Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 102 of 126
Found at i:30967068 original size:19 final size:19
Alignment explanation
Indices: 30967044--30967081 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30967034 AAATATTTAT
*
30967044 AATATTTATAATTATAATA
1 AATATTTATAATTAAAATA
*
30967063 AATATTTATTATTAAAATA
1 AATATTTATAATTAAAATA
30967082 TTAATATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATTTATAATTAAAATA
Found at i:30967147 original size:16 final size:16
Alignment explanation
Indices: 30967116--30967152 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
30967106 ATGTGAAGAA
30967116 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
30967132 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
30967148 TATTA
1 TATTA
30967153 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:30967212 original size:16 final size:16
Alignment explanation
Indices: 30967166--30967215 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
30967156 TAAAATTAAA
30967166 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
30967183 A-A--AATAATAAATT
1 ATATTAATAATTTATT
30967196 ATATTAATAATTTATT
1 ATATTAATAATTTATT
30967212 ATAT
1 ATAT
30967216 GACTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:30967293 original size:9 final size:9
Alignment explanation
Indices: 30967279--30967304 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30967269 ATTTTATATT
30967279 AATATTTTC
1 AATATTTTC
30967288 AATATTTTC
1 AATATTTTC
30967297 AATATTTT
1 AATATTTT
30967305 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTC
Found at i:30968902 original size:13 final size:13
Alignment explanation
Indices: 30968892--30968934 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
30968882 TTTCAAAAGT
30968892 ACTTTTTAAAATC
1 ACTTTTTAAAATC
30968905 ACTTTTCTAAAA-C
1 ACTTTT-TAAAATC
* *
30968918 AATTTTTAAAAAC
1 ACTTTTTAAAATC
30968931 ACTT
1 ACTT
30968935 CTCAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 16 0.62
14 5 0.19
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (13 bp):
ACTTTTTAAAATC
Found at i:30968910 original size:26 final size:25
Alignment explanation
Indices: 30968880--30968941 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
30968870 TTAAACCAAG
* * *
30968880 CTTTTCAAAAGTACTTTTTAAAATCA
1 CTTTTCAAAA-CAATTTTTAAAAACA
30968906 CTTTTCTAAAACAATTTTTAAAAACA
1 CTTTTC-AAAACAATTTTTAAAAACA
*
30968932 CTTCTCAAAA
1 CTTTTCAAAA
30968942 ATAATGCTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 4 0.13
26 23 0.74
27 4 0.13
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.39
Consensus pattern (25 bp):
CTTTTCAAAACAATTTTTAAAAACA
Found at i:30973313 original size:15 final size:15
Alignment explanation
Indices: 30973293--30973349 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
30973283 GTTTGATAAA
30973293 CTGAAAAATTAAGTT
1 CTGAAAAATTAAGTT
*
30973308 CTGAAAAAATAAGTGT
1 CTGAAAAATTAAGT-T
*
30973324 -TGAACAAA-TAAGTA
1 CTGAA-AAATTAAGTT
30973338 CTGAAAAATTAA
1 CTGAAAAATTAA
30973350 TTGTTGAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 3 0.08
15 29 0.81
16 4 0.11
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (15 bp):
CTGAAAAATTAAGTT
Found at i:30973336 original size:30 final size:30
Alignment explanation
Indices: 30973294--30973357 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
30973284 TTTGATAAAC
*
30973294 TGAAAAATTAAGTTCTGAAAAAATAAGTGT
1 TGAAAAATTAAGTACTGAAAAAATAAGTGT
* *
30973324 TGAACAAA-TAAGTACTGAAAAATTAATTGT
1 TGAA-AAATTAAGTACTGAAAAAATAAGTGT
30973354 TGAA
1 TGAA
30973358 TTTAAGTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.30
Consensus pattern (30 bp):
TGAAAAATTAAGTACTGAAAAAATAAGTGT
Found at i:30979159 original size:22 final size:23
Alignment explanation
Indices: 30979134--30979182 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
30979124 AAGTTATTAT
* *
30979134 AATAAATT-TAAAAATAAGGGAA
1 AATAAATTAAAAAAATAAGGAAA
*
30979156 AATACATTAAAAAAATAAGGAAA
1 AATAAATTAAAAAAATAAGGAAA
30979179 AATA
1 AATA
30979183 TTTAGTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.20
Consensus pattern (23 bp):
AATAAATTAAAAAAATAAGGAAA
Found at i:30988598 original size:26 final size:26
Alignment explanation
Indices: 30988569--30988802 Score: 190
Period size: 26 Copynumber: 9.0 Consensus size: 26
30988559 ATCGTAAACA
*
30988569 AATATATAGCAGGCCTT-GAGCCAGTG
1 AATATATAGCAGG-CTTCGAGCCGGTG
* *
30988595 AATATATAGCAAGCCTT-GAGTCGGTG
1 AATATATAGC-AGGCTTCGAGCCGGTG
* * ** *
30988621 AATAAATAGCAAGCTTCGAGTTGGTA
1 AATATATAGCAGGCTTCGAGCCGGTG
* * *
30988647 AATAAATAGCAGTCTTCGACCCGGTG
1 AATATATAGCAGGCTTCGAGCCGGTG
* * *
30988673 AATA-ATTGACAGGATTCGAGCCGATG
1 AATATATAG-CAGGCTTCGAGCCGGTG
* *
30988699 AATATATAACAGGCCTT-GAGCTGGTG
1 AATATATAGCAGG-CTTCGAGCCGGTG
* *
30988725 AATA-ATTAACAGGCTTCGAGCTGGTG
1 AATATA-TAGCAGGCTTCGAGCCGGTG
*
30988751 AATAAATAGCAGGCTTCGAGCCGGTG
1 AATATATAGCAGGCTTCGAGCCGGTG
* * *
30988777 ATTATACAGCAGGCTTCGTGCCGGTG
1 AATATATAGCAGGCTTCGAGCCGGTG
30988803 TATGGTTGAC
Statistics
Matches: 170, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
25 11 0.06
26 152 0.89
27 7 0.04
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (26 bp):
AATATATAGCAGGCTTCGAGCCGGTG
Found at i:30993564 original size:29 final size:29
Alignment explanation
Indices: 30993523--30993624 Score: 73
Period size: 30 Copynumber: 3.4 Consensus size: 29
30993513 TTGAATCACT
* *
30993523 CAATTATGAATTTTTTTAAATTGATCATC
1 CAATTACGGATTTTTTTAAATTGATCATC
* ** *
30993552 CAATTACGGATTTGTTTCATTTTTAGTC-TC
1 CAATTACGGATTT-TTTTAAATTGA-TCATC
* * *
30993582 TTAACTA-TGATTTTTTTTAAATTGATCATC
1 -CAATTACGGA-TTTTTTTAAATTGATCATC
30993612 CAATTACGGATTT
1 CAATTACGGATTT
30993625 GTTTCATTTT
Statistics
Matches: 51, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
29 20 0.39
30 22 0.43
31 9 0.18
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (29 bp):
CAATTACGGATTTTTTTAAATTGATCATC
Found at i:30993600 original size:60 final size:60
Alignment explanation
Indices: 30993527--30993674 Score: 260
Period size: 60 Copynumber: 2.5 Consensus size: 60
30993517 ATCACTCAAT
* *
30993527 TATGAATTTTTTTAAATTGATCATCCAATTACGGATTTGTTTCATTTTTAGTCTCTTAAC
1 TATGATTTTTTTTAAATTGATCATCCAATTACGGATTTGTTTCATTTTTAGTCTCCTAAC
30993587 TATGATTTTTTTTAAATTGATCATCCAATTACGGATTTGTTTCATTTTTAGTCTCCTAAC
1 TATGATTTTTTTTAAATTGATCATCCAATTACGGATTTGTTTCATTTTTAGTCTCCTAAC
* *
30993647 TATGATTTTTTTTAAATTGCTCACCCAA
1 TATGATTTTTTTTAAATTGATCATCCAA
30993675 CTAATTAATA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 84 1.00
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.49
Consensus pattern (60 bp):
TATGATTTTTTTTAAATTGATCATCCAATTACGGATTTGTTTCATTTTTAGTCTCCTAAC
Found at i:30993908 original size:21 final size:21
Alignment explanation
Indices: 30993882--30993936 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
30993872 AGAAATATAT
*
30993882 AAAAATACATAAAT-AATTTCA
1 AAAAATATATAAATAAATTT-A
30993903 AAAAATATA-ATAATAAATTTA
1 AAAAATATATA-AATAAATTTA
30993924 AAAAATATATAAA
1 AAAAATATATAAA
30993937 CATAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.03
21 23 0.77
22 6 0.20
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATATATAAATAAATTTA
Found at i:30994050 original size:24 final size:24
Alignment explanation
Indices: 30994023--30994070 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
30994013 AATTTAAATT
30994023 TTATATTAATATTAAATAAAAAAA
1 TTATATTAATATTAAATAAAAAAA
* *
30994047 TTATATTAATATTATATAGAAAAA
1 TTATATTAATATTAAATAAAAAAA
30994071 CACCTCCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAAAAA
Found at i:31001559 original size:38 final size:38
Alignment explanation
Indices: 31001504--31001581 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
31001494 AATAAATCAA
* *
31001504 GTTATTCATTTATAATAAGTTTCCACAAATTTCGGTTT
1 GTTATTCATTTACAATAAATTTCCACAAATTTCGGTTT
*
31001542 GTTATTCATTTACAATAAATTTCCACAAGTTTCGGTTT
1 GTTATTCATTTACAATAAATTTCCACAAATTTCGGTTT
31001580 GT
1 GT
31001582 AAAAGGAGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (38 bp):
GTTATTCATTTACAATAAATTTCCACAAATTTCGGTTT
Found at i:31006457 original size:307 final size:307
Alignment explanation
Indices: 31005885--31006488 Score: 1050
Period size: 307 Copynumber: 2.0 Consensus size: 307
31005875 CTAGAAATGT
*
31005885 GTCTGTCTTGCAACACCTTGTTTGTTTGCTACGACAAGAAAAAAAACTTTGTAAGATAGTCCTCA
1 GTCTGTCTTGCAACACCTTGTTTGTTTGCTACGACAAGAAAAAAAACTTTGTAAGATAGTCCACA
31005950 AGACCCATTCCTTTCCCATCTTCAGGGTCTAATAGCTTGATTCCAGAATCAAAAGGTGCAGACTC
66 AGACCCATTCCTTTCCCATCTTCAGGGTCTAATAGCTTGATTCCAGAATCAAAAGGTGCAGACTC
* * *
31006015 AATGTTTATAAGTGCTAGAAATGCAAGCACATTTATATTAATCATGAGTGAGGTGGGTAGACCAC
131 AATGTTTATAAGTGCTAGAAATGAAAGCACATTTATACTAATCATGAGTGAGGTGGGTAGACAAC
* * *
31006080 TTGACATCACAAAACAACAAGCAGTTGCTGTGATGACTACTTTAGATTCTAGAAGTGCCTGCCTA
196 TTGACATCACAAAACAACAAGCAGTTGCTGTGATAACAACTTTAAATTCTAGAAGTGCCTGCCTA
31006145 ACATGGCCACCTTTGTTTGATCTTGCTAAACTTGGTATCATTCATGG
261 ACATGGCCACCTTTGTTTGATCTTGCTAAACTTGGTATCATTCATGG
* *
31006192 GTCTGTCTTGGAACACCTTGTTTTGTTTGCTAGGACAAG-AAAAAAACTTTGTAAGATAGTCCAC
1 GTCTGTCTTGCAACACCTTG-TTTGTTTGCTACGACAAGAAAAAAAACTTTGTAAGATAGTCCAC
* *
31006256 AAGACCCATTCCTTTCCCATCTTCAGGGTCTAGTAGCTTGATTCCAGAATCAAAAGGTGTAGACT
65 AAGACCCATTCCTTTCCCATCTTCAGGGTCTAATAGCTTGATTCCAGAATCAAAAGGTGCAGACT
*
31006321 CAATGTTTATAAGTGCTAGAAATGAAAGTACATTTATACTAATCATGAGTGAGGTGGGTAGACAA
130 CAATGTTTATAAGTGCTAGAAATGAAAGCACATTTATACTAATCATGAGTGAGGTGGGTAGACAA
*
31006386 CTTGACATCACAAAACAACAAGCAGTTGCTGTGATAACAACTTTAAAATTCTATAAGTGCCTGCC
195 CTTGACATCACAAAACAACAAGCAGTTGCTGTGATAACAACTTT-AAATTCTAGAAGTGCCTGCC
*
31006451 -AACATGGCCACCTTTGTTTGATCTTGCTAAATTTGGTA
259 TAACATGGCCACCTTTGTTTGATCTTGCTAAACTTGGTA
31006489 ATGGGTGTGG
Statistics
Matches: 281, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
307 246 0.88
308 35 0.12
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (307 bp):
GTCTGTCTTGCAACACCTTGTTTGTTTGCTACGACAAGAAAAAAAACTTTGTAAGATAGTCCACA
AGACCCATTCCTTTCCCATCTTCAGGGTCTAATAGCTTGATTCCAGAATCAAAAGGTGCAGACTC
AATGTTTATAAGTGCTAGAAATGAAAGCACATTTATACTAATCATGAGTGAGGTGGGTAGACAAC
TTGACATCACAAAACAACAAGCAGTTGCTGTGATAACAACTTTAAATTCTAGAAGTGCCTGCCTA
ACATGGCCACCTTTGTTTGATCTTGCTAAACTTGGTATCATTCATGG
Found at i:31009257 original size:18 final size:17
Alignment explanation
Indices: 31009234--31009287 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
31009224 AACGGGAAGA
31009234 AAGAAAATTAAAAGAGAG
1 AAGAAAA-TAAAAGAGAG
31009252 AAG-AAATAAATAGA-AG
1 AAGAAAATAAA-AGAGAG
31009268 AAGAAAAATAAAAGAGAG
1 AAG-AAAATAAAAGAGAG
31009286 AA
1 AA
31009288 AGGTGAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 9 0.28
17 9 0.28
18 14 0.44
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.09
Consensus pattern (17 bp):
AAGAAAATAAAAGAGAG
Found at i:31009282 original size:14 final size:15
Alignment explanation
Indices: 31009230--31009288 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
31009220 AACGAACGGG
* *
31009230 AAGAAAGAAAATTAA
1 AAGAGAGAAAAATAA
31009245 AAGAGAGAAGAAATAA
1 AAGAGAGAA-AAATAA
31009261 ATAGAAGAAGAAAAATAA
1 A-AG-AG-AGAAAAATAA
31009279 AAGAGAGAAA
1 AAGAGAGAAA
31009289 GGTGAAGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 13 0.34
16 8 0.21
17 4 0.11
18 9 0.24
19 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.08
Consensus pattern (15 bp):
AAGAGAGAAAAATAA
Found at i:31009521 original size:15 final size:16
Alignment explanation
Indices: 31009491--31009523 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
31009481 TTTTTCATAA
31009491 TTAAAAATTATATTAT
1 TTAAAAATTATATTAT
*
31009507 TTAAAAA-TATTTTAT
1 TTAAAAATTATATTAT
31009522 TT
1 TT
31009524 TTTCATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAAAATTATATTAT
Found at i:31010398 original size:13 final size:15
Alignment explanation
Indices: 31010378--31010418 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
31010368 TTCAAATTTC
31010378 TCTTTAATTCATAT-
1 TCTTTAATTCATATA
*
31010392 T-TTTAATTAATATA
1 TCTTTAATTCATATA
*
31010406 TCTTTTATTCATA
1 TCTTTAATTCATA
31010419 AAATCAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 11 0.50
14 2 0.09
15 9 0.41
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (15 bp):
TCTTTAATTCATATA
Found at i:31015291 original size:23 final size:23
Alignment explanation
Indices: 31015265--31015458 Score: 273
Period size: 23 Copynumber: 8.3 Consensus size: 23
31015255 ACACTAGCGC
31015265 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
31015288 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
