Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 121 of 147
Found at i:21744322 original size:30 final size:29
Alignment explanation
Indices: 21744274--21744331 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
21744264 AATTTGAGTC
21744274 TTCATTTTCTTTCATTTCACATTTTTTTT
1 TTCATTTTCTTTCATTTCACATTTTTTTT
21744303 TTCATTTT-TTTCACATTTCACATTTTTTT
1 TTCATTTTCTTT--CATTTCACATTTTTTT
21744332 ACTTTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 3 0.11
29 8 0.30
30 16 0.59
ACGTcount: A:0.16, C:0.17, G:0.00, T:0.67
Consensus pattern (29 bp):
TTCATTTTCTTTCATTTCACATTTTTTTT
Found at i:21748970 original size:20 final size:23
Alignment explanation
Indices: 21748947--21748999 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 23
21748937 CATAATGTTT
21748947 TAAAAATAAAAAT-AAT-AAC-A
1 TAAAAATAAAAATAAATAAACAA
*
21748967 T-AAAACAAAAATAAATAAACAA
1 TAAAAATAAAAATAAATAAACAA
*
21748989 AAAAAATAAAA
1 TAAAAATAAAA
21749000 TACCAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 10 0.38
20 4 0.15
21 3 0.12
22 1 0.04
23 8 0.31
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (23 bp):
TAAAAATAAAAATAAATAAACAA
Found at i:21748986 original size:14 final size:14
Alignment explanation
Indices: 21748950--21748998 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
21748940 AATGTTTTAA
*
21748950 AAATAAA-AATAAT
1 AAATAAACAAAAAT
21748963 AACATAAAACAAAAAT
1 AA-AT-AAACAAAAAT
21748979 AAATAAACAAAAA-
1 AAATAAACAAAAAT
21748992 AAATAAA
1 AAATAAA
21748999 ATACCAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 9 0.28
14 11 0.34
15 5 0.16
16 7 0.22
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATAAACAAAAAT
Found at i:21749832 original size:15 final size:15
Alignment explanation
Indices: 21749812--21749841 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21749802 AATTTTTCAC
*
21749812 TAAATAAATAAATAA
1 TAAATAAAAAAATAA
21749827 TAAATAAAAAAATAA
1 TAAATAAAAAAATAA
21749842 AATAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAATAAAAAAATAA
Found at i:21750524 original size:21 final size:21
Alignment explanation
Indices: 21750500--21750606 Score: 87
Period size: 21 Copynumber: 5.2 Consensus size: 21
21750490 GTTATATTAT
* *
21750500 TAATACAACATATTATTAAAA
1 TAATACAATATATTATTAATA
* *
21750521 TAATATAATATATTAATAATA
1 TAATACAATATATTATTAATA
*
21750542 TAATACATTAT-TTATTAATA
1 TAATACAATATATTATTAATA
** *
21750562 TAATATTAT-TTTTA-TAATA
1 TAATACAATATATTATTAATA
* *
21750581 -AATATAATATTATTTTTAATA
1 TAATACAATA-TATTATTAATA
21750602 TAATA
1 TAATA
21750607 TTTATATAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
18 7 0.10
19 6 0.09
20 20 0.29
21 31 0.46
22 4 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATACAATATATTATTAATA
Found at i:21750540 original size:16 final size:16
Alignment explanation
Indices: 21750519--21750551 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21750509 ATATTATTAA
*
21750519 AATAATATAATATATT
1 AATAATATAATACATT
21750535 AATAATATAATACATT
1 AATAATATAATACATT
21750551 A
1 A
21750552 TTTATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATATAATACATT
Found at i:21750613 original size:23 final size:22
Alignment explanation
Indices: 21750548--21750613 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 22
21750538 AATATAATAC
21750548 ATTATTTATTAATATAATA-T-T
1 ATTATTT-TTAATATAATATTAT
* *
21750569 ATT-TTTATAATA-AATATAAT
1 ATTATTTTTAATATAATATTAT
21750589 ATTATTTTTAATATAATATTTAT
1 ATTATTTTTAATATAATA-TTAT
21750612 AT
1 AT
21750614 AATAAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 7 0.19
21 11 0.31
22 4 0.11
23 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATTTTTAATATAATATTAT
Found at i:21750644 original size:20 final size:19
Alignment explanation
Indices: 21750519--21750646 Score: 74
Period size: 20 Copynumber: 6.7 Consensus size: 19
21750509 ATATTATTAA
* *
21750519 AATAATATAA-TATATTAAT
1 AATAA-ATAATTATTTTATT
21750538 AATATAATACATTA-TTTATT
1 AATA-AATA-ATTATTTTATT
21750558 AATATAAT-ATTATTTT-TAT
1 AATA-AATAATTATTTTAT-T
* *
21750577 AATAAATATAATATTATTTTT
1 AATAAATA-ATTATT-TTATT
21750598 AAT--ATAA-TA-TTTATAT
1 AATAAATAATTATTTTAT-T
*
21750614 AATAAAAAATTATTTTATT
1 AATAAATAATTATTTTATT
21750633 AATACAATAATTAT
1 AATA-AATAATTAT
21750647 AGCGTCACTA
Statistics
Matches: 88, Mismatches: 6, Indels: 29
0.72 0.05 0.24
Matches are distributed among these distances:
15 3 0.03
16 5 0.06
17 2 0.02
18 12 0.14
19 25 0.28
20 32 0.36
21 8 0.09
22 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAAATAATTATTTTATT
Found at i:21751788 original size:129 final size:128
Alignment explanation
Indices: 21751442--21751887 Score: 409
Period size: 128 Copynumber: 3.5 Consensus size: 128
21751432 TCCCAAAAAG
* * * * *
21751442 TTGACATATGACATTTTCCTTCAAAATTACTACAATACCTTCATTGAATTA-AGGATTAAATTTT
1 TTGACATATGACATTTT-ATTCAAAATTACTATAATACCTTGATTAAATTACA-AATTAAATTTT
* ** * * *
21751506 AATATAATATAAAATTAATTGGGTATTAAATTACTAAAATAACCTTGCCATTGCCTTGTAGAATT
64 AACATAATATAAAATTAATTGCATATTAAATTACTAAAATAACCTTGCCATTGCCTTATACAAAT
* * ** * *
21751571 TTGACATATGATATTTTATTTAAAATTACTATAATACCTTGATTAAATTGTATATGAAATTTTAA
1 TTGACATATGACATTTTATTCAAAATTACTATAATACCTTGATTAAATTACAAATTAAATTTTAA
** * * *
21751636 CATAATATAAAATTAATTGCATATTAAATTGTTGAAATAATCTTGCCATTGCTTTATACAAAT
66 CATAATATAAAATTAATTGCATATTAAATTACTAAAATAACCTTGCCATTGCCTTATACAAAT
* * * *
21751699 TTGACATGTGGCATTTTGTTCAAAATTTACTATAATACCCTT-ATTAGATTACAAATTAAATTTT
1 TTGACATATGACATTTTATTCAAAA-TTACTATAATA-CCTTGATTAAATTACAAATTAAATTTT
* * * * * ***
21751763 AACATAATATAAAATTAACTACATATTGAATTTCTAAAATACCCTTATAATTG-CTTCATGA-AA
64 AACATAATATAAAATTAATTGCATATTAAATTACTAAAATAACCTTGCCATTGCCTT-AT-ACAA
21751826 AT
127 AT
* * * * * * * *
21751828 TTGACATGT-AGTATTTTA-TGAAAATTACTATGATACCTTTATAAAATTATATATTAAATT
1 TTGACATATGA-CATTTTATTCAAAATTACTATAATACCTTGATTAAATTACAAATTAAATT
21751888 AATTACATAA
Statistics
Matches: 259, Mismatches: 51, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
126 4 0.02
127 26 0.10
128 117 0.45
129 107 0.41
130 5 0.02
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (128 bp):
TTGACATATGACATTTTATTCAAAATTACTATAATACCTTGATTAAATTACAAATTAAATTTTAA
CATAATATAAAATTAATTGCATATTAAATTACTAAAATAACCTTGCCATTGCCTTATACAAAT
Found at i:21752151 original size:60 final size:59
Alignment explanation
Indices: 21752057--21752184 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 59
21752047 TCACTTTATT
* * * *
21752057 TAAATAAACCATTATACTTTTATTGTACCTAAAT-AAGTTTTTATCCTTTAATTTACAT-
1 TAAATAAGCCATTATACTTTAATTGTACCTAAATAAACTTTTAAT-CTTTAATTTACATC
*
21752115 TCAAATAAGCCATTA-ATCTTTAATTTGTATCC-AAATAAACTTTTAATCTTTAATTTATATC
1 T-AAATAAGCCATTATA-CTTTAA-TTGTA-CCTAAATAAACTTTTAATCTTTAATTTACATC
21752176 TAAATAAGC
1 TAAATAAGC
21752185 TCTTAATATA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
58 2 0.03
59 17 0.29
60 29 0.49
61 11 0.19
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (59 bp):
TAAATAAGCCATTATACTTTAATTGTACCTAAATAAACTTTTAATCTTTAATTTACATC
Found at i:21752191 original size:30 final size:30
Alignment explanation
Indices: 21752085--21752191 Score: 103
Period size: 30 Copynumber: 3.6 Consensus size: 30
21752075 TTTATTGTAC
* * *
21752085 CTAAATAAG-TTTTTATCCTTTAATTTACAT
1 CTAAATAAGCTCTTAAT-CTTTAATTTATAT
*
21752115 -TCAAATAAGC-CATTAATCTTTAATTTGTAT
1 CT-AAATAAGCTC-TTAATCTTTAATTTATAT
* * *
21752145 CCAAATAAACTTTTAATCTTTAATTTATAT
1 CTAAATAAGCTCTTAATCTTTAATTTATAT
21752175 CTAAATAAGCTCTTAAT
1 CTAAATAAGCTCTTAAT
21752192 ATAAATTAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
29 1 0.02
30 56 0.92
31 4 0.07
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.45
Consensus pattern (30 bp):
CTAAATAAGCTCTTAATCTTTAATTTATAT
Found at i:21753978 original size:23 final size:23
Alignment explanation
Indices: 21753943--21753986 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
21753933 TTTCTTCTCC
21753943 TTTTTCTTATTTTCAT-TTCTTAT
1 TTTTTCTTATTTT-ATATTCTTAT
21753966 TTTTTCTCT-TTTTATATTCTT
1 TTTTTCT-TATTTTATATTCTT
21753987 TTTCTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.11
23 16 0.84
24 1 0.05
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTCTTATTTTATATTCTTAT
Found at i:21753992 original size:17 final size:17
Alignment explanation
Indices: 21753963--21753995 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21753953 TTTCATTTCT
21753963 TATTTTTTCTCTTTTTA
1 TATTTTTTCTCTTTTTA
21753980 TATTCTTTT-TCTTTTT
1 TATT-TTTTCTCTTTTT
21753996 CTACTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTCTCTTTTTA
Found at i:21754003 original size:17 final size:18
Alignment explanation
Indices: 21753967--21754004 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
21753957 ATTTCTTATT
*
21753967 TTTTCTCTTTTTATATTC
1 TTTTCTCTTTTTATACTC
*
21753985 TTTT-TCTTTTTCTACTC
1 TTTTCTCTTTTTATACTC
21754002 TTT
1 TTT
21754005 ATATTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCTCTTTTTATACTC
Found at i:21754569 original size:15 final size:15
Alignment explanation
Indices: 21754549--21754582 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21754539 TTCAATAAAC
*
21754549 TTTTTTCTTTTAGTT
1 TTTTTTCTTTTAATT
*
21754564 TTTTTTTTTTTAATT
1 TTTTTTCTTTTAATT
21754579 TTTT
1 TTTT
21754583 AGTTAAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTTTCTTTTAATT
Found at i:21757785 original size:19 final size:18
Alignment explanation
Indices: 21757749--21757788 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
21757739 TATCACTATC
21757749 TAATTTTAATAAAATTAT
1 TAATTTTAATAAAATTAT
