Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 78 of 133
Found at i:15460502 original size:16 final size:16
Alignment explanation
Indices: 15460454--15460503 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
15460444 CCAATAACTA
*
15460454 AACTAAAGAAATAAAAG
1 AACTAAA-AACTAAAAG
15460471 AACTAAAAAACT-AAAG
1 AACT-AAAAACTAAAAG
15460487 AACTAAAAACTAAAAG
1 AACTAAAAACTAAAAG
15460503 A
1 A
15460504 GAGAAGAGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.23
16 13 0.43
17 7 0.23
18 3 0.10
ACGTcount: A:0.70, C:0.10, G:0.08, T:0.12
Consensus pattern (16 bp):
AACTAAAAACTAAAAG
Found at i:15467520 original size:21 final size:20
Alignment explanation
Indices: 15467492--15467531 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15467482 GGGCACATAA
**
15467492 AGAAAAAAGGAAAAAAAGAG
1 AGAAAAAAAAAAAAAAAGAG
15467512 AGAACAAAAAAAAAAAAAGA
1 AGAA-AAAAAAAAAAAAAGA
15467532 TACGCAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAAAAAAAAAGAG
Found at i:15468447 original size:5 final size:5
Alignment explanation
Indices: 15468437--15468469 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
15468427 GATAATCAAC
15468437 AAAGA AAAGA AAAGAA AAAGA AAAGA AAAGA AA
1 AAAGA AAAGA AAAG-A AAAGA AAAGA AAAGA AA
15468470 GATGAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:15468458 original size:16 final size:16
Alignment explanation
Indices: 15468437--15468469 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15468427 GATAATCAAC
15468437 AAAGAAAAGAAAAGAA
1 AAAGAAAAGAAAAGAA
15468453 AAAGAAAAGAAAAGAA
1 AAAGAAAAGAAAAGAA
15468469 A
1 A
15468470 GATGAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAAAAGAA
Found at i:15470037 original size:51 final size:52
Alignment explanation
Indices: 15469982--15470094 Score: 149
Period size: 51 Copynumber: 2.2 Consensus size: 52
15469972 AACAAATTTT
* * * *
15469982 GGTGTGAATTTTAAAATCTTTGGAAG-ATCCTAGTGTTAATCCCAA-CCTTTC
1 GGTGTGAATCTCAAAA-CTTTGGAAGAATCCTAGTGTGAACCCCAACCCTTTC
*
15470033 GGTGTGAATCTCAAAACTTTTGAAGAATCCTAGTGTGAACCCCAACCCTTTC
1 GGTGTGAATCTCAAAACTTTGGAAGAATCCTAGTGTGAACCCCAACCCTTTC
*
15470085 AGTGTGAATC
1 GGTGTGAATC
15470095 CTTAATCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
50 8 0.15
51 31 0.57
52 15 0.28
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (52 bp):
GGTGTGAATCTCAAAACTTTGGAAGAATCCTAGTGTGAACCCCAACCCTTTC
Found at i:15470110 original size:51 final size:51
Alignment explanation
Indices: 15470008--15470161 Score: 132
Period size: 51 Copynumber: 3.0 Consensus size: 51
15469998 TCTTTGGAAG
* * * *
15470008 ATCCTAGTGTTAATCCCAACCTTTCGGTGTGAATCTCAAAACTTTTGAAGA
1 ATCCTAGTGTGAACCCCAACCTTTCAGTGTGAATCTCAAAACTTTTAAAGA
**
15470059 ATCCTAGTGTGAACCCCAACCCTTTCAGTGTGAATC-CTTAA-TCTTTAAAGA
1 ATCCTAGTGTGAACCCCAA-CCTTTCAGTGTGAATCTCAAAACT-TTTAAAGA
* * * * * * * * **
15470110 ATTCTTGTATAAATCCTAACCTTTCAGTCTGAATTTTGAAACTTTTAAAGA
1 ATCCTAGTGTGAACCCCAACCTTTCAGTGTGAATCTCAAAACTTTTAAAGA
15470161 A
1 A
15470162 ACCTTTTGTG
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
50 15 0.18
51 51 0.62
52 16 0.20
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (51 bp):
ATCCTAGTGTGAACCCCAACCTTTCAGTGTGAATCTCAAAACTTTTAAAGA
Found at i:15470211 original size:18 final size:17
Alignment explanation
Indices: 15470161--15470213 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
15470151 CTTTTAAAGA
15470161 AACCTTTTGTGAATCGT
1 AACCTTTTGTGAATCGT
* *
15470178 AACTTTTTGGTGTGAATCTT
1 AAC-CTTT--TGTGAATCGT
15470198 GAACCTTTTGTGAATC
1 -AACCTTTTGTGAATC
15470214 ACAGTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 3 0.10
18 11 0.38
20 12 0.41
21 3 0.10
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (17 bp):
AACCTTTTGTGAATCGT
Found at i:15471447 original size:20 final size:20
Alignment explanation
Indices: 15471410--15471447 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
15471400 AAATAAAGGA
*
15471410 GAGAAAAAGGAAGAAAAAAT
1 GAGAAAAAGAAAGAAAAAAT
*
15471430 GAGAAAAA-AAAGAGAAAA
1 GAGAAAAAGAAAGAAAAAA
15471448 GAATTATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (20 bp):
GAGAAAAAGAAAGAAAAAAT
Found at i:15472455 original size:13 final size:13
Alignment explanation
Indices: 15472437--15472475 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
15472427 AAATGCTAAA
*
15472437 CCTAAACCCCAAT
1 CCTAAACCCCAAC
15472450 CCTAAACCCCAAAC
1 CCTAAACCCC-AAC
*
15472464 CCTAAACTCCAA
1 CCTAAACCCCAA
15472476 ACCAACCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.41, C:0.46, G:0.00, T:0.13
Consensus pattern (13 bp):
CCTAAACCCCAAC
Found at i:15472469 original size:14 final size:14
Alignment explanation
Indices: 15472437--15472478 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
15472427 AAATGCTAAA
*
15472437 CCTAAACCCC-AAT
1 CCTAAACCCCAAAC
15472450 CCTAAACCCCAAAC
1 CCTAAACCCCAAAC
*
15472464 CCTAAACTCCAAAC
1 CCTAAACCCCAAAC
15472478 C
1 C
15472479 AACCCTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (14 bp):
CCTAAACCCCAAAC
Found at i:15475035 original size:4 final size:4
Alignment explanation
Indices: 15475026--15475059 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
15475016 AGGTTTGCAA
* *
15475026 TTAT TTAT TTAT GTAT TTAT TTAT TTGT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
15475060 GTTTGTTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:15475060 original size:8 final size:8
Alignment explanation
Indices: 15475029--15475071 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
15475019 TTTGCAATTA
*
15475029 TTTATTTA
1 TTTATTTG
* *
15475037 TGTATTTA
1 TTTATTTG
15475045 TTTATTTG
1 TTTATTTG
15475053 TTTATTTG
1 TTTATTTG
*
15475061 TTTGTTTG
1 TTTATTTG
15475069 TTT
1 TTT
15475072 GTCTATCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (8 bp):
TTTATTTG
Found at i:15476140 original size:13 final size:14
Alignment explanation
Indices: 15476124--15476152 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15476114 ATGCAATAAA
15476124 TTTTAGGAAT-TTT
1 TTTTAGGAATATTT
15476137 TTTTAGGAATATTT
1 TTTTAGGAATATTT
15476151 TT
1 TT
15476153 GGTTGTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (14 bp):
TTTTAGGAATATTT
Found at i:15480467 original size:84 final size:83
Alignment explanation
Indices: 15480342--15480554 Score: 236
Period size: 84 Copynumber: 2.6 Consensus size: 83
15480332 CCTCCAATCA
* * *
15480342 TAAGTC-TTTAAGCTAAATCTATTTTAGAG-TAAGATTTGTAAAACCTCCAGATGTAATCTCTAA
1 TAAGTCTTTTGAGCTAAAT-TTTTTTAGAGTTGAGATTTGTAAAACCTCCAGATGTAATCTCTAA
*
15480405 GTTCTCTA-G-GTAAGATTTG
65 G-TCT-TATGAGCAAGATTTG
* ** * *
15480424 TAAGTCTTTTGAGCTAAATTTGTTTTAGAGTTGAGATTTGTAAAAGCTTTAGGTGTAATCTTTAA
1 TAAGTCTTTTGAGCTAAATTT-TTTTAGAGTTGAGATTTGTAAAACCTCCAGATGTAATCTCTAA
15480489 GTCTTATGAGCAAGATTTG
65 GTCTTATGAGCAAGATTTG
* * * * *
15480508 TAAGTCTTTCGAGTTCAATTTATTTAGAATTGAGATTTGTAAAACCT
1 TAAGTCTTTTGAGCTAAATTTTTTTAGAGTTGAGATTTGTAAAACCT
15480555 TTATGCATAG
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
82 9 0.08
83 46 0.41
84 56 0.50
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (83 bp):
TAAGTCTTTTGAGCTAAATTTTTTTAGAGTTGAGATTTGTAAAACCTCCAGATGTAATCTCTAAG
TCTTATGAGCAAGATTTG
Found at i:15484686 original size:24 final size:25
Alignment explanation
Indices: 15484653--15484704 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
15484643 TTGTTTTTTC
* *
15484653 TTTTTTGATTTTAAAGAT-CTT-ATA
1 TTTTTAGATTTGAAA-ATGCTTGATA
15484677 TTTTTAGATTTGAAAATGCTTGATA
1 TTTTTAGATTTGAAAATGCTTGATA
15484702 TTT
1 TTT
15484705 AATCTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.08
24 16 0.67
25 6 0.25
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.56
Consensus pattern (25 bp):
TTTTTAGATTTGAAAATGCTTGATA
Found at i:15485201 original size:20 final size:20
Alignment explanation
Indices: 15485176--15485214 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15485166 GTCTCTTTTT
15485176 CCTTTTTCGCATATCCTTTA
1 CCTTTTTCGCATATCCTTTA
* *
15485196 CCTTTTTCTCATGTCCTTT
1 CCTTTTTCGCATATCCTTT
15485215 TCTTTGTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.31, G:0.05, T:0.54
Consensus pattern (20 bp):
CCTTTTTCGCATATCCTTTA
Found at i:15486923 original size:17 final size:17
Alignment explanation
Indices: 15486901--15486942 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
15486891 GTTACTTAAA
15486901 TTTGGAAAGCAATTCTT
1 TTTGGAAAGCAATTCTT
*
15486918 TTTGGAAAGTAATTCTT
1 TTTGGAAAGCAATTCTT
*
15486935 TTAGGAAA
1 TTTGGAAA
15486943 AAAGGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (17 bp):
TTTGGAAAGCAATTCTT
Found at i:15487799 original size:11 final size:11
Alignment explanation
Indices: 15487773--15487818 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
15487763 ACAAAGAAAA
15487773 CTTTCTCTTTTT
1 CTTT-TCTTTTT
15487785 -TTTTCTTTTT
1 CTTTTCTTTTT
*
15487795 CTTTTCTTTCT
1 CTTTTCTTTTT
15487806 C-TTT-TTTTT
1 CTTTTCTTTTT
15487815 CTTT
1 CTTT
15487819 CAAGGCACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 5 0.17
10 12 0.40
11 13 0.43
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:15487804 original size:15 final size:15
Alignment explanation
Indices: 15487780--15487819 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
15487770 AAACTTTCTC
15487780 TTTTTT-TTTCT-TT
1 TTTTTTCTTTCTCTT
15487793 TTCTTTTCTTTCTCTT
1 TT-TTTTCTTTCTCTT
15487809 TTTTTTCTTTC
1 TTTTTTCTTTC
15487820 AAGGCACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.08
14 4 0.17
15 14 0.58
16 4 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTCTCTT
Found at i:15491179 original size:2 final size:2
Alignment explanation
Indices: 15491174--15491204 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15491164 TTTTTCTATT
15491174 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15491205 TTTTAAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15491765 original size:25 final size:25
Alignment explanation
Indices: 15491746--15491826 Score: 126
Period size: 25 Copynumber: 3.2 Consensus size: 25
15491736 AATATATAAT
15491746 AAATGACATAATTAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
*
15491771 AAATGAAATAATTAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
* *
15491796 AAATGACATAATTAAGGATATACATG
1 AAATGACATAATTAA-AATATGCATG
15491822 AAATG
1 AAATG
15491827 TAAAAAAGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 38 0.75
26 13 0.25
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.27
Consensus pattern (25 bp):
AAATGACATAATTAAAATATGCATG
Found at i:15493005 original size:13 final size:12
Alignment explanation
Indices: 15492962--15493017 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 12
15492952 TTGGTGTCTA
15492962 GTTTAGGGTTTAAG
1 GTTTAGGG-TT-AG
* *
15492976 GTATAGGGCTAG
1 GTTTAGGGTTAG
15492988 TGTTTAGGGTTCAG
1 -GTTTAGGGTT-AG
15493002 GTTTAGGGTTAG
1 GTTTAGGGTTAG
15493014 GTTT
1 GTTT
15493018 TTATTTTAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 8 0.22
13 19 0.53
14 9 0.25
ACGTcount: A:0.18, C:0.04, G:0.38, T:0.41
Consensus pattern (12 bp):
GTTTAGGGTTAG
Found at i:15494139 original size:14 final size:16
Alignment explanation
Indices: 15494110--15494144 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
15494100 ACCTTCAAGC
15494110 TTTTTTCACAAGGATT
1 TTTTTTCACAAGGATT
15494126 TTTTTTC-CAA-GATT
1 TTTTTTCACAAGGATT
15494140 TTTTT
1 TTTTT
15494145 CCTCTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 3 0.16
16 7 0.37
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (16 bp):
TTTTTTCACAAGGATT
Found at i:15497466 original size:23 final size:23
Alignment explanation
Indices: 15497430--15497481 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
15497420 GTTGCAATTT
15497430 TTGTTTCACATTTAAA-CTTCAAC
1 TTGTTTCACATTTAAAGC-TCAAC
*
15497453 TTGTTTGCAC-TTTAAAGCTCTAC
