Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 85 of 91
Found at i:14377887 original size:19 final size:19
Alignment explanation
Indices: 14377829--14377887 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
14377819 AACTAACATG
14377829 ATACGATATAAA-AAGATTA
1 ATACGAT-TAAATAAGATTA
* * * *
14377848 ATATGATTATATATGAATA
1 ATACGATTAAATAAGATTA
*
14377867 ATACGATTAAATACGATTA
1 ATACGATTAAATAAGATTA
14377886 AT
1 AT
14377888 TATTCAAATA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 3 0.10
19 28 0.90
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (19 bp):
ATACGATTAAATAAGATTA
Found at i:14378024 original size:27 final size:27
Alignment explanation
Indices: 14377972--14378024 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
14377962 TCAATCTATT
*
14377972 TATTTAAACAAAAAAATCATTTAAATAG
1 TATTTAAACAAAAAAATCA-TAAAATAG
*
14378000 TATTTAAATAAAAAAATTCA-AAAAT
1 TATTTAAACAAAAAAA-TCATAAAAT
14378025 TAAATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 4 0.18
28 15 0.68
29 3 0.14
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (27 bp):
TATTTAAACAAAAAAATCATAAAATAG
Found at i:14378475 original size:17 final size:16
Alignment explanation
Indices: 14378453--14378486 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14378443 GAAAGTAATA
14378453 TACAAATAAAATAAATT
1 TACAAA-AAAATAAATT
*
14378470 TACAAAATAATAAATT
1 TACAAAAAAATAAATT
14378486 T
1 T
14378487 TATTGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (16 bp):
TACAAAAAAATAAATT
Found at i:14381985 original size:29 final size:28
Alignment explanation
Indices: 14381921--14381991 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
14381911 ACTTTTTGTT
*
14381921 TAATAAAAATTTAATTGATAAAAATAAA
1 TAATAAAAATTTAATTAATAAAAATAAA
* * *
14381949 TATTTAAAAATTTAATTAATTATAATAAAA
1 TA-ATAAAAATTTAATTAATAAAAAT-AAA
14381979 TAAT-AAAATTTAA
1 TAATAAAAATTTAA
14381992 CATGGTTGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 11 0.31
29 20 0.56
30 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
TAATAAAAATTTAATTAATAAAAATAAA
Found at i:14382682 original size:26 final size:26
Alignment explanation
Indices: 14382653--14382707 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
14382643 AAAAATTTAT
*
14382653 AATAGTTCATTTTTAATGTGTCTCGA
1 AATAGTTCATTTTTAATGTGTCTCCA
14382679 AATAGTTCATTTTTAATGTGTCTCCA
1 AATAGTTCATTTTTAATGTGTCTCCA
14382705 AAT
1 AAT
14382708 TAGAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (26 bp):
AATAGTTCATTTTTAATGTGTCTCCA
Found at i:14382762 original size:22 final size:22
Alignment explanation
Indices: 14382734--14382775 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14382724 TCCGATGACT
* *
14382734 AAAGATTTATTTTGATAAAAAG
1 AAAGATTGATTATGATAAAAAG
14382756 AAAGATTGATTATGATAAAA
1 AAAGATTGATTATGATAAAA
14382776 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.33
Consensus pattern (22 bp):
AAAGATTGATTATGATAAAAAG
Found at i:14384233 original size:21 final size:21
Alignment explanation
Indices: 14384195--14384234 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14384185 TATGTCAAAT
*
14384195 ATAATTTTAGATATAATATAA
1 ATAATTTTACATATAATATAA
14384216 ATAATTTTTACATA-AATAT
1 ATAA-TTTTACATATAATAT
14384235 GATATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
ATAATTTTACATATAATATAA
Found at i:14384241 original size:22 final size:21
Alignment explanation
Indices: 14384193--14384241 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
14384183 TTTATGTCAA
*
14384193 ATATAATTTTAGATATAATAT
1 ATATAATTTTACATATAATAT
*
14384214 AAATAATTTTTACATA-AATAT
1 ATATAA-TTTTACATATAATAT
14384235 GATATAA
1 -ATATAA
14384242 ATATATGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATAATTTTACATATAATAT
Found at i:14384543 original size:28 final size:28
Alignment explanation
Indices: 14384484--14384546 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
14384474 TCAATCTATT
*
14384484 TATTTAAACAAAGAAATCATTTAAATTAA
1 TATTTAAACAAAGAAATCA-TAAAATTAA
14384513 TATTTAAACAAA-AAATTCA-AAAATTAAA
1 TATTTAAACAAAGAAA-TCATAAAATT-AA
14384541 TATTTA
1 TATTTA
14384547 TAATTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 5 0.16
28 11 0.35
29 15 0.48
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (28 bp):
TATTTAAACAAAGAAATCATAAAATTAA
Found at i:14388778 original size:19 final size:19
Alignment explanation
Indices: 14388754--14388797 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
14388744 CACTCGTGAG
*
14388754 TTTAATCAAATTTTTA-TAT
1 TTTAAT-AAATTTTAATTAT
*
14388773 TTTAATATATTTTAATTAT
1 TTTAATAAATTTTAATTAT
14388792 TTTAAT
1 TTTAAT
14388798 TAATAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATAAATTTTAATTAT
Found at i:14388783 original size:10 final size:10
Alignment explanation
Indices: 14388768--14388797 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14388758 ATCAAATTTT
14388768 TATATTTTAA
1 TATATTTTAA
14388778 TATATTTTAA
1 TATATTTTAA
14388788 T-TATTTTAA
1 TATATTTTAA
14388797 T
1 T
14388798 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:14388794 original size:9 final size:9
Alignment explanation
Indices: 14388770--14388799 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
14388760 CAAATTTTTA
14388770 TATTTTAAT
1 TATTTTAAT
14388779 ATATTTTAAT
1 -TATTTTAAT
14388789 TATTTTAAT
1 TATTTTAAT
14388798 TA
1 TA
14388800 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:14389436 original size:21 final size:20
Alignment explanation
Indices: 14389412--14389464 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
14389402 TTTTTAGTTA
14389412 TAAATTATTTATATATTTAAT
1 TAAATTATTTATATATTT-AT
* *
14389433 TAAA-TATTTTAAATATTTTT
1 TAAATTA-TTTATATATTTAT
*
14389453 TAATTTATTTAT
1 TAAATTATTTAT
14389465 TTTAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAAATTATTTATATATTTAT
Found at i:14391512 original size:17 final size:18
Alignment explanation
Indices: 14391481--14391514 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14391471 TAAGCCCACT
*
14391481 ATTTTGATATGAAAAAAA
1 ATTTTGATATAAAAAAAA
14391499 ATTTT-ATATAAAAAAA
1 ATTTTGATATAAAAAAA
14391515 TGTCTTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATTTTGATATAAAAAAAA
Found at i:14392550 original size:10 final size:10
Alignment explanation
Indices: 14392537--14392592 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
14392527 GATTAATCAC
14392537 TTATTAAAAT
1 TTATTAAAAT
**
14392547 TTATT--TTT
1 TTATTAAAAT
*
14392555 TTAATAAAAT
1 TTATTAAAAT
*
14392565 TT-TAAAAAT
1 TTATTAAAAT
14392574 TTATTAAAAT
1 TTATTAAAAT
14392584 TTATTAAAA
1 TTATTAAAA
14392593 ATTTTTTTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
8 5 0.14
9 7 0.20
10 23 0.66
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTATTAAAAT
Found at i:14392576 original size:19 final size:21
Alignment explanation
Indices: 14392554--14392596 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14392544 AATTTATTTT
14392554 TTTAATAAAA-TT-TTAAAAA
1 TTTAATAAAATTTATTAAAAA
*
14392573 TTTATTAAAATTTATTAAAAA
1 TTTAATAAAATTTATTAAAAA
14392594 TTT
1 TTT
14392597 TTTTTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 2 0.10
21 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAATAAAATTTATTAAAAA
Found at i:14392593 original size:11 final size:11
Alignment explanation
Indices: 14392566--14392596 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
14392556 TAATAAAATT
14392566 TTAAAAATTTA
1 TTAAAAATTTA
14392577 TT-AAAATTTA
1 TTAAAAATTTA
14392587 TTAAAAATTT
1 TTAAAAATTT
14392597 TTTTTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAAAATTTA
Found at i:14392675 original size:6 final size:6
Alignment explanation
Indices: 14392664--14392697 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
14392654 TTAACACCTC
*
14392664 CACATT CACATT CACATT CACATT CACATG CACA
1 CACATT CACATT CACATT CACATT CACATT CACA
14392698 CCTACAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.35, C:0.35, G:0.03, T:0.26
Consensus pattern (6 bp):
CACATT
Found at i:14393163 original size:15 final size:17
Alignment explanation
Indices: 14393143--14393175 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
14393133 ATATTTGAGT
