Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 9 of 100
Found at i:2287991 original size:18 final size:18
Alignment explanation
Indices: 2287964--2288057 Score: 70
Period size: 18 Copynumber: 5.2 Consensus size: 18
2287954 AATTTTACTT
*
2287964 ATAAAAAATATTATATTA
1 ATAAATAATATTATATTA
2287982 ATAAATAATA--ATATT-
1 ATAAATAATATTATATTA
* *
2287997 ATAGTAATAAATAATATACTA
1 ATA--AAT-AATATTATATTA
*
2288018 ATAAATATTATTA-ATTTA
1 ATAAATAATATTATA-TTA
*
2288036 ATTAATAAATATTATATTA
1 ATAAAT-AATATTATATTA
2288055 ATA
1 ATA
2288058 TATTAATAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
15 3 0.05
16 5 0.08
17 4 0.07
18 25 0.42
19 14 0.24
20 5 0.08
21 3 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:2287996 original size:21 final size:21
Alignment explanation
Indices: 2287970--2288072 Score: 90
Period size: 21 Copynumber: 5.0 Consensus size: 21
2287960 ACTTATAAAA
2287970 AATATTATATTAATAAATAAT
1 AATATTATATTAATAAATAAT
*
2287991 AATATTATAGTAATAAATAAT
1 AATATTATATTAATAAATAAT
* * * *
2288012 -ATACTA-ATAAAT-ATTATT
1 AATATTATATTAATAAATAAT
2288030 AAT-TTA-ATTAATAAATATTAT
1 AATATTATATTAATAAATA--AT
* *
2288051 ATTAATATATTAATAAATAAT
1 AATATTATATTAATAAATAAT
2288072 A
1 A
2288073 TAAAGAATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
18 11 0.17
19 9 0.14
20 5 0.08
21 26 0.41
22 2 0.03
23 11 0.17
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
AATATTATATTAATAAATAAT
Found at i:2288041 original size:22 final size:23
Alignment explanation
Indices: 2288008--2288074 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
2287998 TAGTAATAAA
*
2288008 TAATATACTAATAAATA-T-TAT
1 TAATATATTAATAAATATTATAT
*
2288029 TAATTTAATTAATAAATATTATAT
1 TAATAT-ATTAATAAATATTATAT
*
2288053 TAATATATTAATAAATAATATA
1 TAATATATTAATAAATATTATA
2288075 AAGAATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.13
22 10 0.26
23 16 0.41
24 8 0.21
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATATATTAATAAATATTATAT
Found at i:2288071 original size:15 final size:15
Alignment explanation
Indices: 2287987--2288074 Score: 67
Period size: 15 Copynumber: 5.9 Consensus size: 15
2287977 TATTAATAAA
* *
2287987 TAAT-AATATTATAG
1 TAATAAATAATATAT
*
2288001 TAATAAATAATATAC
1 TAATAAATAATATAT
*
2288016 TAATAAATATTATTAATT
1 TAATAAATAATA-T-A-T
*
2288034 TAATTAATAA-ATAT
1 TAATAAATAATATAT
*
2288048 T-AT-ATTAATATAT
1 TAATAAATAATATAT
2288061 TAATAAATAATATA
1 TAATAAATAATATA
2288075 AAGAATAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
12 4 0.07
13 7 0.12
14 8 0.14
15 28 0.47
16 2 0.03
17 2 0.03
18 8 0.14
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (15 bp):
TAATAAATAATATAT
Found at i:2288133 original size:19 final size:19
Alignment explanation
Indices: 2288109--2288147 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2288099 AGTATTTTCT
2288109 ATATTAACATAATATT-TTA
1 ATATTAA-ATAATATTATTA
*
2288128 ATATTAAATATTATTATTA
1 ATATTAAATAATATTATTA
2288147 A
1 A
2288148 AATATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTAAATAATATTATTA
Found at i:2288171 original size:16 final size:16
Alignment explanation
Indices: 2288137--2288200 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
2288127 AATATTAAAT
2288137 ATTATTATTAAAATATA
1 ATTATT-TTAAAATATA
* *
2288154 ATTATTTTAAATTTTA
1 ATTATTTTAAAATATA
* *
2288170 ATAATTTTAATGATA-A
1 ATTATTTTAA-AATATA
*
2288186 ATTATTTTAATATAT
1 ATTATTTTAAAATAT
2288201 TTTAATAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
15 3 0.08
16 27 0.73
17 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTATTTTAAAATATA
Found at i:2288211 original size:26 final size:26
Alignment explanation
Indices: 2288163--2288234 Score: 103
Period size: 25 Copynumber: 2.8 Consensus size: 26
2288153 AATTATTTTA
*
2288163 AATTTTAATA-ATTTTAATGATAAAT
1 AATTTTAATATATTTTAATAATAAAT
*
2288188 TATTTTAATATATTTTAATAATAAAT
1 AATTTTAATATATTTTAATAATAAAT
*
2288214 AATTTTTA-ATATTTTAATAAT
1 AATTTTAATATATTTTAATAAT
2288235 TATATTAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 22 0.52
26 20 0.48
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
AATTTTAATATATTTTAATAATAAAT
Found at i:2288379 original size:14 final size:14
Alignment explanation
Indices: 2288360--2288389 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2288350 TAAATACTTA
*
2288360 TTAAAAATTATTTT
1 TTAAAAATAATTTT
2288374 TTAAAAATAATTTT
1 TTAAAAATAATTTT
2288388 TT
1 TT
2288390 GTGAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAAAATAATTTT
Found at i:2292604 original size:24 final size:25
Alignment explanation
Indices: 2292563--2292609 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2292553 AAACTCATAT
*
2292563 TAATATTAAAAACCAAATGAAAATTA
1 TAATATTAAAAACAAAAT-AAAATTA
2292589 TAAT-TTAAAAA-AAAATAAAAT
1 TAATATTAAAAACAAAATAAAAT
2292610 GAAAGAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 7 0.35
26 4 0.20
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (25 bp):
TAATATTAAAAACAAAATAAAATTA
Found at i:2292799 original size:3 final size:3
Alignment explanation
Indices: 2292791--2292824 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2292781 GCTACAGCCT
2292791 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
2292825 TAATAATTGA
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2293650 original size:22 final size:23
Alignment explanation
Indices: 2293611--2293661 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
2293601 CGTTAATTTT
* **
2293611 TTTTTAAATGATTTAATAA-AAA
1 TTTTAAAATGATAAAATAATAAA
2293633 TTTTAAAATGATAAAATAATAAA
1 TTTTAAAATGATAAAATAATAAA
*
2293656 ATTTAA
1 TTTTAA
2293662 TATCAATAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
TTTTAAAATGATAAAATAATAAA
Found at i:2298624 original size:15 final size:14
Alignment explanation
Indices: 2298604--2298649 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
2298594 AAAAGGTTTC
2298604 AAAAATAAAAAGTAA
1 AAAAATAAAAA-TAA
2298619 AAAAATAAAAATAA
1 AAAAATAAAAATAA
* *
2298633 AAGAAAGAAAAACAA
1 AA-AAATAAAAATAA
2298648 AA
1 AA
2298650 CAAAGCCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.09
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:2298643 original size:21 final size:21
Alignment explanation
Indices: 2298603--2298649 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2298593 TAAAAGGTTT
*
2298603 CAAAAATAAAAAGTAAAAAAA
1 CAAAAATAAAAAGAAAAAAAA
*
2298624 TAAAAAT-AAAAGAAAGAAAAA
1 CAAAAATAAAAAGAAA-AAAAA
2298645 CAAAA
1 CAAAA
2298650 CAAAGCCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (21 bp):
CAAAAATAAAAAGAAAAAAAA
Found at i:2299017 original size:8 final size:7
Alignment explanation
Indices: 2299000--2299036 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
2298990 GAAAAATAGG
*
2299000 AAAATGA
1 AAAATAA
2299007 AAAATAA
1 AAAATAA
2299014 AAAATAA
1 AAAATAA
2299021 AAAATAAA
1 AAAAT-AA
2299029 AAAATAA
1 AAAATAA
2299036 A
1 A
2299037 GGATAAAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:2299017 original size:14 final size:14
Alignment explanation
Indices: 2298990--2299031 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
2298980 TGTGTGGGAG
*
2298990 GAAAAATAGGAAAAT
1 GAAAAATA-AAAAAT
2299005 GAAAAATAAAAAAT
1 GAAAAATAAAAAAT
*
2299019 AAAAAATAAAAAA
1 GAAAAATAAAAAA
2299032 ATAAAGGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (14 bp):
GAAAAATAAAAAAT
Found at i:2300637 original size:4 final size:4
Alignment explanation
Indices: 2300628--2300657 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
2300618 TTCATTTTCA
*
2300628 TTAT TTAT TTAT TTAT TCAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2300658 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:2300983 original size:49 final size:49