1 TTGTTT-CACATTTAAAGCTCAAC
15497476 TTGTTT
1 TTGTTT
15497482 ATGCAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (23 bp):
TTGTTTCACATTTAAAGCTCAAC
Found at i:15505584 original size:13 final size:13
Alignment explanation
Indices: 15505565--15505604 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
15505555 ATCTACTTAA
15505565 ATATATTAAAATT
1 ATATATTAAAATT
* *
15505578 TTATATTAAAATA
1 ATATATTAAAATT
*
15505591 ATATATAAAAATT
1 ATATATTAAAATT
15505604 A
1 A
15505605 AAAATTAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:15505611 original size:26 final size:26
Alignment explanation
Indices: 15505564--15505613 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
15505554 AATCTACTTA
* ** *
15505564 AATATATTAAAATTTTATATTAAAAT
1 AATATATAAAAATTAAAAATTAAAAT
15505590 AATATATAAAAATTAAAAATTAAA
1 AATATATAAAAATTAAAAATTAAA
15505614 TGCCAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AATATATAAAAATTAAAAATTAAAAT
Found at i:15506749 original size:159 final size:159
Alignment explanation
Indices: 15506418--15506754 Score: 378
Period size: 159 Copynumber: 2.1 Consensus size: 159
15506408 CTTTTTATTA
15506418 GTTCTTCATGGAAAAGAACATAGATTTTTACAATGAAGTAAGTTTAACCGAATGGAAGGAACAAC
1 GTTCTTCAT-GAAAAGAACATAGATTTTTACAATGAAGTAAGTTTAACCGAATGGAAGGAACAAC
* * * ** * * * *
15506483 TTTAAAACCAAATAAAACGAAAGGAAGAAATGCATATTTTTGTAAATGAAAGTAATAATATCATG
65 TTTAAAACCAAACAAAAAGAAAGGAAGAAATGCATATTTTTGGAAACAAAAGCAACAATACCAGG
* * *
15506548 TACCCCAATGGGAATTGTCTATTTTGCTTG
130 TACCCCAATGAGAAGTATCTATTTTGCTTG
** * * * * *
15506578 GTTCTTTGTGAAAAGAACATAGATTTTTAC-TTGGAA-TGAAGTTTGACC-ATGTGGATGGACCA
1 GTTCTTCATGAAAAGAACATAGATTTTTACAAT-GAAGT-AAGTTTAACCGA-ATGGAAGGAACA
* *
15506640 ACTTTGAAACCAAACAAAAAGAAAGGGAGAAATGC-TATTTTTAGGAAACAAAAGCAACAATACC
63 ACTTTAAAACCAAACAAAAAGAAAGGAAGAAATGCATATTTTT-GGAAACAAAAGCAACAATACC
* *
15506704 AGGTATCCTAATGAGAAGTATCTATTTTGCTTG
127 AGGTACCCCAATGAGAAGTATCTATTTTGCTTG
15506737 GTT-TCTCATGAAAAGAAC
1 GTTCT-TCATGAAAAGAAC
15506755 TTATATTTAA
Statistics
Matches: 147, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
158 11 0.07
159 129 0.88
160 7 0.05
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (159 bp):
GTTCTTCATGAAAAGAACATAGATTTTTACAATGAAGTAAGTTTAACCGAATGGAAGGAACAACT
TTAAAACCAAACAAAAAGAAAGGAAGAAATGCATATTTTTGGAAACAAAAGCAACAATACCAGGT
ACCCCAATGAGAAGTATCTATTTTGCTTG
Found at i:15508549 original size:103 final size:102
Alignment explanation
Indices: 15508361--15508550 Score: 226
Period size: 103 Copynumber: 1.8 Consensus size: 102
15508351 AAAAAAAAAT
* *
15508361 TATATTTTTATGGTAGAGAAGTTTAACTGAGTCGAATGACCAACTTTAAAACCAAACAAAATGAA
1 TATATTTTTATGATAGAGAAGTTTAACTGAGTCGAATGACCAACTTTAAAACCAAACAAAATAAA
* *
15508426 AGTGAGAATGTTTTGCTTGGTACCTCATGAAAAGAACC
66 AGGGAAAATGTTTT-CTTGGTACCTCATGAAAAGAACC
* * * *
15508464 TATATTTTTATGATGGAGAATGTTTGATTGAGTGGAAAT-ACCAACTTTCAAAA-C-AACAAAAT
1 TATATTTTTATGATAGAGAA-GTTTAACTGAGTCG-AATGACCAACTTT-AAAACCAAACAAAAT
15508526 AAAAGGGAAAAATGCTTTT-TTGGTA
63 AAAAGGG-AAAATG-TTTTCTTGGTA
15508551 AACTAAAGCA
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
103 37 0.50
104 26 0.35
105 11 0.15
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (102 bp):
TATATTTTTATGATAGAGAAGTTTAACTGAGTCGAATGACCAACTTTAAAACCAAACAAAATAAA
AGGGAAAATGTTTTCTTGGTACCTCATGAAAAGAACC
Found at i:15508813 original size:149 final size:150
Alignment explanation
Indices: 15508557--15508845 Score: 327
Period size: 149 Copynumber: 1.9 Consensus size: 150
15508547 GGTAAACTAA
* * * * * * *
15508557 AGCAACAATATCTTGTATCCAAATGGGAATTATCTATTTTGTTTGGTACTTTGTGAAAAGAACTT
1 AGCAACAATATCCTGTATCCAAATGGGAAGTAACTATTTTGCTTGGTACTTTATGAAAACAACTC
** * * * * *
15508622 ATATTTTTATAATGGAAGGTGTTTGACTGGATGGATGAACCAATTTTAAAACCACA-AAAATGAA
66 ATATTTTTATAATGGAAGAAGTTTGACTAGATGGAAGAACCAACTCTAAAACCAAATAAAATGAA
15508686 AGGGAGAAATTTCTTTTTTT
131 AGGGAGAAATTTCTTTTTTT
* * *
15508706 AGCAACTATATCCTGTATCCCAATGGGAAGTAACTATTTTGCTTGGTA-TTTCATGAAAACAAGT
1 AGCAACAATATCCTGTATCCAAATGGGAAGTAACTATTTTGCTTGGTACTTT-ATGAAAACAACT
* * *
15508770 CATATTTTTATGATAGG-AGAAGTTTGACCTAG-TGGAA-AGACCAACTCTGAAACTAAATAAAA
65 CATATTTTTATAAT-GGAAGAAGTTTGA-CTAGATGGAAGA-ACCAACTCTAAAACCAAATAAAA
15508832 TGAAAGGGAGAAAT
127 TGAAAGGGAGAAAT
15508846 GTTTTTTGGG
Statistics
Matches: 115, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
148 4 0.03
149 88 0.77
150 23 0.20
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (150 bp):
AGCAACAATATCCTGTATCCAAATGGGAAGTAACTATTTTGCTTGGTACTTTATGAAAACAACTC
ATATTTTTATAATGGAAGAAGTTTGACTAGATGGAAGAACCAACTCTAAAACCAAATAAAATGAA
AGGGAGAAATTTCTTTTTTT
Found at i:15538624 original size:16 final size:17
Alignment explanation
Indices: 15538600--15538633 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15538590 GTTTGGGTTT
*
15538600 GAGGTTTTGG-TTTAGG
1 GAGGGTTTGGTTTTAGG
15538616 GAGGGTTTGGTTTTAGG
1 GAGGGTTTGGTTTTAGG
15538633 G
1 G
15538634 TTTGATTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.12, C:0.00, G:0.47, T:0.41
Consensus pattern (17 bp):
GAGGGTTTGGTTTTAGG
Found at i:15538637 original size:29 final size:30
Alignment explanation
Indices: 15538589--15538645 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
15538579 GTTTAAGGTT
* *
15538589 GGTTTGGGTTTGAGGTTTTGGTTTAGGGAG
1 GGTTTGGGTTTGAGGGTTTGATTTAGGGAG
*
15538619 GGTTT-GGTTTTAGGGTTTGATTTAGGG
1 GGTTTGGGTTTGAGGGTTTGATTTAGGG
15538646 TTTAATGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.11, C:0.00, G:0.44, T:0.46
Consensus pattern (30 bp):
GGTTTGGGTTTGAGGGTTTGATTTAGGGAG
Found at i:15538644 original size:12 final size:12
Alignment explanation
Indices: 15538617--15538660 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
15538607 TGGTTTAGGG
*
15538617 AGGGTTTGGTTTT
1 AGGGTTT-GATTT
15538630 AGGGTTTGATTT
1 AGGGTTTGATTT
* *
15538642 AGGGTTTAATGT
1 AGGGTTTGATTT
15538654 AGGGTTT
1 AGGGTTT
15538661 AGTTTTCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 21 0.75
13 7 0.25
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (12 bp):
AGGGTTTGATTT
Found at i:15538661 original size:19 final size:20
Alignment explanation
Indices: 15538639--15538685 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
15538629 TAGGGTTTGA
15538639 TTTAGGGTTT-AATGTAGGG
1 TTTAGGGTTTCAATGTAGGG
* * *
15538658 TTTA-GTTTTCAGTTTAGGG
1 TTTAGGGTTTCAATGTAGGG
15538677 TTTAGGGTT
1 TTTAGGGTT
15538686 AGCTTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 4 0.18
19 15 0.68
20 3 0.14
ACGTcount: A:0.17, C:0.02, G:0.32, T:0.49
Consensus pattern (20 bp):
TTTAGGGTTTCAATGTAGGG
Found at i:15538895 original size:26 final size:26
Alignment explanation
Indices: 15538858--15538941 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
15538848 ACATCATTTT
* **
15538858 GGATTTAGGGTTTTCACAGTGGTTTG
1 GGATTTAAGGTTTTCATGGTGGTTTG
*
15538884 GGATTTAAGGTTTGCATGGTGGTTT-
1 GGATTTAAGGTTTTCATGGTGGTTTG
*
15538909 GGAGCTTAAGG-TTTCATGGTGGTTTG
1 GGA-TTTAAGGTTTTCATGGTGGTTTG
*
15538935 GGGTTTA
1 GGATTTA
15538942 TATGGACAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
25 19 0.40
26 29 0.60
ACGTcount: A:0.15, C:0.06, G:0.37, T:0.42
Consensus pattern (26 bp):
GGATTTAAGGTTTTCATGGTGGTTTG
Found at i:15540679 original size:143 final size:143
Alignment explanation
Indices: 15540420--15540695 Score: 310
Period size: 143 Copynumber: 1.9 Consensus size: 143
15540410 TCAACCTTAG
* * * *
15540420 AAAGGTTAAATTACGAAAATATCTCTAAAGAGTATTTTGATAATTTCACATATTCTAAGATGTGA
1 AAAGGTCAAATTACGAAAATATCTCTAAAGAGCATTTTGATAATTTCACACATTCTAAGATGAGA
* *
15540485 TTAAGGTTTTTAATGCAGCAAAAAACATAAAATAATATCAAATTGCTATCTAG-AGCTTTTCACA
66 TCAAGGTTTTTAATGCAGCAAAAAACATAAAATAATATCAAAATGC-ATCTAGAAG-TTTTCACA
15540549 AAAAATTGATTTCGA
129 AAAAATTGATTTCGA
* * * *
15540564 AAAGGTCAAATTAC-AAAATA-CTCTTAAAG-GCCATTTTGATAATTTCACACCTTTTGAGGTGA
1 AAAGGTCAAATTACGAAAATATCTC-TAAAGAG-CATTTTGATAATTTCACACATTCTAAGATGA
* * * * * * *
15540626 GATCAAGGTTTTTCATGCATCAAAAATCATAAATTGATATTTAAACATG-ATCTAGAAGTTTTTA
64 GATCAAGGTTTTTAATGCAGCAAAAAACATAAAATAATA-TCAAA-ATGCATCTAGAAGTTTTCA
15540690 CAAAAA
127 CAAAAA
15540696 GCCAACTGTA
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
142 4 0.04
143 85 0.77
144 19 0.17
145 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (143 bp):
AAAGGTCAAATTACGAAAATATCTCTAAAGAGCATTTTGATAATTTCACACATTCTAAGATGAGA
TCAAGGTTTTTAATGCAGCAAAAAACATAAAATAATATCAAAATGCATCTAGAAGTTTTCACAAA
AAATTGATTTCGA
Found at i:15541228 original size:49 final size:50
Alignment explanation
Indices: 15541151--15541481 Score: 324
Period size: 49 Copynumber: 6.7 Consensus size: 50
15541141 AAGCTTTTTT
* * * * *
15541151 TTGGAAAGCTTTGAAAATC-CTATCTTTGAAAAAGCTCTTCCAAATAGAGCC
1 TTGGAAA-CTTTAAAAATCTC-ATTTTTGAAAAAGCTCCTCTAAATAGAGGC
* * *
15541202 TTGGAAAC-TTCAAAATCTCATTTTTG-AAAAGCTCATTTAAATAGAGCGCC
1 TTGGAAACTTTAAAAATCTCATTTTTGAAAAAGCTCCTCTAAATAGAG-G-C
* * *
15541252 TTGGAAACTTCAAAAATCTCATATTTTG-AAAAGCTTCTTTAAATAGAGGC
1 TTGGAAACTTTAAAAATCTCAT-TTTTGAAAAAGCTCCTCTAAATAGAGGC
* * *
15541302 TTGGAAACTTTAAAAAAT-TCTTTTTTTAAAAAACTCCTCTAAATAGAGGC
1 TTGGAAACTTT-AAAAATCTCATTTTTGAAAAAGCTCCTCTAAATAGAGGC
* * *
15541352 TAGGAAACTTTAAAAATCTC-TTTTCT-AAAAAGTTCCTCTAAATAGATGC
1 TTGGAAACTTTAAAAATCTCATTTT-TGAAAAAGCTCCTCTAAATAGAGGC
15541401 TTGGAAA-TTTAACAAATCTC-TTTTCTG-AAAAGCTCCTCTAAATAGAGGC
1 TTGGAAACTTTAA-AAATCTCATTTT-TGAAAAAGCTCCTCTAAATAGAGGC
* * *
15541450 TAGAAAACTTTTAAAA-CTCATTTTTGAAAAAG
1 TTGGAAACTTTAAAAATCTCATTTTTGAAAAAG
15541482 TTTGTTAGAT
Statistics
Matches: 240, Mismatches: 26, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
48 27 0.11
49 104 0.43
50 61 0.25
51 25 0.10
52 23 0.10
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (50 bp):
TTGGAAACTTTAAAAATCTCATTTTTGAAAAAGCTCCTCTAAATAGAGGC
Found at i:15541310 original size:100 final size:96
Alignment explanation
Indices: 15541153--15541479 Score: 322
Period size: 100 Copynumber: 3.3 Consensus size: 96
15541143 GCTTTTTTTT
* * * * *
15541153 GGAAAGCTTTGAAAATC-CTATCTTTGAAAAAGC-TCTTCCAAATAGAGCCTTGGAAACTTCAAA
1 GGAAA-CTTTAAAAATCTC-ATTTTTG-AAAAGCTTCTT-TAAATAGAGGCTTGGAAACTTAAAA
* * *
15541216 ATCTCATTTTTGAAAAGCTCATTTAAATAGAGCGCCTT
62 ATCTC-TTTTTGAAAAGCTCCTCTAAATAGAG-G-CTA
*
15541254 GGAAACTTCAAAAATCTCATATTTTGAAAAGCTTCTTTAAATAGAGGCTTGGAAACTTTAAAAAA
1 GGAAACTTTAAAAATCTCAT-TTTTGAAAAGCTTCTTTAAATAGAGGCTTGGAAAC-TT-AAAAA
* * *
15541319 TTCTTTTTTTAAAAAACTCCTCTAAATAGAGGCTA
63 -TCTCTTTTTGAAAAGCTCCTCTAAATAGAGGCTA
* * * *
15541354 GGAAACTTTAAAAATCTC-TTTTCTAAAAAG-TTCCTCTAAATAGATGCTTGGAAATTTAACAAA
1 GGAAACTTTAAAAATCTCATTTT-TGAAAAGCTT-CTTTAAATAGAGGCTTGGAAACTTAA-AAA
15541417 TCTCTTTTCTGAAAAGCTCCTCTAAATAGAGGCTA
63 TCTCTTTT-TGAAAAGCTCCTCTAAATAGAGGCTA
* *
15541452 GAAAACTTTTAAAA-CTCATTTTTGAAAA
1 GGAAACTTTAAAAATCTCATTTTTGAAAA
15541480 AGTTTGTTAG
Statistics
Matches: 192, Mismatches: 23, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
97 17 0.09
98 50 0.26
99 26 0.14
100 53 0.28
101 17 0.09
102 26 0.14
103 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (96 bp):
GGAAACTTTAAAAATCTCATTTTTGAAAAGCTTCTTTAAATAGAGGCTTGGAAACTTAAAAATCT
CTTTTTGAAAAGCTCCTCTAAATAGAGGCTA
Found at i:15544985 original size:27 final size:27
Alignment explanation
Indices: 15544954--15545007 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
15544944 AAAAATGGTC
15544954 TAGGTGAGGGGTTTCTAGAAATGATTG
1 TAGGTGAGGGGTTTCTAGAAATGATTG
*
15544981 TAGGTGAGGGGTTTTTAGAAATGATTG
1 TAGGTGAGGGGTTTCTAGAAATGATTG
15545008 CATAGGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.02, G:0.37, T:0.35
Consensus pattern (27 bp):
TAGGTGAGGGGTTTCTAGAAATGATTG
Found at i:15551064 original size:20 final size:20
Alignment explanation
Indices: 15551019--15551111 Score: 96
Period size: 20 Copynumber: 4.6 Consensus size: 20
15551009 CATTTGCATG
* **
