Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 57 of 132
Found at i:15894154 original size:15 final size:16
Alignment explanation
Indices: 15894134--15894163 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15894124 AAAAGCATTC
15894134 TTAATA-TCCAATTAA
1 TTAATATTCCAATTAA
15894149 TTAATATTCCAATTA
1 TTAATATTCCAATTA
15894164 TGCATCATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAATATTCCAATTAA
Found at i:15908032 original size:20 final size:20
Alignment explanation
Indices: 15908009--15908056 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
15907999 TACATAATAT
15908009 CACTATTCACGACATGACCC
1 CACTATTCACGACATGACCC
* * *
15908029 CACTGTTCATGACTTGACCC
1 CACTATTCACGACATGACCC
15908049 CACTATTC
1 CACTATTC
15908057 TTAGGACTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.38, G:0.10, T:0.27
Consensus pattern (20 bp):
CACTATTCACGACATGACCC
Found at i:15910511 original size:370 final size:368
Alignment explanation
Indices: 15909832--15910546 Score: 1018
Period size: 370 Copynumber: 1.9 Consensus size: 368
15909822 AGATTTGTGC
* ** *
15909832 TTATTTTTAAGCATGATTGTGTTAAATGATTTATTATTTGCATGTTTAAATTTTTTGTTTTCAAT
1 TTATTTTTAAGCATGATTGTGTTAAATGATTTATTATTTGCATATTTAAACCTTTTATTTTCAAT
* *
15909897 TTTTTATGTATAATTGAATGATTGATCGAGCAGGTCGTTTCGACAATCACTATGACACTCTAGAT
66 TTTTTATGTATAATTGAATGATTGATCGAGCAGGTCGCTTCAACAATCACTATGACACTCTAGAT
* * * * * *
15909962 TTTACCGGACTTTAGGGTTGTGCTTAGGCTTAAGGTGTTACACACTTGATAGACAGTTAAGAGCT
131 CTGACAGGACTTTAGGGTTGGGCTTAGGCTTAAAGTGTTACACACTTCATAGACAGTTAAGAGCT
* * * * * * *
15910027 GGCGTGGCAGGTGACATGGCGGATGATGTGGTAGCTAACGTGGAAAAATGATGATGTGGCAACTC
196 GACGTGGCAAGTGACATGACGGATGATGAGGTAGCTAACGTGAAAAAATAATGATGTGGCAACTA
* * *
15910092 ATGTGGCATTTGACTTGGAAAAATAATGATGTGGAGGATTTTATTAATTTTTAATTATTTTACGA
261 ATGTGACATTTGACTTGAAAAAATAATGATGTAGAGGATTTTATTAATTTTTAATTATTTTACGA
* *
15910157 GGTCTTGATTAGTTTTTAGAAATTTGTGTTTAATGATTTTAAT
326 GATCTTGATTAATTTTTAGAAATTTGTGTTTAATGATTTTAAT
*
15910200 TTATTTTTAAGCATGATTGTGTTAAATGATTTATTATTTGCATATTTAAACCTTTTATTTTCATT
1 TTATTTTTAAGCATGATTGTGTTAAATGATTTATTATTTGCATATTTAAACCTTTTATTTTCA-A
* * *
15910265 TTTTTCTATGTATAATTGAATGATTGATCGAGCGGGTCGCTTCAACAATCATTGTGACACTCTAG
65 TTTTT-TATGTATAATTGAATGATTGATCGAGCAGGTCGCTTCAACAATCACTATGACACTCTAG
* * * * *
15910330 ATCTGACAGGACTTTCGGGTTGGGCTTTGGCTTAAAGTGTTGCACCCTTCATAGACCGTTAAGAG
129 ATCTGACAGGACTTTAGGGTTGGGCTTAGGCTTAAAGTGTTACACACTTCATAGACAGTTAAGAG
* * * * * *
15910395 TTGATGTGGCAAGTGACATGACGGGTGATGAGGTAGCTATCGTGAAAAAATAATGATGTGTCGAC
194 CTGACGTGGCAAGTGACATGACGGATGATGAGGTAGCTAACGTGAAAAAATAATGATGTGGCAAC
** *
15910460 TAATGTGACATTTGA-TGTGAAAAAATGTTTATGTAGAGGATTTTATTAATTTTTAATTATTTTA
259 TAATGTGACATTTGACT-TGAAAAAATAATGATGTAGAGGATTTTATTAATTTTTAATTATTTTA
15910524 CGAGATCTTGATTAATTTTTAGA
323 CGAGATCTTGATTAATTTTTAGA
15910547 TATTATCTAA
Statistics
Matches: 302, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
368 59 0.20
369 6 0.02
370 237 0.78
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (368 bp):
TTATTTTTAAGCATGATTGTGTTAAATGATTTATTATTTGCATATTTAAACCTTTTATTTTCAAT
TTTTTATGTATAATTGAATGATTGATCGAGCAGGTCGCTTCAACAATCACTATGACACTCTAGAT
CTGACAGGACTTTAGGGTTGGGCTTAGGCTTAAAGTGTTACACACTTCATAGACAGTTAAGAGCT
GACGTGGCAAGTGACATGACGGATGATGAGGTAGCTAACGTGAAAAAATAATGATGTGGCAACTA
ATGTGACATTTGACTTGAAAAAATAATGATGTAGAGGATTTTATTAATTTTTAATTATTTTACGA
GATCTTGATTAATTTTTAGAAATTTGTGTTTAATGATTTTAAT
Found at i:15911369 original size:29 final size:30
Alignment explanation
Indices: 15911308--15911369 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
15911298 ATTATATTTG
*
15911308 AGGGCTCAATTGATTGCTAACTTTTAATTA
1 AGGGCTCAATTGATTGCTAACTTTTAATGA
*
15911338 AGGGCTCAATTGATT-CTAATTTTTAATGA
1 AGGGCTCAATTGATTGCTAACTTTTAATGA
15911367 AGG
1 AGG
15911370 ATTCAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (30 bp):
AGGGCTCAATTGATTGCTAACTTTTAATGA
Found at i:15911375 original size:29 final size:30
Alignment explanation
Indices: 15911312--15911377 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
15911302 TATTTGAGGG
* *
15911312 CTCAATTGATTGCTAACTTTTAATTAAGGG
1 CTCAATTGATTGCTAACTTTTAATGAAGGA
*
15911342 CTCAATTGATT-CTAATTTTTAATGAAGGA
1 CTCAATTGATTGCTAACTTTTAATGAAGGA
*
15911371 TTCAATT
1 CTCAATT
15911378 AATTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (30 bp):
CTCAATTGATTGCTAACTTTTAATGAAGGA
Found at i:15911628 original size:24 final size:24
Alignment explanation
Indices: 15911601--15911653 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
15911591 TTATGAAAAG
*
15911601 AAATAACAAAGATTTTATACTAAT
1 AAATAACAAAGATATTATACTAAT
* * **
15911625 AAATATCAAATATATTATGTTAAT
1 AAATAACAAAGATATTATACTAAT
15911649 AAATA
1 AAATA
15911654 TTAAATCTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATAACAAAGATATTATACTAAT
Found at i:15913286 original size:20 final size:20
Alignment explanation
Indices: 15913274--15913312 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15913264 TTAAATAGGT
15913274 TTAATTAAATTTAAAAATGG
1 TTAATTAAATTTAAAAATGG
* *
15913294 TTAATTAAACTTAATAATG
1 TTAATTAAATTTAAAAATG
15913313 AAAGTCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (20 bp):
TTAATTAAATTTAAAAATGG
Found at i:15915040 original size:71 final size:71
Alignment explanation
Indices: 15914949--15915144 Score: 374
Period size: 71 Copynumber: 2.8 Consensus size: 71
15914939 CATGTACCGA
15914949 TAGAAGTACAGGGTAGGAGAGAGGTTATTCTCTGACTTGTATTGTATCGGTAGTTTAATTATAGG
1 TAGAAGTACAGGGTAGGAGAGAGGTTATTCTCTGACTTGTATTGTATCGGTAGTTTAATTATAGG
15915014 TATCGG
66 TATCGG
*
15915020 TAGAAGTACAGGGTAGGAGAGAGGTTATTCTCTGACTTGTATTGTATCGGTAGTTTAATTGTAGG
1 TAGAAGTACAGGGTAGGAGAGAGGTTATTCTCTGACTTGTATTGTATCGGTAGTTTAATTATAGG
15915085 TATCGG
66 TATCGG
*
15915091 TAGAAGTACAGGGTAGGAGAGAGGTTATTCTCTGGCTTGTATTGTATCGGTAGT
1 TAGAAGTACAGGGTAGGAGAGAGGTTATTCTCTGACTTGTATTGTATCGGTAGT
15915145 AAGCTTGTAT
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 123 1.00
ACGTcount: A:0.26, C:0.09, G:0.31, T:0.35
Consensus pattern (71 bp):
TAGAAGTACAGGGTAGGAGAGAGGTTATTCTCTGACTTGTATTGTATCGGTAGTTTAATTATAGG
TATCGG
Found at i:15916433 original size:24 final size:24
Alignment explanation
Indices: 15916406--15916458 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
15916396 TTATGGAAAG
*
15916406 AAATAACAAAGATTTTATACTAAT
1 AAATAACAAAGATATTATACTAAT
* * *
15916430 AAATATCAAATATATTATGCTAAT
1 AAATAACAAAGATATTATACTAAT
15916454 AAATA
1 AAATA
15916459 CTAAATCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAACAAAGATATTATACTAAT
Found at i:15925620 original size:21 final size:21
Alignment explanation
Indices: 15925594--15925647 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
15925584 GGAGTTTTTA
*
15925594 GTATCGGTAGAAGCAT-GACTT
1 GTATCGGTAGAAG-ATACACTT
*
15925615 GTATCGGTAGAAGTTACACTT
1 GTATCGGTAGAAGATACACTT
15925636 GTATCGGTAGAA
1 GTATCGGTAGAA
15925648 ATGTCACAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (21 bp):
GTATCGGTAGAAGATACACTT
Found at i:15931206 original size:18 final size:18
Alignment explanation
Indices: 15931183--15931218 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15931173 AGTTCATAAT
15931183 GTTAAATTCTTATTTATA
1 GTTAAATTCTTATTTATA
15931201 GTTAAATTCTTATTTATA
1 GTTAAATTCTTATTTATA
15931219 ATTGCACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
GTTAAATTCTTATTTATA
Found at i:15936423 original size:25 final size:23
Alignment explanation
Indices: 15936395--15936440 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
15936385 GTTGGATCCA
15936395 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
15936420 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
15936441 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:15936529 original size:13 final size:13
Alignment explanation
Indices: 15936508--15936541 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15936498 ACAATATAAC
15936508 AATAATAATCCTA
1 AATAATAATCCTA
*
15936521 AATATTAATCCTA
1 AATAATAATCCTA
*
15936534 AAAAATAA
1 AATAATAA
15936542 AATTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:15937493 original size:16 final size:16
Alignment explanation
Indices: 15937472--15937511 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
15937462 CACACTTTTG
15937472 TCTTTTTTCTTCTTCT
1 TCTTTTTTCTTCTTCT
*
15937488 TCTTTTTTCTTTTTCT
1 TCTTTTTTCTTCTTCT
15937504 T-TTTTTTC
1 TCTTTTTTC
15937512 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TCTTTTTTCTTCTTCT
Found at i:15938489 original size:5 final size:5
Alignment explanation
Indices: 15938479--15938527 Score: 53
Period size: 5 Copynumber: 8.8 Consensus size: 5
15938469 AGTGCATAAT
15938479 TAAAA TAAAA TTAAAAA TAAAA TAAAA TAAAA CTAAAAA TGAAAA TAAA
1 TAAAA TAAAA -T-AAAA TAAAA TAAAA TAAAA -T-AAAA T-AAAA TAAA
15938528 TATACTAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 22 0.56
6 9 0.23
7 8 0.21
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:15938492 original size:11 final size:11
Alignment explanation
Indices: 15938476--15938516 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
15938466 AATAGTGCAT
15938476 AATTAAAATAA
1 AATTAAAATAA
15938487 AATTAAAAATAA
1 AATT-AAAATAA
15938499 AA-TAAAATAA
1 AATTAAAATAA
*
15938509 AACTAAAA
1 AATTAAAA
15938517 ATGAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.32
11 10 0.36
12 9 0.32
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (11 bp):
AATTAAAATAA
Found at i:15938499 original size:17 final size:16
Alignment explanation
Indices: 15938479--15938527 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
15938469 AGTGCATAAT
15938479 TAAAATAAAATTAAAAA
1 TAAAATAAAA-TAAAAA
*
15938496 TAAAATAAAATAAAAC
1 TAAAATAAAATAAAAA
15938512 TAAAAATGAAAATAAA
1 T-AAAAT-AAAATAAA
15938528 TATACTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 6 0.21
17 15 0.52
18 8 0.28
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:15938504 original size:22 final size:23
Alignment explanation
Indices: 15938479--15938527 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
15938469 AGTGCATAAT
*
15938479 TAAAATAAAATTAAAAAT-AAAA
1 TAAAATAAAACTAAAAATGAAAA
15938501 TAAAATAAAACTAAAAATGAAAA
1 TAAAATAAAACTAAAAATGAAAA
15938524 TAAA
1 TAAA
15938528 TATACTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (23 bp):
TAAAATAAAACTAAAAATGAAAA
Found at i:15938527 original size:12 final size:12
Alignment explanation
