Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 84 of 120
Found at i:10806309 original size:21 final size:20
Alignment explanation
Indices: 10806280--10806330 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
10806270 TTTTTTAATT
10806280 ATATATTTATATTTAAAAAATA
1 ATAT-TTTATATTT-AAAAATA
*
10806302 TTATTTTATATTTAAAAATA
1 ATATTTTATATTTAAAAATA
10806322 ATATTTTAT
1 ATATTTTAT
10806331 TAATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 15 0.56
21 9 0.33
22 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTTTATATTTAAAAATA
Found at i:10806338 original size:23 final size:21
Alignment explanation
Indices: 10806280--10806340 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 21
10806270 TTTTTTAATT
*
10806280 ATATATTTATATTTAAAAAATA
1 ATAT-TTTATATTTTAAAAATA
*
10806302 TTATTTTATA-TTTAAAAATA
1 ATATTTTATATTTTAAAAATA
10806322 ATATTTTATTAATTTTAAA
1 ATATTTTA-T-ATTTTAAA
10806341 TTTAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 16 0.48
21 7 0.21
22 4 0.12
23 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATTTTATATTTTAAAAATA
Found at i:10806468 original size:31 final size:31
Alignment explanation
Indices: 10806409--10806468 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
10806399 AAAAAATATT
* * * **
10806409 TAAATCGAATTAAATTTAAATTTTATAAATA
1 TAAATCAAATCAAATTTAAAATGAATAAATA
10806440 TAAATCAAATCAAATTTAAAATGAATAAA
1 TAAATCAAATCAAATTTAAAATGAATAAA
10806469 AAATTATCCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (31 bp):
TAAATCAAATCAAATTTAAAATGAATAAATA
Found at i:10809037 original size:18 final size:19
Alignment explanation
Indices: 10809016--10809067 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
10809006 TATGTCATAT
10809016 AATTATATTATTT-TTA-AA
1 AATTAT-TTATTTATTATAA
10809034 AATTATTTATTTATTATAA
1 AATTATTTATTTATTATAA
* *
10809053 AATAATTAATTTATT
1 AATTATTTATTTATT
10809068 TATTGATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 6 0.20
18 9 0.30
19 15 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTATTTATTTATTATAA
Found at i:10809091 original size:27 final size:25
Alignment explanation
Indices: 10809035--10809097 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 25
10809025 ATTTTTAAAA
10809035 ATTATTTATTTATTATAAAATAATT
1 ATTATTTATTTATTATAAAATAATT
*
10809060 A--ATTTATTTATTGATATAAATATTT
1 ATTATTTATTTATT-ATA-AAATAATT
*
10809085 ATTATTTAATTAT
1 ATTATTTATTTAT
10809098 CACATATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 11 0.34
24 3 0.09
25 9 0.28
27 9 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
ATTATTTATTTATTATAAAATAATT
Found at i:10816397 original size:32 final size:32
Alignment explanation
Indices: 10816356--10816420 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
10816346 GAAACTTGGT
* *
10816356 AAATTCTTTAAAGTTAAAGTCCAAGGTATTTC
1 AAATTCTTTAAAGCTAAAGTCCAAAGTATTTC
10816388 AAATTCTTTAAAGCTAAAGTCCAAAGTATTTC
1 AAATTCTTTAAAGCTAAAGTCCAAAGTATTTC
10816420 A
1 A
10816421 TCATATTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (32 bp):
AAATTCTTTAAAGCTAAAGTCCAAAGTATTTC
Found at i:10816672 original size:13 final size:12
Alignment explanation
Indices: 10816635--10816699 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 12
10816625 TATATAGATT
10816635 AGAAAAAAATTAAA
1 AGAAAAAAA--AAA
10816649 A-AAAGAAAAAAA
1 AGAAA-AAAAAAA
*
10816661 GAGTAAAAAAAAAT
1 -AG-AAAAAAAAAA
*
10816675 TGAAAAAAAAAA
1 AGAAAAAAAAAA
10816687 AGCAAAAAAAAAA
1 AG-AAAAAAAAAA
10816700 CTATCATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
12 13 0.31
13 15 0.36
14 11 0.26
15 3 0.07
ACGTcount: A:0.82, C:0.02, G:0.09, T:0.08
Consensus pattern (12 bp):
AGAAAAAAAAAA
Found at i:10817138 original size:23 final size:23
Alignment explanation
Indices: 10817108--10817157 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
10817098 GCTAGCACTG
*
10817108 TGTTCAAGCTTTGGTCGAACTAT
1 TGTTCAAGCTTTGGTCAAACTAT
10817131 TGTTCAAGCTTTGGTCAAACTAT
1 TGTTCAAGCTTTGGTCAAACTAT
10817154 TGTT
1 TGTT
10817158 GTAAAGATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (23 bp):
TGTTCAAGCTTTGGTCAAACTAT
Found at i:10826416 original size:19 final size:19
Alignment explanation
Indices: 10826375--10826418 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10826365 AAACATGATA
10826375 AAAACAAAATAGAATAAAG
1 AAAACAAAATAGAATAAAG
* *
10826394 AAAATAAAATCAGAA-AAAT
1 AAAACAAAAT-AGAATAAAG
10826413 AAAACA
1 AAAACA
10826419 CATAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAACAAAATAGAATAAAG
Found at i:10826894 original size:13 final size:13
Alignment explanation
Indices: 10826878--10826903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10826868 TAATATTTAA
10826878 TATTAAAATATTT
1 TATTAAAATATTT
10826891 TATTAAAATATTT
1 TATTAAAATATTT
10826904 ATATACTTAA
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):
TATTAAAATATTT
Found at i:10826996 original size:20 final size:20
Alignment explanation
Indices: 10826929--10826990 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
10826919 AACTATTTAA
10826929 TATTACTTATT-TTAAAATAT
1 TATTA-TTATTCTTAAAATAT
* *
10826949 T-TTA-AATAT-TTAAAATGT
1 TATTATTAT-TCTTAAAATAT
10826967 TATTATTATTCTTAAAATAT
1 TATTATTATTCTTAAAATAT
10826987 TATT
1 TATT
10826991 TCTATTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.06
18 10 0.29
19 7 0.21
20 15 0.44
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (20 bp):
TATTATTATTCTTAAAATAT
Found at i:10828393 original size:33 final size:34
Alignment explanation
Indices: 10828312--10828396 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
10828302 ATTAATTTAA
*
10828312 TTATATGATATAAATAATATTTTAATTTTATAAAT
1 TTATATTA-ATAAATAATATTTTAATTTTATAAAT
* * *
10828347 TTATTTTATTAAATCATATTTTAA-TTTATATAAT
1 TTATATTAATAAATAATATTTTAATTTTATA-AAT
10828381 TT-TATTAATAAATAAT
1 TTATATTAATAAATAAT
10828397 TAAAAAATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
33 17 0.40
34 19 0.45
35 6 0.14
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (34 bp):
TTATATTAATAAATAATATTTTAATTTTATAAAT
Found at i:10828596 original size:19 final size:19
Alignment explanation
Indices: 10828569--10828612 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10828559 AAACATGATA
*
10828569 AAAACAAAATGA-AATAAAT
1 AAAATAAAATGAGAA-AAAT
*
10828588 AAAATAAAATTAGAAAAAT
1 AAAATAAAATGAGAAAAAT
10828607 AAAATA
1 AAAATA
10828613 CATTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAATAAAATGAGAAAAAT
Found at i:10828912 original size:79 final size:79
Alignment explanation
Indices: 10828771--10828923 Score: 279
Period size: 79 Copynumber: 1.9 Consensus size: 79
10828761 CTCTCGACAG
* *
10828771 ACAATTAAGAGCATTTCATATATTTGAGCTTACTTAACATGTTAGGTCGACCTGATATGTTCAAT
1 ACAACTAAGAGCATTTCATATATTTGAGCTGACTTAACATGTTAGGTCGACCTGATATGTTCAAT
10828836 GCCATATCAATTTA
66 GCCATATCAATTTA
*
10828850 ACAACTAAGGGCATTTCATATATTTGAGCTGACTTAACATGTTAGGTCGACCTGATATGTTCAAT
1 ACAACTAAGAGCATTTCATATATTTGAGCTGACTTAACATGTTAGGTCGACCTGATATGTTCAAT
10828915 GCCATATCA
66 GCCATATCA
10828924 GCTTAACCAC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (79 bp):
ACAACTAAGAGCATTTCATATATTTGAGCTGACTTAACATGTTAGGTCGACCTGATATGTTCAAT
GCCATATCAATTTA
Found at i:10830551 original size:7 final size:7
Alignment explanation
Indices: 10830513--10830567 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
10830503 ATTAGAAGGA
10830513 AAGAAAG
1 AAGAAAG
10830520 AA-AAAG
1 AAGAAAG
10830526 AATGAGAAG
1 AA-GA-AAG
* *
10830535 AGGGAAG
1 AAGAAAG
*
10830542 AAGAATG
1 AAGAAAG
10830549 AAGAAAG
1 AAGAAAG
10830556 AAGAAA-
1 AAGAAAG
10830562 AAGAAA
1 AAGAAA
10830568 AAAAAAAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
6 12 0.31
7 21 0.54
8 2 0.05
9 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (7 bp):
AAGAAAG
Found at i:10833038 original size:18 final size:17
Alignment explanation
Indices: 10833009--10833049 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
10832999 GCTTGAAACT
10833009 AAAAAAAAAAAAAGG-A
1 AAAAAAAAAAAAAGGTA
10833025 AAAACAAAAGAAAAAGGTA
1 AAAA-AAAA-AAAAAGGTA
10833044 AAAAAA
1 AAAAAA
10833050 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.18
17 4 0.18
18 9 0.41
19 5 0.23
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAGGTA
Found at i:10834268 original size:51 final size:50
Alignment explanation
Indices: 10834213--10834323 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 50
10834203 CTTTTTTTTT
10834213 AGATTTTTAAAGTTGTTCAACCTTTATTTAAAAGGAG-TTTTTCTCAAGATG
1 AGATTTTTAAAGTTGTTCAACCTTTATTT-AAAGGAGCTTTTTCT-AAGATG
* * * * * *
10834264 AGATTTTTAAAGTTGTTGATCTTTTGTTTAAATGAGCTTTTTCTAATATG
1 AGATTTTTAAAGTTGTTCAACCTTTATTTAAAGGAGCTTTTTCTAAGATG
10834314 AGATTTTTAA
1 AGATTTTTAA
10834324 CCTTTGCTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
50 21 0.40
51 32 0.60
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (50 bp):
AGATTTTTAAAGTTGTTCAACCTTTATTTAAAGGAGCTTTTTCTAAGATG
Found at i:10834572 original size:50 final size:50
Alignment explanation
Indices: 10834452--10834572 Score: 172
Period size: 50 Copynumber: 2.4 Consensus size: 50
10834442 TTTCAAGACA
* * *
