Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 13 of 100
Found at i:2611809 original size:2 final size:2
Alignment explanation
Indices: 2611802--2611836 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2611792 GAGAAATTCC
* *
2611802 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2611837 GAGTACTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2614401 original size:15 final size:16
Alignment explanation
Indices: 2614371--2614403 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2614361 ATATAGTCAT
*
2614371 AAATTTAATATAATAA
1 AAATATAATATAATAA
2614387 AAATATAAT-TAATAA
1 AAATATAATATAATAA
2614402 AA
1 AA
2614404 TTCAACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATAATATAATAA
Found at i:2614401 original size:29 final size:29
Alignment explanation
Indices: 2614347--2614402 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
2614337 TTTTTAAAAC
*
2614347 TAATAAAATTAAAAATATAGTCATAAATT
1 TAATAAAATTAAAAATATAGTAATAAATT
* *
2614376 TAATATAA-TAAAAATATAATTAATAAA
1 TAATAAAATTAAAAATAT-AGTAATAAA
2614403 ATTCAACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
TAATAAAATTAAAAATATAGTAATAAATT
Found at i:2617910 original size:20 final size:20
Alignment explanation
Indices: 2617881--2617918 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2617871 AACATCACAG
*
2617881 CAAAAAAAAACATAAAACAA
1 CAAAAAAAAAAATAAAACAA
*
2617901 CAAAACAAAAAATAAAAC
1 CAAAAAAAAAAATAAAAC
2617919 CGGTGAGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.16, G:0.00, T:0.05
Consensus pattern (20 bp):
CAAAAAAAAAAATAAAACAA
Found at i:2618540 original size:30 final size:30
Alignment explanation
Indices: 2618499--2618555 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
2618489 AAAAAGCGCT
2618499 TTAGTTTTTATAATGTAAAAAAAGAAAAAAC
1 TTAGTTTTTATAATGTAAAAAAA-AAAAAAC
2618530 TTAG-TTTTATAATGTAAAAAAAAAAA
1 TTAGTTTTTATAATGTAAAAAAAAAAA
2618556 TGGGGCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 4 0.15
30 18 0.69
31 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (30 bp):
TTAGTTTTTATAATGTAAAAAAAAAAAAAC
Found at i:2619398 original size:8 final size:8
Alignment explanation
Indices: 2619382--2619492 Score: 89
Period size: 8 Copynumber: 13.4 Consensus size: 8
2619372 AAAACCCTCG
*
2619382 AAACATTA
1 AAACCTTA
2619390 AAACCTTA
1 AAACCTTA
** *
2619398 AAATATCAA
1 AAACCT-TA
*
2619407 AAATCTTA
1 AAACCTTA
*
2619415 AAACCCTA
1 AAACCTTA
2619423 AAACCTTTA
1 AAACC-TTA
2619432 AAACCTTA
1 AAACCTTA
2619440 AAACCTTA
1 AAACCTTA
* *
2619448 AAATCTTCG
1 AAACCTT-A
*
2619457 AAACTTTTA
1 AAAC-CTTA
2619466 AAA-CTTA
1 AAACCTTA
2619473 AAACCCTTA
1 AAA-CCTTA
2619482 AAACCTTA
1 AAACCTTA
2619490 AAA
1 AAA
2619493 TTTGTAATGT
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
7 6 0.07
8 48 0.59
9 26 0.32
10 2 0.02
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (8 bp):
AAACCTTA
Found at i:2619400 original size:25 final size:25
Alignment explanation
Indices: 2619363--2619479 Score: 71
Period size: 25 Copynumber: 4.7 Consensus size: 25
2619353 TAAAAAAATT
*
2619363 TTAAATCC-TAAAACCCTCGAAACA
1 TTAAAACCTTAAAACCCTCGAAACA
** *
2619387 TTAAAACCTTAAAA-TATC-AAAAA
1 TTAAAACCTTAAAACCCTCGAAACA
* * ** *
2619410 TCTTAAAACCCTAAAACCTTTAAAACC
1 --TTAAAACCTTAAAACCCTCGAAACA
* * *
2619437 TTAAAACCTTAAAATCTTCGAAACTT
1 TTAAAACCTTAAAACCCTCGAAAC-A
2619463 TTAAAA-CTTAAAACCCT
1 TTAAAACCTTAAAACCCT
2619480 TAAAACCTTA
Statistics
Matches: 70, Mismatches: 17, Indels: 11
0.71 0.17 0.11
Matches are distributed among these distances:
23 4 0.06
24 9 0.13
25 47 0.67
26 7 0.10
27 3 0.04
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (25 bp):
TTAAAACCTTAAAACCCTCGAAACA
Found at i:2619432 original size:17 final size:17
Alignment explanation
Indices: 2619412--2619492 Score: 94
Period size: 17 Copynumber: 4.8 Consensus size: 17
2619402 ATCAAAAATC
*
2619412 TTAAAACCCTAAAACCT
1 TTAAAACCTTAAAACCT
2619429 TTAAAACCTTAAAACC-
1 TTAAAACCTTAAAACCT
* * *
2619445 TTAAAATCTTCGAAACTT
1 TTAAAACCTT-AAAACCT
*
2619463 TTAAAA-CTTAAAACCC
1 TTAAAACCTTAAAACCT
2619479 TTAAAACCTTAAAA
1 TTAAAACCTTAAAA
2619493 TTTGTAATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
16 19 0.35
17 29 0.54
18 6 0.11
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.28
Consensus pattern (17 bp):
TTAAAACCTTAAAACCT
Found at i:2619441 original size:50 final size:49
Alignment explanation
Indices: 2619356--2619492 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 49
2619346 TATTTTTTAA
* ** *
2619356 AAAAATTTTAAATCCTAAAACCCTCGAAACATTAAAACCTTAAAAT-ATC
1 AAAAA-TTTAAAACCTAAAACCCTTAAAACCTTAAAACCTTAAAATCATC
* *
2619405 AAAAATCTTAAAACCCTAAAACCTTTAAAACCTTAAAACCTTAAAATCTTC
1 AAAAAT-TTAAAA-CCTAAAACCCTTAAAACCTTAAAACCTTAAAATCATC
** *
2619456 GAAACTTTTAAAACTTAAAACCCTTAAAACCTTAAAA
1 -AAAAATTTAAAACCTAAAACCCTTAAAACCTTAAAA
2619493 TTTGTAATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.01
49 10 0.14
50 51 0.69
51 8 0.11
52 4 0.05
ACGTcount: A:0.50, C:0.21, G:0.01, T:0.27
Consensus pattern (49 bp):
AAAAATTTAAAACCTAAAACCCTTAAAACCTTAAAACCTTAAAATCATC
Found at i:2619633 original size:16 final size:16
Alignment explanation
Indices: 2619614--2619650 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2619604 TTCAAAACCA
2619614 TAAACCCTAAAAACTC
1 TAAACCCTAAAAACTC
* *
2619630 TAAACCCTAAATACTT
1 TAAACCCTAAAAACTC
2619646 TAAAC
1 TAAAC
2619651 TTTAAACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAACCCTAAAAACTC
Found at i:2619672 original size:16 final size:15
Alignment explanation
Indices: 2619614--2619674 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
2619604 TTCAAAACCA
* *
2619614 TAAACCCTAAAAACTC
1 TAAACCCT-AAACCTT
*
2619630 TAAACCCTAAATACTT
1 TAAACCCTAAA-CCTT
**
2619646 TAAACTTTAAACCTT
1 TAAACCCTAAACCTT
2619661 TAAAACCCTAAACC
1 T-AAACCCTAAACC
2619675 CTACAACCTC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
15 7 0.19
16 30 0.81
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAACCCTAAACCTT
Found at i:2619700 original size:29 final size:28
Alignment explanation
Indices: 2619661--2619725 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
2619651 TTTAAACCTT
* * *
2619661 TAAAACCCTAAACCCTACAACCTCGAAAA
1 TAAAATCCTAAAACCTAAAACCT-GAAAA
*
2619690 TAAAATCCTAAAACCTAAAACCTTAAAA
1 TAAAATCCTAAAACCTAAAACCTGAAAA
2619718 TCAAAATC
1 T-AAAATC
2619726 TTGAAACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.18
Consensus pattern (28 bp):
TAAAATCCTAAAACCTAAAACCTGAAAA
Found at i:2619732 original size:29 final size:28
Alignment explanation
Indices: 2619661--2619746 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 28
2619651 TTTAAACCTT
* * * *
2619661 TAAAACCCTAAACCCTACAACCTCGAAAA
1 TAAAATCCTAAAACCTAAAACC-CTAAAA
*
2619690 TAAAATCCTAAAACCTAAAACCTTAAAA
1 TAAAATCCTAAAACCTAAAACCCTAAAA
* * * *
2619718 TCAAAATCTTGAAACTTTAAACCCTAAAA
1 T-AAAATCCTAAAACCTAAAACCCTAAAA
2619747 CCTAAAACCA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
28 5 0.11
29 41 0.89
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (28 bp):
TAAAATCCTAAAACCTAAAACCCTAAAA
Found at i:2621012 original size:15 final size:15
Alignment explanation
Indices: 2620989--2621022 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2620979 TTTAATTGAT
*
2620989 ATTTAATTTTAATTC
1 ATTTCATTTTAATTC
2621004 ATTTCATTTTAATTC
1 ATTTCATTTTAATTC
2621019 -TTTC
1 ATTTC
2621023 GAAAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTCATTTTAATTC
Found at i:2623692 original size:510 final size:510
Alignment explanation
Indices: 2622734--2625811 Score: 4943
Period size: 510 Copynumber: 6.0 Consensus size: 510
2622724 ATGCTATATG
* *
2622734 TATTGTTTATGTTGAATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGT
1 TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGT
*
2622799 CATTATCAAATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
66 CATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
*
2622864 AAATATTGTTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
131 AAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
* *
2622929 CATAAATACTATAAA-TTAATTAAATTTAAAAATCATTAATATTTAAATTTATATAATTTAAAAT
196 CATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT
*
2622993 AAAATAATAAAAACATTAATGAATAATATCCATAAATCAATTAATTACAAATTATATAGTATATA
261 AAAATAATAAAAACATTAATGAATAATATCCATAAATCAATTAATTACAAATTATATAATATATA
2623058 TCTTATAATTAATTATTCAACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAA
326 TCTTATAATTAATTATTCAACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAA
2623123 TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTAC
391 TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTAC
2623188 AAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTT
456 AAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTT
*
2623243 TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAATCGTGT
1 TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGT
2623308 CATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
66 CATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
2623373 AAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
131 AAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
2623438 CATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT
196 CATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT
*
2623503 AAAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATATA
261 AAAATAATAAAAACATTAATGAATAATATCCATAAATCAATTAATTACAAATTATATAATATATA
2623568 TCTTATAATTAATTATTCAACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAA
326 TCTTATAATTAATTATTCAACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAA
2623633 TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTAC
391 TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTAC
* *
2623698 AAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATATCATATGGTTACTT
456 AAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTT
* * *
2623753 TATTGTTTATGTCGAATAACGTGCCAAAAACTTTAACATCAATTCTAACGACGTATCAGTCGTGT
1 TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGT
2623818 CATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
66 CATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
*
2623883 AAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCGATTT
131 AAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
* *
2623948 CATAAATACTATAAATTTAATTAAATTTAAAAATCATTAATATTTAAATTTATATAATTTAAAAT
196 CATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT
*
2624013 AAAATAATAAAAACATTAATGAATAATATCCATAAATCAATTAATTACAAATTATATAGTATATA
261 AAAATAATAAAAACATTAATGAATAATATCCATAAATCAATTAATTACAAATTATATAATATATA
2624078 TCTTATAATTAATTATTCAACTTAATG--------------CAATTAAAATCGTTTATCATTTAA
326 TCTTATAATTAATTATTCAACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAA
2624129 TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTAC
391 TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTAC
2624194 AAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTT
456 AAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTT
2624249 TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGT
1 TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGT
**
2624314 CATTATCAGATTCTCTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
66 CATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
*
2624379 AATTATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
131 AAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
2624444 CATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT
196 CATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT
*
2624509 AAAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATATA
261 AAAATAATAAAAACATTAATGAATAATATCCATAAATCAATTAATTACAAATTATATAATATATA
*
2624574 TCTTATAATTAATTATTCAACTCAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAA
326 TCTTATAATTAATTATTCAACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAA
2624639 TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTAC
391 TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTAC
2624704 AAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTT
456 AAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTT
*
2624759 TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAATCGTGT
1 TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGT
2624824 CATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
66 CATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
*
2624889 AAATATTATGATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
131 AAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
2624954 CATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT
196 CATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT
*
2625019 AAAATAATAAAAACATTAATGAATAATATCCATAAATGAATTAATTACAAATTATATAATATATA
261 AAAATAATAAAAACATTAATGAATAATATCCATAAATCAATTAATTACAAATTATATAATATATA
* *
2625084 TCTTATAATTAATTATTCAACTCAATGCAATTAAAATCTCACAATTAAAATCATTTATCATTTAA
326 TCTTATAATTAATTATTCAACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAA
* * * * **
2625149 TTAAACACTTTAATTAATCAAACATCATTTTATCTC-TTCCATAGATCAAAATAATAGTACGTTA
391 TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCC-TATATCAAAATAATAGTTTGTTA
* * * * *
2625213 TAAATTATTTTTAAAAAAATATAAATCAAATTCACATTAAATGCCACT-TGGCTACTT
455 CAAATTA-TTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCA-TATGGGTACTT
* ** * * * *
2625270 TATTGTTTATGTCGCATAACATGCCAAGAACTTTAACATCAACTCTAGCGATGTATCAGCCGTGT
1 TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGT
* * *
2625335 CATTA-CGAAATTGAGTTTTTACTCATGTGATGTTGAAAAAGTATTCAAATTTAAATTTTAATGA
66 CATTATC---A--GA---TTGA--C---T--T-TT----ACG----C--------A-TTTGATGA
* * * *
2625399 TTAAAATTTAAATATAAATAATTTTGAATAAAAAATAATATCATTATTAGATTTTTTTCGCAACC
98 TTAAAATTTAAATATAAATAATTTTAAAT-AAAAA-AATATTATTATTATATTTTTTTCACAACC
* * * *
2625464 AATACGAAAATACATTCATTCATAACTAATTAATTTCGTAAATACTAGAAATTTAATTAAATTTA
161 AATACG-AAATACGTTCATTCATAACTAATCAATTTCATAAATACTATAAATTTAATTAAA-TT-
*
2625529 AAAATACTTAAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAGAAACATTAAT
223 ----TA---AAATTCATTAATAGTTAAATTTATATAATTTAAAATAAAATAATAAAAACATTAAT
*
2625594 GAATAATATCCATAAATCAATTAATTACAAATTATATAGTATATATCTTATAATTAATTAATTCA
281 GAATAATATCCATAAATCAATTAATTACAAATTATATAATATATATCTTATAATTAATT-ATTCA
* * **
2625659 ACTTAATACAATTAAAATCTCACAATTAAAATCATTTATCATTTAATTAAACACCTTAATTAATC
345 ACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAATTAAACAATTTAATTAATC
* * * *
2625724 AAATATCATTTTATCTC-TTCCTTACATCAAAATAATAGTATGTTATAAATTATTTTAAAAAAAG
410 AAATATCATTTTATTTCTTTCC-TATATCAAAATAATAGTTTGTTACAAATTATTTT-AAAAAAG
* *
2625788 TAAAAATCAAATTCATATTAAATG
473 TACAAATCAAATTCACATTAAATG
2625812 CCACATGGCT
Statistics
Matches: 2420, Mismatches: 84, Indels: 83
0.94 0.03 0.03
Matches are distributed among these distances:
496 482 0.20
509 209 0.09
510 1224 0.51
511 105 0.04
512 1 0.00
513 1 0.00
515 2 0.00
518 3 0.00
520 1 0.00
523 1 0.00
525 1 0.00
526 2 0.00
530 2 0.00
534 1 0.00
542 1 0.00
543 35 0.01
544 5 0.00
545 31 0.01
546 50 0.02
547 2 0.00
552 2 0.00
555 116 0.05
556 143 0.06
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.39
Consensus pattern (510 bp):
TATTGTTTATGTCGTATAACGCGCCAAAAACTTTAACATCAATTCTAGCGACGTATCAGTCGTGT
CATTATCAGATTGACTTTTACGCATTTGATGATTAAAATTTAAATATAAATAATTTTAAATAAAA
AAATATTATTATTATATTTTTTTCACAACCAATACGAAATACGTTCATTCATAACTAATCAATTT
CATAAATACTATAAATTTAATTAAATTTAAAATTCATTAATAGTTAAATTTATATAATTTAAAAT
AAAATAATAAAAACATTAATGAATAATATCCATAAATCAATTAATTACAAATTATATAATATATA
TCTTATAATTAATTATTCAACTTAATGCAATTAAAATCTCACAATTAAAATCGTTTATCATTTAA
TTAAACAATTTAATTAATCAAATATCATTTTATTTCTTTCCTATATCAAAATAATAGTTTGTTAC
AAATTATTTTAAAAAAGTACAAATCAAATTCACATTAAATGTCATATGGGTACTT
Found at i:2630698 original size:15 final size:16
Alignment explanation
Indices: 2630668--2630700 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2630658 ATATAGTCAT
*
2630668 AAATTTAATATAATAA
1 AAATATAATATAATAA
2630684 AAATATAAT-TAATAA
1 AAATATAATATAATAA
2630699 AA
1 AA
2630701 TTCAACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATAATATAATAA
Found at i:2630698 original size:29 final size:29
Alignment explanation
Indices: 2630644--2630699 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
2630634 TTTTTAAAAC
*
2630644 TAATAAAATTAAAAATATAGTCATAAATT
1 TAATAAAATTAAAAATATAGTAATAAATT
* *
2630673 TAATATAA-TAAAAATATAATTAATAAA
1 TAATAAAATTAAAAATAT-AGTAATAAA
2630700 ATTCAACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
TAATAAAATTAAAAATATAGTAATAAATT
Found at i:2634209 original size:20 final size:20
Alignment explanation
Indices: 2634180--2634217 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2634170 AACATCACAG
*
2634180 CAAAAAAAAACATAAAACAA
1 CAAAAAAAAAAATAAAACAA
*
2634200 CAAAACAAAAAATAAAAC
1 CAAAAAAAAAAATAAAAC
2634218 CGGTGAGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.16, G:0.00, T:0.05
Consensus pattern (20 bp):
CAAAAAAAAAAATAAAACAA
Found at i:2635757 original size:42 final size:41
Alignment explanation
Indices: 2635664--2635783 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 41
2635654 TAAAAATTTT
* * *
2635664 AAATCCTAAAACCCTCGAAACATTAAAACCTTAAAATATCAA
1 AAATCTTAAAACCCT-AAAACCTTAAAACCTTAAAATATCAA
* *
2635706 AAATCTTAAAACCCTAAAACCTTAAAACCTTAAAATCTTCGA
1 AAATCTTAAAACCCTAAAACCTTAAAACCTTAAAAT-ATCAA
* * *
2635748 AACTTTTAAAA-CTTAAAACCCTTAAAACCTTAAAAT
1 AAATCTTAAAACCCTAAAA-CCTTAAAACCTTAAAAT
2635784 TTGTAATGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 25 0.37
42 43 0.63
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.26
Consensus pattern (41 bp):
AAATCTTAAAACCCTAAAACCTTAAAACCTTAAAATATCAA
Found at i:2635771 original size:9 final size:8
Alignment explanation
Indices: 2635681--2635782 Score: 80
Period size: 8 Copynumber: 12.4 Consensus size: 8
2635671 AAAACCCTCG
*
2635681 AAACATTA
1 AAACCTTA
2635689 AAACCTTA
1 AAACCTTA
** *
2635697 AAATATCAA
1 AAACCT-TA
*
2635706 AAATCTTA
1 AAACCTTA
*
2635714 AAACCCTA
1 AAACCTTA
2635722 AAACCTTA
1 AAACCTTA
2635730 AAACCTTA
1 AAACCTTA
* *
2635738 AAATCTTCG
1 AAACCTT-A
*
2635747 AAACTTTTA
1 AAAC-CTTA
2635756 AAA-CTTA
1 AAACCTTA
2635763 AAACCCTTA
1 AAA-CCTTA
2635772 AAACCTTA
1 AAACCTTA
2635780 AAA
1 AAA
2635783 TTTGTAATGT
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
7 6 0.08
8 47 0.64
9 19 0.26
10 2 0.03
ACGTcount: A:0.52, C:0.21, G:0.01, T:0.26
Consensus pattern (8 bp):
AAACCTTA
Found at i:2635992 original size:29 final size:28
Alignment explanation
Indices: 2635953--2636017 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
2635943 TTTAAACCTT
* * *
2635953 TAAAACCCTAAACCCTACAACCTCGAAAA
1 TAAAATCCTAAAACCTAAAACCT-GAAAA
*
2635982 TAAAATCCTAAAACCTAAAACCTTAAAA
1 TAAAATCCTAAAACCTAAAACCTGAAAA
2636010 TCAAAATC
1 T-AAAATC
2636018 TTGAAACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.18
Consensus pattern (28 bp):
TAAAATCCTAAAACCTAAAACCTGAAAA
Found at i:2636008 original size:15 final size:15
Alignment explanation
Indices: 2635990--2636053 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
2635980 AATAAAATCC
2635990 TAAAACCTAAAACCT
1 TAAAACCTAAAACCT
* *
2636005 TAAAATC-AAAATCT
1 TAAAACCTAAAACCT
* * * *
2636019 TGAAACTTTAAACCC
1 TAAAACCTAAAACCT
2636034 TAAAACCTAAAACCT
1 TAAAACCTAAAACCT
*
2636049 CAAAA
1 TAAAA
2636054 TCTTAAAAAC
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
14 10 0.29
15 25 0.71
ACGTcount: A:0.53, C:0.23, G:0.02, T:0.22
Consensus pattern (15 bp):
TAAAACCTAAAACCT
Found at i:2636024 original size:29 final size:28
Alignment explanation
Indices: 2635953--2636038 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 28
2635943 TTTAAACCTT
* * * *
2635953 TAAAACCCTAAACCCTACAACCTCGAAAA
1 TAAAATCCTAAAACCTAAAACC-CTAAAA
*
2635982 TAAAATCCTAAAACCTAAAACCTTAAAA
1 TAAAATCCTAAAACCTAAAACCCTAAAA
* * * *
2636010 TCAAAATCTTGAAACTTTAAACCCTAAAA
1 T-AAAATCCTAAAACCTAAAACCCTAAAA
2636039 CCTAAAACCT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
28 5 0.11
29 41 0.89
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (28 bp):
TAAAATCCTAAAACCTAAAACCCTAAAA
Found at i:2642899 original size:28 final size:29
Alignment explanation
Indices: 2642868--2642933 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
2642858 AATTATCAAG
*
2642868 GAAAAAGTAAA-AAAAAAAAC-ATAAAAGA
1 GAAAAAG-AAATAAAAAAAACAAAAAAAGA
*
2642896 GAAAAAGAAATAAAAAATACAAAAAAAGA
1 GAAAAAGAAATAAAAAAAACAAAAAAAGA
2642925 GCAAAAAGA
1 G-AAAAAGA
2642934 GAAATATAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.09
28 15 0.45
29 8 0.24
30 7 0.21
ACGTcount: A:0.77, C:0.05, G:0.12, T:0.06
Consensus pattern (29 bp):
GAAAAAGAAATAAAAAAAACAAAAAAAGA
Found at i:2643150 original size:29 final size:28
Alignment explanation
Indices: 2643107--2643176 Score: 113
Period size: 29 Copynumber: 2.5 Consensus size: 28
2643097 TGCAAGATAG
*
2643107 GATTTAAGCCCAGTTTAATTGGCATACA
1 GATTTAAGCCTAGTTTAATTGGCATACA
*
2643135 GATTTTAAGCCTAGTTTAGTTGGCATACA
1 GA-TTTAAGCCTAGTTTAATTGGCATACA
2643164 GATTTAAGCCTAG
1 GATTTAAGCCTAG
2643177 GCACTTTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 13 0.33
29 26 0.67
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (28 bp):
GATTTAAGCCTAGTTTAATTGGCATACA
Found at i:2643322 original size:28 final size:27
Alignment explanation
Indices: 2643300--2643373 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 27
2643290 ACACTAGGAT
2643300 TTTAAGCCCGTTTAGCTAGCACTCATA
1 TTTAAGCCCGTTTAGCTAGCACTCATA
* *
2643327 TTTAAGCCTAGTTTAGCTAGCACTCAGA
1 TTTAAGCC-CGTTTAGCTAGCACTCATA
* *
2643355 TTTAAACCTAGTTTAGCTA
1 TTTAAGCC-CGTTTAGCTA
2643374 ACACCCAAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
27 8 0.19
28 35 0.81
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (27 bp):
TTTAAGCCCGTTTAGCTAGCACTCATA
Found at i:2643412 original size:28 final size:27
Alignment explanation
Indices: 2643381--2643437 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
