Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 81 of 135
Found at i:24968389 original size:20 final size:19
Alignment explanation
Indices: 24968366--24968432 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
24968356 TAATTTTAAA
24968366 TAAAATTTTCTATATTTTT
1 TAAAATTTTCTATATTTTT
**
24968385 CTAAAATTTT-TATAACATTT
1 -TAAAATTTTCTAT-ATTTTT
*
24968405 AAAAATTTTCTATATTTTT
1 TAAAATTTTCTATATTTTT
24968424 TAACAATTT
1 TAA-AATTT
24968433 ATAAATTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 17 0.45
20 21 0.55
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAAATTTTCTATATTTTT
Found at i:24968415 original size:29 final size:30
Alignment explanation
Indices: 24968381--24968455 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 30
24968371 TTTTCTATAT
24968381 TTTTCTAAAATTTTTATAAC-ATTTAAAAA
1 TTTTCTAAAATTTTTATAACAATTTAAAAA
* *
24968410 TTTTCT-ATATTTTT-TAACAATTTATAAA
1 TTTTCTAAAATTTTTATAACAATTTAAAAA
24968438 -TTTCTAATAATATTTTAT
1 TTTTCTAA-AAT-TTTTAT
24968456 GAATTTTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 9 0.24
28 16 0.42
29 8 0.21
30 4 0.11
31 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTTCTAAAATTTTTATAACAATTTAAAAA
Found at i:24968461 original size:29 final size:29
Alignment explanation
Indices: 24968381--24968467 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 29
24968371 TTTTCTATAT
*
24968381 TTTTCTAA-AATTTTTATAACATTTAAAAA
1 TTTTCTAATAATTTTTATAA-ATTTATAAA
*
24968410 TTTTCT-ATATTTTTTA-ACAATTTATAAA
1 TTTTCTAATAATTTTTATA-AATTTATAAA
*
24968438 -TTTCTAATAATATTTTATGAATTTTATAAA
1 TTTTCTAATAAT-TTTTAT-AAATTTATAAA
24968468 GTAATGGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
27 5 0.10
28 14 0.29
29 19 0.40
30 9 0.19
31 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (29 bp):
TTTTCTAATAATTTTTATAAATTTATAAA
Found at i:24969950 original size:27 final size:27
Alignment explanation
Indices: 24969906--24969960 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
24969896 GGTACAAGGG
*
24969906 ATGGTACCTACCTGTCAGGCAGCACCA
1 ATGGTACCTACCTATCAGGCAGCACCA
* * *
24969933 ATGGTGCCTTCCTATCAGGCGGCACCA
1 ATGGTACCTACCTATCAGGCAGCACCA
24969960 A
1 A
24969961 CCCATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.20
Consensus pattern (27 bp):
ATGGTACCTACCTATCAGGCAGCACCA
Found at i:24971194 original size:14 final size:13
Alignment explanation
Indices: 24971163--24971207 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
24971153 AATTTTTTTA
24971163 ATTTTATATTATT
1 ATTTTATATTATT
24971176 ATTTTAGTATTAATT
1 ATTTTA-TATT-ATT
*
24971191 TTTTTATATATATT
1 ATTTTATAT-TATT
24971205 ATT
1 ATT
24971208 ATTGTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.22
14 12 0.44
15 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
ATTTTATATTATT
Found at i:24974340 original size:26 final size:26
Alignment explanation
Indices: 24974291--24974340 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
24974281 TCTATTTAAA
**
24974291 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGATTTATG
*
24974317 TTTGAATTTATTTAATGAGATTTA
1 TTTGAATTTATTTAATAAGATTTA
24974341 GCAAATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGATTTATG
Found at i:24974436 original size:6 final size:6
Alignment explanation
Indices: 24974425--24974465 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
24974415 ATATTTGCAT
*
24974425 ACATAA ACATAA ATA-AGA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATA-A ACATAA ACATAA ACATAA ACATA
24974466 TTTAATTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (6 bp):
ACATAA
Found at i:24977429 original size:17 final size:17
Alignment explanation
Indices: 24977407--24977440 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24977397 CTTACAATAA
*
24977407 TTAAATAATATTTAAAT
1 TTAAATAACATTTAAAT
24977424 TTAAATAACATTTAAAT
1 TTAAATAACATTTAAAT
24977441 GAATTTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAACATTTAAAT
Found at i:24977570 original size:6 final size:6
Alignment explanation
Indices: 24977559--24977584 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24977549 GCCGTTCACC
24977559 CTCCTT CTCCTT CTCCTT CTCCTT CT
1 CTCCTT CTCCTT CTCCTT CTCCTT CT
24977585 TTTCTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTCCTT
Found at i:24978266 original size:24 final size:23
Alignment explanation
Indices: 24978239--24978311 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 23
24978229 ATATATTTTT
24978239 TTAAAATTATAAAAATATAAAGTA
1 TTAAAATTATAAAAATATAAA-TA
* *
24978263 TTAAAA-TAGTAAAATTAT-AATT
1 TTAAAATTA-TAAAAATATAAATA
**
24978285 TTATTATTATAAAAATATATAAT-
1 TTAAAATTATAAAAATATA-AATA
24978308 TTAA
1 TTAA
24978312 TTTCGATCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
22 13 0.33
23 9 0.23
24 17 0.44
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (23 bp):
TTAAAATTATAAAAATATAAATA
Found at i:24984171 original size:13 final size:15
Alignment explanation
Indices: 24984153--24984192 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
24984143 GTTTTTTATT
24984153 AAAATAATATA-A-A
1 AAAATAATATATACA
*
24984166 AAAATAATATATACC
1 AAAATAATATATACA
24984181 AAAATAATATAT
1 AAAATAATATAT
24984193 TCTTCCCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.46
14 1 0.04
15 12 0.50
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAATATATACA
Found at i:24985443 original size:17 final size:17
Alignment explanation
Indices: 24985395--24985442 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
24985385 GAGATTATTT
* *
24985395 TATTTAATTCATTTGATA
1 TATTTAAAT-ATTTTATA
24985413 TATTTAAATATTTTATA
1 TATTTAAATATTTTATA
24985430 TA-TTAAATATTTT
1 TATTTAAATATTTT
24985443 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.39
17 9 0.32
18 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TATTTAAATATTTTATA
Found at i:24985462 original size:12 final size:13
Alignment explanation
Indices: 24985434--24985461 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24985424 TTTATATATT
24985434 AAATATTTTTTAA
1 AAATATTTTTTAA
24985447 AAATATTTTTTAA
1 AAATATTTTTTAA
24985460 AA
1 AA
24985462 TGAAAAATTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:24987687 original size:27 final size:27
Alignment explanation
Indices: 24987645--24987700 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
24987635 CAATACCACC
* *
24987645 ACAGTTCTCTATTCCT-TTCAGCTCATT
1 ACAGTACTCTACTCCTCTTC-GCTCATT
24987672 ACAGTACTCTACTCCTCTTCGCTCATT
1 ACAGTACTCTACTCCTCTTCGCTCATT
24987699 AC
1 AC
24987701 CGCAACAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (27 bp):
ACAGTACTCTACTCCTCTTCGCTCATT
Found at i:24987881 original size:6 final size:6
Alignment explanation
Indices: 24987870--24987916 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
24987860 GGCCATTAAA
*
24987870 TATGTT TATGTT TATGTT TATGTT TATGTT CT-TATT TATGTT TATGT
1 TATGTT TATGTT TATGTT TATGTT TATGTT -TATGTT TATGTT TATGT
24987917 ATGCAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 1 0.03
6 35 0.95
7 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (6 bp):
TATGTT
Found at i:24990996 original size:27 final size:27
Alignment explanation
Indices: 24990958--24991045 Score: 167
Period size: 27 Copynumber: 3.3 Consensus size: 27
24990948 GCATTGACAA
24990958 AGGCACCACTAGTGCCGCCTACCCAGT
1 AGGCACCACTAGTGCCGCCTACCCAGT
24990985 AGGCACCACTAGTGCCGCCTACCCAGT
1 AGGCACCACTAGTGCCGCCTACCCAGT
*
24991012 AGGCACCACTAGTGCCGCCTACCTAGT
1 AGGCACCACTAGTGCCGCCTACCCAGT
24991039 AGGCACC
1 AGGCACC
24991046 TCTTGTCAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.15
Consensus pattern (27 bp):
AGGCACCACTAGTGCCGCCTACCCAGT
Found at i:24991441 original size:27 final size:27
Alignment explanation
Indices: 24991411--24991473 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
24991401 CTTGATAGAA
*
24991411 AGGCACCATTGGTGCCGCCTGACAGGT
1 AGGCACCACTGGTGCCGCCTGACAGGT
*
24991438 AGGCACCACTGGTGCCGCCTGTCAGGT
1 AGGCACCACTGGTGCCGCCTGACAGGT
24991465 AGGCACCAC
1 AGGCACCAC
24991474 CCATTTATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.19, C:0.33, G:0.32, T:0.16
Consensus pattern (27 bp):
AGGCACCACTGGTGCCGCCTGACAGGT
Found at i:24998534 original size:21 final size:21
Alignment explanation
Indices: 24998466--24998534 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
24998456 CTCCTCTTGG
24998466 CCCACCCGGAATAGTTCCGAA
1 CCCACCCGGAATAGTTCCGAA
* *
24998487 CCC-GCC-GATTATA-TTGCC-AGG
1 CCCACCCGGA--ATAGTT-CCGA-A
24998508 CCCACCCGGAATAGTTCCGAA
1 CCCACCCGGAATAGTTCCGAA
24998529 CCCACC
1 CCCACC
24998535 TAGCATCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 22 0.61
22 5 0.14
23 2 0.06
ACGTcount: A:0.25, C:0.41, G:0.19, T:0.16
Consensus pattern (21 bp):
CCCACCCGGAATAGTTCCGAA
Found at i:25002671 original size:28 final size:28
Alignment explanation
Indices: 25002638--25002693 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
25002628 CCAAAAAACA
25002638 ACAAAACAAACTTGCTTAAAAAATGAGG
1 ACAAAACAAACTTGCTTAAAAAATGAGG
25002666 ACAAAACAAACTTGCTTAAAAAATGAGG
1 ACAAAACAAACTTGCTTAAAAAATGAGG