10834452 TTGTTTAAATGAGTGTTTTTCAAAACAAGATTTTTAAAGTTGTCTAACCT
1 TTGTTTAAATGAGTCTTTTTTAAAACAAGAATTTTAAAGTTGTCTAACCT
*
10834502 TTGTTTAAATGAGTCTTTTTTAAAATAAGAATTTTAAAGTTGT-TAACCTT
1 TTGTTTAAATGAGTCTTTTTTAAAACAAGAATTTTAAAGTTGTCTAACC-T
* *
10834552 TTGTTTAAAGGAGTTTTTTTT
1 TTGTTTAAATGAGTCTTTTTT
10834573 TTTTTTTTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 5 0.08
50 59 0.92
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.49
Consensus pattern (50 bp):
TTGTTTAAATGAGTCTTTTTTAAAACAAGAATTTTAAAGTTGTCTAACCT
Found at i:10836210 original size:10 final size:10
Alignment explanation
Indices: 10836197--10836243 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
10836187 GAGAAAAGGG
10836197 AAGAAAAAAA
1 AAGAAAAAAA
10836207 AAG---AAAA
1 AAGAAAAAAA
10836214 AAGAAAAAGAA
1 AAGAAAAA-AA
*
10836225 AGGAAAAAAA
1 AAGAAAAAAA
10836235 AAGAAAAAA
1 AAGAAAAAA
10836244 GTTTTGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 7 0.23
10 15 0.48
11 9 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:10836243 original size:7 final size:7
Alignment explanation
Indices: 10836203--10836244 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
10836193 AGGGAAGAAA
10836203 AAAAAAG
1 AAAAAAG
10836210 AAAAAAG
1 AAAAAAG
10836217 -AAAAAG
1 AAAAAAG
10836223 AAAGGAAA-
1 AAA--AAAG
10836231 AAAAAAG
1 AAAAAAG
10836238 AAAAAAG
1 AAAAAAG
10836245 TTTTGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 9 0.29
7 16 0.52
8 3 0.10
9 3 0.10
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:10836847 original size:19 final size:20
Alignment explanation
Indices: 10836819--10836856 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10836809 TATTGTTTTT
10836819 CTTGTAAAAAAA-TATTATC
1 CTTGTAAAAAAATTATTATC
*
10836838 CTTGTTAAAAAATTATTAT
1 CTTGTAAAAAAATTATTAT
10836857 GTGAATCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (20 bp):
CTTGTAAAAAAATTATTATC
Found at i:10836848 original size:20 final size:19
Alignment explanation
Indices: 10836819--10836856 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10836809 TATTGTTTTT
10836819 CTTGTAAAAAAATATTATC
1 CTTGTAAAAAAATATTATC
*
10836838 CTTGTTAAAAAATTATTAT
1 CTTG-TAAAAAAATATTAT
10836857 GTGAATCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (19 bp):
CTTGTAAAAAAATATTATC
Found at i:10840857 original size:19 final size:18
Alignment explanation
Indices: 10840814--10840858 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
10840804 TCTTTGGATC
10840814 AAAATTA-TTAAATTTAA
1 AAAATTATTTAAATTTAA
*
10840831 AAATATTATTTTAATTTAA
1 AAA-ATTATTTAAATTTAA
10840850 ATAAATTAT
1 A-AAATTAT
10840859 GAATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 3 0.12
18 4 0.17
19 15 0.62
20 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATTATTTAAATTTAA
Found at i:10841362 original size:8 final size:9
Alignment explanation
Indices: 10841343--10841402 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
10841333 AATTTTTTTT
10841343 AAAATTATA
1 AAAATTATA
*
10841352 AAAATTAAA
1 AAAATTATA
* *
10841361 AAAGAATAAA
1 AAA-ATTATA
*
10841371 AAAAATATA
1 AAAATTATA
10841380 AAATATT-TA
1 AAA-ATTATA
10841389 AGAAATTATA
1 A-AAATTATA
10841399 AAAA
1 AAAA
10841403 AAATTAAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 28 0.65
10 15 0.35
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (9 bp):
AAAATTATA
Found at i:10841477 original size:21 final size:22
Alignment explanation
Indices: 10841447--10841503 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
10841437 AAAAATTACG
*
10841447 AAAACTTAAAAAATTATAA-AA
1 AAAACCTAAAAAATTATAATAA
*
10841468 AAAACCT-AAAAATTTTAATAA
1 AAAACCTAAAAAATTATAATAA
*
10841489 AAAATCTAAAAAATT
1 AAAACCTAAAAAATT
10841504 CCAAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.32
21 14 0.45
22 7 0.23
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAACCTAAAAAATTATAATAA
Found at i:10841511 original size:21 final size:21
Alignment explanation
Indices: 10841453--10841524 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
10841443 TACGAAAACT
* *
10841453 TAAAAAATTATAAAAAAAACC
1 TAAAAAATTCTAAAAAAAATC
*
10841474 T-AAAAATTTTAATAAAAAATC
1 TAAAAAATTCTAA-AAAAAATC
* *
10841495 TAAAAAATTCCAAAAAATAT-
1 TAAAAAATTCTAAAAAAAATC
*
10841515 AAAAAAATTC
1 TAAAAAATTC
10841525 ATATTAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 19 0.44
21 15 0.35
22 9 0.21
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAAAATTCTAAAAAAAATC
Found at i:10841976 original size:20 final size:20
Alignment explanation
Indices: 10841935--10841986 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
10841925 TTAAAATTTT
10841935 AAAAAATT-TAAAATATTCA
1 AAAAAATTCTAAAATATTCA
*
10841954 AAAAAATTCTACAAAT-TTGA
1 AAAAAATTCTA-AAATATTCA
10841974 AAAAAATTC-AAAA
1 AAAAAATTCTAAAA
10841987 AAATCTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 9 0.30
20 14 0.47
21 4 0.13
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAAATTCTAAAATATTCA
Found at i:10841996 original size:9 final size:10
Alignment explanation
Indices: 10841935--10841990 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
10841925 TTAAAATTTT
*
10841935 AAAAAATT-T
1 AAAAAATTCA
*
10841944 AAAATATTCA
1 AAAAAATTCA
*
10841954 AAAAAATTCT
1 AAAAAATTCA
* * *
10841964 ACAAATTTGA
1 AAAAAATTCA
10841974 AAAAAATTCA
1 AAAAAATTCA
10841984 AAAAAAT
1 AAAAAAT
10841991 CTAAAATATT
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
9 7 0.20
10 28 0.80
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:10842050 original size:29 final size:27
Alignment explanation
Indices: 10842013--10842068 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
10842003 GACAAATCCC
*
10842013 AAAAAATTCACAAAAATTTTGAAAAATT
1 AAAAAATTCACAAAAA-TTTAAAAAATT
* *
10842041 AAAAATATTCCCAATAATTTAAAAAATT
1 AAAAA-ATTCACAAAAATTTAAAAAATT
10842069 GAATAAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (27 bp):
AAAAAATTCACAAAAATTTAAAAAATT
Found at i:10842318 original size:28 final size:27
Alignment explanation
Indices: 10842258--10842327 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
10842248 GATTTTTGAA
* * *
10842258 TTTTGTTATTTTTCTAAAAATTGTAAG
1 TTTTTTTATTTTTCAAAAAATTGTAAC
*
10842285 TCTTTTTTATTTTTCAAAAATATTTTAAC
1 T-TTTTTTATTTTTCAAAAA-ATTGTAAC
*
10842314 TTTTTATAATTTTT
1 TTTTT-TTATTTTT
10842328 TAGAATATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.03
28 20 0.57
29 14 0.40
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTTTTTATTTTTCAAAAAATTGTAAC
Found at i:10842438 original size:31 final size:30
Alignment explanation
Indices: 10842402--10842474 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 30
10842392 TTTTATAAAT
*
10842402 TTTCAATTTTTAAAAAACTAGATTTTTTAAG
1 TTTCAATTTTTAAAAAACTAAATTTTTT-AG
** * *
10842433 TTTCAAATTTAAAAAAAATTAAATTTTTTAT
1 TTTC-AATTTTTAAAAAACTAAATTTTTTAG
10842464 TTTCAATTTTT
1 TTTCAATTTTT
10842475 TAAGTTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 5 0.15
31 9 0.26
32 20 0.59
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (30 bp):
TTTCAATTTTTAAAAAACTAAATTTTTTAG
Found at i:10842663 original size:33 final size:34
Alignment explanation
Indices: 10842619--10842706 Score: 101
Period size: 33 Copynumber: 2.6 Consensus size: 34
10842609 TTGTCATAAT
10842619 TTTTTTA-TTTTTATAATTTTTAAAAATA-TTTA
1 TTTTTTATTTTTTATAATTTTTAAAAATACTTTA
* *
10842651 TTTTTTATTTTTTATATTTTTTCAAAATACTTTTA
1 TTTTTTATTTTTTATAATTTTTAAAAATAC-TTTA
**
10842686 TTTTAAATTATTTTA-AATTTT
1 TTTTTTATT-TTTTATAATTTT
10842707 CTTTTAATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
32 7 0.15
33 19 0.40
35 16 0.34
36 5 0.11
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (34 bp):
TTTTTTATTTTTTATAATTTTTAAAAATACTTTA
Found at i:10847124 original size:219 final size:219
Alignment explanation
Indices: 10846739--10847185 Score: 777
Period size: 219 Copynumber: 2.0 Consensus size: 219
10846729 ATGCTATCAT
*
10846739 CCAATTAATACATTATTGGTTAAAGAAAATAAAGGTATTTTTACTTCTTGTACCCAAAAAAATGA
1 CCAATCAATACATTATTGGTTAAAGAAAATAAAGGTATTTTTACTTCTTGTACCCAAAAAAATGA
* *
10846804 TCTTTTGCAGGCTATTAAAATGAAAAGTTAACAAGTTTTTAAGGTTTTCAATAGTTTCATGACAA
66 CCTTTTGCAGGCTATTAAAATGAAAAGTTAACAAGTTTTTAAAGTTTTCAATAGTTTCATGACAA
*
10846869 TGGTAAGGATATGGCTGGTTATTTACCATATTAACATATGGGCTTAGATAATAATATAGGTTTGT
131 TGGTAAGGATATGGCTGGTTATTGACCATATTAACATATGGGCTTAGATAATAATATAGGTTTGT
*
10846934 GAAAGTCATAAGCTTTAGAGTTAG
196 GAAAGTCATAAGCCTTAGAGTTAG
* *
10846958 CCAATCAATACATTATTGGTTAAAGACATTAAAGGTATTTTTACTTCTTGTACCCAAAAAAATGA
1 CCAATCAATACATTATTGGTTAAAGAAAATAAAGGTATTTTTACTTCTTGTACCCAAAAAAATGA
* * * *
10847023 CCTTTTGTAGGCTATTAAAATGAAAAGTTTACTAGTTTTTAAAGTTTTCAATAGTTTCATGATAA
66 CCTTTTGCAGGCTATTAAAATGAAAAGTTAACAAGTTTTTAAAGTTTTCAATAGTTTCATGACAA
* *
10847088 TGGTAAGGATGTGGCTGGTTATTGATCATATTAACATATGGGCTTAGATAATAATATAGGTTTGT
131 TGGTAAGGATATGGCTGGTTATTGACCATATTAACATATGGGCTTAGATAATAATATAGGTTTGT
10847153 GAAAGTCATAAGCCTTAGAGTTAG
196 GAAAGTCATAAGCCTTAGAGTTAG
10847177 CCAATCAAT
1 CCAATCAAT
10847186 GATTTAACCA
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
219 215 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (219 bp):
