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 85 of 147
Found at i:15702300 original size:5 final size:5
Alignment explanation
Indices: 15702292--15702447 Score: 95
Period size: 5 Copynumber: 29.4 Consensus size: 5
15702282 AAGAAAGAAA
*
15702292 AATAT AATAT AATAT AATAT AATAAT AATAAT AATAAT AATA- AGA-GT
1 AATAT AATAT AATAT AATAT AAT-AT AAT-AT AAT-AT AATAT A-ATAT
* * * *
15702339 AATAT GATAT AATAC CATAT AATAT ACTGAT AATAAT AATAAT AATA-
1 AATAT AATAT AATAT AATAT AATAT AAT-AT AAT-AT AAT-AT AATAT
* * *
15702386 ATATGCT AATGAT ATTAT AATAT AATA- ATATGAT AATAAT ACTAT AATAT
1 A-AT-AT AAT-AT AATAT AATAT AATAT A-AT-AT AAT-AT AATAT AATAT
15702436 AATAT AATAT AA
1 AATAT AATAT AA
15702448 CAAAAATAAT
Statistics
Matches: 122, Mismatches: 18, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
4 4 0.03
5 71 0.58
6 45 0.37
7 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:15702318 original size:3 final size:3
Alignment explanation
Indices: 15702295--15702459 Score: 90
Period size: 3 Copynumber: 59.3 Consensus size: 3
15702285 AAAGAAAAAT
* *
15702295 ATA AT- ATA AT- ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA AGA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
15702340 AT- ATG AT- ATA ATA CCAT- ATA AT- ATA CTG ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
15702383 ATA AT- ATG CTA ATG AT- ATT ATA AT- ATA ATA AT- ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
15702427 CT- ATA AT- ATA AT- ATA AT- ATA ACA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15702460 AACAGGGTCC
Statistics
Matches: 126, Mismatches: 19, Indels: 34
0.70 0.11 0.19
Matches are distributed among these distances:
2 29 0.23
3 95 0.75
5 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:15702372 original size:52 final size:49
Alignment explanation
Indices: 15702300--15702434 Score: 150
Period size: 52 Copynumber: 2.7 Consensus size: 49
15702290 AAAATATAAT
*
15702300 ATAATATAATATAATAATAATAATAATAATAATAAGA-G-TAATATGATATA
1 ATAATATAATAT-ATGATAATAATAATAATAATAAGATGCT-A-ATGATATA
* *
15702350 ATACCATATAATATACTGATAATAATAATAATAATAATATGCTAATGATATT
1 ATA--ATATAATATA-TGATAATAATAATAATAATAAGATGCTAATGATATA
*
15702402 ATAATATAATAATATGATAATAATACT-ATAATA
1 ATAATATAAT-ATATGATAATAATAATAATAATA
15702435 TAATATAATA
Statistics
Matches: 75, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
49 6 0.08
50 22 0.29
51 4 0.05
52 40 0.53
53 2 0.03
54 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.36
Consensus pattern (49 bp):
ATAATATAATATATGATAATAATAATAATAATAAGATGCTAATGATATA
Found at i:15703054 original size:24 final size:23
Alignment explanation
Indices: 15703023--15703126 Score: 86
Period size: 24 Copynumber: 4.4 Consensus size: 23
15703013 TACAGACATG
15703023 ACTATCTATTTTGAATAGACTAAA
1 ACTATCTATTTTGAATAGACT-AA
*
15703047 ACTATCTATTTTTGAATAG-TTGAA
1 ACTATCTA-TTTTGAATAGACT-AA
* *
15703071 ACTAT-TAATTTTAAAATAGACTTA
1 ACTATCT-ATTTT-GAATAGACTAA
* * *
15703095 TCTTTCTATTTTGAATAGACTTA
1 ACTATCTATTTTGAATAGACTAA
*
15703118 ACTTTCTAT
1 ACTATCTAT
15703127 CTTTATTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
23 23 0.35
24 31 0.47
25 12 0.18
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (23 bp):
ACTATCTATTTTGAATAGACTAA
Found at i:15704645 original size:19 final size:19
Alignment explanation
Indices: 15704585--15704656 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 19
15704575 TTGCTTATAT
15704585 AAATTGCTTGTTG-TTGCC
1 AAATTGCTTGTTGATTGCC
15704603 AAATTTGCTTGAAAACTT-ATTGCC
1 AAA-TTGCTTG-----TTGATTGCC
15704627 AAATTGCTTGTTGATTGCC
1 AAATTGCTTGTTGATTGCC
15704646 TAACATTGCTT
1 -AA-ATTGCTT
15704657 ATTACTTGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
18 5 0.11
19 13 0.30
20 2 0.05
21 7 0.16
23 7 0.16
24 10 0.23
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (19 bp):
AAATTGCTTGTTGATTGCC
Found at i:15708817 original size:18 final size:19
Alignment explanation
Indices: 15708776--15708817 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
15708766 ATGATTCTAA
*
15708776 AATTTATATATAAATTATT
1 AATTTATATATAAATTAAT
15708795 AATTTAT-TA-AAATTTAAT
1 AATTTATATATAAA-TTAAT
15708813 AATTT
1 AATTT
15708818 TAAATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 11 0.52
19 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTATATATAAATTAAT
Found at i:15711271 original size:2 final size:2
Alignment explanation
Indices: 15711264--15711306 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
15711254 CGCTTCCAGG
*
15711264 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15711306 T
1 T
15711307 TCAACTTCAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.47, G:0.02, T:0.51
Consensus pattern (2 bp):
TC
Found at i:15711520 original size:16 final size:16
Alignment explanation
Indices: 15711496--15711527 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15711486 AGATCTTGAA
15711496 AACAATATTGGAAAGT
1 AACAATATTGGAAAGT
*
15711512 AACAGTATTGGAAAGT
1 AACAATATTGGAAAGT
15711528 GAAGCTACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (16 bp):
AACAATATTGGAAAGT
Found at i:15715846 original size:5 final size:6
Alignment explanation
Indices: 15715819--15715853 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
15715809 ATTTGGTGAT
* *
15715819 TTTTTC TCTCTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
15715854 ATTTAAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:15717295 original size:29 final size:29
Alignment explanation
Indices: 15717258--15717316 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
15717248 TCTAAAAATG
* *
15717258 AAATGTTTAACATAATATTTAAATTTTAA
1 AAATGTTTAACACAATATTTAAATTATAA
* *
15717287 AAATTTTTAACACGATATTTAAATTATAA
1 AAATGTTTAACACAATATTTAAATTATAA
15717316 A
1 A
15717317 TCTATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATGTTTAACACAATATTTAAATTATAA
Found at i:15723843 original size:17 final size:18
Alignment explanation
Indices: 15723811--15723848 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
15723801 GATTTTATTT
15723811 TTAAAATATTTTAAATATA
1 TTAAAATA-TTTAAATATA
*
15723830 TTAAAATA-TTAAATTTA
1 TTAAAATATTTAAATATA
15723847 TT
1 TT
15723849 TTTTCAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAAATATTTAAATATA
Found at i:15724252 original size:17 final size:18
Alignment explanation
Indices: 15724232--15724266 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15724222 AAAATTTTCA
15724232 AAAAAAACATA-AAAATT
1 AAAAAAACATAGAAAATT
*
15724249 AAAAAAATATAGAAAATT
1 AAAAAAACATAGAAAATT
15724267 TTATGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
AAAAAAACATAGAAAATT
Found at i:15724773 original size:21 final size:21
Alignment explanation
Indices: 15724747--15724812 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
15724737 CATCCATCCA
15724747 AATTATCATGTCAATAAAGTC
1 AATTATCATGTCAATAAAGTC
* *
15724768 AATTATCATATCAACAAAGTC
1 AATTATCATGTCAATAAAGTC
*
15724789 AA-TACTCATGT-AATCAAGTC
1 AATTA-TCATGTCAATAAAGTC
15724809 AATT
1 AATT
15724813 GCTATTTTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 11 0.29
21 27 0.71
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.32
Consensus pattern (21 bp):
AATTATCATGTCAATAAAGTC
Found at i:15725547 original size:13 final size:13
Alignment explanation
Indices: 15725531--15725573 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
15725521 TCACATATAT
15725531 ATAAAAATTTAAA
1 ATAAAAATTTAAA
*
15725544 ATAAAAA-TTATAT
1 ATAAAAATTTA-AA
*
15725557 ATAAAATTTTAAA
1 ATAAAAATTTAAA
15725570 ATAA
1 ATAA
15725574 TTTTTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 3 0.12
13 19 0.76
14 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAAAAATTTAAA
Found at i:15725557 original size:24 final size:24
Alignment explanation
Indices: 15725528--15725588 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
15725518 AATTCACATA
15725528 TATATAAAAATTTAAAATAAAAAT
1 TATATAAAAATTTAAAATAAAAAT
***
15725552 TATATATAAAATTTTAAAATAATTTT
1 TATATA-AAAA-TTTAAAATAAAAAT
15725578 TATATAAAAAT
1 TATATAAAAAT
15725589 AAAAATTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 7 0.22
25 8 0.25
26 17 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TATATAAAAATTTAAAATAAAAAT
Found at i:15731158 original size:6 final size:6
Alignment explanation
Indices: 15731147--15731178 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15731137 TTTTTCTCTC
15731147 TTTTCT TTTTC- TTTTC- TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
15731179 ATTTAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:15731159 original size:11 final size:11
Alignment explanation
Indices: 15731145--15731178 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
15731135 ATTTTTTCTC
15731145 TCTTTTCTTTT
1 TCTTTTCTTTT
15731156 TCTTTTC-TTT
1 TCTTTTCTTTT
15731166 TCTTTTTCTTTT
1 TC-TTTTCTTTT
15731178 T
1 T
15731179 ATTTAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 12 0.57
12 4 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:15731164 original size:16 final size:16
Alignment explanation
Indices: 15731145--15731177 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15731135 ATTTTTTCTC
15731145 TCTTTTCTTTTTCTTT
1 TCTTTTCTTTTTCTTT
15731161 TCTTTTCTTTTTCTTT
1 TCTTTTCTTTTTCTTT
15731177 T
1 T
15731178 TATTTAAATT
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:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TCTTTTCTTTTTCTTT
Found at i:15735578 original size:26 final size:24
Alignment explanation
Indices: 15735519--15735582 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
15735509 AAATTAAAAA
**
15735519 TAATTATTTTTATTTTAAAATAAT
1 TAATTATTTTTATTAAAAAATAAT
*
15735543 TAAATCATTTTATATTAAAAAAATAAT
1 T-AATTATTTT-TATT-AAAAAATAAT
15735570 TAATTATTTTTAT
1 TAATTATTTTTAT
15735583 AATTTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 11 0.33
26 12 0.36
27 9 0.27
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATTATTTTTATTAAAAAATAAT
Found at i:15735580 original size:27 final size:25
