Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 317 of 333
Found at i:103627742 original size:36 final size:36
Alignment explanation
Indices: 103627690--103627779 Score: 144
Period size: 36 Copynumber: 2.5 Consensus size: 36
103627680 GACCGTTTAT
*
103627690 GGTACTATTCACGTATACGGCACTATTCACGTATAC
1 GGTACTATTCAAGTATACGGCACTATTCACGTATAC
*
103627726 GGTACTATTTAAGTATACGGCACTATTCACGTATAC
1 GGTACTATTCAAGTATACGGCACTATTCACGTATAC
* *
103627762 GGTACTGTTCACGTATAC
1 GGTACTATTCAAGTATAC
103627780 AGTAGTTGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (36 bp):
GGTACTATTCAAGTATACGGCACTATTCACGTATAC
Found at i:103633187 original size:24 final size:22
Alignment explanation
Indices: 103633140--103633183 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
103633130 AAGAGTAAAC
103633140 TTAAGATTGGCAAAAAAAAAAA
1 TTAAGATTGGCAAAAAAAAAAA
103633162 TTAAGATTGGCAAAAAAAAAAA
1 TTAAGATTGGCAAAAAAAAAAA
103633184 AATTCTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.18
Consensus pattern (22 bp):
TTAAGATTGGCAAAAAAAAAAA
Found at i:103633581 original size:26 final size:27
Alignment explanation
Indices: 103633539--103633590 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
103633529 CTTTTAAGTT
103633539 TTTTTTCACTATTT-AAAATATAAAATA
1 TTTTTTCACTATTTAAAAAT-TAAAATA
103633566 TTTTTT-AC-ATTATAAAAATTAAAAT
1 TTTTTTCACTATT-TAAAAATTAAAAT
103633591 TAATTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 3 0.13
26 9 0.39
27 11 0.48
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTTTTCACTATTTAAAAATTAAAATA
Found at i:103633675 original size:18 final size:17
Alignment explanation
Indices: 103633632--103633676 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
103633622 ATTCGGTTTG
103633632 ATTATTTTTAAATTTAA
1 ATTATTTTTAAATTTAA
* *
103633649 ATTAGTTTTTAATTTCTCA
1 ATTA-TTTTTAAATT-TAA
103633668 ATTATTTTT
1 ATTATTTTT
103633677 TACTCAGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTATTTTTAAATTTAA
Found at i:103634674 original size:13 final size:13
Alignment explanation
Indices: 103634632--103634673 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
103634622 ACACTTAAAT
103634632 TTTTCAAAAATAC
1 TTTTCAAAAATAC
* *
103634645 TTCTCAAAAGTAC
1 TTTTCAAAAATAC
103634658 TTTTCAAAAATA-
1 TTTTCAAAAATAC
103634670 TTTT
1 TTTT
103634674 TTCACGGCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.43
Consensus pattern (13 bp):
TTTTCAAAAATAC
Found at i:103640400 original size:19 final size:19
Alignment explanation
Indices: 103640376--103640417 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
103640366 TGAAATTGTT
*
103640376 AAATTA-ATTTTATTTTTAA
1 AAATTATATTTT-TTTTAAA
103640395 AAATTATATTTTTTTTAAA
1 AAATTATATTTTTTTTAAA
103640414 AAAT
1 AAAT
103640418 AAAATATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AAATTATATTTTTTTTAAA
Found at i:103643593 original size:131 final size:127
Alignment explanation
Indices: 103643360--103643691 Score: 375
Period size: 131 Copynumber: 2.6 Consensus size: 127
103643350 TAATTATTCA
* * **
103643360 TTTAAAAATTCTTTAAAACAAAGGCAATGCTCGATTTTTGGCAATTC-AAAAATCA-TGCCCTAT
1 TTTAAAAATTC-TTAAAAC-AAGGCAATGTTCGATGTTTGGCAATTCGAGGAAT-AGTG-CCTAT
* * * * * *
103643423 CGTGTTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATG
62 CGTGCTGGGTTGCAATTTCCCGTTTATTCAAAACAATCGAATATCCCTTTAGAATTTCACTCACG
103643488 T
127 T
*
103643489 CTTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGAGGAATAGTGCTCTAT
1 -TTTAAAAATTCTT-AAAAC-AAGGCAATGTTCGATGTTTGGCAATTCGAGGAATAGTGC-CTAT
*
103643554 CGTGCTGGGTTGCAATTTCCCGTTTATTCAAAATAATCGAATATCCCTTTAGAATTTCACTCACG
62 CGTGCTGGGTTGCAATTTCCCGTTTATTCAAAACAATCGAATATCCCTTTAGAATTTCACTCACG
103643619 T
127 T
** * * * * *
103643620 TTTCTAAATTC-TAAAACAAGGCAATGTTCAATGTCTAGAAATTCGAGGAATCGTGCCT-TACTG
1 TTTAAAAATTCTTAAAACAAGGCAATGTTCGATGTTTGGCAATTCGAGGAATAGTGCCTAT-C-G
103643683 TGCTGGGTT
64 TGCTGGGTT
103643692 TCGGTTTTTT
Statistics
Matches: 175, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
125 1 0.01
126 3 0.02
127 43 0.25
128 5 0.03
129 3 0.02
130 51 0.29
131 69 0.39
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (127 bp):
TTTAAAAATTCTTAAAACAAGGCAATGTTCGATGTTTGGCAATTCGAGGAATAGTGCCTATCGTG
CTGGGTTGCAATTTCCCGTTTATTCAAAACAATCGAATATCCCTTTAGAATTTCACTCACGT
Found at i:103644685 original size:21 final size:21
Alignment explanation
Indices: 103644661--103644700 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
103644651 TAAAACAACG
*
103644661 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
*
103644682 TAGTTTTGACTTTTTACTT
1 TAGTTTTGACTTTTAACTT
103644701 TAAATCAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:103645088 original size:17 final size:18
Alignment explanation
Indices: 103645054--103645091 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
103645044 TACTTTTAGA
*
103645054 TTTTAAAAAAATATAATT
1 TTTTAAAAAAACATAATT
*
103645072 TTTTAAAAATACA-AATT
1 TTTTAAAAAAACATAATT
103645089 TTT
1 TTT
103645092 GAATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAAAAAAACATAATT
Found at i:103645118 original size:18 final size:21
Alignment explanation
Indices: 103645086--103645149 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 21
103645076 AAAAATACAA
*
103645086 ATTTTTGAATTTTTATAAA-T
1 ATTTTTGAATTTTTAAAAATT
103645106 ATTTTT-AA-TTTTAAAAATT
1 ATTTTTGAATTTTTAAAAATT
** *
103645125 A-TTTTGAAGATTTAAAAAAT
1 ATTTTTGAATTTTTAAAAATT
103645145 ATTTT
1 ATTTT
103645150 ATTTTTTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 12 0.32
19 6 0.16
20 16 0.43
21 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTTTGAATTTTTAAAAATT
Found at i:103645769 original size:11 final size:11
Alignment explanation
Indices: 103645755--103645817 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
103645745 ATATTCAAAT
103645755 AATAATAACAA
1 AATAATAACAA
**
103645766 AATAATAGTAA
1 AATAATAACAA
* **
103645777 CATAATAATGA
1 AATAATAACAA
*
103645788 AATAACAACAA
1 AATAATAACAA
103645799 AATAATGAA-AA
1 AATAAT-AACAA
103645810 AATAATAA
1 AATAATAA
103645818 AACACTGACA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
10 2 0.05
11 37 0.90
12 2 0.05
ACGTcount: A:0.68, C:0.06, G:0.05, T:0.21
Consensus pattern (11 bp):
AATAATAACAA
Found at i:103645815 original size:33 final size:33
Alignment explanation
Indices: 103645755--103645817 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
103645745 ATATTCAAAT
* * *
103645755 AATAATAACAAAATAATAGTAACATAATAATGA
1 AATAACAACAAAATAATAGAAAAATAATAATGA
103645788 AATAACAACAAAATAAT-GAAAAAATAATAA
1 AATAACAACAAAATAATAG-AAAAATAATAA
103645818 AACACTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.68, C:0.06, G:0.05, T:0.21
Consensus pattern (33 bp):
AATAACAACAAAATAATAGAAAAATAATAATGA
Found at i:103645819 original size:19 final size:19
Alignment explanation
Indices: 103645775--103645811 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
103645765 AAATAATAGT
* *
103645775 AACATAATAATGAAATAAC
1 AACAAAATAATGAAAAAAC
103645794 AACAAAATAATGAAAAAA
1 AACAAAATAATGAAAAAA
103645812 TAATAAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.08, G:0.05, T:0.16
Consensus pattern (19 bp):
AACAAAATAATGAAAAAAC
Found at i:103646005 original size:36 final size:37
Alignment explanation
Indices: 103645951--103646021 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
103645941 ATGAACTTTA
*
103645951 ATATTTTTGCTTAAAACCATTCTTTGAATTTATATTT
1 ATATTTTTGCCTAAAACCATTCTTTGAATTTATATTT
103645988 ATATTTTT-CCTAAAACCATTCTTTGAATTTATAT
1 ATATTTTTGCCTAAAACCATTCTTTGAATTTATAT
103646022 ATTTCTAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (37 bp):
ATATTTTTGCCTAAAACCATTCTTTGAATTTATATTT
Found at i:103649290 original size:19 final size:19
Alignment explanation
Indices: 103649266--103649303 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
103649256 TAGTAAAGAG
103649266 TTAATTGAAATAATAATGA
1 TTAATTGAAATAATAATGA
103649285 TTAATTGAAATAATAATGA
1 TTAATTGAAATAATAATGA
103649304 CAAAGTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (19 bp):
TTAATTGAAATAATAATGA
Found at i:103650338 original size:21 final size:21
Alignment explanation
Indices: 103650297--103650339 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
103650287 GGTTAAGTTG
* *
103650297 TAATTAAAAAATAAGTTGTGT
1 TAATTAAAAAATAAATCGTGT
103650318 TAATTAAAAAATAAATCGTGT
1 TAATTAAAAAATAAATCGTGT
103650339 T
1 T
103650340 TTATGTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (21 bp):
TAATTAAAAAATAAATCGTGT
Found at i:103656271 original size:6 final size:6
Alignment explanation
Indices: 103656260--103656335 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
103656250 TAAATGAAAT
* * * *
103656260 AAAGAA AAAGAA AGAGAG AAAGTAA AACGAA ACAGAA AGAA-AA GAAAGAA
1 AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AAAGAA A-AAGAA -AAAGAA
* *
103656310 AAAGAA AAAGAG AACGAA GAAAGAA A
1 AAAGAA AAAGAA AAAGAA -AAAGAA A
103656336 CAAATGCGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
6 40 0.75
7 13 0.25
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:103656329 original size:25 final size:23
Alignment explanation
Indices: 103656260--103656335 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 23
103656250 TAAATGAAAT
103656260 AAAGAAAAAGAAAGAGAGAAAGTAA
1 AAAGAAAAAGAAAGA-AGAAAG-AA
* *
103656285 AACGAAACAGAAAGAAAAGAAAGAA
1 AAAGAAAAAGAAAG--AAGAAAGAA
103656310 AAAGAAAAAGAGAACGAAGAAAGAA
1 AAAGAAAAAGA-AA-GAAGAAAGAA
103656335 A
1 A
103656336 CAAATGCGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
25 33 0.77
26 8 0.19
27 2 0.05
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.01
Consensus pattern (23 bp):
AAAGAAAAAGAAAGAAGAAAGAA
Found at i:103657307 original size:40 final size:39
