Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 18 of 121
Found at i:3273021 original size:44 final size:44
Alignment explanation
Indices: 3272941--3273035 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
3272931 ATTTACTATA
*
3272941 AAATTATCATTTACTTATTATTAAATTATCAATGA-TTAACTACT
1 AAATTATAATTTACTTATTATTAAATTATCAATGATTTAA-TACT
* * * *
3272985 AAATTATAATTTATTTTTTATTTAATTAT-ACTTGATTTAATACT
1 AAATTATAATTTACTTATTATTAAATTATCA-ATGATTTAATACT
*
3273029 ATATTAT
1 AAATTAT
3273036 TATTATGCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.02
44 38 0.88
45 4 0.09
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (44 bp):
AAATTATAATTTACTTATTATTAAATTATCAATGATTTAATACT
Found at i:3273385 original size:23 final size:24
Alignment explanation
Indices: 3273356--3273405 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 24
3273346 TAATAATTAA
3273356 TTATTAAATTATCAATT-ATTTT-T
1 TTATTAAATTAT-AATTGATTTTAT
3273379 TTATTAAATTATAATTGATTTTAT
1 TTATTAAATTATAATTGATTTTAT
3273403 TTA
1 TTA
3273406 GGTAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 4 0.16
23 17 0.68
24 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
TTATTAAATTATAATTGATTTTAT
Found at i:3280783 original size:28 final size:28
Alignment explanation
Indices: 3280725--3280787 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
3280715 AATTTATAAA
* *
3280725 TTTATAATTTAAATATCTATTAAATTTT
1 TTTAAAATTTAAATATCTATTAAATTAT
3280753 TTTAAAATTTAAATAT-TACATTAAA-TAT
1 TTTAAAATTTAAATATCT--ATTAAATTAT
3280781 TTTAAAA
1 TTTAAAA
3280788 AAAAGTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 1 0.03
28 24 0.77
29 6 0.19
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTAAAATTTAAATATCTATTAAATTAT
Found at i:3280788 original size:29 final size:28
Alignment explanation
Indices: 3280730--3280788 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
3280720 ATAAATTTAT
* *
3280730 AATTTAAATATCTATTAAATTTTTTTAA
1 AATTTAAATATCTATTAAATATTTTAAA
3280758 AATTTAAATAT-TACATTAAATATTTTAAA
1 AATTTAAATATCT--ATTAAATATTTTAAA
3280787 AA
1 AA
3280789 AAAGTTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 1 0.04
28 11 0.41
29 15 0.56
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTTAAATATCTATTAAATATTTTAAA
Found at i:3280997 original size:20 final size:22
Alignment explanation
Indices: 3280972--3281012 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3280962 TCATCTCATT
3280972 TAAATT-CA-TATAAATTATAG
1 TAAATTACACTATAAATTATAG
*
3280992 TAAATTAGACTATAAATTATA
1 TAAATTACACTATAAATTATA
3281013 TGATGCACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (22 bp):
TAAATTACACTATAAATTATAG
Found at i:3281299 original size:12 final size:12
Alignment explanation
Indices: 3281284--3281308 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3281274 AAAATATATT
3281284 ATTAAATAATAA
1 ATTAAATAATAA
3281296 ATTAAATAATAA
1 ATTAAATAATAA
3281308 A
1 A
3281309 ATAAGTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAAATAATAA
Found at i:3282176 original size:27 final size:27
Alignment explanation
Indices: 3282111--3282176 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
3282101 TTAATTTGAT
*
3282111 TTTTAATTATGATTTAAATAAT-TTTAA
1 TTTTAATTA-AATTTAAATAATATTTAA
3282138 TATTTGAA-TAAATTTAAA-AATATTTAA
1 T-TTT-AATTAAATTTAAATAATATTTAA
3282165 TTTGTAATTAAA
1 TTT-TAATTAAA
3282177 AGAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
26 7 0.21
27 19 0.58
28 5 0.15
29 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (27 bp):
TTTTAATTAAATTTAAATAATATTTAA
Found at i:3282282 original size:2 final size:2
Alignment explanation
Indices: 3282263--3282305 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
3282253 TTTATTTATG
3282263 TA TA T- TA T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3282302 TA TA
1 TA TA
3282306 GATTATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3287602 original size:44 final size:44
Alignment explanation
Indices: 3287517--3287605 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
3287507 AACTTGGCAC
** *
3287517 TATAACCTAACTTGGGTTGGAATAATCTATTTATCCTAGATTTT
1 TATAACCTAACTTGGGTTGGAATAATCTATCAATCCCAGATTTT
* * *
3287561 TATAACCTAATTTGTGTTGGAATAATCTGTCAATCCCAGATTTT
1 TATAACCTAACTTGGGTTGGAATAATCTATCAATCCCAGATTTT
3287605 T
1 T
3287606 TAAATCATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (44 bp):
TATAACCTAACTTGGGTTGGAATAATCTATCAATCCCAGATTTT
Found at i:3288458 original size:23 final size:23
Alignment explanation
Indices: 3288428--3288473 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
3288418 CGATGGATAT
3288428 CTTCAACTTTTGACAATAAAATC
1 CTTCAACTTTTGACAATAAAATC
*
3288451 CTTCAACTTTTGACACTAAAATC
1 CTTCAACTTTTGACAATAAAATC
3288474 GACACTGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (23 bp):
CTTCAACTTTTGACAATAAAATC
Found at i:3290542 original size:15 final size:16
Alignment explanation
Indices: 3290509--3290590 Score: 53
Period size: 19 Copynumber: 5.0 Consensus size: 16
3290499 AAATAATTTT
3290509 TTAAATATTATATTAA
1 TTAAATATTATATTAA
3290525 TTAACATATTTATAATTAA
1 TTAA-ATA-TTAT-ATTAA
*
3290544 TTATATGTATTATATTAA
1 TTA-A-ATATTATATTAA
** * *
3290562 AAAAATGTTAAATT--
1 TTAAATATTATATTAA
3290576 TT-AATATTATATTAA
1 TTAAATATTATATTAA
3290591 ATATTTTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 13
0.67 0.15 0.18
Matches are distributed among these distances:
13 9 0.18
16 11 0.22
17 4 0.08
18 10 0.20
19 12 0.24
20 3 0.06
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (16 bp):
TTAAATATTATATTAA
Found at i:3292628 original size:13 final size:12
Alignment explanation
Indices: 3292596--3292637 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
3292586 AAGGGCAATT
3292596 TAAAAAATAATA
1 TAAAAAATAATA
* *
3292608 TGATAATATAATA
1 T-AAAAAATAATA
3292621 T-AAAAATAATA
1 TAAAAAATAATA
3292632 TAAAAA
1 TAAAAA
3292638 TGATATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 9 0.38
12 5 0.21
13 10 0.42
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
TAAAAAATAATA
Found at i:3292629 original size:11 final size:11
Alignment explanation
Indices: 3292598--3292645 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
3292588 GGGCAATTTA
3292598 AAAAATAATAT
1 AAAAATAATAT
*
3292609 GATAATATAATAT
1 -A-AAAATAATAT
3292622 AAAAATAATAT
1 AAAAATAATAT
*
3292633 AAAAATGATAT
1 AAAAATAATAT
3292644 AA
1 AA
3292646 TTTAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 21 0.66
12 2 0.06
13 9 0.28
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (11 bp):
AAAAATAATAT
Found at i:3295488 original size:14 final size:15
Alignment explanation
Indices: 3295471--3295500 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3295461 TTAAAAAACA
3295471 ATTTAAAATAA-AAT
1 ATTTAAAATAATAAT
3295485 ATTTAAAATAATAAT
1 ATTTAAAATAATAAT
3295500 A
1 A
3295501 ATAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTTAAAATAATAAT
Found at i:3296130 original size:3 final size:3
Alignment explanation
Indices: 3296109--3296168 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
3296099 TATTTTAATT
* ** * *
3296109 TAA TAT TAA TAA TTG TAA TAA TAA TAT TAA TAA TAA TAA TAA T-T TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3296156 -AA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA
3296169 AAAAAGTAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
2 5 0.11
3 39 0.89
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:3296168 original size:18 final size:18
Alignment explanation
Indices: 3296109--3296167 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 18
3296099 TATTTTAATT
3296109 TAATATTAATAATTGTAATAA
1 TAATATTAATAA---TAATAA
3296130 TAATATTAATAATAATAA
1 TAATATTAATAATAATAA
3296148 TAAT-TTAA-AATAA-AA
1 TAATATTAATAATAATAA
3296163 TAATA
1 TAATA
3296168 AAAAAAGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.16
16 5 0.14
17 4 0.11
18 10 0.27
21 12 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TAATATTAATAATAATAA
Found at i:3297614 original size:16 final size:16
Alignment explanation
Indices: 3297598--3297823 Score: 125
Period size: 15 Copynumber: 14.5 Consensus size: 16
3297588 TTAGGTTTCT
*
3297598 AAAACCTCTAAAATCT
1 AAAACCTCTAAAATCC
* *
3297614 AAAATCTCCTAAAATTC
1 AAAACCT-CTAAAATCC
**
3297631 AAAGTCT-TAAAATCC
1 AAAACCTCTAAAATCC
*
3297646 AAAATC-CTAAAATCC
1 AAAACCTCTAAAATCC
*
3297661 AAAAACTTCTAAAAATCC
1 -AAAACCTCT-AAAATCC
*
3297679 AAAATCC-CTTAAATCC
1 AAAA-CCTCTAAAATCC
*
3297695 -AAACCTTTAAAATCC
1 AAAACCTCTAAAATCC
* *
3297710 GAAACCTCTAAAATTC
1 AAAACCTCTAAAATCC
* *
3297726 AAAACACCCCAAAATCC
1 AAAAC-CTCTAAAATCC
* * *
3297743 GAAATCTC-AAACAT-T
1 AAAACCTCTAAA-ATCC
* *
3297758 TAAA-CTCTTAAATCC
1 AAAACCTCTAAAATCC
*
3297773 AAACCCT-TAAAATCC
1 AAAACCTCTAAAATCC
*
3297788 AAACCCT-TAAAATCC
1 AAAACCTCTAAAATCC
*
3297803 -AAACCT-TTAAAT-C
1 AAAACCTCTAAAATCC
3297816 AAAACCTC
1 AAAACCTC
3297824 AAACCTCAAA
Statistics
Matches: 165, Mismatches: 30, Indels: 31
0.73 0.13 0.14
Matches are distributed among these distances:
13 1 0.01
14 23 0.14
15 62 0.38
16 39 0.24
17 32 0.19
18 8 0.05
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.23
Consensus pattern (16 bp):
AAAACCTCTAAAATCC
Found at i:3297730 original size:64 final size:64
Alignment explanation
Indices: 3297598--3297805 Score: 182
Period size: 64 Copynumber: 3.3 Consensus size: 64
3297588 TTAGGTTTCT
* * * *
3297598 AAAACCTCTAAAATCTAAAATCTCCTAAAATTCAAAGTCTTAAAATCCAAAATCCTAAAATCCA
1 AAAACCTCTAAAATCCAAAATCTCCTAAAATCCAAACTCTTAAAATCCAAAACCCTAAAATCCA
* * * *
3297662 AAAACTTCTAAAAATCCAAAATC-CCTTAAATCCAAAC-CTTTAAAATCCGAAACCTCTAAAATT
1 AAAACCTCT-AAAATCCAAAATCTCCTAAAATCCAAACTC-TTAAAATCCAAAACC-CTAAAATC
3297725 CA
63 CA
* * **
3297727 AAACACC-CCAAAATCCGAAATCT-C-AAACATTTAAACTCTT-AAATCC-AAACCCTTAAAATC
1 AAA-ACCTCTAAAATCCAAAATCTCCTAAA-ATCCAAACTCTTAAAATCCAAAACCC-TAAAATC
3297787 C-
63 CA
*
3297788 AAACCCT-TAAAATCCAAA
1 AAAACCTCTAAAATCCAAA
3297806 CCTTTAAATC
Statistics
Matches: 117, Mismatches: 18, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
60 11 0.09
61 4 0.03
62 12 0.10
63 9 0.08
64 53 0.45
65 26 0.22
66 2 0.02
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (64 bp):
AAAACCTCTAAAATCCAAAATCTCCTAAAATCCAAACTCTTAAAATCCAAAACCCTAAAATCCA
Found at i:3297796 original size:29 final size:28
Alignment explanation
Indices: 3297759--3297857 Score: 92
Period size: 29 Copynumber: 3.5 Consensus size: 28
3297749 TCAAACATTT
*
3297759 AAACTCTTAAATCCAAACCCTTAAAATCC
1 AAACCCTTAAATCCAAA-CCTTAAAATCC
*
3297788 AAACCCTTAAAATCCAAACCTTTAAAT-C
1 AAACCCTT-AAATCCAAACCTTAAAATCC
* * * ** *
3297816 AAAACCTCAAACCTCAAATTTTAAAATCG
1 AAACCCTTAAATC-CAAACCTTAAAATCC