Alignment explanation
Indices: 2300930--2301038 Score: 123
Period size: 49 Copynumber: 2.2 Consensus size: 49
2300920 TCAAAGATAA
*
2300930 AAAAATAAAAAAAATAAA-TTTCTAAATAT-ACCCAAATGATAAAAAATTT
1 AAAAATAAAAAAAAGAAATTTTCTAAAT-TGACCC-AATGATAAAAAATTT
* * * * *
2300979 AAAAATCAAAAAAAGAAATTTTCTATATTGGCCCAATGGTGAAAAATTT
1 AAAAATAAAAAAAAGAAATTTTCTAAATTGACCCAATGATAAAAAATTT
*
2301028 AGAAATAAAAA
1 AAAAATAAAAA
2301039 TATAAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 39 0.78
50 11 0.22
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.26
Consensus pattern (49 bp):
AAAAATAAAAAAAAGAAATTTTCTAAATTGACCCAATGATAAAAAATTT
Found at i:2301039 original size:14 final size:14
Alignment explanation
Indices: 2301020--2301054 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2301010 CCCAATGGTG
* *
2301020 AAAAATTTAGAAAT
1 AAAAATATAAAAAT
2301034 AAAAATATAAAAAT
1 AAAAATATAAAAAT
2301048 AAAAATA
1 AAAAATA
2301055 AATTTCTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAAATATAAAAAT
Found at i:2301699 original size:36 final size:38
Alignment explanation
Indices: 2301636--2301706 Score: 110
Period size: 36 Copynumber: 1.9 Consensus size: 38
2301626 ATTCAACAAT
*
2301636 AAAAATTTATCAAAATTTTTATTAAAAATATTTATCTA
1 AAAAATATATCAAAATTTTTATTAAAAATATTTATCTA
*
2301674 AAAAATATATC-AAA-TTTTATTAAAAATTTTTAT
1 AAAAATATATCAAAATTTTTATTAAAAATATTTAT
2301707 TTTTTTACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 18 0.58
37 3 0.10
38 10 0.32
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (38 bp):
AAAAATATATCAAAATTTTTATTAAAAATATTTATCTA
Found at i:2301731 original size:27 final size:26
Alignment explanation
Indices: 2301697--2301749 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
2301687 ATTTTATTAA
* *
2301697 AAATTTTT-ATTTTTTTACATTTAATT
1 AAATTTTTAATTTATTGA-ATTTAATT
2301723 AAATCTTTTAATTTATTGAATTTAATT
1 AAAT-TTTTAATTTATTGAATTTAATT
2301750 TTTAACTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.52
28 7 0.30
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
AAATTTTTAATTTATTGAATTTAATT
Found at i:2302845 original size:31 final size:31
Alignment explanation
Indices: 2302810--2302875 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
2302800 CATTAGAAGG
*
2302810 ATTAAATTTTAAATTTTGTATAAGTATAAAA
1 ATTAAATTTTAAATTTTGTATAAATATAAAA
2302841 ATTAAATTTTAAATTTTGTATAAATATAAAA
1 ATTAAATTTTAAATTTTGTATAAATATAAAA
2302872 ATTA
1 ATTA
2302876 TTTATATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (31 bp):
ATTAAATTTTAAATTTTGTATAAATATAAAA
Found at i:2304411 original size:2 final size:2
Alignment explanation
Indices: 2304404--2304428 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2304394 CCTATTATCT
2304404 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 T
2304429 GAGATTACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2307343 original size:26 final size:25
Alignment explanation
Indices: 2307301--2307354 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
2307291 TAAATATGAT
*
2307301 AAAAATAATGTATTAATATTGTAAA
1 AAAAATAATGTATTAATATTATAAA
*
2307326 AAAAATAATG-ATTATAATTTTATAAA
1 AAAAATAATGTA-T-TAATATTATAAA
2307352 AAA
1 AAA
2307355 TGTTATTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 11 0.44
26 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (25 bp):
AAAAATAATGTATTAATATTATAAA
Found at i:2311012 original size:21 final size:21
Alignment explanation
Indices: 2310986--2311033 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
2310976 CTATAGATGA
*
2310986 GAAAAAAGAACCATTAGTTGT
1 GAAAAAAGAACCATTAGTTAT
2311007 GAAAAAAGAACCATTAGTTAT
1 GAAAAAAGAACCATTAGTTAT
2311028 -AAAAAA
1 GAAAAAA
2311034 TTACAAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (21 bp):
GAAAAAAGAACCATTAGTTAT
Found at i:2316172 original size:15 final size:15
Alignment explanation
Indices: 2316152--2316220 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
2316142 GGTGGAACAA
2316152 AAGAAAGAAGAGTAG
1 AAGAAAGAAGAGTAG
2316167 AAGAAAGAAGAGCCTAAG
1 AAGAAAGAAGAG--T-AG
* * *
2316185 AAGGAAGAGGAGCAG
1 AAGAAAGAAGAGTAG
*
2316200 AAGAAAGAAGAGGAG
1 AAGAAAGAAGAGTAG
2316215 AA-AAAG
1 AAGAAAG
2316221 CCACTGCCAC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
14 4 0.09
15 28 0.62
17 1 0.02
18 12 0.27
ACGTcount: A:0.58, C:0.04, G:0.35, T:0.03
Consensus pattern (15 bp):
AAGAAAGAAGAGTAG
Found at i:2316186 original size:18 final size:16
Alignment explanation
Indices: 2316152--2316211 Score: 70
Period size: 15 Copynumber: 3.8 Consensus size: 16
2316142 GGTGGAACAA
2316152 AAGAAAGAAGAG-TAG
1 AAGAAAGAAGAGCTAG
2316167 AAGAAAGAAGAGCCTAAG
1 AAGAAAGAAGAG-CT-AG
* *
2316185 AAGGAAGAGGAGC-AG
1 AAGAAAGAAGAGCTAG
2316200 AAGAAAGAAGAG
1 AAGAAAGAAGAG
2316212 GAGAAAAAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 24 0.63
17 2 0.05
18 12 0.32
ACGTcount: A:0.57, C:0.05, G:0.35, T:0.03
Consensus pattern (16 bp):
AAGAAAGAAGAGCTAG
Found at i:2318225 original size:20 final size:19
Alignment explanation
Indices: 2318177--2318225 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
2318167 CAAAACGTAC
*
2318177 AAAAAATTAATTAAATATT
1 AAAAAATTAATTAAATAAT
** *
2318196 AAAATTTTAATTTTAATAAT
1 AAAAAATTAA-TTAAATAAT
2318216 AAAAAATTAA
1 AAAAAATTAA
2318226 ATCCTAACAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAAATTAATTAAATAAT
Found at i:2318377 original size:13 final size:14
Alignment explanation
Indices: 2318344--2318378 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
2318334 GACTCCGTTT
2318344 ATTTTATGAAAAATA
1 ATTTT-TGAAAAATA
*
2318359 ATTTTTGAAAAGTA
1 ATTTTTGAAAAATA
2318373 ATTTTT
1 ATTTTT
2318379 ACATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (14 bp):
ATTTTTGAAAAATA
Found at i:2318592 original size:29 final size:28
Alignment explanation
Indices: 2318558--2318653 Score: 94
Period size: 30 Copynumber: 3.4 Consensus size: 28
2318548 AATTTTACTT
2318558 ATAAATAATATTATATTAATAATATTATA
1 ATAAATAATATTATATTAATAATATT-TA
*
2318587 ATAAATAAATATTATACTAATATATTAATTTTA
1 ATAAAT-AATATTATATTAATA-A-T-A-TTTA
2318620 ATAAAT-A-A-TATATTAAT-ATA-TTA
1 ATAAATAATATTATATTAATAATATTTA
2318643 ATAAATAATAT
1 ATAAATAATAT
2318654 AAAAATAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
23 9 0.16
24 1 0.02
25 2 0.04
26 1 0.02
27 1 0.02
29 14 0.25
30 15 0.26
31 2 0.04
32 1 0.02
33 9 0.16
34 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (28 bp):
ATAAATAATATTATATTAATAATATTTA
Found at i:2318610 original size:8 final size:8
Alignment explanation
Indices: 2318599--2318654 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
2318589 AAATAAATAT
*
2318599 TATACTAA
1 TATATTAA
2318607 TATATTAA
1 TATATTAA
2318615 T-T-TTAA
1 TATATTAA
*
2318621 TA-AATAA
1 TATATTAA
2318628 TATATTAA
1 TATATTAA
2318636 TATATTAA
1 TATATTAA
*
2318644 TA-AATAA
1 TATATTAA
2318651 TATA
1 TATA
2318655 AAAATAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 5 0.12
7 12 0.30
8 23 0.57
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (8 bp):
TATATTAA
Found at i:2318622 original size:33 final size:31
Alignment explanation
Indices: 2318558--2318644 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 31
2318548 AATTTTACTT
2318558 ATAAATAATATTATATTAATA-A-T-ATTATA
1 ATAAATAATATTATA-TAATATATTAATTATA
*
2318587 ATAAATAAATATTATACTAATATATTAATTTTA
1 ATAAAT-AATATTATA-TAATATATTAATTATA
2318620 ATAAATAATA-TAT-TAATATATTAAT
1 ATAAATAATATTATATAATATATTAAT
2318645 AAATAATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
29 18 0.35
30 14 0.27
31 4 0.08
32 5 0.10
33 11 0.21
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (31 bp):
ATAAATAATATTATATAATATATTAATTATA
Found at i:2318628 original size:21 final size:23