Alignment explanation
Indices: 103657175--103657308 Score: 137
Period size: 41 Copynumber: 3.4 Consensus size: 39
103657165 CATAGGATTT
* * * ** *
103657175 GATGAGGCACTAGGTGCCAA-TT-TACTTCGGTTTAACC
1 GATGAGACACTGGGTGTCAATTTATACTTCGAATTATCC
* * *
103657212 GATGATACACTGAGTGTCAATTTATTACTTCGAATTTATTC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGAA-TTATCC
103657253 GATGAGACACTGGGTGTCAATTTACTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGAATTATCC
*
103657293 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
103657309 CCAAACTGGT
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
37 15 0.19
38 2 0.03
40 27 0.34
41 35 0.44
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAATTTATACTTCGAATTATCC
Found at i:103657536 original size:16 final size:16
Alignment explanation
Indices: 103657485--103657537 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
103657475 GTTATATACT
*
103657485 CATGAATTGAGTATGG
1 CATGAATTGAGTATTG
* * *
103657501 TATGAAATAATGTATT-
1 CATGAATTGA-GTATTG
103657517 CATGAATTGAGTATTG
1 CATGAATTGAGTATTG
103657533 CATGA
1 CATGA
103657538 CTAATGCTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 5 0.18
16 19 0.68
17 4 0.14
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (16 bp):
CATGAATTGAGTATTG
Found at i:103658014 original size:32 final size:32
Alignment explanation
Indices: 103657977--103658038 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
103657967 GTCCTCCAAA
103657977 AAAAAACCTAACCAAAAAAAAAAAGAAAAAAG
1 AAAAAACCTAACCAAAAAAAAAAAGAAAAAAG
*
103658009 AAAAAACCTAACCCAAAAAAAAAAGAAAAA
1 AAAAAACCTAACCAAAAAAAAAAAGAAAAA
103658039 CCTAACCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.77, C:0.15, G:0.05, T:0.03
Consensus pattern (32 bp):
AAAAAACCTAACCAAAAAAAAAAAGAAAAAAG
Found at i:103658029 original size:24 final size:25
Alignment explanation
Indices: 103657997--103658056 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
103657987 ACCAAAAAAA
103657997 AAAAGAAAAAAGAAAAAACCTAA-CCC
1 AAAA-AAAAAAG-AAAAACCTAACCCC
103658023 AAAAAAAAAAGAAAAACCTAACCCC
1 AAAAAAAAAAGAAAAACCTAACCCC
*
103658048 CAAAAAAAA
1 AAAAAAAAA
103658057 CCAAGAAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 10 0.31
25 18 0.56
26 4 0.12
ACGTcount: A:0.72, C:0.20, G:0.05, T:0.03
Consensus pattern (25 bp):
AAAAAAAAAAGAAAAACCTAACCCC
Found at i:103658052 original size:25 final size:25
Alignment explanation
Indices: 103657997--103658056 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
103657987 ACCAAAAAAA
103657997 AAAAGAAAAAAGAAAAAACCTAACCC
1 AAAA-AAAAAAGAAAAAACCTAACCC
103658023 AAAAAAAAAAG-AAAAACCTAACCC
1 AAAAAAAAAAGAAAAAACCTAACCC
**
103658047 CCAAAAAAAA
1 AAAAAAAAAA
103658057 CCAAGAAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 21 0.66
25 7 0.22
26 4 0.12
ACGTcount: A:0.72, C:0.20, G:0.05, T:0.03
Consensus pattern (25 bp):
AAAAAAAAAAGAAAAAACCTAACCC
Found at i:103658065 original size:26 final size:24
Alignment explanation
Indices: 103658002--103658066 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
103657992 AAAAAAAAAG
*
103658002 AAAAAAGA-AAAAACCTAACCCAA
1 AAAAAAAACAAAAACCTAACCCAA
* *
103658025 AAAAAAAAGAAAAACCTAACCCCCA
1 AAAAAAAACAAAAACCTAA-CCCAA
*
103658050 AAAAAAACCAAGAAACC
1 AAAAAAAACAA-AAACC
103658067 CTAGCCACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.20
24 10 0.29
25 13 0.37
26 5 0.14
ACGTcount: A:0.68, C:0.25, G:0.05, T:0.03
Consensus pattern (24 bp):
AAAAAAAACAAAAACCTAACCCAA
Found at i:103670438 original size:41 final size:41
Alignment explanation
Indices: 103670295--103670530 Score: 302
Period size: 41 Copynumber: 5.8 Consensus size: 41
103670285 GGATATAGCT
* * * *
103670295 ACTCGCTC-AATGCCTTCGGGACATAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
*
103670334 ACTCACACAAATGCCTTCGGGACTTAGCCCGG-ATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
103670374 ACTCGCACACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
1 ACTCG--CACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
* *
103670417 ACTTGCACAAATGCCTTCGGGACTTAGCCCGAAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
* * * *
103670458 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGAA-CTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
103670498 ACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 ACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
103670531 TTATCATCCA
Statistics
Matches: 178, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 6 0.03
40 38 0.21
41 92 0.52
42 30 0.17
43 12 0.07
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
Found at i:103672445 original size:71 final size:69
Alignment explanation
Indices: 103672329--103672480 Score: 196
Period size: 71 Copynumber: 2.2 Consensus size: 69
103672319 GGCTGTCACA
* *
103672329 TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCATATTGC
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATGTTTT--AAATCAACTCATATTGC
103672394 GAGAAG
64 GAGAAG
** * * **
103672400 TGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATGTTTTAAATCAACTCATATTGCGA
*
103672465 GAGG
66 GAAG
*
103672469 TGAGTTAAGCCT
1 TGAGTTGAGCCT
103672481 TTTAATTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
69 31 0.44
71 40 0.56
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (69 bp):
TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATGTTTTAAATCAACTCATATTGCGA
GAAG
Found at i:103672601 original size:72 final size:71
Alignment explanation
Indices: 103672480--103672645 Score: 253
Period size: 72 Copynumber: 2.3 Consensus size: 71
103672470 GAGTTAAGCC
** *
103672480 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
103672544 TGAGGTA
65 TGAGGTA
*
103672551 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
103672616 TGAGGTA
65 TGAGGTA
* *
103672623 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
103672646 ACGTTGTTCA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 12 0.14
72 71 0.82
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:103672749 original size:140 final size:140
Alignment explanation
Indices: 103672578--103673065 Score: 888
Period size: 140 Copynumber: 3.5 Consensus size: 140
103672568 TTAATTTCAA
103672578 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
103672643 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
103672708 TCAAAATCAG
131 TCAAAATCAG
* * *
103672718 CTCATACTGCGAGAGGTGAGTTGAGCCTCAGGTCATGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
103672783 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
103672848 TCAAAATCAG
131 TCAAAATCAG
103672858 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
103672923 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
103672988 TCAAAATCAG
131 TCAAAATCAG
103672998 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
103673062 TCAA
62 TCAA
103673066 AAAAAAAATT
Statistics
Matches: 335, Mismatches: 9, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
139 2 0.01
140 304 0.91
142 23 0.07
143 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:103672921 original size:13 final size:13
Alignment explanation
Indices: 103672903--103672936 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
103672893 CGCTGAGGTA
*
103672903 TTTTCAATTTCTG
1 TTTTCAATTTATG
103672916 TTTTCAATTTATG
1 TTTTCAATTTATG
103672929 TTGTTCAA
1 TT-TTCAA
103672937 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:103673183 original size:72 final size:72
Alignment explanation
Indices: 103672985--103673210 Score: 285
Period size: 72 Copynumber: 3.0 Consensus size: 72
103672975 AATTTCTACT
* ** * * * *
103672985 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
103673048 TCAATTTCTG
63 TCAATTTCTG
103673058 TCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 T-TTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
103673123 AATTTCAATTTCTG
59 AATTTCAATTTCTG
103673137 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
103673202 ATTTCTG
66 ATTTCTG
103673209 TT
1 TT
103673211 CAAAATGAGT
Statistics
Matches: 137, Mismatches: 7, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
72 69 0.50
73 1 0.01
74 4 0.03
78 4 0.03
79 24 0.18
80 4 0.03
81 30 0.22
82 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:103673221 original size:49 final size:49
Alignment explanation
Indices: 103673164--103673259 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
103673154 ATATTGCGAG
**
103673164 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTCA
103673213 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTT
103673260 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTCA
Found at i:103673314 original size:121 final size:121
Alignment explanation
Indices: 103673092--103673331 Score: 408
Period size: 121 Copynumber: 2.0 Consensus size: 121
103673082 ATATTGCGAG
**
103673092 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
103673157 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
103673213 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * ** *
103673278 TTGCGAGAAATTAGTTGAGCCTTAAGACTTGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
103673332 TTTCAAAAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:103673373 original size:77 final size:75
Alignment explanation
Indices: 103673216--103674088 Score: 481
Period size: 77 Copynumber: 11.1 Consensus size: 75
103673206 CTGTTCAAAA
* * *
103673216 TGAGTTGAGCCTCAAGACACGCGGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTCATA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
**
103673278 TTGCGAGAAA
66 TTGCGAGAGG
* * **
103673288 TTAGTTGAGCCTTAAGACTTGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCA
* **
103673353 TATTGTGAGAAA