15551019 ATTAATATATTTGTGTGATTT
1 ATTAATTTATTTGCATGA-TT
* *
15551040 ATTAATATATTTGCATGACT
1 ATTAATTTATTTGCATGATT
* * *
15551060 ATTAATTTATTTACGTAATT
1 ATTAATTTATTTGCATGATT
15551080 ATTAATTTATTTGCATGATT
1 ATTAATTTATTTGCATGATT
*
15551100 ATCAATTTATTT
1 ATTAATTTATTT
15551112 ATTTGTGTGA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
20 44 0.73
21 16 0.27
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (20 bp):
ATTAATTTATTTGCATGATT
Found at i:15551297 original size:79 final size:79
Alignment explanation
Indices: 15551200--15551350 Score: 257
Period size: 79 Copynumber: 1.9 Consensus size: 79
15551190 TGTTATATAT
* * *
15551200 TTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGTATGATAATATATTTAA
1 TTAATTACATGATAATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAA
15551265 TTGCATGTTTTTTG
66 TTGCATGTTTTTTG
* *
15551279 TTAATTACATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAT
1 TTAATTACATGATAATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAA
15551344 TTGCATG
66 TTGCATG
15551351 ATGCTTTATA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (79 bp):
TTAATTACATGATAATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAA
TTGCATGTTTTTTG
Found at i:15551369 original size:101 final size:99
Alignment explanation
Indices: 15551192--15551873 Score: 534
Period size: 101 Copynumber: 6.8 Consensus size: 99
15551182 ATTTGTATTG
* * * * * *
15551192 TTATATATTTAATTGCATGATAATATAT-TTATTTGCATG-TTTTATATTGTTAATTGTATGATA
1 TTATATATTTAATTGCATGTTTATAT-TGTTAATTGCATGATTATATA-T-TTAATTGCATGATT
*
15551255 ATATATTTAATTGCATGTTTT-TTGTTAATTACATGA
63 ATATATTTAATTGCATGTTTTATTGTTAATTGCATGA
* *
15551291 TTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATTTGCATGATGCT
1 TTATATATTTAATTGCATG-TTTATATTGTTAATTGCATGATTATATATTTAATTGCATGAT--T
*
15551356 TTATATTTAATTGCATGTTTT-TTGTTAATTGCATGA
63 ATATATTTAATTGCATGTTTTATTGTTAATTGCATGA
* * * * *
15551392 TAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAATTACATG-TTTT
1 TTATATATTTAATTGCATG-TTTATATTGTTAATTGCATGATTATATATTTAATTGCATGATTAT
* * * * * *
15551456 ATATTGTTAATTGTATG-ATAATAT-ATATTTGTATG-
65 ATA-T-TTAATTGCATGTTTTAT-TGTTAATTGCATGA
* * * * * *
15551491 TTTTATATTTTAATTGTATGATTATATAT-TTATTTGCATAATT-TATATTGTTAATTGCTTGAT
1 TTATATA-TTTAATTGCATGTTTATAT-TGTTAATTGCATGATTATATA-T-TTAATTGCATGAT
* *
15551554 TATATATTTATTTGCATGTTTTACATTGTTCATTGCATGA
62 TATATATTTAATTGCATGTTTT--ATTGTTAATTGCATGA
* * * * * *
15551594 TTAGATATTTGATTGCATGTTTACATTGTTAATTACATTATTATATATTTAATTACATGATTATA
1 TTATATATTTAATTGCATGTTTATATTGTTAATTGCATGATTATATATTTAATTGCATGATTATA
* **
15551659 TACTTAATTGCATGTTTTATACTTAATTGCATG-
66 TATTTAATTGCATGTTTTATTGTTAATTGCATGA
* * * * *
15551692 TT-T-TTTGTTAATTGCATGATAATATAT-TTATTTGCATG-TTTTATATTGTTAATTGCATGAT
1 TTATATAT-TTAATTGCATGTTTATAT-TGTTAATTGCATGATTATATA-T-TTAATTGCATGAT
* * *
15551753 AATATATTTAATTGTATGTTTCATATTGTTAATTGTATGA
62 TATATATTTAATTGCATGTTT--TATTGTTAATTGCATGA
* * * * * * *
15551793 TAATATATAT-ATCTGTATGTTTTATATTGTTAATTGTATGATTATATATTTATTTGTATAATT-
1 TTATATATTTAAT-TGCATG-TTTATATTGTTAATTGCATGATTATATATTTAATTGCATGATTA
15551856 TATATTGTTAATTGCATG
64 TATA-T-TTAATTGCATG
15551874 ATTATATATT
Statistics
Matches: 461, Mismatches: 86, Indels: 68
0.75 0.14 0.11
Matches are distributed among these distances:
96 8 0.02
97 23 0.05
98 43 0.09
99 77 0.17
100 71 0.15
101 142 0.31
102 55 0.12
103 36 0.08
104 6 0.01
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (99 bp):
TTATATATTTAATTGCATGTTTATATTGTTAATTGCATGATTATATATTTAATTGCATGATTATA
TATTTAATTGCATGTTTTATTGTTAATTGCATGA
Found at i:15551396 original size:60 final size:60
Alignment explanation
Indices: 15551158--15551898 Score: 352
Period size: 61 Copynumber: 12.3 Consensus size: 60
15551148 TAATTGTATG
* * * *
15551158 TTTATTTGCATGATTTATATTATTATTTGTAT-TGTTATATAT-TTAATTGCATGATAATATA
1 TTTATTTGCATGTTTTATA-T-TTAATTGCATGTTTTATAT-TGTTAATTGCATGATAATATA
* * * * *
15551219 TTTATTTGCATGTTTTATATTGTTAATTGTATG-ATAATATAT-TTAATTGCATG-T--TTTT
1 TTTATTTGCATGTTTTATA-T-TTAATTGCATGTTTTATAT-TGTTAATTGCATGATAATATA
* * *
15551277 TGTTAATTACATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
1 T-TTATTTGCATG-TTTTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
15551339 TTTATTTGCATGATGCTTTATATTTAATTGCATG-TTT-T-TTGTTAATTGCATGATAATATA
1 TTTATTTGCATG-T--TTTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
* * * **
15551399 TTTATTTGCATGTTTTATATTGTTAATTGCATG-ATAATATAT-TTAATTACATG-TTTTATA
1 TTTATTTGCATGTTTTATA-T-TTAATTGCATGTTTTATAT-TGTTAATTGCATGATAATATA
* * * * * * * * *
15551459 TTGTTAATTGTATG-ATAATATATATTTGTATGTTTTATATT-TTAATTGTATGATTATATA
1 -T-TTATTTGCATGTTTTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
** * * * ** *
15551519 TTTATTTGCATAATTTATATTGTTAATTGCTTG-ATTATATAT-TTATTTGCATG-TTTTACA
1 TTTATTTGCATGTTTTATA-T-TTAATTGCATGTTTTATAT-TGTTAATTGCATGATAATATA
** * * * * *
15551579 TTGT-TCATTGCATGATTAGATATTTGATTGCATG-TTTACATTGTTAATTACATTATTATATA
1 TT-TAT--TTGCATG-TTTTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
* * * * * * *
15551641 TTTAATTACATGATTATATACTTAATTGCATGTTTTATA--CTTAATTGCATG-T--TTTT
1 TTTATTTGCATG-TTTTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
* ** *
15551697 TGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATA
1 T-TTATTTGCATG-TTTTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
* * * * * * * * **
15551759 TTTAATTGTATGTTTCATATTGTTAATTGTATG-ATAATA-T-ATATATCTGTATG-TTTTATA
1 TTTATTTGCATGTTTTATA-T-TTAATTGCATGTTTTATATTGTTA-AT-TGCATGATAATATA
* * * * * ** *
15551819 TTGTTAATTGTATGATTATATATTTATTTGTATAATTTATATTGTTAATTGCATGATTATATA
1 -T-TTATTTGCATG-TTTTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
15551882 TTTATTTGCATGTTTTA
1 TTTATTTGCATGTTTTA
15551899 CATTGTTCAT
Statistics
Matches: 528, Mismatches: 104, Indels: 97
0.72 0.14 0.13
Matches are distributed among these distances:
56 3 0.01
57 40 0.08
58 24 0.05
59 84 0.16
60 116 0.22
61 160 0.30
62 64 0.12
63 35 0.07
64 2 0.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (60 bp):
TTTATTTGCATGTTTTATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATA
Found at i:15551401 original size:180 final size:183
Alignment explanation
Indices: 15551276--15551917 Score: 597
Period size: 180 Copynumber: 3.5 Consensus size: 183
15551266 TGCATGTTTT
*
15551276 TTGTTAATTACATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATT
1 TTGTTAATTACATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATATT
15551341 TATTTGCATGATGCTTTATATTTAATTGCATG-TTT-TTTGTTAATTGCATGATAATATATTTAT
66 TATTTGCATGAT--TTTATATTTAATTGCATGATTTATTTGTTAATTGCATGATAATATATTTAT
15551404 TTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAATTACATGTTTTATA
129 TTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAATTACATGTTTTATA
** * * * *
15551459 TTGTTAATTGTATGA-TA-ATATATATTTGTATGTTTTATATT-TTAATTGTATGATTATATATT
1 TTGTTAATTACATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATATT
* * * * ** *
15551521 TATTTGCAT-AATTTATATTGTTAATTGCTTGATTATATAT-TTATTTGCATG-TTTTACATTGT
66 TATTTGCATGATTTTATA-T-TTAATTGCATGATT-TATTTGTTAATTGCATGATAATATATT-T
* * * * * * *
15551583 -TCATTGCATG-ATTAGATAT-TTGATTGCATGTTTACAT-TGTTAATTACAT-TATTATA
127 AT--TTGCATGTTTTATAT-TGTTAATTGCATGATAATATAT-TTAATTACATGTTTTATA
* * *
15551639 TAT-TTAATTACATGATTATATACTTAATTGCATGTTTTATA--CTTAATTGCATG-TT-T-TTT
1 T-TGTTAATTACATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATAT
* ** * *
15551698 GTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATATTTA
65 -TTATTTGCATGATTTTATATTTAATTGCATGATTTAT-TTGTTAATTGCATGATAATATATTTA
* * * * * **
15551763 ATTGTATGTTTCATATTGTTAATTGTATGATAATATATAT-ATCTGTATGTTTTATA
128 TTTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAAT-TACATGTTTTATA
** * * **
15551819 TTGTTAATTGTATGATTATATATTTATTTGTATAATTTATATTGTTAATTGCATGATTATATATT
1 TTGTTAATTACATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATATT
* *
15551884 TATTTGCATG-TTTTACATTGTTCATTGCATGATT
66 TATTTGCATGATTTTATA-T-TTAATTGCATGATT
15551918 AGATATTTGA
Statistics
Matches: 355, Mismatches: 71, Indels: 64
0.72 0.14 0.13
Matches are distributed among these distances:
177 9 0.03
178 24 0.07
179 55 0.15
180 107 0.30
181 75 0.21
182 41 0.12
183 19 0.05
184 12 0.03
185 13 0.04
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (183 bp):
TTGTTAATTACATGATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATATT
TATTTGCATGATTTTATATTTAATTGCATGATTTATTTGTTAATTGCATGATAATATATTTATTT
GCATGTTTTATATTGTTAATTGCATGATAATATATTTAATTACATGTTTTATA
Found at i:15551430 original size:221 final size:219
Alignment explanation
Indices: 15551163--15551976 Score: 669
Period size: 221 Copynumber: 3.7 Consensus size: 219
15551153 GTATGTTTAT
* * *
15551163 TTGCATGATT-TATATTATTATTTGTATTGTTATATATTTAATTGCATGATAATATATTTATTTG
1 TTGCATGATTATATA-T-TTATTTGCATTTTTATATATTTAATTGCATGATAATATATTTAATTG
*
15551227 CATGTTTTATATTGTTAATTGTATGATAATATATTTAATTGCATGTTTT-TTGTTAATTACATGA
64 CATGTTTTATATTGTTAATTGCATGATAATATATTTAATTGCATGTTTTATTGTTAATTACATGA
15551291 TTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATTTGCATGATGCT
129 TTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATTTGCATGAT--T
15551356 TTATATTTAATTGCATG-TTTTTTGTTAA
192 TTATATTT-ATTGCATGATTTTTTGTTAA
* *
15551384 TTGCATGATAATATATTTATTTGCATGTTTTATAT-TGTTAATTGCATGATAATATATTTAATTA
1 TTGCATGATTATATATTTATTTGCAT-TTTTATATAT-TTAATTGCATGATAATATATTTAATTG
* * * * **
15551448 CATGTTTTATATTGTTAATTGTATGATAATATA--TATTTGTATGTTTTATATTTTAATTGTATG
64 CATGTTTTATATTGTTAATTGCATGATAATATATTTAATTGCATGTTTTAT-TGTTAATTACATG
* ** * *
15551511 ATTATATATTTATTTGCATAATTTATATTGTTAATTGCTTGATTATATATTTATTTGCATG-TTT
128 ATTATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATTTGCATGATTT
* * * *
15551575 TACATTGTTCATTGCATGATTAGATAT-TTGA
193 TATA-T-TT-ATTGCATGATT--TTTTGTTAA
* * * * * * * *
15551606 TTGCATGTTTACAT-TGTTAATTACATTATTATATATTTAATTACATGATTATATACTTAATTGC
1 TTGCATGATTATATAT-TTATTTGCATTTTTATATATTTAATTGCATGATAATATATTTAATTGC
* * * ** * *
15551670 ATGTTTTATA--CTTAATTGCATG-T--TTTTTGTTAATTGCATGATAATATAT-TTATTTGCAT
65 ATGTTTTATATTGTTAATTGCATGATAATATAT-TTAATTGCATG-TTTTAT-TGTTAATTACAT
* * * * * * * *
15551729 G-TTTTATATTGTTAATTGCATG-ATAATATAT-TTAATTGTATGTTTCATAT-TGTTAATTGTA
127 GATTATATA-T-TTAATTGCATGTTTTATAT-TGTTAATTGCATG-ATAATATAT-TTATTTGCA
** * * *
15551790 TGATAATATATATATCTGTATGTTTTATATTGTTAA
187 TGATTTTATATTTAT-TGCATGATTT-T-TTGTTAA
* * * * *
15551826 TTGTATGATTATATATTTATTTGTATAATTTATAT-TGTTAATTGCATGATTATATATTTATTTG
1 TTGCATGATTATATATTTATTTGCAT-TTTTATATAT-TTAATTGCATGATAATATATTTAATTG
* * * * * *
15551890 CATGTTTTACATTGTTCATTGCATGATTAGATATTTGATTACATGTTTTACATTGTTAATTACAT
64 CATGTTTTATATTGTTAATTGCATGATAATATATTTAATTGCATGTTTT--ATTGTTAATTACAT
* *
15551955 TATTATATATTTAATTACATGT
127 GATTATATATTTAATTGCATGT
15551977 CTATTTGCAT
Statistics
Matches: 468, Mismatches: 86, Indels: 73
0.75 0.14 0.12
Matches are distributed among these distances:
216 2 0.00
218 15 0.03
219 65 0.14
220 75 0.16
221 230 0.49
222 27 0.06
223 12 0.03
224 3 0.01
225 20 0.04
226 13 0.03
227 6 0.01
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (219 bp):
TTGCATGATTATATATTTATTTGCATTTTTATATATTTAATTGCATGATAATATATTTAATTGCA
TGTTTTATATTGTTAATTGCATGATAATATATTTAATTGCATGTTTTATTGTTAATTACATGATT
ATATATTTAATTGCATGTTTTATATTGTTAATTGCATGATAATATATTTATTTGCATGATTTTAT
ATTTATTGCATGATTTTTTGTTAA
Found at i:15551704 original size:18 final size:19
Alignment explanation
Indices: 15551190--15551773 Score: 136
Period size: 20 Copynumber: 29.3 Consensus size: 19
15551180 TTATTTGTAT
* *
15551190 TGTTATATATTTAATTGCA
1 TGTTTTATACTTAATTGCA
** * *
15551209 TGATAATATATTTATTTGCA
1 TG-TTTTATACTTAATTGCA
* *
15551229 TGTTTTATATTGTTAATTGTA
1 TGTTTTATA--CTTAATTGCA
** *
15551250 TGATAATATATTTAATTGCA
1 TG-TTTTATACTTAATTGCA
