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 35
8209981 GGGTGGGATA
*
8209991 GGGAGGGATTGGGTGGGGTAGGGTG-TAGGGGGTG
1 GGGAAGGATTGGGTGGGGTAGGGTGTTAGGGGGTG
* * *
8210025 GGGAAGGATTGGGTGTGGTGGGGTGTTGGGGGGTG
1 GGGAAGGATTGGGTGGGGTAGGGTGTTAGGGGGTG
8210060 GG
1 GG
8210062 AGTTGAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 22 0.69
35 10 0.31
ACGTcount: A:0.10, C:0.00, G:0.68, T:0.23
Consensus pattern (35 bp):
GGGAAGGATTGGGTGGGGTAGGGTGTTAGGGGGTG
Found at i:8212950 original size:118 final size:114
Alignment explanation
Indices: 8212750--8212987 Score: 329
Period size: 118 Copynumber: 2.1 Consensus size: 114
8212740 TGGAAGTTTC
* *
8212750 TATTTTAAGAAAAATTGATAATTTCAACTTTTCCCCAAAAAATATTTAGAAATTTTATTTTTAAG
1 TATTTTAAGAAAAATTGATAATTTCAACTTTTCCCCAAAAAATATTTAAAAATTTTATTTTCAAG
8212815 GAAAATTGATACTTTCAACTTTTCCTC-AAAATACT-TTTTTCTTGAAATTT
66 GAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TATTTTT-TT-AAATTT
* * *
8212865 TATTTTCAAGGAAAATTGATACTTTCAAC-TTTCTCCCAAAAATATTTTTTAAAAATTTTATTTT
1 TATTTT-AAGAAAAATTGATAATTTCAACTTTTC-CCCAAAAA-A-TATTTAAAAATTTTATTTT
* *
8212929 CAAGGGAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTAATTTT
62 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTAAATTT
8212982 TATTTT
1 TATTTT
8212988 TTCTTAAATT
Statistics
Matches: 110, Mismatches: 7, Indels: 10
0.87 0.06 0.08
Matches are distributed among these distances:
115 10 0.09
116 28 0.25
117 12 0.11
118 49 0.45
119 11 0.10
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (114 bp):
TATTTTAAGAAAAATTGATAATTTCAACTTTTCCCCAAAAAATATTTAAAAATTTTATTTTCAAG
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTAAATTT
Found at i:8212997 original size:58 final size:58
Alignment explanation
Indices: 8212750--8212987 Score: 297
Period size: 58 Copynumber: 4.1 Consensus size: 58
8212740 TGGAAGTTTC
* * * * *
8212750 TATTTT-AAGAAAAATTGATAATTTCAACTTTTCCCCAAAAA-A-TATTTAGAAATTT
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTATAAATTT
* *
8212805 TATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATACTTTTTTCTTGAAATTT
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTT-AT-AAATTT
*
8212865 TATTTTCAAGGAAAATTGATACTTTCAACTTTCTCC-CAAAAATATTTTTTAAAAATTT
1 TATTTTCAAGGAAAATTGATACTTTCAACTTT-TCCTCAAAAATATTTTTTATAAATTT
* * *
8212923 TATTTTCAAGGGAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTAATTTT
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTATAAATTT
8212982 TATTTT
1 TATTTT
8212988 TTCTTAAATT
Statistics
Matches: 160, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
55 10 0.06
56 28 0.17
57 3 0.02
58 50 0.31
59 16 0.10
60 44 0.28
61 9 0.06
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (58 bp):
TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTATAAATTT
Found at i:8213036 original size:12 final size:12
Alignment explanation
Indices: 8213016--8213054 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
8213006 AAAGAAAAAA
*
8213016 AAAACACTAAAT
1 AAAATACTAAAT
8213028 AAAATACTAAGA-
1 AAAATACTAA-AT
8213040 AAAATACTAAAT
1 AAAATACTAAAT
8213052 AAA
1 AAA
8213055 TAAATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (12 bp):
AAAATACTAAAT
Found at i:8213561 original size:13 final size:11
Alignment explanation
Indices: 8213530--8213555 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8213520 CCAGAATCTG
8213530 AAAATTTTCTA
1 AAAATTTTCTA
8213541 AAAATTTTCTA
1 AAAATTTTCTA
8213552 AAAA
1 AAAA
8213556 AATTTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTTTCTA
Found at i:8214437 original size:43 final size:43
Alignment explanation
Indices: 8214173--8214461 Score: 233
Period size: 44 Copynumber: 6.6 Consensus size: 43
8214163 TTCACAATTT
* *
8214173 CAACTTTGAAAAAGTAAACAAGGCTCCTCTAATCAGAGGCTTAA
1 CAACTTTGAAAAA-TAAACAAAGCTCCTCTAATCAGAGGCTCAA
* * * * * **
8214217 CGACTTGGGAAATATAAACAAAGCTCATCTAATCAAAGATTCAA
1 CAACTT-TGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAA
** * * *
8214261 TGACTTTAGAAAACTAAA-AAAGGTCCTCTAATCGGAGGCTCAA
1 CAACTTT-GAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAA
* * * *
8214304 CGACTTTGGAAAACATAAACAAAGCTCCTCTAATCAAAGGCACCA
1 CAACTTT-GAAAA-ATAAACAAAGCTCCTCTAATCAGAGGCTCAA
** * * * *
8214349 CAACTTTGAAAAA-ATAA-ATTGCTCCTTTAAACAGAGGCACCA
1 CAACTTTGAAAAATA-AACAAAGCTCCTCTAATCAGAGGCTCAA
* * * *
8214391 CAACTTTTAAAAATAAATAAAGCTCATTTAATCAGAGGCTCAA
1 CAACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAA
*
8214434 CAACTTCGAAAAAATAAACAAAGCTCCT
1 CAACTTTG-AAAAATAAACAAAGCTCCT
8214462 TGACAATCAT
Statistics
Matches: 193, Mismatches: 44, Indels: 16
0.76 0.17 0.06
Matches are distributed among these distances:
42 35 0.18
43 59 0.31
44 68 0.35
45 31 0.16
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.22
Consensus pattern (43 bp):
CAACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAA
Found at i:8214947 original size:21 final size:20
Alignment explanation
Indices: 8214923--8214979 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
8214913 GGTTTTGCAT
*
8214923 CTCAAAGATTTTCATTTGAAA
1 CTCAAAGATTCTCATTTG-AA
8214944 CTCAAAGATTCTCATTTGAA
1 CTCAAAGATTCTCATTTGAA
* *
8214964 TTCAAAGATTCACATT
1 CTCAAAGATTCTCATT
8214980 CGACAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.37
Consensus pattern (20 bp):
CTCAAAGATTCTCATTTGAA
Found at i:8215033 original size:21 final size:21
Alignment explanation
Indices: 8215003--8215081 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
8214993 GTTTCACACC
* *
8215003 TTAAAGATTCTTATTTGAAAT
1 TTAAAGATTCTCATTTAAAAT
*
8215024 TTAAAAATTCTCATTTAAAAT
1 TTAAAGATTCTCATTTAAAAT
* *
8215045 TCAAAGATTCTCATTTAAGGAT
1 TTAAAGATTCTCATTTAA-AAT
*
8215067 TCAAAGA-TCTCATTT
1 TTAAAGATTCTCATTT
8215082 GAGTTCGAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
21 42 0.82
22 9 0.18
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (21 bp):
TTAAAGATTCTCATTTAAAAT
Found at i:8215034 original size:79 final size:81
Alignment explanation
Indices: 8214884--8215059 Score: 214
Period size: 80 Copynumber: 2.2 Consensus size: 81
8214874 TTCATTATAG
* * ** *
8214884 TTCAAAGATTCTCATTTGACGAACTTTAGGGTTTTGCATCTCAAAGATTTTCATTTGAAACTCAA