Indices: 15938480--15938527 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
15938470 GTGCATAATT
*
15938480 AAAATAAAATTA
1 AAAATAAAACTA
15938492 AAAATAAAA-T-
1 AAAATAAAACTA
15938502 AAAATAAAACTA
1 AAAATAAAACTA
15938514 AAAATGAAAA-TA
1 AAAAT-AAAACTA
15938526 AA
1 AA
15938528 TATACTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.27
11 2 0.06
12 18 0.55
13 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (12 bp):
AAAATAAAACTA
Found at i:15941407 original size:17 final size:18
Alignment explanation
Indices: 15941385--15941445 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
15941375 TAGAAACAAA
15941385 TAAAAAGGAAAAA-AAAT
1 TAAAAAGGAAAAATAAAT
15941402 TAAAAAGGAAAAATTAAAT
1 TAAAAAGGAAAAA-TAAAT
* * *
15941421 TAAAATGAAAATAATAAAA
1 TAAAAAGGAAA-AATAAAT
15941440 TAAAAA
1 TAAAAA
15941446 TAAATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 13 0.35
19 22 0.59
20 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (18 bp):
TAAAAAGGAAAAATAAAT
Found at i:15941438 original size:14 final size:15
Alignment explanation
Indices: 15941410--15941462 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
15941400 ATTAAAAAGG
15941410 AAAAATTAAATTAAAAT
1 AAAAA-TAAA-TAAAAT
*
15941427 GAAAAT-AATAAAAT
1 AAAAATAAATAAAAT
15941441 AAAAATAAATAAAAAT
1 AAAAATAAAT-AAAAT
15941457 AAAAAT
1 AAAAAT
15941463 GGCTAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 11 0.34
15 5 0.16
16 12 0.38
17 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAAATAAATAAAAT
Found at i:15941469 original size:16 final size:16
Alignment explanation
Indices: 15941382--15941462 Score: 69
Period size: 17 Copynumber: 5.0 Consensus size: 16
15941372 TGCTAGAAAC
*
15941382 AAATAAAAAGGAAAAA-
1 AAATAAAAA-TAAAAAT
*
15941398 AAATTAAAAAGGAAAAATT
1 AAA-TAAAAA-TAAAAA-T
* *
15941417 AAATTAAAATGAAAAT
1 AAATAAAAATAAAAAT
15941433 -AAT-AAAATAAAAAT
1 AAATAAAAATAAAAAT
15941447 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
15941463 GGCTAAAGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
15 6 0.11
16 15 0.27
17 17 0.30
18 5 0.09
19 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:15942660 original size:13 final size:13
Alignment explanation
Indices: 15942639--15942672 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15942629 ACAATATAAC
15942639 AATAATAATCCTA
1 AATAATAATCCTA
*
15942652 AATATTAATCCTA
1 AATAATAATCCTA
*
15942665 AAAAATAA
1 AATAATAA
15942673 AATTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:15943119 original size:15 final size:15
Alignment explanation
Indices: 15943099--15943142 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
15943089 TTATAAATAC
15943099 TAAAAAATTATATTA
1 TAAAAAATTATATTA
*
15943114 TAAAAAATTGTATATTT
1 TAAAAAA-T-TATATTA
*
15943131 TATAAAATTATA
1 TAAAAAATTATA
15943143 ACAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 11 0.44
16 2 0.08
17 12 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
TAAAAAATTATATTA
Found at i:15944309 original size:48 final size:47
Alignment explanation
Indices: 15944228--15944341 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 47
15944218 GACCTTTACA
* *
15944228 AAAACCCAAATTTTATTATTTATTTATAAATAAATAATTGAATAAAAT
1 AAAA-CCAAATTTTATTATTTATTTATAAATAAATAAATAAATAAAAT
**
15944276 AAAATCCAAATTTTATT-TGTTATTTATTTATAAATAAATAAATAAAAT
1 AAAA-CCAAATTTTATTAT-TTATTTATAAATAAATAAATAAATAAAAT
15944324 AAAACTCAAATTTTATTA
1 AAAAC-CAAATTTTATTA
15944342 AACCCAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
47 2 0.03
48 56 0.97
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (47 bp):
AAAACCAAATTTTATTATTTATTTATAAATAAATAAATAAATAAAAT
Found at i:15945330 original size:23 final size:23
Alignment explanation
Indices: 15945303--15945383 Score: 119
Period size: 23 Copynumber: 3.5 Consensus size: 23
15945293 TCATATTTTA
*
15945303 TTTATTTATTTATTTTGCATGAT
1 TTTATTTATTTAATTTGCATGAT
15945326 TTTATTTATTTAATTTGCATGAT
1 TTTATTTATTTAATTTGCATGAT
*
15945349 TTTAATTTGTTTAATTT-CATGAT
1 TTT-ATTTATTTAATTTGCATGAT
*
15945372 TTTAATTATTTA
1 TTTATTTATTTA
15945384 TTTTATTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
22 7 0.13
23 34 0.64
24 12 0.23
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (23 bp):
TTTATTTATTTAATTTGCATGAT
Found at i:15945403 original size:46 final size:48
Alignment explanation
Indices: 15945300--15945405 Score: 121
Period size: 46 Copynumber: 2.3 Consensus size: 48
15945290 CTCTCATATT
* * *
15945300 TTATTTATTTATTTATTTTGCATGATTTTATTTATTTAATTTGCATGA
1 TTATTTATTTGTTTAATTTGCATGATTTTAATTATTTAATTTGCATGA
* * *
15945348 TT-TTAATTTGTTTAATTT-CATGATTTTAATTATTT-ATTT-TATTTA
1 TTATTTATTTGTTTAATTTGCATGATTTTAATTATTTAATTTGCA-TGA
15945393 TTATTTATTTGTT
1 TTATTTATTTGTT
15945406 ACCCATATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
44 1 0.02
45 8 0.16
46 25 0.51
47 13 0.27
48 2 0.04
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.66
Consensus pattern (48 bp):
TTATTTATTTGTTTAATTTGCATGATTTTAATTATTTAATTTGCATGA
Found at i:15945583 original size:17 final size:16
Alignment explanation
Indices: 15945561--15945592 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15945551 TTGATTGACA
15945561 TTTATTGTGATTATTAT
1 TTTATTGTG-TTATTAT
15945578 TTTATTGTGTTATTA
1 TTTATTGTGTTATTA
15945593 ATTGTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (16 bp):
TTTATTGTGTTATTAT
Found at i:15945600 original size:17 final size:17
Alignment explanation
Indices: 15945563--15945600 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
15945553 GATTGACATT
*
15945563 TATTGTGATTATTATTT
1 TATTGTGATTATTATTG
15945580 TATTGTG-TTATTAATTG
1 TATTGTGATTATT-ATTG
15945597 TATT
1 TATT
15945601 TATTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (17 bp):
TATTGTGATTATTATTG
Found at i:15945627 original size:35 final size:35
Alignment explanation
Indices: 15945574--15945641 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
15945564 ATTGTGATTA
*
15945574 TTATTTTATTGTGTTATTAATTGTATTTATTTAAT
1 TTATTTTATTATGTTATTAATTGTATTTATTTAAT
* *
15945609 TTATTTTATTCATG-TATTATTTTTATTTATTTA
1 TTATTTTATT-ATGTTATTAATTGTATTTATTTA
15945642 TTTTGTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.93
36 2 0.07
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (35 bp):
TTATTTTATTATGTTATTAATTGTATTTATTTAAT
Found at i:15948888 original size:16 final size:16
Alignment explanation
Indices: 15948869--15948914 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
15948859 CTTGAAACCT
15948869 AAAAAAAAAGAAAACA
1 AAAAAAAAAGAAAACA
15948885 AAAAAAATAA-AAAACA
1 AAAAAAA-AAGAAAACA
*
15948901 AAAAGAAAAGAAAA
1 AAAAAAAAAGAAAA
15948915 TCAAGATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 23 0.85
17 2 0.07
ACGTcount: A:0.87, C:0.04, G:0.07, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAGAAAACA
Found at i:15949858 original size:31 final size:30
Alignment explanation
Indices: 15949823--15949893 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 30
15949813 TTCACCCCAA
*
15949823 AAAAAAGAAAGAAGAAGAAAGAAAACAAGAG
1 AAAAAAGAAA-AAGAAGAAAGAAAAAAAGAG
*
15949854 AAAAAAG--AAATAAGAAAGAAAAAAAGAG
1 AAAAAAGAAAAAGAAGAAAGAAAAAAAGAG
15949882 -AAAAAGAAAAAG
1 AAAAAAGAAAAAG
15949894 GAGTGGTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 6 0.17
28 18 0.51
29 4 0.11
31 7 0.20
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.01
Consensus pattern (30 bp):
AAAAAAGAAAAAGAAGAAAGAAAAAAAGAG
Found at i:15949871 original size:11 final size:10
Alignment explanation
Indices: 15949824--15949890 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
15949814 TCACCCCAAA
15949824 AAAAAGAAAG
1 AAAAAGAAAG
*
15949834 AAGAAGAAAG
1 AAAAAGAAAG
*
15949844 -AAAA-CAAG
1 AAAAAGAAAG
*
15949852 AGAAA-AAAG
1 AAAAAGAAAG
15949861 AAATAAGAAAG
1 AAA-AAGAAAG
15949872 AAAAA-AAGAG
1 AAAAAGAA-AG
15949882 AAAAAGAAA
1 AAAAAGAAA
15949891 AAGGAGTGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
8 3 0.07
9 13 0.28
10 21 0.46
11 9 0.20
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:15949892 original size:7 final size:7
Alignment explanation
Indices: 15949823--15949892 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
15949813 TTCACCCCAA
15949823 AAAAAAG
1 AAAAAAG
*
15949830 AAAGAAG
1 AAAAAAG
*
15949837 AAGAAAG
1 AAAAAAG
15949844 AAAACAAGAG
1 -AAA-AA-AG
15949854 AAAAAAG
1 AAAAAAG
*
15949861 AAATAAG
1 AAAAAAG
*
15949868 -AAAGA-
1 AAAAAAG
15949873 AAAAAAG
1 AAAAAAG
15949880 AGAAAAAG
1 A-AAAAAG
15949888 AAAAA
1 AAAAA
15949893 GGAGTGGTCG
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
6 7 0.14
7 24 0.49
8 11 0.22
9 5 0.10
10 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.19, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:15950400 original size:112 final size:113
Alignment explanation
Indices: 15950203--15950406 Score: 302
Period size: 112 Copynumber: 1.8 Consensus size: 113
15950193 AATGTAAGTT
* * * * * * * *
15950203 ATTTTTAATCTTTTAATTCATGCGAGCTTTGCCTCTAATAAAATTTAATTTTTTCCGCCTTGCGA
1 ATTTTTAATCTTATAATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
15950268 CCCTGTTCAAGCATTTTTGCA-TCAAAATAATGGTTAGTGGACCAATG
66 CCCTGTTCAAGCATTTTTGCATTCAAAATAATGGTTAGTGGACCAATG
* *
15950315 ATTTTTAGTCTTATCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
1 ATTTTTAATCTTATAATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
*
15950380 TCCTGTTCAAGCATTTTTGCATTCAAA
66 CCCTGTTCAAGCATTTTTGCATTCAAA
15950407 TAGCTATTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
112 75 0.94
113 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (113 bp):
ATTTTTAATCTTATAATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
CCCTGTTCAAGCATTTTTGCATTCAAAATAATGGTTAGTGGACCAATG
Found at i:15950893 original size:49 final size:49
Alignment explanation
Indices: 15950814--15950972 Score: 135
Period size: 49 Copynumber: 3.2 Consensus size: 49
15950804 GCTGCAACGA
* * * * *
15950814 CGAATCTTGTACCCTAGAAATGTCG-TGGGAAAGTTTGAAGACGTAATGG
1 CGAATCTTATACCCTAGAGATAT-GAAGGGAAAGATTGAAGACGTAATGG
* * * *
15950863 CGAATCTTGTACTCTAGAGATATGAAGGGAAAGGTTGAAGCCG-AAGTGG
1 CGAATCTTATACCCTAGAGATATGAAGGGAAAGATTGAAGACGTAA-TGG
** * * * *
15950912 TAAACCTTATACCCTAGAGACATGAAAGGAAAGATTGAA-ATCGTAATGA
1 CGAATCTTATACCCTAGAGATATGAAGGGAAAGATTGAAGA-CGTAATGG
15950961 CGAATCTTATAC
1 CGAATCTTATAC
15950973 TCTGAAGATA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