2643371 CTAACACCCA
* *
2643381 AGCCCAGATGAGTTGGTACCTAAATTTT
1 AGCCCAGATGAGTTGGCACC-AAATCTT
* *
2643409 AGCCTAGATTAGTTGGCACCAAATCTT
1 AGCCCAGATGAGTTGGCACCAAATCTT
2643436 AG
1 AG
2643438 ATTAGTGGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (27 bp):
AGCCCAGATGAGTTGGCACCAAATCTT
Found at i:2648489 original size:2 final size:2
Alignment explanation
Indices: 2648482--2648525 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
2648472 TGTGTAAATC
* * *
2648482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AG AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2648524 AT
1 AT
2648526 CATGAAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2655812 original size:47 final size:47
Alignment explanation
Indices: 2655680--2655834 Score: 238
Period size: 47 Copynumber: 3.3 Consensus size: 47
2655670 CTTTGATACC
*
2655680 TTAAAATCTCATTTGAAAAAGCTCCTCTCAGCAGAGGCTTAACAACT
1 TTAAAATCTCATTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
* * *
2655727 TTAAAATTTCATCTTGGAAAAGGTTCCTCTCAGCAGAGGCTCAACAACT
1 TTAAAATCTCAT-TT-GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
*
2655776 TTAAAATCTCATATGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
1 TTAAAATCTCATTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
*
2655823 TTAAAATATCAT
1 TTAAAATCTCAT
2655835 CTTCTCTCAA
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
47 53 0.55
48 3 0.03
49 41 0.42
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (47 bp):
TTAAAATCTCATTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
Found at i:2665435 original size:22 final size:22
Alignment explanation
Indices: 2665381--2665435 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
2665371 AATCAATTAT
**
2665381 TATTAAATTAAAACTGATTTAC
1 TATTAAATTATTACTGATTTAC
2665403 TATTAAATTATTACTGATTTAC
1 TATTAAATTATTACTGATTTAC
*
2665425 TATTAAGTTAT
1 TATTAAATTAT
2665436 CAATAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (22 bp):
TATTAAATTATTACTGATTTAC
Found at i:2665502 original size:149 final size:147
Alignment explanation
Indices: 2665248--2665518 Score: 323
Period size: 149 Copynumber: 1.8 Consensus size: 147
2665238 ATGTTATTGA
* * * * * *
2665248 TGATTTCTATTAAATTATATTGATTTTTTTTAAAGTTTTCAATGATTAACTACTAAATTATCATT
1 TGATTTCTATTAAATTATACTGATTTCTATTAAAGTTATCAATAATTAACTACTAAATTATCACT
* * *
2665313 TATTTATTACTAATTTATCATTAAATTACTGCTAAGTTATTTATG-ATTTACTACTATCAATCAA
66 TATTTATTACTAAGTTATCATTAAATTACTACTAAGTTA-TTATGCATTTACAACTATCAATCAA
2665377 TTATTATTAAATTAAAAC
130 TTATTATTAAATTAAAAC
2665395 TGATTTACTATTAAATTATTACTGATTTACTATT-AAGTTATCAATAATTAACTACTAAATTATC
1 TGATTT-CTATTAAATTA-TACTGATTT-CTATTAAAGTTATCAATAATTAACTACTAAATTATC
* ** * * * **
2665459 ACTTATTTTTTGTTAAGTTATCCTTGATTTGGTACTATA-TTATTATGCATTTACAACTAT
63 ACTTATTTATTACTAAGTTATCATTAAATTACTACTA-AGTTATTATGCATTTACAACTAT
2665519 ATTATAATTG
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
147 6 0.06
148 16 0.16
149 76 0.75
150 4 0.04
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (147 bp):
TGATTTCTATTAAATTATACTGATTTCTATTAAAGTTATCAATAATTAACTACTAAATTATCACT
TATTTATTACTAAGTTATCATTAAATTACTACTAAGTTATTATGCATTTACAACTATCAATCAAT
TATTATTAAATTAAAAC
Found at i:2665598 original size:22 final size:22
Alignment explanation
Indices: 2665572--2665650 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
2665562 TATTATTACA
*
2665572 ATTTACTAAAAAGTTATCAATT
1 ATTTACTATAAAGTTATCAATT
2665594 ATTTACTACTAAA-TTATC-ATT
1 ATTTACTA-TAAAGTTATCAATT
* * *
2665615 CATTTACTATTAAGTTATCACTA
1 -ATTTACTATAAAGTTATCAATT
2665638 ATTTACTACTAAA
1 ATTTACTA-TAAA
2665651 TGATTGATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
21 6 0.13
22 34 0.72
23 7 0.15
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.43
Consensus pattern (22 bp):
ATTTACTATAAAGTTATCAATT
Found at i:2666643 original size:436 final size:429
Alignment explanation
Indices: 2665988--2666825 Score: 1200
Period size: 436 Copynumber: 1.9 Consensus size: 429
2665978 ATTGTTAAAA
*
2665988 TAGTACATAGTATATATTTTTTCATATATGTTAGTAAAGTAAAATTGCAAATAAAAGATTAAAAA
1 TAGTACATAGTATATATATTTTCATATATGTTAGTAAAGTAAAATTGCAAATAAAAGATTAAAAA
*
2666053 TTTTGAAATGTGATGCCACTAATGGAAGTAATAAACTTTGCCTTATGTTTCTATTTTAAGTATAT
66 TTTTGAAATGTGATGCCACTAATAGAAGTAATAAACTTTGCCTTATGTTTCTATTTTAAGTATAT
*
2666118 AATTTTCGGTAAAAATTTTGTTATATATATGATAAAACTAATGAGAACTAATTTACTGAATAAAA
131 AATTTTCGGTAAAAATTTTGTTATATATATGATAAAACTAATGAGAACTAATTTACTAAATAAAA
* * * *
2666183 TTTACAAAATTTAAACAAACAACAATTTTAATATATTAAAGTCTTAATAATTACCTTTGTATTCT
196 TCTACAAAAATTAAACAAACAACAATTTTAAAATATTAAAGTCATAATAATTACCTTTGTATT-T
* *
2666248 TT-ATAAAAAAAATATTTTACTAAATCAAAATATGGTATATTTTTAATGTCATTTCATTT-TTAT
260 TTCATAAAAAAAATATTCTACTAAATCAAAATATGGTATATTTTTAATG---TTGC-TTTCTTAT
** * * *
2666311 TTCCCTCATTCAAAATAACTTTTATGATATTTTGATGTCAAAT-AACTTTTTTATTCGAAAAGAG
321 TAACATCATTCAAAATAACTTTTATGATATTTTGATGTC-AATCAACTTCTCTATTCGAAAAGAG
*
2666375 TAAAGAATATTTCTTATTTTTCACAAAAAATTTCTATTGATGAAG
385 TAAAGAATATTTCGTATTTTTCACAAAAAATTTCTATTGATGAAG
* * *
2666420 TAGTACATAG-AGTATATATTTTCATATATGTTAGTATAGTACAATTGCATATAAAAGATTAAAA
1 TAGTACATAGTA-TATATATTTTCATATATGTTAGTAAAGTAAAATTGCAAATAAAAGATTAAAA
* * * *
2666484 ATTTTGAAGTGCTAATATGCCACTAATAG-AGATGATAAACTTTGCCTTATGTTTTTATTTTTAA
65 ATTTTGAAATG-T--GATGCCACTAATAGAAG-TAATAAACTTTGCCTTATGTTTCTA-TTTTAA
* *
2666548 GTATATAATTTTTGGTAAAAATTTTGTTATATATATGATAAAAGTAATGAGAACTAATTTACTAA
125 GTATATAATTTTCGGTAAAAATTTTGTTATATATATGATAAAACTAATGAGAACTAATTTACTAA
* * * *
2666613 ATAAAATCTATAAAAATTAAATAGACAACAATTTTAAAATATTAAATTCATAATAATTACCTTTG
190 ATAAAATCTACAAAAATTAAACAAACAACAATTTTAAAATATTAAAGTCATAATAATTACCTTTG
* * * *
2666678 TATTTTTCATAAAAAAAATCTTCTATTAAATGAAAATATGTTATATTTTTAATGTTGCTTTCTTA
255 TATTTTTCATAAAAAAAATATTCTACTAAATCAAAATATGGTATATTTTTAATGTTGCTTTCTTA
* * * * *
2666743 TTAACATCTTTCAAAATAACTTTTTTGATATTTTGTTGTCAATCAACTTCTCTATTTGAGAAGAG
320 TTAACATCATTCAAAATAACTTTTATGATATTTTGATGTCAATCAACTTCTCTATTCGAAAAGAG
2666808 TAAAGAATATTTCGTATT
385 TAAAGAATATTTCGTATT
2666826 CTCTATAAAA
Statistics
Matches: 360, Mismatches: 37, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
431 1 0.00
432 74 0.21
433 75 0.21
434 2 0.01
435 38 0.11
436 170 0.47
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (429 bp):
TAGTACATAGTATATATATTTTCATATATGTTAGTAAAGTAAAATTGCAAATAAAAGATTAAAAA
TTTTGAAATGTGATGCCACTAATAGAAGTAATAAACTTTGCCTTATGTTTCTATTTTAAGTATAT
AATTTTCGGTAAAAATTTTGTTATATATATGATAAAACTAATGAGAACTAATTTACTAAATAAAA
TCTACAAAAATTAAACAAACAACAATTTTAAAATATTAAAGTCATAATAATTACCTTTGTATTTT
TCATAAAAAAAATATTCTACTAAATCAAAATATGGTATATTTTTAATGTTGCTTTCTTATTAACA
TCATTCAAAATAACTTTTATGATATTTTGATGTCAATCAACTTCTCTATTCGAAAAGAGTAAAGA
ATATTTCGTATTTTTCACAAAAAATTTCTATTGATGAAG
Found at i:2668381 original size:59 final size:60
Alignment explanation
Indices: 2668238--2668781 Score: 516
Period size: 59 Copynumber: 8.9 Consensus size: 60
2668228 GAAACGATTG
* * *
2668238 AATTT-ATTTCTAAGGAAAATTGATACTTTCAACTTTTCCTAAAAAATCCTTTTTTTGAA
1 AATTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTTGAA
*
2668297 ATTTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTTGAA
1 AATTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTTGAA
**
2668357 AATTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCC-CTAAAAAT--ATTTTTTGGAA
1 AATTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATCCATTTTTT-GAA
* *
2668415 ATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTAAATTGATACTTTCAACTTTTCCCCAAAA
1 AATTTGATTTCCAAGGAAAATTGATACTTTCAAC-T---TT--T-C---C------T---CAAAA
2668480 AT--ATTTTTTTGAA
47 ATCCA-TTTTTTGAA
*
2668493 AATTT-ATTTCTAAGGAAAATTGATACTTTCAACTTTTCC-CTAAAAAT--ATTTTTTTGGAA
1 AATTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATCCA-TTTTTT-GAA
* * * *
2668552 ATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT--ATTTTTTTGGA
1 AATTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCA-TTTTTTGAA
* *
2668611 AATTT-ATTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAA
1 AATTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTTGAA
** * * *
2668670 AATTT-ATTTTTAAGGAAAATTGATACTTTCAATTTTTCCCCAAAAAT--ATTTTTTTGGA
1 AATTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCA-TTTTTTGAA
*
2668728 AATTT-ATTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTT
1 AATTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTT
2668782 TTTGGAATTT
Statistics
Matches: 423, Mismatches: 30, Indels: 66
0.82 0.06 0.13
Matches are distributed among these distances:
57 14 0.03
58 114 0.27
59 134 0.32
60 102 0.24
61 1 0.00
63 2 0.00
65 1 0.00
66 1 0.00
67 1 0.00
69 1 0.00
70 1 0.00
71 1 0.00
73 2 0.00
76 1 0.00
77 26 0.06
78 14 0.03
79 7 0.02
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (60 bp):
AATTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTTGAA
Found at i:2668445 original size:19 final size:19
Alignment explanation
Indices: 2668423--2668467 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2668413 AAATTTTGAT
*
2668423 TTTCAAGGAAAATTGATAC
1 TTTCAACGAAAATTGATAC
**
2668442 TTTCAACTTAAATTGATAC
1 TTTCAACGAAAATTGATAC
2668461 TTTCAAC
1 TTTCAAC
2668468 TTTTCCCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TTTCAACGAAAATTGATAC
Found at i:2668468 original size:19 final size:19
Alignment explanation
Indices: 2668432--2668469 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2668422 TTTTCAAGGA
2668432 AAATTGATACTTTCAACTT
1 AAATTGATACTTTCAACTT
2668451 AAATTGATACTTTCAACTT
1 AAATTGATACTTTCAACTT
2668470 TTCCCCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (19 bp):
AAATTGATACTTTCAACTT
Found at i:2668515 original size:58 final size:58
Alignment explanation
Indices: 2668451--2668782 Score: 531
Period size: 58 Copynumber: 5.7 Consensus size: 58
2668441 CTTTCAACTT
2668451 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGA
* *
2668509 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTT-TCAAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAAATTT-ATTTCT-AAGGA
*
2668569 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGA
* ** *
2668627 AAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATTTATTTTTAAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTGAAAATTTATTTCTAAGGA
* *
2668686 AAATTGATACTTTCAATTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGA
*
2668744 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
2668783 TTGGAATTTT
Statistics
Matches: 251, Mismatches: 18, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
58 137 0.55
59 67 0.27
60 47 0.19
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (58 bp):
AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGA
Found at i:2668540 original size:136 final size:137
Alignment explanation
Indices: 2668314--2668587 Score: 498
Period size: 137 Copynumber: 2.0 Consensus size: 137
2668304 TTTCCAAGGA
* *
2668314 AAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 AAATTGATACTTTCAACTTTTCCCCAAAAAT-CATTTTTTGAAAATTTATTTCTAAGGAAAATTG