3297845 AAACCCTTAAATC
1 AAACCCTTAAATC
3297858 TTCAAACTCT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
27 4 0.07
28 17 0.31
29 25 0.45
30 9 0.16
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.24
Consensus pattern (28 bp):
AAACCCTTAAATCCAAACCTTAAAATCC
Found at i:3297929 original size:21 final size:22
Alignment explanation
Indices: 3297889--3297930 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
3297879 CCTAAACCCT
3297889 AAAACCCTCAAAACTTAAATCC
1 AAAACCCTCAAAACTTAAATCC
3297911 AAAACCCT-AAAA-TTCAAATC
1 AAAACCCTCAAAACTT-AAATC
3297931 TTCAAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 9 0.47
22 8 0.42
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAACCCTCAAAACTTAAATCC
Found at i:3298389 original size:19 final size:19
Alignment explanation
Indices: 3298352--3298389 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3298342 ATTTGGTGAT
*
3298352 AAAATATTTTATAATAAAA
1 AAAATATTTTATAAAAAAA
*
3298371 AAAATACTTT-TAAAAAAA
1 AAAATATTTTATAAAAAAA
3298389 A
1 A
3298390 TTGTGATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATATTTTATAAAAAAA
Found at i:3306373 original size:22 final size:21
Alignment explanation
Indices: 3306343--3306406 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
3306333 AGATTTTGAG
3306343 ATTTGTAAGACCTTCGGGTATA
1 ATTT-TAAGACCTTCGGGTATA
* * *
3306365 ATTTCTAAGATCTTCAGGCATA
1 ATTT-TAAGACCTTCGGGTATA
3306387 ATTTTCAAGACCTTCGGGTA
1 ATTTT-AAGACCTTCGGGTA
3306407 AAAGATTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (21 bp):
ATTTTAAGACCTTCGGGTATA
Found at i:3306737 original size:88 final size:87
Alignment explanation
Indices: 3306532--3306742 Score: 221
Period size: 87 Copynumber: 2.4 Consensus size: 87
3306522 ATTCTTTATC
* * * * * * * * *
3306532 TTTTAACTTACGATTTTATCCCAATCGATTCTATAAGATCTTTGGGTATAATTTCGATTCGTGGT
1 TTTTGACTTACGGTGTTATCCCAATCGATTCTGTAAGACCTTCGGGCATAATTTCGACTCATGGT
3306597 GATATTTCGATTGATTTTTTCT
66 GATATTTCGATTGATTTTTTCT
* * ** * *
3306619 CTTCGACTTATAGTGTTATCGCAGTCGATTCTGTAAGACCTTCGGGCATATATTT-GACTCATGG
1 TTTTGACTTACGGTGTTATCCCAATCGATTCTGTAAGACCTTCGGGCATA-ATTTCGACTCATGG
*
3306683 TGTTA-TTCTGATTGATTCTTATT-T
65 TGATATTTC-GATTGATT-TT-TTCT
3306707 TTTTGACTTACGGTGTTATCCCAATCGATTCTGTAA
1 TTTTGACTTACGGTGTTATCCCAATCGATTCTGTAA
3306743 AACATTCAGA
Statistics
Matches: 98, Mismatches: 22, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
86 3 0.03
87 56 0.57
88 37 0.38
89 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (87 bp):
TTTTGACTTACGGTGTTATCCCAATCGATTCTGTAAGACCTTCGGGCATAATTTCGACTCATGGT
GATATTTCGATTGATTTTTTCT
Found at i:3306848 original size:110 final size:110
Alignment explanation
Indices: 3306652--3307107 Score: 406
Period size: 110 Copynumber: 4.1 Consensus size: 110
3306642 GTCGATTCTG
* * * * * * *
3306652 TAAGACCTTCGGGCATATATTTGACTCATGGTGTTATTCTGATTGATTC-TTATTTTTTTGACTT
1 TAAGACCTTCGGGCATAAATTTGATTCATGATATTATTCCGATCGATTCTTTA-TTTTTCGACTT
* * *
3306716 ACGGTGTTATCCCAATCGATTCTGTAAAACATTCAGATATGATTTC
65 ACGGTGTTATCTCAATCGATTCTGTAAGACATTCGGATATGATTTC
* * *
3306762 TAAGACCTTCGAGCATAAATTTGATTCGTGATATTATTCCGATCGATTCTTTATTTTTCAACTTA
1 TAAGACCTTCGGGCATAAATTTGATTCATGATATTATTCCGATCGATTCTTTATTTTTCGACTTA
* * * * * *
3306827 CGATGTTGTCTCAGTCAATTCTGTAAGACTTTCGGGTATGATTTC
66 CGGTGTTATCTCAATCGATTCTGTAAGACATTCGGATATGATTTC
* * * * *
3306872 TAAGACCTTCGGGCAT-AATTTCAATTCACGATATTATCCCGATCGATTTTTTTATCTTTCGACT
1 TAAGACCTTCGGGCATAAATTT-GATTCATGATATTATTCCGATCGA-TTCTTTATTTTTCGACT
* * * *
3306936 TACGGTGTTATCTCAATCGATTCTATAAGACCTTCGGACATGATTTT
64 TACGGTGTTATCTCAATCGATTCTGTAAGACATTCGGATATGATTTC
* * * *
3306983 TAAGACCTTCGGGTATAATTTTGATTTACA-G-TGTT-TTCTC-ATAGATT-TTT-TCTTTTCGA
1 TAAGACCTTCGGGCATAAATTTGA-TT-CATGATATTATTC-CGATCGATTCTTTAT-TTTTCGA
* * * * * * * * *
3307042 CTTACGATGTTATCCCAGTCAATTCTGTAAGACCTCCAGACATGATTCTG
62 CTTACGGTGTTATCTCAATCGATTCTGTAAGACATTCGGATATGATT-TC
*
3307092 TAAGACCTCCGGGCAT
1 TAAGACCTTCGGGCAT
3307108 GATTTTTAAG
Statistics
Matches: 284, Mismatches: 53, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
107 1 0.00
108 49 0.17
109 22 0.08
110 128 0.45
111 75 0.26
112 7 0.02
113 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (110 bp):
TAAGACCTTCGGGCATAAATTTGATTCATGATATTATTCCGATCGATTCTTTATTTTTCGACTTA
CGGTGTTATCTCAATCGATTCTGTAAGACATTCGGATATGATTTC
Found at i:3306875 original size:22 final size:22
Alignment explanation
Indices: 3306850--3306893 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3306840 GTCAATTCTG
* * *
3306850 TAAGACTTTCGGGTATGATTTC
1 TAAGACCTTCGGGCATAATTTC
3306872 TAAGACCTTCGGGCATAATTTC
1 TAAGACCTTCGGGCATAATTTC
3306894 AATTCACGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (22 bp):
TAAGACCTTCGGGCATAATTTC
Found at i:3307003 original size:22 final size:22
Alignment explanation
Indices: 3306961--3307004 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3306951 ATCGATTCTA
*
3306961 TAAGACCTTCGGACATGATTTT
1 TAAGACCTTCGGACATAATTTT
**
3306983 TAAGACCTTCGGGTATAATTTT
1 TAAGACCTTCGGACATAATTTT
3307005 GATTTACAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (22 bp):
TAAGACCTTCGGACATAATTTT
Found at i:3307120 original size:22 final size:23
Alignment explanation
Indices: 3307063--3307129 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
3307053 ATCCCAGTCA
* *
3307063 ATTCTGTAAGACCTCCAGACATG
1 ATTCTGTAAGACCTCCGGGCATG
3307086 ATTCTGTAAGACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGGGCATG
* *
3307109 ATT-TTTAAGACCTTCGGGCAT
1 ATTCTGTAAGACCTCCGGGCAT
3307130 AAATTTGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 16 0.40
23 24 0.60
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCGGGCATG
Found at i:3307281 original size:111 final size:110
Alignment explanation
Indices: 3307085--3307311 Score: 249
Period size: 111 Copynumber: 2.1 Consensus size: 110
3307075 CTCCAGACAT
* ** * * *
3307085 GATTCTGTAAGACCTCCGGGCATGATTTTTAAGACCTTCGGGCATAAATTTGATTCGCGATGTTA
1 GATTCTATAAGACCTCCAAGCATGATTTCTAAGACCTTCGGGCATAAATTTGATTCACGATATTA
* * *
3307150 TCCCGATCAATTTTTAATTTTTTTAACTTATGGTATTATCTCAGTC
66 TCCCGATCAATTTTTAA-TTTTTCAACTTACGGTATTATCTCAATC
* * * *
3307196 GATTCTATAAGACCTTCAAGCATGATTTCTAAGACCTTCGGGCATAAATTTGATTTACGGTATTT
1 GATTCTATAAGACCTCCAAGCATGATTTCTAAGACCTTCGGGCATAAATTTGATTCACGATATTA
**** * * *
3307261 TTTTTATCGATTTCTT-ATTTTTCAACTTGCGGTGTTATCTCAATC
66 TCCCGATCAATTT-TTAATTTTTCAACTTACGGTATTATCTCAATC
3307306 GATTCT
1 GATTCT
3307312 GTAAAATCTC
Statistics
Matches: 95, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
110 29 0.31
111 64 0.67
112 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (110 bp):
GATTCTATAAGACCTCCAAGCATGATTTCTAAGACCTTCGGGCATAAATTTGATTCACGATATTA
TCCCGATCAATTTTTAATTTTTCAACTTACGGTATTATCTCAATC
Found at i:3307329 original size:88 final size:88
Alignment explanation
Indices: 3307234--3307403 Score: 205
Period size: 88 Copynumber: 1.9 Consensus size: 88
3307224 CTAAGACCTT
* * **** * *
3307234 CGGGCATAAATTTGATTTACGGTATTTTTTTTATCGATTTCTTATTTTTCAACTTGCGGTGTTAT
1 CGGGCATAAATTTGATTCACGGTATTATCCCAATCAATTTCTTATTTTTCAACTTACGGTGTTAT
* *
3307299 CTCAATCGATTCTGTAAAATCTC
66 CCCAATCAATTCTGTAAAATCTC
* * * *
3307322 CGGGCATAATTTTGATTCGCGGTGTTATCCCAATCAATTTCTTATTTTTCGACTTACGGTGTTAT
1 CGGGCATAAATTTGATTCACGGTATTATCCCAATCAATTTCTTATTTTTCAACTTACGGTGTTAT
*
3307387 CCCAGTCAATTCTGTAA
66 CCCAATCAATTCTGTAA
3307404 GACTTTTGTG
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (88 bp):
CGGGCATAAATTTGATTCACGGTATTATCCCAATCAATTTCTTATTTTTCAACTTACGGTGTTAT
CCCAATCAATTCTGTAAAATCTC
Found at i:3307527 original size:109 final size:111
Alignment explanation
Indices: 3307327--3307542 Score: 251
Period size: 110 Copynumber: 2.0 Consensus size: 111
3307317 ATCTCCGGGC
* * * * *
3307327 ATAATTTTGATTCGCGGTGTTATCCCAATCAATTTCTTATTTTTCGACTTACGGTGTTATCCCAG
1 ATAATTTTGATTCACAGTGTTATCCCAATCAATTTCTTATTCTTCGACTTACAGTGTTATCCCAA
* *** * *
3307392 TCAATTCTGTAAGACTTTTGTGCATGATT-TTTAAGACCTCCAAGT
66 TCAATTCTATAAGACTCCAGTACATGATTCTGTAAGACCTCCAAGT
* * *
3307437 ATAATTTTGATTCACAGTGTTATCCCGATCGATTT-TT-TCTCTTCGACTTACAGTGTTATCCTA
1 ATAATTTTGATTCACAGTGTTATCCCAATCAATTTCTTAT-TCTTCGACTTACAGTGTTATCCCA
*
3307500 ATCGATTCTATAAGACCTCCAG-ACATGATTCTGTAAGACCTCC
65 ATCAATTCTATAAGA-CTCCAGTACATGATTCTGTAAGACCTCC
3307543 GAGCATGATT
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
108 1 0.01
109 42 0.48
110 45 0.51
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (111 bp):
ATAATTTTGATTCACAGTGTTATCCCAATCAATTTCTTATTCTTCGACTTACAGTGTTATCCCAA
TCAATTCTATAAGACTCCAGTACATGATTCTGTAAGACCTCCAAGT
Found at i:3307564 original size:22 final size:23
Alignment explanation
Indices: 3307503--3307570 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
3307493 TATCCTAATC
*
3307503 GATTCTATAAGACCTCC-AGACAT
1 GATTCTCTAAGACCTCCGAG-CAT
*
3307526 GATTCTGTAAGACCTCCGAGCAT
1 GATTCTCTAAGACCTCCGAGCAT
* *
3307549 GATT-TCTAAGATCTCCGGGCAT
1 GATTCTCTAAGACCTCCGAGCAT
3307571 AAATTTGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 15 0.38
23 23 0.57
24 2 0.05
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (23 bp):
GATTCTCTAAGACCTCCGAGCAT
Found at i:3308323 original size:22 final size:23
Alignment explanation
Indices: 3308289--3308347 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
3308279 TGTCTCAGTC
*
3308289 GATTCTGTAAGACCTCCGAGCAT
1 GATTCTCTAAGACCTCCGAGCAT
* *
3308312 GATTCT-TAAGACCTCTGGGCAT
1 GATTCTCTAAGACCTCCGAGCAT
3308334 GATT-TCTAAGACCT
1 GATTCTCTAAGACCT
3308348 TCGGGCATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 26 0.79
23 6 0.18
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (23 bp):
GATTCTCTAAGACCTCCGAGCAT
Found at i:3308353 original size:22 final size:22
Alignment explanation
Indices: 3308289--3308355 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
3308279 TGTCTCAGTC
* *
3308289 GATTCTGTAAGACCTCCGAGCAT
1 GATTCT-TAAGACCTTCGGGCAT
3308312 GATTCTTAAGACC-TCTGGGCAT
1 GATTCTTAAGACCTTC-GGGCAT
3308334 GATT-TCTAAGACCTTCGGGCAT
1 GATTCT-TAAGACCTTCGGGCAT
3308356 AAATTCGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 2 0.05
22 29 0.74
23 8 0.21
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (22 bp):
GATTCTTAAGACCTTCGGGCAT
Found at i:3308448 original size:131 final size:132
Alignment explanation
Indices: 3308208--3308546 Score: 443
Period size: 131 Copynumber: 2.6 Consensus size: 132
3308198 GTCGATTCTA
*
3308208 TAAGACCTCCGGGCATAAACTTGATTCGCGGTGTTGTCTCGATCGATTCTTTATTTTTTAACTTA
1 TAAGACCTCCGGGCATAAA-TTGATTCGCGGTGTTGTCTCGATCGATTCATTATTTTTTAACTTA
* * * * **
3308273 TGGTGTTGT-CTCAGTCGATTCTGTAAGACCTCCGAGCATGATTCTTAAGACC-TCTGGGCATGA