64 TATTGCGAGAGG
*
103673365 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
103673430 TTGCGAGAGG
66 TTGCGAGAGG
* * * * * **
103673440 TGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAGTCAACTTGTA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
103673504 TTGCGAGAGG
66 TTGCGAGAGG
* * **
103673514 TGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTTTGCCTTTCA
1 TGAGTTGAGCCTCA-A-GACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA------------A
* * * *
103673579 AAAA-AAAATCA-ACT-C-ATATTGCG
52 AAAATCAACTCATATTGCGAGA--G-G
* * ** * * * * ** * *
103673602 AGAGGTGAG--TTGAGCCTCG-GGACACGT-TGAGGT-AATTTCAATTTCTGTTTTC--AAAATT
1 TGAGTTGAGCCTCAAGACACGCTG--AGGTAT--TTTCAATTTC----TGT-TTTTCAAAAAAAT
**
103673660 CAACTCATATTGCGAGAAA
57 CAACTCATATTGCGAGAGG
* *
103673679 TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTT--AAAAAATCAACTTATA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
103673742 TTGCGAGAGG
66 TTGCGAGAGG
** * * * *
103673752 TGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATTTCTATCTTTCAAAAAAATCAACTC
1 TGAGTTGAGCC-T--CAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
103673816 ATATTGCGAGAGG
63 ATATTGCGAGAGG
* * * * *
103673829 TGAGTTGAGCTTCAAATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACT
1 TGAGTTGAGCCTC-AA-GACACGCTGAGGTA--TTTTCAATTTCTGTTTTTCAAAAAAATCAACT
* *
103673894 CACATTGCGAGATG
62 CATATTGCGAGAGG
** * **
103673908 TGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTTCA
1 TGAGTTGAGCCTCAAG--ACACGCT-GAGGTATTTTCAATTTCTGTTTTTC-AA----------A
*
103673972 AAAATCAACTCATATTGCGAGAAG
52 AAAATCAACTCATATTGCGAGAGG
** * *
103673996 TGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTTCAAAAAAATT
1 TGAGTTGAGCCTCAAG-ACAC--GCTGAGGTATTTTCAATTTCTG-----TTTTTCAAAAAAA-T
103674060 CAACTCATATTGCGAGAGG
57 CAACTCATATTGCGAGAGG
103674079 TGAGTTGAGC
1 TGAGTTGAGC
103674089 TTTTTAATTT
Statistics
Matches: 620, Mismatches: 106, Indels: 139
0.72 0.12 0.16
Matches are distributed among these distances:
72 36 0.06
73 41 0.07
74 46 0.07
75 90 0.15
76 27 0.04
77 148 0.24
78 14 0.02
79 71 0.11
80 3 0.00
82 5 0.01
83 30 0.05
84 4 0.01
85 12 0.02
86 6 0.01
87 5 0.01
88 63 0.10
89 6 0.01
90 5 0.01
92 2 0.00
93 6 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (75 bp):
TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
TTGCGAGAGG
Found at i:103673683 original size:72 final size:72
Alignment explanation
Indices: 103673582--103673960 Score: 362
Period size: 72 Copynumber: 5.0 Consensus size: 72
103673572 CCTTTCAAAA
*
103673582 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATTTC
103673647 TGTTTTC
66 TGTTTTC
* ** **
103673654 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATTTC
*
103673719 TGTTTTTA
66 TG-TTTTC
* * * * * *
103673727 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGTTGAGGTATTTTCAATT
*
103673792 TCTATCTTTC
64 TCTGT-TTTC
* *** **
103673802 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAATCACACACTGAGGTATTTTTTC
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGGACACGTTGAGGTA--TTTTC
* *
103673867 AATTTATATTTTTC
60 AATTTCT-GTTTTC
* * * *
103673881 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGTTGAGGTATTTTCAA
**
103673946 AATCTGTTTTTC
62 TTTCTG-TTTTC
103673958 AAA
1 AAA
103673961 TTCTGTTTTC
Statistics
Matches: 249, Mismatches: 44, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
72 61 0.24
73 37 0.15
74 1 0.00
75 28 0.11
77 60 0.24
79 61 0.24
80 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATTTC
TGTTTTC
Found at i:103673885 original size:79 final size:76
Alignment explanation
Indices: 103673580--103674088 Score: 404
Period size: 79 Copynumber: 6.5 Consensus size: 76
103673570 TGCCTTTCAA
*** * *
103673580 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACGTTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAATCACACGCTGAGGTATTTTCAAT
*
103673644 TTCT-GTTTTC
66 TTCTATTTTTC
* ** * *
103673654 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA-GACACGTTGAGGTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAATCACACGCTGAGGTATTTTCAAT
*
103673716 TTCTGTTTTT-
66 TTCTATTTTTC
* *** * *
103673726 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAATCACACGCTGAGGTATTTTCAA
*
103673790 TTTCTATCTTTC
65 TTTCTATTTTTC
* *
103673802 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AATCACACGCTGAGGTA--TTTTC
*
103673867 AATTTATATTTTTC
63 AATTTCTATTTTTC
* * ** *
103673881 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AATCACACGCT-GAGGTATTTTCA
** *
103673945 AAATCTGTTTTTC
64 ATTTCTATTTTTC
* *** **
103673958 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAATCACACGCTGA
* *
103674023 GCTATTTTCAATTTCTGTTTTTTTTTTC
54 GGTATTTTCAATTTC-----TATTTTTC
103674051 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
103674089 TTTTTAATTT
Statistics
Matches: 354, Mismatches: 51, Indels: 51
0.78 0.11 0.11
Matches are distributed among these distances:
72 60 0.17
73 36 0.10
74 1 0.00
75 26 0.07
76 1 0.00
77 62 0.18
78 3 0.01
79 65 0.18
82 5 0.01
83 29 0.08
88 55 0.16
89 2 0.01
92 2 0.01
93 7 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAATCACACGCTGAGGTATTTTCAAT
TTCTATTTTTC
Found at i:103673958 original size:14 final size:13
Alignment explanation
Indices: 103673939--103673974 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
103673929 TGTCGAGGTA
103673939 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
103673952 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
103673966 TTTTCAAAA
1 TTTTCAAAA
103673975 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:103674034 original size:391 final size:385
Alignment explanation
Indices: 103673216--103674043 Score: 1009
Period size: 391 Copynumber: 2.1 Consensus size: 385
103673206 CTGTTCAAAA
* ** *
103673216 TGAGTTGAGCCTCAAG-ACACGCGGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATT
1 TGAGTTGAGCCTC-GGCACACGTTGAGCTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATT
* * **
103673280 GCGAGAAATTAGTTGAGCCTTAAGACTTGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAA
65 GCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTT---AAAAAAA
* * * * * *
103673345 TCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTT
127 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACGCTGAGCTATTTTCAATTTCTATCT
* **
103673410 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCA
192 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTTCA
* * ***
103673475 ATTTCTGTTGTCAAAAAAGTCAACTTGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCG
257 ATTTATGTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCG
** * *
103673540 AGGTATTTTCAATTTCCATTTTTCAATTTTTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGA
322 AGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTC---AAAAAATCAACTCATATTGCGAGA
*
103673605 GG
384 AG
* *
103673607 TGAGTTGAGCCTCGGGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTG
1 TGAGTTGAGCCTCGGCACACGTTGAGCTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTG
*
103673672 CGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTT-AAAAAATCAA
66 CGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAAATCAA
* ** * *
103673736 CTTATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATTTCTATCTT
131 CTCATATTGCGAGAAATGAGTTGAGCC-T--CAACACACGCTGAGCTATTTTCAATTTCTATCTT
* * *
103673800 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAATCACACACTGAGGTATTTTT
193 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AGCACACACTGAGGTA--ATT
* * * * * *
103673865 TCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACAT
254 TCAATTTAT-GTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
* ** *
103673930 GTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG-TTTTC-AAAAATCAACTCATATTGCGAG
318 GCCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTCAAAAAATCAACTCATATTGCGAG
103673993 AAG
383 AAG
* * *
103673996 TGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTT
1 TGAGTTGAGCCTCGGCACACGT--TGAGCTAATTTCAATTTCTGTTTT
103674044 TTTTTTCAAA
Statistics
Matches: 376, Mismatches: 50, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
387 33 0.09
388 1 0.00
389 109 0.29
390 2 0.01
391 143 0.38
393 14 0.04
394 74 0.20
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (385 bp):
TGAGTTGAGCCTCGGCACACGTTGAGCTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTG
CGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAAATCAA
CTCATATTGCGAGAAATGAGTTGAGCCTCAACACACGCTGAGCTATTTTCAATTTCTATCTTTCA
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTTCAATTT
ATGTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGT
ATTTTCAAAATCCATTTTTCAAATTCTGCCTTTCAAAAAATCAACTCATATTGCGAGAAG
Found at i:103674106 original size:30 final size:30
Alignment explanation
Indices: 103674070--103674131 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
103674060 CAACTCATAT
103674070 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
103674100 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
103674130 TG
1 TG
103674132 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:103674214 original size:255 final size:248
Alignment explanation
Indices: 103673708--103674299 Score: 759
Period size: 255 Copynumber: 2.4 Consensus size: 248
103673698 CGTTGAGGTA
* * *
103673708 TTTTCAATTTCTGTTTTTAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
103673773 CGCTGAGCTATTTTCAATTTC-----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
65 CGCTGAGCTATTTTCAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
*
103673833 TTGAGCTTCAAATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACA
130 TTGAGCTTCAAATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACA
* * ** * *
103673898 TTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
194 TTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* *
103673953 TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGT
1 TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
103674018 GCTGAGCTATTTTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG
66 GCTGAGCTATTTTCAATTTCTGTTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAG
* * * * * * * *
103674083 TTGAGCTTTTTAATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCA
130 TTGAGC--TTCAA-ATC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCA
*
103674146 ACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
187 ACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* ** * *
103674208 TTTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGCGACAGGTGAGTTGAGCCTTAGCTCACG
1 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
103674272 CGCTGAGCTTTTTTCAATTTCTGTTTTT
65 CGCTGAGCTATTTTCAATTTCTGTTTTT
103674300 AATGTCTGTT
Statistics
Matches: 301, Mismatches: 31, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
244 68 0.23
245 12 0.04
249 13 0.04
250 30 0.10
252 4 0.01
253 2 0.01
254 5 0.02
255 144 0.48
256 5 0.02
257 13 0.04
258 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (248 bp):
TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
GCTGAGCTATTTTCAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCTTCAAATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATT
GCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:103674988 original size:23 final size:22
Alignment explanation
Indices: 103674958--103675002 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
103674948 CCCTCCCAAA
103674958 AAAAAAAAGAAAAAACCTAACCC
1 AAAAAAAAG-AAAAACCTAACCC
103674981 AAAAAAAAGAAAAACCTAACCC
1 AAAAAAAAGAAAAACCTAACCC
103675003 CCCCCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.69, C:0.22, G:0.04, T:0.04
Consensus pattern (22 bp):
AAAAAAAAGAAAAACCTAACCC
Found at i:103680658 original size:22 final size:22
Alignment explanation
Indices: 103680602--103680658 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
103680592 TATTTAATTC
*
103680602 TTTAA-TTTTAAA-AAAAATAT
1 TTTAATTTTTAAATTAAAATAT
*
103680622 TTTAATTTTCT-AATTAAAATTT
1 TTTAATTTT-TAAATTAAAATAT
*
103680644 TTTACTTTTTAAATT
1 TTTAATTTTTAAATT
103680659 TGTATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.17
21 6 0.20
22 19 0.63
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATTTTTAAATTAAAATAT
Found at i:103680904 original size:25 final size:25
Alignment explanation
Indices: 103680876--103680927 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
103680866 TTAAATTTTA
*
103680876 ATAAATTAATTAAATATTGGCTGGC
1 ATAAATTAATTAAATACTGGCTGGC
103680901 ATAAATTAATTAAATACTGGCTGGC
1 ATAAATTAATTAAATACTGGCTGGC
103680926 AT
1 AT
103680928 GTCATCCACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (25 bp):
ATAAATTAATTAAATACTGGCTGGC
Found at i:103683874 original size:14 final size:14
Alignment explanation
Indices: 103683832--103683874 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
103683822 TTTGATAATG
103683832 TGATAATATAAATTT
1 TGATAATATAAA-TT
* *
103683847 TGACAAT-TAGATT
1 TGATAATATAAATT
103683860 TGATAATATAAATT
1 TGATAATATAAATT
103683874 T
1 T
103683875 TGGTCCTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 8 0.35
14 9 0.39
15 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (14 bp):
TGATAATATAAATT
Found at i:103683980 original size:171 final size:170
Alignment explanation
Indices: 103683691--103683998 Score: 424
Period size: 171 Copynumber: 1.8 Consensus size: 170
103683681 TAAAAAAAGA
* * ** * *
103683691 GATAATATAAATATTGGTCTTTGAATTTGAGAGTTAAGTCTACTTTATCAACTGTACTTTTTTTA
1 GATAATATAAATATTGGTCCTTGAACTTGAGAACTAAGTCCACTTTATCAACTATACTTTTTTTA
* * *
103683756 TTTACTTCTGTACTTGAATTTGGCAATTAGATCTATTTTGTTCTTTAAACTTGGATTCTTTCAAG
66 TTCACTTCTGTACTTGAACTTGGCAATTAAATCTATTTTGTTCTTTAAACTTGGATTCTTTCAAG
103683821 ATTTGATAATGTGATAATATAAATTTTGACAATTAGATTT
131 ATTTGATAATGTGATAATATAAATTTTGACAATTAGATTT
* * * *
103683861 GATAATATAAATTTTGGTCCTTGAACTTGGGAACTAGGTCCACTTTAGT-ATCTATACTTTTTTT
1 GATAATATAAATATTGGTCCTTGAACTTGAGAACTAAGTCCACTTTA-TCAACTATAC-TTTTTT
* *
103683925 TATTCACTT-TAGTACTTGAACTTGTCAATTAAATCTATTTTGTT-TTATGAACTTGGATTCTTT
64 TATTCACTTCT-GTACTTGAACTTGGCAATTAAATCTATTTTGTTCTT-TAAACTTGGATTCTTT
103683988 CAAGATTTGAT
127 CAAGATTTGAT
103683999 GATATAATTA
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
170 48 0.40
171 71 0.60
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.47
Consensus pattern (170 bp):
GATAATATAAATATTGGTCCTTGAACTTGAGAACTAAGTCCACTTTATCAACTATACTTTTTTTA
TTCACTTCTGTACTTGAACTTGGCAATTAAATCTATTTTGTTCTTTAAACTTGGATTCTTTCAAG
ATTTGATAATGTGATAATATAAATTTTGACAATTAGATTT
Found at i:103686826 original size:12 final size:11
Alignment explanation
Indices: 103686774--103686835 Score: 58
Period size: 11 Copynumber: 5.7 Consensus size: 11
103686764 AAATTCTATT
* *
103686774 TTAAGTTTATT
1 TTAATTTTATA
103686785 TTAATTTTAT-
1 TTAATTTTATA
103686795 TT-ATTTT-TA
1 TTAATTTTATA
*
103686804 TTTATTATTATA
1 TTAATT-TTATA
103686816 TTAAATTTTATA
1 TT-AATTTTATA
103686828 TTAATTTT
1 TTAATTTT
103686836 CTTAAGCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 1 0.02
9 7 0.16
10 5 0.11
11 17 0.39
12 11 0.25
13 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TTAATTTTATA
Found at i:103693427 original size:46 final size:46
Alignment explanation
Indices: 103693375--103693695 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
103693365 AGTGTGCTCT
103693375 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
103693421 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
103693467 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
103693513 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
103693559 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
103693605 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * * *
103693651 ATGACAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
103693696 TCATGTCAAA
Statistics
Matches: 249, Mismatches: 25, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
46 216 0.87
47 33 0.13
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:103695589 original size:15 final size:15
Alignment explanation
Indices: 103695569--103695616 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
103695559 CTATTTTAAG
103695569 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
*
103695584 TTTATTTTTAATTACTA
1 TTTA-TTTTAATT-TTA
103695601 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
103695616 T
1 T
103695617 ATTAATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 11 0.41
16 14 0.52
17 2 0.07
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:103695592 original size:10 final size:11
Alignment explanation
Indices: 103695555--103695625 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
103695545 AAAAATAGGA
*
103695555 AATTCTATTTT
1 AATTTTATTTT
*
103695566 AAGTTTATTTT
1 AATTTTATTTT
103695577 AATTTTA-TTT
1 AATTTTATTTT
* *
103695587 ATTTTTA-ATT
1 AATTTTATTTT
* *
103695597 ACTATTATTTT
1 AATTTTATTTT
*
103695608 AGATTTTATATT
1 A-ATTTTATTTT
103695620 AATTTT
1 AATTTT
103695626 CTTAAGCTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
10 16 0.34
11 23 0.49
12 8 0.17
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (11 bp):
AATTTTATTTT
Found at i:103699688 original size:3 final size:3
Alignment explanation
Indices: 103699680--103699704 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
103699670 AGGAAAAACA
103699680 GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT G
103699705 AGAAGCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:103702692 original size:6 final size:6
Alignment explanation
Indices: 103702679--103702724 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
103702669 GTGAATTGTT
*
103702679 ATTG-A ATTGAA ATTGAA ATTGAA ATTGAA ATT-AA AATGTAA ATTGA
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTG-AA ATTGA
103702725 TTGGAAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 8 0.22
6 23 0.64
7 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
ATTGAA
Found at i:103703554 original size:45 final size:45
Alignment explanation
Indices: 103703481--103703720 Score: 327
Period size: 45 Copynumber: 5.3 Consensus size: 45
103703471 CTGTTACTGC
* *
103703481 TACTACTACTGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
103703526 TACTGCTACTGTTACCGATTCGGTACTTTATGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
103703571 TACTGCTACTATTACCGATTCGACACTGTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
103703616 TACTGCTACCGTTATCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * * * * *
103703661 TACTGTTACCGTTACCGATTCAGTACTTCGTGTGTTGAATACTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
103703706 TACTGTTACTGTTAC
1 TACTGCTACTGTTAC
103703721 TGTTCCGGAT
Statistics
Matches: 173, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 173 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:103703711 original size:6 final size:6
Alignment explanation
Indices: 103703700--103703724 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
103703690 GTGTGTTGAA
103703700 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
103703725 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:103703915 original size:18 final size:18
Alignment explanation
Indices: 103703894--103704084 Score: 151
Period size: 18 Copynumber: 10.6 Consensus size: 18
103703884 TAACTGATTA
103703894 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