Alignment explanation
Indices: 2318604--2318654 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
2318594 AATATTATAC
2318604 TAATATATTAAT-T-TTAATAAA
1 TAATATATTAATATATTAATAAA
2318625 TAATATATTAATATATTAATAAA
1 TAATATATTAATATATTAATAAA
2318648 TAATATA
1 TAATATA
2318655 AAAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 12 0.43
22 1 0.04
23 15 0.54
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATATATTAATATATTAATAAA
Found at i:2318645 original size:19 final size:19
Alignment explanation
Indices: 2318563--2318646 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 19
2318553 TACTTATAAA
*
2318563 TAATATTATATTAATAATAT
1 TAATAATATATTAAT-ATAT
*
2318583 T-ATAATA-AATAA-ATAT
1 TAATAATATATTAATATAT
*
2318599 TATACTAATATATTAATTTTAAT
1 TA-A-TAATATATTAA-TAT-AT
*
2318622 AAATAATATATTAATATAT
1 TAATAATATATTAATATAT
2318641 TAATAA
1 TAATAA
2318647 ATAATATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
16 5 0.10
18 5 0.10
19 17 0.34
20 7 0.14
21 11 0.22
22 2 0.04
23 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATAATATATTAATATAT
Found at i:2318660 original size:23 final size:23
Alignment explanation
Indices: 2318617--2318660 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2318607 TATATTAATT
**
2318617 TTAATAAATAATATATTAATATA
1 TTAATAAATAATATAAAAATATA
2318640 TTAATAAATAATATAAAAATA
1 TTAATAAATAATATAAAAATA
2318661 ATAAATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TTAATAAATAATATAAAAATATA
Found at i:2318664 original size:9 final size:10
Alignment explanation
Indices: 2318618--2318667 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
2318608 ATATTAATTT
2318618 TAATAAATAA
1 TAATAAATAA
*
2318628 TATATTAATATAT
1 TA-A-TAA-ATAA
2318641 TAATAAATAA
1 TAATAAATAA
2318651 T-ATAAA-AA
1 TAATAAATAA
2318659 TAATAAATA
1 TAATAAATA
2318668 GTTTTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
8 3 0.09
9 10 0.30
10 7 0.21
11 4 0.12
12 4 0.12
13 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TAATAAATAA
Found at i:2318726 original size:19 final size:19
Alignment explanation
Indices: 2318681--2318726 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2318671 TTATTTTCAG
*
2318681 TATTTTTATATTAACATAA
1 TATTTTAATATTAACATAA
*
2318700 TATTTTAATATTAA-ATAT
1 TATTTTAATATTAACATAA
2318718 TATTATTAA
1 TATT-TTAA
2318727 AATATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTTAATATTAACATAA
Found at i:2318774 original size:25 final size:26
Alignment explanation
Indices: 2318746--2318804 Score: 88
Period size: 25 Copynumber: 2.3 Consensus size: 26
2318736 ATTTTTTAAT
2318746 TTTAATAATAAAT-AA-TTTAATATAA
1 TTTAATAATAAATAAATTTTAATAT-A
2318771 TTTAATAATAAATAAATTTTAATATA
1 TTTAATAATAAATAAATTTTAATATA
2318797 -TTAATAAT
1 TTTAATAAT
2318805 TATATTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 21 0.66
26 3 0.09
27 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTAATAATAAATAAATTTTAATATA
Found at i:2318793 original size:22 final size:22
Alignment explanation
Indices: 2318739--2318803 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 22
2318729 TATAATTATT
*
2318739 TTTTAATTTTAATAATAAATAAT
1 TTTTAA-TTTAATAATAAATAAA
2318762 TTAATATAATTTAATAATAAATAAA
1 TT--T-TAATTTAATAATAAATAAA
* *
2318787 TTTTAATATATTAATAA
1 TTTTAATTTAATAATAA
2318804 TTATATTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 12 0.33
23 3 0.08
25 18 0.50
26 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTAATTTAATAATAAATAAA
Found at i:2318905 original size:23 final size:25
Alignment explanation
Indices: 2318879--2318929 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
2318869 TTTCATTAAC
* *
2318879 TAATTCAAACAATA-AAAT-TTTTT
1 TAATTCAAAAAATATAAATATTTAT
2318902 TAATTCAAAAAATATAAATATTTAT
1 TAATTCAAAAAATATAAATATTTAT
2318927 TAA
1 TAA
2318930 AAAATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.54
24 4 0.17
25 7 0.29
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (25 bp):
TAATTCAAAAAATATAAATATTTAT
Found at i:2319671 original size:2 final size:2
Alignment explanation
Indices: 2319664--2319688 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2319654 TCTATTCATT
2319664 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 T
2319689 TCATACAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2320975 original size:2 final size:2
Alignment explanation
Indices: 2320968--2320994 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2320958 TAATAAGATC
2320968 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
2320995 TCATACATGC
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:2324563 original size:19 final size:21
Alignment explanation
Indices: 2324536--2324575 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2324526 ATATTATCAT
2324536 TTATATT-AATAAAA-AATAA
1 TTATATTAAATAAAACAATAA
*
2324555 TTATGTTAAATAAAACAATAA
1 TTATATTAAATAAAACAATAA
2324576 GCTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 7 0.39
21 5 0.28
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TTATATTAAATAAAACAATAA
Found at i:2325194 original size:31 final size:31
Alignment explanation
Indices: 2325159--2325224 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
2325149 TATTAGAGGG
*
2325159 ATTAAATTTTAAATTTCATACGAATATAAAT
1 ATTAAATTTTAAATTTCATACGAATATAAAA
* *
2325190 ATTAAATTTTAAATTTTATATGAATATAAAA
1 ATTAAATTTTAAATTTCATACGAATATAAAA
2325221 ATTA
1 ATTA
2325225 TTTATATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTAAATTTTAAATTTCATACGAATATAAAA
Found at i:2325248 original size:21 final size:21
Alignment explanation
Indices: 2325204--2325244 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2325194 AATTTTAAAT
2325204 TTTATATGAATATAAAAATTA
1 TTTATATGAATATAAAAATTA
* *
2325225 TTTATAT-AATTTAATAATTA
1 TTTATATGAATATAAAAATTA
2325245 ATTTCATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTATATGAATATAAAAATTA
Found at i:2325972 original size:19 final size:21
Alignment explanation
Indices: 2325934--2325973 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2325924 AATTTTGAAT
*
2325934 TAAAATATATTTAATCAAAAG
1 TAAAATATATTAAATCAAAAG
*
2325955 TAAAATA-ATTAAATAAAAA
1 TAAAATATATTAAATCAAAA
2325974 ACTTATCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAAATATATTAAATCAAAAG
Found at i:2327099 original size:18 final size:18
Alignment explanation
Indices: 2327076--2327116 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2327066 TATATATATT
2327076 TAATTATCAACATACTTA
1 TAATTATCAACATACTTA
***
2327094 TAATTATTGGCATACTTA
1 TAATTATCAACATACTTA
2327112 TAATT
1 TAATT
2327117 TATTTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (18 bp):
TAATTATCAACATACTTA
Found at i:2327208 original size:24 final size:24
Alignment explanation
Indices: 2327176--2327237 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
2327166 TAGATATGAT
2327176 AAAATAATGTATTAATGTTGTAAA
1 AAAATAATGTATTAATGTTGTAAA
* *
2327200 AAAATAATG-ATTATAT-TTTTATA
1 AAAATAATGTATTA-ATGTTGTAAA
2327223 AAAAT-AT-TATTAATG
1 AAAATAATGTATTAATG
2327238 ATTTATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 14 0.42
24 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (24 bp):
AAAATAATGTATTAATGTTGTAAA
Found at i:2327712 original size:32 final size:32
Alignment explanation
Indices: 2327646--2327720 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
2327636 TAAATTTGAT
*
2327646 AATTTATATATTCGTATTATATAAAATATTAA
1 AATTTATATATTCGTATTATATAAAATATAAA
** ***
2327678 AATTTATATATTTTTATTATATTTTATATAAA
1 AATTTATATATTCGTATTATATAAAATATAAA
2327710 AA-TTATATATT
1 AATTTATATATT
2327721 ATAATATATG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 9 0.24
32 28 0.76
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (32 bp):