* *
21757767 TAATTATTAATTAATTTAT
1 TAATT-TTAATAAAATTAT
21757786 TAA
1 TAA
21757789 ATGAATTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTTTAATAAAATTAT
Found at i:21774211 original size:2 final size:2
Alignment explanation
Indices: 21774204--21774231 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21774194 AAGTATAGAT
21774204 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21774232 ATCAATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21775310 original size:11 final size:11
Alignment explanation
Indices: 21775287--21775338 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
21775277 GCTAGCTTGT
*
21775287 AAAA-GAAAAA
1 AAAAGGAAAGA
21775297 AAAAGGAAAGA
1 AAAAGGAAAGA
** *
21775308 AAAAGTCATGA
1 AAAAGGAAAGA
*
21775319 AAAAGAAAAGA
1 AAAAGGAAAGA
21775330 AAAAGGAAA
1 AAAAGGAAA
21775339 TAAAGTGGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
10 4 0.12
11 29 0.88
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (11 bp):
AAAAGGAAAGA
Found at i:21777232 original size:67 final size:67
Alignment explanation
Indices: 21777156--21777290 Score: 234
Period size: 67 Copynumber: 2.0 Consensus size: 67
21777146 ATTCAAATTC
* *
21777156 ATTTCAAAAAATTCTTTAAAAATCTAGAAAATTTTGGTTGAAAATCTAGTAGCAGAGTAGGAGAT
1 ATTTCAAAAAATTCTATAAAAATCTAGAAAATTTTGGTTGAAAATCTAGTAGCAGAGTAAGAGAT
21777221 CA
66 CA
* *
21777223 ATTTCAAAAAATTCTATAAAAATCTAGAAAGTTTTGGTTGAAAATCTAGTAGTAGAGTAAGAGAT
1 ATTTCAAAAAATTCTATAAAAATCTAGAAAATTTTGGTTGAAAATCTAGTAGCAGAGTAAGAGAT
21777288 CA
66 CA
21777290 A
1 A
21777291 GTGGTGATAG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.31
Consensus pattern (67 bp):
ATTTCAAAAAATTCTATAAAAATCTAGAAAATTTTGGTTGAAAATCTAGTAGCAGAGTAAGAGAT
CA
Found at i:21777865 original size:21 final size:22
Alignment explanation
Indices: 21777812--21777855 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
21777802 TTGGAAGTTG
*
21777812 AAGAGTTAGTTAAGTTTCGATT
1 AAGAGATAGTTAAGTTTCGATT
21777834 AAGAGATAGTT-AGTTTCGATT
1 AAGAGATAGTTAAGTTTCGATT
21777855 A
1 A
21777856 TGTGCAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (22 bp):
AAGAGATAGTTAAGTTTCGATT
Found at i:21784812 original size:2 final size:2
Alignment explanation
Indices: 21784805--21784836 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
21784795 TTTTAGGTTT
21784805 TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21784837 GAGATAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21792318 original size:29 final size:30
Alignment explanation
Indices: 21792286--21792369 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
21792276 AACTTTTTAA
21792286 AAAATAATATTATAAGAATTAAATTTC-TT
1 AAAATAATATTATAAGAATTAAATTTCTTT
*
21792315 AAAATTAATATTATAAAAATTAAA-TTCTTT
1 AAAA-TAATATTATAAGAATTAAATTTCTTT
* * *
21792345 TAAATAATATTATATGAAATAAATT
1 AAAATAATATTATAAGAATTAAATT
21792370 CCTAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 23 0.49
30 24 0.51
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
AAAATAATATTATAAGAATTAAATTTCTTT
Found at i:21792322 original size:15 final size:15
Alignment explanation
Indices: 21792272--21792340 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
21792262 AATACATAGG
*
21792272 ATTAAACTTTTTAAAA
1 ATTAAA-TTTATAAAA
* *
21792288 AAT-AATATTATAAGA
1 ATTAAAT-TTATAAAA
* *
21792303 ATTAAATTTCTTAAA
1 ATTAAATTTATAAAA
21792318 ATT-AATATTATAAAA
1 ATTAAAT-TTATAAAA
21792333 ATTAAATT
1 ATTAAATT
21792341 CTTTTAAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 9
0.69 0.16 0.16
Matches are distributed among these distances:
14 4 0.10
15 28 0.70
16 8 0.20
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATTAAATTTATAAAA
Found at i:21792370 original size:29 final size:29
Alignment explanation
Indices: 21792286--21792370 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
21792276 AACTTTTTAA
*
21792286 AAAATAATATTATAAGAATTAAATT-TCTT
1 AAAATAATATTAT-AGAAATAAATTCTCTT
*
21792315 AAAATTAATATTATAAAAATTAAATTCT-TT
1 AAAA-TAATATTATAGAAA-TAAATTCTCTT
*
21792345 TAAATAATATTATATGAAATAAATTC
1 AAAATAATATTATA-GAAATAAATTC
21792371 CTAAAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 24 0.50
30 23 0.48
31 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (29 bp):
AAAATAATATTATAGAAATAAATTCTCTT
Found at i:21792756 original size:7 final size:7
Alignment explanation
Indices: 21792746--21792770 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21792736 CGTTATTTAT
21792746 TATAAAA
1 TATAAAA
21792753 TATAAAA
1 TATAAAA
21792760 TATAAAA
1 TATAAAA
21792767 TATA
1 TATA
21792771 GAATTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TATAAAA
Found at i:21796013 original size:17 final size:20
Alignment explanation
Indices: 21795979--21796017 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
21795969 AATTTTATTT
21795979 ATTTTATTAGTATATTTTTA
1 ATTTTATTAGTATATTTTTA
21795999 ATTTTATT-G-AT-TTTTTA
1 ATTTTATTAGTATATTTTTA
21796016 AT
1 AT
21796018 AAAATTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 1 0.05
20 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
ATTTTATTAGTATATTTTTA
Found at i:21796024 original size:29 final size:29
Alignment explanation
Indices: 21795965--21796020 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
21795955 CGTTATTATA
* * *
21795965 TTTTAATTTTATTTATTTTATTAGTATAT
1 TTTTAATTTTATTGATTTTATTAATAAAT
21795994 TTTTAATTTTATTGATTTT-TTAATAAA
1 TTTTAATTTTATTGATTTTATTAATAAA
21796021 ATTTACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (29 bp):
TTTTAATTTTATTGATTTTATTAATAAAT
Found at i:21798881 original size:21 final size:21
Alignment explanation
Indices: 21798848--21798887 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21798838 AAGCAATATG
* *
21798848 TCTATCTTCTTTCTATCTTCC
1 TCTATCCTATTTCTATCTTCC
*
21798869 TCTATCCTATTTCTTTCTT
1 TCTATCCTATTTCTATCTT
21798888 TCTTCATTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.30, G:0.00, T:0.60
Consensus pattern (21 bp):
TCTATCCTATTTCTATCTTCC
Found at i:21806540 original size:10 final size:10
Alignment explanation
Indices: 21806522--21806564 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
21806512 TAACTTTGAG
*
21806522 TATTAAAATA
1 TATTTAAATA
21806532 TATTTAAATA
1 TATTTAAATA
* *
21806542 TATTTATATT
1 TATTTAAATA
21806552 TATTTAAATA
1 TATTTAAATA
21806562 TAT
1 TAT
21806565 ATATTCATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TATTTAAATA
Found at i:21809546 original size:4 final size:4
Alignment explanation
Indices: 21809537--21809575 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
21809527 ATTTTTTTCC
*
21809537 TTTA TTTA TTTA TTTA TTTA TCTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
21809576 TTATATCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:21809928 original size:12 final size:13
Alignment explanation
Indices: 21809911--21809939 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21809901 ATAGGATTTT
21809911 TTTTTTTGG-AAA
1 TTTTTTTGGAAAA
21809923 TTTTTTTGGAAAA
1 TTTTTTTGGAAAA
21809936 TTTT
1 TTTT
21809940 CAATTTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (13 bp):
TTTTTTTGGAAAA
Found at i:21810136 original size:15 final size:15
Alignment explanation
Indices: 21810116--21810158 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21810106 CGGGTTAGAG
*
21810116 AGAAAATGAAAGAAA
1 AGAAAAGGAAAGAAA
*
21810131 AGAAAAGGGAAGAAA
1 AGAAAAGGAAAGAAA
21810146 A-AAAAGAGAAAGA
1 AGAAAAG-GAAAGA
21810159 GGAAATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (15 bp):
AGAAAAGGAAAGAAA
Found at i:21810162 original size:21 final size:19
Alignment explanation
Indices: 21810123--21810162 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
21810113 GAGAGAAAAT
*
21810123 GAAAGAAAAGAAAAGGGAA
1 GAAAAAAAAGAAAAGGGAA
21810142 GAAAAAAAAGAGAAAGAGGAA
1 GAAAAAAAAGA-AAAG-GGAA
21810163 ATTTGATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 4 0.22
21 4 0.22
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAGAAAAGGGAA
Found at i:21815082 original size:17 final size:17
Alignment explanation
Indices: 21815058--21815106 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
21815048 TAATGGATGG
21815058 AAAAAAAAGAAAAAAAAAT
1 AAAAAAAAG--AAAAAAAT
*
21815077 AAAAAAAAGGAAAAAAT
1 AAAAAAAAGAAAAAAAT
*
21815094 AAAAAAATGAAAA
1 AAAAAAAAGAAAA
21815107 TGAGGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 18 0.67
19 9 0.33
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAT
Found at i:21815100 original size:10 final size:10
Alignment explanation
Indices: 21815058--21815092 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
21815048 TAATGGATGG
21815058 AAAAAAAAGA
1 AAAAAAAAGA
*
21815068 AAAAAAAATA
1 AAAAAAAAGA
*
21815078 AAAAAAAGGA
1 AAAAAAAAGA
21815088 AAAAA
1 AAAAA
21815093 TAAAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:21817015 original size:39 final size:40
Alignment explanation
Indices: 21816923--21817054 Score: 122
Period size: 39 Copynumber: 3.2 Consensus size: 40
21816913 TTCAAAGTCA
* * * *
21816923 TTGAGCTTTTACTTAGAGGAGCTTTTATTCTTTAAAGTTG
1 TTGAGCCTTTACTTAGAGAAGCTTTTATTCTTCAAAATTG
* * *
21816963 TTAAGGCTTTACTTAGATAAGCTTTTATT-TTCAAAATTG
1 TTGAGCCTTTACTTAGAGAAGCTTTTATTCTTCAAAATTG
* * * *
21817002 TTGAGCCTCTACTTAGAGGAGCATTATTTATTTTTCAAAGTTG
1 TTGAGCCTTTACTTAGAGAAGC--T-TTTATTCTTCAAAATTG
*
21817045 TTGTGCCTTT
1 TTGAGCCTTT
21817055 GACTAGGGGG
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
39 25 0.34
40 24 0.33
41 1 0.01
42 6 0.08
43 17 0.23