Alignment explanation
Indices: 15735519--15735583 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
15735509 AAATTAAAAA
*
15735519 TAATTATTTTTAT-TTTAAAATAAT
1 TAATTATTTTTATATTAAAAATAAT
*
15735543 TAAATCA-TTTTATATTAAAAAAATAAT
1 T-AATTATTTTTATATT--AAAAATAAT
15735570 TAATTATTTTTATA
1 TAATTATTTTTATA
15735584 ATTTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 7 0.21
25 6 0.18
26 4 0.12
27 16 0.48
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATTATTTTTATATTAAAAATAAT
Found at i:15736940 original size:40 final size:41
Alignment explanation
Indices: 15736873--15736951 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 41
15736863 TGTTAATGGA
* * **
15736873 GTTGATGTTTGTGTACAAATAATATGACATGATTAAAATTG
1 GTTGATGTTTGTGAACAAATAACATGACAAAATTAAAATTG
* *
15736914 GTTGGTGTTTG-GAACAAATGACATGACAAAATTAAAAT
1 GTTGATGTTTGTGAACAAATAACATGACAAAATTAAAAT
15736952 ATCTAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
40 22 0.69
41 10 0.31
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.34
Consensus pattern (41 bp):
GTTGATGTTTGTGAACAAATAACATGACAAAATTAAAATTG
Found at i:15739064 original size:19 final size:19
Alignment explanation
Indices: 15739040--15739150 Score: 70
Period size: 18 Copynumber: 5.8 Consensus size: 19
15739030 AAAAGTTAAA
15739040 TTTAATATTTTTTAAATAT
1 TTTAATATTTTTTAAATAT
* *
15739059 TTTAAT-TTTTTTGAATTAGA
1 TTTAATATTTTTT-AAATA-T
*
15739079 TTT--TATTTTTAAAATAT
1 TTTAATATTTTTTAAATAT
*
15739096 TTTAA-ATTTATTAAA-AT
1 TTTAATATTTTTTAAATAT
* *
15739113 ATTAAACTTATTTTTTCAATAT
1 -TTTAA--TATTTTTTAAATAT
* *
15739135 TTTAAAATTTCTTAAA
1 TTTAATATTTTTTAAA
15739151 CAAGATTCAT
Statistics
Matches: 68, Mismatches: 14, Indels: 20
0.67 0.14 0.20
Matches are distributed among these distances:
17 5 0.07
18 23 0.34
19 23 0.34
20 3 0.04
21 12 0.18
22 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTAATATTTTTTAAATAT
Found at i:15739123 original size:17 final size:18
Alignment explanation
Indices: 15739087--15739124 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
15739077 GATTTTATTT
*
15739087 TTAAAATATTTTAAATTTA
1 TTAAAATA-TTTAAACTTA
15739106 TTAAAATA-TTAAACTTA
1 TTAAAATATTTAAACTTA
15739123 TT
1 TT
15739125 TTTTCAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAAATATTTAAACTTA
Found at i:15739543 original size:20 final size:21
Alignment explanation
Indices: 15739505--15739547 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
15739495 ACTCTTTTTT
*
15739505 AAAAATATAAAAATTTTAAAAA
1 AAAAACATAAAAA-TTTAAAAA
15739527 AAAAACATAAAAA-TTAAAAA
1 AAAAACATAAAAATTTAAAAA
15739547 A
1 A
15739548 TTATAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
22 12 0.60
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAACATAAAAATTTAAAAA
Found at i:15739884 original size:23 final size:23
Alignment explanation
Indices: 15739856--15739905 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
15739846 ATTTAGTTTG
* *
15739856 TTTAAA-AAATTAAAATATGAATT
1 TTTAAAGAAAATAAAAAAT-AATT
15739879 TTTAAAGAAAATAAAAAATAATT
1 TTTAAAGAAAATAAAAAATAATT
15739902 TTTA
1 TTTA
15739906 TTAGTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
TTTAAAGAAAATAAAAAATAATT
Found at i:15740070 original size:21 final size:21
Alignment explanation
Indices: 15740046--15740090 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15740036 CGTTTATTCA
* *
15740046 AATTATCACGTCAGCAAAGTC
1 AATTATCACATCAACAAAGTC
* *
15740067 AATTATTATATCAACAAAGTC
1 AATTATCACATCAACAAAGTC
15740088 AAT
1 AAT
15740091 ACTCATGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (21 bp):
AATTATCACATCAACAAAGTC
Found at i:15741923 original size:12 final size:12
Alignment explanation
Indices: 15741905--15741934 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15741895 AACATTAATT
15741905 AACAAATACAAA
1 AACAAATACAAA
*
15741917 TACAAATACAAA
1 AACAAATACAAA
15741929 AACAAA
1 AACAAA
15741935 ATAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.73, C:0.17, G:0.00, T:0.10
Consensus pattern (12 bp):
AACAAATACAAA
Found at i:15745432 original size:15 final size:15
Alignment explanation
Indices: 15745412--15745446 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
15745402 ACCTATCAAT
15745412 GACTAACATAACACA
1 GACTAACATAACACA
15745427 GACTAACATAACACA
1 GACTAACATAACACA
15745442 G-CTAA
1 GACTAA
15745447 ACCTTTGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.51, C:0.26, G:0.09, T:0.14
Consensus pattern (15 bp):
GACTAACATAACACA
Found at i:15747638 original size:12 final size:13
Alignment explanation
Indices: 15747621--15747649 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15747611 CTAAGGATAG
15747621 GGTTTGGGGTTT-
1 GGTTTGGGGTTTA
15747633 GGTTTGGGGTTTA
1 GGTTTGGGGTTTA
15747646 GGTT
1 GGTT
15747650 CAGTTAAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.03, C:0.00, G:0.48, T:0.48
Consensus pattern (13 bp):
GGTTTGGGGTTTA
Found at i:15747719 original size:19 final size:20
Alignment explanation
Indices: 15747689--15747758 Score: 94
Period size: 19 Copynumber: 3.6 Consensus size: 20
15747679 TCTTGTTTAG
15747689 GGTTTA-GGTTTGGGGATTT
1 GGTTTAGGGTTTGGGGATTT
*
15747708 -ATTTAGGGTTT-GGGATTTT
1 GGTTTAGGGTTTGGGGA-TTT
15747727 GGTTTAGGGTTTGGGG-TTT
1 GGTTTAGGGTTTGGGGATTT
15747746 GGTTTAGGGTTTG
1 GGTTTAGGGTTTG
15747759 CATGAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
18 8 0.18
19 24 0.53
20 10 0.22
21 3 0.07
ACGTcount: A:0.10, C:0.00, G:0.41, T:0.49
Consensus pattern (20 bp):
GGTTTAGGGTTTGGGGATTT
Found at i:15747749 original size:12 final size:12
Alignment explanation
Indices: 15747658--15747758 Score: 55
Period size: 12 Copynumber: 8.1 Consensus size: 12
15747648 TTCAGTTAAG
15747658 GGTTTAGGGTTT
1 GGTTTAGGGTTT
* **
15747670 TGTTTAAAGTCTT
1 GGTTTAGGGT-TT
15747683 -GTTTAGGGTTT
1 GGTTTAGGGTTT
*
15747694 AGGTTTGGGGATTT
1 -GGTTTAGGG-TTT
*
15747708 -ATTTAGGGTTT
1 GGTTTAGGGTTT
*
15747719 GGGATTT-TGGTTT
1 -GG-TTTAGGGTTT
*
15747732 AGGGTTTGGGGTTT
1 --GGTTTAGGGTTT
15747746 GGTTTAGGGTTT
1 GGTTTAGGGTTT
15747758 G
1 G
15747759 CATGAATAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
11 5 0.07
12 32 0.47
13 17 0.25
14 14 0.21
ACGTcount: A:0.12, C:0.01, G:0.38, T:0.50
Consensus pattern (12 bp):
GGTTTAGGGTTT
Found at i:15748104 original size:36 final size:36
Alignment explanation
Indices: 15748052--15748124 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
15748042 TTCATTCAAC
*
15748052 ATGAACACATGGAAACAAAGTTAAATCCTACTAAAA
1 ATGAACACATGAAAACAAAGTTAAATCCTACTAAAA
*
15748088 ATGAACACATGAAAACAAAGTTAAATCCTAGTAAAA
1 ATGAACACATGAAAACAAAGTTAAATCCTACTAAAA
15748124 A
1 A
15748125 AACTTACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.55, C:0.15, G:0.11, T:0.19
Consensus pattern (36 bp):
ATGAACACATGAAAACAAAGTTAAATCCTACTAAAA
Found at i:15750541 original size:46 final size:46
Alignment explanation
Indices: 15750442--15750543 Score: 107
Period size: 46 Copynumber: 2.2 Consensus size: 46
15750432 AAAACTAACC
* * * *
15750442 ACTTGACATCCAACTTGTTTAAAACCATTAAATGTGATCCACACCT
1 ACTTGAGATCCAACTTGCTTAAAACCATTAAATATGAACCACACCT
* * * **
15750488 GCCTGAGATCCAACTTGCTTAAGACCATTAAATAT-AACCGATGCCT
1 ACTTGAGATCCAACTTGCTTAAAACCATTAAATATGAACC-ACACCT
15750534 ACTTGAGATC
1 ACTTGAGATC
15750544 ATTAAATGTA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
45 3 0.07
46 41 0.93
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (46 bp):
ACTTGAGATCCAACTTGCTTAAAACCATTAAATATGAACCACACCT
Found at i:15757139 original size:106 final size:106
Alignment explanation
Indices: 15756948--15757140 Score: 230
Period size: 106 Copynumber: 1.8 Consensus size: 106
15756938 CCATGCGAGC
* * * * ** *
15756948 CATTCTTATTGTGTTAAGGCTCTATGCCGACATGCTCAATATGTCATGTAATCCATTCTTATTAT
1 CATTCTTATTGTGTTAAGGCTCCAAGCCAACATGCTCAATACGTCACCTAATCCATTCTTATTAC
* *
15757013 GTTAAGGTGTCATGTAGACATGTTCAATGCACTTTACATGT
66 ATTAAGGTCTCATGTAGACATGTTCAATGCACTTTACATGT
*
15757054 CATTCTTATTGTGTTAAGGCTCCAAGCCAATATGCTCAATACG-C-CCTACATGCCATTCTTATT
1 CATTCTTATTGTGTTAAGGCTCCAAGCCAACATGCTCAATACGTCACCTA-AT-CCATTCTTATT
* *
15757117 GCATTAAGG-CTCTATGTCGACATG
64 ACATTAAGGTCTC-ATGTAGACATG
15757141 CCTAACACGC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
104 2 0.03
105 5 0.07
106 65 0.90
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (106 bp):
CATTCTTATTGTGTTAAGGCTCCAAGCCAACATGCTCAATACGTCACCTAATCCATTCTTATTAC
ATTAAGGTCTCATGTAGACATGTTCAATGCACTTTACATGT
Found at i:15763467 original size:3 final size:3
Alignment explanation
Indices: 15763459--15763512 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
15763449 TTTCTTTCAC
15763459 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15763507 ATA ATA
1 ATA ATA
15763513 TTATTATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15763517 original size:3 final size:3
Alignment explanation
Indices: 15763511--15763554 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
15763501 ATAATAATAA
15763511 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15763555 AATAAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:15765714 original size:2 final size:2
Alignment explanation
Indices: 15765707--15765745 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
15765697 CTAACTAATC
15765707 AT AT AT AT AT AT AT AT -T AT AT A- AT AT -T AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15765745 A
1 A
15765746 GATACTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.12
2 29 0.88
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15765722 original size:10 final size:9
Alignment explanation
Indices: 15765702--15765745 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
15765692 TAAACCTAAC
15765702 TAATCATATA
1 TAAT-ATATA
15765712 T-ATATATA
1 TAATATATA
15765720 T-AT-TATA
1 TAATATATA
15765727 TAATAT-TA
1 TAATATATA
15765735 TAATATATA
1 TAATATATA
15765744 TA
1 TA
15765746 GATACTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 5 0.16
8 18 0.58
9 7 0.23
10 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (9 bp):