65 CGGTGTTATCCTCAGTCGATTCTATAAGACCTCCGAACATGATTCTTAAGACCTTC-GAACATGA
3308336 TTTC
129 TTTC
* * * *
3308340 TAAGACCTTCGGGCATAAATTCGATTCGTGGTGTTGTCCCGATTGATTCATTA-TTTTTAACTTA
1 TAAGACCTCCGGGCATAAATT-GATTCGCGGTGTTGTCTCGATCGATTCATTATTTTTTAACTTA
*
3308404 CGGTGTTATCCTGA-TCGATTCTATAAGACCTCCGAACATGATTCTTAAGACCTTCGAACATGAT
65 CGGTGTTATCCTCAGTCGATTCTATAAGACCTCCGAACATGATTCTTAAGACCTTCGAACATGAT
*
3308468 TTT
130 TTC
* * * * * *
3308471 TAAGATCTCCGAGCAAAAATTTGATTCGCAGTGTTATATCGATCGATTCATTATTTTTTAACTTA
1 TAAGACCTCCGGGCATAAA-TTGATTCGCGGTGTTGTCTCGATCGATTCATTATTTTTTAACTTA
3308536 CGGTGTTATCC
65 CGGTGTTATCC
3308547 CAATCGTTTT
Statistics
Matches: 179, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
131 105 0.59
132 74 0.41
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (132 bp):
TAAGACCTCCGGGCATAAATTGATTCGCGGTGTTGTCTCGATCGATTCATTATTTTTTAACTTAC
GGTGTTATCCTCAGTCGATTCTATAAGACCTCCGAACATGATTCTTAAGACCTTCGAACATGATT
TC
Found at i:3308454 original size:22 final size:22
Alignment explanation
Indices: 3308420--3308482 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
3308410 TATCCTGATC
3308420 GATTCTATAAGACCTCCGAACAT
1 GATTCT-TAAGACCTCCGAACAT
*
3308443 GATTCTTAAGACCTTCGAACAT
1 GATTCTTAAGACCTCCGAACAT
* *
3308465 GATTTTTAAGATCTCCGA
1 GATTCTTAAGACCTCCGA
3308483 GCAAAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 30 0.83
23 6 0.17
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (22 bp):
GATTCTTAAGACCTCCGAACAT
Found at i:3308728 original size:9 final size:9
Alignment explanation
Indices: 3308711--3308771 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
3308701 CATTTCAATT
3308711 TAATATTAA
1 TAATATTAA
*
3308720 TAATTTTAA
1 TAATATTAA
*
3308729 TAATATTAT
1 TAATATTAA
**
3308738 TAATAACAA
1 TAATATTAA
3308747 TAATAATTTAA
1 TAAT-A-TTAA
*
3308758 AAATA-TAA
1 TAATATTAA
3308766 TAATAT
1 TAATAT
3308772 AAAAAAAGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
8 7 0.18
9 25 0.64
10 2 0.05
11 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TAATATTAA
Found at i:3308767 original size:16 final size:16
Alignment explanation
Indices: 3308746--3308776 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3308736 ATTAATAACA
*
3308746 ATAATAATTTAAAAAT
1 ATAATAATATAAAAAT
3308762 ATAATAATATAAAAA
1 ATAATAATATAAAAA
3308777 AAGAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATAATATAAAAAT
Found at i:3309818 original size:16 final size:17
Alignment explanation
Indices: 3309799--3309841 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3309789 AATTTTCTAA
3309799 ATTTTTTTATATT-ATT
1 ATTTTTTTATATTAATT
*
3309815 ATTTTTGTTATTTTAATT
1 ATTTTT-TTATATTAATT
3309833 -TTTTTTTAT
1 ATTTTTTTAT
3309842 TCTTGCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 10 0.42
17 11 0.46
18 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (17 bp):
ATTTTTTTATATTAATT
Found at i:3310260 original size:15 final size:15
Alignment explanation
Indices: 3310238--3310348 Score: 69
Period size: 15 Copynumber: 7.1 Consensus size: 15
3310228 TTCTAAAACC
* *
3310238 CCTAAAATCTAAAGT
1 CCTAAAATCCAAAAT
*
3310253 CTTAAAATCCAAAAT
1 CCTAAAATCCAAAAT
* * *
3310268 CCTAAAATTCGAAAC
1 CCTAAAATCCAAAAT
3310283 CTCTAAAAATCCAAAAT
1 C-CT-AAAATCCAAAAT
* **
3310300 CCCTTAAATCCAAACC
1 -CCTAAAATCCAAAAT
*
3310316 CCTAAAATTCAAAACCT
1 CCTAAAATCCAAAA--T
* *
3310333 CCCAAAATCCGAAAT
1 CCTAAAATCCAAAAT
3310348 C
1 C
3310349 TCAAACCTTT
Statistics
Matches: 71, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
15 37 0.52
16 11 0.15
17 22 0.31
18 1 0.01
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.22
Consensus pattern (15 bp):
CCTAAAATCCAAAAT
Found at i:3310315 original size:32 final size:32
Alignment explanation
Indices: 3310256--3310322 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
3310246 CTAAAGTCTT
* *
3310256 AAAATCCAAAATCCTAAAATTCGAAACCTCTA
1 AAAATCCAAAATCCTAAAATTCCAAACCCCTA
*
3310288 AAAATCCAAAATCCCTTAAA-TCCAAACCCCTA
1 AAAATCCAAAAT-CCTAAAATTCCAAACCCCTA
3310320 AAA
1 AAA
3310323 TTCAAAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 25 0.81
33 6 0.19
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.19
Consensus pattern (32 bp):
AAAATCCAAAATCCTAAAATTCCAAACCCCTA
Found at i:3310320 original size:48 final size:48
Alignment explanation
Indices: 3310257--3310348 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
3310247 TAAAGTCTTA
* * *
3310257 AAATCCAAAATCCTAAAATTCGAAACCTCTAAAAATCCAAAATCCCTT
1 AAATCCAAAACCCTAAAATTCAAAACCTCCAAAAATCCAAAATCCCTT
* * *
3310305 AAATCCAAACCCCTAAAATTCAAAACCTCCCAAAATCCGAAATC
1 AAATCCAAAACCCTAAAATTCAAAACCTCCAAAAATCCAAAATC
3310349 TCAAACCTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (48 bp):
AAATCCAAAACCCTAAAATTCAAAACCTCCAAAAATCCAAAATCCCTT
Found at i:3310391 original size:15 final size:14
Alignment explanation
Indices: 3310358--3310408 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
3310348 CTCAAACCTT
*
3310358 TAAACTCTTAAATC
1 TAAACCCTTAAATC
*
3310372 CAAACCCTTAAAATC
1 TAAACCCTT-AAATC
3310387 TAAACCCTTAAATC
1 TAAACCCTTAAATC
*
3310401 AAAACCCT
1 TAAACCCT
3310409 AAACCTCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCCTTAAATC
Found at i:3310439 original size:14 final size:14
Alignment explanation
Indices: 3310422--3310469 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
3310412 CCTCAAATTT
*
3310422 TAAAATCGAAACCC
1 TAAAATCAAAACCC
* *
3310436 TAAAATCTTCAAACTC
1 TAAAATC--AAAACCC
3310452 TAAAATCAAAACCC
1 TAAAATCAAAACCC
3310466 TAAA
1 TAAA
3310470 CCTTTCATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 16 0.57
16 12 0.43
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAAATCAAAACCC
Found at i:3310486 original size:30 final size:29
Alignment explanation
Indices: 3310396--3310529 Score: 121
Period size: 30 Copynumber: 4.6 Consensus size: 29
3310386 CTAAACCCTT
**
3310396 AAATCAAAACCCTAAACC-TCAAATTTTA
1 AAATCAAAACCCTAAACCTTCAAAACTTA
* *
3310424 AAATCGAAACCCTAAAATCTTC-AAACTCTA
1 AAATCAAAACCCT-AAACCTTCAAAACT-TA
* *
3310454 AAATCAAAACCCTAAACCTTTCATACCTTA
1 AAATCAAAACCCTAAACC-TTCAAAACTTA
* *
3310484 AAA-CCAAACCCTAAAACCCTCAAAACTTA
1 AAATCAAAACCCT-AAACCTTCAAAACTTA
*
3310513 AATTCAAAAACCCTAAA
1 AAATC-AAAACCCTAAA
3310530 ATTCGAATCT
Statistics
Matches: 84, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
28 12 0.14
29 29 0.35
30 33 0.39
31 10 0.12
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (29 bp):
AAATCAAAACCCTAAACCTTCAAAACTTA
Found at i:3316501 original size:21 final size:21
Alignment explanation
Indices: 3316460--3316501 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3316450 TTTTTTAATA
* *
3316460 AAATTTAAATTAATTATTTTC
1 AAATTTAAATTAATAAATTTC
*
3316481 AAATTTCAATTAATAAATTTC
1 AAATTTAAATTAATAAATTTC
3316502 TTTTTTACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
AAATTTAAATTAATAAATTTC
Found at i:3320353 original size:23 final size:23
Alignment explanation
Indices: 3320311--3320360 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
3320301 ACATAATAAT
3320311 AATATTAATAATCTACAAAAT-A
1 AATATTAATAATCTACAAAATCA
*
3320333 AATATGTAAT-ATCTTCAAAAATCA
1 AATAT-TAATAATCTAC-AAAATCA
3320357 AATA
1 AATA
3320361 AATATGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 10 0.42
23 9 0.38
24 5 0.21
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (23 bp):
AATATTAATAATCTACAAAATCA
Found at i:3320701 original size:18 final size:18
Alignment explanation
Indices: 3320678--3320721 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
3320668 TTATTAGATT
3320678 AAAAATAATCAAATAA-TA
1 AAAAATAATCAAA-AATTA
*
3320696 AAAAATAAATTAAAAATTA
1 AAAAAT-AATCAAAAATTA
3320715 AAAAATA
1 AAAAATA
3320722 TGTTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATAATCAAAAATTA
Found at i:3321552 original size:23 final size:23
Alignment explanation
Indices: 3321510--3321559 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
3321500 ACATAATAAT
3321510 AATATTAATAATCTACAAAAT-A
1 AATATTAATAATCTACAAAATCA
*
3321532 AATATGTAAT-ATCTTCAAAAATCA
1 AATAT-TAATAATCTAC-AAAATCA
3321556 AATA
1 AATA
3321560 AATATGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 10 0.42
23 9 0.38
24 5 0.21
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (23 bp):
AATATTAATAATCTACAAAATCA
Found at i:3321899 original size:18 final size:18
Alignment explanation
Indices: 3321876--3321919 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
3321866 TTATTAGATT
3321876 AAAAATAATCAAATAA-TA
1 AAAAATAATCAAA-AATTA
*
3321894 AAAAATAAATTAAAAATTA
1 AAAAAT-AATCAAAAATTA
3321913 AAAAATA
1 AAAAATA
3321920 TGTTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATAATCAAAAATTA
Found at i:3323101 original size:18 final size:18
Alignment explanation
Indices: 3323078--3323121 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
3323068 TTATTAGATT
3323078 AAAAATAATCAAATAA-TA
1 AAAAATAATCAAA-AATTA
*
3323096 AAAAATAAATTAAAAATTA
1 AAAAAT-AATCAAAAATTA
3323115 AAAAATA
1 AAAAATA
3323122 TGTTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATAATCAAAAATTA
Found at i:3324560 original size:14 final size:13
Alignment explanation
Indices: 3324532--3324587 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 13
3324522 TATTTAAACA
*
3324532 TTTTTAATATATAT
1 TTTTTATTAT-TAT
3324546 TTTTTAGTTATTAT
1 TTTTTA-TTATTAT
* *
3324560 TTTATATTATTTT
1 TTTTTATTATTAT
3324573 TATTTTATTATTAT
1 T-TTTTATTATTAT
3324587 T
1 T
3324588 AATAACAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 7 0.20
14 25 0.71
15 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTTATTATTAT
Found at i:3324577 original size:16 final size:17
Alignment explanation
Indices: 3324556--3324587 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
3324546 TTTTTAGTTA
3324556 TTATTTTA-TATTATTT
1 TTATTTTATTATTATTT
3324572 TTATTTTATTATTATT
1 TTATTTTATTATTATT
3324588 AATAACAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTTTATTATTATTT
Found at i:3325771 original size:3 final size:3
Alignment explanation
Indices: 3325763--3325813 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
3325753 TTTTAAATAT
3325763 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3325811 TTA
1 TTA
3325814 AACTGAAATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3326206 original size:34 final size:33
Alignment explanation
Indices: 3326165--3326375 Score: 108
Period size: 34 Copynumber: 6.2 Consensus size: 33
3326155 AAGGATAAGA
3326165 ATTAAACCACGAATCAGAGAATAAAGAGATCGAG
1 ATTAAACCACGAATCAGA-AATAAAGAGATCGAG
* * **
3326199 ATTAAACCACGAATCA-AAA-AATGACGTTAAAGG
1 ATTAAACCACGAATCAGAAATAAAGA-GATCGA-G
* * * *
3326232 ATTAAATCATAAGTAAT-A-AAATAAAGAGACCGGG
1 ATTAAA-C-CACG-AATCAGAAATAAAGAGATCGAG
