Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 66 of 211
Found at i:17479879 original size:18 final size:19
Alignment explanation
Indices: 17479845--17479884 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
17479835 AATAGTATCC
*
17479845 TTTTAACCAACCATCACCT
1 TTTTAACCAACCATCACAT
*
17479864 TTTTAACCAA-CTTCACAT
1 TTTTAACCAACCATCACAT
17479882 TTT
1 TTT
17479885 CACCTTCGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTTAACCAACCATCACAT
Found at i:17486657 original size:24 final size:24
Alignment explanation
Indices: 17486628--17486676 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
17486618 CCATGGATGA
17486628 GTATGGTAAAATATTGAAATTTAT
1 GTATGGTAAAATATTGAAATTTAT
*
17486652 GTATGGTAAAATTTTGAAATTTAT
1 GTATGGTAAAATATTGAAATTTAT
17486676 G
1 G
17486677 GTAGAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (24 bp):
GTATGGTAAAATATTGAAATTTAT
Found at i:17489787 original size:38 final size:38
Alignment explanation
Indices: 17489744--17489855 Score: 215
Period size: 38 Copynumber: 2.9 Consensus size: 38
17489734 TCAGAAAAAG
17489744 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACTGT
1 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACTGT
*
17489782 AAAGAATTTTTAGAACTCAAATAAGGGAATATGACTGT
1 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACTGT
17489820 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACT
1 AAAGAATTTTTAGAACTCAAATAGGGGAATATGACT
17489856 ATATCTGAGT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 72 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.29
Consensus pattern (38 bp):
AAAGAATTTTTAGAACTCAAATAGGGGAATATGACTGT
Found at i:17494886 original size:15 final size:16
Alignment explanation
Indices: 17494868--17494901 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17494858 ATTTTTTCGA
*
17494868 TTTCTTTT-TTCTTTT
1 TTTCTTTTGCTCTTTT
17494883 TTTCTTTTGCTCTTTT
1 TTTCTTTTGCTCTTTT
17494899 TTT
1 TTT
17494902 TTACAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTCTTTTGCTCTTTT
Found at i:17496142 original size:23 final size:22
Alignment explanation
Indices: 17496098--17496144 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
17496088 AAAAACTAGT
* * *
17496098 AAAATAAAAATAAATTATATAA
1 AAAATAAAAAGAAATAAAATAA
17496120 AAAATAATAAAGAAATAAAATAA
1 AAAATAA-AAAGAAATAAAATAA
17496143 AA
1 AA
17496145 GGGGTGGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAAAAGAAATAAAATAA
Found at i:17503471 original size:9 final size:9
Alignment explanation
Indices: 17503459--17503572 Score: 61
Period size: 9 Copynumber: 12.0 Consensus size: 9
17503449 TATATTAAAA
17503459 AATATTTTT
1 AATATTTTT
17503468 AATATTTTT
1 AATATTTTT
* *
17503477 TATAATTTT
1 AATATTTTT
**
17503486 AATGGTTTT
1 AATATTTTT
17503495 AA-ATTTTTT
1 AATA-TTTTT
* *
17503504 AAAAATAGTTT
1 -AATAT-TTTT
17503515 AATATTTTTT
1 AATA-TTTTT
* *
17503525 TATAATTTT
1 AATATTTTT
17503534 AATGATTTTT
1 AAT-ATTTTT
*
17503544 AATTTTTTT
1 AATATTTTT
17503553 AAAATAGTTTTT
1 --AATA-TTTTT
17503565 -ATATTTTT
1 AATATTTTT
17503573 TTGGATTTTT
Statistics
Matches: 80, Mismatches: 16, Indels: 19
0.70 0.14 0.17
Matches are distributed among these distances:
8 5 0.06
9 42 0.52
10 20 0.25
11 8 0.10
12 5 0.06
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (9 bp):
AATATTTTT
Found at i:17503574 original size:49 final size:49
Alignment explanation
Indices: 17503441--17503574 Score: 175
Period size: 48 Copynumber: 2.8 Consensus size: 49
17503431 AATTTTTAAA
* *
17503441 ATTTTAAATATATTAAAAAATA-TTTTTA-ATATTTTTTATAATTTTAATG
1 ATTTTAAAT-TTTTTAAAAATAGTTTTTATAT-TTTTTTATAATTTTAATG
* *
17503490 GTTTTAAATTTTTTAAAAATAG-TTTAATATTTTTTTATAATTTTAATG
1 ATTTTAAATTTTTTAAAAATAGTTTTTATATTTTTTTATAATTTTAATG
* *
17503538 ATTTTTAATTTTTTTAAAATAGTTTTTATATTTTTTT
1 ATTTTAAATTTTTTAAAAATAGTTTTTATATTTTTTT
17503575 GGATTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 51 0.69
49 23 0.31
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (49 bp):
ATTTTAAATTTTTTAAAAATAGTTTTTATATTTTTTTATAATTTTAATG
Found at i:17504443 original size:31 final size:32
Alignment explanation
Indices: 17504385--17504464 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 32
17504375 TAAAATAGGG
*
17504385 TTTTAGGTTCCTTAAAAGTTGGATAAAAAAAA
1 TTTTAGGATCCTTAAAAGTTGGATAAAAAAAA
*
17504417 TTTTAGG-TCCTTTAAAAGTTGG-TAAAATAAA
1 TTTTAGGATCC-TTAAAAGTTGGATAAAAAAAA
17504448 TTTT-GGATCCTTAAAAG
1 TTTTAGGATCCTTAAAAG
17504465 CTAAATTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
30 9 0.20
31 18 0.40
32 18 0.40
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (32 bp):
TTTTAGGATCCTTAAAAGTTGGATAAAAAAAA
Found at i:17508531 original size:31 final size:32
Alignment explanation
Indices: 17508447--17508571 Score: 122
Period size: 32 Copynumber: 4.1 Consensus size: 32
17508437 TTGATACTTG
*
17508447 AACTTGACAACTTTTTCCTAA-TTGGTACCTA
1 AACTTGACATCTTTTTCCTAATTTGGTACCTA
*
17508478 AAC-T---ATTTTTTGGTCC-AATTTGGTATCC-A
1 AACTTGACATCTTTT--TCCTAATTTGGTA-CCTA
17508507 AACTTGACA-CTTTTTCCTAATTTGGTACCTA
1 AACTTGACATCTTTTTCCTAATTTGGTACCTA
* * *
17508538 AACTTGACATTTTTTTCTTAATTTGGTACTTA
1 AACTTGACATCTTTTTCCTAATTTGGTACCTA
17508570 AA
1 AA
17508572 ATTTTTAGGG
Statistics
Matches: 77, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
27 5 0.06
28 2 0.03
29 13 0.17
30 9 0.12
31 22 0.29
32 25 0.32
33 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.44
Consensus pattern (32 bp):
AACTTGACATCTTTTTCCTAATTTGGTACCTA
Found at i:17508612 original size:92 final size:90
Alignment explanation
Indices: 17508447--17508630 Score: 228
Period size: 92 Copynumber: 2.0 Consensus size: 90
17508437 TTGATACTTG
* **
17508447 AACTTGACAACTTTTTCCTAATTGGTACCTAAACTATTTTTTGGTCCAATTTGGTATCCAAACTT
1 AACTTGACAACTTTTTCCTAATTGGTACCTAAAC-ATTTTTGGGTCCAATTTGGTATCCAAACAC
17508512 GACACTTTTTCCTAATTTGGTACCTA
65 GACACTTTTTCCTAATTTGGTACCTA
** * * *
17508538 AACTTGACATTTTTTTCTTAATTTGGTACTTAAA-ATTTTTAGGGGTCCAATTTGGTA-CCTGAA
1 AACTTGACAACTTTTTCCTAA-TTGGTACCTAAACATTTTT--GGGTCCAATTTGGTATCC-AAA
*
17508601 CACGACTCTTTTTCCTAATTTGGTACCTA
62 CACGACACTTTTTCCTAATTTGGTACCTA
17508630 A
1 A
17508631 TCTTTTTTCT
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
90 6 0.08
91 20 0.25
92 54 0.68
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (90 bp):
AACTTGACAACTTTTTCCTAATTGGTACCTAAACATTTTTGGGTCCAATTTGGTATCCAAACACG
ACACTTTTTCCTAATTTGGTACCTA
Found at i:17508831 original size:24 final size:21
Alignment explanation
Indices: 17508787--17508844 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 21
17508777 TTCAATTACT
17508787 TTTAGTTTTAATTAATATTAA
1 TTTAGTTTTAATTAATATTAA
17508808 TTTAGTTATTAATTAAAATATTAA
1 TTTAGTT-TTAATT--AATATTAA
**
17508832 TTTTCTTTTAATT
1 TTTAGTTTTAATT
17508845 TGGGGTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.22
22 6 0.19
23 6 0.19
24 13 0.41
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTAGTTTTAATTAATATTAA
Found at i:17509119 original size:61 final size:61
Alignment explanation
Indices: 17509020--17509214 Score: 223
Period size: 61 Copynumber: 3.2 Consensus size: 61
17509010 TAATAAATTT
** ** * * * *
17509020 AGGTACCAAATTGAACCTAAAAAAAGGATAAGTGTCAAATTAGGAAAAAAATGCCAAGTTC
1 AGGTACCAAATTGGGCCTAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAGTGTCAAGTTC
* *
17509081 AAGTACCAAATTGGGCCTAAAAAAAGTTTAGGTATCAAATTA-GAAAAAAGTGTAAAGTTC
1 AGGTACCAAATTGGGCCTAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAGTGTCAAGTTC
* * * *
17509141 AGGTAACACAGATTGGGCC-AAAAAAGAGTTTAGGTACCGAATTAGGAAAAAAGTGTCAAGTTT
1 AGGT-AC-CAAATTGGGCCTAAAAAA-AGTTTAGGTATCAAATTAGGAAAAAAGTGTCAAGTTC
17509204 AGGTACCAAAT
1 AGGTACCAAAT
17509215 GTTATATAAA
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
60 18 0.16
61 47 0.42
62 28 0.25
63 20 0.18
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.22
Consensus pattern (61 bp):
AGGTACCAAATTGGGCCTAAAAAAAGTTTAGGTATCAAATTAGGAAAAAAGTGTCAAGTTC
Found at i:17509308 original size:19 final size:21
Alignment explanation
Indices: 17509261--17509307 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
17509251 TCTTTCAACA
*
17509261 AAAAAAATACAAAATATTTTT
1 AAAAAAATACAAAATATTTAT
17509282 AAAAAAAT-CAAAATATTTAT
1 AAAAAAATACAAAATATTTAT
17509302 AAAAAA
1 AAAAAA
17509308 TTCCAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAAATACAAAATATTTAT
Found at i:17509315 original size:20 final size:20
Alignment explanation
Indices: 17509262--17509315 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
17509252 CTTTCAACAA
* *
17509262 AAAAAATACAAAATATTTTT
1 AAAAAATTCAAAATATTTAT
*
17509282 AAAAAAATCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
*
17509302 AAAAAATTCCAAAT
1 AAAAAATTCAAAAT
17509316 TTTCATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:17512392 original size:27 final size:27
Alignment explanation
Indices: 17512352--17512407 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
17512342 CAAATAAATA
* * *
17512352 AAAAATGTAGTATTGACCTTATTCTTTT
1 AAAAATGTAATATTCACCTTAAT-TTTT
