Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 50 of 127
Found at i:9963268 original size:15 final size:15
Alignment explanation
Indices: 9963250--9963301 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
9963240 AAATAAATAG
9963250 ATAAAATACAAAAAT
1 ATAAAATACAAAAAT
9963265 ATAAAATAC-AAAAT
1 ATAAAATACAAAAAT
* *
9963279 ACAAAATACAAAAAA
1 ATAAAATACAAAAAT
9963294 ATAAAATA
1 ATAAAATA
9963302 AAATAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 13 0.39
15 20 0.61
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (15 bp):
ATAAAATACAAAAAT
Found at i:9963290 original size:29 final size:27
Alignment explanation
Indices: 9963252--9963321 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 27
9963242 ATAAATAGAT
* *
9963252 AAAATACAAAAATATAAAATACAAAATAC
1 AAAATACAAAAAAATAAAAT--AAAATAA
9963281 AAAATACAAAAAAATAAAATAAAATAA
1 AAAATACAAAAAAATAAAATAAAATAA
9963308 AAAATA-AAATAAAA
1 AAAATACAAA-AAAA
9963322 CAAACTGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 3 0.08
27 16 0.42
29 19 0.50
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.16
Consensus pattern (27 bp):
AAAATACAAAAAAATAAAATAAAATAA
Found at i:9963299 original size:7 final size:7
Alignment explanation
Indices: 9963229--9963316 Score: 65
Period size: 7 Copynumber: 12.1 Consensus size: 7
9963219 AATAATAGAT
9963229 AAATAAA
1 AAATAAA
*
9963236 TAATAAA
1 AAATAAA
9963243 TAAATAGATA
1 -AAATA-A-A
9963253 AAATACAA
1 AAATA-AA
*
9963261 AAATATA
1 AAATAAA
*
9963268 AAATACA
1 AAATAAA
*
9963275 AAATACA
1 AAATAAA
9963282 AAATACAA
1 AAATA-AA
9963290 AAA-AATA
1 AAATAA-A
9963297 AAAT--A
1 AAATAAA
9963302 AAATAAA
1 AAATAAA
9963309 AAATAAA
1 AAATAAA
9963316 A
1 A
9963317 TAAAACAAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
5 5 0.07
6 1 0.01
7 39 0.58
8 14 0.21
9 7 0.10
10 1 0.01
ACGTcount: A:0.76, C:0.05, G:0.01, T:0.18
Consensus pattern (7 bp):
AAATAAA
Found at i:9963309 original size:15 final size:14
Alignment explanation
Indices: 9963250--9963321 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 14
9963240 AAATAAATAG
*
9963250 ATAAAATACAAAAAT
1 ATAAAATA-AAAAAA
* *
9963265 ATAAAATACAAAAT
1 ATAAAATAAAAAAA
*
9963279 ACAAAATACAAAAAA
1 ATAAAATA-AAAAAA
9963294 ATAAAATAAAATAAAAA
1 ATAAAAT--AA-AAAAA
9963311 ATAAAATAAAA
1 ATAAAATAAAA
9963322 CAAACTGGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
14 14 0.29
15 20 0.42
16 1 0.02
17 13 0.27
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (14 bp):
ATAAAATAAAAAAA
Found at i:9963309 original size:17 final size:17
Alignment explanation
Indices: 9963289--9963321 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9963279 ACAAAATACA
9963289 AAAAAATAAAATAAAAT
1 AAAAAATAAAATAAAAT
9963306 AAAAAATAAAATAAAA
1 AAAAAATAAAATAAAA
9963322 CAAACTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAATAAAAT
Found at i:9969610 original size:25 final size:25
Alignment explanation
Indices: 9969551--9969612 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
9969541 AATTGTATAA
* *
9969551 ATCTAATTCTCTTACATTAGTGTAG
1 ATCTGATTCTCTTACATTAGTGCAG
9969576 ATCTGATTCTCTTACATTAGTGCAG
1 ATCTGATTCTCTTACATTAGTGCAG
*
9969601 CT-TGATT-TCTTA
1 ATCTGATTCTCTTA
9969613 ATTTATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 5 0.15
24 5 0.15
25 24 0.71
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (25 bp):
ATCTGATTCTCTTACATTAGTGCAG
Found at i:9975749 original size:2 final size:2
Alignment explanation
Indices: 9975744--9975770 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9975734 CACGCACACA
9975744 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
9975771 CCTTCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9977912 original size:22 final size:22
Alignment explanation
Indices: 9977881--9977926 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
9977871 GGAAAATTGG
*
9977881 AGGTTTTAGGGTTTATGGTTAT
1 AGGTTATAGGGTTTATGGTTAT
*
9977903 AGGTTATAGGTTTTATGGTTAT
1 AGGTTATAGGGTTTATGGTTAT
9977925 AG
1 AG
9977927 ATAGCAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (22 bp):
AGGTTATAGGGTTTATGGTTAT
Found at i:9983977 original size:31 final size:28
Alignment explanation
Indices: 9983911--9983966 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
9983901 AACACAACAC
* *
9983911 AACACAAATGACTCTAATAATAAAAGAA
1 AACACAAATAACTCTAAAAATAAAAGAA
*
9983939 AACACAAATAACTTTAAAAATAAAAGAA
1 AACACAAATAACTCTAAAAATAAAAGAA
9983967 TGAATCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.12, G:0.05, T:0.18
Consensus pattern (28 bp):
AACACAAATAACTCTAAAAATAAAAGAA
Found at i:9985868 original size:15 final size:16
Alignment explanation
Indices: 9985838--9985871 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9985828 ACATCTTAAA
*
9985838 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
9985854 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
9985869 ATT
1 ATT
9985872 TTCAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:9987977 original size:26 final size:25
Alignment explanation
Indices: 9987948--9988012 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 25
9987938 TCGTTTACGG
*
9987948 ACATATATAAATAAATATATTCATAA
1 ACATATATAAATAAACATATTCAT-A
*
9987974 ACATATATAAATGAACATATTCATA
1 ACATATATAAATAAACATATTCATA
9987999 A-ATA-ATAAATAAAC
1 ACATATATAAATAAAC
9988013 TAAAATCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.25
24 3 0.08
25 2 0.06
26 22 0.61
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (25 bp):
ACATATATAAATAAACATATTCATA
Found at i:9987990 original size:14 final size:13
Alignment explanation
Indices: 9987948--9988003 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 13
9987938 TCGTTTACGG
9987948 ACATATATAAATA
1 ACATATATAAATA
**
9987961 A-ATATATTCATAA
1 ACATATATAAAT-A
9987974 ACATATATAAATGA
1 ACATATATAAAT-A
9987988 ACATATTCATAAATA
1 ACATA-T-ATAAATA
9988003 A
1 A
9988004 TAAATAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 8 0.24
13 3 0.09
14 14 0.41
15 3 0.09
16 6 0.18
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (13 bp):
ACATATATAAATA
Found at i:9988068 original size:20 final size:20
Alignment explanation
Indices: 9988031--9988069 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9988021 AATAAATCTT
*
9988031 AAACAAATATAAGCGAATCC
1 AAACAAATATAAACGAATCC
*
9988051 AAACAAATATAAATGAATC
1 AAACAAATATAAACGAATC
9988070 TTAAATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.15, G:0.08, T:0.18
Consensus pattern (20 bp):
AAACAAATATAAACGAATCC
Found at i:9994422 original size:42 final size:42
Alignment explanation
Indices: 9994375--9994454 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
9994365 ATGAATTCAT
9994375 ATTTTTTCTTGTATTTTGTTACATAAAATCATAATTGTTATG
1 ATTTTTTCTTGTATTTTGTTACATAAAATCATAATTGTTATG
9994417 ATTTTTTCTTGTATTTTGTTACATAAAATCATAATTGT
1 ATTTTTTCTTGTATTTTGTTACATAAAATCATAATTGT
9994455 GTTTACGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.55
Consensus pattern (42 bp):
ATTTTTTCTTGTATTTTGTTACATAAAATCATAATTGTTATG
Found at i:9999570 original size:21 final size:21
Alignment explanation
Indices: 9999546--9999585 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9999536 TTAAATTTAA
9999546 AAATTAAAAATTAAATAATTT
1 AAATTAAAAATTAAATAATTT
**
9999567 AAATTAAATTTTAAATAAT
1 AAATTAAAAATTAAATAAT
9999586 GAATTTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTAAAAATTAAATAATTT
Found at i:9999575 original size:14 final size:14
Alignment explanation
Indices: 9999533--9999575 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
9999523 TTTTGAGTCA
9999533 AATTTAAATTTAAA-
1 AATTTAAA-TTAAAT
*
9999547 AATTAAAAATTAAAT
1 AATT-TAAATTAAAT
9999562 AATTTAAATTAAAT
1 AATTTAAATTAAAT
9999576 TTTAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTTAAATTAAAT
Found at i:10000069 original size:17 final size:17
Alignment explanation
Indices: 10000035--10000085 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
10000025 ACAAAATTTT
*
10000035 TATTATATTTTTTA-TAA
1 TATTA-ATTTTTAATTAA
10000052 TATTAATTTTTAATTAA
1 TATTAATTTTTAATTAA
*
10000069 TTTTAATTTTTATATTA
1 TATTAATTTTTA-ATTA
10000086 TCTTAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 7 0.23
17 19 0.63
18 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTAATTTTTAATTAA
Found at i:10000091 original size:17 final size:17
Alignment explanation
Indices: 10000035--10000092 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