48 3 0.03
49 82 0.94
50 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (49 bp):
CGAATCTTATACCCTAGAGATATGAAGGGAAAGATTGAAGACGTAATGG
Found at i:15950996 original size:49 final size:49
Alignment explanation
Indices: 15950943--15951055 Score: 172
Period size: 49 Copynumber: 2.3 Consensus size: 49
15950933 ATGAAAGGAA
* *
15950943 AGATTGAAATCGTAATGACGAATCTTATACTCTGAAGATAAGAAGAAGC
1 AGATTGAAGTCGTAACGACGAATCTTATACTCTGAAGATAAGAAGAAGC
* * * *
15950992 AGATTGAAGTCGCAACGACGAATCTTATACTTTGAAGATGAGGAGAAGC
1 AGATTGAAGTCGTAACGACGAATCTTATACTCTGAAGATAAGAAGAAGC
15951041 AGATTGAAGTCGTAA
1 AGATTGAAGTCGTAA
15951056 AGGCAAATCT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (49 bp):
AGATTGAAGTCGTAACGACGAATCTTATACTCTGAAGATAAGAAGAAGC
Found at i:15953270 original size:24 final size:24
Alignment explanation
Indices: 15953237--15953311 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
15953227 AGAAATAATC
* *
15953237 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
* *
15953261 TTTCTATTAAACTCTTTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
15953285 TTTCAATTAAACGT-TGTTTATTTG
1 TTTCAATTAAAC-TCTGTTTATTTG
15953309 TTT
1 TTT
15953312 GAGTCAAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
24 43 0.98
25 1 0.02
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:15955281 original size:24 final size:24
Alignment explanation
Indices: 15955248--15955298 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
15955238 AGAAATAATA
*
15955248 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTAATTG
*
15955272 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTAATTG
15955296 TTT
1 TTT
15955299 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTAATTG
Found at i:15955307 original size:24 final size:24
Alignment explanation
Indices: 15955256--15955310 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
15955246 TATTTCAGTT
*
15955256 AAACTCTGTTTAATTGTTTCAATT
1 AAACTCTGTTTAATTGTTTCAATC
* * *
15955280 AAACTCTGTTTATTTGTTTGAGTC
1 AAACTCTGTTTAATTGTTTCAATC
15955304 AAACTCT
1 AAACTCT
15955311 TATTAGTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (24 bp):
AAACTCTGTTTAATTGTTTCAATC
Found at i:15963020 original size:72 final size:72
Alignment explanation
Indices: 15962883--15963020 Score: 168
Period size: 72 Copynumber: 1.9 Consensus size: 72
15962873 ATACTCCATC
* * * ** * *
15962883 AACTCCTCCTTCAGCTTATCCAAAACTTGTTTGGGAGTTTCATAGGGGTGAGTTGCTGTTGCCTT
1 AACTCCTCCTTCAGCTTATCCAAAACTTGTTTGAGAGTCTCACAAAGGTGAGTTGCTGCTACCTT
15962948 ACCTTGG
66 ACCTTGG
* * * * *
15962955 AACTCCTCCTTTAGCTTGTCCCAAGCTTGTTTGAGAGTCTCACAAAGGTGAGTTGTTGCTACCTT
1 AACTCCTCCTTCAGCTTATCCAAAACTTGTTTGAGAGTCTCACAAAGGTGAGTTGCTGCTACCTT
15963020 A
66 A
15963021 ACAAGTAGCC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (72 bp):
AACTCCTCCTTCAGCTTATCCAAAACTTGTTTGAGAGTCTCACAAAGGTGAGTTGCTGCTACCTT
ACCTTGG
Found at i:15969623 original size:55 final size:55
Alignment explanation
Indices: 15969530--15969694 Score: 242
Period size: 55 Copynumber: 3.0 Consensus size: 55
15969520 GTGTGCTATG
* **
15969530 TAACAATCGATTTAAACATATAAACAATTGATTCAAAAGAAGTTGTATTCCAACA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
* *
15969585 TAACAATCGATTTAAACATATAAACAATCAATTTAAAAGAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
* * *
15969640 TGACAGTTGATTTAAACATATCAAA-AATCGATTCAAAAGAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATAT-AAACAATCGATTCAAAAGAAGCAGTATTCCAACA
15969695 ATTAAGAAGA
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 96 0.97
56 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.27
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
Found at i:15969949 original size:6 final size:6
Alignment explanation
Indices: 15969938--15969984 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
15969928 ACATCCATTA
* * * *
15969938 CATTTC CATTTC CATTTC CATTTT CATAT- CATTTT CATTTT CATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
15969985 ATATTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (6 bp):
CATTTC
Found at i:15969970 original size:17 final size:17
Alignment explanation
Indices: 15969950--15969986 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15969940 TTTCCATTTC
15969950 CATTTCCATTTTCATAT
1 CATTTCCATTTTCATAT
* *
15969967 CATTTTCATTTTCATTT
1 CATTTCCATTTTCATAT
15969984 CAT
1 CAT
15969987 ATTTAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.57
Consensus pattern (17 bp):
CATTTCCATTTTCATAT
Found at i:15969970 original size:23 final size:22
Alignment explanation
Indices: 15969944--15969988 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15969934 ATTACATTTC
15969944 CATTTCCATTTCCATTTTCATAT
1 CATTTCCATTTCCA-TTTCATAT
* *
15969967 CATTTTCATTTTCATTTCATAT
1 CATTTCCATTTCCATTTCATAT
15969989 TTAAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (22 bp):
CATTTCCATTTCCATTTCATAT
Found at i:15971024 original size:27 final size:25
Alignment explanation
Indices: 15970971--15971024 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
15970961 GGAGGGTTAT
* * *
15970971 AATATATATACAAAGGGGACTTTCA
1 AATATATATACAAAGGGAAATTACA
15970996 AATATATATACAAAGGGAAAAATTACA
1 AATATATATACAAAGGG--AAATTACA
15971023 AA
1 AA
15971025 AATCTTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.71
27 7 0.29
ACGTcount: A:0.54, C:0.09, G:0.13, T:0.24
Consensus pattern (25 bp):
AATATATATACAAAGGGAAATTACA
Found at i:15972844 original size:30 final size:30
Alignment explanation
Indices: 15972808--15972907 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 30
15972798 ACAGTTGAAG
15972808 AAAAAAAATTGAGATCTCTTAAAAAATAGT
1 AAAAAAAATTGAGATCTCTTAAAAAATAGT
** * * **
15972838 AAAAAAAATTTTGATTTCTTAAAAACTAAAA
1 AAAAAAAATTGAGATCTCTTAAAAAAT-AGT
* * * *
15972869 AAAAAAAATTTGAGACCCCTTAAAAATTGGT
1 AAAAAAAA-TTGAGATCTCTTAAAAAATAGT
15972900 AAAAAAAA
1 AAAAAAAA
15972908 ATTTAACCTT
Statistics
Matches: 53, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
30 23 0.43
31 17 0.32
32 13 0.25
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (30 bp):
AAAAAAAATTGAGATCTCTTAAAAAATAGT
Found at i:15977796 original size:199 final size:199
Alignment explanation
Indices: 15977350--15978039 Score: 1049
Period size: 199 Copynumber: 3.5 Consensus size: 199
15977340 GGAAAAATAA
* * *
15977350 GTATTGATACTTATATGGGTATAGATACCAAATTGGCATTTTGTTGATTTAAAAATACTATTCAT
1 GTATTGATACTTATATGGGTATCGATACCAAATTGGCATTTTGTTGATTTAAAAATAATGTTCAT
* * * *
15977415 TTGGAAAAATATCAATACTTCAACTTATAGTATCGATACTTTTTGCCAAAAAGTTAAAAATTTCA
66 TTGGAAAAATATCAATACTTCAACCTATAGTATTGATACTTTTTGCCAGAAAGTTAAAAATCTCA
* * *
15977480 TGTTTGGTAGGCTTTCTTATGCT-AAACCAAAACCAACTAAAAAAGAACCTTAAGTACACATATA
131 TGTTTGGTATGATTTCTCATGCTCAAACCAAAACCAACTAAAAAAGAACCTTAAGTACACATATA
15977544 ACTT
196 ACTT
* *
15977548 GTATTGATACTTATATGGATATCGATACCAAATTGGCATTTTATTGATTTAAAAATAATGTTCAT
1 GTATTGATACTTATATGGGTATCGATACCAAATTGGCATTTTGTTGATTTAAAAATAATGTTCAT
** * *
15977613 TTGGAAAAATATTGATATTTCAACCTATAGTATTGATACTTTTTACCAGAAAGTTAAAAATCTCA
66 TTGGAAAAATATCAATACTTCAACCTATAGTATTGATACTTTTTGCCAGAAAGTTAAAAATCTCA
*
15977678 TGTTTGGTATGATTTCTCATGCTCAAACCAAAACCAACTAAAAAAGAACCGTAAGTACACATATA
131 TGTTTGGTATGATTTCTCATGCTCAAACCAAAACCAACTAAAAAAGAACCTTAAGTACACATATA
15977743 ACTT
196 ACTT
* * *
15977747 GTATTGATACTTATATAGGTATCGATACCAAATTGACATTTTGTTGATTTAAAAATATTGTTCAT
1 GTATTGATACTTATATGGGTATCGATACCAAATTGGCATTTTGTTGATTTAAAAATAATGTTCAT
*
15977812 TTGGAAAAATATCAATACTTCAACCTACAGTATTGATACTTTTTGCCAGAAAGTTAAAAATCTC-
66 TTGGAAAAATATCAATACTTCAACCTATAGTATTGATACTTTTTGCCAGAAAGTTAAAAATCTCA
* *
15977876 --------ATCATTTCTCATGCTCAAACCAAAACCAACTAAAAACGAACCTTAAGTACACATATA
131 TGTTTGGTATGATTTCTCATGCTCAAACCAAAACCAACTAAAAAAGAACCTTAAGTACACATATA
15977933 ACTT
196 ACTT
* * *
15977937 GTATTGATACTTATATGGGTATCGATATCAAATTGGCATTCTGTTGTTTTAAAAATAATGTTCAT
1 GTATTGATACTTATATGGGTATCGATACCAAATTGGCATTTTGTTGATTTAAAAATAATGTTCAT
** *
15978002 TTGGAAAAATATTGATACTTCAACTTATAGTATTGATA
66 TTGGAAAAATATCAATACTTCAACCTATAGTATTGATA
15978040 ACTTCATTCC
Statistics
Matches: 451, Mismatches: 40, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
190 151 0.33
198 137 0.30
199 163 0.36
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (199 bp):
GTATTGATACTTATATGGGTATCGATACCAAATTGGCATTTTGTTGATTTAAAAATAATGTTCAT
TTGGAAAAATATCAATACTTCAACCTATAGTATTGATACTTTTTGCCAGAAAGTTAAAAATCTCA
TGTTTGGTATGATTTCTCATGCTCAAACCAAAACCAACTAAAAAAGAACCTTAAGTACACATATA
ACTT
Found at i:15980729 original size:48 final size:49
Alignment explanation
Indices: 15980672--15980767 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 49
15980662 TGGTTAAACT
15980672 CTATCTGGGCTCGAATGAGCTAA-CTTATCTAGGCTCGTAAGAGCTAAC
1 CTATCTGGGCTCGAATGAGCTAATCTTATCTAGGCTCGTAAGAGCTAAC
* * * *
15980720 CTATCTGGGCTCGTATGAGCTAATTTTGTCTAGGCTCGTATGAGCTAA
1 CTATCTGGGCTCGAATGAGCTAATCTTATCTAGGCTCGTAAGAGCTAA
15980768 ATTTCTGGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 22 0.51
49 21 0.49
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (49 bp):
CTATCTGGGCTCGAATGAGCTAATCTTATCTAGGCTCGTAAGAGCTAAC
Found at i:15980758 original size:25 final size:24
Alignment explanation
Indices: 15980668--15980767 Score: 119
Period size: 24 Copynumber: 4.1 Consensus size: 24
15980658 ATACTGGTTA
* *
15980668 AACTCTATCTGGGCTCGAATGAGCT
1 AACT-TATCTAGGCTCGTATGAGCT
*
15980693 AACTTATCTAGGCTCGTAAGAGCT
1 AACTTATCTAGGCTCGTATGAGCT
* *
15980717 AACCTATCTGGGCTCGTATGAGCT
1 AACTTATCTAGGCTCGTATGAGCT
* *
15980741 AATTTTGTCTAGGCTCGTATGAGCT
1 AA-CTTATCTAGGCTCGTATGAGCT
15980766 AA
1 AA
15980768 ATTTCTGGAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 40 0.62
25 24 0.38
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (24 bp):
AACTTATCTAGGCTCGTATGAGCT
Found at i:15982461 original size:44 final size:44
Alignment explanation
Indices: 15982412--15982503 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
15982402 AAATAAATTG
* *
15982412 TGGTGATTCCTATACAACGCACTTAGTCACCAAAAATCTGCAAA
1 TGGTGATTCCAATACAACGCACTTAGTCACCAAAAATCAGCAAA
* * * * *
15982456 TGGTGATTTCAATACGATGCACTTAGTCACTAAAAGTCAGCAAA
1 TGGTGATTCCAATACAACGCACTTAGTCACCAAAAATCAGCAAA
15982500 TGGT
1 TGGT
15982504 TATATGCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (44 bp):
TGGTGATTCCAATACAACGCACTTAGTCACCAAAAATCAGCAAA
Found at i:15983698 original size:18 final size:18