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.46
Consensus pattern (40 bp):
TTGAGCCTTTACTTAGAGAAGCTTTTATTCTTCAAAATTG
Found at i:21817046 original size:43 final size:43
Alignment explanation
Indices: 21816826--21817175 Score: 248
Period size: 40 Copynumber: 8.5 Consensus size: 43
21816816 GTCGATGAGC
* * ** * *
21816826 TTTATTTTTTAAAATTGTTGAGCCTCTGTTTAAAGGAGC---C
1 TTTATTTTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCATTA
* * * *
21816866 TTTATTTTTCAAAGTCGTTGTGCCTTTGA-TTAAAGGAGCATTA
1 TTTATTTTTCAAAGTTGTTGAGCCTCT-ACTTAGAGGAGCATTA
** * *
21816909 --T-TTTTTCAAAGTCATTGAGCTTTTACTTAGAGGAGC--T-
1 TTTATTTTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCATTA
* * * **
21816946 TTTATTCTTT-AAAGTTGTTAAGGCTTTACTTAGATAAGC--T-
1 TTTATT-TTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCATTA
*
21816986 TTTA-TTTTCAAAATTGTTGAGCCTCTACTTAGAGGAGCATTA
1 TTTATTTTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCATTA
* * *
21817028 TTTATTTTTCAAAGTTGTTGTGCCTTTGAC-TAG-GGGGCATTA
1 TTTATTTTTCAAAGTTGTTGAGCCTCT-ACTTAGAGGAGCATTA
* * * * * *
21817070 TTTATTTTTTAAAATTGTTGAACATCTGCTTAGAAGAGCATTA
1 TTTATTTTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCATTA
* * ** *
21817113 GTTATTTTTTAAAGTCATTGAGCCTCTACTAAGAGGAGCATTA
1 TTTATTTTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCATTA
21817156 TTTATTTTTCAAAGTTGTTG
1 TTTATTTTTCAAAGTTGTTG
21817176 GAACATTATT
Statistics
Matches: 243, Mismatches: 50, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
38 4 0.02
39 26 0.11
40 90 0.37
41 6 0.02
42 36 0.15
43 79 0.33
44 2 0.01
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (43 bp):
TTTATTTTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCATTA
Found at i:21817089 original size:85 final size:84
Alignment explanation
Indices: 21816826--21817175 Score: 267
Period size: 85 Copynumber: 4.2 Consensus size: 84
21816816 GTCGATGAGC
* ** * * *
21816826 TTTATTTTTTAAAATTGTTGAGCCTCTGTTTAAAGGAGC-CTTTATTTTTCAAAGTCGTTGTGCC
1 TTTATTTTTCAAAATTGTTGAGCCTCTACTTAGAGGAGCTATTTATTTTTCAAAGTCGTTGAGCC
*
21816890 TTTGATTAA-AGGAGCATTA
66 TTT-ACTAAGAGGAGCATTA
* ** * * * * *
21816909 --T-TTTTTCAAAGTCATTGAGCTTTTACTTAGAGGAGCT-TTTATTCTTT-AAAGTTGTTAAGG
1 TTTATTTTTCAAAATTGTTGAGCCTCTACTTAGAGGAGCTATTTATT-TTTCAAAGTCGTTGAGC
* **
21816969 CTTTACTTAGATAAGC--T-
65 CTTTACTAAGAGGAGCATTA
* *
21816986 TTTA-TTTTCAAAATTGTTGAGCCTCTACTTAGAGGAGCATTATTTATTTTTCAAAGTTGTTGTG
1 TTTATTTTTCAAAATTGTTGAGCCTCTACTTAGAGGAGC--TATTTATTTTTCAAAGTCGTTGAG
*
21817050 CCTTTGACT-AG-GGGGCATTA
64 CCTTT-ACTAAGAGGAGCATTA
* * * * * * * *
21817070 TTTATTTTTTAAAATTGTTGAACATCTGCTTAGAAGAGCATTAGTTATTTTTTAAAGTCATTGAG
1 TTTATTTTTCAAAATTGTTGAGCCTCTACTTAGAGGAGC--TATTTATTTTTCAAAGTCGTTGAG
*
21817135 CCTCTACTAAGAGGAGCATTA
64 CCTTTACTAAGAGGAGCATTA
*
21817156 TTTATTTTTCAAAGTTGTTG
1 TTTATTTTTCAAAATTGTTG
21817176 GAACATTATT
Statistics
Matches: 208, Mismatches: 42, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
78 1 0.00
79 33 0.16
80 49 0.24
81 10 0.05
82 22 0.11
83 4 0.02
84 7 0.03
85 56 0.27
86 26 0.12
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (84 bp):
TTTATTTTTCAAAATTGTTGAGCCTCTACTTAGAGGAGCTATTTATTTTTCAAAGTCGTTGAGCC
TTTACTAAGAGGAGCATTA
Found at i:21817224 original size:70 final size:71
Alignment explanation
Indices: 21817108--21817245 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 71
21817098 CTTAGAAGAG
* *
21817108 CATTAGTTATTTTTTAAAGTCATTGAGCCTCTACTAAGAGGAGCATTATTTATTTTTCAAAGTTG
1 CATTAGTTATTTTTTAAAGTCATTAAGCCTCTACTAAGAGGAGCATTATTTATTTTTCAAAGTCG
21817173 TTGGAA
66 TTGGAA
*
21817179 CATTA-TT-TTTTTTCAAAGTCATTAAGCCTCTACTTAGAGGAGCATTATTTATTTTTCAAAGTC
1 CATTAGTTATTTTTT-AAAGTCATTAAGCCTCTACTAAGAGGAGCATTATTTATTTTTCAAAGTC
21817242 GTTG
65 GTTG
21817246 AGCTTCTGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
69 6 0.10
70 52 0.83
71 5 0.08
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (71 bp):
CATTAGTTATTTTTTAAAGTCATTAAGCCTCTACTAAGAGGAGCATTATTTATTTTTCAAAGTCG
TTGGAA
Found at i:21817237 original size:43 final size:43
Alignment explanation
Indices: 21817179--21817324 Score: 204
Period size: 43 Copynumber: 3.4 Consensus size: 43
21817169 GTTGTTGGAA
* *
21817179 CATTATTT-TTTTTCAAAGTCATTAAGCCTCTACTTAGAGGAG
1 CATTATTTATTTTTCAAAGTCATTGAGCCTCTACTTAAAGGAG
* * ** *
21817221 CATTATTTATTTTTCAAAGTCGTTGAGCTTCTGTTTAAAGGAA
1 CATTATTTATTTTTCAAAGTCATTGAGCCTCTACTTAAAGGAG
* *
21817264 CATTATTTATTTTTCAAAGTCATTGAGCCTTTACTTAAAGAAG
1 CATTATTTATTTTTCAAAGTCATTGAGCCTCTACTTAAAGGAG
21817307 CATTATTTATTTTTCAAA
1 CATTATTTATTTTTCAAA
21817325 AAGTTAAGAG
Statistics
Matches: 89, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 8 0.09
43 81 0.91
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (43 bp):
CATTATTTATTTTTCAAAGTCATTGAGCCTCTACTTAAAGGAG
Found at i:21818930 original size:54 final size:52
Alignment explanation
Indices: 21818823--21818944 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 52
21818813 ATTTTCTTTC
* *
21818823 AAAAAAAAATTTTAAATAGGCCCAAATAGTGAAAAATTTAAAAATTCTGAAA
1 AAAAAAAAATTTTAAATAGGCCCAAATAGTAAAAAATTTAAAAATTCTCAAA
* *
21818875 AAAGAAAAAATTTCTAAATAGGCCCAAAT-GATAAAAAAATTTAGAGATT-TC-AA
1 AAA-AAAAAATTT-TAAATAGGCCCAAATAG-T-AAAAAATTTAAAAATTCTCAAA
*
21818928 AAAAAAAATTTTTAAAT
1 AAAAAAAAATTTTAAAT
21818945 TAACCCAACT
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
51 5 0.08
52 11 0.18
53 15 0.25
54 17 0.28
55 13 0.21
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.26
Consensus pattern (52 bp):
AAAAAAAAATTTTAAATAGGCCCAAATAGTAAAAAATTTAAAAATTCTCAAA
Found at i:21820096 original size:5 final size:5
Alignment explanation
Indices: 21820088--21820113 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21820078 AAAAGAAGAA
21820088 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
21820114 CACATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:21822094 original size:24 final size:24
Alignment explanation
Indices: 21822054--21822100 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
21822044 TCAAATTAAA
*
21822054 AAATAATAATAAAAAATATATTCT
1 AAATAATAATAAAAAATAAATTCT
**
21822078 AAATAATAATATCAAATAAATTC
1 AAATAATAATAAAAAATAAATTC
21822101 CATATTCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAATAATAAAAAATAAATTCT
Found at i:21828275 original size:69 final size:69
Alignment explanation
Indices: 21828198--21828341 Score: 202
Period size: 69 Copynumber: 2.1 Consensus size: 69
21828188 TTTATATTGA
* * ** * * *
21828198 TGATATTATATTGATAGGTGATGATATT-AAAGAAATAGAGAGGCTAAAGAAGACTTTTGGAAAA
1 TGATATTATACTGACAAATGATGACATTGAAA-AAATAGAAAGGCTAAAAAAGACTTTTGGAAAA
21828262 GAATT
65 GAATT
21828267 TGATATTATACTGACAAATGATGACATTGAAAAAATAGAAAGGCTAAAAAAGACTTTTGGAAAAG
1 TGATATTATACTGACAAATGATGACATTGAAAAAATAGAAAGGCTAAAAAAGACTTTTGGAAAAG
21828332 AATT
66 AATT
21828336 T-ATATT
1 TGATATT
21828342 TAAGGATTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 5 0.07
69 59 0.88
70 3 0.04
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (69 bp):
TGATATTATACTGACAAATGATGACATTGAAAAAATAGAAAGGCTAAAAAAGACTTTTGGAAAAG
AATT
Found at i:21835165 original size:6 final size:6
Alignment explanation
Indices: 21835154--21835185 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
21835144 GGGTAAGAAA
*
21835154 AGCCTC AGCCTC AGCCTC AGCCTC AGACTC AG
1 AGCCTC AGCCTC AGCCTC AGCCTC AGCCTC AG
21835186 TCCTTATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.22, C:0.44, G:0.19, T:0.16
Consensus pattern (6 bp):
AGCCTC
Found at i:21836437 original size:20 final size:20
Alignment explanation
Indices: 21836400--21836443 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
21836390 AAACGCCCTT
* *
21836400 TAAAATTTTATTTATATTAGA
1 TAAAATTTAATATATATTA-A
21836421 TAAAATTTAATAT-TATTAA
1 TAAAATTTAATATATATTAA
21836440 TAAA
1 TAAA
21836444 TATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 5 0.24
21 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAAAATTTAATATATATTAA
Found at i:21841220 original size:24 final size:23
Alignment explanation
Indices: 21841189--21841276 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 23
21841179 TTATTTAATT
21841189 AAAAAATAAATAATAAATACAAAC
1 AAAAAATAAA-AATAAATACAAAC
*
21841213 AAAAAATAAAAAATAAATAAAAAGC
1 AAAAAAT-AAAAATAAATACAAA-C
* * * *
21841238 AAAAAACAAAAACAAAAACAAAA
1 AAAAAATAAAAATAAATACAAAC
21841261 ATAAAAAT-AAAATAAA
1 A-AAAAATAAAAATAAA
21841277 ATAAGCTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
23 8 0.15
24 35 0.66
25 10 0.19
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.11
Consensus pattern (23 bp):
AAAAAATAAAAATAAATACAAAC
Found at i:21841241 original size:18 final size:18
Alignment explanation
Indices: 21841189--21841277 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 18
21841179 TTATTTAATT
*
21841189 AAAAAATAAATAATAAATAC
1 AAAAAAAAAATAA-AAA-AC
* *
21841209 AAACAAAAAATAAAAAAT
1 AAAAAAAAAATAAAAAAC
* **
21841227 AAATAAAAAGCAAAAAAC
1 AAAAAAAAAATAAAAAAC
* *
21841245 AAAAACAAAAA-CAAAAAT
1 AAAAA-AAAAATAAAAAAC
*
21841263 AAAAATAAAATAAAA
1 AAAAAAAAAATAAAA
21841278 TAAGCTTATA
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
17 4 0.07
18 32 0.59
19 7 0.13
20 11 0.20
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.11
Consensus pattern (18 bp):
AAAAAAAAAATAAAAAAC
Found at i:21841249 original size:31 final size:30
Alignment explanation
Indices: 21841188--21841272 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 30
21841178 TTTATTTAAT
* *
21841188 TAAAAAATAAATAATAAATACAAACAAAAAA