10000025 ACAAAATTTT
*
10000035 TATTATATTTTT-TATAA
1 TATTA-ATTTTTATATTA
10000052 TATTAATTTTTA-ATTAA
1 TATTAATTTTTATATT-A
*
10000069 TTTTAATTTTTATATTA
1 TATTAATTTTTATATTA
*
10000086 TCTTAAT
1 TATTAAT
10000093 AAAAGAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 8 0.23
17 24 0.69
18 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTAATTTTTATATTA
Found at i:10001571 original size:18 final size:18
Alignment explanation
Indices: 10001548--10001588 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
10001538 ATTTTTTGAT
10001548 AAATAGTTTAAAATTAAA
1 AAATAGTTTAAAATTAAA
10001566 AAATAGTTTAAAATTAAA
1 AAATAGTTTAAAATTAAA
10001584 AAATA
1 AAATA
10001589 TCATATGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AAATAGTTTAAAATTAAA
Found at i:10002537 original size:20 final size:20
Alignment explanation
Indices: 10002496--10002538 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
10002486 TTTAAGAATT
* *
10002496 TATAAAAAATAATTATTGAA
1 TATAAAAAATAAATATTAAA
10002516 TATAAAAGAATAAATA-TAAA
1 TATAAAA-AATAAATATTAAA
10002536 TAT
1 TAT
10002539 GATTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TATAAAAAATAAATATTAAA
Found at i:10005298 original size:12 final size:12
Alignment explanation
Indices: 10005281--10005305 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10005271 TTATATTTAA
10005281 AATTTATTTTTT
1 AATTTATTTTTT
10005293 AATTTATTTTTT
1 AATTTATTTTTT
10005305 A
1 A
10005306 CTTTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
AATTTATTTTTT
Found at i:10007007 original size:37 final size:37
Alignment explanation
Indices: 10006954--10007032 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
10006944 GTCTGAATGT
** *
10006954 TTGTTGATTTTGATGACTATATTTGTGTAATTCTTAC
1 TTGTTGATTTACATGACTATATTTGTATAATTCTTAC
*
10006991 TTGTTGATTTACATGACTATATTTGTATAATTCTTAG
1 TTGTTGATTTACATGACTATATTTGTATAATTCTTAC
10007028 TTGTT
1 TTGTT
10007033 TCTTACATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (37 bp):
TTGTTGATTTACATGACTATATTTGTATAATTCTTAC
Found at i:10008104 original size:10 final size:10
Alignment explanation
Indices: 10008091--10008123 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
10008081 ATATATATAT
10008091 AGACAGAGAG
1 AGACAGAGAG
10008101 AGACAGAGAG
1 AGACAGAGAG
10008111 AGACAGAGAG
1 AGACAGAGAG
10008121 AGA
1 AGA
10008124 GAGTTCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.39, T:0.00
Consensus pattern (10 bp):
AGACAGAGAG
Found at i:10010835 original size:17 final size:17
Alignment explanation
Indices: 10010810--10010843 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10010800 GAGAGATGGA
* *
10010810 ATTTGGGGGAATTTGGG
1 ATTTAGGGGAAATTGGG
10010827 ATTTAGGGGAAATTGGG
1 ATTTAGGGGAAATTGGG
10010844 GTTTGCCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (17 bp):
ATTTAGGGGAAATTGGG
Found at i:10011047 original size:100 final size:99
Alignment explanation
Indices: 10010929--10011130 Score: 343
Period size: 100 Copynumber: 2.0 Consensus size: 99
10010919 AGTAATCGGC
* *
10010929 AATCCAAATTTGTTTTTTCAAAAATTTTTTTACTTATTAAAAATTTTCTTCGGTAATCCAAACTT
1 AATCCAAATTTGTTTTTTCAAAAATTTTTTTACCTAGTAAAAATTTTCTTCGGTAATCCAAACTT
10010994 TTACCAACGGATTATAGAGAAAAAATTTT-TGCGAT
66 TTACCAACGGATTATAGA-AAAAAATTTTGT-CGAT
*
10011029 AATCCAAATTTGTTTTTTCAAAATTTTTTTTACCTAGTAAAAATTTTCTTCGGTAATCCAAACTT
1 AATCCAAATTTGTTTTTTCAAAAATTTTTTTACCTAGTAAAAATTTTCTTCGGTAATCCAAACTT
*
10011094 TTACCAATGGATTATAGAAAAAAATTTTGTCGAT
66 TTACCAACGGATTATAGAAAAAAATTTTGTCGAT
10011128 AAT
1 AAT
10011131 TTTTGCGGTA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
99 17 0.18
100 80 0.82
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (99 bp):
AATCCAAATTTGTTTTTTCAAAAATTTTTTTACCTAGTAAAAATTTTCTTCGGTAATCCAAACTT
TTACCAACGGATTATAGAAAAAAATTTTGTCGAT
Found at i:10018524 original size:24 final size:24
Alignment explanation
Indices: 10018471--10018526 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
10018461 ATGGAAAAAG
*
10018471 AAAAAAATCAATTGAAATAAATATG
1 AAAAAAATCAATT-AAATAAATATA
10018496 AAAAAAATCAA-TATAATAAA-ATA
1 AAAAAAATCAATTA-AATAAATATA
*
10018519 ATAAAAAT
1 AAAAAAAT
10018527 AAAAATGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 10 0.36
24 7 0.25
25 11 0.39
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAAAAATCAATTAAATAAATATA
Found at i:10019223 original size:13 final size:13
Alignment explanation
Indices: 10019206--10019241 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
10019196 CCAAAAAAAA
*
10019206 AAAAAAAAAACTCC
1 AAAAAAAAATC-CC
10019220 AAAAAAAAATCCC
1 AAAAAAAAATCCC
10019233 AAAAAAAAA
1 AAAAAAAAA
10019242 AAAACCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.78, C:0.17, G:0.00, T:0.06
Consensus pattern (13 bp):
AAAAAAAAATCCC
Found at i:10019252 original size:12 final size:12
Alignment explanation
Indices: 10019191--10019242 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
10019181 ACTTGATTCC
10019191 AAAAACCAAAAA
1 AAAAACCAAAAA
10019203 AAAAA--AAAAA
1 AAAAACCAAAAA
**
10019213 AAACTCCAAAAA
1 AAAAACCAAAAA
*
10019225 AAAATCCCAAAAA
1 AAAA-ACCAAAAA
10019238 AAAAA
1 AAAAA
10019243 AAACCAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
10 8 0.25
12 13 0.41
13 11 0.34
ACGTcount: A:0.81, C:0.15, G:0.00, T:0.04
Consensus pattern (12 bp):
AAAAACCAAAAA
Found at i:10020134 original size:18 final size:18
Alignment explanation
Indices: 10020101--10020224 Score: 71
Period size: 18 Copynumber: 6.9 Consensus size: 18
10020091 AGATTCACAA
* *
10020101 AAAATTTGTAATGATTTC
1 AAAATTTATAAAGATTTC
10020119 AAAATTTATAAAGA-TTC
1 AAAATTTATAAAGATTTC
* * *
10020136 AAGATTCACAAAGATTTTC
1 AAAATTTATAAAGA-TTTC
*
10020155 -AAATTCAT-AAGAATTTC
1 AAAATTTATAAAG-ATTTC
*
10020172 -AAATTTCGTAAAGATTTC
1 AAAATTT-ATAAAGATTTC
*
10020190 AAAAGTTCATAAATGA-TTC
1 AAAA-TTTATAAA-GATTTC
*
10020209 AAGATTCT-TAAAGATT
1 AAAATT-TATAAAGATT
10020225 CCATATTCAC
Statistics
Matches: 83, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
17 28 0.34
18 32 0.39
19 19 0.23
20 4 0.05
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (18 bp):
AAAATTTATAAAGATTTC
Found at i:10020335 original size:35 final size:35
Alignment explanation
Indices: 10020287--10020354 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
10020277 TCAAATTCGT
* **
10020287 AAAGGTTCCAGATTTACAAGGATTTTAAATTTCCC
1 AAAGATTCCAGATTTACAAGGATTCCAAATTTCCC
* *
10020322 AAAGATTCTAGATTTAGAAGGATTCCAAATTTC
1 AAAGATTCCAGATTTACAAGGATTCCAAATTTC
10020355 GTAAAGGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (35 bp):
AAAGATTCCAGATTTACAAGGATTCCAAATTTCCC
Found at i:10020739 original size:22 final size:22
Alignment explanation
Indices: 10020714--10020775 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 22
10020704 ATTTCAGGAT
*
10020714 TTCACATCCAAAATTTTA-AATA
1 TTCACATCTAAAATTTTAGAA-A
10020736 TTCACATTCATAAAATTTTAGAAA
1 TTCACA-TC-TAAAATTTTAGAAA
*
10020760 TTCAAATCTAAAATTT
1 TTCACATCTAAAATTT
10020776 CAAAGGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 14 0.40
23 4 0.11
24 15 0.43
25 2 0.06
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.39
Consensus pattern (22 bp):
TTCACATCTAAAATTTTAGAAA
Found at i:10026097 original size:3 final size:3
Alignment explanation
Indices: 10026089--10026215 Score: 200
Period size: 3 Copynumber: 42.3 Consensus size: 3
10026079 ATAATTAAAA
10026089 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * *
10026137 AAT AAT GAT AAT AAT AGC AAT AAC AAT AAC AAT AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10026185 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10026216 CAAAAAAAGA
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 112 1.00
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10026956 original size:25 final size:25
Alignment explanation
Indices: 10026911--10026958 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10026901 AGTTCCAAAA
* *
10026911 AAAATCCTAAAAAAATTAAAATTAG
1 AAAACCCTAAAAAAATAAAAATTAG
10026936 AAAACCCTAAAAATAA-AAAAATT
1 AAAACCCTAAAAA-AATAAAAATT
10026959 TGGAATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.21
Consensus pattern (25 bp):
AAAACCCTAAAAAAATAAAAATTAG
Found at i:10032062 original size:2 final size:2
Alignment explanation
Indices: 10032055--10032081 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10032045 GTTCTCATGC