31015311 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
31015334 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
31015359 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
31015382 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
31015405 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
31015428 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
31015451 GCTCTCTG
1 GCTCTCTG
31015459 TTGCCCAGCA
Statistics
Matches: 156, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
22 3 0.02
23 133 0.85
25 17 0.11
26 3 0.02
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:31015336 original size:46 final size:44
Alignment explanation
Indices: 31015265--31015485 Score: 255
Period size: 46 Copynumber: 4.7 Consensus size: 44
31015255 ACACTAGCGC
31015265 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACT-T-TGTGCTCTCTGTTTAGCACTGTGTGT
* *
31015311 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTGATTAGCAC-T-TTGTGCTCTCTG-T-TTAGCACTGTGTGT
* *
31015359 GCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCAC-TT-TGTGCTCTCTGTTTAGCACTGTGTGT
*
31015405 GCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTTTGTG--CTCTCTGTTTAGCACTGTGTGT
31015451 GCTCTCTG-TTGCCCAGCACTTATGTGCTCTCTGTT
1 GCTCTCTGATT----AGCACTT-TGTGCTCTCTGTT
31015486 AGTACTTTGG
Statistics
Matches: 152, Mismatches: 12, Indels: 20
0.83 0.07 0.11
Matches are distributed among these distances:
44 4 0.03
45 4 0.03
46 81 0.53
47 4 0.03
48 49 0.32
49 6 0.04
50 4 0.03
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.43
Consensus pattern (44 bp):
GCTCTCTGATTAGCACTTTGTGCTCTCTGTTTAGCACTGTGTGT
Found at i:31015381 original size:71 final size:69
Alignment explanation
Indices: 31015265--31015460 Score: 286
Period size: 71 Copynumber: 2.8 Consensus size: 69
31015255 ACACTAGCGC
31015265 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTTAGCAC-TC
31015330 T-CGT
65 TGCGT
* * *
31015334 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTTAGCACT
* *
31015399 TTGTGT
64 CTGCGT
* * *
31015405 GCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTT
31015461 GCCCAGCACT
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
69 50 0.44
70 2 0.02
71 61 0.54
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.43
Consensus pattern (69 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTTAGCACTCT
GCGT
Found at i:31015481 original size:71 final size:67
Alignment explanation
Indices: 31015265--31015504 Score: 277
Period size: 71 Copynumber: 3.5 Consensus size: 67
31015255 ACACTAGCGC
* * *
31015265 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC
1 GCTCTCTGATTAGCACTGTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTG-TTAGCACTTA
31015330 TCGT
65 T-GT
* * *
31015334 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACT
1 GCTCTCTG--ATTAGCACTGTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTG-TTAGCAC-
*
31015399 TTGTGT
62 TTATGT
* *
31015405 GCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTGCCCAGCAC
1 GCTCTCTGATTAGCACTGTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTT----AGCAC
31015470 TTATGT
62 TTATGT
* *
31015476 GCTCTCTG-TTAGTACTTTG-GTACTCTCTG
1 GCTCTCTGATTAGCACTGTGTGTACTCTCTG
31015505 CTTGTTCCGT
Statistics
Matches: 153, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
68 2 0.01
69 59 0.39
70 11 0.07
71 74 0.48
72 7 0.05
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (67 bp):
GCTCTCTGATTAGCACTGTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTAGCACTTAT
GT
Found at i:31022061 original size:32 final size:32
Alignment explanation
Indices: 31021990--31022061 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 32
31021980 ATTAATTAGG
* **
31021990 CCTCATTATATTTTTTAATTTTTTTAAAAATT
1 CCTCATTAAATTTTTTAAAATTTTTAAAAATT
* *
31022022 -TTAATTAAATTTTCTTAAAATTTTT-AAAATT
1 CCTCATTAAATTTT-TTAAAATTTTTAAAAATT
31022053 CCTCATTAA
1 CCTCATTAA
31022062 TTTCCAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (32 bp):
CCTCATTAAATTTTTTAAAATTTTTAAAAATT
Found at i:31027533 original size:57 final size:57
Alignment explanation
Indices: 31027440--31027555 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
31027430 TAAACTTTTA
*
31027440 TTTAAACTTTAACATGGGTTTGGATAGGTGGTCCGATGCGTTTAGTTTACGTTTTGT
1 TTTAAACTTTAACATGGGTTTGGATAGGTGGCCCGATGCGTTTAGTTTACGTTTTGT
31027497 TTTAAACTTTAACATGGGTTTGGATAGGTGGCCCGATGCGTTTAGTTTACGTTTTGT
1 TTTAAACTTTAACATGGGTTTGGATAGGTGGCCCGATGCGTTTAGTTTACGTTTTGT
31027554 TT
1 TT
31027556 AACACTATAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.44
Consensus pattern (57 bp):
TTTAAACTTTAACATGGGTTTGGATAGGTGGCCCGATGCGTTTAGTTTACGTTTTGT
Found at i:31033172 original size:22 final size:22
Alignment explanation
Indices: 31033147--31033204 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
31033137 AGTCGGAATT
31033147 AAATTATATTTTTTTATAGTAA
1 AAATTATATTTTTTTATAGTAA
* **
31033169 AAA-TATAATTTTATTATTTTAA
1 AAATTAT-ATTTTTTTATAGTAA
*
31033191 TAATCTATATTTTT
1 AAAT-TATATTTTT
31033205 ATAATTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.11
22 17 0.61
23 5 0.18
24 3 0.11
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
AAATTATATTTTTTTATAGTAA
Found at i:31034239 original size:30 final size:30
Alignment explanation
Indices: 31034151--31034368 Score: 230
Period size: 30 Copynumber: 7.3 Consensus size: 30
31034141 ATAAAAATGG
* * * *
31034151 TAATTTTTG-AAAGTTTCGAGGTCAAAGTA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * * *
31034180 TAA-TATGGGAAAGTTTTAGGGTC-AAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
31034208 TAATTTTGGAAAAGTTTTTGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
31034238 TAATTTTGGAAAACTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
31034268 TAATTTTGGAAAAGTTTTAGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * * *
31034298 TAATTTT-TAGAAAGTTTCGGGGTTAAAATG
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATA
31034328 TAATTTTAGG-AAAGTTTTGGGGTCAAAATA
1 TAATTTT-GGAAAAGTTTTGGGGTCAAAATA
31034358 TAATTTATGGA
1 TAATTT-TGGA
31034369 CAACTTAGGG
Statistics
Matches: 157, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
28 9 0.06
29 32 0.20
30 115 0.73
31 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:31036241 original size:6 final size:6
Alignment explanation
Indices: 31036230--31036296 Score: 77
Period size: 6 Copynumber: 11.7 Consensus size: 6
31036220 GAATTTATAA
* *
31036230 TAAATT TAAATT TAAA-T TAAATC CAAATT TAAA-T TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
31036276 TAAA-A TAAATT TAATTT TAAA
1 TAAATT TAAATT TAAATT TAAA
31036297 ACAAATTCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
5 14 0.28
6 36 0.72
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:31036249 original size:11 final size:11
Alignment explanation
Indices: 31036221--31036275 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
31036211 TTGGACTTTG
31036221 AATTTATAA-TA
1 AATTTA-AATTA
31036232 AATTTAAATTTA
1 AATTTAAA-TTA
*
31036244 AA-TTAAATCCA
1 AATTTAAAT-TA
31036255 AATTTAAATTA
1 AATTTAAATTA
31036266 AATTTAAATT
1 AATTTAAATT
31036276 TAAAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 3 0.08
11 25 0.66
12 10 0.26
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:31036297 original size:17 final size:17
Alignment explanation
Indices: 31036221--31036303 Score: 103
Period size: 17 Copynumber: 4.9 Consensus size: 17
31036211 TTGGACTTTG
*
31036221 AATTTATAATAAATTTA
1 AATTTAAAATAAATTTA
* **
31036238 AATTTAAATTAAATCCA
1 AATTTAAAATAAATTTA
*
31036255 AATTTAAATTAAATTTA
1 AATTTAAAATAAATTTA
31036272 AATTTAAAATAAATTTA
1 AATTTAAAATAAATTTA
* *
31036289 ATTTTAAAACAAATT
1 AATTTAAAATAAATT
31036304 CAAAATGGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:31036716 original size:39 final size:39
Alignment explanation
Indices: 31036666--31036868 Score: 151
Period size: 38 Copynumber: 5.3 Consensus size: 39
31036656 TTATCCAGCT
31036666 TTACTTCAATTTTAAGAGGATAGGAAAATGATCTTGCTC
1 TTACTTCAATTTTAAGAGGATAGGAAAATGATCTTGCTC
* * * *
31036705 TTACTTCAATTTT-AGA-GATA--AAGACTTGAT-ATCCAGTT
1 TTACTTCAATTTTAAGAGGATAGGAA-A-ATGATCTTGC--TC
*
31036743 TTACTTCAATTTCAAGAGGATAGG-AAATGATCTTGCTC
1 TTACTTCAATTTTAAGAGGATAGGAAAATGATCTTGCTC
* * **
31036781 TTACTTCAA-TTTCAGA-GAT--GAAGACTTGTTATCCAGCT-
1 TTACTTCAATTTTAAGAGGATAGGAA-A-ATG--ATCTTGCTC
* *
31036819 TTACTTCAATTTCAAGAGGATAGG-AAGTGATCTTGCTC
1 TTACTTCAATTTTAAGAGGATAGGAAAATGATCTTGCTC
31036857 TTACTTCAATTT
1 TTACTTCAATTT
31036869 CAGAGATAAA
Statistics
Matches: 126, Mismatches: 19, Indels: 39
0.68 0.10 0.21
Matches are distributed among these distances:
34 1 0.01
35 3 0.02
36 7 0.06
37 21 0.17
38 47 0.37
39 33 0.26
40 11 0.09
41 2 0.02
42 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (39 bp):
TTACTTCAATTTTAAGAGGATAGGAAAATGATCTTGCTC
Found at i:31036805 original size:76 final size:76
Alignment explanation
Indices: 31036617--31037568 Score: 864
Period size: 76 Copynumber: 12.1 Consensus size: 76
31036607 TTGGTGCTTT
** * * *
31036617 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTTAAG
1 ATCTTACTCTTACTTCAATTTCAGA--GATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
31036682 AGGATAGGAAAATG
64 AGGATAGG-AAATG
* * *
31036696 ATCTTGCTCTTACTTCAATTTTAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
31036761 GATAGGAAATG
66 GATAGGAAATG
* * *
31036772 ATCTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
*
31036837 GATAGGAAGTG
66 GATAGGAAATG
* * * * *
31036848 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTCTCCAACTCTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
31036913 GATAGGAAATG
66 GATAGGAAATG
* * * ** ** * * * *
31036924 ATCTTAGTGCTTCATCTTACTCTTACTTCA-ATTTCAGATAGACAAAGGCT-T-GATGATATCCA
1 ATCTTACT-CTT-A-C-T--TC-AATTTCAGAGAT-A-A-AGAC--TTGATATCCA-GCT-T-TA
** * *
31036986 GCTCTACTTCAATTTCAAGAGGATAGGAAATG
51 CTTCAATTTCAA------GAGGATAGGAAATG
*
31037018 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTCGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
31037083 GATAGGAAATG
66 GATAGGAAATG
*
31037094 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
31037159 GATAGGAAATG
66 GATAGGAAATG
* *
31037170 ATCTTACTCTTACTTCAATTTTAGAGATAAAGACTCGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
31037235 GATAGGAAATG
66 GATAGGAAATG
*
31037246 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAAC-TTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
31037310 GATAGGAAATG
66 GATAGGAAATG
* * * * ** * * *
31037321 ATCTTAGTGCTTCATCTTACTCTTACTTCA-A-TTTCAGA-TAGACA--AAGGCTTGATATCCAG
1 ATCTTACT-CTT-A-C-T--TC-AATTTCAGAGATAAAGACTTGATATCCA-GCTT--TA--C--
* * * **** * * *
31037381 CTCTACTTCAATTTCAAGAGGATAGG
52 TTCAATTTCAA-GAGGATAGGAAATG
** * * *
31037407 AAATGATCTTACTCTTACTTCAATTTCCGAGATAAAGACTTGATATCTAGCTTTACTTCAATTTC
1 ATCTTA-C-T---CTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTC
31037472 AAGAGGATAGGAAATG
61 AAGAGGATAGGAAATG
31037488 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCTA-C-TTACTTCAATTTCAAGA
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCC-AGCTTTACTTCAATTTCAAGA
31037551 GGATAGGAAAATG
65 GGATAGG-AAATG
31037564 ATCTT
1 ATCTT
31037569 GTTTGGTCTG
Statistics
Matches: 714, Mismatches: 108, Indels: 105
0.77 0.12 0.11
Matches are distributed among these distances:
75 60 0.08
76 404 0.57
77 46 0.06
78 3 0.00
79 31 0.04
80 6 0.01
81 15 0.02
82 26 0.04
83 10 0.01
84 9 0.01
85 21 0.03
86 19 0.03
87 13 0.02
88 19 0.03
89 2 0.00
90 4 0.01
91 1 0.00
92 1 0.00
93 3 0.00
94 21 0.03
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (76 bp):
ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:31036900 original size:152 final size:152
Alignment explanation
Indices: 31036617--31037568 Score: 1280
Period size: 152 Copynumber: 6.0 Consensus size: 152
31036607 TTGGTGCTTT
** * *
31036617 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTTAAG
1 ATCTTACTCTTACTTCAATTTCAGA--GATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAG
* * *
31036682 AGGATAGGAAAATGATCTTGCTCTTACTTCAATTTTAGAGATAAAGACTTGATATCCAGTTTTAC
64 AGGATAGG-AAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTAC
31036747 TTCAATTTCAAGAGGATAGGAAATG
128 TTCAATTTCAAGAGGATAGGAAATG
* *
31036772 ATCTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
* * * * * *
31036837 GATAGGAAGTGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTCTCCAACTCTACTTC
66 GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTC
31036902 AATTTCAAGAGGATAGGAAATGATCTTAGTG
131 AATTTCAAGAGGATAGG--A--A----A-TG
* * *