17512380 AAAAA-GTAATATTCACCTTAATTTTT
1 AAAAATGTAATATTCACCTTAATTTTT
17512406 AA
1 AA
17512408 TTAAGTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.24
27 14 0.56
28 5 0.20
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (27 bp):
AAAAATGTAATATTCACCTTAATTTTT
Found at i:17514191 original size:15 final size:17
Alignment explanation
Indices: 17514171--17514202 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
17514161 TTAGTTTTTT
17514171 TCATAA-TAAA-TTTAA
1 TCATAAGTAAAGTTTAA
17514186 TCATAAGTAAAGTTTAA
1 TCATAAGTAAAGTTTAA
17514203 CGTATTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (17 bp):
TCATAAGTAAAGTTTAA
Found at i:17521688 original size:31 final size:31
Alignment explanation
Indices: 17521653--17521733 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
17521643 AATATATTTA
17521653 GAAGATGTTGAAACAAGATTCAATAGATTAG
1 GAAGATGTTGAAACAAGATTCAATAGATTAG
* *
17521684 GAAGATGTTGAAGCAAGATTCAATAGATTGG
1 GAAGATGTTGAAACAAGATTCAATAGATTAG
17521715 GAAGATGTTGAAACAAGAT
1 GAAGATGTTGAAACAAGAT
17521734 GAAAACGTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.25
Consensus pattern (31 bp):
GAAGATGTTGAAACAAGATTCAATAGATTAG
Found at i:17523189 original size:7 final size:7
Alignment explanation
Indices: 17523177--17523208 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
17523167 AAATAAGGAA
*
17523177 ATTTTGG
1 ATTTTGT
17523184 ATTTTGT
1 ATTTTGT
17523191 ATTTTGT
1 ATTTTGT
17523198 ATTTTGT
1 ATTTTGT
17523205 ATTT
1 ATTT
17523209 ACGTATGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.69
Consensus pattern (7 bp):
ATTTTGT
Found at i:17526330 original size:19 final size:19
Alignment explanation
Indices: 17526306--17526351 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
17526296 AATAGTCAAA
* *
17526306 TTAAAAATTTTGTTTATCT
1 TTAAAAACTTAGTTTATCT
*
17526325 TTAAAAGACTTAGTTTATTT
1 TTAAAA-ACTTAGTTTATCT
17526345 TTAAAAA
1 TTAAAAA
17526352 ACGACTATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (19 bp):
TTAAAAACTTAGTTTATCT
Found at i:17533019 original size:28 final size:30
Alignment explanation
Indices: 17532988--17533043 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17532978 GAATTTAGTC
*
17532988 ATTATAC-TTT-AATTTAGTCAATTTTAAT
1 ATTATACTTTTCAAATTAGTCAATTTTAAT
17533016 ATTATACTTTTCAAATTAGTCAATTTTA
1 ATTATACTTTTCAAATTAGTCAATTTTA
17533044 GTCTTGTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.28
29 3 0.12
30 15 0.60
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.52
Consensus pattern (30 bp):
ATTATACTTTTCAAATTAGTCAATTTTAAT
Found at i:17540691 original size:13 final size:14
Alignment explanation
Indices: 17540655--17540693 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
17540645 TAATATAATT
17540655 TTAATAAGTTTATAA
1 TTAATAA-TTTATAA
*
17540670 TTTATAATTTAT-A
1 TTAATAATTTATAA
17540683 TTAATAATTTA
1 TTAATAATTTA
17540694 AATATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 5 0.23
15 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (14 bp):
TTAATAATTTATAA
Found at i:17541156 original size:25 final size:26
Alignment explanation
Indices: 17541107--17541159 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
17541097 CATTAAATAG
* * *
17541107 TAATAGAATGTTGATTGTGTATTTCT
1 TAATAGAATGTTCAATGTGCATTTCT
17541133 TAATAGAATG-TCAATGTGCATTTCT
1 TAATAGAATGTTCAATGTGCATTTCT
17541158 TA
1 TA
17541160 TTTTAGTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (26 bp):
TAATAGAATGTTCAATGTGCATTTCT
Found at i:17555616 original size:30 final size:30
Alignment explanation
Indices: 17555582--17555640 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
17555572 CTTAATAAGG
17555582 AAATGCCTTTAAAATAAGAACAAAATTAAC
1 AAATGCCTTTAAAATAAGAACAAAATTAAC
*
17555612 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTTTAAAATAAGAACAAAATTAA
17555641 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (30 bp):
AAATGCCTTTAAAATAAGAACAAAATTAAC
Found at i:17555698 original size:22 final size:22
Alignment explanation
Indices: 17555673--17555715 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17555663 TATTCAAACA
17555673 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
17555695 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
17555716 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:17559577 original size:17 final size:16
Alignment explanation
Indices: 17559535--17559590 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
17559525 CTACTTACTC
*
17559535 CTTCACTTTCTCTACTTGG
1 CTTC-CTTTCTCT-CTT-T
17559554 CTT-CTTTCTCTCTTCT
1 CTTCCTTTCTCTCTT-T
17559570 CTTCCTTTCTCTTCTTT
1 CTTCCTTTCTC-TCTTT
17559587 CTTC
1 CTTC
17559591 TTGTTCTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 6 0.18
17 20 0.61
18 4 0.12
19 3 0.09
ACGTcount: A:0.04, C:0.36, G:0.04, T:0.57
Consensus pattern (16 bp):
CTTCCTTTCTCTCTTT
Found at i:17560948 original size:43 final size:42
Alignment explanation
Indices: 17560859--17560983 Score: 187
Period size: 43 Copynumber: 3.0 Consensus size: 42
17560849 AACAAAAACA
*
17560859 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTATAAATG
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTACAAATG
*
17560901 CCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTTACAAATG
1 CCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTTACAAATG
* * * *
17560944 CCGCTAAAGAACATATTCTTTAGTGGCGCTTTTATACAAA
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTACAAA
17560984 AACGCCATAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
42 37 0.49
43 38 0.51
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (42 bp):
CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTACAAATG
Found at i:17561061 original size:14 final size:14
Alignment explanation
Indices: 17561042--17561075 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
17561032 GCCCTCCTGT
17561042 AGCAACAATTCAAA
1 AGCAACAATTCAAA
17561056 AGCAACAATTCAAA
1 AGCAACAATTCAAA
17561070 AGCAAC
1 AGCAAC
17561076 CAATAGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.24, G:0.09, T:0.12
Consensus pattern (14 bp):
AGCAACAATTCAAA
Found at i:17561360 original size:21 final size:21
Alignment explanation
Indices: 17561296--17561362 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
17561286 GCTCTGCTCC
* *
17561296 GCTTCTCTCGCTGCAGCCTCC
1 GCTTCCCTCGCTGCAGCCTCT
*
17561317 GCTTCCCTCGCTGCAGCCGCT
1 GCTTCCCTCGCTGCAGCCTCT
* *
17561338 GCTTCCCTCGCTTCCGCCTCT
1 GCTTCCCTCGCTGCAGCCTCT
17561359 GCTT
1 GCTT
17561363 TAAGTTGTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.48, G:0.19, T:0.30
Consensus pattern (21 bp):
GCTTCCCTCGCTGCAGCCTCT
Found at i:17563996 original size:25 final size:25
Alignment explanation
Indices: 17563965--17564045 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
17563955 TGATATACAT
*
17563965 TTATGTATTAAGTAAATTATATAAG
1 TTATGTATTAAGTAAGTTATATAAG
17563990 TTATGTACGTGT-A-TAAGTTA-AGTAAG
1 TTATGTA--T-TAAGTAAGTTATA-TAAG
*
17564016 TTATGTATTAAGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATATAAG
17564041 TTATG
1 TTATG
17564046 AAAGTAATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 24 0.51
26 17 0.36
27 2 0.04
28 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATATAAG
Found at i:17564045 original size:9 final size:9
Alignment explanation
Indices: 17563976--17564364 Score: 190
Period size: 9 Copynumber: 44.4 Consensus size: 9
17563966 TATGTATTAA
*
17563976 GTAAATTAT
1 GTAAGTTAT
*
17563985 ATAAGTTAT
1 GTAAGTTAT
*
17563994 GTACGTGTA-
1 GTAAGT-TAT
*
17564003 -TAAGTTAA
1 GTAAGTTAT
17564011 GTAAGTTAT
1 GTAAGTTAT
*
17564020 GT-A-TTAA
1 GTAAGTTAT
17564027 GTAAGTTAT
1 GTAAGTTAT
17564036 GTAAGTTAT
1 GTAAGTTAT
* *
17564045 GAAAGTAAT
1 GTAAGTTAT
* *
17564054 GTATGTAAT
1 GTAAGTTAT
17564063 GTAAG-T-T
1 GTAAGTTAT
17564070 GTAAGTTAT
1 GTAAGTTAT
*
17564079 -TATGTATTAT
1 GTAAG--TTAT
17564089 GTAAGTTAT
1 GTAAGTTAT
17564098 GTAAGTTAT
1 GTAAGTTAT
17564107 GTAAGTTAAAT
1 GTAAGTT--AT
17564118 GT-A-TTAT
1 GTAAGTTAT
17564125 GTAAG-T-T
1 GTAAGTTAT
17564132 GTAAGTTAAAT
1 GTAAGTT--AT
17564143 GT-A-TTAT
1 GTAAGTTAT
17564150 GTAAG-T-T
1 GTAAGTTAT
17564157 GTAAGTTAAAT
1 GTAAGTT--AT
17564168 GT-A-TTAT
1 GTAAGTTAT
17564175 GTAAGTTAT
1 GTAAGTTAT
*
17564184 -TATGTATTAT
1 GTAAG--TTAT
17564194 GTAAG-T-T
1 GTAAGTTAT
17564201 GTAAGTTAT
1 GTAAGTTAT
*
17564210 -TATGTATTAT
1 GTAAG--TTAT
17564220 GTAAG-T-T
1 GTAAGTTAT
17564227 GTAAGTTAAAT
1 GTAAGTT--AT
*
17564238 GT-A-TTGT
1 GTAAGTTAT
17564245 GTAAG-T-T
1 GTAAGTTAT
17564252 GTAAGTTAT
1 GTAAGTTAT
*
17564261 -TATGTATTAT
1 GTAAG--TTAT
17564271 GTAAGTTAT
1 GTAAGTTAT
17564280 GTAAGTTAAAT
1 GTAAGTT--AT
17564291 GT-A-TTAT
1 GTAAGTTAT
*
17564298 GTAGGTTAT
1 GTAAGTTAT
*
17564307 GTAAGTTGT
1 GTAAGTTAT
**
17564316 GTAAGAGAT
1 GTAAGTTAT
*
17564325 TTAAGTTAT
1 GTAAGTTAT
*
17564334 GTAGGTTAT
1 GTAAGTTAT
* *
17564343 TTAGGTTAT
1 GTAAGTTAT
*
17564352 GTAAGTTTT
1 GTAAGTTAT
17564361 GTAA
1 GTAA
17564365 TGTGCAAGTG
Statistics
Matches: 293, Mismatches: 38, Indels: 98
0.68 0.09 0.23
