Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 28 of 144
Found at i:8581702 original size:16 final size:16
Alignment explanation
Indices: 8581676--8581732 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
8581666 ACACAGCTTT
* *
8581676 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
8581692 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
8581708 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
8581724 TCCAATACA
1 TCCAATACA
8581733 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:8582449 original size:18 final size:18
Alignment explanation
Indices: 8582423--8582479 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
8582413 TTAAAATTCA
8582423 AAATATTTATATAATTTTC
1 AAAT-TTTATATAATTTTC
* *
8582442 AAATTTTATAT-TTTTTA
1 AAATTTTATATAATTTTC
** *
8582459 AAAAATTATAAAATTTTC
1 AAATTTTATATAATTTTC
8582477 AAA
1 AAA
8582480 AAAAATCTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 12 0.40
18 14 0.47
19 4 0.13
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTTTATATAATTTTC
Found at i:8582756 original size:24 final size:25
Alignment explanation
Indices: 8582723--8582769 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
8582713 ATCAACTTGA
8582723 TTAACTCGAAATTTTTTACTCAAGC
1 TTAACTCGAAATTTTTTACTCAAGC
8582748 TTAA-TCGAAATTTTTTACTCAA
1 TTAACTCGAAATTTTTTACTCAA
8582770 ACGCTTACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (25 bp):
TTAACTCGAAATTTTTTACTCAAGC
Found at i:8583270 original size:16 final size:15
Alignment explanation
Indices: 8583244--8583273 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8583234 TCCTAGGCAT
8583244 ACAAATACAGATAAC
1 ACAAATACAGATAAC
8583259 ACAAATTACAGATAA
1 ACAAA-TACAGATAA
8583274 AAATATTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (15 bp):
ACAAATACAGATAAC
Found at i:8587814 original size:18 final size:18
Alignment explanation
Indices: 8587787--8587822 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8587777 TTCACATGAA
*
8587787 GAAATCTAATAACCATAT
1 GAAATATAATAACCATAT
*
8587805 GAAATATAATAATCATAT
1 GAAATATAATAACCATAT
8587823 TGAAGATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
GAAATATAATAACCATAT
Found at i:8587935 original size:32 final size:32
Alignment explanation
Indices: 8587899--8587959 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
8587889 CCATAAACTT
* *
8587899 ATAAATTGATTACTTGAATTT-AGTAACTCATG
1 ATAAATTAATTAATTGAATTTGA-TAACTCATG
*
8587931 ATAAATTAATTAATTTAATTTGATAACTC
1 ATAAATTAATTAATTGAATTTGATAACTC
8587960 TCTCATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 24 0.96
33 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTGATAACTCATG
Found at i:8599592 original size:18 final size:19
Alignment explanation
Indices: 8599552--8599609 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
8599542 TAAGATTACT
*
8599552 ATAAAAAAA-ATTCAATAA
1 ATAAAAAAATATTAAATAA
8599570 ATAAAAAAATATTAAAT-A
1 ATAAAAAAATATTAAATAA
* *
8599588 TTAAAATAATA-TAATATAA
1 ATAAAAAAATATTAA-ATAA
8599607 ATA
1 ATA
8599610 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 3 0.09
18 21 0.64
19 9 0.27
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAAAAAATATTAAATAA
Found at i:8599595 original size:23 final size:22
Alignment explanation
Indices: 8599568--8599611 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
8599558 AAAATTCAAT
8599568 AAATAAAAAAATATTAAATATTA
1 AAATAAAAAAATA-TAAATATTA
* *
8599591 AAATAATATAATATAAATATT
1 AAATAAAAAAATATAAATATT
8599612 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATAAAAAAATATAAATATTA
Found at i:8605549 original size:21 final size:20
Alignment explanation
Indices: 8605511--8605550 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8605501 TTTATATCTC
*
8605511 TTTCTTTCTTATTCTTGTTA
1 TTTCTATCTTATTCTTGTTA
*
8605531 TTTCTATCTTTATTTTTGTT
1 TTTCTATC-TTATTCTTGTT
8605551 TTTTTTCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTCTATCTTATTCTTGTTA
Found at i:8610083 original size:19 final size:20
Alignment explanation
Indices: 8610059--8610106 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
8610049 CATGCACAGT
*
8610059 AAAAAAAATGCTAAAAAC-A
1 AAAAAAAAAGCTAAAAACGA
*
8610078 AAAAAAAAAGCTGAAAACGA
1 AAAAAAAAAGCTAAAAACGA
8610098 AAAAAAAAA
1 AAAAAAAAA
8610107 TAAAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.06
Consensus pattern (20 bp):
AAAAAAAAAGCTAAAAACGA
Found at i:8610084 original size:20 final size:21
Alignment explanation
Indices: 8610059--8610107 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
8610049 CATGCACAGT
8610059 AAAAAAAATGCTAAAAAC-AA
1 AAAAAAAATGCTAAAAACGAA
*
8610079 AAAAAAAA-GCTGAAAACGAA
1 AAAAAAAATGCTAAAAACGAA
8610099 AAAAAAAAT
1 AAAAAAAAT
8610108 AAAAAACAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (21 bp):
AAAAAAAATGCTAAAAACGAA
Found at i:8610264 original size:17 final size:16
Alignment explanation
Indices: 8610238--8610282 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
8610228 AGAAGAAAAT
*
8610238 AAAG-AAAAAGAATGA
1 AAAGAAAAAAGAAAGA
*
8610253 GAAGGAAAAAAGAAAGA
1 -AAAGAAAAAAGAAAGA
8610270 AAAGAAAAAAGAA
1 AAAGAAAAAAGAA
8610283 GGTATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAAGAAAGA
Found at i:8610434 original size:27 final size:26
Alignment explanation
Indices: 8610378--8610436 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
8610368 GCTGTTAGTT
*
8610378 ATTATTATTGTTAGTAAAAAACCCTT
1 ATTATTATTGTTAGTAAAAAACCCTA
*
8610404 ATTATTATTGTTAGTAAAAAAATCCTA
1 ATTATTATTGTTAGT-AAAAAACCCTA
8610431 ATTATT
1 ATTATT
8610437 GTTAGTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (26 bp):
ATTATTATTGTTAGTAAAAAACCCTA
Found at i:8612609 original size:8 final size:8
Alignment explanation
Indices: 8612596--8612624 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8612586 TTATGTTTAA
8612596 TATATTAT
1 TATATTAT
8612604 TATATTAT
1 TATATTAT
8612612 TATATTAT
1 TATATTAT
8612620 TATAT
1 TATAT
8612625 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:8612657 original size:5 final size:5
Alignment explanation
Indices: 8612647--8612673 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
8612637 TTATGTTTTA
8612647 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
8612674 AAACTAAAGA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:8612665 original size:52 final size:50
Alignment explanation
Indices: 8612584--8612683 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 50
8612574 TCTAAGATTT
8612584 TTTTATGTTTAATATATTATTATATTATTATATTATTATATAA-TAAAGATA
1 TTTTATGTTTAATATATTATTATATTATTATATTA-TATA-AACTAAAGATA
8612635 TTTTATGTTTTAAT-TA-TATTATATTATATTATATTATATAAACTAAAGA
1 TTTTATG-TTTAATATATTATTATA-T-TATTATATTATATAAACTAAAGA
8612684 AACAAAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
50 9 0.20
51 20 0.44
52 16 0.36
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (50 bp):
TTTTATGTTTAATATATTATTATATTATTATATTATATAAACTAAAGATA
Found at i:8613083 original size:21 final size:21
Alignment explanation
Indices: 8613057--8613118 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
8613047 NNNNNNNNNN
8613057 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTCGTATC
* *
8613078 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCGTGTGTCGTATC
* **
8613099 AGGCACTTTATGTGTCGTAT
1 AGGCACCTCGTGTGTCGTAT
8613119 ACTGATCAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCGTATC
Found at i:8614372 original size:47 final size:47
Alignment explanation
Indices: 8614269--8614434 Score: 217
Period size: 47 Copynumber: 3.6 Consensus size: 47
8614259 ATTCATATAT
* * * * * * *
8614269 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
*
8614315 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
* * *
8614362 CGATGCCATATCCCAGATATGGTCTTATACAGTGGTATAAATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
*
8614409 CGATGCCATATCCAAGATATGGTCTT
1 CGATGCCATATCCCAGATATGGTCTT
8614435 GTACGGAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 26 0.25
47 80 0.75
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
Found at i:8614492 original size:31 final size:31
Alignment explanation
Indices: 8614457--8614605 Score: 246
Period size: 31 Copynumber: 4.8 Consensus size: 31
8614447 CTTGTCACTT
*
8614457 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
8614488 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
8614519 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
8614550 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
8614581 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
8614606 TGTCATTTGT
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
30 2 0.02
31 107 0.96
32 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:8614691 original size:50 final size:51
Alignment explanation
Indices: 8614581--8614709 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
8614571 CACTGATCAG
* * *
8614581 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
8614632 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
8614682 GTAGTCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
8614710 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:8619475 original size:17 final size:17
Alignment explanation