** *
15551270 TGTTTT-TTGTTAATTACA
1 TGTTTTATACTTAATTGCA
* *
15551288 TGATTATATATTTAATTGCA
1 TG-TTTTATACTTAATTGCA
*
15551308 TGTTTTATATTGTTAATTGCA
1 TGTTTTATA--CTTAATTGCA
** * *
15551329 TGATAATATATTTATTTGCA
1 TG-TTTTATACTTAATTGCA
*
15551349 TGATGCTTTATATTTAATTGCA
1 TG-T--TTTATACTTAATTGCA
**
15551371 TGTTTT-TTGTTAATTGCA
1 TGTTTTATACTTAATTGCA
** * *
15551389 TGATAATATATTTATTTGCA
1 TG-TTTTATACTTAATTGCA
*
15551409 TGTTTTATATTGTTAATTGCA
1 TGTTTTATA--CTTAATTGCA
** * *
15551430 TGATAATATATTTAATTACA
1 TG-TTTTATACTTAATTGCA
* *
15551450 TGTTTTATATTGTTAATTGTA
1 TGTTTTATA--CTTAATTGCA
* * * *
15551471 TG-ATAATA-TATATTTGTA
1 TGTTTTATACT-TAATTGCA
* *
15551489 TGTTTTATATTTTAATTGTA
1 TGTTTTATA-CTTAATTGCA
* * *
15551509 TGATTATATATTTATTTGCA
1 TG-TTTTATACTTAATTGCA
* ** *
15551529 TAATTTATATTGTTAATTGCT
1 T-GTTT-TATACTTAATTGCA
* * *
15551550 TGATTATATATTTATTTGCA
1 TG-TTTTATACTTAATTGCA
** *
15551570 TGTTTTACATTGTTCATTGCA
1 TGTTTT--ATACTTAATTGCA
** * *
15551591 TGATTAGATATTTGATTGCA
1 TG-TTTTATACTTAATTGCA
* ** *
15551611 TGTTTACATTGTTAATTACA
1 TGTTT-TATACTTAATTGCA
* *
15551631 T-TATTATATATTTAATTACA
1 TGT-TT-TATACTTAATTGCA
*
15551651 TGATTATATACTTAATTGCA
1 TG-TTTTATACTTAATTGCA
15551671 TGTTTTATACTTAATTGCA
1 TGTTTTATACTTAATTGCA
**
15551690 TGTTTT-TTGTTAATTGCA
1 TGTTTTATACTTAATTGCA
** * *
15551708 TGATAATATATTTATTTGCA
1 TG-TTTTATACTTAATTGCA
*
15551728 TGTTTTATATTGTTAATTGCA
1 TGTTTTATA--CTTAATTGCA
** * *
15551749 TGATAATATATTTAATTGTA
1 TG-TTTTATACTTAATTGCA
15551769 TGTTT
1 TGTTT
15551774 CATATTGTTA
Statistics
Matches: 417, Mismatches: 110, Indels: 76
0.69 0.18 0.13
Matches are distributed among these distances:
17 1 0.00
18 44 0.11
19 73 0.18
20 179 0.43
21 82 0.20
22 38 0.09
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (19 bp):
TGTTTTATACTTAATTGCA
Found at i:15551858 original size:13 final size:14
Alignment explanation
Indices: 15551813--15551868 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 14
15551803 ATCTGTATGT
15551813 TTTATATTGT-TAA
1 TTTATATTGTATAA
*
15551826 TTGTATGATTATAT-A
1 TT-TAT-ATTGTATAA
15551841 TTTAT-TTGTATAA
1 TTTATATTGTATAA
15551854 TTTATATTGT-TAA
1 TTTATATTGTATAA
15551867 TT
1 TT
15551869 GCATGATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
12 5 0.14
13 13 0.36
14 10 0.28
15 7 0.19
16 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (14 bp):
TTTATATTGTATAA
Found at i:15551863 original size:14 final size:13
Alignment explanation
Indices: 15551813--15551868 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
15551803 ATCTGTATGT
15551813 TTTATATTGTTAA
1 TTTATATTGTTAA
*
15551826 TTGTATGATT-ATATA
1 TT-TAT-ATTGTTA-A
15551841 TTTAT-TTGTATAA
1 TTTATATTGT-TAA
15551854 TTTATATTGTTAA
1 TTTATATTGTTAA
15551867 TT
1 TT
15551869 GCATGATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
12 2 0.06
13 13 0.37
14 14 0.40
15 6 0.17
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (13 bp):
TTTATATTGTTAA
Found at i:15551929 original size:322 final size:322
Alignment explanation
Indices: 15551312--15551975 Score: 1156
Period size: 322 Copynumber: 2.1 Consensus size: 322
15551302 ATTGCATGTT
* * * *
15551312 TTATAT-TGTTAATTGCATGATAATATATTTATTTGCATGATGCTTTATATTTAATTGCATGTTT
1 TTATATAT-TTAATTACATGATAATATACTTAATTGCATGAT-CTTTATACTTAATTGCATGTTT
15551376 TTTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATAT
64 TTTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATAT
*
15551441 TTAATTACATGTTTTATATTGTTAATTGTATGATAATATATATTTGTATGTTTTATATTTTAATT
129 TTAATTACATGTTTCATATTGTTAATTGTATGATAATATATATTTGTATGTTTTATATTTTAATT
*
15551506 GTATGATTATATATTTATTTGCATAATTTATATTGTTAATTGCTTGATTATATATTTATTTGCAT
194 GTATGATTATATATTTATTTGCATAATTTATATTGTTAATTGCATGATTATATATTTATTTGCAT
*
15551571 GTTTTACATTGTTCATTGCATGATTAGATATTTGATTGCATG-TTTACATTGTTAATTACATTA
259 GTTTTACATTGTTCATTGCATGATTAGATATTTGATTACATGTTTTACATTGTTAATTACATTA
*
15551634 TTATATATTTAATTACATGATTATATACTTAATTGCATG-T-TTTATACTTAATTGCATGTTTTT
1 TTATATATTTAATTACATGATAATATACTTAATTGCATGATCTTTATACTTAATTGCATGTTTTT
15551697 TGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATATTT
66 TGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATATTT
**
15551762 AATTGTATGTTTCATATTGTTAATTGTATGATAATATATATATCTGTATGTTTTATATTGTTAAT
131 AATTACATGTTTCATATTGTTAATTGTATGATAATATATAT-T-TGTATGTTTTATATT-TTAAT
*
15551827 TGTATGATTATATATTTATTTGTATAATTTATATTGTTAATTGCATGATTATATATTTATTTGCA
193 TGTATGATTATATATTTATTTGCATAATTTATATTGTTAATTGCATGATTATATATTTATTTGCA
15551892 TGTTTTACATTGTTCATTGCATGATTAGATATTTGATTACATGTTTTACATTGTTAATTACATTA
258 TGTTTTACATTGTTCATTGCATGATTAGATATTTGATTACATGTTTTACATTGTTAATTACATTA
15551957 TTATATATTTAATTACATG
1 TTATATATTTAATTACATG
15551976 TCTATTTGCA
Statistics
Matches: 326, Mismatches: 11, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
319 125 0.38
320 1 0.00
321 16 0.05
322 143 0.44
323 41 0.13
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.53
Consensus pattern (322 bp):
TTATATATTTAATTACATGATAATATACTTAATTGCATGATCTTTATACTTAATTGCATGTTTTT
TGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATATTT
AATTACATGTTTCATATTGTTAATTGTATGATAATATATATTTGTATGTTTTATATTTTAATTGT
ATGATTATATATTTATTTGCATAATTTATATTGTTAATTGCATGATTATATATTTATTTGCATGT
TTTACATTGTTCATTGCATGATTAGATATTTGATTACATGTTTTACATTGTTAATTACATTA
Found at i:15551976 original size:41 final size:41
Alignment explanation
Indices: 15551158--15551976 Score: 693
Period size: 41 Copynumber: 20.3 Consensus size: 41
15551148 TAATTGTATG
* * * * *
15551158 TTTATTTGCATGATTTATATTATTATTTGTATTG-TTATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCA-TGATTATATA
* * * *
15551199 TTTAATTGCATG-ATAATATAT-TTATTTGCATG-TTTTATA
1 TTTAATTGCATGTTTTATAT-TGTTAATTGCATGATTATATA
* * * *
15551238 TTGTTAATTGTATG-ATAATATAT-TTAATTGCATG-TT-T-TT
1 -T-TTAATTGCATGTTTTATAT-TGTTAATTGCATGATTATATA
* * *
15551277 TGTTAATTACATG-ATTATATAT-TTAATTGCATG-TTTTATA
1 T-TTAATTGCATGTTTTATAT-TGTTAATTGCATGATTATATA
* * * *
15551317 TTGTTAATTGCATG-ATAATATAT-TTATTTGCATGATGCTTTATA
1 -T-TTAATTGCATGTTTTATAT-TGTTAATTGCATGAT--TATATA
*
15551361 TTTAATTGCATG-TTT-T-TTGTTAATTGCATGATAATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* *
15551399 TTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* *
15551440 TTTAATTACATGTTTTATATTGTTAATTGTATGA-TA-ATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * * *
15551479 TATATTTGTATGTTTTATATT-TTAATTGTATGATTATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* ** *
15551519 TTTATTTGCATAATTTATATTGTTAATTGCTTGATTATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * * *
15551560 TTTATTTGCATGTTTTACATTGTTCATTGCATGATTAGATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * * *
15551601 TTTGATTGCATG-TTTACATTGTTAATTACATTATTATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * ** *
15551641 TTTAATTACATG-ATTATATACTTAATTGCATG-TTTTATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* *
15551680 CTTAATTGCATG-TTT-T-TTGTTAATTGCATGATAATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* *
15551718 TTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * * *
15551759 TTTAATTGTATGTTTCATATTGTTAATTGTATGATAATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * *
15551800 TAT-ATCTGTATGTTTTATATTGTTAATTGTATGATTATATA
1 TTTAAT-TGCATGTTTTATATTGTTAATTGCATGATTATATA
* * **
15551841 TTTATTTGTATAATTTATATTGTTAATTGCATGATTATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * * *
15551882 TTTATTTGCATGTTTTACATTGTTCATTGCATGATTAGATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
* * * * *
15551923 TTTGATTACATGTTTTACATTGTTAATTACATTATTATATA
1 TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
*
15551964 TTTAATTACATGT
1 TTTAATTGCATGT
15551977 CTATTTGCAT
Statistics
Matches: 665, Mismatches: 91, Indels: 44
0.83 0.11 0.05
Matches are distributed among these distances:
37 12 0.02
38 75 0.11
39 57 0.09
40 102 0.15
41 398 0.60
42 14 0.02
43 1 0.00
44 6 0.01
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (41 bp):
TTTAATTGCATGTTTTATATTGTTAATTGCATGATTATATA
Found at i:15552018 original size:27 final size:27
Alignment explanation
Indices: 15551988--15552048 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
15551978 TATTTGCATG
* * * *
15551988 ATTATTAATTTATTTATTTTTGTGATT
1 ATTATTAATATATCTATTTGTATGATT
15552015 ATTATTAATATATCTATTTGTATGATT
1 ATTATTAATATATCTATTTGTATGATT
15552042 ATTATTA
1 ATTATTA
15552049 TTATTGCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.61
Consensus pattern (27 bp):
ATTATTAATATATCTATTTGTATGATT
Found at i:15552199 original size:17 final size:20
Alignment explanation
Indices: 15552173--15552220 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
15552163 TTGATTTGCA
* *
15552173 TATTTACATGATTATT-A-T
1 TATTTGCATGATAATTAATT
15552191 TA-TTGCATGATAATTAATT
1 TATTTGCATGATAATTAATT
15552210 TATTTGCATGA
1 TATTTGCATGA
15552221 CATTCTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 11 0.44
18 3 0.12
19 3 0.12
20 8 0.32
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (20 bp):
TATTTGCATGATAATTAATT
Found at i:15560313 original size:43 final size:42
Alignment explanation
Indices: 15560224--15560329 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
15560214 CTCATTTTAT
* * * *
15560224 TTTTCAAAAATTTCTAAGCCTCAATTGTGGAAAGCATTTTAC
1 TTTTCCAAAGTTTCTAAGCCTCAATTATGGAAAGCATCTTAC
* *
15560266 TTTTCCAAAGTTT-TAATGCCTCAATTATGGGGAAGCATCTTAG
1 TTTTCCAAAGTTTCTAA-GCCTCAATTAT-GGAAAGCATCTTAC
*
15560309 TTTTCCAAAGTTTCAAAGCCT
1 TTTTCCAAAGTTTCTAAGCCT
15560330 TGGTTGTGGG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
41 3 0.06
42 21 0.39
43 28 0.52
44 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (42 bp):
TTTTCCAAAGTTTCTAAGCCTCAATTATGGAAAGCATCTTAC
Found at i:15560340 original size:43 final size:42
Alignment explanation
Indices: 15560216--15560637 Score: 297
Period size: 42 Copynumber: 10.0 Consensus size: 42
15560206 AAAATGGTCT
* * * *
15560216 CATTTTATTTTTCAAAAATTTCTAAGCCTCAATTGT-GGAAAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTTAATTGTGGGGAAG
* * * * *
15560258 CATTTTACTTTTCCAAAGTTTTAATGCCTCAATTATGGGGAAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTTAATTGTGGGGAAG
* * **
15560301 CATCTTAGTTTTCCAAAGTTTCAAAGCCTTGGTTGTGGGGGAA-
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTTAATTGT-GGGGAAG
** * * * *
15560344 CATTTTATTTTTGAAAGTTTCAATGGC-TAAGCTGTGGGGCAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTTAA-TTGTGGGGAAG
* * * * *
15560386 TATTTTATTGTCAAAAGTTCCAAAGCCTCAATTGT-GCGAGAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTTAATTGTGGGGA-AG
* * * *
15560428 AATTTTATTTTCAAAAGTTCCAGAG-CTTCAATTGTAGGG-AG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTT-AATTGTGGGGAAG
* *
15560469 CATTTTATTTTTC-AAAGTTCCAAAGCCTTAATTGCAGGGG-AG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTTAATTG-TGGGGAAG
* * ** *
15560511 CATTTTATTTTTCAAAAGTTCCAAAGCCTTAGTCATGGGGGAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTTAATTGTGGGGAAG
* * *
15560554 CATTTCATTTTCAAAAGTTTCAAAGCCTCAGTTGT-GGGAGAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTTAATTGTGGGGA-AG
*
15560596 CATCTTATTTTTCAAAAGTTTCAAAGCC-TAAGTTGTAGGGGA
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTTAA-TTGT-GGGGA
15560638 TCAATTTTCA
Statistics
Matches: 303, Mismatches: 59, Indels: 33
0.77 0.15 0.08
Matches are distributed among these distances:
41 37 0.12
42 163 0.54
43 93 0.31
44 6 0.02
45 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (42 bp):
CATTTTATTTTCAAAAGTTTCAAAGCCTTAATTGTGGGGAAG
Found at i:15560637 original size:85 final size:85
Alignment explanation
Indices: 15560216--15560637 Score: 360
Period size: 85 Copynumber: 5.0 Consensus size: 85
15560206 AAAATGGTCT
* * * * * * *
15560216 CATTTTATTTTTCAAAAATTTCTAAGCCTCAATTGT-GGAAAGCATTTTACTTTTCCAAAGTTTT