Alignment explanation
Indices: 15983675--15983712 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15983665 TAATATAGTT
*
15983675 TTATTCG-GTTTATTCGAA
1 TTATTCGAG-TTATTCAAA
15983693 TTATTCGAGTTATTCAAA
1 TTATTCGAGTTATTCAAA
15983711 TT
1 TT
15983713 CCAAAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCAAA
Found at i:15984233 original size:23 final size:22
Alignment explanation
Indices: 15984191--15984240 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
15984181 TAATATGTAT
15984191 CATAATATTTTTTTATTATTTA
1 CATAATATTTTTTTATTATTTA
15984213 CATAATTATTTATTTTA-TATTTA
1 CATAA-TATTT-TTTTATTATTTA
*
15984236 AATAA
1 CATAA
15984241 CCATTTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 5 0.20
23 15 0.60
24 5 0.20
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
CATAATATTTTTTTATTATTTA
Found at i:15984246 original size:23 final size:23
Alignment explanation
Indices: 15984197--15984247 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
15984187 GTATCATAAT
* **
15984197 ATTTTTTTATTATTTACATAATT
1 ATTTTTTTATTATTTAAATAACC
15984220 ATTTATTTTA-TATTTAAATAACC
1 ATTT-TTTTATTATTTAAATAACC
15984243 ATTTT
1 ATTTT
15984248 GATCCTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 18 0.75
24 5 0.21
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTTTATTATTTAAATAACC
Found at i:15984309 original size:16 final size:16
Alignment explanation
Indices: 15984288--15984323 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
15984278 TTTAATAAGT
15984288 GTTAGCGTGATGATAA
1 GTTAGCGTGATGATAA
15984304 GTTAGCGTGATGATAA
1 GTTAGCGTGATGATAA
15984320 GTTA
1 GTTA
15984324 CATCACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.33
Consensus pattern (16 bp):
GTTAGCGTGATGATAA
Found at i:15984579 original size:18 final size:19
Alignment explanation
Indices: 15984556--15984596 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15984546 TTTTTATATA
*
15984556 TTAAATATA-AATTTTATT
1 TTAAATACATAATTTTATT
*
15984574 TTAAATACATTATTTTATT
1 TTAAATACATAATTTTATT
15984593 TTAA
1 TTAA
15984597 GATTTTACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAAATACATAATTTTATT
Found at i:15985421 original size:20 final size:19
Alignment explanation
Indices: 15985396--15985434 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
15985386 AAAAACAATA
15985396 TTAAAAT-TGAAATAGATATT
1 TTAAAATAT-AAATA-ATATT
15985416 TTAAAATATAAATAATATT
1 TTAAAATATAAATAATATT
15985435 ACAATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 12 0.67
21 1 0.06
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
TTAAAATATAAATAATATT
Found at i:15986396 original size:24 final size:23
Alignment explanation
Indices: 15986369--15986413 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
15986359 GACAATATAT
*
15986369 ATTATGGTTTTGTTTTTATAATGC
1 ATTATAGTTTTG-TTTTATAATGC
*
15986393 ATTATATTTTTGTTTTATAAT
1 ATTATAGTTTTGTTTTATAAT
15986414 ATATTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.62
Consensus pattern (23 bp):
ATTATAGTTTTGTTTTATAATGC
Found at i:15986419 original size:23 final size:24
Alignment explanation
Indices: 15986365--15986420 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
15986355 ATACGACAAT
*
15986365 ATATATTATGGTTTTGTTTTTATA
1 ATATATTATAGTTTTGTTTTTATA
** *
15986389 ATGCATTATATTTTTG-TTTTATA
1 ATATATTATAGTTTTGTTTTTATA
15986412 ATATATTAT
1 ATATATTAT
15986421 TTGTGTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.61
Consensus pattern (24 bp):
ATATATTATAGTTTTGTTTTTATA
Found at i:16002998 original size:18 final size:17
Alignment explanation
Indices: 16002938--16002998 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
16002928 AAATTTTAGA
* *
16002938 ATTTTTATAAATATTTG
1 ATTTTTAAAAATATTTT
*
16002955 AATTTTAAAAATTATTTT
1 ATTTTTAAAAA-TATTTT
16002973 CAATTTTTGAAAAATATTTT
1 --ATTTTT-AAAAATATTTT
16002993 ATTTTT
1 ATTTTT
16002999 TTTGTAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 9 0.25
18 11 0.31
20 11 0.31
21 5 0.14
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTTAAAAATATTTT
Found at i:16003942 original size:15 final size:16
Alignment explanation
Indices: 16003922--16003956 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
16003912 TAGCCATTGA
16003922 AGAATGAGAG-AAAAG
1 AGAATGAGAGAAAAAG
*
16003937 AGAATGGGAGAAAAAG
1 AGAATGAGAGAAAAAG
16003953 AGAA
1 AGAA
16003957 GGGAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.34, T:0.06
Consensus pattern (16 bp):
AGAATGAGAGAAAAAG
Found at i:16003960 original size:15 final size:17
Alignment explanation
Indices: 16003927--16003960 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16003917 ATTGAAGAAT
16003927 GAGAGAAAAGAGAATGG
1 GAGAGAAAAGAGAATGG
16003944 GAGA-AAAAGAGAA-GG
1 GAGAGAAAAGAGAATGG
16003959 GA
1 GA
16003961 AATAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (17 bp):
GAGAGAAAAGAGAATGG
Found at i:16003967 original size:16 final size:16
Alignment explanation
Indices: 16003932--16003969 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16003922 AGAATGAGAG
*
16003932 AAAAGAGAATGGGAGA
1 AAAAGAGAATGGGAAA
16003948 AAAAGAGAA-GGGAAA
1 AAAAGAGAATGGGAAA
16003963 TAAAAGA
1 -AAAAGA
16003970 AAAAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (16 bp):
AAAAGAGAATGGGAAA
Found at i:16005460 original size:15 final size:16
Alignment explanation
Indices: 16005440--16005471 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
16005430 GTGTAGTAAA
16005440 GAAAATTTTGAG-GAT
1 GAAAATTTTGAGAGAT
16005455 GAAAATTTTGAGAGAT
1 GAAAATTTTGAGAGAT
16005471 G
1 G
16005472 GACATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (16 bp):
GAAAATTTTGAGAGAT
Found at i:16007832 original size:158 final size:157
Alignment explanation
Indices: 16007514--16007991 Score: 744
Period size: 158 Copynumber: 3.0 Consensus size: 157
16007504 CTTTGTATCA
* * *
16007514 TGTAATGCTCACACGAGCTATGAAATGGGCCTGCTCACACGAGCTGTGGGTCT-AGATGTTAGGC
1 TGTAATGCTCACACGAGCTGTGAAGTGGGCCTGCTCACACGAGCTGTAGGT-TGAGATGTTAGGC
* * * * * *
16007578 TACACGATGCTGCTTACATGAGTTGT-GAGAATTCGCAACAAATATCGTATCTCAGCCATCGGTA
65 TACACGATGCTGCTCACACGAGCTGTGGAGAATCCACAACAAATTTCG-ATCTCAGCCATCGGTA
16007642 GGACATCTAAGACCAACACCCATATAACC
129 GGACATCTAAGACCAACACCCATATAACC
* *
16007671 TGTAATGCTTACACGAGCTGTGAAGTGGGCCTGCTCACACGAGCTGTAGGTTGAGACGTTAGGCT
1 TGTAATGCTCACACGAGCTGTGAAGTGGGCCTGCTCACACGAGCTGTAGGTTGAGATGTTAGGCT
*
16007736 ACACGATGCTGCTCACACGAGCTGTGGAGAATCCACAACAAATTTCAGATCTCAGCCATTGGTAG
66 ACACGATGCTGCTCACACGAGCTGTGGAGAATCCACAACAAATTTC-GATCTCAGCCATCGGTAG
*
16007801 AACATCTAAGACCAACACCCATATAACC
130 GACATCTAAGACCAACACCCATATAACC
* * *
16007829 TGTAATGCTCACATGAGCTGTGAAGTGGGCCTGCTCACACAAGCTGTAGGTCGAGATGTTAGGCT
1 TGTAATGCTCACACGAGCTGTGAAGTGGGCCTGCTCACACGAGCTGTAGGTTGAGATGTTAGGCT
*
16007894 ACACGATGCTGCTCACACGAGCTGTGGAGAATCCACAACAAATGTTGGATCTCAGCCATCGGTAG
66 ACACGATGCTGCTCACACGAGCTGTGGAGAATCCACAACAAAT-TTCGATCTCAGCCATCGGTAG
*
16007959 GACATCTAAGACCAACACCCATTTAACC
130 GACATCTAAGACCAACACCCATATAACC
16007987 TGTAA
1 TGTAA
16007992 ATCCGGAAAT
Statistics
Matches: 295, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
156 1 0.00
157 80 0.27
158 211 0.72
159 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (157 bp):
TGTAATGCTCACACGAGCTGTGAAGTGGGCCTGCTCACACGAGCTGTAGGTTGAGATGTTAGGCT
ACACGATGCTGCTCACACGAGCTGTGGAGAATCCACAACAAATTTCGATCTCAGCCATCGGTAGG
ACATCTAAGACCAACACCCATATAACC
Found at i:16009063 original size:55 final size:55
Alignment explanation
Indices: 16008979--16009091 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
16008969 ATGGATGGAA
16008979 TCTGCCGTCCATTGTTCTAAATATGGCTTAATTGCCATTTTGACCCTTTCAACAT
1 TCTGCCGTCCATTGTTCTAAATATGGCTTAATTGCCATTTTGACCCTTTCAACAT
16009034 TCTGCCGTCCATTGTTCTAAATATGGCTTAATTGCCATTTTGACCCTTTCAACAT
1 TCTGCCGTCCATTGTTCTAAATATGGCTTAATTGCCATTTTGACCCTTTCAACAT
16009089 TCT
1 TCT
16009092 TTTCTTGTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (55 bp):
TCTGCCGTCCATTGTTCTAAATATGGCTTAATTGCCATTTTGACCCTTTCAACAT
Found at i:16009848 original size:3 final size:3
Alignment explanation
Indices: 16009840--16009882 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
16009830 CCAAAATAAC
16009840 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16009883 CATAAACTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16015977 original size:18 final size:18
Alignment explanation
Indices: 16015951--16016015 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
16015941 CTAAAAAATT
*
16015951 AAATGAAATGCAAATAAA
1 AAATTAAATGCAAATAAA
* *
16015969 AAATTAAATGCGTAACAAA
1 AAATTAAATGC-AAATAAA
** *
16015988 AACA-TAGCTTCAAATAAA
1 AA-ATTAAATGCAAATAAA
16016006 AAATTAAATG
1 AAATTAAATG
16016016 AAACATAGCA
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
17 1 0.03
18 20 0.61
19 11 0.33
20 1 0.03
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.22
Consensus pattern (18 bp):
AAATTAAATGCAAATAAA
Found at i:16028913 original size:5 final size:5
Alignment explanation
Indices: 16028903--16028929 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16028893 ATTAAATAAA
16028903 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
16028930 AGATGTCACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:16029297 original size:35 final size:36
Alignment explanation
Indices: 16029242--16029311 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 36
16029232 TTAGAAAATA
16029242 TAAAATAAAATATTTGAATATAATTTAATATAAAAC
1 TAAAATAAAATATTTGAATATAATTTAATATAAAAC
* *
16029278 TAAAA-AAAATATTTTAATATAGTTTAATATAAAA
1 TAAAATAAAATATTTGAATATAATTTAATATAAAA
16029312 ATAATTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.84
36 5 0.16
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (36 bp):
TAAAATAAAATATTTGAATATAATTTAATATAAAAC
Found at i:16029572 original size:16 final size:16
Alignment explanation
Indices: 16029551--16029588 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
16029541 TGATTTACTA
*
16029551 ATTACAGTTTTATTCC
1 ATTACAGTTCTATTCC
*
16029567 ATTACAGTTCTATTCT
1 ATTACAGTTCTATTCC
16029583 ATTACA
1 ATTACA
16029589 TCCCTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:16031343 original size:23 final size:23
Alignment explanation
Indices: 16031313--16031365 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
16031303 AATTTTGAAT
16031313 TTCGAGTTAAACGAATCGAGTTA
1 TTCGAGTTAAACGAATCGAGTTA
*
16031336 TTCGAGTTAAACGAATCTAGTTA