Indices: 8619453--8619490 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
8619443 ACATGCCATT
8619453 TGTTCCAATTTA-ATTAA
1 TGTTCCAA-TTAGATTAA
8619470 TGTTCCAATTAGATTAA
1 TGTTCCAATTAGATTAA
8619487 TGTT
1 TGTT
8619491 GTAATGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (17 bp):
TGTTCCAATTAGATTAA
Found at i:8619693 original size:25 final size:24
Alignment explanation
Indices: 8619647--8619703 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
8619637 AATTAAATAT
8619647 ATACAAAAAAATACAAACTTTTTA
1 ATACAAAAAAATACAAACTTTTTA
*
8619671 ATACAAAAAAATACCAACTTTTTA
1 ATACAAAAAAATACAAACTTTTTA
*
8619695 ATATAAAAA
1 ATACAAAAA
8619704 CCCAAGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (24 bp):
ATACAAAAAAATACAAACTTTTTA
Found at i:8619974 original size:33 final size:33
Alignment explanation
Indices: 8619937--8620011 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 33
8619927 GAGTACTGCA
*
8619937 GTGGATACGGGTCAGAAGTAGTGCTATAATGCG
1 GTGGATACGGGTCAGAAGAAGTGCTATAATGCG
* * * * **
8619970 GTGGACATGGGTCGGGAGAAGTGCTATGCTGCG
1 GTGGATACGGGTCAGAAGAAGTGCTATAATGCG
*
8620003 GTGGGTACG
1 GTGGATACG
8620012 ACCCAAACAT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (33 bp):
GTGGATACGGGTCAGAAGAAGTGCTATAATGCG
Found at i:8620184 original size:72 final size:72
Alignment explanation
Indices: 8620060--8620193 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
8620050 GACGAGCCTG
* *
8620060 GGAAATAGTCATTGCCCGGAAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATGCGATGAC
1 GGAAATAGTCATTGCCCGCAAAATCCAGATGATAAGAAGTATCAGCCAAATGTGAATGCGATGAC
8620125 AAGCTTA
66 AAGCTTA
* *
8620132 GGAAATAGTCATTGCCCGCCAAAT-CAGGATGATAAGAAGTATCAGTCAAATGTGAATGCGAT
1 GGAAATAGTCATTGCCCGCAAAATCCA-GATGATAAGAAGTATCAGCCAAATGTGAATGCGAT
8620194 CGTTCGGACT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
71 2 0.04
72 55 0.96
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (72 bp):
GGAAATAGTCATTGCCCGCAAAATCCAGATGATAAGAAGTATCAGCCAAATGTGAATGCGATGAC
AAGCTTA
Found at i:8622116 original size:6 final size:6
Alignment explanation
Indices: 8622105--8622135 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
8622095 TTTTAAATTA
8622105 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
8622136 AAAAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:8622175 original size:12 final size:13
Alignment explanation
Indices: 8622141--8622182 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
8622131 TTTTAAAAAA
8622141 TATATTATTTTCG
1 TATATTATTTTCG
* *
8622154 TATTTTATTTT-T
1 TATATTATTTTCG
8622166 TATATTATTTTCG
1 TATATTATTTTCG
8622179 TATA
1 TATA
8622183 CAAGTGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (13 bp):
TATATTATTTTCG
Found at i:8622454 original size:148 final size:149
Alignment explanation
Indices: 8622205--8622486 Score: 469
Period size: 148 Copynumber: 1.9 Consensus size: 149
8622195 TTTATATTAA
* *
8622205 TTTAATAAATAACCCTAATTTTGACACTTTCTTCGTATTTTTTTATTTTCGTATCTTATTTTTAA
1 TTTAATAAATAACCCTAATTTTGACACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTAA
* *
8622270 AATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTCTTAT
66 AATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATATATTAT
8622335 TTAACTTTTTTCCATATTT
131 TTAACTTTTTTCCATATTT
* * *
8622354 TTTAATAAATAACCCTGATTTT-AGCACTTTATTCGTA-TTTTTTATTTTTGTATATTATTTTTT
1 TTTAATAAATAACCCTAATTTTGA-CACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTA
*
8622417 AAATATATTATTTTCGTATTTTATTTCTTTATGTTATTTTAGTACATAATGTTTCAAATATATTA
65 AAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATATATTA
8622482 TTTAA
130 TTTAA
8622487 TACTATTTTT
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
148 91 0.73
149 33 0.27
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (149 bp):
TTTAATAAATAACCCTAATTTTGACACTTTATTCGTATTTTTTTATTTTCGTATATTATTTTTAA
AATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATATATTAT
TTAACTTTTTTCCATATTT
Found at i:8622941 original size:3 final size:3
Alignment explanation
Indices: 8622933--8622978 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
8622923 GCCGGCCTCA
* * *
8622933 TTC TTC TTC TTC TTC TCC TTC TT- TTC TTT TTC TTC TTC TCC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
8622979 TGTTCTCGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:8622965 original size:23 final size:23
Alignment explanation
Indices: 8622933--8622979 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
8622923 GCCGGCCTCA
8622933 TTCTTCTTCTTCTTCTCCTTCTT
1 TTCTTCTTCTTCTTCTCCTTCTT
*
8622956 TTCTTTTTCTTCTTCTCCTTCTT
1 TTCTTCTTCTTCTTCTCCTTCTT
8622979 T
1 T
8622980 GTTCTCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (23 bp):
TTCTTCTTCTTCTTCTCCTTCTT
Found at i:8623154 original size:21 final size:20
Alignment explanation
Indices: 8623121--8623167 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
8623111 CGTTTTTTTA
8623121 TTTTTTTTTGTTTTCAGC-T
1 TTTTTTTTTGTTTTCAGCGT
8623140 TTTTGTTTTTCGTTTTCAGCGT
1 TTTT-TTTTT-GTTTTCAGCGT
8623162 TTTTTT
1 TTTTTT
8623168 ACTGTGCAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.16
20 5 0.20
21 11 0.44
22 5 0.20
ACGTcount: A:0.04, C:0.11, G:0.13, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGTTTTCAGCGT
Found at i:8623583 original size:60 final size:60
Alignment explanation
Indices: 8623515--8623639 Score: 250
Period size: 60 Copynumber: 2.1 Consensus size: 60
8623505 TTATAAATTG
8623515 TAATTACAAAACTACATAATTTAAAATTTTAAAAATATTAATTATTATAAAAATTATACA
1 TAATTACAAAACTACATAATTTAAAATTTTAAAAATATTAATTATTATAAAAATTATACA
8623575 TAATTACAAAACTACATAATTTAAAATTTTAAAAATATTAATTATTATAAAAATTATACA
1 TAATTACAAAACTACATAATTTAAAATTTTAAAAATATTAATTATTATAAAAATTATACA
8623635 TAATT
1 TAATT
8623640 CTTCAGAATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.39
Consensus pattern (60 bp):
TAATTACAAAACTACATAATTTAAAATTTTAAAAATATTAATTATTATAAAAATTATACA
Found at i:8624300 original size:22 final size:24
Alignment explanation
Indices: 8624275--8624318 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
8624265 GGTTGATTCG
*
8624275 TATC-TATT-TTTCTAATATATTA
1 TATCATATTATTTATAATATATTA
*
8624297 TATCATGTTATTTATAATATAT
1 TATCATATTATTTATAATATAT
8624319 ACAAAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 3 0.17
24 11 0.61
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (24 bp):
TATCATATTATTTATAATATATTA
Found at i:8627458 original size:22 final size:22
Alignment explanation
Indices: 8627410--8627463 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
8627400 TTTTTAAAAA
* * *
8627410 AATATTTACATTATATTATTTT
1 AATATTTACATTAGAGTATATT
8627432 AATATTTACATTAGAGTAGTATT
1 AATATTTACATTAGAGTA-TATT
8627455 ATATATTTA
1 A-ATATTTA
8627464 ATATATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 16 0.59
23 4 0.15
24 7 0.26
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (22 bp):
AATATTTACATTAGAGTATATT
Found at i:8627898 original size:13 final size:13
Alignment explanation
Indices: 8627859--8627922 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
8627849 AATTCTTCAT
8627859 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* * *
8627872 TACTTTTCAAAAG
1 TGCTTTTGAGAAG
8627885 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
8627898 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
8627911 TGCTTTTGAGAA
1 TGCTTTTGAGAA
8627923 ATTTGAGTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:8628586 original size:22 final size:23
Alignment explanation
Indices: 8628556--8628623 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
8628546 ATAGCATACT
8628556 TATATTTGATAAGCATATGAAAA
1 TATATTTGATAAGCATATGAAAA
* *
8628579 TA-ATTTGATTA--ATAT-AATACT
1 TATATTTGATAAGCATATGAA-A-A
8628600 TATATTTGATAAGCATATGAAAA
1 TATATTTGATAAGCATATGAAAA
8628623 T
1 T
8628624 GAAAGTCGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 2 0.06
22 16 0.46
23 3 0.09
24 5 0.14
25 2 0.06
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (23 bp):
TATATTTGATAAGCATATGAAAA
Found at i:8629608 original size:12 final size:12
Alignment explanation
Indices: 8629591--8629615 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8629581 CTCTATACCT
8629591 CAAAAACTAAAG
1 CAAAAACTAAAG
8629603 CAAAAACTAAAG
1 CAAAAACTAAAG
8629615 C
1 C
8629616 TGATATACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (12 bp):
CAAAAACTAAAG
Found at i:8633531 original size:26 final size:24
Alignment explanation
Indices: 8633489--8633549 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 24
8633479 ATGTTTTCTA
*
8633489 TATTTATAATATAATATATTAAAT
1 TATTTATAACATAATATATTAAAT
*
8633513 TATTTATATACATAGATATATTATAT
1 TATTTATA-ACATA-ATATATTAAAT
* *
8633539 AATTTAAAACA
1 TATTTATAACA
8633550 CATAAAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 8 0.26
25 7 0.23
26 16 0.52
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (24 bp):
TATTTATAACATAATATATTAAAT
Found at i:8633678 original size:28 final size:28
Alignment explanation
Indices: 8633616--8633679 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
8633606 ATACCATCTA
*
8633616 TTAAATTAAAAATAATATAAATATATTT
1 TTAAATTAAAAATAATATAAATATATAT
* *
8633644 TTAAAATATAAAAT-ATATTAATATCATAT
1 TTAAATTA-AAAATAATATAAATAT-ATAT