2668379 ATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACT
65 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACT
2668443 TTCAACTT
130 TTCAACTT
2668451 AAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTGAAAATTTATTTCTAAGGAAAATTG
1 AAATTGATACTTTCAACTTTTCCCCAAAAATCA-TTTTTTGAAAATTTATTTCTAAGGAAAATTG
2668515 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACT
65 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACT
2668580 TTCAACTT
130 TTCAACTT
2668588 TTCCCCAAAA
Statistics
Matches: 133, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
135 1 0.01
136 56 0.42
137 76 0.57
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (137 bp):
AAATTGATACTTTCAACTTTTCCCCAAAAATCATTTTTTGAAAATTTATTTCTAAGGAAAATTGA
TACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAATTGATACTT
TCAACTT
Found at i:2668783 original size:117 final size:118
Alignment explanation
Indices: 2668451--2668783 Score: 571
Period size: 117 Copynumber: 2.8 Consensus size: 118
2668441 CTTTCAACTT
*
2668451 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
* *
2668516 TACTTTCAACTTTTCC-CTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGA
66 TACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAAATTTGATTTTCAAGGA
2668569 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
*** *
2668634 TACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATTT-ATTTTTAAGGA
66 TACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTGATTTTCAAGGA
*
2668686 AAATTGATACTTTCAATTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
2668751 TACTTTCAACTTTTCCTCAAAAATATTTTTTTT
66 TACTTTCAACTTTTCCTCAAAAATATTTTTTTT
2668784 TGGAATTTTT
Statistics
Matches: 203, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
117 104 0.51
118 98 0.48
119 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (118 bp):
AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTGATTTTCAAGGA
Found at i:2668844 original size:18 final size:17
Alignment explanation
Indices: 2668823--2668898 Score: 57
Period size: 17 Copynumber: 4.3 Consensus size: 17
2668813 TAGAATAATA
2668823 AAAAAAGTGAAAATAAAT
1 AAAAAAGT-AAAATAAAT
*
2668841 AAAAAAATAAAATAAAAT
1 AAAAAAGTAAAAT-AAAT
*
2668859 AAAGAAAAGTAAAACAAA-
1 -AA-AAAAGTAAAATAAAT
* *
2668877 AATAAAAATAAGATAAA-
1 AA-AAAAGTAAAATAAAT
2668894 AAAAA
1 AAAAA
2668899 TTAAATAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.06
17 20 0.42
18 11 0.23
19 5 0.10
20 9 0.19
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (17 bp):
AAAAAAGTAAAATAAAT
Found at i:2668847 original size:22 final size:23
Alignment explanation
Indices: 2668808--2668866 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
2668798 TTTATTTAAA
* *
2668808 GAAAATAGAATAATAAAA-AAAGT
1 GAAAATA-AATAAAAAAATAAAAT
2668831 GAAAATAAATAAAAAAATAAAAT
1 GAAAATAAATAAAAAAATAAAAT
*
2668854 -AAAATAAAGAAAA
1 GAAAATAAATAAAA
2668867 GTAAAACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.15
Consensus pattern (23 bp):
GAAAATAAATAAAAAAATAAAAT
Found at i:2668854 original size:5 final size:5
Alignment explanation
Indices: 2668819--2668907 Score: 55
Period size: 5 Copynumber: 18.2 Consensus size: 5
2668809 AAAATAGAAT
*
2668819 AATAA AA-AA AGTGAA AAT-A AAT-A AA-AA AATAA AATAA AATAA AGA-AA
1 AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA AATAA A-ATAA
* * * *
2668866 AGTAA AACAAA AATAAA AATAA GATAA AA-AA AATTA AATAA A
1 AATAA AA-TAA AAT-AA AATAA AATAA AATAA AATAA AATAA A
2668908 TCTAATCTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
4 17 0.26
5 34 0.52
6 14 0.22
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:2668872 original size:26 final size:25
Alignment explanation
Indices: 2668832--2668907 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 25
2668822 AAAAAAAGTG
2668832 AAAATAA-AT-AAAAAAATAAAAT-
1 AAAATAAGATAAAAAAAATAAAATA
2668854 AAAATAAAGA-AAAGTAAAACA-AAAATA
1 AAAAT-AAGATAAA--AAAA-ATAAAATA
*
2668881 AAAATAAGATAAAAAAAATTAAATA
1 AAAATAAGATAAAAAAAATAAAATA
2668906 AA
1 AA
2668908 TCTAATCTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
22 5 0.11
23 2 0.05
24 4 0.09
25 11 0.25
26 13 0.30
27 9 0.20
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (25 bp):
AAAATAAGATAAAAAAAATAAAATA
Found at i:2668878 original size:32 final size:32
Alignment explanation
Indices: 2668843--2668903 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2668833 AAATAAATAA
*
2668843 AAAAAT-AAAATAAAATAAAGAAAAGTAAAAC
1 AAAAATAAAAATAAAATAAAAAAAAGTAAAAC
* *
2668874 AAAAATAAAAATAAGATAAAAAAAATTAAA
1 AAAAATAAAAATAAAATAAAAAAAAGTAAA
2668904 TAAATCTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (32 bp):
AAAAATAAAAATAAAATAAAAAAAAGTAAAAC
Found at i:2668884 original size:37 final size:37
Alignment explanation
Indices: 2668819--2668898 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
2668809 AAAATAGAAT
*
2668819 AATAAAAAAAGTGAAAATAAATAAAAAAATAAAATAA
1 AATAAAAAAAGTGAAAACAAATAAAAAAATAAAATAA
*
2668856 AATAAAGAAAAGT-AAAACAAA-AATAAAAATAAGATAA
1 AATAAA-AAAAGTGAAAACAAATAA-AAAAATAAAATAA
2668893 AA-AAAA
1 AATAAAA
2668899 TTAAATAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
35 1 0.03
36 5 0.13
37 27 0.69
38 6 0.15
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.14
Consensus pattern (37 bp):
AATAAAAAAAGTGAAAACAAATAAAAAAATAAAATAA
Found at i:2668903 original size:21 final size:21
Alignment explanation
Indices: 2668832--2668899 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
2668822 AAAAAAAGTG
* * *
2668832 AAAATAAATAAAAAAATAAAAT
1 AAAATAAA-GAAAAGATAAAAC
2668854 AAAATAAAGAAAAG-TAAAAC
1 AAAATAAAGAAAAGATAAAAC
2668874 AAAAATAAA-AATAAGATAAAA-
1 -AAAATAAAGAA-AAGATAAAAC
2668895 AAAAT
1 AAAAT
2668900 TAAATAAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 12 0.30
21 15 0.38
22 13 0.32
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (21 bp):
AAAATAAAGAAAAGATAAAAC
Found at i:2668962 original size:23 final size:22
Alignment explanation
Indices: 2668919--2668972 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
2668909 CTAATCTAAT
*
2668919 AAATAAAAAAATAGAAAAAAAA
1 AAATAAACAAATAGAAAAAAAA
2668941 CAAATAAACAAATA-AATGAAAAAA
1 -AAATAAACAAATAGAA--AAAAAA
2668965 AAA-AAACA
1 AAATAAACA
2668973 TGGAGCGGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.25
23 15 0.54
24 6 0.21
ACGTcount: A:0.81, C:0.06, G:0.04, T:0.09
Consensus pattern (22 bp):
AAATAAACAAATAGAAAAAAAA
Found at i:2668967 original size:27 final size:27
Alignment explanation
Indices: 2668916--2668966 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
2668906 AATCTAATCT
*
2668916 AATAAATAAAAAAATAGAAAAAAAACA
1 AATAAACAAAAAAATAGAAAAAAAACA
*
2668943 AATAAACAAATAAAT-GAAAAAAAA
1 AATAAACAAAAAAATAGAAAAAAAA
2668967 AAAACATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (27 bp):
AATAAACAAAAAAATAGAAAAAAAACA
Found at i:2669878 original size:31 final size:31
Alignment explanation
Indices: 2669833--2669907 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
2669823 TAATTAGAAC
** *
2669833 AGATAAATCGAAAAAAAACAGATATATTA-T
1 AGATAAATAAAAAAAAAACAGATATATAATT
* *
2669863 AGGATAAATAAAAAAATAATAGATATATAATT
1 A-GATAAATAAAAAAAAAACAGATATATAATT
2669895 AGATAAATAAAAA
1 AGATAAATAAAAA
2669908 TACAAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 1 0.03
31 35 0.92
32 2 0.05
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (31 bp):
AGATAAATAAAAAAAAAACAGATATATAATT
Found at i:2669926 original size:17 final size:18
Alignment explanation
Indices: 2669897--2669935 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2669887 ATATAATTAG
2669897 ATAAATAAAAATACAAAA
1 ATAAATAAAAATACAAAA
*
2669915 ATAAAT-AAAATATAAAA
1 ATAAATAAAAATACAAAA
2669932 ATAA
1 ATAA
2669936 TAATAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAAATAAAAATACAAAA
Found at i:2669958 original size:23 final size:23
Alignment explanation
Indices: 2669918--2669980 Score: 62
Period size: 25 Copynumber: 2.8 Consensus size: 23
2669908 TACAAAAATA
2669918 AATAA-AATATAAA-A-ATAA-T
1 AATAATAATATAAATATATAACT
2669937 AATAATAATAATAAATATATAACT
1 AATAATAAT-ATAAATATATAACT
*
2669961 ATATAAATAATATACATATA
1 A-AT-AATAATATAAATATA
2669981 AATCTATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 5 0.14
20 3 0.08
21 5 0.14
22 1 0.03
23 4 0.11
24 2 0.06
25 10 0.28
26 6 0.17
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAATAATATAAATATATAACT
Found at i:2669963 original size:8 final size:8
Alignment explanation
Indices: 2669866--2670052 Score: 63
Period size: 8 Copynumber: 24.6 Consensus size: 8
2669856 ATATTATAGG
*
2669866 ATAAATAA
1 ATAAATAT
*
2669874 AAAAATA-
1 ATAAATAT
*
2669881 ATAGATAT
1 ATAAATAT
* *
2669889 ATAATTAG
1 ATAAATAT
2669897 ATAAATA-
1 ATAAATAT
*
2669904 A-AAATAC
1 ATAAATAT
* *
2669911 AAAAATAA
1 ATAAATAT
2669919 ATAAA-AT
1 ATAAATAT
*
2669926 ATAAAAAT
1 ATAAATAT
2669934 A-ATAATA-
1 ATA-AATAT
2669941 AT-AATA-
1 ATAAATAT
2669947 ATAAATAT
1 ATAAATAT
*
2669955 ATAACTAT
1 ATAAATAT
2669963 ATAAATA-
1 ATAAATAT
* *
2669970 ATATACAT
1 ATAAATAT
*
2669978 ATAAATCT
1 ATAAATAT
** *
2669986 AT-TCTAA
1 ATAAATAT
* *
2669993 ATAAAAAA
1 ATAAATAT
*
2670001 ATAAATAA
1 ATAAATAT
* *
2670009 ATACAGAT
1 ATAAATAT
*
2670017 ATACATAT
1 ATAAATAT
*
2670025 ATTAATA-
1 ATAAATAT
2670032 ATAAATAT
1 ATAAATAT
* *
2670040 AAAAATAC
1 ATAAATAT
2670048 ATAAA
1 ATAAA
2670053 ATACAAAAGA
Statistics
Matches: 132, Mismatches: 36, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
6 11 0.08
7 33 0.25
8 88 0.67
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (8 bp):
ATAAATAT
Found at i:2670258 original size:26 final size:26
Alignment explanation
Indices: 2670213--2670283 Score: 62
Period size: 25 Copynumber: 2.8 Consensus size: 26
2670203 TACTTATTTA
2670213 TTTATTTATT-TTTCCT-TTTTCTGA-GG
1 TTTATTTATTATTT--TATTTT-TGATGG
*
2670239 TTTATTTATTATTTTA-TTTTGATTG
1 TTTATTTATTATTTTATTTTTGATGG
2670264 TTTATCTT-TTATTTTATTTT
1 TTTAT-TTATTATTTTATTTT
2670284 ATTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
24 3 0.08
25 18 0.46
26 15 0.38
27 3 0.08
ACGTcount: A:0.15, C:0.06, G:0.07, T:0.72
Consensus pattern (26 bp):
TTTATTTATTATTTTATTTTTGATGG
Found at i:2670275 original size:25 final size:24
Alignment explanation
Indices: 2670238--2670294 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
2670228 TTTTTCTGAG
2670238 GTTTATTTATTATTTTATTTTGATT
1 GTTTATTTATTATTTTATTTT-ATT
2670263 GTTTATCTT-TTATTTTATTTTATT
1 GTTTAT-TTATTATTTTATTTTATT
*
2670287 TTTTATTT
1 GTTTATTT
2670295 GATTTATCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 2 0.07
24 8 0.27
25 18 0.60
26 2 0.07
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (24 bp):
GTTTATTTATTATTTTATTTTATT
Found at i:2670598 original size:11 final size:12
Alignment explanation
Indices: 2670574--2670599 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2670564 GATCCCGATA
2670574 TTTTTAGAATTT
1 TTTTTAGAATTT
2670586 TTTTTAGAATTT