14393143 TTGAATTT-T-ATTAAA
1 TTGAATTTATGATTAAA
14393158 TTGAATTTATGATTAAA
1 TTGAATTTATGATTAAA
14393175 T
1 T
14393176 AATTATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TTGAATTTATGATTAAA
Found at i:14395296 original size:28 final size:29
Alignment explanation
Indices: 14395243--14395318 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 29
14395233 ACTTTTTGTT
*
14395243 TAATAAAAATTTAATTGATAAAAAT-AAG
1 TAATAAAAATTTAATTGATAAAAATAAAA
* * ***
14395271 TATTAAAAATTTAATTGTTTCTAATAAAA
1 TAATAAAAATTTAATTGATAAAAATAAAA
*
14395300 TAATAAAAATTTAAGTGAT
1 TAATAAAAATTTAATTGAT
14395319 TATTAAATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 20 0.53
29 18 0.47
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (29 bp):
TAATAAAAATTTAATTGATAAAAATAAAA
Found at i:14395516 original size:16 final size:17
Alignment explanation
Indices: 14395495--14395528 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
14395485 ATGATAAATT
14395495 AATAAAATTT-AATTTG
1 AATAAAATTTAAATTTG
14395511 AATAAAATTTAAATTTG
1 AATAAAATTTAAATTTG
14395528 A
1 A
14395529 TTCGATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
AATAAAATTTAAATTTG
Found at i:14395650 original size:19 final size:20
Alignment explanation
Indices: 14395626--14395672 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
14395616 AATTCATGAA
*
14395626 TTTAATTAAATTTTTA-TAT
1 TTTAATTAAATTTTAATTAT
*
14395645 TTTAA-TATATTTTAATTAT
1 TTTAATTAAATTTTAATTAT
14395664 TTTAATTAA
1 TTTAATTAA
14395673 TAACATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.35
19 13 0.57
20 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTAAATTTTAATTAT
Found at i:14395653 original size:10 final size:10
Alignment explanation
Indices: 14395640--14395669 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14395630 ATTAAATTTT
14395640 TATATTTTAA
1 TATATTTTAA
14395650 TATATTTTAA
1 TATATTTTAA
14395660 T-TATTTTAA
1 TATATTTTAA
14395669 T
1 T
14395670 TAATAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:14395666 original size:9 final size:9
Alignment explanation
Indices: 14395642--14395671 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
14395632 TAAATTTTTA
14395642 TATTTTAAT
1 TATTTTAAT
14395651 ATATTTTAAT
1 -TATTTTAAT
14395661 TATTTTAAT
1 TATTTTAAT
14395670 TA
1 TA
14395672 ATAACATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:14396302 original size:21 final size:20
Alignment explanation
Indices: 14396278--14396330 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
14396268 TTTTTAGTTA
14396278 TAAATTATTTATATATTTAAT
1 TAAATTATTTATATATTT-AT
*
14396299 TAAA-TATTTTATATATTTTT
1 TAAATTA-TTTATATATTTAT
*
14396319 TAATTTATTTAT
1 TAAATTATTTAT
14396331 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAAATTATTTATATATTTAT
Found at i:14396313 original size:23 final size:23
Alignment explanation
Indices: 14396245--14396323 Score: 56
Period size: 23 Copynumber: 3.4 Consensus size: 23
14396235 AAAAATAACT
* *
14396245 TATTT-ATTTAATATTTTATAGGA
1 TATTTAATTAAATATTTTATA-TA
* *
14396268 TTTTTAGTTATAA-ATTATT-TATA
1 TATTTAATTA-AATATT-TTATATA
14396291 TATTTAATTAAATATTTTATATA
1 TATTTAATTAAATATTTTATATA
*
14396314 TTTTTTAATT
1 -TATTTAATT
14396324 TATTTATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
22 4 0.09
23 20 0.47
24 15 0.35
25 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TATTTAATTAAATATTTTATATA
Found at i:14398170 original size:23 final size:22
Alignment explanation
Indices: 14398121--14398171 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
14398111 AGTGAGGGAG
14398121 TAAAAATCGTCGCACCATTCAC
1 TAAAAATCGTCGCACCATTCAC
* *
14398143 TAAAAATCGTTGCATCATTCAC
1 TAAAAATCGTCGCACCATTCAC
14398165 TCAAAAA
1 T-AAAAA
14398172 AAGGAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.25
Consensus pattern (22 bp):
TAAAAATCGTCGCACCATTCAC
Found at i:14425126 original size:25 final size:25
Alignment explanation
Indices: 14425092--14425140 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
14425082 GAAAGGGAAG
14425092 ATTTTGGAGCTGAATTTGACGGAGA
1 ATTTTGGAGCTGAATTTGACGGAGA
14425117 ATTTTGGAGCTGAATTTGACGGAG
1 ATTTTGGAGCTGAATTTGACGGAG
14425141 TTTTGGTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.33
Consensus pattern (25 bp):
ATTTTGGAGCTGAATTTGACGGAGA
Found at i:14425725 original size:20 final size:18
Alignment explanation
Indices: 14425700--14425741 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
14425690 ATTTTATATA
*
14425700 AAATAATTTCAAAAATCAAT
1 AAATAATATC-AAAAT-AAT
14425720 AAATAATATCAAAATAAT
1 AAATAATATCAAAATAAT
14425738 AAAT
1 AAAT
14425742 TCAATTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 5 0.24
20 9 0.43
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAATATCAAAATAAT
Found at i:14426443 original size:23 final size:23
Alignment explanation
Indices: 14426399--14426443 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
14426389 GATTTTATAA
** *
14426399 ATTTAATATTTGAATGTAATTTG
1 ATTTAATATTAAAATATAATTTG
*
14426422 ATTTAATATTAAAATATTATTT
1 ATTTAATATTAAAATATAATTT
14426444 TTATATTTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (23 bp):
ATTTAATATTAAAATATAATTTG
Found at i:14426514 original size:19 final size:21
Alignment explanation
Indices: 14426490--14426534 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
14426480 TTTAAAATTA
14426490 ATAAAA-ATTAATTTTT-AAT
1 ATAAAATATTAATTTTTAAAT
*
14426509 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTAATTTTTAAAT
14426530 ATAAA
1 ATAAA
14426535 TTTAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATATTAATTTTTAAAT
Found at i:14426535 original size:20 final size:19
Alignment explanation
Indices: 14426487--14426539 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
14426477 CGATTTAAAA
14426487 TTAATA-AAA-ATTAATTT
1 TTAATATAAATATTAATTT
*
14426504 TTAATATAAAATATTATTTT
1 TTAATAT-AAATATTAATTT
14426524 TTAAATATAAAT-TTAA
1 TT-AATATAAATATTAA
14426540 ATATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 6 0.20
19 6 0.20
20 13 0.43
21 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATATAAATATTAATTT
Found at i:14426549 original size:14 final size:14
Alignment explanation
Indices: 14426523--14426559 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14426513 AATATTATTT
14426523 TTTAAATAT--AAA
1 TTTAAATATAAAAA
14426535 TTTAAATATAAAAA
1 TTTAAATATAAAAA
*
14426549 TATAAATATAA
1 TTTAAATATAA
14426560 CATTAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.41
14 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTAAATATAAAAA
Found at i:14426699 original size:15 final size:14
Alignment explanation
Indices: 14426660--14426696 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
14426650 AACCCAATTT
*
14426660 AAAACTTAATTTTA
1 AAAAATTAATTTTA
14426674 AAAAATTAATTTTA
1 AAAAATTAATTTTA
*
14426688 TAAAATTAA
1 AAAAATTAA
14426697 ATTAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATTAATTTTA
Found at i:14428358 original size:19 final size:19
Alignment explanation
Indices: 14428334--14428376 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
14428324 AATTTTATTT
*
14428334 TATAAAAATTAAAAATATA
1 TATAAAAATAAAAAATATA
14428353 TATAAAAATAAAAAATATA
1 TATAAAAATAAAAAATATA
14428372 TATAA
1 TATAA
14428377 TTCGATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAAAAATAAAAAATATA
Found at i:14428935 original size:18 final size:20
Alignment explanation
Indices: 14428912--14428948 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14428902 ACGGAATCGA
14428912 ATTTTTA-TA-TTTAAATAT
1 ATTTTTATTATTTTAAATAT
14428930 ATTTTTATTATTTTAAATA
1 ATTTTTATTATTTTAAATA
14428949 ATAAAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTATTATTTTAAATAT
Found at i:14436261 original size:125 final size:127
Alignment explanation
Indices: 14435918--14436296 Score: 445
Period size: 129 Copynumber: 3.0 Consensus size: 127
14435908 AACATTGTTT
** * *
14435918 CTTTATGATGGTCTGGCCTTTGTTATAACAGTATACACTGGCCATTGTTATTTTGAATTTCTGAT
1 CTTTATGATGACCTGGCCTTTGTTATAACAATATGCACTGGCCATTGTTATTTTGAATTTCTGAT
14435983 GGCTAAATAGCTAATTGCCTGATTCATTAGTTTTATGTTTAGTATATGAATGAGGGCCTAAGAAT
66 GGCTAAATAGCTAATTGCCTGATTCATTAGTTTTATGTTTAGTATATGAATGAGGGCCT----AT