103703912 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
103703930 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
103703948 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
103703966 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* * *
103703984 TTGCTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
103704002 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
103704020 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
103704039 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
103704056 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
103704074 TTACTGGATAA
1 TTACTGAATAA
103704085 CCGATCAATT
Statistics
Matches: 140, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
17 19 0.14
18 105 0.75
19 16 0.11
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:103703970 original size:36 final size:36
Alignment explanation
Indices: 103703882--103704164 Score: 155
Period size: 36 Copynumber: 7.6 Consensus size: 36
103703872 AAAGGTATAA
* *
103703882 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * * * *
103703918 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATT-GACTGTTACTG
* *
103703954 AATAACTGAATATTACTGAATAATTGA-TCATTGCTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACTG
* * * *
103703990 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* *
103704026 AATAACTTAATAGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAACTGAATA-TTACTGAATAAT-TGACTGTTACTG
* * * * *
103704062 AATAATTGACTGTTACTGGATAACCGATCAATTGA-TCGATATTG
1 AATAACTGAATATTACT-G---A---AT-AATTGACT-GTTACTG
** * * *
103704106 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* *
103704142 AATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAA
103704165 ATAATTATTC
Statistics
Matches: 184, Mismatches: 44, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
35 10 0.05
36 127 0.69
37 20 0.11
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 18 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:103704019 original size:72 final size:72
Alignment explanation
Indices: 103703882--103704164 Score: 196
Period size: 72 Copynumber: 3.8 Consensus size: 72
103703872 AAAGGTATAA
* * * * * * *
103703882 AATAACTGATTATTACTGAATAATTGACTGTTACCGGATAATTGACTGTTACTGGATATTAGACT
1 AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAATAGACT
*
103703947 GTTACTG
66 GCTACTG
* * *
103703954 AATAACTGAATATTACTGAATAATTGA-TCATTGCTGAATAACTGATTGTCACTGAATGAAT-GA
1 AATAACTGAATATTACTGAATAATTGACT-ATTACCGAATAACTGACTGTCACTGAAT-AATAGA
103704017 CTGCTACTG
64 CTGCTACTG
* * * * * * **
103704026 AATAACTTAATAGTTACTGAAT-ATCTGA-TTTTACTGAATAATTGACTGTTACTGGATAACCGA
1 AATAACTGAATA-TTACTGAATAAT-TGACTATTACCGAATAACTGACTGTCACTGAATAATAGA
*
103704089 TCAATTGATCGATATTG
64 -C---TG--C--TACTG
** * * * *
103704106 AATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAA
103704165 ATAATTATTC
Statistics
Matches: 168, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
71 3 0.02
72 93 0.55
73 16 0.10
76 2 0.01
78 1 0.01
79 11 0.07
80 42 0.25
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:103704144 original size:18 final size:18
Alignment explanation
Indices: 103704123--103704164 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
103704113 GGTTATTATT
* *
103704123 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
103704141 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
103704159 GAATAA
1 GAATAA
103704165 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:103706075 original size:16 final size:16
Alignment explanation
Indices: 103706054--103706123 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
103706044 TTTGGTTCAG
**
103706054 TGTAATGGAATAGGGT
1 TGTAATGGAATAGAAT
*
103706070 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAAT
103706086 TGTAATGGAATAGAAT
1 TGTAATGGAATAGAAT
* *
103706102 TGTAATAGAATAGAAC
1 TGTAATGGAATAGAAT
103706118 TGTAAT
1 TGTAAT
103706124 AGCAATTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAAT
Found at i:103706090 original size:32 final size:32
Alignment explanation
Indices: 103706054--103706123 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
103706044 TTTGGTTCAG
** *
103706054 TGTAATGGAATAGGGTTGTAATGGAATAGAAC
1 TGTAATGGAATAGAATTGTAATAGAATAGAAC
103706086 TGTAATGGAATAGAATTGTAATAGAATAGAAC
1 TGTAATGGAATAGAATTGTAATAGAATAGAAC
103706118 TGTAAT
1 TGTAAT
103706124 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.30
Consensus pattern (32 bp):
TGTAATGGAATAGAATTGTAATAGAATAGAAC
Found at i:103706360 original size:61 final size:60
Alignment explanation
Indices: 103706295--103706447 Score: 150
Period size: 58 Copynumber: 2.5 Consensus size: 60
103706285 TTTAATAGGA
** *
103706295 TTATTATTAGATATAATTTAATAAAAATAATAATACATAATTTAACCCTATT-TTAATAAAT
1 TTATTATTA-ATATAA-TTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
* * * *
103706356 TTATTATTAATTATAATT--TAACAATAATAATATATAATTTAATAATATTCTTAATATAG
1 TTATTATTAA-TATAATTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
**
103706415 CAATTATTAAAATATAAATTAATAAAAATAATA
1 TTATTATT--AATAT-AATTAATAAAAATAATA
103706448 TATAATATTA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
58 26 0.35
59 13 0.17
60 6 0.08
61 20 0.27
63 10 0.13
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (60 bp):
TTATTATTAATATAATTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
Found at i:103706391 original size:21 final size:20
Alignment explanation
Indices: 103706363--103706402 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
103706353 AATTTATTAT
103706363 TAATTATAATTTAACAATAA
1 TAATTATAATTTAACAATAA
*
103706383 TAATATATAATTTAATAATA
1 TAAT-TATAATTTAACAATA
103706403 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATAATTTAACAATAA
Found at i:103706463 original size:22 final size:21
Alignment explanation
Indices: 103706426--103706471 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
103706416 AATTATTAAA
103706426 ATATAAATTAATAAAAATAAT
1 ATATAAATTAATAAAAATAAT
103706447 ATATAATATTACA-AAAAATAAT
1 ATATAA-ATTA-ATAAAAATAAT
103706469 ATA
1 ATA
103706472 CAACCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAATTAATAAAAATAAT
Found at i:103706604 original size:12 final size:12
Alignment explanation
Indices: 103706574--103706608 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
103706564 TCTATGTTAC
103706574 TTAAAGAATAAT
1 TTAAAGAATAAT
103706586 TTAAAAGAATAAT
1 TT-AAAGAATAAT
103706599 TTAAAGAATA
1 TTAAAGAATA
103706609 TATTGTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:103707382 original size:5 final size:5
Alignment explanation
Indices: 103707374--103707400 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
103707364 TACAAATCAA
103707374 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
103707401 CATATATAAT
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:103714334 original size:18 final size:18
Alignment explanation
Indices: 103714307--103714399 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
103714297 TACGACCGTT
103714307 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
103714325 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
103714343 TACAGTACTATTCACTTA
1 TACGGTACTATTCACGTA
*
103714361 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
103714379 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
103714397 TAC
1 TAC
103714400 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:103722165 original size:20 final size:19
Alignment explanation
Indices: 103722137--103722175 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
103722127 ATTTTTTAAA
*
103722137 TATATATATATTCAAATTTT
1 TATAAATAT-TTCAAATTTT
*
103722157 TATAAATATTTTAAATTTT
1 TATAAATATTTCAAATTTT
103722176 AAAAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATAAATATTTCAAATTTT
Found at i:103722193 original size:18 final size:18
Alignment explanation
Indices: 103722151--103722193 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
103722141 TATATATTCA
*
103722151 AATTTTTATAAATATTTT
1 AATTTTTAAAAATATTTT
*
103722169 AAATTTTAAAAATTATTTT
1 AATTTTTAAAAA-TATTTT
103722188 -ATTTTT
1 AATTTTT
103722194 TTATAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTTTAAAAATATTTT
Found at i:103722201 original size:19 final size:19
Alignment explanation
Indices: 103722150--103722205 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
103722140 ATATATATTC
*
103722150 AAATTTTTATAAATATTTT
1 AAATTTTTATAATTATTTT
* *
103722169 AAATTTTAAAAATTATTTT
1 AAATTTTTATAATTATTTT
**
103722188 ATTTTTTTATAATT-TTTT
1 AAATTTTTATAATTATTTT
103722206 TGAGAGTGAC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AAATTTTTATAATTATTTT
Found at i:103729662 original size:25 final size:26
Alignment explanation
Indices: 103729630--103729682 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
103729620 AAACTCTTCT
*
103729630 AAAAG-AAACTC-AAGAGAAATTTTTA
1 AAAAGAAAACTCAAAGAG-AATTTATA
103729655 AAAAGAAAACTCAAAGAGAATTTATA
1 AAAAGAAAACTCAAAGAGAATTTATA
103729681 AA
1 AA
103729683 CTCAAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 5 0.20
26 15 0.60
27 5 0.20
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.21
Consensus pattern (26 bp):
AAAAGAAAACTCAAAGAGAATTTATA
Found at i:103730547 original size:30 final size:30
Alignment explanation
Indices: 103730468--103730547 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
103730458 TAAATGTGTG
* * *
103730468 TAATTGAATCAAAATGAAAGTTTCATGTATA
1 TAATTGAA-CCAAATCAAAGTTTCATGCATA
* * *
103730499 TATTTGAATCACAATCAAAGTTTCATGCGTA
1 TAATTGAACCA-AATCAAAGTTTCATGCATA
*
103730530 TAATTGCACCAAATCAAA
1 TAATTGAACCAAATCAAA
103730548 TAATATGTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
30 8 0.21
31 31 0.79