1 CATTTTAGTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGAGAGCATTTTATTTTTCAAAAGTTTC
* *
15560280 AATGCCTCAA-TTATGGGGAAG
66 AAAGCCT-AAGTTGTGGGG-AG
* * *** * * *
15560301 CATCTTAGTTTTCCAAAGTTTCAAAGCCTTGGTTGTGGGGGAACATTTTATTTTT-GAAAGTTTC
1 CATTTTAGTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGAGAGCATTTTATTTTTCAAAAGTTTC
* * *
15560365 AATGGCTAAGCTGTGGGGCAG
66 AAAGCCTAAGTTGTGGGG-AG
* * * * * *
15560386 TATTTTA-TTGTCAAAAGTTCCAAAGCCTCAATTGTGCGAGAGAATTTTA-TTTTCAAAAGTTCC
1 CATTTTAGTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGAGAGCATTTTATTTTTCAAAAGTTTC
* * *
15560449 AGAGCTTCAA-TTGTAGGGAG
66 AAAGCCT-AAGTTGTGGGGAG
* * * * *
15560469 CATTTTATTTTTC-AAAGTTCCAAAGCCTTAATTGCAGGG-GAGCATTTTATTTTTCAAAAGTTC
1 CATTTTAGTTTTCAAAAGTTTCAAAGCCTCAATTG-TGGGAGAGCATTTTATTTTTCAAAAGTTT
*
15560532 CAAAGCCTTAGTCATG-GGGGAG
65 CAAAGCCTAAGT--TGTGGGGAG
* * *
15560554 CATTTCA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAGCATCTTATTTTTCAAAAGTTTC
1 CATTTTAGTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGAGAGCATTTTATTTTTCAAAAGTTTC
15560618 AAAGCCTAAGTTGTAGGGGA
66 AAAGCCTAAGTTGT-GGGGA
15560638 TCAATTTTCA
Statistics
Matches: 267, Mismatches: 56, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
83 44 0.16
84 84 0.31
85 123 0.46
86 16 0.06
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (85 bp):
CATTTTAGTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGAGAGCATTTTATTTTTCAAAAGTTTC
AAAGCCTAAGTTGTGGGGAG
Found at i:15560946 original size:18 final size:19
Alignment explanation
Indices: 15560911--15560948 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
15560901 TTTATTTGTG
*
15560911 TTTTGTTTTTTTAGTTTAAT
1 TTTTGTTTTTCTA-TTTAAT
15560931 TTTTGTTTTTCT-TTTAAT
1 TTTTGTTTTTCTATTTAAT
15560949 CAAAAGAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTGTTTTTCTATTTAAT
Found at i:15561586 original size:20 final size:19
Alignment explanation
Indices: 15561561--15561628 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
15561551 TTTTGCATGA
15561561 ATTTGCATGATTAATATTAT
1 ATTTGCATGATTAATATT-T
15561581 ATTTGCATGA-T-A-A-TT
1 ATTTGCATGATTAATATTT
15561596 ATTTGC----TTAATATTTT
1 ATTTGCATGATTAATA-TTT
15561612 ATTTGCATGATTAATAT
1 ATTTGCATGATTAATAT
15561629 ATTTGTGTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 19
0.67 0.00 0.33
Matches are distributed among these distances:
12 1 0.03
13 1 0.03
14 1 0.03
15 7 0.18
16 9 0.23
17 1 0.03
18 1 0.03
19 2 0.05
20 16 0.41
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.51
Consensus pattern (19 bp):
ATTTGCATGATTAATATTT
Found at i:15561600 original size:15 final size:15
Alignment explanation
Indices: 15561580--15561633 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
15561570 ATTAATATTA
15561580 TATTTGCATGATAAT
1 TATTTGCATGATAAT
* * *
15561595 TATTTGCTTAATATTT
1 TATTTGCATGATA-AT
15561611 TATTTGCATGATTAAT
1 TATTTGCATGA-TAAT
15561627 ATATTTG
1 -TATTTG
15561634 TGTGGTTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 11 0.37
16 11 0.37
17 8 0.27
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.54
Consensus pattern (15 bp):
TATTTGCATGATAAT
Found at i:15561609 original size:31 final size:33
Alignment explanation
Indices: 15561571--15561633 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 33
15561561 ATTTGCATGA
15561571 TTAATATTATATTTGCATGA-TAAT-TATTTGC
1 TTAATATTATATTTGCATGATTAATATATTTGC
*
15561602 TTAATATTTTATTTGCATGATTAATATATTTG
1 TTAATATTATATTTGCATGATTAATATATTTG
15561634 TGTGGTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 19 0.66
32 4 0.14
33 6 0.21
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.54
Consensus pattern (33 bp):
TTAATATTATATTTGCATGATTAATATATTTGC
Found at i:15561615 original size:16 final size:16
Alignment explanation
Indices: 15561571--15561617 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
15561561 ATTTGCATGA
*
15561571 TTAATATTATATTTGC
1 TTAATATTTTATTTGC
* * *
15561587 ATGATA-ATTATTTGC
1 TTAATATTTTATTTGC
15561602 TTAATATTTTATTTGC
1 TTAATATTTTATTTGC
15561618 ATGATTAATA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (16 bp):
TTAATATTTTATTTGC
Found at i:15561715 original size:19 final size:20
Alignment explanation
Indices: 15561677--15561718 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15561667 GTTTTTTTTT
*
15561677 TTTGCATAATTATTAATTTA
1 TTTGCATAATTATCAATTTA
*
15561697 TTTGCATGA-TATCAATTTA
1 TTTGCATAATTATCAATTTA
15561716 TTT
1 TTT
15561719 ATTTGTGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTGCATAATTATCAATTTA
Found at i:15561806 original size:53 final size:53
Alignment explanation
Indices: 15561736--15561891 Score: 147
Period size: 61 Copynumber: 2.8 Consensus size: 53
15561726 TGGTTGCATG
15561736 ATTATTATTAT-TATTATTATATATTTAATTGCATGTTTATTTGCATGATTTAT
1 ATTATTATT-TGTATTATTATATATTTAATTGCATGTTTATTTGCATGATTTAT
*
15561789 ATTATTATTTGTATTATTATAT-TGTTAATTGCATGATAATATATTTATTTGCATGTTTTAT
1 ATTATTATTTGTATTATTATATAT-TTAATTGCATG--------TTTATTTGCATGATTTAT
* * * * *
15561850 ATTGTTAATTGTATGATAATATATTTAATTGCATATTT-TTTG
1 ATTATTATTTGTATTATTATATATTTAATTGCATGTTTATTTG
15561892 TTAATTGCAT
Statistics
Matches: 86, Mismatches: 6, Indels: 23
0.75 0.05 0.20
Matches are distributed among these distances:
52 6 0.07
53 34 0.40
61 45 0.52
62 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (53 bp):
ATTATTATTTGTATTATTATATATTTAATTGCATGTTTATTTGCATGATTTAT
Found at i:15561821 original size:41 final size:41
Alignment explanation
Indices: 15561805--15562025 Score: 331
Period size: 41 Copynumber: 5.5 Consensus size: 41
15561795 ATTTGTATTA
15561805 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTT
1 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTT
* * *
15561846 TTATATTGTTAATTGTATGATAATATATTTAATTGCAT-AT
1 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTT
* * * *
15561886 TT-T-TTGTTAATTGCATGATTACATATTTAATTGAATGTT
1 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTT
15561925 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTT
1 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTT
* * *
15561966 TTGTATTGTTAATTGTATGATAATATATTTATTTGCGTGTT
1 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTT
15562007 TTATATTGTTAATTGCATG
1 TTATATTGTTAATTGCATG
15562026 TTTTTTGTTA
Statistics
Matches: 160, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
38 29 0.18
39 4 0.03
40 4 0.03
41 123 0.77
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.54
Consensus pattern (41 bp):
TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTT
Found at i:15561912 original size:79 final size:82
Alignment explanation
Indices: 15561808--15562025 Score: 334
Period size: 79 Copynumber: 2.7 Consensus size: 82
15561798 TGTATTATTA
*
15561808 TATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGTATGATAATATA
1 TATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATA
15561873 TTTAATTGCAT-ATTT-
66 TTTAATTGCATGATTTG
* * * *
15561888 T-TTGTTAATTGCATGATTACATATTTAATTGAATGTTTTATATTGTTAATTGCATGATAATATA
1 TATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATA
* *
15561952 TTTATTTGCATGTTTTG
66 TTTAATTGCATGATTTG
* *
15561969 TATTGTTAATTGTATGATAATATATTTATTTGCGTGTTTTATATTGTTAATTGCATG
1 TATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATG
15562026 TTTTTTGTTA
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 68 0.56
80 4 0.03
81 1 0.01
82 49 0.40
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.54
Consensus pattern (82 bp):
TATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGCATGATAATATA
TTTAATTGCATGATTTG
Found at i:15561929 original size:120 final size:123
Alignment explanation
Indices: 15561805--15562025 Score: 385
Period size: 120 Copynumber: 1.8 Consensus size: 123
15561795 ATTTGTATTA
15561805 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGTATGATAAT
1 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGTATGATAAT
15561870 ATATTTAATTGCAT-ATTT-T-TTGTTAATTGCATGATTACATATTTAATTGAATGTT
66 ATATTTAATTGCATGATTTATATTGTTAATTGCATGATTACATATTTAATTGAATGTT
*
15561925 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTGTATTGTTAATTGTATGATAAT
1 TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGTATGATAAT
* * *
15561990 ATATTTATTTGCGTGTTTTATATTGTTAATTGCATG
66 ATATTTAATTGCATGATTTATATTGTTAATTGCATG
15562026 TTTTTTGTTA
Statistics
Matches: 94, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
120 76 0.81
121 3 0.03
122 1 0.01
123 14 0.15
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.54
Consensus pattern (123 bp):
TTATATTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGTATGATAAT
ATATTTAATTGCATGATTTATATTGTTAATTGCATGATTACATATTTAATTGAATGTT
Found at i:15561978 original size:100 final size:99
Alignment explanation
Indices: 15561892--15562119 Score: 266
Period size: 100 Copynumber: 2.3 Consensus size: 99
15561882 ATATTTTTTG
15561892 TTAATTGCATGATTACATA-T-TTAATTGAATGTTTTATATTGTTAATTGCATGATAATATATTT
1 TTAATTGCATG-TTACATATTGTTAATTGAATG-TTT-T-TTGTTAATTGCATGATAATATATTT
* *
15561955 ATTTGCATGTTTTGTATTGTTAATTGTATGATAATATAT
62 ATTTGCATGTTTTATATTGTTAATTGCATGAT-ATATAT
* * ** *
15561994 TTATTTGCGTGTTTTATATTGTTAATTGCATGTTTTTTGTTAATTGCATGATAATATATTTATTT
1 TTAATTGCATGTTACATATTGTTAATTGAATGTTTTTTGTTAATTGCATGATAATATATTTATTT
* *
15562059 GCATGTTTTATATTGTTAATAGCATGGT-TATAT
66 GCATGTTTTATATTGTTAATTGCATGATATATAT
* * *
15562092 ATATTTGCATGATT-TATATTGTTAATTG
1 TTAATTGCATG-TTACATATTGTTAATTG
15562120 CATGATTATA
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
98 28 0.25
99 2 0.02
100 53 0.47
101 6 0.05
102 13 0.12
103 10 0.09
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (99 bp):
TTAATTGCATGTTACATATTGTTAATTGAATGTTTTTTGTTAATTGCATGATAATATATTTATTT
GCATGTTTTATATTGTTAATTGCATGATATATAT
Found at i:15562037 original size:141 final size:138
Alignment explanation
Indices: 15561874--15562163 Score: 427
Period size: 141 Copynumber: 2.1 Consensus size: 138
15561864 GATAATATAT
* * *
15561874 TTAATTGCATATTTTTTGTTAATTGCATGATTACATATTTAATTGAATGTTTTATATTGTTAATT
1 TTAATTGCATGTTTTTTGTTAATTGCATGATAACATATTTAATTGAATGTTTTATATTGTTAATA
* * * * *
15561939 GCATGATAATATATTTATTTGCATGTTTTGTATTGTTAATTGTATGATAATATATTTATTTGCGT
66 GCATGAT--TATATATATTTGCATGATTTATATTGTTAATTGCATGATAATATA-TTATTTGCAT
*
15562004 GTTTTATATTG
128 GTTTTACATTG
* * *
15562015 TTAATTGCATGTTTTTTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATA
1 TTAATTGCATGTTTTTTGTTAATTGCATGATAACATATTTAATTGAATGTTTTATATTGTTAATA
* *
15562080 GCATGGTTATATATATTTGCATGATTTATATTGTTAATTGCATGATTATATATTATTTGCATGTT
66 GCATGATTATATATATTTGCATGATTTATATTGTTAATTGCATGATAATATATTATTTGCATGTT
15562145 TTACATTG
131 TTACATTG
15562153 TTAATTGCATG
1 TTAATTGCATG
15562164 ATTAGATATT
Statistics
Matches: 135, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
138 30 0.22
139 40 0.30
141 65 0.48
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (138 bp):
TTAATTGCATGTTTTTTGTTAATTGCATGATAACATATTTAATTGAATGTTTTATATTGTTAATA
GCATGATTATATATATTTGCATGATTTATATTGTTAATTGCATGATAATATATTATTTGCATGTT
TTACATTG
Found at i:15562045 original size:59 final size:60
Alignment explanation
Indices: 15561837--15562204 Score: 276
Period size: 59 Copynumber: 6.1 Consensus size: 60
15561827 ATATATTTAT
* *
15561837 TTGCATGTTTTATATTGTTAATTGTATGATAATATATTTAATTGCAT-ATTT-T-TTGTTAA
1 TTGCATG-TTT-TATTGTTAATTGCATGATAATATATTTAATTGCATGTTTTATATTGTTAA
** * ** * * *
15561896 TTGCATGATTACATAT-TTAATTGAATG-TTTTATATTGTTAATTGCATG-ATAATATAT-TTAT
1 TTGCATG-TTTTAT-TGTTAATTGCATGATAATATA-T-TTAATTGCATGTTTTATAT-TGTTAA
* * *
15561957 TTGCATGTTTTGTATTGTTAATTGTATGATAATATATTTATTTGCGTGTTTTATATTGTTAA
1 TTGCATG-TTT-TATTGTTAATTGCATGATAATATATTTAATTGCATGTTTTATATTGTTAA
*
15562019 TTGCATGTTTT-TTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAA
1 TTGCATGTTTTATTGTTAATTGCATGATAATATATTTAATTGCATGTTTTATATTGTTAA
* * * * * * * *
15562078 TAGCATG-GTTATAT-ATATTTGCATGAT-TTATATTGTTAATTGCATG-ATTATA-TATTAT
1 TTGCATGTTTTAT-TGTTAATTGCATGATAATATA-T-TTAATTGCATGTTTTATATTGTTAA
* * * * *
15562136 TTGCATGTTTTACATTGTTAATTGCATGATTAGATATTTAATTACATGTCTTACATTGTTAA
1 TTGCATGTTTT--ATTGTTAATTGCATGATAATATATTTAATTGCATGTTTTATATTGTTAA
15562198 TTGCATG
1 TTGCATG
15562205 ATTATATATT
Statistics
Matches: 244, Mismatches: 42, Indels: 43
0.74 0.13 0.13
Matches are distributed among these distances:
57 5 0.02
58 29 0.12
59 93 0.38
60 24 0.10
61 45 0.18
62 43 0.18
63 5 0.02
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (60 bp):
TTGCATGTTTTATTGTTAATTGCATGATAATATATTTAATTGCATGTTTTATATTGTTAA
Found at i:15562054 original size:179 final size:182
Alignment explanation
Indices: 15561837--15562214 Score: 489
Period size: 179 Copynumber: 2.1 Consensus size: 182
15561827 ATATATTTAT
* *
15561837 TTGCATGTTTTATATTGTTAATTGTATGATAATATATTTAATTGCAT-ATTT-T-TTGTTAATTG
1 TTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAATTGCATGATTTATATTGTTAATAG
* *
15561899 CATGATTACATATTTAATTGAATGTTTTATATTGTTAATTGCATGATAATATATTTATTTGCATG
66 CATGATT--ATATATAATTGAATGATTTATATTGTTAATTGCATGATAATATA-TTATTTGCATG
** * * * * * * *
15561964 TTTTGTATTGTTAATTGTATGATAATATATTTATTTGCGTGTTTTATATTGTTAA
128 TTTTACATTGTTAATTGCATGATAAGATATTTAATTACATGTCTTACATTGTTAA
* *
15562019 TTGCATG-TTT-T-TTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATAG
1 TTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAATTGCATGATTTATATTGTTAATAG
* * * *
15562081 CATGGTTATATATATTTGCATGATTTATATTGTTAATTGCATGATTATATATTATTTGCATGTTT
66 CATGATTATATATAATTGAATGATTTATATTGTTAATTGCATGATAATATATTATTTGCATGTTT
*
15562146 TACATTGTTAATTGCATGATTAGATATTTAATTACATGTCTTACATTGTTAA
131 TACATTGTTAATTGCATGATAAGATATTTAATTACATGTCTTACATTGTTAA
*
15562198 TTGCATGATTATATATT
1 TTGCATG-TTTTATATT
15562215 AAATTGTATG
Statistics
Matches: 168, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
179 94 0.56
180 43 0.26
181 6 0.04
182 23 0.14
183 2 0.01
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (182 bp):
TTGCATGTTTTATATTGTTAATTGCATGATAATATATTTAATTGCATGATTTATATTGTTAATAG
CATGATTATATATAATTGAATGATTTATATTGTTAATTGCATGATAATATATTATTTGCATGTTT
TACATTGTTAATTGCATGATAAGATATTTAATTACATGTCTTACATTGTTAA
Found at i:15562056 original size:220 final size:220
Alignment explanation
Indices: 15561810--15562214 Score: 600
Period size: 220 Copynumber: 1.8 Consensus size: 220
15561800 TATTATTATA
* * *
15561810 TTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATTGTATGATAATATATT
1 TTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATAGCATGAT--TATATA
*
15561875 TAATTGCAT-ATTT-T-TTGTTAATTGCATGATTACATATTTAATTGAATGTTTTATATTGTTAA
64 TAATTGCATGATTTATATTGTTAATTGCATGATTACATA-TTAATTGAATGTTTTACATTGTTAA
* * * * ** *
15561937 TTGCATGATAATATATTTATTTGCATGTTTTGTATTGTTAATTGTATGATAATATATTTATTTGC
128 TTGCATGATAAGATATTTAATTACATGTCTTACATTGTTAATTGCATGATAATATATTTATTTGC
15562002 GTGTTTTATATTGTTAATTGCATGTTTT
193 GTGTTTTATATTGTTAATTGCATGTTTT
*
15562030 TTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATAGCATGGTTATATATA
1 TTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATAGCATGATTATATATA
* * * *
15562095 TTTGCATGATTTATATTGTTAATTGCATGATTATATATTATTTGCATGTTTTACATTGTTAATTG
66 ATTGCATGATTTATATTGTTAATTGCATGATTACATATTAATTGAATGTTTTACATTGTTAATTG
* *
15562160 CATGATTAGATATTTAATTACATGTCTTACATTGTTAATTGCATGATTATATATT
131 CATGATAAGATATTTAATTACATGTCTTACATTGTTAATTGCATGATAATATATT
15562215 AAATTGTATG
Statistics
Matches: 164, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
218 13 0.08
219 4 0.02
220 126 0.77
221 21 0.13
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (220 bp):
TTGTTAATTGCATGATAATATATTTATTTGCATGTTTTATATTGTTAATAGCATGATTATATATA
ATTGCATGATTTATATTGTTAATTGCATGATTACATATTAATTGAATGTTTTACATTGTTAATTG
CATGATAAGATATTTAATTACATGTCTTACATTGTTAATTGCATGATAATATATTTATTTGCGTG
TTTTATATTGTTAATTGCATGTTTT
Found at i:15562084 original size:41 final size:41
Alignment explanation
Indices: 15562019--15562214 Score: 260
Period size: 41 Copynumber: 4.9 Consensus size: 41
15562009 ATATTGTTAA
*
15562019 TTGCATG-TTT-T-TTGTTAATTGCATGATAATATATTTAT
1 TTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAT
* *
15562057 TTGCATGTTTTATATTGTTAATAGCATGGTTATATA--TAT
1 TTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAT
*
15562096 TTGCATGATTTATATTGTTAATTGCATGATTATATA-TTAT
1 TTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAT
* * *
15562136 TTGCATGTTTTACATTGTTAATTGCATGATTAGATATTTAA
1 TTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAT
* * *
15562177 TTACATGTCTTACATTGTTAATTGCATGATTATATATT
1 TTGCATGTTTTATATTGTTAATTGCATGATTATATATT
15562215 AAATTGTATG
Statistics
Matches: 140, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 7 0.05
39 39 0.28
40 37 0.26
41 57 0.41
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.52
Consensus pattern (41 bp):
TTGCATGTTTTATATTGTTAATTGCATGATTATATATTTAT
Found at i:15562102 original size:39 final size:39
Alignment explanation
Indices: 15562019--15562213 Score: 234
Period size: 39 Copynumber: 4.9 Consensus size: 39
15562009 ATATTGTTAA
*
15562019 TTGCATG-TTT-T-TTGTTAATTGCATGATAATATATTTAT
1 TTGCATGTTTTATATTGTTAATTGCATGAT--TATATATAT
* *
15562057 TTGCATGTTTTATATTGTTAATAGCATGGTTATATATAT
1 TTGCATGTTTTATATTGTTAATTGCATGATTATATATAT
*
15562096 TTGCATGATTTATATTGTTAATTGCATGATTATATATTAT
1 TTGCATGTTTTATATTGTTAATTGCATGATTATATA-TAT
* * *
15562136 TTGCATGTTTTACATTGTTAATTGCATGATTAGATATTTAA
1 TTGCATGTTTTATATTGTTAATTGCATGATT--ATATATAT
* * *
15562177 TTACATGTCTTACATTGTTAATTGCATGATTATATAT
1 TTGCATGTTTTATATTGTTAATTGCATGATTATATAT
15562214 TAAATTGTAT
Statistics
Matches: 138, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
38 7 0.05
39 49 0.36
40 33 0.24
41 45 0.33
42 4 0.03
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (39 bp):
TTGCATGTTTTATATTGTTAATTGCATGATTATATATAT
Found at i:15562199 original size:21 final size:21
Alignment explanation
Indices: 15561803--15562208 Score: 137
Period size: 20 Copynumber: 20.2 Consensus size: 21
15561793 TTATTTGTAT
*
15561803 TATTATATTGTTAATTGCATG
1 TATTACATTGTTAATTGCATG
* * *
15561824 -ATAATATAT-TTATTTGCATG
1 TATTACAT-TGTTAATTGCATG
* * *
15561844 TTTTATATTGTTAATTGTATG
1 TATTACATTGTTAATTGCATG
* *
15561865 -ATAATATAT-TTAATTGCA--
1 TATTACAT-TGTTAATTGCATG
**
15561883 TATT-TTTTGTTAATTGCATG
1 TATTACATTGTTAATTGCATG
*
15561903 -ATTACATAT-TTAATTGAATG
1 TATTACAT-TGTTAATTGCATG
* *
15561923 TTTTATATTGTTAATTGCATG
1 TATTACATTGTTAATTGCATG
* * *
15561944 -ATAATATAT-TTATTTGCATG
1 TATTACAT-TGTTAATTGCATG
* ** *
15561964 TTTTGTATTGTTAATTGTATG
1 TATTACATTGTTAATTGCATG
* * * *
15561985 -ATAATATAT-TTATTTGCGTG
1 TATTACAT-TGTTAATTGCATG
* *
15562005 TTTTATATTGTTAATTGCATG
1 TATTACATTGTTAATTGCATG
*
15562026 T-TT--TTTGTTAATTGCATG
1 TATTACATTGTTAATTGCATG
* * *
15562044 -ATAATATAT-TTATTTGCATG
1 TATTACAT-TGTTAATTGCATG
* * *
15562064 TTTTATATTGTTAATAGCATG
1 TATTACATTGTTAATTGCATG
* * * *
15562085 -GTTATA-T-ATATTTGCATG
1 TATTACATTGTTAATTGCATG
*
15562103 -ATTTATATTGTTAATTGCATG
1 TA-TTACATTGTTAATTGCATG
* * *
15562124 -ATTATA-TATTATTTGCATG
1 TATTACATTGTTAATTGCATG
*
15562143 TTTTACATTGTTAATTGCATG
1 TATTACATTGTTAATTGCATG
* *
15562164 -ATTAGATAT-TTAATTACATG
1 TATTACAT-TGTTAATTGCATG
*
15562184 TCTTACATTGTTAATTGCATG
1 TATTACATTGTTAATTGCATG
15562205 -ATTA
1 TATTA
15562209 TATATTAAAT
Statistics
Matches: 290, Mismatches: 63, Indels: 65
0.69 0.15 0.16
Matches are distributed among these distances:
17 1 0.00
18 34 0.12
19 22 0.08
20 119 0.41
21 114 0.39
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (21 bp):
TATTACATTGTTAATTGCATG
Found at i:15563885 original size:59 final size:59
Alignment explanation
Indices: 15563811--15563925 Score: 221
Period size: 59 Copynumber: 1.9 Consensus size: 59
15563801 GGAACTTTTC
15563811 CAACTCACTACTTCACCATTTAAAGTAAAAACATAGTCACTTTGAGACTTGCTATCTTT
1 CAACTCACTACTTCACCATTTAAAGTAAAAACATAGTCACTTTGAGACTTGCTATCTTT
*
15563870 CAACTCACTATTTCACCATTTAAAGTAAAAACATAGTCACTTTGAGACTTGCTATC
1 CAACTCACTACTTCACCATTTAAAGTAAAAACATAGTCACTTTGAGACTTGCTATC
15563926 GTCCTTGTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (59 bp):
CAACTCACTACTTCACCATTTAAAGTAAAAACATAGTCACTTTGAGACTTGCTATCTTT
Found at i:15568627 original size:22 final size:22
Alignment explanation
Indices: 15568602--15568651 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
15568592 AAGAACCAAG
*
15568602 CTAAAATATATGGATATTTGCA
1 CTAAAATATATGGATATTTACA
15568624 CTAAAATATATGGATATTTACA
1 CTAAAATATATGGATATTTACA
15568646 CTAAAA
1 CTAAAA
15568652 ATGAGCATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (22 bp):
CTAAAATATATGGATATTTACA
Found at i:15570779 original size:30 final size:30
Alignment explanation
Indices: 15570743--15570801 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
15570733 CTAAACAATT
15570743 TAGAAAGTCTAATTCAACTTGGATTTTATG
1 TAGAAAGTCTAATTCAACTTGGATTTTATG
*
15570773 TAGAAAGTCTAATTCAATTTGGATTTTAT
1 TAGAAAGTCTAATTCAACTTGGATTTTAT
15570802 ATGAAATCTT
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:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (30 bp):
TAGAAAGTCTAATTCAACTTGGATTTTATG
Found at i:15576659 original size:21 final size:21
Alignment explanation
Indices: 15576629--15576679 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
15576619 GTAAAATTCA
*
15576629 AAAACTAATCGA-TACCGTATC
1 AAAACCAATCGATTACC-TATC
*
15576650 AAAACCAATCGATTGCCTATC
1 AAAACCAATCGATTACCTATC
15576671 AAAACCAAT
1 AAAACCAAT
15576680 TGATCACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.22
Consensus pattern (21 bp):
AAAACCAATCGATTACCTATC
Found at i:15579850 original size:15 final size:15
Alignment explanation
Indices: 15579830--15579860 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15579820 TAAAGAATTT
*
15579830 GAACTTGAAATTAAA
1 GAACTTAAAATTAAA
15579845 GAACTTAAAATTAAA
1 GAACTTAAAATTAAA
15579860 G
1 G
15579861 TGCAAGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (15 bp):
GAACTTAAAATTAAA
Found at i:15580037 original size:10 final size:10
Alignment explanation
Indices: 15580003--15580043 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
15579993 TTTTGAAAAG
15580003 AAAATTCT-A
1 AAAATTCTAA
*
15580012 AAAATT-AAA
1 AAAATTCTAA
15580021 AACAATTCTAA
1 AA-AATTCTAA
15580032 AAAATTCTAA
1 AAAATTCTAA
15580042 AA
1 AA
15580044 CATTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 9 0.33
10 14 0.52
11 4 0.15
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:15580287 original size:21 final size:21
Alignment explanation
Indices: 15580263--15580331 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
15580253 TTTTTTACAA
15580263 TTTTTTAAAAATTTTTAGTTT
1 TTTTTTAAAAATTTTTAGTTT
** *
15580284 TTTTCAAAAAAATTTTAGATTT
1 TTTTTTAAAAATTTTTAG-TTT
* *
15580306 TTAATTTAAAATATTTTAAAGTTT
1 TT-TTTTAAAA-ATTTT-TAGTTT
15580330 TT
1 TT
15580332 GTGAATTTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
21 15 0.42
22 5 0.14
23 5 0.14
24 9 0.25
25 2 0.06
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTTTAAAAATTTTTAGTTT
Found at i:15580391 original size:19 final size:19
Alignment explanation
Indices: 15580359--15580409 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
15580349 TTAAAAAAAA
*
15580359 ATTATTTTTATTAAAATTTTC
1 ATTA-TTTT-TTAAAAGTTTC
15580380 ATTATTTTTTAAAAGTTTC
1 ATTATTTTTTAAAAGTTTC
**
15580399 AAAATTTTTTA
1 ATTATTTTTTA
15580410 GAAAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 19 0.70
20 4 0.15
21 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTATTTTTTAAAAGTTTC
Found at i:15580427 original size:21 final size:21
Alignment explanation
Indices: 15580402--15580449 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
