Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 43 of 84
Found at i:10091034 original size:117 final size:117
Alignment explanation
Indices: 10090902--10091197 Score: 429
Period size: 117 Copynumber: 2.5 Consensus size: 117
10090892 AAAATATTTT
* *
10090902 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTTCCAAAAAATATTTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTCCAAAAAATATTTTTG
* ** **
10090967 GGGAAAAGTTAAAAGTATCAATTTTCTTT-AAAAATATATTTTCAAAAAAGGG
66 GGGAAAAGTTAAAAGTATCAATTTT-TTTAAAAAATAAATTTAAAAAAAAAAG
* *
10091019 TTTTTGAGGAAAAGTTGAAACTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAATATTTTTG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTCCAAAAAATATTTTTG
*
10091084 GGGAAAAGTTGAAAGTATCAATTTTTTTAAAAAATAAATTTAAAAAAAAAAG
66 GGGAAAAGTTAAAAGTATCAATTTTTTTAAAAAATAAATTTAAAAAAAAAAG
* *
10091136 TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCTTCG-AAATTAAAGTTT-CAAAAGAATATTTT
1 TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTCCAAAA-AATATTTT
10091198 AGAAAAAATT
Statistics
Matches: 162, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
115 5 0.03
116 24 0.15
117 133 0.82
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (117 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTCCAAAAAATATTTTTG
GGGAAAAGTTAAAAGTATCAATTTTTTTAAAAAATAAATTTAAAAAAAAAAG
Found at i:10093909 original size:17 final size:17
Alignment explanation
Indices: 10093876--10093915 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
10093866 TTCATAACTG
*
10093876 ATAAATATGTATCATTAA
1 ATAAATATGTATAATT-A
10093894 ATAAATA-GTATAATTA
1 ATAAATATGTATAATTA
10093910 ATAAAT
1 ATAAAT
10093916 CTATATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 7 0.33
18 7 0.33
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (17 bp):
ATAAATATGTATAATTA
Found at i:10100793 original size:25 final size:24
Alignment explanation
Indices: 10100747--10100797 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
10100737 CATTCCTAAT
*
10100747 AAAACAATACACCTAAAAAAATCAA
1 AAAACAATAAACCTAAAAAAAT-AA
*
10100772 AAAACAAATAAACC-AAATAAATAA
1 AAAAC-AATAAACCTAAAAAAATAA
10100796 AA
1 AA
10100798 TCACACACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 12 0.52
26 7 0.30
ACGTcount: A:0.73, C:0.16, G:0.00, T:0.12
Consensus pattern (24 bp):
AAAACAATAAACCTAAAAAAATAA
Found at i:10100815 original size:18 final size:17
Alignment explanation
Indices: 10100772--10100831 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
10100762 AAAAAATCAA
* *
10100772 AAAACAAATAAACCAAAT
1 AAAA-AAATACACAAAAT
*
10100790 AAATAAAATCACACACAAT
1 AAA-AAAAT-ACACAAAAT
10100809 AAAAAAATACACAAACAT
1 AAAAAAATACACAAA-AT
10100827 AAAAA
1 AAAAA
10100832 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 6 0.17
18 19 0.54
19 10 0.29
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAAATACACAAAAT
Found at i:10102581 original size:13 final size:14
Alignment explanation
Indices: 10102563--10102596 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10102553 ATTCTTCATT
10102563 AAAAAA-GCAAAAA
1 AAAAAATGCAAAAA
*
10102576 AAAAAATTCAAAAA
1 AAAAAATGCAAAAA
10102590 AAAAAAT
1 AAAAAAT
10102597 AGAGCTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (14 bp):
AAAAAATGCAAAAA
Found at i:10102587 original size:14 final size:14
Alignment explanation
Indices: 10102570--10102596 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10102560 ATTAAAAAAG
10102570 CAAAAAAAAAAATT
1 CAAAAAAAAAAATT
10102584 CAAAAAAAAAAAT
1 CAAAAAAAAAAAT
10102597 AGAGCTTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.11
Consensus pattern (14 bp):
CAAAAAAAAAAATT
Found at i:10104358 original size:31 final size:31
Alignment explanation
Indices: 10104320--10104380 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
10104310 ATTTAACACA
*
10104320 TAATAAATAACAT-TTTAAATATTATGTTAAT
1 TAATAAAT-ACATATTTAAATATTATATTAAT
**
10104351 TAATAAATTTATATTTAAATATTATATTAA
1 TAATAAATACATATTTAAATATTATATTAA
10104381 AAATTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
TAATAAATACATATTTAAATATTATATTAAT
Found at i:10104525 original size:191 final size:192
Alignment explanation
Indices: 10104201--10104570 Score: 593
Period size: 191 Copynumber: 1.9 Consensus size: 192
10104191 ATGAATAATT
* * *
10104201 TTTAAAATTTAATAAAATATTTAATATAATATCTAAATTTTAAAAATTTTTATATGATATTTGAT
1 TTTAAAATTTAATAAAATATTTAATATAACATCTAAAATTTAAAAATTTTTATATGATATTTGAC
*
10104266 TACAAATCTATTAATTAATATGATGCTTACTTCTAATATAATTAATTTAACACATAATAAATAAC
66 TACAAATCTATTAATTAATATGATACTTACTTCTAATATAATTAATTTAACACATAATAAATAAC
*
10104331 ATTTTAAATATTATGTTAATTAATAAATTTAT-ATTTAAATATTATATTAAAAATTTTTAAA
131 ATTTTAAATATTATATTAATTAATAAATTTATAATTTAAATATTATATTAAAAATTTTTAAA
* * * *
10104392 TTTAAAATTTCATTAAATA-TTAATATAACATTTAAAATTTAAAAATTTTTATGTGATATTTGAC
1 TTTAAAATTTAATAAAATATTTAATATAACATCTAAAATTTAAAAATTTTTATATGATATTTGAC
*
10104456 TA-ATGAATCTATTAATTAATATGATACTTACTTCTATTATAATTAATTTAACACATAATAAATA
66 TACA--AATCTATTAATTAATATGATACTTACTTCTAATATAATTAATTTAACACATAATAAATA
* *
10104520 ACATTTTAAATATTATATTAATTAATAACTTTATAATTTAAATATTCTATT
129 ACATTTTAAATATTATATTAATTAATAAATTTATAATTTAAATATTATATT
10104571 TTTTTAATTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
189 1 0.01
190 42 0.26
191 106 0.65
192 15 0.09
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (192 bp):
TTTAAAATTTAATAAAATATTTAATATAACATCTAAAATTTAAAAATTTTTATATGATATTTGAC
TACAAATCTATTAATTAATATGATACTTACTTCTAATATAATTAATTTAACACATAATAAATAAC
ATTTTAAATATTATATTAATTAATAAATTTATAATTTAAATATTATATTAAAAATTTTTAAA
Found at i:10105695 original size:6 final size:6
Alignment explanation
Indices: 10105684--10105716 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10105674 TGTATTTCAC
*
10105684 ATTTTT ATTTTT ATTTTT ATTTTT ATTATT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT
10105717 GTTTTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:10105889 original size:28 final size:28
Alignment explanation
Indices: 10105857--10105918 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
10105847 TTTAATTTTA
*
10105857 ATTTATCTATTAATTTTTTGATTT-TCTG
1 ATTTATCT-TTAATTTTTTCATTTCTCTG
** *
10105885 ATTTATCTTTTTTTTTTTCATTTCTTTG
1 ATTTATCTTTAATTTTTTCATTTCTCTG
10105913 ATTTAT
1 ATTTAT
10105919 TTGGCTGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (28 bp):
ATTTATCTTTAATTTTTTCATTTCTCTG
Found at i:10106205 original size:9 final size:10
Alignment explanation
Indices: 10106182--10106206 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10106172 TAGCAAAAAT
10106182 TTTTTGGAGA
1 TTTTTGGAGA
10106192 TTTTTGGAGA
1 TTTTTGGAGA
10106202 TTTTT
1 TTTTT
10106207 TTTCTGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (10 bp):
TTTTTGGAGA
Found at i:10106721 original size:5 final size:5
Alignment explanation
Indices: 10106713--10106853 Score: 67
Period size: 5 Copynumber: 26.2 Consensus size: 5
10106703 TTTTTTTGAA
* *
10106713 TTTAT TTTAT TTT-T TTTA- TTTAT TAGATTAGG TTTAT TTAATAT TCT-T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T---TTA-T TTTAT TT--TAT TTTAT
*
10106761 TTTAT CTTTAT TTTATT TTTAAT TTTGT TTTACT TTTCA- -TTAT TTTAT
1 TTTAT -TTTAT TTTA-T TTT-AT TTTAT TTTA-T TTT-AT TTTAT TTTAT
* *
10106809 TTTAT TTTAT ATTTTT ATTTAT TTTCACT TTTAT TTTGT TTTAT T
1 TTTAT TTTAT -TTTAT -TTTAT TTT-A-T TTTAT TTTAT TTTAT T
10106854 ATTCTATTTT
Statistics
Matches: 107, Mismatches: 10, Indels: 38
0.69 0.06 0.25
Matches are distributed among these distances:
3 1 0.01
4 13 0.12
5 48 0.45
6 31 0.29
7 10 0.09
8 3 0.03
9 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:10106733 original size:18 final size:18
Alignment explanation
Indices: 10106698--10106736 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
10106688 CCGCTTCAGG
10106698 TTTTTTTTTTTTGAATTTA
1 TTTTTTTTTTTT-AATTTA
10106717 TTTTATTTTTTTT-ATTTA
1 TTTT-TTTTTTTTAATTTA
10106735 TT
1 TT
10106737 AGATTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTTTTAATTTA
Found at i:10106776 original size:11 final size:10
Alignment explanation
Indices: 10106760--10106853 Score: 66
Period size: 11 Copynumber: 8.7 Consensus size: 10
10106750 TTAATATTCT
10106760 TTTTATCTTTA
1 TTTTAT-TTTA
10106771 TTTTATTTTTAA
1 TTTTA-TTTT-A
*
10106783 TTTTGTTTTA
1 TTTTATTTTA
10106793 CTTTTCA--TTA
1 -TTTT-ATTTTA
10106803 TTTTATTTTA
1 TTTTATTTTA
*
10106813 TTTTATATTTT
1 TTTTAT-TTTA
10106824 TATTTATTTTCA
1 T-TTTATTTT-A
*
10106836 CTTTTATTTTG
1 -TTTTATTTTA
10106847 TTTTATT
1 TTTTATT
10106854 ATTCTATTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 21
0.72 0.05 0.22
Matches are distributed among these distances:
8 1 0.01
9 4 0.06
10 20 0.29
11 23 0.34
12 19 0.28
13 1 0.01
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:10106781 original size:17 final size:16
Alignment explanation
Indices: 10106745--10106863 Score: 72
Period size: 17 Copynumber: 7.5 Consensus size: 16
10106735 TTAGATTAGG
* * *
10106745 TTTATTTAATATTCTT
1 TTTATTTTATTTTATT
10106761 TTTATCTTTATTTTATT
1 TTTAT-TTTATTTTATT
*
10106778 TTTAATTTTGTTTTACTT
1 TTT-ATTTTATTTTA-TT
*
10106796 TTCA--TTATTTTA-T
1 TTTATTTTATTTTATT
10106809 TTTATTTTA---TATT
1 TTTATTTTATTTTATT
*
10106822 TTTA-TTTATTTTCACT
1 TTTATTTTATTTT-ATT
*
10106838 TTTATTTTGTTTTATT
1 TTTATTTTATTTTATT
10106854 ATTCTATTTT
1 -TT-TATTTT
10106864 CTTTAAATAA
Statistics
Matches: 80, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
12 6 0.08
13 9 0.11
15 11 0.14
16 13 0.16
17 29 0.36
18 12 0.15
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTATTTTATTTTATT
Found at i:10106945 original size:59 final size:58
Alignment explanation
Indices: 10106872--10107149 Score: 382
Period size: 59 Copynumber: 4.7 Consensus size: 58
10106862 TTCTTTAAAT
10106872 AAAAAAATATTATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAT-TTC