TAATATATA
Found at i:15765728 original size:15 final size:14
Alignment explanation
Indices: 15765708--15765745 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
15765698 TAACTAATCA
15765708 TATATATATATATAT
1 TATATATATAT-TAT
15765723 TATATA-ATATTAT
1 TATATATATATTAT
*
15765736 AATATATATA
1 TATATATATA
15765746 GATACTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 7 0.33
15 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATATATATTAT
Found at i:15766000 original size:13 final size:15
Alignment explanation
Indices: 15765967--15766002 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
15765957 AAATTAATTT
15765967 TATA-ATAATTTAGA
1 TATATATAATTTAGA
*
15765981 TATATATAATTTAAA
1 TATATATAATTTAGA
15765996 TATATAT
1 TATATAT
15766003 CTTTTCATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TATATATAATTTAGA
Found at i:15766235 original size:13 final size:15
Alignment explanation
Indices: 15766206--15766237 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15766196 TAATTTTCTA
15766206 ATAATTTATATATAT
1 ATAATTTATATATAT
*
15766221 ATAATTTAAATATAT
1 ATAATTTATATATAT
15766236 AT
1 AT
15766238 TATCTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATTTATATATAT
Found at i:15766268 original size:22 final size:20
Alignment explanation
Indices: 15766243--15766299 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
15766233 TATATTATCT
15766243 TTTAAAATTATTTTTTTAATAA
1 TTTAAAATTATTTTTTT-A-AA
* *
15766265 TTTAGATTTATATCTTTTTAAA
1 TTTAAAATTAT-T-TTTTTAAA
*
15766287 TTTAAAAATATTT
1 TTTAAAATTATTT
15766300 AATTTAGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 19 0.68
23 2 0.07
24 5 0.18
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTAAAATTATTTTTTTAAA
Found at i:15766566 original size:54 final size:54
Alignment explanation
Indices: 15766481--15766588 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
15766471 AAGTTTTTTT
15766481 TTTTTTTTCTTTTATAGGTGTCTATGATAAGTCATTTACCTTTAACTTTGATTC
1 TTTTTTTTCTTTTATAGGTGTCTATGATAAGTCATTTACCTTTAACTTTGATTC
* * * * ** *
15766535 TTTTTTTTCTTTTGTATGTGTTTAT-AGTAAGTTATTTGTCTTTAATTTTGATTC
1 TTTTTTTTCTTTTATAGGTGTCTATGA-TAAGTCATTTACCTTTAACTTTGATTC
15766589 CTCATTTGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.98
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.60
Consensus pattern (54 bp):
TTTTTTTTCTTTTATAGGTGTCTATGATAAGTCATTTACCTTTAACTTTGATTC
Found at i:15767354 original size:130 final size:128
Alignment explanation
Indices: 15766944--15767334 Score: 472
Period size: 125 Copynumber: 3.0 Consensus size: 128
15766934 GAACAATTTC
* * * * *
15766944 TAATTTTAT-AGTGTTTATCAGCTAAATAAAAATATTTAAAAGTTATTACTTATTCAAAATTAAT
1 TAATTTTATGA-TATTTATCA-ATAAATAAAAGTATTTAAAAATTATTAGTTATTCAAAATTAAT
* * * * *** **
15767008 TTTTAATAATTTACATACATATAATCT-AATATATATCTTTTTATGGAATAAAATTAAAATTCTA
64 TTCTAATAATTT-TATATATATAATATAAATATATATCTTTTTATCTTATAAAATTAATTTTCTA
15767072 A
128 A
15767073 TAATTTTATGATATTTATCAATAAATAAAAGTATTTAAAAATTATTAGTTATTCAAAATTAATTT
1 TAATTTTATGATATTTATCAATAAATAAAAGTATTTAAAAATTATTAGTTATTCAAAATTAA-TT
* *
15767138 TCTAATAA--TT-TAT-TATAATATAAATATATATCTTTTTATCTTCTAAAATTAATTTACTAA
65 TCTAATAATTTTATATATATAATATAAATATATATCTTTTTATCTTATAAAATTAATTTTCTAA
* *
15767198 TAATTTTATTATATTTATCAAATAAATAAAAGTA-TTAAAAATTATTAGTTATCCAAAATTAATA
1 TAATTTTATGATATTTATC-AATAAATAAAAGTATTTAAAAATTATTAGTTATTCAAAATTAAT-
* * *
15767262 TTCTAATAATTTTGATATATATAATTTAAATATATATCTTTTTATCTTTTAAAATTAATTTTTTT
64 TTCTAATAATTTT-ATATATATAATATAAATATATATCTTTTTATCTTATAAAATTAA-TTTTCT
15767327 AA
127 AA
15767329 TAATTT
1 TAATTT
15767335 AGATATCTTT
Statistics
Matches: 229, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
124 8 0.03
125 87 0.38
126 14 0.06
127 3 0.01
128 38 0.17
129 29 0.13
130 38 0.17
131 12 0.05
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.48
Consensus pattern (128 bp):
TAATTTTATGATATTTATCAATAAATAAAAGTATTTAAAAATTATTAGTTATTCAAAATTAATTT
CTAATAATTTTATATATATAATATAAATATATATCTTTTTATCTTATAAAATTAATTTTCTAA
Found at i:15768444 original size:23 final size:23
Alignment explanation
Indices: 15768392--15768449 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
15768382 TAACAAATAA
*
15768392 ATAA-ATTATTCTATTCTAATTAG
1 ATAATATTATT-TAATCTAATTAG
* **
15768415 ATGATATTATTTAATCTAATTTT
1 ATAATATTATTTAATCTAATTAG
*
15768438 ATAATATCATTT
1 ATAATATTATTT
15768450 TATCATATCC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (23 bp):
ATAATATTATTTAATCTAATTAG
Found at i:15777623 original size:15 final size:16
Alignment explanation
Indices: 15777583--15777624 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
15777573 ATCGAAGCCC
*
15777583 AAATCTAAAATGATTTA
1 AAAT-TAAAATGATTCA
*
15777600 AATTTAAAAT-ATTCA
1 AAATTAAAATGATTCA
15777615 AAATTAAAAT
1 AAATTAAAAT
15777625 CAAATCGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 6 0.27
17 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATTAAAATGATTCA
Found at i:15777749 original size:11 final size:11
Alignment explanation
Indices: 15777730--15777761 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
15777720 ATATGGTATG
15777730 AAAAA-AATAT
1 AAAAATAATAT
15777740 AAAAATAATAT
1 AAAAATAATAT
15777751 AAAAATAATAT
1 AAAAATAATAT
15777762 GATTTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATAATAT
Found at i:15778997 original size:21 final size:22
Alignment explanation
Indices: 15778973--15779025 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
15778963 TTGTTTTTTG
15778973 TTTTTATTTCTTATTTA-TCTA
1 TTTTTATTTCTTATTTACTCTA
**
15778994 TTTTTATTAGTTATTTATCTCTA
1 TTTTTATTTCTTATTTA-CTCTA
15779017 TTTTTATTT
1 TTTTTATTT
15779026 TATTCTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 15 0.56
23 12 0.44
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTATTTCTTATTTACTCTA
Found at i:15780477 original size:12 final size:12
Alignment explanation
Indices: 15780460--15780492 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
15780450 ACCCAAACCA
15780460 ATTTTGTTTAAT
1 ATTTTGTTTAAT
15780472 ATTTTGTTTAAT
1 ATTTTGTTTAAT
15780484 ATTTTGTTT
1 ATTTTGTTT
15780493 TTATTTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (12 bp):
ATTTTGTTTAAT
Found at i:15780516 original size:21 final size:22
Alignment explanation
Indices: 15780490--15780542 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
15780480 TAATATTTTG
15780490 TTTTTATTTCTTATGTA-TCTA
1 TTTTTATTTCTTATGTACTCTA
** *
15780511 TTTTTATTAGTTATTTATCTCTA
1 TTTTTATTTCTTATGTA-CTCTA
15780534 TTTTTATTT
1 TTTTTATTT
15780543 TATTGTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 14 0.54
23 12 0.46
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTTATTTCTTATGTACTCTA
Found at i:15780556 original size:35 final size:37
Alignment explanation
Indices: 15780517--15780602 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 37
15780507 TCTATTTTTA
*
15780517 TTAGTTATTTATCTCTATTTTTAT-TTTAT-TGTCAT
1 TTAGTTATTTATATCTATTTTTATGTTTATCTGTCAT
* * * *
15780552 TTAGTTATTTTTATTTATTTTTATGTTTATCTTTCTT
1 TTAGTTATTTATATCTATTTTTATGTTTATCTGTCAT
*
15780589 TTATTTATTTATAT
1 TTAGTTATTTATAT
15780603 AAATAAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 21 0.50
36 5 0.12
37 16 0.38
ACGTcount: A:0.20, C:0.06, G:0.05, T:0.70
Consensus pattern (37 bp):
TTAGTTATTTATATCTATTTTTATGTTTATCTGTCAT
Found at i:15780817 original size:22 final size:24
Alignment explanation
Indices: 15780773--15780822 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
15780763 TGTCATGTCC
*
15780773 ATTTAATAATTATGTTAGTTTA-TGA
1 ATTTAATAATTA--TTAGCTTATTGA
15780798 ATTTAATAATTA-TAGCTTATTGA
1 ATTTAATAATTATTAGCTTATTGA
15780821 AT
1 AT
15780823 ATGTAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 6 0.26
23 5 0.22
25 12 0.52
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAATAATTATTAGCTTATTGA
Found at i:15788596 original size:9 final size:9
Alignment explanation
Indices: 15788582--15788612 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
15788572 TAAACTTGGT
15788582 TAATCACGA
1 TAATCACGA
15788591 TAATCACGA
1 TAATCACGA
15788600 TAATCACGA
1 TAATCACGA
15788609 TAAT
1 TAAT
15788613 TTTTTCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (9 bp):
TAATCACGA
Found at i:15791163 original size:14 final size:14
Alignment explanation
Indices: 15791141--15791195 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
15791131 AAAATCAAAA
*
15791141 TTTTCTTTTTCTTT
1 TTTTTTTTTTCTTT
*
15791155 TTTTTTTTTACTTT
1 TTTTTTTTTTCTTT
* *
15791169 TTTTTTCTCTCTTT
1 TTTTTTTTTTCTTT
*
15791183 TTATTTTGTTTCT
1 TT-TTTTTTTTCT
15791196 CTAATTTCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
14 25 0.76
15 8 0.24
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTTCTTT
Found at i:15791183 original size:26 final size:25
Alignment explanation
Indices: 15791141--15791189 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15791131 AAAATCAAAA
*
15791141 TTTTCTTTTTCTTTTTTTTTTTTAC
1 TTTTCTTTTTCTTTTTTTATTTTAC
15791166 TTTT-TTTTTCTCTCTTTTTATTTT
1 TTTTCTTTTTCT-T-TTTTTATTTT
15791190 GTTTCTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (25 bp):
TTTTCTTTTTCTTTTTTTATTTTAC
Found at i:15792441 original size:56 final size:56
Alignment explanation
Indices: 15792369--15792625 Score: 179
Period size: 56 Copynumber: 4.5 Consensus size: 56
15792359 ATACAATAAT
* *
15792369 AATAAATAAATAAATAACCATGCAAATAAATATATTAATAATCATACAATCACACA
1 AATAAATAAATTAATAATCATGCAAATAAATATATTAATAATCATACAATCACACA
* * * * **
15792425 AATAAATAAATTAATAATCATGTAATTAAACATGCAATTAA-AA--ATACAGTCATGCA
1 AATAAATAAATTAATAATCATGCAAATAAATAT---ATTAATAATCATACAATCACACA
* * * *
15792481 AATAAACATACAATTAGATATATAATAATACAAAT-AATAATATAAATCAATCATGCAAT-A-A-
1 AAT-AA-ATA-AA-T---TA-ATAATCATGCAAATAAAT-ATATTAAT-AATCATACAATCACAC
*
15792542 T
56 A
* * * *
15792543 AAT-AATAAATAAATAATCATGCAAATAAGTACATTAATAATCATAAAATCACACA
1 AATAAATAAATTAATAATCATGCAAATAAATATATTAATAATCATACAATCACACA
*
15792598 AATAAATAAATTACTAATCATGCAAATA