1 TAAAAAATAAATAA-AAAAAAAAACAAAAAA
21841219 TAAAAAATAAATAAAAAGCAAAAAACAAAAACA
1 TAAAAAATAAATAAAAA--AAAAAACAAAAA-A
*
21841252 -AAAACAA-AAATAAAAATAAAA
1 TAAAA-AATAAATAAAAAAAAAA
21841273 TAAAATAAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 7 0.15
31 14 0.30
32 23 0.49
33 3 0.06
ACGTcount: A:0.80, C:0.07, G:0.01, T:0.12
Consensus pattern (30 bp):
TAAAAAATAAATAAAAAAAAAAACAAAAAA
Found at i:21841254 original size:5 final size:6
Alignment explanation
Indices: 21841209--21841272 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
21841199 TAATAAATAC
*
21841209 AAACAA AAA-ATA AAA-AA TAAATAA AAAGCAAA AAACAA AAACAA AAACAA
1 AAACAA AAACA-A AAACAA -AAACAA AAA-C-AA AAACAA AAACAA AAACAA
* *
21841259 AAATAA AAATAA AA
1 AAACAA AAACAA AA
21841273 TAAAATAAGC
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
5 2 0.04
6 41 0.80
7 3 0.06
8 5 0.10
ACGTcount: A:0.83, C:0.08, G:0.02, T:0.08
Consensus pattern (6 bp):
AAACAA
Found at i:21841642 original size:7 final size:7
Alignment explanation
Indices: 21841630--21841654 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21841620 ATCTAATTAA
21841630 AAAATAT
1 AAAATAT
21841637 AAAATAT
1 AAAATAT
21841644 AAAATAT
1 AAAATAT
21841651 AAAA
1 AAAA
21841655 AGCCAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:21841653 original size:23 final size:23
Alignment explanation
Indices: 21841610--21841655 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21841600 ATATATTTTG
**
21841610 ATATAAAATTATCTAATTAAAAA
1 ATATAAAATTATAAAATTAAAAA
21841633 ATATAAAA-TATAAAATATAAAAA
1 ATATAAAATTATAAAAT-TAAAAA
21841656 GCCAATTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
ATATAAAATTATAAAATTAAAAA
Found at i:21841773 original size:21 final size:19
Alignment explanation
Indices: 21841724--21841762 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
21841714 AATTTAATGT
21841724 AAAAAAAAACTATAAAAAC
1 AAAAAAAAACTATAAAAAC
21841743 AAAAGAAAAACATATAAAAA
1 AAAA-AAAAAC-TATAAAAA
21841763 ATGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (19 bp):
AAAAAAAAACTATAAAAAC
Found at i:21845927 original size:24 final size:25
Alignment explanation
Indices: 21845877--21845928 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
21845867 TTATTCATAA
* *
21845877 TTTTATTTAGATTATAATAAAACAT
1 TTTTATTTAGATTATAACAAAAAAT
21845902 TTTTATTT-GATT-TAACAACAAAAT
1 TTTTATTTAGATTATAACAA-AAAAT
21845926 TTT
1 TTT
21845929 ACCTAAGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTATTTAGATTATAACAAAAAAT
Found at i:21846209 original size:6 final size:6
Alignment explanation
Indices: 21846190--21846220 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
21846180 AATAAAATTA
21846190 AATTTT AATATTT AATTTT AATTTT AATTTT
1 AATTTT AAT-TTT AATTTT AATTTT AATTTT
21846221 TTTTTATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
AATTTT
Found at i:21853799 original size:63 final size:63
Alignment explanation
Indices: 21853700--21853826 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
21853690 AATAAAATAT
21853700 ACAATAGTCTGAAAATCAAGTCAAAACAACAAATGAAATCATTTTCAATGGATCTCAGTAATC
1 ACAATAGTCTGAAAATCAAGTCAAAACAACAAATGAAATCATTTTCAATGGATCTCAGTAATC
* *
21853763 ACAATAGTCTGAAAATCAAGTCAAAACAACAAATGAAATCCTTTTCAATGGTTCTCAGTAATC
1 ACAATAGTCTGAAAATCAAGTCAAAACAACAAATGAAATCATTTTCAATGGATCTCAGTAATC
21853826 A
1 A
21853827 TCATAAGGTC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (63 bp):
ACAATAGTCTGAAAATCAAGTCAAAACAACAAATGAAATCATTTTCAATGGATCTCAGTAATC
Found at i:21856428 original size:16 final size:15
Alignment explanation
Indices: 21856404--21856455 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
21856394 TTTAATACAT
21856404 AAAAATTTATTTTTA
1 AAAAATTTATTTTTA
*
21856419 AAAAATTTTAATTTTATC
1 AAAAA-TTT-ATTTT-TA
*
21856437 AAAAATTTATTTTCA
1 AAAAATTTATTTTTA
21856452 AAAA
1 AAAA
21856456 GTATTACAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.29
16 8 0.26
17 8 0.26
18 6 0.19
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AAAAATTTATTTTTA
Found at i:21861938 original size:24 final size:24
Alignment explanation
Indices: 21861911--21861968 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
21861901 TCATTTAATT
* *
21861911 CACTAATAAAATATAAAATCTATA
1 CACTAATAAAATATAAAATATAAA
* * *
21861935 CACTAACAATATATCAAATATAAA
1 CACTAATAAAATATAAAATATAAA
*
21861959 CTCTAATAAA
1 CACTAATAAA
21861969 TTTAATTTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.28
Consensus pattern (24 bp):
CACTAATAAAATATAAAATATAAA
Found at i:21863041 original size:20 final size:18
Alignment explanation
Indices: 21863007--21863056 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
21862997 GGCGTTGGAA
21863007 AGAAAAGAAAAAGAAACT
1 AGAAAAGAAAAAGAAACT
**
21863025 AGAAAAGATAGAAAGAAAGG
1 AGAAAAGA-A-AAAGAAACT
21863045 AGAAAAAGAAAA
1 AG-AAAAGAAAA
21863057 GTTGCCAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.30
19 3 0.11
20 10 0.37
21 6 0.22
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.04
Consensus pattern (18 bp):
AGAAAAGAAAAAGAAACT
Found at i:21864016 original size:58 final size:58
Alignment explanation
Indices: 21863833--21864344 Score: 383
Period size: 58 Copynumber: 8.7 Consensus size: 58
21863823 GCTTTTGTAT
*
21863833 AAGAAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTCT-G-AAACTTTAATTTT-
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TAGAAAAC-TT-ATTTTC
* * * *
21863890 GAGAAAATTTGATACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTAGAAAA-TTATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCT-CAAAAATA---TTTTTTAGAAAACTTATTTTC
* * *
21863951 AAAAAAAATTGATACTTTCAACTTTTACTCGAAAATATTTTTTAGAAAACTTATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTC
* * * *** * **
21864009 AAGAAAAATTAATACTTTAGATATAATCATTTTCTTTTCAAA-ACTCATT-G----CTT-TTGTA
1 AAGAAAAATTGATAC-TT---T-CAA-C-TTTTCCTCAAAAATATTTTTTAGAAAACTTATT-T-
21864067 T-
57 TC
* * *
21864068 AAGGAAAATTGATACTTTTAACTTTTCC-CAAAAATATTTTTCT-G-AAACTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TAGAAAAC-TTATTTTC
* * * * * * *
21864125 AAAAAAAATTGATACTTTTAAATTTTTCTCAAAAAAACTTTTTTTTAAAAAAATTATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTC--AAAAA-TATTTTTTAGAAAACTTATTTTC
* * * **
21864186 AA-AGAAAATTGATACTTTTAACTTCTCATTGAAAATATTTTTTAGAAAACTTATTTTC
1 AAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTC
*
21864244 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTCTAGAAAACTTATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTC
* **
21864302 AAGAAAAATTGATACTTTCAAATTTTCCTTTAAAATATTTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
21864345 TTTTGGAATT
Statistics
Matches: 361, Mismatches: 60, Indels: 67
0.74 0.12 0.14
Matches are distributed among these distances:
51 3 0.01
52 8 0.02
53 3 0.01
54 3 0.01
55 1 0.00
56 2 0.01
57 65 0.18
58 136 0.38
59 29 0.08
60 18 0.05
61 64 0.18
62 10 0.03
63 6 0.02
64 5 0.01
65 8 0.02
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (58 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTC
Found at i:21864184 original size:15 final size:15
Alignment explanation
Indices: 21864144--21864195 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
21864134 TGATACTTTT
21864144 AAATT-TTTCTCAAAA
1 AAATTATTT-TCAAAA
* *
21864159 AAACTTTTTTTTAAAA
1 AAA-TTATTTTCAAAA
21864175 AAATTATTTTCAAAGA
1 AAATTATTTTCAAA-A
21864191 AAATT
1 AAATT
21864196 GATACTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 12 0.39
16 16 0.52
17 3 0.10
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (15 bp):
AAATTATTTTCAAAA
Found at i:21864222 original size:235 final size:236
Alignment explanation
Indices: 21863787--21864261 Score: 699
Period size: 235 Copynumber: 2.0 Consensus size: 236
21863777 AATGGTTCAG
*
21863787 CTTTAGATATAAATTCTTTTCTCTTCAAAACTTATTGCTTTTGTATAAGAAAAATTGATACTTTC
1 CTTTAGATATAAATTCTTTTCTCTTCAAAACTCATTGCTTTTGTATAAGAAAAATTGATACTTTC
* ** * * *
21863852 AACTTTTTCTCAAAATATTTTTCTGAAACTTTAATTTTGAGAAAATTTGATACTTTCAACTTTTC
66 AACTTTTTCCCAAAATATTTTTCTGAAACTTTAATTTCAAAAAAAATTGATACTTTCAAATTTTC
* *
21863917 CTAAAAAAAAACCTTTTTTTAGAAAATTATTTTCAAAAAAAATTGATACTTTCAACTTTTACTCG
131 CTAAAAAAAAACCTTTTTTTAAAAAATTATTTTCAAAAAAAATTGATACTTTCAACTTTCACTCG
21863982 AAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATTAATA
196 AAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATTAATA
* *
21864023 CTTTAGATAT-AA-TCATTTTCTTTTCAAAACTCATTGCTTTTGTATAAGGAAAATTGATACTTT
1 CTTTAGATATAAATTC-TTTTCTCTTCAAAACTCATTGCTTTTGTATAAGAAAAATTGATACTTT
* *
21864086 TAAC-TTTTCCCAAAAATATTTTTCTGAAACTTTAATTTCAAAAAAAATTGATACTTTTAAATTT
65 CAACTTTTTCCC-AAAATATTTTTCTGAAACTTTAATTTCAAAAAAAATTGATACTTTCAAATTT
* * * * *
21864150 TTCT-CAAAAAAACTTTTTTTTAAAAAAATTATTTTCAAAGAAAATTGATACTTTTAACTTCTCA
129 TCCTAAAAAAAAACCTTTTTTT-AAAAAATTATTTTCAAAAAAAATTGATACTTTCAACTT-TCA
* *
21864214 -TTGAAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATTGATA
192 CTCGAAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATTAATA
21864258 CTTT
1 CTTT
21864262 CAACTTTTCC
Statistics
Matches: 215, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
234 23 0.11
235 180 0.84
236 12 0.06
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.44
Consensus pattern (236 bp):
CTTTAGATATAAATTCTTTTCTCTTCAAAACTCATTGCTTTTGTATAAGAAAAATTGATACTTTC
AACTTTTTCCCAAAATATTTTTCTGAAACTTTAATTTCAAAAAAAATTGATACTTTCAAATTTTC
CTAAAAAAAAACCTTTTTTTAAAAAATTATTTTCAAAAAAAATTGATACTTTCAACTTTCACTCG
AAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATTAATA
Found at i:21864339 original size:235 final size:234