*
14436048 G
127 A
* * * * *
14436049 CTTCTAGGATAACAAT-G--TTTCCTTAT---GATGATG-ACCTGGCCATTGTTATTTTGAATTT
1 CTT-TATGATGAC-CTGGCCTTT-GTTATAACAAT-ATGCA-CTGGCCATTGTTATTTTGAATTT
* *
14436107 CTGATGGCTAAATAGCTAATTGCCCGATTCATTTA-TTTTATGTGTAGTATATGAATGAGGGCCT
61 CTGATGGCTAAATAGCTAATTGCCTGATTCA-TTAGTTTTATGTTTAGTATATGAATGAGGGCCT
14436171 -TA
125 ATA
* * *
14436173 C-TTATGATGACCTGGCCTTTGTTATAACAATATGCACTAGCCATTGTTATCTTGAATTTATGAT
1 CTTTATGATGACCTGGCCTTTGTTATAACAATATGCACTGGCCATTGTTATTTTGAATTTCTGAT
* *
14436237 GGCTAAATAGCTAATTGCTTGATTCATTAGTTTTATGTTTGGTATATGAATGAGGGCCTA
66 GGCTAAATAGCTAATTGCCTGATTCATTAGTTTTATGTTTAGTATATGAATGAGGGCCTA
14436297 AGAATGCTTC
Statistics
Matches: 209, Mismatches: 24, Indels: 35
0.78 0.09 0.13
Matches are distributed among these distances:
121 1 0.00
122 8 0.04
123 5 0.02
124 8 0.04
125 79 0.38
126 3 0.01
128 2 0.01
129 83 0.40
130 6 0.03
131 7 0.03
132 6 0.03
133 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (127 bp):
CTTTATGATGACCTGGCCTTTGTTATAACAATATGCACTGGCCATTGTTATTTTGAATTTCTGAT
GGCTAAATAGCTAATTGCCTGATTCATTAGTTTTATGTTTAGTATATGAATGAGGGCCTATA
Found at i:14439390 original size:16 final size:17
Alignment explanation
Indices: 14439356--14439394 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
14439346 CTAATCCGAA
*
14439356 TTATATATTTATTAGTTT
1 TTATATATTTA-TAATTT
14439374 TTATATATTTA-AATTT
1 TTATATATTTATAATTT
14439390 TTATA
1 TTATA
14439395 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTATATATTTATAATTT
Found at i:14439420 original size:34 final size:36
Alignment explanation
Indices: 14439377--14439445 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 36
14439367 TTAGTTTTTA
*
14439377 TATATTTAAATTT-TTATAAA-ATA-AAAAATTATTT
1 TATACTTAAATTTATT-TAAATATATAAAAATTATTT
14439411 TATACTTAAATTTATTTAAATATATTAAAAATTAT
1 TATACTTAAATTTATTTAAATATA-TAAAAATTAT
14439446 ATTAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 16 0.53
35 5 0.17
37 9 0.30
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
TATACTTAAATTTATTTAAATATATAAAAATTATTT
Found at i:14439453 original size:22 final size:22
Alignment explanation
Indices: 14439418--14439467 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
14439408 TTTTATACTT
* *
14439418 AAATTTATTTAAAT-ATATTAA
1 AAATTTATTAAAATAATATAAA
14439439 AAATTATATTAAAATAATATAAA
1 AAATT-TATTAAAATAATATAAA
14439462 AAATTT
1 AAATTT
14439468 GAGGATTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 9 0.36
23 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTATTAAAATAATATAAA
Found at i:14452296 original size:20 final size:20
Alignment explanation
Indices: 14452259--14452297 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14452249 CATGTATAAA
* **
14452259 TCAATTTATGTATTTTATAT
1 TCAATATATGTAACTTATAT
14452279 TCAATATATGTAACTTATA
1 TCAATATATGTAACTTATA
14452298 CTAATGTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
TCAATATATGTAACTTATAT
Found at i:14457537 original size:23 final size:25
Alignment explanation
Indices: 14457503--14457548 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
14457493 ATTTTTATTA
14457503 ATTAATATAAATT-AT-TATTTTAG
1 ATTAATATAAATTAATATATTTTAG
14457526 ATTAAT-TAAAATTAATATATTTT
1 ATTAATAT-AAATTAATATATTTT
14457549 TATTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 1 0.05
23 11 0.55
24 2 0.10
25 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTAATATAAATTAATATATTTTAG
Found at i:14460801 original size:13 final size:13
Alignment explanation
Indices: 14460783--14460811 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14460773 TTTACTTTTT
14460783 ATAAAATGAATTG
1 ATAAAATGAATTG
14460796 ATAAAATGAATTG
1 ATAAAATGAATTG
14460809 ATA
1 ATA
14460812 TTAAAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (13 bp):
ATAAAATGAATTG
Found at i:14461870 original size:283 final size:283
Alignment explanation
Indices: 14461363--14461933 Score: 1034
Period size: 283 Copynumber: 2.0 Consensus size: 283
14461353 ATGGAAGTTT
*
14461363 TTTTTTTTTTGTTTTTAAGATAAAATCTTAAGGTAAATAAATTATTCAGTCTTTTAGATTAGAAT
1 TTTTTTTTTTGTTTTTAAGATAAAATCTTAAGGTAAATAAATTATTCAATCTTTTAGATTAGAAT
*
14461428 AAGATATGTTATATCTGATAATTTAAGATAAGTAACTGTAAATCGTATATTCGAAATAACTCCAA
66 AAGATATGTTATATCTGATAATCTAAGATAAGTAACTGTAAATCGTATATTCGAAATAACTCCAA
* * * *
14461493 CAAATAACTAATGACACAACTCAAATTTAAGATCTTTTCATCGAAAAAGATGAACTTAACCAATT
131 CAAATAACTAACGACAAAACTCAAATTCAAAATCTTTTCATCGAAAAAGATGAACTTAACCAATT
14461558 AAATTAACCACTTATCGGTGAAAATAGAAGTTGACTTTACGATAATAGTGAGGAAAATGTTATGA
196 AAATTAACCACTTATCGGTGAAAATAGAAGTTGACTTTACGATAATAGTGAGGAAAATGTTATGA
14461623 CCATGGCTTGTTATTAAAGTCCC
261 CCATGGCTTGTTATTAAAGTCCC
*
14461646 TTTTTTTTTTGTTTTTAAGATAAAATCTTAAGGTAAATAAATTATTCAATCTTTTAGATTAGGAT
1 TTTTTTTTTTGTTTTTAAGATAAAATCTTAAGGTAAATAAATTATTCAATCTTTTAGATTAGAAT
14461711 AAGATATGTTATATCTGATAATCTAAGATAAGTAACTGTAAATCGTATATTCGAAATAACTCCAA
66 AAGATATGTTATATCTGATAATCTAAGATAAGTAACTGTAAATCGTATATTCGAAATAACTCCAA
* *
14461776 CAAATGACTAACGACAAAACTCAAATTCAAAATCTTTTCATCGAAAAAGATGAACTTAACCGATT
131 CAAATAACTAACGACAAAACTCAAATTCAAAATCTTTTCATCGAAAAAGATGAACTTAACCAATT
*
14461841 AAATTAACCACTTATCGGTGAAAATAGAAGTTGACTTTACGGTAATAGTGAGGAAAATGTTATGA
196 AAATTAACCACTTATCGGTGAAAATAGAAGTTGACTTTACGATAATAGTGAGGAAAATGTTATGA
*
14461906 CCATGGCTTGTTATTAAGGTCCC
261 CCATGGCTTGTTATTAAAGTCCC
*
14461929 CTTTT
1 TTTTT
14461934 ATCTCTCTAC
Statistics
Matches: 276, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
283 276 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (283 bp):
TTTTTTTTTTGTTTTTAAGATAAAATCTTAAGGTAAATAAATTATTCAATCTTTTAGATTAGAAT
AAGATATGTTATATCTGATAATCTAAGATAAGTAACTGTAAATCGTATATTCGAAATAACTCCAA
CAAATAACTAACGACAAAACTCAAATTCAAAATCTTTTCATCGAAAAAGATGAACTTAACCAATT
AAATTAACCACTTATCGGTGAAAATAGAAGTTGACTTTACGATAATAGTGAGGAAAATGTTATGA
CCATGGCTTGTTATTAAAGTCCC
Found at i:14470537 original size:26 final size:28
Alignment explanation
Indices: 14470507--14470562 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
14470497 TTTTTTTTTC
*
14470507 TAAATTCTTAAT-AAA-AGTTATTCTAT
1 TAAATTCTTAATAAAATAATTATTCTAT
* *
14470533 TAAATTTTTTATAAAATAATTATTCTAT
1 TAAATTCTTAATAAAATAATTATTCTAT
14470561 TA
1 TA
14470563 TGAAGCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.40
27 3 0.12
28 12 0.48
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (28 bp):
TAAATTCTTAATAAAATAATTATTCTAT
Found at i:14472150 original size:30 final size:28
Alignment explanation
Indices: 14472084--14472165 Score: 105
Period size: 30 Copynumber: 2.9 Consensus size: 28
14472074 TCTAAAATTA
*
14472084 TTTATT-T-TTTAAATAAATTTTTATAT
1 TTTATTGTATTTAAATAAAATTTTATAT
*
14472110 TTTATTGTATTTAAATAAAATTTTATCT
1 TTTATTGTATTTAAATAAAATTTTATAT
*
14472138 TTTGATTTGTATTCAAATAAAATTTTAT
1 TTT-A-TTGTATTTAAATAAAATTTTAT
14472166 TTTAAATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 6 0.12
27 1 0.02
28 20 0.41
29 1 0.02
30 21 0.43
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (28 bp):
TTTATTGTATTTAAATAAAATTTTATAT
Found at i:14472773 original size:20 final size:19
Alignment explanation
Indices: 14472745--14472785 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
14472735 AAAAATATAA
*
14472745 AATTAATTTTTAATTTTATT
1 AATTAATTTATAATTTT-TT
*
14472765 AATTTATTTATAATTTTTT
1 AATTAATTTATAATTTTTT
14472784 AA
1 AA
14472786 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTAATTTATAATTTTTT
Found at i:14478336 original size:25 final size:27
Alignment explanation
Indices: 14478282--14478345 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
14478272 ATAATTTTTT
*
14478282 AATAAATATATATATTAATATCTATTTTA
1 AATAAA-A-ATATATTAATATCTATATTA
14478311 AATAAAAATATATTAAT-TCTA-ATTA
1 AATAAAAATATATTAATATCTATATTA
* *
14478336 ATTTAAAATA
1 AATAAAAATA
14478346 AAATTTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 11 0.34
26 4 0.12
27 10 0.31
28 1 0.03
29 6 0.19
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
AATAAAAATATATTAATATCTATATTA
Found at i:14481785 original size:30 final size:32
Alignment explanation
Indices: 14481732--14481816 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 32
14481722 TAAATTTGGT