1 AATAAATAAATTAATAATCATGCAAATA
15792626 GACATGTAAT
Statistics
Matches: 151, Mismatches: 29, Indels: 42
0.68 0.13 0.19
Matches are distributed among these distances:
52 9 0.06
53 19 0.13
54 4 0.03
55 3 0.02
56 63 0.42
57 3 0.02
58 7 0.05
59 10 0.07
60 2 0.01
61 4 0.03
62 3 0.02
63 6 0.04
64 13 0.09
65 5 0.03
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (56 bp):
AATAAATAAATTAATAATCATGCAAATAAATATATTAATAATCATACAATCACACA
Found at i:15792480 original size:20 final size:20
Alignment explanation
Indices: 15792455--15792492 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15792445 TGTAATTAAA
*
15792455 CATGCAATTAAAAATACAGT
1 CATGCAAATAAAAATACAGT
*
15792475 CATGCAAATAAACATACA
1 CATGCAAATAAAAATACA
15792493 ATTAGATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.18, G:0.08, T:0.21
Consensus pattern (20 bp):
CATGCAAATAAAAATACAGT
Found at i:15792651 original size:20 final size:20
Alignment explanation
Indices: 15792628--15792688 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
15792618 TGCAAATAGA
15792628 CATGTAATTAAATATATAAT
1 CATGTAATTAAATATATAAT
* * *
15792648 CATGCAATTAACA-ATGTAAAA
1 CATGTAATTAA-ATATAT-AAT
*
15792669 AATGTAATTAAATATATAAT
1 CATGTAATTAAATATATAAT
15792689 TAAGCAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (20 bp):
CATGTAATTAAATATATAAT
Found at i:15792841 original size:20 final size:20
Alignment explanation
Indices: 15792799--15792871 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
15792789 TTACACAAAT
* * *
15792799 AAATAAATTGATAATGATAC
1 AAATAAATTAATAATCACAC
*
15792819 AAATAAATTAATAATCACGC
1 AAATAAATTAATAATCACAC
*
15792839 AAATATATTAATAAATCACAC
1 AAATAAATTAAT-AATCACAC
*
15792860 AAATATATTAAT
1 AAATAAATTAAT
15792872 CATGCAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 27 0.59
21 19 0.41
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATAAATTAATAATCACAC
Found at i:15792857 original size:21 final size:20
Alignment explanation
Indices: 15792817--15792871 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 20
15792807 TGATAATGAT
*
15792817 ACAAATAAATTAATAATCAC
1 ACAAATATATTAATAATCAC
*
15792837 GCAAATATATTAATAAATCAC
1 ACAAATATATTAAT-AATCAC
15792858 ACAAATATATTAAT
1 ACAAATATATTAAT
15792872 CATGCAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (20 bp):
ACAAATATATTAATAATCAC
Found at i:15792889 original size:20 final size:20
Alignment explanation
Indices: 15792864--15792946 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 20
15792854 TCACACAAAT
*
15792864 ATATTAATCATGCAAATAAA
1 ATATTAATCATGCAAATATA
15792884 ATATT-A--A-GC-AA-ATA
1 ATATTAATCATGCAAATATA
*
15792898 A-ATT-ATCATGCAAATGTA
1 ATATTAATCATGCAAATATA
* *
15792916 ATATGAATCATACAAATATA
1 ATATTAATCATGCAAATATA
*
15792936 ATATTAGTCAT
1 ATATTAATCAT
15792947 AAAAATTCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
13 4 0.08
14 3 0.06
15 3 0.06
16 4 0.08
17 3 0.06
18 3 0.06
19 3 0.06
20 26 0.53
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
ATATTAATCATGCAAATATA
Found at i:15792910 original size:16 final size:16
Alignment explanation
Indices: 15792859--15792912 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
15792849 ATAAATCACA
*
15792859 CAAATATATTAATCATG
1 CAAATAAATT-ATCATG
* * *
15792876 CAAATAAAATATTAAG
1 CAAATAAATTATCATG
15792892 CAAATAAATTATCATG
1 CAAATAAATTATCATG
15792908 CAAAT
1 CAAAT
15792913 GTAATATGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 22 0.73
17 8 0.27
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.30
Consensus pattern (16 bp):
CAAATAAATTATCATG
Found at i:15792947 original size:20 final size:19
Alignment explanation
Indices: 15792895--15792952 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
15792885 TATTAAGCAA
*
15792895 ATAA-ATTATCATGCAAAT
1 ATAATATTATCATACAAAT
* *
15792913 GTAATATGAATCATACAAAT
1 ATAATAT-TATCATACAAAT
*
15792933 ATAATATTAGTCATAAAAAT
1 ATAATATTA-TCATACAAAT
15792953 TCATGCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 3 0.10
19 3 0.10
20 25 0.81
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (19 bp):
ATAATATTATCATACAAAT
Found at i:15792953 original size:52 final size:50
Alignment explanation
Indices: 15792864--15792961 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 50
15792854 TCACACAAAT
* *
15792864 ATATTAATCATGCAAATAAAATATTAAGCAAATAAATTATCATGCAAATGTA
1 ATATGAATCATACAAATAAAATATTAAGCAAATAAA-T-TCATGCAAATGTA
*
15792916 ATATGAATCATACAAATATAATATT-AGTCATAA-AAATTCATGCAAA
1 ATATGAATCATACAAATAAAATATTAAG-CA-AATAAATTCATGCAAA
15792962 AATAAAAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
50 9 0.22
51 3 0.07
52 27 0.66
53 2 0.05
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (50 bp):
ATATGAATCATACAAATAAAATATTAAGCAAATAAATTCATGCAAATGTA
Found at i:15793843 original size:43 final size:43
Alignment explanation
Indices: 15793778--15794130 Score: 395
Period size: 43 Copynumber: 8.2 Consensus size: 43
15793768 TGTTTTTTGA
* *
15793778 AAAATGCTCCCCCACAACTGAGGCTTTGAAATTTTTGAAAAAT
1 AAAATGCTCCCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * **
15793821 AAAATACTTCCCCATATTTGAGGCTTTGAAAC-TTTGAAAAAT
1 AAAATGCTCCCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT
** * * *
15793863 AAAATGCTTTCCCGTAGCTGAGGCTTTGGAACTTTTGAAAAAT
1 AAAATGCTCCCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * * * *
15793906 AAAATGCTCCCCCACAACTAAAGCTTTAAAAATTTTGAAAATT
1 AAAATGCTCCCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * *
15793949 AAAATGCACCCCTATAACTGAGGCTTTAAAACTTTTGAAAAAT
1 AAAATGCTCCCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT
** * *
15793992 AAAATGCTCCCCCATAACTGAGGCAATGAAACTTTAGGAAAAT
1 AAAATGCTCCCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * * *
15794035 AAAATGCTCTCCCACAACTAAGGCTTTGAAACTTTGGAAAAGT
1 AAAATGCTCCCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * *
15794078 AAAATGCTCCCCCACAACTGAGACTTTGGAAC-TTTGAAAATAT
1 AAAATGCTCCCCCATAACTGAGGCTTTGAAACTTTTGAAAA-AT
15794121 AAAATGCTCC
1 AAAATGCTCC
15794131 TTACAATTGA
Statistics
Matches: 257, Mismatches: 51, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
42 43 0.17
43 214 0.83
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (43 bp):
AAAATGCTCCCCCATAACTGAGGCTTTGAAACTTTTGAAAAAT
Found at i:15793982 original size:86 final size:84
Alignment explanation
Indices: 15793778--15794174 Score: 361
Period size: 86 Copynumber: 4.6 Consensus size: 84
15793768 TGTTTTTTGA
* * * * ** *
15793778 AAAATGCTCCCCCACAACTGAGGCTTTGAAATTTTTGAAAAATAAAATACTTCCCCATATTTGAG
1 AAAATGCT-CCCCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAA
* *
15793843 GCTTTGAAACTTTGAAAAAT
65 GCTTTAAAACTTTGAAAATT
* ** * * *
15793863 AAAATGCTTTCCCGTAGCTGAGGCTTTGGAACTTTTGAAAAATAAAATGCTCCCCCACAACTAAA
1 AAAATGC-TCCCCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAA
*
15793928 GCTTTAAAAATTTTGAAAATT
65 GCTTT-AAAACTTTGAAAATT
* * * * *
15793949 AAAATGCACCCCTATAACTGAGGCTTTAAAACTTTTGAAAAATAAAATGCTCCCCCATAACTGAG
1 AAAATGCTCCCC-ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAA
** *
15794014 GCAATGAAACTTTAGGAAAA-T
65 GCTTTAAAACTTT--GAAAATT
* * *
15794035 AAAATGCTCTCCCACAACTAAGGCTTTGAAACTTTGGAAAAGTAAAATGCTCCCCCACAACTG-A
1 AAAATGCTC-CCCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAA
**
15794099 GACTTTGGAACTTTGAAAATAT
65 G-CTTTAAAACTTTGAAAAT-T
** * * *
15794121 AAAATGCTCCTTACAATTGAGGCTTT-AGAAC-TTTGAAAAAGTGAAATGTTCCCC
1 AAAATGCTCCCCACAACTGAGGCTTTGA-AACTTTTGAAAAA-TAAAATGCTCCCC
15794175 TAGGCTTTGG
Statistics
Matches: 253, Mismatches: 48, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
84 13 0.05
85 92 0.36
86 140 0.55
87 8 0.03
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (84 bp):
AAAATGCTCCCCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAAG
CTTTAAAACTTTGAAAATT
Found at i:15794168 original size:42 final size:42
Alignment explanation
Indices: 15793778--15794174 Score: 306
Period size: 43 Copynumber: 9.3 Consensus size: 42
15793768 TGTTTTTTGA
*
15793778 AAAATGCTCCCCCACAACTGAGGCTTTGAAATTTTTGAAAAA-T
1 AAAATGCTCCCCCACAACTGAGGCTTTG-AA-CTTTGAAAAAGT
* * * **
15793821 AAAATACTTCCCCATATTTGAGGCTTTGAAACTTTGAAAAA-T
1 AAAATGCTCCCCCACAACTGAGGCTTTG-AACTTTGAAAAAGT
** ** *
15793863 AAAATGCTTTCCCGTAGCTGAGGCTTTGGAACTTTTGAAAAA-T
1 AAAATGCTCCCCCACAACTGAGGCTTT-GAAC-TTTGAAAAAGT
* * * * *
15793906 AAAATGCTCCCCCACAACTAAAGCTTTAAAAATTTTG-AAAATT
1 AAAATGCTCCCCCACAACTGAGGCTTT--GAACTTTGAAAAAGT
* * * *
15793949 AAAATGCACCCCTATAACTGAGGCTTTAAAACTTTTGAAAAA-T
1 AAAATGCTCCCCCACAACTGAGGCTTT-GAAC-TTTGAAAAAGT
* ** *
15793992 AAAATGCTCCCCCATAACTGAGGCAATGAAACTTTAGGAAAA-T
1 AAAATGCTCCCCCACAACTGAGGCTTTG-AACTTT-GAAAAAGT
* * *
15794035 AAAATGCTCTCCCACAACTAAGGCTTTGAAACTTTGGAAAAGT
1 AAAATGCTCCCCCACAACTGAGGCTTTG-AACTTTGAAAAAGT
*
15794078 AAAATGCTCCCCCACAACTGAGACTTTGGAACTTTGAAAATA-T
1 AAAATGCTCCCCCACAACTGAGGCTTT-GAACTTTGAAAA-AGT
** *
15794121 AAAATGCT-CCTTACAATTGAGGCTTTAGAACTTTGAAAAAGT
1 AAAATGCTCCCCCACAACTGAGGCTTT-GAACTTTGAAAAAGT
* *
15794163 GAAATGTTCCCC
1 AAAATGCTCCCC
15794175 TAGGCTTTGG
Statistics
Matches: 291, Mismatches: 50, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.00
42 85 0.29
43 197 0.68
44 8 0.03
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (42 bp):
AAAATGCTCCCCCACAACTGAGGCTTTGAACTTTGAAAAAGT
Found at i:15794396 original size:13 final size:13
Alignment explanation
Indices: 15794378--15794402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15794368 TTCTAAAAAT
15794378 ATGCAATGAATGC
1 ATGCAATGAATGC
15794391 ATGCAATGAATG
1 ATGCAATGAATG
15794403 AAAAAATTCT
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:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:15796933 original size:5 final size:5
Alignment explanation
Indices: 15796923--15796965 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
15796913 TAGTATTATC
15796923 ATATT ATATT ACT-TT ATTATT ATATT ATTATT ATATT ATATT A
1 ATATT ATATT A-TATT A-TATT ATATT A-TATT ATATT ATATT A