1 TTCAAAGATTCTCATTCGACAAACTTTAGGGTTTCACACCTCAAAGATTTTCATTTGAAACTCAA
* *
8214949 AGATTCTCATTT-GAA
66 AAATTCTCATTTAAAA
* * * * *
8214964 TTCAAAGATTCACATTCGACAAATTTTA-GGTTTCACACCTTAAAGATTCTT-ATTTGAAATTTA
1 TTCAAAGATTCTCATTCGACAAACTTTAGGGTTTCACACCTCAAAGATT-TTCATTTGAAACTCA
8215027 AAAATTCTCATTTAAAA
65 AAAATTCTCATTTAAAA
8215044 TTCAAAGATTCTCATT
1 TTCAAAGATTCTCATT
8215060 TAAGGATTCA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 38 0.47
80 43 0.53
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (81 bp):
TTCAAAGATTCTCATTCGACAAACTTTAGGGTTTCACACCTCAAAGATTTTCATTTGAAACTCAA
AAATTCTCATTTAAAA
Found at i:8215194 original size:22 final size:21
Alignment explanation
Indices: 8215124--8215205 Score: 110
Period size: 21 Copynumber: 3.9 Consensus size: 21
8215114 GTTTCACACC
* *
8215124 TCAAAGATTTTTATTTGAAAT
1 TCAAAGATTCTTATTTAAAAT
* *
8215145 TCAAAGATTCTTATTTAACAC
1 TCAAAGATTCTTATTTAAAAT
*
8215166 TCAAAGATTCTCATTTAAAGAT
1 TCAAAGATTCTTATTTAAA-AT
8215188 TCAAAGATTCTTATTTAA
1 TCAAAGATTCTTATTTAA
8215206 GTTTGAAGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 34 0.65
22 18 0.35
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (21 bp):
TCAAAGATTCTTATTTAAAAT
Found at i:8215195 original size:43 final size:42
Alignment explanation
Indices: 8215123--8215205 Score: 130
Period size: 43 Copynumber: 2.0 Consensus size: 42
8215113 GGTTTCACAC
* * *
8215123 CTCAAAGATTTTTATTTGAAATTCAAAGATTCTTATTTAACA
1 CTCAAAGATTCTCATTTAAAATTCAAAGATTCTTATTTAACA
8215165 CTCAAAGATTCTCATTTAAAGATTCAAAGATTCTTATTTAA
1 CTCAAAGATTCTCATTTAAA-ATTCAAAGATTCTTATTTAA
8215206 GTTTGAAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 17 0.46
43 20 0.54
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (42 bp):
CTCAAAGATTCTCATTTAAAATTCAAAGATTCTTATTTAACA
Found at i:8215264 original size:122 final size:122
Alignment explanation
Indices: 8214923--8215282 Score: 512
Period size: 121 Copynumber: 3.0 Consensus size: 122
8214913 GGTTTTGCAT
* * * * *
8214923 CTCAAAGATTTTCATTTGAA-ACTCAAAGATTCTCATTTGAA-TTCAAAGATTCACATTCGACAA
1 CTCAAAGATTCTCATTTAAAGATTCAAAGATTCTCATTT-AAGTTCGAAGATTCACATTCGATAA
* * *
8214986 ATTTT-AGGTTTCACACCTTAAAGATTCTTATTTGAAATTTAAAAATTCTCATTTAAAA
65 ATTTTGA-GTTTCACACCTCAAAGATTCTTATTTGAAATTCAAAGATTCTCATTTAAAA
* * *
8215044 TTCAAAGATTCTCATTTAAGGATTCAAAGA-TCTCATTTGAGTTCGAAGATTCACATTCGATAAA
1 CTCAAAGATTCTCATTTAAAGATTCAAAGATTCTCATTTAAGTTCGAAGATTCACATTCGATAAA
* * * *
8215108 TTTTGGGTTTCACACCTCAAAGATTTTTATTTGAAATTCAAAGATTCTTATTTAACA
66 TTTTGAGTTTCACACCTCAAAGATTCTTATTTGAAATTCAAAGATTCTCATTTAAAA
* *
8215165 CTCAAAGATTCTCATTTAAAGATTCAAAGATTCTTATTTAAGTTTGAAGATTCACATTCGATAAA
1 CTCAAAGATTCTCATTTAAAGATTCAAAGATTCTCATTTAAGTTCGAAGATTCACATTCGATAAA
*
8215230 TTTTGAGTTTCACATCTCAAAGATTCTTATTTGAAATTCAAAGATTCTCATTT
66 TTTTGAGTTTCACACCTCAAAGATTCTTATTTGAAATTCAAAGATTCTCATTT
8215283 GAGGATTTCT
Statistics
Matches: 211, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
120 1 0.00
121 122 0.58
122 88 0.42
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (122 bp):
CTCAAAGATTCTCATTTAAAGATTCAAAGATTCTCATTTAAGTTCGAAGATTCACATTCGATAAA
TTTTGAGTTTCACACCTCAAAGATTCTTATTTGAAATTCAAAGATTCTCATTTAAAA
Found at i:8215301 original size:46 final size:45
Alignment explanation
Indices: 8215248--8215449 Score: 157
Period size: 46 Copynumber: 4.4 Consensus size: 45
8215238 TTCACATCTC
*
8215248 AAAGATTCTTATTTGAA-A-TTCAAAGATTCTCATTTGAGGATTTCTT
1 AAAGATTCTTATTTGAAGACTTCAAAGATTCTCATTTGAAGA---CTT
* * *
8215294 AAAGATTCTTATTTGAATATTTCTTAAAGATTCTCATTT-AAGACTC
1 AAAGATTCTTATTTGAAGACTTC--AAAGATTCTCATTTGAAGACTT
* * *
8215340 AAAGCTTCTCATTTGAAGACTTCTTAAAGATTCTCA-TTCAAGACTT
1 AAAGATTCTTATTTGAAGACTTC--AAAGATTCTCATTTGAAGACTT
* * * *
8215386 AAAGATTCTCATTT-AAGACTT-AAAGGTTCTTATTTGAGGATTTCTT
1 AAAGATTCTTATTTGAAGACTTCAAAGATTCTCATTTGAAGA---CTT
*
8215432 AAAGGTTCTTATTT-AAGA
1 AAAGATTCTTATTTGAAGA
8215450 AATCAAGATT
Statistics
Matches: 133, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
42 9 0.07
43 5 0.04
45 9 0.07
46 89 0.67
47 1 0.01
48 3 0.02
49 3 0.02
50 14 0.11
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (45 bp):
AAAGATTCTTATTTGAAGACTTCAAAGATTCTCATTTGAAGACTT
Found at i:8215307 original size:25 final size:24
Alignment explanation
Indices: 8215248--8215449 Score: 169
Period size: 25 Copynumber: 8.8 Consensus size: 24
8215238 TTCACATCTC
*
8215248 AAAGATTCTTATTTGAA-ATTC--
1 AAAGATTCTCATTTGAAGATTCTT
*
8215269 AAAGATTCTCATTTGAGGATTTCTT
1 AAAGATTCTCATTTGAAGA-TTCTT
* *
8215294 AAAGATTCTTATTTGAATATTTCTT
1 AAAGATTCTCATTTGAAGA-TTCTT
*
8215319 AAAGATTCTCATTT-AAGA--CTC
1 AAAGATTCTCATTTGAAGATTCTT
*
8215340 AAAGCTTCTCATTTGAAGACTTCTT
1 AAAGATTCTCATTTGAAGA-TTCTT
*
8215365 AAAGATTCTCA-TTCAAGA--CTT
1 AAAGATTCTCATTTGAAGATTCTT
8215386 AAAGATTCTCATTT-AAGA--CTT
1 AAAGATTCTCATTTGAAGATTCTT
* * *
8215407 AAAGGTTCTTATTTGAGGATTTCTT
1 AAAGATTCTCATTTGAAGA-TTCTT
* *
8215432 AAAGGTTCTTATTT-AAGA
1 AAAGATTCTCATTTGAAGA
8215450 AATCAAGATT
Statistics
Matches: 152, Mismatches: 16, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
21 63 0.41
22 10 0.07
23 3 0.02
24 12 0.08
25 64 0.42
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (24 bp):
AAAGATTCTCATTTGAAGATTCTT
Found at i:8215388 original size:21 final size:21
Alignment explanation
Indices: 8215316--8215420 Score: 129
Period size: 21 Copynumber: 4.8 Consensus size: 21
8215306 TTGAATATTT
8215316 CTTAAAGATTCTCATTTAAGA
1 CTTAAAGATTCTCATTTAAGA
* *
8215337 CTCAAAGCTTCTCATTTGAAGA
1 CTTAAAGATTCTCATTT-AAGA
*
8215359 CTTCTTAAAGATTCTCATTCAAGA
1 ---CTTAAAGATTCTCATTTAAGA
8215383 CTTAAAGATTCTCATTTAAGA
1 CTTAAAGATTCTCATTTAAGA
* *
8215404 CTTAAAGGTTCTTATTT
1 CTTAAAGATTCTCATTT
8215421 GAGGATTTCT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
21 50 0.69
22 4 0.06
24 4 0.06
25 14 0.19
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.39
Consensus pattern (21 bp):
CTTAAAGATTCTCATTTAAGA
Found at i:8215458 original size:67 final size:67
Alignment explanation
Indices: 8215249--8215461 Score: 230
Period size: 67 Copynumber: 3.1 Consensus size: 67
8215239 TCACATCTCA
* * *
8215249 AAGATTCTTATTTGAA-ATTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTTATTTGAATA
1 AAGATTCTCATTT-AAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTTATTT-AAGA
*
8215313 TTTC
64 ATTC
* * * * *
8215317 TTAAAGATTCTCATTTAAGACTCAAAGCTTCTCATTTGAAGACTTCTTAAAGATTCTCATTCAAG
1 ---AAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTTATTTAAG
* *
8215382 ACTTA
63 AATTC
* * * * *
8215387 AAGATTCTCATTTAAGACTTAAAGGTTCTTATTTGAGGATTTCTTAAAGGTTCTTATTTAAGAAA
1 AAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTTATTTAAGAAT
8215452 TC
66 TC
8215454 AAGATTCT
1 AAGATTCT
8215462 TATCAAAAGA
Statistics
Matches: 120, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
67 64 0.53
70 7 0.06
71 49 0.41
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (67 bp):
AAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTTATTTAAGAAT
TC
Found at i:8216646 original size:13 final size:12
Alignment explanation
Indices: 8216628--8216668 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 12
8216618 TTCCATTTTA
8216628 TTTTTTTTCC-T
1 TTTTTTTTCCTT
*
8216639 CTTTTTTTCCTT
1 TTTTTTTTCCTT
8216651 TTTTCTTTTCCTT
1 TTTT-TTTTCCTT
8216664 TTTTT
1 TTTTT
8216669 CTTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 9 0.35
12 5 0.19
13 12 0.46
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTTCCTT
Found at i:8216667 original size:24 final size:24
Alignment explanation
Indices: 8216628--8216683 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
8216618 TTCCATTTTA
8216628 TTTT-TTTTCCTCTTTTT-TTCCTT
1 TTTTCTTTTCCTCTTTTTCTT-CTT
* *
8216651 TTTTCTTTTCCTTTTTTTCTTTTT
1 TTTTCTTTTCCTCTTTTTCTTCTT
8216675 TTTTCTTTT
1 TTTTCTTTT
8216684 TTTCTTTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 23 0.79
25 2 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTCTTTTCCTCTTTTTCTTCTT
Found at i:8216676 original size:8 final size:8
Alignment explanation
Indices: 8216638--8216690 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
8216628 TTTTTTTTCC
8216638 TCTTTTTT
1 TCTTTTTT
*
8216646 TCCTTTTT
1 TCTTTTTT
8216654 TC--TTTT
1 TCTTTTTT
*
8216660 CCTTTTTT
1 TCTTTTTT
8216668 TCTTTTTTTT
1 TC--TTTTTT
8216678 TCTTTTTT
1 TCTTTTTT
8216686 TCTTT
1 TCTTT
8216691 CACCCATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 5 0.13
8 25 0.66
10 8 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TCTTTTTT
Found at i:8216676 original size:32 final size:33
Alignment explanation
Indices: 8216629--8216690 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
8216619 TCCATTTTAT
8216629 TTTTTTTCCTCTTTTTTTCCTTTTTTCTTTTCC
1 TTTTTTTCCTCTTTTTTTCCTTTTTTCTTTTCC
* *
8216662 TTTTTTT-CTTTTTTTTTCTTTTTTTCTTT
1 TTTTTTTCCTCTTTTTTTCCTTTTTTCTTT
8216691 CACCCATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (33 bp):
TTTTTTTCCTCTTTTTTTCCTTTTTTCTTTTCC
Found at i:8219481 original size:17 final size:16
Alignment explanation
Indices: 8219439--8219482 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
8219429 ATGATCATGA
8219439 AAATGATGCATAGAAT
1 AAATGATGCATAGAAT
*
8219455 AAAGTAATGCATAGAAT
1 AAA-TGATGCATAGAAT
*
8219472 GCAATGATGCA
1 -AAATGATGCA
8219483 GATACACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 3 0.13
17 18 0.78
18 2 0.09
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (16 bp):
AAATGATGCATAGAAT
Found at i:8220720 original size:60 final size:59
Alignment explanation
Indices: 8220643--8221003 Score: 368
Period size: 56 Copynumber: 6.2 Consensus size: 59
8220633 ATTTGGAAGT
* * * *
8220643 TTTTA-TTTTAAGGAAAATTGATAATTTTAATTTTTTCTCAAAATATTCTTTTTCTAAAA
1 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATT-TTTTTCTAAAA
* * * * *
8220702 TTTTAATTTCAAGGAAAATTGATACTTTCAACTTTTCTTCAAAA-A--ATATT-TAGAAA
1 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTCTA-AAA
* * *
8220758 TTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTTTCTTGAAA
1 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTC-TAAAA
* * * * *
8220818 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAA-A--ATATT-TAGAAA
1 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTCTA-AAA
* * *
8220874 TTTTACTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAACACTTTTTTTCTTGAAA
1 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATA-TTTTTTTC-TAAAA
*
8220935 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCC-CAAAA-ATATTTTTT-AAAAA
1 TTTTATTTTTAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAATAT-TTTTTTCTAAAA
8220993 TTTTTATTTTT
1 -TTTTATTTTT
8221004 CTTAAATTTA
Statistics
Matches: 253, Mismatches: 32, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
55 3 0.01
56 89 0.35
57 5 0.02
58 3 0.01
59 21 0.08
60 85 0.34
61 40 0.16
62 7 0.03
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.48
Consensus pattern (59 bp):
TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTCTAAAA
Found at i:8220968 original size:117 final size:116
Alignment explanation
Indices: 8220597--8220970 Score: 526
Period size: 116 Copynumber: 3.2 Consensus size: 116
8220587 TGCTTTTGTA
* ** * *
8220597 CAAGGAAATTTGATACTTTCAACTTTTCCTT--AAAGCATTTGGAAGTTTTTATTTTAAGGAAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAATATTTAGAA-ATTTTATTTTAAGGAAAA
* * * * * *
8220660 TTGATAATTTTAATTTTTTCTCAAAATA-TTCTTTTTC-TAAAATTTTAATTT
65 TTGATACTTTCAACTTTTCCTCAAAATACTT-TTTTTCTTGAAATTTTATTTT
*
8220711 CAAGGAAAATTGATACTTTCAACTTTT-CTTCAAAAAATATTTAGAAATTTTATTTTTAAAGAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTT-AAAAAATATTTAGAAATTTTA-TTTTAAGGAAA
8220775 ATTGATACTTTCAACTTTTCCTCAAAATAC-TTTTTTCTTGAAATTTTATTTT
64 ATTGATACTTTCAACTTTTCCTCAAAATACTTTTTTTCTTGAAATTTTATTTT
*
8220827 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAATATTTAGAAATTTTACTTTTAAGGAAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAATATTTAGAAATTTTA-TTTTAAGGAAAA
*
8220892 TTGATACTTTCAACTTTTCCTCAAAACACTTTTTTTCTTGAAATTTTATTTT
65 TTGATACTTTCAACTTTTCCTCAAAATACTTTTTTTCTTGAAATTTTATTTT
*
8220944 TAAGGAAAATTGATACTTTCAACTTTT
1 CAAGGAAAATTGATACTTTCAACTTTT
8220971 TCCCAAAAAT
Statistics
Matches: 234, Mismatches: 18, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
113 3 0.01
114 26 0.11
115 11 0.05
116 144 0.62
117 50 0.21