* * * *
3326266 ATTAAACCACGAGTTAGAGGATAACA-ACAATCGAG
1 ATTAAACCACGAATCAGA-AATAA-AGA-GATCGAG
** * ** * *
3326301 ATTAAACTGCGACTTTGAATTAAAGAGATCGGG
1 ATTAAACCACGAATCAGAAATAAAGAGATCGAG
* *
3326334 ATTAAACCATGAATCAAAAAATAAAGAGATCGAG
1 ATTAAACCACGAATC-AGAAATAAAGAGATCGAG
3326368 ATTAAACC
1 ATTAAACC
3326376 GTGAGTCAAA
Statistics
Matches: 128, Mismatches: 36, Indels: 26
0.67 0.19 0.14
Matches are distributed among these distances:
31 6 0.05
32 8 0.06
33 26 0.20
34 55 0.43
35 26 0.20
36 7 0.05
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (33 bp):
ATTAAACCACGAATCAGAAATAAAGAGATCGAG
Found at i:3326336 original size:102 final size:102
Alignment explanation
Indices: 3326230--3326591 Score: 478
Period size: 102 Copynumber: 3.5 Consensus size: 102
3326220 TGACGTTAAA
* * * * **
3326230 GGATTAAATCAT-AAGT-AATAAAATAAAGAGACCGGGATTAAACCACGAGTTAGAGGATAACAA
1 GGATTAAATCATGAA-TCAA-AAAATAAAGAGATCGGGATTAAACCGCGAGTCAAAAAATAACAA
* * *
3326293 CAATCGAGATTAAACTGCGACTTTGAATTAAAGAGATCG
64 CAATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
* * *
3326332 GGATTAAACCATGAATCAAAAAATAAAGAGATCGAGATTAAACCGTGAGTCAAAAAATAACAACA
1 GGATTAAATCATGAATCAAAAAATAAAGAGATCGGGATTAAACCGCGAGTCAAAAAATAACAACA
* * *
3326397 ATCGAGATTAAACTGTAATTTTAAATTGAAGAGATTG
66 ATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
* * *
3326434 GGATTGAA-CAGTGAATCAGAGAATAAAGAGATCGGGATTAAACCGCGAGTCAAAAAATAACAAC
1 GGATTAAATCA-TGAATCAAAAAATAAAGAGATCGGGATTAAACCGCGAGTCAAAAAATAACAAC
3326498 AATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
65 AATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
* ** *
3326536 GGATTGAATCGCGAATCGAAAAATAAAGAGATCGGGATTAAACCGCGAGTCAAAAA
1 GGATTAAATCATGAATCAAAAAATAAAGAGATCGGGATTAAACCGCGAGTCAAAAA
3326592 TTGACGTTAA
Statistics
Matches: 228, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
101 2 0.01
102 221 0.97
103 5 0.02
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.21
Consensus pattern (102 bp):
GGATTAAATCATGAATCAAAAAATAAAGAGATCGGGATTAAACCGCGAGTCAAAAAATAACAACA
ATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
Found at i:3326385 original size:34 final size:34
Alignment explanation
Indices: 3326321--3326591 Score: 199
Period size: 34 Copynumber: 8.0 Consensus size: 34
3326311 GACTTTGAAT
*
3326321 TAAAGAGATCGGGATTAAACCATGAATCAAAAAA
1 TAAAGAGATCGGGATTAAACCGTGAATCAAAAAA
* *
3326355 TAAAGAGATCGAGATTAAACCGTGAGTCAAAAAA
1 TAAAGAGATCGGGATTAAACCGTGAATCAAAAAA
* * * *** *
3326389 TAACA-ACAATCGAGATTAAACTGT-AATTTTAAAT
1 TAA-AGA-GATCGGGATTAAACCGTGAATCAAAAAA
* * * * * *
3326423 TGAAGAGATTGGGATTGAACAGTGAATCAGAGAA
1 TAAAGAGATCGGGATTAAACCGTGAATCAAAAAA
* *
3326457 TAAAGAGATCGGGATTAAACCGCGAGTCAAAAAA
1 TAAAGAGATCGGGATTAAACCGTGAATCAAAAAA
* * * *** *
3326491 TAACA-ACAATCGAGATTAAACTGTG-ATTTTAAAT
1 TAA-AGA-GATCGGGATTAAACCGTGAATCAAAAAA
* * * *
3326525 TAAAGAGATCGGGATTGAATCGCGAATCGAAAAA
1 TAAAGAGATCGGGATTAAACCGTGAATCAAAAAA
* *
3326559 TAAAGAGATCGGGATTAAACCGCGAGTCAAAAA
1 TAAAGAGATCGGGATTAAACCGTGAATCAAAAA
3326592 TTGACGTTAA
Statistics
Matches: 177, Mismatches: 52, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
33 26 0.15
34 120 0.68
35 31 0.18
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (34 bp):
TAAAGAGATCGGGATTAAACCGTGAATCAAAAAA
Found at i:3326781 original size:73 final size:73
Alignment explanation
Indices: 3326688--3327134 Score: 499
Period size: 73 Copynumber: 6.1 Consensus size: 73
3326678 TTAAACCACG
* * * * *
3326688 AGTCAGGGAATTAATAAAATGATCAGGATTAAACCATGAGTCAAAGATTAAAGATGACTAAGACT
1 AGTCAGAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGACT
* * *
3326753 AAATCGTA
66 GAACCGCA
*
3326761 AGTCAGAGAGTTAATGAAATGATCGGGATTAAACCACGAGTCAAATGA-TAAAGATGACTGAGAC
1 AGTCAGAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAA-GATTAAAGATGACTGAGAC
*
3326825 TGAACCACA
65 TGAACCGCA
* ** *
3326834 AGTCAGAGAATTAATGAAATGATTGGGATTAAACCACGAACCAAAGATTAAAGATGATTGAGACT
1 AGTCAGAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGACT
*
3326899 GAACCGTA
66 GAACCGCA
* * * * * * * *
3326907 AGTAAAAAAATTAATGAAATGA-CTGGGATTAAATCACGAGCCAAAGATTAAAGATAACTGGGAT
1 AGTCAGAGAATTAATGAAATGATC-GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGAC
3326971 TGAACCGCA
65 TGAACCGCA
* * *
3326980 AGTC-GAGGGATTAATGAAATGATCGGGATTAAACCATGAGTCGAAGATTAAAGATGACT-AGGA
1 AGTCAGA-GAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGA-GA
* *
3327043 CTAAACCACA
64 CTGAACCGCA
* * ** * * *
3327053 AGTTAGAGAATTAATGAAATGACCAAGATTAAACCACGAGTCAAAGGTTAAAAATGACTGGGACT
1 AGTCAGAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGACT
*
3327118 GAACCGTA
66 GAACCGCA
3327126 AGTCA-AGAA
1 AGTCAGAGAA
3327135 ACTATATAAG
Statistics
Matches: 311, Mismatches: 55, Indels: 17
0.81 0.14 0.04
Matches are distributed among these distances:
72 7 0.02
73 299 0.96
74 5 0.02
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (73 bp):
AGTCAGAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGACT
GAACCGCA
Found at i:3326996 original size:219 final size:219
Alignment explanation
Indices: 3326696--3327128 Score: 559
Period size: 219 Copynumber: 2.0 Consensus size: 219
3326686 CGAGTCAGGG
* * * * *
3326696 AATTAATAAAATGATCAGGATTAAACCATGAGTCAAAGATTAAAGATGACTAAGACTAAATCGTA
1 AATTAATAAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAGATAACTAAGACTAAACCGCA
3326761 AGTCAGAGAGTTAATGAAATGATCGGGATTAAACCACGAGTCAAATGA-TAAAGATGACT-GAGA
66 AGTCAGAGAGTTAATGAAATGATCGGGATTAAACCACGAGTCAAA-GATTAAAGATGACTAG-GA
* **** *
3326824 CTGAACCACAAGTCAGAGAATTAATGAAATGATTGGGATTAAACCACGAACCAAAGATTAAAGAT
129 CTAAACCACAAGTCAGAGAATTAATGAAATGACCAAGATTAAACCACGAACCAAAGATTAAAAAT
*
3326889 GATTGAGACTGAACCGTAAGTAAAAA
194 GACTGAGACTGAACCGTAAGTAAAAA
* * * ** * *
3326915 AATTAATGAAATGA-CTGGGATTAAATCACGAGCCAAAGATTAAAGATAACTGGGATTGAACCGC
1 AATTAATAAAATGATC-AGGATTAAACCACGAGCCAAAGATTAAAGATAACTAAGACTAAACCGC
* * *
3326979 AAGTC-GAGGGATTAATGAAATGATCGGGATTAAACCATGAGTCGAAGATTAAAGATGACTAGGA
65 AAGTCAGAGAG-TTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTAGGA
* ** *
3327043 CTAAACCACAAGTTAGAGAATTAATGAAATGACCAAGATTAAACCACGAGTCAAAGGTTAAAAAT
129 CTAAACCACAAGTCAGAGAATTAATGAAATGACCAAGATTAAACCACGAACCAAAGATTAAAAAT
*
3327108 GACTGGGACTGAACCGTAAGT
194 GACTGAGACTGAACCGTAAGT
3327129 CAAGAAACTA
Statistics
Matches: 183, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
218 7 0.04
219 175 0.96
220 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.21
Consensus pattern (219 bp):
AATTAATAAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAGATAACTAAGACTAAACCGCA
AGTCAGAGAGTTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTAGGACT
AAACCACAAGTCAGAGAATTAATGAAATGACCAAGATTAAACCACGAACCAAAGATTAAAAATGA
CTGAGACTGAACCGTAAGTAAAAA
Found at i:3328192 original size:8 final size:8
Alignment explanation
Indices: 3328179--3328265 Score: 72
Period size: 9 Copynumber: 10.8 Consensus size: 8
3328169 TTCTTTCTCA
*
3328179 TTTTTCTT
1 TTTTTATT
3328187 TTTTTCATT
1 TTTTT-ATT
3328196 TTTTTATT
1 TTTTTATT
3328204 TATTTTATT
1 T-TTTTATT
3328213 TTATTTATT
1 TT-TTTATT
3328222 TTATTTATT
1 TT-TTTATT
* *
3328231 TGTATA-T
1 TTTTTATT
*
3328238 TTTTTCTT
1 TTTTTATT
3328246 TTTTT-TT
1 TTTTTATT
*
3328253 TTTCT-TT
1 TTTTTATT
3328260 TTTTTA
1 TTTTTA
3328266 AGTAAAATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
7 16 0.24
8 19 0.29
9 31 0.47
ACGTcount: A:0.13, C:0.05, G:0.01, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:3328212 original size:5 final size:5
Alignment explanation
Indices: 3328197--3328265 Score: 53
Period size: 4 Copynumber: 15.0 Consensus size: 5
3328187 TTTTTCATTT
* *
3328197 TTTTA -TTTA TTTTA TTTTA -TTTA TTTTA -TTTA TTTGTA TATT- TTTTC
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA
*
3328244 TTTT- TTTT- TTTTC TTTT- TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
3328266 AGTAAAATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
4 27 0.49
5 24 0.44
6 4 0.07
ACGTcount: A:0.14, C:0.03, G:0.01, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:3328214 original size:14 final size:14
Alignment explanation
Indices: 3328197--3328231 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3328187 TTTTTCATTT
3328197 TTTTATTTATTTTA
1 TTTTATTTATTTTA
3328211 TTTTATTTATTTTA
1 TTTTATTTATTTTA
3328225 -TTTATTT
1 TTTTATTT
3328232 GTATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:3328255 original size:13 final size:13
Alignment explanation
Indices: 3328237--3328264 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3328227 TATTTGTATA
3328237 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
3328250 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
3328263 TT
1 TT
3328265 AAGTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTTTTCTTTTTT
Found at i:3339602 original size:13 final size:13
Alignment explanation
Indices: 3339584--3339610 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3339574 TAGGGTAAAA
3339584 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
3339597 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
3339610 T
1 T
3339611 AAAAAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TTTAGGGTTTAAG
Found at i:3339903 original size:30 final size:29
Alignment explanation
Indices: 3339833--3339904 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
3339823 GCGTATTCTA
3339833 TTATTATTATTATTTAAATATTTTTAATT
1 TTATTATTATTATTTAAATATTTTTAATT
* * *
3339862 TTTTTAGTTATTATTT-TATATTATTTTCATT
1 TTATTA-TTATTATTTAAATA-T-TTTTAATT
3339893 TTATTATTATTA
1 TTATTATTATTA
3339905 ATAACAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 8 0.22
30 16 0.44
31 12 0.33
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (29 bp):
TTATTATTATTATTTAAATATTTTTAATT
Found at i:3340964 original size:23 final size:23
Alignment explanation
Indices: 3340938--3340989 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
3340928 TGAAGCTGGT
*
3340938 CAGGGGGCTAGTCAGGAGGCTGA
1 CAGGGGACTAGTCAGGAGGCTGA
* *
3340961 CAGGAGACTAGTCGGGAGGCTGA
1 CAGGGGACTAGTCAGGAGGCTGA
3340984 CAGGGG
1 CAGGGG
3340990 TGGCAACGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.48, T:0.12
Consensus pattern (23 bp):
CAGGGGACTAGTCAGGAGGCTGA
Found at i:3341080 original size:29 final size:25
Alignment explanation
Indices: 3341047--3341102 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
3341037 TTTTTAATTT
*
3341047 TTTTAAATTAATTTTTTAATTATTATATA
1 TTTTAAA-T-ATTTATT-ATTATTAT-TA
3341076 TTTTAAATATTTATTATTATTATTA
1 TTTTAAATATTTATTATTATTATTA
3341101 TT
1 TT
3341103 AATAAACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 4 0.15
26 8 0.31
27 6 0.23
28 1 0.04