15796966 GAGTAAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:15796940 original size:27 final size:27
Alignment explanation
Indices: 15796908--15796960 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
15796898 TAAGGCTATT
15796908 TTTATTAGTATTATCA-TATTATATTAC
1 TTTATTAGTA-TATCATTATTATATTAC
* *
15796935 TTTATTATTATATTATTATTATATTA
1 TTTATTAGTATATCATTATTATATTA
15796961 TATTAGAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTATTAGTATATCATTATTATATTAC
Found at i:15796945 original size:16 final size:16
Alignment explanation
Indices: 15796923--15796965 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
15796913 TAGTATTATC
15796923 ATATTATATTACT-TT
1 ATATTATATTACTATT
*
15796938 ATTATTATATTATTATT
1 A-TATTATATTACTATT
15796955 ATATTATATTA
1 ATATTATATTA
15796966 GAGTAAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 1 0.04
16 21 0.84
17 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTATATTACTATT
Found at i:15796948 original size:8 final size:8
Alignment explanation
Indices: 15796924--15796965 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
15796914 AGTATTATCA
15796924 TATTATAT
1 TATTATAT
15796932 TACTT-TAT
1 TA-TTATAT
15796940 TATTATAT
1 TATTATAT
15796948 TATTAT-T
1 TATTATAT
15796955 ATATTATAT
1 -TATTATAT
15796964 TA
1 TA
15796966 GAGTAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 3 0.10
8 24 0.80
9 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:15799277 original size:19 final size:20
Alignment explanation
Indices: 15799230--15799270 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
15799220 TTTCACTCCA
15799230 TTTTC-TATTTTGATTCTAT
1 TTTTCTTATTTTGATTCTAT
15799249 TTTTCTTATTTTG-TT-TAT
1 TTTTCTTATTTTGATTCTAT
15799267 TTTT
1 TTTT
15799271 ATTTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 7 0.33
20 7 0.33
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTCTTATTTTGATTCTAT
Found at i:15802841 original size:11 final size:11
Alignment explanation
Indices: 15802817--15802849 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15802807 ATGTCTCTAC
15802817 AAAAA-AAA-A
1 AAAAACAAAGA
15802826 AAAAACAAAGA
1 AAAAACAAAGA
15802837 AAAAACAAAGA
1 AAAAACAAAGA
15802848 AA
1 AA
15802850 GAGAATGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.23
10 3 0.14
11 14 0.64
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAACAAAGA
Found at i:15803189 original size:26 final size:25
Alignment explanation
Indices: 15803160--15803215 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
15803150 AAAGAAAAGC
*
15803160 AAAAAGCGAAAAA-AAAAAAAGGTAA
1 AAAAAGCAAAAAACAAAAAAAGG-AA
*
15803185 AAAAAGTAAAAAACAAAAAAAGGAGA
1 AAAAAGCAAAAAACAAAAAAAGGA-A
15803211 AAAAA
1 AAAAA
15803216 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.79, C:0.04, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAAGCAAAAAACAAAAAAAGGAA
Found at i:15803221 original size:26 final size:25
Alignment explanation
Indices: 15803168--15803228 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
15803158 GCAAAAAGCG
15803168 AAAAAAAAAAAAGGTAAAAAAAGTA
1 AAAAAAAAAAAAGGTAAAAAAAGTA
15803193 AAAAACAAAAAAAGG-AGAAAAAA-TA
1 AAAAA-AAAAAAAGGTA-AAAAAAGTA
*
15803218 AAAAAATAAAA
1 AAAAAAAAAAA
15803229 GAAAAAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 5 0.15
25 13 0.39
26 15 0.45
ACGTcount: A:0.82, C:0.02, G:0.10, T:0.07
Consensus pattern (25 bp):
AAAAAAAAAAAAGGTAAAAAAAGTA
Found at i:15804300 original size:69 final size:68
Alignment explanation
Indices: 15804171--15804304 Score: 189
Period size: 69 Copynumber: 2.0 Consensus size: 68
15804161 AAACCTTTAC
*
15804171 GAAACTTAAGTCTTACGAATATTTCTTTCTTATGAACCTGAAAATCCTTGCGAATCTTGCATCTT
1 GAAACTTAAGTCTTACGAATATTTCTTTCTTACGAACCTGAAAATCCTTGCGAATCTTGCATCTT
15804236 TGT
66 TGT
* * * * *
15804239 GAAACTTGAAGTTTTACGAATCTTTCTTTCTTGCGAACCTGAAAATTCTTGC-ATATTTTGCATC
1 GAAACTT-AAGTCTTACGAATATTTCTTTCTTACGAACCTGAAAATCCTTGCGA-ATCTTGCATC
15804303 TT
64 TT
15804305 GCGAATTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 8 0.14
69 50 0.86
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (68 bp):
GAAACTTAAGTCTTACGAATATTTCTTTCTTACGAACCTGAAAATCCTTGCGAATCTTGCATCTT
TGT
Found at i:15804578 original size:120 final size:120
Alignment explanation
Indices: 15804426--15805365 Score: 760
Period size: 120 Copynumber: 7.9 Consensus size: 120
15804416 ATTTCAAACT
* * * * * * *
15804426 TCATTTTTGACTCGTGATTTCATCTCGGTCACTTTATCTTAGCTTACTCCAAATCATTCCTTATG
1 TCATTTTTGACTTGTGATTTCGTCCCGGTCACTTGATCTTGGCTTAGTCCAGATCATTCCTTATG
* *
15804491 ACTCATAGTTTCATCTCGATCATTTATTTTCGACCAT-GACTCGGTCCTGGTCGCC
66 ACTCATGGTTTCATCTCGATCATTTATTTTCGACC-TCGACTCGGTCCTGGTCACC
* * ** * * * * *
15804546 TTATTTTTGACTTGTGATTTTGTCTTGGTCACTTAATCTTGGCTCAATCCTGATCATTCTTTATG
1 TCATTTTTGACTTGTGATTTCGTCCCGGTCACTTGATCTTGGCTTAGTCCAGATCATTCCTTATG
* * * * ** * * *
15804611 ACTCATGATTTCATCCCAATAATTTATTTTTAACCTCGACTCGGTTCTAGTCATC
66 ACTCATGGTTTCATCTCGATCATTTATTTTCGACCTCGACTCGGTCCTGGTCACC
* * ** * * *
15804666 TCATTTTTGACTCGTGGTTTCGTCATGATCACTTGATCTTAGCTTAGTCTAGATCATTCCTTATG
1 TCATTTTTGACTTGTGATTTCGTCCCGGTCACTTGATCTTGGCTTAGTCCAGATCATTCCTTATG
* ** * * * *
15804731 ACTCGTGGTTTTGTCTCGATAATTTATTTTTGACCTTGA-TCGATCCTGGTCACC
66 ACTCATGGTTTCATCTCGATCATTTATTTTCGACCTCGACTCGGTCCTGGTCACC
* * * * *
15804785 TCATTTTTGA-TTCGTGCTTTCGTCCTGATTACTTGATCTTGGCTTAGTCTAGATCATTCCTTAT
1 TCATTTTTGACTT-GTGATTTCGTCCCGGTCACTTGATCTTGGCTTAGTCCAGATCATTCCTTAT
* *
15804849 GACTCATGG-TTCTATACT-GATCATTTATTTTCGACCTCAACTCGGTCCTAGTCACC
65 GACTCATGGTTTC-AT-CTCGATCATTTATTTTCGACCTCGACTCGGTCCTGGTCACC
* * * * * *
15804905 TCATTTTTGACTTATGATTTCATCCCAGTCACTTGATCTTAGCTTAGTCTAGATCATTTCTTATG
1 TCATTTTTGACTTGTGATTTCGTCCCGGTCACTTGATCTTGGCTTAGTCCAGATCATTCCTTATG
* * *
15804970 ACTCATGGTTTCATCTCGATCATTTATTTTCGATCTTGA-T---TCCTGATCACC
66 ACTCATGGTTTCATCTCGATCATTTATTTTCGACCTCGACTCGGTCCTGGTCACC
* * * * * * * *
15805021 TCATTTTTTATTTGTGGTTTCGTCTCGTTCACTTGATCTTGGGTTAGTCCAAATCATTTCTTATG
1 TCATTTTTGACTTGTGATTTCGTCCCGGTCACTTGATCTTGGCTTAGTCCAGATCATTCCTTATG
* * * ** *
15805086 ACTCGTAG-TTCTATC-CTAGTCATTTATTTTCGACCTCGACTTAGTCTTGGTCACC
66 ACTCATGGTTTC-ATCTCGA-TCATTTATTTTCGACCTCGACTCGGTCCTGGTCACC
* * * * *
15805141 TCATTTTTGACTTAT-AGTTTTGTCCCAGTCACTTGATCTTGGCTTAGTCCAGATCATTCTTTTT
1 TCATTTTTGACTTGTGA-TTTCGTCCCGGTCACTTGATCTTGGCTTAGTCCAGATCATTCCTTAT
* * * * ** * *** * *
15805205 GACTCGTGGTTCCGTCTCAATCATTTATTTTTTACTTCGACTTAATCTTGG-CTA-T
65 GACTCATGGTTTCATCTCGATCATTTATTTTCGACCTCGACTCGGTCCTGGTC-ACC
** * * * * * * * *
15805260 TTGTTTTTGACTCGTGGTTTCATCCCGATCAC-CGAATCTTAGCTCAGTCCAGATCATTTCTTAT
1 TCATTTTTGACTTGTGATTTCGTCCCGGTCACTTG-ATCTTGGCTTAGTCCAGATCATTCCTTAT
* * * *
15805324 GACTCGTGGTTTCATC-CTGGTAATTTATTTTCGACTTCGACT
65 GACTCATGGTTTCATCTC-GATCATTTATTTTCGACCTCGACT
15805366 TGATCTTGAT
Statistics
Matches: 660, Mismatches: 139, Indels: 43
0.78 0.17 0.05
Matches are distributed among these distances:
115 5 0.01
116 89 0.13
117 1 0.00
118 5 0.01
119 179 0.27
120 372 0.56
121 9 0.01
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (120 bp):
TCATTTTTGACTTGTGATTTCGTCCCGGTCACTTGATCTTGGCTTAGTCCAGATCATTCCTTATG
ACTCATGGTTTCATCTCGATCATTTATTTTCGACCTCGACTCGGTCCTGGTCACC
Found at i:15804894 original size:239 final size:234
Alignment explanation
Indices: 15804426--15805235 Score: 817
Period size: 239 Copynumber: 3.4 Consensus size: 234
15804416 ATTTCAAACT
* * * * *
15804426 TCATTTTTGACTCGTGATTTCATCTCGGTCACTTTATCTTAGCTTACTCCAAATCATTCCTTATG
1 TCATTTTTGACTCATGATTTCATC-CAGTCACTTGATCTTAGCTTAGTCCAGATCATTCCTTATG
* * * *
15804491 ACTCATAGTTTCATCTCGATCATTTATTTTCGACCATGACTCGGTCCTGGTCGCCTTATTTTTGA
65 ACTCATGGTTTCATCTCGATCATTTATTTTCGACCTTGA-TC-GTCCTGGTCACCTCATTTTTGA
* * * * * * * *
15804556 CTTGTGATTTTGTCTTGGTCACTTAATCTTGGCTCAATCCT-GATCATTCTTTATGACTCATGAT
128 -TTGTGATTTCGTCCT-GTTACTTGATCTTGGCTTAGT-CTAGATCATTCCTTATGACTCATGGT
* * ** *
15804620 T-TCATCCCAATAATTTATTTTTAACCTCGACTCGGTTCTAGTCATC
190 TCT-AT-CCTATCATTTATTTTCGACCTCGACTCGGTTCTAGTCACC
* * * *
15804666 TCATTTTTGACTCGTGGTTTCGT-CATGATCACTTGATCTTAGCTTAGTCTAGATCATTCCTTAT
1 TCATTTTTGACTCATGATTTCATCCA-G-TCACTTGATCTTAGCTTAGTCCAGATCATTCCTTAT
* ** * *
15804730 GACTCGTGGTTTTGTCTCGATAATTTATTTTTGACCTTGATCGATCCTGGTCACCTCATTTTTGA
64 GACTCATGGTTTCATCTCGATCATTTATTTTCGACCTTGATCG-TCCTGGTCACCTCATTTTTGA
*
15804795 TTCGTGCTTTCGTCCTGATTACTTGATCTTGGCTTAGTCTAGATCATTCCTTATGACTCATGGTT
128 TT-GTGATTTCGTCCTG-TTACTTGATCTTGGCTTAGTCTAGATCATTCCTTATGACTCATGGTT
* * *
15804860 CTATACTGATCATTTATTTTCGACCTCAACTCGGTCCTAGTCACC
191 CTATCCT-ATCATTTATTTTCGACCTCGACTCGGTTCTAGTCACC
* * *
15804905 TCATTTTTGACTTATGATTTCATCCCAGTCACTTGATCTTAGCTTAGTCTAGATCATTTCTTATG
1 TCATTTTTGACTCATGATTTCAT-CCAGTCACTTGATCTTAGCTTAGTCCAGATCATTCCTTATG
* * *
15804970 ACTCATGGTTTCATCTCGATCATTTATTTTCGATCTTGAT--TCCTGATCACCTCATTTTTTATT
65 ACTCATGGTTTCATCTCGATCATTTATTTTCGACCTTGATCGTCCTGGTCACCTCATTTTTGA-T
* * * * * * *
15805033 TGTGGTTTCGT-CTCGTTCACTTGATCTTGGGTTAGTCCAAATCATTTCTTATGACTCGTAGTTC
129 TGTGATTTCGTCCT-GTT-ACTTGATCTTGGCTTAGTCTAGATCATTCCTTATGACTCATGGTTC
** *
15805097 TATCCTAGTCATTTATTTTCGACCTCGACTTAG-TCTTGGTCACC
192 TATCCTA-TCATTTATTTTCGACCTCGACTCGGTTC-TAGTCACC
* ** * * *
15805141 TCATTTTTGACTTAT-AGTTTTGTCCCAGTCACTTGATCTTGGCTTAGTCCAGATCATTCTTTTT
1 TCATTTTTGACTCATGA-TTTCAT-CCAGTCACTTGATCTTAGCTTAGTCCAGATCATTCCTTAT
* * * *
15805205 GACTCGTGGTTCCGTCTCAATCATTTATTTT
64 GACTCATGGTTTCATCTCGATCATTTATTTT
15805236 TTACTTCGAC
Statistics
Matches: 484, Mismatches: 70, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
235 7 0.01
236 185 0.38
237 2 0.00
238 8 0.02
239 192 0.40
240 88 0.18
241 2 0.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (234 bp):
TCATTTTTGACTCATGATTTCATCCAGTCACTTGATCTTAGCTTAGTCCAGATCATTCCTTATGA
CTCATGGTTTCATCTCGATCATTTATTTTCGACCTTGATCGTCCTGGTCACCTCATTTTTGATTG
TGATTTCGTCCTGTTACTTGATCTTGGCTTAGTCTAGATCATTCCTTATGACTCATGGTTCTATC
CTATCATTTATTTTCGACCTCGACTCGGTTCTAGTCACC
Found at i:15805141 original size:236 final size:237
Alignment explanation
Indices: 15804426--15805235 Score: 839