CCAATCAATACATTATTGGTTAAAGAAAATAAAGGTATTTTTACTTCTTGTACCCAAAAAAATGA
CCTTTTGCAGGCTATTAAAATGAAAAGTTAACAAGTTTTTAAAGTTTTCAATAGTTTCATGACAA
TGGTAAGGATATGGCTGGTTATTGACCATATTAACATATGGGCTTAGATAATAATATAGGTTTGT
GAAAGTCATAAGCCTTAGAGTTAG
Found at i:10852597 original size:14 final size:14
Alignment explanation
Indices: 10852570--10852604 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10852560 AACTCAATCG
* *
10852570 AATTTTAATTTTTA
1 AATTTAAATATTTA
10852584 AATTTAAATATTTA
1 AATTTAAATATTTA
10852598 AATTTAA
1 AATTTAA
10852605 TTTAAAATAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTTAAATATTTA
Found at i:10861614 original size:4 final size:4
Alignment explanation
Indices: 10861605--10861631 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10861595 ATTTGAAAGG
10861605 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
10861632 ATTCTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:10861752 original size:13 final size:13
Alignment explanation
Indices: 10861706--10861772 Score: 57
Period size: 13 Copynumber: 5.1 Consensus size: 13
10861696 AATAAAAATC
10861706 AATAAAA-TAAAA
1 AATAAAATTAAAA
*
10861718 TAA-AAACTTAAAA
1 -AATAAAATTAAAA
* *
10861731 TAATGAAATCAAAA
1 -AATAAAATTAAAA
10861745 AATAAAATTAAAA
1 AATAAAATTAAAA
*
10861758 AATTAAAATGAAAA
1 AA-TAAAATTAAAA
10861772 A
1 A
10861773 GAAAAACTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
12 3 0.07
13 23 0.52
14 18 0.41
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (13 bp):
AATAAAATTAAAA
Found at i:10861959 original size:27 final size:27
Alignment explanation
Indices: 10861925--10861991 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
10861915 CTGCTTCCTC
10861925 TCTCTCTAAAACCAATTCTCTCTCATT
1 TCTCTCTAAAACCAATTCTCTCTCATT
*
10861952 TCTTTCTAAAACCAATTCTCTCTCATT
1 TCTCTCTAAAACCAATTCTCTCTCATT
10861979 TCTCTCTAAAACC
1 TCTCTCTAAAACC
10861992 CAGCCAAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (27 bp):
TCTCTCTAAAACCAATTCTCTCTCATT
Found at i:10862803 original size:22 final size:23
Alignment explanation
Indices: 10862756--10862803 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
10862746 ATAGCATATT
*
10862756 ATACCATATAATAACAAATAAAA
1 ATACCATATAATAACAAAGAAAA
* *
10862779 ATACCA-ATAATAATAAAGAATA
1 ATACCATATAATAACAAAGAAAA
10862801 ATA
1 ATA
10862804 ACAAAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.23
Consensus pattern (23 bp):
ATACCATATAATAACAAAGAAAA
Found at i:10866900 original size:16 final size:15
Alignment explanation
Indices: 10866875--10866904 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10866865 TACTAAATGC
10866875 AAATAAATAAAAACA
1 AAATAAATAAAAACA
10866890 AAATAAAATAAAAAC
1 AAAT-AAATAAAAAC
10866905 TTTAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATAAATAAAAACA
Found at i:10867772 original size:19 final size:19
Alignment explanation
Indices: 10867748--10867786 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10867738 CCTTTGACCG
*
10867748 AATTCAATTCCCAATTCCC
1 AATTCAATTCCCAACTCCC
10867767 AATTCAATTCCCAACTCCC
1 AATTCAATTCCCAACTCCC
10867786 A
1 A
10867787 GTTTCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTCAATTCCCAACTCCC
Found at i:10867845 original size:3 final size:3
Alignment explanation
Indices: 10867832--10868010 Score: 104
Period size: 3 Copynumber: 59.7 Consensus size: 3
10867822 ATCGAAAAGC
* * * *
10867832 AAT AA- AAT AAT AAT AAT AAT AAT AAC AAC AAC ATAC AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * *
10867876 -AT TAT ACCAT AAT AAT ACAC CAT ACT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT A--AT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
10867922 AAT AAT AAT AAT AAT AAT AAT AAT -AT AA- AAT AGCAT -AT TAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT
* * * *
10867966 -AT AGT AAT AACA AAT AAT AAT ACT AAT AAT AAT AAAG AAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
10868011 CAAAAACTGA
Statistics
Matches: 140, Mismatches: 20, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
2 14 0.10
3 113 0.81
4 8 0.06
5 5 0.04
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10868727 original size:7 final size:7
Alignment explanation
Indices: 10868715--10868753 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
10868705 GTAATGTATT
10868715 TTATTTA
1 TTATTTA
10868722 TTATTTA
1 TTATTTA
10868729 TTATTTA
1 TTATTTA
10868736 TTA-TTA
1 TTATTTA
*
10868742 TAAATTTA
1 T-TATTTA
10868750 TTAT
1 TTAT
10868754 AAATTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.14
7 20 0.71
8 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTATTTA
Found at i:10868730 original size:11 final size:11
Alignment explanation
Indices: 10868724--10868766 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
10868714 TTTATTTATT
**
10868724 ATTTATTATTT
1 ATTTATTATAA
10868735 AT-TATTATAA
1 ATTTATTATAA
10868745 ATTTATTATAA
1 ATTTATTATAA
10868756 ATTTATTATAA
1 ATTTATTATAA
10868767 TATATTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTATTATAA
Found at i:10868748 original size:21 final size:21
Alignment explanation
Indices: 10868714--10868776 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
10868704 CGTAATGTAT
*
10868714 TTTATTTATTATTTATTATTTA
1 TTTA-TTATAATTTATTATTTA
**
10868736 -TTATTATAAATTTATTATAAA
1 TTTATTAT-AATTTATTATTTA
*
10868757 TTTATTATAATATATTATTT
1 TTTATTATAATTTATTATTT
10868777 CTACGTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
20 4 0.12
21 22 0.67
22 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTATTATAATTTATTATTTA
Found at i:10868764 original size:14 final size:14
Alignment explanation
Indices: 10868717--10868764 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
10868707 AATGTATTTT
*
10868717 ATTTATTATT-TATT
1 ATTTATTATTATA-A
10868731 ATTTATTATTATAA
1 ATTTATTATTATAA
10868745 A--T-TTATTATAA
1 ATTTATTATTATAA
10868756 ATTTATTAT
1 ATTTATTAT
10868765 AATATATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
11 10 0.34
12 1 0.03
13 1 0.03
14 15 0.52
15 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTATTATTATAA
Found at i:10869313 original size:22 final size:22
Alignment explanation
Indices: 10869288--10869329 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10869278 CGATTTTAAA
*
10869288 AAAACTCGAATTCGGTTCGAAG
1 AAAACTCAAATTCGGTTCGAAG
10869310 AAAACTCAAATTCGGTTCGA
1 AAAACTCAAATTCGGTTCGA
10869330 TTATTATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (22 bp):
AAAACTCAAATTCGGTTCGAAG
Found at i:10870518 original size:15 final size:16
Alignment explanation
Indices: 10870503--10870540 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10870493 GATTGATTTG
10870503 ATTAATTTTGAATTGA
1 ATTAATTTTGAATTGA
**
10870519 ATT-ATTTAAAATTGA
1 ATTAATTTTGAATTGA
10870534 ATTAATT
1 ATTAATT
10870541 AAATTATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (16 bp):
ATTAATTTTGAATTGA
Found at i:10870542 original size:15 final size:15
Alignment explanation
Indices: 10870513--10870543 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10870503 ATTAATTTTG
*
10870513 AATTGAATTATTTAA
1 AATTGAATTAATTAA
10870528 AATTGAATTAATTAA
1 AATTGAATTAATTAA
10870543 A
1 A
10870544 TTATGTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
AATTGAATTAATTAA
Found at i:10871423 original size:16 final size:16
Alignment explanation
Indices: 10871386--10871424 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
10871376 ATTTGACCCA
10871386 ATTTAA-AATATTTTT
1 ATTTAATAATATTTTT
10871401 ATATTAATAATATTTTT
1 AT-TTAATAATATTTTT
10871418 ATTTAAT
1 ATTTAAT
10871425 TTTACTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 9 0.41
17 11 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTAATAATATTTTT
Found at i:10871465 original size:25 final size:25
Alignment explanation
Indices: 10871437--10871489 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
10871427 TACTTAAAAA
10871437 TTAAAATATTAATATTAAAAATCTT
1 TTAAAATATTAATATTAAAAATCTT
* * * * *
10871462 TTAATATTTTAATTTTAAATATTTT
1 TTAAAATATTAATATTAAAAATCTT
10871487 TTA
1 TTA
10871490 TATTTTTACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAAAATATTAATATTAAAAATCTT
Found at i:10871497 original size:25 final size:25
Alignment explanation
Indices: 10871445--10871495 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
10871435 AATTAAAATA
10871445 TTAATATTAAAAATCTTTTAATATT
1 TTAATATTAAAAATCTTTTAATATT
* * *
10871470 TTAATTTTAAATAT-TTTTTATATT
1 TTAATATTAAAAATCTTTTAATATT
10871494 TT
1 TT
10871496 TACTTAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TTAATATTAAAAATCTTTTAATATT
Found at i:10871619 original size:14 final size:15
Alignment explanation
Indices: 10871600--10871628 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10871590 TTTTAATTAA
10871600 AATATT-AAAATATT
1 AATATTAAAAATATT
10871614 AATATTAAAAATATT
1 AATATTAAAAATATT
10871629 TTGATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATTAAAAATATT
Found at i:10871665 original size:15 final size:14
Alignment explanation
Indices: 10871626--10871671 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