Alignment explanation
Indices: 21863826--21864343 Score: 593
Period size: 235 Copynumber: 2.2 Consensus size: 234
21863816 ACTTATTGCT
* * * **
21863826 TTTGTATAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTCTGAAACTTTAATTTTG
1 TTTGTACAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTCTGAAACTTTAATTTCA
* * * *
21863891 AGAAAATTTGATACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTAGAAAATTATTTTCAAAAA
66 AAAAAAATTGATACTTTCAAATTTTCCTAAAAAAAAACCTTTTTTTAAAAAATTATTTTCAAAAA
*
21863956 AAATTGATACTTTCAACTTTTACTCGAAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATTAA
131 AAATTGATACTTTCAACTTTCACTCGAAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATTAA
*** * * *
21864021 TACTTTAGATATAATCATTTTCTTTTCAAAACTCATTGCT
196 TACTTTAGATATAATCAAAATATTTTCAAAACACATT-CA
* * * *
21864061 TTTGTATAAGGAAAATTGATACTTTTAACTTTTCCCAAAAATATTTTTCTGAAACTTTAATTTCA
1 TTTGTACAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTCTGAAACTTTAATTTCA
* * * * *
21864126 AAAAAAATTGATACTTTTAAATTTTTCT-CAAAAAAACTTTTTTTTAAAAAAATTATTTTCAAAG
66 AAAAAAATTGATACTTTCAAATTTTCCTAAAAAAAAACCTTTTTTT-AAAAAATTATTTTCAAAA
* *
21864190 AAAATTGATACTTTTAACTTCTCA-TTGAAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATT
130 AAAATTGATACTTTCAACTT-TCACTCGAAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATT
* * **
21864254 GATACTTTCA-ACTTTTCCTCAAAAATATTTTCTAGAAA-AC-TT-A
194 AATACTTT-AGA--TATAATC-AAAATATTTTC-A-AAACACATTCA
* *
21864297 TTT-T-CAAGAAAAATTGATACTTTCAAATTTTCCTTTAAAATATTTTT
1 TTTGTACAAGAAAAATTGATACTTTCAACTTTTCC-TAAAAATATTTTT
21864344 TTTTTGGAAT
Statistics
Matches: 239, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
234 40 0.17
235 175 0.73
236 6 0.03
237 4 0.02
238 9 0.04
239 2 0.01
240 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (234 bp):
TTTGTACAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTCTGAAACTTTAATTTCA
AAAAAAATTGATACTTTCAAATTTTCCTAAAAAAAAACCTTTTTTTAAAAAATTATTTTCAAAAA
AAATTGATACTTTCAACTTTCACTCGAAAATATTTTTTAGAAAACTTATTTTCAAGAAAAATTAA
TACTTTAGATATAATCAAAATATTTTCAAAACACATTCA
Found at i:21864373 original size:5 final size:5
Alignment explanation
Indices: 21864365--21864425 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
21864355 TTATTTAAAG
* * *
21864365 AAAAT AAAAT AAAAAT AAAAAT AAAGGT AAAAAT AGAAT GAAAT AAAAT
1 AAAAT AAAAT -AAAAT -AAAAT AAA-AT -AAAAT AAAAT AAAAT AAAAT
21864414 AAAAT AAAAT AA
1 AAAAT AAAAT AA
21864426 GAAATATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
5 31 0.66
6 13 0.28
7 3 0.06
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:21865258 original size:13 final size:13
Alignment explanation
Indices: 21865220--21865374 Score: 72
Period size: 14 Copynumber: 11.7 Consensus size: 13
21865210 GAATAAGAAG
*
21865220 AAATAAAAATAA-
1 AAATAATAATAAT
*
21865232 AAATAAAAATAAT
1 AAATAATAATAAT
21865245 ATAATAGATAAATAAT
1 A-AATA-AT-AATAAT
21865261 -AATAATAATAGAT
1 AAATAATAATA-AT
*
21865274 AAATAGTAATAA-
1 AAATAATAATAAT
*
21865286 AAATAAATAAGAA-
1 AAAT-AATAATAAT
21865299 AAA-AAT-ATAAT
1 AAATAATAATAAT
* **
21865310 ATATGTTAATAAAT
1 AAATAATAAT-AAT
21865324 AAATAA-ATATATAT
1 AAATAATA-ATA-AT
** *
21865338 GTATATTAATAAAT
1 AAATAATAAT-AAT
*
21865352 AATATAGTAATAAT
1 AA-ATAATAATAAT
21865366 AAATAATAA
1 AAATAATAA
21865375 AAATTTAGAG
Statistics
Matches: 109, Mismatches: 18, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
10 3 0.03
11 5 0.05
12 21 0.19
13 25 0.23
14 39 0.36
15 10 0.09
16 6 0.06
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:21865259 original size:16 final size:15
Alignment explanation
Indices: 21865221--21865378 Score: 81
Period size: 13 Copynumber: 10.7 Consensus size: 15
21865211 AATAAGAAGA
21865221 AATAA-AAATAA-A-
1 AATAATAAATAATAT
21865233 AATAA-AAATAATAT
1 AATAATAAATAATAT
21865247 AATAGATAAATAATAAT
1 AATA-ATAAATAAT-AT
*
21865264 AATAATAGATAAATAGT
1 AATAATAAAT-AATA-T
21865281 AATAA-AAATAA-AT
1 AATAATAAATAATAT
*
21865294 AAGAA-AAA-AATAT
1 AATAATAAATAATAT
**
21865307 AAT-ATATGTTAATA-
1 AATAATA-AATAATAT
21865321 AATAAATAAATATATATGT
1 AAT-AATAAATA-ATA--T
21865340 ATATTAATAAATAATAT
1 A-A-TAATAAATAATAT
*
21865357 AGTAAT-AATAA-AT
1 AATAATAAATAATAT
21865370 AATAA-AAAT
1 AATAATAAAT
21865379 TTAGAGAAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 39
0.70 0.06 0.24
Matches are distributed among these distances:
12 14 0.12
13 23 0.20
14 13 0.11
15 13 0.11
16 22 0.19
17 17 0.15
19 4 0.03
20 9 0.08
21 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (15 bp):
AATAATAAATAATAT
Found at i:21865261 original size:3 final size:3
Alignment explanation
Indices: 21865221--21865291 Score: 54
Period size: 3 Copynumber: 22.7 Consensus size: 3
21865211 AATAAGAAGA
* * *
21865221 AAT AAA AAT AAA AAT AAA AAT AAT -AT AAT AGAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT
* *
21865267 AAT AGAT AAAT AGT AAT AAA AAT AA
1 AAT A-AT -AAT AAT AAT AAT AAT AA
21865292 ATAAGAAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
2 2 0.04
3 41 0.77
4 8 0.15
5 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:21865268 original size:20 final size:20
Alignment explanation
Indices: 21865221--21865295 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
21865211 AATAAGAAGA
*
21865221 AATAAAAATAA-AAATAAA-
1 AATAATAATAATAAATAAAT
*
21865239 AATAAT-ATAATAGATAAAT
1 AATAATAATAATAAATAAAT
*
21865258 AATAATAATAATAGATAAAT
1 AATAATAATAATAAATAAAT
* *
21865278 AGTAATAAAAATAAATAA
1 AATAATAATAATAAATAA
21865296 GAAAAAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
17 4 0.08
18 11 0.22
19 6 0.12
20 28 0.57
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (20 bp):
AATAATAATAATAAATAAAT
Found at i:21865348 original size:24 final size:23
Alignment explanation
Indices: 21865308--21865357 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
21865298 AAAAAATATA
21865308 ATATATGTTAATAAATAAATAAAT
1 ATATATGTTAATAAATAAAT-AAT
*
21865332 ATATATG-TATATTAATAAATAAT
1 ATATATGTTA-ATAAATAAATAAT
21865355 ATA
1 ATA
21865358 GTAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
ATATATGTTAATAAATAAATAAT
Found at i:21865370 original size:15 final size:15
Alignment explanation
Indices: 21865238--21865364 Score: 57
Period size: 16 Copynumber: 8.1 Consensus size: 15
21865228 ATAAAAATAA
*
21865238 AAATAATATAATAGAT
1 AAATAATATAGTA-AT
*
21865254 AAATAATAATAATAAT
1 AAATAAT-ATAGTAAT
*
21865270 AGATAA-ATAGTAAT
1 AAATAATATAGTAAT
* *
21865284 AAA-AATAAATAAGAAAAA
1 AAATAAT--AT-AG-TAAT
21865302 AATATAATATATGTTAAT
1 AA-ATAATATA-G-TAAT
21865320 AAATAA-ATA--AAT
1 AAATAATATAGTAAT
* * *
21865332 ATATATGTATATTAAT
1 AAATA-ATATAGTAAT
21865348 AAATAATATAGTAAT
1 AAATAATATAGTAAT
21865363 AA
1 AA
21865365 TAAATAATAA
Statistics
Matches: 85, Mismatches: 13, Indels: 27
0.68 0.10 0.22
Matches are distributed among these distances:
12 7 0.08
13 2 0.02
14 12 0.14
15 10 0.12
16 26 0.31
17 13 0.15
18 11 0.13
19 1 0.01
20 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
AAATAATATAGTAAT
Found at i:21865651 original size:45 final size:44
Alignment explanation
Indices: 21865581--21865889 Score: 327
Period size: 45 Copynumber: 7.0 Consensus size: 44
21865571 AAAATTTGAT
** *
21865581 CAAAGCTCCTCTAAGCAGAATCTCAATGACTTTGAAAAACATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAA-ATAAA
* * * *
21865626 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGGAAGAATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAA
** * * *
21865670 TGGAGGCTTCTCTAAGCAGAGGCTCAATGACTTTGAAAAAATAAA
1 -CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAA
* ** * *
21865715 -TAA-CTCCTCTAAATAGAGGCTCAAC-AATTTCAGAAAAATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGA-AAAAATAAA
* *
21865757 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAAATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAA
* * *
21865801 TAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTTAAAAAGATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAA-ATAAA
* * * *
21865846 CAAAGCTCCTCTAAACAAAGGCTTAACGACTTTTAAAAAATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAA
21865890 AGGCTTTTCT
Statistics
Matches: 219, Mismatches: 39, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
41 5 0.02
42 27 0.12
43 3 0.01
44 74 0.34
45 110 0.50
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.22
Consensus pattern (44 bp):
CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAA
Found at i:21865976 original size:175 final size:175
Alignment explanation
Indices: 21865581--21865981 Score: 427
Period size: 175 Copynumber: 2.3 Consensus size: 175
21865571 AAAATTTGAT
* * * * * *
21865581 CAAAGCTCCTCTAAGCAGAATCTCAATGACTTTGAAAAACATAAACAAAGCTCCTCTAATCAGAG
1 CAAAGCTCCTCTAAACAGAAGCTCAACGACTTT-AAAAAAATAAATAAAGCTCCTCTAAGCAGAG
* * ** * * * * *
21865646 GCTCAACAACTTTGGAAGAATAAATGGAGGCTTCTCTAAGCAGAGGCTCAATGACTTTGAAAAAA
65 GCTCAACAACTTTGAAAAAATAAATCAAAGCTCCTCTAAACAAAGGCTCAACGACTTTGAAAAAA
21865711 TAAATAACTCCTCTAAATAGAGGCTCAACAATTTCAGAAAAATAAA
130 TAAATAACTCCTCTAAATAGAGGCTCAACAATTTCAGAAAAATAAA
* **
21865757 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAAATAAATAAAGCTCCTCTAAGCAGAGG
1 CAAAGCTCCTCTAAACAGAAGCTCAACGACTTTAAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
** * * *
21865822 CTCAATGACTTTTAAAAAGATAAA-CAAAGCTCCTCTAAACAAAGGCTTAACGACTTTTAAAAAA
66 CTCAACAACTTTGAAAAA-ATAAATCAAAGCTCCTCTAAACAAAGGCTCAACGACTTTGAAAAAA
* ** * *
21865886 TAAA-AGGCTTTTCTAATTAGAGGCTCAACAACTTT-AGAAAAGT-AA
130 TAAATA-ACTCCTCTAAATAGAGGCTCAACAA-TTTCAGAAAAATAAA