AATTTATATATTCGTATTATATAAAATATAAA
Found at i:2330645 original size:16 final size:17
Alignment explanation
Indices: 2330615--2330648 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2330605 GTTAATTCTT
*
2330615 ATAATAAAAATAGATTA
1 ATAATAAAAAGAGATTA
2330632 ATAA-AAAAAGAGATTA
1 ATAATAAAAAGAGATTA
2330648 A
1 A
2330649 ATTAATGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (17 bp):
ATAATAAAAAGAGATTA
Found at i:2330838 original size:28 final size:30
Alignment explanation
Indices: 2330789--2330845 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
2330779 ATTTAAAAGC
*
2330789 TAAAGATAATCTAAAGATTATTTATAAAAT
1 TAAAGATAATCTAAAGAATATTTATAAAAT
* *
2330819 TAAAGAT-AT-TAAATAATATTTTTAAAA
1 TAAAGATAATCTAAAGAATATTTATAAAA
2330846 GTTGTGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.62
29 2 0.08
30 7 0.29
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (30 bp):
TAAAGATAATCTAAAGAATATTTATAAAAT
Found at i:2331142 original size:232 final size:229
Alignment explanation
Indices: 2330737--2331327 Score: 725
Period size: 232 Copynumber: 2.6 Consensus size: 229
2330727 TTTCTTGAAG
* ** * *
2330737 TTGTTATAGTATTTATATTTTTTCAACA-TTTTTTTGCAATATATTTAAAAGCTAAAGATAATCT
1 TTGTTAT-TTATTTATATTTTTTC-ACATTTTTTTTAAAATATATTTAAAAGCTGAAGATAATAT
*
2330801 AAAGATTATTTAT---AAA-ATTAAAGATATTAAATAATATTTTTAAAAGTTGTGATAAATTTAA
64 AAAGATTATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAAGTCGTGATAAATTTAA
* *
2330862 ATATTCATATCAACTGTAGATAATTAAAAAAGATAAATTACATTAAAATTAATTTTAAATTGAGA
129 ATATTCATATCAACTGTAGATAATGAAAAAAGATAAATTACATTAAAATTAATTTTAAATCGAGA
*
2330927 TGAGGTGA-AGTATAGGATAAATTTGTTTAAAGTTGCT
194 TGAGGTGATA-TATAGGAGAAATTTGTTTAAAGTTG-T
* *
2330964 TTGTTATTTATTTATATTTTTTCACATTTTTTTATAAAATATATTTAAAAGCTGAATATAATGTA
1 TTGTTATTTATTTATATTTTTTCACATTTTTTT-TAAAATATATTTAAAAGCTGAAGATAATATA
* *
2331029 AAGATTATTTATAAAAAAATATTAACGATATTAAATAATATTTTTAAGAGTCGTGA-AAATTTTA
65 AAGATTATTTAT-AAAAAATATTAAAGATATTAAATAATATTTTTAAAAGTCGTGATAAA-TTTA
* * * * **
2331093 AATGCTT-GTGTTAACTGTAGATAAATGAAAAAA-ATAAATTATTTTAAAATTAATTTTAAATCG
128 AAT-ATTCATATCAACTGTAGAT-AATGAAAAAAGATAAATTACATTAAAATTAATTTTAAATCG
* **
2331156 AGATGAGGTGATATATAGGAGAAATTTTTTTGTAGTTGT
191 AGATGAGGTGATATATAGGAGAAATTTGTTTAAAGTTGT
* * * *
2331195 TCTGGTATTTATATATATTTTTT-ACATTTACTTTGTAAAATATATTTAAAAGTTGAAGATAATA
1 T-TGTTATTTATTTATATTTTTTCACATTT--TTTTTAAAATATATTTAAAAGCTGAAGATAATA
* * * **
2331259 TAATGATTATTTATAAAAAATATTAAAGATATTAAATAATATTTTAAAAAATAATGATAAATTTA
63 TAAAGATTATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAAGTCGTGATAAATTTA
2331324 AATA
128 AATA
2331328 CTAACTTCAG
Statistics
Matches: 314, Mismatches: 35, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
225 3 0.01
226 21 0.07
227 45 0.14
231 58 0.18
232 172 0.55
233 15 0.05
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (229 bp):
TTGTTATTTATTTATATTTTTTCACATTTTTTTTAAAATATATTTAAAAGCTGAAGATAATATAA
AGATTATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAAGTCGTGATAAATTTAAAT
ATTCATATCAACTGTAGATAATGAAAAAAGATAAATTACATTAAAATTAATTTTAAATCGAGATG
AGGTGATATATAGGAGAAATTTGTTTAAAGTTGT
Found at i:2331482 original size:33 final size:31
Alignment explanation
Indices: 2331445--2331508 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 31
2331435 AATTTTAAAA
*
2331445 TTATAGATAATTTAATAATTTTAA-AAATATTTT
1 TTATAAATAATTTAA-AA--TTAATAAATATTTT
2331478 TTATAAATAATTTAAAATTAATAAATATTTT
1 TTATAAATAATTTAAAATTAATAAATATTTT
2331509 ATGTGTCATC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 4 0.14
31 9 0.31
32 2 0.07
33 14 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
TTATAAATAATTTAAAATTAATAAATATTTT
Found at i:2331622 original size:2 final size:2
Alignment explanation
Indices: 2331611--2331642 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2331601 TTATGTATGT
2331611 TA TA -A 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 TA TA TA T
2331643 TTGATTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2354261 original size:8 final size:8
Alignment explanation
Indices: 2354244--2354276 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
2354234 TCTTCAACCC
2354244 AAAAGAAA
1 AAAAGAAA
2354252 AAAA-AGAA
1 AAAAGA-AA
2354260 AAAAGAAA
1 AAAAGAAA
2354268 AAAAGAAA
1 AAAAGAAA
2354276 A
1 A
2354277 TCCAACTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 21 0.91
9 1 0.04
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:2354268 original size:15 final size:16
Alignment explanation
Indices: 2354244--2354276 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2354234 TCTTCAACCC
2354244 AAAAGAAAAAAAAGAA
1 AAAAGAAAAAAAAGAA
2354260 AAAAG-AAAAAAAGAA
1 AAAAGAAAAAAAAGAA
2354275 AA
1 AA
2354277 TCCAACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAA
Found at i:2359868 original size:18 final size:18
Alignment explanation
Indices: 2359845--2359880 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2359835 GGATTATTTT
2359845 TGTTGCCGAAGATGAAGA
1 TGTTGCCGAAGATGAAGA
2359863 TGTTGCCGAAGATGAAGA
1 TGTTGCCGAAGATGAAGA
2359881 CAATGAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (18 bp):
TGTTGCCGAAGATGAAGA
Found at i:2367196 original size:45 final size:45
Alignment explanation
Indices: 2367132--2367221 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
2367122 AGGTAGATTA
*
2367132 CCATTTTCTTGATAAAGAAGTTTCTTTTACATGGCATAGAAAGCT
1 CCATTTTCTTGATAAAGAAGTTTCTTTTACATGGCACAGAAAGCT
2367177 CCATTTTCTTGATAAAGAAGTTTCTTTTACATGGCACAGAAAGCT
1 CCATTTTCTTGATAAAGAAGTTTCTTTTACATGGCACAGAAAGCT
2367222 ATTCAATTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (45 bp):
CCATTTTCTTGATAAAGAAGTTTCTTTTACATGGCACAGAAAGCT
Found at i:2367217 original size:22 final size:22
Alignment explanation
Indices: 2367145--2367217 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
2367135 TTTTCTTGAT
2367145 AAAGAAGTTTCTTTTACATGGC
1 AAAGAAGTTTCTTTTACATGGC
* * * * **
2367167 ATAGAAAGCTCCATTTT-CTTGAT
1 AAAG-AAGTTTC-TTTTACATGGC
2367190 AAAGAAGTTTCTTTTACATGGC
1 AAAGAAGTTTCTTTTACATGGC
*
2367212 ACAGAA
1 AAAGAA
2367218 AGCTATTCAA
Statistics
Matches: 35, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
21 4 0.11
22 16 0.46
23 11 0.31
24 4 0.11
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (22 bp):
AAAGAAGTTTCTTTTACATGGC
Found at i:2380748 original size:241 final size:246
Alignment explanation
Indices: 2380258--2380750 Score: 764
Period size: 252 Copynumber: 2.0 Consensus size: 246
2380248 CGCCAGACTC
* *
2380258 AAGTTCTGGTCCTCGAGAGAGGGCGTGGGTTCAAATCCCACTTCTGACAAATTTTCTTTTGTTCT
1 AAGTTCTGGTCCTCGAGAGAGGGCGTGGGTTCAAATCCCACTTCTGACAAACTTTCTTTTGTTCC
* * *
2380323 AACTCCTTTTATGGGCCAGCTTCGGGTTCTAATGAGCCTGGGCTAAAACTGGGCCAAGCAAACCA
66 AACTCCTTATATGGGCCAGCTTCGGGTTCAAATGAGCCTCGGCTAAAACTGGGCC-A-CAAACC-
2380388 AAATCTAAGCTAGCCCAAGCATCAACCGGAAACTACTAAGATGATCATCGAGGTTAAAACATGAT
128 -AA--TAAGCTAGCCCAAGCATCAACCGGAAACTACTAAGATGATCATCGAGGTTAAAACATGAT
* *
2380453 TGAGCTGTTCTGAAAAAGAGATATTTGATAAAAAGACATTGGAAACTAATTTTTGGT
190 TGAGCTGTTCAGAAAAAGAGACATTTGATAAAAAGACATTGGAAACTAATTTTTGGT
2380510 AAGTTCTGGTCCTCGAGAGAGGGCGTGGGTTCAAATCCCACTTCTGACAAACTTTCTTTTGTTCC
1 AAGTTCTGGTCCTCGAGAGAGGGCGTGGGTTCAAATCCCACTTCTGACAAACTTTCTTTTGTTCC
* * *
2380575 AACTCCTTATATGGGCCAGCTTTGGGTTCAAATGAGCCTCGGCTAAAAGTGGG-C-C-TACC-A-
66 AACTCCTTATATGGGCCAGCTTCGGGTTCAAATGAGCCTCGGCTAAAACTGGGCCACAAACCAAT
**
2380635 AAGCTAGCCCAAGCATCAACCGGAAACTTGTAAGATGATCATCGAGGTTAAAACATGATTGCAG-
131 AAGCTAGCCCAAGCATCAACCGGAAACTACTAAGATGATCATCGAGGTTAAAACATGATTG-AGC
*
2380699 TGTTCAGAAAAAGAGACATTTGATAAAATGACATTGGAAACTAATTTTTGGT
195 TGTTCAGAAAAAGAGACATTTGATAAAAAGACATTGGAAACTAATTTTTGGT
2380751 GTACTTTGGT
Statistics