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (30 bp):
TAATTGAACCAAATCAAAGTTTCATGCATA
Found at i:103735722 original size:12 final size:11
Alignment explanation
Indices: 103735690--103735723 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
103735680 TAAGGGCCTG
103735690 TATTAATTTTTA
1 TATT-ATTTTTA
*
103735702 TACTATTTTTA
1 TATTATTTTTA
103735713 TATTATTTTTA
1 TATTATTTTTA
103735724 AATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:103735882 original size:30 final size:30
Alignment explanation
Indices: 103735848--103735909 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
103735838 CTTAACAAGT
103735848 AAATGCCTCTAAAATAATAAAAAAAATAAC
1 AAATGCCTCTAAAATAATAAAAAAAATAAC
* * *
103735878 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAAATAAC
103735908 AA
1 AA
103735910 GAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAAATAAC
Found at i:103738394 original size:13 final size:13
Alignment explanation
Indices: 103738361--103738394 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
103738351 CAAGTTTTAT
103738361 GAACTAAAAAACA
1 GAACTAAAAAACA
*
103738374 GAAATAAAAAACA
1 GAACTAAAAAACA
*
103738387 GTACTAAA
1 GAACTAAA
103738395 GAAATTTATC
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:0.68, C:0.12, G:0.09, T:0.12
Consensus pattern (13 bp):
GAACTAAAAAACA
Found at i:103745009 original size:11 final size:11
Alignment explanation
Indices: 103744990--103745020 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
103744980 TAGCGAAATG
*
103744990 ATAACAAAACA
1 ATAAAAAAACA
103745001 ATAAAAAAACA
1 ATAAAAAAACA
103745012 ATAAAAAAA
1 ATAAAAAAA
103745021 TAGCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (11 bp):
ATAAAAAAACA
Found at i:103745932 original size:31 final size:31
Alignment explanation
Indices: 103745891--103745953 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
103745881 ATTGAACCTT
* *
103745891 TCAAATTTTTTGAAAATTC-TCATTAATCCCC
1 TCAAAATTTTTGAAAATTCAT-ATTAAGCCCC
*
103745922 TCAAAATTTTTGAAAGTTCATATTAAGCCCC
1 TCAAAATTTTTGAAAATTCATATTAAGCCCC
103745953 T
1 T
103745954 AATTTTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (31 bp):
TCAAAATTTTTGAAAATTCATATTAAGCCCC
Found at i:103749487 original size:2 final size:2
Alignment explanation
Indices: 103749480--103749510 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
103749470 ACAGAAGTAA
103749480 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
103749511 GAGGTAGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:103753462 original size:2 final size:2
Alignment explanation
Indices: 103753457--103753481 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
103753447 ATATATATAT
103753457 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
103753482 AATAGCAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:103760167 original size:24 final size:24
Alignment explanation
Indices: 103760099--103760185 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 24
103760089 CAAATAAAAT
* *
103760099 TATACATAAAAATATATAT-AGAT
1 TATACATAAAAATATACATAAGAG
* * *
103760122 TCATTAGAAAAAAACATACATAATGA-
1 T-A-TACATAAAAATATACATAA-GAG
*
103760148 TATACATAAAAATATCCATAAGAG
1 TATACATAAAAATATACATAAGAG
*
103760172 TGTACATAAAAATA
1 TATACATAAAAATA
103760186 CATATGACAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
23 3 0.06
24 29 0.58
25 14 0.28
26 2 0.04
27 2 0.04
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (24 bp):
TATACATAAAAATATACATAAGAG
Found at i:103761474 original size:495 final size:495
Alignment explanation
Indices: 103760544--103761700 Score: 2278
Period size: 495 Copynumber: 2.3 Consensus size: 495
103760534 GGTGATTGGA
103760544 TAAACATGAAAGTTTTATTAGCTCTAGATGATAAAAATATTGTTTTAGTGATAAATATCATGTTT
1 TAAACATGAAAGTTTTATTAGCTCTAGATGATAAAAATATTGTTTTAGTGATAAATATCATGTTT
103760609 ATTCAATGGAGTTTTGTAGGACTTTTCATCTCTTTAACTAGTCATATTAAGAAGTTTAAAGTAAT
66 ATTCAATGGAGTTTTGTAGGACTTTTCATCTCTTTAACTAGTCATATTAAGAAGTTTAAAGTAAT
103760674 GATAATGTTTATCTTTTGAGAGAGTTTTGGTATCGTTAAAAGACTAATTTATGATGATTTTTAGT
131 GATAATGTTTATCTTTTGAGAGAGTTTTGGTATCGTTAAAAGACTAATTTATGATGATTTTTAGT
*
103760739 TGATAAATACTCAGGATCATTAATGGGATAATTTCATTTTTTTAAACTTGGGTGAGTGATTTGTG
196 TGATAAATACTCAAGATCATTAATGGGATAATTTCATTTTTTTAAACTTGGGTGAGTGATTTGTG
*
103760804 ACAACTGGGATCGAGATTTGAGTTGCAATTGCTTATTTATATTAGGGTGAATTGAGCTTAAGTCA
261 ACAACTGAGATCGAGATTTGAGTTGCAATTGCTTATTTATATTAGGGTGAATTGAGCTTAAGTCA
*
103760869 AGACTCTGCAGATATAAAATCCTTGTGTTTGAATTGCGTTAACAAATAACGTTTGTGTTGGTTCT
326 AGACTCTGCAGATATAAAATCCTTGTGTTTGAATTGCATTAACAAATAACGTTTGTGTTGGTTCT
103760934 TTTCTGCTCTTATTTTTTACATTATATGCTTTTGTTCTAATTGTTGATTTATCGTATTTGTAGGC
391 TTTCTGCTCTTATTTTTTACATTATATGCTTTTGTTCTAATTGTTGATTTATCGTATTTGTAGGC
103760999 TAATTATTTTTCAGCTTTGAAACTAAAAAGATTTTAAAAG
456 TAATTATTTTTCAGCTTTGAAACTAAAAAGATTTTAAAAG
103761039 TAAACATGAAAGTTTTATTAGCTCTAGATGATAAAAATATTGTTTTAGTGATAAATATCATGTTT
1 TAAACATGAAAGTTTTATTAGCTCTAGATGATAAAAATATTGTTTTAGTGATAAATATCATGTTT
103761104 ATTCAATGGAGTTTTGTAGGACTTTTCATCTCTTTAACTAGTCATATTAAGAAGTTTAAAGTAAT
66 ATTCAATGGAGTTTTGTAGGACTTTTCATCTCTTTAACTAGTCATATTAAGAAGTTTAAAGTAAT
103761169 GATAATGTTTATCTTTTGAGAGAGTTTTGGTATCGTTAAAAGACTAATTTATGATGATTTTTAGT
131 GATAATGTTTATCTTTTGAGAGAGTTTTGGTATCGTTAAAAGACTAATTTATGATGATTTTTAGT
103761234 TGATAAATACTCAAGATCATTAATGGGATAATTTCATTTTTTTAAACTTGGGTGAGTGATTTGTG
196 TGATAAATACTCAAGATCATTAATGGGATAATTTCATTTTTTTAAACTTGGGTGAGTGATTTGTG
103761299 ACAACTGAGATCGAGATTTGAGTTGCAATTGCTTATTTATATTAGGGTGAATTGAGCTTAAGTCA
261 ACAACTGAGATCGAGATTTGAGTTGCAATTGCTTATTTATATTAGGGTGAATTGAGCTTAAGTCA
103761364 AGACTCTGCAGATATAAAATCCTTGTGTTTGAATTGCATTAACAAATAACGTTTGTGTTGGTTCT
326 AGACTCTGCAGATATAAAATCCTTGTGTTTGAATTGCATTAACAAATAACGTTTGTGTTGGTTCT
*
103761429 TTTCTGCTCTTATTTTTTACATTATATGCTTTTGTTCTAATTGTTGATTTATCGTATTTTTAGGC
391 TTTCTGCTCTTATTTTTTACATTATATGCTTTTGTTCTAATTGTTGATTTATCGTATTTGTAGGC
103761494 TAATTATTTTTCAGCTTTGAAACTAAAAAGATTTTAAAAG
456 TAATTATTTTTCAGCTTTGAAACTAAAAAGATTTTAAAAG
103761534 TAAACATGAAAGTTTTATTAGCTCTAGATGATAAAAATATTGTTTTAGTGATAAATATCATGTTT
1 TAAACATGAAAGTTTTATTAGCTCTAGATGATAAAAATATTGTTTTAGTGATAAATATCATGTTT
103761599 ATTCAATGGAGTTTTGTAGGACTTTTCATCTCTTTAACTAGTCATATTAAGAAGTTTAAAGTAAT
66 ATTCAATGGAGTTTTGTAGGACTTTTCATCTCTTTAACTAGTCATATTAAGAAGTTTAAAGTAAT
103761664 GATAATGTTTATCTTTTGAGAGAGTTTTGGTATCGTT
131 GATAATGTTTATCTTTTGAGAGAGTTTTGGTATCGTT
103761701 TGTTGACACC
Statistics
Matches: 658, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
495 658 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (495 bp):
TAAACATGAAAGTTTTATTAGCTCTAGATGATAAAAATATTGTTTTAGTGATAAATATCATGTTT
ATTCAATGGAGTTTTGTAGGACTTTTCATCTCTTTAACTAGTCATATTAAGAAGTTTAAAGTAAT
GATAATGTTTATCTTTTGAGAGAGTTTTGGTATCGTTAAAAGACTAATTTATGATGATTTTTAGT
TGATAAATACTCAAGATCATTAATGGGATAATTTCATTTTTTTAAACTTGGGTGAGTGATTTGTG
ACAACTGAGATCGAGATTTGAGTTGCAATTGCTTATTTATATTAGGGTGAATTGAGCTTAAGTCA
AGACTCTGCAGATATAAAATCCTTGTGTTTGAATTGCATTAACAAATAACGTTTGTGTTGGTTCT
TTTCTGCTCTTATTTTTTACATTATATGCTTTTGTTCTAATTGTTGATTTATCGTATTTGTAGGC
TAATTATTTTTCAGCTTTGAAACTAAAAAGATTTTAAAAG
Found at i:103765480 original size:220 final size:219
Alignment explanation
Indices: 103765238--103765642 Score: 693
Period size: 220 Copynumber: 1.8 Consensus size: 219
103765228 ACCAATATGG
* *
103765238 GAAGACAAGATCTGCATCTTCGATCCGCTTCCTACCAATATAAGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAAGAAGATAGGACCTGCTACCTTC
* *
103765303 GATCTACTTCACGCCAATACATGAAGACAAGATTTACTTTCTTCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCGCCACCAATAT
103765368 GGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCT
131 GGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCT
103765433 TCGATCTACTTCACGCCAATACAT
196 TCGATCTACTTCACGCCAATACAT
* * * *
103765457 GAAGACAAGATTTGCTTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTT
1 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAAGAAGATAGGACCTGCTACCTT
** *
103765522 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCAGCAATA
65 CGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCGCCACCAATA
*
103765587 TGGGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGA
130 TGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA
103765643 TCTGTTCCTT
Statistics
Matches: 173, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
219 14 0.08
220 159 0.92
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (219 bp):
GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAAGAAGATAGGACCTGCTACCTTC
GATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCGCCACCAATAT
GGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCT
TCGATCTACTTCACGCCAATACAT
Found at i:103765576 original size:132 final size:132
Alignment explanation
Indices: 103765064--103765532 Score: 735
Period size: 132 Copynumber: 3.6 Consensus size: 132
103765054 CAAATACAGG
* * * *
103765064 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
103765129 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
103765194 AA
131 AA
103765196 GACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
1 GACAAGATCTGCTTTCT-TCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
* * *
103765260 ATCCGCTTCCTACCAATATAAGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
65 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACAT
103765325 GAA
130 GAA
* *
103765328 GACAAGATTTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
103765393 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
103765458 AA
131 AA
* * * * * * *
103765460 GACAAGATTTGCTTTCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTATCTTCG
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCG
*
103765524 ATCTACTTC
65 ATCCACTTC
103765533 ACGCCAATAC
Statistics