25002694 CCTCCAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (28 bp):
ACAAAACAAACTTGCTTAAAAAATGAGG
Found at i:25008508 original size:18 final size:18
Alignment explanation
Indices: 25008487--25008524 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
25008477 TGAATTTTTG
25008487 AATTCGAAT-AACTCGAAT
1 AATTCGAATAAAC-CGAAT
25008505 AATTCGAATAAACCGAAT
1 AATTCGAATAAACCGAAT
25008523 AA
1 AA
25008525 AACTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.24
Consensus pattern (18 bp):
AATTCGAATAAACCGAAT
Found at i:25008707 original size:34 final size:34
Alignment explanation
Indices: 25008664--25008736 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
25008654 AAACTAAACT
*
25008664 CAAATATTTTTAATTTTTTACCTTTTATCTTACC
1 CAAATATTTTTAATTTTTTACCTTTTACCTTACC
*
25008698 CAAATATTTTTAATTTTTTATCTTTTACCTTACC
1 CAAATATTTTTAATTTTTTACCTTTTACCTTACC
25008732 CAAAT
1 CAAAT
25008737 GTTGTTTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (34 bp):
CAAATATTTTTAATTTTTTACCTTTTACCTTACC
Found at i:25012090 original size:18 final size:17
Alignment explanation
Indices: 25012063--25012109 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 17
25012053 ATATAAATTG
25012063 AAATTTTAAAAATTCAA
1 AAATTTTAAAAATTCAA
25012080 AAATATTTAAAAATTCAA
1 AAAT-TTTAAAAATTCAA
25012098 AAATTATTAAAA
1 AAATT-TTAAAA
25012110 TTATTAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.18
18 23 0.82
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTTTAAAAATTCAA
Found at i:25013146 original size:31 final size:31
Alignment explanation
Indices: 25013111--25013185 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
25013101 TTTAACGATA
*
25013111 GAGTGACTAAAATTGACAATTTATCAAACAT
1 GAGTGACTAAAATTGACAACTTATCAAACAT
* *
25013142 GAGTGACTAAAATTGACAACTTATCTAATAT
1 GAGTGACTAAAATTGACAACTTATCAAACAT
* *
25013173 GAGTTACTGAAAT
1 GAGTGACTAAAAT
25013186 AACAAATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (31 bp):
GAGTGACTAAAATTGACAACTTATCAAACAT
Found at i:25017279 original size:14 final size:14
Alignment explanation
Indices: 25017260--25017290 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25017250 TAAAGAAAAG
25017260 GTGTGTAAAACTAA
1 GTGTGTAAAACTAA
25017274 GTGTGTAAAACTAA
1 GTGTGTAAAACTAA
25017288 GTG
1 GTG
25017291 CTAAAGGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (14 bp):
GTGTGTAAAACTAA
Found at i:25018604 original size:18 final size:18
Alignment explanation
Indices: 25018557--25018604 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
25018547 ACTTGTCCTC
*
25018557 AAGCAAACAAAACAAGAA
1 AAGCAAACAAAGCAAGAA
* *
25018575 AAGAAAATAAAGCAAGAA
1 AAGCAAACAAAGCAAGAA
25018593 AAGCAAACAAAG
1 AAGCAAACAAAG
25018605 AAGCTTGAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.71, C:0.12, G:0.15, T:0.02
Consensus pattern (18 bp):
AAGCAAACAAAGCAAGAA
Found at i:25021222 original size:20 final size:20
Alignment explanation
Indices: 25021186--25021223 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25021176 TATTTTACAC
*
25021186 AAATTATAACATTTAAATTG
1 AAATTATAACATATAAATTG
25021206 AAATTA-AACTATATAAAT
1 AAATTATAAC-ATATAAAT
25021224 GTTAGGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAATTATAACATATAAATTG
Found at i:25042235 original size:19 final size:20
Alignment explanation
Indices: 25042201--25042275 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
25042191 GTGCCCCTAT
**
25042201 TTGCACTTCGACGCCCTT-C
1 TTGCACTTCGGTGCCCTTGC
*
25042220 TTGCACTTCGGTGCCCTTGT
1 TTGCACTTCGGTGCCCTTGC
* *
25042240 TTGCAC-TCTGGTGCCCCTGT
1 TTGCACTTC-GGTGCCCTTGC
25042260 TTGCAC-TCTGGTGCCC
1 TTGCACTTC-GGTGCCC
25042276 CTATTTGCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 18 0.36
20 32 0.64
ACGTcount: A:0.07, C:0.36, G:0.23, T:0.35
Consensus pattern (20 bp):
TTGCACTTCGGTGCCCTTGC
Found at i:25042245 original size:20 final size:20
Alignment explanation
Indices: 25042220--25042338 Score: 125
Period size: 20 Copynumber: 6.0 Consensus size: 20
25042210 GACGCCCTTC
25042220 TTGCACT-TCGGTGCCCTTGT
1 TTGCACTCT-GGTGCCCTTGT
*
25042240 TTGCACTCTGGTGCCCCTGT
1 TTGCACTCTGGTGCCCTTGT
* *
25042260 TTGCACTCTGGTGCCCCTAT
1 TTGCACTCTGGTGCCCTTGT
* * *
25042280 TTGCACTCTGATGCCCCTAT
1 TTGCACTCTGGTGCCCTTGT
*
25042300 TTGCACTCTAGTG-CCTCTGT
1 TTGCACTCTGGTGCCCT-TGT
* *
25042320 TTGCACTCCGATGCCCTTG
1 TTGCACTCTGGTGCCCTTG
25042339 ATGGTATGGT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 80 0.93
21 4 0.05
ACGTcount: A:0.09, C:0.34, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCACTCTGGTGCCCTTGT
Found at i:25042274 original size:40 final size:40
Alignment explanation
Indices: 25042220--25042335 Score: 146
Period size: 40 Copynumber: 2.9 Consensus size: 40
25042210 GACGCCCTTC
* *
25042220 TTGCACT-TCGGTGCCCTTGTTTGCACTCTGGTGCCCCTGT
1 TTGCACTCT-GGTGCCCTTGTTTGCACTCTGATGCCCCTAT
* *
25042260 TTGCACTCTGGTGCCCCTATTTGCACTCTGATGCCCCTAT
1 TTGCACTCTGGTGCCCTTGTTTGCACTCTGATGCCCCTAT
* *
25042300 TTGCACTCTAGTG-CCTCTGTTTGCACTCCGATGCCC
1 TTGCACTCTGGTGCCCT-TGTTTGCACTCTGATGCCC
25042336 TTGATGGTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.03
40 63 0.95
41 1 0.02
ACGTcount: A:0.09, C:0.34, G:0.21, T:0.35
Consensus pattern (40 bp):
TTGCACTCTGGTGCCCTTGTTTGCACTCTGATGCCCCTAT
Found at i:25042613 original size:16 final size:17
Alignment explanation
Indices: 25042587--25042622 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
25042577 GGAATTCAAT
25042587 TTTTAATAGATGATATG
1 TTTTAATAGATGATATG
*
25042604 TTTT-ATAGATGTTATG
1 TTTTAATAGATGATATG
25042620 TTT
1 TTT
25042623 ACTTACTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.56
Consensus pattern (17 bp):
TTTTAATAGATGATATG
Found at i:25046501 original size:28 final size:28
Alignment explanation
Indices: 25046372--25046519 Score: 169
Period size: 28 Copynumber: 5.3 Consensus size: 28
25046362 CGAAGCACTG
* *
25046372 AAGTGCTAATCAAAACATA-AGAGTACACA
1 AAGTGCTAATC-AGA-ATAGAGAGCACACA
* *
25046401 AAGTGCTAATCAGAACAGAAAGCACACA
1 AAGTGCTAATCAGAATAGAGAGCACACA
**
25046429 AAGTGCTAATCAGAGCAGAGAGCACACA
1 AAGTGCTAATCAGAATAGAGAGCACACA
*
25046457 AAGTGCTAA-CTATAATAGAGAGCACACA
1 AAGTGCTAATC-AGAATAGAGAGCACACA
*
25046485 AAGTGCTAATCAGAATAGAGA--ACATA
1 AAGTGCTAATCAGAATAGAGAGCACACA
25046511 AAGTGCTAA
1 AAGTGCTAA
25046520 ATACATGTAG
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
26 13 0.12
27 3 0.03
28 77 0.73
29 12 0.11
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.16
Consensus pattern (28 bp):
AAGTGCTAATCAGAATAGAGAGCACACA
Found at i:25049090 original size:23 final size:23
Alignment explanation
Indices: 25049060--25049141 Score: 110
Period size: 23 Copynumber: 3.5 Consensus size: 23
25049050 TACTAAAATA
* *
25049060 GCACCAAAAATAGTACCAAATTT
1 GCACCAAAAACAGTACCAAATCT
* * *
25049083 GCACCAAAAAACAGCATCAAATCA
1 GCACC-AAAAACAGTACCAAATCT
25049107 GCACCAAAAACAGTACCAAATCT
1 GCACCAAAAACAGTACCAAATCT
25049130 GCACCAAAAACA
1 GCACCAAAAACA
25049142 ACCTGCTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
23 32 0.64
24 18 0.36
ACGTcount: A:0.51, C:0.28, G:0.09, T:0.12
Consensus pattern (23 bp):
GCACCAAAAACAGTACCAAATCT
Found at i:25049335 original size:9 final size:9
Alignment explanation
Indices: 25049282--25049332 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
25049272 ATCGAAGAAG
25049282 CATCATCCT
1 CATCATCCT
25049291 CATCATCCT
1 CATCATCCT
*
25049300 CATCGTCCT
1 CATCATCCT
* *
25049309 CATCGTCAT
1 CATCATCCT
*
25049318 CATCATTCT
1 CATCATCCT
25049327 CATCAT
1 CATCAT
25049333 TCTTACAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.22, C:0.39, G:0.04, T:0.35
Consensus pattern (9 bp):
CATCATCCT
Found at i:25055628 original size:19 final size:19
Alignment explanation
Indices: 25055601--25055639 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
25055591 AAGTTATCTT
25055601 TCTCATAATGTAAACGTTC
1 TCTCATAATGTAAACGTTC
* *
25055620 TCTCGTAATGTAAATGTTC
1 TCTCATAATGTAAACGTTC
25055639 T
1 T
25055640 TACAATACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (19 bp):
TCTCATAATGTAAACGTTC
Found at i:25056253 original size:23 final size:20
Alignment explanation
Indices: 25056194--25056280 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 20
25056184 GATTAGTGAC
25056194 TTTATTTAG-TTTTATGTTTTT
1 TTTATTT-GTTTTTAT-TTTTT
* * *
25056215 ATTAATTT-TTCTT-TTTCTT
1 -TTTATTTGTTTTTATTTTTT
25056234 TTTATTTGTACTTTTATTTTTT
1 TTTATTTGT--TTTTATTTTTT
25056256 TGTTATTTGTTTTTATTTTATT
1 T-TTATTTGTTTTTATTTT-TT
25056278 TTT
1 TTT
25056281 CAAACTTCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
18 6 0.12
19 5 0.10
20 1 0.02
21 17 0.33
22 15 0.29
23 8 0.15
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (20 bp):
TTTATTTGTTTTTATTTTTT
Found at i:25056263 original size:11 final size:10
Alignment explanation
Indices: 25056203--25056280 Score: 50
Period size: 11 Copynumber: 7.4 Consensus size: 10
25056193 CTTTATTTAG
25056203 TTTTATGTTTT
1 TTTTAT-TTTT
* *
25056214 TATTAATTTT
1 TTTTATTTTT
* *
25056224 TCTT-TTTCT
1 TTTTATTTTT
*
25056233 TTTTATTTGTAC