29 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTAAATATTTATTATTATTATTA
Found at i:3350409 original size:2 final size:2
Alignment explanation
Indices: 3350402--3350432 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3350392 TTTGGTCACC
3350402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3350433 ATTTACAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3351144 original size:14 final size:14
Alignment explanation
Indices: 3351121--3351154 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3351111 AAAATTCGTG
* *
3351121 AAATTTTTTATTAA
1 AAATTATTTAATAA
3351135 AAATTATTTAATAA
1 AAATTATTTAATAA
3351149 AAATTA
1 AAATTA
3351155 AAGTTGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTATTTAATAA
Found at i:3351399 original size:13 final size:13
Alignment explanation
Indices: 3351376--3351409 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3351366 GAACTCTATC
3351376 AATTCTTTGATTTT
1 AATT-TTTGATTTT
3351390 AATTTTTGATTTT
1 AATTTTTGATTTT
*
3351403 AGTTTTT
1 AATTTTT
3351410 ATTAAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.68
Consensus pattern (13 bp):
AATTTTTGATTTT
Found at i:3354064 original size:2 final size:2
Alignment explanation
Indices: 3354059--3354084 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3354049 TCGAGAGAAA
3354059 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
3354085 CTAATGAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3356749 original size:35 final size:34
Alignment explanation
Indices: 3356704--3356789 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 34
3356694 TTTTCAATGA
* **
3356704 ATTTTCGAAAATTTTTAAAAGCTTCTGAAAATTT
1 ATTTTCGAAAATTTTTAAAAGCTTCCGAAAATAG
3356738 ATTTTCAGAAAA-TTTTAAAAGCTTCCGAAAATAG
1 ATTTTC-GAAAATTTTTAAAAGCTTCCGAAAATAG
3356772 ATTTTCGAAAAATTTTTA
1 ATTTTCG-AAAATTTTTA
3356790 TTTATTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
33 1 0.02
34 35 0.76
35 10 0.22
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (34 bp):
ATTTTCGAAAATTTTTAAAAGCTTCCGAAAATAG
Found at i:3361658 original size:29 final size:29
Alignment explanation
Indices: 3361625--3361686 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
3361615 GAAACCGCCC
3361625 AACAGCCCAACACCATGGAAACGCTGACA
1 AACAGCCCAACACCATGGAAACGCTGACA
*
3361654 AACAGCCCAACACCATGGAAATGCTGACA
1 AACAGCCCAACACCATGGAAACGCTGACA
3361683 AACA
1 AACA
3361687 ATAAAGCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.44, C:0.32, G:0.16, T:0.08
Consensus pattern (29 bp):
AACAGCCCAACACCATGGAAACGCTGACA
Found at i:3363274 original size:14 final size:15
Alignment explanation
Indices: 3363240--3363282 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
3363230 AATTAGATGT
* *
3363240 TATTTAATAAATTTGA
1 TATTT-ATAATTTTAA
3363256 TATTTA-AATTTTAA
1 TATTTATAATTTTAA
3363270 TATTTATAATTTT
1 TATTTATAATTTT
3363283 TAAAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TATTTATAATTTTAA
Found at i:3380170 original size:13 final size:14
Alignment explanation
Indices: 3380131--3380164 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3380121 CTACCACTCA
3380131 TAAAAAATAATTTT
1 TAAAAAATAATTTT
3380145 TAAAAAATAATTTT
1 TAAAAAATAATTTT
3380159 TGAAAA
1 T-AAAA
3380165 TTATTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TAAAAAATAATTTT
Found at i:3380427 original size:19 final size:20
Alignment explanation
Indices: 3380403--3380518 Score: 92
Period size: 23 Copynumber: 5.4 Consensus size: 20
3380393 AAAATAAAAC
3380403 TATTTATT-ATTATTTATAT
1 TATTTATTAATTATTTATAT
3380422 TATTTATTAATATATTATAATAT
1 TATTTATTAAT-TATT-T-ATAT
*
3380445 TATTTATTAATTAATATAATAT
1 TATTTATTAATT-AT-TTATAT
*
3380467 TATTTATTAA-TATTATCTAT
1 TATTTATTAATTATT-TATAT
* *
3380487 TAATATATTACATTAATAGTATAT
1 T-ATTTATTA-ATT-AT-TTATAT
3380511 TATTTATT
1 TATTTATT
3380519 CATATAATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
19 9 0.12
20 8 0.10
21 12 0.15
22 17 0.22
23 24 0.31
24 8 0.10
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.58
Consensus pattern (20 bp):
TATTTATTAATTATTTATAT
Found at i:3381944 original size:187 final size:194
Alignment explanation
Indices: 3381610--3381992 Score: 528
Period size: 187 Copynumber: 2.0 Consensus size: 194
3381600 AAAAAGGAGC
* * *
3381610 AGGGATCTTAAAAAAAAAAGAGTATTTGAAAGCAGATCTGATAATTTGTGTATTTATATCACATA
1 AGGGATCTTAAAAAAAAAAGAGTATTTGAAAGCAAATATGATAATTTGTATATTTATATCACATA
* *
3381675 AAATATTCAAATTCATATATTCATATCGTATTTATATAAAAATTATGTGTTATAATTCATGTCGA
66 AAATA-TC--A-TCATATATTCATATCGTATTTATACAAAAATTATGTGTCATAATTCATGTCGA
* * *
3381740 TATAAAAATAAAAAATA-TTTTTTTGTTTTATTAAATTCATATATAGTTATTATTAAAATTTTAA
127 TATAAAAATAAAAAATATTTTTTTTATTTTATTAAATTCATATATAATAATTATTAAAATTTTAA
3381804 AGT
192 AGT
* * * * *
3381807 AGGGATC-T-AAAAAAAATGAGTATTTGAAAGTAAATATGATGATTTGTATATTTATATTATATA
1 AGGGATCTTAAAAAAAAAAGAGTATTTGAAAGCAAATATGATAATTTGTATATTTATATCACATA
* *
3381870 AAATA-C-TCA-A-ATTCATATTGTATTTATACAAAAATTATGTGTCATAATTCGTGTCGATATA
66 AAATATCATCATATATTCATATCGTATTTATACAAAAATTATGTGTCATAATTCATGTCGATATA
* *
3381931 AAAATATAAAATATTTTTTTTATTTTATTAAATTTATATATAATAATTATTAAAATTTTAAA
131 AAAATAAAAAATATTTTTTTTATTTTATTAAATTCATATATAATAATTATTAAAATTTTAAA
3381993 TTGTATCATC
Statistics
Matches: 168, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
187 59 0.35
188 45 0.27
189 3 0.02
193 1 0.01
195 52 0.31
196 1 0.01
197 7 0.04
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (194 bp):
AGGGATCTTAAAAAAAAAAGAGTATTTGAAAGCAAATATGATAATTTGTATATTTATATCACATA
AAATATCATCATATATTCATATCGTATTTATACAAAAATTATGTGTCATAATTCATGTCGATATA
AAAATAAAAAATATTTTTTTTATTTTATTAAATTCATATATAATAATTATTAAAATTTTAAAGT
Found at i:3382529 original size:18 final size:19
Alignment explanation
Indices: 3382494--3382531 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
3382484 AAAAGTTAGA
*
3382494 TTAAAAATAATAATAATTT
1 TTAAAAATAATAAGAATTT
*
3382513 TTAAAAA-AATGAGAATTT
1 TTAAAAATAATAAGAATTT
3382531 T
1 T
3382532 ATTGAATCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TTAAAAATAATAAGAATTT
Found at i:3382919 original size:31 final size:31
Alignment explanation
Indices: 3382884--3382942 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
3382874 TATTTTATAA
*
3382884 TATTTTTTCAACAAACTATTTATAATAATTT
1 TATTTTTTAAACAAACTATTTATAATAATTT
* **
3382915 TATTTTTTAAATAATGTATTTATAATAA
1 TATTTTTTAAACAAACTATTTATAATAA
3382943 AATTCAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (31 bp):
TATTTTTTAAACAAACTATTTATAATAATTT
Found at i:3383204 original size:16 final size:16
Alignment explanation
Indices: 3383183--3383221 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3383173 ATATTGAAAA
*
3383183 TATTTATACTTTTCGT
1 TATTTATAATTTTCGT
*
3383199 TATTTAAAATTTTCGT
1 TATTTATAATTTTCGT
*
3383215 CATTTAT
1 TATTTAT
3383222 TCTTACTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (16 bp):
TATTTATAATTTTCGT
Found at i:3384947 original size:4 final size:4
Alignment explanation
Indices: 3384940--3384987 Score: 53
Period size: 4 Copynumber: 11.5 Consensus size: 4
3384930 AAAACAAACA
*
3384940 AAAT AAAT GAAT AAA- ACAACT AAAT AAAT AATAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT A-AA-T AAAT AAAT AA-AT AAAT AAAT AAAT AA
3384988 TATCATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 1 0.03
4 30 0.79
5 6 0.16
6 1 0.03
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:3384966 original size:21 final size:20
Alignment explanation
Indices: 3384930--3384997 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
3384920 CAAAATATTA
*
3384930 AAAACAAACAAAATAAATGAAT
1 AAAAC-AACTAAATAAAT-AAT
3384952 AAAACAACTAAATAAATAAT
1 AAAACAACTAAATAAATAAT
* * *
3384972 ATAAATAAATAAATAATATCAT
1 A-AAACAACTAAATAA-ATAAT
3384994 AAAA
1 AAAA
3384998 AAATGGGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.10
21 26 0.65
22 10 0.25
ACGTcount: A:0.71, C:0.07, G:0.01, T:0.21
Consensus pattern (20 bp):
AAAACAACTAAATAAATAAT
Found at i:3384975 original size:22 final size:23
Alignment explanation
Indices: 3384922--3384976 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
3384912 TAATCATGCA
*
3384922 AAATATTA-AAAACAAACAAAAT
1 AAATAATATAAAACAAACAAAAT
* *
3384944 AAATGA-ATAAAAC-AACTAAAT
1 AAATAATATAAAACAAACAAAAT
3384965 AAATAATATAAA
1 AAATAATATAAA
3384977 TAAATAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATAATATAAAACAAACAAAAT
Found at i:3384976 original size:13 final size:12
Alignment explanation
Indices: 3384940--3384987 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
3384930 AAAACAAACA
*
3384940 AAATAAATGAAT
1 AAATAAATAAAT
3384952 AAA-ACAACTAAAT
1 AAATA-AA-TAAAT
3384965 AAATAATATAAAT
1 AAATAA-ATAAAT
3384978 AAATAAATAA
1 AAATAAATAA
3384988 TATCATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
11 1 0.03
12 9 0.29
13 19 0.61
14 2 0.06
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (12 bp):
AAATAAATAAAT
Found at i:3384988 original size:17 final size:17
Alignment explanation
Indices: 3384940--3384990 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
3384930 AAAACAAACA
* * *
3384940 AAATAAATGAATAAAAC
1 AAATAAATAAATAATAT
*
3384957 AACTAAATAAATAATAT
1 AAATAAATAAATAATAT
3384974 AAATAAATAAATAATAT
1 AAATAAATAAATAATAT
3384991 CATAAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
AAATAAATAAATAATAT
Found at i:3385987 original size:18 final size:18
Alignment explanation
Indices: 3385950--3385988 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
3385940 TAATGACATG
3385950 AAATCATATTTAAAATAAA
1 AAATCATA-TTAAAATAAA
3385969 AAATCATA-TAAAGATAAA
1 AAATCATATTAAA-ATAAA
3385987 AA
1 AA
3385989 CTAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
19 8 0.42
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATCATATTAAAATAAA
Found at i:3386050 original size:3 final size:3
Alignment explanation
Indices: 3386042--3386087 Score: 65
Period size: 3 Copynumber: 14.3 Consensus size: 3
3386032 ATAAATTTGG
3386042 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATAA ATAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA ATA A
3386088 CTTAGATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 31 0.74
4 11 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:3386337 original size:39 final size:39
Alignment explanation
Indices: 3386283--3386407 Score: 153
Period size: 39 Copynumber: 3.2 Consensus size: 39
3386273 GCTCCTAAAA
* *
3386283 AATAGAGGTACACAACTTGAAACATAAAAG-TTCCTCAAC
1 AATAGAGGCACACAACTTTAAACATAAAAGCTT-CTCAAC
* * *
3386322 AATAGAGGCACACAACTTTAAACATAAAGGCTTTTCATC
1 AATAGAGGCACACAACTTTAAACATAAAAGCTTCTCAAC
* * * *
3386361 AATAGAGGCACACAACTTTAAAAATAATAGCTTCTTATC
1 AATAGAGGCACACAACTTTAAACATAAAAGCTTCTCAAC