14481732 TTAAAA-TTTATTATTTGAAATTTAA-TTAAAA
1 TTAAAATTTTATTATTT-AAATTTAATTTAAAA
*
14481763 TTAAAATTTTA-TATTTAAATTTAATTTAAGA
1 TTAAAATTTTATTATTTAAATTTAATTTAAAA
**
14481794 -TAAAATTAAATTATTTAAATTTA
1 TTAAAATTTTATTATTTAAATTTA
14481817 TTCAATTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 16 0.33
31 28 0.58
32 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (32 bp):
TTAAAATTTTATTATTTAAATTTAATTTAAAA
Found at i:14481884 original size:20 final size:19
Alignment explanation
Indices: 14481847--14481887 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
14481837 GAATAAAAAA
**
14481847 TAATTTTAATTTTTTTATT
1 TAATTTTAATTTGATTATT
14481866 TAATTTTAAATTTGATTATT
1 TAATTTT-AATTTGATTATT
14481886 TA
1 TA
14481888 TATTCAAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TAATTTTAATTTGATTATT
Found at i:14482317 original size:25 final size:24
Alignment explanation
Indices: 14482275--14482324 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
14482265 ATTTCATAAC
* *
14482275 TTTTATTATATCACTTTTATATTA
1 TTTTATTATATCAATTTTAAATTA
*
14482299 TTTTTTTATATCATATTTTAAATTA
1 TTTTATTATATCA-ATTTTAAATTA
14482324 T
1 T
14482325 CAAATATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTATTATATCAATTTTAAATTA
Found at i:14498688 original size:3 final size:3
Alignment explanation
Indices: 14498680--14498706 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14498670 ATACATGCGT
14498680 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
14498707 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14498711 original size:3 final size:3
Alignment explanation
Indices: 14498705--14498747 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
14498695 ATAATAATAA
14498705 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14498748 TGGGTAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14505295 original size:25 final size:25
Alignment explanation
Indices: 14505215--14505295 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
14505205 TTTGTTTGTT
* *
14505215 TTAAAAACTATTAAATTTTAAAAA-A
1 TTAAAAATTATTATA-TTTAAAAATA
* *
14505240 TTAAAAATTATTATATTTAATATTA
1 TTAAAAATTATTATATTTAAAAATA
*
14505265 TTAAAAATTATTTTATTTAAAAATA
1 TTAAAAATTATTATATTTAAAAATA
*
14505290 TCAAAA
1 TTAAAA
14505296 TAATAATGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 6 0.13
25 41 0.87
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTAAAAATTATTATATTTAAAAATA
Found at i:14506371 original size:20 final size:20
Alignment explanation
Indices: 14506332--14506368 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14506322 CCCAAAAATC
14506332 AAAATATTTAATAAATTTAA
1 AAAATATTTAATAAATTTAA
14506352 AAAATATTTAA-AAATTT
1 AAAATATTTAATAAATTT
14506369 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATATTTAATAAATTTAA
Found at i:14506568 original size:19 final size:18
Alignment explanation
Indices: 14506540--14506576 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
14506530 ATGCTCAATA
*
14506540 AATATTATATTAAATGTTT
1 AATATGATATTAAA-GTTT
14506559 AATATGATATTAAAGTTT
1 AATATGATATTAAAGTTT
14506577 GAATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (18 bp):
AATATGATATTAAAGTTT
Found at i:14507890 original size:32 final size:32
Alignment explanation
Indices: 14507854--14507921 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
14507844 TTCAAGCTCG
* * *
14507854 AGCTTGATTCGTGATCAAATTCGAGTTACTCA
1 AGCTTGATTCATGATCAAATTCCAGCTACTCA
* *
14507886 AGCTTGATTCATGATCGAATTCCAGCTACTCG
1 AGCTTGATTCATGATCAAATTCCAGCTACTCA
14507918 AGCT
1 AGCT
14507922 CGCTCGATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (32 bp):
AGCTTGATTCATGATCAAATTCCAGCTACTCA
Found at i:14508655 original size:2 final size:2
Alignment explanation
Indices: 14508648--14508690 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
14508638 AATTCCTTAA
*
14508648 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14508690 A
1 A
14508691 AGGTCCAAAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:14509322 original size:20 final size:20
Alignment explanation
Indices: 14509290--14509327 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
14509280 AATGATAATA
14509290 AAAATATTATTAT-TTTTTT
1 AAAATATTATTATCTTTTTT
14509309 AAAATATTAGTTATCTTTT
1 AAAATATTA-TTATCTTTT
14509328 CCTATATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (20 bp):
AAAATATTATTATCTTTTTT
Found at i:14509587 original size:30 final size:29
Alignment explanation
Indices: 14509554--14509649 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 29
14509544 TCCTTTTTAA
14509554 AAAAATTCATTTTATTTTAAAAATTAAGT
1 AAAAATTCATTTTATTTTAAAAATTAAGT
* * * *
14509583 AAAAATTTA-TATATCGATCTAAAAATTAAAT
1 AAAAATTCATTTTAT---TTTAAAAATTAAGT
* * *
14509614 AAAAATTCTATATCATTTAAAAATATTAAGT
1 AAAAATTC-ATTTTATTTTAAAA-ATTAAGT
14509645 AAAAA
1 AAAAA
14509650 ATTTCATATC
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
28 4 0.08
29 8 0.16
30 5 0.10
31 30 0.60
32 1 0.02
33 2 0.04
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAAATTCATTTTATTTTAAAAATTAAGT
Found at i:14509606 original size:31 final size:30
Alignment explanation
Indices: 14509571--14509668 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 30
14509561 CATTTTATTT
14509571 TAAAAATTAAGTAAAAATTTATATATCGATC
1 TAAAAATTAAGTAAAAATTTATATATC-ATC
* * *
14509602 TAAAAATTAAATAAAAA-TTCTATATCATT
1 TAAAAATTAAGTAAAAATTTATATATCATC
* *
14509631 TAAAAATATTAAGTAAAAAATTT-CATATCATT
1 T-AAAA-ATTAAGT-AAAAATTTATATATCATC
14509663 TAAAAA
1 TAAAAA
14509669 AAACATTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
29 3 0.05
30 13 0.22
31 26 0.45
32 14 0.24
33 2 0.03
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (30 bp):
TAAAAATTAAGTAAAAATTTATATATCATC
Found at i:14509650 original size:32 final size:31
Alignment explanation
Indices: 14509553--14509669 Score: 116
Period size: 32 Copynumber: 3.8 Consensus size: 31
14509543 ATCCTTTTTA
* * *
14509553 AAAAAATTC-ATTTTATTTTAAAAATTAAGT
1 AAAAAATTCTATATCATTTAAAAAATTAAGT
* * * *
14509583 AAAAATTTATATATCGATCT-AAAAATTAAAT
1 AAAAAATTCTATATC-ATTTAAAAAATTAAGT
14509614 -AAAAATTCTATATCATTTAAAAATATTAAGT
1 AAAAAATTCTATATCATTTAAAAA-ATTAAGT
14509645 AAAAAATT-TCATATCATTTAAAAAA
1 AAAAAATTCT-ATATCATTTAAAAAA
14509670 AACATTAATT
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 3 0.04
30 23 0.32
31 21 0.30
32 24 0.34
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAAAATTCTATATCATTTAAAAAATTAAGT
Found at i:14509669 original size:62 final size:60
Alignment explanation
Indices: 14509554--14509668 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 60
14509544 TCCTTTTTAA
* * * *
14509554 AAAAATTCATTTTATTTTAAAAATTAAGTAAAAATTTATATATCGATCTAAAAATTAAAT
1 AAAAATTCATATCATTTAAAAAATTAAGTAAAAATTTACATATCGATCTAAAAATTAAAT
*
14509614 AAAAATTCTATATCATTTAAAAATATTAAGTAAAAAATTT-CATATC-ATTTAAAAA
1 AAAAATTC-ATATCATTTAAAAA-ATTAAGT-AAAAATTTACATATCGATCTAAAAA
14509669 AAACATTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
60 8 0.17
61 19 0.40
62 12 0.26
63 8 0.17
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (60 bp):
AAAAATTCATATCATTTAAAAAATTAAGTAAAAATTTACATATCGATCTAAAAATTAAAT
Found at i:14510500 original size:22 final size:24
Alignment explanation
Indices: 14510475--14510518 Score: 58
Period size: 22 Copynumber: 1.9 Consensus size: 24
14510465 TAAGTAATAA
14510475 AATTATTT-TAAA-AAAT-AATTTT
1 AATT-TTTATAAATAAATCAATTTT
14510497 AATTTTTATAAATAAATCAATT
1 AATTTTTATAAATAAATCAATT
14510519 AAATTAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.16
22 8 0.42
23 4 0.21
24 4 0.21
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTTTTATAAATAAATCAATTTT
Found at i:14511166 original size:18 final size:19
Alignment explanation
Indices: 14511130--14511167 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14511120 ATTAATAAAA
*
14511130 TTTAATAAAAATAATAATT
1 TTTAATAAAAATAAAAATT
*
14511149 TTTAA-AAAATTAAAAATT
1 TTTAATAAAAATAAAAATT
14511167 T
1 T
14511168 CACTTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAATAAAAATAAAAATT
Found at i:14511239 original size:24 final size:26
Alignment explanation
Indices: 14511197--14511247 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