10871616 TATTAAAAAT
10871626 ATTTTGATATTTTA
1 ATTTTGATATTTTA
*
10871640 ATTTTAAATATTTTA
1 ATTTT-GATATTTTA
10871655 ATTTTGTATATTATTA
1 ATTTTG-ATATT-TTA
10871671 A
1 A
10871672 ACATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 5 0.19
15 18 0.67
16 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (14 bp):
ATTTTGATATTTTA
Found at i:10871757 original size:3 final size:3
Alignment explanation
Indices: 10871718--10871744 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10871708 TTATTTTAAG
10871718 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
10871745 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10872127 original size:19 final size:19
Alignment explanation
Indices: 10872054--10872127 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 19
10872044 TTATTTTGAG
10872054 TATTTTT-ATATTAAT-AT
1 TATTTTTAATATTAATAAT
*
10872071 AATATTTTAATATTAA-ATAT
1 TAT-TTTTAATATTAATA-AT
*
10872091 TATTATTAA-A--AGATAAT
1 TATTTTTAATATTA-ATAAT
10872108 TATTTTTAATATTAATAAT
1 TATTTTTAATATTAATAAT
10872127 T
1 T
10872128 GTACTAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
16 1 0.02
17 13 0.30
18 7 0.16
19 18 0.41
20 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (19 bp):
TATTTTTAATATTAATAAT
Found at i:10872170 original size:34 final size:33
Alignment explanation
Indices: 10872059--10872170 Score: 99
Period size: 34 Copynumber: 3.3 Consensus size: 33
10872049 TTGAGTATTT
*
10872059 TTATATTAAT--ATAATATTTTAATATTAAAT-A
1 TTATATTAATAAATAAT-TTTTAATATTTAATAA
10872090 TTATTATTAA-AAGATAATTATTTTTAATA-TTAATAA
1 TTA-TATTAATAA-AT-A--ATTTTTAATATTTAATAA
* *
10872126 TTGTACTAATAAATAATTTTTAATATTTTAATAA
1 TTATATTAATAAATAATTTTTAATA-TTTAATAA
10872160 TTATATTAATA
1 TTATATTAATA
10872171 TTATTTTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
31 3 0.05
32 16 0.25
34 19 0.29
35 12 0.18
36 13 0.20
37 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (33 bp):
TTATATTAATAAATAATTTTTAATATTTAATAA
Found at i:10872177 original size:32 final size:31
Alignment explanation
Indices: 10872103--10872177 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
10872093 TTATTAAAAG
*
10872103 ATAATTATTTTTAATATTAATAATTGTACTA
1 ATAATTATTTTTAATATTAATAATTATACTA
* *
10872134 ATAAATAATTTTTAATATTTTAATAATTATATTA
1 AT-AATTATTTTTAATA--TTAATAATTATACTA
10872168 AT-ATTATTTT
1 ATAATTATTTT
10872178 AAAAAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 2 0.05
32 20 0.54
34 15 0.41
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (31 bp):
ATAATTATTTTTAATATTAATAATTATACTA
Found at i:10872279 original size:20 final size:20
Alignment explanation
Indices: 10872242--10872280 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10872232 TCTACACAGT
** *
10872242 AAAAAAATCTATACTTTTTA
1 AAAAAAATAAATAATTTTTA
10872262 AAAAAAATAAATAATTTTT
1 AAAAAAATAAATAATTTTT
10872281 TGAAAATAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAAATAAATAATTTTTA
Found at i:10872490 original size:16 final size:17
Alignment explanation
Indices: 10872463--10872507 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
10872453 TGTCCTAAAA
*
10872463 TTATATTTTTTTAATAT
1 TTATAATTTTTTAATAT
*
10872480 TTA-AATTTTTTAATTT
1 TTATAATTTTTTAATAT
10872496 TTATAATTTTTT
1 TTATAATTTTTT
10872508 TCACTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATAATTTTTTAATAT
Found at i:10872519 original size:17 final size:17
Alignment explanation
Indices: 10872467--10872519 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
10872457 CTAAAATTAT
*
10872467 ATTTTTTTAA-TATTTA
1 ATTTTTTTAACTTTTTA
* *
10872483 AATTTTTTAATTTTTATA
1 ATTTTTTTAACTTTT-TA
*
10872501 ATTTTTTTCACTTTTTA
1 ATTTTTTTAACTTTTTA
10872518 AT
1 AT
10872520 ATTAAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 9 0.30
17 7 0.23
18 14 0.47
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTTAACTTTTTA
Found at i:10874241 original size:53 final size:53
Alignment explanation
Indices: 10874161--10874263 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
10874151 AGATAATCAT
*
10874161 GCAGAAATAGAGCAGTAGGTATTAGGTGTAACATATGAGCAACATGTCAAGAG
1 GCAGAAATAGAGCAGTAGGTATTAGGTGTAACATATGACCAACATGTCAAGAG
* *
10874214 GCAGAAATAGAGCAGTAGGTGTTAGGTGTGACATATGACCAACATGTCAA
1 GCAGAAATAGAGCAGTAGGTATTAGGTGTAACATATGACCAACATGTCAA
10874264 AAGAAATTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (53 bp):
GCAGAAATAGAGCAGTAGGTATTAGGTGTAACATATGACCAACATGTCAAGAG
Found at i:10879907 original size:49 final size:49
Alignment explanation
Indices: 10879852--10879947 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
10879842 ATGCATTTTT
* * ** *
10879852 CATGCATCAATATTTATATTTTAACCAATGGTTTTTTTGTTATTTGTCA
1 CATGCATCAATAGTTACATTTTAACCAATGGCATTTTTATTATTTGTCA
**
10879901 CATGCATCAATAGTTACATTTTTTCCAATGGCATTTTTATTATTTGT
1 CATGCATCAATAGTTACATTTTAACCAATGGCATTTTTATTATTTGT
10879948 TTTCATCACA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (49 bp):
CATGCATCAATAGTTACATTTTAACCAATGGCATTTTTATTATTTGTCA
Found at i:10880028 original size:37 final size:37
Alignment explanation
Indices: 10879987--10880057 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
10879977 TAAATCTCCA
* * * *
10879987 TAAAACCTTAGACTACCCTCTAAACCCTAAACCATTT
1 TAAAACCCTAAACCACCCTCCAAACCCTAAACCATTT
* *
10880024 TAAAACCCTAAACCATCCTCCAAAGCCTAAACCA
1 TAAAACCCTAAACCACCCTCCAAACCCTAAACCA
10880058 AATCCTAAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.41, C:0.35, G:0.03, T:0.21
Consensus pattern (37 bp):
TAAAACCCTAAACCACCCTCCAAACCCTAAACCATTT
Found at i:10880071 original size:19 final size:20
Alignment explanation
Indices: 10880026--10880079 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
10880016 AACCATTTTA
10880026 AAACCCTAAACC--ATCCTCC
1 AAACCCTAAACCAAATCCT-C
*
10880045 AAAGCCTAAACCAAATCCT-
1 AAACCCTAAACCAAATCCTC
*
10880064 AAACCCTAAATCAAAT
1 AAACCCTAAACCAAAT
10880080 TTTAAACCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 25 0.83
21 5 0.17
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (20 bp):
AAACCCTAAACCAAATCCTC
Found at i:10882902 original size:22 final size:23
Alignment explanation
Indices: 10882862--10882904 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10882852 TTATTATTAT
*
10882862 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAACATTTATCC
*
10882885 TAATAA-ATTTAAACATTTAT
1 TAATAACAATTAAACATTTAT
10882905 GCATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATAACAATTAAACATTTATCC
Found at i:10883951 original size:11 final size:11
Alignment explanation
Indices: 10883946--10884003 Score: 64
Period size: 11 Copynumber: 5.1 Consensus size: 11
10883936 TTTTTTGGTA
*
10883946 TTTTTTGTTTT
1 TTTTTTGTATT
10883957 TTTTTTGT-TT
1 TTTTTTGTATT
10883967 TGTATTTTGTATT
1 T-T-TTTTGTATT
*
10883980 ATTTTTAGTATT
1 -TTTTTTGTATT
10883992 TTTTTTGTATT
1 TTTTTTGTATT
10884003 T
1 T
10884004 CGTATTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 3 0.07
11 20 0.49
12 14 0.34
13 3 0.07
14 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (11 bp):
TTTTTTGTATT
Found at i:10883994 original size:35 final size:37
Alignment explanation
Indices: 10883944--10884019 Score: 111
Period size: 35 Copynumber: 2.1 Consensus size: 37
10883934 CTTTTTTTGG
* * *
10883944 TATTTTTTGTTTTTTTTTTGT-TTT-GTATTTTGTAT
1 TATTTTTAGTATTTTTTTTGTATTTCGTATTTTGTAA
10883979 TATTTTTAGTATTTTTTTTGTATTTCGTATTTTGTAA
1 TATTTTTAGTATTTTTTTTGTATTTCGTATTTTGTAA
10884016 TATT
1 TATT
10884020 ATTGTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 19 0.53
36 3 0.08
37 14 0.39
ACGTcount: A:0.14, C:0.01, G:0.11, T:0.74
Consensus pattern (37 bp):
TATTTTTAGTATTTTTTTTGTATTTCGTATTTTGTAA
Found at i:10883994 original size:37 final size:34
Alignment explanation
Indices: 10883950--10884039 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 34
10883940 TTGGTATTTT
* * *
10883950 TTGTTTTTTTTTTGTTTTGTATTTTGTATTATTT
1 TTGTTTTTTTTTTTTTTTGTATTTTGTAATATTA
* *
10883984 TTAGTATTTTTTTTGTATTTCGTATTTTGTAATATTA
1 TT-GT-TTTTTTTT-TTTTTTGTATTTTGTAATATTA
10884021 TTGTTTTTATTTTTTTTTT
1 TTGTTTTT-TTTTTTTTTT
10884040 AGACAAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
34 2 0.04
35 10 0.22
36 14 0.30
37 20 0.43
ACGTcount: A:0.13, C:0.01, G:0.10, T:0.76
Consensus pattern (34 bp):
TTGTTTTTTTTTTTTTTTGTATTTTGTAATATTA
Found at i:10884593 original size:73 final size:73
Alignment explanation
Indices: 10884361--10885051 Score: 588
Period size: 73 Copynumber: 9.8 Consensus size: 73
10884351 AACAACAACA
* * **
10884361 ATCGAGATTAAACTACGATTTTAA-ATTAAAGA-GA-TAGGGATTGAACCGCGAA-TCGAAG-AA
1 ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACT-GGGATTGAACCGC-AAGTC-AAGAAA
10884421 -TAA-G-AA-G
63 TTAATGAAATG
* * * * * ** *
10884428 ATCGGGATTAAACCACGAATCAAATATTAACGATGACTGGGACTGAACCATAAGT-AGAGGGAAT
1 ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA-A-GAAAT
10884492 TAATGAAATG
64 TAATGAAATG
* * * *
10884502 ATCGGGATTAAACCACGAGCCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTA
1 ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAATTA
*
10884567 ATGGAATG
66 ATGAAATG
* ** **