1 AAAAAAATA-T-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATCTTC
*
10106932 AAAAAAAGGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCTTC
1 AAAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTC
* *
10106992 AAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAATCTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTC
* * * * *
10107050 AAGAAAAATATTTTGGGGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTC
1 AA-AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTC
* *
10107109 -AAAAGATATTTTTG-GAGAAAAGTTGAAAGTATCAAATTTTC
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTC
10107150 CTACACACAA
Statistics
Matches: 201, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
56 1 0.00
57 33 0.16
58 51 0.25
59 57 0.28
60 56 0.28
61 1 0.00
62 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTC
Found at i:10107003 original size:117 final size:116
Alignment explanation
Indices: 10106872--10107149 Score: 400
Period size: 117 Copynumber: 2.4 Consensus size: 116
10106862 TTCTTTAAAT
10106872 AAAAAAATATTATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAT-TTCAA-A
1 AAAAAAATA-T-TTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATCTTCAAGA
* *
10106935 AAAAGGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCTTC
62 AAAA--TATTTTGGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATCTTC
*
10106992 AAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAATCTTCAAGAAAA
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTCAAGAAAA
* *
10107057 ATATTTTGGGGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTTC
65 ATATTTTGGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATCTTC
* *
10107109 -AAAAGATATTTTTGGAGAAAAGTTGAAAGTATCAAATTTTC
1 AAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTTC
10107150 CTACACACAA
Statistics
Matches: 146, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
115 2 0.01
116 35 0.24
117 51 0.35
118 42 0.29
119 7 0.05
120 9 0.06
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (116 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTCAAGAAAAA
TATTTTGGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATCTTC
Found at i:10115545 original size:9 final size:8
Alignment explanation
Indices: 10115532--10115620 Score: 101
Period size: 8 Copynumber: 10.6 Consensus size: 8
10115522 ACTATGTTTA
10115532 AAAAAATG
1 AAAAAATG
*
10115540 AAAAAATAAA
1 AAAAAAT--G
10115550 AAAAATGATG
1 AAAAA--ATG
10115560 AAAAAATG
1 AAAAAATG
10115568 AAAAAATG
1 AAAAAATG
10115576 AAAAAATGG
1 AAAAAAT-G
10115585 AAAAAATGG
1 AAAAAAT-G
10115594 AAAAAATG
1 AAAAAATG
10115602 -AAAAATG
1 AAAAAATG
10115609 AAAAAA-G
1 AAAAAATG
10115616 AAAAA
1 AAAAA
10115621 GTTAAAAAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
7 13 0.18
8 31 0.42
9 17 0.23
10 10 0.14
12 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:10115551 original size:17 final size:17
Alignment explanation
Indices: 10115531--10115620 Score: 78
Period size: 17 Copynumber: 5.2 Consensus size: 17
10115521 TACTATGTTT
10115531 AAAAAAATGAAAAAATA
1 AAAAAAATGAAAAAATA
10115548 AAAAAAATGATGAAAAA-A
1 AAAAAAATGA--AAAAATA
* *
10115566 TGAAAAAATGAAAAAATG
1 -AAAAAAATGAAAAAATA
*
10115584 GAAAAAATGGAAAAAAT-
1 AAAAAAAT-GAAAAAATA
* *
10115601 -GAAAAATGAAAAAAGA
1 AAAAAAATGAAAAAATA
10115617 AAAA
1 AAAA
10115621 GTTAAAAAGG
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
15 7 0.11
16 6 0.10
17 25 0.41
18 9 0.15
19 14 0.23
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAAAAATGAAAAAATA
Found at i:10115612 original size:6 final size:7
Alignment explanation
Indices: 10115561--10115620 Score: 57
Period size: 7 Copynumber: 7.7 Consensus size: 7
10115551 AAAATGATGA
10115561 AAAAATG
1 AAAAATG
10115568 AAAAAATG
1 -AAAAATG
10115576 AAAAAATGG
1 -AAAAAT-G
10115585 AAAAAATGG
1 -AAAAAT-G
10115594 AAAAAATG
1 -AAAAATG
10115602 AAAAATG
1 AAAAATG
*
10115609 AAAAAAG
1 AAAAATG
10115616 AAAAA
1 AAAAA
10115621 GTTAAAAAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
7 18 0.36
8 15 0.30
9 17 0.34
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:10116107 original size:33 final size:33
Alignment explanation
Indices: 10116070--10116142 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
10116060 GATAGATGAA
10116070 TGAATAACAACATGAAAGATTTTTACATTACAT
1 TGAATAACAACATGAAAGATTTTTACATTACAT
10116103 TGAATAACAACATGAAAGATTTTTACATTACAT
1 TGAATAACAACATGAAAGATTTTTACATTACAT
10116136 TGAATAA
1 TGAATAA
10116143 GTCAAAAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (33 bp):
TGAATAACAACATGAAAGATTTTTACATTACAT
Found at i:10116693 original size:41 final size:41
Alignment explanation
Indices: 10116655--10117033 Score: 578
Period size: 41 Copynumber: 9.2 Consensus size: 41
10116645 TCAAGGAGTG
* *
10116655 ATTTACTTTCCAAAGTCGTGATGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
10116696 ATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGTA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * * *
10116737 ATTTATTTTTCAAAGTCATGGTGCCTCTATTTAGAGGAGTA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
10116778 ATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * * *
10116819 ATTTACTTTTTAAAGTTGTGGTGCCTCTATTTAGAAGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
10116860 GTTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAACA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
10116901 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
10116942 ATTTACTTTTCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
10116983 ATTTACTTTTCAAAGTCGTTGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
10117024 ATTTATTTTT
1 ATTTACTTTT
10117034 TTTTAAGTTG
Statistics
Matches: 310, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 310 1.00
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:10118413 original size:16 final size:16
Alignment explanation
Indices: 10118392--10118433 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
10118382 TTTTTTTAAA
10118392 TTTATTTATTTATTTG
1 TTTATTTATTTATTTG
10118408 TTTATTTATTTATTTG
1 TTTATTTATTTATTTG
10118424 TTTATTTATT
1 TTTATTTATT
10118434 AGATTAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (16 bp):
TTTATTTATTTATTTG
Found at i:10118449 original size:4 final size:4
Alignment explanation
Indices: 10118391--10118433 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
10118381 TTTTTTTTAA
* *
10118391 ATTT ATTT ATTT ATTT GTTT ATTT ATTT ATTT GTTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
10118434 AGATTAGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:10118473 original size:11 final size:11
Alignment explanation
Indices: 10118457--10118515 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
10118447 TTAATATTCT
10118457 TTTTATCTTTA
1 TTTTATCTTTA
*
10118468 TTTTATTTTTA
1 TTTTATCTTTA
*
10118479 TTTT-TGTTTTA
1 TTTTAT-CTTTA
* *
10118490 CTTT-TCATTA
1 TTTTATCTTTA
10118500 TTTTAT-TTTA
1 TTTTATCTTTA
10118510 TTTTAT
1 TTTTAT
10118516 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
10 16 0.40
11 24 0.60
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATCTTTA
Found at i:10118474 original size:5 final size:5
Alignment explanation
Indices: 10118457--10118550 Score: 72
Period size: 5 Copynumber: 18.4 Consensus size: 5
10118447 TTAATATTCT
*
10118457 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTTCA --TTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTT-A TTTTA TTTTA
*
10118505 TTTTA TTTTA -TTT- TTTTA -TTTA TTTTCA CTTTTA TTTTG TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TT
10118551 ATTCTATTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
3 1 0.01
4 12 0.16
5 35 0.47
6 21 0.28
7 5 0.07
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:10118478 original size:17 final size:16
Alignment explanation
Indices: 10118457--10118560 Score: 82
Period size: 17 Copynumber: 5.9 Consensus size: 16
10118447 TTAATATTCT
*
10118457 TTTTATCTTTATTTTA
1 TTTTATTTTTATTTTA
*
10118473 TTTTTATTTTTGTTTTA
1 -TTTTATTTTTATTTTA
10118490 CTTTTCATTATTTTATTTTA
1 -TTTT-A-T-TTTTATTTTA
*
10118510 TTTTATTTTTTTATTTA
1 TTTTATTTTTAT-TTTA
* *
10118527 TTTTCACTTTTATTTTG
1 TTTT-ATTTTTATTTTA
10118544 TTTTATTATTCTATTTT
1 TTTTATT-TT-TATTTT
10118561 CTTTAAATAA
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
16 7 0.10
17 36 0.51
18 14 0.20
19 5 0.07
20 9 0.13
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:10118714 original size:58 final size:58
Alignment explanation
Indices: 10118570--10119017 Score: 606
Period size: 60 Copynumber: 7.7 Consensus size: 58
10118560 TCTTTAAATA
* * * * *
10118570 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCT-AAAATAAA--ATA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
10118625 AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
10118684 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAAATAAAATTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAATTTTC
* * *
10118742 AAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 AAAAAAAT-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTC
* *
10118802 CAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
1 AAAAAAAT-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
10118861 AAAAAAAGGTATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATCTTC
1 AAAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
10118921 AAAAAAATATTTTTG-GGAAAAAGTT-AAAATATCAATTTTTCTT-AAAATAAATTTTC
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
10118977 -AAAAGATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
1 AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
10119018 TCATTACACA
Statistics
Matches: 353, Mismatches: 26, Indels: 26
0.87 0.06 0.06
Matches are distributed among these distances:
55 14 0.04