31036933 CTTCATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATGATATCCAGCTCTACTTCAA
1 ----ATCTTACTCTTACTTCAATTTCAG--AGATAAAGACTTG-T--TATCCAGCTTTACTTCAA
*
31036998 TTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTCGATATCCAG
57 TTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAG
31037063 CTTTACTTCAATTTCAAGAGGATAGGAAATG
122 CTTTACTTCAATTTCAAGAGGATAGGAAATG
31037094 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
* *
31037159 GATAGGAAATGATCTTACTCTTACTTCAATTTTAGAGATAAAGACTCGATATCCAGCTTTACTTC
66 GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTC
31037224 AATTTCAAGAGGATAGGAAATG
131 AATTTCAAGAGGATAGGAAATG
* *
31037246 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAAC-TTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
* *
31037310 GATAGGAAATGATCTTAGTGCTTCATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGAT
66 GATAGG--A--A----A-TG----ATCTTACTCTTACTTCAATTTCAG--AGATAAAGACTTGAT
*
31037375 ATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAATG
116 ATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATG
* * *
31037412 ATCTTACTCTTACTTCAATTTCCGAGATAAAGACTTGATATCTAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
31037477 GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCTA-C-TTACTT
66 GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCC-AGCTTTACTT
31037540 CAATTTCAAGAGGATAGGAAAATG
130 CAATTTCAAGAGGATAGG-AAATG
31037564 ATCTT
1 ATCTT
31037569 GTTTGGTCTG
Statistics
Matches: 721, Mismatches: 40, Indels: 75
0.86 0.05 0.09
Matches are distributed among these distances:
151 47 0.07
152 253 0.35
153 45 0.06
154 26 0.04
155 36 0.05
156 1 0.00
157 24 0.03
158 2 0.00
159 2 0.00
160 3 0.00
161 4 0.01
162 1 0.00
163 1 0.00
164 23 0.03
165 24 0.03
166 92 0.13
167 34 0.05
168 2 0.00
170 101 0.14
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (152 bp):
ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTC
AATTTCAAGAGGATAGGAAATG
Found at i:31037010 original size:94 final size:89
Alignment explanation
Indices: 31036848--31037023 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 89
31036838 ATAGGAAGTG
* * *
31036848 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTCTCCAACTCTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
31036913 GATAGGAAATGATCTTAGTGCTTC
66 GATAGGAAATGATCTTAGTGCTTC
* *
31036937 ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATGATATCCAGCTCTACTTCAATTTC
1 ATCTTACTCTTACTTCAATTTCAG--AGACAAAGACTTG-T--TATCCAACTCTACTTCAATTTC
31037002 AAGAGGATAGGAAATGATCTTA
61 AAGAGGATAGGAAATGATCTTA
31037024 CTCTTACTTC
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
89 23 0.30
91 11 0.14
92 1 0.01
94 42 0.55
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (89 bp):
ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATGATCTTAGTGCTTC
Found at i:31037182 original size:322 final size:318
Alignment explanation
Indices: 31036575--31037568 Score: 1353
Period size: 322 Copynumber: 3.1 Consensus size: 318
31036565 TCGTCTTGCT
* * * *
31036575 CTTACTTCAATTTC-AGAAGGA-CGAAAATGATGTTGGTGCTTTATCTTACTCTTACTTCAATTT
1 CTTACTTCAATTTCAAG-AGGATAGGAAATGATCTTAGTGC-TTATCTTACTCTTACTTCAATTT
* * *
31036638 CAGAGGGACGAAGGCTTGT--TATCCAGCTTTACTTCAATTTTAAGAGGATAGGAAAATGATCTT
64 CAGA-AGACAAAGGCTTGTGATATCCAGC-TTACTTCAATTTCAAGAGGATAGGAAAATGATCTT
* * *
31036701 GCTCTTACTTCAATTTTAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAG
127 ACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
* *
31036766 GAAATGATCTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAGCTTTACTTCAATTT
192 GAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTT
* * * *
31036831 CAAGAGGATAGGAAGTGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTCTCCAA
257 CAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAA
31036893 CTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTAGTGCTTCATCTTACTCTTACTTCAATTT
1 CT-TACTTCAATTTCAAGAGGATAGGAAATGATCTTAGTGCTT-ATCTTACTCTTACTTCAATTT
31036958 CAGATAGACAAAGGCTTGATGATATCCAGCTCTACTTCAATTTCAAGAGGATAGG-AAATGATCT
64 CAGA-AGACAAAGGCTTG-TGATATCCAGCT-TACTTCAATTTCAAGAGGATAGGAAAATGATCT
*
31037022 TACTCTTACTTCAATTTCAGAGATAAAGACTCGATATCCAGCTTTACTTCAATTTCAAGAGGATA
126 TACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATA
31037087 GGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATT
191 GGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATT
* * *
31037152 TCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTTAGAGATAAAGACTCGATATCCAG
256 TCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAA
31037215 CTTTACTTCAATTTCAAGAGGATAGG--A--A----A-TG---ATCTTACTCTTACTTCAATTTC
1 C-TTACTTCAATTTCAAGAGGATAGGAAATGATCTTAGTGCTTATCTTACTCTTACTTCAATTTC
* * *
31037268 AG-AGATAAAGAC-T-TGATATCCAACTTACTTCAATTTCAAGAGGATAGGAAATGATCTTAGTG
65 AGAAGACAAAGGCTTGTGATATCCAGCTTACTTCAATTTCAAGAGGATAGG-AA--A----A-TG
* * *
31037330 CTTCATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTT
122 ----ATCTTACTCTTACTTCAATTTCAG--AGATAAAGACTTGATATCCAGCTTTACTTCAATTT
* * *
31037395 CAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCCGAGATAAAGACTTGATATCTAGCTT
181 CAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTT
31037460 TACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
246 TACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
*
31037525 ATATCCTA
311 ATATCCAA
31037533 CTTACTTCAATTTCAAGAGGATAGGAAAATGATCTT
1 CTTACTTCAATTTCAAGAGGATAGG-AAATGATCTT
31037569 GTTTGGTCTG
Statistics
Matches: 608, Mismatches: 35, Indels: 58
0.87 0.05 0.08
Matches are distributed among these distances:
303 23 0.04
304 11 0.02
305 1 0.00
306 1 0.00
307 9 0.01
309 24 0.04
311 1 0.00
312 2 0.00
313 2 0.00
314 1 0.00
316 24 0.04
317 24 0.04
318 166 0.27
319 18 0.03
320 54 0.09
321 1 0.00
322 215 0.35
323 31 0.05
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (318 bp):
CTTACTTCAATTTCAAGAGGATAGGAAATGATCTTAGTGCTTATCTTACTCTTACTTCAATTTCA
GAAGACAAAGGCTTGTGATATCCAGCTTACTTCAATTTCAAGAGGATAGGAAAATGATCTTACTC
TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
TGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAG
AGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAA
Found at i:31037393 original size:166 final size:165
Alignment explanation
Indices: 31037170--31037568 Score: 560
Period size: 166 Copynumber: 2.5 Consensus size: 165
31037160 ATAGGAAATG
* * *
31037170 ATCTTACTCTTACTTCAATTTTAGAGATAAAGACTCGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTCGATATCCAGCTCTACTTCAATTTCAAGAG
31037235 GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAAC-TTACTTC
66 GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTC
31037299 AATTTCAAGAGGATAGGAAATGATCTTAGTGCTTC
131 AATTTCAAGAGGATAGGAAATGATCTTAGTGCTTC
* *
31037334 ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAG--AGACAAAGACTCGATATCCAGCTCTACTTCAATTTCAAG
* * *
31037399 AGGATAGGAAATGATCTTACTCTTACTTCAATTTCCGAGATAAAGACTTGATATCTAGCTTTACT
64 AGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACT
31037464 TCAATTTCAAGAGGATAGG--A--A----A-TG----
129 TCAATTTCAAGAGGATAGGAAATGATCTTAGTGCTTC
* *
31037488 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCTA-CT-TACTTCAATTTCAAGA
1 ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTCGATATCC-AGCTCTACTTCAATTTCAAGA
31037551 GGATAGGAAAATGATCTT
65 GGATAGG-AAATGATCTT
31037569 GTTTGGTCTG
Statistics
Matches: 220, Mismatches: 10, Indels: 22
0.87 0.04 0.09
Matches are distributed among these distances:
151 23 0.10
152 29 0.13
153 1 0.00
154 24 0.11
158 2 0.01
159 1 0.00
163 1 0.00
164 23 0.10
165 1 0.00
166 91 0.41
167 24 0.11
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (165 bp):
ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTCGATATCCAGCTCTACTTCAATTTCAAGAG
GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTC
AATTTCAAGAGGATAGGAAATGATCTTAGTGCTTC
Found at i:31037408 original size:91 final size:88
Alignment explanation
Indices: 31037246--31037417 Score: 290
Period size: 91 Copynumber: 1.9 Consensus size: 88
31037236 ATAGGAAATG
*
31037246 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTACTTCAATTTCAAGAGG
1 ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAACTTACTTCAATTTCAAGAGG
31037311 ATAGGAAATGATCTTAGTGCTTC
66 ATAGGAAATGATCTTAGTGCTTC
* *
31037334 ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAG--AGACAAAGACTTGATATCCAACT-TACTTCAATTTCAAG
31037399 AGGATAGGAAATGATCTTA
63 AGGATAGGAAATGATCTTA
31037418 CTCTTACTTC
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
88 24 0.31
90 20 0.26
91 34 0.44
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (88 bp):
ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAACTTACTTCAATTTCAAGAGG
ATAGGAAATGATCTTAGTGCTTC
Found at i:31037415 original size:242 final size:241
Alignment explanation
Indices: 31037094--31037568 Score: 844
Period size: 242 Copynumber: 2.0 Consensus size: 241
31037084 ATAGGAAATG
* * *
31037094 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
*
31037159 GATAGGAAATGATCTTACTCTTACTTCAATTTTAGAGATAAAGACTCGATATCCAGCTTTACTTC
66 GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTCGATATCCAGCTTTACTTC
31037224 AATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCC
131 AATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCC
31037289 AACTTACTTCAATTTCAAGAGGATAGG-AAATGATCTTAGTGCTTC
196 AACTTACTTCAATTTCAAGAGGATAGGAAAATGATCTTAGTGCTTC
*
31037334 ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAG--AGACAAAGACTTGATATCCAGCTCTACTTCAATTTCAAG
* * *
31037399 AGGATAGGAAATGATCTTACTCTTACTTCAATTTCCGAGATAAAGACTTGATATCTAGCTTTACT
64 AGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTCGATATCCAGCTTTACT
31037464 TCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATAT
129 TCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATAT
*
31037529 CCTACTTACTTCAATTTCAAGAGGATAGGAAAATGATCTT
194 CCAACTTACTTCAATTTCAAGAGGATAGGAAAATGATCTT
31037569 GTTTGGTCTG
Statistics
Matches: 223, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
240 24 0.11
242 189 0.85
243 10 0.04
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (241 bp):
ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTCGATATCCAGCTTTACTTC
AATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCC
AACTTACTTCAATTTCAAGAGGATAGGAAAATGATCTTAGTGCTTC
Found at i:31049339 original size:29 final size:32
Alignment explanation
Indices: 31049307--31049365 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
31049297 GAAATCGGGG
31049307 TAAAAATGG-AA-TTTGGAAAGTTT-GAGGAA
1 TAAAAATGGTAATTTTGGAAAGTTTCGAGGAA
*
31049336 TAAAAATGGTAATTTTTGAAAGTTTCGAGG
1 TAAAAATGGTAATTTTGGAAAGTTTCGAGG
31049366 TCAAAGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 2 0.08
31 11 0.42
32 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (32 bp):
TAAAAATGGTAATTTTGGAAAGTTTCGAGGAA
Found at i:31049423 original size:30 final size:30
Alignment explanation
Indices: 31049338--31049678 Score: 327
Period size: 30 Copynumber: 11.4 Consensus size: 30
31049328 TTGAGGAATA
* * *
31049338 AAAATGGTAATTTTTG-AAAGTTTCGAGGTC
1 AAAAT-GTAATTTTGGAAAAGTTTTGGGGTC
* * *
31049368 AAAGTATAATTTAGG-AAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
31049397 -AAATGTAATTTTGGAAAAGTTTTTGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* * *
31049426 AAAATGTAGTTTTAGAAAACTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
31049456 AAAATATAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* * *
31049486 AAAATGTAATTTT-CAGAAAGTTTAGAGGTC
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
* * *
31049516 AAAATATAATTTTAGAAAAAGTTTTAGGGTC
1 AAAATGTAATTTT-GGAAAAGTTTTGGGGTC
* * *
31049547 AAAATGTAATTTT-TAGAAAGTTTCGAGGTC
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
* *
31049577 AAAATATAATTTTGGGAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* ** *
31049607 AAAATGTAATTTT-TAGAAAGTTTCAGGGTT
1 AAAATGTAATTTTGGA-AAAGTTTTGGGGTC
*
31049637 AAAATGTAATTTTAGGAAAA-TTTTGAGGTC
1 AAAATGTAATTTT-GGAAAAGTTTTGGGGTC
31049667 AAAATGTAATTT
1 AAAATGTAATTT
31049679 ATAGACAACT
Statistics
Matches: 251, Mismatches: 50, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
28 11 0.04
29 33 0.13
30 179 0.71
31 26 0.10
32 2 0.01
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:31049479 original size:60 final size:59
Alignment explanation
Indices: 31049345--31049683 Score: 380
Period size: 60 Copynumber: 5.7 Consensus size: 59
31049335 ATAAAAATGG
* * * * * * *
31049345 TAATTTTTG-AAAGTTTCGAGGTCAAAGTATAA-TTTAGGAAAGTTTTGGGGTC-AAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTA-GAAAGTTTCGGGGTCAAAATA
* * * * *