Matches: 227, Mismatches: 13, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
241 108 0.48
242 2 0.01
244 1 0.00
247 3 0.01
248 1 0.00
251 1 0.00
252 111 0.49
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (246 bp):
AAGTTCTGGTCCTCGAGAGAGGGCGTGGGTTCAAATCCCACTTCTGACAAACTTTCTTTTGTTCC
AACTCCTTATATGGGCCAGCTTCGGGTTCAAATGAGCCTCGGCTAAAACTGGGCCACAAACCAAT
AAGCTAGCCCAAGCATCAACCGGAAACTACTAAGATGATCATCGAGGTTAAAACATGATTGAGCT
GTTCAGAAAAAGAGACATTTGATAAAAAGACATTGGAAACTAATTTTTGGT
Found at i:2389400 original size:25 final size:25
Alignment explanation
Indices: 2389366--2389416 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2389356 GCTCCTATTT
2389366 CCGCCTAGTGTTCAAAGTTCTTGAC
1 CCGCCTAGTGTTCAAAGTTCTTGAC
2389391 CCGCCTAGTGTTCAAAGTTCTTGAC
1 CCGCCTAGTGTTCAAAGTTCTTGAC
2389416 C
1 C
2389417 TCTAACCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (25 bp):
CCGCCTAGTGTTCAAAGTTCTTGAC
Found at i:2397223 original size:6 final size:6
Alignment explanation
Indices: 2397212--2397252 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
2397202 GATTTCATCA
* *
2397212 CTTCAT CTTCAT CTTCAT CTTCGT CTTCAA CTTCAT CTTCA
1 CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT CTTCA
2397253 GAGAGAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.17, C:0.34, G:0.02, T:0.46
Consensus pattern (6 bp):
CTTCAT
Found at i:2401657 original size:14 final size:15
Alignment explanation
Indices: 2401628--2401661 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2401618 AATTTATTTA
2401628 TTATTTATAAATATGT
1 TTATTTAT-AATATGT
2401644 TTATTTAT-ATATGT
1 TTATTTATAATATGT
2401658 TTAT
1 TTAT
2401662 GAACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
16 8 0.44
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TTATTTATAATATGT
Found at i:2401672 original size:26 final size:23
Alignment explanation
Indices: 2401619--2401673 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 23
2401609 TTTAATTATA
*
2401619 ATTTATTTATTATTTATAAATAT
1 ATTTATTTATTATTTATAAACAT
* *
2401642 GTTTATTTATATATGTTTATGAACAT
1 ATTTATTTAT-TA--TTTATAAACAT
2401668 ATTTAT
1 ATTTAT
2401674 GAATATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 9 0.36
24 2 0.08
26 14 0.56
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (23 bp):
ATTTATTTATTATTTATAAACAT
Found at i:2406354 original size:23 final size:26
Alignment explanation
Indices: 2406326--2406381 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 26
2406316 ACCACTTCTA
2406326 GTTTTGTCTCTGCTT-TTTTT-TTTT
1 GTTTTGTCTCTGCTTCTTTTTGTTTT
** *
2406350 -TTTTGGGTGTGCTTCTTTTTGTTTT
1 GTTTTGTCTCTGCTTCTTTTTGTTTT
2406375 GTTTTGT
1 GTTTTGT
2406382 TTTTTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 11 0.44
24 5 0.20
25 4 0.16
26 5 0.20
ACGTcount: A:0.00, C:0.09, G:0.20, T:0.71
Consensus pattern (26 bp):
GTTTTGTCTCTGCTTCTTTTTGTTTT
Found at i:2418581 original size:43 final size:43
Alignment explanation
Indices: 2418520--2418601 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
2418510 GAGCCATGCG
*
2418520 GTATGTTATATTTCTTGGGCACGTAGCAATATATATATACACA
1 GTATGTTATATTTCTTGGGCACATAGCAATATATATATACACA
*
2418563 GTATGTTATATTTCTTGGGCACATAGCTATATATATATA
1 GTATGTTATATTTCTTGGGCACATAGCAATATATATATA
2418602 TTATCTGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (43 bp):
GTATGTTATATTTCTTGGGCACATAGCAATATATATATACACA
Found at i:2420293 original size:10 final size:10
Alignment explanation
Indices: 2420278--2420311 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2420268 ATCAACTCTC
*
2420278 TTTTCTTTTT
1 TTTTCTTTGT
2420288 TTTTCTTTGT
1 TTTTCTTTGT
*
2420298 TTTTCTTAGT
1 TTTTCTTTGT
2420308 TTTT
1 TTTT
2420312 TTTTTATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (10 bp):
TTTTCTTTGT
Found at i:2422536 original size:141 final size:142
Alignment explanation
Indices: 2422335--2422592 Score: 448
Period size: 141 Copynumber: 1.8 Consensus size: 142
2422325 TCTAAACGGT
*
2422335 GAAGATCGGGTTTGAAGCTCTCTAGGAACAAATCTAGGGTGTATTTGTTGAGTCACTTATTTAGT
1 GAAGATCGGGTTTAAAGCTCTCTAGGAACAAATCTAGGGTGTATTTGTTGAGTCACTTATTTAGT
2422400 GAAATTTCTCCAATTGTTTCTCTAGTTGTT-ATTAGCTCTAGTTTTAGCTAGAGCTAAAACTAGA
66 GAAATTTCTCCAATTGTTTCTCTAGTTGTTGATTAGCTCTAGTTTTAGCTAGAGCTAAAACTAGA
2422464 GCTCTAGTTTTA
131 GCTCTAGTTTTA
*
2422476 GAAGATCGGGTTTAAAGCTCTCTAGGAACAAAT-TCAGGGTGTATTTGTTGAGTCACTTATTTGG
1 GAAGATCGGGTTTAAAGCTCTCTAGGAACAAATCT-AGGGTGTATTTGTTGAGTCACTTATTTAG
* * *
2422540 TGAGATTTTTTCAATTGTTTCTCTAGTTGTTGATTAGCTCTAGTTTTAGCTAG
65 TGAAATTTCTCCAATTGTTTCTCTAGTTGTTGATTAGCTCTAGTTTTAGCTAG
2422593 TGAAGAACTT
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
140 1 0.01
141 88 0.80
142 21 0.19
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (142 bp):
GAAGATCGGGTTTAAAGCTCTCTAGGAACAAATCTAGGGTGTATTTGTTGAGTCACTTATTTAGT
GAAATTTCTCCAATTGTTTCTCTAGTTGTTGATTAGCTCTAGTTTTAGCTAGAGCTAAAACTAGA
GCTCTAGTTTTA
Found at i:2432398 original size:23 final size:23
Alignment explanation
Indices: 2432371--2432418 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2432361 TTAAAATAAT
*
2432371 AAAATTTATTATAATTATAATTA
1 AAAATTTATTACAATTATAATTA
* *
2432394 AAAATTTTTTACAATTATGATTA
1 AAAATTTATTACAATTATAATTA
2432417 AA
1 AA
2432419 CAAATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
AAAATTTATTACAATTATAATTA
Found at i:2432809 original size:22 final size:23
Alignment explanation
Indices: 2432767--2432814 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
2432757 TAAATTTTAT
*
2432767 TTTTTATATATTATTTTAATATAA
1 TTTTTATATATTATTTAAATA-AA
2432791 TTTTTAT-TA-TATTTAAATAAA
1 TTTTTATATATTATTTAAATAAA
2432812 TTT
1 TTT
2432815 AGATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 2 0.09
24 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTTATATATTATTTAAATAAA
Found at i:2434829 original size:21 final size:21
Alignment explanation
Indices: 2434788--2434829 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2434778 CATAATCATA
* *
2434788 TAACAAATAACTTAATCAAAC
1 TAACAAATAACTCAATAAAAC
*
2434809 TAACAAATCACTCAATAAAAC
1 TAACAAATAACTCAATAAAAC
2434830 AGTTAGTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (21 bp):
TAACAAATAACTCAATAAAAC
Found at i:2453593 original size:13 final size:12
Alignment explanation
Indices: 2453556--2453594 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
2453546 ATATAAAAAT
2453556 AATATAATTTA-A
1 AATA-AATTTATA
2453568 AATAAATTTATA
1 AATAAATTTATA
2453580 AATAAATTTAATA
1 AATAAATTT-ATA
2453593 AA
1 AA
2453595 ATTAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 14 0.56
13 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAAATTTATA
Found at i:2458384 original size:22 final size:22
Alignment explanation
Indices: 2458357--2458401 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2458347 ACACTTGCAT
2458357 TTTTTTAACATAAAAAAT-CATA
1 TTTTTTAACA-AAAAAATACATA
*
2458379 TTTTTTAATAAAAAAATACATA
1 TTTTTTAACAAAAAAATACATA
2458401 T
1 T
2458402 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTTTAACAAAAAAATACATA
Found at i:2460645 original size:189 final size:189
Alignment explanation
Indices: 2460325--2460702 Score: 747
Period size: 189 Copynumber: 2.0 Consensus size: 189
2460315 AGCACCTAAA
*
2460325 TCCATCTCCTCCCTTGGTTTAGGTAACGCCAGCTAATCATTCCTAGGGTTTCCTTCCTTTTTGTT
1 TCCATCTCCTCACTTGGTTTAGGTAACGCCAGCTAATCATTCCTAGGGTTTCCTTCCTTTTTGTT
2460390 TAGCTTCTCTTTCGTTGTTTTCTTGTTTTATTTACTTTTGTTTTGAGATAAAAAGGGGGGTAAAA
66 TAGCTTCTCTTTCGTTGTTTTCTTGTTTTATTTACTTTTGTTTTGAGATAAAAAGGGGGGTAAAA
2460455 GAGATAAAGAATAGAGGTTTTATGTGGGGATTGGAATGAGAAATCAATTGAATTCGGAT
131 GAGATAAAGAATAGAGGTTTTATGTGGGGATTGGAATGAGAAATCAATTGAATTCGGAT
2460514 TCCATCTCCTCACTTGGTTTAGGTAACGCCAGCTAATCATTCCTAGGGTTTCCTTCCTTTTTGTT