56 58 0.16
57 44 0.12
58 68 0.19
59 58 0.16
60 110 0.31
61 1 0.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:10118780 original size:27 final size:27
Alignment explanation
Indices: 10118750--10118843 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 27
10118740 TCAAAAAAAT
10118750 AATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTTGAGGAAAAGTTGAAAGTATC
** * **
10118777 AATTTTCCTTGAAAATCAAAGTTTCCAAAAAAT-
1 AA-TTT--TTGAGGA--AAAG-TT-GAAAGTATC
10118810 AATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTTGAGGAAAAGTTGAAAGTATC
10118837 AATTTTT
1 AATTTTT
10118844 CTTAAAAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 16
0.65 0.13 0.21
Matches are distributed among these distances:
26 5 0.10
27 11 0.22
28 7 0.14
30 10 0.20
32 7 0.14
33 4 0.08
34 5 0.10
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.36
Consensus pattern (27 bp):
AATTTTTGAGGAAAAGTTGAAAGTATC
Found at i:10119825 original size:20 final size:21
Alignment explanation
Indices: 10119802--10119844 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
10119792 TGAAATGTGT
10119802 TGAAAGTTTTCAG-AAATGGA
1 TGAAAGTTTTCAGTAAATGGA
* *
10119822 TGAAGGTTTTCTGTAAATGGA
1 TGAAAGTTTTCAGTAAATGGA
10119843 TG
1 TG
10119845 TTTGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (21 bp):
TGAAAGTTTTCAGTAAATGGA
Found at i:10120543 original size:34 final size:33
Alignment explanation
Indices: 10120505--10120569 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
10120495 ATATATCCAG
*
10120505 ATAATTGCAATGCTTTCCAAAAATATAATTTTAA
1 ATAATTACAATGCTTTCCAAAAATA-AATTTTAA
* **
10120539 ATAATTATAATGCTTTCTGAAAATAAATTTT
1 ATAATTACAATGCTTTCCAAAAATAAATTTT
10120570 TGGTATACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 6 0.22
34 21 0.78
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (33 bp):
ATAATTACAATGCTTTCCAAAAATAAATTTTAA
Found at i:10123971 original size:41 final size:42
Alignment explanation
Indices: 10123878--10124214 Score: 429
Period size: 41 Copynumber: 8.1 Consensus size: 42
10123868 ATGATTGTCA
*
10123878 AGGAGTAATTTAC-TTTCCAAAGTCGTGGTGCCTCTG-TTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
10123918 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
10123959 AGGAGTAATTTA-TTTTCCAAAGTCGTGGTACCTTTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
10124000 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
10124041 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGCTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
10124082 AGGAGCAATTTACTTTT-TAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
10124123 AGGAGCAATTTATTTTTTTCAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCAATTTA-CTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
10124166 AGGAGCCATTTA-TGTTTCTCAAAGTCATTGAGCCTCTGCTTAG
1 AGGAGCAATTTACT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAG
10124209 AGGAGC
1 AGGAGC
10124215 TTTGATCAAA
Statistics
Matches: 269, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
40 34 0.13
41 166 0.62
42 11 0.04
43 58 0.22
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:10124407 original size:9 final size:9
Alignment explanation
Indices: 10124393--10124491 Score: 67
Period size: 9 Copynumber: 10.8 Consensus size: 9
10124383 GGTAAGTCTA
10124393 TATTTTTTT
1 TATTTTTTT
*
10124402 TATTTTTAT
1 TATTTTTTT
* *
10124411 TATTATTAT
1 TATTTTTTT
10124420 TATTTTTTT
1 TATTTTTTT
**
10124429 GTATTTCACATT
1 -TATTT--TTTT
*
10124441 TA-TATTTT
1 TATTTTTTT
*
10124449 TA-TTTTAT
1 TATTTTTTT
*
10124457 TATTTTTAT
1 TATTTTTTT
*
10124466 TATTGTTTTA
1 TATT-TTTTT
10124476 TATTTTTTT
1 TATTTTTTT
10124485 TATTTTT
1 TATTTTT
10124492 ATCTTAGGTA
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
8 10 0.14
9 44 0.62
10 13 0.18
11 2 0.03
12 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (9 bp):
TATTTTTTT
Found at i:10124409 original size:6 final size:6
Alignment explanation
Indices: 10124398--10124493 Score: 56
Period size: 6 Copynumber: 16.2 Consensus size: 6
10124388 GTCTATATTT
* * * ** *
10124398 TTTTTA TTTTTA TTATTA TTATTA -TTTT- TTTGTA TTTCACA TTTATA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA
* * *
10124445 TTTTTA TTTTATTA TTTTTA TTATT- GTTTTA TATTT- TTTTTA TTTTTA
1 TTTTTA -TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
10124493 T
1 T
10124494 CTTAGGTATT
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
5 13 0.19
6 44 0.63
7 10 0.14
8 3 0.04
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:10124461 original size:20 final size:19
Alignment explanation
Indices: 10124402--10124480 Score: 52
Period size: 20 Copynumber: 3.9 Consensus size: 19
10124392 ATATTTTTTT
10124402 TATTTTTATTATTAT-TATTA
1 TATTTTTATT-TTATAT-TTA
* * *
10124422 TTTTTTTGTATTTCACATTTA
1 -TATTTT-TATTTTATATTTA
*
10124443 TATTTTTATTTTATTATTTT
1 TATTTTTATTTTA-TATTTA
* *
10124463 TATTATTGTTTTATATTT
1 TATTTTTATTTTATATTT
10124481 TTTTTATTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
19 11 0.24
20 20 0.43
21 10 0.22
22 5 0.11
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (19 bp):
TATTTTTATTTTATATTTA
Found at i:10124481 original size:19 final size:20
Alignment explanation
Indices: 10124451--10124488 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10124441 TATATTTTTA
10124451 TTTTATTATTTTTATTATTG
1 TTTTATTATTTTTATTATTG
*
10124471 TTTTA-TATTTTTTTTATT
1 TTTTATTATTTTTATTATT
10124489 TTTATCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTATTATTTTTATTATTG
Found at i:10124628 original size:20 final size:21
Alignment explanation
Indices: 10124585--10124633 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
10124575 TCAGATTATA
*
10124585 TTATCTGTTATTTAATTTTAAT
1 TTATCTGTTAATT-ATTTTAAT
*
10124607 TTATCTGTTAATT-TTTTGAT
1 TTATCTGTTAATTATTTTAAT
10124627 TTATCTG
1 TTATCTG
10124634 ATTTATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.52
22 12 0.48
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.63
Consensus pattern (21 bp):
TTATCTGTTAATTATTTTAAT
Found at i:10125543 original size:4 final size:4
Alignment explanation
Indices: 10125495--10125527 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
10125485 TTTTTTTTGA
10125495 ATTT ATTT ATTT ATTT ATTT A-TT -TTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
10125528 AGATTAGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 4 0.15
4 23 0.85
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:10125568 original size:5 final size:5
Alignment explanation
Indices: 10125551--10125644 Score: 75
Period size: 5 Copynumber: 17.4 Consensus size: 5
10125541 TTAATATTCT
10125551 TTTTA TCTTTA TTTTA TTTTTA TTTTTA TTTTA CTTTTCA --TTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTT-A TTTTA TTTTA
* *
10125599 TTTTA TTTTA TATTTT TATTTA TTTTCA CTTTTA TTTTG TTTTA TT
1 TTTTA TTTTA T-TTTA T-TTTA TTTT-A -TTTTA TTTTA TTTTA TT
10125645 ATTCTATTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
3 1 0.01
4 2 0.03
5 37 0.49
6 31 0.41
7 5 0.07
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:10125572 original size:17 final size:17
Alignment explanation
Indices: 10125550--10125658 Score: 98
Period size: 17 Copynumber: 6.2 Consensus size: 17
10125540 TTTAATATTC
*
10125550 TTTTTATCTTTATTTTA
1 TTTTTATTTTTATTTTA
10125567 TTTTTATTTTTATTTTA
1 TTTTTATTTTTATTTTA
*
10125584 CTTTTCATTATTTTATTTTA
1 -TTTTTA-T-TTTTATTTTA
10125604 TTTTATATTTTTA-TTTA
1 TTTT-TATTTTTATTTTA
* *
10125621 TTTTCACTTTTATTTT-
1 TTTTTATTTTTATTTTA
*
10125637 GTTTTATTATTCTATTTT-
1 TTTTTATT-TT-TATTTTA
10125655 TTTT
1 TTTT
10125659 AAATAAAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
16 11 0.14
17 29 0.38
18 19 0.25
19 6 0.08
20 11 0.14
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (17 bp):
TTTTTATTTTTATTTTA
Found at i:10125614 original size:7 final size:6
Alignment explanation
Indices: 10125550--10125636 Score: 67
Period size: 6 Copynumber: 14.7 Consensus size: 6
10125540 TTTAATATTC
* *
10125550 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTA -TTTTA CTTTTCA TTATTT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TT-TTTA
* *
10125597 TATTTTA TTTTATA TTTTTA --TTTA TTTTCA CTTTTA TTTT
1 T-TTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
10125637 GTTTTATTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
4 4 0.06
5 9 0.14
6 37 0.58
7 14 0.22
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:10125632 original size:12 final size:10
Alignment explanation
Indices: 10125551--10125644 Score: 75
Period size: 11 Copynumber: 8.7 Consensus size: 10
10125541 TTAATATTCT
10125551 TTTTATCTTTA
1 TTTTAT-TTTA
10125562 TTTTATTTTTA
1 TTTTA-TTTTA
10125573 TTTTTATTTTA
1 -TTTTATTTTA
10125584 CTTTTCA--TTA
1 -TTTT-ATTTTA
10125594 TTTTATTTTA
1 TTTTATTTTA
*
10125604 TTTTATATTTT
1 TTTTAT-TTTA
10125615 TATTTATTTTCA
1 T-TTTATTTT-A
*
10125627 CTTTTATTTTG
1 -TTTTATTTTA
10125638 TTTTATT
1 TTTTATT
10125645 ATTCTATTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 19
0.75 0.04 0.20
Matches are distributed among these distances:
8 1 0.01
9 4 0.06
10 19 0.27
11 25 0.36
12 20 0.29
13 1 0.01
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:10125657 original size:42 final size:41
Alignment explanation
Indices: 10125551--10125658 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 41
10125541 TTAATATTCT
10125551 TTTTATCTTTATTTTATTTTTATTTTTATTTTACTTTTCATTA
1 TTTTAT-TTTATTTTATTTTT-TTTTTATTTTACTTTTCATTA
*
10125594 TTTTATTTTATTTTATATTTTTATTTATTTTCACTTTT-ATT-
1 TTTTATTTTATTTTAT-TTTTTTTTTATTTT-ACTTTTCATTA
*
10125635 TTGTT-TTATTATTCTATTTTTTTT
1 TT-TTATT-TTATTTTATTTTTTTT
10125659 AAATAAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
41 10 0.17
42 32 0.55
43 16 0.28
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.76