10884575 ATCGAGATTAAACCACGAGTCAACGATTAAA-AT--C-GCAAGTT-AA----AA---AATTAATG
1 ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGA-TTGAACCGCAAGTCAAGAAAT-
*
10884628 AAATG-----
64 TAATGAAATG
* * * * * *
10884633 ATCGGGATTAGACCACGAGTTAAAAATTAAAGATGACTGAGATTGAACCGTAAGTCAAGAAATTA
1 ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAATTA
10884698 ATGAAATG
66 ATGAAATG
** *
10884706 ATCGAGATTAAACCGTGAGTTAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC-AGAGAATT
1 ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGA-AATT
10884770 AATGAAATG
65 AATGAAATG
* * * * * *
10884779 ATCGGGATTAAACCATGAGTCAAAGATTAAAGATGATTGGGATTGAATCGCAAGT-TAG--A-GA
1 ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAATTA
10884840 ATGAAATG
66 ATGAAATG
* * *
10884848 A-CCAGGATTAAACCACGAGTCAAAGATTAAAGATGATTGGGATTGAACCGTAAGTC-AGAGAAT
1 ATCGA-GATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGA-AAT
10884911 TAATGAAATG
64 TAATGAAATG
* * ** *
10884921 ATCGAGATTAAATCAAGAGTCAAAGATTAAAGATGACTGAAATTGAACCGTAAGTCAGAGAAA-T
1 ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA-AGAAATT
10884985 AATGAAATG
65 AATGAAATG
* * * *
10884994 ACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAATCGCAAGTCAA
1 ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAA
10885052 AAAACTATAT
Statistics
Matches: 511, Mismatches: 71, Indels: 79
0.77 0.11 0.12
Matches are distributed among these distances:
58 26 0.05
59 2 0.00
61 3 0.01
62 9 0.02
63 4 0.01
65 2 0.00
66 2 0.00
67 20 0.04
68 15 0.03
69 82 0.16
70 6 0.01
71 3 0.01
72 8 0.02
73 271 0.53
74 54 0.11
75 4 0.01
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (73 bp):
ATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAATTA
ATGAAATG
Found at i:10884662 original size:58 final size:58
Alignment explanation
Indices: 10884550--10884663 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 58
10884540 GGGACTAAAC
* * **
10884550 CGCAAGTCAAGAAATTAATGGAATGATCGAGATTAAACCACGAGTCAACGATTAAAAT
1 CGCAAGTCAAAAAATTAATGAAATGATCGAGATTAAACCACGAGTCAAAAATTAAAAT
* * * *
10884608 CGCAAGTTAAAAAATTAATGAAATGATCGGGATTAGACCACGAGTTAAAAATTAAA
1 CGCAAGTCAAAAAATTAATGAAATGATCGAGATTAAACCACGAGTCAAAAATTAAA
10884664 GATGACTGAG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.22
Consensus pattern (58 bp):
CGCAAGTCAAAAAATTAATGAAATGATCGAGATTAAACCACGAGTCAAAAATTAAAAT
Found at i:10884734 original size:131 final size:131
Alignment explanation
Indices: 10884489--10884736 Score: 379
Period size: 131 Copynumber: 1.9 Consensus size: 131
10884479 AAGTAGAGGG
* *
10884489 AATTAATGAAATGATCGGGATTAAACCACGAGCCAAAGATTAAAGATGACTGGGACTAAACCGCA
1 AATTAATGAAATGATCGGGATTAAACCACGAGCCAAAAATTAAAGATGACTGAGACTAAACCGCA
* *
10884554 AGTCAAGAAATTAATGGAATGATCGAGATTAAACCACGAGTCAACGATTAAAATCGCAAGTTAAA
66 AGTCAAGAAATTAATGAAATGATCGAGATTAAACCACGAGTCAAAGATTAAAATCGCAAGTTAAA
10884619 A
131 A
* ** * * *
10884620 AATTAATGAAATGATCGGGATTAGACCACGAGTTAAAAATTAAAGATGACTGAGATTGAACCGTA
1 AATTAATGAAATGATCGGGATTAAACCACGAGCCAAAAATTAAAGATGACTGAGACTAAACCGCA
** *
10884685 AGTCAAGAAATTAATGAAATGATCGAGATTAAACCGTGAGTTAAAGATTAAA
66 AGTCAAGAAATTAATGAAATGATCGAGATTAAACCACGAGTCAAAGATTAAA
10884737 GATGACTGGG
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 104 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.22
Consensus pattern (131 bp):
AATTAATGAAATGATCGGGATTAAACCACGAGCCAAAAATTAAAGATGACTGAGACTAAACCGCA
AGTCAAGAAATTAATGAAATGATCGAGATTAAACCACGAGTCAAAGATTAAAATCGCAAGTTAAA
A
Found at i:10884894 original size:215 final size:215
Alignment explanation
Indices: 10884624--10885048 Score: 645
Period size: 215 Copynumber: 2.0 Consensus size: 215
10884614 TTAAAAAATT
* * * *
10884624 AATGAAATGATCGGGATTAGACCACGAGTTAAAAATTAAAGATGACTGAGATTGAACCGTAAGTC
1 AATGAAATGACCAGGATTAAACCACGAGTCAAAAATTAAAGATGACTGAGATTGAACCGTAAGTC
** * **
10884689 A-AGAAATTAATGAAATGATCGAGATTAAACCGTGAGTTAAAGATTAAAGATGACTGGGATTGAA
66 AGAG-AATTAATGAAATGATCGAGATTAAACCAAGAGTCAAAGATTAAAGATGACTGAAATTGAA
* * * * *
10884753 CCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAACCATGAGTCAAAGATTAAAGATGATTG
130 CCGCAAGTCAGAGAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTG
* *
10884818 GGATTGAATCGCAAGTTAGAG
195 GGACTAAATCGCAAGTTAGAG
* * *
10884839 AATGAAATGACCAGGATTAAACCACGAGTCAAAGATTAAAGATGATTGGGATTGAACCGTAAGTC
1 AATGAAATGACCAGGATTAAACCACGAGTCAAAAATTAAAGATGACTGAGATTGAACCGTAAGTC
*
10884904 AGAGAATTAATGAAATGATCGAGATTAAATCAAGAGTCAAAGATTAAAGATGACTGAAATTGAAC
66 AGAGAATTAATGAAATGATCGAGATTAAACCAAGAGTCAAAGATTAAAGATGACTGAAATTGAAC
*
10884969 CGTAAGTCAGAGAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGG
131 CGCAAGTCAGAGAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGG
10885034 GACTAAATCGCAAGT
196 GACTAAATCGCAAGT
10885049 CAAAAAACTA
Statistics
Matches: 188, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
215 186 0.99
216 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.22
Consensus pattern (215 bp):
AATGAAATGACCAGGATTAAACCACGAGTCAAAAATTAAAGATGACTGAGATTGAACCGTAAGTC
AGAGAATTAATGAAATGATCGAGATTAAACCAAGAGTCAAAGATTAAAGATGACTGAAATTGAAC
CGCAAGTCAGAGAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGG
GACTAAATCGCAAGTTAGAG
Found at i:10884903 original size:142 final size:142
Alignment explanation
Indices: 10884620--10885050 Score: 558
Period size: 142 Copynumber: 3.0 Consensus size: 142
10884610 CAAGTTAAAA
* * * *
10884620 AATTAATGAAATGATCGGGATTAGACCACGAGTTAAAAATTAAAGATGACTGAGATTGAACCGTA
1 AATTAATGAAATGATCGGGATTAAACCAAGAGTCAAAGATTAAAGATGACTGAGATTGAACCGTA
* * ** *
10884685 AGTCAAGAAATTAATGAAATGATCGAGATTAAACCGTGAGTTAAAGATTAAAGATGACTGGGATT
66 AGT-AAG--A-GAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATT
10884750 GAACCGCAAGTCAGAG
127 GAACCGCAAGTCAGAG
* * * * *
10884766 AATTAATGAAATGATCGGGATTAAACCATGAGTCAAAGATTAAAGATGATTGGGATTGAATCGCA
1 AATTAATGAAATGATCGGGATTAAACCAAGAGTCAAAGATTAAAGATGACTGAGATTGAACCGTA
* *
10884831 AGTTAGAGAATGAAATGACC-AGGATTAAACCACGAGTCAAAGATTAAAGATGATTGGGATTGAA
66 AGTAAGAGAATGAAATGACCGA-GATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAA
*
10884895 CCGTAAGTCAGAG
130 CCGCAAGTCAGAG
* * *
10884908 AATTAATGAAATGATCGAGATTAAATCAAGAGTCAAAGATTAAAGATGACTGAAATTGAACCGTA
1 AATTAATGAAATGATCGGGATTAAACCAAGAGTCAAAGATTAAAGATGACTGAGATTGAACCGTA
* *
10884973 AGTCAGAGAAATAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACT
66 AGT-A-AG--AGAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATT
* *
10885038 AAATCGCAAGTCA
127 GAACCGCAAGTCA
10885051 AAAAACTATA
Statistics
Matches: 248, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
141 1 0.00
142 121 0.49
143 1 0.00
144 2 0.01
145 2 0.01
146 120 0.48
147 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (142 bp):
AATTAATGAAATGATCGGGATTAAACCAAGAGTCAAAGATTAAAGATGACTGAGATTGAACCGTA
AGTAAGAGAATGAAATGACCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAAC
CGCAAGTCAGAG
Found at i:10885015 original size:38 final size:38
Alignment explanation
Indices: 10884900--10885023 Score: 105
Period size: 38 Copynumber: 3.4 Consensus size: 38
10884890 TTGAACCGTA
* *
10884900 AGTCAGAGAATTAATGAAATGATCGAGATTAAATCAAG
1 AGTCAGAGAATTAATGAAATGACCGAGATTAAACCAAG
* * * * * *
10884938 AGTCAAAG-ATTAA--AGATGACTGAAATTGAACCGTA-
1 AGTCAGAGAATTAATGAAATGACCGAGATTAAACC-AAG
* *
10884973 AGTCAGAGAAATAATGAAATGACCGAGATTAAACCACG
1 AGTCAGAGAATTAATGAAATGACCGAGATTAAACCAAG
*
10885011 AGTCAAAG-ATTAA
1 AGTCAGAGAATTAA
10885024 AGATGACTGG
Statistics
Matches: 63, Mismatches: 18, Indels: 11
0.68 0.20 0.12
Matches are distributed among these distances:
35 20 0.32
36 5 0.08
37 9 0.14
38 29 0.46
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (38 bp):
AGTCAGAGAATTAATGAAATGACCGAGATTAAACCAAG
Found at i:10886092 original size:1 final size:1
Alignment explanation
Indices: 10886086--10886174 Score: 52
Period size: 1 Copynumber: 89.0 Consensus size: 1
10886076 TCCTTTCTCA
** * * ** * * * *
10886086 TTTTTTTTTTCATTTTTTCTATTTTTTCATTTTTTTTATTTTTTGTTGTTTTTTTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * **
10886151 TTATTTATTTTTTGCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTT
10886175 AAGTAAAATA
Statistics
Matches: 63, Mismatches: 25, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.08, C:0.04, G:0.03, T:0.84
Consensus pattern (1 bp):
T
Found at i:10886127 original size:8 final size:8
Alignment explanation
Indices: 10886089--10886161 Score: 69
Period size: 8 Copynumber: 8.9 Consensus size: 8
10886079 TTTCTCATTT
10886089 TTTTTTTCA
1 TTTTTTT-A
10886098 TTTTTTCTA
1 TTTTTT-TA
*
10886107 TTTTTTCA
1 TTTTTTTA
10886115 TTTTTTT-
1 TTTTTTTA
*
10886122 TATTTTTTG
1 T-TTTTTTA
*
10886131 TTGTTTT-
1 TTTTTTTA
10886138 TTTTTTTA
1 TTTTTTTA
10886146 TTTTTTTA
1 TTTTTTTA
10886154 TTTATTTT
1 TTT-TTTT
10886162 TTGCTTTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
7 7 0.13
8 29 0.53
9 18 0.33
10 1 0.02
ACGTcount: A:0.10, C:0.04, G:0.03, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:10886142 original size:31 final size:31
Alignment explanation
Indices: 10886083--10886174 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
10886073 ACTTCCTTTC
* *