1 TTTTTAGAATTT
2670598 TT
1 TT
2670600 GGGCATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTTAGAATTT
Found at i:2671261 original size:57 final size:56
Alignment explanation
Indices: 2671164--2671357 Score: 239
Period size: 57 Copynumber: 3.4 Consensus size: 56
2671154 TAAAAATATA
* * *
2671164 TAAAATAAAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAT-AAAATTTC--ATAAAAACATTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCT
2671224 TGAAAATAAAATTTC-TAAAAACTATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCT
1 T-AAAATAAAATTTCATAAAAAC-ATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCT
* * *
2671281 TGAAAATAAAATTTCTTAAAAACATTTTTAAGAAAAGTTAAAAGTATCAATTTTTCT
1 T-AAAATAAAATTTCATAAAAACATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCT
*
2671338 TAGAAATAAATTTTC-TAAAA
1 TA-AAATAAAATTTCATAAAA
2671358 TAAAAATTTC
Statistics
Matches: 124, Mismatches: 6, Indels: 12
0.87 0.04 0.08
Matches are distributed among these distances:
56 6 0.05
57 91 0.73
58 13 0.10
60 9 0.07
61 5 0.04
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.37
Consensus pattern (56 bp):
TAAAATAAAATTTCATAAAAACATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCT
Found at i:2671359 original size:71 final size:70
Alignment explanation
Indices: 2671283--2671422 Score: 176
Period size: 70 Copynumber: 2.0 Consensus size: 70
2671273 ATTTTTCTTG
* *
2671283 AAAAT-AAAATTTCTTAAAAACATTTTTAAGAAAAGTTAAAAGTATCAATTTTTCTTAGAAA-TA
1 AAAATAAAAATTTC--AAAAACAATTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTA-AAATTA
*
2671346 AATTTTCT
63 AAATTTCT
* * * *
2671354 AAAATAAAAATTTCCAAAGCAATTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAA
1 AAAATAAAAATTTCAAAAACAATTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAATTAAAA
2671419 TTTC
66 TTTC
2671423 AGAAAAAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
69 3 0.05
70 44 0.73
71 5 0.08
72 8 0.13
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (70 bp):
AAAATAAAAATTTCAAAAACAATTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAATTAAAA
TTTCT
Found at i:2671509 original size:62 final size:60
Alignment explanation
Indices: 2671369--2671541 Score: 233
Period size: 60 Copynumber: 2.9 Consensus size: 60
2671359 AAAAATTTCC
* *
2671369 AAAGCAATTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATTTCAGAAAA
1 AAAGCATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAATTTCAGAAAA
* * * *
2671429 AAAGCATTTTGAGAAAAAGTTGGAAGTACCAATTTTTCTTAAAAAATAAAAATTATCA-AGAA
1 AAAGCATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT--AAAATAAAAATT-TCAGAAAA
*
2671491 AAA-CATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAAT
1 AAAGCA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAAT
2671542 CTACAAATGC
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
60 47 0.47
61 2 0.02
62 47 0.47
63 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (60 bp):
AAAGCATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAATTTCAGAAAA
Found at i:2673954 original size:51 final size:51
Alignment explanation
Indices: 2673894--2674002 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
2673884 TAAATTAAAA
* *
2673894 ATTTATAAAAAAAAAAAATTACTAATGATATTTTAGTCAATCATTTTTAAT
1 ATTTTTAAAAAAAAAAAATTACTAAGGATATTTTAGTCAATCATTTTTAAT
** ** * * *
2673945 ATTTTTAAAATTAAAATTTTATTAAGGGTATTTTAGTCAATCATTTTTAGT
1 ATTTTTAAAAAAAAAAAATTACTAAGGATATTTTAGTCAATCATTTTTAAT
2673996 ACTTTTT
1 A-TTTTT
2674003 TAGTCTTATT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
51 43 0.90
52 5 0.10
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (51 bp):
ATTTTTAAAAAAAAAAAATTACTAAGGATATTTTAGTCAATCATTTTTAAT
Found at i:2678780 original size:52 final size:52
Alignment explanation
Indices: 2678694--2678850 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
2678684 TATAACCATA
* * *
2678694 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
2678746 CAAACTTGCCTATTAAAAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * **
2678798 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTTTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCCTGCAAGT
2678850 C
1 C
2678851 TTCTTGTCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 89 0.96
53 4 0.04
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:2678891 original size:11 final size:11
Alignment explanation
Indices: 2678875--2678914 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
2678865 GCAATATCTG
2678875 ACAAATCCCAA
1 ACAAATCCCAA
* *
2678886 ACAAATCTCTA
1 ACAAATCCCAA
2678897 ACAAATCCCAA
1 ACAAATCCCAA
2678908 ACAAATC
1 ACAAATC
2678915 TCTTATGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.15
Consensus pattern (11 bp):
ACAAATCCCAA
Found at i:2678900 original size:22 final size:22
Alignment explanation
Indices: 2678875--2678917 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2678865 GCAATATCTG
2678875 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
2678897 ACAAATCCCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
2678918 TATGGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.19
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:2679881 original size:52 final size:52
Alignment explanation
Indices: 2679791--2679947 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
2679781 TATAACCATA
* * * *
2679791 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAAAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
2679843 CAAACTTGCCTATTAAAAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * **
2679895 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTTTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCCTGCAAGT
2679947 C
1 C
2679948 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 88 0.96
53 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:2679988 original size:11 final size:11
Alignment explanation
Indices: 2679972--2680011 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
2679962 GCAATATCTG
2679972 ACAAATCCCAA
1 ACAAATCCCAA
* *
2679983 ACAAATCTCTA
1 ACAAATCCCAA
2679994 ACAAATCCCAA
1 ACAAATCCCAA
2680005 ACAAATC
1 ACAAATC
2680012 TCTTATGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.15
Consensus pattern (11 bp):
ACAAATCCCAA
Found at i:2679997 original size:22 final size:22
Alignment explanation
Indices: 2679972--2680014 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2679962 GCAATATCTG
2679972 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
2679994 ACAAATCCCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
2680015 TATGGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.19
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:2680310 original size:50 final size:50
Alignment explanation
Indices: 2680255--2680356 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 50
2680245 AAATCATGCA
* *
2680255 CTTCCCAAACCTCGAA-CTATCAACTCTTCCCATGTTTCGAACCATCGGCT
1 CTTCCCAAACCTCGAATCT-TCAACTCTTCCCACGTTTCGAACCATCAGCT
* * * * *
2680305 CTTCCCACATCTTGAATCTTCAACTCTTCTCACGTTTCGAACCTTCAGCT
1 CTTCCCAAACCTCGAATCTTCAACTCTTCCCACGTTTCGAACCATCAGCT
2680355 CT
1 CT
2680357 GATATCACTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.22, C:0.37, G:0.09, T:0.32
Consensus pattern (50 bp):
CTTCCCAAACCTCGAATCTTCAACTCTTCCCACGTTTCGAACCATCAGCT
Found at i:2680350 original size:25 final size:25
Alignment explanation
Indices: 2680266--2680356 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
2680256 TTCCCAAACC
*
2680266 TCGAA-CTATCAACTCTTCCCATGTT
1 TCGAACCT-TCAACTCTTCCCACGTT
* ** *
2680291 TCGAACCATCGGCTCTTCCCACATCT
1 TCGAACCTTCAACTCTTCCCACGT-T
* *
2680317 T-GAATCTTCAACTCTTCTCACGTT
1 TCGAACCTTCAACTCTTCCCACGTT
*
2680341 TCGAACCTTCAGCTCT
1 TCGAACCTTCAACTCT
2680357 GATATCACTT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
24 2 0.04
25 45 0.90
26 3 0.06
ACGTcount: A:0.21, C:0.35, G:0.10, T:0.34
Consensus pattern (25 bp):
TCGAACCTTCAACTCTTCCCACGTT
Found at i:2680978 original size:52 final size:52
Alignment explanation
Indices: 2680888--2681044 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
2680878 TATAACCATA
* * * *
2680888 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAAAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
2680940 CAAACTTGCCTATTAAAAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* **
2680992 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCCTGCAAGT
2681044 C
1 C
2681045 TTCTTGTCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 89 0.96
53 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:2681094 original size:22 final size:22
Alignment explanation
Indices: 2681069--2681119 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2681059 GCAATATCTG
*
2681069 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCAA
2681091 ACAAATCCCAAACAAATCTCAA
1 ACAAATCCCAAACAAATCTCAA
2681113 ACAAATC
1 ACAAATC
2681120 TCTTATGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCAA
Found at i:2681120 original size:11 final size:11
Alignment explanation
Indices: 2681069--2681121 Score: 79
Period size: 11 Copynumber: 4.8 Consensus size: 11
2681059 GCAATATCTG
*
2681069 ACAAATCCCAA
1 ACAAATCTCAA
*
2681080 ACAAATCTCTA
1 ACAAATCTCAA
*
2681091 ACAAATCCCAA
1 ACAAATCTCAA
2681102 ACAAATCTCAA
1 ACAAATCTCAA
2681113 ACAAATCTC
1 ACAAATCTC
2681122 TTATGAGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:2682436 original size:19 final size:19
Alignment explanation
Indices: 2682386--2682436 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
2682376 AAACTATATT
* *
2682386 TTTTTTAACATTTAAAATTC
1 TTTTTT-ACTTTTAAAATTA
2682406 TTTTTATA-TTTTAAAATTA
1 TTTTT-TACTTTTAAAATTA
2682425 TTTTTTACTTTT
1 TTTTTTACTTTT
2682437 TAATATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.07
19 18 0.67
20 6 0.22
21 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTACTTTTAAAATTA
Found at i:2682571 original size:2 final size:2
Alignment explanation
Indices: 2682564--2682588 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2682554 ATGAAAAGAG
2682564 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
2682589 TCAAAAAATA
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:2684527 original size:17 final size:17
Alignment explanation
Indices: 2684505--2684558 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
2684495 TAATATAATA
2684505 AATAAATTTTATTATAT
1 AATAAATTTTATTATAT
2684522 AATAAA--TTA--ATA-
1 AATAAATTTTATTATAT
*
2684534 AATATATTTTATTATAT
1 AATAAATTTTATTATAT
2684551 AATAAATT
1 AATAAATT
2684559 AATAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 5 0.17
13 3 0.10
14 3 0.10
15 3 0.10
16 3 0.10
17 13 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATAAATTTTATTATAT
Found at i:2684537 original size:29 final size:29
Alignment explanation
Indices: 2684500--2684578 Score: 131
Period size: 29 Copynumber: 2.7 Consensus size: 29
2684490 TAATTTAATA
2684500 TAATAAATAAATTTTATTATATAATAAAT
1 TAATAAATAAATTTTATTATATAATAAAT