1 TTTTATTT-T-T
25056245 TTTTATTTTT
1 TTTTATTTTT
*
25056255 TTGTTATTTGT
1 TT-TTATTTTT
25056266 TTTTATTTTAT
1 TTTTATTTT-T
25056277 TTTT
1 TTTT
25056281 CAAACTTCTA
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
9 6 0.12
10 18 0.35
11 19 0.37
12 8 0.16
ACGTcount: A:0.13, C:0.04, G:0.05, T:0.78
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:25057599 original size:15 final size:15
Alignment explanation
Indices: 25057577--25057614 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
25057567 TAATTTTCGT
*
25057577 ATTGAATTTTTATTGA
1 ATTGAATTTTAATT-A
25057593 A-TGAATTTTAATTA
1 ATTGAATTTTAATTA
25057607 ATTGAATT
1 ATTGAATT
25057615 AGCGGTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.85
16 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAATTTTAATTA
Found at i:25068959 original size:17 final size:17
Alignment explanation
Indices: 25068933--25068974 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
25068923 TTAGCATTCT
25068933 TGCA-TTTTATTGTGC-C
1 TGCATTTTTATTGT-CAC
25068949 TGCATTTTTATTGTCAC
1 TGCATTTTTATTGTCAC
25068966 TGCATTTTT
1 TGCATTTTT
25068975 TTTGGTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (17 bp):
TGCATTTTTATTGTCAC
Found at i:25077830 original size:20 final size:20
Alignment explanation
Indices: 25077805--25077846 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25077795 GTTTAGCCTT
25077805 AATTAATCTT-TTTCATATTC
1 AATTAATCTTATTT-ATATTC
25077825 AATTAATCTTATTTATATTC
1 AATTAATCTTATTTATATTC
25077845 AA
1 AA
25077847 CTCATCTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTAATCTTATTTATATTC
Found at i:25077853 original size:20 final size:20
Alignment explanation
Indices: 25077808--25077853 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
25077798 TAGCCTTAAT
*
25077808 TAATCTTTTTCATATTCAAT
1 TAATCTTTTTCATATTCAAC
25077828 TAATCTTATTT-ATATTCAAC
1 TAATCTT-TTTCATATTCAAC
*
25077848 TCATCT
1 TAATCT
25077854 CATGATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATCTTTTTCATATTCAAC
Found at i:25081602 original size:11 final size:11
Alignment explanation
Indices: 25081586--25081620 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
25081576 TTATCCTTGT
25081586 TTTAGAAACAA
1 TTTAGAAACAA
25081597 TTTAGAAACAAA
1 TTTAGAAAC-AA
25081609 TTTAGAAACAA
1 TTTAGAAACAA
25081620 T
1 T
25081621 GCAGATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (11 bp):
TTTAGAAACAA
Found at i:25081612 original size:12 final size:12
Alignment explanation
Indices: 25081586--25081619 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
25081576 TTATCCTTGT
25081586 TTTAGAAAC-AA
1 TTTAGAAACAAA
25081597 TTTAGAAACAAA
1 TTTAGAAACAAA
25081609 TTTAGAAACAA
1 TTTAGAAACAA
25081620 TGCAGATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (12 bp):
TTTAGAAACAAA
Found at i:25083125 original size:7 final size:7
Alignment explanation
Indices: 25083113--25083137 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25083103 AGCATAATTA
25083113 TTAAACC
1 TTAAACC
25083120 TTAAACC
1 TTAAACC
25083127 TTAAACC
1 TTAAACC
25083134 TTAA
1 TTAA
25083138 TTTCATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (7 bp):
TTAAACC
Found at i:25085796 original size:17 final size:18
Alignment explanation
Indices: 25085774--25085812 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
25085764 ACTGAAATAG
*
25085774 AATTTGGTTGAAAAAA-T
1 AATTTGATTGAAAAAATT
*
25085791 AATTTGATTTAAAAAATT
1 AATTTGATTGAAAAAATT
25085809 AATT
1 AATT
25085813 AAATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (18 bp):
AATTTGATTGAAAAAATT
Found at i:25088249 original size:8 final size:8
Alignment explanation
Indices: 25088236--25088260 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25088226 TGTTTTGTCC
25088236 CTCTCCCT
1 CTCTCCCT
25088244 CTCTCCCT
1 CTCTCCCT
25088252 CTCTCCCT
1 CTCTCCCT
25088260 C
1 C
25088261 CAAAATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (8 bp):
CTCTCCCT
Found at i:25101042 original size:24 final size:24
Alignment explanation
Indices: 25101015--25101073 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
25101005 GAAATTAAAT
25101015 TGTAATTTTTATGATTATAAAAAA
1 TGTAATTTTTATGATTATAAAAAA
25101039 TGTAATTTTTATGATTATAAAAAA
1 TGTAATTTTTATGATTATAAAAAA
25101063 TGTAATTTTTA
1 TGTAATTTTTA
25101074 AAAGATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.49
Consensus pattern (24 bp):
TGTAATTTTTATGATTATAAAAAA
Found at i:25102346 original size:26 final size:26
Alignment explanation
Indices: 25102283--25102346 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
25102273 GATAAGGGAA
* *
25102283 TTTTAAAAATAAA-AATGAGTTTTGT
1 TTTTAAATAGAAAGAATGAGTTTTGT
*
25102308 TTTTTAATAGAAAGAATGAGTTGTT-T
1 TTTTAAATAGAAAGAATGAGTT-TTGT
*
25102334 TTTTAAATGGAAA
1 TTTTAAATAGAAA
25102347 TAATCAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 10 0.31
26 20 0.62
27 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (26 bp):
TTTTAAATAGAAAGAATGAGTTTTGT
Found at i:25102666 original size:30 final size:30
Alignment explanation
Indices: 25102636--25102793 Score: 158
Period size: 30 Copynumber: 5.2 Consensus size: 30
25102626 TTATTTTTTG
* * *
25102636 ACCCCTAAAGTCTTCAAAAATTCAAATTTG
1 ACCCCTAAAGTTTTCAAAAATTAAAATTTA
** * *
25102666 ACCCCTGAATTTTTTAAAAAAATTTAAATTTCA
1 ACCCCT-AAAGTTTT-CAAAAATTAAAATTT-A
* * *
25102699 GCCCC-AAAATTTTCAAAAATTCAAATTTA
1 ACCCCTAAAGTTTTCAAAAATTAAAATTTA
25102728 ATCCCC-AAAGTTTTCCAAAAATTAAAATTTA
1 A-CCCCTAAAGTTTT-CAAAAATTAAAATTTA
*
25102759 ACCCCTAAAGTTTTAAAAAATTAAAATTTA
1 ACCCCTAAAGTTTTCAAAAATTAAAATTTA
25102789 ACCCC
1 ACCCC
25102794 ATTTTAATGT
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
29 1 0.01
30 54 0.50
31 35 0.33
32 13 0.12
33 4 0.04
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (30 bp):
ACCCCTAAAGTTTTCAAAAATTAAAATTTA
Found at i:25103832 original size:23 final size:24
Alignment explanation
Indices: 25103792--25103840 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
25103782 AAATTGTTGC
25103792 AAAATAGTGAAAAAAACAACAAAA
1 AAAATAGTGAAAAAAACAACAAAA
* * *
25103816 AAAATAGT-AACAGAACAATAAAA
1 AAAATAGTGAAAAAAACAACAAAA
25103839 AA
1 AA
25103841 CAGCTGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.10
Consensus pattern (24 bp):
AAAATAGTGAAAAAAACAACAAAA
Found at i:25108413 original size:23 final size:23
Alignment explanation
Indices: 25108387--25108450 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
25108377 CTGATGTGTC
*
25108387 AAAAGTTAATGTGATTTTTGCTT
1 AAAAGTTAATGTGATTTATGCTT
25108410 AAAAG-TATATGTGATTTATGCTT
1 AAAAGTTA-ATGTGATTTATGCTT
25108433 AAAAGTTAATGTGATTTA
1 AAAAGTTAATGTGATTTA
25108451 ATGTGTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
22 2 0.05
23 34 0.89
24 2 0.05
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (23 bp):
AAAAGTTAATGTGATTTATGCTT
Found at i:25110807 original size:12 final size:13
Alignment explanation
Indices: 25110790--25110818 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25110780 CACCGAACAA
25110790 CCATAC-ATTGCT
1 CCATACTATTGCT
25110802 CCATACTATTGCT
1 CCATACTATTGCT
25110815 CCAT
1 CCAT
25110819 TTTCATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.34
Consensus pattern (13 bp):
CCATACTATTGCT
Found at i:25113024 original size:44 final size:44
Alignment explanation
Indices: 25112976--25113063 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
25112966 ATTCTAGAAC
*
25112976 TTGCTTCAATTATGCATGTTAAGACCATATTATTGATTTGATAT
1 TTGCTTCAATTATGCATGTTAAGACCACATTATTGATTTGATAT
25113020 TTGCTTCAATTATGCATGTTAAGACCACATTATTGATTTGATAT
1 TTGCTTCAATTATGCATGTTAAGACCACATTATTGATTTGATAT
25113064 ACTGAGATGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (44 bp):
TTGCTTCAATTATGCATGTTAAGACCACATTATTGATTTGATAT
Found at i:25114387 original size:12 final size:12
Alignment explanation
Indices: 25114370--25114417 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
25114360 ATTCACGAAC
*
25114370 AAGCTCATTTAA
1 AAGCTCATTTAT
* *
25114382 AAGCTCGTCTAT
1 AAGCTCATTTAT
*
25114394 AAGTTCATTTAT
1 AAGCTCATTTAT
*
25114406 AAGCTCGTTTAT
1 AAGCTCATTTAT
25114418 TAACTCGTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (12 bp):
AAGCTCATTTAT
Found at i:25116934 original size:18 final size:18
Alignment explanation
Indices: 25116911--25116949 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
25116901 ATGTGTATTA
*
25116911 TTTCTTTTGTAGATCTTG
1 TTTCTTTTATAGATCTTG
25116929 TTTCTTTTATAGATCTTG
1 TTTCTTTTATAGATCTTG
25116947 TTT
1 TTT
25116950 ATTAGATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.64
Consensus pattern (18 bp):
TTTCTTTTATAGATCTTG
Found at i:25118977 original size:210 final size:209
Alignment explanation
Indices: 25118611--25119030 Score: 723
Period size: 210 Copynumber: 2.0 Consensus size: 209
25118601 TTATTTTAAA
* *
25118611 GAGGAAGCTCCTAGACAAATTCACATTGTGCATGATAGTTTATATGAGCTTTATAAGGAATATAT
1 GAGGAAGCTCCCAGACAAATTCACATTGTGCATGATAGTCTATATGAGCTTTATAAGGAATATAT
*
25118676 AGATGAATATGCAGTAGCTAATGTTGGCACATCAATGGAAAATGATGTGCAAGAAACTGATGTCA