31049402 TAATTTTGGAAAAGTTTTTGGGTTAAAATGTAGTTTTAGAAAACTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAG-AAAGTTTCGGGGTCAAAATA
* *
31049462 TAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTCAGAAAGTTTAGAGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTT-AGAAAGTTTCGGGGTCAAAATA
* * *
31049522 TAATTTTAGAAAAAGTTTTAGGGTCAAAATGTAATTTTTAGAAAGTTTCGAGGTCAAAATA
1 TAATTTT-GGAAAAGTTTTGGGGTCAAAATGTAA-TTTTAGAAAGTTTCGGGGTCAAAATA
* * * *
31049583 TAATTTTGGGAAAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTCAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATGTAA-TTTTAGAAAGTTTCGGGGTCAAAATA
*
31049643 TAATTTTAGGAAAA-TTTTGAGGTCAAAATGTAATTTATAGA
1 TAATTTT-GGAAAAGTTTTGGGGTCAAAATGTAATTT-TAGA
31049684 CAACTTAGGG
Statistics
Matches: 245, Mismatches: 28, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
57 8 0.03
58 17 0.07
59 20 0.08
60 137 0.56
61 59 0.24
62 4 0.02
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (59 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAGTTTCGGGGTCAAAATA
Found at i:31049578 original size:121 final size:119
Alignment explanation
Indices: 31049382--31049689 Score: 408
Period size: 121 Copynumber: 2.6 Consensus size: 119
31049372 TATAATTTAG
* * *
31049382 GAAAGTTTTGGGGTC-AAATGTAATTTT-GGAAAAGTTTTTGGGTTAAAATGT-AGTTTTAGAAA
1 GAAAG-TTTAGGGTCAAAATGTAATTTTAGGAAAAG-TTTTGGGTCAAAATGTAATTTTTAG-AA
* *
31049444 ACTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTCA
63 ACTTTCGAGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTCA
* *
31049501 GAAAGTTTAGAGGTCAAAATATAATTTTAGAAAAAGTTTTAGGGTCAAAATGTAATTTTTAGAAA
1 GAAAGTTTAG-GGTCAAAATGTAATTTTAGGAAAAGTTTT-GGGTCAAAATGTAATTTTTAGAAA
* * *
31049566 GTTTCGAGGTCAAAATATAATTTTGGGAAAGTTTTGGGGTCAAAATGTAATTTTTA
64 CTTTCGAGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTCA
* *
31049622 GAAAGTTTCAGGGTTAAAATGTAATTTTAGGAAAA-TTTTGAGGTCAAAATGTAATTTATAGACA
1 GAAAGTTT-AGGGTCAAAATGTAATTTTAGGAAAAGTTTTG-GGTCAAAATGTAATTTTTAGA-A
31049686 ACTT
63 ACTT
31049690 AGGGACTTAC
Statistics
Matches: 166, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.02
119 10 0.06
120 39 0.23
121 104 0.63
122 9 0.05
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (119 bp):
GAAAGTTTAGGGTCAAAATGTAATTTTAGGAAAAGTTTTGGGTCAAAATGTAATTTTTAGAAACT
TTCGAGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTCA
Found at i:31050804 original size:25 final size:24
Alignment explanation
Indices: 31050765--31050813 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
31050755 CCCTTTTTTG
*
31050765 TTATTTTATTATCAT-TATTATTAT
1 TTATTTTAATATCATAT-TTATTAT
31050789 TTATTATTAATATCATATTTATTAT
1 TTATT-TTAATATCATATTTATTAT
31050814 AAAACCTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 16 0.73
26 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATTTTAATATCATATTTATTAT
Found at i:31051530 original size:6 final size:6
Alignment explanation
Indices: 31051519--31051585 Score: 77
Period size: 6 Copynumber: 11.7 Consensus size: 6
31051509 GAATTTATAA
* *
31051519 TAAATT TAAATT TAAA-T TAAATC CAAATT TAAA-T TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
31051565 TAAA-A TAAATT TAATTT TAAA
1 TAAATT TAAATT TAAATT TAAA
31051586 ACAAATTCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
5 14 0.28
6 36 0.72
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:31051538 original size:11 final size:11
Alignment explanation
Indices: 31051510--31051564 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
31051500 TTGGACTTTG
31051510 AATTTATAA-TA
1 AATTTA-AATTA
31051521 AATTTAAATTTA
1 AATTTAAA-TTA
*
31051533 AA-TTAAATCCA
1 AATTTAAAT-TA
31051544 AATTTAAATTA
1 AATTTAAATTA
31051555 AATTTAAATT
1 AATTTAAATT
31051565 TAAAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 3 0.08
11 25 0.66
12 10 0.26
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:31051586 original size:17 final size:17
Alignment explanation
Indices: 31051510--31051592 Score: 103
Period size: 17 Copynumber: 4.9 Consensus size: 17
31051500 TTGGACTTTG
*
31051510 AATTTATAATAAATTTA
1 AATTTAAAATAAATTTA
* **
31051527 AATTTAAATTAAATCCA
1 AATTTAAAATAAATTTA
*
31051544 AATTTAAATTAAATTTA
1 AATTTAAAATAAATTTA
31051561 AATTTAAAATAAATTTA
1 AATTTAAAATAAATTTA
* *
31051578 ATTTTAAAACAAATT
1 AATTTAAAATAAATT
31051593 CAAAATGGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:31053434 original size:72 final size:72
Alignment explanation
Indices: 31053353--31053496 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
31053343 TATAATAACA
31053353 CATGAAATATGTATGATATTAAAATAAAAAATAGATTAAATTGTGATTAAAACGAAATTTAAACA
1 CATGAAATATGTATGATATTAAAATAAAAAATAGATTAAATTGTGATTAAAACGAAATTTAAACA
31053418 CATAAAC
66 CATAAAC
31053425 CATGAAATATGTATGATATTAAAATAAAAAATAGATTAAATTGTGATTAAAACGAAATTTAAACA
1 CATGAAATATGTATGATATTAAAATAAAAAATAGATTAAATTGTGATTAAAACGAAATTTAAACA
31053490 CATAAAC
66 CATAAAC
31053497 ACATTGCATT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (72 bp):
CATGAAATATGTATGATATTAAAATAAAAAATAGATTAAATTGTGATTAAAACGAAATTTAAACA
CATAAAC
Found at i:31056117 original size:79 final size:79
Alignment explanation
Indices: 31055978--31056134 Score: 206
Period size: 79 Copynumber: 2.0 Consensus size: 79
31055968 ATATAATACC
* * * * * * *
31055978 CTTTGTCAGCCAAATACGTCTAAAGAATTACAGTTTTTTGTAATTACAAGAGAACATAATTATTT
1 CTTTATCAGCCAAATACGTCTAAAGAATTACAATTCTTTATAATTACAAAAGAACATAATTACTA
*
31056043 CCCTAGTAATTATA
66 CCCTAATAATTATA
* * **
31056057 CTTTATCAGCCAAATACGTCTAAAGATTTACAATTCTTTATAATTACAAAATAATGTAATTACTA
1 CTTTATCAGCCAAATACGTCTAAAGAATTACAATTCTTTATAATTACAAAAGAACATAATTACTA
31056122 CCCTAATAATTAT
66 CCCTAATAATTAT
31056135 TATTTTATTC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (79 bp):
CTTTATCAGCCAAATACGTCTAAAGAATTACAATTCTTTATAATTACAAAAGAACATAATTACTA
CCCTAATAATTATA
Found at i:31057870 original size:59 final size:57
Alignment explanation
Indices: 31057806--31058059 Score: 205
Period size: 58 Copynumber: 4.4 Consensus size: 57
31057796 TTTTTGACTC
* * *
31057806 TCGAGGGAAAAAAT-GTAATTTTGGGAAAATTTGGGGTTAAAAATGGGATTTTAG-AAGAT
1 TCGAGGG-TAAAATGGTAATTTTGGGAAAA-TCGGAGTT-AAAATGGGATTTTAGAAAG-T
* * *
31057865 TCGAGGGTAAAGTGGTAATTTTTGGTAAAATCGGAGTTAAAATGGGATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAA-TTTTGGGAAAATCGGAGTTAAAATGGGATTTTAGAAAGT
** *
31057923 TCGAGGGTAAAATGGTAATTTTTGGTG-AAATCGG-GATTAAAAATGAAATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAA-TTTTGG-GAAAATCGGAG-TT-AAAATGGGATTTTAGAAAGT
* * * * * * *
31057982 TTGGGGGTAAAATGGTAATTTT-AGATGAAATCGGGGTTAAAATGGAATTTTGGAAAATT
1 TCGAGGGTAAAATGGTAATTTTGGGA--AAATCGGAGTTAAAATGGGATTTTAG-AAAGT
*
31058041 TTG-GGGTAAAATGGTAATT
1 TCGAGGGTAAAATGGTAATT
31058060 GTTTGTGAAA
Statistics
Matches: 169, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
56 1 0.01
57 1 0.01
58 86 0.51
59 70 0.41
60 11 0.07
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (57 bp):
TCGAGGGTAAAATGGTAATTTTGGGAAAATCGGAGTTAAAATGGGATTTTAGAAAGT
Found at i:31057933 original size:28 final size:28
Alignment explanation
Indices: 31057845--31057937 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 28
31057835 TTTGGGGTTA
*
31057845 AAAATGGGATTTTAG-AAGATTCGAGGGT
1 AAAATGGGATTTTGGAAAG-TTCGAGGGT
* * * *
31057873 AAAGTGGTAATTTTTGGTAAA-ATCG-GAGTT
1 AAAATGG-GA-TTTTGG-AAAGTTCGAG-GGT
31057903 AAAATGGGATTTTGGAAAGTTCGAGGGT
1 AAAATGGGATTTTGGAAAGTTCGAGGGT
31057931 AAAATGG
1 AAAATGG
31057938 TAATTTTTGG
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
27 3 0.06
28 24 0.49
29 4 0.08
30 16 0.33
32 2 0.04
ACGTcount: A:0.35, C:0.03, G:0.31, T:0.30
Consensus pattern (28 bp):
AAAATGGGATTTTGGAAAGTTCGAGGGT
Found at i:31057974 original size:117 final size:117
Alignment explanation
Indices: 31057842--31058092 Score: 319
Period size: 117 Copynumber: 2.1 Consensus size: 117
31057832 AAATTTGGGG
** * * *
31057842 TTAAAAATGGGATTTTAG-AAGATTCGAGGGTAAAGTGGTAATTTTTGGTAAAATCGGAGTTAAA
1 TTAAAAATGAAATTTTAGAAAG-TTCGAGGGTAAAATGGTAATTTTAGATAAAATCGGAGTTAAA
*
31057906 ATGGGATTTTGG-AAAGTTCGAGGGTAAAATGGTAATT-TTTGGTGAAATCGGGA
65 ATGGAATTTTGGAAAAGTTCG-GGGTAAAATGGTAATTGTTT-GTGAAATCGGGA
* * * * *
31057959 TTAAAAATGAAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTAGATGAAATCGGGGTTAAAA
1 TTAAAAATGAAATTTTAGAAAGTTCGAGGGTAAAATGGTAATTTTAGATAAAATCGGAGTTAAAA
* * *
31058024 TGGAATTTTGGAAAATTTTGGGGTAAAATGGTAATTGTTTGTGAAATCGGGG
66 TGGAATTTTGGAAAAGTTCGGGGTAAAATGGTAATTGTTTGTGAAATCGGGA
*
31058076 TCAAAAATGAAATTTTA
1 TTAAAAATGAAATTTTA
31058093 AAGGTTTAGG
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
117 103 0.90
118 12 0.10
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (117 bp):
TTAAAAATGAAATTTTAGAAAGTTCGAGGGTAAAATGGTAATTTTAGATAAAATCGGAGTTAAAA
TGGAATTTTGGAAAAGTTCGGGGTAAAATGGTAATTGTTTGTGAAATCGGGA
Found at i:31058075 original size:58 final size:59
Alignment explanation
Indices: 31057838--31058091 Score: 284
Period size: 58 Copynumber: 4.3 Consensus size: 59
31057828 GGGAAAATTT
* * * * *
31057838 GGGGTTAAAAATGGGATTTTAGAAGA-TTCGAGGGTAAAGTGGTAATTTTTGGTAAAATC
1 GGGGTT-AAAATGGAATTTTGGAAAATTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
* * *
31057897 GGAGTTAAAATGGGATTTTGG-AAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
1 GGGGTTAAAATGGAATTTTGGAAAATTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
* * * * * *
31057955 GGGATTAAAAATGAAATTTTGGAAAGTTT-GGGGGTAAAATGGTAATTTTAGATGAAATC
1 GGGGTT-AAAATGGAATTTTGGAAAATTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
*
31058014 GGGGTTAAAATGGAATTTTGGAAAATTTTG-GGGTAAAATGGTAATTGTTT-GTGAAATC
1 GGGGTTAAAATGGAATTTTGGAAAATTTCGAGGGTAAAATGGTAATT-TTTGGTGAAATC
* *
31058072 GGGGTCAAAAATGAAATTTT
1 GGGGT-TAAAATGGAATTTT
31058092 AAAGGTTTAG
Statistics
Matches: 168, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
57 2 0.01
58 97 0.58
59 65 0.39
60 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (59 bp):
GGGGTTAAAATGGAATTTTGGAAAATTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
Found at i:31059980 original size:18 final size:18
Alignment explanation
Indices: 31059957--31059991 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
31059947 TGGGCCTATA
31059957 TTTTGTAATTGGACTTTC
1 TTTTGTAATTGGACTTTC
31059975 TTTTGTAATTGGACTTT
1 TTTTGTAATTGGACTTT
31059992 TTAATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (18 bp):
TTTTGTAATTGGACTTTC
Found at i:31072533 original size:22 final size:22
Alignment explanation
Indices: 31072483--31072534 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
31072473 GAAATTTAAA
*
31072483 ACAAAACATTATGAGGAGAGTT
1 ACAAAATATTATGAGGAGAGTT
31072505 ACAAAATATTATGAGGAGAGTT
1 ACAAAATATTATGAGGAGAGTT
31072527 ACAAAATA
1 ACAAAATA
31072535 ATGTTTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (22 bp):
ACAAAATATTATGAGGAGAGTT
Found at i:31075867 original size:19 final size:20
Alignment explanation
Indices: 31075819--31075868 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
31075809 AGGCAGTATA
*
31075819 TAAAAATATA-AATATAATT
1 TAAAAATAAATAATATAATT
* *
31075838 T-AAATTTAATAATA-AATT
1 TAAAAATAAATAATATAATT
31075856 TAAAAATAAATAA
1 TAAAAATAAATAA
31075869 CAAGTATACT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATAAATAATATAATT
Found at i:31076222 original size:22 final size:22
Alignment explanation
Indices: 31076196--31076245 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
31076186 GAAATTTAAA
31076196 ACAAAACATTATAAGGAGAGTT
1 ACAAAACATTATAAGGAGAGTT
*
31076218 ACAAAACATTATGAGGAGAGTT
1 ACAAAACATTATAAGGAGAGTT
31076240 ACAAAA
1 ACAAAA
31076246 TAAAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.20
Consensus pattern (22 bp):
ACAAAACATTATAAGGAGAGTT
Found at i:31076250 original size:27 final size:26
Alignment explanation
Indices: 31076193--31076254 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 26
31076183 CATGAAATTT
31076193 AAAACAAAACATTATAAGGAGAGTTAC
1 AAAA-AAAACATTATAAGGAGAGTTAC
*
31076220 ----AAAACATTATGAGGAGAGTTAC
1 AAAAAAAACATTATAAGGAGAGTTAC
31076242 AAAATAAAA-ATTA
1 AAAA-AAAACATTA
31076255 AAACAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
22 21 0.72
26 4 0.14
27 4 0.14
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (26 bp):
AAAAAAAACATTATAAGGAGAGTTAC
Found at i:31076673 original size:21 final size:19
Alignment explanation
Indices: 31076633--31076686 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
31076623 AATCTGAGGA
31076633 AAAATAAAAG-AAACAATT
1 AAAATAAAAGAAAACAATT
31076651 AAAATAAAAGAAAACAGAATT
1 AAAATAAAAGAAAAC--AATT
*
31076672 AAAAGAAATAGAAAA
1 AAAATAAA-AGAAAA
31076687 TAGAGGCATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 10 0.32