1 TCCATCTCCTCACTTGGTTTAGGTAACGCCAGCTAATCATTCCTAGGGTTTCCTTCCTTTTTGTT
2460579 TAGCTTCTCTTTCGTTGTTTTCTTGTTTTATTTACTTTTGTTTTGAGATAAAAAGGGGGGTAAAA
66 TAGCTTCTCTTTCGTTGTTTTCTTGTTTTATTTACTTTTGTTTTGAGATAAAAAGGGGGGTAAAA
2460644 GAGATAAAGAATAGAGGTTTTATGTGGGGATTGGAATGAGAAATCAATTGAATTCGGAT
131 GAGATAAAGAATAGAGGTTTTATGTGGGGATTGGAATGAGAAATCAATTGAATTCGGAT
2460703 CTGTTTGACC
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 188 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (189 bp):
TCCATCTCCTCACTTGGTTTAGGTAACGCCAGCTAATCATTCCTAGGGTTTCCTTCCTTTTTGTT
TAGCTTCTCTTTCGTTGTTTTCTTGTTTTATTTACTTTTGTTTTGAGATAAAAAGGGGGGTAAAA
GAGATAAAGAATAGAGGTTTTATGTGGGGATTGGAATGAGAAATCAATTGAATTCGGAT
Found at i:2464910 original size:35 final size:34
Alignment explanation
Indices: 2464844--2464910 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
2464834 GATTTTTTAT
*
2464844 TTAATTTGAATAAAATTTAAATATTATATATATA
1 TTAATTTGAATAAAATTTAAATATTAAATATATA
* *
2464878 TTAAGTTTGAATAAGATTTTAA-ATTAGAATATA
1 TTAA-TTTGAATAAAATTTAAATATTA-AATATA
2464911 AAAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 8 0.29
35 20 0.71
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (34 bp):
TTAATTTGAATAAAATTTAAATATTAAATATATA
Found at i:2464985 original size:20 final size:21
Alignment explanation
Indices: 2464962--2465010 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 21
2464952 ATAAAATAAA
*
2464962 ATAAAATAATTA-TTATATAT
1 ATAAAATAATTATTTAAATAT
2464982 AT-AAAT--TTATTTAAATAT
1 ATAAAATAATTATTTAAATAT
2465000 ATAAAA-AATTA
1 ATAAAATAATTA
2465011 AAAACTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
17 3 0.12
18 9 0.38
19 7 0.29
20 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAAATAATTATTTAAATAT
Found at i:2473063 original size:17 final size:16
Alignment explanation
Indices: 2473037--2473070 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2473027 TATATGTAAC
2473037 AATAAAATTTTATCAT
1 AATAAAATTTTATCAT
*
2473053 AATATAAATTTTTTCAT
1 AATA-AAATTTTATCAT
2473070 A
1 A
2473071 TTTCAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAAAATTTTATCAT
Found at i:2478723 original size:21 final size:22
Alignment explanation
Indices: 2478698--2478739 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2478688 CTATATAATA
2478698 ATTTTTAAAAAT-ATTTATTTT
1 ATTTTTAAAAATAATTTATTTT
* *
2478719 ATTTTTTAAATTAATTTATTT
1 ATTTTTAAAAATAATTTATTT
2478740 AATTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTTAAAAATAATTTATTTT
Found at i:2478735 original size:22 final size:23
Alignment explanation
Indices: 2478710--2478753 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2478700 TTTTAAAAAT
*
2478710 ATTTATTTTATT-TTTTAAATTA
1 ATTTATTTAATTATTTTAAATTA
*
2478732 ATTTATTTAATTATTTTTAATT
1 ATTTATTTAATTATTTTAAATT
2478754 GAAAATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTATTTAATTATTTTAAATTA
Found at i:2481536 original size:21 final size:21
Alignment explanation
Indices: 2481512--2481551 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2481502 TTTTCATGTG
*
2481512 TTATCTTTATTTTTATTTTTT
1 TTATCTTGATTTTTATTTTTT
*
2481533 TTATCTTGATTTTTGTTTT
1 TTATCTTGATTTTTATTTT
2481552 ATTGATTTAA
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:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (21 bp):
TTATCTTGATTTTTATTTTTT
Found at i:2481988 original size:28 final size:28
Alignment explanation
Indices: 2481957--2482017 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
2481947 ATATTATCAA
2481957 TTTATCATAATATT-TTTAAA-CACTTAAT
1 TTTATCA-AATATTATTTAAATCA-TTAAT
* *
2481985 TTTACCAAATATTATTTAAATGATTAAT
1 TTTATCAAATATTATTTAAATCATTAAT
2482013 TTTAT
1 TTTAT
2482018 TTTTTCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 6 0.21
28 21 0.75
29 1 0.04
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (28 bp):
TTTATCAAATATTATTTAAATCATTAAT
Found at i:2482092 original size:109 final size:109
Alignment explanation
Indices: 2481972--2482195 Score: 448
Period size: 109 Copynumber: 2.1 Consensus size: 109
2481962 CATAATATTT
2481972 TTAAACACTTAATTTTACCAAATATTATTTAAATGATTAATTTTATTTTTTCATATAAATATTCA
1 TTAAACACTTAATTTTACCAAATATTATTTAAATGATTAATTTTATTTTTTCATATAAATATTCA
2482037 GATAAAAATAAAGAGATAAAAAAATAATATTGACTTTATGATTA
66 GATAAAAATAAAGAGATAAAAAAATAATATTGACTTTATGATTA
2482081 TTAAACACTTAATTTTACCAAATATTATTTAAATGATTAATTTTATTTTTTCATATAAATATTCA
1 TTAAACACTTAATTTTACCAAATATTATTTAAATGATTAATTTTATTTTTTCATATAAATATTCA
2482146 GATAAAAATAAAGAGATAAAAAAATAATATTGACTTTATGATTA
66 GATAAAAATAAAGAGATAAAAAAATAATATTGACTTTATGATTA
2482190 TTAAAC
1 TTAAAC
2482196 TTTTGAGAGG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 115 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (109 bp):
TTAAACACTTAATTTTACCAAATATTATTTAAATGATTAATTTTATTTTTTCATATAAATATTCA
GATAAAAATAAAGAGATAAAAAAATAATATTGACTTTATGATTA
Found at i:2489269 original size:8 final size:8
Alignment explanation
Indices: 2489256--2489297 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
2489246 CTAATCATTT
2489256 AATAATTA
1 AATAATTA
*
2489264 ACTAA-TA
1 AATAATTA
2489271 AATAA-TA
1 AATAATTA
2489278 ATATAATTA
1 A-ATAATTA
2489287 AATAATTA
1 AATAATTA
2489295 AAT
1 AAT
2489298 TTACACATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 9 0.30
8 18 0.60
9 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
AATAATTA
Found at i:2490553 original size:28 final size:26
Alignment explanation
Indices: 2490510--2490561 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
2490500 TAATCACGTG
2490510 ACAAAAAAGTTATTTTATTTTATTTTTA
1 ACAAAAAAGTTATTTT-TTTT-TTTTTA
2490538 ACAAAAAAGTT-TTTTTTTTTTTTT
1 ACAAAAAAGTTATTTTTTTTTTTTT
2490562 GATTTGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 5 0.21
26 4 0.17
27 4 0.17
28 11 0.46
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (26 bp):
ACAAAAAAGTTATTTTTTTTTTTTTA
Found at i:2503017 original size:2 final size:2
Alignment explanation
Indices: 2503010--2503036 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2503000 CCTTGTGAAA
2503010 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2503037 CAGGTAGCGG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2513934 original size:7 final size:7
Alignment explanation
Indices: 2513924--2513949 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2513914 AAAAAATATA
2513924 TAAATTT
1 TAAATTT
2513931 TAAATTT
1 TAAATTT
2513938 TAAATTT
1 TAAATTT
2513945 TAAAT
1 TAAAT
2513950 ATTTTTTAAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TAAATTT
Found at i:2537779 original size:2 final size:2
Alignment explanation
Indices: 2537774--2537803 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2537764 GTGCGCGAGT
*
2537774 GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2537804 TAACGTGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2537953 original size:31 final size:29
Alignment explanation
Indices: 2537912--2537982 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
2537902 AATGATAAGA
* *
2537912 ATGATTTTTAAATTATTATAAAATATTTAAT
1 ATGATATTTAAATT-TTATAAAA-AATTAAT
*
2537943 ATGATATTT-AATTTTTTAAAAAATTAAT
1 ATGATATTTAAATTTTATAAAAAATTAAT
*
2537971 ATAATATTTAAA
1 ATGATATTTAAA
2537983 AAATTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 14 0.40
29 9 0.26
30 4 0.11
31 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
ATGATATTTAAATTTTATAAAAAATTAAT
Found at i:2538029 original size:16 final size:18
Alignment explanation
Indices: 2538001--2538082 Score: 70
Period size: 18 Copynumber: 4.9 Consensus size: 18
2537991 AATTCGTTAC
*
2538001 ATATTATTATTAAAAAT-T
1 ATATTA-TATTAAAAATAA
2538019 A-ATTATATTAAAAATAA
1 ATATTATATTAAAAATAA
**
2538036 ATATTATATTAATTAT-A
1 ATATTATATTAAAAATAA