3386400 AATAGAGG
1 AATAGAGG
3386408 TATATAATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
39 73 0.97
40 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (39 bp):
AATAGAGGCACACAACTTTAAACATAAAAGCTTCTCAAC
Found at i:3386420 original size:78 final size:78
Alignment explanation
Indices: 3386283--3386429 Score: 179
Period size: 78 Copynumber: 1.9 Consensus size: 78
3386273 GCTCCTAAAA
* * *
3386283 AATAGAGGTACACAACTTGAAACATAAAAGTTCCTCAACAATAGAGGCACACAACTTTAAACATA
1 AATAGAGGCACACAACTTGAAAAATAAAAGTTCCTCAACAATAGAGGCACACAACTTTAAAAATA
3386348 AAGGCTTTTCATC
66 AAGGCTTTTCATC
* * * * * * * *
3386361 AATAGAGGCACACAACTTTAAAAATAATAGCTT-CTTATCAATAGAGGTATATAATTTTAAAAAT
1 AATAGAGGCACACAACTTGAAAAATAAAAG-TTCCTCAACAATAGAGGCACACAACTTTAAAAAT
3386425 AAAGG
65 AAAGG
3386430 TTCCTCATAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
78 55 0.96
79 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.26
Consensus pattern (78 bp):
AATAGAGGCACACAACTTGAAAAATAAAAGTTCCTCAACAATAGAGGCACACAACTTTAAAAATA
AAGGCTTTTCATC
Found at i:3386451 original size:78 final size:78
Alignment explanation
Indices: 3386292--3386485 Score: 176
Period size: 78 Copynumber: 2.5 Consensus size: 78
3386282 AAATAGAGGT
* * * * * * * * * *
3386292 ACACAACTTGAAACATAAAAGTTCCTCA-ACAATAGAGGCACACAACTTTAAACATAAAGGCTTT
1 ACACAACTTTAAAAATAAGAGCTCCTCATA-AATAGAGGTATATAATTTTAAAAATAAAGGCTTC
* * *
3386356 TCATCAATAGAGGC
65 TCATAAATAAAGCC
* * * *
3386370 ACACAACTTTAAAAATAATAGCTTCTTATCAATAGAGGTATATAATTTTAAAAATAAAGG-TTCC
1 ACACAACTTTAAAAATAAGAGCTCCTCATAAATAGAGGTATATAATTTTAAAAATAAAGGCTT-C
3386434 TCATAAATAAAGCC
65 TCATAAATAAAGCC
***
3386448 ACACTGTTTTAAAAATAAGAGCTCCTCATAAATAGAGG
1 ACACAACTTTAAAAATAAGAGCTCCTCATAAATAGAGG
3386486 CATACAACAC
Statistics
Matches: 91, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
77 2 0.02
78 89 0.98
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (78 bp):
ACACAACTTTAAAAATAAGAGCTCCTCATAAATAGAGGTATATAATTTTAAAAATAAAGGCTTCT
CATAAATAAAGCC
Found at i:3387828 original size:246 final size:247
Alignment explanation
Indices: 3387365--3387860 Score: 976
Period size: 246 Copynumber: 2.0 Consensus size: 247
3387355 ATCTAAGTTG
3387365 TCTTTTCAGGTTTTCAACTTAGATGCACCATTTTTTACTTAAATCGCCTTTTCAGATTTTCGATT
1 TCTTTTCAGGTTTTCAACTTAGATGCACCATTTTTTACTTAAATCGCCTTTTCAGATTTTCGATT
3387430 TGAGCTTTCATTTTTGTCGTTTTCAATTCTTTCCATTTCTTTTTTTTTTTCTCTTTTTTCCTTTT
66 TGAGCTTTCATTTTTGTCGTTTTCAATTCTTTCCATTTCTTTTTTTTTTTCTCTTTTTTCCTTTT
3387495 TCTTGCTTTGTTTTTATTTTTACTTGCACATCTTTTTGACAATTTTCCTCCTTATCTCTCTTTCT
131 TCTTGCTTTGTTTTTATTTTTACTTGCACATCTTTTTGACAATTTTCCTCCTTATCTCTCTTTCT
3387560 TTTTATCCATCAGTAACATTTTAATCAAAACCTCAAATAATCTAATTACAAA
196 TTTTATCCATCAGTAACATTTTAATCAAAACCTCAAATAATCTAATTACAAA
*
3387612 TCTTTTCAGGTTTTCAACTTAGATGCACCATTTTTTACTTAAATCGTCTTTTCAGATTTTCGATT
1 TCTTTTCAGGTTTTCAACTTAGATGCACCATTTTTTACTTAAATCGCCTTTTCAGATTTTCGATT
3387677 TGAGCTTTCATTTTTGTCGTTTTCAATTCTTTCCATTTC-TTTTTTTTTTCTCTTTTTTCCTTTT
66 TGAGCTTTCATTTTTGTCGTTTTCAATTCTTTCCATTTCTTTTTTTTTTTCTCTTTTTTCCTTTT
3387741 TCTTGCTTTGTTTTTATTTTTACTTGCACATCTTTTTGACAATTTTCCTCCTTATCTCTCTTTCT
131 TCTTGCTTTGTTTTTATTTTTACTTGCACATCTTTTTGACAATTTTCCTCCTTATCTCTCTTTCT
3387806 TTTTATCCATCAGTAACATTTTAATCAAAACCTCAAATAATCTAATTACAAA
196 TTTTATCCATCAGTAACATTTTAATCAAAACCTCAAATAATCTAATTACAAA
3387858 TCT
1 TCT
3387861 ATCCTAATTC
Statistics
Matches: 248, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
246 145 0.58
247 103 0.42
ACGTcount: A:0.20, C:0.20, G:0.06, T:0.53
Consensus pattern (247 bp):
TCTTTTCAGGTTTTCAACTTAGATGCACCATTTTTTACTTAAATCGCCTTTTCAGATTTTCGATT
TGAGCTTTCATTTTTGTCGTTTTCAATTCTTTCCATTTCTTTTTTTTTTTCTCTTTTTTCCTTTT
TCTTGCTTTGTTTTTATTTTTACTTGCACATCTTTTTGACAATTTTCCTCCTTATCTCTCTTTCT
TTTTATCCATCAGTAACATTTTAATCAAAACCTCAAATAATCTAATTACAAA
Found at i:3393152 original size:26 final size:28
Alignment explanation
Indices: 3393095--3393153 Score: 68
Period size: 31 Copynumber: 2.1 Consensus size: 28
3393085 TGAGAATTAT
3393095 ATGCACAAAGTTAAACATGACAATGAAAATG
1 ATGCACAAAGTTAAACATGACAAT---AATG
*
3393126 ATGCATAAAGTTAAACA-GACAAT-ATG
1 ATGCACAAAGTTAAACATGACAATAATG
3393152 AT
1 AT
3393154 AATGCAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.19
30 6 0.22
31 16 0.59
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (28 bp):
ATGCACAAAGTTAAACATGACAATAATG
Found at i:3395216 original size:34 final size:34
Alignment explanation
Indices: 3395177--3395248 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
3395167 ATATTCAAAA
3395177 AAAAAACA-AATGACAAAATAAATAAATAA-ACCAAC
1 AAAAAACAGAAT-A-AAAATAAATAAATAATACC-AC
*
3395212 AAAAAATAGAATAAAAATAAATAAATAATACCAC
1 AAAAAACAGAATAAAAATAAATAAATAATACCAC
3395246 AAA
1 AAA
3395249 GAAATTGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
34 20 0.59
35 11 0.32
36 3 0.09
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.14
Consensus pattern (34 bp):
AAAAAACAGAATAAAAATAAATAAATAATACCAC
Found at i:3396247 original size:4 final size:4
Alignment explanation
Indices: 3396238--3396324 Score: 54
Period size: 4 Copynumber: 21.8 Consensus size: 4
3396228 GATAGAATTT
* * * * * *
3396238 ATAA ATAA ATAA ATAA ATAC TTAAA ATAA A-AA ATCAG ATAA AGAC AGAA
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA AT-AA ATAA ATAA ATAA
* *
3396287 ACT-A A-AA ATTA ATAA ATAA ATAA ATAG ATAA ATAA ATA
1 A-TAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
3396325 CTCAAGATAA
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
3 5 0.08
4 53 0.84
5 5 0.08
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:3396273 original size:52 final size:52
Alignment explanation
Indices: 3396204--3396308 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
3396194 ATTAAATTAG
* * ** *
3396204 ACTTAAAATAAATAATCAGATAAAGATAGAATTTATAAATAAATAAATAAAT
1 ACTTAAAATAAAAAATCAGATAAAGACAGAAACTAAAAATAAATAAATAAAT
*
3396256 ACTTAAAATAAAAAATCAGATAAAGACAGAAACTAAAAATTAATAAATAAAT
1 ACTTAAAATAAAAAATCAGATAAAGACAGAAACTAAAAATAAATAAATAAAT
3396308 A
1 A
3396309 AATAGATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (52 bp):
ACTTAAAATAAAAAATCAGATAAAGACAGAAACTAAAAATAAATAAATAAAT
Found at i:3396356 original size:3 final size:3
Alignment explanation
Indices: 3396348--3396381 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
3396338 ATAAATTTGG
* *
3396348 ATA ATA ATA ATA ATA ATA ATA ACA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3396382 CAACAACTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:3396382 original size:12 final size:12
Alignment explanation
Indices: 3396348--3396384 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
3396338 ATAAATTTGG
*
3396348 ATAATAATAATA
1 ATAATAATAACA
3396360 ATAATAATAACA
1 ATAATAATAACA
*
3396372 ATAACAATAACA
1 ATAATAATAACA
3396384 A
1 A
3396385 CAACTTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAATAACA
Found at i:3397165 original size:31 final size:32
Alignment explanation
Indices: 3397130--3397194 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
3397120 TATTTTGTAA
3397130 TATTTTTTCAACAAACT-ATTTATAAT-AAATT
1 TATTTTTTCAA-AAACTAATTTATAATAAAATT
* * *
3397161 TATTTTTTTAATAATTAATTTATAATAAAATT
1 TATTTTTTCAAAAACTAATTTATAATAAAATT
3397193 TA
1 TA
3397195 AATTTATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 3 0.10
31 19 0.66
32 7 0.24
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (32 bp):
TATTTTTTCAAAAACTAATTTATAATAAAATT
Found at i:3397450 original size:41 final size:42
Alignment explanation
Indices: 3397373--3397453 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 42
3397363 TTTAATTAAC
3397373 CTTAATTAGTATTTATAACACTCATTAACCAGATCCATAAAT
1 CTTAATTAGTATTTATAACACTCATTAACCAGATCCATAAAT
** *
3397415 CTTAATTAGTATTTA-AACACTTGTTAACCATATCCATAA
1 CTTAATTAGTATTTATAACACTCATTAACCAGATCCATAA
3397454 CAAATCGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 21 0.58
42 15 0.42
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (42 bp):
CTTAATTAGTATTTATAACACTCATTAACCAGATCCATAAAT
Found at i:3397637 original size:44 final size:44
Alignment explanation
Indices: 3397587--3397675 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
3397577 ACTTAAGTTC
3397587 CAAAGGCAATCTTAAACTTTTCTTGAAAAAACTTAGGAAAGTGG
1 CAAAGGCAATCTTAAACTTTTCTTGAAAAAACTTAGGAAAGTGG
* *
3397631 CAAAGGCAATCTTAAACTTTTCTTGTAAAAACTTGGGAAAGTGG
1 CAAAGGCAATCTTAAACTTTTCTTGAAAAAACTTAGGAAAGTGG
3397675 C
1 C
3397676 GGATATTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (44 bp):
CAAAGGCAATCTTAAACTTTTCTTGAAAAAACTTAGGAAAGTGG
Found at i:3402995 original size:13 final size:12
Alignment explanation
Indices: 3402973--3403022 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
3402963 TAATCATTTT
* *
3402973 AAATACAATACA
1 AAATATAATATA
3402985 ATAATATAATATA
1 A-AATATAATATA
3402998 AAA-ATAATATA
1 AAATATAATATA
3403009 AAA-ATATATATA
1 AAATATA-ATATA
3403021 AA
1 AA
3403023 TATGTCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 14 0.41
12 10 0.29
13 10 0.29
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATATAATATA
Found at i:3403006 original size:11 final size:11
Alignment explanation
Indices: 3402990--3403022 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
3402980 ATACAATAAT
3402990 ATAATATAAAA
1 ATAATATAAAA
3403001 ATAATATAAAA
1 ATAATATAAAA
3403012 ATATATATAAA
1 ATA-ATATAAA
3403023 TATGTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:3405522 original size:1 final size:1
Alignment explanation
Indices: 3405518--3405542 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3405508 GGAATGACAG
3405518 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
3405543 CAGTGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3408896 original size:13 final size:13
Alignment explanation
Indices: 3408878--3408904 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3408868 ACAAAATATT
3408878 TTTTTTTAATTTA
1 TTTTTTTAATTTA
3408891 TTTTTTTAATTTA
1 TTTTTTTAATTTA
3408904 T
1 T
3408905 AATACTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTTTAATTTA
Found at i:3409573 original size:29 final size:29
Alignment explanation
Indices: 3409524--3409583 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
3409514 ACTTAACTTT
* *
3409524 TTAAAAAGAAAAGATTGTATAAAATCGAA
1 TTAAAAAGAAAAGATTATATAAAATCAAA
*
3409553 TTAAAAAGAAAATATTATATAAAATCAAA
1 TTAAAAAGAAAAGATTATATAAAATCAAA
3409582 TT
1 TT
3409584 CGAAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (29 bp):
TTAAAAAGAAAAGATTATATAAAATCAAA
Found at i:3414295 original size:33 final size:33
Alignment explanation
Indices: 3414268--3414342 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