66 AGATGAATATGAAGTAGCTAATGTTGGCACATCAATGGAAAATGATGTGCAAGAAACTGATGTCA
*
25118741 GCAATGCTTTTACCATTAGTAGAATAGGCAAGGGAAAAGTTATGACTGGGAGGTCCAAGTTTAAG
131 GCAATGCTTTTACCATTAGCAGAATAGGCAAGGGAAAAGTTATGACT-GGAGGTCCAAGTTTAAG
*
25118806 AGATATATTAGGAGT
195 AAATATATTAGGAGT
** *
25118821 GAGGAAGCTCCCAGACAAATTCACATTGTGTGTGATAGTCTATATGAGCTTTATAAGGTATATAT
1 GAGGAAGCTCCCAGACAAATTCACATTGTGCATGATAGTCTATATGAGCTTTATAAGGAATATAT
* * *
25118886 GGATGAATATGAAGTAGCTAATGTTGGTACATCAATGGAAAATGATGTGCAAGAAAGTGATGTCA
66 AGATGAATATGAAGTAGCTAATGTTGGCACATCAATGGAAAATGATGTGCAAGAAACTGATGTCA
*
25118951 GCAATGCTTTTACCATTAGCAGAATAGGCAAGGGAAAAGTTATGACTGGAGGTCCAAGTTTGAGA
131 GCAATGCTTTTACCATTAGCAGAATAGGCAAGGGAAAAGTTATGACTGGAGGTCCAAGTTTAAGA
25119016 AATATATTAGGAGT
196 AATATATTAGGAGT
25119030 G
1 G
25119031 TTGACACAAT
Statistics
Matches: 198, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
209 31 0.16
210 167 0.84
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (209 bp):
GAGGAAGCTCCCAGACAAATTCACATTGTGCATGATAGTCTATATGAGCTTTATAAGGAATATAT
AGATGAATATGAAGTAGCTAATGTTGGCACATCAATGGAAAATGATGTGCAAGAAACTGATGTCA
GCAATGCTTTTACCATTAGCAGAATAGGCAAGGGAAAAGTTATGACTGGAGGTCCAAGTTTAAGA
AATATATTAGGAGT
Found at i:25119844 original size:23 final size:23
Alignment explanation
Indices: 25119814--25119863 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
25119804 TTCGCAAACA
* * *
25119814 TAAACGAACTTGTTTGCGAACGT
1 TAAACGAACATGTTCGCGAACGC
25119837 TAAACGAACATGTTCGCGAACGC
1 TAAACGAACATGTTCGCGAACGC
25119860 TAAA
1 TAAA
25119864 TGAATTGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (23 bp):
TAAACGAACATGTTCGCGAACGC
Found at i:25121894 original size:60 final size:59
Alignment explanation
Indices: 25121829--25122208 Score: 444
Period size: 60 Copynumber: 6.3 Consensus size: 59
25121819 GAAAAAAAGC
* * * *
25121829 AGGGTCAAAAATG-AAGTTTTAGAGAATTTTGGGGGTCAAAATATAATTTTGGAAAAGTTT
1 AGGGTC-AAAATGTAA-TTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTT
* * * *
25121889 AGGGTCAAAATGTAGTTATACGAAAAAGTTTA-GGGTTAAAATGAAATTTTGGAAAAGTTT
1 AGGGTCAAAATGTAATTTTA-G-AAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTT
* * *
25121949 AAGGGTTAAAATGTAATTTAAGAAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAG-TT
1 -AGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTT
* * * *
25122008 AGGGGTTAAAATGTAATTTTAGAAAAGTTTAAGGGTTAAAATGTAATTTTAGAAAAGTTT
1 A-GGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTT
*
25122068 AGGTGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTT-CAAGAAGTTT
1 AGG-GTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAA-AAGTTT
* * * **
25122128 AGGTGTCAAATTTTAATTTTTGGTTAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTT
1 AGG-GTCAAAATGTAA-TTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTT
25122189 AGGGGTCAAAATGTAATTTT
1 A-GGGTCAAAATGTAATTTT
25122209 TAGACATAAC
Statistics
Matches: 278, Mismatches: 30, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
58 1 0.00
59 77 0.28
60 126 0.45
61 70 0.25
62 4 0.01
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (59 bp):
AGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTT
Found at i:25121954 original size:30 final size:30
Alignment explanation
Indices: 25121829--25122208 Score: 396
Period size: 30 Copynumber: 12.6 Consensus size: 30
25121819 GAAAAAAAGC
* * *
25121829 AGGGTCAAAAATG-AAGTTTTAGAGAATTTTG
1 AGGGTC-AAAATGTAA-TTTTAGAAAAGTTTA
* * *
25121860 GGGGTCAAAATATAATTTTGGAAAAGTTT-
1 AGGGTCAAAATGTAATTTTAGAAAAGTTTA
* *
25121889 AGGGTCAAAATGTAGTTATACGAAAAAGTTT-
1 AGGGTCAAAATGTAATTTTA-G-AAAAGTTTA
* * *
25121920 AGGGTTAAAATGAAATTTTGGAAAAGTTTA
1 AGGGTCAAAATGTAATTTTAGAAAAGTTTA
* *
25121950 AGGGTTAAAATGTAATTTAAGAAAAGTTTA
1 AGGGTCAAAATGTAATTTTAGAAAAGTTTA
*
25121980 GGGGTCAAAATGTAATTTTAGAAAAG-TTA
1 AGGGTCAAAATGTAATTTTAGAAAAGTTTA
* *
25122009 GGGGTTAAAATGTAATTTTAGAAAAGTTTA
1 AGGGTCAAAATGTAATTTTAGAAAAGTTTA
*
25122039 AGGGTTAAAATGTAATTTTAGAAAAGTTT-
1 AGGGTCAAAATGTAATTTTAGAAAAGTTTA
25122068 AGGTGTCAAAATGTAATTTTAGAAAAGTTTA
1 AGG-GTCAAAATGTAATTTTAGAAAAGTTTA
* *
25122099 GGGGTCAAAATGTAATTTTCA-AGAAGTTT-
1 AGGGTCAAAATGTAATTTT-AGAAAAGTTTA
* * * **
25122128 AGGTGTCAAATTTTAATTTTTGGTTAAGTTTA
1 AGG-GTCAAAATGTAA-TTTTAGAAAAGTTTA
* *
25122160 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
1 AGGGTCAAAATGTAATTTTAGAAAAGTTTA
*
25122190 GGGGTCAAAATGTAATTTT
1 AGGGTCAAAATGTAATTTT
25122209 TAGACATAAC
Statistics
Matches: 300, Mismatches: 37, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
29 56 0.19
30 189 0.63
31 53 0.18
32 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (30 bp):
AGGGTCAAAATGTAATTTTAGAAAAGTTTA
Found at i:25122189 original size:91 final size:90
Alignment explanation
Indices: 25121830--25122208 Score: 446
Period size: 89 Copynumber: 4.2 Consensus size: 90
25121820 AAAAAAAGCA
* * ** * *
25121830 GGGTCAAAAATG-AAGTTTTAGAGAATTTTGGGGGTCAAAATATAATTTTGGAAAAGTTTA-GGG
1 GGGTC-AAAATGTAA-TTTTAGAAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGG
* *
25121893 TCAAAATGTAGTTATACGAAAAAGTTTA-
64 TCAAAATGTAATTTTA-G-AAAAGTTTAG
* * * * *
25121921 GGGTTAAAATGAAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTAAGAAAAGTTTAGGGGTC
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTC
25121986 AAAATGTAATTTTAGAAAAG-TTAG
66 AAAATGTAATTTTAGAAAAGTTTAG
* * *
25122010 GGGTTAAAATGTAATTTTAGAAAAGTTTAAGGGTTAAAATGTAATTTTAGAAAAGTTTAGGTGTC
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTC
25122075 AAAATGTAATTTTAGAAAAGTTTAG
66 AAAATGTAATTTTAGAAAAGTTTAG
* * * * **
25122100 GGGTCAAAATGTAATTTTCA-AGAAGTTT-AGGTGTCAAATTTTAATTTTTGGTTAAGTTTAGGG
1 GGGTCAAAATGTAATTTT-AGAAAAGTTTAAGG-GTCAAAATGTAA-TTTTAGAAAAGTTTAGGG
*
25122163 GTCAAAATGTAATTTTGGAAAAGTTTAG
63 GTCAAAATGTAATTTTAGAAAAGTTTAG
25122191 GGGTCAAAATGTAATTTT
1 GGGTCAAAATGTAATTTT
25122209 TAGACATAAC
Statistics
Matches: 255, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
88 3 0.01
89 89 0.35
90 80 0.31
91 83 0.33
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (90 bp):
GGGTCAAAATGTAATTTTAGAAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTC
AAAATGTAATTTTAGAAAAGTTTAG
Found at i:25124057 original size:47 final size:48
Alignment explanation
Indices: 25123927--25124048 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 48
25123917 ATTTTGGTAT
* *
25123927 ACTTCTTTGTATCTCATCAAGAAGATGATCGTTTTATTTGTTTGATCC
1 ACTTCTTTGTATCTCATCAGGAAGATGATCGTTTGATTTGTTTGATCC
*
25123975 ACTTCTCTGTATCTCATCAGGAAGATGATCGTTTGA-TTGTTTGATCC
1 ACTTCTTTGTATCTCATCAGGAAGATGATCGTTTGATTTGTTTGATCC
*
25124022 ATTTCTTTGTATCTCATCAGGAAGATG
1 ACTTCTTTGTATCTCATCAGGAAGATG
25124049 GGGGTTTGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 36 0.52
48 33 0.48
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (48 bp):
ACTTCTTTGTATCTCATCAGGAAGATGATCGTTTGATTTGTTTGATCC
Found at i:25124095 original size:171 final size:171
Alignment explanation
Indices: 25123795--25124342 Score: 787
Period size: 171 Copynumber: 3.2 Consensus size: 171
25123785 TAGCTTCATA
* * * * * *
25123795 TTTTGGTCTACTTCTCTGTATCTCCTCAGGAAGATGA-CTGCTTCATTGTTTGACCCATTTCTCT
1 TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATC-GCTTGATTGTTTGATCCATTTCTTT
* * * *
25123859 GTATCTTATCAGGAAGATGAGGTTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTATTTTGG
65 GTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGTTTTGG
* * * * **
25123924 TATACTTCTTTGTATCTCATCAAGAAGATGATCGTTTTATT-
130 TCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTG
*
25123965 TGTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATCGTTTGATTGTTTGATCCATTTCTTT
1 T-TTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTGATTGTTTGATCCATTTCTTT
25124030 GTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGTTTTGG
65 GTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGTTTTGG
*
25124095 TCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTGATTG
130 TCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTG
* * * *
25124137 TTTTGATCCACTTCTCTGTA-CTTACCAGGAAGACGATCGCTTGATTGTTTGATCCACTTCTTTG
1 TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTGATTGTTTGATCCATTTCTTTG
* * * *
25124201 TATCTCATCAAGAAGATGGGGGTTTGAAGTTTTATTGACATTGAGCTTTGCTTCATTGTTTTGGT
66 TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGTTTTGGT
* *
25124266 CTACTTCTCTCTATCTCATTAGGAAGATGACCACTTTATTG
131 CTACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTG
* *
25124307 TTTTGACCCACTTCTTTGTATCTCATCAGGAAGATG
1 TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATG
25124343 GGGTTTGAAG
Statistics
Matches: 339, Mismatches: 35, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
170 157 0.46
171 180 0.53
172 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (171 bp):
TTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTGATTGTTTGATCCATTTCTTTG
TATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGTTTTGGT
CTACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTG
Found at i:25124156 original size:48 final size:48
Alignment explanation