10032055 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10032082 TGACAAGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10032152 original size:17 final size:18
Alignment explanation
Indices: 10032132--10032171 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
10032122 ATGATATATA
*
10032132 TTGTCTTAA-TTATTTTG
1 TTGTCTTAAGGTATTTTG
10032149 TTGT-TTAAGGTATTTTG
1 TTGTCTTAAGGTATTTTG
10032166 -TGTCTT
1 TTGTCTT
10032172 TTGATATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.15, C:0.05, G:0.17, T:0.62
Consensus pattern (18 bp):
TTGTCTTAAGGTATTTTG
Found at i:10032343 original size:3 final size:3
Alignment explanation
Indices: 10032335--10032368 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10032325 TTCATAAGCA
10032335 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10032369 TGATTCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10033562 original size:5 final size:5
Alignment explanation
Indices: 10033533--10033582 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
10033523 CATTTTTTTA
* * *
10033533 TTATT TTACT TTA-T TT-GT TTGTT TTATT TTATT TTATT TTATT TTCATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT-ATT
10033582 T
1 T
10033583 AATTATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
4 6 0.15
5 29 0.74
6 4 0.10
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:10034521 original size:2 final size:2
Alignment explanation
Indices: 10034514--10034545 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10034504 AAATATGTTC
10034514 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10034546 AATGAATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10034535 original size:13 final size:13
Alignment explanation
Indices: 10034517--10034542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10034507 TATGTTCATA
10034517 TATATATATATAT
1 TATATATATATAT
10034530 TATATATATATAT
1 TATATATATATAT
10034543 ATAAATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:10034535 original size:15 final size:15
Alignment explanation
Indices: 10034515--10034544 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10034505 AATATGTTCA
10034515 TATATATATATATAT
1 TATATATATATATAT
10034530 TATATATATATATAT
1 TATATATATATATAT
10034545 AAATGAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:10034576 original size:23 final size:23
Alignment explanation
Indices: 10034543--10034598 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
10034533 ATATATATAT
* *
10034543 ATAAATGAATATGTTCGTGAATA
1 ATAAATAAATATGTTCATGAATA
*
10034566 ATAAATAAATATGTTCATGAATG
1 ATAAATAAATATGTTCATGAATA
*
10034589 ATAAACAAAT
1 ATAAATAAAT
10034599 TTACATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.32
Consensus pattern (23 bp):
ATAAATAAATATGTTCATGAATA
Found at i:10043092 original size:31 final size:31
Alignment explanation
Indices: 10043043--10043118 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
10043033 GCTATTTAGT
* *
10043043 CTAACAAGTGATATTAGAGCTGTGGTAATCC
1 CTAACAAATGGTATTAGAGCTGTGGTAATCC
* * *
10043074 CTAATAAATGGTATTAGAGTTGTGGTGATCC
1 CTAACAAATGGTATTAGAGCTGTGGTAATCC
*
10043105 CTAACAAGTGGTAT
1 CTAACAAATGGTAT
10043119 CAGACTGAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (31 bp):
CTAACAAATGGTATTAGAGCTGTGGTAATCC
Found at i:10044415 original size:15 final size:15
Alignment explanation
Indices: 10044395--10044427 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10044385 GCCAAATAGG
*
10044395 AATGTGTATATAGAA
1 AATGTGGATATAGAA
10044410 AATGTGGATATAGAA
1 AATGTGGATATAGAA
10044425 AAT
1 AAT
10044428 AATGGGTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (15 bp):
AATGTGGATATAGAA
Found at i:10045920 original size:32 final size:33
Alignment explanation
Indices: 10045884--10045946 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
10045874 TTTGCATGAC
* *
10045884 TAATATTATATTTATATGA-TAATTTATTTGCT
1 TAATATTATATTTACATGATTAATATATTTGCT
* *
10045916 TAATATTTTATTTGCATGATTAATATATTTG
1 TAATATTATATTTACATGATTAATATATTTG
10045947 TGTGATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (33 bp):
TAATATTATATTTACATGATTAATATATTTGCT
Found at i:10045986 original size:19 final size:20
Alignment explanation
Indices: 10045922--10046259 Score: 130
Period size: 20 Copynumber: 16.6 Consensus size: 20
10045912 TGCTTAATAT
10045922 TTTATTTGCATGA-T-T-AA
1 TTTATTTGCATGATTATCAA
* ** *
10045939 TATATTTGTGTGATTTATTAA
1 TTTATTTGCATGA-TTATCAA
* *
10045960 TATATTTGCATGACTATCAA
1 TTTATTTGCATGATTATCAA
*
10045980 -TTATTTGCATAATTATCAA
1 TTTATTTGCATGATTATCAA
10045999 TTTATTTGCATGATTATCAATTTA
1 TTTATTTGCATGATTATC-A---A
*
10046023 TTTATTTGTATGATTAT-ATA
1 TTTATTTGCATGATTATCA-A
* * *
10046043 TTTAATTGCATGTTTTAT-AT
1 TTTATTTGCATG-ATTATCAA
* *
10046063 TATTAATTGCTTGATTAT-ATA
1 T-TTATTTGCATGATTATCA-A
* *
10046084 TTTAGTTGCATG-TT-TTATA
1 TTTATTTGCATGATTATCA-A
* *
10046103 TTACTAATTGCATGATAAT-ATA
1 TT--TATTTGCATGATTATCA-A
* * *
10046125 TTTAATTGCATGTTTTAT-AT
1 TTTATTTGCATG-ATTATCAA
* *
10046145 TGTTAATTGCATGATAAT-ATA
1 T-TTATTTGCATGATTATCA-A
* *
10046166 TTTATTTGCATGGTTATCGA
1 TTTATTTGCATGATTATCAA
*
10046186 TTTAATTGCATGATT-TACATA
1 TTTATTTGCATGATTAT-CA-A
*
10046207 TTTAATTGCATGATTTAT-ATA
1 TTTATTTGCATGA-TTATCA-A
*
10046228 TTTAATTGCATGATTAT-ATA
1 TTTATTTGCATGATTATCA-A
*
10046248 TTTAATTGCATG
1 TTTATTTGCATG
10046260 CTTTACATTG
Statistics
Matches: 260, Mismatches: 36, Indels: 47
0.76 0.10 0.14
Matches are distributed among these distances:
17 10 0.04
18 1 0.00
19 25 0.10
20 111 0.43
21 85 0.33
22 9 0.03
23 2 0.01
24 17 0.07
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTATTTGCATGATTATCAA
Found at i:10046085 original size:41 final size:41
Alignment explanation
Indices: 10046032--10046342 Score: 405
Period size: 41 Copynumber: 7.6 Consensus size: 41
10046022 ATTTATTTGT
10046032 ATGATTATATATTTAATTGCATGTTTTATATTATTAATTGC
1 ATGATTATATATTTAATTGCATGTTTTATATTATTAATTGC
* * *
10046073 TTGATTATATATTTAGTTGCATGTTTTATATTACTAATTGC
1 ATGATTATATATTTAATTGCATGTTTTATATTATTAATTGC
* *
10046114 ATGATAATATATTTAATTGCATGTTTTATATTGTTAATTGC
1 ATGATTATATATTTAATTGCATGTTTTATATTATTAATTGC
* * *
10046155 ATGATAATATATTTATTTGCATG-GTTATCGA-T-TTAATTGC
1 ATGATTATATATTTAATTGCATGTTTTAT--ATTATTAATTGC
* *
10046195 ATGATTTACATATTTAATTGCATGATTTATA-TATTTAATTGC
1 ATGA-TTATATATTTAATTGCATGTTTTATATTA-TTAATTGC
* * *
10046237 ATGATTATATATTTAATTGCATGCTTTACATTGTTAATTGC
1 ATGATTATATATTTAATTGCATGTTTTATATTATTAATTGC
* * * *
10046278 ATGATTAGATATCTAATGGCATGTTTTACATTATTAATTGC
1 ATGATTATATATTTAATTGCATGTTTTATATTATTAATTGC
10046319 ATGATTATATATTTAATTGCATGT
1 ATGATTATATATTTAATTGCATGT
10046343 CTATTTGCAT
Statistics
Matches: 237, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
40 18 0.08
41 201 0.85
42 18 0.08
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (41 bp):
ATGATTATATATTTAATTGCATGTTTTATATTATTAATTGC
Found at i:10046217 original size:164 final size:165
Alignment explanation
Indices: 10045998--10046341 Score: 460
Period size: 164 Copynumber: 2.1 Consensus size: 165
10045988 ATAATTATCA
* * *
10045998 ATTTATTTGCATGATTATCAATTTATTTATTTGTATGATTATATATTTAATTGCATGTTTTATAT
1 ATTTATTTGCATGATTATCAATTTA--TATTTGCATGATTACATATTTAATTGCATGATTTATAT
* * * * * *
10046063 -TATTAATTGCTTGATTATATATTTAGTTGCATGTTTTATATTACTAATTGCATGATAATATATT
64 AT-TTAATTGCATGATTATATATTTAATTGCATGCTTTACATTACTAATTGCATGATAAGATATC
* * *
10046127 TAATTGCATGTTTTATATTGTTAATTGCATGATAATAT
128 TAATGGCATGTTTTACATTATTAATTGCATGATAATAT
* *
10046165 ATTTATTTGCATGGTTATCGATTTA-A-TTGCATGATTTACATATTTAATTGCATGATTTATATA
1 ATTTATTTGCATGATTATCAATTTATATTTGCATGA-TTACATATTTAATTGCATGATTTATATA
** *
10046228 TTTAATTGCATGATTATATATTTAATTGCATGCTTTACATTGTTAATTGCATGATTAGATATCTA
65 TTTAATTGCATGATTATATATTTAATTGCATGCTTTACATTACTAATTGCATGATAAGATATCTA
*
10046293 ATGGCATGTTTTACATTATTAATTGCATGATTATAT
130 ATGGCATGTTTTACATTATTAATTGCATGATAATAT
*
10046329 ATTTAATTGCATG
1 ATTTATTTGCATG
10046342 TCTATTTGCA
Statistics
Matches: 156, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
163 7 0.04
164 125 0.80
165 1 0.01
167 23 0.15
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.51
Consensus pattern (165 bp):
ATTTATTTGCATGATTATCAATTTATATTTGCATGATTACATATTTAATTGCATGATTTATATAT
TTAATTGCATGATTATATATTTAATTGCATGCTTTACATTACTAATTGCATGATAAGATATCTAA
TGGCATGTTTTACATTATTAATTGCATGATAATAT
Found at i:10051698 original size:14 final size:14
Alignment explanation
Indices: 10051679--10051711 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10051669 TCTTGAGATT