14511187 ATTAATACTT
14511197 ATTTAATAATAAAAAATTTATC-AAA
1 ATTTAATAATAAAAAATTTATCTAAA
14511222 ATTTAA-AA-AAAAATATTTATCTAAA
1 ATTTAATAATAAAAA-ATTTATCTAAA
14511247 A
1 A
14511248 AATATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 5 0.21
24 9 0.38
25 10 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTTAATAATAAAAAATTTATCTAAA
Found at i:14513669 original size:6 final size:6
Alignment explanation
Indices: 14513658--14513692 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
14513648 ACAATAATAG
*
14513658 TGAAGC TGAAGC TGAAGC TGAAGC TGAAGA TGAAG
1 TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TGAAG
14513693 GATATATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.17
Consensus pattern (6 bp):
TGAAGC
Found at i:14514005 original size:10 final size:10
Alignment explanation
Indices: 14513989--14514022 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
14513979 TTAATTGAAA
14513989 ATTTCTTTTC
1 ATTTCTTTTC
*
14513999 TTTTCTTTTC
1 ATTTCTTTTC
14514009 ATTTCTTTT-
1 ATTTCTTTTC
14514018 ATTTC
1 ATTTC
14514023 CCTCGTGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTCTTTTC
Found at i:14515166 original size:35 final size:35
Alignment explanation
Indices: 14515116--14515188 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
14515106 TTAAATTGTG
14515116 AGTCGAAAGATAAATATAATCGAGACTGAGCTGCA
1 AGTCGAAAGATAAATATAATCGAGACTGAGCTGCA
*
14515151 AGTC-AAAGAATAAATATGATCGAGACTGAGCTGCA
1 AGTCGAAAG-ATAAATATAATCGAGACTGAGCTGCA
14515186 AGT
1 AGT
14515189 TGTGAAATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 32 0.89
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (35 bp):
AGTCGAAAGATAAATATAATCGAGACTGAGCTGCA
Found at i:14515353 original size:35 final size:35
Alignment explanation
Indices: 14515314--14515409 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
14515304 AAATGACCAA
*
14515314 GATTGAACTACAAGTCAAAGAATAAAGATGATTAG
1 GATTGAACTGCAAGTCAAAGAATAAAGATGATTAG
* * *
14515349 GATTGAACTGTAAGTTGAAAG-ATAAAGATGATTGG
1 GATTGAACTGCAAG-TCAAAGAATAAAGATGATTAG
* * *
14515384 GATTAAACCGCAAGTCAAACAATAAA
1 GATTGAACTGCAAGTCAAAGAATAAA
14515410 TGTGATCGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
34 4 0.08
35 41 0.82
36 5 0.10
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.23
Consensus pattern (35 bp):
GATTGAACTGCAAGTCAAAGAATAAAGATGATTAG
Found at i:14515591 original size:33 final size:32
Alignment explanation
Indices: 14515543--14515615 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
14515533 ACATGCTAGC
* *
14515543 TAAACTGGGTATAAAACTTTCTTTAGTGCCAAA
1 TAAACTGGGTATAAAA-TTTCATTAGGGCCAAA
* * **
14515576 TAAACTGTGTTTAAAATTTCATTAGGGCCAGC
1 TAAACTGGGTATAAAATTTCATTAGGGCCAAA
14515608 TAAACTGG
1 TAAACTGG
14515616 CCTAAAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (32 bp):
TAAACTGGGTATAAAATTTCATTAGGGCCAAA
Found at i:14515624 original size:31 final size:33
Alignment explanation
Indices: 14515587--14515657 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
14515577 AAACTGTGTT
*
14515587 TAAAATTTCATT-AGGGCCAGCTAAACTG-GCC
1 TAAAATTTCATTGAGGGCCAGATAAACTGAGCC
* **
14515618 TAAAATTTTATTGAGGGTTAGATAAACTGAGCC
1 TAAAATTTCATTGAGGGCCAGATAAACTGAGCC
14515651 TAAAATT
1 TAAAATT
14515658 AGGTTCCAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 11 0.32
32 13 0.38
33 10 0.29
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (33 bp):
TAAAATTTCATTGAGGGCCAGATAAACTGAGCC
Found at i:14515868 original size:32 final size:32
Alignment explanation
Indices: 14515735--14515860 Score: 112
Period size: 33 Copynumber: 3.9 Consensus size: 32
14515725 GGATGCTAGA
* * **
14515735 TAAACTGGGCTT-AAATTTTTTGGCT-CCAGC
1 TAAACTGGGCTTAAAATTCTTTGGGTGCCAAT
* *
14515765 TAAACTGGGCGTAGAAATTCCTTGGGTGCCAAT
1 TAAACTGGGCTTA-AAATTCTTTGGGTGCCAAT
* * * **
14515798 TAAACTGAGTTTAAAATATTTTTTTGTGCCAAT
1 TAAACTGGGCTTAAAAT-TCTTTGGGTGCCAAT
*
14515831 TAAACTGGGCTTAAAATTCATTGGGTGCCA
1 TAAACTGGGCTTAAAATTCTTTGGGTGCCA
14515861 GGTAAACTAA
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
30 11 0.15
32 23 0.32
33 39 0.53
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (32 bp):
TAAACTGGGCTTAAAATTCTTTGGGTGCCAAT
Found at i:14516081 original size:22 final size:22
Alignment explanation
Indices: 14516052--14516116 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
14516042 TAACTAATTC
* *
14516052 GGGCTTATGTGTCAGCTAATCT
1 GGGCTTATGTGCCAGCTAAACT
* *
14516074 GGGTTTATTATGCCAGCTAAACT
1 GGGCTTA-TGTGCCAGCTAAACT
*
14516097 GGGCTTATGTGCCAGTTAAA
1 GGGCTTATGTGCCAGCTAAA
14516117 TTGAGTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 17 0.49
23 18 0.51
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (22 bp):
GGGCTTATGTGCCAGCTAAACT
Found at i:14516405 original size:117 final size:117
Alignment explanation
Indices: 14516247--14516510 Score: 321
Period size: 117 Copynumber: 2.3 Consensus size: 117
14516237 AGGCTTGTGT
* * * * *
14516247 GCCAACTACATTAGGCTTAAAACTTCATTGATGCTATCTAAACTAGGTTTAAAACTTCATGGGTG
1 GCCAACTAAATTAGGCTTAAGACTTCATTGATGCTAGCTAAACTAGGCTTAAAACTTCATGAGTG
* * * *
14516312 CCAGAGAATTTGAGCTTGCATGCTAGCTATATTGGGTTTAAATCTCATTAAA
66 CCAGAGAATTTGAGCTTGCATGCTAGCTACACTGAGCTTAAATCTCATTAAA
* * * * *
14516364 GCCAATTAAATTAGGCTTAAGACTTCATTGATGCTAGCTAAATTGGGCTTAAGACTTCATTAGTG
1 GCCAACTAAATTAGGCTTAAGACTTCATTGATGCTAGCTAAACTAGGCTTAAAACTTCATGAGTG
* * ** * * *
14516429 CTAGATAATTTGAGCTTGTGTGCTAGTTACACTGAGCTTAAATCTCATTGAT
66 CCAGAGAATTTGAGCTTGCATGCTAGCTACACTGAGCTTAAATCTCATTAAA
* *
14516481 GCCAGCTAAATTAGGCTTAAGACTTTATTG
1 GCCAACTAAATTAGGCTTAAGACTTCATTG
14516511 GTGTCAGATA
Statistics
Matches: 123, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
117 123 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (117 bp):
GCCAACTAAATTAGGCTTAAGACTTCATTGATGCTAGCTAAACTAGGCTTAAAACTTCATGAGTG
CCAGAGAATTTGAGCTTGCATGCTAGCTACACTGAGCTTAAATCTCATTAAA
Found at i:14516406 original size:32 final size:32
Alignment explanation
Indices: 14516370--14516432 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
14516360 TAAAGCCAAT
14516370 TAAATTAGGCTTAAGACTTCATT-GATGCTAGC
1 TAAATTAGGCTTAAGACTTCATTAG-TGCTAGC
*
14516402 TAAATTGGGCTTAAGACTTCATTAGTGCTAG
1 TAAATTAGGCTTAAGACTTCATTAGTGCTAG
14516433 ATAATTTGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (32 bp):
TAAATTAGGCTTAAGACTTCATTAGTGCTAGC
Found at i:14516553 original size:85 final size:85
Alignment explanation
Indices: 14516388--14516593 Score: 217
Period size: 85 Copynumber: 2.4 Consensus size: 85
14516378 GCTTAAGACT
*
14516388 TCATTGATGCTAGCTAAATTGGGCTTAAGACTTCATTAGTGCTAGATAATTTGAGCTTGTGTGCT
1 TCATTGATGCCAGCTAAATTGGGCTTAAGACTTCATTAGTGCTAGATAATTTGAGCTTGTGTGCT
* *
14516453 AGTTACACTGAGCTTAAATC
66 AGCTACACAGAGCTTAAATC
* * * *
14516473 TCATTGATGCCAGCTAAATTAGGCTTAAGACTTTATTGGTG-TCAGATAATTTGGGCTTACGTGT
1 TCATTGATGCCAGCTAAATTGGGCTTAAGACTTCATTAGTGCT-AGATAATTTGAGCTT--GTGT
*
14516537 -C-AGCTACACCAG-GCTTAACTC
63 GCTAGCTACA-CAGAGCTTAAATC
* * * *
14516558 TCGA--GATGCGAGCTAAACTGGGCTTAAAATTTCATT
1 TC-ATTGATGCCAGCTAAATTGGGCTTAAGACTTCATT
14516594 GAAGACTAGA
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
84 27 0.26
85 67 0.66
86 4 0.04
87 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (85 bp):
TCATTGATGCCAGCTAAATTGGGCTTAAGACTTCATTAGTGCTAGATAATTTGAGCTTGTGTGCT
AGCTACACAGAGCTTAAATC
Found at i:14516701 original size:61 final size:62
Alignment explanation
Indices: 14516568--14516708 Score: 160
Period size: 61 Copynumber: 2.3 Consensus size: 62
14516558 TCGAGATGCG
* * * * *
14516568 AGCTAAACTGGGCTTAAAATTTCATTGAAGACTAGATAAACTAGGCTTAAAACCTGGGTATC
1 AGCTAAATTGGGCTTAAAATCTCATTGAAGACCAGATAAACTAGGCTTAAAACCTAGGTACC
* ** * * *
14516630 AGCTATATTGGGCTTAAAATCTCATTGGCG-CCA-ACTAAACTAGGTTTAAAACTTAGGTGCC
1 AGCTAAATTGGGCTTAAAATCTCATTGAAGACCAGA-TAAACTAGGCTTAAAACCTAGGTACC
14516691 AGCTAAATTGGGCTTAAA
1 AGCTAAATTGGGCTTAAA
14516709 TTCTAAAGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
60 1 0.02
61 40 0.61
62 25 0.38
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (62 bp):
AGCTAAATTGGGCTTAAAATCTCATTGAAGACCAGATAAACTAGGCTTAAAACCTAGGTACC
Found at i:14516707 original size:29 final size:29