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (116 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAATATTTAGAAATTTTATTTTAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAATACTTTTTTTCTTGAAATTTTATTTT
Found at i:8221077 original size:12 final size:12
Alignment explanation
Indices: 8221024--8221077 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
8221014 ATCATAAAAG
8221024 AAAAAAATACTA
1 AAAAAAATACTA
*
8221036 AATAAAATACTA
1 AAAAAAATACTA
*
8221048 AATAAAATA--A
1 AAAAAAATACTA
8221058 ATAAAAAATACTA
1 A-AAAAAATACTA
8221071 AAAAAAA
1 AAAAAAA
8221078 AAAAATGGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
10 2 0.05
11 7 0.19
12 26 0.70
13 2 0.05
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAAAAATACTA
Found at i:8221079 original size:16 final size:17
Alignment explanation
Indices: 8221024--8221083 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
8221014 ATCATAAAAG
8221024 AAAAAAATACTAAATAA
1 AAAAAAATACTAAATAA
*
8221041 AATACTAAATA--AAATAA
1 AA-A-AAAATACTAAATAA
*
8221058 ATAAAAAATACTAAAAAA
1 A-AAAAAATACTAAATAA
8221076 AAAAAAAT
1 AAAAAAAT
8221084 GGCTCGACCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 5 0.14
17 17 0.49
18 8 0.23
19 5 0.14
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAAATACTAAATAA
Found at i:8221369 original size:16 final size:18
Alignment explanation
Indices: 8221345--8221378 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
8221335 CTTCCCTCTC
8221345 TCTCTTCCCTTTC-CTTT
1 TCTCTTCCCTTTCTCTTT
8221362 TCTC-TCCCTTTCTCTTT
1 TCTCTTCCCTTTCTCTTT
8221379 AAAAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (18 bp):
TCTCTTCCCTTTCTCTTT
Found at i:8221565 original size:31 final size:31
Alignment explanation
Indices: 8221503--8221567 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
8221493 AGATTCTGGG
* *
8221503 AAACCTACCAAAAAATTCAACCGGCATCGAA
1 AAACCTACCAAAAAATTCAACAGGCACCGAA
* *
8221534 AAACCTATCAAAAAATTCAACAGGCGCCGAA
1 AAACCTACCAAAAAATTCAACAGGCACCGAA
8221565 AAA
1 AAA
8221568 TTTCATCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.51, C:0.26, G:0.11, T:0.12
Consensus pattern (31 bp):
AAACCTACCAAAAAATTCAACAGGCACCGAA
Found at i:8221693 original size:16 final size:16
Alignment explanation
Indices: 8221669--8221699 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8221659 CTCTCTGTTT
8221669 TTCTATGTTTTTTTTG
1 TTCTATGTTTTTTTTG
*
8221685 TTCTCTGTTTTTTTT
1 TTCTATGTTTTTTTT
8221700 CTGTTATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.10, G:0.10, T:0.77
Consensus pattern (16 bp):
TTCTATGTTTTTTTTG
Found at i:8222142 original size:2 final size:2
Alignment explanation
Indices: 8222135--8222159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8222125 AAGGCTTTGC
8222135 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8222160 TTGAAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8225812 original size:26 final size:25
Alignment explanation
Indices: 8225796--8225843 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8225786 ATAATTATCC
8225796 AATGATAAAATT-TATAAAAATTTCA
1 AATGATAAAATTCTAT-AAAATTTCA
* *
8225821 AATGGTAAATTTCTATAAAATTT
1 AATGATAAAATTCTATAAAATTT
8225844 TTAGGTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (25 bp):
AATGATAAAATTCTATAAAATTTCA
Found at i:8227519 original size:59 final size:57
Alignment explanation
Indices: 8227452--8227730 Score: 360
Period size: 59 Copynumber: 4.7 Consensus size: 57
8227442 TCTTGTGTAG
8227452 GAAAAATTGATACTTTCAACTTTTCCCCCAAAAATATTTTTTGAAACTTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTT-CCCCAAAAATATTTTTTGAAA-TTTTATTTTCAA
* * * *
8227511 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAATTTTA-TTTTCAA
* *
8227570 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAA-TTTTATTTTCAA
* * * *
8227629 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTTTAAATTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA----TATTTTTTGAAATTTTATTTTCAA
* *
8227690 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
8227731 TTGATTTTTA
Statistics
Matches: 196, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
57 7 0.04
58 20 0.10
59 114 0.58
60 3 0.02
61 42 0.21
62 3 0.02
63 7 0.04
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAATTTTATTTTCAA
Found at i:8227591 original size:118 final size:118
Alignment explanation
Indices: 8227452--8227730 Score: 420
Period size: 118 Copynumber: 2.3 Consensus size: 118
8227442 TCTTGTGTAG
* *
8227452 GAAAAATTGATACTTTCAACTTTTCCCCCAAAAATATTTTTT-GAAACTTTTATTTTCAAGGAAA
1 GAAAAATTGATACTTTCAACTTTT-CCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGAAAA
8227516 ATTGATACTTTCAACTTTTTCC-CAAAAA-TATTTTTTTGAAAATTTATTTTTTAA
65 ATTGATACTTTCAAC-TTTTCCTCAAAAACTATTTTTTTGAAAATTTA-TTTTTAA
*
8227570 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGAAAAA
* * *
8227635 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTTTAAATTTTATTTTTAA
66 TTGATACTTTCAACTTTTCCTCAAAAA--CTATTTTTTTGAAAATTTATTTTTAA
* *
8227690 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
8227731 TTGATTTTTA
Statistics
Matches: 147, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
117 23 0.16
118 64 0.44
120 45 0.31
121 15 0.10
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (118 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGAAAAA
TTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTTGAAAATTTATTTTTAA
Found at i:8227794 original size:6 final size:6
Alignment explanation
Indices: 8227783--8227831 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
8227773 AAGTGGAAAT
*
8227783 AAATAA AAATAA AAA-AA TAAA-AA AAAGT-A AAACAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA -AAATAA AAA-TAA AAATAA AAATAA AAATAA
8227830 AA
1 AA
8227832 TTAAGATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:8227802 original size:18 final size:18
Alignment explanation
Indices: 8227779--8227831 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
8227769 ATAAAAGTGG
8227779 AAATAAATAAAAATAAAA
1 AAATAAATAAAAATAAAA
8227797 AAATAAA-AAAAAGTAAAA
1 AAATAAATAAAAA-TAAAA
*
8227815 CAA-AAATAAAAATAAAA
1 AAATAAATAAAAATAAAA
8227832 TTAAGATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (18 bp):
AAATAAATAAAAATAAAA