**
21865931 C-TTGCTCCTCTAAACAGAAGCATC-ACGACTTTAAAAAAAAATAAATAAAGC
1 CAAAGCTCCTCTAAACAGAAGC-TCAACGACTTT--AAAAAAATAAATAAAGC
21865982 CCCTTGACGA
Statistics
Matches: 186, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
173 25 0.13
174 6 0.03
175 118 0.63
176 37 0.20
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (175 bp):
CAAAGCTCCTCTAAACAGAAGCTCAACGACTTTAAAAAAATAAATAAAGCTCCTCTAAGCAGAGG
CTCAACAACTTTGAAAAAATAAATCAAAGCTCCTCTAAACAAAGGCTCAACGACTTTGAAAAAAT
AAATAACTCCTCTAAATAGAGGCTCAACAATTTCAGAAAAATAAA
Found at i:21867018 original size:10 final size:10
Alignment explanation
Indices: 21867003--21867034 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
21866993 CATTCACTTT
21867003 TTTTTGTTTA
1 TTTTTGTTTA
21867013 TTTTTGTTTA
1 TTTTTGTTTA
21867023 TTTTT-TTTA
1 TTTTTGTTTA
21867032 TTT
1 TTT
21867035 AAGCATAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.84
Consensus pattern (10 bp):
TTTTTGTTTA
Found at i:21877961 original size:59 final size:58
Alignment explanation
Indices: 21877500--21877950 Score: 550
Period size: 58 Copynumber: 7.7 Consensus size: 58
21877490 TTGTATAAAG
* * *
21877500 AAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTCT-G-AAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TAGAAAAC-TTATTTTCAAGA
* * * * *
21877557 AAAATTGATACTTTCAAATTTTCCTAAAAAAAAACCTTTTTTCAGAAAA-TTATTTTAAAAA
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATA--TTTTTT-AGAAAACTTATTTTCAAGA
* *
21877618 AAAATTGATACTTTCAACTTCTCATCAAAAATATTTTTTAGAAAACTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGA
* *
21877676 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTAGAAAACTTATTTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGA
* * * * *
21877734 AAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTAGAAAACTTCTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGA
* *
21877792 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTCGAAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAAACTTATTTTCAAGA
* * ** *
21877851 AAAATTGATACTTTCAACTTTTCCTTAAAAATAATTTTTTTTGAAATTTTATTCTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-A-TTTTTTAGAAAACTTATTTTCAAGA
**
21877911 AAAATTGATACTTTCAACTTTTCCTTTAAAATACTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTT
21877951 TGGAATTTTA
Statistics
Matches: 345, Mismatches: 38, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
57 29 0.08
58 160 0.46
59 58 0.17
60 52 0.15
61 42 0.12
62 1 0.00
63 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGA
Found at i:21877972 original size:5 final size:5
Alignment explanation
Indices: 21877962--21878039 Score: 75
Period size: 5 Copynumber: 14.6 Consensus size: 5
21877952 GGAATTTTAT
*
21877962 AAATA AAATA AAATA AAATAA AAATAA AAATAA AAATA AAGGTAA AAATA
1 AAATA AAATA AAATA AAAT-A AAAT-A AAAT-A AAATA AA-AT-A AAATA
* * *
21878012 GAATG AAATA AAACA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
21878040 AATACTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
5 40 0.65
6 19 0.31
7 3 0.05
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:21877987 original size:6 final size:6
Alignment explanation
Indices: 21877962--21878011 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
21877952 GGAATTTTAT
**
21877962 AAAT-A AAAT-A AAAT-A AAATAA AAATAA AAATAA AAATAA AGGTAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
21878007 AAATA
1 AAATA
21878012 GAATGAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
5 14 0.35
6 26 0.65
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:21878048 original size:15 final size:15
Alignment explanation
Indices: 21877962--21878039 Score: 59
Period size: 17 Copynumber: 4.9 Consensus size: 15
21877952 GGAATTTTAT
*
21877962 AAATAAAATAAAATA
1 AAATAAAATAAAACA
*
21877977 AAATAAAAATAAAAATAA
1 AAAT-AAAAT-AAAA-CA
*
21877995 AAATAAAGGTAAAA-A
1 AAATAAA-ATAAAACA
*
21878010 TAGAATGAAATAAAACA
1 -A-AATAAAATAAAACA
21878027 AAATAAAATAAAA
1 AAATAAAATAAAA
21878040 AATACTAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
15 16 0.31
16 12 0.24
17 17 0.33
18 6 0.12
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (15 bp):
AAATAAAATAAAACA
Found at i:21878083 original size:3 final size:3
Alignment explanation
Indices: 21878069--21878113 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
21878059 CTAATCAACA
* *
21878069 AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AATT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AA
21878114 ATGAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21878943 original size:6 final size:6
Alignment explanation
Indices: 21878934--21879002 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
21878924 AAAAAAAAGA
* * * *
21878934 AAAAAT AAAAAT AAAAAT -AATAT AAAAA- ATAAAT AATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
**
21878980 AGATAAAT AGTAAT AAAAAT AAA
1 A-A-AAAT AAAAAT AAAAAT AAA
21879003 TAAGAAAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
5 8 0.16
6 36 0.73
7 1 0.02
8 4 0.08
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:21878961 original size:25 final size:25
Alignment explanation
Indices: 21878933--21879021 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 25
21878923 GAAAAAAAAG
21878933 AAAAAATAAA-AATAAAAATAATAT
1 AAAAAATAAATAATAAAAATAATAT
*
21878957 AAAAAATAAATAATAATAATAATA-
1 AAAAAATAAATAATAAAAATAATAT
* * *
21878981 GATAAAT-AGTAATAAAAATAA-AT
1 AAAAAATAAATAATAAAAATAATAT
21879004 AAGAAAATATATATAATA
1 AA-AAAATA-A-ATAATA
21879022 TATGTTAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
22 1 0.02
23 13 0.25
24 19 0.37
25 12 0.24
26 1 0.02
27 5 0.10
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (25 bp):
AAAAAATAAATAATAAAAATAATAT
Found at i:21878985 original size:20 final size:20
Alignment explanation
Indices: 21878937--21879005 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
21878927 AAAAAGAAAA
21878937 AATAA-AAATAAA-AATAAT
1 AATAATAAATAAATAATAAT
*
21878955 -ATAAAAAATAAATAATAAT
1 AATAATAAATAAATAATAAT
* *
21878974 AATAATAGATAAATAGTAAT
1 AATAATAAATAAATAATAAT
*
21878994 AAAAATAAATAA
1 AATAATAAATAA
21879006 GAAAATATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
17 4 0.09
18 7 0.16
19 6 0.14
20 26 0.60
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AATAATAAATAAATAATAAT
Found at i:21879035 original size:31 final size:28
Alignment explanation
Indices: 21878997--21879064 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 28
21878987 TAGTAATAAA
21878997 AATAAATAAGA-AAATATATATAATATATGTT
1 AATAAATAA-ACAAATATATAT-ATATA--TT
*
21879028 AATAAATAAACAAATATATATGTATATT
1 AATAAATAAACAAATATATATATATATT
21879056 AATAAATAA
1 AATAAATAA
21879065 TAATAGTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 11 0.31
30 5 0.14
31 19 0.54
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (28 bp):
AATAAATAAACAAATATATATATATATT
Found at i:21879113 original size:13 final size:13
Alignment explanation
Indices: 21879075--21879122 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
21879065 TAATAGTAAT
21879075 AATAAATAATAAAA
1 AATAAA-AATAAAA
* * *
21879089 ATTTAGAA-AAAA
1 AATAAAAATAAAA
21879101 AATAAAAATAAAA
1 AATAAAAATAAAA
21879114 AATAAAAAT
1 AATAAAAAT
21879123 GGGCCTATCC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 9 0.33
13 15 0.56
14 3 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:21879120 original size:19 final size:20
Alignment explanation
Indices: 21879075--21879122 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
21879065 TAATAGTAAT
* *
21879075 AATAAATAATAAAAATTTAGA
1 AATAAA-AATAAAAATTAAAA
21879096 AA-AAAAATAAAAA-TAAAA
1 AATAAAAATAAAAATTAAAA
21879114 AATAAAAAT
1 AATAAAAAT
21879123 GGGCCTATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 5 0.21
19 14 0.58
20 3 0.12
21 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
AATAAAAATAAAAATTAAAA
Found at i:21884628 original size:24 final size:21
Alignment explanation
Indices: 21884588--21884633 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 21
21884578 TTTTATAAAT
21884588 ATGTATTTTTTTAAAATATAA
1 ATGTATTTTTTTAAAATATAA
*
21884609 ATGTATTAGTTTTTATAAATTTAA
1 ATGTATT--TTTTTA-AAATATAA
21884633 A
1 A
21884634 ATAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
23 6 0.29
24 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (21 bp):
ATGTATTTTTTTAAAATATAA
Found at i:21884635 original size:25 final size:22
Alignment explanation
Indices: 21884581--21884635 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
21884571 AAATAATTTT
21884581 TATAAATATGTATTTTTTTAAAA
1 TATAAA-ATGTATTTTTTTAAAA
21884604 TAT-AAATGTATTAGTTTTTATAAA
1 TATAAAATGTATT--TTTTTA-AAA
*
21884628 TTTAAAAT
1 TATAAAAT
21884636 AAAACTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.26
22 2 0.07
23 9 0.33
24 5 0.19
25 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
TATAAAATGTATTTTTTTAAAA
Found at i:21884656 original size:19 final size:19
Alignment explanation
Indices: 21884632--21884674 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
21884622 TATAAATTTA
*
21884632 AAATAAAACTT-ATATTATT
1 AAATAAAAATTAATA-TATT
21884651 AAATAAAAATTAATATATT
1 AAATAAAAATTAATATATT
21884670 AAATA
1 AAATA
21884675 CATAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATAAAAATTAATATATT
Found at i:21884690 original size:22 final size:19
Alignment explanation
Indices: 21884632--21884690 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
21884622 TATAAATTTA
* *
21884632 AAATAAAACTTATATTATT