Consensus pattern (41 bp):
TTTTATTTTATTTTATTTTTTTTTTATTTTACTTTTCATTA
Found at i:10125792 original size:117 final size:116
Alignment explanation
Indices: 10125663--10126115 Score: 642
Period size: 117 Copynumber: 3.9 Consensus size: 116
10125653 TTTTTTAAAT
* * *
10125663 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTCAAAAAA
1 AAAAAAAGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCTTC-AAAAA
10125728 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
65 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
* * *
10125780 AAAAAAAGTATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAA
1 AAAAAAAGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TCTTCAAAA
* *
10125845 AATAATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTC
64 AAT-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
*
10125899 AAAAAAAGGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCTTCAAAAA
1 AAAAAAA-GTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCTTCAAAAA
* * *
10125964 ATATTTTT-GGGAAAAAGTTGAAAATATCAATTTTCCTTAAAAAT-AAATCTTC
65 ATATTTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAT-TTC
* * * * * *
10126016 AAGAAAAA-TATTTTTGGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAACAAATTTTCAAAAG
1 AA-AAAAAGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCTTCAAAAA
*
10126080 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
65 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC
10126116 CTACACACAA
Statistics
Matches: 301, Mismatches: 27, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
116 84 0.28
117 88 0.29
118 26 0.09
119 62 0.21
120 41 0.14
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (116 bp):
AAAAAAAGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCTTCAAAAAA
TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
Found at i:10125874 original size:60 final size:58
Alignment explanation
Indices: 10125664--10126115 Score: 615
Period size: 59 Copynumber: 7.7 Consensus size: 58
10125654 TTTTTAAATA
* *
10125664 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* *
10125722 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
10125780 AAAAAAAGTATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
1 AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTC
* * * *
10125841 -AAAAAATAATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTC
1 AAAAAAAT-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
10125899 AAAAAAAGGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCTTC
1 AAAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
10125959 -AAAAAATATTTTTG-GGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATCTTC
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
10126016 AAGAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAACAAATTTTC
1 AA-AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
*
10126075 -AAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
10126116 CTACACACAA
Statistics
Matches: 354, Mismatches: 29, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
56 2 0.01
57 83 0.23
58 67 0.19
59 105 0.30
60 92 0.26
61 5 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:10126117 original size:117 final size:116
Alignment explanation
Indices: 10125663--10126115 Score: 617
Period size: 116 Copynumber: 3.9 Consensus size: 116
10125653 TTTTTTAAAT
* * * * *
10125663 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTCAAAAAA
1 AAAAAAAGTATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAACAAATCTTC-AAAAA
10125728 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
65 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
* *
10125780 AAAAAAAGTATTTTTGAGGAAAAGTT-AAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAA
1 AAAAAAAGTATTTTTGAGGAAAAGTTGAAAA-TATCAATTTTCCTT-AAAAACAAA-TCTTCAAA
* *
10125844 AAATAATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTC
63 AAAT-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
* * *
10125899 AAAAAAAGGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCTTCAAAAA
1 AAAAAAA-GTATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAACAAATCTTCAAAAA
* * *
10125964 ATATTTTT-GGGAAAAAGTTGAAAATATCAATTTTCCTTAAAAAT-AAATCTTC
65 ATATTTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAT-TTC
* * * *
10126016 AAGAAAAA-TATTTTTGGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAACAAATTTTCAAAAG
1 AA-AAAAAGTATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAACAAATCTTCAAAAA
*
10126080 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
65 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC
10126116 CTACACACAA
Statistics
Matches: 297, Mismatches: 29, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
116 87 0.29
117 79 0.27
118 30 0.10
119 66 0.22
120 32 0.11
121 3 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (116 bp):
AAAAAAAGTATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAACAAATCTTCAAAAAA
TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
Found at i:10126926 original size:19 final size:20
Alignment explanation
Indices: 10126904--10126942 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10126894 AATGTGTTGA
10126904 AAGTTTTCAG-AAATGGATG
1 AAGTTTTCAGTAAATGGATG
*
10126923 AAGTTTTCTGTAAATGGATG
1 AAGTTTTCAGTAAATGGATG
10126943 TTTGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (20 bp):
AAGTTTTCAGTAAATGGATG
Found at i:10132762 original size:22 final size:22
Alignment explanation
Indices: 10132717--10132764 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
10132707 TATTAAAAAT
* **
10132717 ATTTATTTAACAAATATATTAA
1 ATTTATTTAAAAAATATAGAAA
*
10132739 ATTTATTTAAAAAATTTAGAAA
1 ATTTATTTAAAAAATATAGAAA
10132761 ATTT
1 ATTT
10132765 GCGCATCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTATTTAAAAAATATAGAAA
Found at i:10137907 original size:23 final size:24
Alignment explanation
Indices: 10137860--10137915 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
10137850 AAATAATAAT
* *
10137860 AAAAATTACTGTAATTATGATTTA
1 AAAAATTACTATAATTATCATTTA
* *
10137884 AAAAATTATTATAATTATCATTAA
1 AAAAATTACTATAATTATCATTTA
10137908 AAAAATTA
1 AAAAATTA
10137916 ATAAAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
AAAAATTACTATAATTATCATTTA
Found at i:10137963 original size:23 final size:20
Alignment explanation
Indices: 10137922--10137972 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 20
10137912 ATTAATAAAA
10137922 AATTAATATTAATTTAATTT
1 AATTAATATTAATTTAATTT
*
10137942 TATTAATATTATTATTTGAATTT
1 AATTAATATTA--ATTT-AATTT
10137965 AATTAATA
1 AATTAATA
10137973 ATGTGATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 10 0.38
22 4 0.15
23 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AATTAATATTAATTTAATTT
Found at i:10138573 original size:14 final size:15
Alignment explanation
Indices: 10138552--10138589 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10138542 AAATAATATT
10138552 AATC-AAATTTAA-A
1 AATCAAAATTTAATA
10138565 AATCAAAATTTAATA
1 AATCAAAATTTAATA
*
10138580 AATTAAAATT
1 AATCAAAATT
10138590 CATTCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 10 0.45
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (15 bp):
AATCAAAATTTAATA
Found at i:10141231 original size:23 final size:22
Alignment explanation
Indices: 10141204--10141248 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
10141194 TTTTGATTTG
* *
10141204 AATTATATTATATTATTTTTATT
1 AATTAAATTAAATT-TTTTTATT
10141227 AATTAAATTAAATTTTTTTATT
1 AATTAAATTAAATTTTTTTATT
10141249 TTAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATTAAATTAAATTTTTTTATT
Found at i:10141536 original size:17 final size:17
Alignment explanation
Indices: 10141507--10141557 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
10141497 TTAAAATTTT
10141507 AATT-AATTCAATTTTAA
1 AATTAAATT-AATTTTAA
*
10141524 AATTAAATTAA-TTAAA
1 AATTAAATTAATTTTAA
10141540 AATTAAATT--TTTTAA
1 AATTAAATTAATTTTAA
10141555 AAT
1 AAT
10141558 AATTTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 7 0.23
16 13 0.43
17 6 0.20
18 4 0.13
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAAATTAATTTTAA
Found at i:10141545 original size:22 final size:23
Alignment explanation
Indices: 10141495--10141546 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
10141485 ATTATATCTC
* *
10141495 AATTAAAATTTTAATTAATTCAA
1 AATTAAAATTTAAATTAATTAAA
**
10141518 TTTTAAAA-TTAAATTAATTAAA
1 AATTAAAATTTAAATTAATTAAA
10141540 AATTAAA
1 AATTAAA
10141547 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTAAAATTTAAATTAATTAAA
Found at i:10152291 original size:15 final size:14
Alignment explanation
Indices: 10152264--10152299 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
10152254 AATATTAGTA
10152264 AATGAAAGGAAAAG
1 AATGAAAGGAAAAG
*
10152278 AATGTAAAGTAAAAG
1 AATG-AAAGGAAAAG
10152293 AATGAAA
1 AATGAAA
10152300 AAAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (14 bp):
AATGAAAGGAAAAG
Found at i:10169441 original size:14 final size:13
Alignment explanation
Indices: 10169414--10169438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10169404 GTCGTCGTTT
10169414 TTTATCGTTTTTC
1 TTTATCGTTTTTC
10169427 TTTATCGTTTTT
1 TTTATCGTTTTT
10169439 TCTCGTTGAT
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:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTATCGTTTTTC
Found at i:10170242 original size:20 final size:20
Alignment explanation
Indices: 10170197--10170242 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
10170187 TATATAAATA
* *
10170197 ATTTTTTTAATTATTTATTT
1 ATTTTTATAATTATTTATAT
*
10170217 AATTTTATAATTATTTATAT
1 ATTTTTATAATTATTTATAT
10170237 ATTTTT
1 ATTTTT
10170243 TATATATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTATAATTATTTATAT
Found at i:10170244 original size:11 final size:11
Alignment explanation
Indices: 10170219--10170251 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10170209 ATTTATTTAA
10170219 TTTTATA-ATT
1 TTTTATATATT
*
10170229 ATTTATATATT
1 TTTTATATATT
10170240 TTTTATATATT
1 TTTTATATATT
10170251 T
1 T
10170252 AATTTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATATT
Found at i:10170270 original size:12 final size:11
Alignment explanation
Indices: 10170212--10170270 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 11
10170202 TTTAATTATT
10170212 TATTTAATTTTA
1 TATTT-ATTTTA
*
10170224 TAATTATTTATA
1 TATTTATTT-TA
10170236 TATTT-TTTATA
1 TATTTATTT-TA
10170247 TATTTAATTTTA
1 TATTT-ATTTTA
10170259 TATTTATATTTA
1 TATTTAT-TTTA
10170271 AAATAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 17 0.41
12 21 0.51
13 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTATTTTA
Found at i:10172356 original size:21 final size:21
Alignment explanation
Indices: 10172326--10172391 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
10172316 AAGAAATTAA
10172326 AATTAGTTATGAA-AATAATATT
1 AATTA-TTAT-AATAATAATATT
10172348 AATTATTATAATAATAATATT
1 AATTATTATAATAATAATATT
* *
10172369 GATTATTATAATAATAAAATT
1 AATTATTATAATAATAATATT
10172390 AA
1 AA
10172392 ATTCAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 2 0.05
21 33 0.82
22 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
AATTATTATAATAATAATATT
Found at i:10172373 original size:18 final size:17
Alignment explanation
Indices: 10172339--10172384 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
10172329 TAGTTATGAA
*
10172339 AATAATATTAATTATTAT
1 AATAATAAT-ATTATTAT
10172357 AATAATAATATTGATTAT
1 AATAATAATATT-ATTAT
*
10172375 TATAATAATA
1 AATAATAATA
10172385 AAATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AATAATAATATTATTAT
Found at i:10174028 original size:16 final size:16
Alignment explanation
Indices: 10174007--10174038 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10173997 ATTCTTAATT
10174007 TTATTTTAATTTTTTA
1 TTATTTTAATTTTTTA
*
10174023 TTATTTTCATTTTTTA
1 TTATTTTAATTTTTTA
10174039 CTCTGAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTTAATTTTTTA
Found at i:10175311 original size:26 final size:26
Alignment explanation
Indices: 10175282--10175334 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
10175272 ATATAGGCAA
**
10175282 ACAAATAGTTTACATCTTGTATATAT
1 ACAAATAGTTTACATCTAATATATAT
*
10175308 ACAAATAGTTTCCATCTAATATATAT
1 ACAAATAGTTTACATCTAATATATAT
10175334 A
1 A
10175335 TATATATACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.40
Consensus pattern (26 bp):
ACAAATAGTTTACATCTAATATATAT
Found at i:10187197 original size:19 final size:18
Alignment explanation
Indices: 10187175--10187240 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 18
10187165 AATAATAATT
10187175 ATATACATAAATAATATAG
1 ATATACATAAATAA-ATAG
* * *
10187194 ATATATATGAATACCACTA-
1 ATATACATAAATA--AATAG
*
10187213 ATATACACAAATAAATAG
1 ATATACATAAATAAATAG
10187231 TATATACATA
1 -ATATACATA
10187241 TCATCAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
17 3 0.09
19 29 0.83
20 2 0.06
21 1 0.03
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (18 bp):
ATATACATAAATAAATAG
Found at i:10187560 original size:16 final size:16
Alignment explanation
Indices: 10187487--10187568 Score: 62
Period size: 16 Copynumber: 5.0 Consensus size: 16
10187477 TGTTATTAAC
10187487 ATTATCA-TATAATTT
1 ATTATCATTATAATTT
*
10187502 TTTATCATTATAAATGTT
1 ATTATCATTAT-AAT-TT
**
10187520 ATT-T-ATTATCGTTAT
1 ATTATCATTATAATT-T
10187535 AATATATCATTATAATTT
1 -AT-TATCATTATAATTT
*
10187553 ATTATCATTATGATTT
1 ATTATCATTATAATTT
10187569 GGATTTGTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
14 1 0.02
15 8 0.15
16 23 0.44
17 7 0.13
18 6 0.12
19 7 0.13
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (16 bp):
ATTATCATTATAATTT
Found at i:10187760 original size:16 final size:16
Alignment explanation
Indices: 10187741--10187771 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10187731 TTTTATATTT
10187741 AATATTACTAATATAA
1 AATATTACTAATATAA
*
10187757 AATATTACTTATATA
1 AATATTACTAATATA
10187772 TTTAAAAAAA
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:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATTACTAATATAA
Found at i:10188611 original size:160 final size:160
Alignment explanation
Indices: 10188439--10188755 Score: 607
Period size: 160 Copynumber: 2.0 Consensus size: 160
10188429 TACAAATATT
10188439 AATTTATTAAAGTTATTAAATTATTAATTATAATAATACATTATTTTAGATATTATAATTAATAA
1 AATTTATTAAAGTTATTAAATTATTAATTATAATAATACATTATTTTAGATATTATAATTAATAA
*
10188504 TTAATTTCATAAATTTCAATGTAATTCATTATGTTCAATGAAAAAAATCTACTTTTATTGTTGTT
66 TTAATTTCATAAATTTCAATGTAATTCATTATGTTCAATGAAAAAAATCTACTATTATTGTTGTT
*
10188569 TATTGTTTGGAGAAAAGAGGATACTAAGAA
131 TATTATTTGGAGAAAAGAGGATACTAAGAA
*
10188599 AATTTATTAAAGTTATTAAATTATTAATTATAATAATACTTTATTTTAGATATTATAATTAATAA
1 AATTTATTAAAGTTATTAAATTATTAATTATAATAATACATTATTTTAGATATTATAATTAATAA
10188664 TTAATTTCATAAATTTCAATGTAATTCATTATGTTCAATGAAAAAAATCTACTATTATTGTTGTT
66 TTAATTTCATAAATTTCAATGTAATTCATTATGTTCAATGAAAAAAATCTACTATTATTGTTGTT
10188729 TATTATTTGGAGAAAAGAGGATACTAA
131 TATTATTTGGAGAAAAGAGGATACTAA
10188756 ATATGTTCTT
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 154 1.00
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (160 bp):
AATTTATTAAAGTTATTAAATTATTAATTATAATAATACATTATTTTAGATATTATAATTAATAA
TTAATTTCATAAATTTCAATGTAATTCATTATGTTCAATGAAAAAAATCTACTATTATTGTTGTT
TATTATTTGGAGAAAAGAGGATACTAAGAA
Found at i:10189726 original size:40 final size:41
Alignment explanation
Indices: 10189623--10189726 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 41
10189613 ATTTACTTAT
10189623 TTTATTTATTTTAAATTATAAAATAGATAAAATATAAAAAA
1 TTTATTTATTTTAAATTATAAAATAGATAAAATATAAAAAA
* * * *
10189664 GTTA--TATTTAAAAATTAAAAAATA-ATTAAAA-ATATAAAA
1 TTTATTTATTT-TAAATTATAAAATAGA-TAAAATATAAAAAA
*
10189703 TTTATTTATTTTAAACTATAAAAT
1 TTTATTTATTTTAAATTATAAAAT
10189727 TGTTAGAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
39 16 0.31
40 27 0.53
41 8 0.16
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (41 bp):
TTTATTTATTTTAAATTATAAAATAGATAAAATATAAAAAA
Found at i:10190079 original size:93 final size:89
Alignment explanation
Indices: 10189913--10190081 Score: 207
Period size: 93 Copynumber: 1.8 Consensus size: 89
10189903 TTATTTATAA
* * *
10189913 TAAAATATAAATTTGATAAATATATGAAACTATATTATATATAAAAAATAAAAAATCTTATTCAA
1 TAAAATATAAATTTGATAAAAATATGAAAATATATTATATATAAAAAATAAAAAATCTTA-TAAA
10189978 AAGAAAATTTTTGAAAATTTCATTT
65 AAGAAAATTTTTGAAAATTTCATTT
* * *
10190003 TAAATTATAATATTTGATAAAAATACTGAAATATATATTATATTTTGAAAAATAAAATAATCTTA
1 TAAAATATAA-ATTTGATAAAAATA-TGAAA-ATATATTATA-TATAAAAAATAAAA-AATCTTA
10190068 -AAAATAG-AAATTTT
61 TAAAA-AGAAAATTTT
10190082 AAAACTTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
90 9 0.13
91 13 0.19
92 5 0.07
93 19 0.28
94 14 0.21
95 7 0.10
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (89 bp):
TAAAATATAAATTTGATAAAAATATGAAAATATATTATATATAAAAAATAAAAAATCTTATAAAA
AGAAAATTTTTGAAAATTTCATTT
Found at i:10196189 original size:2 final size:2
Alignment explanation
Indices: 10196182--10196226 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
10196172 TTGCCCTGAC
10196182 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10196224 AT A
1 AT A
10196227 CAGCCTTACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10205122 original size:27 final size:27
Alignment explanation
Indices: 10205031--10205125 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 27
10205021 CTGATAGGTT
* * * *
10205031 GGGTAGGTTGAGAATCCGGTTTTGAAG
1 GGGTTGGTTGGGAATCTGGTTTTGAAA
* *
10205058 GGGTTGGTT-GAAATTCTAGTTTTG-AA
1 GGGTTGGTTGGGAA-TCTGGTTTTGAAA
*
10205084 GGGATTGATTGGGAATCTGGTTTTGAAA
1 GGG-TTGGTTGGGAATCTGGTTTTGAAA
10205112 GGGTTGGTTGGGAA
1 GGGTTGGTTGGGAA
10205126 ATTGGCAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
26 6 0.11
27 40 0.74
28 8 0.15
ACGTcount: A:0.22, C:0.04, G:0.39, T:0.35
Consensus pattern (27 bp):
GGGTTGGTTGGGAATCTGGTTTTGAAA
Found at i:10218774 original size:35 final size:35
Alignment explanation
Indices: 10218730--10218799 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
10218720 CTACAAACAT
* *
10218730 AGATTAAGTTTTCAATCTGATGTCTTCTGACATAG
1 AGATCAAGTTTTCAATCCGATGTCTTCTGACATAG
10218765 AGATCAAGTTTTCAATCCGATGTCTTCTGACATAG
1 AGATCAAGTTTTCAATCCGATGTCTTCTGACATAG
10218800 TAGCATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (35 bp):
AGATCAAGTTTTCAATCCGATGTCTTCTGACATAG
Found at i:10221559 original size:21 final size:21
Alignment explanation
Indices: 10221535--10221576 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10221525 TCTGGACTCT
10221535 AGTACAATCCTATTCCCTATA
1 AGTACAATCCTATTCCCTATA
*
10221556 AGTACAATCTTATTCCCTATA
1 AGTACAATCCTATTCCCTATA
10221577 TCTAAACCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (21 bp):
AGTACAATCCTATTCCCTATA
Found at i:10222040 original size:49 final size:49
Alignment explanation
Indices: 10221963--10222063 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
10221953 TTTTTTTCTT
*
10221963 CAAAAGAAGAAATCAAAACAAGGAGAAATGTATATACATTCAAGCAATG
1 CAAAAGAAGAAATCAAAACAAGGAGAAATGTACATACATTCAAGCAATG
* * *
10222012 CAAAAGAAGAAATCAAAACAAGGGGAAATGTGCATACATTCTAGCAATG
1 CAAAAGAAGAAATCAAAACAAGGAGAAATGTACATACATTCAAGCAATG
10222061 CAA
1 CAA
10222064 CTAAGAGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.16
Consensus pattern (49 bp):
CAAAAGAAGAAATCAAAACAAGGAGAAATGTACATACATTCAAGCAATG
Found at i:10228433 original size:15 final size:16
Alignment explanation
Indices: 10228397--10228435 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
10228387 TTTTTGGTAT