3414258 ATCTCCTTCT
*
3414268 CCACCACCACCTTATGAGTATAAATCTCCACCA
1 CCACCACCACCTTATGAGTACAAATCTCCACCA
*
3414301 CCACCACCACCTTATGAGTACAAGTCTCCACCA
1 CCACCACCACCTTATGAGTACAAATCTCCACCA
3414334 CCACCACCA
1 CCACCACCA
3414343 AAACATGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.32, C:0.44, G:0.07, T:0.17
Consensus pattern (33 bp):
CCACCACCACCTTATGAGTACAAATCTCCACCA
Found at i:3414428 original size:48 final size:48
Alignment explanation
Indices: 3414367--3414923 Score: 427
Period size: 48 Copynumber: 11.4 Consensus size: 48
3414357 GCCCCCGTAT
* *
3414367 TACTACAAATCTCCACCACCTCCATCTCCATCACCACCTCCTCCATAC
1 TACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCTCCATAC
* * * *
3414415 TACTATAAGTCTCCTCCACCTCCATCTCCATCCCCACCTCCTCCATAC
1 TACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCTCCATAC
* * * * * ** *** *
3414463 TATTACAAGTCTCCACCACCACCACCAAAGCATGAAGAAAAGCCTCCATAT
1 TACTACAAGTCTCCACCACCTCCATC--ACCAT-CACCACCTCCTCCATAC
* *
3414514 TACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATAC
1 TACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCTCCATAC
* * * * * * ** *** * * *
3414562 TATTACGAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCCCCGTAT
1 TACTACAAGTCTCCACCACCTCCATC--ACCAT-CACCACCTCCTCCATAC
* * *
3414613 TACTACAACTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATAC
1 TACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCTCCATAC
* * * * ** *** *
3414661 TACTACAAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCTCCATAT
1 TACTACAAGTCTCCACCACCTCCATC--ACCAT-CACCACCTCCTCCATAC
* *
3414712 TACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATAC
1 TACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCTCCATAC
* * * *
3414760 TACTACAAGTCCCCACCACCTCCATCTCCATCCCCACCTCCTCCATAT
1 TACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCTCCATAC
* * * ** **
3414808 TACTACAAGTCTCCACCACCACCAAAGCACGAGGAGAAGCCTCCT---TAC
1 TACTACAAGTCTCCACCACCTCC--ATCACCATCACCA-CCTCCTCCATAC
* *
3414856 TACTACAAGTCTCCTCCACCTCCATCTCCATCACCACCTCCTCCATAC
1 TACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCTCCATAC
*
3414904 TACTATAAGTCTCCACCACC
1 TACTACAAGTCTCCACCACC
3414924 ACCACCAAAA
Statistics
Matches: 377, Mismatches: 117, Indels: 30
0.72 0.22 0.06
Matches are distributed among these distances:
45 6 0.02
46 6 0.02
48 244 0.65
49 9 0.02
50 14 0.04
51 98 0.26
ACGTcount: A:0.29, C:0.45, G:0.05, T:0.21
Consensus pattern (48 bp):
TACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCTCCATAC
Found at i:3414478 original size:27 final size:26
Alignment explanation
Indices: 3414400--3414479 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 26
3414390 ATCTCCATCA
*
3414400 CCACCTCCTCCATACTACTATAAGTCT
1 CCACCTCCTCCATACTA-TACAAGTCT
* * * *
3414427 CCTCCACCTCCAT-C--T-CCA-TCC
1 CCACCTCCTCCATACTATACAAGTCT
3414448 CCACCTCCTCCATACTATTACAAGTCT
1 CCACCTCCTCCATACTA-TACAAGTCT
3414475 CCACC
1 CCACC
3414480 ACCACCACCA
Statistics
Matches: 38, Mismatches: 9, Indels: 12
0.64 0.15 0.20
Matches are distributed among these distances:
21 13 0.34
22 2 0.05
23 1 0.03
25 1 0.03
26 3 0.08
27 18 0.47
ACGTcount: A:0.23, C:0.49, G:0.03, T:0.26
Consensus pattern (26 bp):
CCACCTCCTCCATACTATACAAGTCT
Found at i:3414615 original size:147 final size:145
Alignment explanation
Indices: 3414319--3414589 Score: 335
Period size: 147 Copynumber: 1.9 Consensus size: 145
3414309 ACCTTATGAG
* *
3414319 TACAAGTCTCCACCACCACCACCAAAACATGAAGAGAAGCCCCCGTATTACTACAAATCTCCACC
1 TACAAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCCCCATATTACTACAAATCTCCACC
* * * * * ** **
3414384 ACCTCCATCTCCATCACCACCTCCTCCATACTACTATAAGTCTCCTCCACCTCCATCTCCATCCC
66 ACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCACCACCACCACCAACATAAC
* ***
3414449 CACCTCCTCCATACTAT
131 AAAAGCCTCC--ACTAT
* * * *
3414466 TACAAGTCTCCACCACCACCACCAAAGCATGAAGAAAAGCCTCCATATTACTACAAGTCTCCTCC
1 TACAAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCCCCATATTACTACAAATCTCCACC
* *
3414531 ACCTCCATCCCCATCACCACCTCCTCCATACTATTACGAGTCTCCACCACCACCACCAA
66 ACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCACCACCACCACCAA
3414590 AACATGAAGA
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
147 109 1.00
ACGTcount: A:0.30, C:0.44, G:0.06, T:0.20
Consensus pattern (145 bp):
TACAAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCCCCATATTACTACAAATCTCCACC
ACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCACCACCACCACCAACATAAC
AAAAGCCTCCACTAT
Found at i:3414628 original size:198 final size:198
Alignment explanation
Indices: 3414415--3414779 Score: 649
Period size: 198 Copynumber: 1.8 Consensus size: 198
3414405 TCCTCCATAC
* * * * *
3414415 TACTATAAGTCTCCTCCACCTCCATCTCCATCCCCACCTCCTCCATACTATTACAAGTCTCCACC
1 TACTACAACTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCACC
*
3414480 ACCACCACCAAAGCATGAAGAAAAGCCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCAT
66 ACCACCACCAAAACATGAAGAAAAGCCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCAT
* * *
3414545 CACCACCTCCTCCATACTATTACGAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCCCCG
131 CACCACCTCCTCCATACTACTACAAGTCCCCACCACCACCACCAAAACATGAAGAAAAGCCCCCG
3414610 TAT
196 TAT
3414613 TACTACAACTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCACC
1 TACTACAACTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCACC
3414678 ACCACCACCAAAACATGAAGAAAAGCCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCAT
66 ACCACCACCAAAACATGAAGAAAAGCCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCAT
3414743 CACCACCTCCTCCATACTACTACAAGTCCCCACCACC
131 CACCACCTCCTCCATACTACTACAAGTCCCCACCACC
3414780 TCCATCTCCA
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
198 158 1.00
ACGTcount: A:0.30, C:0.45, G:0.05, T:0.20
Consensus pattern (198 bp):
TACTACAACTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCACC
ACCACCACCAAAACATGAAGAAAAGCCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCAT
CACCACCTCCTCCATACTACTACAAGTCCCCACCACCACCACCAAAACATGAAGAAAAGCCCCCG
TAT
Found at i:3414795 original size:21 final size:21
Alignment explanation
Indices: 3414727--3414805 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 21
3414717 CAAGTCTCCT
* *
3414727 CCACCTCCATCCCCATCACCA
1 CCACCTCCATCTCCATCCCCA
*
3414748 CCTCCTCCATACTACTACAAGTCCCCA
1 CCACCTCCAT-CT-C--C-A-TCCCCA
3414775 CCACCTCCATCTCCATCCCCA
1 CCACCTCCATCTCCATCCCCA
*
3414796 CCTCCTCCAT
1 CCACCTCCAT
3414806 ATTACTACAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 24 0.51
22 2 0.04
23 2 0.04
25 2 0.04
26 3 0.06
27 14 0.30
ACGTcount: A:0.22, C:0.57, G:0.01, T:0.20
Consensus pattern (21 bp):
CCACCTCCATCTCCATCCCCA
Found at i:3414830 original size:99 final size:98
Alignment explanation
Indices: 3414406--3414779 Score: 568
Period size: 99 Copynumber: 3.8 Consensus size: 98
3414396 ATCACCACCT
* * * * *
3414406 CCTCCATACTACTATAAGTCTCCTCCACCTCCATCTCCATCCCCACCTCCTCCATACTATTACAA
1 CCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAA
* *
3414471 GTCTCCACCACCACCACCAAAGCATGAAGAAAAG
66 GTCTCCACCACCACCACC-AACCATGAACAAAAG
* *
3414505 CCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTATTACGA
1 CCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAA
* *
3414570 GTCTCCACCACCACCACCAAAACATGAAGAAAAG
66 GTCTCCACCACCACCACC-AACCATGAACAAAAG
* * *
3414604 CCCCCGTATTACTACAACTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAA
1 CCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAA
* *
3414669 GTCTCCACCACCACCACCAAAACATGAAGAAAAG
66 GTCTCCACCACCACCACC-AACCATGAACAAAAG
3414703 CCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAA
1 CCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAA
*
3414768 GTCCCCACCACC
66 GTCTCCACCACC
3414780 TCCATCTCCA
Statistics
Matches: 260, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 260 1.00
ACGTcount: A:0.30, C:0.45, G:0.05, T:0.20
Consensus pattern (98 bp):
CCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAA
GTCTCCACCACCACCACCAACCATGAACAAAAG
Found at i:3414873 original size:144 final size:145
Alignment explanation
Indices: 3414613--3414923 Score: 471
Period size: 144 Copynumber: 2.1 Consensus size: 145
3414603 GCCCCCGTAT
* *
3414613 TACTACAACTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCACC
1 TACTACAAGTCTCCACCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCT-C-CC
* *
3414678 ACCACCACCAAAACATGAAGAAAAGCCTCCATATTACTACAAGTCTCCTCCACCTCCATCCCCAT
64 ACCACCACCAAAACACGAAGAAAAGCCTCCATACTACTACAAGTCTCCTCCACCTCCATCCCCAT
3414743 CACCACCTCCTCCATAC
129 CACCACCTCCTCCATAC
* * * *
3414760 TACTACAAGTCCCCACCACCTCCATCTCCATCCCCACCTCCTCCATATTACTACAAGTCT-CCAC
1 TACTACAAGTCTCCACCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCCAC
* * * * *
3414824 CACCACCAAAGCACGAGGAGAAGCCTCCTTACTACTACAAGTCTCCTCCACCTCCATCTCCATCA
66 CACCACCAAAACACGAAGAAAAGCCTCCATACTACTACAAGTCTCCTCCACCTCCATCCCCATCA
3414889 CCACCTCCTCCATAC
131 CCACCTCCTCCATAC
*
3414904 TACTATAAGTCTCCACCACC
1 TACTACAAGTCTCCACCACC
3414924 ACCACCAAAA
Statistics
Matches: 149, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
144 95 0.64
147 54 0.36
ACGTcount: A:0.28, C:0.46, G:0.05, T:0.21
Consensus pattern (145 bp):
TACTACAAGTCTCCACCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCTCCCAC
CACCACCAAAACACGAAGAAAAGCCTCCATACTACTACAAGTCTCCTCCACCTCCATCCCCATCA
CCACCTCCTCCATAC
Found at i:3414875 original size:198 final size:195
Alignment explanation
Indices: 3414450--3414875 Score: 498
Period size: 198 Copynumber: 2.2 Consensus size: 195
3414440 CTCCATCCCC
* *
3414450 ACCTCCTCCATACTATTACAAGTCTCCACCACCACCACCAAAGCATGAAGAAAAGCCTCCATATT
1 ACCTCCT-C-TACTACTACAAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCTCCATATT
* * *
3414515 ACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTATTACGAGTCTCCACCA
64 ACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCCCCACCA
* * * * * * *
3414580 CCACCACCAAAACATGAAGAAAAGCCCCCGTATTACTACAACTCTCCTCCACCTCCATCCCCATC
129 CCACCACC-AAACATGAACAAAAGCCCCCATATTACTACAACTCTCCACCACCACCAGCACCAGC
*
3414645 ACC
193 ACA
3414648 ACCTCCTCCATACTACTACAAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCTCCATATT
1 ACCTCCT-C-TACTACTACAAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCTCCATATT
3414713 ACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCCCCACCA
64 ACTACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCCCCACCA
* * ** ** * *** * * *
3414778 CCTCCATC-TCCAT-CCCCACCTCCTCCATATTACTACAAGTCTCCACCACCACCAAAGCACGAG
129 CCACCACCAAACATGAACAAAAGCCCCCATATTACTACAACTCTCCACCACCACC--AGCACCAG
* *
3414841 GAGA
192 CACA
*
3414845 AGCCTCCT-TACTACTACAAGTCTCCTCCACC