*
10051679 AAAGTATAAACTGC
1 AAAGTATAAACTAC
10051693 AAAGTATAAACTAC
1 AAAGTATAAACTAC
10051707 AAAGT
1 AAAGT
10051712 TTGGTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (14 bp):
AAAGTATAAACTAC
Found at i:10052970 original size:14 final size:14
Alignment explanation
Indices: 10052951--10052979 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10052941 TTTAAGTAAC
10052951 AAAAAACAATCTTG
1 AAAAAACAATCTTG
10052965 AAAAAACAATCTTG
1 AAAAAACAATCTTG
10052979 A
1 A
10052980 TGAAGATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAAAACAATCTTG
Found at i:10054428 original size:42 final size:41
Alignment explanation
Indices: 10054360--10054660 Score: 291
Period size: 42 Copynumber: 7.1 Consensus size: 41
10054350 AGAATGATCT
**
10054360 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTAGGAAAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGT-GGGGAG
* * * *
10054403 CATTTTACTTTCCAAAG-TTCAAAAGCCTTAGTCGTGGGGGAG
1 CATTTTATTTTCAAAAGTTTC-AAAGCCTCAGTTGT-GGGGAG
*
10054445 CATTTTATTTTTCAAATGTTTCAAAGCCTCAGTTGTGGGGAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGAG
* * * * **
10054487 CATTTAATTTTTCAAAAGTTCCAAAGCCTTAGTCGTGGAAAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGAG
* * * *
10054529 CATGTTATTTTCAAAACTTCCAAAGCCTCAATTGTGGGGAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGAG
* * * *
10054570 TATTTTATTTTCAAAAGTTTCAAAGCCTCAATTATGGGAGAA
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGG-GAG
* *
10054612 CATTTTATGTTTC-AAAGTTTCAAAGCCTTAGTAGTGGGGGGAG
1 CATTTTAT-TTTCAAAAGTTTCAAAGCCTCAGT--TGTGGGGAG
10054655 CATTTT
1 CATTTT
10054661 TCCCAAAAAA
Statistics
Matches: 212, Mismatches: 39, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
41 64 0.30
42 103 0.49
43 38 0.18
44 7 0.03
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (41 bp):
CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGAG
Found at i:10054505 original size:85 final size:83
Alignment explanation
Indices: 10054360--10054660 Score: 329
Period size: 85 Copynumber: 3.6 Consensus size: 83
10054350 AGAATGATCT
** * *
10054360 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTAGGAAAGCATTTTACTTTCCAAAGTTCAA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGT-GGGGAGCATTTTATTTTCAAAAGTTC-A
*
10054425 AAGCCTTAGTCGTGGGGGAG
64 AAGCCTTAGTCGTGGGAGAG
* *
10054445 CATTTTATTTTTCAAATGTTTCAAAGCCTCAGTTGTGGGGAGCATTTAATTTTTCAAAAGTTCCA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGAGCATTTTA-TTTTCAAAAGTT-CA
*
10054510 AAGCCTTAGTCGT-GGAAAG
64 AAGCCTTAGTCGTGGGAGAG
* * * * *
10054529 CATGTTA-TTTTCAAAACTTCCAAAGCCTCAATTGTGGGGAGTATTTTATTTTCAAAAGTTTCAA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGAGCATTTTATTTTCAAAAG-TTCAA
* * ** *
10054593 AGCCTCAATTATGGGAGAA
65 AGCCTTAGTCGTGGGAGAG
* * *
10054612 CATTTTATGTTTC-AAAGTTTCAAAGCCTTAGTAGTGGGGGGAGCATTTT
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGT--TGTGGGGAGCATTTT
10054661 TCCCAAAAAA
Statistics
Matches: 180, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
82 21 0.12
83 62 0.34
84 24 0.13
85 72 0.40
86 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (83 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGAGCATTTTATTTTCAAAAGTTCAAA
GCCTTAGTCGTGGGAGAG
Found at i:10054948 original size:13 final size:13
Alignment explanation
Indices: 10054930--10054964 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
10054920 TTGTTTGTAT
10054930 TTTAATTTTTTAG
1 TTTAATTTTTTAG
10054943 TTTAA-TTTTTAG
1 TTTAATTTTTTAG
10054955 TTTAATTTTT
1 TTTAATTTTT
10054965 CTTTTTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTAATTTTTTAG
Found at i:10055647 original size:17 final size:18
Alignment explanation
Indices: 10055625--10055691 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 18
10055615 GCTTAAATTT
10055625 TATTTGCATG-ATTAATA
1 TATTTGCATGTATTAATA
10055642 TATTTG-AGTGATTTATTAATA
1 TATTTGCA-TG---TATTAATA
*
10055663 TATTTGCATGACTATTAATT
1 TATTTGCATG--TATTAATA
10055683 TATTTGCAT
1 TATTTGCAT
10055692 AATTATCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.02
17 8 0.20
20 16 0.39
21 15 0.37
22 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (18 bp):
TATTTGCATGTATTAATA
Found at i:10055680 original size:20 final size:21
Alignment explanation
Indices: 10055635--10055691 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
10055625 TATTTGCATG
*
10055635 ATTAATATATTTG-AGTGATTT
1 ATTAATATATTTGCA-TGATCT
10055656 ATTAATATATTTGCATGA-CT
1 ATTAATATATTTGCATGATCT
*
10055676 ATTAATTTATTTGCAT
1 ATTAATATATTTGCAT
10055692 AATTATCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 16 0.48
21 16 0.48
22 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (21 bp):
ATTAATATATTTGCATGATCT
Found at i:10055702 original size:20 final size:20
Alignment explanation
Indices: 10055663--10055707 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10055653 TTTATTAATA
* *
10055663 TATTTGCATGACTATTAATT
1 TATTTGCATAACTATCAATT
*
10055683 TATTTGCATAATTATCAATT
1 TATTTGCATAACTATCAATT
10055703 TATTT
1 TATTT
10055708 ATTTGTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (20 bp):
TATTTGCATAACTATCAATT
Found at i:10055740 original size:20 final size:20
Alignment explanation
Indices: 10055717--10055970 Score: 203
Period size: 20 Copynumber: 12.4 Consensus size: 20
10055707 TATTTGTATG
10055717 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
10055737 ATTGCATG-TTTTATATTGTTA
1 ATTGCATGATTATATA-T-TTA
* *
10055758 ATTACTTGATTATATATTTA
1 ATTGCATGATTATATATTTA
* *
10055778 GTTTGCATG-TTTTATATTGTTA
1 -ATTGCATGATTATATA-T-TTA
*
10055800 ATTGCATGATAATATATTT-
1 ATTGCATGATTATATATTTA
*
10055819 ATGTGCATTATTATCA-ATTTA
1 AT-TGCATGATTAT-ATATTTA
*
10055840 ATTACATGATTTATATATTTA
1 ATTGCATGA-TTATATATTTA
* * *
10055861 ATTACGTGATTATATACTTA
1 ATTGCATGATTATATATTTA
10055881 ATTGCATGATTTATATATTTA
1 ATTGCATGA-TTATATATTTA
* * * *
10055902 ATTACTTGATCATATATTTG
1 ATTGCATGATTATATATTTA
* * * *
10055922 ATTGTACG-TTTTACATTATTA
1 ATTGCATGATTATATA-T-TTA
10055943 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
10055963 ATTGCATG
1 ATTGCATG
10055971 TCTATTTGCA
Statistics
Matches: 182, Mismatches: 36, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
19 12 0.07
20 81 0.45
21 70 0.38
22 19 0.10
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:10055876 original size:61 final size:62
Alignment explanation
Indices: 10055721--10055970 Score: 160
Period size: 61 Copynumber: 4.1 Consensus size: 62
10055711 TGTATGATTG
* * * ** * * * *
10055721 CATGA-TTATATATTTAATTGCATGTTTTATATTGTTAATTACTTGA-TTATATATTTAGTTTG
1 CATGATTTATATATTTAATTACATG-ATAATATACTTAATTGCATGATTTATATATTTA-ATTA
* * * *
10055783 CATGTTTTATAT-TGTTAATTGCATGATAATATA-TTTATGTGCATTA-TTATCA-ATTTAATTA
1 CATGATTTATATAT-TTAATTACATGATAATATACTTAAT-TGCATGATTTAT-ATATTTAATTA
* *
10055844 CATGATTTATATATTTAATTACGTGATTATATACTTAATTGCATGATTTATATATTTAATTA
1 CATGATTTATATATTTAATTACATGATAATATACTTAATTGCATGATTTATATATTTAATTA
* * * * ** *
10055906 CTTGA-TCATATATTTGATTGTACGTTTTACAT-TA-TTAATTGCATGA-TTATATATTTAATTG
1 CATGATTTATATATTT-AAT-TACATGATA-ATATACTTAATTGCATGATTTATATATTTAATTA
10055967 CATG
1 CATG
10055971 TCTATTTGCA
Statistics
Matches: 153, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
61 66 0.43
62 59 0.39
63 26 0.17
64 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (62 bp):
CATGATTTATATATTTAATTACATGATAATATACTTAATTGCATGATTTATATATTTAATTA
Found at i:10055905 original size:41 final size:41
Alignment explanation
Indices: 10055717--10055970 Score: 191
Period size: 41 Copynumber: 6.2 Consensus size: 41
10055707 TATTTGTATG
* *
10055717 ATTGCATGA-TTATATATTTAATTGCATG-TTTTATATTGTTA
1 ATTGCATGATTTATATATTTAATTACATGATTATATA-T-TTA
* * * * *
10055758 ATTACTTGA-TTATATATTTAGTTTGCATG-TTTTATATTGTTA
1 ATTGCATGATTTATATATTTA-ATTACATGATTATATA-T-TTA
* * *
10055800 ATTGCATGA-TAATATATTT-ATGTGCATTATTATCA-ATTTA
1 ATTGCATGATTTATATATTTAAT-TACATGATTAT-ATATTTA
* * *
10055840 ATTACATGATTTATATATTTAATTACGTGATTATATACTTA
1 ATTGCATGATTTATATATTTAATTACATGATTATATATTTA
* * *
10055881 ATTGCATGATTTATATATTTAATTACTTGATCATATATTTG
1 ATTGCATGATTTATATATTTAATTACATGATTATATATTTA
* * * * *
10055922 ATTGTACGTTTTACAT-TATTAATTGCATGATTATATATTTA
1 ATTGCATGATTTATATAT-TTAATTACATGATTATATATTTA
10055963 ATTGCATG
1 ATTGCATG
10055971 TCTATTTGCA
Statistics
Matches: 175, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
40 14 0.08
41 118 0.67