1 TTCGAGTTAAACGAATCGAGTTA
16031359 TTCGAGT
1 TTCGAGT
16031366 CAACTCGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (23 bp):
TTCGAGTTAAACGAATCGAGTTA
Found at i:16031672 original size:19 final size:20
Alignment explanation
Indices: 16031636--16031675 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16031626 AAAACCCCTT
* *
16031636 AAAACTCTTTATTTTCTCCC
1 AAAACTCTTTACTCTCTCCC
16031656 AAAACT-TTTACTCTCTCCC
1 AAAACTCTTTACTCTCTCCC
16031675 A
1 A
16031676 CTTTCCCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAACTCTTTACTCTCTCCC
Found at i:16036569 original size:24 final size:23
Alignment explanation
Indices: 16036479--16036577 Score: 123
Period size: 23 Copynumber: 4.4 Consensus size: 23
16036469 AATGATAAGT
*
16036479 GTAAAAGTATCATGCTGACGA--
1 GTAAACGTATCATGCTGACGAGC
16036500 G-AAACGTATCATGCTGACGAGC
1 GTAAACGTATCATGCTGACGAGC
* *
16036522 ATAAACGTATCATGCTGGCGAGC
1 GTAAACGTATCATGCTGACGAGC
* *
16036545 GTAAACGTACTTATGCTGACAAGC
1 GTAAACGTA-TCATGCTGACGAGC
16036569 GTAAACGTA
1 GTAAACGTA
16036578 AAGAGGTTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
20 18 0.27
21 1 0.01
23 28 0.42
24 20 0.30
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (23 bp):
GTAAACGTATCATGCTGACGAGC
Found at i:16036574 original size:47 final size:43
Alignment explanation
Indices: 16036479--16036577 Score: 117
Period size: 47 Copynumber: 2.2 Consensus size: 43
16036469 AATGATAAGT
* *
16036479 GTAAAAGTATCATGCTGACGAGAAACGTATCATGCTGACGAGC
1 GTAAACGTATCATGCTGACGAGAAACGTATCATGCTGACAAGC
* * *
16036522 ATAAACGTATCATGCTGGCGAGCGTAAACGTACTTATGCTGACAAGC
1 GTAAACGTATCATGCTGACGA--G-AAACGTA-TCATGCTGACAAGC
16036569 GTAAACGTA
1 GTAAACGTA
16036578 AAGAGGTTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 18 0.39
45 1 0.02
46 7 0.15
47 20 0.43
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (43 bp):
GTAAACGTATCATGCTGACGAGAAACGTATCATGCTGACAAGC
Found at i:16039878 original size:16 final size:16
Alignment explanation
Indices: 16039859--16039905 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
16039849 AATTTTCAAT
16039859 AAATAAAAAATATATA
1 AAATAAAAAATATATA
**
16039875 AAATTATTAAATAT-TA
1 AAA-TAAAAAATATATA
16039891 AAATAAAACAATATA
1 AAATAAAA-AATATA
16039906 AATATAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.12
16 13 0.54
17 8 0.33
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAAAAAATATATA
Found at i:16039893 original size:26 final size:27
Alignment explanation
Indices: 16039829--16039893 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 27
16039819 ACATTAAAAA
* *
16039829 AAATATTAAGACTATATAAAAATTTTC
1 AAATATTAAAAATATATAAAAATTTTC
* *
16039856 AATAAATAAAAAATATAT-AAAATTATT-
1 AA-ATATTAAAAATATATAAAAATT-TTC
16039883 AAATATTAAAA
1 AAATATTAAAA
16039894 TAAAACAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 7 0.23
27 10 0.33
28 13 0.43
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (27 bp):
AAATATTAAAAATATATAAAAATTTTC
Found at i:16041520 original size:23 final size:25
Alignment explanation
Indices: 16041494--16041539 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16041484 CAAATTAGGG
16041494 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
16041517 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
16041540 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:16049318 original size:718 final size:719
Alignment explanation
Indices: 16047939--16049390 Score: 1906
Period size: 718 Copynumber: 2.0 Consensus size: 719
16047929 AGAGATCATC
* * * * *
16047939 AAGCAAGACTTTGAGAGAAAGAATTTTGAGTTGGGAAAAAAGATATAAAAGTTAAAAGAGAAAAA
1 AAGCAAGACTTTGAGAGAAAAAATTCTGAGTTAGGAAAAAAGATAGAAAAGTCAAAAGAGAAAAA
* * *
16048004 GTTGTACTTAGGATTAAATGTCGACGTTCAAAGGTTAGAGGCAGAAAAATTGAGAAAAGAGAAGA
66 GATGTACTTAGGATTAAATGTCAACGTTCAAAGGTTAGAGGCAAAAAAATTGAGAAAAGAGAAGA
* * * *
16048069 ATAAGGCTGAGGAGGACCTCGATTGTTTGAAGAAAGATTACAAGAAGCTTTGTATGTCGATGAAA
131 ATAAGGCTAAGGAGGACCTCGATAGTTTGAAGAAAGATTAAAAGAAGCTTCGTATGTCGATGAAA
* * * * * *
16048134 ACTGCCGGGTTGGGCAAGATATTCGAGTAATGGCAACAAGAAACCTGGGAAGCAAGGATAAAAGC
196 ACTGCCGAGTTGGGCAAGACATCCGAGCAATGGCAACAAGAAACCTGCGAAGAAAGGATAAAAGC
*
16048199 AGATCAATGGAAAAGCAGGTTTCAAGATGCTCAGGCCCAAGAGAATGCCATGAAGAGTATGTTGT
261 AGATCAATGGAAAAACAGGTTTCAAGATGCTCAGGCCCAAGAGAATGCCATGAAGAGTATGTTGT
* * * *
16048264 TGAAAAGCCAAGCTGAGAAAGCCGAGTTAAAAGCTCGAATAACGGAATTAGAGGTATCCCTGCAC
326 TGAAAAGCCAAGCTGAGAAAGCCGAGTTAAAAACCCAAATAACGAAATTAGAGGTATCCCTGCAC
* * * ** * * *
16048329 AGACATCGTAGTCGTAAGTCAATGACAGAGCTAAAAGCAAGTCGGGTCGATAATTAGGAGTTGAA
391 AGACATCGCAGTCGTAACTCAATGACAGAGCTAAAAGCAAGCCAAGTCGAGAATAAAGAGTTGAA
* *
16048394 GAAAAGAGTGGAAGAACTCGAGGTCTCGCTAAAGAATAGCGAGATACGAACTAGGATTCTCGAGA
456 GAAAAGAGTGGAAGAACTCGAGGCCTCGCTAAAGAATAGCGAGATACAAACTAGGATTCTCGAGA
** * * *
16048459 GGACTTTGAAAATGGAAAGACACCTTTAGCATGCTCAGAGGCAAATTTGAGACAGAGATTACGTT
521 GGACTTTGAAAACAGAAAGACACCTTCAGCATGCTCAGAGACAAATTCGAGACAGAGATTACGTT
* **
16048524 ATGGGTGAAGCTCTGACCCAAGTGTTGGAAGATGTCGATAACTTGCAAACACTAGCTGTTGAAGC
586 ATGGGTAAAGCTCTGACCCAAGTGCGGGAAGATGTCGATAACTTGCAAACACTAGCTGTTGAAGC
* * *
16048589 CTATGTGTTGAGTATAAAGTACGAGTCAGAGTCAGATTGAGG-TAAAAAAATTAGTTAGGCTCTT
651 CTATGTGTTGAGTATAAAGTACGAGTCAGAGTCAAATT-AGGAT-AAAAAATCAGCTAGGCTCTT
16048653 TAGGAA
714 TAGGAA
*
16048659 AAGCAAGACTTTGAGAGAAAAAATTCTGAGTTAGGAAAAAAGATAGAAAAGTCAGAAGAGAAAAA
1 AAGCAAGACTTTGAGAGAAAAAATTCTGAGTTAGGAAAAAAGATAGAAAAGTCAAAAGAGAAAAA
* * * * *
16048724 GATGTACTTGGGATTAGATGTCAACGTTTAAAGGTTAGGGGCAAAAAAATTGAGAAAATG-GAAT
66 GATGTACTTAGGATTAAATGTCAACGTTCAAAGGTTAGAGGCAAAAAAATTGAGAAAA-GAGAAG
16048788 AATAAGGCTAAGGAGGACCTCGATAGTTTGAAGAAAGATTAAAAGAAGCTTCGTATGTC-ATTG-
130 AATAAGGCTAAGGAGGACCTCGATAGTTTGAAGAAAGATTAAAAGAAGCTTCGTATGTCGA-TGA
* * ** * * * *
16048851 GAATTTTCTAGTTGGGTAAGACATCCGAGCAATGTCAACAAGAAA-TTCGCGAAGAAAGGA-ATA
194 AAACTGCCGAGTTGGGCAAGACATCCGAGCAATGGCAACAAGAAACCT-GCGAAGAAAGGATA-A
* * **
16048914 AAGCAGATCAATGGAAAAACATGTTTCAAGATGCTCAGGTCCAAGAGAATGTGATGAAGAGTATG
257 AAGCAGATCAATGGAAAAACAGGTTTCAAGATGCTCAGGCCCAAGAGAATGCCATGAAGAGTATG
* * * *
16048979 TTGTTGGAAAGCCAAGCTGAGAAAGTCGAGTTAAAAACCCAAATAGCGAAATTAGAGG-ATCCTT
322 TTGTTGAAAAGCCAAGCTGAGAAAGCCGAGTTAAAAACCCAAATAACGAAATTAGAGGTATCCCT
* * * *
16049043 GCACAGACATCGCGGTCGTAACTGAATGACAGAGCTGAATGCAAGCCAAGTCGAGAATAAAGAGT
387 GCACAGACATCGCAGTCGTAACTCAATGACAGAGCTAAAAGCAAGCCAAGTCGAGAATAAAGAGT
*
16049108 TGAAGAAAAGAGTGGAAGAACTCGAGGCCT-GACTACAGAATAGCGAGA-AGCAAACT-GAGATT
452 TGAAGAAAAGAGTGGAAGAACTCGAGGCCTCG-CTAAAGAATAGCGAGATA-CAAACTAG-GATT
* * * * * *
16049170 CTCGAGAGGACTTTGGAAACAGAAGGACACCTTCAGCATGCTTAGAGATAGATTCGAGCCAGAGA
514 CTCGAGAGGACTTTGAAAACAGAAAGACACCTTCAGCATGCTCAGAGACAAATTCGAGACAGAGA
* * * * *
16049235 TTATGTTAT-GGTCAAATCTCTGACCCAAGTGCGGGAAG-TAG-CTGATCACTTGCAAATACTCG
579 TTACGTTATGGGT-AAAGCTCTGACCCAAGTGCGGGAAGAT-GTC-GATAACTTGCAAACACTAG
* * * *
16049297 CTGTTGAAG-CTGATTTGTTGAGTGTGAAGTACGAGTTAGAGTCAAATTAGGATAAAAAATCAGC
641 CTGTTGAAGCCT-ATGTGTTGAGTATAAAGTACGAGTCAGAGTCAAATTAGGATAAAAAATCAGC
16049361 TAGGCTCTTTAGGAA
705 TAGGCTCTTTAGGAA
*
16049376 AATCAAGACTTTGAG
1 AAGCAAGACTTTGAG
16049391 CATTAGGGAA
Statistics
Matches: 633, Mismatches: 87, Indels: 27
0.85 0.12 0.04
Matches are distributed among these distances:
717 51 0.08
718 254 0.40
719 157 0.25
720 170 0.27
721 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.22
Consensus pattern (719 bp):
AAGCAAGACTTTGAGAGAAAAAATTCTGAGTTAGGAAAAAAGATAGAAAAGTCAAAAGAGAAAAA
GATGTACTTAGGATTAAATGTCAACGTTCAAAGGTTAGAGGCAAAAAAATTGAGAAAAGAGAAGA
ATAAGGCTAAGGAGGACCTCGATAGTTTGAAGAAAGATTAAAAGAAGCTTCGTATGTCGATGAAA
ACTGCCGAGTTGGGCAAGACATCCGAGCAATGGCAACAAGAAACCTGCGAAGAAAGGATAAAAGC
AGATCAATGGAAAAACAGGTTTCAAGATGCTCAGGCCCAAGAGAATGCCATGAAGAGTATGTTGT
TGAAAAGCCAAGCTGAGAAAGCCGAGTTAAAAACCCAAATAACGAAATTAGAGGTATCCCTGCAC
AGACATCGCAGTCGTAACTCAATGACAGAGCTAAAAGCAAGCCAAGTCGAGAATAAAGAGTTGAA
GAAAAGAGTGGAAGAACTCGAGGCCTCGCTAAAGAATAGCGAGATACAAACTAGGATTCTCGAGA
GGACTTTGAAAACAGAAAGACACCTTCAGCATGCTCAGAGACAAATTCGAGACAGAGATTACGTT
ATGGGTAAAGCTCTGACCCAAGTGCGGGAAGATGTCGATAACTTGCAAACACTAGCTGTTGAAGC
CTATGTGTTGAGTATAAAGTACGAGTCAGAGTCAAATTAGGATAAAAAATCAGCTAGGCTCTTTA
GGAA
Found at i:16060535 original size:28 final size:27
Alignment explanation
Indices: 16060492--16060699 Score: 130
Period size: 28 Copynumber: 7.7 Consensus size: 27
16060482 TAATTTAAAG
*
16060492 GCGTTTACGCTTGCCAGCTTATATACAT
1 GCGTTTACGCTCGCCAGCTTAT-TACAT
* *
16060520 GCGTTTACGCTCGCCAGCTCA-GACTATT
1 GCGTTTACGCTCGCCAGCTTATTAC-A-T
**
16060548 GCGTTTACGCTCGCCAGCTT-GCACA-
1 GCGTTTACGCTCGCCAGCTTATTACAT
** *
16060573 -CGTTTACGCTCGTTAGCTTATT-CGTTT
1 GCGTTTACGCTCGCCAGCTTATTAC--AT
* *
16060600 GCATTTACGCTCGCCAGCTCATT-CAT
1 GCGTTTACGCTCGCCAGCTTATTACAT
* * **
16060626 ACCTGTTTAAGCTCGCCAGCTT-GCACA-
1 -GC-GTTTACGCTCGCCAGCTTATTACAT
*
16060653 -CGTTTACGCTCGTCAGCTTATT-CATTT
1 GCGTTTACGCTCGCCAGCTTATTACA--T
16060680 GCGTTTACGCTCGCCAGCTT
1 GCGTTTACGCTCGCCAGCTT
16060700 GCACACGTTT
Statistics
Matches: 138, Mismatches: 26, Indels: 32
0.70 0.13 0.16
Matches are distributed among these distances:
24 36 0.26
25 1 0.01
26 3 0.02
27 3 0.02
28 95 0.69
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.34
Consensus pattern (27 bp):
GCGTTTACGCTCGCCAGCTTATTACAT
Found at i:16060634 original size:80 final size:80
Alignment explanation
Indices: 16060493--16060698 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
16060483 AATTTAAAGG
* * * ** *
16060493 CGTTTACGCTTGCCAGCTTATATACA--TGCGTTTACGCTCGCCAGCTCAGACTATTGCGTTTAC
1 CGTTTACGCTCGTCAGCTTAT-T-CATTTGCATTTACGCTCGCCAGCTCAGACTATACCGTTTAA
16060556 GCTCGCCAGCTTGCACA
64 GCTCGCCAGCTTGCACA
* * **
16060573 CGTTTACGCTCGTTAGCTTATTCGTTTGCATTTACGCTCGCCAGCTCATTC-ATACCTGTTTAAG
1 CGTTTACGCTCGTCAGCTTATTCATTTGCATTTACGCTCGCCAGCTCAGACTATACC-GTTTAAG
16060637 CTCGCCAGCTTGCACA
65 CTCGCCAGCTTGCACA
*
16060653 CGTTTACGCTCGTCAGCTTATTCATTTGCGTTTACGCTCGCCAGCT
1 CGTTTACGCTCGTCAGCTTATTCATTTGCATTTACGCTCGCCAGCT
16060699 TGCACACGTT
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 4 0.04
80 105 0.95
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (80 bp):
CGTTTACGCTCGTCAGCTTATTCATTTGCATTTACGCTCGCCAGCTCAGACTATACCGTTTAAGC
TCGCCAGCTTGCACA
Found at i:16060730 original size:52 final size:52
Alignment explanation
Indices: 16060603--16060751 Score: 187
Period size: 52 Copynumber: 2.9 Consensus size: 52
16060593 TTCGTTTGCA