Matches are distributed among these distances:
7 62 0.21
8 33 0.11
9 146 0.50
10 23 0.08
11 29 0.10
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:17564058 original size:22 final size:24
Alignment explanation
Indices: 17563965--17564109 Score: 82
Period size: 25 Copynumber: 6.3 Consensus size: 24
17563955 TGATATACAT
* *
17563965 TTATGTATTAAGTAAATTATATAAG
1 TTATGTA-TAAGTAAGTTATGTAAG
* *
17563990 TTATGTACGTGTA-TAAGTTAAGTAAG
1 TTATGTA--T-AAGTAAGTTATGTAAG
17564016 TTATGTATTAAGTAAGTTATGTAAG
1 TTATGTA-TAAGTAAGTTATGTAAG
17564041 TTATG-A-AAGTAA-TGTATGTAA-
1 TTATGTATAAGTAAGT-TATGTAAG
* *
17564062 TGTAAGT-T--GTAAGTTAT-TATG
1 T-TATGTATAAGTAAGTTATGTAAG
17564083 -TAT-TAT--GTAAGTTATGTAAG
1 TTATGTATAAGTAAGTTATGTAAG
17564103 TTATGTA
1 TTATGTA
17564110 AGTTAAATGT
Statistics
Matches: 95, Mismatches: 12, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
18 1 0.01
19 12 0.13
20 5 0.05
21 12 0.13
22 19 0.20
24 2 0.02
25 25 0.26
26 18 0.19
27 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (24 bp):
TTATGTATAAGTAAGTTATGTAAG
Found at i:17564140 original size:25 final size:25
Alignment explanation
Indices: 17564094--17564300 Score: 291
Period size: 25 Copynumber: 8.3 Consensus size: 25
17564084 ATTATGTAAG
17564094 TTATGTAAGTTATGTAAGTTAAATGTA
1 TTATGTAAG-T-TGTAAGTTAAATGTA
17564121 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
17564146 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
17564171 TTATGTAAG-T-T-A-TT--ATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
*
17564190 TTATGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTA
17564216 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
* *
17564241 TTGTGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTA
17564267 TTATGTAAGTTATGTAAGTTAAATGTA
1 TTATGTAAG-T-TGTAAGTTAAATGTA
17564294 TTATGTA
1 TTATGTA
17564301 GGTTATGTAA
Statistics
Matches: 165, Mismatches: 5, Indels: 20
0.87 0.03 0.11
Matches are distributed among these distances:
19 14 0.08
20 1 0.01
21 3 0.02
22 2 0.01
23 3 0.02
24 1 0.01
25 72 0.44
26 38 0.23
27 22 0.13
28 9 0.05
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTAAGTTGTAAGTTAAATGTA
Found at i:17564229 original size:70 final size:70
Alignment explanation
Indices: 17564103--17564300 Score: 283
Period size: 70 Copynumber: 2.7 Consensus size: 70
17564093 GTTATGTAAG
*
17564103 TTATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAA
1 TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAA
17564167 TGTA-
66 TGTAT
*
17564171 TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAA
1 TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAA
17564236 ATGTATT
65 ATGTA-T
17564243 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTA
1 -T-T-A--TGTAAGTTATTATGTATTATGTAAG-T-TGTAAGTTAAATGTATTATGTA
17564301 GGTTATGTAA
Statistics
Matches: 116, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
68 12 0.10
69 24 0.21
70 30 0.26
73 1 0.01
74 1 0.01
75 1 0.01
77 25 0.22
78 13 0.11
79 9 0.08
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (70 bp):
TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTAAA
TGTAT
Found at i:17564240 original size:51 final size:53
Alignment explanation
Indices: 17564171--17564300 Score: 219
Period size: 51 Copynumber: 2.5 Consensus size: 53
17564161 GTTAAATGTA
*
17564171 TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAG
1 TTATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAG
*
17564225 -T-TGTAAGTTAAATGTATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAG
1 TTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAG
17564276 TTATGTAAGTTAAATGTATTATGTA
1 TTATGTAAGTTAAATGTATTATGTA
17564301 GGTTATGTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
51 39 0.55
52 10 0.14
53 22 0.31
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (53 bp):
TTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAG
Found at i:17566909 original size:83 final size:83
Alignment explanation
Indices: 17566817--17566983 Score: 289
Period size: 83 Copynumber: 2.0 Consensus size: 83
17566807 AAATCTTACA
* * *
17566817 AATTTCATTTCATGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTGTTTGCGGCGTTTTTTA
1 AATTTCATTTCACGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTATTTGCGGCGTTTGTTA
*
17566882 CAAAAACGCCATTAAATT
66 CAAAAACGCCACTAAATT
*
17566900 AATTTCATTTCACGAAACGGCTCCGTTTTATTCAATTTTTCAAATATTATTTGCGGCGTTTGTTA
1 AATTTCATTTCACGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTATTTGCGGCGTTTGTTA
17566965 CAAAAACGCCACTAAATT
66 CAAAAACGCCACTAAATT
17566983 A
1 A
17566984 TTTATATTTA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (83 bp):
AATTTCATTTCACGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTATTTGCGGCGTTTGTTA
CAAAAACGCCACTAAATT
Found at i:17567444 original size:39 final size:40
Alignment explanation
Indices: 17567373--17567453 Score: 119
Period size: 39 Copynumber: 2.0 Consensus size: 40
17567363 CCTAACCCAT
**
17567373 AACCCCTAAATCCCCCTTAACCTTTAAAGCATAAACCCTA
1 AACCCCTAAATCCCCCTTAACCCCTAAAGCATAAACCCTA
* *
17567413 AACCCCTAAATCTCCC-TAACCCCTAAAGCATAACCCCTA
1 AACCCCTAAATCCCCCTTAACCCCTAAAGCATAAACCCTA
17567452 AA
1 AA
17567454 TAATTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 22 0.59
40 15 0.41
ACGTcount: A:0.38, C:0.40, G:0.02, T:0.20
Consensus pattern (40 bp):
AACCCCTAAATCCCCCTTAACCCCTAAAGCATAAACCCTA
Found at i:17568509 original size:22 final size:22
Alignment explanation
Indices: 17568481--17568523 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17568471 ACCGTTCAAA
*
17568481 CTCTAAACCCCAAATCCCTAAC
1 CTCTAAACCCCAAACCCCTAAC
*
17568503 CTCTAAACCCTAAACCCCTAA
1 CTCTAAACCCCAAACCCCTAA
17568524 ATTCCTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (22 bp):
CTCTAAACCCCAAACCCCTAAC
Found at i:17569021 original size:114 final size:111
Alignment explanation
Indices: 17568826--17569257 Score: 418
Period size: 114 Copynumber: 3.8 Consensus size: 111
17568816 ATTCTAAATC
* ** * * *
17568826 CCTGAGCATTAGCGGCACTTTTTTAAAAACGCCGCTAAAACCCCT-AAAGCTAAGAAAACGACGT
1 CCTGAGCATTAGCGGCGCTTTCATAAAAACGCCACT-AAATCCCTGAAAGCTCAGAAAACGACGT
17568890 CGTTGGGCTTAGGTTTTTAGCGGCGCTTTTACAAAAAACGCCGCTAAAAA
65 CGTT-GGCTTAGGTTTTTAGCGGCGCTTTT-C-AAAAACGCCGCTAAAAA
* *
17568940 CCTGAGCATTAGCGGCGCTTT-ATATAAAGCGCCACTAAATCCCTGAAAGCTGGC-G-AGACGAC
1 CCTGAGCATTAGCGGCGCTTTCATA-AAAACGCCACTAAATCCCTGAAAGCT--CAGAAAACGAC
* ** * *
17569002 GTCGTTGCGC-TAGATTTTTTTTCGGCGCTTTCCCAGAAACGCCGCTAAAAGA
63 GTCGTTG-GCTTAG-GTTTTTAGCGGCGCTTT-TCAAAAACGCCGCTAAAA-A
* * * *
17569054 CATGAGCATTAGTGGCGCTTTCATAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCCTGAAAGCTCAGAAAACGACGTC
17569119 GTTGGCCTTAGGTTTTTAGCGGCGCTTCCTT-AAAAACGCCGCTAAAAA
66 GTTGG-CTTAGGTTTTTAGCGGCGCTT--TTCAAAAACGCCGCTAAAAA
* * * * *
17569167 CCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCACC--AAATG-TCTTG-AAACGGC
1 CCTGAGCATTAGCGGCGCTTTCATAAAAACGCCACTAAATC-CCTGAAA-GCTC-AGAAAACGAC
*
17569228 GTCGTTGCGC-TAGGTTTTTTGCGGCGCTTT
63 GTCGTTG-GCTTAGGTTTTTAGCGGCGCTTT
17569258 CCCGAAAACG
Statistics
Matches: 270, Mismatches: 29, Indels: 43
0.79 0.08 0.13
Matches are distributed among these distances:
109 1 0.00
111 18 0.07
112 21 0.08
113 71 0.26
114 151 0.56
115 7 0.03
116 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (111 bp):
CCTGAGCATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCCTGAAAGCTCAGAAAACGACGTC
GTTGGCTTAGGTTTTTAGCGGCGCTTTTCAAAAACGCCGCTAAAAA
Found at i:17574483 original size:41 final size:42
Alignment explanation
Indices: 17574406--17574487 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
17574396 AAGGAGACGG
* * *
17574406 AGTATAACGAGGTTGAACTGAAGAGGAAGATGCCACAGGAGA
1 AGTATAACGAGGTTGAACTGAAAAAGAAGATACCACAGGAGA
*
17574448 AGTATAACGAGG-TGGACTGAAAAAGAAGATACCACAGGAG
1 AGTATAACGAGGTTGAACTGAAAAAGAAGATACCACAGGAG
17574488 GAGTGCTGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 24 0.67
42 12 0.33
ACGTcount: A:0.43, C:0.12, G:0.32, T:0.13
Consensus pattern (42 bp):
AGTATAACGAGGTTGAACTGAAAAAGAAGATACCACAGGAGA
Found at i:17576272 original size:17 final size:17
Alignment explanation
Indices: 17576250--17576289 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
17576240 ATCGTATATT
* *
17576250 ATTATTTTAGGTTTATC
1 ATTATTTTAAGTGTATC
17576267 ATTATTTTAAGTGTATC
1 ATTATTTTAAGTGTATC
17576284 ATTATT
1 ATTATT
17576290 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (17 bp):
ATTATTTTAAGTGTATC
Found at i:17576344 original size:24 final size:23
Alignment explanation
Indices: 17576262--17576374 Score: 127
Period size: 23 Copynumber: 4.8 Consensus size: 23
17576252 TATTTTAGGT
* * *
17576262 TTATCATTATTTTAAGTGTATCA
1 TTATTATTATTTTAAATTTATCA
*
17576285 TTATTATTATTTTAAATTTATCC
1 TTATTATTATTTTAAATTTATCA
* *
17576308 TTAATATTATTTTAAATTTATTA
1 TTATTATTATTTTAAATTTATCA
* *
17576331 TGTATTATTATTTTGAACTTATCA
1 T-TATTATTATTTTAAATTTATCA
17576355 TCTATTATTATTTGTAAATT
1 T-TATTATTATTT-TAAATT
17576375 CAATATAATT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