Period size: 236 Copynumber: 3.4 Consensus size: 237
15804416 ATTTCAAACT
* * * * * *
15804426 TCATTTTTGACTCGTGATTTCATCTCGGTCACTTTATCTTAGCTTACTCCAAATCATTCCTTATG
1 TCATTTTTGACTCATGATTTCATCCCAGTCACTTGATCTTAGCTTAGTCCAGATCATTCCTTATG
* * * *
15804491 ACTCATAGTTTCATCTCGATCATTTATTTTCGACCATGACTCGGTCCTGGTCGCCTTATTTTTGA
66 ACTCATGGTTTCATCTCGATCATTTATTTTCGACCTTGA-T--GTCCTGGTCACCTCATTTTTGA
* * * * * * * * *
15804556 CTTGTGATTTTGTCTTGGTCACTTAATCTTGGCTCAATCCTGATCA-TTCTTTATGACTCATGAT
128 TTTGTGATTTCGTCTCGTTCACTTGATCTTGGCTTAGTCCAGATCATTTC-TTATGACTCAT-AG
* * * ** *
15804620 TTC-ATCCCAATAATTTATTTTTAACCTCGACTCGGT-TCTAGTCATC
191 TTCTATCCTAGTCATTTATTTTCGACCTCGACTCGGTCT-TAGTCACC
* * * *
15804666 TCATTTTTGACTCGTGGTTTCGT--CATGATCACTTGATCTTAGCTTAGTCTAGATCATTCCTTA
1 TCATTTTTGACTCATGATTTCATCCCA-G-TCACTTGATCTTAGCTTAGTCCAGATCATTCCTTA
* ** * *
15804729 TGACTCGTGGTTTTGTCTCGATAATTTATTTTTGACCTTGATCGATCCTGGTCACCTCATTTTTG
64 TGACTCATGGTTTCATCTCGATCATTTATTTTCGACCTTGAT-G-TCCTGGTCACCTCATTTTTG
* * * * *
15804794 ATTCGTGCTTTCGTC-CTGATT-ACTTGATCTTGGCTTAGTCTAGATCATTCCTTATGACTCATG
127 ATTTGTGATTTCGTCTC-G-TTCACTTGATCTTGGCTTAGTCCAGATCATTTCTTATGACTCATA
* * *
15804857 GTTCTATACT-GATCATTTATTTTCGACCTCAACTCGGTCCTAGTCACC
190 GTTCTATCCTAG-TCATTTATTTTCGACCTCGACTCGGTCTTAGTCACC
* * *
15804905 TCATTTTTGACTTATGATTTCATCCCAGTCACTTGATCTTAGCTTAGTCTAGATCATTTCTTATG
1 TCATTTTTGACTCATGATTTCATCCCAGTCACTTGATCTTAGCTTAGTCCAGATCATTCCTTATG
* * *
15804970 ACTCATGGTTTCATCTCGATCATTTATTTTCGATCTTGAT-TCCTGATCACCTCATTTTTTATTT
66 ACTCATGGTTTCATCTCGATCATTTATTTTCGACCTTGATGTCCTGGTCACCTCATTTTTGATTT
* * * *
15805034 GTGGTTTCGTCTCGTTCACTTGATCTTGGGTTAGTCCAAATCATTTCTTATGACTCGTAGTTCTA
131 GTGATTTCGTCTCGTTCACTTGATCTTGGCTTAGTCCAGATCATTTCTTATGACTCATAGTTCTA
** *
15805099 TCCTAGTCATTTATTTTCGACCTCGACTTAGTCTTGGTCACC
196 TCCTAGTCATTTATTTTCGACCTCGACTCGGTCTTAGTCACC
* ** * * *
15805141 TCATTTTTGACTTAT-AGTTTTGTCCCAGTCACTTGATCTTGGCTTAGTCCAGATCATTCTTTTT
1 TCATTTTTGACTCATGA-TTTCATCCCAGTCACTTGATCTTAGCTTAGTCCAGATCATTCCTTAT
* * * *
15805205 GACTCGTGGTTCCGTCTCAATCATTTATTTT
65 GACTCATGGTTTCATCTCGATCATTTATTTT
15805236 TTACTTCGAC
Statistics
Matches: 477, Mismatches: 78, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
235 3 0.01
236 190 0.40
237 2 0.00
238 5 0.01
239 185 0.39
240 90 0.19
241 2 0.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (237 bp):
TCATTTTTGACTCATGATTTCATCCCAGTCACTTGATCTTAGCTTAGTCCAGATCATTCCTTATG
ACTCATGGTTTCATCTCGATCATTTATTTTCGACCTTGATGTCCTGGTCACCTCATTTTTGATTT
GTGATTTCGTCTCGTTCACTTGATCTTGGCTTAGTCCAGATCATTTCTTATGACTCATAGTTCTA
TCCTAGTCATTTATTTTCGACCTCGACTCGGTCTTAGTCACC
Found at i:15805325 original size:475 final size:477
Alignment explanation
Indices: 15804426--15805358 Score: 1035
Period size: 475 Copynumber: 2.0 Consensus size: 477
15804416 ATTTCAAACT
* * * *
15804426 TCATTTTTGACTCGTGATTTCATCTCGGTCACTTTATCTTAGCTTACTCCAAATCATTCCTTATG
1 TCATTTTTGACTCATGATTTCATCCCAGTCACTTGATCTTAGCTTACTCCAAATCATTCCTTATG
* * *
15804491 ACTCATAGTTTCATCTCGATCATTTATTTTCGACCATGACTCGGTCCTGGTCGCCTTATTTTTGA
66 ACTCATAGTTTCATCTCGATCATTTATTTTCGACCATGACT--GTCCTGATCACCTCATTTTTGA
* * ** *
15804556 CTTGTGATTTTGTCTTGGTCACTTAATCTTGGCTCAATCCTGATCATTCTTTATGACTCATGATT
129 CTTGTGATTTCGTCTCGGTCACTTAATCTTGGCTCAATCCAAATCATTCTTTATGACTCATGAGT
* * * * *
15804621 TCATCCCAATAATTTATTTTTAACCTCGACTCGGTTCTAGTCATCTCATTTTTGACTCGTGGTTT
194 TCATCCCAATAATTTATTTTCAACCTCGACTCAGTTCTAGTCACCTCATTTTTGACTCATAGTTT
* ** *
15804686 CGTCATGATCACTTGATCTTAGCTTAGTCTAGATCATTCCTTATGACTCGTGGTTTTGTCTCGAT
259 CGTCATGATCACTTGATCTTAGCTTAGTCCAGATCATTCCTTATGACTCGTGGTTCCGTCTCAAT
* * * * *
15804751 AATTTATTTTTGACCTTGATCGATCCTGGTCACCTCATTTTTGATTCGTGCTTTCGTCCTGATTA
324 AATTTATTTTTGACCTTGATCAATCCTGGTCACCTCATTTTTGACTCGTGCTTTCATCCCGATCA
* * * * *
15804816 CTTGATCTTGGCTTAGTCTAGATCATTCCTTATGACTCATGG-TTCTATACTGATCATTTATTTT
389 CTCGATCTTAGCTCAGTCCAGATCATTCCTTATGACTCATGGTTTC-ATACTGATAATTTATTTT
15804880 CGACCTCAACTCGGTCCTAGTCACC
453 CGACCTCAACTCGGTCCTAGTCACC
* * * * *
15804905 TCATTTTTGACTTATGATTTCATCCCAGTCACTTGATCTTAGCTTAGTCTAGATCATTTCTTATG
1 TCATTTTTGACTCATGATTTCATCCCAGTCACTTGATCTTAGCTTACTCCAAATCATTCCTTATG
* * * * *
15804970 ACTCATGGTTTCATCTCGATCATTTATTTTCGATCTTGA-T-TCCTGATCACCTCATTTTTTATT
66 ACTCATAGTTTCATCTCGATCATTTATTTTCGACCATGACTGTCCTGATCACCTCATTTTTGACT
* * * * * * *
15805033 TGTGGTTTCGTCTCGTTCACTTGATCTTGGGTTAGTCCAAATCATT-TCTTATGACTCGT-AGTT
131 TGTGATTTCGTCTCGGTCACTTAATCTTGGCTCAATCCAAATCATTCT-TTATGACTCATGAGTT
* * * * * * *
15805096 CTATCCTAGTCATTTATTTTCGACCTCGACTTAG-TCTTGGTCACCTCATTTTTGACTTATAGTT
195 C-ATCCCAATAATTTATTTTCAACCTCGACTCAGTTC-TAGTCACCTCATTTTTGACTCATAGTT
* * * *
15805160 TTGTCCCA-G-TCACTTGATCTTGGCTTAGTCCAGATCATTCTTTTTGACTCGTGGTTCCGTCTC
258 TCGT--CATGATCACTTGATCTTAGCTTAGTCCAGATCATTCCTTATGACTCGTGGTTCCGTCTC
* * * * * ** *
15805223 AATCATTTATTTTTTA-CTTCGACTTAATCTTGG-CTA-TTTGTTTTTGACTCGTGGTTTCATCC
321 AATAATTTATTTTTGACCTT-GA-TCAATCCTGGTC-ACCTCATTTTTGACTCGTGCTTTCATCC
* * * *
15805285 CGATCAC-CGAATCTTAGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCATCCTGGTAATT
383 CGATCACTCG-ATCTTAGCTCAGTCCAGATCATTCCTTATGACTCATGGTTTCATACTGATAATT
15805349 TATTTTCGAC
447 TATTTTCGAC
15805359 TTCGACTTGA
Statistics
Matches: 373, Mismatches: 71, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
474 11 0.03
475 255 0.68
476 12 0.03
477 2 0.01
478 1 0.00
479 92 0.25
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (477 bp):
TCATTTTTGACTCATGATTTCATCCCAGTCACTTGATCTTAGCTTACTCCAAATCATTCCTTATG
ACTCATAGTTTCATCTCGATCATTTATTTTCGACCATGACTGTCCTGATCACCTCATTTTTGACT
TGTGATTTCGTCTCGGTCACTTAATCTTGGCTCAATCCAAATCATTCTTTATGACTCATGAGTTC
ATCCCAATAATTTATTTTCAACCTCGACTCAGTTCTAGTCACCTCATTTTTGACTCATAGTTTCG
TCATGATCACTTGATCTTAGCTTAGTCCAGATCATTCCTTATGACTCGTGGTTCCGTCTCAATAA
TTTATTTTTGACCTTGATCAATCCTGGTCACCTCATTTTTGACTCGTGCTTTCATCCCGATCACT
CGATCTTAGCTCAGTCCAGATCATTCCTTATGACTCATGGTTTCATACTGATAATTTATTTTCGA
CCTCAACTCGGTCCTAGTCACC
Found at i:15805563 original size:5 final size:5
Alignment explanation
Indices: 15805553--15805625 Score: 60
Period size: 5 Copynumber: 14.2 Consensus size: 5
15805543 TAGTATTATC
*
15805553 ATATT ATATT ATA-T -TATT ATAATA ATATT ATTATT ATTATT ACTATT
1 ATATT ATATT ATATT ATATT AT-ATT ATATT A-TATT A-TATT A-TATT
* * *
15805600 ATATT ATATT AGAGT ATAGT ATATT A
1 ATATT ATATT ATATT ATATT ATATT A
15805626 ATATAACAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 33 0.58
6 20 0.35
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:15805572 original size:3 final size:3
Alignment explanation
Indices: 15805541--15805610 Score: 53
Period size: 3 Copynumber: 25.3 Consensus size: 3
15805531 GGCTATTTTC
* * * *
15805541 ATT AGT ATT ATC A-T ATT A-T ATT A-T ATT ATT A-T AAT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
15805585 ATT ATT ATT ACT ATT A-T ATT A-T ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
15805611 GAGTATAGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
2 11 0.20
3 43 0.80
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:15807985 original size:19 final size:20
Alignment explanation
Indices: 15807938--15807978 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
15807928 TTTCACTCCA
15807938 TTTTC-TATTTTGATTCTAT
1 TTTTCTTATTTTGATTCTAT
15807957 TTTTCTTATTTTG-TT-TAT
1 TTTTCTTATTTTGATTCTAT
15807975 TTTT
1 TTTT
15807979 ATTTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 7 0.33
20 7 0.33
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTCTTATTTTGATTCTAT
Found at i:15813251 original size:18 final size:18
Alignment explanation
Indices: 15813229--15813290 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
15813219 ATCATATAAC
15813229 TATATAATATCATGCAAA
1 TATATAATATCATGCAAA
*
15813247 CATAT--TATCATGCAAA
1 TATATAATATCATGCAAA
* * *
15813263 TATAAAATACCATACAAA
1 TATATAATATCATGCAAA
15813281 TATATTAATA
1 TATA-TAATA
15813291 ACCATTCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 14 0.40
18 17 0.49
19 4 0.11
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (18 bp):
TATATAATATCATGCAAA
Found at i:15813464 original size:24 final size:24
Alignment explanation
Indices: 15813418--15813465 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15813408 TATTATATTA
*
15813418 ATCATGCAATAACATTAATATCAT
1 ATCATGCAATAACATTAAAATCAT
*
15813442 ATCATGTAATAAC-TATAAAATCAT
1 ATCATGCAATAACAT-TAAAATCAT
15813466 GCAATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (24 bp):
ATCATGCAATAACATTAAAATCAT
Found at i:15813560 original size:20 final size:20
Alignment explanation
Indices: 15813527--15813596 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
15813517 TCACACAAAT
15813527 AAATAAAT-TAATAATCATGC
1 AAATAAATAT-ATAATCATGC
*
15813547 AATTAAATATATAATCATGC
1 AAATAAATATATAATCATGC
15813567 AAAT-AATAATATAAATCATGC
1 AAATAAAT-ATAT-AATCATGC
15813588 AAATAAATA
1 AAATAAATA
15813597 GAAAATTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.07
20 24 0.55
21 14 0.32
22 3 0.07
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATAAATATATAATCATGC
Found at i:15813585 original size:21 final size:21
Alignment explanation
Indices: 15813527--15813594 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
15813517 TCACACAAAT
*
15813527 AAATAAATTA-ATAATCATGC
1 AAATAAAATATATAATCATGC
*
15813547 -AATTAAATATATAATCATGC
1 AAATAAAATATATAATCATGC
15813567 AAATAATAATATA-AATCATGC
1 AAATAA-AATATATAATCATGC
15813588 AAATAAA
1 AAATAAA
15813595 TAGAAAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.17
20 11 0.26
21 18 0.43
22 6 0.14
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.29
Consensus pattern (21 bp):
AAATAAAATATATAATCATGC
Found at i:15813777 original size:41 final size:41
Alignment explanation
Indices: 15813732--15813867 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
15813722 ATGCAAATAG
* * *
15813732 ACATGCAAGTAAATATAAAATCAT-GTAATTAACAATGTAAA
1 ACATGCAAATAAATATAAAATCATACTAA-TAACAATATAAA
* *
15813773 ACATGCAATTAAATATATAATCATACTAATAACAATATAAA
1 ACATGCAAATAAATATAAAATCATACTAATAACAATATAAA