Found at i:8227807 original size:17 final size:18
Alignment explanation
Indices: 8227743--8227856 Score: 72
Period size: 18 Copynumber: 6.0 Consensus size: 18
8227733 GATTTTTATT
* *
8227743 TAAAGAAAATAGAAT-AA
1 TAAAAAAAATAAAATAAA
*
8227760 TGAAACAAAATAAAAGTGGAAA
1 T-AAAAAAAATAAAA-T--AAA
8227782 TAAATAAAAATAAAA-AAA
1 TAAA-AAAAATAAAATAAA
*
8227800 TAAAAAAAAGTAAAACAAA
1 TAAAAAAAA-TAAAATAAA
*
8227819 -AATAAAAATAAAATTAAGA
1 TAAAAAAAATAAAA-TAA-A
*
8227838 TAAAAAAATATTAAATAAA
1 TAAAAAAA-ATAAAATAAA
8227857 CCTACTCTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
17 11 0.14
18 32 0.41
19 6 0.08
20 9 0.12
21 8 0.10
22 12 0.15
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.18
Consensus pattern (18 bp):
TAAAAAAAATAAAATAAA
Found at i:8227831 original size:11 final size:11
Alignment explanation
Indices: 8227779--8227856 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
8227769 ATAAAAGTGG
8227779 AAAT-AAATAA
1 AAATAAAATAA
*
8227789 AAATAAAAAAA
1 AAATAAAATAA
*
8227800 TAAAAAAAAGTAA
1 -AAATAAAA-TAA
8227813 AACA-AAAATAA
1 AA-ATAAAATAA
*
8227824 AAATAAAATTA
1 AAATAAAATAA
*
8227835 AGATAAAA-AA
1 AAATAAAATAA
* *
8227845 ATATTAAATAA
1 AAATAAAATAA
8227856 A
1 A
8227857 CCTACTCTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
10 12 0.22
11 26 0.48
12 13 0.24
13 3 0.06
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:8227850 original size:16 final size:16
Alignment explanation
Indices: 8227782--8227856 Score: 55
Period size: 17 Copynumber: 4.5 Consensus size: 16
8227772 AAAGTGGAAA
*
8227782 TAAATAAAAATAAAAAAA
1 TAAATAAAAAT--AAAAT
*
8227800 TAAA-AAAAAGTAAAACA
1 TAAATAAAAA-TAAAA-T
*
8227817 AAAATAAAAATAAAAT
1 TAAATAAAAATAAAAT
*
8227833 TAAGATAAAAA-AATAT
1 TAA-ATAAAAATAAAAT
8227849 TAAATAAA
1 TAAATAAA
8227857 CCTACTCTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
15 5 0.10
16 13 0.27
17 21 0.43
18 10 0.20
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (16 bp):
TAAATAAAAATAAAAT
Found at i:8227884 original size:4 final size:4
Alignment explanation
Indices: 8227865--8227907 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
8227855 AACCTACTCT
* *
8227865 AATA AATT AA-A AATA AATA AATAA AACA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AAT
8227908 TTAAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.85
5 3 0.09
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:8228583 original size:12 final size:12
Alignment explanation
Indices: 8228566--8228590 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8228556 ATTGATTAGG
8228566 AGTTTCTGATCA
1 AGTTTCTGATCA
8228578 AGTTTCTGATCA
1 AGTTTCTGATCA
8228590 A
1 A
8228591 TCTCAATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
AGTTTCTGATCA
Found at i:8228701 original size:17 final size:18
Alignment explanation
Indices: 8228679--8228712 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8228669 GATAAATCAA
8228679 AAAAAAT-AAAAGAAAAG
1 AAAAAATCAAAAGAAAAG
*
8228696 AAAAAATCAAACGAAAA
1 AAAAAATCAAAAGAAAA
8228713 TAAATCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (18 bp):
AAAAAATCAAAAGAAAAG
Found at i:8228930 original size:7 final size:6
Alignment explanation
Indices: 8228891--8228951 Score: 65
Period size: 6 Copynumber: 10.2 Consensus size: 6
8228881 TATATAAAAT
*
8228891 AATAAT AATAAA AAT-AA AATAAA AATGTAAA AATACAA AATAAA AAT--A
1 AATAAA AATAAA AATAAA AATAAA AA--TAAA AATA-AA AATAAA AATAAA
8228939 AATAAA AATAAA A
1 AATAAA AATAAA A
8228952 TGAAGAGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
4 4 0.08
5 5 0.10
6 27 0.56
7 6 0.12
8 6 0.12
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:8228932 original size:21 final size:19
Alignment explanation
Indices: 8228884--8228952 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 19
8228874 ATATACATAT
* *
8228884 ATAAAATAATAATAATAAAA
1 ATAAAATAAAAAT-GTAAAA
8228904 ATAAAATAAAAATGTAAAA
1 ATAAAATAAAAATGTAAAA
*
8228923 ATACAAAATAAAAATAAATAAAA
1 AT--AAAATAAAAAT--GTAAAA
8228946 ATAAAAT
1 ATAAAAT
8228953 GAAGAGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.17
20 12 0.29
21 16 0.38
23 7 0.17
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (19 bp):
ATAAAATAAAAATGTAAAA
Found at i:8229286 original size:41 final size:42
Alignment explanation
Indices: 8229151--8229364 Score: 292
Period size: 42 Copynumber: 5.1 Consensus size: 42
8229141 TTTGATCAAA
* * * * * *
8229151 GCTCCTCTGAACAGAGGCTCAACAACTTTGAAAAAATAAACT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
8229193 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* *
8229235 GCTTCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
8229276 GCTCCTCTAAACAGAGACACCACGACTTTG-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
8229317 GCTCCTCTAAACAGAGGCA--ACGAAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAAGTAAATT
8229359 GCTCCT
1 GCTCCT
8229365 TGACAATCAT
Statistics
Matches: 157, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
41 71 0.45
42 83 0.53
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
Found at i:8229289 original size:83 final size:82
Alignment explanation
Indices: 8229151--8229364 Score: 288
Period size: 83 Copynumber: 2.6 Consensus size: 82
8229141 TTTGATCAAA
* * * * * *
8229151 GCTCCTCTGAACAGAGGCTCAACAACTTTGAAAAAATAAACTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCAC-ACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGACACCAC
8229216 GACTTTGAAAAAATAAATT
65 GACTTTG-AAAAATAAATT
* *
8229235 GCTTCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGACACCAC
1 GCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGACACCAC
*
8229299 GACTTTGAAAAGTAAATT
65 GACTTTGAAAAATAAATT
8229317 GCTCCTCTAAACAGAGGCA-ACGAAACTTTGAAAAAGTAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACACG--ACTTTGAAAAAGTAAATTGCTCCT
8229365 TGACAATCAT
Statistics
Matches: 115, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
80 3 0.03
82 34 0.30
83 53 0.46
84 24 0.21
85 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGACACCACG
ACTTTGAAAAATAAATT
Found at i:8230676 original size:21 final size:21
Alignment explanation
Indices: 8230633--8230672 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8230623 TTCATTCTTT