Alignment explanation
Indices: 14516611--14516708 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 29
14516601 AGATAAACTA
* * ** *
14516611 GGCTTAAAACCTGGGTATCAGCTATATTG
1 GGCTTAAAACTTAGGTGCCAGCTAAATTG
* * * * *
14516640 GGCTTAAAATCTCATTGGCGCCAACTAAACTA
1 GGCTTAAAA-CT--TAGGTGCCAGCTAAATTG
*
14516672 GGTTTAAAACTTAGGTGCCAGCTAAATTG
1 GGCTTAAAACTTAGGTGCCAGCTAAATTG
14516701 GGCTTAAA
1 GGCTTAAA
14516709 TTCTAAAGAA
Statistics
Matches: 50, Mismatches: 16, Indels: 6
0.69 0.22 0.08
Matches are distributed among these distances:
29 29 0.58
30 1 0.02
31 2 0.04
32 18 0.36
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (29 bp):
GGCTTAAAACTTAGGTGCCAGCTAAATTG
Found at i:14517589 original size:17 final size:19
Alignment explanation
Indices: 14517567--14517609 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
14517557 TCATTTCTCT
14517567 TTTTTTTCC-TTC-TTTTA
1 TTTTTTTCCTTTCTTTTTA
14517584 TTTTTTTCCTTTCTTTTTA
1 TTTTTTTCCTTTCTTTTTA
14517603 TTTTTTT
1 TTTTTTT
14517610 TTTTTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.38
18 3 0.12
19 12 0.50
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTCCTTTCTTTTTA
Found at i:14517589 original size:18 final size:20
Alignment explanation
Indices: 14517566--14517610 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 20
14517556 TTCATTTCTC
14517566 TTTTTTTTCC-TTC-TTTTA
1 TTTTTTTTCCTTTCTTTTTA
14517584 -TTTTTTTCCTTTCTTTTTA
1 TTTTTTTTCCTTTCTTTTTA
14517603 TTTTTTTT
1 TTTTTTTT
14517611 TTTTTTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.38
18 3 0.12
19 5 0.21
20 7 0.29
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTTTCCTTTCTTTTTA
Found at i:14522115 original size:12 final size:12
Alignment explanation
Indices: 14522088--14522133 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
14522078 TCCATGAGAA
*
14522088 CTTTTTTTTTTAC
1 CTTTTTCTTTT-C
14522101 CTTTTTCTTTTC
1 CTTTTTCTTTTC
*
14522113 C-TTTTCTTTTT
1 CTTTTTCTTTTC
14522124 CTTTTT-TTTT
1 CTTTTTCTTTT
14522134 TTGTTTTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 14 0.47
12 6 0.20
13 10 0.33
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (12 bp):
CTTTTTCTTTTC
Found at i:14522134 original size:12 final size:12
Alignment explanation
Indices: 14522088--14522140 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
14522078 TCCATGAGAA
*
14522088 CTTTTTTTTTTA
1 CTTTTTTTTTTT
* *
14522100 CCTTTTTCTTTT
1 CTTTTTTTTTTT
* *
14522112 CCTTTTCTTTTT
1 CTTTTTTTTTTT
14522124 CTTTTTTTTTTT
1 CTTTTTTTTTTT
*
14522136 GTTTT
1 CTTTT
14522141 GTCGATGACT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:14523082 original size:15 final size:15
Alignment explanation
Indices: 14523059--14523088 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14523049 GCACCTTGTC
14523059 TTTTCTCTTTTTTTT
1 TTTTCTCTTTTTTTT
*
14523074 TTTTTTCTTTTTTTT
1 TTTTCTCTTTTTTTT
14523089 GTTATTATTA
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:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCTCTTTTTTTT
Found at i:14525073 original size:21 final size:22
Alignment explanation
Indices: 14525034--14525076 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14525024 TTTTTTTTCT
**
14525034 TTTTTCTTTTTTTCTTCTCTAA
1 TTTTTCTTTTCCTCTTCTCTAA
14525056 TTTTTCTTTTCCTC-TCTCTAA
1 TTTTTCTTTTCCTCTTCTCTAA
14525077 GATACCTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTCTTTTCCTCTTCTCTAA
Found at i:14538755 original size:7 final size:7
Alignment explanation
Indices: 14538743--14538768 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14538733 TATAAAATTC
14538743 ATTTAAA
1 ATTTAAA
14538750 ATTTAAA
1 ATTTAAA
14538757 ATTTAAA
1 ATTTAAA
14538764 ATTTA
1 ATTTA
14538769 TAAAAAGTTA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTAAA
Found at i:14539502 original size:17 final size:17
Alignment explanation
Indices: 14539472--14539527 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
14539462 TTGAAAACTT
*
14539472 AAAATTCTTT-TTATTTA
1 AAAATT-TTTATTATATA
*
14539489 AAAATTTTTATTATACA
1 AAAATTTTTATTATATA
14539506 TAAAA-TTTTATTATATA
1 -AAAATTTTTATTATATA
14539523 AAAAT
1 AAAAT
14539528 ATTAAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 7 0.21
17 22 0.67
18 4 0.12
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAATTTTTATTATATA
Found at i:14540526 original size:15 final size:13
Alignment explanation
Indices: 14540499--14540539 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 13
14540489 TAACAAATCT
14540499 ATTAAAACAAAAA
1 ATTAAAACAAAAA
14540512 ATTGAAAAGCAAAAA
1 ATT-AAAA-CAAAAA
14540527 ATTAAAA-AAAAA
1 ATTAAAACAAAAA
14540539 A
1 A
14540540 ACACAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.23
13 3 0.12
14 8 0.31
15 9 0.35
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (13 bp):
ATTAAAACAAAAA
Found at i:14542157 original size:21 final size:21
Alignment explanation
Indices: 14542111--14542159 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
14542101 AAGAATTCAG
* * *
14542111 AGTTTGAATTTTTGGGTTTGG
1 AGTTTGAAGTTTTGGGATTGA
14542132 A-TTTGAAGTTTTGGGATTGA
1 AGTTTGAAGTTTTGGGATTGA
14542152 AGTTTGAA
1 AGTTTGAA
14542160 TTTCCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
AGTTTGAAGTTTTGGGATTGA
Found at i:14542550 original size:25 final size:24
Alignment explanation
Indices: 14542516--14542573 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
14542506 TGATCGCAAG
*
14542516 TTTTTTT-TTTT-CCTTTTTTTTTA
1 TTTTTTTATTTTACC-TTTTTCTTA
*
14542539 TTTTTTTATTTTAGCTTTTTCTTA
1 TTTTTTTATTTTACCTTTTTCTTA
14542563 TTTTATTTATT
1 TTTT-TTTATT
14542574 AATTTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 7 0.23
24 16 0.53
25 7 0.23
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.81
Consensus pattern (24 bp):
TTTTTTTATTTTACCTTTTTCTTA
Found at i:14554274 original size:55 final size:55
Alignment explanation
Indices: 14554172--14554306 Score: 146
Period size: 55 Copynumber: 2.5 Consensus size: 55
14554162 TAGTTTTTCA
* ** * * *
14554172 GACTTGCGATTCAATCCCGGTCGTTCGATCTCAACTCAGTTCAGATCATTTTTTT
1 GACTTGAGATTCAATCCTAGTCATTCAATCTCAACTCAGTTCAGATCATTTTCTT
* * *
14554227 GACTTGTGATTCAATCCTAGTCATTCAATCTCGACTCAG-TCTGGATCATTTTCTT
1 GACTTGAGATTCAATCCTAGTCATTCAATCTCAACTCAGTTC-AGATCATTTTCTT
* * *
14554282 AACTTAAGGTTCAATCCTAGTCATT
1 GACTTGAGATTCAATCCTAGTCATT
14554307 TGATCTTGGC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 2 0.03
55 65 0.97
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (55 bp):
GACTTGAGATTCAATCCTAGTCATTCAATCTCAACTCAGTTCAGATCATTTTCTT
Found at i:14554568 original size:3 final size:3
Alignment explanation
Indices: 14554560--14554597 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
14554550 CAAGTTATGG
*
14554560 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14554598 CATAATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14554605 original size:3 final size:3
Alignment explanation
Indices: 14554599--14554645 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
14554589 ATTATTATTC
14554599 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14554646 CAAAGGGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14555348 original size:5 final size:5
Alignment explanation
Indices: 14555340--14555416 Score: 50
Period size: 5 Copynumber: 14.4 Consensus size: 5
14555330 GGTTTTTCTT
* *
14555340 TTTTA TTTTTA TTTTCTA ATTTTA TTTTA TTTT- TTTTA GCTTT- TTCTA
1 TTTTA -TTTTA -TTT-TA -TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA
*
14555388 CTTTTA TTTCA TTTTTA TTTTA TTTTA TT
1 -TTTTA TTTTA -TTTTA TTTTA TTTTA TT
14555417 AATTTTAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
4 6 0.10
5 25 0.43
6 22 0.38
7 5 0.09
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:14555373 original size:30 final size:30
Alignment explanation
Indices: 14555334--14555423 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 30
14555324 ATCACAGGTT
*
14555334 TTTCTTTTTTATTTTTATTTTCTAATTTTA
1 TTTCATTTTTATTTTTATTTTCTAATTTTA
* * *
14555364 TTTTATTTTT-TTTAGCT-TTTTCTACTTTTA
1 TTTCATTTTTATTT--TTATTTTCTAATTTTA
*
14555394 TTTCATTTTTA-TTTTATTTTATTAATTTTA
1 TTTCATTTTTATTTTTATTTT-CTAATTTTA