19 4 0.13
21 11 0.35
22 6 0.19
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (19 bp):
AAAATAAAAGAAAACAATT
Found at i:31076767 original size:14 final size:14
Alignment explanation
Indices: 31076748--31076778 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31076738 GAAGAGTTTT
31076748 ATCAATATTTAAAG
1 ATCAATATTTAAAG
31076762 ATCAATATTTAAAG
1 ATCAATATTTAAAG
31076776 ATC
1 ATC
31076779 CAGCCTCCGG
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:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (14 bp):
ATCAATATTTAAAG
Found at i:31094308 original size:28 final size:30
Alignment explanation
Indices: 31094275--31094432 Score: 100
Period size: 28 Copynumber: 5.3 Consensus size: 30
31094265 ATTTGAATTT
31094275 TAATTTGGTACTTAAACTT-ATTTTGGTTC
1 TAATTTGGTACTTAAACTTGATTTTGGTTC
* **
31094304 -AATTTGATA-TTCAAACTTGATATTTTTTTC
1 TAATTTGGTACTT-AAACTTGAT-TTTGGTTC
* * *
31094334 TAATTTGGTACCTAGACTTGACATTTT-CTTC
1 TAATTTGGTACTTAAACTTG--ATTTTGGTTC
* *
31094365 TTAAGTTGGTATTTAAACTT--TTTTGGGTTC
1 -TAATTTGGTACTTAAACTTGATTTT-GGTTC
* *
31094395 -AATTTGGTACCTAAACTTGACTTTT--TTT
1 TAATTTGGTACTTAAACTTGA-TTTTGGTTC
31094423 TAATTTGGTA
1 TAATTTGGTA
31094433 TCTAATTTTT
Statistics
Matches: 99, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
27 2 0.02
28 35 0.35
29 11 0.11
30 9 0.09
31 21 0.21
32 19 0.19
33 2 0.02
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (30 bp):
TAATTTGGTACTTAAACTTGATTTTGGTTC
Found at i:31094732 original size:28 final size:28
Alignment explanation
Indices: 31094650--31094742 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 28
31094640 CAGGTGACAG
* *
31094650 ATTGGGTCAAAAAAAAGTTTAGGTATCAA
1 ATTGGGT-AAAAAAAAATTTAGGTACCAA
** *
31094679 ATTAAGAAAAAAAATGTTAAGTTTAGGTACCAA
1 ATTGGGTAAAAAAA----AA-TTTAGGTACCAA
31094712 ATTGGGTAAAAAAAAATTTAGGTACCAA
1 ATTGGGTAAAAAAAAATTTAGGTACCAA
31094740 ATT
1 ATT
31094743 AAAAAACATG
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
28 22 0.43
29 6 0.12
32 1 0.02
33 22 0.43
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.28
Consensus pattern (28 bp):
ATTGGGTAAAAAAAAATTTAGGTACCAA
Found at i:31094732 original size:61 final size:61
Alignment explanation
Indices: 31094601--31094748 Score: 196
Period size: 62 Copynumber: 2.5 Consensus size: 61
31094591 AATTGAATCT
*
31094601 AAAAAAGTTTAGGTACCAAATT--AAAAAAAATGCCAAGTTCAGGTGACAGATTGGGTCAA
1 AAAAAAGTTTAGGTACCAAATTAAAAAAAAAATGCCAAGTTCAGGTGACAAATTGGGTCAA
* ** *
31094660 AAAAAAGTTTAGGTATCAAATTAAGAAAAAAAATGTTAAGTTTAGGT-ACCAAATTGGGT-AA
1 AAAAAAGTTTAGGTACCAAATTAA-AAAAAAAATGCCAAGTTCAGGTGA-CAAATTGGGTCAA
*
31094721 AAAAAAATTTAGGTACCAAATTAAAAAA
1 AAAAAAGTTTAGGTACCAAATTAAAAAA
31094749 CATGTCAATT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
59 21 0.27
60 4 0.05
61 25 0.32
62 28 0.36
ACGTcount: A:0.51, C:0.08, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAAAAGTTTAGGTACCAAATTAAAAAAAAAATGCCAAGTTCAGGTGACAAATTGGGTCAA
Found at i:31110913 original size:4 final size:4
Alignment explanation
Indices: 31110904--31110934 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
31110894 CAATTTCAAT
31110904 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
31110935 TTCTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:31111676 original size:25 final size:25
Alignment explanation
Indices: 31111631--31111678 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
31111621 CACATTACAC
*
31111631 ATATAAATAATTATATTTATTTAAT
1 ATATAAATAATTATATATATTTAAT
31111656 ATATAAATAATT-TGATATATTTA
1 ATATAAATAATTAT-ATATATTTA
31111679 CTTCTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
ATATAAATAATTATATATATTTAAT
Found at i:31111734 original size:18 final size:18
Alignment explanation
Indices: 31111713--31111753 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
31111703 AAGATAAACA
31111713 TTTAAATTATAACAAAAG
1 TTTAAATTATAACAAAAG
* *
31111731 TTTAAATTATAATAAAAT
1 TTTAAATTATAACAAAAG
31111749 TTTAA
1 TTTAA
31111754 TAAATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
TTTAAATTATAACAAAAG
Found at i:31112295 original size:29 final size:28
Alignment explanation
Indices: 31112249--31112303 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
31112239 AAAAAAATTA
* *
31112249 TAATATATTAATGTAAATATTTAAAACG
1 TAATATATTAATATAAATAATTAAAACG
*
31112277 TAATATTTTAAATATAAATAATTAAAA
1 TAATATATT-AATATAAATAATTAAAA
31112304 TATAATCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (28 bp):
TAATATATTAATATAAATAATTAAAACG
Found at i:31112309 original size:29 final size:28
Alignment explanation
Indices: 31112242--31112309 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
31112232 CAATAACAAA
* *
31112242 AAAATTATAATATATTAATGTAAATATTT
1 AAAA-TATAATATATTAATATAAATAATT
** *
31112271 AAAACGTAATATTTTAAATATAAATAATT
1 AAAATATAATATATT-AATATAAATAATT
31112300 AAAATATAAT
1 AAAATATAAT
31112310 CAGATAAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (28 bp):
AAAATATAATATATTAATATAAATAATT
Found at i:31116800 original size:39 final size:38
Alignment explanation
Indices: 31116756--31116878 Score: 156
Period size: 38 Copynumber: 3.2 Consensus size: 38
31116746 TCCGATCATG
31116756 GGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCT
1 GGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCT
* *** * * *
31116794 GAGGCAGATTACCTTCAATCAATCTCTTACCCTGAGCCT
1 G-GGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCT
* *
31116833 GGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCT
1 GGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCT
31116871 GGGCAGAT
1 GGGCAGAT
31116879 CACCATCAGC
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
38 37 0.54
39 31 0.46
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (38 bp):
GGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCT
Found at i:31117034 original size:39 final size:39
Alignment explanation
Indices: 31116754--31117113 Score: 212
Period size: 39 Copynumber: 9.3 Consensus size: 39
31116744 ACTCCGATCA
* * *
31116754 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCC
1 TGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCC
* ** * * * *
31116793 TGAGGCAGATTACCTTCAAT-CAATCTCTTACCCTGAGCC
1 TGGGGCAGATTA-CAGCCATCCGATCTTTTACCCCGAGCC
*
31116832 T-GGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCC
1 TGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCC
* * * * * *
31116870 T-GGGCAGATCACCA-TCAGCCAATCTCTTACCCCGAGCT
1 TGGGGCAGATTA-CAGCCATCCGATCTTTTACCCCGAGCC
** * * *
31116908 TGGGGTGGATTACAGCCATTCGATCTTTTACCCCAAGCT
1 TGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCC
* * *
31116947 TGGGGCAGA-T-CA-CCATCAGCTAAATCTCTTACCCCGAGCT
1 TGGGGCAGATTACAGCCATC--C--GATCTTTTACCCCGAGCC
* *
31116987 TGGAGCAGATTACAGCAATCCGATCTTTTACCCCGAGCC
1 TGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCC
* * * ** * ** * * *
31117026 GGGGGCAGATCACCGTTAGCTAATCTCTTACCTCGAGCT
1 TGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCC
* * * ** * *
31117065 TGGGGCAAATTGCAACCATTTGATCTTTTACCCCGATCA
1 TGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCC
31117104 TGGGGCAGAT
1 TGGGGCAGAT
31117114 CACCGTCAAC
Statistics
Matches: 239, Mismatches: 70, Indels: 24
0.72 0.21 0.07
Matches are distributed among these distances:
36 4 0.02
37 6 0.03
38 57 0.24
39 137 0.57
40 27 0.11
41 2 0.01
42 2 0.01
43 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (39 bp):
TGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCC
Found at i:31117066 original size:157 final size:154
Alignment explanation
Indices: 31116754--31117135 Score: 487
Period size: 157 Copynumber: 2.5 Consensus size: 154
31116744 ACTCCGATCA
* * * * * *
31116754 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCTGAGGCAGATTACCTTCAATCAATCT
1 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCATGGGGCAGATCACCATCACTCAATCT
* * * *
31116819 CTTACCCTGAGCCTGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGCAGATCACCA
66 CTTACCCCGAGCCTGGGCAGATTACAGCAATCCGATCTTTTACCCCGAGCCGGGGCAGATCACCA
31116884 TCAGCCAATCTCTTACCCCGAGCT
131 TCAGCCAATCTCTTACCCCGAGCT
** * * * *
31116908 TGGGGTGGATTACAGCCATTCGATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAGCTAAATC
1 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCATGGGGCAGATCACCATCA-CTCAATC
*
31116973 TCTTACCCCGAGCTTGGAGCAGATTACAGCAATCCGATCTTTTACCCCGAGCCGGGGGCAGATCA
65 TCTTACCCCGAGCCTGG-GCAGATTACAGCAATCCGATCTTTTACCCCGAGCC-GGGGCAGATCA
* * * *
31117038 CCGTTAGCTAATCTCTTACCTCGAGCT
128 CCATCAGCCAATCTCTTACCCCGAGCT
* * * * *
31117065 TGGGGCAAATTGCAACCATTTGATCTTTTACCCCGATCATGGGGCAGATCACCGTCAAC-CAATC
1 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCATGGGGCAGATCACCATC-ACTCAATC
31117129 TCTTACC
65 TCTTACC
31117136 TCGCGACAGG
Statistics
Matches: 193, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
154 48 0.25
155 20 0.10
156 44 0.23
157 80 0.41
158 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (154 bp):
TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCATGGGGCAGATCACCATCACTCAATCT
CTTACCCCGAGCCTGGGCAGATTACAGCAATCCGATCTTTTACCCCGAGCCGGGGCAGATCACCA
TCAGCCAATCTCTTACCCCGAGCT
Found at i:31117161 original size:78 final size:78
Alignment explanation
Indices: 31116754--31117135 Score: 462
Period size: 78 Copynumber: 4.9 Consensus size: 78
31116744 ACTCCGATCA
* * * * **
31116754 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCTGAGCCTGAGGCAGATTACCTTCAATCAATCT
1 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCT
* *
31116819 CTTACCCTGAGCC
66 CTTACCCCGAGCT
*
31116832 T-GGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCT-GGGCAGATCACCATCAGCCAATCT
1 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCT
31116895 CTTACCCCGAGCT
66 CTTACCCCGAGCT
** * * * *
31116908 TGGGGTGGATTACAGCCATTCGATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAGCTAAATC
1 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGC-CAATC
31116973 TCTTACCCCGAGCT
65 TCTTACCCCGAGCT
* * * * * * * *
31116987 TGGAGCAGATTACAGCAATCCGATCTTTTACCCCGAGCCGGGGGCAGATCACCGTTAGCTAATCT
1 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCT
*
31117052 CTTACCTCGAGCT
66 CTTACCCCGAGCT
* * * * * * *
31117065 TGGGGCAAATTGCAACCATTTGATCTTTTACCCCGATCATGGGGCAGATCACCGTCAACCAATCT
1 TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCT
31117130 CTTACC
66 CTTACC
31117136 TCGCGACAGG
Statistics
Matches: 260, Mismatches: 41, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
76 31 0.12
77 68 0.26
78 94 0.36
79 67 0.26
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (78 bp):
TGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCT
CTTACCCCGAGCT
Found at i:31119365 original size:28 final size:28
Alignment explanation
Indices: 31119321--31119537 Score: 143
Period size: 29 Copynumber: 7.4 Consensus size: 28
31119311 CCCTTATTTT
* *
31119321 CTTTCCAAAATTATATTTTGACCTCTAAA
1 CTTTTCAAAATTACATTTTGACC-CTAAA
31119350 CTTTTC-AAATT-CTATTTTGACCTCTAAA
1 CTTTTCAAAATTAC-ATTTTGACC-CTAAA
*
31119378 CTTCTCCAAAATTACA-TTTGACCCTCAAA
1 CTT-TTCAAAATTACATTTTGACCCT-AAA
* *
31119407 CTTTTCCAAAATTGCATTTTAACCCTAAA
1 CTTTT-CAAAATTACATTTTGACCCTAAA
* * *
31119436 CTTCTCTAAAATTACATTTTAACCCTTTAA
1 CTTTTC-AAAATTACATTTTGACCC-TAAA
* * * ** *
31119466 CTTCTCCAAAATTGCATTTTAACCCCGAG
1 CTT-TTCAAAATTACATTTTGACCCTAAA
* * *
31119495 CTTTCCCAAAATTAAATTTTCACCCCCTAAA
1 CTTT-TCAAAATTACATTTTGA--CCCTAAA
*
31119526 CTTTTCCAAATT
1 CTTTTCAAAATT
31119538 TATGTTTTGA
Statistics
Matches: 152, Mismatches: 23, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
28 28 0.18
29 71 0.47
30 43 0.28
31 10 0.07
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (28 bp):
CTTTTCAAAATTACATTTTGACCCTAAA
Found at i:31119470 original size:30 final size:30
Alignment explanation
Indices: 31119324--31119490 Score: 159
Period size: 29 Copynumber: 5.7 Consensus size: 30
31119314 TTATTTTCTT
* *
31119324 TCCAAAATTATATTTTGA-CCTCTAAACTT-
1 TCCAAAATTACATTTTAACCCT-TAAACTTC
* *
31119353 TTC-AAATT-CTATTTTGA-CCTCTAAACTTC
1 TCCAAAATTAC-ATTTTAACCCT-TAAACTTC
* * *
31119382 TCCAAAATTACA-TTTGACCCTCAAACTTT
1 TCCAAAATTACATTTTAACCCTTAAACTTC
*
31119411 TCCAAAATTGCATTTTAACCC-TAAACTTC
1 TCCAAAATTACATTTTAACCCTTAAACTTC
* *
31119440 TCTAAAATTACATTTTAACCCTTTAACTTC
1 TCCAAAATTACATTTTAACCCTTAAACTTC
*
31119470 TCCAAAATTGCATTTTAACCC
1 TCCAAAATTACATTTTAACCC
31119491 CGAGCTTTCC
Statistics
Matches: 117, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
28 23 0.20
29 51 0.44
30 42 0.36
31 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (30 bp):
TCCAAAATTACATTTTAACCCTTAAACTTC