2538053 A-ATT-TA-T-AAAATAA
1 ATATTATATTAAAAATAA
*
2538067 ATATCATATTAAAAAT
1 ATATTATATTAAAAAT
2538083 TTTTAATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.06
14 3 0.06
15 4 0.08
16 15 0.29
17 8 0.16
18 18 0.35
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTATATTAAAAATAA
Found at i:2538049 original size:27 final size:30
Alignment explanation
Indices: 2538016--2538078 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
2538006 ATTATTAAAA
*
2538016 ATTAATTAT-A-TTA-AAAATAAATATTAT
1 ATTAATTATAATTTATAAAATAAATATCAT
2538043 ATTAATTATAAATTTATAAAATAAATATCAT
1 ATTAATTAT-AATTTATAAAATAAATATCAT
2538074 ATTAA
1 ATTAA
2538079 AAATTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.29
29 1 0.03
30 3 0.10
31 18 0.58
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (30 bp):
ATTAATTATAATTTATAAAATAAATATCAT
Found at i:2538082 original size:27 final size:26
Alignment explanation
Indices: 2538047--2538112 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
2538037 TATTATATTA
*
2538047 ATTATAAATTTATAAAATAAATATCAT
1 ATTAAAAATTT-TAAAATAAATATCAT
* * * *
2538074 ATTAAAAATTTTTAATTTAATATTAT
1 ATTAAAAATTTTAAAATAAATATCAT
*
2538100 ATTAAATATTTTA
1 ATTAAAAATTTTA
2538113 TTATAATTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 22 0.69
27 10 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTAAAAATTTTAAAATAAATATCAT
Found at i:2546251 original size:2 final size:2
Alignment explanation
Indices: 2546244--2546271 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2546234 GCTTCTGTAC
2546244 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
2546272 TTAGCATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2552854 original size:18 final size:17
Alignment explanation
Indices: 2552799--2552845 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
2552789 ATTTGTATCA
*
2552799 AAATTTTATATTAAATT
1 AAATTTTAAATTAAATT
* *
2552816 AAATATTAAGTTTAAATT
1 AAATTTTAA-ATTAAATT
2552834 AAATTTTAAATT
1 AAATTTTAAATT
2552846 GAGATTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
AAATTTTAAATTAAATT
Found at i:2557430 original size:18 final size:18
Alignment explanation
Indices: 2557407--2557463 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
2557397 ATATTAAAAT
2557407 TTTTATATTTATATTATA
1 TTTTATATTTATATTATA
** *
2557425 TTTTATATAAAAATTATA
1 TTTTATATTTATATTATA
2557443 TATTGTA-ATTTATATTGATA
1 T-TT-TATATTTATATT-ATA
2557463 T
1 T
2557464 AAAAATATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 16 0.53
19 8 0.27
20 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
TTTTATATTTATATTATA
Found at i:2557445 original size:31 final size:31
Alignment explanation
Indices: 2557401--2557495 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 31
2557391 TATAAAATAT
* *
2557401 TAAAATTTTTATATTTATATTATATTTTATA
1 TAAAAATTATATATTTATATTATATTTTATA
*
2557432 TAAAAATTATATATTGTA-ATT-TATATTGATA
1 TAAAAATTATATATT-TATATTATAT-TTTATA
** *
2557463 TAAAAA-TAT-TAAATATATTAAATTTATATA
1 TAAAAATTATATATTTATATTATATTT-TATA
2557493 TAA
1 TAA
2557496 TTATTATTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
28 2 0.04
29 7 0.13
30 14 0.27
31 27 0.52
32 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (31 bp):
TAAAAATTATATATTTATATTATATTTTATA
Found at i:2557916 original size:16 final size:16
Alignment explanation
Indices: 2557889--2557950 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
2557879 AAATATTATT
2557889 TTTAAA-ATATAAATA
1 TTTAAATATATAAATA
*
2557904 TTTAAATATATAATTA
1 TTTAAATATATAAATA
*
2557920 TATAAATATATATAAATA
1 T-TTAA-ATATATAAATA
* *
2557938 ATTAAATAAATAA
1 TTTAAATATATAA
2557951 TTTTTATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
15 6 0.16
16 16 0.42
17 6 0.16
18 10 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:2557946 original size:8 final size:9
Alignment explanation
Indices: 2557894--2557950 Score: 52
Period size: 8 Copynumber: 6.8 Consensus size: 9
2557884 TTATTTTTAA
2557894 AATATAAAT
1 AATATAAAT
*
2557903 -ATTTAAAT
1 AATATAAAT
2557911 -ATAT-AAT
1 AATATAAAT
*
2557918 TATATAAAT
1 AATATAAAT
2557927 ATATATAAAT
1 A-ATATAAAT
2557937 AAT-TAAAT
1 AATATAAAT
2557945 AA-ATAA
1 AATATAA
2557951 TTTTTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.07
8 24 0.59
9 5 0.12
10 9 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AATATAAAT
Found at i:2557946 original size:12 final size:12
Alignment explanation
Indices: 2557897--2557952 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
2557887 TTTTTAAAAT
*
2557897 ATAAATATTTAA
1 ATAAATAATTAA
* *
2557909 ATATATAATTAT
1 ATAAATAATTAA
*
2557921 ATAAAT-A-TAT
1 ATAAATAATTAA
2557931 ATAAATAATTAA
1 ATAAATAATTAA
2557943 ATAAATAATT
1 ATAAATAATT
2557953 TTTATATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 9 0.24
11 2 0.05
12 26 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:2563086 original size:24 final size:25
Alignment explanation
Indices: 2563059--2563114 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
2563049 TCGTGATCCT
2563059 CTGACCACAAG-AACTCACGGTCCA
1 CTGACCACAAGCAACTCACGGTCCA
* *
2563083 CTGACCA-ACGCAACTCATGGTCCA
1 CTGACCACAAGCAACTCACGGTCCA
2563107 CTGACCAC
1 CTGACCAC
2563115 CTCGCTTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.30, C:0.39, G:0.16, T:0.14
Consensus pattern (25 bp):
CTGACCACAAGCAACTCACGGTCCA
Found at i:2565624 original size:28 final size:29
Alignment explanation
Indices: 2565592--2565653 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
2565582 TATTTGAATC
2565592 ATTTTAAATATAT-AAATTATAAT-TA-TTT
1 ATTTTAAAT-TATCAAA-TATAATATATTTT
*
2565620 ATTTTAAATTATCAGATATAATATATTTT
1 ATTTTAAATTATCAAATATAATATATTTT
2565649 ATTTT
1 ATTTT
2565654 GATACTGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.30
28 13 0.43
29 8 0.27
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (29 bp):
ATTTTAAATTATCAAATATAATATATTTT
Found at i:2566454 original size:41 final size:45
Alignment explanation
Indices: 2566395--2566482 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 45
2566385 TATTATTTGA
* * *
2566395 ATTTTATAAAATAAAATAT-TTTAA-ATTAAAAT-ATTAAATAAT
1 ATTTTATAAAATAAAATATATATAATATAAAAATAAATAAATAAT
* *
2566437 ATTTTAT-TAATATAATATATATAATATAAAAATAAATAAATAAT
1 ATTTTATAAAATAAAATATATATAATATAAAAATAAATAAATAAT
2566481 AT
1 AT
2566483 ATATCTCGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
41 9 0.24
42 11 0.29
43 7 0.18
44 11 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (45 bp):
ATTTTATAAAATAAAATATATATAATATAAAAATAAATAAATAAT
Found at i:2588365 original size:21 final size:22
Alignment explanation
Indices: 2588339--2588383 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
2588329 TGGTAGACAC
2588339 AATTTTAA-ATATAATAT-AAAT
1 AATTTTAACATA-AATATGAAAT
2588360 AATTTTAACATAAATATGAAAT
1 AATTTTAACATAAATATGAAAT
2588382 AA
1 AA
2588384 ATAATTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATTTTAACATAAATATGAAAT
Found at i:2588383 original size:26 final size:27
Alignment explanation
Indices: 2588344--2588409 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 27
2588334 GACACAATTT
2588344 TAAATAT-AATATAAATAATTTTAA-CA
1 TAAATATGAATATAAATAA-TTTAAGCA
*
2588370 TAAATATGAA-ATAAATAATTTAAGTA
1 TAAATATGAATATAAATAATTTAAGCA
2588396 TAAATATGATATAT
1 TAAATATGA-ATAT
2588410 GTATTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 5 0.14
26 25 0.71
27 3 0.09
28 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (27 bp):
TAAATATGAATATAAATAATTTAAGCA
Found at i:2588528 original size:19 final size:19
Alignment explanation
Indices: 2588485--2588528 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
2588475 GCATAATACG
2588485 ATATAATTAATATGATTAA