1 AAATAAAAATTATAATATT
21884651 AAATAAAAATTA-ATATATT
1 AAATAAAAATTATA-ATATT
21884670 AAATACATAAATATATAATAT
1 AAATA-A-AAAT-TATAATAT
21884691 ATGTACGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 1 0.03
19 20 0.61
20 1 0.03
21 4 0.12
22 6 0.18
23 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATAAAAATTATAATATT
Found at i:21885494 original size:13 final size:13
Alignment explanation
Indices: 21885476--21885502 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21885466 TAAAATATTT
21885476 AATTTTTTATTAA
1 AATTTTTTATTAA
21885489 AATTTTTTATTAA
1 AATTTTTTATTAA
21885502 A
1 A
21885503 TGATTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATTTTTTATTAA
Found at i:21888639 original size:19 final size:19
Alignment explanation
Indices: 21888617--21888655 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
21888607 AATAAAAAAT
21888617 AAAAAAT-AAAAAATTACA
1 AAAAAATGAAAAAATTACA
*
21888635 AAAAAATGAAAAAATTCCA
1 AAAAAATGAAAAAATTACA
21888654 AA
1 AA
21888656 TATTTAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (19 bp):
AAAAAATGAAAAAATTACA
Found at i:21888649 original size:8 final size:7
Alignment explanation
Indices: 21888605--21888630 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21888595 AAGTTCTAGG
21888605 AAAATAA
1 AAAATAA
21888612 AAAATAA
1 AAAATAA
21888619 AAAATAA
1 AAAATAA
21888626 AAAAT
1 AAAAT
21888631 TACAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:21888743 original size:17 final size:16
Alignment explanation
Indices: 21888721--21888768 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
21888711 ATAAATTATT
*
21888721 AAATTATAAAATAGTAA
1 AAATTATAAAAAAG-AA
*
21888738 AAATTAAAAAAAAAGAA
1 AAATT-ATAAAAAAGAA
21888755 AAATTATTAAAAAA
1 AAATTA-TAAAAAA
21888769 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 18 0.69
18 7 0.27
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (16 bp):
AAATTATAAAAAAGAA
Found at i:21889020 original size:15 final size:15
Alignment explanation
Indices: 21888996--21889025 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21888986 AATTTCTTGG
21888996 ATTTTATATATTTTA
1 ATTTTATATATTTTA
*
21889011 ATTTTTTATATTTTA
1 ATTTTATATATTTTA
21889026 TAAAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTATATATTTTA
Found at i:21889079 original size:36 final size:36
Alignment explanation
Indices: 21889006--21889076 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
21888996 ATTTTATATA
*
21889006 TTTTAATTTTTTATATTTTATAAAAATTTTGGAAAT
1 TTTTAATTTTTTATATTTTATAAAAATTTTAGAAAT
* * * *
21889042 TTTTTATTTTTTTTATTTTCTAGAAATTTTTAGAA
1 TTTTAATTTTTTATATTTTATA-AAAATTTTAGAA
21889077 TTTATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 19 0.66
37 10 0.34
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (36 bp):
TTTTAATTTTTTATATTTTATAAAAATTTTAGAAAT
Found at i:21889103 original size:24 final size:24
Alignment explanation
Indices: 21889053--21889108 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
21889043 TTTTATTTTT
* * *
21889053 TTTATTTTCTAGAAATTTTTAGAA
1 TTTATTTTTTAGAAATTTTAAAAA
21889077 TTTATTTTTTA-AAATTTTAAAATA
1 TTTATTTTTTAGAAATTTTAAAA-A
21889101 TTT-TTTTT
1 TTTATTTTT
21889109 AAATAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTATTTTTTAGAAATTTTAAAAA
Found at i:21889348 original size:80 final size:78
Alignment explanation
Indices: 21889210--21889358 Score: 176
Period size: 79 Copynumber: 1.9 Consensus size: 78
21889200 AATTCTACTA
* * *** *
21889210 TTTTTTAGTTTTTCAAATTTTATTTTTGAATTTTTTGGAATGTTTAAAAAATGGTTAGATTTCTT
1 TTTTTTAATTTTTCAAATTTTATATTTGAATTTTTCAAAATGTTTAAAAAATGGTTAGATCT-TT
21889275 TTAAAATTTTTTGT
65 TTAAAATTTTTTGT
* *
21889289 TTTTTTAATTTTTCAAAATTTTATAATTTGTAATTTTTCAAAAT-TTTAAAATAT-TTTAGATCT
1 TTTTTTAATTTTTC-AAATTTTAT-ATTTG-AATTTTTCAAAATGTTTAAAAAATGGTTAGATCT
21889352 TTTTAAA
63 TTTTAAA
21889359 TTAAGTAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
79 20 0.34
80 16 0.27
81 13 0.22
82 10 0.17
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.58
Consensus pattern (78 bp):
TTTTTTAATTTTTCAAATTTTATATTTGAATTTTTCAAAATGTTTAAAAAATGGTTAGATCTTTT
TAAAATTTTTTGT
Found at i:21889392 original size:25 final size:25
Alignment explanation
Indices: 21889289--21889398 Score: 89
Period size: 25 Copynumber: 4.2 Consensus size: 25
21889279 AATTTTTTGT
*
21889289 TTTTTTAATTTTTCAAAATTTTATA
1 TTTTTTAATTTTTCAAAATTTAATA
* * *
21889314 ATTTGTAATTTTTCAAAATTTTAAAA
1 TTTTTTAATTTTTCAAAA-TTTAATA
* *
21889340 TATTTTAGATCTTTT-TAAATTAAGTAATA
1 TTTTTTA-AT-TTTTCAAAATT---TAATA
*
21889369 TTTTTTAATTTTTTAAAATTTAAT-
1 TTTTTTAATTTTTCAAAATTTAATA
21889393 TTTTTT
1 TTTTTT
21889399 CGAATGTTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
24 6 0.09
25 20 0.30
26 11 0.16
27 9 0.13
28 11 0.16
29 10 0.15
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTTTTAATTTTTCAAAATTTAATA
Found at i:21892314 original size:78 final size:78
Alignment explanation
Indices: 21892185--21892383 Score: 335
Period size: 78 Copynumber: 2.6 Consensus size: 78
21892175 AAAAAACCCT
* * *
21892185 TGAATTTCAGTTTTTTTTTTAATTGATAATTAATATTAATAGTTGTTGTGAGTTGAAATCATACT
1 TGAATTTCAGCTTTTTTTTTAATTGATAATTAATATTAACAGTTCTTGTGAGTTGAAATCATACT
21892250 TCTCTTTCATGTG
66 TCTCTTTCATGTG
* * *
21892263 TGAATTTCAGCTTTTTTTTTAATTGATAATTAATACTAACAGTTCTTGTGAGTTGGAATCGTACT
1 TGAATTTCAGCTTTTTTTTTAATTGATAATTAATATTAACAGTTCTTGTGAGTTGAAATCATACT
*
21892328 TCTCTTTCCTGTG
66 TCTCTTTCATGTG
21892341 TGAATTTCAGCTTTTTTTTTAATTGATAATTAATATTAACAGT
1 TGAATTTCAGCTTTTTTTTTAATTGATAATTAATATTAACAGT
21892384 GATATTCATA
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 113 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.50
Consensus pattern (78 bp):
TGAATTTCAGCTTTTTTTTTAATTGATAATTAATATTAACAGTTCTTGTGAGTTGAAATCATACT
TCTCTTTCATGTG
Found at i:21896198 original size:14 final size:14
Alignment explanation
Indices: 21896179--21896205 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21896169 AATAACTCAA
21896179 TATATTCAACCAAT
1 TATATTCAACCAAT
21896193 TATATTCAACCAA
1 TATATTCAACCAA
21896206 GAAAGCAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
TATATTCAACCAAT
Found at i:21898875 original size:21 final size:21
Alignment explanation
Indices: 21898851--21898893 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21898841 CAGACGATGC
21898851 ACTAGCATTGCCTCCACTGCT
1 ACTAGCATTGCCTCCACTGCT
* *
21898872 ACTAGCATTGCTTCCGCTGCT
1 ACTAGCATTGCCTCCACTGCT
21898893 A
1 A
21898894 TTCTCACTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.16, T:0.30
Consensus pattern (21 bp):
ACTAGCATTGCCTCCACTGCT
Found at i:21899980 original size:11 final size:11
Alignment explanation
Indices: 21899962--21900012 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
21899952 AAAAATAGTG
21899962 AAAA-AAAGAA
1 AAAAGAAAGAA
21899972 AAAAGAAAGAAA
1 AAAAGAAAG-AA
21899984 AAAAGAAAGAA
1 AAAAGAAAGAA
*
21899995 AAAAGAAAAAA
1 AAAAGAAAGAA
21900006 AAAAGAA
1 AAAAGAA
21900013 GTAAATAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
10 4 0.11
11 23 0.61
12 11 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:21899983 original size:19 final size:19
Alignment explanation
Indices: 21899961--21900012 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
21899951 GAAAAATAGT
21899961 GAAAAAAAGAAA-AAAGAAA
1 GAAAAAAAGAAAGAAA-AAA
21899980 GAAAAAAAGAAAGAAAAAA
1 GAAAAAAAGAAAGAAAAAA
21899999 GAAAAAAA-AAAGAA
1 GAAAAAAAGAAAGAA
21900013 GTAAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.19
19 23 0.72
20 3 0.09
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
GAAAAAAAGAAAGAAAAAA
Found at i:21899992 original size:23 final size:22
Alignment explanation
Indices: 21899962--21900012 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
21899952 AAAAATAGTG
21899962 AAAA-AAAGAAAAAAGAAAGAAA
1 AAAAGAAAGAAAAAAGAAA-AAA
21899984 AAAAGAAAGAAAAAAGAAAAAA
1 AAAAGAAAGAAAAAAGAAAAAA
21900006 AAAAGAA
1 AAAAGAA
21900013 GTAAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAGAAAGAAAAAAGAAAAAA
Found at i:21902667 original size:18 final size:19
Alignment explanation
Indices: 21902631--21902669 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
21902621 AATTTTTTTG
21902631 TAATTAATACTTTATTTAT
1 TAATTAATACTTTATTTAT
21902650 TAATT-ATA-TTTCATTTAT
1 TAATTAATACTTT-ATTTAT
21902668 TA
1 TA
21902670 CATAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 11 0.58
19 5 0.26
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATTAATACTTTATTTAT
Found at i:21916187 original size:20 final size:22
Alignment explanation
Indices: 21916152--21916191 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
21916142 TCTTTTCTTG
21916152 TTTTATATATTTTGTTTATTGT
1 TTTTATATATTTTGTTTATTGT
21916174 TTTTAT-TA-TTTGTTTATT
1 TTTTATATATTTTGTTTATT
21916192 ATTCTGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (22 bp):
TTTTATATATTTTGTTTATTGT
Found at i:21917674 original size:10 final size:10
Alignment explanation
Indices: 21917657--21917689 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
21917647 TTATCTTACT
21917657 TATAAATATA
1 TATAAATATA
21917667 -AGTAAATATA
1 TA-TAAATATA
21917677 TATAAATATA
1 TATAAATATA
21917687 TAT
1 TAT
21917690 GCAAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.05
10 19 0.90
11 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
TATAAATATA
Found at i:21927090 original size:14 final size:15
Alignment explanation
Indices: 21927068--21927125 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 15
21927058 GATAGGCCCA