* *
16060603 TTTACGCTCGCCAGCTCATTCA--TACCTGTTTAAGCTCGCCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTATTCATTTA-C-GTTTAAGCTCGCCAGCTTGCACACG
* *
16060655 TTTACGCTCGTCAGCTTATTCATTTGCGTTTACGCTCGCCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTATTCATTTACGTTTAAGCTCGCCAGCTTGCACACG
* * *
16060707 TTTATGCTTGTCAGCTTATTCATTTACGTTTATA-CTCTCCAGCTT
1 TTTACGCTCGTCAGCTTATTCATTTACGTTTA-AGCTCGCCAGCTT
16060752 ATACTTATAC
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
52 83 0.98
53 1 0.01
54 1 0.01
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.37
Consensus pattern (52 bp):
TTTACGCTCGTCAGCTTATTCATTTACGTTTAAGCTCGCCAGCTTGCACACG
Found at i:16067054 original size:52 final size:52
Alignment explanation
Indices: 16066975--16067321 Score: 475
Period size: 52 Copynumber: 6.7 Consensus size: 52
16066965 TAAATGAAAA
* * *
16066975 GGTCCGATGACTGAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAT
1 GGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAC
* * * *
16067027 GGTCTGATGACTTAGTGTCGTCATGAGTATATGAATCCTTTACGAATTAAAC
1 GGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAC
* *
16067079 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCATTTACGGATTAAAC
1 GGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAC
*
16067131 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAA-
1 GGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAC
* * **
16067182 GGTCTGATGACTAAGTGTCATCGTGAGTATATGGATCATTTACTAATTAAGA-
1 GGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA-AC
** * *
16067234 GGTCTGATGACTCTGTGTGATCGTGAGTATATGTATCCTTTACGGATTAAAC
1 GGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAC
* *
16067286 GGT-TCAATAACTAAGTGTCATCGTGAGTATATGAAT
1 GGTCT-GATGACTAAGTGTCATCGTGAGTATATGAAT
16067322 GAAGTTAAAT
Statistics
Matches: 261, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
51 47 0.18
52 214 0.82
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (52 bp):
GGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAAC
Found at i:16070408 original size:17 final size:18
Alignment explanation
Indices: 16070388--16070447 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
16070378 GTTAGTAAGC
16070388 ATTGTCATC-ACATTTCA
1 ATTGTCATCTACATTTCA
* *
16070405 ATTGTCA-CTACTTTTTA
1 ATTGTCATCTACATTTCA
*
16070422 ATTGTCAT-TGCATTTCCA
1 ATTGTCATCTACATTT-CA
*
16070440 TTTGTCAT
1 ATTGTCAT
16070448 TGTAATGTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 1 0.03
17 25 0.74
18 8 0.24
ACGTcount: A:0.23, C:0.20, G:0.08, T:0.48
Consensus pattern (18 bp):
ATTGTCATCTACATTTCA
Found at i:16071019 original size:5 final size:5
Alignment explanation
Indices: 16071005--16071043 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
16070995 TTAGTCACAT
16071005 AAAA- AAAAG AAAAGAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG -AAA-AG AAAAG AAAAG AAAAG AAAAG AAA
16071044 TATATGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.12
5 20 0.62
6 6 0.19
7 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:16071031 original size:17 final size:16
Alignment explanation
Indices: 16071005--16071036 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16070995 TTAGTCACAT
16071005 AAAAAAAAGAAAAGAG
1 AAAAAAAAGAAAAGAG
16071021 AAAAGAAAAGAAAAGA
1 AAAA-AAAAGAAAAGA
16071037 AAAGAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAGAG
Found at i:16073516 original size:23 final size:23
Alignment explanation
Indices: 16073484--16073654 Score: 227
Period size: 23 Copynumber: 7.4 Consensus size: 23
16073474 TGAAGTAAGT
16073484 GTAAACGTATCATGCTGACGAGC
1 GTAAACGTATCATGCTGACGAGC
* *
16073507 GTAAAAGTATCATTCTGACGAGC
1 GTAAACGTATCATGCTGACGAGC
16073530 GTAAACGTATTCATGCTGACGAGC
1 GTAAACGTA-TCATGCTGACGAGC
* * *
16073554 GTAAATGTATCATGCTGGCAAGC
1 GTAAACGTATCATGCTGACGAGC
*
16073577 GTAAACTTATTCATGCTGACGAGC
1 GTAAACGTA-TCATGCTGACGAGC
* * *
16073601 GT-AATGTATCATGCTGACAAGT
1 GTAAACGTATCATGCTGACGAGC
*
16073623 GTAAACGTATCATGCTGACAAGC
1 GTAAACGTATCATGCTGACGAGC
16073646 GTAAACGTA
1 GTAAACGTA
16073655 AAGAGGTTCT
Statistics
Matches: 128, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.11
23 79 0.62
24 35 0.27
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (23 bp):
GTAAACGTATCATGCTGACGAGC
Found at i:16073552 original size:47 final size:46
Alignment explanation
Indices: 16073484--16073650 Score: 246
Period size: 47 Copynumber: 3.6 Consensus size: 46
16073474 TGAAGTAAGT
* * *
16073484 GTAAACGTATCATGCTGACGAGCGTAAAAGTATCATTCTGACGAGC
1 GTAAACGTATCATGCTGACGAGCGTAAATGTATCATGCTGACAAGC
*
16073530 GTAAACGTATTCATGCTGACGAGCGTAAATGTATCATGCTGGCAAGC
1 GTAAACGTA-TCATGCTGACGAGCGTAAATGTATCATGCTGACAAGC
* *
16073577 GTAAACTTATTCATGCTGACGAGCGT-AATGTATCATGCTGACAAGT
1 GTAAACGTA-TCATGCTGACGAGCGTAAATGTATCATGCTGACAAGC
*
16073623 GTAAACGTATCATGCTGACAAGCGTAAA
1 GTAAACGTATCATGCTGACGAGCGTAAA
16073651 CGTAAAGAGG
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
45 15 0.14
46 37 0.34
47 58 0.53
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (46 bp):
GTAAACGTATCATGCTGACGAGCGTAAATGTATCATGCTGACAAGC
Found at i:16076721 original size:21 final size:20
Alignment explanation
Indices: 16076695--16076954 Score: 67
Period size: 21 Copynumber: 13.8 Consensus size: 20
16076685 AAGCCTACTA
16076695 GGCACAAAGCTCGATTACACT
1 GGCACAAAGC-CGATTACACT
*
16076716 GGCACAAAACC---T--ACT
1 GGCACAAAGCCGATTACACT
* *
16076731 AGCCATAAAGCCTGATTACACT
1 -GGCACAAAGCC-GATTACACT
16076753 GGCACAAAGCC---T--ACT
1 GGCACAAAGCCGATTACACT
16076768 AGGCACAAAGCTCGATTACACT
1 -GGCACAAAGC-CGATTACACT
*
16076790 GGCACAAAACC---T--ACT
1 GGCACAAAGCCGATTACACT
* *
16076805 AGCCATAAAGCCTGATTACACT
1 -GGCACAAAGCC-GATTACACT
16076827 GGCACAAAGCC---T--ACT
1 GGCACAAAGCCGATTACACT
*
16076842 AGGCACAAAGCCTATT--A--
1 -GGCACAAAGCCGATTACACT
* *
16076859 GGCACATAGCCTGAATACACT
1 GGCACAAAGCC-GATTACACT
16076880 GGCACAAAGCC---T--ACT
1 GGCACAAAGCCGATTACACT
* *
16076895 AGGCACAAAGCCTGAATACACC
1 -GGCACAAAGCC-GATTACACT
**
16076917 AACACAAAGCCCGATTACA-T
1 GGCACAAAG-CCGATTACACT
16076937 CGGCACAAAGCCCGATTA
1 -GGCACAAAG-CCGATTA
16076955 TTTAGATGCA
Statistics
Matches: 177, Mismatches: 23, Indels: 78
0.64 0.08 0.28
Matches are distributed among these distances:
15 15 0.08
16 58 0.33
17 8 0.05
19 3 0.02
20 6 0.03
21 74 0.42
22 13 0.07
ACGTcount: A:0.37, C:0.30, G:0.17, T:0.16
Consensus pattern (20 bp):
GGCACAAAGCCGATTACACT
Found at i:16076729 original size:37 final size:37
Alignment explanation
Indices: 16076670--16076858 Score: 278
Period size: 37 Copynumber: 5.2 Consensus size: 37
16076660 CGTTCCTTCT
16076670 TGATT-CACTGGCACAAAGCCTACTAGGCACAAAG-C
1 TGATTACACTGGCACAAAGCCTACTAGGCACAAAGCC
* * *
16076705 TCGATTACACTGGCACAAAACCTACTAGCCATAAAGCC
1 T-GATTACACTGGCACAAAGCCTACTAGGCACAAAGCC
16076743 TGATTACACTGGCACAAAGCCTACTAGGCACAAAG-C
1 TGATTACACTGGCACAAAGCCTACTAGGCACAAAGCC
* * *
16076779 TCGATTACACTGGCACAAAACCTACTAGCCATAAAGCC
1 T-GATTACACTGGCACAAAGCCTACTAGGCACAAAGCC
16076817 TGATTACACTGGCACAAAGCCTACTAGGCACAAAGCC
1 TGATTACACTGGCACAAAGCCTACTAGGCACAAAGCC
16076854 T-ATTA
1 TGATTA
16076859 GGCACATAGC
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
35 1 0.01
36 10 0.07
37 122 0.89
38 4 0.03
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.19
Consensus pattern (37 bp):
TGATTACACTGGCACAAAGCCTACTAGGCACAAAGCC
Found at i:16076884 original size:37 final size:37
Alignment explanation
Indices: 16076843--16076915 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
16076833 AAGCCTACTA
* *
16076843 GGCACAAAGCCTATTAGGCACATAGCCTGAATACACT
1 GGCACAAAGCCTACTAGGCACAAAGCCTGAATACACT
16076880 GGCACAAAGCCTACTAGGCACAAAGCCTGAATACAC
1 GGCACAAAGCCTACTAGGCACAAAGCCTGAATACAC
16076916 CAACACAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (37 bp):
GGCACAAAGCCTACTAGGCACAAAGCCTGAATACACT
Found at i:16076891 original size:74 final size:74
Alignment explanation
Indices: 16076670--16076852 Score: 359
Period size: 74 Copynumber: 2.5 Consensus size: 74
16076660 CGTTCCTTCT
16076670 TGATT-CACTGGCACAAAGCCTACTAGGCACAAAGCTCGATTACACTGGCACAAAACCTACTAGC
1 TGATTACACTGGCACAAAGCCTACTAGGCACAAAGCTCGATTACACTGGCACAAAACCTACTAGC
16076734 CATAAAGCC
66 CATAAAGCC
16076743 TGATTACACTGGCACAAAGCCTACTAGGCACAAAGCTCGATTACACTGGCACAAAACCTACTAGC
1 TGATTACACTGGCACAAAGCCTACTAGGCACAAAGCTCGATTACACTGGCACAAAACCTACTAGC
16076808 CATAAAGCC
66 CATAAAGCC
16076817 TGATTACACTGGCACAAAGCCTACTAGGCACAAAGC
1 TGATTACACTGGCACAAAGCCTACTAGGCACAAAGC
16076853 CTATTAGGCA
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 5 0.05
74 104 0.95
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.17
Consensus pattern (74 bp):
TGATTACACTGGCACAAAGCCTACTAGGCACAAAGCTCGATTACACTGGCACAAAACCTACTAGC
CATAAAGCC
Found at i:16076904 original size:53 final size:53
Alignment explanation
Indices: 16076790--16076907 Score: 182
Period size: 53 Copynumber: 2.2 Consensus size: 53
16076780 CGATTACACT
* * *
16076790 GGCACAAAACCTACTAGCCATAAAGCCTGATTACACTGGCACAAAGCCTACTA
1 GGCACAAAGCCTACTAGCCACAAAGCCTGAATACACTGGCACAAAGCCTACTA
* * *
16076843 GGCACAAAGCCTATTAGGCACATAGCCTGAATACACTGGCACAAAGCCTACTA
1 GGCACAAAGCCTACTAGCCACAAAGCCTGAATACACTGGCACAAAGCCTACTA
16076896 GGCACAAAGCCT
1 GGCACAAAGCCT
16076908 GAATACACCA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (53 bp):
GGCACAAAGCCTACTAGCCACAAAGCCTGAATACACTGGCACAAAGCCTACTA
Found at i:16076923 original size:37 final size:37
Alignment explanation
Indices: 16076845--16076927 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
16076835 GCCTACTAGG
* * ***
16076845 CACAAAGCCTATTAGGCACATAGCCTGAATACACTGG
1 CACAAAGCCTACTAGGCACAAAGCCTGAATACACCAA
16076882 CACAAAGCCTACTAGGCACAAAGCCTGAATACACCAA
1 CACAAAGCCTACTAGGCACAAAGCCTGAATACACCAA
16076919 CACAAAGCC
1 CACAAAGCC
16076928 CGATTACATC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.31, G:0.16, T:0.13
Consensus pattern (37 bp):
CACAAAGCCTACTAGGCACAAAGCCTGAATACACCAA
Found at i:16076923 original size:90 final size:90
Alignment explanation
Indices: 16076753--16076927 Score: 244
Period size: 90 Copynumber: 1.9 Consensus size: 90
16076743 TGATTACACT
* *
16076753 GGCACAAAGCCTACTAGGCACAAAGCTCGATTACACTGGCACAAAACCTACTAGCCATAAAGCCT
1 GGCACAAAGCCTACTAGGCACAAAGCTCGAATACACTGGCACAAAACCTACTAGCCACAAAGCCT
* ***
16076818 GATTACACTGGCACAAAGCCTACTA
66 GAATACACCAACACAAAGCCTACTA
* * * *