* * ** * * *
15813814 TCATGCAAATAAACATGCAATTA-AATATATAATAATATAAA
1 ACATGCAAATAAATATAAAATCATACTA-ATAACAATATAAA
*
15813855 TCATGCAAATAAA
1 ACATGCAAATAAA
15813868 CATGCAATTA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.04
41 75 0.93
42 3 0.04
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.28
Consensus pattern (41 bp):
ACATGCAAATAAATATAAAATCATACTAATAACAATATAAA
Found at i:15813824 original size:21 final size:21
Alignment explanation
Indices: 15813743--15813825 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
15813733 CATGCAAGTA
* *
15813743 AATATAAAATCATGTAATTAAC
1 AATAT-AAATCATGCAAATAAC
* * *
15813765 AATGTAAAACATGC-AATTA-
1 AATATAAATCATGCAAATAAC
* *
15813784 AATATATAATCATACTAATAAC
1 AATATA-AATCATGCAAATAAC
15813806 AATATAAATCATGCAAATAA
1 AATATAAATCATGCAAATAA
15813826 ACATGCAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
19 5 0.11
20 9 0.19
21 23 0.49
22 10 0.21
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (21 bp):
AATATAAATCATGCAAATAAC
Found at i:15813868 original size:41 final size:41
Alignment explanation
Indices: 15813801--15813890 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
15813791 AATCATACTA
*
15813801 ATAACAATATAAATCATGCAAATAAACATGCAATTAAATAT
1 ATAATAATATAAATCATGCAAATAAACATGCAATTAAATAT
15813842 ATAATAATATAAATCATGCAAATAAACATGCAATTAAATAT
1 ATAATAATATAAATCATGCAAATAAACATGCAATTAAATAT
15813883 ATAATAAT
1 ATAATAAT
15813891 CATGTAATCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (41 bp):
ATAATAATATAAATCATGCAAATAAACATGCAATTAAATAT
Found at i:15814016 original size:20 final size:20
Alignment explanation
Indices: 15813991--15814028 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15813981 CAAATAAATT
*
15813991 ATCATGCAAGTATAATATGA
1 ATCATGCAAATATAATATGA
15814011 ATCATGCAAATATAATAT
1 ATCATGCAAATATAATAT
15814029 TAGTCATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (20 bp):
ATCATGCAAATATAATATGA
Found at i:15814035 original size:20 final size:19
Alignment explanation
Indices: 15813984--15814041 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
15813974 TATTAAGCAA
*
15813984 ATAA-ATTATCATGCAAGT
1 ATAATATTATCATGCAAAT
*
15814002 ATAATATGAATCATGCAAAT
1 ATAATAT-TATCATGCAAAT
*
15814022 ATAATATTAGTCATACAAAT
1 ATAATATTA-TCATGCAAAT
15814042 TCATGCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.12
19 3 0.09
20 26 0.79
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (19 bp):
ATAATATTATCATGCAAAT
Found at i:15816578 original size:29 final size:29
Alignment explanation
Indices: 15816523--15816579 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
15816513 AATAAAAAGA
*
15816523 AGAAGATAGAAGAAATAGATCAGAGAATG
1 AGAAGATAGAAGAAATAGATCAAAGAATG
* *
15816552 AGAAGCTAGAAGAAATAGATTAAAGAAT
1 AGAAGATAGAAGAAATAGATCAAAGAAT
15816580 TAGAGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.56, C:0.04, G:0.25, T:0.16
Consensus pattern (29 bp):
AGAAGATAGAAGAAATAGATCAAAGAATG
Found at i:15818851 original size:20 final size:21
Alignment explanation
Indices: 15818826--15818866 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15818816 ACCATACTTT
15818826 TTTTAAAAAT-TTTTTTATGA
1 TTTTAAAAATATTTTTTATGA
**
15818846 TTTTAAATTTATTTTTTATGA
1 TTTTAAAAATATTTTTTATGA
15818867 GATCTATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTAAAAATATTTTTTATGA
Found at i:15819034 original size:20 final size:22
Alignment explanation
Indices: 15819004--15819056 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
15818994 CGAGCTATTT
15819004 TCTTCTTTTTAATCT-C-TTTAC
1 TCTT-TTTTTAATCTACTTTTAC
*
15819025 TCTTTTTTT-ATTTACTTTTAC
1 TCTTTTTTTAATCTACTTTTAC
*
15819046 TTTTTTTTTAA
1 TCTTTTTTTAA
15819057 ATCTTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.11
20 6 0.22
21 17 0.63
22 1 0.04
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (22 bp):
TCTTTTTTTAATCTACTTTTAC
Found at i:15821071 original size:18 final size:17
Alignment explanation
Indices: 15821050--15821105 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
15821040 AATAATAACA
15821050 ATCATATAAATATATAAT
1 ATCATA-AAATATATAAT
*
15821068 ATCATGAAAATATAAAAT
1 ATCAT-AAAATATATAAT
15821086 A-CTATACAAATATATTAAT
1 ATC-ATA-AAATATA-TAAT
15821105 A
1 A
15821106 ACCATTCATG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 2 0.06
18 25 0.78
19 5 0.16
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (17 bp):
ATCATAAAATATATAAT
Found at i:15821100 original size:36 final size:36
Alignment explanation
Indices: 15821014--15821105 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 36
15821004 TGCAAGAATG
* *
15821014 TCATGCAAATATATTAATTATCATGCAATAATAACAA
1 TCATACAAATATATTAA-TATCATGCAATAATAAAAA
*
15821051 TCATATAAATATA-TAATATCATG-AA-AATATAAAA
1 TCATACAAATATATTAATATCATGCAATAATA-AAAA
15821085 TACTATACAAATATATTAATA
1 T-C-ATACAAATATATTAATA
15821106 ACCATTCATG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
33 4 0.09
34 6 0.13
35 8 0.17
36 13 0.28
37 16 0.34
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (36 bp):
TCATACAAATATATTAATATCATGCAATAATAAAAA
Found at i:15821490 original size:32 final size:33
Alignment explanation
Indices: 15821409--15821474 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
15821399 TTAGATATAT
15821409 AATAATACA-AATAATAATATAAATCAATCATGC
1 AATAATA-ATAATAATAATATAAATCAATCATGC
15821442 AATAATAATAATAATAA-ATAAAT-AATCATGC
1 AATAATAATAATAATAATATAAATCAATCATGC
15821473 AA
1 AA
15821475 ATAGGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 10 0.31
32 7 0.22
33 15 0.47
ACGTcount: A:0.61, C:0.09, G:0.03, T:0.27
Consensus pattern (33 bp):
AATAATAATAATAATAATATAAATCAATCATGC
Found at i:15821594 original size:185 final size:183
Alignment explanation
Indices: 15821251--15821619 Score: 471
Period size: 185 Copynumber: 2.0 Consensus size: 183
15821241 ATAACTATAA
*
15821251 AATCATGCAATAATAATAAATAAATAAATAACTATGCAAATAAATATATTAATAATCATACAGTC
1 AATCATGCAATAATAATAAATAAATAAATAACTATGCAAATAAATATATTAATAATCATACAATC
* * * * *
15821316 ACGCAAATAAATAAATTAATAATCGTGCAATTAAATATATAATCATATAAATAATAATATAAATT
66 ACACAAATAAATAAATTAATAATCATGCAAATAAACATACAATCATATAAATAATAATATAAATT
* *
15821381 ATGCAAATAAACATACAATTAGATATATAATAATACAAATAATAATATAAATC
131 ATACAAATAAACATACAATTAAATATATAATAATACAAATAATAATATAAATC
**
15821434 AATCATGCAATAATAATAATAATAAATAAATAA-TCATGCAAATAGGTATATTAATAATCATACA
1 AATCATGCAATAATAAT-A-AATAAATAAATAACT-ATGCAAATAAATATATTAATAATCATACA
* *
15821498 ATCACACAAATAAATAAATTAATAATCATGCAAATAGACATGCAA-C---TAAATATATAATCAT
63 ATCACACAAATAAATAAATTAATAATCATGCAAATAAACATACAATCATATAAATA-ATAAT-AT
* * * * *
15821559 ACAATTA-ACAATGTAAAACATGCAATTAAATATATAATTATGCTAATAATAATATAAATC
126 A-AATTATACAA-AT-AAACATACAATTAAATATATAATAATACAAATAATAATATAAATC
15821619 A
1 A
15821620 TGCATATAAA
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
181 6 0.04
182 5 0.03
183 23 0.14
184 9 0.06
185 118 0.73
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (183 bp):
AATCATGCAATAATAATAAATAAATAAATAACTATGCAAATAAATATATTAATAATCATACAATC
ACACAAATAAATAAATTAATAATCATGCAAATAAACATACAATCATATAAATAATAATATAAATT
ATACAAATAAACATACAATTAAATATATAATAATACAAATAATAATATAAATC
Found at i:15821622 original size:41 final size:41
Alignment explanation
Indices: 15821535--15821623 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
15821525 ATGCAAATAG
*
15821535 ACATGCAACTAAATATATAATCATACAATTAACAATGTAAA
1 ACATGCAACTAAATATATAATCATACAATTAACAATATAAA
* * * *
15821576 ACATGCAATTAAATATATAATTATGCTAA-TAATAATATAAA
1 ACATGCAACTAAATATATAATCATAC-AATTAACAATATAAA
*
15821617 TCATGCA
1 ACATGCA
15821624 TATAAACATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (41 bp):
ACATGCAACTAAATATATAATCATACAATTAACAATATAAA
Found at i:15821628 original size:21 final size:22
Alignment explanation
Indices: 15821546--15821622 Score: 56
Period size: 21 Copynumber: 3.7 Consensus size: 22
15821536 CATGCAACTA
* *
15821546 AATATATAATCATAC-AATTAAC
1 AATATATAATCATGCTAA-TAAT
* * *
15821568 AATGTA-AAACATGC-AATTA-
1 AATATATAATCATGCTAATAAT
*
15821587 AATATATAATTATGCTAATAAT
1 AATATATAATCATGCTAATAAT
15821609 AATATA-AATCATGC
1 AATATATAATCATGC
15821623 ATATAAACAT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
19 5 0.12
20 8 0.19
21 19 0.44
22 11 0.26
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.32
Consensus pattern (22 bp):
AATATATAATCATGCTAATAAT
Found at i:15821647 original size:52 final size:53
Alignment explanation
Indices: 15821574--15821702 Score: 170
Period size: 52 Copynumber: 2.5 Consensus size: 53
15821564 TAACAATGTA
* * * * * *
15821574 AAACATGCAATTAAATATATAATTATGCTAATAATAATATAAATCATGCATAT
1 AAACATGAAATTAAATATATAATAATACAAATAACAATATAAATCATGCAAAT
*
15821627 AAACAT-AAATTAAATGTATAATAATACAAATAACAATATAAATCATGCAAAT
1 AAACATGAAATTAAATATATAATAATACAAATAACAATATAAATCATGCAAAT
* *
15821679 AAATATGCAATTAAATATATAATA
1 AAACATGAAATTAAATATATAATA
15821703 GTCATGCAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 44 0.68
53 21 0.32
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.31
Consensus pattern (53 bp):
AAACATGAAATTAAATATATAATAATACAAATAACAATATAAATCATGCAAAT
Found at i:15821691 original size:93 final size:94
Alignment explanation
Indices: 15821521--15821691 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 94
15821511 ATAAATTAAT
* * * * * *
15821521 AATCATGCAAATAGACATGCAACTAAATATATAATCATACAATTAACAATGTAAAACATGCAATT
1 AATCATGCAAATAAACATGAAACTAAATATATAATAATACAAATAACAATATAAAACATGCAAAT
*
15821586 AAATATATAATTATGCTAATAATAATATA
66 AAATATACAATTATGCTAATAATAATATA
* * * *
15821615 AATCATGCATATAAACAT-AAATTAAATGTATAATAATACAAATAACAATATAAATCATGCAAAT
1 AATCATGCAAATAAACATGAAACTAAATATATAATAATACAAATAACAATATAAAACATGCAAAT
*
15821679 AAATATGCAATTA
66 AAATATACAATTA
15821692 AATATATAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
93 49 0.75
94 16 0.25
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (94 bp):
AATCATGCAAATAAACATGAAACTAAATATATAATAATACAAATAACAATATAAAACATGCAAAT
AAATATACAATTATGCTAATAATAATATA
Found at i:15821769 original size:24 final size:24