8633673 TTAAATT
1 TTAAATT
8633680 TTACTAGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAAATTAAAAATAATATAAATATATAT
Found at i:8633796 original size:15 final size:16
Alignment explanation
Indices: 8633764--8633796 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8633754 CCAGAGAACT
*
8633764 CTTCAAGATCACTAAC
1 CTTCAAGAACACTAAC
8633780 CTTCAAGAACA-TAAC
1 CTTCAAGAACACTAAC
8633795 CT
1 CT
8633797 ACTTTGGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.30, G:0.06, T:0.24
Consensus pattern (16 bp):
CTTCAAGAACACTAAC
Found at i:8635443 original size:30 final size:30
Alignment explanation
Indices: 8635400--8635458 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
8635390 CTTAACAAGC
*
8635400 AAATGTTTCTAAAATAATAACAAAATTAAT
1 AAATGTTTCTAAAATAATAAAAAAATTAAT
8635430 AAATGTCTT-TAAAATAATAAAAAAATTAA
1 AAATGT-TTCTAAAATAATAAAAAAATTAA
8635459 CAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATGTTTCTAAAATAATAAAAAAATTAAT
Found at i:8635780 original size:27 final size:27
Alignment explanation
Indices: 8635742--8635801 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
8635732 TGCACACATC
8635742 TAGTTTATATTATTGTGATTTTATTTT
1 TAGTTTATATTATTGTGATTTTATTTT
8635769 TAGTTTATATTATTGTGATTTTATTTT
1 TAGTTTATATTATTGTGATTTTATTTT
8635796 TAGTTT
1 TAGTTT
8635802 TTGATTTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.67
Consensus pattern (27 bp):
TAGTTTATATTATTGTGATTTTATTTT
Found at i:8635791 original size:16 final size:15
Alignment explanation
Indices: 8635745--8635793 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
8635735 ACACATCTAG
8635745 TTTATATTATTGTGA
1 TTTATATTATTGTGA
8635760 TTT-TATT-TT-T-A
1 TTTATATTATTGTGA
8635771 GTTTATATTATTGTGA
1 -TTTATATTATTGTGA
8635787 TTT-TATT
1 TTTATATT
8635794 TTTAGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
11 1 0.03
12 4 0.14
13 6 0.21
14 10 0.34
15 7 0.24
16 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTATATTATTGTGA
Found at i:8638094 original size:51 final size:51
Alignment explanation
Indices: 8638023--8638136 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
8638013 CTGATCACAT
8638023 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
8638074 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
8638125 TTGTCGCTTGTC
1 TTATCACTTGTC
8638137 GCTTGTCACT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:8654933 original size:17 final size:16
Alignment explanation
Indices: 8654911--8654966 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
8654901 CTATATTATT
8654911 ATTATTTTTACATATAC
1 ATTATTTTTA-ATATAC
* * *
8654928 ATTATTTATATTAT-T
1 ATTATTTTTAATATAC
8654943 ATTATTTTTATATATAC
1 ATTATTTTTA-ATATAC
8654960 ATTATTT
1 ATTATTT
8654967 ATATTAAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 9 0.29
16 6 0.19
17 16 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTTTTAATATAC
Found at i:8654939 original size:32 final size:32
Alignment explanation
Indices: 8654902--8654972 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
8654892 AACACTTTCC
8654902 TATATTATTATTATTTTTACATATACATTATT
1 TATATTATTATTATTTTTACATATACATTATT
*
8654934 TATATTATTATTATTTTTATATATACATTATT
1 TATATTATTATTATTTTTACATATACATTATT
8654966 TATATTA
1 TATATTA
8654973 AGTTTTTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (32 bp):
TATATTATTATTATTTTTACATATACATTATT
Found at i:8659277 original size:25 final size:26
Alignment explanation
Indices: 8659230--8659282 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
8659220 AAAAAATAAA
*
8659230 TTAATTATTAAAATAACCCACCC-TT
1 TTAATTATTAAAATAACCAACCCATT
*
8659255 TTAATTATGTAAAATAA-TAACCCATT
1 TTAATTAT-TAAAATAACCAACCCATT
8659281 TT
1 TT
8659283 CTACAGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (26 bp):
TTAATTATTAAAATAACCAACCCATT
Found at i:8659560 original size:20 final size:19
Alignment explanation
Indices: 8659537--8659579 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8659527 TTTTTTACTT
*
8659537 TTTTTCTTATATTTTATCTC
1 TTTTTCTTAGATTTT-TCTC
*
8659557 -TTTTCTTAGATTTTTTTC
1 TTTTTCTTAGATTTTTCTC
8659575 TTTTT
1 TTTTT
8659580 TAAGTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTCTTAGATTTTTCTC
Found at i:8659571 original size:31 final size:31
Alignment explanation
Indices: 8659508--8659572 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
8659498 GATTTGTCAG
* * *
8659508 TTTCTTATATTTTTTTTACTTTTTTACTTTT
1 TTTCTTATATTTTATCTACTTTTTTACATTT
*
8659539 TTTCTTATATTTTATCT-CTTTTCTTAGATTT
1 TTTCTTATATTTTATCTACTTTT-TTACATTT
8659570 TTT
1 TTT
8659573 TCTTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.14, C:0.11, G:0.02, T:0.74
Consensus pattern (31 bp):
TTTCTTATATTTTATCTACTTTTTTACATTT
Found at i:8659606 original size:18 final size:18
Alignment explanation
Indices: 8659538--8659631 Score: 54
Period size: 18 Copynumber: 5.1 Consensus size: 18
8659528 TTTTTACTTT
*
8659538 TTTTCTTATATTT-TATCTC
1 TTTTCTTA-ATTTATAT-TA
* *
8659557 TTTTCTTAGATTT-TTTTC
1 TTTTCTTA-ATTTATATTA
8659575 TTTT-TTAAGTTTTATATTA
1 TTTTCTTAA--TTTATATTA
8659594 TTTTCTTAATTTAT-TT-
1 TTTTCTTAATTTATATTA
*
8659610 TTCTTATTTAATTTATATTA
1 TT-TT-CTTAATTTATATTA
8659630 TT
1 TT
8659632 AATTTTAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
16 3 0.05
17 7 0.11
18 23 0.37
19 23 0.37
20 6 0.10
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTCTTAATTTATATTA
Found at i:8659690 original size:21 final size:21
Alignment explanation
Indices: 8659634--8659707 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
8659624 ATATTATTAA
* * * *
8659634 TTTTAAAAAATTTGTAATATA
1 TTTTTAAAATTTTATAATATT
*
8659655 TATTTAAAATGTTTTATAATATT
1 TTTTTAAAA--TTTTATAATATT
*
8659678 TTTTTAAAATTTTA-ATTATT
1 TTTTTAAAATTTTATAATATT
8659698 ATTTTTAAAA
1 -TTTTTAAAA
8659708 ATATTTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.12
21 21 0.49
23 17 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTATAATATT
Found at i:8659708 original size:22 final size:23
Alignment explanation
Indices: 8659621--8659709 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
8659611 TCTTATTTAA
* *
8659621 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAAAT
* * * *
8659644 TTTGTAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAA-AT
*
8659667 TTTATAATATT-TTTTT-AAAAT
1 TTTATATTATTATTTTTAAAAAT
8659688 TTTA-ATTATTATTTTTAAAAAT
1 TTTATATTATTATTTTTAAAAAT
8659710 ATTTTTTAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
20 5 0.10
21 10 0.19
22 17 0.33
23 19 0.37
24 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAAAT
Found at i:8660098 original size:27 final size:27
Alignment explanation
Indices: 8660062--8660125 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
8660052 TTAAATACAA
* *
8660062 TTTTTAAATACATTTAA-AAATTATAAT
1 TTTTTAAATA-ATATAAGAAATCATAAT
*
8660089 TTTTTTAATAATATAAGAAATCATAAT
1 TTTTTAAATAATATAAGAAATCATAAT
*
8660116 ATTTTAAATA
1 TTTTTAAATA
8660126 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (27 bp):
TTTTTAAATAATATAAGAAATCATAAT
Found at i:8660211 original size:18 final size:17
Alignment explanation
Indices: 8660173--8660215 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
8660163 CTTTTTTGAA
8660173 ATTTTATTTTTTTTCTT
1 ATTTTATTTTTTTTCTT
8660190 ATTTTATTTTGTTTAT-TT
1 ATTTTATTTT-TTT-TCTT
8660208 ATTTTATT
1 ATTTTATT
8660216 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 13 0.54
19 1 0.04
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
ATTTTATTTTTTTTCTT
Found at i:8660264 original size:21 final size:21
Alignment explanation
Indices: 8660222--8660267 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
8660212 TATTATTAAT
*
8660222 TTTAAAAATTTTGTAATGTATA
1 TTTAAAAATTTTATAA-GTATA
8660244 TTTAAAATATTTTATAA-TATA
1 TTTAAAA-ATTTTATAAGTATA
8660265 TTT
1 TTT
8660268 TTTACAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTAAAAATTTTATAAGTATA
Found at i:8660292 original size:21 final size:21
Alignment explanation
Indices: 8660252--8660296 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
8660242 TATTTAAAAT
8660252 ATTTTATAATATATTTTTTACA
1 ATTTTATAATATATTTTTTA-A
8660274 ATTTTA-AATAT-TATTTTTAA
1 ATTTTATAATATAT-TTTTTAA
8660294 ATT
1 ATT
8660297 CTTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 11 0.50
22 6 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTATAATATATTTTTTAA
Found at i:8664954 original size:142 final size:142
Alignment explanation
Indices: 8664698--8664982 Score: 561
Period size: 142 Copynumber: 2.0 Consensus size: 142
8664688 GCGAGCCAGA
8664698 CATTAATCATTTACCGTCAAATGATAGAGGCGTATACCGGAGAGAAAGTAATATATATTAATATA
1 CATTAATCATTTACCGTCAAATGATAGAGGCGTATACCGGAGAGAAAGTAATATATATTAATATA
8664763 GTTTAAGTAACGTTTATTTAACTTATCCACTTACAGTATGTGATGTGAATTGACTCATTATGTTA
66 GTTTAAGTAACGTTTATTTAACTTATCCACTTACAGTATGTGATGTGAATTGACTCATTATGTTA
*
8664828 TATTGTGCAGTT
131 TATTGTACAGTT
8664840 CATTAATCATTTACCGTCAAATGATAGAGGCGTATACCGGAGAGAAAGTAATATATATTAATATA
1 CATTAATCATTTACCGTCAAATGATAGAGGCGTATACCGGAGAGAAAGTAATATATATTAATATA
8664905 GTTTAAGTAACGTTTATTTAACTTATCCACTTACAGTATGTGATGTGAATTGACTCATTATGTTA
66 GTTTAAGTAACGTTTATTTAACTTATCCACTTACAGTATGTGATGTGAATTGACTCATTATGTTA
8664970 TATTGTACAGTT
131 TATTGTACAGTT
8664982 C
1 C
8664983 TTGTGGATGT