Indices: 25124085--25124218 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 48
25124075 GCTTTGCTTC
* *
25124085 ATTGTTTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTG
1 ATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTG
* * * * *
25124133 ATTGTTTTGATCCACTTCTCTGTA-CTTACCAGGAAGACGATCGCTTG
1 ATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTG
* *
25124180 ATTG-TTTGATCCACTTCTTTGTATCTCATCAAGAAGATG
1 ATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATG
25124219 GGGGTTTGAA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
46 18 0.25
47 33 0.45
48 22 0.30
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (48 bp):
ATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTG
Found at i:25124377 original size:123 final size:123
Alignment explanation
Indices: 25124162--25124605 Score: 552
Period size: 123 Copynumber: 3.6 Consensus size: 123
25124152 CTGTACTTAC
* * * * *
25124162 CAGGAAGACGATCGCTTGATTGTTTGATCCACTTCTTTGTATCTCATCAAGAAGATGGGGGTTTG
1 CAGGAAGATGACCACTTCATTGTTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGGTTTG
* * * * *
25124227 AAGTTTTATTGACATTGAGCTTTGCTTCATTGTTTTGGTCTACTTCTCTCTATCTCAT
66 AAGTTTCACTGACATTGAGCTTTGCTTCATTATTTTGGTATACTTCTCTATATCTCAT
* * *
25124285 TAGGAAGATGACCACTTTATTGTTTTGACCCACTTCTTTGTATCTCATCAGGAAGAT-GGGGTTT
1 CAGGAAGATGACCACTTCATTG-TTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGGTTT
* * * * *
25124349 GAAG-TTCAGCTGAAATTGAGCTTCGCTTCATTATTTTGGTTTACTTCTCTGTATCTCAA
65 GAAGTTTCA-CTGACATTGAGCTTTGCTTCATTATTTTGGTATACTTCTCTATATCTCAT
* * * * *
25124408 CAGGAAGATGATCGCTTGATTGTTTGATCCACTTTTTTGTATCTCATCAAGAAGATGGGGGTTTG
1 CAGGAAGATGACCACTTCATTGTTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGGTTTG
* *
25124473 AAGTTTCACTCACATTGAGCTTTGCTTCATTATTTTGGTATACTTCTTTATATCTCAT
66 AAGTTTCACTGACATTGAGCTTTGCTTCATTATTTTGGTATACTTCTCTATATCTCAT
* * * * * * *
25124531 CAGAAAGATGACCACTTCATTGTTTTGGCCCACTTCTCTGTACCTCATTAGGAAGAT-AGGGTTT
1 CAGGAAGATGACCACTTCATTG-TTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGGTTT
25124595 GAAGTTTCACT
65 GAAGTTTCACT
25124606 TGTATTGAGT
Statistics
Matches: 275, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
122 34 0.12
123 178 0.65
124 63 0.23
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.40
Consensus pattern (123 bp):
CAGGAAGATGACCACTTCATTGTTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGGTTTG
AAGTTTCACTGACATTGAGCTTTGCTTCATTATTTTGGTATACTTCTCTATATCTCAT
Found at i:25124465 original size:246 final size:245
Alignment explanation
Indices: 25124146--25124600 Score: 730
Period size: 246 Copynumber: 1.9 Consensus size: 245
25124136 GTTTTGATCC
* *
25124146 ACTTCTCTGTACTTACCAGGAAGACGATCGCTTGATTGTTTGATCCACTTCTTTGTATCTCATCA
1 ACTTCTCTGTACTCAACAGGAAGACGATCGCTTGATTGTTTGATCCACTTCTTTGTATCTCATCA
* * * * *
25124211 AGAAGATGGGGGTTTGAAGTTTTATTGACATTGAGCTTTGCTTCATTGTTTTGGTCTACTTCTCT
66 AGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTATTTTGGTATACTTCTCT
* * * * * *
25124276 CTATCTCATTAGGAAGATGACCACTTTATTGTTTTGACCCACTTCTTTGTATCTCATCAGGAAGA
131 ATATCTCATCAGAAAGATGACCACTTCATTGTTTTGACCCACTTCTCTGTACCTCATCAGGAAGA
*
25124341 TGGGGTTTGAAGTTCAGCTGAAATTGAGCTTCGCTTCATTATTTTGGTTT
196 TAGGGTTTGAAGTTCAGCTGAAATTGAGCTTCGCTTCATTATTTTGGTTT
* *
25124391 ACTTCTCTGTATCTCAACAGGAAGATGATCGCTTGATTGTTTGATCCACTTTTTTGTATCTCATC
1 ACTTCTCTGTA-CTCAACAGGAAGACGATCGCTTGATTGTTTGATCCACTTCTTTGTATCTCATC
*
25124456 AAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTATTTTGGTATACTTCTT
65 AAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTATTTTGGTATACTTCTC
* *
25124521 TATATCTCATCAGAAAGATGACCACTTCATTGTTTTGGCCCACTTCTCTGTACCTCATTAGGAAG
130 TATATCTCATCAGAAAGATGACCACTTCATTGTTTTGACCCACTTCTCTGTACCTCATCAGGAAG
25124586 ATAGGGTTTGAAGTT
195 ATAGGGTTTGAAGTT
25124601 TCACTTGTAT
Statistics
Matches: 190, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
245 11 0.06
246 179 0.94
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (245 bp):
ACTTCTCTGTACTCAACAGGAAGACGATCGCTTGATTGTTTGATCCACTTCTTTGTATCTCATCA
AGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTATTTTGGTATACTTCTCT
ATATCTCATCAGAAAGATGACCACTTCATTGTTTTGACCCACTTCTCTGTACCTCATCAGGAAGA
TAGGGTTTGAAGTTCAGCTGAAATTGAGCTTCGCTTCATTATTTTGGTTT
Found at i:25136314 original size:117 final size:118
Alignment explanation
Indices: 25136187--25136401 Score: 285
Period size: 117 Copynumber: 1.8 Consensus size: 118
25136177 GGGAAAAAAT
* * * *
25136187 GGGGTCAAAATGA-AGTTTTGGAGAATATTAGGTGTCAAAACATAATTTTCAA-AAATTTTAGGG
1 GGGGTCAAAAT-ATAATTTTGGAAAATATTAGGGGTCAAAACATAATTTTCAAGAAA-CTTAGGG
*
25136250 TTAAATGTAATTTTG-GAAAAGTTTAA-GGTCAAAACATAACTTTAGAAAAGTTTA
64 TCAAATGTAATTTTGAG-AAAGTTTAAGGGTCAAAACATAACTTTAGAAAAGTTTA
* ** *
25136304 GGGGTCAAAATATAATTTTGGAAAATTTTAGGGGTCAAAATGTAATTTTCAAGAAACTTGGGGTC
1 GGGGTCAAAATATAATTTTGGAAAATATTAGGGGTCAAAACATAATTTTCAAGAAACTTAGGGTC
*
25136369 AAATGTAATTTTTAGAAAGTTTAAGGGTCAAAA
66 AAATGTAATTTTGAGAAAGTTTAAGGGTCAAAA
25136402 TTTAATTTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
116 1 0.01
117 71 0.85
118 12 0.14
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (118 bp):
GGGGTCAAAATATAATTTTGGAAAATATTAGGGGTCAAAACATAATTTTCAAGAAACTTAGGGTC
AAATGTAATTTTGAGAAAGTTTAAGGGTCAAAACATAACTTTAGAAAAGTTTA
Found at i:25136411 original size:30 final size:31
Alignment explanation
Indices: 25136214--25136476 Score: 160
Period size: 30 Copynumber: 8.8 Consensus size: 31
25136204 TTGGAGAATA
* * * *
25136214 TTAGGTGTCAAAACATAATTTTCA-AAAATT
1 TTAGGGGTCAAAATATAATTTTTAGAAAAGT
* * *
25136244 TTA-GGGT-TAAATGTAA-TTTTGGAAAAGT
1 TTAGGGGTCAAAATATAATTTTTAGAAAAGT
* * *
25136272 TTA-AGGTCAAAACATAA-CTTTAGAAAAGT
1 TTAGGGGTCAAAATATAATTTTTAGAAAAGT
* *
25136301 TTAGGGGTCAAAATATAA-TTTTGGAAAATT
1 TTAGGGGTCAAAATATAATTTTTAGAAAAGT
* * *
25136331 TTAGGGGTCAAAATGTAATTTTCA-AGAAA-C
1 TTAGGGGTCAAAATATAATTTTTAGA-AAAGT
*
25136361 TT-GGGGTC-AAATGTAATTTTTAG-AAAGT
1 TTAGGGGTCAAAATATAATTTTTAGAAAAGT
* * *
25136389 TTAAGGGTCAAAATTTAATTTTTTTTGTAAAA-T
1 TTAGGGGTCAAAATATAA--TTTTTAG-AAAAGT
* *
25136422 TTAGGGGTTAAAATATAA-TTTTAGAAAAAT
1 TTAGGGGTCAAAATATAATTTTTAGAAAAGT
* * * *
25136452 TT-GAGGTTAAAATGTGATTTTTAGA
1 TTAGGGGTCAAAATATAATTTTTAGA
25136477 CAAAACAAGA
Statistics
Matches: 184, Mismatches: 34, Indels: 30
0.74 0.14 0.12
Matches are distributed among these distances:
27 6 0.03
28 32 0.17
29 49 0.27
30 66 0.36
31 6 0.03
32 6 0.03
33 16 0.09
34 3 0.02
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.38
Consensus pattern (31 bp):
TTAGGGGTCAAAATATAATTTTTAGAAAAGT
Found at i:25137777 original size:37 final size:37
Alignment explanation
Indices: 25137727--25137809 Score: 166
Period size: 37 Copynumber: 2.2 Consensus size: 37
25137717 TCCAACAGAT
25137727 TGAAAATGTTATTATAATAAGTCTAGTGAAATGTTTA
1 TGAAAATGTTATTATAATAAGTCTAGTGAAATGTTTA
25137764 TGAAAATGTTATTATAATAAGTCTAGTGAAATGTTTA
1 TGAAAATGTTATTATAATAAGTCTAGTGAAATGTTTA
25137801 TGAAAATGT
1 TGAAAATGT
25137810 AAAGCTTGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (37 bp):
TGAAAATGTTATTATAATAAGTCTAGTGAAATGTTTA
Found at i:25141382 original size:94 final size:92
Alignment explanation
Indices: 25141231--25141408 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 92
25141221 TTAAGTTTTT
** *
25141231 TTTATTCAATCAAATATTCAAGAAAAAAATTATTATAAAAATACTAAATTCAATCAATCATATTT
1 TTTATTCAATCAAATATTCAAGAAAAAAATTACAATAAAAATACTAAATCCAATCAATCATATTT
*
25141296 AATAAAGTTGTCTAAATTAATTTATTA
66 AATAAAATTGTCTAAATTAATTTATTA
* * *
25141323 TTTATTCAATC-AATCATTTAAGAAAAAATATTTACAATAAAAATATTAAATCCAATCAATTATA
1 TTTATTCAATCAAAT-ATTCAAGAAAAAA-A-TTACAATAAAAATACTAAATCCAATCAATCATA
25141387 TTTAATAAAATTGTCTAAATTA
63 TTTAATAAAATTGTCTAAATTA
25141409 CAATATGATT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
91 3 0.04
92 23 0.30
93 1 0.01
94 49 0.64
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (92 bp):
TTTATTCAATCAAATATTCAAGAAAAAAATTACAATAAAAATACTAAATCCAATCAATCATATTT
AATAAAATTGTCTAAATTAATTTATTA
Found at i:25142684 original size:24 final size:23
Alignment explanation
Indices: 25142655--25142705 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
25142645 GCATTATTCG
25142655 TGAACATATTCAATTATATGTTCA
1 TGAACATATTCAATTAT-TGTTCA
* **
25142679 TGAACATGTTCGTTTATTGTTCA
1 TGAACATATTCAATTATTGTTCA
25142702 TGAA
1 TGAA
25142706 TATGTTCGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (23 bp):
TGAACATATTCAATTATTGTTCA
Found at i:25142703 original size:23 final size:24
Alignment explanation
Indices: 25142668--25142713 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
25142658 ACATATTCAA
25142668 TTATATGTTCATGAACATGTTCGT
1 TTATATGTTCATGAACATGTTCGT
*
25142692 TTAT-TGTTCATGAATATGTTCG
1 TTATATGTTCATGAACATGTTCG
25142714 ATTAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (24 bp):
TTATATGTTCATGAACATGTTCGT
Found at i:25143834 original size:16 final size:16
Alignment explanation
Indices: 25143790--25143825 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25143780 ATCAACAAAC
25143790 TAAACCCAAATATTTT
1 TAAACCCAAATATTTT
25143806 TAAACCCAAATATTTT
1 TAAACCCAAATATTTT