10886083 TCATTTTTTT-TTTCATTT-TTTC-TATTTTT
1 TCATTTTTTTATTT-ATTTGTTGCTTTTTTTT
*
10886112 TCATTTTTTTTATTT-TTTGTTGTTTTTTTTT
1 TCA-TTTTTTTATTTATTTGTTGCTTTTTTTT
* *
10886143 TTATTTTTTTATTTATTTTTTGCTTTTTTTT
1 TCATTTTTTTATTTATTTGTTGCTTTTTTTT
10886174 T
1 T
10886175 AAGTAAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
29 6 0.12
30 20 0.38
31 26 0.50
ACGTcount: A:0.09, C:0.05, G:0.03, T:0.83
Consensus pattern (31 bp):
TCATTTTTTTATTTATTTGTTGCTTTTTTTT
Found at i:10886149 original size:9 final size:9
Alignment explanation
Indices: 10886088--10886162 Score: 62
Period size: 10 Copynumber: 7.9 Consensus size: 9
10886078 CTTTCTCATT
10886088 TTTTTTTTCA
1 TTTTTTTT-A
*
10886098 TTTTTTCTA
1 TTTTTTTTA
*
10886107 -TTTTTTCA
1 TTTTTTTTA
10886115 TTTTTTTTA
1 TTTTTTTTA
*
10886124 TTTTTTGTTGT
1 TTTTTT-TT-A
*
10886135 TTTTTTTTT
1 TTTTTTTTA
10886144 TATTTTTTTA
1 T-TTTTTTTA
10886154 TTTATTTTT
1 TTT-TTTTT
10886163 TGCTTTTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.11
9 18 0.33
10 24 0.44
11 6 0.11
ACGTcount: A:0.09, C:0.04, G:0.03, T:0.84
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:10886161 original size:17 final size:15
Alignment explanation
Indices: 10886086--10886175 Score: 74
Period size: 15 Copynumber: 5.8 Consensus size: 15
10886076 TCCTTTCTCA
*
10886086 TTTTTTTTTTCATTT
1 TTTTTTTTTTTATTT
*
10886101 TTTCTATTTTTTCATTT
1 TTT-T-TTTTTTTATTT
* *
10886118 TTTTTATTTTTTGTTG
1 TTTTT-TTTTTTATTT
10886134 TTTTTTTTTTTATTT
1 TTTTTTTTTTTATTT
*
10886149 TTTTATTTATTT-TTT
1 TTTT-TTTTTTTATTT
**
10886164 GCTTTTTTTTTA
1 TTTTTTTTTTTA
10886176 AGTAAAATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
14 6 0.10
15 21 0.34
16 20 0.33
17 14 0.23
ACGTcount: A:0.09, C:0.04, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTTATTT
Found at i:10886174 original size:30 final size:30
Alignment explanation
Indices: 10886085--10886175 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 30
10886075 TTCCTTTCTC
* *
10886085 ATTTTTTT-TTTCATTTTTT-CTATTTTTTC
1 ATTTTTTTATTT-ATTTTTTGCTTTTTTTTT
* *
10886114 ATTTTTTTTATTT-TTTGTTGTTTTTTTTTTT
1 A-TTTTTTTATTTATTTTTTG-CTTTTTTTTT
10886145 ATTTTTTTATTTATTTTTTGCTTTTTTTTT
1 ATTTTTTTATTTATTTTTTGCTTTTTTTTT
10886175 A
1 A
10886176 AGTAAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
29 6 0.12
30 28 0.55
31 17 0.33
ACGTcount: A:0.10, C:0.04, G:0.03, T:0.82
Consensus pattern (30 bp):
ATTTTTTTATTTATTTTTTGCTTTTTTTTT
Found at i:10897904 original size:22 final size:23
Alignment explanation
Indices: 10897867--10897909 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
10897857 TTATTATTAT
10897867 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAATATTTATCC
*
10897890 TAATAA-ATTTAAATATTTAT
1 TAATAACAATTAAATATTTAT
10897910 GCATAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATAACAATTAAATATTTATCC
Found at i:10898934 original size:20 final size:19
Alignment explanation
Indices: 10898875--10898951 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 19
10898865 ACATCCTTAA
* * *
10898875 TTTTTTTTGTCTTCTGTTCT
1 TTTTTTTTGT-TTTTATTTT
*
10898895 TTTTTTTTGTATTTTTTTTT
1 TTTTTTTTGT-TTTTATTTT
10898915 TTTTTTTTGTTTTGTATTTT
1 TTTTTTTTGTTTT-TATTTT
10898935 GTATTTTTTTGGTTTTT
1 -T-TTTTTTT-GTTTTT
10898952 TTGTATTTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
19 3 0.06
20 31 0.65
21 1 0.02
22 8 0.17
23 5 0.10
ACGTcount: A:0.04, C:0.04, G:0.10, T:0.82
Consensus pattern (19 bp):
TTTTTTTTGTTTTTATTTT
Found at i:10898941 original size:26 final size:25
Alignment explanation
Indices: 10898894--10898967 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 25
10898884 TCTTCTGTTC
*
10898894 TTTTTTTTTGTATTTT-TTTTTTTT
1 TTTTTTTTTGTATTTTGTATTTTTT
10898918 TTTTTGTTTTGTATTTTGTATTTTTT
1 TTTTT-TTTTGTATTTTGTATTTTTT
* *
10898944 TGGTTTTTTTGTATTTCGTATTTT
1 T-TTTTTTTTGTATTTTGTATTTT
10898968 GTAATATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 5 0.11
25 11 0.25
26 25 0.57
27 3 0.07
ACGTcount: A:0.07, C:0.01, G:0.11, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTGTATTTTGTATTTTTT
Found at i:10898943 original size:33 final size:32
Alignment explanation
Indices: 10898899--10898970 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
10898889 TGTTCTTTTT
** * * *
10898899 TTTTGTATTTTTTTTTTTTTTTTTGTTTTGTA
1 TTTTGTATTTTTTGGTTTTTTTGTATTTCGTA
10898931 TTTTGTATTTTTTTGGTTTTTTTGTATTTCGTA
1 TTTTGTA-TTTTTTGGTTTTTTTGTATTTCGTA
10898964 TTTTGTA
1 TTTTGTA
10898971 ATATTATTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.08, C:0.01, G:0.12, T:0.78
Consensus pattern (32 bp):
TTTTGTATTTTTTGGTTTTTTTGTATTTCGTA
Found at i:10898983 original size:33 final size:32
Alignment explanation
Indices: 10898916--10899000 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
10898906 TTTTTTTTTT
* *
10898916 TTTTTTTGT-TTTGTATTTTGTATTTTTTTGG
1 TTTTTTTGTATTTGTATTTTGTATATTATTGG
10898947 TTTTTTTGTATTTCGTATTTTGTAATATTATT-G
1 TTTTTTTGTATTT-GTATTTTGT-ATATTATTGG
*
10898980 TTTTTATTTTATTT-TATTTTG
1 TTTTT-TTGTATTTGTATTTTG
10899001 GGACAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
31 9 0.19
32 10 0.21
33 15 0.32
34 13 0.28
ACGTcount: A:0.13, C:0.01, G:0.12, T:0.74
Consensus pattern (32 bp):
TTTTTTTGTATTTGTATTTTGTATATTATTGG
Found at i:10900163 original size:19 final size:18
Alignment explanation
Indices: 10900135--10900178 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
10900125 TATTAAAAGT
10900135 TTATT-AAAAATTATTAAA
1 TTATTAAAAAATT-TTAAA
10900153 TTATATAAAAAATTTTAAA
1 TTAT-TAAAAAATTTTAAA
10900172 TT-TTAAA
1 TTATTAAA
10900179 TAAAAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
19 8 0.33
20 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATTAAAAAATTTTAAA
Found at i:10900181 original size:21 final size:20
Alignment explanation
Indices: 10900140--10900184 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
10900130 AAAGTTTATT
*
10900140 AAAAATTATTAAATTATATA
1 AAAAATTATTAAATTAAATA
10900160 AAAAATT-TTAAATTTTAAATA
1 AAAAATTATTAAA--TTAAATA
10900181 AAAA
1 AAAA
10900185 TCAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 7 0.32
21 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTATTAAATTAAATA
Found at i:10900183 original size:20 final size:21
Alignment explanation
Indices: 10900139--10900185 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
10900129 AAAAGTTTAT
*
10900139 TAAAAATTATTAAATTATATA
1 TAAAAATTATTAAATTATAAA
*
10900160 -AAAAATT-TTAAATTTTAAA
1 TAAAAATTATTAAATTATAAA
10900179 TAAAAAT
1 TAAAAAT
10900186 CAATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAATTATTAAATTATAAA
Found at i:10903201 original size:20 final size:22
Alignment explanation
Indices: 10903176--10903220 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
10903166 ATTTTTCAGA
10903176 AAAAAAATTT-CAAAAATT-CT
1 AAAAAAATTTCCAAAAATTCCT
*
10903196 AAAAAAATTTCCACAAATTCCT
1 AAAAAAATTTCCAAAAATTCCT
10903218 AAA
1 AAA
10903221 GCTATTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 7 0.32
22 5 0.23
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAAAAATTTCCAAAAATTCCT
Found at i:10909049 original size:3 final size:3
Alignment explanation
Indices: 10909041--10909085 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
10909031 AGACATAAAT
* * *
10909041 GAA GAA GAA GGA GAA GAA GAA TAA GAA GAA GAA GGA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10909086 ACGAACATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:10909058 original size:12 final size:12
Alignment explanation
Indices: 10909041--10909085 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
10909031 AGACATAAAT
10909041 GAAGAAGAAGGA
1 GAAGAAGAAGGA
**
10909053 GAAGAAGAATAA
1 GAAGAAGAAGGA
10909065 GAAGAAGAAGGA
1 GAAGAAGAAGGA
10909077 GAAGAAGAA
1 GAAGAAGAA
10909086 ACGAACATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (12 bp):
GAAGAAGAAGGA
Found at i:10912192 original size:63 final size:63
Alignment explanation
Indices: 10912125--10912244 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 63
10912115 TATTCAATGT
*
10912125 GTTTTTGGCCAAAAATACATTGAATAATGCC-T-A-AAAATTTTTTGTAAGGGGATTATTGAAAA
1 GTTTTTAGCCAAAAATACATTGAATAA--CCTTCATAAAATTTTTTGT-AGGGGATTATTGAAAA
10912187 C
63 C
* * * *
10912188 GTTTTTAGCCAGAAATGCTTTGAATAACCTTCATTAAATTTTTTGTAGGGGATTATT
1 GTTTTTAGCCAAAAATACATTGAATAACCTTCATAAAATTTTTTGTAGGGGATTATT
10912245 TAAGGCATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
61 2 0.04
62 1 0.02
63 35 0.71
64 11 0.22
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (63 bp):
GTTTTTAGCCAAAAATACATTGAATAACCTTCATAAAATTTTTTGTAGGGGATTATTGAAAAC
Found at i:10920557 original size:143 final size:143
Alignment explanation
Indices: 10920299--10920572 Score: 351
Period size: 143 Copynumber: 1.9 Consensus size: 143
10920289 AATAAAAATG
* * *
10920299 GAATATTGAAGGTGTTTTTAGTCCAAAATACATTGAATGATCTCCTCTATAAATTTTTTAAGGAT
1 GAATATTGAAGGTGTTTTTAGGCCAAAATACATTAAATGATCTCCTCTATAAAATTTTTAAGGAT
** * * * *
10920364 TATTCAAGATGATTTTAGCCAAAATTGCCTTGAATAATCCCTTCATAAAAATGGAAGGGGATTAT
66 TATTCAAGACAATTTTAGCCAAAATCGCCTTGAATAATCCATTCATAAAAATGAAAGAGGATTAT
10920429 TCAAGGCGTTAGA