*
2684529 TAATAAATATATTTTATTATATAATAAAT
1 TAATAAATAAATTTTATTATATAATAAAT
*
2684558 TAATAAATAAATGTTAATTAT
1 TAATAAATAAAT-TTTATTAT
2684579 TTATTAACAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 39 0.85
30 7 0.15
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
TAATAAATAAATTTTATTATATAATAAAT
Found at i:2684756 original size:16 final size:16
Alignment explanation
Indices: 2684730--2684767 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
2684720 AAATTTTTAA
2684730 TATTGTTAATGATAATT
1 TATT-TTAATGATAATT
*
2684747 TATTTTAATGATCATT
1 TATTTTAATGATAATT
2684763 TATTT
1 TATTT
2684768 ACATCCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (16 bp):
TATTTTAATGATAATT
Found at i:2684845 original size:24 final size:22
Alignment explanation
Indices: 2684786--2684851 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 22
2684776 ACATATATCT
*
2684786 TATTATTATTTTTAATCTCATC
1 TATTATTATTTTTAATTTCATC
* **
2684808 -ATTATAATAATTAATTTGACATC
1 TATTATTATTTTTAATTT--CATC
2684831 TATTATTATTTTTAATTTCAT
1 TATTATTATTTTTAATTTCAT
2684852 AAAAATTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 13 0.38
22 3 0.09
23 4 0.12
24 14 0.41
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATTATTTTTAATTTCATC
Found at i:2684861 original size:39 final size:44
Alignment explanation
Indices: 2684786--2684866 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
2684776 ACATATATCT
*
2684786 TATTATTATTTTTAATCTCATCATTATAATAATTAATTTGACATC
1 TATTATTATTTTTAATCT-ATCATTATAATAATTAATCTGACATC
2684831 TATTATTATTTTTAAT-T-TCA-TA-AA-AATTAATCTGAC
1 TATTATTATTTTTAATCTATCATTATAATAATTAATCTGAC
2684867 TATTCATCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
39 11 0.31
40 2 0.06
41 2 0.06
42 3 0.09
44 1 0.03
45 16 0.46
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (44 bp):
TATTATTATTTTTAATCTATCATTATAATAATTAATCTGACATC
Found at i:2686288 original size:15 final size:15
Alignment explanation
Indices: 2686271--2686315 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
2686261 AATTCTAAAA
2686271 TTTTTATATTTTTTATT
1 TTTTTA-ATTTTTTA-T
*
2686288 TTTTTAATTTTTAAT
1 TTTTTAATTTTTTAT
2686303 TTTTTAATTTTTT
1 TTTTTAATTTTTT
2686316 TTGTTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 13 0.50
16 7 0.27
17 6 0.23
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTAATTTTTTAT
Found at i:2686296 original size:24 final size:24
Alignment explanation
Indices: 2686269--2686316 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
2686259 TTAATTCTAA
2686269 AATTTTTATATTTTTT-ATTTTTTT
1 AATTTTTA-ATTTTTTAATTTTTTT
2686293 AATTTTTAATTTTTTAATTTTTTT
1 AATTTTTAATTTTTTAATTTTTTT
2686317 TGTTTGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (24 bp):
AATTTTTAATTTTTTAATTTTTTT
Found at i:2686307 original size:8 final size:8
Alignment explanation
Indices: 2686271--2686315 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
2686261 AATTCTAAAA
2686271 TTTTTATAT
1 TTTTTA-AT
*
2686280 TTTTTATT
1 TTTTTAAT
2686288 TTTTTAA-
1 TTTTTAAT
2686295 TTTTTAAT
1 TTTTTAAT
2686303 TTTTTAAT
1 TTTTTAAT
2686311 TTTTT
1 TTTTT
2686316 TTGTTTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 7 0.21
8 20 0.61
9 6 0.18
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTAAT
Found at i:2687354 original size:9 final size:9
Alignment explanation
Indices: 2687342--2687397 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
2687332 CGAAAATAAG
2687342 AAAATAATA
1 AAAATAATA
2687351 AAAATAATA
1 AAAATAATA
2687360 AAAATAAT-
1 AAAATAATA
2687368 --AATAA-A
1 AAAATAATA
2687374 AAAATAATA
1 AAAATAATA
2687383 AAAATAATA
1 AAAATAATA
2687392 ATAAAT
1 A-AAAT
2687398 TAAAATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
6 5 0.12
8 5 0.12
9 28 0.67
10 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATAATA
Found at i:2687359 original size:3 final size:3
Alignment explanation
Indices: 2687344--2687395 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
2687334 AAAATAAGAA
* * * *
2687344 AAT AAT AAA AAT AAT AAA AAT AAT AAT AA- AAA AAT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2687391 AAT AA
1 AAT AA
2687396 ATTAAAATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:2687365 original size:6 final size:6
Alignment explanation
Indices: 2687342--2687427 Score: 61
Period size: 6 Copynumber: 14.5 Consensus size: 6
2687332 CGAAAATAAG
* * *
2687342 AAAATA ATAAA-A ATAATA AAAATA ATAATA AAAA-A ATAATA AAAATA
1 AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * * *
2687389 ATAAT- AAATTA AAATTA AAATTA AAAATTA AAACTA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAA
2687428 TTGGGCCAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
5 9 0.14
6 47 0.73
7 8 0.12
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.24
Consensus pattern (6 bp):
AAAATA
Found at i:2687378 original size:32 final size:33
Alignment explanation
Indices: 2687336--2687397 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
2687326 AAATAGCGAA
*
2687336 AATAAGAAAATAATAAAAATAATAA-AAATAAT
1 AATAAAAAAATAATAAAAATAATAATAAATAAT
2687368 AATAAAAAAATAATAAAAATAATAATAAAT
1 AATAAAAAAATAATAAAAATAATAATAAAT
2687398 TAAAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (33 bp):
AATAAAAAAATAATAAAAATAATAATAAATAAT
Found at i:2687380 original size:23 final size:23
Alignment explanation
Indices: 2687344--2687396 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
2687334 AAAATAAGAA
2687344 AATAATAAAAATAATAAAAATAAT
1 AATAA-AAAAATAATAAAAATAAT
2687368 AATAAAAAAATAATAAAAATAAT
1 AATAAAAAAATAATAAAAATAAT
2687391 AATAAA
1 AATAAA
2687397 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (23 bp):
AATAAAAAAATAATAAAAATAAT
Found at i:2687407 original size:23 final size:23
Alignment explanation
Indices: 2687358--2687427 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
2687348 ATAAAAATAA
2687358 TAAAAATAATAATAAA--AAAAT
1 TAAAAATAATAATAAATTAAAAT
2687379 AATAAAAATAATAATAAATTAAAAT
1 --TAAAAATAATAATAAATTAAAAT
*
2687404 T-AAAAT--TAA-AAATTAAAAC
1 TAAAAATAATAATAAATTAAAAT
2687423 TAAAA
1 TAAAA
2687428 TTGGGCCAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
19 10 0.23
20 6 0.14
22 5 0.12
23 17 0.40
25 5 0.12
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (23 bp):
TAAAAATAATAATAAATTAAAAT
Found at i:2687417 original size:13 final size:13
Alignment explanation
Indices: 2687394--2687427 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2687384 AAATAATAAT
2687394 AAATT-AAAATTA
1 AAATTAAAAATTA
2687406 AAATTAAAAATTA
1 AAATTAAAAATTA
*
2687419 AAACTAAAA
1 AAATTAAAA
2687428 TTGGGCCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATTAAAAATTA
Found at i:2687721 original size:40 final size:40
Alignment explanation
Indices: 2687642--2687910 Score: 348
Period size: 40 Copynumber: 6.8 Consensus size: 40
2687632 AACTCTTCTA
* * * *
2687642 AATAGAAGCAACAAAC-TTAAAAAATAAATGGCTCTTCTG
1 AATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTG
* * *
2687681 AATAGAGGCAACGGACTTTGAAAAATAAATAGCTCCTCTG
1 AATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTG
* * *
2687721 AATAGAGGTAATGAACTTTGAAAAATAAATGGCTCATTTG
1 AATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTG
*
2687761 AATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATTTG
1 AATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTG
2687801 AATAGAGGCAAC-AGACTTTGAAAAAATAAATGGCTTC-TCTG
1 AATAGAGGCAACGA-ACTTTG-AAAAATAAATGGC-TCATCTG
* * *
2687842 AATAGAGGCAACAAACTTGGAAAAATAAACGGCTCATCTG
1 AATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTG
*
2687882 AATAGAGGCAACGAACTTTG-AGAATAAAT
1 AATAGAGGCAACGAACTTTGAAAAATAAAT
2687911 AAATACTCAT
Statistics
Matches: 203, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
39 23 0.11
40 144 0.71
41 33 0.16
42 3 0.01
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (40 bp):
AATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTG
Found at i:2687779 original size:80 final size:78
Alignment explanation
Indices: 2687661--2687910 Score: 331
Period size: 81 Copynumber: 3.1 Consensus size: 78
2687651 AACAAACTTA
* * *
2687661 AAAAATAAATGGCTCTTCTGAATAGAGGCAACGGACTTTGAAAAATAAATAGCTCCTCTGAATAG
1 AAAAATAAATGGCTCTT-TGAATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTGAATAG
*
2687726 AGGTAATGAACTTTG
65 AGGCAA-GAACTTTG
*
2687741 AAAAATAAATGGCTCATTTGAATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATTTGAATAG
1 AAAAATAAATGGCTC-TTTGAATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTGAATAG
*
2687806 AGGCAACAGACTTTG
65 AGGCAAGA-ACTTTG
* * * *
2687821 AAAAAATAAATGGCTTCTCTGAATAGAGGCAACAAACTTGGAAAAATAAACGGCTCATCTGAATA
1 -AAAAATAAATGGC-TCTTTGAATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTGAATA
2687886 GAGGCAACGAACTTTG
64 GAGGCAA-GAACTTTG
*
2687902 -AGAATAAAT
1 AAAAATAAAT
2687911 AAATACTCAT
Statistics
Matches: 152, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
79 9 0.06
80 69 0.45
81 71 0.47
82 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (78 bp):
AAAAATAAATGGCTCTTTGAATAGAGGCAACGAACTTTGAAAAATAAATGGCTCATCTGAATAGA
GGCAAGAACTTTG
Found at i:2691251 original size:5 final size:5
Alignment explanation
Indices: 2691241--2691316 Score: 61
Period size: 5 Copynumber: 14.6 Consensus size: 5
2691231 TTTCAATTTG
2691241 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTT- TTTTA -TTTA TTCTGTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TT-T-TA
2691287 TTCTGTA TTTTA TGTATTA -TTTA -TTTA TTT
1 TT-T-TA TTTTA T-T-TTA TTTTA TTTTA TTT
2691317 ATCTATTATT
Statistics
Matches: 63, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
4 15 0.24
5 26 0.41
6 8 0.13
7 14 0.22
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:2691391 original size:14 final size:14
Alignment explanation
Indices: 2691311--2691434 Score: 73
Period size: 14 Copynumber: 9.0 Consensus size: 14
2691301 TATTATTTAT
2691311 TTATTTATCTATTA
1 TTATTTATCTATTA
*
2691325 TTA-TTATTTATTA
1 TTATTTATCTATTA
* * *
2691338 --ATATATATATTT
1 TTATTTATCTATTA
* * *
2691350 TTATCTGTTTATATA
1 TTATTTATCTAT-TA
*
2691365 TCTA-TTATATATTA
1 T-TATTTATCTATTA
2691379 TTATTTATCTATTA
1 TTATTTATCTATTA
2691393 TTA-TTAT-TATTTA
1 TTATTTATCTA-TTA
2691406 TCTATTTA-CATATTA
1 T-TATTTATC-TATTA
*
2691421 TCATTTATCTATTA
1 TTATTTATCTATTA
2691435 ATATATATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 24
0.70 0.11 0.20
Matches are distributed among these distances:
11 1 0.01
12 9 0.11
13 19 0.22
14 37 0.44
15 15 0.18
16 4 0.05
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (14 bp):
TTATTTATCTATTA
Found at i:2691422 original size:68 final size:66
Alignment explanation
Indices: 2691311--2691443 Score: 160
Period size: 68 Copynumber: 2.0 Consensus size: 66
2691301 TATTATTTAT
* * * *
2691311 TTATTTATCTATTATTATTATTTATTAATATATATATTTTTATCTGTTTATATATCTATTATATA
1 TTATTTATCTATTATTATTATTTATTAATATATATAATATTATC-ATTTATATAT-TAATATATA
2691376 TTA
64 TTA
* * * *