16076843 GGCACAAAGCCTATTAGGCACATAGC-CTGAATACACTGGCACAAAGCCTACTAGGCACAAAGCC
1 GGCACAAAGCCTACTAGGCACAAAGCTC-GAATACACTGGCACAAAACCTACTAGCCACAAAGCC
16076907 TGAATACACCAACACAAAGCC
65 TGAATACACCAACACAAAGCC
16076928 CGATTACATC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 1 0.01
90 73 0.99
ACGTcount: A:0.38, C:0.30, G:0.17, T:0.15
Consensus pattern (90 bp):
GGCACAAAGCCTACTAGGCACAAAGCTCGAATACACTGGCACAAAACCTACTAGCCACAAAGCCT
GAATACACCAACACAAAGCCTACTA
Found at i:16078645 original size:21 final size:21
Alignment explanation
Indices: 16078621--16078674 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
16078611 CCTATACTAG
16078621 TTCTACTGATACAAG-CATGAC
1 TTCTACTGATACAAGTCATG-C
*
16078642 TTCTACCGATACAAGTCATGC
1 TTCTACTGATACAAGTCATGC
**
16078663 AACTACTGATAC
1 TTCTACTGATAC
16078675 CAAAAACTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (21 bp):
TTCTACTGATACAAGTCATGC
Found at i:16080462 original size:22 final size:23
Alignment explanation
Indices: 16080437--16080483 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
16080427 GACTTTCATC
16080437 ATTAAGCTTTAATT-AATC-ATTT
1 ATTAAGC-TTAATTAAATCTATTT
*
16080459 ATTAATCTTAATTAAATCTATTT
1 ATTAAGCTTAATTAAATCTATTT
16080482 AT
1 AT
16080484 ACTTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 10 0.45
23 6 0.27
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTAAGCTTAATTAAATCTATTT
Found at i:16098738 original size:2 final size:2
Alignment explanation
Indices: 16098733--16098766 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16098723 TGTACAATGC
16098733 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16098767 TCATTTGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16113023 original size:91 final size:91
Alignment explanation
Indices: 16112868--16113051 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
16112858 TTCAATAGAG
16112868 AGAGAGATTGTTCAAGAATCATTTTTCTCTAGAGAGTTCAGATCCAATACTTGTGCTTGGGTTGA
1 AGAGAGATTGTTCAAGAATCATTTTTCTCTAGAGAGTTCAGATCCAATACTTGTGCTTGGGTTGA
16112933 GAATGATGCCCATACACCGTGTGATC
66 GAATGATGCCCATACACCGTGTGATC
16112959 AGAGAGATTGTTCAAGAATCATTTTTCTCTAGAGAGTTCAGATCCAATACTTGTGCTTGGGTTGA
1 AGAGAGATTGTTCAAGAATCATTTTTCTCTAGAGAGTTCAGATCCAATACTTGTGCTTGGGTTGA
16113024 GAATGATGCCCATACACCGTGTGATC
66 GAATGATGCCCATACACCGTGTGATC
16113050 AG
1 AG
16113052 TGAGTTAGAG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (91 bp):
AGAGAGATTGTTCAAGAATCATTTTTCTCTAGAGAGTTCAGATCCAATACTTGTGCTTGGGTTGA
GAATGATGCCCATACACCGTGTGATC
Found at i:16117649 original size:18 final size:18
Alignment explanation
Indices: 16117628--16117662 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
16117618 AAGAAAGAGG
16117628 TCTTAGAGTTGAAACAGT
1 TCTTAGAGTTGAAACAGT
16117646 TCTTAGAGTTGAAACAG
1 TCTTAGAGTTGAAACAG
16117663 AGGAATAAGG
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:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (18 bp):
TCTTAGAGTTGAAACAGT
Found at i:16127615 original size:12 final size:12
Alignment explanation
Indices: 16127584--16127621 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
16127574 TCTAATAATG
16127584 AACATGTTCGTT
1 AACATGTTCGTT
*
16127596 TA-ATGTTCGTT
1 AACATGTTCGTT
16127607 AACATGTTCGATT
1 AACATGTTCG-TT
16127620 AA
1 AA
16127622 GTTATATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 10 0.45
12 8 0.36
13 4 0.18
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (12 bp):
AACATGTTCGTT
Found at i:16127633 original size:23 final size:25
Alignment explanation
Indices: 16127581--16127638 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 25
16127571 TATTCTAATA
* *
16127581 ATGAACATGTTCGTTTAATGTTCGT
1 ATGAACATGTTCGATTAATGTTCAT
16127606 -T-AACATGTTCGATTAA-GTT-AT
1 ATGAACATGTTCGATTAATGTTCAT
*
16127627 ATGAACACGTTC
1 ATGAACATGTTC
16127639 ATGAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 1 0.04
22 4 0.14
23 22 0.79
24 1 0.04
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (25 bp):
ATGAACATGTTCGATTAATGTTCAT
Found at i:16129304 original size:17 final size:18
Alignment explanation
Indices: 16129269--16129309 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
16129259 GATCTTTAGG
16129269 TTTAAATTTATTATTAAA
1 TTTAAATTTATTATTAAA
16129287 TTTAAATTTATT-TTAAA
1 TTTAAATTTATTATTAAA
16129304 TTTAAA
1 TTTAAA
16129310 AATATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAAATTTATTATTAAA
Found at i:16129315 original size:17 final size:17
Alignment explanation
Indices: 16129277--16129321 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
16129267 GGTTTAAATT
**
16129277 TATTATTAAATTTAAATT
1 TATT-TTAAATTTAAAAA
16129295 TATTTTAAATTTAAAAA
1 TATTTTAAATTTAAAAA
*
16129312 TATTTGAAAT
1 TATTTTAAAT
16129322 AAATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TATTTTAAATTTAAAAA
Found at i:16131186 original size:162 final size:162
Alignment explanation
Indices: 16130955--16131614 Score: 966
Period size: 162 Copynumber: 4.1 Consensus size: 162
16130945 ACTTTTCAAT
* * * *
16130955 TTAGTCCTTTGACTGTTTAACTGCACTAGAGGCTGCCACGTGCCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATATA
* * *
16131020 TCTAGTCCCTGTCGTTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTATAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
* *
16131085 AATTGGCCTAAGAATTTTTTAAGATTTATAAA
131 AATTGGCCCAAGAATCTTTTAAGATTTATAAA
* *
16131117 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTAATTTCTATA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATATA
*
16131182 TCTAGCCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
** * * * *
16131247 AATTAACCCAAGAATCTGTTGATATTTTTAAA
131 AATTGGCCCAAGAATCTTTTAAGATTTATAAA
* * * * *
16131279 ATAGTCCTTTGACTGTTTGACTGCACCAGAAGCTGCCACGTGTCACTTTTTTGCTTATTTCTACA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATATA
16131344 T-TAAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACA
66 TCT-AGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACA
* * * * *
16131408 AAATTGACTCAGGAATCTTTTGAGATTTTTAAA
130 AAATTGGCCCAAGAATCTTTTAAGATTTATAAA
* *
16131441 TTAGTCTTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATATA
* * * *
16131506 TCTAGTCCCTGTCATTTTTAATTGGTTGTAATTTAATCCTTAAATCAACTTTTATTT-AGTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
* *
16131570 AATTGGCCCGAGAAT-TTTCAAGATTTATAAA
131 AATTGGCCCAAGAATCTTTTAAGATTTATAAA
16131601 TTAGTCCTTTGACT
1 TTAGTCCTTTGACT
16131615 TCTGGGTATC
Statistics
Matches: 448, Mismatches: 48, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
160 26 0.06
161 18 0.04
162 403 0.90
163 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATATA
TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
AATTGGCCCAAGAATCTTTTAAGATTTATAAA
Found at i:16131721 original size:29 final size:28
Alignment explanation
Indices: 16131688--16131906 Score: 134
Period size: 29 Copynumber: 7.5 Consensus size: 28
16131678 GGTTTCACCA
*
16131688 AAAATTACCATTTTACCCTCGAACTTTCT
1 AAAATTACCATTTTACCC-CGAACTTTCC
16131717 AAAATT-CCATTTTTAACCCCG-A-TTTCACC
1 AAAATTACCA-TTTT-ACCCCGAACTTT--CC
16131746 AACAATTACCATTTTACCCCCGAACTTTCC
1 AA-AATTACCATTTTA-CCCCGAACTTTCC
*
16131776 AAAATT-CCATTTTTAACCCCG-A-TTACACC
1 AAAATTACCA-TTTT-ACCCCGAACTT--TCC
* *
16131805 AAAAATTATCATTTTACCCCCAAACTTTCC
1 -AAAATTACCATTTTA-CCCCGAACTTTCC
*
16131835 AAAATT-CCATTTTTAACCTCG-A-TTTCACC
1 AAAATTACCA-TTTT-ACCCCGAACTTT--CC
*
16131864 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATTACCATTTTACCCC-GAACTTTCC
*
16131894 AAAACT-CCATTTT
1 AAAATTACCATTTT
16131907 TAACCCCAGT
Statistics
Matches: 152, Mismatches: 11, Indels: 55
0.70 0.05 0.25
Matches are distributed among these distances:
27 8 0.05
28 18 0.12
29 56 0.37
30 51 0.34
31 11 0.07
32 8 0.05
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAACTTTCC
Found at i:16131896 original size:30 final size:30
Alignment explanation
Indices: 16131685--16131897 Score: 103
Period size: 30 Copynumber: 7.2 Consensus size: 30
16131675 CCTGGTTTCA
*
16131685 CCAAAAATTACCATTTTA-CCCTCGAACTTT
1 CCAAAAATTACCATTTTACCCCT-AAACTTT
* *
16131715 -CTAAAATT-CCATTTTTAACCCC--GA-TTT
1 CCAAAAATTACCA-TTTT-ACCCCTAAACTTT
* **
16131742 CACCAACAATTACCATTTTACCCCCGAACTTT
1 --CCAAAAATTACCATTTTACCCCTAAACTTT
* * *
16131774 CC-AAAATT-CCATTTTTAACCCCGATTAC--A
1 CCAAAAATTACCA-TTTT-ACCCCTA-AACTTT
* *
16131803 CCAAAAATTATCATTTTACCCCCAAACTTT
1 CCAAAAATTACCATTTTACCCCTAAACTTT
* **
16131833 CC-AAAATT-CCATTTTTA-ACCTCGA-TTT
1 CCAAAAATTACCA-TTTTACCCCTAAACTTT
16131860 CACCAAAAATTACCATTTTACCCCTAAACTTT
1 --CCAAAAATTACCATTTTACCCCTAAACTTT
16131892 CCAAAA
1 CCAAAA
16131898 CTCCATTTTT
Statistics
Matches: 137, Mismatches: 22, Indels: 48
0.66 0.11 0.23
Matches are distributed among these distances:
27 6 0.04
28 14 0.10
29 46 0.34
30 47 0.34
31 18 0.13
32 6 0.04
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (30 bp):
CCAAAAATTACCATTTTACCCCTAAACTTT
Found at i:16131925 original size:59 final size:59
Alignment explanation
Indices: 16131680--16131913 Score: 378
Period size: 59 Copynumber: 4.0 Consensus size: 59
16131670 AGGTCCCTGG
* * *
16131680 TTTCACCAAAAATTACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTTAACCCCGA
1 TTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA
* *
16131739 TTTCACCAACAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGA
1 TTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA
* * *
16131798 TTACACCAAAAATTATCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCGA
1 TTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA
* *
16131857 TTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCCC
1 TTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCC
16131914 AGTTTCGCCA
Statistics
Matches: 162, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 162 1.00
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.34
Consensus pattern (59 bp):
TTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA
Found at i:16132030 original size:28 final size:28
Alignment explanation
Indices: 16131962--16132020 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
16131952 GATTTAACCA
*
16131962 AAAATTACCATTTT-GCCCCGCGTATCC
1 AAAATTACCATTTTACCCCCGCGTATCC
*
16131989 AAAATTACCATTTTACCCCCGGGTATCC
1 AAAATTACCATTTTACCCCCGCGTATCC
16132017 AAAA
1 AAAA
16132021 GTTCCGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.32, C:0.31, G:0.10, T:0.27
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCCGCGTATCC
Found at i:16144005 original size:76 final size:76
Alignment explanation
Indices: 16143879--16144493 Score: 1061
Period size: 76 Copynumber: 8.1 Consensus size: 76
16143869 CACATCAATC
16143879 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
16143944 TGAAGTAAGAG
66 TGAAGTAAGAG
16143955 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
16144020 TGAAGTAAGAG
66 TGAAGTAAGAG
*
16144031 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAGGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
16144096 TGAAGTAAGAG
66 TGAAGTAAGAG
*
16144107 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
16144172 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
16144183 CAAGATCATTTCCTATCCTCTTGAAATCGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
16144248 TGAAGTAAGAG
66 TGAAGTAAGAG
16144259 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
*
16144324 T-AAGTAAGAA
66 TGAAGTAAGAG
* * * * *
16144334 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCAGTAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
16144399 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * *
16144410 CAAAATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAG
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCT-GAA-
*
16144475 ATTGAACTAAGAG
64 ATTGAAGTAAGAG
16144488 CAAGAT
1 CAAGAT
16144494 GAAGCCTCGA
Statistics
Matches: 513, Mismatches: 23, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
75 69 0.13
76 426 0.83
77 1 0.00
78 17 0.03
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (76 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:16144797 original size:17 final size:17
Alignment explanation
Indices: 16144762--16144843 Score: 74
Period size: 17 Copynumber: 4.5 Consensus size: 17
16144752 GATCTTTAGG
16144762 TTTAAATTTATTATTAAA
1 TTTAAATTTATT-TTAAA
16144780 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
**
16144797 TTTAAAAATATTTGAAATAAA
1 TTTAAATTTATTT----TAAA
* *
16144818 TTTAAAATTTAATTAAAA
1 TTT-AAATTTATTTTAAA
16144836 TTTAAATT
1 TTTAAATT
16144844 AAAAGTCCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
17 21 0.40
18 18 0.34
21 7 0.13
22 7 0.13
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:16144843 original size:12 final size:12
Alignment explanation
Indices: 16144814--16144847 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
16144804 ATATTTGAAA
16144814 TAAATTTAAAATT
1 TAAA-TTAAAATT
16144827 T-AATTAAAATT
1 TAAATTAAAATT
16144838 TAAATTAAAA
1 TAAATTAAAA
16144848 GTCCAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 10 0.50
13 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTAAAATT
Found at i:16145892 original size:16 final size:16
Alignment explanation
Indices: 16145874--16145908 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
16145864 ATTTTTGAAA
16145874 TTTCTCCAGATCTGGAT
1 TTTC-CCAGATCTGGAT
16145891 TTTCCCAGATCTGGAT
1 TTTCCCAGATCTGGAT
16145907 TT
1 TT
16145909 GGTTTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (16 bp):
TTTCCCAGATCTGGAT
Found at i:16146790 original size:162 final size:162
Alignment explanation
Indices: 16146465--16147124 Score: 1022
Period size: 162 Copynumber: 4.1 Consensus size: 162
16146455 ACTTTTCAAT
* *
16146465 TTAGTCCTTTGACTGTTTGACTGCACTAGAGGCTGCCACGTGTCACTTTTTAGCTTATTTAT-TA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
* * *
16146529 TCTAGTCCCTATCATTTTTAATTTTTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
*
16146594 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
131 AATTGACCCAAGAATTTTTCAAGATTTATAAA
* * *
16146626 TTAATCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCACTTTTTGGCTTATTTCTGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
* *
16146691 TCTAGTTCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATTAACTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
* * *
16146756 AATTGACCCAGGAATCTTTT-GAGATTTTTAAA
131 AATTGACCCAAGAAT-TTTTCAAGATTTATAAA
* * * * *
16146788 TTAGTCCTTTGACTGTTTAACTGCACCATAGGCTGCCACATGTCACTTTTTGGCTTATTTCTGCA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
* *
16146853 TCAAGTTCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTAC-A
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
* * *
16146917 AATTGACCCAAGAATCTTTT-GAGATTTTTGAA
131 AATTGACCCAAGAAT-TTTTCAAGATTTATAAA
*
16146949 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
*
16147014 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTATAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
* *
16147079 AATTGGCCCGAGAATTTTTCAAGATTTATAAA
131 AATTGACCCAAGAATTTTTCAAGATTTATAAA
16147111 TTAGTCCTTTGACT
1 TTAGTCCTTTGACT
16147125 TCTGGGTACC
Statistics
Matches: 457, Mismatches: 38, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
161 211 0.46
162 242 0.53
163 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.44
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
AATTGACCCAAGAATTTTTCAAGATTTATAAA
Found at i:16147053 original size:323 final size:323
Alignment explanation
Indices: 16146465--16147124 Score: 1022
Period size: 323 Copynumber: 2.0 Consensus size: 323
16146455 ACTTTTCAAT
* * * *
16146465 TTAGTCCTTTGACTGTTTGACTGCACTAGAGGCTGCCACGTGTCACTTTTTAGCTTATTTATTAT
1 TTAGTCCTTTGACTGTTTAACTGCACCAGAGGCTGCCACATGTCACTTTTTAGCTTATTTATCAT
* * *
16146530 CTAGTCCCTATCATTTTTAATTTTTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAAA
66 CAAGTCCCTATCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAA
*
16146595 ATTGGCCCAAGAATTTTTCAAGATTTATAAATTAATCCTTTGACTGTTTGACTGCACCAGAGGCT
131 ATTGACCCAAGAATTTTTCAAGATTTATAAATTAATCCTTTGACTGTTTGACTGCACCAGAGGCT
* *
16146660 ACCACGTGTCACTTTTTGGCTTATTTCTGTATCTAGTTCCTGTCATTTTTAATTTGTTTTAATTT
196 ACCACGTGTCACTTTTTGGCTTATTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTT
* * *
16146725 AATCCTCAAATTAACTTTTATTTAATTACAAAATTGACCC-AGGAATCTTTT-GAGATTTTTAAA
261 AATCCTCAAATCAACTTTTATTTAATTACAAAATTGACCCGA-GAAT-TTTTCAAGATTTATAAA
* * *
16146788 TTAGTCCTTTGACTGTTTAACTGCACCATAGGCTGCCACATGTCACTTTTTGGCTTATTTCTGCA
1 TTAGTCCTTTGACTGTTTAACTGCACCAGAGGCTGCCACATGTCACTTTTTAGCTTATTTAT-CA
* *
16146853 TCAAGTTCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTAC-A
65 TCAAGTCCCTATCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
* * * *
16146917 AATTGACCCAAGAATCTTTT-GAGATTTTTGAATTAGTCCTTTGACTGTTTGACTGCACCAGAGG
130 AATTGACCCAAGAAT-TTTTCAAGATTTATAAATTAATCCTTTGACTGTTTGACTGCACCAGAGG
* *
16146981 TTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAAT
194 CTACCACGTGTCACTTTTTGGCTTATTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAAT
* *
16147046 TTAATCCTCAAATCAACTTTTATTTAATTATAAAATTGGCCCGAGAATTTTTCAAGATTTATAAA
259 TTAATCCTCAAATCAACTTTTATTTAATTACAAAATTGACCCGAGAATTTTTCAAGATTTATAAA
16147111 TTAGTCCTTTGACT
1 TTAGTCCTTTGACT
16147125 TCTGGGTACC
Statistics
Matches: 307, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
322 4 0.01
323 239 0.78
324 64 0.21
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.44
Consensus pattern (323 bp):
TTAGTCCTTTGACTGTTTAACTGCACCAGAGGCTGCCACATGTCACTTTTTAGCTTATTTATCAT
CAAGTCCCTATCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAA
ATTGACCCAAGAATTTTTCAAGATTTATAAATTAATCCTTTGACTGTTTGACTGCACCAGAGGCT
ACCACGTGTCACTTTTTGGCTTATTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTT
AATCCTCAAATCAACTTTTATTTAATTACAAAATTGACCCGAGAATTTTTCAAGATTTATAAA
Found at i:16147246 original size:30 final size:29
Alignment explanation
Indices: 16147198--16147307 Score: 102
Period size: 29 Copynumber: 3.8 Consensus size: 29
16147188 GGTTTCACCA
16147198 AAAATTACCATTTTACCCCCGAACTTTCC
1 AAAATTACCATTTTACCCCCGAACTTTCC
*
16147227 AAAATT-CCATTTTTAACCCCG-A-TTTCACC
1 AAAATTACCA-TTTTACCCCCGAACTTT--CC
**
16147256 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATTACCATTTTACCCCCGAACTTTCC
* *
16147286 AAAACT-CCATTTTTAGCCCCGA
1 AAAATTACCA-TTTTACCCCCGA
16147308 TTTCGCCAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
27 3 0.05
28 7 0.11
29 32 0.49
30 16 0.25
31 4 0.06
32 3 0.05
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAACTTTCC
Found at i:16147254 original size:59 final size:59
Alignment explanation
Indices: 16147190--16147317 Score: 211
Period size: 59 Copynumber: 2.2 Consensus size: 59
16147180 AGGTCCCTGG
* *
16147190 TTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGA
1 TTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAACTCCATTTTTAACCCCGA
* *
16147249 TTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAGCCCCGA
1 TTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAACTCCATTTTTAACCCCGA
*
16147308 TTTCGCCAAA
1 TTTCACCAAA
16147318 GTTTCCAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (59 bp):
TTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAACTCCATTTTTAACCCCGA
Found at i:16147356 original size:39 final size:38
Alignment explanation
Indices: 16147281--16147356 Score: 89
Period size: 39 Copynumber: 2.0 Consensus size: 38
16147271 ACCCCTAAAC
* **
16147281 TTTCCAAAACTCCATTTTTAGCCCCGATTTCGCCAAAG
1 TTTCCAAAACTCCATTTTTAACCCCGATTTAACCAAAG
* * *
16147319 TTTCCAAAATTCCTTTTTTTAACCTCGATTTAACCAAA
1 TTTCCAAAACTCC-ATTTTTAACCCCGATTTAACCAAA
16147357 AATTACCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
38 12 0.39
39 19 0.61
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.37
Consensus pattern (38 bp):
TTTCCAAAACTCCATTTTTAACCCCGATTTAACCAAAG
Found at i:16148826 original size:28 final size:29
Alignment explanation
Indices: 16148764--16148833 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
16148754 AATATTGGAT
16148764 CCCC-TAAAAGTTGATAAATTTTTTTTGA
1 CCCCTTAAAAGTTGATAAATTTTTTTTGA
**
16148792 -CATTTAAAAGTT-A-AAATTTTTTTTGAA
1 CCCCTTAAAAGTTGATAAATTTTTTTTG-A
*
16148819 CCCCTTAAAAATTGA
1 CCCCTTAAAAGTTGA
16148834 AAAACAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
26 12 0.36
27 3 0.09
28 17 0.52
29 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (29 bp):
CCCCTTAAAAGTTGATAAATTTTTTTTGA
Found at i:16149595 original size:19 final size:21
Alignment explanation
Indices: 16149557--16149596 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
16149547 TTTATGTTTA
16149557 TATATTGTATACATATATAAT
1 TATATTGTATACATATATAAT
*
16149578 TATATT-TATCCA-ATATAAT
1 TATATTGTATACATATATAAT
16149597 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (21 bp):
TATATTGTATACATATATAAT
Done.