23 40 0.54
24 30 0.41
25 4 0.05
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTATTATTTTAAATTTATCA
Found at i:17582734 original size:18 final size:18
Alignment explanation
Indices: 17582674--17582735 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
17582664 TAGGAGAAGA
17582674 AATAGAAGAGAATAAAGGG
1 AATAGAAGAGAATAAA-GG
* * *
17582693 ATACAGCAGAGAAATCAA--
1 A-ATAGAAGAG-AATAAAGG
17582711 AATAGAAGAGAATAAAGG
1 AATAGAAGAGAATAAAGG
17582729 AATAGAA
1 AATAGAA
17582736 CAGAGAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 8 0.24
19 1 0.03
20 7 0.21
21 5 0.15
ACGTcount: A:0.60, C:0.05, G:0.24, T:0.11
Consensus pattern (18 bp):
AATAGAAGAGAATAAAGG
Found at i:17582742 original size:20 final size:20
Alignment explanation
Indices: 17582680--17582743 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
17582670 AAGAAATAGA
* * *
17582680 AGAGAATAAAGGGATACAGC
1 AGAGAATAAAGGAATAGAAC
*
17582700 AGAGAAATCAA--AATAG-A-
1 AGAG-AATAAAGGAATAGAAC
17582717 AGAGAATAAAGGAATAGAAC
1 AGAGAATAAAGGAATAGAAC
17582737 AGAGAAT
1 AGAGAAT
17582744 TTGATCTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
16 5 0.15
17 4 0.12
18 5 0.15
19 4 0.12
20 11 0.32
21 5 0.15
ACGTcount: A:0.58, C:0.06, G:0.25, T:0.11
Consensus pattern (20 bp):
AGAGAATAAAGGAATAGAAC
Found at i:17584862 original size:16 final size:16
Alignment explanation
Indices: 17584833--17584880 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
17584823 CGTTTGATTC
* *
17584833 GCTGTAACGGAATAGA
1 GCTGTAATGAAATAGA
*
17584849 GGTGTAATGAAATAGA
1 GCTGTAATGAAATAGA
*
17584865 GCTGTAATGGAATAGA
1 GCTGTAATGAAATAGA
17584881 TGCGTAATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (16 bp):
GCTGTAATGAAATAGA
Found at i:17584887 original size:16 final size:15
Alignment explanation
Indices: 17584836--17584888 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
17584826 TTGATTCGCT
* *
17584836 GTAACGGAATAGAGGT
1 GTAATGGAATAGA-GC
*
17584852 GTAATGAAATAGAGC
1 GTAATGGAATAGAGC
17584867 TGTAATGGAATAGATGC
1 -GTAATGGAATAGA-GC
17584884 GTAAT
1 GTAAT
17584889 AGTAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.90
17 2 0.06
ACGTcount: A:0.40, C:0.06, G:0.30, T:0.25
Consensus pattern (15 bp):
GTAATGGAATAGAGC
Found at i:17585185 original size:56 final size:54
Alignment explanation
Indices: 17585069--17585303 Score: 161
Period size: 55 Copynumber: 4.1 Consensus size: 54
17585059 ATTATTAATC
* * * * * *
17585069 TAAATAATAAATAATTTAATCATATT-TTAACATAATTATTATTAAATATAATTTAA
1 TAAA-AATATATAATTTAATAAAATTCTAAATATAATTATTCTT--ATATAATTTAA
* *
17585125 TAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTA
1 TAAAAATATATAATTTAATAAAATTCTAAATA-TAATTATTCTTATAT-AATTTA--A
* * * *
17585183 AAATCATAATATATAATACTATAAATATAATT-TAAA-ATAATAATTATTAAATATAATTTAA
1 TAA--A-AATATATAAT--T-T-AATAAAATTCTAAATATAATTATTCTT--ATATAATTTAA
* * *
17585244 TAAAAATATATAATTTAATAAAATTCTCAATATAATTATTCTTAAATGAATTTAC
1 TAAAAATATATAATTTAATAAAATTCTAAATATAATTATTCTTATAT-AATTTAA
17585299 TAAAA
1 TAAAA
17585304 TCATAATATA
Statistics
Matches: 143, Mismatches: 19, Indels: 35
0.73 0.10 0.18
Matches are distributed among these distances:
54 11 0.08
55 37 0.26
56 26 0.18
57 9 0.06
58 13 0.09
59 1 0.01
60 1 0.01
61 13 0.09
62 8 0.06
63 8 0.06
64 8 0.06
65 8 0.06
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (54 bp):
TAAAAATATATAATTTAATAAAATTCTAAATATAATTATTCTTATATAATTTAA
Found at i:17585221 original size:21 final size:21
Alignment explanation
Indices: 17585178--17585221 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17585168 TATATGAATT
*
17585178 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
17585199 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
17585220 TA
1 TA
17585222 ATAATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:17585224 original size:31 final size:30
Alignment explanation
Indices: 17585188--17585261 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 30
17585178 TACTAAAATC
17585188 ATAATATATAATACTATAAATATAATTTAA-A
1 ATAATATATAATA-T-TAAATATAATTTAATA
17585219 ATAATA-AT--TATTAAATATAATTTAATA
1 ATAATATATAATATTAAATATAATTTAATA
*
17585246 AAAATATATAAT-TTAA
1 ATAATATATAATATTAA
17585262 TAAAATTCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
26 14 0.37
27 7 0.18
28 4 0.11
29 4 0.11
30 3 0.08
31 6 0.16
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAATATATAATATTAAATATAATTTAATA
Found at i:17585227 original size:13 final size:12
Alignment explanation
Indices: 17585205--17585243 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
17585195 ATAATACTAT
17585205 AAATATAATTTA
1 AAATATAATTTA
*
17585217 AAATAATAATTATT
1 AAAT-ATAATT-TA
17585231 AAATATAATTTA
1 AAATATAATTTA
17585243 A
1 A
17585244 TAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.26
13 12 0.52
14 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAATATAATTTA
Found at i:17585231 original size:119 final size:118
Alignment explanation
Indices: 17585094--17585331 Score: 413
Period size: 119 Copynumber: 2.0 Consensus size: 118
17585084 TTAATCATAT
* * *
17585094 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATA-T
* *
17585159 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAATATAA
65 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
17585213 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATATA
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATATA
*
17585278 ATTATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
66 AATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
17585331 T
1 T
17585332 ATATAATCTA
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
118 53 0.47
119 60 0.53
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (118 bp):
TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATATA
AATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAAATAA
Found at i:17585349 original size:118 final size:119
Alignment explanation
Indices: 17585100--17585334 Score: 409
Period size: 118 Copynumber: 2.0 Consensus size: 119
17585090 ATATTTTAAC
* *
17585100 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATATTAAATAT
* * *
17585165 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAATATAATTTAAA
66 TCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAAATAATATAAA
*
17585219 ATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATA-TAATTAT
1 ATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATATTAAATAT
17585283 TCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAAATAATATA
66 TCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAAATAATATA
17585335 TAATCTACTT
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
118 55 0.50
119 55 0.50
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (119 bp):
ATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTCAATATTAAATAT
TCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAAATAATATAAA
Found at i:17586794 original size:49 final size:49
Alignment explanation
Indices: 17586722--17586825 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
17586712 AGAAAAAAAC
* * * **
17586722 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAGCACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAAAACTTTATA
17586771 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAAAACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAAAACTTTATA
17586820 AAATTA
1 AAATTA
17586826 TAACACATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAAAACTTTATA
Found at i:17589091 original size:16 final size:17
Alignment explanation
Indices: 17589072--17589110 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
17589062 AATACATTGG
17589072 AATATTAAAAAT-AAAA
1 AATATTAAAAATAAAAA
17589088 AATATTAAAAATAAAAA
1 AATATTAAAAATAAAAA
17589105 AATATT
1 AATATT
17589111 TGTTTAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATATTAAAAATAAAAA
Found at i:17590119 original size:12 final size:12
Alignment explanation
Indices: 17590099--17590128 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17590089 GCGATAAAGG
*
17590099 AAACGCTATATT
1 AAACTCTATATT
17590111 AAACTCTATATT
1 AAACTCTATATT
17590123 AAACTC
1 AAACTC
17590129 AGCAAGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.33
Consensus pattern (12 bp):
AAACTCTATATT
Found at i:17591896 original size:20 final size:19
Alignment explanation
Indices: 17591871--17591917 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
17591861 TGATTAACAT
*
17591871 AATTAAGCTCGATTAAGTTA
1 AATTAAGCTAGATTAA-TTA
*
17591891 AATTAAACTAGATTAATTA
1 AATTAAGCTAGATTAATTA
17591910 AATCTAAG
1 AAT-TAAG
17591918 TAAAGTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.34
Consensus pattern (19 bp):
AATTAAGCTAGATTAATTA
Found at i:17592264 original size:22 final size:22
Alignment explanation
Indices: 17592236--17592280 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
17592226 GACTATTAGA
17592236 AAGTTAGTTAAGCTTGTTTGTT
1 AAGTTAGTTAAGCTTGTTTGTT
17592258 AAGTTAGTTAAGCTTGTTTGTT
1 AAGTTAGTTAAGCTTGTTTGTT
17592280 A
1 A