131 TCAAGGCGTTAGA
*
10920442 GAATATTGAAGGTGTTTTT-GGCCAAAA-ACACTTTAAAT-AGTC-CCTTCTATAAAATTTTTGA
1 GAATATTGAAGGTGTTTTTAGGCCAAAATACA--TTAAATGA-TCTCC-TCTATAAAATTTTTAA
* * *
10920503 GGATTATTCAAGGCAATTTT-GACCAAAATCGCTTTGAATAATTCATTCATAAAAATGAAAGAGG
62 GGATTATTCAAGACAATTTTAG-CCAAAATCGCCTTGAATAATCCATTCATAAAAATGAAAGAGG
10920567 ATTATT
126 ATTATT
10920573 TAAAGCATTT
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
141 3 0.03
142 11 0.10
143 99 0.88
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (143 bp):
GAATATTGAAGGTGTTTTTAGGCCAAAATACATTAAATGATCTCCTCTATAAAATTTTTAAGGAT
TATTCAAGACAATTTTAGCCAAAATCGCCTTGAATAATCCATTCATAAAAATGAAAGAGGATTAT
TCAAGGCGTTAGA
Found at i:10920663 original size:60 final size:62
Alignment explanation
Indices: 10920501--10920716 Score: 190
Period size: 62 Copynumber: 3.5 Consensus size: 62
10920491 TAAAATTTTT
* * * * * *
10920501 GAGGATTATTCAAGGCAATTTTGA-CCAAAATCGCTTTGAATAATTCATTCATAAAAATGAAA
1 GAGGATTATTCAAAGCATTTTTTAGTCAAAATCGCATTGAATAA-TCACTCATAAAAATGAAA
* * * *
10920563 GAGGATTATTTAAAGCATTTTTTTGTCAAAAACGCATTGAATAATCCCTCATAAAAATGAAA
1 GAGGATTATTCAAAGCATTTTTTAGTCAAAATCGCATTGAATAATCACTCATAAAAATGAAA
* * * **
10920625 G-GGGTTATTCAAAGCA-TTTTTAGTCAAAATCACCTTGAATAATCTA-TTTTAAAAAGTTGAAA
1 GAGGATTATTCAAAGCATTTTTTAGTCAAAATCGCATTGAATAATC-ACTCATAAAAA--TGAAA
* * * *
10920687 -AAGATTACTCAAAGTATTTTTTTGTCAAAA
1 GAGGATTATTCAAAGCATTTTTTAGTCAAAA
10920717 ACACCTTCAA
Statistics
Matches: 124, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
60 31 0.25
61 13 0.10
62 52 0.42
63 28 0.23
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (62 bp):
GAGGATTATTCAAAGCATTTTTTAGTCAAAATCGCATTGAATAATCACTCATAAAAATGAAA
Found at i:10920686 original size:62 final size:61
Alignment explanation
Indices: 10920536--10920744 Score: 206
Period size: 63 Copynumber: 3.4 Consensus size: 61
10920526 CAAAATCGCT
* * * *
10920536 TTGAATAATTCATTCATAAAAATGAAAGAGGATTATTTAAAGCATTTTTTTGTCAAAAACGCA
1 TTGAATAATCCA-TCATAAAAATGAAAG-GGATTATTCAAAGCATTTTTTTGTCAAAAACACC
* * * *
10920599 TTGAATAATCCCTCATAAAAATGAAAGGGGTTATTCAAAGCA-TTTTTAGTCAAAATCACC
1 TTGAATAATCCATCATAAAAATGAAAGGGATTATTCAAAGCATTTTTTTGTCAAAAACACC
* ** ** * *
10920659 TTGAATAATCTATTTTAAAAAGTTGAAAAAGATTACTCAAAGTATTTTTTTGTCAAAAACACC
1 TTGAATAATCCATCATAAAAA--TGAAAGGGATTATTCAAAGCATTTTTTTGTCAAAAACACC
*
10920722 TTCAATAATTTCC-TCATAAAAAT
1 TTGAATAA--TCCATCATAAAAAT
10920745 CAGAGATTAT
Statistics
Matches: 118, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
60 31 0.26
61 13 0.11
62 32 0.27
63 33 0.28
64 7 0.06
65 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (61 bp):
TTGAATAATCCATCATAAAAATGAAAGGGATTATTCAAAGCATTTTTTTGTCAAAAACACC
Found at i:10921722 original size:6 final size:6
Alignment explanation
Indices: 10921713--10921742 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
10921703 AAAATAATAA
10921713 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
10921743 TTAAAAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:10922821 original size:23 final size:21
Alignment explanation
Indices: 10922763--10922823 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 21
10922753 TTTTTTAATT
*
10922763 ATATATTTATATTTAAAAAATA
1 ATAT-TTTATATTTTAAAAATA
10922785 ATATTTTATA-TTTAAAAATA
1 ATATTTTATATTTTAAAAATA
10922805 ATATTTTATTAATTTTAAA
1 ATATTTTA-T-ATTTTAAA
10922824 TTTAATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 17 0.49
21 7 0.20
22 5 0.14
23 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTATATTTTAAAAATA
Found at i:10922829 original size:23 final size:20
Alignment explanation
Indices: 10922763--10922813 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
10922753 TTTTTTAATT
10922763 ATATATTTATATTTAAAAAATA
1 ATAT-TTTATATTT-AAAAATA
10922785 ATATTTTATATTTAAAAATA
1 ATATTTTATATTTAAAAATA
10922805 ATATTTTAT
1 ATATTTTAT
10922814 TAATTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 16 0.55
21 9 0.31
22 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTTTATATTTAAAAATA
Found at i:10922910 original size:15 final size:15
Alignment explanation
Indices: 10922890--10922951 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
10922880 TAAAAAAAAT
10922890 ATTTAAATCGAATAA
1 ATTTAAATCGAATAA
***
10922905 ATTTAAATTTTATAA
1 ATTTAAATCGAATAA
* *
10922920 ATATAAATCAAATCAA
1 ATTTAAATCGAAT-AA
10922936 ATTTAGAAT-GAATAA
1 ATTTA-AATCGAATAA
10922951 A
1 A
10922952 AATTTATCCG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
15 24 0.67
16 9 0.25
17 3 0.08
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (15 bp):
ATTTAAATCGAATAA
Found at i:10925549 original size:21 final size:22
Alignment explanation
Indices: 10925507--10925558 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
10925497 TTATGTCATA
**
10925507 TAATTATATTATTTTTAAAAAT
1 TAATTATATTATTGGTAAAAAT
10925529 TAATTAT-TTATTGGTATAAATAT
1 TAATTATATTATTGGTA-AAA-AT
*
10925552 TTATTAT
1 TAATTAT
10925559 TTAATTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.28
22 10 0.40
23 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TAATTATATTATTGGTAAAAAT
Found at i:10926008 original size:62 final size:61
Alignment explanation
Indices: 10925840--10926009 Score: 155
Period size: 62 Copynumber: 2.8 Consensus size: 61
10925830 CTCATAATCG
* * * * * *
10925840 GTTAGAATTATTATAATA-CATTTCTACCTTAATTACAAAAATACTTTTCTAATCATAATTG
1 GTTAAAATTATTATAATATCATTTATACCATAATTA-TAAAATACTTTTCTAACCATAATTA
* * * * * *
10925901 GTCAAAATTATTATATTATCCTTCATACCATTATTATATAGATACTTTTCCT-ACCATAATTA
1 GTTAAAATTATTATAATATCATTTATACCATAATTATA-AAATACTTTT-CTAACCATAATTA
* * *
10925963 GTTAAAATTACTATAATATCTTTTTTACCATAATTATGAAAATACTT
1 GTTAAAATTATTATAATATCATTTATACCATAATTAT-AAAATACTT
10926010 ATAATAATTG
Statistics
Matches: 85, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
61 16 0.19
62 66 0.78
63 3 0.04
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (61 bp):
GTTAAAATTATTATAATATCATTTATACCATAATTATAAAATACTTTTCTAACCATAATTA
Found at i:10927222 original size:28 final size:28
Alignment explanation
Indices: 10927178--10927258 Score: 146
Period size: 28 Copynumber: 2.9 Consensus size: 28
10927168 TGACAATGAG
10927178 TTAGAAACCT-CCTTTTTCATTGAGGTTT
1 TTAGAAACCTCCCTTTTT-ATTGAGGTTT
10927206 TTAGAAACCTCCCTTTTTATTGAGGTTT
1 TTAGAAACCTCCCTTTTTATTGAGGTTT
10927234 TTAGAAACCTCCCTTTTTATTGAGG
1 TTAGAAACCTCCCTTTTTATTGAGG
10927259 ATATAGACTA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 45 0.87
29 7 0.13
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (28 bp):
TTAGAAACCTCCCTTTTTATTGAGGTTT
Found at i:10932661 original size:10 final size:9
Alignment explanation
Indices: 10932636--10932660 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10932626 AATATTATAT
10932636 AAAAAAAGA
1 AAAAAAAGA
10932645 AAAAAAAGA
1 AAAAAAAGA
10932654 AAAAAAA
1 AAAAAAA
10932661 ATTTTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:10933626 original size:20 final size:20
Alignment explanation
Indices: 10933601--10933661 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
10933591 CATCCTTAAT
*
10933601 TTTTTTTGTCTTTTGTTTTC
1 TTTTTTTGTATTTTGTTTTC
*
10933621 TTTTTTTCGTATTTT-TTGTTT
1 TTTTTTT-GTATTTTGTT-TTC
10933642 TTTTTTTGTATTTTTGTTTT
1 TTTTTTTGTA-TTTTGTTTT
10933662 GTATTTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 12 0.34
21 21 0.60
22 2 0.06
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.82
Consensus pattern (20 bp):
TTTTTTTGTATTTTGTTTTC
Found at i:10933643 original size:19 final size:19
Alignment explanation
Indices: 10933621--10933661 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
10933611 TTTTGTTTTC
10933621 TTTTTTTCGTATTTTTTGTT
1 TTTTTTTCGTA-TTTTTGTT
*
10933641 TTTTTTTTGTATTTTTGTT
1 TTTTTTTCGTATTTTTGTT
10933660 TT
1 TT
10933662 GTATTTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.05, C:0.02, G:0.10, T:0.83
Consensus pattern (19 bp):
TTTTTTTCGTATTTTTGTT
Found at i:10933657 original size:42 final size:43
Alignment explanation
Indices: 10933599--10933697 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
10933589 GGCATCCTTA
* * * *
10933599 ATTTTTTTTGT-CTTTTGTTTTCT-TTTTTTCGTATTTTTTGT
1 ATTTTTTTTGTATTTTTGTTTTCTATTTTGTAGTATTTTTGGT
* * *
10933640 TTTTTTTTTGTATTTTTGTTTTGTATTTTGTATTATTTTTGGT
1 ATTTTTTTTGTATTTTTGTTTTCTATTTTGTAGTATTTTTGGT
*
10933683 ATTTTTTTTATATTT
1 ATTTTTTTTGTATTT
10933698 CGTATTTTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 10 0.21
42 10 0.21
43 27 0.57
ACGTcount: A:0.09, C:0.03, G:0.10, T:0.78
Consensus pattern (43 bp):
ATTTTTTTTGTATTTTTGTTTTCTATTTTGTAGTATTTTTGGT
Found at i:10933662 original size:13 final size:12
Alignment explanation
Indices: 10933632--10933668 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
10933622 TTTTTTCGTA
10933632 TTTTTTGT-TTT
1 TTTTTTGTATTT
10933643 TTTTTTGTATTT
1 TTTTTTGTATTT
10933655 TTGTTTTGTATTT
1 TT-TTTTGTATTT
10933668 T
1 T
10933669 GTATTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.33
12 5 0.21
13 11 0.46
ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84
Consensus pattern (12 bp):
TTTTTTGTATTT
Found at i:10933679 original size:18 final size:17