42 42 0.24
43 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (41 bp):
ATTGCATGATTTATATATTTAATTACATGATTATATATTTA
Found at i:10057969 original size:1 final size:1
Alignment explanation
Indices: 10057963--10057996 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
10057953 TTTTCCTTTC
* *
10057963 TTTTTTTGTTTTTTTTGTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10057997 GAAGTGGGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:10057977 original size:9 final size:9
Alignment explanation
Indices: 10057963--10057997 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
10057953 TTTTCCTTTC
10057963 TTTTTTTGT
1 TTTTTTTGT
10057972 TTTTTTTGT
1 TTTTTTTGT
*
10057981 TTTTTTTTT
1 TTTTTTTGT
10057990 TTTTTTTG
1 TTTTTTTG
10057998 AAGTGGGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:10057995 original size:17 final size:17
Alignment explanation
Indices: 10057963--10057994 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10057953 TTTTCCTTTC
10057963 TTTTTTTGTTTTTTTTG
1 TTTTTTTGTTTTTTTTG
10057980 TTTTTTT-TTTTTTTT
1 TTTTTTTGTTTTTTTT
10057995 TTGAAGTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (17 bp):
TTTTTTTGTTTTTTTTG
Found at i:10058702 original size:26 final size:28
Alignment explanation
Indices: 10058654--10058708 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
10058644 ACTTGAATTT
10058654 AAAAAAAATGCATAAGTTGATACT-TAA
1 AAAAAAAATGCATAAGTTGATACTATAA
* *
10058681 AAAAAAAATGTATAA-TTTATACTATAA
1 AAAAAAAATGCATAAGTTGATACTATAA
10058708 A
1 A
10058709 CTTTCAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.29
Consensus pattern (28 bp):
AAAAAAAATGCATAAGTTGATACTATAA
Found at i:10060667 original size:47 final size:48
Alignment explanation
Indices: 10060616--10060708 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
10060606 ACAAACAAGT
*
10060616 CATGAATAGAGT-AAATTCATTTGTATTTAGTTCATTTATATAAATAG
1 CATGAATAGAGTAAAATTCATTTGTATTTAGCTCATTTATATAAATAG
* *
10060663 CATGAATATAGTAAAATTCATTTTTATTTAGCTCATTTATATAAAT
1 CATGAATAGAGTAAAATTCATTTGTATTTAGCTCATTTATATAAAT
10060709 GGATAAAACG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 11 0.26
48 31 0.74
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.44
Consensus pattern (48 bp):
CATGAATAGAGTAAAATTCATTTGTATTTAGCTCATTTATATAAATAG
Found at i:10065038 original size:21 final size:22
Alignment explanation
Indices: 10065005--10065056 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
10064995 AAATGTCTTA
* * **
10065005 ATTTTGATATTTAAAATTAATT
1 ATTTTTATTTTTAAAAAAAATT
10065027 -TTTTTATTTTTAAAAAAAATT
1 ATTTTTATTTTTAAAAAAAATT
10065048 ATTTTTATT
1 ATTTTTATT
10065057 ATTTTTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTATTTTTAAAAAAAATT
Found at i:10065051 original size:24 final size:26
Alignment explanation
Indices: 10065017--10065064 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
10065007 TTTGATATTT
10065017 AAAATTAATTTTT-TTATTTTTAAAA
1 AAAATTAATTTTTATTATTTTTAAAA
10065042 AAAATT-ATTTTTATTATTTTTAA
1 AAAATTAATTTTTATTATTTTTAA
10065065 TTGTTTGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
AAAATTAATTTTTATTATTTTTAAAA
Found at i:10066249 original size:12 final size:12
Alignment explanation
Indices: 10066228--10066257 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10066218 TGGAGAATTC
10066228 AAAT-TTTCATT
1 AAATCTTTCATT
10066239 AAATCTTTCATT
1 AAATCTTTCATT
10066251 AAATCTT
1 AAATCTT
10066258 ACTAAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (12 bp):
AAATCTTTCATT
Found at i:10066983 original size:32 final size:33
Alignment explanation
Indices: 10066939--10067010 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
10066929 TAAGTTAAAA
*
10066939 TTGTCTACAATTAA-GAATTTTTCTTTG-ATGTT
1 TTGTCTAAAATTAAGGAA-TTTTCTTTGAATGTT
10066971 TTGTCTAAAATTAAGGAATTTTCTTTGAATGTT
1 TTGTCTAAAATTAAGGAATTTTCTTTGAATGTT
10067004 TTGTCTA
1 TTGTCTA
10067011 TTTATAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
32 22 0.59
33 15 0.41
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.51
Consensus pattern (33 bp):
TTGTCTAAAATTAAGGAATTTTCTTTGAATGTT
Found at i:10072110 original size:22 final size:22
Alignment explanation
Indices: 10072085--10072155 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
10072075 TATAAGACAC
* * *
10072085 AATTTTTAAAACTTTTAGGCAT
1 AATTTTTAAGACTTCTAAGCAT
*
10072107 AATTTGTAAGA-TATCTAAGCAT
1 AATTTTTAAGACT-TCTAAGCAT
* *
10072129 AATTTTTAAGACTTCCAAGTAT
1 AATTTTTAAGACTTCTAAGCAT
10072151 AATTT
1 AATTT
10072156 GAGAAAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 38 0.95
23 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (22 bp):
AATTTTTAAGACTTCTAAGCAT
Found at i:10074643 original size:15 final size:15
Alignment explanation
Indices: 10074617--10074655 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10074607 ACAAAAAATC
10074617 TTTATT-TATTAT-T
1 TTTATTATATTATAT
10074630 ATTTATTATATTATAT
1 -TTTATTATATTATAT
10074646 TTTATTATAT
1 TTTATTATAT
10074656 GTTGATTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.26
15 16 0.70
16 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTATATTATAT
Found at i:10075001 original size:12 final size:12
Alignment explanation
Indices: 10074973--10075013 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
10074963 TATTCTAAAT
10074973 TTATTTTT-TTA
1 TTATTTTTATTA
10074984 --ATTTTTATTA
1 TTATTTTTATTA
10074994 TTATTTTTATTAA
1 TTATTTTTATT-A
10075007 TTATTTT
1 TTATTTT
10075014 ATTGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 6 0.23
10 3 0.12
12 9 0.35
13 8 0.31
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:10075001 original size:13 final size:13
Alignment explanation
Indices: 10074984--10075013 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
10074974 TATTTTTTTA
10074984 ATTTTTATT-ATT
1 ATTTTTATTAATT
10074996 ATTTTTATTAATT
1 ATTTTTATTAATT
10075009 ATTTT
1 ATTTT
10075014 ATTGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTTATTAATT
Found at i:10075301 original size:3 final size:3
Alignment explanation
Indices: 10075293--10075332 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
10075283 ATTCTTAAAG
10075293 ATT ATT ATT ATT ATT ATT ATT AATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
10075333 GAATGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10075320 original size:19 final size:19
Alignment explanation
Indices: 10075296--10075332 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10075286 CTTAAAGATT
10075296 ATTATTATTATTATTATTA
1 ATTATTATTATTATTATTA
10075315 ATTATTATTATTATTATT
1 ATTATTATTATTATTATT
10075333 GAATGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATTATTATTATTATTA
Found at i:10078027 original size:28 final size:29
Alignment explanation
Indices: 10077994--10078058 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
10077984 TTGTTTCTTG
*
10077994 TTTGTTATTGTTATT-GTTGTTTTTTT-GT
1 TTTGTT-TTGTTATTCGTTATTTTTTTGGT
* *
10078022 TTTGTTTTTTTATTCTTTATTTTTTTGGT
1 TTTGTTTTGTTATTCGTTATTTTTTTGGT
*
10078051 TTTTTTTT
1 TTTGTTTT
10078059 TTTTTTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 15 0.48
29 9 0.29
ACGTcount: A:0.06, C:0.02, G:0.12, T:0.80
Consensus pattern (29 bp):
TTTGTTTTGTTATTCGTTATTTTTTTGGT
Found at i:10078042 original size:34 final size:30
Alignment explanation
Indices: 10077975--10078065 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 30
10077965 AAAAGTTTTT
*
10077975 TTTTTTTTTTTGTTTCTTGTTTGTTATTGTTA
1 TTTTTTTTTTTGTTT-TT-TTTTTTATTGTTA
*
10078007 TTGTTGTTTTTTTGTTTTGTTTTTTTATTCTTTA
1 TT-TT-TTTTTTTGTTTT-TTTTTTTATT-GTTA
10078041 TTTTTTTGGTTTT-TTTTTTTTTTTA
1 TTTTTTT--TTTTGTTTTTTTTTTTA
10078066 ATTTGGTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
32 13 0.25
33 17 0.33
34 21 0.41
ACGTcount: A:0.05, C:0.02, G:0.11, T:0.81
Consensus pattern (30 bp):
TTTTTTTTTTTGTTTTTTTTTTTATTGTTA
Found at i:10078409 original size:46 final size:43
Alignment explanation
Indices: 10078329--10078424 Score: 129
Period size: 46 Copynumber: 2.2 Consensus size: 43
10078319 AAACAGAGGT
* *
10078329 TTTAAAATTTTAGAAATACTCCTCTAAACAAAGGCCTTGAAAC
1 TTTAAAATTTTAAAAATACTCCTATAAACAAAGGCCTTGAAAC
* *
10078372 TTTAAAATTTTGAAAAATAGCTCCCTATAAACAAAGGCTTTGAAAT
1 TTTAAAATTTT-AAAAATA-CT-CCTATAAACAAAGGCCTTGAAAC
10078418 TTTAAAA
1 TTTAAAA
10078425 ATCTTGTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 11 0.24
44 6 0.13
45 2 0.04
46 27 0.59