Matches: 312, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
131 23 0.07
132 288 0.92
133 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:103765648 original size:88 final size:88
Alignment explanation
Indices: 103765064--103765646 Score: 532
Period size: 88 Copynumber: 6.6 Consensus size: 88
103765054 CAAATACAGG
* * * * *
103765064 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TATCTTGG
1 GACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAAGATCTGCTTTCTTCG
* * *
103765128 ATCCACTTCCTATCAATATAGGAA
65 ATCTACTTCCCACCAATATAGGAA
* * * * * *
103765152 GATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGT-G
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCT-TCG
*
103765216 ATCTACTTCGCCACCAATATGGGAA
65 ATCTACTTC-CCACCAATATAGGAA
** * * * **
103765241 GACAAGATCTGC-ATCTTCGATCCGCTTC-CTACCAATATAAGAAGATAGGATCTGCTACCTTCG
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTTTCTTCG
* * * *
103765304 ATCTACTTCACGCCAATACATGAA
65 ATCTACTTCCCACCAATATAGGAA
* * * * * *
103765328 GACAAGATTTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCG
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCTTTCTTCG
* *
103765392 ATCCACTTCCTACCAATATAGGAA
65 ATCTACTTCCCACCAATATAGGAA
* * * * * * * *
103765416 GATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTCGA
* *
103765481 TCCACTTCCTACCAATATAGGAA
66 TCTACTTCCCACCAATATAGGAA
* * * * * * * *
103765504 GATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTCGA
* *
103765569 TCTACTTCGCCAGCAATATGGGAA
66 TCTACTTC-CCACCAATATAGGAA
* * * *
103765593 GACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATATAGGAAGATAGGATCTG
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTG
103765647 TTCCTTTGAC
Statistics
Matches: 405, Mismatches: 79, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
87 64 0.16
88 276 0.68
89 64 0.16
90 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (88 bp):
GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTCGA
TCTACTTCCCACCAATATAGGAA
Found at i:103778093 original size:139 final size:135
Alignment explanation
Indices: 103777842--103778110 Score: 387
Period size: 139 Copynumber: 2.0 Consensus size: 135
103777832 AAATTATATA
* *
103777842 TGTTGACACCATTTTTTAAATAAAACGGGGTCGACTTGGGTTTTAAAAAAAATGAAACGGGAGTC
1 TGTTGACACCATTTTTTAAATAAAACGGGGTCGACTTGGATTTTAAAAAAAACGAAACGGGAGTC
* *
103777907 GCCACCAATCCTTTTTTTATGAGGTGTGATTGGATCACCTCGAAAAATGGTTGTTTTTAATAAAC
66 GCCACCAATCCTTTTTTGATGAGGTGTGATCGGATCACCTCGAAAAATGGTTGTTTTTAATAAAC
103777972 GGTTT
131 GGTTT
** * *
103777977 TGTTGACACCATTTTTTTGGATGAAAACGGGGTCGACTTGGATTTTGAAAATGAAACGAAATTGG
1 TGTTGACACCA-TTTTTTAAAT-AAAACGGGGTCGACTTGGATTTT-AAAA-AAAACGAAA-CGG
* * *
103778042 GAGTCGCCACCAAT-CTTTTTTGATGAGGTGTGATCGGGTCACCTCGTAAAATGGTTGTTTTTGA
61 GAGTCGCCACCAATCCTTTTTTGATGAGGTGTGATCGGATCACCTCGAAAAATGGTTGTTTTTAA
103778106 TAAAC
126 TAAAC
103778111 AATTTGATTT
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
135 11 0.09
136 8 0.07
137 22 0.19
138 4 0.03
139 57 0.48
140 16 0.14
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (135 bp):
TGTTGACACCATTTTTTAAATAAAACGGGGTCGACTTGGATTTTAAAAAAAACGAAACGGGAGTC
GCCACCAATCCTTTTTTGATGAGGTGTGATCGGATCACCTCGAAAAATGGTTGTTTTTAATAAAC
GGTTT
Found at i:103780431 original size:43 final size:42
Alignment explanation
Indices: 103780382--103780495 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
103780372 GCAGAGCAAG
*
103780382 TGGGCATG-GGCGGTGG-TGGCAGGTGCTGGGGTGCAGACGGTGA
1 TGGGCATGCGG-GG-GGTTGGCAGGT-ATGGGGTGCAGACGGTGA
* *
103780425 TGGGCATGCGGGGGGTTTGCTGGTATGGGGTGCAGACGGTGA
1 TGGGCATGCGGGGGGTTGGCAGGTATGGGGTGCAGACGGTGA
* *
103780467 TGGGCATGCGGGGGGTTTGCTGGTATGGG
1 TGGGCATGCGGGGGGTTGGCAGGTATGGG
103780496 CCCGGGCAGA
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
42 48 0.73
43 16 0.24
44 2 0.03
ACGTcount: A:0.11, C:0.12, G:0.54, T:0.23
Consensus pattern (42 bp):
TGGGCATGCGGGGGGTTGGCAGGTATGGGGTGCAGACGGTGA
Found at i:103780454 original size:42 final size:42
Alignment explanation
Indices: 103780408--103780495 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
103780398 TGGCAGGTGC
103780408 TGGGGTGCAGACGGTGATGGGCATGCGGGGGGTTTGCTGGTA
1 TGGGGTGCAGACGGTGATGGGCATGCGGGGGGTTTGCTGGTA
103780450 TGGGGTGCAGACGGTGATGGGCATGCGGGGGGTTTGCTGGTA
1 TGGGGTGCAGACGGTGATGGGCATGCGGGGGGTTTGCTGGTA
103780492 TGGG
1 TGGG
103780496 CCCGGGCAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.11, C:0.11, G:0.53, T:0.24
Consensus pattern (42 bp):
TGGGGTGCAGACGGTGATGGGCATGCGGGGGGTTTGCTGGTA
Found at i:103781044 original size:44 final size:44
Alignment explanation
Indices: 103780881--103781404 Score: 465
Period size: 44 Copynumber: 11.9 Consensus size: 44
103780871 CGCCATCGTC
* * * **
103780881 GATCTGCTTTCTTCGATCTTCTTCACCACCAGTACGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAA
* * * *
103780926 GATCTGC-ATCTTCGATCCACCTC-CTACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * * * * *
103780969 AATCTGC-ATCGTCGGTCCACTTC-CTTCCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
103781012 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* *
103781056 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAA
* * *
103781101 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * * *
103781144 GATCTGCTACCTTCGATCTACTTCACGCCAACACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
103781188 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * * *
103781233 GATCTGC-GTCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * * *
103781276 GATCTGCTACCTTCGATCTACTTCACGCCAACACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
103781320 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
*
103781365 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGA
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGA
103781405 TAGGATCTAT
Statistics
Matches: 386, Mismatches: 80, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
42 4 0.01
43 114 0.30
44 194 0.50
45 74 0.19
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
Found at i:103781124 original size:132 final size:132
Alignment explanation
Indices: 103780918--103781412 Score: 832
Period size: 132 Copynumber: 3.8 Consensus size: 132
103780908 ACCAGTACGG
* * * * * * * *
103780918 GAAGACAAGATCTGC-ATCTTCGATCCACCTC-CTACCAGTATGGGAAGACAAAATCTGCATCGT
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
* * * * *
103780981 CGGTCCACTTCCTTCCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAACAC
103781046 AT
131 AT
* *
103781048 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
103781113 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAACAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAACAC
103781178 AT
131 AT
*
103781180 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCTT
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
103781245 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAACAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAACAC
103781310 AT
131 AT
103781312 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
103781377 CGATCCACTTCCTACCAATATAGGAAGATAGGATCT
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCT
103781413 ATTTACGCCT
Statistics
Matches: 347, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
130 15 0.04
131 13 0.04
132 319 0.92
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (132 bp):
GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAACAC
AT
Found at i:103801864 original size:45 final size:45
Alignment explanation
Indices: 103801783--103801872 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
103801773 CGCTTAAGAG
*
103801783 AAAGTGGTAGGTACCTTTCCACATTCTTTTTACTTTTCAGTAGAT
1 AAAGTGGTAGATACCTTTCCACATTCTTTTTACTTTTCAGTAGAT
* * *
103801828 AAAGTGGTAGATACCTTTTCATATT-TCTTTTGCTTTTCAGTAGAT
1 AAAGTGGTAGATACCTTTCCACATTCT-TTTTACTTTTCAGTAGAT
103801873 TGTTAATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (45 bp):
AAAGTGGTAGATACCTTTCCACATTCTTTTTACTTTTCAGTAGAT
Found at i:103802257 original size:15 final size:15
Alignment explanation
Indices: 103802237--103802267 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
103802227 TACTTTTTCC
103802237 TACTTGTGTAGTCTA
1 TACTTGTGTAGTCTA
103802252 TACTTGTGTAGTCTA
1 TACTTGTGTAGTCTA
103802267 T
1 T
103802268 GGATATCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (15 bp):
TACTTGTGTAGTCTA
Found at i:103805612 original size:14 final size:13
Alignment explanation
Indices: 103805571--103805610 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
103805561 ATATAACTAG
103805571 AAAGTGAAAA-AAA
1 AAAG-GAAAAGAAA
103805584 AAA--AAAAGAAA
1 AAAGGAAAAGAAA
103805595 AAAGGAAAAGAAA
1 AAAGGAAAAGAAA
103805608 AAA
1 AAA
103805611 AGAACAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.17
11 6 0.25
13 14 0.58
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAGGAAAAGAAA
Found at i:103816098 original size:21 final size:21
Alignment explanation
Indices: 103816072--103816112 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
103816062 ATCTGCTCAA
* *
103816072 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
103816093 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
103816113 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:103820965 original size:11 final size:11
Alignment explanation
Indices: 103820927--103820966 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
103820917 ATAATAACAA
103820927 TAAAATAATAG
1 TAAAATAATAG
*
103820938 TAACATAATAG
1 TAAAATAATAG
* *
103820949 TGAAATGATAG
1 TAAAATAATAG
103820960 TAAAATA
1 TAAAATA
103820967 TTGAAAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (11 bp):
TAAAATAATAG
Found at i:103828424 original size:82 final size:82