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 142 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (142 bp):
CATTAATCATTTACCGTCAAATGATAGAGGCGTATACCGGAGAGAAAGTAATATATATTAATATA
GTTTAAGTAACGTTTATTTAACTTATCCACTTACAGTATGTGATGTGAATTGACTCATTATGTTA
TATTGTACAGTT
Found at i:8665553 original size:30 final size:30
Alignment explanation
Indices: 8665517--8665639 Score: 183
Period size: 30 Copynumber: 4.1 Consensus size: 30
8665507 GTCCCACAGC
*
8665517 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
*
8665547 AGTTCATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* *
8665577 AGTTCATATCACCCGAACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* * *
8665607 AGTCCATATCACCCGGATATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
8665637 AGT
1 AGT
8665640 CCATTTGACC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:8669153 original size:13 final size:13
Alignment explanation
Indices: 8669135--8669159 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8669125 ATAAATATTA
8669135 AAAATATTTTTTC
1 AAAATATTTTTTC
8669148 AAAATATTTTTT
1 AAAATATTTTTT
8669160 AAATATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
AAAATATTTTTTC
Found at i:8669189 original size:20 final size:18
Alignment explanation
Indices: 8669149--8669185 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8669139 TATTTTTTCA
8669149 AAATATTTTTTAAATATT
1 AAATATTTTTTAAATATT
8669167 AAATATATTTTT-AATATT
1 AAATAT-TTTTTAAATATT
8669185 A
1 A
8669186 TAAAACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATATTTTTTAAATATT
Found at i:8669208 original size:19 final size:19
Alignment explanation
Indices: 8669186--8669243 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
8669176 TTTAATATTA
*
8669186 TAAAACATTTAAAATGATT
1 TAAAAAATTTAAAATGATT
8669205 TAAAATAATTTAAAAT-ATT
1 TAAAA-AATTTAAAATGATT
** * *
8669224 TTTAATATTTTAAATGATT
1 TAAAAAATTTAAAATGATT
8669243 T
1 T
8669244 TAAATATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 8 0.25
19 15 0.47
20 9 0.28
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (19 bp):
TAAAAAATTTAAAATGATT
Found at i:8669253 original size:19 final size:19
Alignment explanation
Indices: 8669192--8669252 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
8669182 ATTATAAAAC
*
8669192 ATTTAAAATGATTTAAAAT
1 ATTTAAAATGATTTTAAAT
*
8669211 AATTTAAAAT-ATTTTTAAT
1 -ATTTAAAATGATTTTAAAT
*
8669230 ATTTTAAATGATTTTAAAT
1 ATTTAAAATGATTTTAAAT
8669249 ATTT
1 ATTT
8669253 TTTAAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.22
19 19 0.53
20 9 0.25
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTAAAATGATTTTAAAT
Found at i:8669254 original size:10 final size:9
Alignment explanation
Indices: 8669156--8669253 Score: 72
Period size: 10 Copynumber: 10.4 Consensus size: 9
8669146 TCAAAATATT
8669156 TTTTAAATA
1 TTTTAAATA
*
8669165 -TTAAATATA
1 TTTTAA-ATA
*
8669174 TTTTTAATA
1 TTTTAAATA
* *
8669183 TTATAAAACA
1 TT-TTAAATA
*
8669193 TTTAAAATGA
1 TTTTAAAT-A
*
8669203 TTTAAAATAA
1 TTTTAAAT-A
*
8669213 TTTAAAATA
1 TTTTAAATA
*
8669222 TTTTTAATA
1 TTTTAAATA
8669231 TTTTAAATGA
1 TTTTAAAT-A
8669241 TTTTAAATA
1 TTTTAAATA
8669250 TTTT
1 TTTT
8669254 TTAAATTTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
8 4 0.05
9 33 0.45
10 36 0.49
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (9 bp):
TTTTAAATA
Found at i:8669717 original size:55 final size:55
Alignment explanation
Indices: 8669648--8669757 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
8669638 TAAAATAAAA
8669648 TAACAAAAAAATTATAAAATCTTAATTTAAAAATTCTATGTAAAATTAATAATAT
1 TAACAAAAAAATTATAAAATCTTAATTTAAAAATTCTATGTAAAATTAATAATAT
*
8669703 TAACCAAAAAATTATAAAATCTTAATTTAAAAATTCTATGTAAAATTAATAATAT
1 TAACAAAAAAATTATAAAATCTTAATTTAAAAATTCTATGTAAAATTAATAATAT
8669758 ATTAAACATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (55 bp):
TAACAAAAAAATTATAAAATCTTAATTTAAAAATTCTATGTAAAATTAATAATAT
Found at i:8670055 original size:37 final size:36
Alignment explanation
Indices: 8669985--8670055 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
8669975 AATAATTATT
*
8669985 TTTTTAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
* *
8670021 TTTTTAAAATTTATAAATAATTAATTTCACAAATA
1 TTTTTAAAATTT-TAAAAAATTAATTTCAAAAATA
8670056 TATATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:8670276 original size:20 final size:20
Alignment explanation
Indices: 8670253--8670296 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
8670243 AAAAAAAGTT
*
8670253 AAAAAGTTAAAAAAGTAAAA
1 AAAAAGTAAAAAAAGTAAAA
8670273 AAAAAGTAAAAAAAGTAAAA
1 AAAAAGTAAAAAAAGTAAAA
8670293 AAAA
1 AAAA
8670297 TATTAGAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (20 bp):
AAAAAGTAAAAAAAGTAAAA
Found at i:8670295 original size:9 final size:9
Alignment explanation
Indices: 8670243--8670295 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
8670233 AAAATATAAG
8670243 AAAAAAAGT
1 AAAAAAAGT
*
8670252 -TAAAAAGT
1 AAAAAAAGT
*
8670260 TAAAAAAGT
1 AAAAAAAGT
8670269 AAAAAAAAAGT
1 --AAAAAAAGT
8670280 AAAAAAAGT
1 AAAAAAAGT
8670289 AAAAAAA
1 AAAAAAA
8670296 ATATTAGAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
8 7 0.18
9 23 0.61
11 8 0.21
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.13
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:8670296 original size:11 final size:11
Alignment explanation
Indices: 8670261--8670296 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
8670251 TTAAAAAGTT
8670261 AAAAAAGTAAA
1 AAAAAAGTAAA
8670272 AAAAAAGT--A
1 AAAAAAGTAAA
8670281 AAAAAAGTAAA
1 AAAAAAGTAAA
8670292 AAAAA
1 AAAAA
8670297 TATTAGAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAGTAAA
Found at i:8670847 original size:21 final size:21
Alignment explanation
Indices: 8670821--8670862 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8670811 TAGCACTGAC
*
8670821 TCAAAGTCATATAAATGTAAA
1 TCAAAGTCATATAAACGTAAA
8670842 TCAAAGTCATATAAACGTAAA
1 TCAAAGTCATATAAACGTAAA
8670863 ACGTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (21 bp):
TCAAAGTCATATAAACGTAAA
Found at i:8673304 original size:24 final size:22
Alignment explanation
Indices: 8673272--8673330 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 22
8673262 ATAAATGTAG
*
8673272 TTTTTAAAATTTAAAATTAAAATA
1 TTTTAAAAATTT-AAA-TAAAATA
8673296 TTTTAAAAAATATTAAATAAAATA
1 TTTT-AAAAAT-TTAAATAAAATA
8673320 TTTTAAAAATT
1 TTTTAAAAATT
8673331 CTACATTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.03
23 6 0.19
24 15 0.47
25 8 0.25
26 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTTAAAAATTTAAATAAAATA
Found at i:8673307 original size:12 final size:12
Alignment explanation
Indices: 8673290--8673328 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
8673280 ATTTAAAATT
8673290 AAAATATTTTAA
1 AAAATATTTTAA
*
8673302 AAAATA-TTAAA
1 AAAATATTTTAA
8673313 TAAAATATTTTAA
1 -AAAATATTTTAA
8673326 AAA
1 AAA
8673329 TTCTACATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 4 0.17
12 15 0.65
13 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAATATTTTAA
Found at i:8675858 original size:18 final size:19
Alignment explanation
Indices: 8675813--8675860 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
8675803 CATGATATAC
8675813 ATAACATATATATAAAAACA
1 ATAACATA-ATATAAAAACA
* *
8675833 ATAA-ATAATATGAAAATA
1 ATAACATAATATAAAAACA
8675851 A-AACATAATA
1 ATAACATAATA
8675861 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACATAATATAAAAACA
Found at i:8676059 original size:20 final size:20
Alignment explanation
Indices: 8676023--8676060 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8676013 GGAAAATAAT
*
8676023 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
8676043 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
8676061 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:8678537 original size:17 final size:17
Alignment explanation
Indices: 8678515--8678553 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8678505 NNNNAAAATA
*
8678515 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
8678532 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
8678549 AAAAT
1 AAAAT
8678554 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:8679887 original size:75 final size:75
Alignment explanation
Indices: 8679659--8680313 Score: 819
Period size: 75 Copynumber: 8.7 Consensus size: 75
8679649 TCTGAAGCTT
*
8679659 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTTAGCA
1 AACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC-
* *
8679724 TGTGAAC-CGAGGCTC
62 -GTG-TCTTGAGGCTC
* * *
8679739 AACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAA-ATAGAAATTGAAAATACCTCAACG
1 AACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCG
8679803 TGTCTTGAGGCTC
63 TGTCTTGAGGCTC
** * *
8679816 AACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAACGTGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCGTGT
8679881 CTTGAGGCTC
66 CTTGAGGCTC
** *
8679891 AACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAATT-AAAATTACCTCAGCGTG
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA-TACCTCAGCGTG
**
8679952 TCCCGAGGCTC
65 TCTTGAGGCTC
* *
8679963 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCGTGT
8680028 CTTGAGGCTC
66 CTTGAGGCTC
** *
8680038 AACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAATT-AAAATTACCTCAGCGTG
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA-TACCTCAGCGTG
**
8680099 TCCCGAGGCTC
65 TCTTGAGGCTC
* *
8680110 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCGTGT
8680175 CTTGAGGCTC
66 CTTGAGGCTC
** * * *
8680185 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACA-ACAGAAATTGAAATTACCTCAGCA
1 AACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCG
*
8680249 TGTCCTGAGGCTC
63 TGTCTTGAGGCTC
* *
8680262 CACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA
8680314 ACGGAAATTG
Statistics
Matches: 510, Mismatches: 49, Indels: 37
0.86 0.08 0.06
Matches are distributed among these distances:
71 8 0.02
72 104 0.20
73 16 0.03
74 37 0.07
75 177 0.35
76 9 0.02
77 90 0.18
78 10 0.02
79 20 0.04
80 39 0.08
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (75 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCGTGT
CTTGAGGCTC
Found at i:8679962 original size:147 final size:148
Alignment explanation
Indices: 8679659--8680582 Score: 933
Period size: 147 Copynumber: 6.2 Consensus size: 148
8679649 TCTGAAGCTT
* * *
8679659 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTTAGCA
1 AACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAAAAATTGAAAATACCTCAACA
* ** * * *
8679724 TGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAATAGAAATT
63 TGT---CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----TATTTTGAAAACAGAAATT
* **
8679788 GAAAA-TACCTCAACGTGTCTTGAGGCTC
121 -AAAATTACCTCAGCGTGTCCCGAGGCTC
** *
8679816 AACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAACGTGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAACATGT
8679881 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTAAAATTACCT
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTTTGAAAACAGAAATTAAAATTACCT
8679945 CAGCGTGTCCCGAGGCTC
131 CAGCGTGTCCCGAGGCTC
*
8679963 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAACATGT
8680028 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTAAAATTACCT
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTTTGAAAACAGAAATTAAAATTACCT
8680092 CAGCGTGTCCCGAGGCTC
131 CAGCGTGTCCCGAGGCTC
*
8680110 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAACATGT
* * *
8680175 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATT
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----TATTTTGAAAACAGAAATTAAAATT
* *
8680240 ACCTCAGCATGTCCTGAGGCTC
127 ACCTCAGCGTGTCCCGAGGCTC
* *
8680262 CACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTT--------GAAA--G-ACAA---AAATTGAAA
** * * * *** * * *
8680327 ATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAAC
52 ATACCTCAACATGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TATTTTGAAAAC
* * **
8680392 AGAAATTGAAATTACCTCAGTGTGTCTTGAGGCTC
114 AGAAATTAAAATTACCTCAGCGTGTCCCGAGGCTC
* * **
8680427 AACTCACCTCTCGCAATATGAGTTTA-TTTTTT---------AAA---AAAATACCTCAGCGCGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAACATGT
* ** * *
8680479 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-A-----CATACAGAAAATTAACAA-TAC
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTTTGAAAACAG-AAATTAA-AATTAC
8680537 CTCAGCGTGTCCCGAGGCTC
129 CTCAGCGTGTCCCGAGGCTC
*
8680557 AACTCACCTCTCGCAATATGAATTGA
1 AACTCACCTCTCGCAATATGAGTTGA
8680583 ACTTTGAAAT
Statistics
Matches: 688, Mismatches: 54, Indels: 77
0.84 0.07 0.09
Matches are distributed among these distances:
129 4 0.01
130 50 0.07
131 2 0.00
136 33 0.05
138 15 0.02
141 3 0.00
146 4 0.01
147 280 0.41
151 1 0.00
152 103 0.15
154 35 0.05
157 24 0.03
160 4 0.01
162 1 0.00
163 3 0.00
164 6 0.01
165 69 0.10
166 21 0.03
168 30 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (148 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAACATGT
CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTTTGAAAACAGAAATTAAAATTACCT
CAGCGTGTCCCGAGGCTC
Found at i:8680125 original size:294 final size:295
Alignment explanation
Indices: 8679659--8680582 Score: 1037
Period size: 294 Copynumber: 3.1 Consensus size: 295
8679649 TCTGAAGCTT
* *
8679659 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTTAGCA
1 AACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCA
* * *
8679724 TGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAATAGAAATTG
63 TGT--ACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAACAGAAATT-
* **
8679789 AAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAA
121 AAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
*
8679853 GACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
186 GACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
8679918 TTTTGAAAACAGAAATTAAAATTACCTCAGCGTGTCCCGAGGCTC
251 TTTTGAAAACAGAAATTAAAATTACCTCAGCGTGTCCCGAGGCTC
8679963 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
** *
8680028 -CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTAAAATTACC
66 AC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTAAAATTACC
**
8680091 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAAT
130 TCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAAT
* *
8680156 TGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTT
195 TGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-----ATTTT
* * * *
8680221 GACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTC
255 GAAAACAGAAATTAAAATTACCTCAGCGTGTCCCGAGGCTC
* *
8680262 CACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTT--------GAAA--G-ACAA---AAATTGAAA
* * * * * *
8680327 ATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAAC
52 ATACCTCAGCATGT-A-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAC
* * *
8680392 AGAAATTGAAATTACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTTA-TTT
114 AGAAATTAAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * **
8680456 TTT---------AAA---AAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATG
179 TTTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
* *
8680509 AGTTGAA-----CATACAGAAAATTAACAA-TACCTCAGCGTGTCCCGAGGCTC
244 AGTTGAATTTTGAAAACAG-AAATTAA-AATTACCTCAGCGTGTCCCGAGGCTC
*
8680557 AACTCACCTCTCGCAATATGAATTGA
1 AACTCACCTCTCGCAATATGAGTTGA
8680583 ACTTTGAAAT
Statistics
Matches: 542, Mismatches: 50, Indels: 65
0.82 0.08 0.10
Matches are distributed among these distances:
293 4 0.01
294 137 0.25
295 51 0.09
296 2 0.00
298 1 0.00
299 103 0.19
301 37 0.07
304 74 0.14
307 7 0.01
309 1 0.00
310 3 0.01
313 21 0.04
315 29 0.05
316 7 0.01
317 65 0.12
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (295 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT
ACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTAAAATTACCT
CAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATT
GAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
AGAAATTAAAATTACCTCAGCGTGTCCCGAGGCTC
Found at i:8680381 original size:91 final size:88
Alignment explanation
Indices: 8680228--8680402 Score: 244
Period size: 91 Copynumber: 2.0 Consensus size: 88
8680218 TTTGACAACA
* * * *
8680228 GAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
8680293 TTGA-AAGGCAGAAATTGAAAAACG
66 TTGACAA--CAGAAATTGAAAAACG
* * *
8680317 GAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCATGT--CCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
8680382 TTTTGACAACAGAAATTGAAA
64 TTTTGACAACAGAAATTGAAA
8680403 TTACCTCAGT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 21 0.28
90 12 0.16
91 41 0.54
92 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
TTGACAACAGAAATTGAAAAACG
Found at i:8680425 original size:165 final size:164
Alignment explanation
Indices: 8680152--8680458 Score: 454
Period size: 165 Copynumber: 1.9 Consensus size: 164
8680142 TGAAAGACAA
* * ** *
8680152 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGA--TTTT
*
8680217 TTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATG
64 TTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
8680282 AGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGG
129 AGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGG
* * *
8680318 AAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TTT
1 AAATTGAAAATACCTCAGCATGT--CCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
** *
8680382 TTTTGACAACAGAAATTGAAATTACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
64 TTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
8680447 AGTTTATTTTTT
129 AGTTGATTTTTT
8680459 AAAAAAATAC
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
165 75 0.60
166 21 0.17
168 30 0.24
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (164 bp):
AAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTT
TTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAGGCAGAAATTGAAAAACGG
Found at i:8680501 original size:62 final size:65
Alignment explanation
Indices: 8680404--8680577 Score: 210
Period size: 62 Copynumber: 2.7 Consensus size: 65
8680394 AAATTGAAAT
* * * *****
8680404 TACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-TATTTTTTAAA-AA-AA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTACATACAGAAAATAACAA
*