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (43 bp):
TTTAAAATTTTAAAAATACTCCTATAAACAAAGGCCTTGAAAC
Found at i:10079520 original size:11 final size:12
Alignment explanation
Indices: 10079492--10079528 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
10079482 CTTTCTTCCA
10079492 TCTTTTTGTTTCT
1 TCTTTTT-TTTCT
10079505 TCTTTTTTTT-T
1 TCTTTTTTTTCT
10079516 TCTTTTTTTTCT
1 TCTTTTTTTTCT
10079528 T
1 T
10079529 TTTAACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 5 0.22
13 7 0.30
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (12 bp):
TCTTTTTTTTCT
Found at i:10079947 original size:52 final size:53
Alignment explanation
Indices: 10079863--10079990 Score: 150
Period size: 52 Copynumber: 2.4 Consensus size: 53
10079853 TAAATACAAG
* * *
10079863 TGATGTAAGTACAAATGTATTTCTCATAATGTAAATACGAATGCGAATG-AAA
1 TGATGCAAATACAAATGTATTTCTCATAATGTAAATACAAATGCGAATGTAAA
* * * * * **
10079915 TGATGCAAATACGAATGTTTTTCTTATGATGTAGATACAAATGCGAATGTAGG
1 TGATGCAAATACAAATGTATTTCTCATAATGTAAATACAAATGCGAATGTAAA
10079968 TGATGCAAATACAAATGTCATTT
1 TGATGCAAATACAAATGT-ATTT
10079991 TTTATTTTTG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
52 41 0.66
53 18 0.29
54 3 0.05
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (53 bp):
TGATGCAAATACAAATGTATTTCTCATAATGTAAATACAAATGCGAATGTAAA
Found at i:10086795 original size:15 final size:16
Alignment explanation
Indices: 10086759--10086816 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 16
10086749 TCTCTTCTTG
10086759 TTTT-ATTTTATATTT
1 TTTTAATTTTATATTT
10086774 ATTTTAATTTTA-ATTT
1 -TTTTAATTTTATATTT
10086790 TTTTAATTATTATTATTT
1 TTTTAATT-TTA-TATTT
10086808 TTATTAATT
1 TT-TTAATT
10086817 ATTTTTTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.22
16 11 0.30
17 6 0.16
18 6 0.16
19 6 0.16
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTAATTTTATATTT
Found at i:10086808 original size:16 final size:15
Alignment explanation
Indices: 10086769--10086824 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 15
10086759 TTTTATTTTA
10086769 TATTTATTTTAATT-T
1 TATTT-TTTTAATTAT
10086784 TAATTTTTTTAATTAT
1 T-ATTTTTTTAATTAT
10086800 TATTATTTTT-ATTAAT
1 TATT-TTTTTAATT-AT
10086816 TATTTTTTT
1 TATTTTTTT
10086825 GAAAAAGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
15 20 0.54
16 17 0.46
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTTTAATTAT
Found at i:10087114 original size:3 final size:3
Alignment explanation
Indices: 10087106--10087159 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
10087096 TATCATCCGA
10087106 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10087154 TAT TAT
1 TAT TAT
10087160 CAATTCTTTT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10087213 original size:16 final size:16
Alignment explanation
Indices: 10087192--10087225 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10087182 TTTTTAATTT
10087192 TACATCTAAAGTAAGC
1 TACATCTAAAGTAAGC
10087208 TACATCTAAAGTAAGC
1 TACATCTAAAGTAAGC
10087224 TA
1 TA
10087226 TATAGAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (16 bp):
TACATCTAAAGTAAGC
Found at i:10088588 original size:14 final size:13
Alignment explanation
Indices: 10088563--10088587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10088553 GTTGGAATCA
10088563 AAACCAAAAAAAG
1 AAACCAAAAAAAG
10088576 AAACCAAAAAAA
1 AAACCAAAAAAA
10088588 AAAAGGGAAA
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:0.80, C:0.16, G:0.04, T:0.00
Consensus pattern (13 bp):
AAACCAAAAAAAG
Found at i:10089911 original size:19 final size:20
Alignment explanation
Indices: 10089887--10089935 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
10089877 TTTGGCAAGA
10089887 TTATTTATGATATT-TTATT
1 TTATTTATGATATTGTTATT
10089906 TTATTTAT--TATTGTTATT
1 TTATTTATGATATTGTTATT
*
10089924 TTTTTGTATGAT
1 TTATT-TATGAT
10089936 TATTAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.16
18 9 0.36
19 11 0.44
21 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (20 bp):
TTATTTATGATATTGTTATT
Found at i:10090745 original size:14 final size:14
Alignment explanation
Indices: 10090705--10090734 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10090695 CTTAGAGATT
10090705 TCTTAGAAAATTTA
1 TCTTAGAAAATTTA
10090719 TCTTAGAAAATTTA
1 TCTTAGAAAATTTA
10090733 TC
1 TC
10090735 ATTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (14 bp):
TCTTAGAAAATTTA
Found at i:10091588 original size:10 final size:11
Alignment explanation
Indices: 10091575--10091603 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10091565 TTAAAAATTG
10091575 AAAATTTTCTA
1 AAAATTTTCTA
10091586 AAAATTTTCT-
1 AAAATTTTCTA
10091596 AAAATTTT
1 AAAATTTT
10091604 GGGGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTTTCTA
Found at i:10092260 original size:41 final size:41
Alignment explanation
Indices: 10092192--10092547 Score: 399
Period size: 42 Copynumber: 8.6 Consensus size: 41
10092182 AGGCTCAATG
* * * * * *
10092192 ACTTTAAAAAATAAAAAGGCTCATCTAAATAGAGGTACAACA
1 ACTTTGAAAAAT-AAAATGCTCCTCTAAACAGAGGCACCACA
*
10092234 ACTTTAAAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
1 ACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* * * * * * *
10092275 ACTTTGAAAAATAGATTGTTCCTTTAAACAAATGCACCACG
1 ACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* * *
10092316 ACTTTTGAAAAATAAAATACTCCTCTAAACAAAGGTACCACA
1 AC-TTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* * * *
10092358 ACTTTTAGAAAAATAAAATGCTCTTTTAAATAGAGGTACCACA
1 AC-TTT-GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* * *
10092401 ACTTTGAAAAAT-AATTGCTCCTTTAAACAGAGCCACCACA
1 ACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
* *
10092441 ACTTTTGAAAAATAAAATACTCCTCTAAACAGAGGCAACACA
1 AC-TTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
*
10092483 ACTTTGAAAAAATAAAATGCTCCTCTAAACAGAGGCACCATA
1 ACTTTG-AAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
*
10092525 ACTTTGAAAAATAAATTGCTCCT
1 ACTTTGAAAAATAAAATGCTCCT
10092548 TGACAATCAT
Statistics
Matches: 269, Mismatches: 40, Indels: 11
0.84 0.12 0.03
Matches are distributed among these distances:
40 25 0.09
41 96 0.36
42 115 0.43
43 33 0.12
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (41 bp):
ACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCACA
Found at i:10092453 original size:125 final size:124
Alignment explanation
Indices: 10092198--10092548 Score: 492
Period size: 125 Copynumber: 2.8 Consensus size: 124
10092188 AATGACTTTA
* * *
10092198 AAAAATAAAA-AGGCTCATCTAAATAGAGGTACAACAAC-TTTAAAAAATAAAATGCTCCTCTAA
1 AAAAATAAAATA--CTCCTCTAAACAGAGGTACCACAACTTTTAAAAAATAAAATGCTCCTCTAA
* *
10092261 ACAGAGGCACCACAACTTTGAAAAATAGATTGTTCCTTTAAACAAATGCACCACGACTTTTG
64 ACAGAGGCACCACAACTTTGAAAAATA-ATTGCTCCTTTAAACAAATGCACCACAACTTTTG
* * *
10092323 AAAAATAAAATACTCCTCTAAACAAAGGTACCACAACTTTTAGAAAAATAAAATGCTCTTTTAAA
1 AAAAATAAAATACTCCTCTAAACAGAGGTACCACAACTTTTA-AAAAATAAAATGCTCCTCTAAA
* * *
10092388 TAGAGGTACCACAACTTTGAAAAATAATTGCTCCTTTAAACAGA-GCCACCACAACTTTTG
65 CAGAGGCACCACAACTTTGAAAAATAATTGCTCCTTTAAACAAATG-CACCACAACTTTTG
* * *
10092448 AAAAATAAAATACTCCTCTAAACAGAGGCAACACAACTTTGAAAAAATAAAATGCTCCTCTAAAC
1 AAAAATAAAATACTCCTCTAAACAGAGGTACCACAACTTTTAAAAAATAAAATGCTCCTCTAAAC
*
10092513 AGAGGCACCATAACTTTGAAAAATAAATTGCTCCTT
66 AGAGGCACCACAACTTTGAAAAAT-AATTGCTCCTT
10092549 GACAATCATG
Statistics
Matches: 201, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
124 64 0.32
125 92 0.46
126 45 0.22
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.25
Consensus pattern (124 bp):
AAAAATAAAATACTCCTCTAAACAGAGGTACCACAACTTTTAAAAAATAAAATGCTCCTCTAAAC
AGAGGCACCACAACTTTGAAAAATAATTGCTCCTTTAAACAAATGCACCACAACTTTTG
Found at i:10092829 original size:33 final size:33
Alignment explanation
Indices: 10092775--10092842 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
10092765 TCATAGATTC
** * *
10092775 ATGCACTAGACTTTCTTAAATACAGTGTATGCT
1 ATGCACTAGACTTTCAGAAATACAATGCATGCT
10092808 ATGCACTAGACATTT-AGAAATACAATGCATGCT
1 ATGCACTAGAC-TTTCAGAAATACAATGCATGCT
10092841 AT
1 AT
10092843 ACAAATGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGCACTAGACTTTCAGAAATACAATGCATGCT
Found at i:10093577 original size:9 final size:10
Alignment explanation
Indices: 10093550--10093599 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
10093540 CGATTTGAGT
*
10093550 TTTTTTTTTA
1 TTTTTCTTTA
10093560 TTTTCTCTTTA