Found at i:31119537 original size:59 final size:59
Alignment explanation
Indices: 31119324--31119535 Score: 193
Period size: 59 Copynumber: 3.6 Consensus size: 59
31119314 TTATTTTCTT
* * * * *
31119324 TCCAAAATTATATTTTGACCTCTAAACTTTT-C-AAATT-CTATTTTGACCTCTAAACTTC
1 TCCAAAATTAAATTTTAACCCCTAAACTTTTCCAAAATTGC-ATTTTAACC-CCAAACTTC
* * *
31119382 TCCAAAATTACA-TTTGA-CCCTCAAACTTTTCCAAAATTGCATTTTAACCCTAAACTTC
1 TCCAAAATTAAATTTTAACCCCT-AAACTTTTCCAAAATTGCATTTTAACCCCAAACTTC
* * * * * * *
31119440 TCTAAAATTACATTTTAACCCTTTAACTTCTCCAAAATTGCATTTTAACCCCGAGCTT-
1 TCCAAAATTAAATTTTAACCCCTAAACTTTTCCAAAATTGCATTTTAACCCCAAACTTC
*
31119498 TCCCAAAATTAAATTTTCACCCCCTAAACTTTTCCAAA
1 T-CCAAAATTAAATTTT-AACCCCTAAACTTTTCCAAA
31119536 TTTATGTTTT
Statistics
Matches: 129, Mismatches: 17, Indels: 14
0.81 0.11 0.09
Matches are distributed among these distances:
56 3 0.02
57 13 0.10
58 33 0.26
59 60 0.47
60 20 0.16
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.37
Consensus pattern (59 bp):
TCCAAAATTAAATTTTAACCCCTAAACTTTTCCAAAATTGCATTTTAACCCCAAACTTC
Found at i:31123194 original size:59 final size:59
Alignment explanation
Indices: 31123012--31123439 Score: 601
Period size: 59 Copynumber: 7.3 Consensus size: 59
31123002 GACTCGCAGA
* * * *
31123012 GGGTAAAATGGTAATTTTTAGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAATTCAA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
* *
31123070 GGGTAAAATAGTAATTTTTGGTTAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
* *
31123128 GGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTCG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
* * * * *
31123187 GGGTAAAATGGTAATTTTTGGTGAAATTGAGGTGAAAAATGGAATTTTAGAATGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
* *
31123246 GGGTAAAATGGTAATTTTTGGTGCAA-CTGGGGTTAAAAATAGAATTTTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTGGAAAGTTTAG
* *
31123305 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGAATTCTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
* * * * * * * *
31123364 AGCTAAAATGGTAATTTTCGATGTAATCGGGGTTAAAAATAGAATTTTGGGAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
31123423 GGGTAAAATGGTAATTT
1 GGGTAAAATGGTAATTT
31123440 GTGGACCATC
Statistics
Matches: 327, Mismatches: 40, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
58 83 0.25
59 243 0.74
60 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.34
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
Found at i:31124525 original size:3 final size:3
Alignment explanation
Indices: 31124510--31124554 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
31124500 TAACACTGTA
*
31124510 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
31124555 GTTGTTGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:31124559 original size:3 final size:3
Alignment explanation
Indices: 31124553--31124596 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
31124543 ATTATTATTA
31124553 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
31124597 ATTAATTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:31125746 original size:38 final size:38
Alignment explanation
Indices: 31125695--31125957 Score: 211
Period size: 38 Copynumber: 6.9 Consensus size: 38
31125685 ATATCCAGCT
*
31125695 TTACTTCAATTTCAAAAGGATAGGAAATGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTC
* ** * * *
31125733 TTACTTCAATTTC-AGA-GATAAAGATTTGAT-ATCCAAC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATGATCTTGC-TC
*
31125770 TCTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTC
1 T-TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTC
* ** ** *
31125809 TTACTTCAATTTC-AGA-GATAAAGATTTGATATCCAGAT-
1 TTACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTGCTC
31125847 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTC
* ** **
31125885 TTACTTCAATTTC-AGA-GATAAAGATTTGATATCCAGCT-
1 TTACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTGCTC
31125923 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTG
1 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTG
31125958 GTCCTTCTTC
Statistics
Matches: 172, Mismatches: 36, Indels: 35
0.71 0.15 0.14
Matches are distributed among these distances:
36 11 0.06
37 36 0.21
38 76 0.44
39 38 0.22
40 11 0.06
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (38 bp):
TTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTC
Found at i:31125776 original size:76 final size:76
Alignment explanation
Indices: 31125646--31125957 Score: 518
Period size: 76 Copynumber: 4.1 Consensus size: 76
31125636 TCGAGGCTTC
* * * * *
31125646 ATCTTGTTCTTACTTCAATTTCAAAGAGATAAAAACTTGATATCCAGCTTTACTTCAATTTCAAA
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGATTTGATATCCAACTTTACTTCAATTTCAAG
31125711 AGGATAGGAAATG
64 AGGATAGGAAATG
*
31125724 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAACTTTACTTCAATTTCAAGAG
31125789 GATAGGAAATG
66 GATAGGAAATG
*
31125800 ATCTTACTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGA-TTTACTTCAATTTCAAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCA-ACTTTACTTCAATTTCAAGA
31125864 GGATAGGAAATG
65 GGATAGGAAATG
*
31125876 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAACTTTACTTCAATTTCAAGAG
31125941 GATAGGAAATG
66 GATAGGAAATG
31125952 ATCTTG
1 ATCTTG
31125958 GTCCTTCTTC
Statistics
Matches: 222, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
76 200 0.90
77 1 0.00
78 21 0.09
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAACTTTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:31126089 original size:92 final size:90
Alignment explanation
Indices: 31125914--31126229 Score: 482
Period size: 92 Copynumber: 3.5 Consensus size: 90
31125904 AAAGATTTGA
* *
31125914 TATCCAGCTTTACTTCAATTTCAAGAGGATAGG-AAATGATCTTGGTCCTTCTTCTTACTCTTAT
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGTCCTTCTTCTTACTCTTA-
*
31125978 TTTGATTTCAGAGGGACGAAGGCTTGT
65 -TTCATTTCAGAGGGACGAAGGCTTGT
* *
31126005 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATT-TTACTCTTA
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGTCCTTC-TTCTTACTCTTA
*
31126069 CTTCAATTTCTGAGGGACGAAGGCTTGT
65 -TTC-ATTTCAGAGGGACGAAGGCTTGT
*
31126097 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGTCCTTCTTCTCACTCTTA-
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGTCCTTCTTCTTACTCTTAT
31126161 -C-TTT-AGAGGGACGAAGGCTTGT
66 TCATTTCAGAGGGACGAAGGCTTGT
31126183 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGT
1 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGT
31126230 TTGATCTGAT
Statistics
Matches: 212, Mismatches: 9, Indels: 13
0.91 0.04 0.06
Matches are distributed among these distances:
86 64 0.30
87 3 0.01
89 1 0.00
91 37 0.17
92 105 0.50
93 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (90 bp):
TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGTCCTTCTTCTTACTCTTAT
TCATTTCAGAGGGACGAAGGCTTGT
Found at i:31133925 original size:15 final size:15
Alignment explanation
Indices: 31133897--31133937 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
31133887 AGGATGGGTG
* *
31133897 TTTCTCGCGAGTTTA
1 TTTCTGGCGGGTTTA
*
31133912 TTTCTGGCGGGTTTG
1 TTTCTGGCGGGTTTA
31133927 TTTCTGGCGGG
1 TTTCTGGCGGG
31133938 GCCTGATGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.05, C:0.17, G:0.34, T:0.44
Consensus pattern (15 bp):
TTTCTGGCGGGTTTA
Found at i:31136223 original size:116 final size:117
Alignment explanation
Indices: 31136059--31136359 Score: 424
Period size: 116 Copynumber: 2.6 Consensus size: 117
31136049 GGACTATCCA
*
31136059 AAAATTACCATTTTACCCCTAAATTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
* * **
31136124 ACCATTAAACCCTTAAACTTTCAAAAATCCCATTTTTAACCTTGATTTCACC
66 ACCATTAAACCCCTAAACTTTCAAAAATCCAATTTTTAACCCCGATTTCACC
* *
31136176 AAAATTACCATTTTACCCC-GAACTTTCCAAAATCCCATTTTTAACCCCGACTTCACCAAAAATT
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
** * * *
31136240 ACCATTTTACCCCTGAACTTTCCAAAATCCAATTTTTAACCCCGGTTTCACC
66 ACCATTAAACCCCTAAACTTTCAAAAATCCAATTTTTAACCCCGATTTCACC
* * * ** *
31136292 AAAATTACCATTTTACCCCTCAAGTTTCCTAAAATCTCATTTTCGACCCCGATTTCACAAAAAAT
1 AAAATTACCATTTTACCCCTAAACTTTCC-AAAATCCCATTTTTAACCCCGATTTCACCAAAAAT
31136357 TAC
65 TAC
31136360 ATTTTTACCC
Statistics
Matches: 163, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
116 104 0.64
117 26 0.16
118 33 0.20
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
ACCATTAAACCCCTAAACTTTCAAAAATCCAATTTTTAACCCCGATTTCACC
Found at i:31136238 original size:58 final size:59
Alignment explanation
Indices: 31136056--31136374 Score: 421
Period size: 59 Copynumber: 5.4 Consensus size: 59
31136046 CCTGGACTAT
*
31136056 CCAAAAATTACCATTTTACCCCTAAATTTTCCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
** * * **
31136115 CCAAAAATTACCATTAAACCCTTAAACTTTCAAAAATCCCATTTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* *
31136174 CC-AAAATTACCATTTTACCCC-GAACTTTCCAAAATCCCATTTTTAACCCCGACTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
31136231 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCAATTTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * * **
31136290 CC-AAAATTACCATTTTACCCCTCAAGTTTCCTAAAATCTCATTTTCGACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCC-AAAATCCCATTTTTAACCCCGATTTCA
* *
31136349 CAAAAAATTA-CATTTTTACCCTTAAA
1 CCAAAAATTACCA-TTTTACCCCTAAA
31136375 AGTCAAAAAT
Statistics
Matches: 227, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
57 33 0.15
58 62 0.27
59 114 0.50
60 18 0.08
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:31136305 original size:29 final size:29
Alignment explanation
Indices: 31136059--31136310 Score: 122
Period size: 29 Copynumber: 8.7 Consensus size: 29
31136049 GGACTATCCA
* * *
31136059 AAAATTACCATTTTACCCCTAAATTT-TCC
1 AAAATTACCATTTTACCCC-GACTTTCACC
*
31136088 AAAA-TCCCATTTTTAACCCCGA-TTTCACC
1 AAAATTACCA-TTTT-ACCCCGACTTTCACC
** **
31136117 AAAAATTACCATTAAACCCTTAAACTTTCA--
1 -AAAATTACCATTTTACCC--CGACTTTCACC
* **
31136147 AAAA-TCCCATTTTTAACCTTGA-TTTCACC
1 AAAATTACCA-TTTT-ACCCCGACTTTCACC
31136176 AAAATTACCATTTTACCCCGAACTTT--CC
1 AAAATTACCATTTTACCCCG-ACTTTCACC
*
31136204 AAAA-TCCCATTTTTAACCCCGAC-TTCACC
1 AAAATTACCA-TTTT-ACCCCGACTTTCACC
31136233 AAAAATTACCATTTTACCCCTGAACTTT--CC
1 -AAAATTACCATTTTACCCC-G-ACTTTCACC
*
31136263 AAAA-T-CCAATTTTTAACCCCG-GTTTCACC
1 AAAATTACC-A-TTTT-ACCCCGACTTTCACC
31136292 AAAATTACCATTTTACCCC
1 AAAATTACCATTTTACCCC
31136311 TCAAGTTTCC
Statistics
Matches: 172, Mismatches: 20, Indels: 63
0.67 0.08 0.25
Matches are distributed among these distances:
27 16 0.09
28 35 0.20
29 62 0.36
30 39 0.23
31 13 0.08
32 7 0.04
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCGACTTTCACC
Found at i:31148664 original size:200 final size:200
Alignment explanation
Indices: 31148320--31148967 Score: 969
Period size: 200 Copynumber: 3.2 Consensus size: 200
31148310 GAGTGTTTTC
31148320 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATGC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTC-AATGC
*
31148385 GAGCAAACCTTCGAACCCGGCTTCCTGATGAGATACTGAGAAGCAAGTCGAGGCAATAAAAAGGT
65 GAGCAAATCTTCGAACCCGGCTTCCTGATGAGATACTGAGAAGCAAGTCGAGGCAATAAAAAGGT
* * *
31148450 TAGCTTCCTGATGAGATACAAAGAAGTGGACTAGATTCGCCTTCCTGAAGAGATCCAGAGAGGCG
130 TAGCTTCCTGATGAGATACAGAGAAGTGGACAAGATTCGCCTTCCTGAAGAGATCCAGAGAAGCG
31148515 AATCAA
195 AATCAA
*
31148521 AACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
* *
31148586 AGCAAATCTTCGAACCTGGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAAAGGTT
66 AGCAAATCTTCGAACCCGGCTTCCTGATGAGATACTGAGAAGCAAGTCGAGGCAATAAAAAGGTT
* * *
31148651 AGCTTCCTGATGAGATACAGAGAAGTAGACCAGATTCGCCTTCTTGAAGAGATCCAGAGAAGCGA
131 AGCTTCCTGATGAGATACAGAGAAGTGGACAAGATTCGCCTTCCTGAAGAGATCCAGAGAAGCGA
31148716 ATCAA
196 ATCAA
*
31148721 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAAAAGAATACCAACTCAACGCTCAATGCG
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
* * * * * *
31148786 AGAAAATCTTCGAACCCGGCTACCTGATGAAATATTGAGAAGCAGGACGAGGCAATAAAAAGGTT
66 AGCAAATCTTCGAACCCGGCTTCCTGATGAGATACTGAGAAGCAAGTCGAGGCAATAAAAAGGTT
* * * ** * *
31148851 AGCTTCTTGATGAGACACAGAGAAGTGGACCAAAATT-ATCTTCCTGAGGAGATCCAGAGAAGTG
131 AGCTTCCTGATGAGATACAGAGAAGTGGA-CAAGATTCGCCTTCCTGAAGAGATCCAGAGAAGCG
*
31148915 AATTAA
195 AATCAA
* * * ** *
31148921 AAC-AG-AATTGCGATCATCTTCCTGATGAGACGCAGAGAAGAAGACCA
1 AACAAGCGA-GGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCA
31148968 GATCAATGAA
Statistics
Matches: 408, Mismatches: 37, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