17592281 CACTTGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.49
Consensus pattern (22 bp):
AAGTTAGTTAAGCTTGTTTGTT
Found at i:17595916 original size:30 final size:31
Alignment explanation
Indices: 17595876--17595966 Score: 130
Period size: 30 Copynumber: 3.0 Consensus size: 31
17595866 TATGTGGCAA
* *
17595876 TACAGGGTATGAATATGTAAATATGAATGAC
1 TACAAGGTATGAATATGCAAATATGAATGAC
* *
17595907 TAC-ATGTATGAATATGCAAATATGAAGGAC
1 TACAAGGTATGAATATGCAAATATGAATGAC
*
17595937 TACAAGGTATGATTATGCAAATATGAATGA
1 TACAAGGTATGAATATGCAAATATGAATGA
17595967 TTGATGCCTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
30 26 0.50
31 26 0.50
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.29
Consensus pattern (31 bp):
TACAAGGTATGAATATGCAAATATGAATGAC
Found at i:17599596 original size:24 final size:25
Alignment explanation
Indices: 17599549--17599596 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
17599539 TAACTTGATT
* * *
17599549 TGAAATTTTTTCGAGTTGAGTTAAG
1 TGAAATTGTTTCGAGTTAAATTAAG
17599574 TGAAATTGTTT-GAGTTAAATTAA
1 TGAAATTGTTTCGAGTTAAATTAA
17599597 AAATACTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (25 bp):
TGAAATTGTTTCGAGTTAAATTAAG
Found at i:17599878 original size:19 final size:20
Alignment explanation
Indices: 17599854--17599898 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17599844 ATAAATTATA
*
17599854 GAATTTTTATAAA-TATTTT
1 GAATTTTTAAAAATTATTTT
17599873 GAA-TTTTAAAAATTATTTT
1 GAATTTTTAAAAATTATTTT
17599892 -AATTTTT
1 GAATTTTT
17599899 TTGTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
GAATTTTTAAAAATTATTTT
Found at i:17599879 original size:18 final size:18
Alignment explanation
Indices: 17599858--17599897 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17599848 ATTATAGAAT
*
17599858 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AA
17599876 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
17599894 TTTT
1 TTTT
17599898 TTTGTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:17603614 original size:7 final size:7
Alignment explanation
Indices: 17603602--17603626 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17603592 CATCTTTTGC
17603602 ATATATT
1 ATATATT
17603609 ATATATT
1 ATATATT
17603616 ATATATT
1 ATATATT
17603623 ATAT
1 ATAT
17603627 GTACTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATATT
Found at i:17606002 original size:11 final size:11
Alignment explanation
Indices: 17605984--17606030 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
17605974 TACACCAATG
17605984 AATAACAAACA
1 AATAACAAACA
*
17605995 ATTAACAAACA
1 AATAACAAACA
17606006 AAT-ACAAACA
1 AATAACAAACA
*
17606016 AGCATAACAACCA
1 A--ATAACAAACA
17606029 AA
1 AA
17606031 ATTTCAATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.27
11 13 0.43
12 2 0.07
13 7 0.23
ACGTcount: A:0.66, C:0.21, G:0.02, T:0.11
Consensus pattern (11 bp):
AATAACAAACA
Found at i:17613307 original size:24 final size:24
Alignment explanation
Indices: 17613274--17613321 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
17613264 GTGCCTGCAA
*
17613274 CTTTAATGAA-TGTGGTTTTGGTG
1 CTTTAATGAAGTGTGGCTTTGGTG
17613297 CTTTGAATGAAGTGTGGCTTTGGTG
1 CTTT-AATGAAGTGTGGCTTTGGTG
17613322 GTTAATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 6 0.27
25 12 0.55
ACGTcount: A:0.17, C:0.06, G:0.33, T:0.44
Consensus pattern (24 bp):
CTTTAATGAAGTGTGGCTTTGGTG
Found at i:17615759 original size:12 final size:12
Alignment explanation
Indices: 17615742--17615773 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
17615732 GCATAACCAC
17615742 AAATATATATAT
1 AAATATATATAT
17615754 AAATATATATAT
1 AAATATATATAT
17615766 AAAT-TATA
1 AAATATATA
17615774 GAATTTCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAATATATATAT
Found at i:17618159 original size:14 final size:15
Alignment explanation
Indices: 17618140--17618168 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17618130 TCACGAAACT
17618140 TTCACACAT-ATAAA
1 TTCACACATAATAAA
17618154 TTCACACATAATAAA
1 TTCACACATAATAAA
17618169 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:17638956 original size:49 final size:49
Alignment explanation
Indices: 17638862--17638956 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
17638852 AATTAGTTCT
* * **
17638862 TTTTTATTGTAATATTTTCAGTTTATTTTAGTTATTTCACCAAAAATCA
1 TTTTTATTATAATATTTTCAGTTTATTTTAGTTATATCAAAAAAAATCA
*
17638911 TTTTTATTATAATCTTTTCAGTTTATTTT-GCTTATATCAAAAAAAA
1 TTTTTATTATAATATTTTCAGTTTATTTTAG-TTATATCAAAAAAAA
17638957 AAAAAAAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 1 0.03
49 39 0.98
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (49 bp):
TTTTTATTATAATATTTTCAGTTTATTTTAGTTATATCAAAAAAAATCA
Found at i:17642230 original size:21 final size:22
Alignment explanation
Indices: 17642197--17642241 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
17642187 ATCAATACCA
* *
17642197 TTACCATTATCATTCTTAACAT
1 TTACCATTATCATTATCAACAT
*
17642219 TTACCA-TCTCATTATCAACAT
1 TTACCATTATCATTATCAACAT
17642240 TT
1 TT
17642242 TGCTCACCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.44
Consensus pattern (22 bp):
TTACCATTATCATTATCAACAT
Found at i:17650773 original size:50 final size:50
Alignment explanation
Indices: 17650698--17650890 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
17650688 ATTTGGGTAA
17650698 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
17650748 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
17650798 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
17650848 AGAACTTCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17650891 TGTTATTATC
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 95 0.74
51 34 0.26
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:17652498 original size:24 final size:24
Alignment explanation
Indices: 17652466--17652512 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
17652456 GAGAAGCAGA
17652466 AAATTGCTCAAAACAAAAAAAATT
1 AAATTGCTCAAAACAAAAAAAATT
17652490 AAATTGCTCAAAACAAAAAAAAT
1 AAATTGCTCAAAACAAAAAAAAT
17652513 AGGGACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.19
Consensus pattern (24 bp):
AAATTGCTCAAAACAAAAAAAATT
Found at i:17656756 original size:18 final size:18
Alignment explanation
Indices: 17656735--17656781 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
17656725 TTTTCAATTT
17656735 AATTTATACTTAAT-TAAA
1 AATTTATA-TTAATATAAA
*
17656753 AATTTTTATTAATATAAA
1 AATTTATATTAATATAAA
*
17656771 ACTTTA-ATTAA
1 AATTTATATTAA
17656782 GCACCTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTATATTAATATAAA
Found at i:17662806 original size:17 final size:18
Alignment explanation
Indices: 17662729--17662847 Score: 73
Period size: 19 Copynumber: 6.2 Consensus size: 18
17662719 TATTAATATA
17662729 TTAATATATTTTATAACTTT
1 TTAATAT-TTTTATAA-TTT
* *
17662749 TTAAATAATTTTTA-CATGT
1 TT-AAT-ATTTTTATAATTT
17662768 TTATATAATTTTATAATAATTT
1 TTA-AT-ATTTT-T-ATAATTT
*
17662790 TTAAT-TTTTTGTAA-TT
1 TTAATATTTTTATAATTT
*
17662806 TTCATATTTTTATAATTT
1 TTAATATTTTTATAATTT
*
17662824 TTTATATGTTTATATAATATT
1 TTAATAT-TTT-TATAAT-TT
17662845 TTA
1 TTA
17662848 CAATTTTTGA
Statistics
Matches: 79, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
16 6 0.08
17 11 0.14
18 10 0.13
19 19 0.24
20 10 0.13
21 15 0.19
22 8 0.10
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TTAATATTTTTATAATTT
Found at i:17662807 original size:9 final size:9
Alignment explanation
Indices: 17662737--17662855 Score: 66
Period size: 9 Copynumber: 12.4 Consensus size: 9
17662727 TATTAATATA
17662737 TTTTATAACT
1 TTTTATAA-T
17662747 TTTTAAATAAT
1 TTTT--ATAAT
*
17662758 TTTTA-CAT
1 TTTTATAAT
17662766 GTTTATATAAT
1 -TTT-TATAAT
17662777 TTTATAATAAT
1 TTT-T-ATAAT
*
17662788 TTTTA-ATT
1 TTTTATAAT
*
17662796 TTTTGTAAT
1 TTTTATAAT
*
17662805 TTTCAT-AT
1 TTTTATAAT
17662813 TTTTATAAT
1 TTTTATAAT
17662822 TTTT-TATAT
1 TTTTATA-AT
17662831 GTTTATATAAT
1 -TTT-TATAAT
*
17662842 ATTTTACAAT
1 -TTTTATAAT
17662852 TTTT
1 TTTT
17662856 GATGACATTT
Statistics
Matches: 87, Mismatches: 10, Indels: 25
0.71 0.08 0.20
Matches are distributed among these distances:
8 17 0.20
9 23 0.26
10 20 0.23
11 21 0.24
12 6 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:17662825 original size:18 final size:18
Alignment explanation
Indices: 17662783--17662855 Score: 62
Period size: 17 Copynumber: 4.0 Consensus size: 18
17662773 TAATTTTATA
*
17662783 ATAATTTTTAAT-TTTTT
1 ATAATTTTTCATATTTTT
*
17662800 GTAA-TTTTCATATTTTT
1 ATAATTTTTCATATTTTT
*
17662817 ATAATTTTTTATATGTTTAT
1 ATAATTTTTCATAT-TTT-T
17662837 ATAATATTTTACA-ATTTTT
1 ATAAT-TTTT-CATATTTTT
17662856 GATGACATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 6 0.13
17 11 0.24
18 8 0.18
19 4 0.09
20 9 0.20
21 6 0.13
22 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
ATAATTTTTCATATTTTT
Found at i:17662895 original size:23 final size:25
Alignment explanation
Indices: 17662843--17662903 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