1 A-CCTCCTCTACTACTACAAGTCTCCACCACC
3414876 TCCATCTCCA
Statistics
Matches: 196, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
195 50 0.26
196 3 0.02
197 6 0.03
198 137 0.70
ACGTcount: A:0.30, C:0.44, G:0.06, T:0.20
Consensus pattern (195 bp):
ACCTCCTCTACTACTACAAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCTCCATATTAC
TACAAGTCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCCCCACCACC
ACCACCAAACATGAACAAAAGCCCCCATATTACTACAACTCTCCACCACCACCAGCACCAGCACA
Found at i:3414930 original size:39 final size:38
Alignment explanation
Indices: 3414901--3415040 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 38
3414891 ACCTCCTCCA
* *
3414901 TACTACTATAAGTCTCCACCACCACCACCAAAACACCCA
1 TACTACTACAAGTCTCCACCACCACCACC-AAACACCCC
*
3414940 TACTACTACAAGTCTCCACCTCCACCACCAAAACACCCC
1 TACTACTACAAGTCTCCACCACCACCACC-AAACACCCC
*
3414979 TACTACTACAAGTCTCCACCTCCACCACCAAAACACCCC
1 TACTACTACAAGTCTCCACCACCACCACC-AAACACCCC
3415018 TACTACTACAAGTCTCCACCACC
1 TACTACTACAAGTCTCCACCACC
3415041 TCCTCCACAT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 97 1.00
ACGTcount: A:0.34, C:0.46, G:0.03, T:0.16
Consensus pattern (38 bp):
TACTACTACAAGTCTCCACCACCACCACCAAACACCCC
Found at i:3414968 original size:144 final size:145
Alignment explanation
Indices: 3414656--3414969 Score: 359
Period size: 144 Copynumber: 2.2 Consensus size: 145
3414646 CCACCTCCTC
* * *
3414656 CATACTACTACAAGTCTCCACCACCACCACCAAAACATGAAGAAAAGCCTCCATATTACTACAAG
1 CATAGTACTACAA--CTCCACCACCACCACCAAAACACGAAGAAAAGCCTCCATACTACTACAAG
*
3414721 TCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCCCCACCACCTCCATC
64 TCTCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCCCCACCACCACCATC
* * * * *
3414786 TCCATCCCCACCTCCTC
129 TCAAACCCCAACTACTA
* * * * * * *
3414803 CATATTACTACAAGT-CTCCACCACCACCAAAGCACGAGGAGAAGCCTCCTTACTACTACAAGTC
1 CATAGTACTACAACTCCACCACCACCACCAAAACACGAAGAAAAGCCTCCATACTACTACAAGTC
* * *
3414867 TCCTCCACCTCCATCTCCATCACCACCTCCTCCATACTACTATAAGTCTCCACCACCACCA-C-C
66 TCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCCCCACCACCACCATCTC
3414930 AAAACACCCATACTACTA
131 -AAAC-CCCA-ACTACTA
* *
3414948 CA-AGT-CTCCACCTCCACCACCA
1 CATAGTACTACAACTCCACCACCA
3414970 AAACACCCCT
Statistics
Matches: 140, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
142 1 0.01
143 8 0.06
144 112 0.80
145 7 0.05
147 12 0.09
ACGTcount: A:0.30, C:0.45, G:0.05, T:0.19
Consensus pattern (145 bp):
CATAGTACTACAACTCCACCACCACCACCAAAACACGAAGAAAAGCCTCCATACTACTACAAGTC
TCCTCCACCTCCATCCCCATCACCACCTCCTCCATACTACTACAAGTCCCCACCACCACCATCTC
AAACCCCAACTACTA
Found at i:3415187 original size:6 final size:6
Alignment explanation
Indices: 3415145--3415184 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
3415135 ACTCCTTACT
* *
3415145 ACCCTC ACCCTC ACCCTC ACCCTT ACCCTC ACCCCC ACCC
1 ACCCTC ACCCTC ACCCTC ACCCTC ACCCTC ACCCTC ACCC
3415185 CCATCCACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.17, C:0.68, G:0.00, T:0.15
Consensus pattern (6 bp):
ACCCTC
Found at i:3415531 original size:22 final size:22
Alignment explanation
Indices: 3415509--3415549 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3415499 CTTGTCTTTA
3415509 AATCCA-AAAATTAACTTAATT
1 AATCCATAAAATTAACTTAATT
* *
3415530 AATTCATAAAATTATCTTAA
1 AATCCATAAAATTAACTTAA
3415550 AATCGCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
AATCCATAAAATTAACTTAATT
Found at i:3416576 original size:87 final size:87
Alignment explanation
Indices: 3416463--3417452 Score: 860
Period size: 87 Copynumber: 11.1 Consensus size: 87
3416453 TTATACTTCT
* * * * * *
3416463 CCACCACCACCATCTCACCCGCACAAGCCACCCCCGTACTATTACAAGTCACCACCTCCACCATC
1 CCACCACCTCCAACTCACCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCATC
* * * * *
3416528 ACCTACCTACGTATACAAATCA
66 TCCCACTTACATCTACAAATCA
* * *
3416550 CCACCACCTCCAACTCACCCATACAAGCCACCACCATACTACTACAAGTCACCACCCCCACCAGC
1 CCACCACCTCCAACTCACCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCATC
3416615 TCCCACTTACATCTACAAATCA
66 TCCCACTTACATCTACAAATCA
* *
3416637 CCTCCACCTCCAACTCATCAACCGTACAAGCCACCACCATACTACTACAAGTCACCACCCCCACC
1 CCACCACCTCCAACTCA-C--CCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACC
*
3416702 AGCTCCCACTTACATCTACAAATCA
63 ATCTCCCACTTACATCTACAAATCA
* * * * *
3416727 CCTCCACCTCCAACTCAACCGTACAAGCCACCACCGTACTACTATAATTCACCACCTCCACCATC
1 CCACCACCTCCAACTCACCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCATC
* * * * *
3416792 ACCAACCTACGTATACAAATCA
66 TCCCACTTACATCTACAAATCA
* * *
3416814 CCACCACCTCCAACTCACCCTTATAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCAGC
1 CCACCACCTCCAACTCACCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCATC
3416879 TCCCACTTACATCTACAAATCA
66 TCCCACTTACATCTACAAATCA
* * *
3416901 CCTCCACCTCCAACTCACCCTTATAAGCCACCACCGTACTACTACAAGTCACCACCCCCACC-TC
1 CCACCACCTCCAACTCACCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCAT-
* ** *
3416965 CTCCAAAATAC-TACTACAAGTCCCCA
65 CTCCCACTTACAT-CTACAAAT---CA
* * * * * *
3416991 CCACCCCCTCCAACTCTCCCTTACAAGCCACCACCGTACTACTATAAATCACCACCCCCACCAAC
1 CCACCACCTCCAACTCACCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCATC
**
3417056 TCCCACTTACGCCTACAAATCA
66 TCCCACTTACATCTACAAATCA
** * * * *
3417078 CCACCACCTCCGGCTCATCCC-TACAAGCCACCACCATACTATTATAAGTCACCACCTCCACCAT
1 CCACCACCTCCAACTCA-CCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCAT
* * * *
3417142 CACCTACTTACATTTACAAGTCA
65 CTCCCACTTACATCTACAAATCA
* * *** * ** ** * * * *
3417165 CCTCCACCTCCACCAT-ACTATTATAAATCACCACCCCCACCACCTCCAAAATACTACTACAAGT
1 CCACCACCTCCAAC-TCACCCGTACAAGCCACCA-CCGTACTA-CTAC-AAGT-C-AC--C-A-C
* ** *
3417229 CCCCACC-TCCTCCAAAATAC-TACTACAAGTCCCCA
56 CCCCACCAT-CTCCCACTTACAT-CTACAAAT---CA
* * * * * *
3417264 CCACCCCCTCCAACTCTCCCTTACAAGCCACCACCGTACTACTATAAATCACCACCCCCACCACC
1 CCACCACCTCCAACTCACCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCATC
* ** *
3417329 TCCAAAATAC-TACTACAAGTCCCCA
66 TCCCACTTACAT-CTACAAAT---CA
* * * * * *
3417354 CCACCTCCTCCAACTCTCCCTTACAAGCCACCACCGTACTACTATAAATCACCACCCCCACCAAC
1 CCACCACCTCCAACTCACCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCATC
**
3417419 TCCCACTTACGCCTACAAATCA
66 TCCCACTTACATCTACAAATCA
3417441 CCACCACCTCCA
1 CCACCACCTCCA
3417453 CCATCACCTA
Statistics
Matches: 754, Mismatches: 119, Indels: 60
0.81 0.13 0.06
Matches are distributed among these distances:
86 2 0.00
87 402 0.53
88 10 0.01
89 1 0.00
90 271 0.36
91 2 0.00
92 3 0.00
94 3 0.00
95 4 0.01
96 24 0.03
97 2 0.00
98 6 0.01
99 24 0.03
ACGTcount: A:0.31, C:0.47, G:0.04, T:0.18
Consensus pattern (87 bp):
CCACCACCTCCAACTCACCCGTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCATC
TCCCACTTACATCTACAAATCA
Found at i:3416757 original size:177 final size:175
Alignment explanation
Indices: 3416463--3417452 Score: 886
Period size: 177 Copynumber: 5.6 Consensus size: 175
3416453 TTATACTTCT
* * ** * * * *
3416463 CCACCACCACCATCTCA-CCCGCACAAGCCACCCCCGTACTATTACAAGTCACCACCTCCACCAT
1 CCACCACCTCCAACTCATCCCTTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCAG
* * * * *
3416527 CACCTACCTACGTATACAAATCACCACCACCTCCAACTCACCCATACAAGCCACCACCATACTAC
66 CTCCCACTTACATCTACAAATCACCACCACCTCCAACTCACCCATACAAGCCACCACCATACTAC
* * *
3416592 TACAAGTCACCACCCCCACCAGCTCCCACTTACATCTACAAATCA
131 TACAAGTCACCACCCCCACCATCACCAACTTACATCTACAAATCA
* * *
3416637 CCTCCACCTCCAACTCATCAACCGTACAAGCCACCACCATACTACTACAAGTCACCACCCCCACC
1 CCACCACCTCCAACTCATC--CCTTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACC
* * * *
3416702 AGCTCCCACTTACATCTACAAATCACCTCCACCTCCAACTCAACCGTACAAGCCACCACCGTACT
64 AGCTCCCACTTACATCTACAAATCACCACCACCTCCAACTCACCCATACAAGCCACCACCATACT
* * * * * *
3416767 ACTATAATTCACCACCTCCACCATCACCAACCTACGTATACAAATCA
129 ACTACAAGTCACCACCCCCACCATCACCAACTTACATCTACAAATCA
*
3416814 CCACCACCTCCAACTCA-CCCTTATAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCAG
1 CCACCACCTCCAACTCATCCCTTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCAG
* * * *
3416878 CTCCCACTTACATCTACAAATCACCTCCACCTCCAACTCACCCTTATAAGCCACCACCGTACTAC
66 CTCCCACTTACATCTACAAATCACCACCACCTCCAACTCACCCATACAAGCCACCACCATACTAC
* ** *
3416943 TACAAGTCACCACCCCCACC-TCCTCCAAAATAC-TACTACAAGTCCCCA
131 TACAAGTCACCACCCCCACCAT-CACCAACTTACAT-CTACAAAT---CA
* * * *
3416991 CCACCCCCTCCAACTC-TCCCTTACAAGCCACCACCGTACTACTATAAATCACCACCCCCACCAA
1 CCACCACCTCCAACTCATCCCTTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCAG
** **
3417055 CTCCCACTTACGCCTACAAATCACCACCACCTCCGGCTCATCCC-TACAAGCCACCACCATACTA
66 CTCCCACTTACATCTACAAATCACCACCACCTCCAACTCA-CCCATACAAGCCACCACCATACTA
* * * * * *
3417119 TTATAAGTCACCACCTCCACCATCACCTACTTACATTTACAAGTCA
130 CTACAAGTCACCACCCCCACCATCACCAACTTACATCTACAAATCA
* ** * ** ** * * *
3417165 CCTCCACCTCC-AC-CATACTATTATAAATCACCACCCCCACCACCTCCAAAATACTACTACAAG
1 CCACCACCTCCAACTCAT-CCCTTACAAGCCACCA-CCGTACTA-CTAC-AAGT-C-AC--C-A-
* ** * ** * * * *
3417228 TCCCCACCTCCTCCAAAATAC-TACTACAAGTCCCCACCACCCCCTCCAACTCTCCCTTACAAGC
56 CCCCCACCAGCTCCCACTTACAT-CTACAAAT---CACCACCACCTCCAACTCACCCATACAAGC
* * * * * ** *
3417292 CACCACCGTACTACTATAAATCACCACCCCCACCACCTCCAAAATAC-TACTACAAGTCCCCA
117 CACCACCATACTACTACAAGTCACCACCCCCACCATCACCAACTTACAT-CTACAAAT---CA
* * * *
3417354 CCACCTCCTCCAACTC-TCCCTTACAAGCCACCACCGTACTACTATAAATCACCACCCCCACCAA
1 CCACCACCTCCAACTCATCCCTTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCAG
**
3417418 CTCCCACTTACGCCTACAAATCACCACCACCTCCA
66 CTCCCACTTACATCTACAAATCACCACCACCTCCA
3417453 CCATCACCTA
Statistics
Matches: 664, Mismatches: 117, Indels: 67
0.78 0.14 0.08
Matches are distributed among these distances:
172 1 0.00
173 5 0.01
174 172 0.26
175 6 0.01
176 3 0.00
177 310 0.47
178 6 0.01
179 2 0.00
180 22 0.03
181 2 0.00
182 2 0.00
183 22 0.03
184 2 0.00
185 5 0.01
186 71 0.11
187 2 0.00
188 5 0.01
189 22 0.03
190 3 0.00
191 1 0.00
ACGTcount: A:0.31, C:0.47, G:0.04, T:0.18
Consensus pattern (175 bp):
CCACCACCTCCAACTCATCCCTTACAAGCCACCACCGTACTACTACAAGTCACCACCCCCACCAG
CTCCCACTTACATCTACAAATCACCACCACCTCCAACTCACCCATACAAGCCACCACCATACTAC
TACAAGTCACCACCCCCACCATCACCAACTTACATCTACAAATCA
Found at i:3416995 original size:33 final size:35
Alignment explanation
Indices: 3416937--3417003 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 35
3416927 GCCACCACCG
* *
3416937 TACTACTACAAGTCACCACCCCCACCTCCTCCAAAA
1 TACTACTACAAGT-ACCACCACCACCCCCTCCAAAA
3416973 TACTACTACAAGT-CC-CCACCACCCCCTCCAA
1 TACTACTACAAGTACCACCACCACCCCCTCCAA
3417004 CTCTCCCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.48
34 2 0.07
36 13 0.45
ACGTcount: A:0.31, C:0.49, G:0.03, T:0.16
Consensus pattern (35 bp):
TACTACTACAAGTACCACCACCACCCCCTCCAAAA
Done.