198 1 0.00
199 35 0.09
200 309 0.76
201 63 0.15
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (200 bp):
AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
AGCAAATCTTCGAACCCGGCTTCCTGATGAGATACTGAGAAGCAAGTCGAGGCAATAAAAAGGTT
AGCTTCCTGATGAGATACAGAGAAGTGGACAAGATTCGCCTTCCTGAAGAGATCCAGAGAAGCGA
ATCAA
Found at i:31149345 original size:17 final size:17
Alignment explanation
Indices: 31149325--31149411 Score: 87
Period size: 17 Copynumber: 5.4 Consensus size: 17
31149315 TTAAATGGAT
*
31149325 TTTAAGTTTATTTCAAA
1 TTTAAATTTATTTCAAA
*
31149342 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTCAAA
31149359 TTTAAATTT-TCTT---A
1 TTTAAATTTAT-TTCAAA
31149373 TTTAAATTTACTTT-AAA
1 TTTAAATTTA-TTTCAAA
*
31149390 TTTAAATTTA-ATCAAA
1 TTTAAATTTATTTCAAA
31149406 TTTAAA
1 TTTAAA
31149412 AATGTTAAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 11 0.18
17 37 0.61
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTCAAA
Found at i:31149348 original size:6 final size:6
Alignment explanation
Indices: 31149334--31149400 Score: 57
Period size: 6 Copynumber: 11.0 Consensus size: 6
31149324 TTTTAAGTTT
* **
31149334 ATTTCAA ATTTAA ATTT-A TTTTAA ATTTAA ATTTTCTT ATTTAA ATTT-A
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA A-TTT-AA ATTTAA ATTTAA
*
31149383 CTTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA
31149401 TCAAATTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.17
6 29 0.60
7 10 0.21
8 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (6 bp):
ATTTAA
Found at i:31150142 original size:18 final size:18
Alignment explanation
Indices: 31150108--31150152 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
31150098 AATAATGGCT
31150108 TTAATAATAAATATAATA
1 TTAATAATAAATATAATA
*
31150126 TTAATGAT-AATATTAATA
1 TTAATAATAAATA-TAATA
31150144 --AATAATAAA
1 TTAATAATAAA
31150153 AAGAAAGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 5 0.22
17 6 0.26
18 12 0.52
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TTAATAATAAATATAATA
Found at i:31150655 original size:22 final size:23
Alignment explanation
Indices: 31150613--31150663 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
31150603 GAGAGGTAAT
*
31150613 TTTTAAAAAAATGAATGAAATGA
1 TTTTAAAAAAATGAATAAAATGA
31150636 TTTTAAAAAAACT-AA-AAAATGA
1 TTTTAAAAAAA-TGAATAAAATGA
31150658 TATTTA
1 T-TTTA
31150664 TAGGACCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 7 0.28
23 17 0.68
24 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (23 bp):
TTTTAAAAAAATGAATAAAATGA
Found at i:31151191 original size:58 final size:58
Alignment explanation
Indices: 31151088--31151438 Score: 439
Period size: 57 Copynumber: 6.1 Consensus size: 58
31151078 AGATTATCCA
*
31151088 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCA-TTTTAACCCTAATTTCAGC
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTAATTTCACC
* *
31151145 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCTCATTTTTAA-CCTCAGTTTCACC
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCT-AATTTCACC
* * **
31151203 AAAAATTACCATTTTACCCCTAAATTTTCCAAAATCTCATTTTTAACCCCGATTTCACC
1 -AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTAATTTCACC
**
31151262 AAAATTACCATTTTA-CCCTAAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTAATTTCACC
* * * *
31151318 AAAAATTACCATTTTACCCCCAAACTTTCTAAAATCCCATTTTTAA-CCTCGATTTTACC
1 -AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCT-AATTTCACC
* * *
31151377 -AAATTACCATTTTACCCCTCGAA-TTTCCTAAAATCTCATTTTCAACCC-AGATTTCACC
1 AAAATTACCATTTTACCCCT-AAACTTTCC-AAAATCCCATTTTTAACCCTA-ATTTCACC
31151435 AAAA
1 AAAA
31151439 ATTATATTTT
Statistics
Matches: 261, Mismatches: 20, Indels: 24
0.86 0.07 0.08
Matches are distributed among these distances:
56 19 0.07
57 97 0.37
58 73 0.28
59 70 0.27
60 2 0.01
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTAATTTCACC
Found at i:31151289 original size:116 final size:117
Alignment explanation
Indices: 31151085--31151442 Score: 530
Period size: 115 Copynumber: 3.1 Consensus size: 117
31151075 CCTAGATTAT
** *
31151085 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCA-TTTTAACCCTAATTTCAGCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
31151149 TTACCATTTTACCCCTAAACTTTCCAAAATCTCATTTTTAACCTCAG-TTTCA
66 TTACCATTTTACCCCTAAACTTTCCAAAATCTCATTTTTAACC-CAGATTTCA
* *
31151201 CCAAAAATTACCATTTTACCCCTAAATTTTCCAAAATCTCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
* *
31151266 TTACCATTTTA-CCCTAAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCA
66 TTACCATTTTACCCCTAAACTTTCCAAAATCTCATTTTTAACCCAGATTTCA
* * * *
31151316 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATCCCATTTTTAACCTCGATTTTACC-AAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
* *
31151380 TTACCATTTTACCCCTCGAA-TTTCCTAAAATCTCATTTTCAACCCAGATTTCA
66 TTACCATTTTACCCCT-AAACTTTCC-AAAATCTCATTTTTAACCCAGATTTCA
31151433 CCAAAAATTA
1 CCAAAAATTA
31151443 TATTTTTACC
Statistics
Matches: 219, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
114 16 0.07
115 77 0.35
116 70 0.32
117 56 0.26
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
TTACCATTTTACCCCTAAACTTTCCAAAATCTCATTTTTAACCCAGATTTCA
Found at i:31151396 original size:29 final size:28
Alignment explanation
Indices: 31151089--31151402 Score: 126
Period size: 28 Copynumber: 10.9 Consensus size: 28
31151079 GATTATCCAA
* *
31151089 AAATTACCATTTTACCCCTAAACTTTCC
1 AAATTACCATTTTACCCCTCAATTTTCC
* * *
31151117 AAAATCCCATTTTAACCCT-AA-TTTCAGC
1 AAATTACCATTTTACCCCTCAATTTTC--C
* *
31151145 AAAATTACCATTTTACCCCTAAACTTTCC
1 -AAATTACCATTTTACCCCTCAATTTTCC
* * * *
31151174 AAAAT-CTCATTTTTA-ACCTCAGTTTCACC
1 AAATTAC-CA-TTTTACCCCTCAATTT-TCC
*
31151203 AAAAATTACCATTTTACCCCTAAATTTTCC
1 --AAATTACCATTTTACCCCTCAATTTTCC
* * * *
31151233 AAAAT-CTCATTTTTAACCC-CGATTTCACC
1 AAATTAC-CA-TTTTACCCCTCAATTT-TCC
* *
31151262 AAAATTACCATTTTA-CCCTAAACTTTCC
1 -AAATTACCATTTTACCCCTCAATTTTCC
* * * * *
31151290 AAAATCCCATTTTAACCC-CGATTTCACC
1 AAATTACCATTTTACCCCTCAATTT-TCC
* *
31151318 AAAAATTACCATTTTACCCC-CAAACTTTCT
1 --AAATTACCATTTTACCCCTC-AATTTTCC
* * * *
31151348 AAAATCCCATTTTTA-ACCTCGATTTTACC
1 AAATTACCA-TTTTACCCCTCAATTTT-CC
31151377 AAATTACCATTTTACCCCTCGAATTT
1 AAATTACCATTTTACCCCTC-AATTT
31151403 CCTAAAATCT
Statistics
Matches: 208, Mismatches: 50, Indels: 54
0.67 0.16 0.17
Matches are distributed among these distances:
26 4 0.02
27 19 0.09
28 67 0.32
29 60 0.29
30 36 0.17
31 21 0.10
32 1 0.00
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (28 bp):
AAATTACCATTTTACCCCTCAATTTTCC
Found at i:31154340 original size:2 final size:2
Alignment explanation
Indices: 31154333--31154358 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31154323 TATTAAAATA
31154333 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
31154359 TAAATAATAA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31155966 original size:21 final size:21
Alignment explanation
Indices: 31155936--31155988 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
31155926 CAAACAATGA
*
31155936 CAAAAAGTATCTGTATCTTTT
1 CAAAAAGTATCTATATCTTTT
* *
31155957 CAAAATGTATCTATATGTTTT
1 CAAAAAGTATCTATATCTTTT
31155978 CAAAAAGTATC
1 CAAAAAGTATC
31155989 GATACATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (21 bp):
CAAAAAGTATCTATATCTTTT
Found at i:31155998 original size:21 final size:20
Alignment explanation
Indices: 31155936--31155998 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
31155926 CAAACAATGA
31155936 CAAAAAGTATCTG-TATCTTTT
1 CAAAAAGTATC-GATA-CTTTT
* * *
31155957 CAAAATGTATCTATATGTTTT
1 CAAAAAGTATCGATA-CTTTT
31155978 CAAAAAGTATCGATACATTTT
1 CAAAAAGTATCGATAC-TTTT
31155999 ATCAGGTACC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.41
Consensus pattern (20 bp):
CAAAAAGTATCGATACTTTT
Found at i:31157794 original size:23 final size:23
Alignment explanation
Indices: 31157762--31157809 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
31157752 CTGACGTGGC
* *
31157762 GTCCAGTTAGCAGCTTTTAGAAG
1 GTCCAATTAGCAGCTTCTAGAAG
31157785 GTCCAATTAGCAGCTTCTAGAAG
1 GTCCAATTAGCAGCTTCTAGAAG
31157808 GT
1 GT
31157810 TTAGCCAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (23 bp):
GTCCAATTAGCAGCTTCTAGAAG
Found at i:31158670 original size:17 final size:17
Alignment explanation
Indices: 31158648--31158681 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31158638 AGGCTGATAC
31158648 TTAAATTGAGTTTCTTT
1 TTAAATTGAGTTTCTTT
* *
31158665 TTAAATTTATTTTCTTT
1 TTAAATTGAGTTTCTTT
31158682 AAATTCTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TTAAATTGAGTTTCTTT
Found at i:31161174 original size:23 final size:22
Alignment explanation
Indices: 31161084--31161185 Score: 123
Period size: 22 Copynumber: 4.5 Consensus size: 22
31161074 TGCGCACTCC
*
31161084 GTGTGCCTACTGATTTGCGCTAT
1 GTGTGCCTACTGA-TTGCACTAT
*
31161107 GTGCGCCTACTGATTGCACTAT
1 GTGTGCCTACTGATTGCACTAT
* *
31161129 GTGCGCCTACTGATTGCACTGT
1 GTGTGCCTACTGATTGCACTAT
* *
31161151 GTGTGCCTACTGGATTGCAATGT
1 GTGTGCCTACT-GATTGCACTAT
*
31161174 GTGTGCTTACTG
1 GTGTGCCTACTG
31161186 TTTCCCCAGC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
22 40 0.56
23 32 0.44
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (22 bp):
GTGTGCCTACTGATTGCACTAT
Found at i:31161185 original size:45 final size:45
Alignment explanation
Indices: 31161084--31161185 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
31161074 TGCGCACTCC
* *
31161084 GTGTGCCTACTGATTTGCGCTATGTGCGCCTACTGATTGCACTAT
1 GTGTGCCTACTGATTTGCACTATGTGCGCCTACTGATTGCAATAT
* * * *
31161129 GTGCGCCTACTGA-TTGCACTGTGTGTGCCTACTGGATTGCAATGT
1 GTGTGCCTACTGATTTGCACTATGTGCGCCTACT-GATTGCAATAT
*
31161174 GTGTGCTTACTG
1 GTGTGCCTACTG
31161186 TTTCCCCAGC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 17 0.35
45 31 0.65
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (45 bp):
GTGTGCCTACTGATTTGCACTATGTGCGCCTACTGATTGCAATAT
Found at i:31167160 original size:2 final size:2
Alignment explanation
Indices: 31167153--31167194 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
31167143 ATGTATTATC
*
31167153 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31167195 GTGTGTGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31167195 original size:12 final size:12
Alignment explanation
Indices: 31167142--31167196 Score: 74
Period size: 12 Copynumber: 4.4 Consensus size: 12
31167132 ATCAAATGTT
31167142 TATGTATTATCATA
1 TATGTA-TAT-ATA
*
31167156 TATATATATATA
1 TATGTATATATA
*
31167168 TATATATATATA
1 TATGTATATATA
31167180 TATGTATATATA
1 TATGTATATATA
31167192 TATGT
1 TATGT
31167197 GTGTGTGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
12 31 0.79
13 3 0.08
14 5 0.13
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (12 bp):
TATGTATATATA
Found at i:31167633 original size:21 final size:21
Alignment explanation
Indices: 31167609--31167649 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31167599 AAATAAATGC
31167609 TAAAACCCTAAACCTTAAACT
1 TAAAACCCTAAACCTTAAACT
* * *
31167630 TAAAACTCTAGACTTTAAAC
1 TAAAACCCTAAACCTTAAAC
31167650 CCTTAAACTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAACCCTAAACCTTAAACT
Found at i:31168492 original size:17 final size:16
Alignment explanation
Indices: 31168470--31168503 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
31168460 TTTGTAATTA
*
31168470 AAAATAGATAAATGAAT
1 AAAATAAATAAAT-AAT
31168487 AAAATAAATAAATAAT
1 AAAATAAATAAATAAT
31168503 A
1 A
31168504 TAGAGGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAATAAATAAATAAT
Found at i:31176140 original size:6 final size:6
Alignment explanation
Indices: 31176122--31176210 Score: 96
Period size: 6 Copynumber: 15.2 Consensus size: 6
31176112 TTAAATTGAT
**
31176122 TTTAAA TTT--A TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A
* *
31176169 TTTAAA TTT-AC TTTAAA TTTAAA TTTAAA TTTAAA TTAAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
31176211 ACTAAACATT
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
4 4 0.06
5 7 0.10
6 53 0.76
8 6 0.09
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:31176152 original size:17 final size:16
Alignment explanation
Indices: 31176122--31176210 Score: 101
Period size: 17 Copynumber: 5.4 Consensus size: 16
31176112 TTAAATTGAT
31176122 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
*
31176138 TTTAAATTTGCTTTAAA
1 TTTAAATTT-ATTTAAA
*
31176155 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
31176169 TTTAAATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
31176186 TTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