17662833 TTATATAATA
*
17662843 TTTTACAATTTTTGATGACATTTTTC
1 TTTTACAAATTTTGATGA-ATTTTTC
*
17662869 TTTTACAAATTTT-ATG-ATTTTTG
1 TTTTACAAATTTTGATGAATTTTTC
*
17662892 TTTTATAAATTT
1 TTTTACAAATTT
17662904 GTATTAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.53
25 3 0.09
26 12 0.38
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.61
Consensus pattern (25 bp):
TTTTACAAATTTTGATGAATTTTTC
Found at i:17664289 original size:111 final size:111
Alignment explanation
Indices: 17664125--17664399 Score: 297
Period size: 111 Copynumber: 2.4 Consensus size: 111
17664115 CTGTTGGTTG
* *** *
17664125 CTGCTATTTTG-TGATTCAATTGCTATTTGTTGCTATTCAATTGTTGTTTTTCTTGGCACTTCAT
1 CTGCTATTTTGCT-ATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTTCTTCTTGGCACTTC-T
*
17664189 -TGCAACTACTGACTACTACTATTCATTTGTTGTTTTTCCAGCAAC-TG-
64 CTGCAACTACTGACTACTACTATTCATTTATT-TTTTT-CAGCAACTTGC
*
17664236 CTGCTATTTTTCTATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTTCTTCTTGGCACTTCTCT
1 CTGCTATTTTGCTATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTTCTTCTTGGCACTTCTCT
* * ** * *
17664301 GCAACTGCTGGCTGTTGCTATTCATTTATTTTTTTCGGCAACTGTTGCC
66 GCAACTACTGACTACTACTATTCATTTATTTTTTTCAGCAAC--TTG-C
* * *
17664350 TACTGCTATTTTGCTATTCAATTGTTGGCTGCTACTATTCAATTTTTGTT
1 --CTGCTATTTTGCTATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTT
17664400 TCAAGATAAG
Statistics
Matches: 138, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
109 6 0.04
110 6 0.04
111 79 0.57
112 3 0.02
116 44 0.32
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (111 bp):
CTGCTATTTTGCTATTCAATTGTTGGCTGTTGCTATTCAATTGTTGTTCTTCTTGGCACTTCTCT
GCAACTACTGACTACTACTATTCATTTATTTTTTTCAGCAACTTGC
Found at i:17668411 original size:40 final size:42
Alignment explanation
Indices: 17668366--17668466 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 42
17668356 TAATCTTCAA
17668366 ATATATGTAATCTTAGATATGA-TATGCAATCTT-AGATATG
1 ATATATGTAATCTTAGATATGATTATGCAATCTTAAGATATG
*
17668406 ATATATGCAATCTTAGATATGATTTATGCAATCTTAGAAGATATG
1 ATATATGTAATCTTAGATATGA-TTATGCAATCTT--AAGATATG
*
17668451 AT-TTTGTAATCTTAGA
1 ATATATGTAATCTTAGA
17668467 GATTTAATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 21 0.40
42 11 0.21
44 12 0.23
45 9 0.17
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.41
Consensus pattern (42 bp):
ATATATGTAATCTTAGATATGATTATGCAATCTTAAGATATG
Found at i:17668413 original size:21 final size:21
Alignment explanation
Indices: 17668366--17668443 Score: 124
Period size: 21 Copynumber: 3.8 Consensus size: 21
17668356 TAATCTTCAA
*
17668366 ATATATGTAATCTTAGATATG
1 ATATATGCAATCTTAGATATG
17668387 --ATATGCAATCTTAGATATG
1 ATATATGCAATCTTAGATATG
17668406 ATATATGCAATCTTAGATATG
1 ATATATGCAATCTTAGATATG
*
17668427 ATTTATGCAATCTTAGA
1 ATATATGCAATCTTAGA
17668444 AGATATGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATATGCAATCTTAGATATG
Found at i:17668452 original size:24 final size:21
Alignment explanation
Indices: 17668369--17668466 Score: 121
Period size: 21 Copynumber: 4.7 Consensus size: 21
17668359 TCTTCAAATA
*
17668369 TATGTAATCTTAGATATGA--
1 TATGCAATCTTAGATATGATT
*
17668388 TATGCAATCTTAGATATGATA
1 TATGCAATCTTAGATATGATT
17668409 TATGCAATCTTAGATATGATT
1 TATGCAATCTTAGATATGATT
17668430 TATGCAATCTTAGAAGATATGATT
1 TATGCAATCTT---AGATATGATT
*
17668454 T-TGTAATCTTAGA
1 TATGCAATCTTAGA
17668467 GATTTAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
19 18 0.25
20 3 0.04
21 31 0.44
23 8 0.11
24 11 0.15
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (21 bp):
TATGCAATCTTAGATATGATT
Found at i:17668748 original size:3 final size:3
Alignment explanation
Indices: 17668742--17668833 Score: 55
Period size: 3 Copynumber: 30.0 Consensus size: 3
17668732 CTTTTTTTAT
* * * *
17668742 TTA TTA TTTA TTA CTTA TTA TTTA TTT TTA TTA -AA TT- TAA TT- TTC
1 TTA TTA -TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
17668787 TTG TTA TTAA GTTA TTA TTA TTG TTA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17668834 CTATATATAC
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
2 4 0.06
3 52 0.75
4 11 0.16
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:17668750 original size:7 final size:7
Alignment explanation
Indices: 17668738--17668774 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
17668728 TAGTCTTTTT
17668738 TTATTTA
1 TTATTTA
17668745 TTATTTA
1 TTATTTA
*
17668752 TTACTTA
1 TTATTTA
17668759 TTATTTA
1 TTATTTA
17668766 TT-TTTA
1 TTATTTA
17668772 TTA
1 TTA
17668775 AATTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATTTA
Found at i:17668961 original size:25 final size:27
Alignment explanation
Indices: 17668933--17668986 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
17668923 TATATTATTC
*
17668933 TATTTGCA-TAAC-TTTTATATACATA
1 TATTTACATTAACATTTTATATACATA
*
17668958 TATTTACATTTACATTTTATATACATA
1 TATTTACATTAACATTTTATATACATA
17668985 TA
1 TA
17668987 CATTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 3 0.12
27 15 0.60
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (27 bp):
TATTTACATTAACATTTTATATACATA
Found at i:17668988 original size:17 final size:17
Alignment explanation
Indices: 17668949--17668992 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17668939 CATAACTTTT
* *
17668949 ATATACA-TATATTTAC
1 ATATACATTTTATATAC
*
17668965 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
17668982 ATATACATTTT
1 ATATACATTTT
17668993 TTATTTCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:17669208 original size:28 final size:27
Alignment explanation
Indices: 17669177--17669236 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
17669167 GTAATTATCT
* *
17669177 TTTTTATAATCTATATATATGTATATAA
1 TTTTTAT-ATATATATACATGTATATAA
* *
17669205 TTTTT-TATATATGTACATGTATATAT
1 TTTTTATATATATATACATGTATATAA
17669231 TTTTTA
1 TTTTTA
17669237 CCCTTTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 21 0.78
27 1 0.04
28 5 0.19
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (27 bp):
TTTTTATATATATATACATGTATATAA
Found at i:17669210 original size:30 final size:31
Alignment explanation
Indices: 17669158--17669215 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
17669148 TATTTGTTTA
*
17669158 TATATATAAGTAATTATCTTTTT-TATAATC
1 TATATATAAGTAATAATCTTTTTATATAATC
*
17669188 TATATATATGTATATAAT-TTTTTATATA
1 TATATATAAGTA-ATAATCTTTTTATATA
17669216 TGTACATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (31 bp):
TATATATAAGTAATAATCTTTTTATATAATC
Found at i:17669398 original size:18 final size:18
Alignment explanation
Indices: 17669359--17669402 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
17669349 CTTTGCATGT
*
17669359 TATTGATTTATTTTTATT
1 TATTGATTTATTTTTATA
17669377 TATTGATTTATTTGTT-TA
1 TATTGATTTATTT-TTATA
17669395 TATT-ATTT
1 TATTGATTT
17669403 TTATGTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 18 0.75
19 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
TATTGATTTATTTTTATA
Found at i:17673833 original size:22 final size:22
Alignment explanation
Indices: 17673805--17673847 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17673795 CATTTATGAC
17673805 TTAAACACATTCATAATACGAA
1 TTAAACACATTCATAATACGAA
*
17673827 TTAAACACGTTCATAATACGA
1 TTAAACACATTCATAATACGA
17673848 TTCACAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.28
Consensus pattern (22 bp):
TTAAACACATTCATAATACGAA
Found at i:17674957 original size:16 final size:16
Alignment explanation
Indices: 17674936--17674966 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17674926 CCTGACTATG
17674936 CCAATTCAATACCATA
1 CCAATTCAATACCATA
17674952 CCAATTCAATACCAT
1 CCAATTCAATACCAT
17674967 TCATATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (16 bp):
CCAATTCAATACCATA
Found at i:17680302 original size:20 final size:20
Alignment explanation
Indices: 17680277--17680316 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17680267 CTAATGTGGT
*
17680277 CCACACAGCCTCACACATGC
1 CCACACAACCTCACACATGC
17680297 CCACACAACCTCACACATGC
1 CCACACAACCTCACACATGC
17680317 TCGTGTGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.50, G:0.07, T:0.10
Consensus pattern (20 bp):
CCACACAACCTCACACATGC
Found at i:17686102 original size:79 final size:79
Alignment explanation
Indices: 17685971--17686132 Score: 306
Period size: 79 Copynumber: 2.1 Consensus size: 79
17685961 CACCACCGTC
*
17685971 TTATGTCATATACAAAAAGTAAAAGTTCAATCTAAATGAAGCATAGTCCATCTTAGTATTCATAT
1 TTATGTCATATACAAAAAGTAAAAGTTCAATCTAAACGAAGCATAGTCCATCTTAGTATTCATAT
17686036 AGGTTTTAAGTCAA
66 AGGTTTTAAGTCAA
*
17686050 TTATGTCATATACAACAAGTAAAAGTTCAATCTAAACGAAGCATAGTCCATCTTAGTATTCATAT
1 TTATGTCATATACAAAAAGTAAAAGTTCAATCTAAACGAAGCATAGTCCATCTTAGTATTCATAT
17686115 AGGTTTTAAGTCAA
66 AGGTTTTAAGTCAA
17686129 TTAT
1 TTAT
17686133 ACTTGTTATT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (79 bp):
TTATGTCATATACAAAAAGTAAAAGTTCAATCTAAACGAAGCATAGTCCATCTTAGTATTCATAT
AGGTTTTAAGTCAA
Found at i:17694486 original size:24 final size:24
Alignment explanation