*
21927068 TTTTGTTTTTGT-TT
1 TTTTATTTTTGTATT
21927082 TTTTA-TTTTGTATT
1 TTTTATTTTTGTATT
* *
21927096 TTATATTTTATATATT
1 TTTTATTTT-TGTATT
21927112 TTTT-TTCTTTGTAT
1 TTTTATT-TTTGTAT
21927126 CTTATGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 6 0.17
14 10 0.29
15 9 0.26
16 10 0.29
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.78
Consensus pattern (15 bp):
TTTTATTTTTGTATT
Found at i:21927147 original size:4 final size:4
Alignment explanation
Indices: 21927138--21927243 Score: 78
Period size: 4 Copynumber: 27.2 Consensus size: 4
21927128 TATGTATTAC
* *
21927138 TTAT TTAT TTAT TTAT TTA- TTAT TACTAT TTAT TTTT TTA- ATAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT TTAT TTAT TTAT TTAT
* * * * *
21927186 ATAT ATAT TT-T TTAT TTAT CTAG TTAT ATAT TTA- TTA- TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* *
21927231 CTAT TTAT CTAT T
1 TTAT TTAT TTAT T
21927244 ATAAGTTATC
Statistics
Matches: 80, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
3 14 0.17
4 62 0.77
6 4 0.05
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:21927226 original size:26 final size:27
Alignment explanation
Indices: 21927182--21927243 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
21927172 TTTTTAATAT
* *
21927182 TTATATATATATTTTTTATTTATCTAG
1 TTATATATTTATTTATTATTTATCTAG
*
21927209 TTATATATTTA-TTATTATTTATCTAT
1 TTATATATTTATTTATTATTTATCTAG
*
21927235 TTATCTATT
1 TTATATATT
21927244 ATAAGTTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (27 bp):
TTATATATTTATTTATTATTTATCTAG
Found at i:21927235 original size:14 final size:15
Alignment explanation
Indices: 21927197--21927264 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 15
21927187 TATATATTTT
21927197 TTATTTATCTAGTTA
1 TTATTTATCTAGTTA
* *
21927212 TATATTTATTATTATTTA
1 T-TATTTA-T-CTAGTTA
21927230 TCTATTTATCTA-TTA
1 T-TATTTATCTAGTTA
* *
21927245 TAAGTTATCTA-TTA
1 TTATTTATCTAGTTA
21927259 TTATTT
1 TTATTT
21927265 TTATATGTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
14 15 0.36
15 5 0.12
16 8 0.19
17 2 0.05
18 12 0.29
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (15 bp):
TTATTTATCTAGTTA
Found at i:21927252 original size:26 final size:26
Alignment explanation
Indices: 21927179--21927260 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
21927169 ATTTTTTTAA
* **
21927179 TATTTATATATATATTTTTTATTTATC
1 TATTTATATATTTA-TAATTATTTATC
* *
21927206 TAGTTATATATTTATTATTATTTATC
1 TATTTATATATTTATAATTATTTATC
* *
21927232 TATTTATCTA-TTATAAGTTATCTAT-
1 TATTTATATATTTATAA-TTATTTATC
21927257 TATT
1 TATT
21927261 ATTTTTATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 9 0.19
26 26 0.55
27 12 0.26
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTTATATATTTATAATTATTTATC
Found at i:21927274 original size:23 final size:22
Alignment explanation
Indices: 21927167--21927270 Score: 76
Period size: 22 Copynumber: 4.7 Consensus size: 22
21927157 TTATTACTAT
*
21927167 TTATT-TTTTTAATATTTATATA
1 TTATTATTTTT-ATATTTATCTA
21927189 -TA-TATTTTT-TATTTATCTA
1 TTATTATTTTTATATTTATCTA
21927208 GTTATATATTTATTATTATTTATCTA
1 -TTAT-TATTT-TTA-TATTTATCTA
* *
21927234 -T-TTATCTATTATAAGTTATCTA
1 TTATTAT-TTTTAT-ATTTATCTA
21927256 TTATTATTTTTATAT
1 TTATTATTTTTATAT
21927271 GTTAATATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 24
0.69 0.05 0.26
Matches are distributed among these distances:
19 9 0.14
20 1 0.02
21 10 0.15
22 15 0.23
23 13 0.20
24 7 0.11
26 10 0.15
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATTATTTTTATATTTATCTA
Found at i:21927341 original size:15 final size:14
Alignment explanation
Indices: 21927321--21927352 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
21927311 TCTATTAATA
21927321 TTTTTTTTCTTTCTT
1 TTTTTTTTCTTT-TT
21927336 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
21927350 TTT
1 TTT
21927353 GTCTAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTTTTCTTTTT
Found at i:21927351 original size:11 final size:11
Alignment explanation
Indices: 21927322--21927352 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
21927312 CTATTAATAT
21927322 TTTTTTTCTTTC
1 TTTTTTT-TTTC
21927334 TTTTTTTTTTC
1 TTTTTTTTTTC
21927345 TTTTTTTT
1 TTTTTTTT
21927353 GTCTAAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:21928195 original size:10 final size:10
Alignment explanation
Indices: 21928182--21928298 Score: 53
Period size: 10 Copynumber: 11.3 Consensus size: 10
21928172 TTTTTTTCAT
21928182 TTTTTTATTA
1 TTTTTTATTA
21928192 TTTTATT-TTA
1 TTTT-TTATTA
*
21928202 TTTATTATTA
1 TTTTTTATTA
*
21928212 TTATTTATTGA
1 TTTTTTATT-A
* *
21928223 TTTAATTA-GA
1 TTT-TTTATTA
*
21928233 TTTGTTTAATA
1 TTT-TTTATTA
* *
21928244 CTTTTTATTT
1 TTTTTTATTA
21928254 TTATTTTATT-
1 TT-TTTTATTA
* *
21928264 TTCCTTTATTT
1 TT-TTTTATTA
21928275 TTATTTTATTA
1 TT-TTTTATTA
21928286 TTTTATT-TTA
1 TTTT-TTATTA
21928296 TTT
1 TTT
21928299 AAATAAAATT
Statistics
Matches: 81, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
9 2 0.02
10 49 0.60
11 27 0.33
12 3 0.04
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:21928200 original size:23 final size:23
Alignment explanation
Indices: 21928186--21928299 Score: 69
Period size: 21 Copynumber: 4.9 Consensus size: 23
21928176 TTTCATTTTT
21928186 TTATTATTTTATTTTATTTATTA
1 TTATTATTTTATTTTATTTATTA
*
21928209 TTATTA-TTTA-TTGATTTAATTA
1 TTATTATTTTATTTTATTT-ATTA
* *
21928231 -GATTTGTTTAATACTTTTTATTT-TTA
1 TTA-TTATTT--TA--TTTTATTTATTA
**
21928257 TT-TTATTTTCCTTTATTT-TTA
1 TTATTATTTTATTTTATTTATTA
21928278 TTTTATTATTTTATTTTATTTA
1 --TTATTATTTTATTTTATTTA
21928300 AATAAAATTC
Statistics
Matches: 68, Mismatches: 10, Indels: 24
0.67 0.10 0.24
Matches are distributed among these distances:
21 17 0.25
22 10 0.15
23 11 0.16
24 14 0.21
25 7 0.10
26 3 0.04
28 6 0.09
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (23 bp):
TTATTATTTTATTTTATTTATTA
Found at i:21928260 original size:5 final size:5
Alignment explanation
Indices: 21928246--21928298 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
21928236 GTTTAATACT
* *
21928246 TTTTA TTTTTA TTTTA TTTTC CTTTA TTTTTA TTTTA --TTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
21928296 TTT
1 TTT
21928299 AAATAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
3 3 0.08
5 28 0.70
6 9 0.22
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:21928464 original size:60 final size:60
Alignment explanation
Indices: 21928310--21928650 Score: 435
Period size: 60 Copynumber: 5.7 Consensus size: 60
21928300 AATAAAATTC
*
21928310 AAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCT
1 AAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTTCT
* * *
21928371 --AAAAAATATTTTTGAGGAAAAGCTAAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTTCT
* *
21928429 AAAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTTTTTAAAAATAA-ATTT-T
1 AAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAA-TTTTTCTTAAAAATAAGCTTTCT
* * *
21928488 CAAAAAAATGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAGCTTTCT
1 AAAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTTCT
* * **
21928550 AAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAA-TTTTCTTTAAAAATAAATTTTC-
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAGCTTTCT
* *
21928609 AAAAAAATAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
21928651 CCTGCACAAA
Statistics
Matches: 245, Mismatches: 23, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
58 49 0.20
59 26 0.11
60 114 0.47
61 46 0.19
62 10 0.04
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (60 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGCTTTCT
Found at i:21928643 original size:120 final size:119
Alignment explanation
Indices: 21928310--21928650 Score: 531
Period size: 121 Copynumber: 2.8 Consensus size: 119
21928300 AATAAAATTC
* * ** *
21928310 AAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTAAAA
1 AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAA
* *
21928375 AAT-ATTTTTGAGGAAAAGCTAAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
65 AATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
* *
21928429 AAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTTTTTAAAAATAAATTTTCAAAAA
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAATTTTCAAAAA
*
21928494 AATGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAGCTTTCT
65 AAT-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
*
21928550 AAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCTTTAAAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAA
*
21928615 ATAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
66 AT-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
21928651 CCTGCACAAA
Statistics
Matches: 204, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
118 28 0.14
119 32 0.16
120 61 0.30
121 83 0.41
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (119 bp):
AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAA
ATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
Found at i:21930860 original size:22 final size:20
Alignment explanation
Indices: 21930822--21930861 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
21930812 ATAGAATAGT
*
21930822 AACAAAATAATAGAAAACCA
1 AACAAAATAATAAAAAACCA
21930842 AACATAAAGTAATAAAAAAC
1 AACA-AAA-TAATAAAAAAC
21930862 TTTAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.70, C:0.12, G:0.05, T:0.12
Consensus pattern (20 bp):
AACAAAATAATAAAAAACCA
Done.