15580392 AAGTTTCAAA
15580402 ATTTTTTA-GAAAATTTTTG-G
1 ATTTTTTATGAAAA-TTTTGAG
*
15580422 ATTTTTTATTAAAATTTTGAG
1 ATTTTTTATGAAAATTTTGAG
15580443 ATTTTTT
1 ATTTTTT
15580450 TAATTCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.60
Consensus pattern (21 bp):
ATTTTTTATGAAAATTTTGAG
Found at i:15580452 original size:19 final size:20
Alignment explanation
Indices: 15580384--15580452 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 20
15580374 ATTTTCATTA
** *
15580384 TTTTTTAAAAGTTTCAAAAT
1 TTTTTTAAAAGTTTTGAGAT
* *
15580404 TTTTTAGAAAATTTTTG-GATT
1 TTTTT-TAAAAGTTTTGAGA-T
15580425 TTTTATTAAAA-TTTTGAGAT
1 TTTT-TTAAAAGTTTTGAGAT
15580445 TTTTTTAA
1 TTTTTTAA
15580453 TTCTTTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.10
20 16 0.41
21 18 0.46
22 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTTTTAAAAGTTTTGAGAT
Found at i:15589565 original size:16 final size:17
Alignment explanation
Indices: 15589541--15589575 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15589531 AAATAGTCCG
15589541 AACTCGAAATGACACAA
1 AACTCGAAATGACACAA
*
15589558 AACT-GAAATGACCCAA
1 AACTCGAAATGACACAA
15589574 AA
1 AA
15589576 TATTAACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.54, C:0.23, G:0.11, T:0.11
Consensus pattern (17 bp):
AACTCGAAATGACACAA
Found at i:15589642 original size:18 final size:18
Alignment explanation
Indices: 15589628--15589662 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15589618 ATGAAAAAAC
*
15589628 ATGAATTTAACAAAAATA
1 ATGAATATAACAAAAATA
*
15589646 ATGAATATAACACAAAT
1 ATGAATATAACAAAAAT
15589663 GATAACTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.26
Consensus pattern (18 bp):
ATGAATATAACAAAAATA
Found at i:15591063 original size:25 final size:27
Alignment explanation
Indices: 15591016--15591081 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 27
15591006 AATGAAAACC
* *
15591016 AAAGAAACATAAAATGATGC-AAA-GA
1 AAAGAAACAAAAAATGATACAAAATGA
**
15591041 AAAGAAACAAAAAATTTTACAAAATGA
1 AAAGAAACAAAAAATGATACAAAATGA
* *
15591068 AAAAAAAAAAAAAA
1 AAAGAAACAAAAAA
15591082 AAGCAATTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 16 0.48
26 3 0.09
27 14 0.42
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (27 bp):
AAAGAAACAAAAAATGATACAAAATGA
Found at i:15591809 original size:13 final size:13
Alignment explanation
Indices: 15591791--15591815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15591781 AAACGACAAG
15591791 CCAAAAGCCATTC
1 CCAAAAGCCATTC
15591804 CCAAAAGCCATT
1 CCAAAAGCCATT
15591816 GACATTTTTG
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:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (13 bp):
CCAAAAGCCATTC
Found at i:15597941 original size:6 final size:7
Alignment explanation
Indices: 15597924--15597971 Score: 80
Period size: 7 Copynumber: 6.9 Consensus size: 7
15597914 TCTTATGTTC
15597924 TTTTTTG
1 TTTTTTG
15597931 TTTTTTG
1 TTTTTTG
15597938 TTTTTTG
1 TTTTTTG
15597945 TTTTTTG
1 TTTTTTG
15597952 -TTTTTG
1 TTTTTTG
15597958 TTTTTTTG
1 -TTTTTTG
15597966 TTTTTT
1 TTTTTT
15597972 CTATTTTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.15
7 27 0.69
8 6 0.15
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:15605686 original size:62 final size:62
Alignment explanation
Indices: 15605589--15605708 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
15605579 CCTTAAGGTT
* *
15605589 TGTCTTAACAAGCTATGATAAGTAAATTAGGTAAATAACTTGCTTATCAATCACATCCAGTG
1 TGTCTCAACAAGCTATGATAAGTAAATTAGGTAAATAACTTGCTTATCAACCACATCCAGTG
*
15605651 TGTCTCAACAAGCTATGATAAGTAAATTAGGTAAATAACTTGTTTATCAACCACATCC
1 TGTCTCAACAAGCTATGATAAGTAAATTAGGTAAATAACTTGCTTATCAACCACATCC
15605709 CATGTGACTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (62 bp):
TGTCTCAACAAGCTATGATAAGTAAATTAGGTAAATAACTTGCTTATCAACCACATCCAGTG
Found at i:15606091 original size:22 final size:22
Alignment explanation
Indices: 15606065--15606106 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15606055 CAATTATACA
*
15606065 TAGCAT-TATCACATATAAATTC
1 TAGCATGTATAACA-ATAAATTC
15606087 TAGCATGTATAACAATAAAT
1 TAGCATGTATAACAATAAAT
15606107 CAATATAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (22 bp):
TAGCATGTATAACAATAAATTC
Found at i:15609614 original size:72 final size:72
Alignment explanation
Indices: 15609536--15609751 Score: 387
Period size: 72 Copynumber: 3.0 Consensus size: 72
15609526 GAATACAAAT
*
15609536 TAAATTATAGGTCAAATTGTGCTATCAATCTATATACTTTAGTTAATATATGGATTTAGTCCCTC
1 TAAATTATAGGTCAAATTGTGCTATCAATCTATATACTTTAGTTAAAATATGGATTTAGTCCCTC
15609601 TACAATG
66 TACAATG
* *
15609608 TAAATTATAGGTCAAATTGTGCTATCAATCTATATACTTTAGTTAAAATATGGATTTACTCCTTC
1 TAAATTATAGGTCAAATTGTGCTATCAATCTATATACTTTAGTTAAAATATGGATTTAGTCCCTC
15609673 TACAATG
66 TACAATG
* *
15609680 TAAATTATAGGTCAAATTGTGCTATCAATCTATATACTTTAGTTAAAATATAGATTTTGTCCCTC
1 TAAATTATAGGTCAAATTGTGCTATCAATCTATATACTTTAGTTAAAATATGGATTTAGTCCCTC
15609745 TACAATG
66 TACAATG
15609752 ATTTGAATAT
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 137 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (72 bp):
TAAATTATAGGTCAAATTGTGCTATCAATCTATATACTTTAGTTAAAATATGGATTTAGTCCCTC
TACAATG
Found at i:15609884 original size:19 final size:19
Alignment explanation
Indices: 15609847--15609885 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15609837 TGATGTGACA
*
15609847 ATTGACTTGCTAACTTGGC
1 ATTGACTTGCTAACATGGC
*
15609866 ATTGACTTGCTGACATGGC
1 ATTGACTTGCTAACATGGC
15609885 A
1 A
15609886 AGTTTACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (19 bp):
ATTGACTTGCTAACATGGC
Found at i:15613851 original size:210 final size:205
Alignment explanation
Indices: 15613480--15613971 Score: 626
Period size: 210 Copynumber: 2.4 Consensus size: 205
15613470 AATTGAAGAG
* * *
15613480 GATTATTCAAGGCATTTTTTGCCAAAAACACCTTGAATAATCCTATTCAATTTTTTTGTAAGGGA
1 GATTATTCAAGGCATTTTTGGCCAAAAACGCCTTGAATAATCCTATTCAA-TTTTTTGTAAAGGA
* ** * *
15613545 TTATTCAAGGCATTTCTGGCCATCGCTTTCAATAATCCCTTGAAAAACCCTCAAAACACTAGAGG
65 TTATTCAAGGCATTTCTGACCAAAGCCTTCAATAATACCTTGAAAAACCCTCAAAACACTAGAGG
* * *
15613610 GAAGGATTAAACCTACGACCTTATGGTTAATAGCCATATGCTCTAACCAACTAAACTACTCAAGT
130 G-AGGATCAAACCTACGACCTCATGGTTAATAGCCATATGCTATAACCAACTAAACTACTCAAGT
15613675 GTTTTTGTTAATA
194 GTTTTTGTTAA-A
* * * * *
15613688 GATTATTCAAGGTATTTTTGGCCAAAAACGCATTGAATAATCGTATTCAATTTTTTATAAATGAT
1 GATTATTCAAGGCATTTTTGGCCAAAAACGCCTTGAATAATCCTATTCAATTTTTTGTAAAGGAT
* * **
15613753 TATTCAAGGTATTTCTGACCAAAAAGACCTTCAATAATACCTTGAAAAACCTTCAAAATGCTAGA
66 TATTCAAGGCATTTCTGACC--AAAG-CCTTCAATAATACCTTGAAAAACCCTCAAAACACTAG-
* ** * * * *
15613818 ATGGG-TGATCAAACCTACGACCTCATGGTTAATAGCTGTATGCTATAACCAATTAAGCTATTCT
127 A-GGGAGGATCAAACCTACGACCTCATGGTTAATAGCCATATGCTATAACCAACTAAACTACTCA
*
15613882 AGTGTTTTTGTTAAC
191 AGTGTTTTTGTTAAA
* *
15613897 GAATTATTCAAGGCATTTTTGGCCAAAAATGCCTTGAATAATCCTATTCAATTTTTTGTGAAGGA
1 G-ATTATTCAAGGCATTTTTGGCCAAAAACGCCTTGAATAATCCTATTCAATTTTTTGTAAAGGA
15613962 TTATTCAAGG
65 TTATTCAAGG
15613972 AGTTTCTAAC
Statistics
Matches: 243, Mismatches: 35, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
207 30 0.12
208 45 0.19
209 3 0.01
210 161 0.66
211 1 0.00
212 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (205 bp):
GATTATTCAAGGCATTTTTGGCCAAAAACGCCTTGAATAATCCTATTCAATTTTTTGTAAAGGAT
TATTCAAGGCATTTCTGACCAAAGCCTTCAATAATACCTTGAAAAACCCTCAAAACACTAGAGGG
AGGATCAAACCTACGACCTCATGGTTAATAGCCATATGCTATAACCAACTAAACTACTCAAGTGT
TTTTGTTAAA
Found at i:15614076 original size:64 final size:63
Alignment explanation
Indices: 15613899--15614114 Score: 192
Period size: 64 Copynumber: 3.4 Consensus size: 63
15613889 TTGTTAACGA
* * * *
15613899 ATTATTCAAGGCA-TTTTTGGCCAAAAATGCCTTGAATAATCCTATTC--AATTTTTTGTGA-AG
1 ATTATTAAAGG-AGTTTTTGGCAAAAAATGCCTTCAATAATCCTCTTCAAAATTTTTTGT-ATA-
15613960 G
63 G
* * ** * * *
15613961 ATTATTCAAGGAGTTTCTAACTAAAAAA-GTCTTTAATAATCCTCTGCAAAATTTTTTGTATAG
1 ATTATTAAAGGAGTTTTTGGC-AAAAAATGCCTTCAATAATCCTCTTCAAAATTTTTTGTATAG
* * *
15614024 ATTATTAAAGGTGTTTTTGGCAAAAAATGCCTTCAATAATCCCTCTTCAAAATTTTTTGAATGG
1 ATTATTAAAGGAGTTTTTGGCAAAAAATGCCTTCAATAAT-CCTCTTCAAAATTTTTTGTATAG
* *
15614088 GTTATTAAAGGCA-TTTTTGGCTAAAAA
1 ATTATTAAAGG-AGTTTTTGGCAAAAAA
15614115 CACATTTAAT
Statistics
Matches: 125, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
61 1 0.01
62 37 0.30
63 33 0.26
64 54 0.43
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (63 bp):
ATTATTAAAGGAGTTTTTGGCAAAAAATGCCTTCAATAATCCTCTTCAAAATTTTTTGTATAG
Found at i:15614126 original size:64 final size:64
Alignment explanation
Indices: 15613992--15614130 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 64
15613982 TAAAAAAGTC
* ** ** *
15613992 TTTAATAAT-CCTCTGCAAAATTTTTTGTATAGATTATTAAAGGTGTTTTTGGCAAAAAATGCC
1 TTTAATAATCCCTCTGCAAAATTTTTTGAATAGATTATTAAAGGCATTTTTGGCAAAAAACACA
* * * * *
15614055 TTCAATAATCCCTCTTCAAAATTTTTTGAATGGGTTATTAAAGGCATTTTTGGCTAAAAACACA
1 TTTAATAATCCCTCTGCAAAATTTTTTGAATAGATTATTAAAGGCATTTTTGGCAAAAAACACA
15614119 TTTAATAATCCC
1 TTTAATAATCCC
15614131 ATATAATTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
63 8 0.13
64 55 0.87
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (64 bp):
TTTAATAATCCCTCTGCAAAATTTTTTGAATAGATTATTAAAGGCATTTTTGGCAAAAAACACA
Found at i:15618335 original size:20 final size:19
Alignment explanation
Indices: 15618308--15618417 Score: 74
Period size: 18 Copynumber: 6.0 Consensus size: 19
15618298 TGCAAGAATG
15618308 TCATGCAAATATATTAATTA
1 TCATGCAAATATATTAA-TA
* *
15618328 TTATGC-AATA-A-TAACAA
1 TCATGCAAATATATTAA-TA
*
15618345 TCATGCAAATAT-GTAATA
1 TCATGCAAATATATTAATA
15618363 TCATGCAAATATA-T--TA
1 TCATGCAAATATATTAATA
* * *
15618379 TCAAGCAAATATA-CAAAA
1 TCATGCAAATATATTAATA
15618397 TACAATGCAAATATATTAATA
1 T-C-ATGCAAATATATTAATA
15618418 ACCATTCATG
Statistics
Matches: 70, Mismatches: 11, Indels: 17
0.71 0.11 0.17
Matches are distributed among these distances:
16 14 0.20
17 9 0.13
18 21 0.30
19 8 0.11
20 15 0.21
21 3 0.04
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (19 bp):
TCATGCAAATATATTAATA
Found at i:15618386 original size:16 final size:16
Alignment explanation
Indices: 15618361--15618391 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15618351 AAATATGTAA
*
15618361 TATCATGCAAATATAT
1 TATCAAGCAAATATAT
15618377 TATCAAGCAAATATA
1 TATCAAGCAAATATA
15618392 CAAAATACAA
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:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (16 bp):
TATCAAGCAAATATAT
Found at i:15618569 original size:24 final size:23
Alignment explanation
Indices: 15618541--15618615 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 23
15618531 TATCATTCAA
15618541 ATATAATATTAATCATGCAATAAC
1 ATATAATA-TAATCATGCAATAAC
*
15618565 ATATAATATCATATAATGCAATAA-
1 ATATAATAT-A-ATCATGCAATAAC
*
15618589 ATAT--GA-AATCATGCAATAAC
1 ATATAATATAATCATGCAATAAC
15618609 A-ATAATA
1 ATATAATA
15618616 AATAAATAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
19 13 0.31
20 2 0.05
21 1 0.02
22 1 0.02
23 1 0.02
24 13 0.31
25 11 0.26
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (23 bp):
ATATAATATAATCATGCAATAAC
Found at i:15618731 original size:19 final size:20
Alignment explanation
Indices: 15618695--15618855 Score: 101
Period size: 20 Copynumber: 7.8 Consensus size: 20
15618685 GCAAATAGAT
15618695 ATGCAATTAAATATATAATC
1 ATGCAATTAAATATATAATC
*
15618715 ATGCAATTAAA-ATATAAAAC
1 ATGCAATTAAATATAT-AATC
**
15618735 ATGCAATTAAATATATGTTC
1 ATGCAATTAAATATATAATC
* *
15618755 ATGCAA-AAAATAATATAAAC
1 ATGCAATTAAAT-ATATAATC
* * * *
15618775 GATGCAAATAAACATAGAATTAA
1 -ATGCAATTAAATATATAA-T-C
** * * * *
15618798 ATATATAATAATACAAATAAAC
1 ATGCA-ATTAA-ATATATAATC
15618820 ATGCAATTAAATATATAATC
1 ATGCAATTAAATATATAATC
*