2691379 TTATTTATCTATTATTATTA-TTATTTATCTATTTACATATTATCATTTATCTATTAATATATAT
1 TTATTTATCTATTATTATTATTTATTAATATATATA-ATATTATCATTTATATATTAATATATAT
2691443 T
65 T
2691444 TTTTATTTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 10 0.18
67 20 0.36
68 26 0.46
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (66 bp):
TTATTTATCTATTATTATTATTTATTAATATATATAATATTATCATTTATATATTAATATATATT
A
Found at i:2691427 original size:42 final size:42
Alignment explanation
Indices: 2691358--2691449 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
2691348 TTTTATCTGT
* * * *
2691358 TTATATATCTATTATATATTATTATTTATCTATTATTAT-TA
1 TTATTTATCTATTACATATTATCATTTATCTATTAATATATA
2691399 TTATTTATCTATTTACATATTATCATTTATCTATTAATATATA
1 TTATTTATCTA-TTACATATTATCATTTATCTATTAATATATA
*
2691442 TTTTTTAT
1 TTATTTAT
2691450 TTTATTTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 10 0.23
42 25 0.57
43 9 0.20
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (42 bp):
TTATTTATCTATTACATATTATCATTTATCTATTAATATATA
Found at i:2691454 original size:68 final size:69
Alignment explanation
Indices: 2691304--2691451 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 69
2691294 TTTTATGTAT
* * *
2691304 TATTTATTTATTTATCTATTATTATTATTTATTAATATATATATTTTTATCTGTTTATATATCTA
1 TATTT-TTTATTTATCTATTATTATTATTTATTAATATATATAATATTATCTATTTATATATCTA
*
2691369 TTATA
65 ATATA
* * * * *
2691374 TA-TTATTATTTATCTATTATTATTA-TTATTTATCTATTTACATATTATC-ATTTATCTAT-TA
1 TATTTTTTATTTATCTATTATTATTATTTATTAATATATATA-ATATTATCTATTTATATATCTA
2691435 ATATA
65 ATATA
2691440 TATTTTTTATTT
1 TATTTTTTATTT
2691452 TATTTTATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
66 8 0.12
67 28 0.42
68 26 0.39
69 2 0.03
70 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (69 bp):
TATTTTTTATTTATCTATTATTATTATTTATTAATATATATAATATTATCTATTTATATATCTAA
TATA
Found at i:2692321 original size:22 final size:22
Alignment explanation
Indices: 2692275--2692321 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
2692265 TTTTCATTTT
*
2692275 TTATTATTTATTATTGTTATTA
1 TTATTATTTATTATTGTTATGA
2692297 TTATTA-TTATTTATTGATTA-GA
1 TTATTATTTA-TTATTG-TTATGA
2692319 TTA
1 TTA
2692322 GAATTGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 3 0.14
22 16 0.73
23 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (22 bp):
TTATTATTTATTATTGTTATGA
Found at i:2692347 original size:5 final size:5
Alignment explanation
Indices: 2692337--2692372 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
2692327 GTTTAATACT
2692337 TTTTA TTTTA TTTTTAA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA -TTTT-A TTTTA TTTTA TTTTA TTTT
2692373 CTTTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 20 0.69
6 8 0.28
7 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:2692461 original size:60 final size:59
Alignment explanation
Indices: 2692389--2692603 Score: 228
Period size: 60 Copynumber: 3.7 Consensus size: 59
2692379 ATAAAATTCA
* * *
2692389 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTTCT
*
2692449 AAAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTT-T
1 AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCT
*** * * *
2692507 CAAAAGTGA-ATTTTTGAAGAAAAATTGAAAGTATCAATATTT-CTCAAAATTAAAG-TTCT
1 -AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAAT-TTTCCTTAAAAAT-AAGTTTCT
* * *
2692566 --AAAATATATTTTAG-GGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
2692604 TCCTGTACAA
Statistics
Matches: 133, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
55 3 0.02
56 22 0.17
57 6 0.05
58 37 0.28
59 15 0.11
60 50 0.38
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (59 bp):
AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCT
Found at i:2703029 original size:23 final size:21
Alignment explanation
Indices: 2703009--2703062 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 21
2702999 GCTTGAAATG
2703009 AAAAAAAAAATAAAAATGAAA
1 AAAAAAAAAATAAAAATGAAA
*
2703030 AAAGAATAAAAATGAAAATGAAA
1 AAA-AA-AAAAATAAAAATGAAA
2703053 AAAAAAAAAA
1 AAAAAAAAAA
2703063 GTGAATGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 8 0.27
22 4 0.13
23 18 0.60
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.09
Consensus pattern (21 bp):
AAAAAAAAAATAAAAATGAAA
Found at i:2703058 original size:17 final size:17
Alignment explanation
Indices: 2703004--2703047 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
2702994 ACTATGCTTG
2703004 AAATGAAAAAAAAAATAA
1 AAATG-AAAAAAAAATAA
*
2703022 AAATGAAAAAAGAATAA
1 AAATGAAAAAAAAATAA
2703039 AAATGAAAA
1 AAATGAAAA
2703048 TGAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (17 bp):
AAATGAAAAAAAAATAA
Found at i:2704111 original size:44 final size:43
Alignment explanation
Indices: 2704051--2704342 Score: 233
Period size: 43 Copynumber: 6.8 Consensus size: 43
2704041 GGAGCATTTA
* *
2704051 TTTTCAAAAGTTGTTGAGCCTCTGA-TAAAGGAGCTTTGTTTATGT
1 TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGC-TTGTTTAT-T
* * **
2704096 TTTTCAAAGTCGTTGAGTCTCTGTTTAGAGGAGC-AATTTA-T
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGTTTATT
* * * *
2704137 TTTTCAAAAGTCATTGAGCCTCTGATTATATGAGCCT-TTTATT
1 TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGTTTATT
* * * * ** *
2704180 TTTTAAAAAAGTCATTAAGCCTCTGATTAGATGAGC--CATT-TG
1 TTTT--CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGTTTATT
*
2704222 TTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTA-T
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC-TTGTTTATT
* * *
2704265 CTTTCAAAGTCGTAGAGCCTCTGATTAGATGAGCTTTGTTTATGT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC-TTGTTTAT-T
*
2704310 TTTTCAAAGTCATTGAGCCTCT-ACTTAGAGGAG
1 TTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGAG
2704343 TTTTAATCAG
Statistics
Matches: 200, Mismatches: 33, Indels: 28
0.77 0.13 0.11
Matches are distributed among these distances:
40 25 0.12
41 6 0.03
42 33 0.17
43 51 0.25
44 44 0.22
45 41 0.20
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (43 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTGTTTATT
Found at i:2704154 original size:42 final size:42
Alignment explanation
Indices: 2704040--2704342 Score: 201
Period size: 44 Copynumber: 7.1 Consensus size: 42
2704030 ACAATCTTCA
** *
2704040 AGGAG-CATTTA-TTTTCAAAAGTTGTTGAGCCTCTGA-TAA
1 AGGAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAG
** * * *
2704079 AGGAGCTTTGTTTATGTTTTTC-AAAGTCGTTGAGTCTCTGTTTAG
1 AGGAGC--CATTTA--TTTTTCAAAAGTCATTGAGCCTCTGATTAG
* *
2704124 AGGAGCAATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAT
1 AGGAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAG
* * * *
2704166 ATGAGCCTTTTATTTTTTAAAAAAGTCATTAAGCCTCTGATTAG
1 AGGAGCCATTTA-TTTTT-CAAAAGTCATTGAGCCTCTGATTAG
* * *
2704210 ATGAGCCATTT-GTTTTCAAAA-TCGTTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAG
** * * *
2704250 AGGAGCTTTGTTTATCTTTC-AAAGTCGTAGAGCCTCTGATTAG
1 AGGAGC--CATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAG
* **
2704293 ATGAGCTTTGTTTATGTTTTTC-AAAGTCATTGAGCCTCT-ACTTAG
1 AGGAGC--CATTTA--TTTTTCAAAAGTCATTGAGCCTCTGA-TTAG
2704338 AGGAG
1 AGGAG
2704343 TTTTAATCAG
Statistics
Matches: 213, Mismatches: 34, Indels: 28
0.77 0.12 0.10
Matches are distributed among these distances:
39 5 0.02
40 22 0.10
41 10 0.05
42 42 0.20
43 44 0.21
44 49 0.23
45 41 0.19
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (42 bp):
AGGAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAG
Found at i:2704154 original size:86 final size:85
Alignment explanation
Indices: 2704040--2704331 Score: 276
Period size: 86 Copynumber: 3.4 Consensus size: 85
2704030 ACAATCTTCA
**
2704040 AGGAGCATTTA-TTTTCAAAAGTTGTTGAGCCTCTGA-TAAAGGAGCTTTGTTTATGTTTTTCAA
1 AGGAGCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAAAGGAGCTTTGTTTAT-TTTTTCAA
* *
2704103 AGTCGTTGAGTCTCTGTTTAG
65 AGTCGTTGAGCCTCTGATTAG
* * * *
2704124 AGGAGCAATTTATTTTTCAAAAGTCATTGAGCCTCTGATTATATGAGC-CT-TTTATTTTTTAAA
1 AGGAGC-ATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAAAGGAGCTTTGTTTATTTTTT--C
* *
2704187 AAAGTCATTAAGCCTCTGATTAG
63 AAAGTCGTTGAGCCTCTGATTAG
* * * * *
2704210 ATGAGCCATTT-GTTTTCAAAA-TCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTA-TCTTTCAA
1 AGGAG-CATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAAAGGAGCTTTGTTTATTTTTTCAA
*
2704272 AGTCGTAGAGCCTCTGATTAG
65 AGTCGTTGAGCCTCTGATTAG
* *
2704293 ATGAGCTTTGTTTATGTTTTTC-AAAGTCATTGAGCCTCT
1 AGGAGC---ATTTA--TTTTTCAAAAGTCATTGAGCCTCT
2704332 ACTTAGAGGA
Statistics
Matches: 169, Mismatches: 24, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
82 1 0.01
83 25 0.15
84 33 0.20
85 27 0.16
86 55 0.33
87 11 0.07
88 17 0.10
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (85 bp):
AGGAGCATTTATTTTTCAAAAGTCATTGAGCCTCTGATTAAAGGAGCTTTGTTTATTTTTTCAAA
GTCGTTGAGCCTCTGATTAG
Found at i:2704535 original size:5 final size:5
Alignment explanation
Indices: 2704525--2704593 Score: 51
Period size: 5 Copynumber: 14.4 Consensus size: 5
2704515 CCCATTTCAA
*
2704525 TTTAT TTTAT TTTAT TTTA- TTT-T TTTA- TTTAT TCTGTAT TTTGT ATTT-T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-T-TAT TTTAT -TTTAT
*
2704574 TATAT TTTA- TTTA- TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TT
2704594 ATTATTTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
4 20 0.38
5 24 0.45
6 5 0.09
7 4 0.08
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:2704557 original size:4 final size:4
Alignment explanation
Indices: 2704524--2704743 Score: 76
Period size: 4 Copynumber: 56.2 Consensus size: 4
2704514 GCCCATTTCA
* * * *
2704524 ATTT ATTTT ATTTT ATTTT ATTT TTTT ATTT A-TT CTGT ATTT -TGT ATTT
1 ATTT A-TTT A-TTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
*
2704573 -TTAT ATTTT ATTT ATTT ATTT A-TT ATTT ATTT ATCT A-TT ATTACT
1 ATT-T A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT--T
* * * * * * *
2704618 ATTT ATTG ATAT ATAT ATTT -TTT ATCT GTTT ATAT ATCT ATTAT ATATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T AT-TT
* * *
2704667 A-TT ATAT ATCT ATTAT ATATT A-TT ATTT ATCT A-TT A-TT A-TT A-TT
1 ATTT ATTT ATTT ATT-T AT-TT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* *
2704711 ATTT ATCT A-TT A-TT A-TT A-TT ATTT ATCT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
2704744 CATATTATCA
Statistics
Matches: 167, Mismatches: 30, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
3 42 0.25
4 91 0.54
5 26 0.16
6 8 0.05
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (4 bp):
ATTT
Found at i:2704572 original size:7 final size:6
Alignment explanation
Indices: 2704525--2704604 Score: 53
Period size: 7 Copynumber: 13.2 Consensus size: 6
2704515 CCCATTTCAA
*
2704525 TTTA-T TTTA-T TTTA-T TTTATT TTT-TT ATTTATT CTGTATT TTGTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT -TTTATT TT-TATT
*
2704572 TTTATAT TTTATT TATT-TA TTTATT ATTTATT T
1 TTTAT-T TTTATT T-TTATT TTTATT -TTTATT T
2704605 ATCTATTATT