8680466 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATACAGAAAATTAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT--ACATACAGAAAA-TAA
8680531 CAA
63 CAA
*
8680534 TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
8680578 ATTGAACTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
62 44 0.46
65 5 0.05
67 2 0.02
68 44 0.46
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (65 bp):
TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTACATACAGAAAATAACAA
Found at i:8680931 original size:17 final size:18
Alignment explanation
Indices: 8680906--8680939 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8680896 ATATCACTCT
8680906 TTTGCCCTTG-GTTGAGC
1 TTTGCCCTTGCGTTGAGC
*
8680923 TTTGTCCTTGCGTTGAG
1 TTTGCCCTTGCGTTGAG
8680940 GCTCTTGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.06, C:0.21, G:0.29, T:0.44
Consensus pattern (18 bp):
TTTGCCCTTGCGTTGAGC
Found at i:8681636 original size:78 final size:78
Alignment explanation
Indices: 8681521--8681676 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
8681511 CATCTGAATT
*
8681521 CACTGGACTCGGTAACTCTTTCCCATCCATCTCGGTGAGAATCAAAGCTCCGCCCGAGAATGCCT
1 CACTGGACTCGGTAACTCTTTCCCATCCATCTCGGTGAGAATCAAAGCTCCGCCCGAAAATGCCT
8681586 TCTTTACAACGTA
66 TCTTTACAACGTA
* *
8681599 CACTGGACTCGGTAACTCTTTCCCATCCATCTCGGTGAGGATCAAAGCTCCGCCTGAAAATGCCT
1 CACTGGACTCGGTAACTCTTTCCCATCCATCTCGGTGAGAATCAAAGCTCCGCCCGAAAATGCCT
*
8681664 TCTTTACGACGTA
66 TCTTTACAACGTA
8681677 TGGACCTTCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (78 bp):
CACTGGACTCGGTAACTCTTTCCCATCCATCTCGGTGAGAATCAAAGCTCCGCCCGAAAATGCCT
TCTTTACAACGTA
Found at i:8684818 original size:12 final size:12
Alignment explanation
Indices: 8684801--8684833 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8684791 GTCTCAATCT
8684801 TCACTTCTTGCC
1 TCACTTCTTGCC
8684813 TCACTTCTTGCC
1 TCACTTCTTGCC
*
8684825 TCATTTCTT
1 TCACTTCTT
8684834 CAGTTCCCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.06, T:0.48
Consensus pattern (12 bp):
TCACTTCTTGCC
Found at i:8688287 original size:30 final size:30
Alignment explanation
Indices: 8688247--8688318 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
8688237 ATTTAGGATT
* *
8688247 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
8688277 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
8688307 AAAATGAAATTT
1 AAAATGAAATTT
8688319 TTATTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.31
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:8689276 original size:8 final size:7
Alignment explanation
Indices: 8689247--8689272 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8689237 ATATATTCGG
8689247 TTTTTCT
1 TTTTTCT
8689254 TTTTTCT
1 TTTTTCT
8689261 TTTTTCT
1 TTTTTCT
8689268 TTTTT
1 TTTTT
8689273 TCTTCACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:8690190 original size:12 final size:12
Alignment explanation
Indices: 8690173--8690205 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8690163 GTCTCAATCT
8690173 TCACTTCTTGCC
1 TCACTTCTTGCC
8690185 TCACTTCTTGCC
1 TCACTTCTTGCC
*
8690197 TCATTTCTT
1 TCACTTCTT
8690206 CAGTTCCCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.06, T:0.48
Consensus pattern (12 bp):
TCACTTCTTGCC
Found at i:8693485 original size:24 final size:24
Alignment explanation
Indices: 8693458--8693507 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8693448 ATGAAAGTTT
*
8693458 AATGCCAATG-ATGCAATGCAATGC
1 AATGCAAATGTATGCAATG-AATGC
*
8693482 AATGCAAATGTATGGAATGAATGC
1 AATGCAAATGTATGCAATGAATGC
8693506 AA
1 AA
8693508 AAGAAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (24 bp):
AATGCAAATGTATGCAATGAATGC
Found at i:8695725 original size:150 final size:150
Alignment explanation
Indices: 8695454--8695755 Score: 595
Period size: 150 Copynumber: 2.0 Consensus size: 150
8695444 ATTCTTGAAT
8695454 TAGCTTAAATCGATTTGTTTAAAGATTTCCTTATCTCGAGATGTCGGAGTATCACATCCCGTAAG
1 TAGCTTAAATCGATTTGTTTAAAGATTTCCTTATCTCGAGATGTCGGAGTATCACATCCCGTAAG
8695519 TTAGGACACAATACCATGAATTCCCGAGCACAAGGTCGTCTTTTAATTTAAATTGGAAATCCGTG
66 TTAGGACACAATACCATGAATTCCCGAGCACAAGGTCGTCTTTTAATTTAAATTGGAAATCCGTG
*
8695584 TATTTCAAAACTCAAAAGGA
131 CATTTCAAAACTCAAAAGGA
8695604 TAGCTTAAATCGATTTGTTTAAAGATTTCCTTATCTCGAGATGTCGGAGTATCACATCCCGTAAG
1 TAGCTTAAATCGATTTGTTTAAAGATTTCCTTATCTCGAGATGTCGGAGTATCACATCCCGTAAG
8695669 TTAGGACACAATACCATGAATTCCCGAGCACAAGGTCGTCTTTTAATTTAAATTGGAAATCCGTG
66 TTAGGACACAATACCATGAATTCCCGAGCACAAGGTCGTCTTTTAATTTAAATTGGAAATCCGTG
8695734 CATTTCAAAACTCAAAAGGA
131 CATTTCAAAACTCAAAAGGA
8695754 TA
1 TA
8695756 TTTAGCTATT
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (150 bp):
TAGCTTAAATCGATTTGTTTAAAGATTTCCTTATCTCGAGATGTCGGAGTATCACATCCCGTAAG
TTAGGACACAATACCATGAATTCCCGAGCACAAGGTCGTCTTTTAATTTAAATTGGAAATCCGTG
CATTTCAAAACTCAAAAGGA
Found at i:8696568 original size:18 final size:17
Alignment explanation
Indices: 8696542--8696605 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 17
8696532 CTAAGGTTTC
*
8696542 TTAGTTTTTTTTTTTGGG
1 TTAGGTTTTTTTTTT-GG
**
8696560 TTAGGTTTTTCTTTTTTC
1 TTAGGTTTTT-TTTTTGG
*
8696578 TT--CTTTTTTTTTTGG
1 TTAGGTTTTTTTTTTGG
8696593 TTAGGTTTTTTTT
1 TTAGGTTTTTTTT
8696606 GGGGGGGGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
15 7 0.19
16 5 0.14
17 8 0.22
18 11 0.31
19 5 0.14
ACGTcount: A:0.05, C:0.05, G:0.16, T:0.75
Consensus pattern (17 bp):
TTAGGTTTTTTTTTTGG
Found at i:8702408 original size:10 final size:9
Alignment explanation
Indices: 8702372--8702414 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
8702362 AATAATTTTT
8702372 AAAA-ATTA
1 AAAATATTA
8702380 AAAA-ATTA
1 AAAATATTA
*
8702388 AAATTATTA
1 AAAATATTA
8702397 AAAATATATA
1 AAAATAT-TA
8702407 AAAATATT
1 AAAATATT
8702415 TTTAGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 11 0.35
9 11 0.35
10 9 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATATTA
Found at i:8706353 original size:20 final size:20
Alignment explanation
Indices: 8706330--8706370 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8706320 TATTCGTTTG
* *
8706330 GGGTTTCATCATGTCGTCAC
1 GGGTTTCATCACGTCATCAC
8706350 GGGTTTCATCACGTCATCAC
1 GGGTTTCATCACGTCATCAC
8706370 G
1 G
8706371 ATGTCACCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (20 bp):
GGGTTTCATCACGTCATCAC
Found at i:8741712 original size:14 final size:14
Alignment explanation
Indices: 8741681--8741713 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8741671 ACAAAGAAGA
*
8741681 ACTATTTTTAATCT
1 ACTAATTTTAATCT
8741695 -CTAATTTTAATCT
1 ACTAATTTTAATCT
8741708 ACTAAT
1 ACTAAT
8741714 AACATTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (14 bp):
ACTAATTTTAATCT
Found at i:8745770 original size:21 final size:21
Alignment explanation
Indices: 8745729--8745770 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8745719 GTTTCCTTTG
* *
8745729 CTGTCAAATTTGCTTTCAACT
1 CTGTCAAATCTGCTCTCAACT
8745750 CTGTCAAATCTGC-CTCTAACT
1 CTGTCAAATCTGCTCTC-AACT
8745771 TCTTCAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (21 bp):
CTGTCAAATCTGCTCTCAACT
Found at i:8757386 original size:41 final size:41
Alignment explanation
Indices: 8757285--8757389 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
8757275 TTTAAACAGA
* * * ** *
8757285 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTAATTCAG
*
8757326 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTAATTCAG
8757367 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
8757390 ACGTATAGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.02
41 55 0.98
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTAATTCAG
Found at i:8757397 original size:41 final size:41
Alignment explanation
Indices: 8757320--8757402 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
8757310 TTATAGTTTA
* *
8757320 ATTCCGTTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTG
* *
8757361 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTG
8757402 A
1 A
8757403 ATAATTTCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (41 bp):
ATTCAGTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTG
Found at i:8757412 original size:41 final size:41
Alignment explanation
Indices: 8757325--8757417 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
8757315 GTTTAATTCC
* * *
8757325 GTTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCA
1 GTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTGAATAA
* *
8757366 GTTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATAA
1 GTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTGAATAA
* *
8757407 TTTCACTGGCA
1 GTTCACCGGCA
8757418 ATAAATCCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (41 bp):
GTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTGAATAA
Found at i:8759677 original size:15 final size:17
Alignment explanation
Indices: 8759641--8759675 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8759631 ACATTAGGAT
8759641 AAATATTCAATATATAA
1 AAATATTCAATATATAA
*
8759658 AAATATT-ATTATATAA
1 AAATATTCAATATATAA
8759674 AA
1 AA
8759676 TAAAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATTCAATATATAA
Found at i:8765817 original size:20 final size:20
Alignment explanation
Indices: 8765770--8765817 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