1 ATATAATTAATATGATTAA
*
2588504 ACATAATTAAATATGATT-A
1 ATATAATT-AATATGATTAA
2588523 ATATAA
1 ATATAA
2588529 AAATATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (19 bp):
ATATAATTAATATGATTAA
Found at i:2588688 original size:24 final size:25
Alignment explanation
Indices: 2588661--2588707 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2588651 TTGAAAAAGA
2588661 TATCATTTAAACATATT-ATAAATG
1 TATCATTTAAACATATTAATAAATG
* *
2588685 TATCATTTATACATGTTAATAAA
1 TATCATTTAAACATATTAATAAA
2588708 ATAACTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (25 bp):
TATCATTTAAACATATTAATAAATG
Found at i:2591503 original size:21 final size:20
Alignment explanation
Indices: 2591477--2591518 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
2591467 ATTAATAAAA
*
2591477 TATTTTTTTAATATAAAATAT
1 TATTTTTTAAATAT-AAATAT
2591498 TATTTTTTAAATATAAATAT
1 TATTTTTTAAATATAAATAT
2591518 T
1 T
2591519 TAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTTTAAATATAAATAT
Found at i:2591505 original size:20 final size:18
Alignment explanation
Indices: 2591470--2591519 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
2591460 ACCCGAAATT
2591470 AATAAAATA-TTTTTTTA
1 AATAAAATATTTTTTTTA
2591487 ATATAAAATATTATTTTTTA
1 A-ATAAAATATT-TTTTTTA
2591507 AATATAAATATTT
1 AATA-AAATATTT
2591520 AAAAATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.03
18 8 0.28
19 5 0.17
20 15 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATAAAATATTTTTTTTA
Found at i:2591527 original size:16 final size:16
Alignment explanation
Indices: 2591506--2591549 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
2591496 ATTATTTTTT
*
2591506 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
2591522 AAATATAATTATATAA
1 AAATATAAATATATAA
*
2591538 ATATATATAATA
1 AAATATA-AATA
2591550 AAAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:2591527 original size:30 final size:29
Alignment explanation
Indices: 2591485--2591558 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
2591475 AATATTTTTT
* *
2591485 TAATATAAAATATTATTTTTTAAATATAAA
1 TAATA-AAAATATTATTATATAAATATAAA
* * *
2591515 TATTTAAAAATATAATTATATAAATATATA
1 TA-ATAAAAATATTATTATATAAATATAAA
2591545 TAATAAAAA-ATTAT
1 TAATAAAAATATTAT
2591559 ATAACTAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
28 4 0.11
29 6 0.17
30 24 0.67
31 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TAATAAAAATATTATTATATAAATATAAA
Found at i:2596930 original size:19 final size:18
Alignment explanation
Indices: 2596894--2596932 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2596884 CAAAACTAGA
**
2596894 TTTTTTATTAAATTGATT
1 TTTTTTATTAAAAGGATT
2596912 TTTTTTAATTAAAAGGATT
1 TTTTTT-ATTAAAAGGATT
2596931 TT
1 TT
2596933 AAAACATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTTTATTAAAAGGATT
Found at i:2597215 original size:15 final size:16
Alignment explanation
Indices: 2597195--2597228 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2597185 GACTTTAGGT
*
2597195 TTTATTTTATT-TTTA
1 TTTATTTAATTATTTA
2597210 TTTATTTAATTATTTA
1 TTTATTTAATTATTTA
2597226 TTT
1 TTT
2597229 GATTATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTAATTATTTA
Found at i:2597222 original size:12 final size:12
Alignment explanation
Indices: 2597207--2597247 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2597197 TATTTTATTT
2597207 TTATTTATTTAA
1 TTATTTATTTAA
*
2597219 TTATTTATTTGA
1 TTATTTATTTAA
*
2597231 TTATCTA-TTAA
1 TTATTTATTTAA
2597242 TT-TTTA
1 TTATTTA
2597248 AATAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 3 0.12
11 5 0.20
12 17 0.68
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATTTATTTAA
Found at i:2602688 original size:5 final size:5
Alignment explanation
Indices: 2602678--2602721 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
2602668 GATAATTTAA
*
2602678 AATAT AATAT -A-AT AATAT AATAT AA-A- AATAT AAAAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
2602722 TTAAATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
3 4 0.12
4 4 0.12
5 25 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:2602696 original size:13 final size:13
Alignment explanation
Indices: 2602669--2602717 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
2602659 AATAGATTTG
*
2602669 ATAATTTAA-AAT
1 ATAATATAATAAT
2602681 ATAATATAATAAT
1 ATAATATAATAAT
*
2602694 ATAATATAAAAAT
1 ATAATATAATAAT
*
2602707 ATAAAATAATA
1 ATAATATAATA
2602718 TAATTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 8 0.25
13 24 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:2602718 original size:23 final size:25
Alignment explanation
Indices: 2602669--2602726 Score: 84
Period size: 23 Copynumber: 2.4 Consensus size: 25
2602659 AATAGATTTG
*
2602669 ATAATTTAAAATATAATATAATAAT
1 ATAATTTAAAATATAATAAAATAAT
*
2602694 ATAATATAAAA-AT-ATAAAATAAT
1 ATAATTTAAAATATAATAAAATAAT
2602717 ATAATTTAAA
1 ATAATTTAAA
2602727 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 18 0.60
24 2 0.07
25 10 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATTTAAAATATAATAAAATAAT
Found at i:2602754 original size:37 final size:37
Alignment explanation
Indices: 2602713--2602822 Score: 108
Period size: 30 Copynumber: 3.1 Consensus size: 37
2602703 AAATATAAAA
2602713 TAATATAATTTAAATTTTATAAAAATTTAATTAAATT
1 TAATATAATTTAAATTTTATAAAAATTTAATTAAATT
* * *
2602750 TAATAAAATTAAAATTTTAT----A-TT--TTATATT
1 TAATATAATTTAAATTTTATAAAAATTTAATTAAATT
* * *
2602780 TTACATAATTTAAAATTTATAAAAATTATAATTAAATT
1 TAATATAATTTAAATTTTATAAAAATT-TAATTAAATT
2602818 TAATA
1 TAATA
2602823 ATATAAAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
30 21 0.39
32 2 0.04
33 1 0.02
34 1 0.02
35 1 0.02
36 1 0.02
37 18 0.33
38 9 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (37 bp):
TAATATAATTTAAATTTTATAAAAATTTAATTAAATT
Found at i:2602765 original size:21 final size:21
Alignment explanation
Indices: 2602722--2602762 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2602712 ATAATATAAT
* *
2602722 TTAAATTTTATAAAAATTTAA
1 TTAAATTTAATAAAAATTAAA
2602743 TTAAATTTAAT-AAAATTAAA
1 TTAAATTTAATAAAAATTAAA
2602763 ATTTTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAATTTAATAAAAATTAAA
Found at i:2604207 original size:16 final size:16
Alignment explanation
Indices: 2604179--2604211 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2604169 TCAAAATAAT
2604179 TTTTGTAATTTTTATA
1 TTTTGTAATTTTTATA
2604195 TTTT-TAATATTTTATA
1 TTTTGTAAT-TTTTATA
2604211 T
1 T
2604212 ATAGCATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTGTAATTTTTATA
Found at i:2607167 original size:5 final size:5
Alignment explanation
Indices: 2607150--2607196 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
2607140 GCTTGCAAAA
* * * *
2607150 CCCCT CCCTT CCCCT CCCCT CCCC- CCCCC CCCCC CCCCC CCCCT CCC
1 CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT CCC
2607197 TTGGGAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.00, C:0.87, G:0.00, T:0.13
Consensus pattern (5 bp):
CCCCT
Found at i:2618892 original size:16 final size:17
Alignment explanation
Indices: 2618871--2618903 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2618861 TGTTGGATAA
*
2618871 AAAAATATTAA-AAAAG
1 AAAAATAATAATAAAAG
2618887 AAAAATAATAATAAAAG
1 AAAAATAATAATAAAAG
2618904 CAGAAATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAATAATAAAAG
Found at i:2623059 original size:2 final size:2
Alignment explanation
Indices: 2623052--2623097 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2623042 AGTATGAGGC
2623052 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2623094 AG AG
1 AG AG
2623098 CATGATGCCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.