*
31176204 TTAAAAT
1 TTTAAAT
31176211 ACTAAACATT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
14 11 0.18
15 2 0.03
16 11 0.18
17 25 0.40
18 12 0.19
19 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:31176177 original size:37 final size:37
Alignment explanation
Indices: 31176129--31176202 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
31176119 GATTTTAAAT
**
31176129 TTATTTAAATTTAAATTT-GCTTTAAATTTAAATTTAA
1 TTATTTAAATTT-AATTTAAATTTAAATTTAAATTTAA
*
31176166 TTATTTAAATTTACTTTAAATTTAAATTTAAATTTAA
1 TTATTTAAATTTAATTTAAATTTAAATTTAAATTTAA
31176203 ATTAAAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 4 0.12
37 29 0.88
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (37 bp):
TTATTTAAATTTAATTTAAATTTAAATTTAAATTTAA
Found at i:31176851 original size:12 final size:12
Alignment explanation
Indices: 31176834--31176876 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
31176824 TTGCCTACTG
31176834 TTAATTAATGTT
1 TTAATTAATGTT
*
31176846 TTAATTACTG--
1 TTAATTAATGTT
31176856 TTAATTAATGTT
1 TTAATTAATGTT
31176868 TTAATTAAT
1 TTAATTAAT
31176877 CCAAATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (12 bp):
TTAATTAATGTT
Found at i:31176854 original size:22 final size:22
Alignment explanation
Indices: 31176829--31176874 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
31176819 TAAGCTTGCC
31176829 TACTGTTAATTAATGTTTTAAT
1 TACTGTTAATTAATGTTTTAAT
31176851 TACTGTTAATTAATGTTTTAAT
1 TACTGTTAATTAATGTTTTAAT
31176873 TA
1 TA
31176875 ATCCAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TACTGTTAATTAATGTTTTAAT
Found at i:31177006 original size:28 final size:29
Alignment explanation
Indices: 31176957--31177020 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
31176947 CTTTTTTCTA
*
31176957 AATACGTATTAAATGCATTTAACAATAAT
1 AATACGTATTAAATGAATTTAACAATAAT
*
31176986 AATAC-TATTAAAT-AATATTAATAATAA-
1 AATACGTATTAAATGAAT-TTAACAATAAT
*
31177013 AAAACGTA
1 AATACGTA
31177021 ATTATTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.20
28 19 0.63
29 5 0.17
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.33
Consensus pattern (29 bp):
AATACGTATTAAATGAATTTAACAATAAT
Found at i:31177288 original size:20 final size:21
Alignment explanation
Indices: 31177251--31177289 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31177241 AGCAAAACAA
*
31177251 TTTCAAAAAAATGGAAAAGAG
1 TTTCAAAAAAATGAAAAAGAG
*
31177272 TTTCAAAATAAT-AAAAAG
1 TTTCAAAAAAATGAAAAAG
31177290 GATTGTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (21 bp):
TTTCAAAAAAATGAAAAAGAG
Found at i:31177993 original size:10 final size:10
Alignment explanation
Indices: 31177978--31178007 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
31177968 TCCTTTCTAT
31177978 TTTTAATTTA
1 TTTTAATTTA
31177988 TTTTAATTTA
1 TTTTAATTTA
31177998 TTTTAATTTA
1 TTTTAATTTA
31178008 GTCCTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:31178449 original size:29 final size:30
Alignment explanation
Indices: 31178158--31178451 Score: 335
Period size: 30 Copynumber: 9.8 Consensus size: 30
31178148 AATTGTCCAG
* * *
31178158 AAATTACATTTTAACCCCAAAATTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCTA
* * * *
31178188 AAATTATATTTTGACCCTAAAAATTTTCTG
1 AAATTACATTTTGACCCCAAAACTTTTCTA
* * *
31178218 AAATTACATTGTGACCCCAAATCTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCTA
31178248 AAATTACATTTTGACCCCAAAACTTTTCCT-
1 AAATTACATTTTGACCCCAAAACTTTT-CTA
* *
31178278 AAATTACATTTTGACCTCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCTA
* * * *
31178308 AAATTAAATTTTGACCTCAAAAATTTTTTA
1 AAATTACATTTTGACCCCAAAACTTTTCTA
*
31178338 AAATTACATTGTGGA-CCCAAAACTTTTCTA
1 AAATTACATT-TTGACCCCAAAACTTTTCTA
31178368 AAATTACATTTTGACCCCAAAACTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCTA
* * * *
31178398 AAATTATATTTTGACCTCGAAAC-TTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCTA
*
31178427 AAATTACCATTTT-ACCCCTAAACTT
1 AAATTA-CATTTTGACCCCAAAACTT
31178452 CCCTAAATCC
Statistics
Matches: 223, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
29 23 0.10
30 196 0.88
31 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCTA
Found at i:31178487 original size:59 final size:56
Alignment explanation
Indices: 31178424--31178620 Score: 189
Period size: 59 Copynumber: 3.4 Consensus size: 56
31178414 TCGAAACTTT
* *
31178424 CAAAAATTACCATTTTACCCCTAAACTTCCCTAAATCCCATTTTTAACTCCGATTTCAC
1 CAAAAATTACCATTTTACCCC-AAACTTTCC-AAATTCCATTTTTAAC-CCGATTTCAC
* * * * * * * **
31178483 CAAAACTTACCGTTTTGCCTCCGAACTTTCCAAAATTTCATTTTTAACCTTGTTTTTGC
1 CAAAAATTACCATTTTACC-CCAAACTTTCC-AAATTCCATTTTTAACC-CGATTTCAC
* *
31178542 CAAAATTTACCATTTTATTCCCCAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA-
1 CAAAAATTACCATTTTA--CCCCAAACTTTCCAAATTCCATTTTTA-ACCCGATTTCAC
31178600 CAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
31178621 TAAAAACCCA
Statistics
Matches: 110, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
56 4 0.04
58 17 0.15
59 73 0.66
60 14 0.13
61 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.37
Consensus pattern (56 bp):
CAAAAATTACCATTTTACCCCAAACTTTCCAAATTCCATTTTTAACCCGATTTCAC
Found at i:31190451 original size:76 final size:70
Alignment explanation
Indices: 31190379--31190674 Score: 379
Period size: 68 Copynumber: 4.2 Consensus size: 70
31190369 TTCCAATCTG
*
31190379 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGCAAAAATCA
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGC-AAAA-C-
*
31190444 TGTCCAATCCG
63 -GT-C-ATCCC
* *
31190455 CTTGAAATTTAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGC--AACGTC
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAACGTC
31190518 ATCCC
66 ATCCC
* * *
31190523 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTCAGAGC--AACGTC
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAACGTC
31190586 ATCCC
66 ATCCC
* *
31190591 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAGAGC--AACGTC
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAACGTC
* **
31190654 TTCGT
66 ATCCC
31190659 CTCTGAAATTGAAGTA
1 CT-TGAAATTGAAGTA
31190675 AGAGCAACGT
Statistics
Matches: 206, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
68 133 0.65
69 14 0.07
70 2 0.01
72 1 0.00
73 2 0.01
76 54 0.26
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (70 bp):
CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAACGTC
ATCCC
Found at i:31190670 original size:100 final size:99
Alignment explanation
Indices: 31190549--31190953 Score: 376
Period size: 100 Copynumber: 4.0 Consensus size: 99
31190539 AGTGGATAAC
*
31190549 ACGTCTTTATCTCTGAAATTGAAGTCAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTCATCTCTGAAATTGAAGT-AGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
*
31190614 AACACGTCTTCGTCTCTGAAATTGAAGTAAGAGCA
65 AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
31190649 ACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTCATCTCTGAAATTGAAGT-AGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
*
31190714 AACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
65 AACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
* ** * * **
31190749 ACGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTA-A
1 ACGTCTTCATCTCTGAAATTGAAGTAGA---G--CA-ACGTCATCCCCT-TGAAATTGAAGTAGA
** * ** **
31190812 ---GAGCA-ACGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAA
59 GTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A---GAGCA
* * * *
31190852 CACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGCCATCCTCTTGAAATTGAAGTAGAGTGGA
1 -ACGTCTTCATCTCTGAAATTGAAGT-AGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGA
* * * *
31190917 TAACATG-CTTTTATCTCTGAATTTGAAGTAAAAGCA
64 TAACACGTC-TTCATCTCTGAAATTGAAGTAAGAGCA
31190953 A
1 A
31190954 GATCATTTCC
Statistics
Matches: 244, Mismatches: 40, Indels: 42
0.75 0.12 0.13
Matches are distributed among these distances:
98 3 0.01
99 38 0.16
100 123 0.50
101 7 0.03
103 9 0.04
104 24 0.10
105 37 0.15
106 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (99 bp):
ACGTCTTCATCTCTGAAATTGAAGTAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
ACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
Found at i:31190685 original size:26 final size:27
Alignment explanation
Indices: 31190623--31190685 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 27
31190613 TAACACGTCT
31190623 TCGTCTCTGAAATTGAAGTAAGAGCAA
1 TCGTCTCTGAAATTGAAGTAAGAGCAA
31190650 CGTCTTCGTCTCTGAAATTGAAGTAAGAGCAA
1 -----TCGTCTCTGAAATTGAAGTAAGAGCAA
31190682 -CGTC
1 TCGTC
31190686 ATCCCCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.13
32 27 0.87
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (27 bp):
TCGTCTCTGAAATTGAAGTAAGAGCAA
Found at i:31190731 original size:68 final size:68
Alignment explanation
Indices: 31190649--31191034 Score: 522
Period size: 68 Copynumber: 5.5 Consensus size: 68
31190639 AGTAAGAGCA
**
31190649 ACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
31190714 AAC
66 AAC
31190717 ACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
31190782 AAC
66 AAC
**
31190785 ACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
31190850 AAC
66 AAC
* * *
31190853 ACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGCCATCCTCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
31190918 AAC
66 AAC
* * * *
31190921 ATG-CTTTTATCTCTGAATTTGAAGTAAAAGCAAGATCATTTCCTATCCCCTTGAAATTGAAGTA
1 ACGTC-TTTATCTCTGAAATTGAAGTAAGAGC-A-A-C--GT-C-ATCCCCTTGAAATTGAAGTA
*
31190985 GAGCTGGATATC
58 GAG-TGGATAAC
* * * *
31190997 AAGCCTTTGTCCCTCTGAAATTGAAGTAAGAGTAACGT
1 ACGTCTTTAT--CTCTGAAATTGAAGTAAGAGCAACGT
31191035 GAAGCACCAA
Statistics
Matches: 283, Mismatches: 23, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
67 1 0.00
68 221 0.78
69 1 0.00
70 1 0.00
73 1 0.00
74 1 0.00
75 23 0.08
76 14 0.05
77 2 0.01
78 18 0.06
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (68 bp):
ACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
AAC
Found at i:31190768 original size:168 final size:168
Alignment explanation
Indices: 31190490--31190841 Score: 661
Period size: 168 Copynumber: 2.1 Consensus size: 168
31190480 CAAGTCTTTA
31190490 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
31190555 TTATCTCTGAAATTGAAGTCAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG
66 TTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG
* *
31190620 TCTTCGTCTCTGAAATTGAAGTAAGAGCAACGTCTTCG
131 TCTTCGTCTCTGAAATTGAAGTAAGAGCAACGTCATCC
31190658 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
31190723 TTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG
66 TTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG
31190788 TCTTCGTCTCTGAAATTGAAGTAAGAGCAACGTCATCC
131 TCTTCGTCTCTGAAATTGAAGTAAGAGCAACGTCATCC
*
31190826 CCT-TGAAATTGAAGTA
1 TCTCTGAAATTGAAGTA
31190842 GAGTGGATAA
Statistics
Matches: 180, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
167 13 0.07
168 167 0.93
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (168 bp):
TCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
TTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG
TCTTCGTCTCTGAAATTGAAGTAAGAGCAACGTCATCC
Found at i:31190868 original size:236 final size:235
Alignment explanation
Indices: 31190450--31190909 Score: 803
Period size: 236 Copynumber: 2.0 Consensus size: 235
31190440 ATCATGTCCA
* *
31190450 ATCCGCTTGAAATTTAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
* *
31190515 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTCAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
*
31190580 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAG
131 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
* * *
31190645 AGCAACGTCTTCGTCTCTGAAATTGAAGTAAGAGCAACGTC
196 AGCAACGCCATCCTCT-TGAAATTGAAGTAAGAGCAACGTC
*
31190686 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
*
31190751 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAAGAGC
66 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
*
31190816 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
131 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
*
31190881 AGCAATGCCATCCTCTTGAAATTGAAGTA
196 AGCAACGCCATCCTCTTGAAATTGAAGTA
31190910 GAGTGGATAA
Statistics
Matches: 212, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
235 13 0.06
236 199 0.94
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (235 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
AGCAACGCCATCCTCTTGAAATTGAAGTAAGAGCAACGTC
Done.