8765760 TCTCAATGAC
*
8765770 AAAATAGTCACTCAACTTTT
1 AAAACAGTCACTCAACTTTT
**
8765790 AATTCAGTCACTCAACTTTT
1 AAAACAGTCACTCAACTTTT
8765810 AAAACAGT
1 AAAACAGT
8765818 AACAAATCGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (20 bp):
AAAACAGTCACTCAACTTTT
Found at i:8765854 original size:31 final size:31
Alignment explanation
Indices: 8765793--8765861 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
8765783 AACTTTTAAT
8765793 TCAGTCACTCAACTTTTAAAACAGTAACAAA
1 TCAGTCACTCAACTTTTAAAACAGTAACAAA
* *
8765824 TCGGTCACT-AACGTTATTAAAA-AGTGACAAA
1 TCAGTCACTCAAC-TT-TTAAAACAGTAACAAA
8765855 TCAGTCA
1 TCAGTCA
8765862 TTCATTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 3 0.09
31 24 0.73
32 6 0.18
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (31 bp):
TCAGTCACTCAACTTTTAAAACAGTAACAAA
Found at i:8773377 original size:7 final size:7
Alignment explanation
Indices: 8773365--8773392 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8773355 ATATGTGGAA
8773365 ATCAAGT
1 ATCAAGT
8773372 ATCAAGT
1 ATCAAGT
8773379 ATCAAGT
1 ATCAAGT
8773386 ATCAAGT
1 ATCAAGT
8773393 TTCGAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
ATCAAGT
Found at i:8775147 original size:61 final size:61
Alignment explanation
Indices: 8775082--8775275 Score: 191
Period size: 61 Copynumber: 3.2 Consensus size: 61
8775072 TTATACTATT
*
8775082 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * * *
8775143 ATATATTTTAATTAAAATATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTA-TAGTATC
1 ATATATTATAATTTAAGTAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATTA-AATC
* * * * *
8775202 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
*
8775263 ATATATTTTAATT
1 ATATATTATAATT
8775276 AAAATATATT
Statistics
Matches: 101, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
58 4 0.04
59 33 0.33
60 14 0.14
61 44 0.44
62 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:8775194 original size:120 final size:120
Alignment explanation
Indices: 8775040--8775306 Score: 453
Period size: 120 Copynumber: 2.2 Consensus size: 120
8775030 AAAATTTGAT
* * *
8775040 TATATTTAATAATAATTATGTTATATTATATTTTATACTATTATATATTATAATTTTAGTAAATT
1 TATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAATTTGAGTAAATT
*
8775105 CATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
66 CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
* *
8775160 TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATT
1 TATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAATTTGAGTAAATT
* *
8775225 CATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
66 CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
8775280 TATATTTAATAATAATTATGTTTAAAT
1 TATATTTAATAATAATTATG-TTAAAT
8775307 ATGATTAAAT
Statistics
Matches: 138, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 132 0.96
121 6 0.04
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAATTTGAGTAAATT
CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
Found at i:8775278 original size:18 final size:17
Alignment explanation
Indices: 8775250--8775284 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8775240 ATTATTAAGA
*
8775250 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8775267 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8775285 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8785991 original size:17 final size:17
Alignment explanation
Indices: 8785941--8785993 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 17
8785931 AATTTCTAAC
*
8785941 TTAATTTTAATTATTAA
1 TTAATTTTAATTGTTAA
*
8785958 TTATTTAATGTAGATTGTTAA
1 TTAATT--T-TA-ATTGTTAA
8785979 TTAATTTTAATTGTT
1 TTAATTTTAATTGTT
8785994 GTGACTCGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
17 11 0.38
18 2 0.07
19 2 0.07
20 2 0.07
21 12 0.41
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (17 bp):
TTAATTTTAATTGTTAA
Found at i:8788306 original size:6 final size:6
Alignment explanation
Indices: 8788297--8788331 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
8788287 AAATAAAATT
8788297 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
8788332 GTCTAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:8791779 original size:107 final size:107
Alignment explanation
Indices: 8791658--8792661 Score: 999
Period size: 107 Copynumber: 9.3 Consensus size: 107
8791648 AAAGAAAGAA
* ** * * * *
8791658 CAAAAAAAAAAATTTGGTACTGACCTGTCAATAGCCGGCACCACCTTTATATAAAAAAAATTTAC
1 CAAAAAAAATAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTAC
* *
8791723 ATTTTGGGCTGTCATTTGCCGGCACTAGTATACGAAAAAATT
66 ATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATT
* * ****
8791765 CAAAAAAAATAATTTTTTGTGGTGGCCTGGCAATGGCCGGCACCAACTTTATGTAAATTTTTTTA
1 CAAAAAAAATAA--TTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAA---AAAAA
* * *
8791830 TATATATTTTGGGCTATCATTGGCCGGCACCAGTATACGAAAAAATT
61 TTTACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATT
* * *
8791877 CAAAAGAAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAAATT
1 C-AAA-AAAAATAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAATTT
* * **
8791942 ACATTTTGGGTTGTCATTAGCCTACACCAGTATACGAAAAAAAATT
64 ACATTTTGGGCTGTCATTGGCCGGCACCAGTATACG--AAAAAATT
** ** ** * *
8791988 --TTAAATTTTTTTTTGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAAATTAC
1 CAAAAAAAATAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTAC
* * **
8792051 ATTTTGGGTTGTCATTAGCCTACACCAGTATACGAAAAAAAATT
66 ATTTTGGGCTGTCATTGGCCGGCACCAGTATACG--AAAAAATT
** ** ** * *
8792095 --TTAAATTTTTTTTTGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTAT
1 CAAAAAAAATAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTAC
* *
8792158 ATTTTGAGTTGTCATTGGCCGGCACCAGTATACGAAAAAAATT
66 ATTTTGGGCTGTCATTGGCCGGCACCAGTATACG-AAAAAATT
* * * * *****
8792201 CAAAAAAAA-ATTTTTGTGGTAGCCTGGCAATTGCCGGCACCACCTTTATGTAGAATTTTTTTTT
1 CAAAAAAAATAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTA-AA---AAAAAT
* * *
8792265 TTACATTTTGGGCTGTCATTGGCCGACATCAGTATACAAAAAAATT
62 TTACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATT
** *
8792311 C--AAAAAA-AA-TTGGTGGTGGCCTGGCAATGGTTGGCATCACCTTTATGTAAAAAAAATTTAC
1 CAAAAAAAATAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTAC
* *
8792372 ATTTTGGGCTGTCATTGGCCGGCACAAATATACGAAAAAATT
66 ATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATT
* * *****
8792414 C-AAAAAAA-AATTTGGTGGTAGCCTGGCAATGGCCGGCACTACCTTTATGTAAATTTTTTTTTA
1 CAAAAAAAATAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAA-AAAAATTTA
* * *
8792477 CATTTTTGGCTATCATTGGCCGTCACCAGTATACGAAAAAATT
65 CATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATT
* * *
8792520 CAAAAAAAAT--TTTTGTGGTGCCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAAATCTA
1 CAAAAAAAATAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGT-AAAAAAAATTTA
* *
8792583 CATTTTGGGTTATCATTGGCCGGCACCAGTATACGAAAAAATT
65 CATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATT
* **
8792626 CAAAAAAAAAAAATTTTGGTGGTGGCCAAGCAATGG
1 C-AAAAAAAATAA-TTTGGTGGTGGCCTGGCAATGG
8792662 ATCTAAAATA
Statistics
Matches: 755, Mismatches: 117, Indels: 47
0.82 0.13 0.05
Matches are distributed among these distances:
103 43 0.06
104 8 0.01
105 37 0.05
106 134 0.18
107 292 0.39
108 12 0.02
109 67 0.09
110 27 0.04
111 41 0.05
112 84 0.11
113 3 0.00
114 7 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (107 bp):
CAAAAAAAATAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTAC
ATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATT
Found at i:8794062 original size:104 final size:106
Alignment explanation
Indices: 8793698--8794219 Score: 360
Period size: 107 Copynumber: 4.8 Consensus size: 106
8793688 TTTTTTTTTA
** * * *
8793698 AAATTTTTTTATATACTGGTGT-CGGCCAATGACAACCCAAAATGTA-AAAAAAA-ATTACATAA
1 AAATTTTTTCGTATACTGGT-TCCGGCCAATGACAGCCCAAAATATATAAAAAAATTTTACATAA
* * * *****
8793760 ACGTGGTGCCGGTCATTGCCATGCCACCACCAAAATTTTTTTTTT
65 AGGTGGTGCCGGCCATTGCCAGGCCACCACCAAAA---AAAAATT
* * * * * *
8793805 GAATTTTTTTGTATACTGGTGCCGGCCAATAACAG-CCAAAATGTAAAAAAAAAAAATTCTCTTT
1 AAATTTTTTCGTATACTGGTTCCGGCCAATGACAGCCCAAAA--T-ATATAAAAAAA-------T
* ** * *
8793869 TTTACATAAAGGCGGTGTTGACCATTGCCAGGCCACCAGCAAAAAAAAAATT
56 TTTACATAAAGGTGGTGCCGGCCATTGCCAGGCCACCA-CCAAAAAAAAATT
* * * *
8793921 AATTTTTTTCATATACTAGTTCCAGCCAATGACAGCCCAAAATATATAAAAAAATTTTACATAAA
1 AAATTTTTTCGTATACTGGTTCCGGCCAATGACAGCCCAAAATATATAAAAAAATTTTACATAAA
8793986 GGTGGTGCCGGCCATTGCCAGGCCACCA-C-AAAAAAAATT
66 GGTGGTGCCGGCCATTGCCAGGCCACCACCAAAAAAAAATT
* * * *** *
8794025 AAATTTTTTCGTATACTGGTTCCGGCAAATGAGAGCCC-AAA-ATGTAAAATTTTTTATATATAA
1 AAATTTTTTCGTATACTGGTTCCGGCCAATGACAGCCCAAAATATATAAAAAAATTT-TACATAA
*
8794088 AGGTGGTGCCAGCCATTGCCAGGCCACCACCAAAAAATAAAATTTTTTT
65 AGGTGGTGCCGGCCATTGCCAGGCCACCACC-AAAAA-AAAA-----TT
* * * * * * * *
8794137 GAATTTTTTCGTATACTGGTGT-TGGCCAATGATAACCTAAAATGTAAAAAAAAAAATTTACATA
1 AAATTTTTTCGTATACTGGT-TCCGGCCAATGACAGCCCAAAATAT-ATAAAAAAATTTTACATA
8794201 AAGGTGGTGCCGGCCATTG
64 AAGGTGGTGCCGGCCATTG
8794220 ATAGGCCAGC
Statistics
Matches: 323, Mismatches: 63, Indels: 51
0.74 0.14 0.12
Matches are distributed among these distances:
102 10 0.03