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
5 18 0.29
6 17 0.27
7 27 0.44
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:2704642 original size:40 final size:41
Alignment explanation
Indices: 2704568--2704741 Score: 151
Period size: 40 Copynumber: 4.1 Consensus size: 41
2704558 CTGTATTTTG
*
2704568 TATTTTTATATTTTATTTAT-T-TAT-TTATTATTTATTTATC
1 TATTATTATA-TTTATTTATATATATATTATTA-TTATTTATC
* * * *
2704608 TATTATTACTATTTATTGATATATATATTTTTTATCTGTTTATA
1 TATTATTA-TATTTATTTATATATATA-TTATTAT-TATTTATC
*
2704652 TATCTATTATATATTATTATATATCTATTATATATTATTATTTATC
1 TAT-TATTATAT-TTATT-TATATATA-TAT-TATTATTATTTATC
*
2704698 TATTATTAT-TATTATTTATCTAT-TATTATTATTATTTATC
1 TATTATTATAT-TTATTTATATATATATTATTATTATTTATC
2704738 TATT
1 TATT
2704742 TACATATTAT
Statistics
Matches: 111, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
40 33 0.30
41 6 0.05
42 3 0.03
43 6 0.05
44 24 0.22
45 16 0.14
46 16 0.14
47 7 0.06
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (41 bp):
TATTATTATATTTATTTATATATATATTATTATTATTTATC
Found at i:2704650 original size:55 final size:53
Alignment explanation
Indices: 2704574--2704726 Score: 152
Period size: 55 Copynumber: 2.8 Consensus size: 53
2704564 TTTGTATTTT
*
2704574 TATAT-TTTATTTATTTATTTATTATTTATTTATCTATTATTACTATT-TATTGATA
1 TATATATTT-TTTATCT-TTTATTATTTATTTATCTATTATTA-TATTCTATT-ATA
* *
2704629 TATATATTTTTTATCTGTTTATATATCTA-TTATATATTATTATATATCTATTATA
1 TATATATTTTTTATCT-TTTAT-TATTTATTTATCTATTATTATAT-TCTATTATA
* *
2704684 TAT-TATTATTTATCTATTATTATTATTATTTATCTATTATTAT
1 TATATATTTTTTATCTTTTATTA-T-TTATTTATCTATTATTAT
2704727 TATTATTTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
52 2 0.02
53 5 0.06
54 16 0.19
55 48 0.58
56 12 0.14
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (53 bp):
TATATATTTTTTATCTTTTATTATTTATTTATCTATTATTATATTCTATTATA
Found at i:2704671 original size:3 final size:3
Alignment explanation
Indices: 2704656--2704733 Score: 84
Period size: 3 Copynumber: 23.3 Consensus size: 3
2704646 TTTATATATC
2704656 TAT TAT ATAT TAT TAT ATAT CTAT TAT ATAT TAT TATT TAT CTAT TAT
1 TAT TAT -TAT TAT TAT -TAT -TAT TAT -TAT TAT TA-T TAT -TAT TAT
2704704 TAT TAT TATT TAT CTAT TAT TAT TAT TAT T
1 TAT TAT TA-T TAT -TAT TAT TAT TAT TAT T
2704734 TATCTATTTA
Statistics
Matches: 67, Mismatches: 1, Indels: 14
0.82 0.01 0.17
Matches are distributed among these distances:
3 43 0.64
4 24 0.36
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2704671 original size:21 final size:21
Alignment explanation
Indices: 2704579--2704741 Score: 80
Period size: 21 Copynumber: 8.0 Consensus size: 21
2704569 ATTTTTATAT
*
2704579 TTTATTTATT-TAT-TTATTA
1 TTTATCTATTATATATTATTA
* *
2704598 TTTATTTATCTAT-TATTACTA
1 TTTATCTAT-TATATATTATTA
*
2704619 TTTAT-TGA-TATATA-TATTT
1 TTTATCT-ATTATATATTATTA
*
2704638 TTTATCTGTTTATATATCTATTA
1 TTTATCT-ATTATATAT-TATTA
*
2704661 TATAT-TATTATATATCTATTA
1 TTTATCTATTATATAT-TATTA
* *
2704682 TATAT-TATTATTTATCTATTA
1 TTTATCTATTATATAT-TATTA
*
2704703 -TTAT-TATTATTTATCTATTA
1 TTTATCTATTATATAT-TATTA
*
2704723 -TTAT-TATTATTTATCTATT
1 TTTATCTATTATATAT-TATT
2704742 TACATATTAT
Statistics
Matches: 126, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
19 20 0.16
20 45 0.36
21 52 0.41
22 1 0.01
23 8 0.06
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (21 bp):
TTTATCTATTATATATTATTA
Found at i:2704682 original size:14 final size:14
Alignment explanation
Indices: 2704663--2704772 Score: 72
Period size: 14 Copynumber: 7.9 Consensus size: 14
2704653 ATCTATTATA
2704663 TATTATTATATATC
1 TATTATTATATATC
2704677 TATTA-TATATTAT-
1 TATTATTATA-TATC
2704690 TATTTATCTAT-TAT-
1 TA-TTAT-TATATATC
*
2704704 TATTATTATTTATC
1 TATTATTATATATC
2704718 TATTATTAT-TAT-
1 TATTATTATATATC
*
2704730 TATTTATCTATTTA-C
1 TA-TTAT-TATATATC
* *
2704745 ATATTATCATTTATC
1 -TATTATTATATATC
*
2704760 TATTAATATATAT
1 TATTATTATATAT
2704773 TTTTTATTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
12 5 0.06
13 20 0.25
14 43 0.54
15 7 0.09
16 5 0.06
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATTATATATC
Found at i:2704698 original size:42 final size:42
Alignment explanation
Indices: 2704588--2704779 Score: 183
Period size: 42 Copynumber: 4.4 Consensus size: 42
2704578 TTTTATTTAT
* *
2704588 TTATTTATTATTTATTTATCTATTATTACTATTTATTGATATATATA
1 TTATATATTA-TTATTTATCTATTA-TA-TA-TTATT-ATATATCTA
* * * *
2704635 TTTTTTATCTGTTTATATATCTATTATATATTATTATATATCTA
1 TTATATAT-T-ATTATTTATCTATTATATATTATTATATATCTA
*
2704679 TTATATATTATTATTTATCTATTAT-TATTATTATTTATCTA
1 TTATATATTATTATTTATCTATTATATATTATTATATATCTA
* * *
2704720 TTAT-TATTATTATTTATCTATTTACATATTATCATTTATCTA
1 TTATATATTATTATTTATCTA-TTATATATTATTATATATCTA
*
2704762 TTA-ATATATATTTTTTAT
1 TTATATAT-TATTATTTAT
2704780 TTTATTTTAT
Statistics
Matches: 127, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.13
41 22 0.17
42 35 0.28
43 10 0.08
44 14 0.11
45 5 0.04
46 2 0.02
47 9 0.07
48 14 0.11
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (42 bp):
TTATATATTATTATTTATCTATTATATATTATTATATATCTA
Found at i:2704751 original size:62 final size:62
Alignment explanation
Indices: 2704647--2704793 Score: 187
Period size: 62 Copynumber: 2.4 Consensus size: 62
2704637 TTTTATCTGT
* * * * *
2704647 TTATATATCTATTATATATTATTATATATCTATTATATATTATTATTTATCTATTATTAT-TA
1 TTATTTATCTATTAT-TATTATTATTTATCTATTACATATTATCATTTATCTATTAATATATA
2704709 TTATTTATCTATTATTATTATTATTTATCTATTTACATATTATCATTTATCTATTAATATATA
1 TTATTTATCTATTATTATTATTATTTATCTA-TTACATATTATCATTTATCTATTAATATATA
*
2704772 TTTTTTAT-T-TTATT-TTA-TATTT
1 TTATTTATCTATTATTATTATTATTT
2704794 TTTCTTGGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
59 5 0.06
60 3 0.04
61 20 0.26
62 40 0.52
63 9 0.12
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (62 bp):
TTATTTATCTATTATTATTATTATTTATCTATTACATATTATCATTTATCTATTAATATATA
Found at i:2704780 original size:90 final size:92
Alignment explanation
Indices: 2704585--2704780 Score: 224
Period size: 94 Copynumber: 2.1 Consensus size: 92
2704575 ATATTTTATT
* * *
2704585 TATTTATTTATTATTTATTTATCTATTATTACTATTTATTGATATATATATTTTTTATCTGTTTA
1 TATTTATTTATTATTTATCTATCTATTATTACTATTTATTGATATATATATTATTTATCTATTTA
* * *
2704650 TATATCTATTATATATTATTATATATC
66 CATATCTATCATATATTATTATATATA
*
2704677 TATTATATATTATTATTTATCTAT-TATTATTATTATTTATCT-AT-TATTATTATTATTTATCT
1 TATT-TAT-TTATTATTTATCTATCTATTATTACTATTTAT-TGATATA-TA-TATTATTTATCT
*
2704739 ATTTACATAT-TATCATTTATCTATTA-ATATA
61 ATTTACATATCTATCATATAT-TATTATATATA
2704770 TATTT-TTTATT
1 TATTTATTTATT
2704781 TTATTTTATA
Statistics
Matches: 90, Mismatches: 8, Indels: 14
0.80 0.07 0.12
Matches are distributed among these distances:
90 5 0.06
91 1 0.01
92 7 0.08
93 38 0.42
94 39 0.43
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (92 bp):
TATTTATTTATTATTTATCTATCTATTATTACTATTTATTGATATATATATTATTTATCTATTTA
CATATCTATCATATATTATTATATATA
Found at i:2705640 original size:12 final size:12
Alignment explanation
Indices: 2705623--2705732 Score: 50
Period size: 11 Copynumber: 8.9 Consensus size: 12
2705613 CGTTCCCAGG
2705623 TTTTTTTT-TTA
1 TTTTTTTTATTA
2705634 TTTTTTTTATTA
1 TTTTTTTTATTA
2705646 TTTATTTATTAGATTA
1 TTT-TTT-TT--ATTA
** * *
2705662 GAATTGTTTAATA
1 -TTTTTTTTATTA
*
2705675 CTTTTTATT-TTA
1 -TTTTTTTTATTA
2705687 TTTTTATTT-TTA
1 TTTTT-TTTATTA
*
2705699 TTTTTATT-TTA
1 TTTTTTTTATTA
2705710 TTTTTCTTTATT-
1 TTTTT-TTTATTA
*
2705722 TTTATTTTATT
1 TTTTTTTTATT
2705733 TTATTTTAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
11 29 0.38
12 24 0.32
13 12 0.16
14 2 0.03
15 2 0.03
16 6 0.08
17 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (12 bp):
TTTTTTTTATTA
Found at i:2705687 original size:5 final size:5
Alignment explanation
Indices: 2705677--2705750 Score: 87
Period size: 5 Copynumber: 13.8 Consensus size: 5
2705667 GTTTAATACT
2705677 TTTTA TTTTA TTTTTA TTTTTA TTTTTA TTTTA TTTT- TCTTTA TTTTTA
1 TTTTA TTTTA -TTTTA -TTTTA -TTTTA TTTTA TTTTA T-TTTA -TTTTA
2705726 TTTTA TTTTA TTTTAA TTTTA TTTT
1 TTTTA TTTTA TTTT-A TTTTA TTTT
2705751 CTTTAAATAA
Statistics
Matches: 64, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.02
5 36 0.56
6 26 0.41
7 1 0.02
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:2705692 original size:11 final size:11
Alignment explanation
Indices: 2705676--2705750 Score: 109
Period size: 11 Copynumber: 6.9 Consensus size: 11
2705666 TGTTTAATAC
2705676 TTTTTATTTTA
1 TTTTTATTTTA
2705687 TTTTTATTTTTA
1 TTTTTA-TTTTA
2705699 TTTTTATTTTA
1 TTTTTATTTTA
*
2705710 TTTTT-CTTTA
1 TTTTTATTTTA
2705720 TTTTTATTTTA
1 TTTTTATTTTA
2705731 -TTTTATTTTA
1 TTTTTATTTTA
*
2705741 ATTTTATTTT
1 TTTTTATTTT
2705751 CTTTAAATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
10 19 0.32
11 29 0.49
12 11 0.19
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:2705840 original size:60 final size:58
Alignment explanation
Indices: 2705768--2705924 Score: 190
Period size: 60 Copynumber: 2.7 Consensus size: 58
2705758 TAAAATTCAA
* * *
2705768 AAAAAAATATTTTTGACGAAAAGTTGAAAATATCAATTTTCTTTAAAAAAAAAGCTTTCT
1 AAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAAAAAAG-TTTCT
* * **
2705828 AAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCT
1 AAAAAAATATTTTT-GAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAAAAAGTTTCT
* * *
2705887 -AAAATATATTTTAGAGAAAAGTTGAAAGTATTAATTTT
1 AAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTT
2705925 TTATGTACAA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
57 23 0.27
58 11 0.13
59 5 0.06
60 44 0.52
61 2 0.02
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAAAAAGTTTCT
Found at i:2714468 original size:51 final size:51
Alignment explanation
Indices: 2714413--2714513 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
2714403 ATGATTATGA
* *
2714413 AAATGATGCATAAAATGATATGATATAATAATGCTTAAAACATGAGGATGG
1 AAATGATGCATAAAATGATATAACATAATAATGCTTAAAACATGAGGATGG
* * * *
2714464 AAATGATGCATAGAATGATGTAACATGATAATGCTTAAAACATTAGGATG
1 AAATGATGCATAAAATGATATAACATAATAATGCTTAAAACATGAGGATG
2714514 CATGTTGTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (51 bp):
AAATGATGCATAAAATGATATAACATAATAATGCTTAAAACATGAGGATGG
Found at i:2716012 original size:16 final size:17
Alignment explanation
Indices: 2715986--2716023 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2715976 AATTCTAAAC
2715986 TTTTTATA-TTTTATATT
1 TTTTTATATTTTTA-ATT
2716003 TTTTTA-ATTTTTAATT
1 TTTTTATATTTTTAATT
2716019 TTTTT
1 TTTTT
2716024 GGTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTATATTTTTAATT
Found at i:2716487 original size:12 final size:13
Alignment explanation
Indices: 2716470--2716504 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2716460 TTAAAAAAAT
*
2716470 AAAAATTACAC-A
1 AAAAATTAAACTA
2716482 AAAAATTAAACTA
1 AAAAATTAAACTA
2716495 AAAAATTAAA
1 AAAAATTAAA
2716505 ATATAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATTAAACTA
Done.