10228397 TTGAAATTATTAAAAA
1 TTGAAATTATTAAAAA
*
10228413 TT-AAATT-TTAGAAA
1 TTGAAATTATTAAAAA
10228427 TTGAAATTA
1 TTGAAATTA
10228436 AAAGTCCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.40
15 10 0.50
16 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (16 bp):
TTGAAATTATTAAAAA
Found at i:10238294 original size:21 final size:21
Alignment explanation
Indices: 10238270--10238404 Score: 59
Period size: 21 Copynumber: 6.6 Consensus size: 21
10238260 AATATAAGTA
10238270 AATTTTAATAATTTTTTATAT
1 AATTTTAATAATTTTTTATAT
* * *
10238291 AA-TTT--TGA-TTTTGATAA
1 AATTTTAATAATTTTTTATAT
** * **
10238308 AATTTTGGTAATATTGGATAT
1 AATTTTAATAATTTTTTATAT
10238329 AA-TTTAGATAATTTTTTTATAT
1 AATTTTA-ATAA-TTTTTTATAT
* * ** *
10238351 TAGTTGGATAATTTGTTATAT
1 AATTTTAATAATTTTTTATAT
*
10238372 AATTTTGATAATTATTGTTA-A-
1 AATTTTAATAATT-TT-TTATAT
10238393 AATTTTAATAAT
1 AATTTTAATAAT
10238405 CTCTTGATGT
Statistics
Matches: 84, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
17 9 0.11
18 5 0.06
20 8 0.10
21 43 0.51
22 14 0.17
23 5 0.06
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (21 bp):
AATTTTAATAATTTTTTATAT
Found at i:10238769 original size:22 final size:22
Alignment explanation
Indices: 10238730--10238962 Score: 157
Period size: 22 Copynumber: 10.6 Consensus size: 22
10238720 TTATTGATAT
10238730 TTAAGTTA-TAATTAATTTACTA
1 TTAAGTTATTAA-TAATTTACTA
* *
10238752 TTATA-TTATTAATGATTTATTA
1 TTA-AGTTATTAATAATTTACTA
* * * *
10238774 TTAAGCTATCAATAATATACTG
1 TTAAGTTATTAATAATTTACTA
* * * *
10238796 TTAAATTATCAATGATTTATTA
1 TTAAGTTATTAATAATTTACTA
* ** *
10238818 TTAAATTGGTATTAATTTACTA
1 TTAAGTTATTAATAATTTACTA
* * * *
10238840 CTAATTTATGAATAATTTATTA
1 TTAAGTTATTAATAATTTACTA
*
10238862 TTAAGTTATTAATGATTTACTA
1 TTAAGTTATTAATAATTTACTA
* * **
10238884 TTAAGTTACTGATAATTTGTTA
1 TTAAGTTATTAATAATTTACTA
* *
10238906 TAAAGTTA-TAATTAATTTACTG
1 TTAAGTTATTAA-TAATTTACTA
* * *
10238928 TTAATTTATCAATGATTTACTA
1 TTAAGTTATTAATAATTTACTA
*
10238950 TAAAGTTATTAAT
1 TTAAGTTATTAAT
10238963 GATTAATTAA
Statistics
Matches: 156, Mismatches: 50, Indels: 10
0.72 0.23 0.05
Matches are distributed among these distances:
21 3 0.02
22 147 0.94
23 6 0.04
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (22 bp):
TTAAGTTATTAATAATTTACTA
Found at i:10238880 original size:44 final size:44
Alignment explanation
Indices: 10238710--10239201 Score: 218
Period size: 44 Copynumber: 11.0 Consensus size: 44
10238700 AGTATAACAA
* *
10238710 AATTTATCAATTATTGA-TATTTAAGTTA-TAATTAATTTACTATT
1 AATTTATCAATGATTTATTA-TTAAGTTATTAA-TAATTTACTATT
* * * * *
10238754 -ATATTATTAATGATTTATTATTAAGCTATCAATAATATACTGTT
1 AAT-TTATCAATGATTTATTATTAAGTTATTAATAATTTACTATT
* * ** * *
10238798 AAATTATCAATGATTTATTATTAAATTGGTATTAATTTACTACT
1 AATTTATCAATGATTTATTATTAAGTTATTAATAATTTACTATT
* * *
10238842 AATTTATGAATAATTTATTATTAAGTTATTAATGATTTACTATT
1 AATTTATCAATGATTTATTATTAAGTTATTAATAATTTACTATT
* * * * * *
10238886 AAGTTA-CTGATAATTTGTTATAAAGTTA-TAATTAATTTACTGTT
1 AATTTATC-AATGATTTATTATTAAGTTATTAA-TAATTTACTATT
* * *
10238930 AATTTATCAATGATTTACTATAAAGTTATTAATGA-TTA--ATT
1 AATTTATCAATGATTTATTATTAAGTTATTAATAATTTACTATT
* * * *
10238971 AATTTATTACTAAATTATCACTAGTTTACATCTAAGTTATTAATGATTTACTACT
1 AATTTA-T-C--AATGAT--TTA--TT--AT-TAAGTTATTAATAATTTACTATT
* * * * * * * *
10239026 AAGTTATCAATAATTTA-CATCAAAATTGTCAATTATTTACTATT
1 AATTTATCAATGATTTATTAT-TAAGTTATTAATAATTTACTATT
* * * * * * *
10239070 -ATGTTATTATTGATTTACTATTTAGTTTTTAATTATTTATTATTT
1 AAT-TTATCAATGATTTATTATTAAGTTATTAATAATTTACTA-TT
* * ** * * *
10239115 AA-TTAACTATGATTCGTTATCAAGTTATCACTAATTTA-TATT
1 AATTTATCAATGATTTATTATTAAGTTATTAATAATTTACTATT
* * * *
10239157 AAATTATTC-ATAATTTATTATTAAGTTATTTATAATTTATTATT
1 AATTTA-TCAATGATTTATTATTAAGTTATTAATAATTTACTATT
10239201 A
1 A
10239202 CTAAGTTGTA
Statistics
Matches: 331, Mismatches: 88, Indels: 58
0.69 0.18 0.12
Matches are distributed among these distances:
41 8 0.02
42 5 0.02
43 38 0.11
44 224 0.68
45 18 0.05
46 1 0.00
47 2 0.01
49 3 0.01
51 7 0.02
52 13 0.04
53 4 0.01
54 1 0.00
55 7 0.02
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (44 bp):
AATTTATCAATGATTTATTATTAAGTTATTAATAATTTACTATT
Found at i:10238920 original size:88 final size:88
Alignment explanation
Indices: 10238713--10238966 Score: 248
Period size: 88 Copynumber: 2.9 Consensus size: 88
10238703 ATAACAAAAT
* * * * *
10238713 TTATCAATTATTGA-TATTTAAGTTATAATTAATTTACTATTATATTATTAATGATTTATTATTA
1 TTATCAATAATTTATTATTAAAGTTATAATTAATTTACTATAAT-TTATCAATGATTTATTATTA
* * * * *
10238777 AGCTATCAATAATATACTGTTAAA
65 AGTTATTAATGATTTACTATTAAA
* * * *
10238801 TTATCAATGATTTATTATTAAA-TTGGT-ATTAATTTACTACTAATTTATGAATAATTTATTATT
1 TTATCAATAATTTATTATTAAAGTT-ATAATTAATTTACTA-TAATTTATCAATGATTTATTATT
*
10238864 AAGTTATTAATGATTTACTATTAAG
64 AAGTTATTAATGATTTACTATTAAA
* * * * *
10238889 TTA-CTGATAATTTGTTA-TAAAGTTATAATTAATTTACTGTTAATTTATCAATGATTTACTATA
1 TTATC-AATAATTTATTATTAAAGTTATAATTAATTTACT-ATAATTTATCAATGATTTATTATT
10238952 AAGTTATTAATGATT
64 AAGTTATTAATGATT
10238967 AATTAATTTA
Statistics
Matches: 137, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
87 6 0.04
88 121 0.88
89 10 0.07
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (88 bp):
TTATCAATAATTTATTATTAAAGTTATAATTAATTTACTATAATTTATCAATGATTTATTATTAA
GTTATTAATGATTTACTATTAAA
Found at i:10238989 original size:52 final size:52
Alignment explanation
Indices: 10238914--10239018 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 52
10238904 TATAAAGTTA
** *
10238914 TAATTAATTTACTGTTAATTTATCAAT-GATTTACTAT-AAAGTTATTAATGAT
1 TAATTAATTTACTACTAAATTATCAATAG-TTTAC-ATCAAAGTTATTAATGAT
* * *
10238966 TAATTAATTTATTACTAAATTATCACTAGTTTACATCTAAGTTATTAATGAT
1 TAATTAATTTACTACTAAATTATCAATAGTTTACATCAAAGTTATTAATGAT
10239018 T
1 T
10239019 TACTACTAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 2 0.04
52 42 0.93
53 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.48
Consensus pattern (52 bp):
TAATTAATTTACTACTAAATTATCAATAGTTTACATCAAAGTTATTAATGAT
Found at i:10239020 original size:22 final size:22
Alignment explanation
Indices: 10238995--10239087 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
10238985 TTATCACTAG
*
10238995 TTTACATCTAAGTTATTAATGA
1 TTTACATCTAAGTTATCAATGA
*
10239017 TTTAC-TACTAAGTTATCAATAA
1 TTTACAT-CTAAGTTATCAATGA
* * * *
10239039 TTTACATCAAAATTGTCAATTA
1 TTTACATCTAAGTTATCAATGA
* * *
10239061 TTTACTAT-TATGTTATTATTGA
1 TTTAC-ATCTAAGTTATCAATGA
10239083 TTTAC
1 TTTAC
10239088 TATTTAGTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
21 1 0.02
22 51 0.93
23 3 0.05
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.47
Consensus pattern (22 bp):
TTTACATCTAAGTTATCAATGA
Found at i:10239102 original size:140 final size:140
Alignment explanation
Indices: 10238828--10239090 Score: 311
Period size: 140 Copynumber: 1.9 Consensus size: 140
10238818 TTAAATTGGT
* * * *
10238828 ATTAATTTACTACTAATTTATGAATAATTTATTATTAAGTTATTAATGATTTACTATTAAGTTAC
1 ATTAATTTACTACTAAATTATCAATAATTTATCATTAAGTTATTAATGATTTACTACTAAGTTAC
* ** * *
10238893 TGATAATTTGTTATAAAGTTATAATTAATTTACTGTTAATTTATCAATGATTTACTATAAAGTTA
66 TAATAATTTGACATAAAATTATAATTAATTTACTATTAATTTATCAATGATTTACTATAAAGTTA
10238958 TTAATGATTA
131 TTAATGATTA
* * *
10238968 ATTAATTTATTACTAAATTATCACTAGTTTA-CATCTAAGTTATTAATGATTTACTACTAAGTTA
1 ATTAATTTACTACTAAATTATCAATAATTTATCAT-TAAGTTATTAATGATTTACTACTAAGTTA
* * *
10239032 -TCAATAATTT-ACATCAAAATTGTCAATT-ATTTACTATT-ATGTTATTATTGATTTACTAT
65 CT-AATAATTTGACAT-AAAATTAT-AATTAATTTACTATTAAT-TTATCAATGATTTACTAT
10239091 TTAGTTTTTA
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
139 7 0.07
140 92 0.89
141 4 0.04
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.48
Consensus pattern (140 bp):
ATTAATTTACTACTAAATTATCAATAATTTATCATTAAGTTATTAATGATTTACTACTAAGTTAC
TAATAATTTGACATAAAATTATAATTAATTTACTATTAATTTATCAATGATTTACTATAAAGTTA
TTAATGATTA
Found at i:10239107 original size:22 final size:23
Alignment explanation
Indices: 10239056--10239115 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
10239046 CAAAATTGTC
10239056 AATTATTTACTA-TTATGTTATT
1 AATTATTTACTATTTATGTTATT
*
10239078 -ATTGATTTACTATTTA-GTTTTT
1 AATT-ATTTACTATTTATGTTATT
*
10239100 AATTATTTATTATTTA
1 AATTATTTACTATTTA
10239116 ATTAACTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 24 0.73
23 6 0.18
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (23 bp):
AATTATTTACTATTTATGTTATT
Found at i:10239208 original size:25 final size:22
Alignment explanation
Indices: 10239131--10239201 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
10239121 CTATGATTCG
*
10239131 TTATCAAGTTA-TCACTAATTTA
1 TTATTAAGTTATTCA-TAATTTA
*
10239153 -TATTAAATTATTCATAATTTA
1 TTATTAAGTTATTCATAATTTA
*
10239174 TTATTAAGTTATTTATAATTTA
1 TTATTAAGTTATTCATAATTTA
10239196 TTATTA
1 TTATTA
10239202 CTAAGTTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.35
22 28 0.65
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (22 bp):
TTATTAAGTTATTCATAATTTA
Found at i:10239277 original size:19 final size:20
Alignment explanation
Indices: 10239255--10239312 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
10239245 TTAAATCATA
10239255 ATTTATTTATTATTA-AGTT
1 ATTTATTTATTATTACAGTT
*
10239274 ATTTATGATTTATTATTACATTT
1 A-TT-T-ATTTATTATTACAGTT
* *
10239297 ATTAATTAATTATTAC
1 ATTTATTTATTATTAC
10239313 TAAACTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 1 0.03
20 13 0.41
21 1 0.03
22 13 0.41
23 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTATTTATTATTACAGTT
Found at i:10240011 original size:22 final size:21
Alignment explanation
Indices: 10239986--10240118 Score: 92
Period size: 22 Copynumber: 6.1 Consensus size: 21
10239976 ATTAAAATTA
10239986 ATTTATCATTAAGTTATGAATG
1 ATTTATCATTAAGTTATG-ATG
* *
10240008 ATTTATTATTAAGTTATGAATA