Alignment explanation
Indices: 10933658--10933731 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 17
10933648 TGTATTTTTG
10933658 TTTTGTATTTTGTATTAT
1 TTTTGTATTTT-TATTAT
*
10933676 TTTTGGTATTTTTTTTAT
1 TTTT-GTATTTTTATTAT
* *
10933694 ATTTCGTATTTTGTAATAT
1 -TTTTGTATTTT-TATTAT
*
10933713 TATTG--TTTTTATTAT
1 TTTTGTATTTTTATTAT
10933728 TTTT
1 TTTT
10933732 TTTTGGACAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
15 8 0.18
16 4 0.09
18 19 0.42
19 14 0.31
ACGTcount: A:0.18, C:0.01, G:0.09, T:0.72
Consensus pattern (17 bp):
TTTTGTATTTTTATTAT
Found at i:10933684 original size:12 final size:10
Alignment explanation
Indices: 10933601--10933690 Score: 53
Period size: 10 Copynumber: 8.7 Consensus size: 10
10933591 CATCCTTAAT
*
10933601 TTTTTTTGTC
1 TTTTTTTGTA
*
10933611 TTTTGTTT-TC
1 TTTT-TTTGTA
10933621 TTTTTTTCGTA
1 TTTTTTT-GTA
*
10933632 -TTTTTTGTTT
1 TTTTTTTG-TA
10933642 TTTTTTTGTA
1 TTTTTTTGTA
10933652 TTTTTGTT-T-
1 TTTTT-TTGTA
*
10933661 TGTATTTTGTA
1 T-TTTTTTGTA
10933672 TTATTTTTGGTA
1 TT-TTTTT-GTA
10933684 TTTTTTT
1 TTTTTTT
10933691 TATATTTCGT
Statistics
Matches: 64, Mismatches: 5, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
9 7 0.11
10 29 0.45
11 23 0.36
12 5 0.08
ACGTcount: A:0.07, C:0.03, G:0.11, T:0.79
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:10933703 original size:30 final size:32
Alignment explanation
Indices: 10933643--10933703 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
10933633 TTTTTGTTTT
* * *
10933643 TTTTTTGTATTTTTGTTTTGTATTTTGTATTA
1 TTTTTGGTATTTTTGTTTTATATTTCGTATTA
10933675 TTTTTGGTA-TTTT-TTTTATATTTCGTATT
1 TTTTTGGTATTTTTGTTTTATATTTCGTATT
10933704 TTGTAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 14 0.54
31 4 0.15
32 8 0.31
ACGTcount: A:0.13, C:0.02, G:0.11, T:0.74
Consensus pattern (32 bp):
TTTTTGGTATTTTTGTTTTATATTTCGTATTA
Found at i:10937215 original size:21 final size:21
Alignment explanation
Indices: 10937164--10937869 Score: 314
Period size: 21 Copynumber: 33.6 Consensus size: 21
10937154 TTTTGTTTGC
10937164 AAATTATATCAAA-GATTAAT-A
1 AAATTATATCAAATG-TT-ATCA
* * *
10937185 AATTTTTATCAAATGTTACCA
1 AAATTATATCAAATGTTATCA
*
10937206 AAATTATATCAAATATTATCA
1 AAATTATATCAAATGTTATCA
* *
10937227 AAATTATATTAAATGTTAACA
1 AAATTATATCAAATGTTATCA
* *
10937248 AAATTATATCAAAAGTCATCA
1 AAATTATATCAAATGTTATCA
*
10937269 AAATTATATCAAAAGTTA-CAAA
1 AAATTATATCAAATGTTATC--A
*
10937291 AAATTATATCAAAGGTTATCA
1 AAATTATATCAAATGTTATCA
** *
10937312 AAATTATAAAAAATGTTACCA
1 AAATTATATCAAATGTTATCA
* *
10937333 AAATTGTA--ATAATAATTATCA
1 AAATTATATCA-AAT-GTTATCA
* *
10937354 AAATTATATTAAA-GACTATCA
1 AAATTATATCAAATG-TTATCA
* *
10937375 AAATTATAACAAAGGTTATCA
1 AAATTATATCAAATGTTATCA
** * *
10937396 AAATTATAAAAAAGGTTACCA
1 AAATTATATCAAATGTTATCA
10937417 AAATTATA--ATAATAGTTATCA
1 AAATTATATCA-AAT-GTTATCA
* *
10937438 AAATTATATTAAA-GACTATCA
1 AAATTATATCAAATG-TTATCA
* ** *
10937459 AAATTATAACAAATGCCACCA
1 AAATTATATCAAATGTTATCA
* * *
10937480 AAATCATATCAAAGGTTATTA
1 AAATTATATCAAATGTTATCA
**
10937501 AAATTATAT-AAAAATTATCA
1 AAATTATATCAAATGTTATCA
* * *
10937521 CAATTATATCAAAAGTTACCA
1 AAATTATATCAAATGTTATCA
***
10937542 AAATTATATCAAAATAAAATCA
1 AAATTATATC-AAATGTTATCA
* *
10937564 AAAGT-TA-CTAAAT-TATGTCA
1 AAATTATATC-AAATGT-TATCA
* *
10937584 AAA-GATTACCAAAAT-TGTATCA
1 AAATTA-TATC-AAATGT-TATCA
* **
10937606 AAATT-TACTAAAACTAAACTATCA
1 AAATTATA-TCAAA-T--GTTATCA
* * *
10937630 AAATCATATCAAAAGTTATTA
1 AAATTATATCAAATGTTATCA
*
10937651 AAATTATACCAATAT-TT-TCA
1 AAATTATATCAA-ATGTTATCA
**
10937671 AAATTATTAT-AAAAATTATCA
1 AAATTA-TATCAAATGTTATCA
* * * *
10937692 AAATTATATGAAAGGCTATGA
1 AAATTATATCAAATGTTATCA
* *
10937713 AAACTATATCAAATGTCAT-A
1 AAATTATATCAAATGTTATCA
*
10937733 TAAATTATTAT-AAAGGTTA-CTA
1 -AAATTA-TATCAAATGTTATC-A
10937755 AAATTATACTCAAA-GTTA-C-
1 AAATTATA-TCAAATGTTATCA
* * *
10937774 TAA-TATATTAAATGTCATCA
1 AAATTATATCAAATGTTATCA
* ** * *
10937794 AAATTATTTTTAATATTACCA
1 AAATTATATCAAATGTTATCA
* **
10937815 AAATTAAATCAAATGTTATTT
1 AAATTATATCAAATGTTATCA
* * *
10937836 AAATT-TTTCCAAGGTTATCA
1 AAATTATATCAAATGTTATCA
10937856 AAATTATATGCAAA
1 AAATTATAT-CAAA
10937870 ACTTCATGTC
Statistics
Matches: 518, Mismatches: 120, Indels: 93
0.71 0.16 0.13
Matches are distributed among these distances:
17 4 0.01
18 7 0.01
19 6 0.01
20 69 0.13
21 354 0.68
22 60 0.12
23 3 0.01
24 13 0.03
25 2 0.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATTATATCAAATGTTATCA
Found at i:10937584 original size:20 final size:20
Alignment explanation
Indices: 10937560--10937617 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
10937550 TCAAAATAAA
10937560 ATCAAAAGTTACTAAATTAT
1 ATCAAAAGTTACTAAATTAT
* * *
10937580 GTCAAAAGATTACCAAAATTGT
1 ATCAAAAG-TTA-CTAAATTAT
*
10937602 ATCAAAATTTACTAAA
1 ATCAAAAGTTACTAAA
10937618 ACTAAACTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 11 0.37
21 6 0.20
22 13 0.43
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (20 bp):
ATCAAAAGTTACTAAATTAT
Found at i:10937597 original size:31 final size:32
Alignment explanation
Indices: 10937530--10937597 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 32
10937520 ACAATTATAT
* *
10937530 CAAAAGTTACCAAAATTATATCAAAATAAAAT
1 CAAAAGTTACCAAAATTATATCAAAAGAAAAC
* * **
10937562 CAAAAGTTA-CTAAATTATGTCAAAAGATTAC
1 CAAAAGTTACCAAAATTATATCAAAAGAAAAC
10937593 CAAAA
1 CAAAA
10937598 TTGTATCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 21 0.70
32 9 0.30
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.25
Consensus pattern (32 bp):
CAAAAGTTACCAAAATTATATCAAAAGAAAAC
Found at i:10941900 original size:15 final size:16
Alignment explanation
Indices: 10941876--10941906 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10941866 GTTACATAAG
10941876 TTTTCTCTTCTTTTTT
1 TTTTCTCTTCTTTTTT
10941892 TTTTC-CTTCTTTTTT
1 TTTTCTCTTCTTTTTT
10941907 CTCTTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTCTTCTTTTTT
Found at i:10947851 original size:2 final size:2
Alignment explanation
Indices: 10947844--10947887 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
10947834 TCACAAGGTA
10947844 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10947886 CT
1 CT
10947888 AAGCTCACAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10957251 original size:5 final size:5
Alignment explanation
Indices: 10957241--10957265 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10957231 GAAACGCAAT
10957241 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
10957266 ATATGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:10957986 original size:24 final size:21
Alignment explanation
Indices: 10957948--10958011 Score: 56
Period size: 24 Copynumber: 2.8 Consensus size: 21
10957938 CAATCAAAAC
*
10957948 AATAATACATATTATTTATTATA
1 AATAATA-AAATTATTTATTA-A
10957971 TAATAATAAAATTTATTAATATTAA
1 -AATAATAAAA-TTATT--TATTAA
*
10957996 ATTAATAAAATTATTT
1 AATAATAAAATTATTT
10958012 TAAAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 1 0.03
23 7 0.20
24 21 0.60
25 1 0.03
26 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAATAAAATTATTTATTAA
Found at i:10958040 original size:15 final size:15
Alignment explanation
Indices: 10958022--10958059 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
10958012 TAAAATTTAT
10958022 AAATCAAAA-AATCAA
1 AAATCAAAATAAT-AA
10958037 AAATCAAAATAATAA
1 AAATCAAAATAATAA
10958052 AAATCAAA
1 AAATCAAA
10958060 TGGCATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATCAAAATAATAA
Found at i:10962091 original size:14 final size:14
Alignment explanation
Indices: 10962058--10962125 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 14
10962048 AAGGTTTCAA
* *
10962058 GATTTTGAAGATTCG
1 GATTTT-AAGGTTTG
10962073 GATTTTAAGGTTTG
1 GATTTTAAGGTTTG
*
10962087 GA-TTTAAGTTTTGAG
1 GATTTTAAGGTTT--G
* *
10962102 GGTTTTAGGGTTTG
1 GATTTTAAGGTTTG
10962116 G-TTTTAAGGT
1 GATTTTAAGGT
10962126 ATTGAAGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
13 17 0.40
14 10 0.23
15 8 0.19
16 8 0.19
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (14 bp):
GATTTTAAGGTTTG
Found at i:10962137 original size:29 final size:28
Alignment explanation
Indices: 10962076--10962252 Score: 124
Period size: 29 Copynumber: 6.1 Consensus size: 28
10962066 AGATTCGGAT
* * *
10962076 TTTAAGGTTTGGATTTAAGTTTTGAGGG
1 TTTAGGGTTTGGATTTAAGGTTTGAAGG
*
10962104 TTTTAGGGTTTGGTTTTAAGGTATTGAAGG
1 -TTTAGGGTTTGGATTTAAGGT-TTGAAGG
* * * * *
10962134 TTTAGAGTTTTGATTTTAGAGTTTAAAGAT
1 TTTAGGGTTTGGATTTAAG-GTTTGAAG-G
* **
10962164 TTTAGGGTTTCGGTTTTAAAATTT-AAGG
1 TTTAGGGTTT-GGATTTAAGGTTTGAAGG
* * *
10962192 TTTGGGGTTTTGATTTAAGGGTTTGAA-T
1 TTTAGGGTTTGGATTTAA-GGTTTGAAGG
*
10962220 TTTAGGGGTTTGGATTTAAGAGTTTAAAGG
1 TTTA-GGGTTTGGATTTAAG-GTTTGAAGG
10962250 TTT
1 TTT
10962253 GGAATTTCAA
Statistics
Matches: 112, Mismatches: 27, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
27 6 0.05
28 16 0.14
29 62 0.55
30 23 0.21
31 5 0.04
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (28 bp):
TTTAGGGTTTGGATTTAAGGTTTGAAGG
Done.