25143822 TAAA
1 TAAA
25143826 TTCAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAACCCAAATATTTT
Found at i:25143869 original size:58 final size:58
Alignment explanation
Indices: 25143806--25143921 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
25143796 CAAATATTTT
** *
25143806 TAAACCCAAATATTTTTAAATTCAAATATAATTTCATTCTTCAAA-AACACTCATAAAC
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCATAAAC
* *
25143864 TAAACCCAAATATTTTTAAACCCAAATATAATTTTATTCCTAAATAATACTCATAAAC
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
25143922 AACTCCTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
57 3 0.06
58 49 0.94
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (58 bp):
TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
Found at i:25145499 original size:58 final size:57
Alignment explanation
Indices: 25145434--25145597 Score: 190
Period size: 58 Copynumber: 2.8 Consensus size: 57
25145424 AATATTTAGC
* *
25145434 ACTTGAACTTGACATCTTTTTTTAATTTGGCATCTAAGTTTTTTTTACCCAATTTGGT
1 ACTTGAACTTGACATCTTTTTTTAATTTGGTATCTAA-TTTTTTTTACCCAATTTGAT
*
25145492 ACTTGAACTTGACA-CATTTTCTTAATTTGGTA-CGTAATTTTTTTTGGACCCAATTTGAT
1 ACTTGAACTTGACATC-TTTTTTTAATTTGGTATC-TAATTTTTTTT--ACCCAATTTGAT
* * *
25145551 ACTTGAACTTGGCAT-TTTTTCCTAATTTGGTATCTAAACTTTTTTTA
1 ACTTGAACTTGACATCTTTTT-TTAATTTGGTATCT-AATTTTTTTTA
25145598 GATTCAATCT
Statistics
Matches: 91, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
57 10 0.11
58 36 0.40
59 35 0.38
60 10 0.11
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (57 bp):
ACTTGAACTTGACATCTTTTTTTAATTTGGTATCTAATTTTTTTTACCCAATTTGAT
Found at i:25145571 original size:59 final size:58
Alignment explanation
Indices: 25145434--25145597 Score: 199
Period size: 59 Copynumber: 2.8 Consensus size: 58
25145424 AATATTTAGC
* *
25145434 ACTTGAACTTGACATCTTTTT-TTAATTTGGCATCTAAGTTTTTTTTACCCAATTTGGT
1 ACTTGAACTTGACAT-TTTTTCTTAATTTGGTATCTAAGTTTTTTTTACCCAATTTGAT
**
25145492 ACTTGAACTTGACACATTTTCTTAATTTGGTA-CGTAA-TTTTTTTTGGACCCAATTTGAT
1 ACTTGAACTTGACATTTTTTCTTAATTTGGTATC-TAAGTTTTTTTT--ACCCAATTTGAT
* * **
25145551 ACTTGAACTTGGCATTTTTTCCTAATTTGGTATCTAAACTTTTTTTA
1 ACTTGAACTTGACATTTTTTCTTAATTTGGTATCTAAGTTTTTTTTA
25145598 GATTCAATCT
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
57 13 0.14
58 28 0.31
59 42 0.46
60 8 0.09
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (58 bp):
ACTTGAACTTGACATTTTTTCTTAATTTGGTATCTAAGTTTTTTTTACCCAATTTGAT
Found at i:25146859 original size:2 final size:2
Alignment explanation
Indices: 25146848--25146882 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
25146838 AAACAAAACC
25146848 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25146883 TATTGGTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:25147278 original size:15 final size:16
Alignment explanation
Indices: 25147253--25147285 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25147243 AAAATATTAT
25147253 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
25147269 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
25147284 TT
1 TT
25147286 CTTGAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:25149989 original size:14 final size:14
Alignment explanation
Indices: 25149970--25150001 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
25149960 CCAACCCAAA
25149970 GATTCAATATATTT
1 GATTCAATATATTT
25149984 GATTCAATATATTT
1 GATTCAATATATTT
25149998 -ATTC
1 GATTC
25150002 TCATTCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.50
Consensus pattern (14 bp):
GATTCAATATATTT
Found at i:25156051 original size:25 final size:25
Alignment explanation
Indices: 25156021--25156069 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
25156011 TTAGCTCGAT
25156021 AAGAGCGT-AAGTATGTCTGGGCTCG
1 AAGAGC-TCAAGTATGTCTGGGCTCG
* *
25156046 AAGAGCTCAATTTTGTCTGGGCTC
1 AAGAGCTCAAGTATGTCTGGGCTC
25156070 ATATGAGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (25 bp):
AAGAGCTCAAGTATGTCTGGGCTCG
Found at i:25159430 original size:17 final size:17
Alignment explanation
Indices: 25159408--25159449 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
25159398 GCAGCTCTTG
25159408 CCTAACTTACTTGTTAA
1 CCTAACTTACTTGTTAA
25159425 CCTAACTTACTTGTTAA
1 CCTAACTTACTTGTTAA
25159442 CCTAACTT
1 CCTAACTT
25159450 GTCACCGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (17 bp):
CCTAACTTACTTGTTAA
Found at i:25162549 original size:15 final size:15
Alignment explanation
Indices: 25162526--25162556 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25162516 AGAAGTTAGT
*
25162526 AGAGCTGTATGTGGC
1 AGAGATGTATGTGGC
25162541 AGAGATGTATGTGGC
1 AGAGATGTATGTGGC
25162556 A
1 A
25162557 TACATTGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.39, T:0.26
Consensus pattern (15 bp):
AGAGATGTATGTGGC
Found at i:25165885 original size:7 final size:7
Alignment explanation
Indices: 25165837--25165884 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
25165827 AACATTATCC
25165837 TAAACCT
1 TAAACCT
*
25165844 TAAACCA
1 TAAACCT
25165851 TAAACCT
1 TAAACCT
*
25165858 TGAACCT
1 TAAACCT
**
25165865 TGGACCT
1 TAAACCT
*
25165872 TAAACCC
1 TAAACCT
25165879 TAAACC
1 TAAACC
25165885 CATTGAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.40, C:0.31, G:0.06, T:0.23
Consensus pattern (7 bp):
TAAACCT
Found at i:25170981 original size:39 final size:39
Alignment explanation
Indices: 25170931--25171066 Score: 166
Period size: 39 Copynumber: 3.4 Consensus size: 39
25170921 CACTAGTACA
*
25170931 AAGCTTGCTAGGCTCAAACCTCGATAAGTCACCAGCACG
1 AAGCTTGCTAGGCTCAAACCTCGATAAGTCACCGGCACG
* * * **
25170970 ATGCTTGCTAGGCTCAAGGCC-CGATACAATACACCGGCATA
1 AAGCTTGCTAGGCTCAA-ACCTCGATA-AGT-CACCGGCACG
* *
25171011 AAGCTTGCTAGGCTCAAAGCTTGATAAGTCACCGGCACG
1 AAGCTTGCTAGGCTCAAACCTCGATAAGTCACCGGCACG
25171050 AAGCTTGCTAGGCTCAA
1 AAGCTTGCTAGGCTCAA
25171067 GGCCCAATAC
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
39 46 0.57
40 7 0.09
41 27 0.34
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
AAGCTTGCTAGGCTCAAACCTCGATAAGTCACCGGCACG
Found at i:25171025 original size:41 final size:40
Alignment explanation
Indices: 25170928--25171120 Score: 158
Period size: 41 Copynumber: 4.8 Consensus size: 40
25170918 AAGCACTAGT
* *
25170928 ACAAAGCTTGCTAGGCTCAAA-CCTCGATA-AGTCACCAGC
1 ACAAAGCTTGCTAGGCTCAAAGCC-CGATACAATCACCGGC
* * *
25170967 ACGATGCTTGCTAGGCTCAAGGCCCGATACAATACACCGGC
1 ACAAAGCTTGCTAGGCTCAAAGCCCGATACAAT-CACCGGC
* ** *
25171008 ATAAAGCTTGCTAGGCTCAAAGCTTGATA-AGTCACCGGC
1 ACAAAGCTTGCTAGGCTCAAAGCCCGATACAATCACCGGC
* * * * *
25171047 ACGAAGCTTGCTAGGCTCAAGGCCCAATACAATGCATCGTC
1 ACAAAGCTTGCTAGGCTCAAAGCCCGATACAAT-CACCGGC
* * * * * *
25171088 ATAAAGCCTACTAAGCTTAAAGCTCGATACAAT
1 ACAAAGCTTGCTAGGCTCAAAGCCCGATACAAT
25171121 ACCACCATAA
Statistics
Matches: 119, Mismatches: 30, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
39 53 0.45
40 8 0.07
41 58 0.49
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (40 bp):
ACAAAGCTTGCTAGGCTCAAAGCCCGATACAATCACCGGC
Found at i:25171063 original size:80 final size:80
Alignment explanation
Indices: 25170930--25171094 Score: 258
Period size: 80 Copynumber: 2.1 Consensus size: 80
25170920 GCACTAGTAC
* *
25170930 AAAGCTTGCTAGGCTCAAACCTCGATAAGTCACCAGCACGATGCTTGCTAGGCTCAAGGCCCGAT
1 AAAGCTTGCTAGGCTCAAACCTCGATAAGTCACCAGCACGAAGCTTGCTAGGCTCAAGGCCCAAT
25170995 ACAATACACCGGCAT
66 ACAATACACCGGCAT
* * *
25171010 AAAGCTTGCTAGGCTCAAAGCTTGATAAGTCACCGGCACGAAGCTTGCTAGGCTCAAGGCCCAAT
1 AAAGCTTGCTAGGCTCAAACCTCGATAAGTCACCAGCACGAAGCTTGCTAGGCTCAAGGCCCAAT
* * *
25171075 ACAATGCATCGTCAT
66 ACAATACACCGGCAT
25171090 AAAGC
1 AAAGC
25171095 CTACTAAGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (80 bp):
AAAGCTTGCTAGGCTCAAACCTCGATAAGTCACCAGCACGAAGCTTGCTAGGCTCAAGGCCCAAT
ACAATACACCGGCAT
Found at i:25171110 original size:80 final size:80
Alignment explanation
Indices: 25170942--25171116 Score: 242
Period size: 80 Copynumber: 2.2 Consensus size: 80
25170932 AGCTTGCTAG
* * *
25170942 GCTCAAACCTCGATAAGTCACCAGCACGATGCTTGCTAGGCTCAAGGCCCGATACAATACACCGG
1 GCTCAAAGCTCGATAAGTCACCAGCACGAAGCTTGCTAGGCTCAAGGCCCAATACAATACACCGG
* * *
25171007 CATAAAGCTTGCTAG
66 CATAAAGCCTACTAA
* * * * *
25171022 GCTCAAAGCTTGATAAGTCACCGGCACGAAGCTTGCTAGGCTCAAGGCCCAATACAATGCATCGT
1 GCTCAAAGCTCGATAAGTCACCAGCACGAAGCTTGCTAGGCTCAAGGCCCAATACAATACACCGG
25171087 CATAAAGCCTACTAA
66 CATAAAGCCTACTAA
*
25171102 GCTTAAAGCTCGATA
1 GCTCAAAGCTCGATA
25171117 CAATACCACC
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (80 bp):
GCTCAAAGCTCGATAAGTCACCAGCACGAAGCTTGCTAGGCTCAAGGCCCAATACAATACACCGG
CATAAAGCCTACTAA
Found at i:25172587 original size:12 final size:13
Alignment explanation
Indices: 25172551--25172590 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
25172541 TATTTACCTT
25172551 ATTAATCCCTTTA
1 ATTAATCCCTTTA
25172564 ATTAATCCCTTTA
1 ATTAATCCCTTTA
25172577 ATTAA-CCCTTTA
1 ATTAATCCCTTTA
25172589 AT
1 AT
25172591 AGTTATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAATCCCTTTA
Found at i:25178122 original size:19 final size:20