Alignment explanation
Indices: 15821717--15821769 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 24
15821707 TGCAATCACA
*
15821717 CAAATAAACAAACTGATAATCATG
1 CAAATAAATAAACTGATAATCATG
15821741 CAAATAAAT----TGATAATCATG
1 CAAATAAATAAACTGATAATCATG
15821761 CAAATAAAT
1 CAAATAAAT
15821770 TAATAATCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 20 0.71
24 8 0.29
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.25
Consensus pattern (24 bp):
CAAATAAATAAACTGATAATCATG
Found at i:15821785 original size:40 final size:41
Alignment explanation
Indices: 15821732--15821813 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
15821722 AAACAAACTG
* **
15821732 ATAATCATGCAAATAAATTGAT-AATCATGCAAATAAATTA
1 ATAATCATGCAAATAAATTAATAAATCACACAAATAAATTA
* * *
15821772 ATAATCGTGCAAATATATTAATAAATCACACAAATATATTA
1 ATAATCATGCAAATAAATTAATAAATCACACAAATAAATTA
15821813 A
1 A
15821814 CCATGCAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
40 19 0.54
41 16 0.46
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.30
Consensus pattern (41 bp):
ATAATCATGCAAATAAATTAATAAATCACACAAATAAATTA
Found at i:15821791 original size:20 final size:20
Alignment explanation
Indices: 15821732--15821795 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
15821722 AAACAAACTG
*
15821732 ATAATCATGCAAATAAATTG
1 ATAATCATGCAAATAAATTA
15821752 ATAATCATGCAAATAAATTA
1 ATAATCATGCAAATAAATTA
* *
15821772 ATAATCGTGCAAATATATTA
1 ATAATCATGCAAATAAATTA
15821792 ATAA
1 ATAA
15821796 ATCACACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.31
Consensus pattern (20 bp):
ATAATCATGCAAATAAATTA
Found at i:15822907 original size:54 final size:55
Alignment explanation
Indices: 15822799--15822911 Score: 192
Period size: 56 Copynumber: 2.1 Consensus size: 55
15822789 TGTGATATGG
15822799 TTTAAAATTTTAGTAATGACTATATATATGGATTTGACAAAAAAAAAATGTCATAT
1 TTTAAAATTTTAGTAATGACTATATATATGGATTTGA-AAAAAAAAAATGTCATAT
* *
15822855 TTTAAAATTTTAGTAATGACTATATATATGGATTTG-ATAAAAAAAATTTCATAT
1 TTTAAAATTTTAGTAATGACTATATATATGGATTTGAAAAAAAAAAATGTCATAT
15822909 TTT
1 TTT
15822912 CGTGTCGATA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
54 19 0.35
56 36 0.65
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (55 bp):
TTTAAAATTTTAGTAATGACTATATATATGGATTTGAAAAAAAAAAATGTCATAT
Found at i:15823533 original size:29 final size:29
Alignment explanation
Indices: 15823478--15823538 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
15823468 ACTAAAAAGA
**
15823478 AGAAGATAGAAGAAATAGATCCGAGAATG
1 AGAAGATAGAAGAAATAGATCAAAGAATG
* *
15823507 AGAAGCTAGAAGAAATAGATTAAAGAATG
1 AGAAGATAGAAGAAATAGATCAAAGAATG
15823536 AGA
1 AGA
15823539 GAGAAACAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.54, C:0.05, G:0.26, T:0.15
Consensus pattern (29 bp):
AGAAGATAGAAGAAATAGATCAAAGAATG
Found at i:15829699 original size:14 final size:14
Alignment explanation
Indices: 15829680--15829706 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15829670 TTTTTTAAAA
15829680 TTTTTTATTTTAAT
1 TTTTTTATTTTAAT
15829694 TTTTTTATTTTAA
1 TTTTTTATTTTAA
15829707 AATTGTTTTT
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTTATTTTAAT
Found at i:15829883 original size:20 final size:20
Alignment explanation
Indices: 15829858--15829897 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15829848 AATATCTTTT
15829858 CTTTTTCTTATTTTTATTTA
1 CTTTTTCTTATTTTTATTTA
* *
15829878 CTTTTTCTTCTTTTTTTTTA
1 CTTTTTCTTATTTTTATTTA
15829898 AAGTGTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (20 bp):
CTTTTTCTTATTTTTATTTA
Found at i:15830211 original size:25 final size:24
Alignment explanation
Indices: 15830183--15830233 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
15830173 CTCATTTTAA
*
15830183 TTTTT-AATTTTTCCTATTTACTTT
1 TTTTTGAATTTTTACTATTTA-TTT
* *
15830207 TTTTTGATTTTTTAGTATTTATTT
1 TTTTTGAATTTTTACTATTTATTT
15830231 TTT
1 TTT
15830234 ATTGGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTTTGAATTTTTACTATTTATTT
Found at i:15834693 original size:11 final size:11
Alignment explanation
Indices: 15834679--15834709 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15834669 TTGCTCACTG
15834679 TTTGCTCTTTC
1 TTTGCTCTTTC
*
15834690 TTTGCTTTTTC
1 TTTGCTCTTTC
15834701 TTTGCTCTT
1 TTTGCTCTT
15834710 GCTATTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.10, T:0.68
Consensus pattern (11 bp):
TTTGCTCTTTC
Found at i:15835075 original size:16 final size:17
Alignment explanation
Indices: 15835049--15835083 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
15835039 GGTCCTTGTA
15835049 ATAATTGCTGTGTTTAC
1 ATAATTGCTGTGTTTAC
15835066 ATAA-TGCTGTGTTTAC
1 ATAATTGCTGTGTTTAC
15835082 AT
1 AT
15835084 GACGTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (17 bp):
ATAATTGCTGTGTTTAC
Found at i:15835474 original size:34 final size:34
Alignment explanation
Indices: 15835431--15835499 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
15835421 GCTTTGGGAA
15835431 ATTTACATCTAAGCTGA-AGTCGTCAATGTCTATC
1 ATTTACATCTAAGCTGAGA-TCGTCAATGTCTATC
* *
15835465 ATTTACATCTGAGCTGAGATTGTCAATGTCTATC
1 ATTTACATCTAAGCTGAGATCGTCAATGTCTATC
15835499 A
1 A
15835500 ATCTTAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (34 bp):
ATTTACATCTAAGCTGAGATCGTCAATGTCTATC
Found at i:15841093 original size:32 final size:32
Alignment explanation
Indices: 15841050--15841122 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
15841040 GAGAGAAATG
15841050 TTGA-TTA-TTATGACATGATTAATGACATCA
1 TTGAGTTAGTTATGACATGATTAATGACATCA
15841080 TTGAGTTAGTTATGACATGATTAATGACATCA
1 TTGAGTTAGTTATGACATGATTAATGACATCA
15841112 TTGAGTTAGTT
1 TTGAGTTAGTT
15841123 TATTATGACA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 4 0.10
31 3 0.07
32 34 0.83
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (32 bp):
TTGAGTTAGTTATGACATGATTAATGACATCA
Found at i:15849240 original size:72 final size:71
Alignment explanation
Indices: 15849151--15849621 Score: 309
Period size: 71 Copynumber: 6.6 Consensus size: 71
15849141 TTGATATTGC
* *
15849151 AATTATATTTTCAAAATTCTAAAATTTTAACAAAAACCACATTTTTAGGATAAAATACATAATGG
1 AATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCACATTTTTAAGATAAAA-ACATAATGG
15849216 ATGTTGA
65 ATGTTGA
** * * * * * * *
15849223 AATTATATTTTTGAAATTCTAGAATTTTAATAAAGATTACTTTTTTAAGATAAAAAAATGTAGTG
1 AATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCACATTTTTAAGATAAAAACA--TAATG
*
15849288 GGTGTTGA
64 GATGTTGA
* * * *
15849296 AACTT-TATTTTTGAAAATT-TAAAATTTTAATAAAAATCTCATTTTTAAGATAAAAACGTAATG
1 AA-TTATA-TTTTCAAAATTCTAAAATTTTAACAAAAATCACATTTTTAAGATAAAAACATAATG
15849359 GATGTT-A
64 GATGTTGA
* * ** * ** *
15849366 TAATTATATTTTCAAAATTCTGAAATTTTAACAAATATCATTTTTTTTAAGA-AAAAATATGGTA
1 -AATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCA-CATTTTTAAGATAAAAACATAATG
15849430 GATGTTG-
64 GATGTTGA
* * * * *
15849437 AACTACATTTTCGAAAATT-TGAAATTTTAACAAAAATCATATTTTTAAGA-AAAAATAT-AT-G
1 AATTATATTTTC-AAAATTCTAAAATTTTAACAAAAATCACATTTTTAAGATAAAAACATAATGG
* **
15849498 ACTATAAA
65 A-TGTTGA
* * ** * * * * ** *
15849506 AATTTTATTGTTGAAAATT-TAGCATTTTAACAAAGA-CTGCATGTTTAAAATAAAAATGTAATA
1 AATTATATT-TTCAAAATTCTAAAATTTTAACAAAAATC-ACATTTTTAAGATAAAAACATAATG
*
15849569 GATGTTAA
64 GATGTTGA
** * * *
15849577 AATTATATTTTTGAAATTTTGAAATCTTAAC-AAAATCCACATTTT
1 AATTATATTTTCAAAATTCTAAAATTTTAACAAAAAT-CACATTTT
15849622 CATAACAAAA
Statistics
Matches: 311, Mismatches: 68, Indels: 41
0.74 0.16 0.10
Matches are distributed among these distances:
67 2 0.01
68 4 0.01
69 51 0.16
70 61 0.20
71 77 0.25
72 58 0.19
73 47 0.15
74 11 0.04
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.40
Consensus pattern (71 bp):
AATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCACATTTTTAAGATAAAAACATAATGGA
TGTTGA
Found at i:15849412 original size:71 final size:71
Alignment explanation
Indices: 15849151--15849491 Score: 304
Period size: 72 Copynumber: 4.8 Consensus size: 71
15849141 TTGATATTGC
* * *
15849151 AATTATATTTTCAAAATTCTAAAATTTTAACAAAAACCACATTTTTAGGATAAAATACATAATGG
1 AATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCATATTTTTAAGATAAAA-ACATAATGG
15849216 ATGTTGA
65 ATGTTGA
** * * * * * *
15849223 AATTATATTTTTGAAATTCTAGAATTTTAATAAAGATTACT-TTTTTAAGATAAAAAAATGTAGT
1 AATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCA-TATTTTTAAGATAAAAACA--TAAT
*
15849287 GGGTGTTGA
63 GGATGTTGA
* * *
15849296 AACTT-TATTTTTGAAAATT-TAAAATTTTAATAAAAATC-TCATTTTTAAGATAAAAACGTAAT
1 AA-TTATA-TTTTCAAAATTCTAAAATTTTAACAAAAATCAT-ATTTTTAAGATAAAAACATAAT
15849358 GGATGTT-A
63 GGATGTTGA
* * * * ** *
15849366 TAATTATATTTTCAAAATTCTGAAATTTTAACAAATATCATTTTTTTTAAGA-AAAAATATGGTA
1 -AATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCA-TATTTTTAAGATAAAAACATAATG
15849430 GATGTTG-
64 GATGTTGA
* * *
15849437 AACTACATTTTCGAAAATT-TGAAATTTTAACAAAAATCATATTTTTAAGA-AAAAA
1 AATTATATTTTC-AAAATTCTAAAATTTTAACAAAAATCATATTTTTAAGATAAAAA
15849492 TATATGACTA
Statistics
Matches: 220, Mismatches: 35, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
69 15 0.07
70 42 0.19
71 51 0.23
72 54 0.25
73 47 0.21
74 11 0.05
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (71 bp):
AATTATATTTTCAAAATTCTAAAATTTTAACAAAAATCATATTTTTAAGATAAAAACATAATGGA
TGTTGA
Found at i:15852354 original size:2 final size:2
Alignment explanation
Indices: 15852347--15852372 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15852337 ATGCTCGGGA
15852347 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15852373 TTCTTGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15860699 original size:21 final size:21
Alignment explanation
Indices: 15860675--15860717 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15860665 TGTGTAAGTT
15860675 GATTCCTCCACTATATAAGAA
1 GATTCCTCCACTATATAAGAA
*
15860696 GATTCCTCCACTATATTAGAA
1 GATTCCTCCACTATATAAGAA
15860717 G
1 G
15860718 GCTCAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (21 bp):
GATTCCTCCACTATATAAGAA
Done.