15618840 ATGCAAATAAATATAT
1 ATGCAATTAAATATAT
15618856 TAATTATCAA
Statistics
Matches: 106, Mismatches: 26, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
19 8 0.08
20 59 0.56
21 19 0.18
22 9 0.08
23 5 0.05
24 6 0.06
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.29
Consensus pattern (20 bp):
ATGCAATTAAATATATAATC
Found at i:15618816 original size:32 final size:32
Alignment explanation
Indices: 15618779--15618850 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
15618769 ATAAACGATG
15618779 CAAATAAACATAG-AATTAAATATATAATAATA
1 CAAATAAACAT-GCAATTAAATATATAATAATA
* *
15618811 CAAATAAACATGCAATTAAATATATAATCATG
1 CAAATAAACATGCAATTAAATATATAATAATA
15618843 CAAATAAA
1 CAAATAAA
15618851 TATATTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 1 0.03
32 36 0.97
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.26
Consensus pattern (32 bp):
CAAATAAACATGCAATTAAATATATAATAATA
Found at i:15618864 original size:24 final size:23
Alignment explanation
Indices: 15618819--15618994 Score: 102
Period size: 24 Copynumber: 7.8 Consensus size: 23
15618809 TACAAATAAA
*
15618819 CATGCAATTAAATATA-T-A-AT
1 CATGCAAATAAATATATTAATAT
15618839 CATGCAAATAAATATATTAATTAT
1 CATGCAAATAAATATATTAA-TAT
* * *
15618863 CAAGCAATTTAATAT-TGTAATAAT
1 CATGCAAATAAATATAT-TAAT-AT
* * *
15618887 CATGCAATTGAAT-TA-AATATAAT
1 CATGCAAATAAATATATTA-AT-AT
* *
15618910 CATACAAATAAATACATTAATAGT
1 CATGCAAATAAATATATTAATA-T
* *
15618934 CATGCAAATATAT-TAATAA-AT
1 CATGCAAATAAATATATTAATAT
** *
15618955 CACACAAATAAACATATT-A-AT
1 CATGCAAATAAATATATTAATAT
15618976 CATGCAAATAAATATATTA
1 CATGCAAATAAATATATTA
15618995 GGCAAATAAA
Statistics
Matches: 119, Mismatches: 24, Indels: 24
0.71 0.14 0.14
Matches are distributed among these distances:
20 15 0.13
21 29 0.24
22 6 0.05
23 23 0.19
24 45 0.38
25 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (23 bp):
CATGCAAATAAATATATTAATAT
Found at i:15618974 original size:45 final size:47
Alignment explanation
Indices: 15618880--15618975 Score: 117
Period size: 45 Copynumber: 2.1 Consensus size: 47
15618870 TTTAATATTG
* * *
15618880 TAATAATCATGCAATTGAATTAAATATAATCATACAAATAAATACAT
1 TAATAATCATGCAAATGAATTAAATATAATCACACAAATAAACACAT
* *
15618927 TAATAGTCATGCAAAT-ATATT-AATA-AATCACACAAATAAACATAT
1 TAATAATCATGCAAATGA-ATTAAATATAATCACACAAATAAACACAT
15618972 TAAT
1 TAAT
15618976 CATGCAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
45 21 0.49
46 5 0.12
47 17 0.40
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (47 bp):
TAATAATCATGCAAATGAATTAAATATAATCACACAAATAAACACAT
Found at i:15618976 original size:21 final size:21
Alignment explanation
Indices: 15618952--15618994 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15618942 TATATTAATA
15618952 AATCACACAAATAAACATATT
1 AATCACACAAATAAACATATT
** *
15618973 AATCATGCAAATAAATATATT
1 AATCACACAAATAAACATATT
15618994 A
1 A
15618995 GGCAAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (21 bp):
AATCACACAAATAAACATATT
Found at i:15619001 original size:17 final size:17
Alignment explanation
Indices: 15618974--15619024 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
15618964 AAACATATTA
*
15618974 ATCATGCAAATAAATAT
1 ATCAGGCAAATAAATAT
*
15618991 ATTAGGCAAATAAAT-T
1 ATCAGGCAAATAAATAT
*
15619007 ATCATGCAAATATAATAT
1 ATCAGGCAAATA-AATAT
15619025 TAGTCATGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 11 0.39
17 16 0.57
18 1 0.04
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (17 bp):
ATCAGGCAAATAAATAT
Found at i:15619672 original size:12 final size:12
Alignment explanation
Indices: 15619655--15619684 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15619645 CACTAAAAAA
15619655 CAAAAATTAAAC
1 CAAAAATTAAAC
15619667 CAAAAATTAAAC
1 CAAAAATTAAAC
*
15619679 TAAAAA
1 CAAAAA
15619685 AATTAAAATA
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:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:15620933 original size:21 final size:21
Alignment explanation
Indices: 15620893--15620954 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
15620883 CATTCATTTA
*
15620893 TTTTC-TTTTCTTGC-TTTCT
1 TTTTCTTTTTCTTTCTTTTCT
15620912 TTTTCTTTTTCTTTCTTTTCT
1 TTTTCTTTTTCTTTCTTTTCT
**
15620933 TTCACTTTTTCTTT-TTTT-T
1 TTTTCTTTTTCTTTCTTTTCT
15620952 TTT
1 TTT
15620955 CTCCTCACCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.22
20 12 0.32
21 17 0.46
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTCTTTTTCTTTCTTTTCT
Found at i:15620966 original size:26 final size:27
Alignment explanation
Indices: 15620910--15620983 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
15620900 TTCTTGCTTT
*
15620910 CTTTTTCTTTTTCTTTCTTTTCTTTCA
1 CTTTTTCTTTTTCTTTCTTTTCTCTCA
15620937 CTTTTTC-TTTT-TTT-TTTTCTCCTCA
1 CTTTTTCTTTTTCTTTCTTTTCT-CTCA
*
15620962 CCTTTTTCTTTTTCATTCTTTT
1 -CTTTTTCTTTTTCTTTCTTTT
15620984 ACTTATTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 6 0.15
25 6 0.15
26 11 0.28
27 11 0.28
28 2 0.05
29 4 0.10
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (27 bp):
CTTTTTCTTTTTCTTTCTTTTCTCTCA
Found at i:15621488 original size:12 final size:11
Alignment explanation
Indices: 15621471--15621500 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
15621461 TTCTTTATCC
15621471 TTTTTTTCTCTT
1 TTTTTTTC-CTT
15621483 TTTTTTTCCTT
1 TTTTTTTCCTT
15621494 TTTTTTT
1 TTTTTTT
15621501 ACATGCCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTCCTT
Found at i:15621492 original size:21 final size:21
Alignment explanation
Indices: 15621459--15621498 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15621449 GTCATAACCA
15621459 CTTTCTTTATCCTTTTTTTCT
1 CTTTCTTTATCCTTTTTTTCT
* *
15621480 CTTTTTTTTTCCTTTTTTT
1 CTTTCTTTATCCTTTTTTT
15621499 TTACATGCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (21 bp):
CTTTCTTTATCCTTTTTTTCT
Found at i:15621624 original size:27 final size:26
Alignment explanation
Indices: 15621594--15621645 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15621584 AAGTTATTGT
*
15621594 AAAAAAAAGAGTCATGTGGAATAAACG
1 AAAAAAAAGA-TCATGTAGAATAAACG
*
15621621 AAAAAAATGATCATGTAGAATAAAC
1 AAAAAAAAGATCATGTAGAATAAAC
15621646 CCATTTAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (26 bp):
AAAAAAAAGATCATGTAGAATAAACG
Found at i:15625373 original size:18 final size:18
Alignment explanation
Indices: 15625352--15625386 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15625342 TTGGACTTCT
*
15625352 TTTTTTTTATATTTTTTC
1 TTTTTTTAATATTTTTTC
*
15625370 TTTTTTTAATCTTTTTT
1 TTTTTTTAATATTTTTT
15625387 TATCCTATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTAATATTTTTTC
Found at i:15626357 original size:17 final size:17
Alignment explanation
Indices: 15626335--15626368 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15626325 GGAGTCACCA
15626335 CCAATCTTTTTTAGAGT
1 CCAATCTTTTTTAGAGT
15626352 CCAATCTTTTTTAGAGT
1 CCAATCTTTTTTAGAGT
15626369 GTGATTAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
CCAATCTTTTTTAGAGT
Found at i:15627433 original size:19 final size:19
Alignment explanation
Indices: 15627409--15627472 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
15627399 GGCTTAGGGT
15627409 TTTCACCTAGGATTTTGGG
1 TTTCACCTAGGATTTTGGG
* *
15627428 TTTCACATAAGATTTTGGG
1 TTTCACCTAGGATTTTGGG
*
15627447 TTTCACCTAAGGCTTTTGGG
1 TTTCACCT-AGGATTTTGGG
15627467 TTTCAC
1 TTTCAC
15627473 TTAAGACTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 24 0.62
20 15 0.38
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (19 bp):
TTTCACCTAGGATTTTGGG
Found at i:15627477 original size:20 final size:20
Alignment explanation
Indices: 15627421--15627482 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
15627411 TCACCTAGGA
*
15627421 TTTTGGGTTTCACATAA-GA
1 TTTTGGGTTTCACATAAGGC
*
15627440 TTTTGGGTTTCACCTAAGGC
1 TTTTGGGTTTCACATAAGGC
* *
15627460 TTTTGGGTTTCACTTAAGAC
1 TTTTGGGTTTCACATAAGGC
15627480 TTT
1 TTT
15627483 AATTTAAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
19 16 0.42
20 22 0.58
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (20 bp):
TTTTGGGTTTCACATAAGGC
Found at i:15627513 original size:20 final size:19
Alignment explanation
Indices: 15627485--15627553 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
15627475 AAGACTTTAA
15627485 TTTAAAGTTTCATTTTAGGG
1 TTTAAAGTTTCA-TTTAGGG
* *
15627505 TTTAGAGTTTTATTTAGGG
1 TTTAAAGTTTCATTTAGGG
* *
15627524 TGTTCAA-TTTCAATTTAGGA
1 T-TTAAAGTTTC-ATTTAGGG
*
15627544 TTTAAGGTTT
1 TTTAAAGTTT
15627554 TGGGTTTCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 14 0.37
20 24 0.63
ACGTcount: A:0.25, C:0.04, G:0.20, T:0.51
Consensus pattern (19 bp):
TTTAAAGTTTCATTTAGGG
Found at i:15627630 original size:20 final size:20
Alignment explanation
Indices: 15627577--15627633 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
15627567 AGATTTTAAA
*
15627577 GTTTCATTTA-GGATTTAGG
1 GTTTCATTTAGGGTTTTAGG
** *
15627596 GTTTACAAATAGGGTTTTATG
1 GTTT-CATTTAGGGTTTTAGG
15627617 GTTTCATTTAGGGTTTT
1 GTTTCATTTAGGGTTTT
15627634 GATTTTAGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.13
20 15 0.50
21 11 0.37
ACGTcount: A:0.21, C:0.05, G:0.25, T:0.49
Consensus pattern (20 bp):
GTTTCATTTAGGGTTTTAGG
Found at i:15627789 original size:3 final size:3
Alignment explanation
Indices: 15627781--15627827 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
15627771 TTTTCATTAA
15627781 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15627828 ACGTTTTTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15627906 original size:40 final size:39
Alignment explanation
Indices: 15627812--15627908 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 39
15627802 ATTATTATTA
* *
15627812 TTATTATTATTATTATACGTTTTTCCTTTTTCATTAAAAT
1 TTATTATTATTATT-TACATTTTTCCTTTTTCATAAAAAT
* * *
15627852 TTTTTATTATTTATTTTCATTTTTTCTTTTTCATAAAAAAT
1 TTATTATTA-TTATTTACATTTTTCCTTTTTCAT-AAAAAT
*
15627893 TTATTATTGTTATTTA
1 TTATTATTATTATTTA
15627909 TTACTTTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
40 30 0.64
41 17 0.36
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (39 bp):
TTATTATTATTATTTACATTTTTCCTTTTTCATAAAAAT
Found at i:15631223 original size:21 final size:21
Alignment explanation
Indices: 15631175--15631223 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
15631165 GATTAAATTT
* *
15631175 TCATCTGCTTAAAGATTTCGC
1 TCATCTTCCTAAAGATTTCGC
15631196 TCATCTTCCTAAAGATTTCGC
1 TCATCTTCCTAAAGATTTCGC
15631217 TCATCTT
1 TCATCTT
15631224 AATGGCAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (21 bp):
TCATCTTCCTAAAGATTTCGC
Found at i:15631641 original size:29 final size:29
Alignment explanation
Indices: 15631602--15631679 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
15631592 ATATCCAAAC
* * *
15631602 AATAAAAAATAAATAATTATATTAT-TTAA
1 AATAATAAATAAA-AATAAAATTATATTAA
*
15631631 AATAATAAATAAAAATAAAATTATATTCA
1 AATAATAAATAAAAATAAAATTATATTAA
* *
15631660 AATAATGAAACAATAATAAA
1 AATAAT-AAATAAAAATAAA
15631680 GTAGTGGTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 9 0.22
29 21 0.51
30 11 0.27
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (29 bp):
AATAATAAATAAAAATAAAATTATATTAA
Found at i:15634653 original size:11 final size:10
Alignment explanation
Indices: 15634632--15634694 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 10
15634622 TCTAACATTT
15634632 TATTTATATA
1 TATTTATATA
15634642 TATTTA-ATA
1 TATTTATATA
15634651 TATTTAT-TA
1 TATTTATATA
*
15634660 TTTTTA-AT-
1 TATTTATATA
15634668 TAATTTATATA
1 T-ATTTATATA
*
15634679 TTATTT-TTTA
1 -TATTTATATA
15634689 TATTTA
1 TATTTA
15634695 ATAGCCAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
8 1 0.02
9 26 0.60
10 11 0.26
11 4 0.09
12 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTATATA
Done.