1 TTTT-TCTTTA
10093571 -TTTTCTTTA
1 TTTTTCTTTA
10093580 TTTTCCTCTTTA
1 TTTT--TCTTTA
10093592 -TTTTCTTT
1 TTTTTCTTT
10093600 CTCTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
9 11 0.31
10 10 0.29
11 8 0.23
12 6 0.17
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:10093579 original size:20 final size:21
Alignment explanation
Indices: 10093551--10093599 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
10093541 GATTTGAGTT
*
10093551 TTTTTTTTATTTT-CTCTTTA
1 TTTTCTTTATTTTCCTCTTTA
10093571 TTTTCTTTATTTTCCTCTTTA
1 TTTTCTTTATTTTCCTCTTTA
10093592 TTTTCTTT
1 TTTTCTTT
10093600 CTCTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCTTTATTTTCCTCTTTA
Found at i:10093591 original size:12 final size:11
Alignment explanation
Indices: 10093556--10093597 Score: 61
Period size: 12 Copynumber: 3.9 Consensus size: 11
10093546 GAGTTTTTTT
10093556 TTTATTTTCTC
1 TTTATTTTCTC
10093567 TTTA-TTT-TC
1 TTTATTTTCTC
10093576 TTTATTTTCCTC
1 TTTATTTT-CTC
10093588 TTTATTTTCT
1 TTTATTTTCT
10093598 TTCTCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.21
10 6 0.21
11 6 0.21
12 10 0.36
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTCTC
Found at i:10099963 original size:16 final size:16
Alignment explanation
Indices: 10099916--10099963 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10099906 CCATTTGAGC
*
10099916 TTATTTAAAAATTCTTT
1 TTATTTATAAATT-TTT
* *
10099933 TTATTTATTATTTTTT
1 TTATTTATAAATTTTT
*
10099949 TTATTTCTAAATTTT
1 TTATTTATAAATTTT
10099964 CTACCATTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTATAAATTTTT
Found at i:10100213 original size:21 final size:21
Alignment explanation
Indices: 10100188--10100228 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10100178 TTCAGATCTC
10100188 CCCTTCCCATTCTCTCTTTTT
1 CCCTTCCCATTCTCTCTTTTT
* **
10100209 CCCTTTCTTTTCTCTCTTTT
1 CCCTTCCCATTCTCTCTTTT
10100229 CTCTTTAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (21 bp):
CCCTTCCCATTCTCTCTTTTT
Found at i:10101863 original size:4 final size:4
Alignment explanation
Indices: 10101848--10101877 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
10101838 TCCTTATTTA
10101848 TATT TATAT TATT TATT TATT TATT TATT T
1 TATT TAT-T TATT TATT TATT TATT TATT T
10101878 TATATATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:10101871 original size:12 final size:13
Alignment explanation
Indices: 10101848--10101886 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
10101838 TCCTTATTTA
10101848 TATTTATATTATT
1 TATTTATATTATT
10101861 TATTTAT-TTATT
1 TATTTATATTATT
10101873 TATTT-TATATATT
1 TATTTATAT-TATT
10101886 T
1 T
10101887 GTCACTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 11 0.46
13 12 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTATATTATT
Found at i:10101879 original size:17 final size:17
Alignment explanation
Indices: 10101846--10101886 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10101836 TTTCCTTATT
10101846 TATATTTATATTATTTA
1 TATATTTATATTATTTA
*
10101863 TTTATTTAT-TTATTTTA
1 TATATTTATATTA-TTTA
10101880 TATATTT
1 TATATTT
10101887 GTCACTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATATTTATATTATTTA
Found at i:10107651 original size:24 final size:25
Alignment explanation
Indices: 10107624--10107673 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
10107614 TTTAAGAAAT
*
10107624 TTTTTCCTTATTTATAT-TTTTATA
1 TTTTTACTTATTTATATATTTTATA
* *
10107648 TTTTTATTTATTTATTTATTTTATA
1 TTTTTACTTATTTATATATTTTATA
10107673 T
1 T
10107674 ATTTGTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTTACTTATTTATATATTTTATA
Found at i:10111635 original size:18 final size:19
Alignment explanation
Indices: 10111592--10111639 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
10111582 AGAAAAGATG
10111592 AGAAAAAGATATGTAAAAAA
1 AGAAAAA-ATATGTAAAAAA
*
10111612 ATAAAAAA-ATG-AAAAATA
1 AGAAAAAATATGTAAAAA-A
10111630 AGAAAAAATA
1 AGAAAAAATA
10111640 AAGACTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 5 0.21
18 11 0.46
19 2 0.08
20 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (19 bp):
AGAAAAAATATGTAAAAAA
Found at i:10113208 original size:17 final size:17
Alignment explanation
Indices: 10113157--10113219 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
10113147 CAAATCTTAG
* *
10113157 AATTCTTGTGAACTTGA
1 AATTCTTATGAACATGA
* *
10113174 AATTCCTAAGAACATGA
1 AATTCTTATGAACATGA
10113191 AATTCTTATGAATC-TGA
1 AATTCTTATGAA-CATGA
10113208 AGATT-TTATGAA
1 A-ATTCTTATGAA
10113220 TCTAAAAACC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
17 34 0.89
18 4 0.11
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (17 bp):
AATTCTTATGAACATGA
Found at i:10113395 original size:18 final size:18
Alignment explanation
Indices: 10113363--10113412 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
10113353 TTACAAATTT
**
10113363 AAATTCTTGTGAATCTAA
1 AAATTCTTGCAAATCTAA
*
10113381 AAATTCTTGCAAATCTGA
1 AAATTCTTGCAAATCTAA
10113399 AAA-TCTTTGCAAAT
1 AAATTC-TTGCAAAT
10113413 TTGAAACCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (18 bp):
AAATTCTTGCAAATCTAA
Found at i:10113423 original size:17 final size:17
Alignment explanation
Indices: 10113387--10113479 Score: 66
Period size: 17 Copynumber: 5.4 Consensus size: 17
10113377 CTAAAAATTC
* *
10113387 TTGCAAATCTGAAAATCT
1 TTGCAAATTTG-AAACCT
10113405 TTGCAAATTTGAAACCT
1 TTGCAAATTTGAAACCT
10113422 TTGCAAATTT-AGAACCT
1 TTGCAAATTTGA-AACCT
* * *
10113439 CTACGAAACTTGAAACCT
1 TTGC-AAATTTGAAACCT
*
10113457 TATG--AATATGAAACCT
1 T-TGCAAATTTGAAACCT
*
10113473 CTGCAAA
1 TTGCAAA
10113480 ACACGAAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
15 2 0.03
16 11 0.19
17 24 0.41
18 20 0.34
19 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (17 bp):
TTGCAAATTTGAAACCT
Found at i:10115079 original size:7 final size:7
Alignment explanation
Indices: 10115069--10115148 Score: 58
Period size: 7 Copynumber: 11.9 Consensus size: 7
10115059 TTTTTCTATT
10115069 TTTTTTA
1 TTTTTTA
10115076 TTTTTTA
1 TTTTTTA
*
10115083 TTTTTTG
1 TTTTTTA
10115090 TTTTTT-
1 TTTTTTA
* **
10115096 GTTTTCG
1 TTTTTTA
*
10115103 TTTTTCA
1 TTTTTTA
*
10115110 TTTTTTG
1 TTTTTTA
*
10115117 TTTTTGA
1 TTTTTTA
10115124 -TTTTTA
1 TTTTTTA
*
10115130 -TTTTGA
1 TTTTTTA
*
10115136 TTTTCTA
1 TTTTTTA
10115143 TTTTTT
1 TTTTTT
10115149 TTACTATGTG
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
6 14 0.25
7 43 0.75
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:10115133 original size:12 final size:13
Alignment explanation
Indices: 10115118--10115146 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10115108 CATTTTTTGT
10115118 TTTTGATTTT-TA
1 TTTTGATTTTCTA
10115130 TTTTGATTTTCTA
1 TTTTGATTTTCTA
10115143 TTTT
1 TTTT
10115147 TTTTACTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.76
Consensus pattern (13 bp):
TTTTGATTTTCTA
Found at i:10115148 original size:33 final size:35
Alignment explanation
Indices: 10115069--10115148 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 35
10115059 TTTTTCTATT
* * * * *
10115069 TTTTTTATTTTTTATTTTTTGTTTTTTGTTTTCGT
1 TTTTCTATTTTTTAGTTTTTGATTTTTATTTTCGA
10115104 TTTTC-ATTTTTT-GTTTTTGATTTTTATTTT-GA
1 TTTTCTATTTTTTAGTTTTTGATTTTTATTTTCGA
10115136 TTTTCTATTTTTT
1 TTTTCTATTTTTT
10115149 TTACTATGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
32 6 0.15
33 22 0.56
34 7 0.18
35 4 0.10
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.80
Consensus pattern (35 bp):
TTTTCTATTTTTTAGTTTTTGATTTTTATTTTCGA
Found at i:10115175 original size:3 final size:3
Alignment explanation
Indices: 10115161--10115198 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
10115151 ACTATGTGTT
* *
10115161 TTA TTG 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
10115199 GCTGCTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10115179 original size:15 final size:15
Alignment explanation
Indices: 10115161--10115195 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
10115151 ACTATGTGTT
10115161 TTATTGTTATTATTA
1 TTATTGTTATTATTA
10115176 TTATTGTTATTATTA
1 TTATTGTTATTATTA
10115191 TTATT
1 TTATT
10115196 ATTGCTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATTGTTATTATTA
Found at i:10116926 original size:46 final size:46
Alignment explanation
Indices: 10116861--10116960 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
10116851 GATCTATAAA
* * * * * *