*
8230633 TTTTTTCTTTTTTTTTCATCA
1 TTTTTTCTTTTATTTTCATCA
8230654 TTTTTT-TTTTATTTTCATC
1 TTTTTTCTTTTATTTTCATC
8230673 CATTGTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTCTTTTATTTTCATCA
Found at i:8234656 original size:59 final size:58
Alignment explanation
Indices: 8234593--8234827 Score: 246
Period size: 60 Copynumber: 3.9 Consensus size: 58
8234583 GTTCTTGTGT
8234593 AGGAAAATTGATACTTTTAACTTTTTCCCCAAAAATATTTTTT-GAAACTTTTATTTTCA
1 AGGAAAATTGATACTTTTAAC-TTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTT-A
* * * *
8234652 AGGAAAATTGATACTTTCAAACATTCTCCCCACCAAAATATTTTTTTGAAAATCTATT-TTTTA
1 AGGAAAATTGATACTTT-TAAC-TTTTCCCCA--AAAATA-TTTTTTGGAAA-CTTTTATTTTA
*
8234715 AGAGAAAATTGATA-TTTTCAACTTTTCCCCAAAATAGATTTTTCTGGAAA--TTTATTTTA
1 AG-GAAAATTGATACTTTT-AACTTTTCCCCAAAA-ATATTTTT-TGGAAACTTTTATTTTA
*
8234774 AGGGCAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTATTTGGAAACTTT
1 A-GG-AAAATTGATACTTTTAACTTTTCCCCAAAAATATTT-TTTGGAAACTTT
8234828 GACTTTTCAA
Statistics
Matches: 147, Mismatches: 12, Indels: 32
0.77 0.06 0.17
Matches are distributed among these distances:
58 2 0.01
59 35 0.24
60 47 0.32
61 12 0.08
62 14 0.10
63 15 0.10
64 18 0.12
65 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (58 bp):
AGGAAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTA
Found at i:8235004 original size:17 final size:17
Alignment explanation
Indices: 8234984--8235058 Score: 68
Period size: 16 Copynumber: 4.5 Consensus size: 17
8234974 ATAATGAAAC
* *
8234984 AAATAAAAGTGAAATAT
1 AAATAAAAGTAAAAAAT
8235001 AAATAAAA-TAAAAAAT
1 AAATAAAAGTAAAAAAT
*
8235017 AAAGAAAAGTACAACAAA-
1 AAATAAAAGTA-AA-AAAT
8235035 AAATAAAA-TAAAATAA-
1 AAATAAAAGTAAAA-AAT
8235051 AAATAAAA
1 AAATAAAA
8235059 AGATATTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
15 1 0.02
16 25 0.50
17 12 0.24
18 9 0.18
19 3 0.06
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
AAATAAAAGTAAAAAAT
Found at i:8235009 original size:11 final size:10
Alignment explanation
Indices: 8234984--8235058 Score: 51
Period size: 11 Copynumber: 6.8 Consensus size: 10
8234974 ATAATGAAAC
*
8234984 AAATAAAAGTG
1 AAATAAAA-TA
8234995 AAATATAAATA
1 AAATA-AAATA
*
8235006 AAATAAAAAA
1 AAATAAAATA
*
8235016 TAAAGAAAAGTA
1 -AAATAAAA-TA
*
8235028 CAACAAAAAATA
1 -AA-ATAAAATA
8235040 AAATAAAATAA
1 AAATAAAAT-A
8235051 AAATAAAA
1 AAATAAAA
8235059 AGATATTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
10 10 0.19
11 29 0.56
12 8 0.15
13 5 0.10
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (10 bp):
AAATAAAATA
Found at i:8235011 original size:5 final size:5
Alignment explanation
Indices: 8234984--8235058 Score: 51
Period size: 5 Copynumber: 13.6 Consensus size: 5
8234974 ATAATGAAAC
* * * *
8234984 AAATA AAAGTG AAATA TAAATA AAATA AAAAA TAAAGA AAAGTA CAACAAA
1 AAATA AAA-TA AAATA -AAATA AAATA AAATA -AAATA AAA-TA -AA-ATA
8235035 AAATA AAATA AAATAA AAATA AAA
1 AAATA AAATA AAAT-A AAATA AAA
8235059 AGATATTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
5 31 0.55
6 21 0.38
7 3 0.05
8 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:8235058 original size:22 final size:22
Alignment explanation
Indices: 8234984--8235059 Score: 59
Period size: 22 Copynumber: 3.4 Consensus size: 22
8234974 ATAATGAAAC
* *
8234984 AAATAAAAGTGAAATATAAAT-A
1 AAATAAAAATAAAATA-AAATAA
*
8235006 AAATAAAAAATAAAGA-AAAGTACA
1 AAAT-AAAAATAAA-ATAAAATA-A
*
8235030 ACA-AAAAATAAAATAAAATAA
1 AAATAAAAATAAAATAAAATAA
8235051 AAATAAAAA
1 AAATAAAAA
8235060 GATATTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
21 4 0.10
22 26 0.62
23 8 0.19
24 4 0.10
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (22 bp):
AAATAAAAATAAAATAAAATAA
Found at i:8235100 original size:4 final size:4
Alignment explanation
Indices: 8235086--8235131 Score: 65
Period size: 4 Copynumber: 11.0 Consensus size: 4
8235076 TACTCTAATA
*
8235086 AAAT AAAAT AAAT AAAT AAAAT AAAT AAAC AAAT AAAT AAAT AAAT
1 AAAT -AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
8235132 TCAAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 30 0.79
5 8 0.21
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:8235104 original size:13 final size:13
Alignment explanation
Indices: 8235086--8235130 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
8235076 TACTCTAATA
8235086 AAATAAAATAAAT
1 AAATAAAATAAAT
8235099 AAATAAAATAAAT
1 AAATAAAATAAAT
*
8235112 AAA-CAAATAAAT
1 AAATAAAATAAAT
8235124 AAATAAA
1 AAATAAA
8235131 TTCAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:8239774 original size:21 final size:21
Alignment explanation
Indices: 8239748--8239789 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
8239738 AAAGCATGAT
8239748 CTTAGGAGCTTTCAATTCCTA
1 CTTAGGAGCTTTCAATTCCTA
8239769 CTTAGGAGCTTTCAATTCCTA
1 CTTAGGAGCTTTCAATTCCTA
8239790 TGGTACTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (21 bp):
CTTAGGAGCTTTCAATTCCTA
Found at i:8243830 original size:12 final size:12
Alignment explanation
Indices: 8243797--8243830 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8243787 ATTTGAATTA
8243797 TAAATAATATTT
1 TAAATAATATTT
8243809 T-AATAATATTT
1 TAAATAATATTT
*
8243820 TAAATATTATT
1 TAAATAATATT
8243831 AATCTTCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TAAATAATATTT
Found at i:8244680 original size:128 final size:130
Alignment explanation
Indices: 8244520--8244752 Score: 416
Period size: 128 Copynumber: 1.8 Consensus size: 130
8244510 TTGATCGGAT
*
8244520 GAAATTTTCCAGCGCCCCGAGAAATCCAAGTTTGCTTTTCCTTATAATTTGCTGGTAATTTCTTA
1 GAAATTTTCCAGCGCCCCGAGAAATCCAAGTTTACTTTTCCTTATAATTTGCTGGTAATTTCTTA
*
8244585 GCTAGCTAGTTATTGAATTTCATTAACTTTTTCTTATTTTTCCAATGGTTGTTTGATTGAGGGCC
66 GCTAGCTAGTTATTGAATTTAATTAACTTTTTCTTATTTTTCCAATGGTTGTTTGATTGAGGGCC
*
8244650 GAAATTTTCC-G-GCGCCGAGAAATCCAAGTTTACTTTTCCTTATAATTTGCTGGTAATTTCTTA
1 GAAATTTTCCAGCGCCCCGAGAAATCCAAGTTTACTTTTCCTTATAATTTGCTGGTAATTTCTTA
*
8244713 GCTAGCTATTTATTGAATTTAATTAACTTTTTCTTATTTT
66 GCTAGCTAGTTATTGAATTTAATTAACTTTTTCTTATTTT
8244753 GAAAGAAGTA
Statistics
Matches: 99, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
128 88 0.89