Alignment explanation
Indices: 25178084--25178123 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25178074 TTATGATGGC
*
25178084 TCCATGAAAGAGATCAATGA
1 TCCAAGAAAGAGATCAATGA
*
25178104 TCCAAGAAAGCGA-CAATGA
1 TCCAAGAAAGAGATCAATGA
25178123 T
1 T
25178124 TCGGACTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (20 bp):
TCCAAGAAAGAGATCAATGA
Found at i:25178594 original size:20 final size:20
Alignment explanation
Indices: 25178566--25178603 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25178556 AGTGCAGACC
*
25178566 TCTACCGATACAAGTGACAA
1 TCTAACGATACAAGTGACAA
25178586 TCTAACGATACAAGTGAC
1 TCTAACGATACAAGTGAC
25178604 TCTTTTACCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (20 bp):
TCTAACGATACAAGTGACAA
Found at i:25181321 original size:21 final size:21
Alignment explanation
Indices: 25181288--25181343 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
25181278 AATAGTGCAG
* *
25181288 ACTTTTACTGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
*
25181309 AGTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
*
25181330 TCTTCTACCGATAC
1 ACTTCTACCGATAC
25181344 TAAAAACTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAC
Found at i:25181352 original size:21 final size:21
Alignment explanation
Indices: 25181311--25181352 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
25181301 CAAGTGACAG
**
25181311 TTCTACCGATACAAGTGACTC
1 TTCTACCGATACAAGAAACTC
25181332 TTCTACCGATACTAA-AAACTC
1 TTCTACCGATAC-AAGAAACTC
25181353 CAAAGATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (21 bp):
TTCTACCGATACAAGAAACTC
Found at i:25200718 original size:19 final size:19
Alignment explanation
Indices: 25200694--25200730 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25200684 GTAAATAGAT
*
25200694 AAAAAATTAAACCTATATA
1 AAAAAAATAAACCTATATA
25200713 AAAAAAATAAACCTATAT
1 AAAAAAATAAACCTATAT
25200731 CGATCTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAAATAAACCTATATA
Found at i:25208497 original size:14 final size:14
Alignment explanation
Indices: 25208474--25208511 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
25208464 TATTTTTGCA
25208474 TTTCCTTTTATCT-
1 TTTCCTTTTATCTG
*
25208487 TTTCACTTTTATTTG
1 TTTC-CTTTTATCTG
25208502 TTTCCTTTTA
1 TTTCCTTTTA
25208512 AATTCTATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTCCTTTTATCTG
Found at i:25210869 original size:21 final size:21
Alignment explanation
Indices: 25210843--25210893 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 21
25210833 GTTAGTTACA
*
25210843 TGCATTTTATTTAGTTGTCAT
1 TGCATTTTATTTAGTTGTCAC
*
25210864 TGCA--TT-TTTATTTGTCAC
1 TGCATTTTATTTAGTTGTCAC
25210882 TGCATTTTATTT
1 TGCATTTTATTT
25210894 GTTAGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 14 0.56
19 2 0.08
20 2 0.08
21 7 0.28
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (21 bp):
TGCATTTTATTTAGTTGTCAC
Found at i:25214546 original size:18 final size:18
Alignment explanation
Indices: 25214523--25214557 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25214513 CACTAACACT
25214523 AAAATGCAACGACAATGG
1 AAAATGCAACGACAATGG
*
25214541 AAAATGCAATGACAATG
1 AAAATGCAACGACAATG
25214558 CTTACTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.14, G:0.20, T:0.14
Consensus pattern (18 bp):
AAAATGCAACGACAATGG
Found at i:25228110 original size:14 final size:15
Alignment explanation
Indices: 25228091--25228119 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25228081 ATTTTGCTCA
25228091 ACAGTGCGA-AAATG
1 ACAGTGCGACAAATG
25228105 ACAGTGCGACAAATG
1 ACAGTGCGACAAATG
25228120 GAGTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.14
Consensus pattern (15 bp):
ACAGTGCGACAAATG
Found at i:25230859 original size:3 final size:3
Alignment explanation
Indices: 25230853--25230905 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
25230843 GTATTGTAGT
25230853 AGA AGA AGA AGCA AG- AGA AGA AGA GAGA A-A AGA AGA A-A AGGA AGA
1 AGA AGA AGA AG-A AGA AGA AGA AGA -AGA AGA AGA AGA AGA A-GA AGA
25230898 AGA AGA AG
1 AGA AGA AG
25230906 GAATTGCCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
2 6 0.14
3 30 0.68
4 8 0.18
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:25250678 original size:23 final size:22
Alignment explanation
Indices: 25250648--25250773 Score: 153
Period size: 23 Copynumber: 5.5 Consensus size: 22
25250638 ACATTAGCGC
25250648 GCTTACTGTTTAGCACTGTGTGT
1 GCTTACTGTTT-GCACTGTGTGT
* *
25250671 GCTTACTGTTTCGCACTATATGT
1 GCTTACTGTTT-GCACTGTGTGT
25250694 GCTTACTGATTTGCACTGTGTGT
1 GCTTACTG-TTTGCACTGTGTGT
*
25250717 GCTTACTGTTTTGCACTGCGTGT
1 GCTTACTG-TTTGCACTGTGTGT
* * *
25250740 GCCTATTGATTTGCATTGTGTGT
1 GCTTACTG-TTTGCACTGTGTGT
25250763 GCTTACTGTTT
1 GCTTACTGTTT
25250774 CCCCAACACT
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
22 3 0.03
23 82 0.93
24 3 0.03
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (22 bp):
GCTTACTGTTTGCACTGTGTGT
Found at i:25250715 original size:46 final size:46
Alignment explanation
Indices: 25250648--25250774 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 46
25250638 ACATTAGCGC
*
25250648 GCTTACTG-TTTAGCACTGTGTGTGCTTACTGTTTCGCACTATATGT
1 GCTTACTGATTT-GCACTGTGTGTGCTTACTGTTTCGCACTACATGT
* * *
25250694 GCTTACTGATTTGCACTGTGTGTGCTTACTGTTTTGCACTGCGTGT
1 GCTTACTGATTTGCACTGTGTGTGCTTACTGTTTCGCACTACATGT
* * *
25250740 GCCTATTGATTTGCATTGTGTGTGCTTACTGTTTC
1 GCTTACTGATTTGCACTGTGTGTGCTTACTGTTTC
25250775 CCCAACACTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 69 0.96
47 3 0.04
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.45
Consensus pattern (46 bp):
GCTTACTGATTTGCACTGTGTGTGCTTACTGTTTCGCACTACATGT
Found at i:25254482 original size:26 final size:26
Alignment explanation
Indices: 25254380--25254482 Score: 73
Period size: 26 Copynumber: 4.0 Consensus size: 26
25254370 AATTCTAGGC
* **
25254380 ACAATTCTAGACATGCTCATACAGTG
1 ACAATTCTGGACATGCTCATACAACG
* * * * * *
25254406 ATAACTCTGGACATGTTCATGCAGCA
1 ACAATTCTGGACATGCTCATACAACG
* * *
25254432 ATAATTCTGGACAAGTTTC-TACAACG
1 ACAATTCTGGACATG-CTCATACAACG
*
25254458 ACAATTCTGGACATGCTCATGCAAC
1 ACAATTCTGGACATGCTCATACAAC
25254483 AACATTATTA
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
25 2 0.03
26 54 0.92
27 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (26 bp):
ACAATTCTGGACATGCTCATACAACG
Found at i:25255123 original size:8 final size:8
Alignment explanation
Indices: 25255110--25255147 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
25255100 ATGATGCTTG
25255110 AAAGAAAA
1 AAAGAAAA
25255118 AAAGAAAA
1 AAAGAAAA
25255126 AAAG--AA
1 AAAGAAAA
25255132 AAAGAAAA
1 AAAGAAAA
*
25255140 AGAGAAAA
1 AAAGAAAA
25255148 TAGAGCATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
6 6 0.22
8 21 0.78
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:25255135 original size:14 final size:14
Alignment explanation
Indices: 25255116--25255147 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25255106 CTTGAAAGAA
25255116 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
*
25255130 AAAAAGAAAAAGAG
1 AAAAAGAAAAAAAG
25255144 AAAA
1 AAAA
25255148 TAGAGCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:25256667 original size:3 final size:3
Alignment explanation
Indices: 25256659--25256684 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25256649 TTTTAATTTC
25256659 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
25256685 ATGATGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:25262611 original size:33 final size:33
Alignment explanation
Indices: 25262569--25262632 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
25262559 GACACACTCT
*
25262569 TCCAACAATATGTGGAGCTTCGTGCTAAACAGC
1 TCCAACAATATGTGGAGCTTCATGCTAAACAGC
*
25262602 TCCAACAATATGTGGAGCTTTATGCTAAACA
1 TCCAACAATATGTGGAGCTTCATGCTAAACA
25262633 ACTAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (33 bp):
TCCAACAATATGTGGAGCTTCATGCTAAACAGC
Found at i:25262970 original size:22 final size:24
Alignment explanation
Indices: 25262942--25262994 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
25262932 TTTGAAAAAC
25262942 TTAAGACTTTG-AATTTAAT-TTT
1 TTAAGACTTTGTAATTTAATGTTT
**
25262964 TTAAGAC-TTGTAATTTTTTGTTT
1 TTAAGACTTTGTAATTTAATGTTT
25262987 TTAAGACT
1 TTAAGACT
25262995 AATATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.12
22 13 0.50
23 10 0.38
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (24 bp):
TTAAGACTTTGTAATTTAATGTTT
Found at i:25264545 original size:18 final size:18
Alignment explanation
Indices: 25264524--25264558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25264514 CCTTTTCTTT
*
25264524 CTTTCTTTGATTTTATTA
1 CTTTATTTGATTTTATTA
*
25264542 CTTTATTTTATTTTATT
1 CTTTATTTGATTTTATT
25264559 TTATTTGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (18 bp):
CTTTATTTGATTTTATTA
Found at i:25271474 original size:24 final size:24
Alignment explanation
Indices: 25271455--25271621 Score: 255
Period size: 24 Copynumber: 7.0 Consensus size: 24