Indices: 17694453--17694510 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
17694443 AACATATTCT
17694453 CAAGCCAATACAAAACATTCAAGC
1 CAAGCCAATACAAAACATTCAAGC
*
17694477 CAATCCAATACAAAACATTCAAGC
1 CAAGCCAATACAAAACATTCAAGC
17694501 CAAGCCAATA
1 CAAGCCAATA
17694511 TCAAGTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (24 bp):
CAAGCCAATACAAAACATTCAAGC
Found at i:17695626 original size:25 final size:25
Alignment explanation
Indices: 17695584--17695631 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17695574 CTCACAAGAA
*
17695584 CCATATAATGGGAAGCTCGTGAGAG
1 CCATATAATGGGAAGCTCATGAGAG
* **
17695609 CCATATATTGGGGTGCTCATGAG
1 CCATATAATGGGAAGCTCATGAG
17695632 GGCTAATAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (25 bp):
CCATATAATGGGAAGCTCATGAGAG
Found at i:17696755 original size:14 final size:14
Alignment explanation
Indices: 17696736--17696762 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17696726 TGTAATCGGT
17696736 AAAATTTTCTTAAC
1 AAAATTTTCTTAAC
17696750 AAAATTTTCTTAA
1 AAAATTTTCTTAA
17696763 GACATTCCTA
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:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTTTCTTAAC
Found at i:17697597 original size:6 final size:6
Alignment explanation
Indices: 17697586--17697612 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17697576 ACTTTTTTAA
17697586 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
17697613 TATAATTTTT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:17697605 original size:22 final size:22
Alignment explanation
Indices: 17697580--17697623 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
17697570 TTGTGAACTT
*
17697580 TTTTAATTTATTT-TTATTTTTA
1 TTTTAATTT-TTTATAATTTTTA
*
17697602 TTTTTATTTTTTATAATTTTTA
1 TTTTAATTTTTTATAATTTTTA
17697624 AATTATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTAATTTTTTATAATTTTTA
Found at i:17697989 original size:3 final size:3
Alignment explanation
Indices: 17697981--17698018 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17697971 TAAAGTCCAA
17697981 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17698019 ACCCAATACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17712138 original size:50 final size:50
Alignment explanation
Indices: 17712080--17712210 Score: 163
Period size: 50 Copynumber: 2.6 Consensus size: 50
17712070 TAGGTCCTAT
* * ** *
17712080 GTAAGACCATGTCTGCGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGAGACATGGCATTGGCACCGAGATGAGAACTCCCAC
* * *
17712130 GTAAGACCATGTCTGAGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGAGACATGGCATTGGCACCGAGATGAGAACTCCCAC
* * *
17712180 GTAAGACCATATCTGGGATATGGCATTGGCA
1 GTAAGACCATGTCTGAGACATGGCATTGGCA
17712211 GTACAGAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
GTAAGACCATGTCTGAGACATGGCATTGGCACCGAGATGAGAACTCCCAC
Found at i:17712468 original size:12 final size:12
Alignment explanation
Indices: 17712451--17712489 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17712441 ATGAGTTATT
17712451 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
17712463 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
17712475 TAAGTGAGTAAG
1 TAAGTAAGCAAG
17712487 TAA
1 TAA
17712490 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:17716014 original size:17 final size:17
Alignment explanation
Indices: 17715989--17716029 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
17715979 TCTGGTTATT
17715989 ATTAGTTGCAGGTTAAAG
1 ATTA-TTGCAGGTTAAAG
*
17716007 ATTATTGCGGGTTAAAG
1 ATTATTGCAGGTTAAAG
17716024 ATTATT
1 ATTATT
17716030 CGGCACTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (17 bp):
ATTATTGCAGGTTAAAG
Found at i:17719568 original size:12 final size:12
Alignment explanation
Indices: 17719543--17719581 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17719533 ACTCGCTTCT
* *
17719543 TTACTTACTCAC
1 TTACTTGCTTAC
*
17719555 TTACTTGTTTAC
1 TTACTTGCTTAC
17719567 TTACTTGCTTAC
1 TTACTTGCTTAC
17719579 TTA
1 TTA
17719582 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:17722046 original size:14 final size:16
Alignment explanation
Indices: 17722013--17722049 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17722003 CTAAAATTCC
*
17722013 TCTTTGCAATTCTGTT
1 TCTTTTCAATTCTGTT
17722029 TCTTTTCAATT-T-TT
1 TCTTTTCAATTCTGTT
17722043 TCTTTTC
1 TCTTTTC
17722050 CAATATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 10 0.50
ACGTcount: A:0.11, C:0.19, G:0.05, T:0.65
Consensus pattern (16 bp):
TCTTTTCAATTCTGTT
Found at i:17722390 original size:36 final size:36
Alignment explanation
Indices: 17722321--17722391 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
17722311 TTCCCATTAG
* * *
17722321 CACACGGCCGTGTGAAATCATGCAGACTATGTGGGA
1 CACAAGGCCGTGTGAAATCATACAGACCATGTGGGA
* *
17722357 CACAAGGCTGTGTGAAATCATACAGACCGTGTGGG
1 CACAAGGCCGTGTGAAATCATACAGACCATGTGGG
17722392 TAAACCGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (36 bp):
CACAAGGCCGTGTGAAATCATACAGACCATGTGGGA
Found at i:17723725 original size:22 final size:20
Alignment explanation
Indices: 17723692--17723746 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 20
17723682 TTTATTTCTT
*
17723692 AAAATTTCAAAATTAAAAATTA
1 AAAATTT-AAAAATAAAAA-TA
17723714 AAAACTTTAAAAATAAAAATA
1 AAAA-TTTAAAAATAAAAATA
17723735 AAATATTTAAAA
1 AAA-ATTTAAAA
17723747 GTTATTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 12 0.40
22 15 0.50
23 3 0.10
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATTTAAAAATAAAAATA
Found at i:17723743 original size:21 final size:22
Alignment explanation
Indices: 17723690--17723746 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
17723680 GTTTTATTTC
* *
17723690 TTAAAAT-TTCAAAATTAAAAA
1 TTAAAATATTTAAAAATAAAAA
17723711 TTAAAA-ACTTTAAAAATAAAAA
1 TTAAAATA-TTTAAAAATAAAAA
17723733 -TAAAATATTTAAAA
1 TTAAAATATTTAAAA
17723747 GTTATTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAATATTTAAAAATAAAAA
Found at i:17724233 original size:15 final size:15
Alignment explanation
Indices: 17724193--17724233 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
17724183 CACCTTCAAG
* *
17724193 CACAATCTCAAATAC
1 CACAAACTCATATAC
17724208 CACAAACTCATATAC
1 CACAAACTCATATAC
17724223 CACAAACTCAT
1 CACAAACTCAT
17724234 TTTGAGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
CACAAACTCATATAC
Found at i:17728441 original size:124 final size:123
Alignment explanation
Indices: 17728220--17728475 Score: 361
Period size: 124 Copynumber: 2.1 Consensus size: 123
17728210 AAATAGTGGG
** * * * *
17728220 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* *
17728285 TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTGACGTTTTCTGAGGAAATAGTATA
66 TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTGACG-TTTCTGAGCAAACAGTATA
* *
17728344 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* *
17728409 TCGCTACAGTTGGTCATGT-AGGAAATAATTTTTTTTTGACGTTTCTGAGCAAACAGTGTC
66 TCGCTACAG-TGGTCATGTGA-GAAATAA-TTTTTTTTGACGTTTCTGAGCAAACAGTATA
17728469 AAATCGC
1 AAATCGC
17728476 GCCCTCGTGG
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
124 67 0.57
125 38 0.32
126 12 0.10
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (123 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTGACGTTTCTGAGCAAACAGTATA
Found at i:17731839 original size:151 final size:151
Alignment explanation
Indices: 17731660--17732270 Score: 1150
Period size: 151 Copynumber: 4.0 Consensus size: 151
17731650 TTTAATTAAA
17731660 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGG
1 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGG
17731725 TTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
66 TTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
17731790 GGGTTTTTAATTAAATTAGGT
131 GGGTTTTTAATTAAATTAGGT
*
17731811 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTATTTAAATAGG
1 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGG
17731876 TTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
66 TTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
17731941 GGGTTTTTAATTAAATTAGGT
131 GGGTTTTTAATTAAATTAGGT
*
17731962 TAGGGTTAAGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGG
1 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGG
* *
17732027 TTTGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAACTAGGTTAGGTTA
66 TTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
*
17732092 GAGTTTTTAATTAAATTAGGT
131 GGGTTTTTAATTAAATTAGGT
* *
17732113 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGATTAGGGTTTTTAATTTATTTAAATAGG
1 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGG
*
17732178 TTAGGGTTTGGGTTTTTAATTAAATTAGATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
66 TTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
17732243 GGGTTTTTAATTAAATTAGGT
131 GGGTTTTTAATTAAATTAGGT
17732264 TAGGGTT
1 TAGGGTT
17732271 TTTAATTAAG
Statistics
Matches: 447, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