14555424 AATTAAGTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
28 1 0.02
29 7 0.15
30 38 0.81
31 1 0.02
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (30 bp):
TTTCATTTTTATTTTTATTTTCTAATTTTA
Found at i:14561419 original size:7 final size:8
Alignment explanation
Indices: 14561407--14561499 Score: 108
Period size: 8 Copynumber: 12.2 Consensus size: 8
14561397 CTATGCTTGA
14561407 AAAAAAT-
1 AAAAAATG
*
14561414 AAAAAATA
1 AAAAAATG
14561422 AAAAAATG
1 AAAAAATG
14561430 AAAAAATG
1 AAAAAATG
14561438 AAAAAATG
1 AAAAAATG
14561446 AAAAAAATG
1 -AAAAAATG
14561455 -AAAAATG
1 AAAAAATG
14561462 ---AAATG
1 AAAAAATG
14561467 AAAAAATG
1 AAAAAATG
*
14561475 AAAAAAAG
1 AAAAAATG
14561483 AAAAAA-G
1 AAAAAATG
*
14561490 AAAAAGTG
1 AAAAAATG
14561498 AA
1 AA
14561500 TGAAAAAGGA
Statistics
Matches: 77, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
5 5 0.06
7 20 0.26
8 44 0.57
9 8 0.10
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:14561466 original size:29 final size:28
Alignment explanation
Indices: 14561433--14561492 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 28
14561423 AAAAATGAAA
*
14561433 AAATGAAAAAATGAAAAAAATGAAAAATG
1 AAATGAAAAAATGAAAAAAA-GAAAAAAG
14561462 AAATGAAAAAATGAAAAAAAGAAAAAAG
1 AAATGAAAAAATGAAAAAAAGAAAAAAG
14561490 AAA
1 AAA
14561493 AAGTGAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (28 bp):
AAATGAAAAAATGAAAAAAAGAAAAAAG
Found at i:14561467 original size:12 final size:13
Alignment explanation
Indices: 14561425--14561477 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
14561415 AAAAATAAAA
14561425 AAATGAAAAAATG
1 AAATGAAAAAATG
*
14561438 AAA--AAATGAAA-A
1 AAATGAAA--AAATG
14561450 AAATG-AAAAATG
1 AAATGAAAAAATG
14561462 AAATGAAAAAATG
1 AAATGAAAAAATG
14561475 AAA
1 AAA
14561478 AAAAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
11 6 0.19
12 8 0.25
13 18 0.56
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAATGAAAAAATG
Found at i:14561475 original size:37 final size:36
Alignment explanation
Indices: 14561425--14561506 Score: 123
Period size: 37 Copynumber: 2.3 Consensus size: 36
14561415 AAAAATAAAA
*
14561425 AAATGAAAAAATGAAAAAATGAAAAAAATGAAAAA-TG
1 AAATGAAAAAATGAAAAAAAG-AAAAAA-GAAAAAGTG
14561462 AAATGAAAAAATGAAAAAAAGAAAAAAGAAAAAGTG
1 AAATGAAAAAATGAAAAAAAGAAAAAAGAAAAAGTG
14561498 -AATGAAAAA
1 AAATGAAAAA
14561507 GGAGGACTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
35 15 0.35
36 8 0.19
37 20 0.47
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (36 bp):
AAATGAAAAAATGAAAAAAAGAAAAAAGAAAAAGTG
Found at i:14562604 original size:40 final size:40
Alignment explanation
Indices: 14562491--14562694 Score: 231
Period size: 41 Copynumber: 5.1 Consensus size: 40
14562481 ACGATTGTCA
*
14562491 AGGAGCAATTTACTTTCCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAG-T-CGTGGTGCCTCTGTTTAG
* *
14562532 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
14562573 AGGAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * **
14562613 GGGAGCAATTTATTTTC-CA---GAGGCACCTCTGTTTAG
1 AGGAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
14562649 AGGAGCAATTTATTTTCCAAAGTCATGGTGCCTCTATTTAG
1 AGGAGCAATTTATTTT-CAAAGTCGTGGTGCCTCTGTTTAG
14562690 AGGAG
1 AGGAG
14562695 GTCGTGGTGC
Statistics
Matches: 141, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
36 29 0.21
37 1 0.01
38 1 0.01
39 4 0.03
40 43 0.30
41 63 0.45
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (40 bp):
AGGAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:14562654 original size:36 final size:37
Alignment explanation
Indices: 14562519--14562814 Score: 213
Period size: 41 Copynumber: 7.8 Consensus size: 37
14562509 AAAGTTCCGT
*
14562519 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTCC--A--CGTGG
* *
14562560 TGCCTTTGTTTAGAGGAGCAATTTATTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTC-CA--CGTGG
* *
14562600 TGCCTCTGTTTAGGGGAGCAATTTATTTTCCA-GAGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTCCACGTGG
** *
14562636 CACCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCATGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTCC--A--CGTGG
* *
14562677 TGCCTCTATTTAGAGGAG---------GT---CGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTCCACGTGG
*
14562702 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTCC--A--CGTGG
*
14562743 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTA-TTTTC-CA--CGTGG
14562784 TGCCTCTGTTTAGAGGAGCAATTTATGTTTC
1 TGCCTCTGTTTAGAGGAGCAATTTAT-TTTC
14562815 TCAAAGTCGT
Statistics
Matches: 209, Mismatches: 21, Indels: 50
0.75 0.08 0.18
Matches are distributed among these distances:
25 21 0.10
32 1 0.00
34 1 0.00
36 31 0.15
38 1 0.00
39 1 0.00
40 37 0.18
41 112 0.54
42 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (37 bp):
TGCCTCTGTTTAGAGGAGCAATTTATTTTCCACGTGG
Found at i:14562785 original size:107 final size:102
Alignment explanation
Indices: 14562593--14562801 Score: 301
Period size: 107 Copynumber: 2.0 Consensus size: 102
14562583 TATTTTCAAA
* *
14562593 GTCGTGGTGCCTCTGTTTAGGGGAGCAATTTATTTTCCAGAGGCACCTCTGTTTAGAGGAGCAAT
1 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAGAGGCACCTCTGTTTAGAGGAGCAAT
14562658 TTATTTTCCAAAGTCATGGTGCCTCTATTTAGAGGAG
66 TTATTTTCCAAAGTCATGGTGCCTCTATTTAGAGGAG
* **
14562695 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCC--A---GAGGCACCTCTGTTTAGAGGA
* * *
14562760 GCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAG
61 GCAATTTATTTTCCAAAGTCATGGTGCCTCTATTTAGAGGAG
14562802 CAATTTATGT
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
102 36 0.38
104 1 0.01
107 57 0.61
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (102 bp):
GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAGAGGCACCTCTGTTTAGAGGAGCAAT
TTATTTTCCAAAGTCATGGTGCCTCTATTTAGAGGAG
Found at i:14562833 original size:43 final size:42
Alignment explanation
Indices: 14562695--14562845 Score: 252
Period size: 41 Copynumber: 3.6 Consensus size: 42
14562685 TTTAGAGGAG
*
14562695 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTC-CAAA
1 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCTCAAA
14562736 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTT-TCAAA
1 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCTCAAA
14562777 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATGTTTCTCAAA
1 GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAT-TTTCTCAAA
* *
14562820 GTCGTGGTGCCTCTCTTTAGATGAGC
1 GTCGTGGTGCCTCTGTTTAGAGGAGC
14562846 TTTGGTAAAA
Statistics
Matches: 104, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
41 72 0.69
42 3 0.03
43 29 0.28
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (42 bp):
GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCTCAAA
Found at i:14562858 original size:1 final size:1
Alignment explanation
Indices: 14562852--14562928 Score: 64
Period size: 1 Copynumber: 77.0 Consensus size: 1
14562842 GAGCTTTGGT
* * * * * * * * *
14562852 AAAAAAAAAAACAAAAAAAATAAAAAACAAAAAAAACAAAAAAATAAAAAAAACACAAAAGAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
14562917 AAAAATAAAAAA
1 AAAAAAAAAAAA
14562929 TGACAATGTT
Statistics
Matches: 56, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.87, C:0.08, G:0.01, T:0.04
Consensus pattern (1 bp):
A
Found at i:14562869 original size:9 final size:9
Alignment explanation
Indices: 14562855--14562921 Score: 77
Period size: 8 Copynumber: 7.7 Consensus size: 9
14562845 CTTTGGTAAA
14562855 AAAAAAAAC
1 AAAAAAAAC
14562864 -AAAAAAA-
1 AAAAAAAAC
*
14562871 ATAAAAAAC
1 AAAAAAAAC
14562880 AAAAAAAAC
1 AAAAAAAAC
*
14562889 -AAAAAAAT
1 AAAAAAAAC
14562897 AAAAAAAAC
1 AAAAAAAAC
*
14562906 ACAAAAGAAC
1 A-AAAAAAAC
14562916 AAAAAA
1 AAAAAA
14562922 TAAAAAATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 20 0.42
9 20 0.42
10 8 0.17
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:14562878 original size:17 final size:17
Alignment explanation
Indices: 14562852--14562921 Score: 90
Period size: 16 Copynumber: 4.1 Consensus size: 17
14562842 GAGCTTTGGT
14562852 AAAA-AAAAAAACAAAA
1 AAAACAAAAAAACAAAA
*
14562868 AAAA-TAAAAAACAAAA
1 AAAACAAAAAAACAAAA