25271445 ACACGAGTCT
25271455 AGAATGATTAGCTCTTACGAGCCC
1 AGAATGATTAGCTCTTACGAGCCC
* *
25271479 AGAATAATTAGCTTTTACGAGCCC
1 AGAATGATTAGCTCTTACGAGCCC
* *
25271503 AAAATGATTAGCTCTTACGAGCCT
1 AGAATGATTAGCTCTTACGAGCCC
* * *
25271527 AGAATTATTAGCTCTTACAAGCCT
1 AGAATGATTAGCTCTTACGAGCCC
25271551 AGAATGATTAGCTCTTACGAGCCC
1 AGAATGATTAGCTCTTACGAGCCC
25271575 AGAATGATTAGCTCTTACGAGCCC
1 AGAATGATTAGCTCTTACGAGCCC
25271599 A-AGATGATTAGCTCTTACGAGCC
1 AGA-ATGATTAGCTCTTACGAGCC
25271622 TAGACAGAGT
Statistics
Matches: 130, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
23 1 0.01
24 129 0.99
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (24 bp):
AGAATGATTAGCTCTTACGAGCCC
Found at i:25277896 original size:18 final size:18
Alignment explanation
Indices: 25277870--25277915 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
25277860 AATTAAAAAC
*
25277870 AAAATTATATAAGTTA-GA
1 AAAAATATATAA-TTACGA
25277888 AAAAATATA-AATTACGA
1 AAAAATATATAATTACGA
25277905 AAAAA-ATATAA
1 AAAAATATATAA
25277916 AAATTGTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.24
17 11 0.44
18 8 0.32
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (18 bp):
AAAAATATATAATTACGA
Found at i:25278234 original size:18 final size:18
Alignment explanation
Indices: 25278214--25278247 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25278204 TTTTTATATT
25278214 TTTTAA-TTTTATATAAA
1 TTTTAATTTTTATATAAA
25278231 TTTTAATTTTTATATAA
1 TTTTAATTTTTATATAA
25278248 TTACCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAATTTTTATATAAA
Found at i:25278249 original size:17 final size:17
Alignment explanation
Indices: 25278204--25278249 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
25278194 TGTAAAGATT
*
25278204 TTTTTATAT-TTTTTAA
1 TTTTTATATAATTTTAA
25278220 -TTTTATATAAATTTTAA
1 TTTTTATAT-AATTTTAA
25278237 TTTTTATATAATT
1 TTTTTATATAATT
25278250 ACCAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 8 0.31
17 10 0.38
18 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTATATAATTTTAA
Found at i:25278458 original size:37 final size:37
Alignment explanation
Indices: 25278382--25278470 Score: 88
Period size: 38 Copynumber: 2.3 Consensus size: 37
25278372 CTTTCATACT
* * *
25278382 TTTTAATTTTTTTTATTTTTCTCATCATTTATATAAA
1 TTTTAATTTTTTTTATGTTACTCAACATTTATATAAA
* * * *
25278419 TTTTAATTTTTTATTATGTTACTGAACTTTTTTATAAT
1 TTTTAATTTTTT-TTATGTTACTCAACATTTATATAAA
25278457 TTATATAATTTTTT
1 TT-T-TAATTTTTT
25278471 GTCATTTATA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 12 0.29
38 20 0.48
39 1 0.02
40 9 0.21
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (37 bp):
TTTTAATTTTTTTTATGTTACTCAACATTTATATAAA
Found at i:25278562 original size:23 final size:22
Alignment explanation
Indices: 25278523--25278566 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
25278513 TTTTCAATTT
25278523 AAAATTTTTATATATTTTTAAA
1 AAAATTTTTATATATTTTTAAA
25278545 AAAATATTTTA-ATAATTTTTAA
1 AAAAT-TTTTATAT-ATTTTTAA
25278567 TAACTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAAATTTTTATATATTTTTAAA
Found at i:25296020 original size:47 final size:47
Alignment explanation
Indices: 25295967--25296103 Score: 168
Period size: 47 Copynumber: 2.9 Consensus size: 47
25295957 TAACTTTGTT
** **
25295967 TATGTGGCCATTATCGGTAATTATGTGGTGGCTTGTTGACAATGTGC
1 TATGTGGCTGTTATCGGTAATTATGTGGTGGCTTGTCCACAATGTGC
* * * *
25296014 TATGTGGCTGTTATCGGCAATTATGTGGTGGTTTATCCACGATGTGC
1 TATGTGGCTGTTATCGGTAATTATGTGGTGGCTTGTCCACAATGTGC
*
25296061 TATGTGACTGTTCATCGGT-ATCTATGTGGTGGCTTGTCCACAA
1 TATGTGGCTGTT-ATCGGTAAT-TATGTGGTGGCTTGTCCACAA
25296104 ATGGTGTTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
47 52 0.69
48 23 0.31
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.38
Consensus pattern (47 bp):
TATGTGGCTGTTATCGGTAATTATGTGGTGGCTTGTCCACAATGTGC
Found at i:25309107 original size:9 final size:9
Alignment explanation
Indices: 25309093--25309142 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
25309083 GAGAAGGATC
25309093 AAGAAAAAG
1 AAGAAAAAG
*
25309102 AAGAAAATG
1 AAGAAAAAG
25309111 AAGAAAATGAAG
1 AAG-AAA--AAG
*
25309123 AAGAGAAAG
1 AAGAAAAAG
25309132 AAGAAAAAG
1 AAGAAAAAG
25309141 AA
1 AA
25309143 CCTACTGAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 24 0.71
10 3 0.09
11 2 0.06
12 5 0.15
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:25309116 original size:18 final size:18
Alignment explanation
Indices: 25309093--25309142 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 18
25309083 GAGAAGGATC
25309093 AAGAAAAAGAAGA-AAATG
1 AAGAAAAAGAAGAGAAA-G
25309111 AAGAAAATGAAGAAGAGAAAG
1 AAG-AAA--AAGAAGAGAAAG
25309132 AAGAAAAAGAA
1 AAGAAAAAGAA
25309143 CCTACTGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 8 0.29
19 3 0.11
20 3 0.11
21 11 0.39
22 3 0.11
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (18 bp):
AAGAAAAAGAAGAGAAAG
Found at i:25309125 original size:21 final size:21
Alignment explanation
Indices: 25309099--25309138 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
25309089 GATCAAGAAA
25309099 AAGAAGA-AAATGAAGAAAATG
1 AAGAAGAGAAA-GAAGAAAATG
25309120 AAGAAGAGAAAGAAGAAAA
1 AAGAAGAGAAAGAAGAAAA
25309139 AGAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (21 bp):
AAGAAGAGAAAGAAGAAAATG
Found at i:25317877 original size:18 final size:18
Alignment explanation
Indices: 25317832--25317877 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
25317822 AAACATAAAC
* *
25317832 AAAT-AAAACTAAAATTA
1 AAATAAAAATTAAAATGA
25317849 AAA-AAATAATTAAAATGA
1 AAATAAA-AATTAAAATGA
25317867 AAATAAAAATT
1 AAATAAAAATT
25317878 TCAAAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 5 0.21
18 16 0.67
19 3 0.12
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATAAAAATTAAAATGA
Found at i:25320333 original size:195 final size:194
Alignment explanation
Indices: 25319976--25320418 Score: 538
Period size: 194 Copynumber: 2.3 Consensus size: 194
25319966 GAAACCGACG
* *
25319976 CGATGGTTGAGGTACCGTATATGTTGTGAGTCCTCGACAGCT-TGTGTGAGTAGCATCATGAATC
1 CGATGGCTGAGGTACCGCATATGTTGTGAGTCCTCGACAGCTCT-TGTGAGTAGCATCATGAATC
25320040 GAGAAAATGAGAAATGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATGCATAA
65 GAGAAAATGAGAAATGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATGCATAA
* * * ***
25320105 GTGCATATTCTCGATAGCTCTGTGAGCAGCATCGTTTGGGGATAGTTATATGCACAGATA-CTGT
130 GTGCATATTCTCGACAACTCTGTGAGCAGCATCGTTAGGGGATAGTT-TACAAACAGATATC-GT
*
25320169 AT
193 AC
* * * **
25320171 TGATGGCTGAGGTACCGCATTTGTTGTGAGTCCTCGACAGCTCTTGTGAGTAGCATCGTGTGTCG
1 CGATGGCTGAGGTACCGCATATGTTGTGAGTCCTCGACAGCTCTTGTGAGTAGCATCATGAATCG
* * * * * *
25320236 A-AAAA-GAGATATGAAATCCTAA-AATGGATTACAGGCCTTACGATGGTTGGGATTTATGCTTG
66 AGAAAATGAGAAATG-AATCC-AAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATGCAT-
* *
25320298 AA-TGCATATTCTCGACAACTCGTGTGAGTAGCATCGTTAGGGGATAGTTTACAAATAGATATCG
128 AAGTGCATATTCTCGACAACTC-TGTGAGCAGCATCGTTAGGGGATAGTTTACAAACAGATATCG
25320362 TAC
192 TAC
* * * * *
25320365 CGATGGCTGGGGTACAGCCTATGTTGCGAGTCCTCGACAGCTCATGTGAGTAGC
1 CGATGGCTGAGGTACCGCATATGTTGTGAGTCCTCGACAGCTCTTGTGAGTAGC
25320419 TTTGGATGCT
Statistics
Matches: 213, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
193 7 0.03
194 118 0.55
195 87 0.41
196 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (194 bp):
CGATGGCTGAGGTACCGCATATGTTGTGAGTCCTCGACAGCTCTTGTGAGTAGCATCATGAATCG
AGAAAATGAGAAATGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATGCATAAG
TGCATATTCTCGACAACTCTGTGAGCAGCATCGTTAGGGGATAGTTTACAAACAGATATCGTAC
Found at i:25321189 original size:21 final size:21
Alignment explanation
Indices: 25321139--25321190 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
25321129 AGAGTTTTTA
25321139 GTATCGGTAGAAGTATGACAT
1 GTATCGGTAGAAGTATGACAT
* * *
25321160 GTTTTGGTAGAAGTCAT-ACTT
1 GTATCGGTAGAAGT-ATGACAT
25321181 GTATCGGTAG
1 GTATCGGTAG
25321191 TATTATCTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAGTATGACAT
Found at i:25327332 original size:35 final size:31
Alignment explanation
Indices: 25327264--25327339 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 31
25327254 TCTGATTGAA
*
25327264 GATGACTCCTTCGATCCTTGCTTCCTTTGCT
1 GATGACTCCTTCGATCCTTGCCTCCTTTGCT
25327295 GATGACTCCTTCGATCCTTGGTTCACTCCTTTGCT
1 GATGACTCCTTCGATCCTT-G--C-CTCCTTTGCT
*
25327330 GATGGCTCCT
1 GATGACTCCT
25327340 CAAGGTGGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 19 0.49
32 1 0.03
34 1 0.03
35 18 0.46
ACGTcount: A:0.11, C:0.32, G:0.18, T:0.39
Consensus pattern (31 bp):
GATGACTCCTTCGATCCTTGCCTCCTTTGCT
Found at i:25329345 original size:31 final size:31
Alignment explanation
Indices: 25329309--25329369 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
25329299 TCACATTTTC
25329309 ATGTAATCATGCTCACATTCTCACATAACAA
1 ATGTAATCATGCTCACATTCTCACATAACAA
25329340 ATGTAATCATGCTCACATTCTCACATAACA
1 ATGTAATCATGCTCACATTCTCACATAACA
25329370 CATATTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.30
Consensus pattern (31 bp):
ATGTAATCATGCTCACATTCTCACATAACAA
Done.