10116861 TGGGCTACAATTGGGCCATGTAATGGGTTGTATTTGGGCCTTCCTT
1 TGGGCTACAAATGGACCATGTAATGAGCTGTATTTAGGCATTCCTT
*
10116907 TGGGTTACAAATGGACCATGTAATGAGCTGTATTTAGGCATTCCTTT
1 TGGGCTACAAATGGACCATGTAATGAGCTGTATTTAGGCATTCC-TT
10116954 TGGGCTA
1 TGGGCTA
10116961 GAGATGAGCC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 37 0.82
47 8 0.18
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (46 bp):
TGGGCTACAAATGGACCATGTAATGAGCTGTATTTAGGCATTCCTT
Found at i:10119895 original size:13 final size:13
Alignment explanation
Indices: 10119877--10119901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10119867 CGTTTGTTAT
10119877 AAAATAAAATTAC
1 AAAATAAAATTAC
10119890 AAAATAAAATTA
1 AAAATAAAATTA
10119902 TTAGATTTTT
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAAATTAC
Found at i:10137219 original size:3 final size:3
Alignment explanation
Indices: 10137213--10137285 Score: 101
Period size: 3 Copynumber: 23.7 Consensus size: 3
10137203 ATAATTATTA
* * *
10137213 AAT AAT AAG AAT AAA AACA AAT ACAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT A-AT AAT AAT AAT AAT AAT AAT AAT
10137260 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10137286 ATGTTTATGA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:10137542 original size:16 final size:16
Alignment explanation
Indices: 10137517--10137602 Score: 72
Period size: 16 Copynumber: 5.6 Consensus size: 16
10137507 TCTAAAATCA
* *
10137517 AAACCCTAAACCTTTG
1 AAACCTTAAAACTTTG
10137533 AAACCTTAAAAC-TTG
1 AAACCTTAAAACTTTG
* *
10137548 -AACCATAAAATTTTG
1 AAACCTTAAAACTTTG
**
10137563 AAACCTTAAAA--TCA
1 AAACCTTAAAACTTTG
* *
10137577 AAACCCTAAAACTTCG
1 AAACCTTAAAACTTTG
10137593 AAACCTTAAA
1 AAACCTTAAA
10137603 CCTTAAAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
14 20 0.36
15 6 0.11
16 30 0.54
ACGTcount: A:0.48, C:0.23, G:0.05, T:0.24
Consensus pattern (16 bp):
AAACCTTAAAACTTTG
Found at i:10137543 original size:30 final size:30
Alignment explanation
Indices: 10137509--10137602 Score: 118
Period size: 30 Copynumber: 3.1 Consensus size: 30
10137499 TGAGAAGCTC
*
10137509 TAAAATCAAAACCCTAAACCTTTGAAACCT
1 TAAAATCAAAACCCTAAAACTTTGAAACCT
** * *
10137539 TAAAA-CTTGAACCATAAAATTTTGAAACCT
1 TAAAATC-AAAACCCTAAAACTTTGAAACCT
*
10137569 TAAAATCAAAACCCTAAAACTTCGAAACCT
1 TAAAATCAAAACCCTAAAACTTTGAAACCT
10137599 TAAA
1 TAAA
10137603 CCTTAAAATT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 1 0.02
30 50 0.96
31 1 0.02
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (30 bp):
TAAAATCAAAACCCTAAAACTTTGAAACCT
Found at i:10137603 original size:23 final size:24
Alignment explanation
Indices: 10137576--10137847 Score: 70
Period size: 23 Copynumber: 11.5 Consensus size: 24
10137566 CCTTAAAATC
*
10137576 AAAACCCTAAAACTTCGAAA-CCT
1 AAAACCCTAAAACTTCAAAATCCT
* * *
10137599 TAAACCTTAAAATTTCAAAATCCT
1 AAAACCCTAAAACTTCAAAATCCT
* *
10137623 AAAA-CCTCAAAAC-CCAAAACCCT
1 AAAACCCT-AAAACTTCAAAATCCT
* * * *
10137646 CAAAACCTTAAACCCT-AAAAT-TT
1 -AAAACCCTAAAACTTCAAAATCCT
* * * * *
10137669 AGAACTCTAAAAGCAT-AATACCCT
1 AAAACCCTAAAA-CTTCAAAATCCT
*
10137693 AAAATCCCTAAAAC--CATAAAACCTT
1 AAAA-CCCTAAAACTTCA-AAATCC-T
* * **
10137718 AAAGCCTTAAAACCTT-AAAATTTT
1 AAAACCCTAAAA-CTTCAAAATCCT
* * *
10137742 GAAACCCTAAAATTTC-AAACCCT
1 AAAACCCTAAAACTTCAAAATCCT
* *
10137765 AAAACCCTCGAAACCTT--AAATACT
1 AAAACCCT--AAAACTTCAAAATCCT
* * *
10137789 ATAAATCCTAAATCTTCAAAACCCT
1 A-AAACCCTAAAACTTCAAAATCCT
* *
10137814 -AAACCCTAAATCTT-GAAATCCT
1 AAAACCCTAAAACTTCAAAATCCT
*
10137836 AAAAACC-AAAAC
1 AAAACCCTAAAAC
10137848 CTTAAAACTC
Statistics
Matches: 176, Mismatches: 52, Indels: 43
0.65 0.19 0.16
Matches are distributed among these distances:
22 18 0.10
23 70 0.40
24 54 0.31
25 33 0.19
26 1 0.01
ACGTcount: A:0.48, C:0.27, G:0.03, T:0.22
Consensus pattern (24 bp):
AAAACCCTAAAACTTCAAAATCCT
Found at i:10137632 original size:16 final size:15
Alignment explanation
Indices: 10137613--10137659 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
10137603 CCTTAAAATT
10137613 TCAAAATCCTAAAACC
1 TCAAAA-CCTAAAACC
*
10137629 TCAAAACCCAAAACCC
1 TCAAAACCTAAAA-CC
*
10137645 TCAAAACCTTAAACC
1 TCAAAACCTAAAACC
10137660 CTAAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (15 bp):
TCAAAACCTAAAACC
Found at i:10137660 original size:16 final size:15
Alignment explanation
Indices: 10137639--10137736 Score: 72
Period size: 16 Copynumber: 6.2 Consensus size: 15
10137629 TCAAAACCCA
10137639 AAACCCTCAAAACCTT
1 AAACCCT-AAAACCTT
*
10137655 AAACCCTAAAA-TTT
1 AAACCCTAAAACCTT
* * *
10137669 AGAACTCTAAAAGCAT
1 A-AACCCTAAAACCTT
*
10137685 AATACCCTAAAATCCCTA
1 AA-ACCCTAAAA--CCTT
*
10137703 AAACCATAAAACCTT
1 AAACCCTAAAACCTT
*
10137718 AAAGCCTTAAAACCTT
1 AAA-CCCTAAAACCTT
10137734 AAA
1 AAA
10137737 ATTTTGAAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
14 3 0.05
15 20 0.31
16 31 0.48
17 8 0.12
18 3 0.05
ACGTcount: A:0.49, C:0.27, G:0.03, T:0.21
Consensus pattern (15 bp):
AAACCCTAAAACCTT
Found at i:10137707 original size:55 final size:55
Alignment explanation
Indices: 10137540--10137668 Score: 140
Period size: 55 Copynumber: 2.4 Consensus size: 55
10137530 TTGAAACCTT
* * ** * *
10137540 AAAA-CTTGAACCATAAAATTTTGAAA-CCTTAAA-ATCAAAACCCTAAAA-CTTC
1 AAAACCTTAAACCCTAAAATTTCAAAATCCTAAAACATCAAAACCC-AAAACCCTC
* * *
10137592 GAAACCTTAAACCTTAAAATTTCAAAATCCTAAAACCTCAAAACCCAAAACCCTC
1 AAAACCTTAAACCCTAAAATTTCAAAATCCTAAAACATCAAAACCCAAAACCCTC
10137647 AAAACCTTAAACCCTAAAATTT
1 AAAACCTTAAACCCTAAAATTT
10137669 AGAACTCTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
52 3 0.05
53 18 0.29
54 10 0.16
55 32 0.51
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (55 bp):
AAAACCTTAAACCCTAAAATTTCAAAATCCTAAAACATCAAAACCCAAAACCCTC
Found at i:10137763 original size:15 final size:16
Alignment explanation
Indices: 10137727--10137768 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
10137717 TAAAGCCTTA
* *
10137727 AAACCTTAAAATTTTG
1 AAACCCTAAAATTTTC
10137743 AAACCCTAAAA-TTTC
1 AAACCCTAAAATTTTC
10137758 AAACCCTAAAA
1 AAACCCTAAAA
10137769 CCCTCGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.26
Consensus pattern (16 bp):
AAACCCTAAAATTTTC
Found at i:10147184 original size:6 final size:6
Alignment explanation
Indices: 10147173--10147214 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
10147163 AAAAAAAATG
*
10147173 AAAGAA AAAGAA AAAGAA ACAAAACA AAAGAA AAA-AA AAAGA
1 AAAGAA AAAGAA AAAGAA A-AAGA-A AAAGAA AAAGAA AAAGA
10147215 TGATTCAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 5 0.16
6 18 0.58
7 6 0.19
8 2 0.06
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:10148340 original size:35 final size:35
Alignment explanation
Indices: 10148274--10148439 Score: 118
Period size: 35 Copynumber: 4.6 Consensus size: 35
10148264 TGACTTACAA
* *
10148274 CTCAGTCCTGATTATTTTTATTCTT-TTACTTGTGG
1 CTCAATCCTGATTATTTTTATT-TTATAACTTGTGG
* * * *
10148309 TTCAATCTTGGTTATTTTTATTTTATAACTTGTGA
1 CTCAATCCTGATTATTTTTATTTTATAACTTGTGG
* * * *
10148344 CTCAATCCTGATCATTTTCATTTCACAACTTGTGG
1 CTCAATCCTGATTATTTTTATTTTATAACTTGTGG
* * * * * *
10148379 CTCAGTCCCAATCATCTTTTTTTTTTTTTTAACTTGTAG
1 CTCAAT-CC--TGAT-TATTTTTATTTTATAACTTGTGG
* *
10148418 CTCAATCTTGATCATTTTTATT
1 CTCAATCCTGATTATTTTTATT
10148440 CTTCGACTTG
Statistics
Matches: 96, Mismatches: 30, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
34 2 0.02
35 65 0.68
36 5 0.05
38 4 0.04
39 20 0.21
ACGTcount: A:0.20, C:0.18, G:0.10, T:0.52
Consensus pattern (35 bp):
CTCAATCCTGATTATTTTTATTTTATAACTTGTGG
Found at i:10148449 original size:35 final size:35
Alignment explanation
Indices: 10148410--10148574 Score: 97
Period size: 35 Copynumber: 4.7 Consensus size: 35
10148400 TTTTTTTTTA
10148410 ACTTGTAGCTCAATCTTGATCATTTTTATTCTTCG
1 ACTTGTAGCTCAATCTTGATCATTTTTATTCTTCG
* ** * * * *
10148445 ACTTGCAATTTAGTCTT-AGTCATATGTATT-TCTCG
1 ACTTGTAGCTCAATCTTGA-TCATTTTTATTCT-TCG
* * * * *
10148480 ACTTATGGCTCAGT-TTCAGTCATTTTTATTCTTTG
1 ACTTGTAGCTCAATCTTGA-TCATTTTTATTCTTCG
**
10148515 ACTTGT-GACTCAATCCCGATCATTTTTATTCTT-G
1 ACTTGTAG-CTCAATCTTGATCATTTTTATTCTTCG
* * * *
10148549 ACTTGCAGTTCATTCTCGATCATTTT
1 ACTTGTAGCTCAATCTTGATCATTTT
10148575 CATTTCACGA
Statistics
Matches: 98, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
34 26 0.27
35 70 0.71
36 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (35 bp):
ACTTGTAGCTCAATCTTGATCATTTTTATTCTTCG
Done.