103 37 0.11
104 43 0.13
106 10 0.03
107 68 0.21
108 1 0.00
109 1 0.00
110 7 0.02
112 32 0.10
113 4 0.01
114 33 0.10
115 7 0.02
116 29 0.09
117 6 0.02
118 30 0.09
119 5 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (106 bp):
AAATTTTTTCGTATACTGGTTCCGGCCAATGACAGCCCAAAATATATAAAAAAATTTTACATAAA
GGTGGTGCCGGCCATTGCCAGGCCACCACCAAAAAAAAATT
Found at i:8794112 original size:103 final size:104
Alignment explanation
Indices: 8793868--8794135 Score: 310
Period size: 104 Copynumber: 2.6 Consensus size: 104
8793858 AAATTCTCTT
* ** *
8793868 TTTTACATAAAGGCGGTG-TTGACCATTGCCAGGCCACCAGCAAAAAAAAAATTAATTTTTTTCA
1 TTTTACATAAAGGTGGTGCCAG-CCATTGCCAGGCCACCA-C--AAAAAAAATTAAATTTTTTCA
*
8793932 TATACTAGTTCCAGCCAATGACAGCCCAAAATATATAAAAAAA
62 TATACTAGTTCCAGCAAATGACAGCCCAAAATATATAAAAAAA
* *
8793975 TTTTACATAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAAAAAAATTAAATTTTTTCGTATA
1 TTTTACATAAAGGTGGTGCCAGCCATTGCCAGGCCACCACAAAAAAAATTAAATTTTTTCATATA
* * * * ***
8794040 CTGGTTCCGGCAAATGAGAGCCC-AAA-ATGTAAAATTT
66 CTAGTTCCAGCAAATGACAGCCCAAAATATATAAAAAAA
* * *
8794077 TTTATATATAAAGGTGGTGCCAGCCATTGCCAGGCCACCAC-CAAAAAATAAAATTTTTT
1 TTT-TACATAAAGGTGGTGCCAGCCATTGCCAGGCCACCACAAAAAAAATTAAATTTTTT
8794136 TGAATTTTTT
Statistics
Matches: 142, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
102 26 0.18
103 38 0.27
104 42 0.30
106 1 0.01
107 34 0.24
108 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (104 bp):
TTTTACATAAAGGTGGTGCCAGCCATTGCCAGGCCACCACAAAAAAAATTAAATTTTTTCATATA
CTAGTTCCAGCAAATGACAGCCCAAAATATATAAAAAAA
Found at i:8794136 original size:103 final size:104
Alignment explanation
Indices: 8793868--8794136 Score: 303
Period size: 103 Copynumber: 2.6 Consensus size: 104
8793858 AAATTCTCTT
* ** *
8793868 TTTTACATAAAGGCGGTG-TTGACCATTGCCAGGCCACCAGCAAAAAAAAAATTAATTTTTTTCA
1 TTTTACATAAAGGTGGTGCCAG-CCATTGCCAGGCCACCA-CAAAAAAATAA--AATTTTTTTCA
*
8793932 TATACTAGTTCCAGCCAATGACAGCCCAAAATATATAAAAAAA
62 TATACTAGTTCCAGCAAATGACAGCCCAAAATATATAAAAAAA
* * *
8793975 TTTTACATAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAAAAAAATTAAA-TTTTTTCGTAT
1 TTTTACATAAAGGTGGTGCCAGCCATTGCCAGGCCACCAC-AAAAAAATAAAATTTTTTTCATAT
* * * * ***
8794039 ACTGGTTCCGGCAAATGAGAGCCC-AAA-ATGTAAAATTT
65 ACTAGTTCCAGCAAATGACAGCCCAAAATATATAAAAAAA
* *
8794077 TTTATATATAAAGGTGGTGCCAGCCATTGCCAGGCCACCACCAAAAAATAAAATTTTTTT
1 TTT-TACATAAAGGTGGTGCCAGCCATTGCCAGGCCACCACAAAAAAATAAAATTTTTTT
8794137 GAATTTTTTC
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
102 20 0.14
103 44 0.31
104 30 0.21
105 2 0.01
106 1 0.01
107 42 0.30
108 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (104 bp):
TTTTACATAAAGGTGGTGCCAGCCATTGCCAGGCCACCACAAAAAAATAAAATTTTTTTCATATA
CTAGTTCCAGCAAATGACAGCCCAAAATATATAAAAAAA
Found at i:8799302 original size:50 final size:50
Alignment explanation
Indices: 8799175--8799420 Score: 210
Period size: 50 Copynumber: 4.8 Consensus size: 50
8799165 TTTGGGTGAT
* * * *
8799175 GAGATCCCATGTAAGACCATGTTTGAGATATGACATTGGCATCATTGAGACTATGA
1 GAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-C--CGAG---ATGA
*
8799231 GAGATCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATGA
1 GAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGAGATGA
* ** * * *
8799281 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGA
1 GAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGAGATGA
* * * *
8799331 GA-ACTCCCATGTAAGACTATATCTGGGATATGGCATTGGCA--GTACAGGA
1 GAGA-TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCG-AGATGA
* * * * * *
8799380 AACATCCCATGTAAGACTATATCTGGGATATAGCTTTGGCA
1 GAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA
8799421 TGTTATATTC
Statistics
Matches: 163, Mismatches: 24, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 40 0.25
50 81 0.50
53 3 0.02
55 1 0.01
56 37 0.23
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
GAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGAGATGA
Found at i:8804195 original size:26 final size:25
Alignment explanation
Indices: 8804147--8804206 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
8804137 CGATGTTTAG
* *
8804147 GGTTTGAAGTTAGGGTTCAGGTTCAT
1 GGTTT-AAGTTAGGGTCCAGGTTCAA
*
8804173 GGTTTAAGTTCGGGTCCAGGGTTCAA
1 GGTTTAAGTTAGGGTCCA-GGTTCAA
8804199 GGTTTAAG
1 GGTTTAAG
8804207 ATTTTGGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.20, C:0.10, G:0.35, T:0.35
Consensus pattern (25 bp):
GGTTTAAGTTAGGGTCCAGGTTCAA
Found at i:8804753 original size:47 final size:47
Alignment explanation
Indices: 8804697--8804790 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
8804687 ATTATAGATA
8804697 TAAAGATCATGTGTGTGTTCAATTATATTAAAATACAAAATTATTAT
1 TAAAGATCATGTGTGTGTTCAATTATATTAAAATACAAAATTATTAT
* *
8804744 TAAAGATCATGTGTGTGTTCAATTATATTAAAGTACAAATTTATTAT
1 TAAAGATCATGTGTGTGTTCAATTATATTAAAATACAAAATTATTAT
8804791 CACTCCACCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (47 bp):
TAAAGATCATGTGTGTGTTCAATTATATTAAAATACAAAATTATTAT
Found at i:8809357 original size:24 final size:24
Alignment explanation
Indices: 8809330--8809376 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
8809320 ATTTCAACGC
8809330 TGGAAGAATATCAGTTGATAGGTG
1 TGGAAGAATATCAGTTGATAGGTG
8809354 TGGAAGAATATCAGTTGATAGGT
1 TGGAAGAATATCAGTTGATAGGT
8809377 CCCAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.32, T:0.30
Consensus pattern (24 bp):
TGGAAGAATATCAGTTGATAGGTG
Found at i:8811313 original size:18 final size:18
Alignment explanation
Indices: 8811288--8811380 Score: 134
Period size: 18 Copynumber: 5.2 Consensus size: 18
8811278 ACCGTTTATG
8811288 GTACTATTCACGTATACA
1 GTACTATTCACGTATACA
* *
8811306 GCACTATTCACGTATATA
1 GTACTATTCACGTATACA
8811324 GTACTATTCACGTATAC-
1 GTACTATTCACGTATACA
*
8811341 GATACTATTCACGTATACG
1 G-TACTATTCACGTATACA
*
8811360 GTACTGTTCACGTATACA
1 GTACTATTCACGTATACA
8811378 GTA
1 GTA
8811381 GTTGGGATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
17 1 0.01
18 65 0.97
19 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (18 bp):
GTACTATTCACGTATACA
Found at i:8816756 original size:24 final size:24
Alignment explanation
Indices: 8816724--8816772 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8816714 ATTTGTAGGC
8816724 TCAATTTAGGAAACTAATGTTTCA
1 TCAATTTAGGAAACTAATGTTTCA
8816748 TCAATTTAGGAAACTAATGTTTCA
1 TCAATTTAGGAAACTAATGTTTCA
8816772 T
1 T
8816773 TCATATCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (24 bp):
TCAATTTAGGAAACTAATGTTTCA
Found at i:8817085 original size:53 final size:53
Alignment explanation
Indices: 8816991--8817131 Score: 139
Period size: 53 Copynumber: 2.7 Consensus size: 53
8816981 GTATTTAAAC
* *
8816991 TTGACACTTTTTTTTG----ATTTAGTACTTGAACTTGAGACTTTTTT-TAAT
1 TTGACACTTTTTTTTGACTAATTTGGTACTTGAACTTGACACTTTTTTCTAAT
* * * *
8817039 TTGACCCTTTTTTTTAGTCTAATTTGGTACTTAAACTTGACTCTTTTTTCCTAAT
1 TTGACACTTTTTTTT-GACTAATTTGGTACTTGAACTTGACACTTTTTT-CTAAT
** * *
8817094 TTGGTACTTTTTTTTGACTGATTCGGTACTTGAACTTG
1 TTGACACTTTTTTTTGACTAATTTGGTACTTGAACTTG
8817132 TCAACCCTGA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
48 14 0.19
49 1 0.01
53 24 0.32
54 19 0.26
55 16 0.22
ACGTcount: A:0.20, C:0.14, G:0.13, T:0.52
Consensus pattern (53 bp):
TTGACACTTTTTTTTGACTAATTTGGTACTTGAACTTGACACTTTTTTCTAAT
Found at i:8823771 original size:21 final size:21
Alignment explanation
Indices: 8823746--8823793 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
8823736 TGGGTGAAAG
*
8823746 AAAATATCTTATTTTTTTAAA
1 AAAATATCTTAATTTTTTAAA
* *
8823767 AAAATATTTTAATTTTTTAAT
1 AAAATATCTTAATTTTTTAAA
8823788 AAAATA
1 AAAATA
8823794 AATTCGACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATATCTTAATTTTTTAAA
Found at i:8831754 original size:17 final size:17
Alignment explanation
Indices: 8831732--8831766 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8831722 GAAATAAAAT
*
8831732 AAAAGAATAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
8831749 AAAAGAAGAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
8831766 A
1 A
8831767 GAGACCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAC
Found at i:8834029 original size:16 final size:16
Alignment explanation
Indices: 8834008--8834039 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8833998 GTTTTGTTGC
*
8834008 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
8834024 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
8834040 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:8835668 original size:20 final size:21
Alignment explanation
Indices: 8835619--8835669 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
8835609 TTTAGTAAAA
8835619 TGAAAATTTATGATTGGGTAT
1 TGAAAATTTATGATTGGGTAT
8835640 TGAAAATTTATGATTGGGTAT
1 TGAAAATTTATGATTGGGTAT
8835661 TG-AAATTTA
1 TGAAAATTTA
8835670 ATGTAGCAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (21 bp):
TGAAAATTTATGATTGGGTAT
Found at i:8836213 original size:15 final size:15
Alignment explanation
Indices: 8836189--8836218 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8836179 AAATAAGACA
8836189 TGTTTATTTATTATT
1 TGTTTATTTATTATT
*
8836204 TGTTTGTTTATTATT
1 TGTTTATTTATTATT
8836219 CATGAACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTTTATTTATTATT
Done.