1 ATTTATCATTAAGTTATG-ATG
* * *
10240030 ATTT-TTATTAAATTATTGATA
1 ATTTATCATTAAGTTA-TGATG
*
10240051 ATTCA-CTATTAAGTTATTGATG
1 ATTTATC-ATTAAGTTA-TGATG
* *
10240073 A-TTATCATAAAGTTATAATTG
1 ATTTATCATTAAGTTATGA-TG
* *
10240094 ATTTATTATTAATTTATCGATG
1 ATTTATCATTAAGTTAT-GATG
10240116 ATT
1 ATT
10240119 CACTAAAAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.02
21 29 0.32
22 58 0.64
23 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (21 bp):
ATTTATCATTAAGTTATGATG
Found at i:10240062 original size:65 final size:65
Alignment explanation
Indices: 10239993--10240123 Score: 160
Period size: 65 Copynumber: 2.0 Consensus size: 65
10239983 TTAATTTATC
* * *
10239993 ATTAAGTTA-TGAATGATTTATTATTAAGTTATGAA-TAATTT-TTATTAAATTATTGATAATTC
1 ATTAAGTTATTG-ATGA-TTATCATAAAGTTAT-AATTAATTTATTATTAAATTATCGATAATTC
10240055 ACT
63 ACT
* * *
10240058 ATTAAGTTATTGATGATTATCATAAAGTTATAATTGATTTATTATTAATTTATCGATGATTCACT
1 ATTAAGTTATTGATGATTATCATAAAGTTATAATTAATTTATTATTAAATTATCGATAATTCACT
10240123 A
1 A
10240124 AAAAATTATC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
63 2 0.04
64 18 0.32
65 35 0.61
66 2 0.04
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (65 bp):
ATTAAGTTATTGATGATTATCATAAAGTTATAATTAATTTATTATTAAATTATCGATAATTCACT
Found at i:10240104 original size:43 final size:42
Alignment explanation
Indices: 10239988--10240118 Score: 113
Period size: 43 Copynumber: 3.0 Consensus size: 42
10239978 TAAAATTAAT
* *
10239988 TTATCATTAAGTTATGAATGATTTATTATTAAGTTA-TGAATAA
1 TTATCATAAAGTTAT-AATGATTTATTATTAAGTTATTG-ATGA
* * * * * *
10240031 TTTTTATTAAA-TTATTGATAATTCACTATTAAGTTATTGATGA
1 TTATCA-TAAAGTTA-TAATGATTTATTATTAAGTTATTGATGA
* *
10240074 TTATCATAAAGTTATAATTGATTTATTATTAATTTATCGATGA
1 TTATCATAAAGTTATAA-TGATTTATTATTAAGTTATTGATGA
10240117 TT
1 TT
10240119 CACTAAAAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
42 6 0.09
43 55 0.82
44 6 0.09
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (42 bp):
TTATCATAAAGTTATAATGATTTATTATTAAGTTATTGATGA
Found at i:10240139 original size:65 final size:64
Alignment explanation
Indices: 10239999--10240139 Score: 140
Period size: 65 Copynumber: 2.2 Consensus size: 64
10239989 TATCATTAAG
* * * * ** *
10239999 TTATGAATGATTTATTATTAAGTTATGAATAATTTTTATTAAATTATTGATAATTCACTATTAAG
1 TTATCAATGA-TTATCATAAAGTTATGAATAATTTTTATTAAATTATCGATAATTCACTAAAAAA
** * * *
10240064 TTATTGATGATTATCATAAAGTTAT-AATTGATTTATTATTAATTTATCGATGATTCACTAAAAA
1 TTATCAATGATTATCATAAAGTTATGAA-TAATTT-TTATTAAATTATCGATAATTCACTAAAAA
10240128 A
64 A
10240129 TTATCAATGAT
1 TTATCAATGAT
10240140 AATTAATTTA
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
63 2 0.03
64 18 0.30
65 41 0.67
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (64 bp):
TTATCAATGATTATCATAAAGTTATGAATAATTTTTATTAAATTATCGATAATTCACTAAAAAA
Found at i:10240171 original size:22 final size:22
Alignment explanation
Indices: 10240143--10240229 Score: 68
Period size: 22 Copynumber: 4.0 Consensus size: 22
10240133 CAATGATAAT
10240143 TAATTTACTACTAAATT-TTCAC
1 TAATTTACTACTAAATTATT-AC
* * *
10240165 TAATTTACAACTAAGTTATTAG
1 TAATTTACTACTAAATTATTAC
* ** * *
10240187 TAATTTACTATTATGTGATTAG
1 TAATTTACTACTAAATTATTAC
* *
10240209 TGATTTACTATTAAATTATTA
1 TAATTTACTACTAAATTATTA
10240230 ATTTACTATT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
22 51 0.96
23 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
TAATTTACTACTAAATTATTAC
Found at i:10240232 original size:41 final size:41
Alignment explanation
Indices: 10240182--10240262 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
10240172 CAACTAAGTT
* * *
10240182 ATTAGTAATTTACTATT-ATGTGATTAGTGATTTACTATTAA
1 ATTAGTAATTTACTATTAACGT-ATCAGTGATTCACTATTAA
*
10240223 ATTATTAATTTACTATTAACGTATCAGTGATTCACTATTA
1 ATTAGTAATTTACTATTAACGTATCAGTGATTCACTATTA
10240263 TGTTTTTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 32 0.91
42 3 0.09
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.47
Consensus pattern (41 bp):
ATTAGTAATTTACTATTAACGTATCAGTGATTCACTATTAA
Found at i:10240404 original size:22 final size:21
Alignment explanation
Indices: 10240375--10240416 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
10240365 CACTACTAAG
10240375 TTATTATAGATTTA-TATTAAA
1 TTATTATA-ATTTATTATTAAA
10240396 TTATGTATAATTTATTATTAA
1 TTAT-TATAATTTATTATTAA
10240417 GATTTCACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TTATTATAATTTATTATTAAA
Found at i:10240511 original size:22 final size:22
Alignment explanation
Indices: 10240486--10240530 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10240476 TTTTAAGTTT
*
10240486 TTAATGATTAATTACTAAATTA
1 TTAATGATTAATCACTAAATTA
* * *
10240508 TTAATTATTTATCACTAATTTA
1 TTAATGATTAATCACTAAATTA
10240530 T
1 T
10240531 CATTGATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAATGATTAATCACTAAATTA
Found at i:10240600 original size:22 final size:22
Alignment explanation
Indices: 10240575--10240657 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
10240565 CCTGAAACTG
*
10240575 ATTTAATATTAAATTATTACTA
1 ATTTAATATTAAGTTATTACTA
* * *
10240597 ATTTATTATTAAGTTATCATTA
1 ATTTAATATTAAGTTATTACTA
*
10240619 ATTTAATATTAAGTTATTAGTA
1 ATTTAATATTAAGTTATTACTA
*
10240641 A-TTAACTACTAAGTTAT
1 ATTTAA-TATTAAGTTAT
10240658 CACCTATTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 4 0.08
22 48 0.92
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTAATATTAAGTTATTACTA
Found at i:10240604 original size:11 final size:11
Alignment explanation
Indices: 10240581--10240637 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
10240571 ACTGATTTAA
*
10240581 TATTAAATTAT
1 TATTAAGTTAT
* *
10240592 TACTAATTTAT
1 TATTAAGTTAT
10240603 TATTAAGTTAT
1 TATTAAGTTAT
* * *
10240614 CATTAATTTAA
1 TATTAAGTTAT
10240625 TATTAAGTTAT
1 TATTAAGTTAT
10240636 TA
1 TA
10240638 GTAATTAACT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (11 bp):
TATTAAGTTAT
Found at i:10240623 original size:44 final size:44
Alignment explanation
Indices: 10240575--10240659 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
10240565 CCTGAAACTG
* * *
10240575 ATTTAATATTAAATTATTACTAATTTATTATTAAGTTATCATTA
1 ATTTAATATTAAATTATTACTAATTAACTACTAAGTTATCATTA
* *
10240619 ATTTAATATTAAGTTATTAGTAATTAACTACTAAGTTATCA
1 ATTTAATATTAAATTATTACTAATTAACTACTAAGTTATCA
10240660 CCTATTTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (44 bp):
ATTTAATATTAAATTATTACTAATTAACTACTAAGTTATCATTA
Found at i:10241607 original size:147 final size:148
Alignment explanation
Indices: 10241449--10241717 Score: 389
Period size: 147 Copynumber: 1.8 Consensus size: 148
10241439 AATTCTTTTT
* *
10241449 TACTAAATGAAAAAAAGGTCTATTTTTAATTGTTGCATCATTCTTATTACCATCATTCAAAATGA
1 TACTAAATGAAAAAAAGGTATATTTTTAATTGTTGCATCATTCCTATTACCATCATTCAAAATGA
* ** * *
10241514 ATTT-TTAATATTTTGATG-TCAATCAACTTTTCCATTTAAAAATAGTAAAGAATATTTCACATT
66 ATTTATTAATATTTTGATGCT-AATCAACTTCTCCAACTAAAAAGAGTAAAAAATATTTCACATT
10241577 CTCCATAAAAAATTTCTTC
130 CTCCATAAAAAATTTCTTC
* * * *
10241596 TACTAAATGAAAAGAAGGTATATTTTTAATTGTTGCTTCATTCCTATTACTATCATTTAAAATGA
1 TACTAAATGAAAAAAAGGTATATTTTTAATTGTTGCATCATTCCTATTACCATCATTCAAAATGA
* * *
10241661 TTTTATTGATATTTTGATGCTAATCATCTTCTCCAACTAAAAAGAGTAAAAAATATT
66 ATTTATTAATATTTTGATGCTAATCAACTTCTCCAACTAAAAAGAGTAAAAAATATT
10241718 ATAAGGAGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
147 62 0.58
148 43 0.41
149 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (148 bp):
TACTAAATGAAAAAAAGGTATATTTTTAATTGTTGCATCATTCCTATTACCATCATTCAAAATGA
ATTTATTAATATTTTGATGCTAATCAACTTCTCCAACTAAAAAGAGTAAAAAATATTTCACATTC
TCCATAAAAAATTTCTTC
Found at i:10243429 original size:211 final size:210
Alignment explanation
Indices: 10243066--10243488 Score: 837
Period size: 211 Copynumber: 2.0 Consensus size: 210
10243056 TGGAGAAGAT
10243066 ATAGTTATGCATAACCAATCAATCTTTAATCTTATTTTTTTGTTTAGAATAATCTTCCATTGGTG
1 ATAGTTATGCATAACCAATCAATCTTTAATCTTATTTTTTTGTTTAGAATAATCTTCCATTGGTG
10243131 ATTCCATTAATTGAATGTAATTGTACATTTTTATTAATTGAAAGCTTAAATTTTCTTTTATACGA
66 ATTCCATTAATTGAATGTAATTGTACATTTTTATTAATTGAAAGCTTAAATTTTCTTTTATACGA
10243196 AAATTTTTATTATATATAAATATTCATTAAATAAAAATATTAAAATAGATAGTTTCAAAAAATAA
131 AAATTTTTATTATATATAAATATTCATTAAATAAAAATATTAAAATAGATAGTTTCAAAAAATAA
10243261 AATAGAATACAATAA
196 AATAGAATACAATAA
10243276 ATAGTTATGCATAACCAATCAATCTTTAATCTTATTTTTTTTGTTTAGAATAATCTTCCATTGGT
1 ATAGTTATGCATAACCAATCAATCTTTAATCTTA-TTTTTTTGTTTAGAATAATCTTCCATTGGT
10243341 GATTCCATTAATTGAATGTAATTGTACATTTTTATTAATTGAAAGCTTAAATTTTCTTTTATACG
65 GATTCCATTAATTGAATGTAATTGTACATTTTTATTAATTGAAAGCTTAAATTTTCTTTTATACG
10243406 AAAATTTTTATTATATATAAATATTCATTAAATAAAAATATTAAAATAGATAGTTTCAAAAAATA
130 AAAATTTTTATTATATATAAATATTCATTAAATAAAAATATTAAAATAGATAGTTTCAAAAAATA
10243471 AAATAGAATACAATAA
195 AAATAGAATACAATAA
10243487 AT
1 AT
10243489 TCCTAACCTT
Statistics
Matches: 212, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
210 34 0.16
211 178 0.84
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.43
Consensus pattern (210 bp):
ATAGTTATGCATAACCAATCAATCTTTAATCTTATTTTTTTGTTTAGAATAATCTTCCATTGGTG
ATTCCATTAATTGAATGTAATTGTACATTTTTATTAATTGAAAGCTTAAATTTTCTTTTATACGA
AAATTTTTATTATATATAAATATTCATTAAATAAAAATATTAAAATAGATAGTTTCAAAAAATAA
AATAGAATACAATAA
Found at i:10246372 original size:20 final size:21
Alignment explanation
Indices: 10246337--10246379 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
10246327 TACAGATCCT
10246337 ATTTTGACACCAAGAAATAAA
1 ATTTTGACACCAAGAAATAAA
10246358 ATTTTGACA-CAAGAAATAAA
1 ATTTTGACACCAAGAAATAAA
10246378 AT
1 AT
10246380 GATTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (21 bp):
ATTTTGACACCAAGAAATAAA
Found at i:10248204 original size:15 final size:15
Alignment explanation
Indices: 10248180--10248209 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10248170 TGATAAGAGA