*
14562884 AAAACAAAAAAATAAAA
1 AAAACAAAAAAACAAAA
14562901 AAAACACAAAAGAACAAAA
1 AAAACA-AAAA-AACAAAA
14562920 AA
1 AA
14562922 TAAAAAATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
16 19 0.40
17 16 0.34
18 4 0.09
19 8 0.17
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (17 bp):
AAAACAAAAAAACAAAA
Found at i:14562889 original size:25 final size:24
Alignment explanation
Indices: 14562852--14562928 Score: 102
Period size: 24 Copynumber: 3.1 Consensus size: 24
14562842 GAGCTTTGGT
14562852 AAAAAAAAAAACAAAAAAAATAAA
1 AAAAAAAAAAACAAAAAAAATAAA
14562876 AAACAAAAAAAAC-AAAAAAATAAA
1 AAA-AAAAAAAACAAAAAAAATAAA
* *
14562900 AAAAACACAAAAGAACAAAAAATAAA
1 AAAAA-AAAAAACAA-AAAAAATAAA
14562926 AAA
1 AAA
14562929 TGACAATGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.04
24 22 0.47
25 10 0.21
26 13 0.28
ACGTcount: A:0.87, C:0.08, G:0.01, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAAACAAAAAAAATAAA
Found at i:14562922 original size:26 final size:25
Alignment explanation
Indices: 14562855--14562928 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 25
14562845 CTTTGGTAAA
14562855 AAAAAAAACAAAAAA-AATAAAAAAC
1 AAAAAAAACAAAAAATAA-AAAAAAC
14562880 AAAAAAAACAAAAAAATAAAAAAAAC
1 AAAAAAAAC-AAAAAATAAAAAAAAC
*
14562906 ACAAAAGAACAAAAAATAAAAAA
1 A-AAAAAAACAAAAAATAAAAAA
14562929 TGACAATGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 9 0.20
26 27 0.60
27 9 0.20
ACGTcount: A:0.86, C:0.08, G:0.01, T:0.04
Consensus pattern (25 bp):
AAAAAAAACAAAAAATAAAAAAAAC
Found at i:14562928 original size:17 final size:16
Alignment explanation
Indices: 14562852--14562928 Score: 84
Period size: 17 Copynumber: 4.8 Consensus size: 16
14562842 GAGCTTTGGT
14562852 AAAAA-AAAAAACAAA
1 AAAAACAAAAAACAAA
*
14562867 AAAAATAAAAAACAAA
1 AAAAACAAAAAACAAA
*
14562883 AAAAACAAAAAAATAAA
1 AAAAAC-AAAAAACAAA
* *
14562900 AAAAACACAAAAGAACA
1 AAAAACAAAAAACAA-A
*
14562917 AAAAATAAAAAA
1 AAAAACAAAAAA
14562929 TGACAATGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
15 5 0.09
16 22 0.42
17 26 0.49
ACGTcount: A:0.87, C:0.08, G:0.01, T:0.04
Consensus pattern (16 bp):
AAAAACAAAAAACAAA
Found at i:14563167 original size:27 final size:27
Alignment explanation
Indices: 14563132--14563183 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
14563122 TTTTCTTTTG
* *
14563132 TATTTTATGTAT-TTTATTATTTATTAT
1 TATTATATGTATATTT-TTACTTATTAT
14563159 TATTATATGTATATTTTTACTTATT
1 TATTATATGTATATTTTTACTTATT
14563184 TATTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (27 bp):
TATTATATGTATATTTTTACTTATTAT
Found at i:14563288 original size:74 final size:73
Alignment explanation
Indices: 14563128--14563296 Score: 171
Period size: 74 Copynumber: 2.3 Consensus size: 73
14563118 TTTCTTTTCT
* * *
14563128 TTTGTATTTTATGTATTTTATTATTTATTATTATTATATGTATATTTTTACTTATTTATTTTTTT
1 TTTGT-TTTTATTTATTTTATTATATATTATAATTATATGTATATTTTTACTTATTTATTTTTTT
* * ** *
14563193 TTTTTTGTG
65 CTTGTAATA
** *
14563202 TTTGTTAATATTTATATTTATTATATATTATAATT-TATTTATTATTTTTTA-TTATTTATTTTT
1 TTTGTTTTTATTTAT-TTTATTATATATTATAATTATATGTA-TA-TTTTTACTTATTTATTTTT
14563265 TTCTTGTAATA
63 TTCTTGTAATA
* *
14563276 TTTTTTTTTATTTATCTTATT
1 TTTGTTTTTATTTATTTTATT
14563297 GTATTATCTG
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
73 17 0.22
74 54 0.70
75 6 0.08
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (73 bp):
TTTGTTTTTATTTATTTTATTATATATTATAATTATATGTATATTTTTACTTATTTATTTTTTTC
TTGTAATA
Found at i:14563428 original size:18 final size:18
Alignment explanation
Indices: 14563380--14563425 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
14563370 ATTATTATTA
14563380 TTTTTTTATTTATCCTAT
1 TTTTTTTATTTATCCTAT
* * *
14563398 CTTTTCTAATTAT-CTAT
1 TTTTTTTATTTATCCTAT
14563415 TTTTTTTATTT
1 TTTTTTTATTT
14563426 TATTTGATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTTATTTATCCTAT
Found at i:14563995 original size:19 final size:18
Alignment explanation
Indices: 14563973--14564008 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14563963 AGAGGGAAGG
14563973 GAGAGA-AAAGGGGAGAA
1 GAGAGAGAAAGGGGAGAA
*
14563990 GAGAGAGAGAGGGGAGAA
1 GAGAGAGAAAGGGGAGAA
14564008 G
1 G
14564009 GTTTCTGCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (18 bp):
GAGAGAGAAAGGGGAGAA
Found at i:14564349 original size:6 final size:6
Alignment explanation
Indices: 14564328--14564387 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
14564318 TATTTAATAT
* * * * *
14564328 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTAT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
14564373 TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTT
14564388 ATTTTCACTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
5 12 0.28
6 31 0.72
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:14564350 original size:17 final size:17
Alignment explanation
Indices: 14564328--14564385 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
14564318 TATTTAATAT
14564328 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
14564345 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
*
14564362 -CTTT-TCTTTATTTTTTA
1 TTTTTATCTTTA--TTTTA
14564379 TTTTTAT
1 TTTTTAT
14564386 TTATTTTCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 4 0.13
16 3 0.10
17 20 0.65
18 3 0.10
19 1 0.03
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:14564372 original size:32 final size:31
Alignment explanation
Indices: 14564334--14564405 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 31
14564324 ATATTTTTTA
* *
14564334 TCTTTATTTTATTTTTATTTTTGTTTTACTTT
1 TCTTTATTTTATTTTTATTTAT-TTTCACTTT
14564366 TCTTTATTTTTTATTTTTATTTATTTTCACTTT
1 TCTTTA--TTTTATTTTTATTTATTTTCACTTT
14564399 T-TTTATT
1 TCTTTATT
14564406 ATTCTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 2 0.06
32 10 0.28
33 9 0.25
34 15 0.42
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (31 bp):
TCTTTATTTTATTTTTATTTATTTTCACTTT
Found at i:14564388 original size:17 final size:17
Alignment explanation
Indices: 14564340--14564392 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
14564330 TTTATCTTTA
14564340 TTTTATTTTTATTT-TT
1 TTTTATTTTTATTTATT
* *
14564356 GTTTTACTTTTCTTTATT
1 -TTTTATTTTTATTTATT
14564374 TTTTATTTTTATTTATT
1 TTTTATTTTTATTTATT
14564391 TT
1 TT
14564393 CACTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 29 0.94
18 2 0.06
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTATTTTTATTTATT
Found at i:14564388 original size:27 final size:27
Alignment explanation
Indices: 14564341--14564419 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
14564331 TTATCTTTAT
*
14564341 TTTA-TTTTTATTTTTGTTTTACTTTTC
1 TTTATTTTTTATTTTT-ATTTACTTTTC
14564368 TTTATTTTTTATTTTTATTTA-TTTTC
1 TTTATTTTTTATTTTTATTTACTTTTC
** *
14564394 ACT-TTTTTTATTATTCTATTTTCTTT
1 TTTATTTTTTATT-TT-TATTTACTTT
14564420 AAATAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
25 9 0.20
26 8 0.18
27 13 0.30
28 14 0.32
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.77
Consensus pattern (27 bp):
TTTATTTTTTATTTTTATTTACTTTTC
Found at i:14564398 original size:28 final size:28
Alignment explanation
Indices: 14564341--14564393 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
14564331 TTATCTTTAT
*
14564341 TTTA-TTTTTATTTTTGTTTTACTTTTC
1 TTTATTTTTTATTTTTGATTTACTTTTC
14564368 TTTATTTTTTATTTTT-ATTTA-TTTTC
1 TTTATTTTTTATTTTTGATTTACTTTTC
14564394 ACTTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
28 11 0.46
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (28 bp):
TTTATTTTTTATTTTTGATTTACTTTTC
Found at i:14564399 original size:17 final size:16
Alignment explanation
Indices: 14564336--14564415 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 16
14564326 ATTTTTTATC
14564336 TTTA-TTTTATTTTTA
1 TTTATTTTTATTTTTA
* * *
14564351 TTTTTGTTTTACTTTTC
1 TTTAT-TTTTATTTTTA
14564368 TTTATTTTTTATTTTTA
1 TTTA-TTTTTATTTTTA
* *
14564385 TTTATTTTCACTTTT-
1 TTTATTTTTATTTTTA
14564400 TTTATTATTCTATTTT
1 TTTATT-TT-TATTTT
14564416 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
15 9 0.18
16 11 0.22
17 29 0.58
18 1 0.02
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Done.