129 1 0.01
130 10 0.10
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.45
Consensus pattern (130 bp):
GAAATTTTCCAGCGCCCCGAGAAATCCAAGTTTACTTTTCCTTATAATTTGCTGGTAATTTCTTA
GCTAGCTAGTTATTGAATTTAATTAACTTTTTCTTATTTTTCCAATGGTTGTTTGATTGAGGGCC
Found at i:8249115 original size:26 final size:24
Alignment explanation
Indices: 8249086--8249148 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
8249076 AATTTAGATA
*
8249086 AAATTTCTCATCTAAGAATTTTATAG
1 AAATTTCTCAT-T-AGAAATTTATAG
* * *
8249112 AAATTTATCATTTGAAATTTATAT
1 AAATTTCTCATTAGAAATTTATAG
8249136 AAATTTCATCATT
1 AAATTTC-TCATT
8249149 GAATAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 15 0.48
25 6 0.19
26 10 0.32
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.46
Consensus pattern (24 bp):
AAATTTCTCATTAGAAATTTATAG
Found at i:8249158 original size:25 final size:24
Alignment explanation
Indices: 8249106--8249158 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8249096 TCTAAGAATT
*
8249106 TTATAGAAATTTATCATTTGAAAT
1 TTATAGAAATTTATCATTTGAAAA
*
8249130 TTATATAAATTTCATCA-TTGAATAA
1 TTATAGAAATTT-ATCATTTGAA-AA
8249155 TTAT
1 TTAT
8249159 TATTTATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (24 bp):
TTATAGAAATTTATCATTTGAAAA
Found at i:8249889 original size:41 final size:41
Alignment explanation
Indices: 8249862--8250140 Score: 297
Period size: 41 Copynumber: 6.6 Consensus size: 41
8249852 GAGGCTCCGT
* * *
8249862 AACTTTCAAAAATAAAAGGCTCCTTTAAATAGAGGCACAAC
1 AACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCACCAC
* * * *
8249903 AACTTTGAAAAATAAAAAGCCCCTCTAAATAGAGGCTCAAC
1 AACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCACCAC
* * * * *
8249944 GACTTTGAAAAATAAAAAGTTAAAAAGTTTCTCTAAATAGAGGCACAAT
1 AACTTTGAAAAAT-AAAAG-------GCTCCTCTAAATAGAGGCACCAC
* * *
8249993 AACTTTGAAAAATGAAAGGCTCCTCTAAACAGAGGCTCCAC
1 AACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCACCAC
** *
8250034 AACTTTGAAAAATAAAATACTCCTCTAAATAGAGGCACCAT
1 AACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCACCAC
* *
8250075 AACTTTGAAAAAGTAAAATGCTCCTCTAAACAGAGGCACCAC
1 AACTTTGAAAAA-TAAAAGGCTCCTCTAAATAGAGGCACCAC
8250117 AACTTTGAAAAATAAAAGGCTCCT
1 AACTTTGAAAAATAAAAGGCTCCT
8250141 TGACAATCAT
Statistics
Matches: 199, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
41 123 0.62
42 42 0.21
48 4 0.02
49 30 0.15
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.22
Consensus pattern (41 bp):
AACTTTGAAAAATAAAAGGCTCCTCTAAATAGAGGCACCAC
Found at i:8250027 original size:90 final size:90
Alignment explanation
Indices: 8249887--8250050 Score: 265
Period size: 90 Copynumber: 1.8 Consensus size: 90
8249877 AAGGCTCCTT
* *
8249887 TAAATAGAGGCACAACAACTTTGAAAAATAAAAAGCCCCTCTAAATAGAGGCTCAACGACTTTGA
1 TAAATAGAGGCACAACAACTTTGAAAAATAAAAAGCCCCTCTAAACAGAGGCTCAACAACTTTGA
8249952 AAAATAAAAAGTTAAAAAGTTTCTC
66 AAAATAAAAAGTTAAAAAGTTTCTC
* * * * *
8249977 TAAATAGAGGCACAATAACTTTGAAAAATGAAAGGCTCCTCTAAACAGAGGCTCCACAACTTTGA
1 TAAATAGAGGCACAACAACTTTGAAAAATAAAAAGCCCCTCTAAACAGAGGCTCAACAACTTTGA
8250042 AAAATAAAA
66 AAAATAAAA
8250051 TACTCCTCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 67 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (90 bp):
TAAATAGAGGCACAACAACTTTGAAAAATAAAAAGCCCCTCTAAACAGAGGCTCAACAACTTTGA
AAAATAAAAAGTTAAAAAGTTTCTC
Found at i:8251050 original size:63 final size:63
Alignment explanation
Indices: 8250978--8251120 Score: 171
Period size: 63 Copynumber: 2.3 Consensus size: 63
8250968 CTAGCCATCT
* * * * *
8250978 CAGAACAAATTAT-ATCCTCTATCACTTGGTCACCACTCATAGGTTTCTCAATACTAGTTATTC
1 CAGAACAAATT-TCATCCTCCAACACTAGGTCACCACTCATAGATTTCTCAACACTAGTTATTC
* *** *
8251041 CAGAACAAATTTCATCCTCCAACACTAGGTCACCACTTATAGATTTCTCAACACTAACCATTT
1 CAGAACAAATTTCATCCTCCAACACTAGGTCACCACTCATAGATTTCTCAACACTAGTTATTC
*
8251104 TAGAACAAATTTCATCC
1 CAGAACAAATTTCATCC
8251121 ACTAATCTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 1 0.01
63 67 0.99
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (63 bp):
CAGAACAAATTTCATCCTCCAACACTAGGTCACCACTCATAGATTTCTCAACACTAGTTATTC
Found at i:8251733 original size:16 final size:15
Alignment explanation
Indices: 8251714--8251806 Score: 53
Period size: 16 Copynumber: 5.7 Consensus size: 15
8251704 TTTTTCTTTT
8251714 TTTTCTCTTTTTCATC
1 TTTTCT-TTTTTCATC
*
8251730 TTTT-TTTTTCCATTC
1 TTTTCTTTTTTCA-TC
* * *
8251745 CTTTATTTTTTCATTTT
1 TTTTCTTTTTTCA--TC
*
8251762 TTTCCTCTTTTTTTATC
1 TTT--TCTTTTTTCATC
*
8251779 TTTATCTTTTTTCTTC
1 TTT-TCTTTTTTCATC
8251795 TTTTCCTTTTTT
1 TTTT-CTTTTTT
8251807 TTTTTCTATT
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
14 6 0.10
15 7 0.12
16 31 0.52
17 8 0.13
19 8 0.13
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCTTTTTTCATC
Found at i:8254961 original size:7 final size:6
Alignment explanation
Indices: 8254930--8254991 Score: 69
Period size: 6 Copynumber: 10.5 Consensus size: 6
8254920 TTTCTCTTCA
8254930 TTTTAT TTTTA- -TTTAT TTTTAT TTTGTAT TTTTACAT TTTTA- TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTT--AT TTTTAT TTTTAT
8254977 TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTT
8254992 ATTATTTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
4 4 0.08
5 10 0.20
6 24 0.48
7 6 0.12
8 6 0.12
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:8254972 original size:31 final size:30
Alignment explanation
Indices: 8254934--8254991 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
8254924 TCTTCATTTT
8254934 ATTTTTA-TTTATTTTTATTTTGTATTTTTAC
1 ATTTTTATTTTA-TTTTATTTT-TATTTTTAC
8254965 ATTTTTATTTTATTTTATTTTTATTTT
1 ATTTTTATTTTATTTTATTTTTATTTT
8254992 ATTATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 6 0.23
31 16 0.62
32 4 0.15
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (30 bp):
ATTTTTATTTTATTTTATTTTTATTTTTAC
Found at i:8255000 original size:37 final size:37
Alignment explanation
Indices: 8254930--8255036 Score: 101
Period size: 37 Copynumber: 2.8 Consensus size: 37
8254920 TTTCTCTTCA
*
8254930 TTTTATTTT-TATTTATTTTTATTTT-GTATTTTTACAT
1 TTTTATTTTAT-TTTATTTTTATTTTATTA-TTTTACAT
*
8254967 TTTTATTTTATTTTATTTTTATTTTATTATTTTATAT
1 TTTTATTTTATTTTATTTTTATTTTATTATTTTACAT