*
10248180 AGAAACAAAAGAAGG
1 AGAAAAAAAAGAAGG
10248195 AGAAAAAAAAGAAGG
1 AGAAAAAAAAGAAGG
10248210 GAATGAGAAA
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:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAGAAGG
Found at i:10256763 original size:6 final size:6
Alignment explanation
Indices: 10256752--10256778 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10256742 GAAAATGATC
10256752 ATTAAA ATTAAA ATTAAA ATTAAA ATT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATT
10256779 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATTAAA
Found at i:10258960 original size:22 final size:24
Alignment explanation
Indices: 10258915--10258972 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
10258905 TTTAAATTTT
*
10258915 AAATTTTTATATATTATTTTAATA
1 AAATTTTTATATATTATTTAAATA
10258939 AAATTTTTA-ATA-TATTTAAAT-
1 AAATTTTTATATATTATTTAAATA
*
10258960 AAATTTATATATA
1 AAATTTTTATATA
10258973 AAATAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 8 0.26
22 11 0.35
23 3 0.10
24 9 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AAATTTTTATATATTATTTAAATA
Found at i:10259809 original size:21 final size:23
Alignment explanation
Indices: 10259785--10259836 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
10259775 TTAACATCTT
*
10259785 AAATTTTTATTTTTAT-A-TTTA
1 AAATTTTTATTTTAATGATTTTA
*
10259806 AAATTATT-TTTTAATGATTTTA
1 AAATTTTTATTTTAATGATTTTA
10259828 AAATTTTTA
1 AAATTTTTA
10259837 ATGTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 6 0.24
21 8 0.32
22 11 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
AAATTTTTATTTTAATGATTTTA
Found at i:10259866 original size:16 final size:16
Alignment explanation
Indices: 10259847--10259881 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10259837 ATGTTAGAAA
* *
10259847 TTATGAAAATTTAATT
1 TTATAAAAAATTAATT
10259863 TTATAAAAAATTAATT
1 TTATAAAAAATTAATT
10259879 TTA
1 TTA
10259882 ATATTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TTATAAAAAATTAATT
Found at i:10260921 original size:14 final size:14
Alignment explanation
Indices: 10260904--10260948 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
10260894 ATTTATTGAG
10260904 ATTATTTTAAATAT
1 ATTATTTTAAATAT
*
10260918 ATTATTTATAATTAT
1 ATTATTT-TAAATAT
10260933 A-TATTTTAAAT-T
1 ATTATTTTAAATAT
10260945 ATTA
1 ATTA
10260949 GATATAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 2 0.07
13 6 0.22
14 12 0.44
15 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATTTTAAATAT
Found at i:10260940 original size:15 final size:14
Alignment explanation
Indices: 10260906--10260946 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
10260896 TTATTGAGAT
10260906 TATTTTAAA-TATA
1 TATTTTAAATTATA
10260919 T-TATTTATAATTATA
1 TAT-TTTA-AATTATA
10260934 TATTTTAAATTAT
1 TATTTTAAATTAT
10260947 TAGATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 5 0.21
14 8 0.33
15 9 0.38
16 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTTAAATTATA
Found at i:10274217 original size:12 final size:12
Alignment explanation
Indices: 10274200--10274225 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10274190 ATTAGCTTGA
10274200 GAGTTGAAACAG
1 GAGTTGAAACAG
10274212 GAGTTGAAACAG
1 GAGTTGAAACAG
10274224 GA
1 GA
10274226 TTTTTAGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.35, T:0.15
Consensus pattern (12 bp):
GAGTTGAAACAG
Found at i:10277749 original size:11 final size:11
Alignment explanation
Indices: 10277730--10277881 Score: 74
Period size: 11 Copynumber: 13.7 Consensus size: 11
10277720 TTAATAATTG
*
10277730 ATAACTTAATA
1 ATAAATTAATA
*
10277741 ATAAATTAATG
1 ATAAATTAATA
*
10277752 ATAACTTAATA
1 ATAAATTAATA
* *
10277763 ATAAATTAGTG
1 ATAAATTAATA
* *
10277774 GTAATTTAATA
1 ATAAATTAATA
*
10277785 ATAAATTAATT
1 ATAAATTAATA
* **
10277796 TTAGTTTAATA
1 ATAAATTAATA
* *
10277807 GT-AATTAATTG
1 ATAAATTAA-TA
10277818 ATAAACTTAATA
1 ATAAA-TTAATA
* *
10277830 GTAACTT-ATAA
1 ATAAATTAAT-A
*
10277841 ATAATTTAATA
1 ATAAATTAATA
* * *
10277852 GTAAATCAACA
1 ATAAATTAATA
*
10277863 ATAATTTAATA
1 ATAAATTAATA
*
10277874 ATTAATTA
1 ATAAATTA
10277882 TTGAAACTTA
Statistics
Matches: 98, Mismatches: 38, Indels: 10
0.67 0.26 0.07
Matches are distributed among these distances:
10 6 0.06
11 80 0.82
12 8 0.08
13 4 0.04
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:10277753 original size:22 final size:22
Alignment explanation
Indices: 10277728--10277892 Score: 111
Period size: 22 Copynumber: 7.5 Consensus size: 22
10277718 AGTTAATAAT
10277728 TGATAACTTAATAATAAATTAA
1 TGATAACTTAATAATAAATTAA
*
10277750 TGATAACTTAATAATAAATTAG
1 TGATAACTTAATAATAAATTAA
* *
10277772 TGGTAATTTAATAATAAATTAA
1 TGATAACTTAATAATAAATTAA
** ** *
10277794 TTTTAGTTTAATAGT-AATTAA
1 TGATAACTTAATAATAAATTAA
* *
10277815 TTGATAAACTTAATAGTAACTT-A
1 -TGAT-AACTTAATAATAAATTAA
* * * *
10277838 TAAATAATTTAATAGTAAATCAA
1 T-GATAACTTAATAATAAATTAA
** * * *
10277861 CAATAATTTAATAATTAATTAT
1 TGATAACTTAATAATAAATTAA
10277883 TGA-AACTTAA
1 TGATAACTTAA
10277893 ACGCAAATCA
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
21 12 0.11
22 85 0.75
23 13 0.12
24 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (22 bp):
TGATAACTTAATAATAAATTAA
Found at i:10277844 original size:23 final size:22
Alignment explanation
Indices: 10277801--10277855 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
10277791 TAATTTTAGT
**
10277801 TTAATAGTAATTAATTGATAAAC
1 TTAATAGTAATTAATAAAT-AAC
*
10277824 TTAATAGTAACTT-ATAAATAAT
1 TTAATAGTAA-TTAATAAATAAC
10277846 TTAATAGTAA
1 TTAATAGTAA
10277856 ATCAACAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.43
23 14 0.50
24 2 0.07
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (22 bp):
TTAATAGTAATTAATAAATAAC
Found at i:10279949 original size:2 final size:2
Alignment explanation
Indices: 10279942--10279985 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
10279932 ATCCCTCTTA
*
10279942 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10279984 AT
1 AT
10279986 TCTAATAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10280993 original size:2 final size:2
Alignment explanation
Indices: 10280986--10281011 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10280976 TTAGACTTTG
10280986 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
10281012 TCCTTATCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10282482 original size:17 final size:19
Alignment explanation
Indices: 10282457--10282499 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
10282447 ACGAATCAAA
10282457 TTATATATATTTTTAA-TTT
1 TTATATATA-TTTTAAGTTT
10282476 TTATATATATTTTAAGTTT
1 TTATATATATTTTAAGTTT
10282495 TTATA
1 TTATA
10282500 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATATATATTTTAAGTTT
Found at i:10287493 original size:9 final size:9
Alignment explanation
Indices: 10287481--10287510 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
10287471 GATATTTTAT
10287481 TAATTAAAA
1 TAATTAAAA
10287490 TAATTAAAA
1 TAATTAAAA
10287499 TATATTAAAA
1 TA-ATTAAAA
10287509 TA
1 TA
10287511 TAAAAACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:10287507 original size:10 final size:10
Alignment explanation
Indices: 10287483--10287512 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10287473 TATTTTATTA
10287483 ATTAAAATA-
1 ATTAAAATAT
10287492 ATTAAAATAT
1 ATTAAAATAT
10287502 ATTAAAATAT
1 ATTAAAATAT
10287512 A
1 A
10287513 AAAACTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:10292909 original size:13 final size:13
Alignment explanation
Indices: 10292891--10292916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10292881 AACTGATTCC
10292891 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
10292904 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
10292917 GAAAGAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:10309039 original size:61 final size:61
Alignment explanation
Indices: 10308944--10309066 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
10308934 AAACATATAT
10308944 TAATGCCAATGCATAATATGAACCAGAGGTAAAGGGTTTGCATAAGAGCATAAAGAAGCAG
1 TAATGCCAATGCATAATATGAACCAGAGGTAAAGGGTTTGCATAAGAGCATAAAGAAGCAG
*
10309005 TAATGCCAATGCATAATATGAACCAGAGGTAAAGGGTTTGCATAAGAGCATAGAGAAGCAG
1 TAATGCCAATGCATAATATGAACCAGAGGTAAAGGGTTTGCATAAGAGCATAAAGAAGCAG
10309066 T
1 T
10309067 TACCCGTTGC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.20
Consensus pattern (61 bp):
TAATGCCAATGCATAATATGAACCAGAGGTAAAGGGTTTGCATAAGAGCATAAAGAAGCAG
Found at i:10313201 original size:20 final size:19
Alignment explanation
Indices: 10313176--10313254 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 19
10313166 ATTACGAAAA
*
10313176 TAATTATTGAAATTTAAATT
1 TAATTATT-AAAATTAAATT
10313196 TAATTATTAAAATTAAATT
1 TAATTATTAAAATTAAATT
*
10313215 AAAATTTATTAAATATT-AATT
1 -TAA-TTATTAAA-ATTAAATT
* *
10313236 ATAAATA-AAAAATTAAATT
1 -TAATTATTAAAATTAAATT
10313255 AATCTAATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
18 3 0.06
19 17 0.34
20 12 0.24
21 15 0.30
22 3 0.06
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (19 bp):
TAATTATTAAAATTAAATT
Found at i:10313852 original size:3 final size:3
Alignment explanation
Indices: 10313844--10313871 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10313834 TAGCTTGGAG
10313844 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
10313872 CAGCAGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10314506 original size:3 final size:3
Alignment explanation
Indices: 10314498--10314523 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10314488 ATCAATTTAT
10314498 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
10314524 GAGGCAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Done.