151 447 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (151 bp):
TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGG
TTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
GGGTTTTTAATTAAATTAGGT
Found at i:17732226 original size:23 final size:23
Alignment explanation
Indices: 17732200--17732299 Score: 103
Period size: 23 Copynumber: 4.1 Consensus size: 23
17732190 TTTTTAATTA
17732200 AATTAGATTAGGTTAGGGTTTTTAATT
1 AATTAGATTAGGTTAGGG--TTT--TT
*
17732227 AAATTAGGTTAGGTTAGGGTTTTT
1 -AATTAGATTAGGTTAGGGTTTTT
*
17732251 AATTAAATTAGGTTAGGGTTTTT
1 AATTAGATTAGGTTAGGGTTTTT
* *
17732274 AATTA-AGTAGGGTTAGGGATTTT
1 AATTAGATTA-GGTTAGGGTTTTT
17732297 AAT
1 AAT
17732300 CAAATAATGT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
22 3 0.05
23 41 0.62
24 2 0.03
26 3 0.05
28 17 0.26
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (23 bp):
AATTAGATTAGGTTAGGGTTTTT
Found at i:17732290 original size:28 final size:28
Alignment explanation
Indices: 17731642--17732267 Score: 704
Period size: 28 Copynumber: 21.0 Consensus size: 28
17731632 TACAAGTTAA
17731642 TTAGGGTTTTTAATTAAA-TA-G---GG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17731665 TTAGGGTTTTTAATTTAGTTAAATTAGGTTAGG
1 TTAGGGTTTTT-A---A-TTAAATTAGGTTAGG
*
17731698 TTAGGGTTTTTAATTTAATTAAATAGGTTAGGG
1 TTAGGGTTTTTAA-TT-A--AATTAGGTTA-GG
*
17731731 TTTGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17731759 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17731787 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTA-GG
17731816 TTAGGGTTTTTAATTTAGTTAAATTAGGTTAGG
1 TTAGGGTTTTT-A---A-TTAAATTAGGTTAGG
*
17731849 TTAGGGTTTTTAATTTATTTAAATAGGTTAGGG
1 TTAGGGTTTTTAA-TTA---AATTAGGTTA-GG
*
17731882 TTTGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17731910 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17731938 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTA-GG
*
17731967 TTAAGGTTTTTAATTTAGTTAAATTAGGTTAGG
1 TTAGGGTTTTT-A---A-TTAAATTAGGTTAGG
* *
17732000 TTAGGGTTTTTAATTTAATTAAATAGGTTTGGG
1 TTAGGGTTTTTAA-TT-A--AATTAGG-TTAGG
*
17732033 TTTGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
*
17732061 TTAGGGTTTTTAATTAAACTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
*
17732089 TTAGAGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTA-GG
*
17732118 TTAGGGTTTTTAATTTAGTTAAATTAGGTTAGA
1 TTAGGGTTTTT-A---A-TTAAATTAGGTTAGG
*
17732151 TTAGGGTTTTTAATTTATTTAAATAGGTTAGGG
1 TTAGGGTTTTTAA-TTA---AATTAGGTTA-GG
* *
17732184 TTTGGGTTTTTAATTAAATTAGATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17732212 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17732240 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGG
17732268 GTTTTTAATT
Statistics
Matches: 527, Mismatches: 32, Indels: 83
0.82 0.05 0.13
Matches are distributed among these distances:
23 11 0.02
24 1 0.00
27 1 0.00
28 225 0.43
29 85 0.16
30 6 0.01
31 2 0.00
32 47 0.09
33 110 0.21
34 39 0.07
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.47
Consensus pattern (28 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:17734593 original size:28 final size:29
Alignment explanation
Indices: 17734561--17734615 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
17734551 TTGAAAATAT
17734561 TAAAAATTTTAAAATTAT-TTAAAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAAAA
*
17734589 TAAAAATTTTAAAATTTTCTTAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAA
17734616 TGAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAAAATTTTAAAATTATCTTAAAAAAAA
Found at i:17734720 original size:52 final size:51
Alignment explanation
Indices: 17734649--17734751 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
17734639 TTAATATGGA
* * *
17734649 TTTGGAGATTTTTTGAAGGAAATTAAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTAAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
17734700 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTAAGAGAAATTTTGAAGGGAATTGAGAG
17734752 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTAAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:17734767 original size:22 final size:21
Alignment explanation
Indices: 17734701--17734768 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
17734691 ATTTGAGAGT
*
17734701 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGAAAGG-AA
*
17734723 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAG-AATTTTGAAAGGAA
17734745 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAA-TTTTGAAAGGAA
17734767 TT
1 TT
17734769 TGTTTGTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 2 0.05
22 29 0.71
23 10 0.24
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAAGGAA
Found at i:17747622 original size:25 final size:25
Alignment explanation
Indices: 17747591--17747642 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
17747581 CCTAAAAAAA
*
17747591 TTTTAATTGTCCATAACCTCATTTT
1 TTTTAATTGTCCATAACCCCATTTT
*
17747616 TTTTAATTGTCTATAACCCCATTTT
1 TTTTAATTGTCCATAACCCCATTTT
17747641 TT
1 TT
17747643 CTCACAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTAATTGTCCATAACCCCATTTT
Found at i:17748205 original size:14 final size:13
Alignment explanation
Indices: 17748188--17748247 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
17748178 TATTTAATTA
17748188 AATAAATATAATAT
1 AATAAATA-AATAT
*
17748202 AATAAAGTAAATCT
1 AATAAA-TAAATAT
17748216 AATAAAATAAATA-
1 AAT-AAATAAATAT
*
17748229 AGTAAATGAAATA-
1 AATAAAT-AAATAT
17748242 AATAAA
1 AATAAA
17748248 GAAACGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 4 0.10
13 12 0.31
14 18 0.46
15 5 0.13
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (13 bp):
AATAAATAAATAT
Found at i:17748212 original size:19 final size:18
Alignment explanation
Indices: 17748186--17748247 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 18
17748176 AATATTTAAT
*
17748186 TAAATAAATATAATATAA
1 TAAATAAATATAATAAAA
*
17748204 TAAAGTAAATCTAATAAAA
1 TAAA-TAAATATAATAAAA
* *
17748223 TAAATAAGTA-AATGAAA
1 TAAATAAATATAATAAAA
17748240 TAAATAAA
1 TAAATAAA
17748248 GAAACGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 13 0.35
18 8 0.22
19 16 0.43
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (18 bp):
TAAATAAATATAATAAAA
Found at i:17748241 original size:22 final size:22
Alignment explanation
Indices: 17748186--17748247 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
17748176 AATATTTAAT
*
17748186 TAAATAAATATAATATAATAAAG
1 TAAATAAATAAAATA-AATAAAG
*
17748209 TAAATCTAATAAAATAAAT-AAG
1 TAAAT-AAATAAAATAAATAAAG
17748231 TAAATGAAAT-AAATAAA
1 TAAAT-AAATAAAATAAA
17748248 GAAACGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.21
22 11 0.32
23 8 0.24
24 8 0.24
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (22 bp):
TAAATAAATAAAATAAATAAAG
Found at i:17749035 original size:24 final size:26
Alignment explanation
Indices: 17748981--17749035 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
17748971 GTGTTTTGCA
17748981 ATTGAAATAGATTGATTTGATATATG
1 ATTGAAATAGATTGATTTGATATATG
*
17749007 A-TGAAAT-TATTGAATTT-ATAT-TG
1 ATTGAAATAGATTG-ATTTGATATATG
17749030 ATTGAA
1 ATTGAA
17749036 TTGAATTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 3 0.12
24 12 0.46
25 10 0.38
26 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (26 bp):
ATTGAAATAGATTGATTTGATATATG
Found at i:17749523 original size:22 final size:22
Alignment explanation
Indices: 17749481--17749528 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
17749471 AACAGAAAGT
* *
17749481 ATGAGATTTGAAATAGCAATAG
1 ATGAGAATTGAAATAGCAATAA
*
17749503 ATGAGAATTG-AATATGTAATAA
1 ATGAGAATTGAAATA-GCAATAA
17749525 ATGA
1 ATGA
17749529 TGTATTGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (22 bp):
ATGAGAATTGAAATAGCAATAA
Found at i:17754509 original size:6 final size:6
Alignment explanation
Indices: 17754500--17754526 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17754490 TCGGTGGAGC
17754500 AATGGG AATGGG AATGGG AATGGG AAT
1 AATGGG AATGGG AATGGG AATGGG AAT
17754527 TTGTTTCTTC
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:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (6 bp):
AATGGG
Found at i:17761976 original size:15 final size:16
Alignment explanation
Indices: 17761941--17761984 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
17761931 GGATTTAGAT
*
17761941 AATTTTAAATTTTTATA
1 AATTTTAAA-TATTATA
17761958 AATTTTAAATATT-TA
1 AATTTTAAATATTATA
17761973 AATTTTAAATAT
1 AATTTTAAATAT
17761985 AACAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 14 0.54
16 3 0.12
17 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTTAAATATTATA
Found at i:17766097 original size:18 final size:17
Alignment explanation
Indices: 17766064--17766097 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17766054 AAGTTAGTAT
17766064 AATAAAAAAAATAAAGA
1 AATAAAAAAAATAAAGA
*
17766081 AATAAAGAAAGATAAAG
1 AATAAA-AAAAATAAAG
17766098 CCATACAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AATAAAAAAAATAAAGA
Done.