* * * * *
8255004 ATGTATATATATTTTTTCTTTTCTTTTATTATT
1 TTTTAT-TTTATTTTAT-TTTTATTTTATTATT
8255037 ATTATTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
37 34 0.58
38 11 0.19
39 14 0.24
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (37 bp):
TTTTATTTTATTTTATTTTTATTTTATTATTTTACAT
Found at i:8255036 original size:47 final size:48
Alignment explanation
Indices: 8254909--8255048 Score: 117
Period size: 48 Copynumber: 2.9 Consensus size: 48
8254899 TAAGTCTGTA
* *
8254909 TATATATATTTTTTCTCTTCATTTTA-T-TTTTATTTATTTT-TATTTTG
1 TATATATATTTTTTCTTTTC-TTTTATTATTTTA-TTATTTTATATTATG
* * * * *
8254956 TATTTTTACATTTTTATTTTATTTTATTTTTATTTTATTATTTTATA-TATG
1 TATATATA-TTTTTTCTTTTCTTTTA---TTATTTTATTATTTTATATTATG
*
8255007 TATATATATTTTTTCTTTTCTTTTATTATTATTATTTTTTTA
1 TATATATATTTTTTCTTTTCTTTTATTATT-TTATTATTTTA
8255049 AGGATTTATG
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
47 16 0.22
48 18 0.25
50 14 0.19
51 17 0.24
52 7 0.10
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (48 bp):
TATATATATTTTTTCTTTTCTTTTATTATTTTATTATTTTATATTATG
Found at i:8255090 original size:3 final size:3
Alignment explanation
Indices: 8255082--8255121 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
8255072 GTATATATCT
*
8255082 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8255122 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8255259 original size:17 final size:18
Alignment explanation
Indices: 8255206--8255259 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
8255196 GATTTATCTG
* *
8255206 ATTTATTTTCGTTTGATTT
1 ATTTATTTT-ATTTTATTT
*
8255225 -TTTCTTTTATTTTA-TT
1 ATTTATTTTATTTTATTT
8255241 ATTTATTTT-TTTTATTT
1 ATTTATTTTATTTTATTT
8255258 AT
1 AT
8255260 CTGATCTGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 7 0.24
17 15 0.52
18 7 0.24
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (18 bp):
ATTTATTTTATTTTATTT
Found at i:8255531 original size:23 final size:23
Alignment explanation
Indices: 8255480--8255528 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
8255470 AATTGAAAAT
*
8255480 AATTTTTTAGAGATTTTTGGCAAA
1 AATTTTTTAGAAATTTTTGG-AAA
8255504 AATTTTTCTAGAAATTTTTGGAAA
1 AATTTTT-TAGAAATTTTTGGAAA
8255528 A
1 A
8255529 TTTCCATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (23 bp):
AATTTTTTAGAAATTTTTGGAAA
Found at i:8256048 original size:4 final size:4
Alignment explanation
Indices: 8256041--8256083 Score: 70
Period size: 4 Copynumber: 11.0 Consensus size: 4
8256031 TTTTTTTTGA
*
8256041 ATTT ATTT ATTT ATTT GTTT ATTT A-TT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
8256084 TTATTAGAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 3 0.08
4 33 0.92
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:8256132 original size:6 final size:6
Alignment explanation
Indices: 8256111--8256187 Score: 56
Period size: 6 Copynumber: 13.7 Consensus size: 6
8256101 TTTAATATTC
* * * * *
8256111 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTAT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
8256156 TTTTTA TTTTTA --TTTA TTTTCA CTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
8256188 GTTTCATTAT
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
4 4 0.07
5 12 0.22
6 38 0.70
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:8256133 original size:17 final size:17
Alignment explanation
Indices: 8256111--8256168 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
8256101 TTTAATATTC
8256111 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
8256128 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
*
8256145 -CTTT-TCTTTATTTTTTA
1 TTTTTATCTTTA--TTTTA
8256162 TTTTTAT
1 TTTTTAT
8256169 TTATTTTCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 4 0.13
16 3 0.10
17 20 0.65
18 3 0.10
19 1 0.03
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:8256171 original size:27 final size:26
Alignment explanation
Indices: 8256124--8256176 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
8256114 TTATCTTTAT
*
8256124 TTTATTTTTATTTTTGTTTTACTTTTC
1 TTTATTTTTATTTTTGATTTA-TTTTC
8256151 TTTATTTTTTATTTTT-ATTTATTTTC
1 TTTA-TTTTTATTTTTGATTTATTTTC
8256177 ACTTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
28 11 0.46
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (26 bp):
TTTATTTTTATTTTTGATTTATTTTC
Found at i:8256182 original size:17 final size:15
Alignment explanation
Indices: 8256042--8256186 Score: 61
Period size: 16 Copynumber: 9.5 Consensus size: 15
8256032 TTTTTTTGAA
8256042 TTTATTTATTTATT-T
1 TTTATTTATTT-TTAT
8256057 GTTTATTTATTATTTA-
1 -TTTATTTATT-TTTAT
8256073 TTTATTTATTTTTAT
1 TTTATTTATTTTTAT
** * **
8256088 TAGA-GTAGGTTTAT
1 TTTATTTATTTTTAT
* *
8256102 TTAATATTCTTTTTAT
1 TTTAT-TTATTTTTAT
8256118 CTTTATTTTATTTTTA-
1 -TTTA-TTTATTTTTAT
*
8256134 -TT-TTT-GTTTTACT
1 TTTATTTATTTTTA-T
*
8256147 TTTCTTTATTTTTTATT
1 TTTATTTA-TTTTTA-T
*
8256164 TTTATTTATTTTCACT
1 TTTATTTATTTTTA-T
8256180 TTTATTT
1 TTTATTT
8256187 TGTTTCATTA
Statistics
Matches: 97, Mismatches: 19, Indels: 26
0.68 0.13 0.18
Matches are distributed among these distances:
11 5 0.05
12 3 0.03
14 17 0.18
15 15 0.15
16 31 0.32
17 25 0.26
18 1 0.01
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (15 bp):
TTTATTTATTTTTAT
Found at i:8256192 original size:16 final size:17
Alignment explanation
Indices: 8256129--8256193 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
8256119 TTTATTTTAT
* *
8256129 TTTTATTTTTGTTTTAC
1 TTTTATTTATGTTTCAC
* * * *
8256146 TTTTCTTTATTTTTTAT
1 TTTTATTTATGTTTCAC
8256163 TTTTATTTAT-TTTCAC
1 TTTTATTTATGTTTCAC
8256179 TTTTATTT-TGTTTCA
1 TTTTATTTATGTTTCA
8256194 TTATTCTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 1 0.03
16 17 0.43
17 22 0.55
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTATTTATGTTTCAC
Found at i:8256282 original size:14 final size:15
Alignment explanation
Indices: 8256258--8256286 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8256248 AAGTATCAAT
8256258 TTTTCTTAAAAAAAA
1 TTTTCTTAAAAAAAA
8256273 TTTT-TTAAAAAAAA
1 TTTTCTTAAAAAAAA
8256287 GGGTTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTTCTTAAAAAAAA
Done.