Alignment explanation
Indices: 103828328--103828492 Score: 262
Period size: 82 Copynumber: 2.0 Consensus size: 82
103828318 GACCATCTGG
* *
103828328 TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTATTATTAA-CCGACCAACTAAATAAAAATT
1 TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTAATATCAATCC-ACCAACTAAAT-AAAATT
103828392 AAAATTCAACA-AAGTGTA
64 AAAATTCAACACAAGTGTA
*
103828410 TGTCATTAGTCAAAATTAAAACTTTATTAAAATTTAATATCAATCCACCAACTAAATAAAATTAA
1 TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTAATATCAATCCACCAACTAAATAAAATTAA
*
103828475 AATTCAACACAATTGTA
66 AATTCAACACAAGTGTA
103828492 T
1 T
103828493 TTAGGGTAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
81 17 0.22
82 58 0.75
83 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (82 bp):
TGTCATTAGTCAAAAATAAAACTTTATTAAAATTTAATATCAATCCACCAACTAAATAAAATTAA
AATTCAACACAAGTGTA
Found at i:103831033 original size:6 final size:7
Alignment explanation
Indices: 103831007--103831032 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
103830997 GACATGTGAC
103831007 AAAAAAT
1 AAAAAAT
103831014 AAAAAAT
1 AAAAAAT
103831021 AAAAAAT
1 AAAAAAT
103831028 AAAAA
1 AAAAA
103831033 TTTATTATTT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:103831478 original size:15 final size:15
Alignment explanation
Indices: 103831441--103831482 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
103831431 TTAGGTCATT
103831441 TTAAAATTTATAAAAA
1 TTAAAA-TTATAAAAA
*
103831457 TTTAAATTAGTAAAAA
1 TTAAAATTA-TAAAAA
103831473 -TAAAATTATA
1 TTAAAATTATA
103831483 CTTTGACCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 10 0.43
16 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TTAAAATTATAAAAA
Found at i:103840381 original size:22 final size:23
Alignment explanation
Indices: 103840356--103840408 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
103840346 GTTCATCGGT
*
103840356 TTTTAAATTTTACCAT-TCTGAA
1 TTTTAAATGTTACCATATCTGAA
* *
103840378 TTTT-ACTGTTACCATATCTGCA
1 TTTTAAATGTTACCATATCTGAA
103840400 TTGTTAAAT
1 TT-TTAAAT
103840409 CTACCGAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 9 0.38
22 11 0.46
23 2 0.08
24 2 0.08
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (23 bp):
TTTTAAATGTTACCATATCTGAA
Found at i:103845542 original size:19 final size:19
Alignment explanation
Indices: 103845503--103845542 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
103845493 TATTTTAAAC
* *
103845503 AAACTTATTTTTTTAGCTT
1 AAACTCATTTTTTAAGCTT
*
103845522 AAACTCATTTTTTAAGTTT
1 AAACTCATTTTTTAAGCTT
103845541 AA
1 AA
103845543 TATTTTTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (19 bp):
AAACTCATTTTTTAAGCTT
Found at i:103851507 original size:19 final size:19
Alignment explanation
Indices: 103851463--103851507 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 19
103851453 TATATATATT
103851463 TTTTAATTATTTAATTTGA
1 TTTTAATTATTTAATTTGA
*
103851482 ---TAA-TATTTATTTTGA
1 TTTTAATTATTTAATTTGA
103851497 TTTTAATTATT
1 TTTTAATTATT
103851508 ACTTATCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 8
0.70 0.03 0.27
Matches are distributed among these distances:
15 11 0.52
16 3 0.14
18 3 0.14
19 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTAATTATTTAATTTGA
Found at i:103872539 original size:19 final size:19
Alignment explanation
Indices: 103872517--103872566 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
103872507 TAAAACAAAA
103872517 TAAAAGAAACAAAAAGAAT
1 TAAAAGAAACAAAAAGAAT
*
103872536 TAAAAGAAACAAAAAGAGT
1 TAAAAGAAACAAAAAGAAT
103872555 TAAAACGAAACA
1 TAAAA-GAAACA
103872567 GAGAATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.70, C:0.08, G:0.12, T:0.10
Consensus pattern (19 bp):
TAAAAGAAACAAAAAGAAT
Found at i:103873342 original size:27 final size:28
Alignment explanation
Indices: 103873292--103873346 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
103873282 TGAATTTATA
103873292 TGAATTGAATATATGTTGATTATTTGAAT
1 TGAATTGAATATATGTTGA-TATTTGAAT
103873321 TGAATTGAATAT-TGGTTG-TATTTGAA
1 TGAATTGAATATAT-GTTGATATTTGAA
103873347 AAGTGAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 8 0.32
28 1 0.04
29 16 0.64
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (28 bp):
TGAATTGAATATATGTTGATATTTGAAT
Found at i:103879975 original size:23 final size:23
Alignment explanation
Indices: 103879949--103879992 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
103879939 ATAATTTAAA
*
103879949 AAATAAAAAGATTAAAATTAATC
1 AAATAAAAAGATAAAAATTAATC
* *
103879972 AAATTAAAATATAAAAATTAA
1 AAATAAAAAGATAAAAATTAA
103879993 ATCTATAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (23 bp):
AAATAAAAAGATAAAAATTAATC
Found at i:103879991 original size:14 final size:14
Alignment explanation
Indices: 103879948--103879993 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
103879938 AATAATTTAA
103879948 AAAATA-AAAAGATT
1 AAAATATAAAA-ATT
103879962 AAAAT-TAATCAAATT
1 AAAATATAA--AAATT
103879977 AAAATATAAAAATT
1 AAAATATAAAAATT
103879991 AAA
1 AAA
103879994 TCTATAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 15 0.54
15 8 0.29
16 5 0.18
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:103882078 original size:23 final size:22
Alignment explanation
Indices: 103882027--103882080 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
103882017 TCGGTATTGT
103882027 TATTTTT-AATAAAATTTGTTA
1 TATTTTTAAATAAAATTTGTTA
*
103882048 TAACTTTTTAAATAAATTTTGTTTA
1 T-A-TTTTTAAATAAAATTTG-TTA
103882073 TATTTTTA
1 TATTTTTA
103882081 TGATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 1 0.04
23 11 0.39
24 11 0.39
25 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TATTTTTAAATAAAATTTGTTA
Found at i:103882106 original size:20 final size:19
Alignment explanation
Indices: 103882060--103882107 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
103882050 ACTTTTTAAA
103882060 TAAATTTTGTTTATATTTT
1 TAAATTTTGTTTATATTTT
*
103882079 TATGATTTT-TTTAATAATTTT
1 TA-AATTTTGTTT-AT-ATTTT
103882100 TAAATTTT
1 TAAATTTT
103882108 AAAAGGGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 5 0.21
20 12 0.50
21 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TAAATTTTGTTTATATTTT
Found at i:103883271 original size:31 final size:27
Alignment explanation
Indices: 103883220--103883286 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
103883210 TAAATCTTAA
* *
103883220 AATTATACATGAATTTTAATTTAACGTGC
1 AATTATACATGAACTGTAATTT--CGTGC
*
103883249 AATTATATGCATGAACTGTAATTTGGTGC
1 AATTATA--CATGAACTGTAATTTCGTGC
103883278 AATTATACA
1 AATTATACA
103883287 CGTGAAGCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
29 18 0.55
31 13 0.39
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTATACATGAACTGTAATTTCGTGC
Found at i:103883292 original size:29 final size:30
Alignment explanation
Indices: 103883245--103883302 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
103883235 TTAATTTAAC
** *
103883245 GTGCAATTATATGCATGAA-CTGTAATTTG
1 GTGCAATTATACACATGAAGCTCTAATTTG
*
103883274 GTGCAATTATACACGTGAAGCTCTAATTT
1 GTGCAATTATACACATGAAGCTCTAATTT
103883303 TGGTTCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (30 bp):
GTGCAATTATACACATGAAGCTCTAATTTG
Found at i:103890896 original size:3 final size:3
Alignment explanation
Indices: 103890888--103890920 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
103890878 GGAAAGAGTA
103890888 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
103890921 GTTAAAGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:103893765 original size:21 final size:21
Alignment explanation
Indices: 103893741--103893786 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
103893731 ATGCCTTTGG
* *
103893741 ATTTTAGTTTTCAAATTTCAT
1 ATTTTAGGTTTCAAATTTCAA
* *
103893762 ATTTTGGGTTTCGAATTTCAA
1 ATTTTAGGTTTCAAATTTCAA
103893783 ATTT
1 ATTT
103893787 GATGTTTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (21 bp):
ATTTTAGGTTTCAAATTTCAA
Found at i:103895315 original size:40 final size:40
Alignment explanation
Indices: 103895258--103895334 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
103895248 TAAAGTTATT
* *
103895258 CATAACATGCCCCGAGCTTTGCCAACTTCCTTTCATGAAC
1 CATAACATGCCCAGAGCTATGCCAACTTCCTTTCATGAAC
*
103895298 CATAACATGCCCAGAGCTATGTCAACTTCCTTTCATG
1 CATAACATGCCCAGAGCTATGCCAACTTCCTTTCATG
103895335 CTTAGAGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (40 bp):
CATAACATGCCCAGAGCTATGCCAACTTCCTTTCATGAAC
Found at i:103898990 original size:14 final size:14
Alignment explanation
Indices: 103898943--103898990 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
103898933 GTACGAATGG
*
103898943 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
103898957 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
103898971 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
103898985 ATTGGT
1 AATGGT
103898991 CAGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:103905517 original size:15 final size:16
Alignment explanation
Indices: 103905492--103905521 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
103905482 ATCACTCTTT
103905492 TTTTCGATTTTTTTTA
1 TTTTCGATTTTTTTTA
103905508 TTTT-GATTTTTTTT
1 TTTTCGATTTTTTTT
103905522 CGAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (16 bp):
TTTTCGATTTTTTTTA
Found at i:103905941 original size:14 final size:14
Alignment explanation
Indices: 103905894--103905941 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
103905884 GTACGAATGG
*
103905894 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
103905908 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
103905922 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
103905936 ATTGGT
1 AATGGT
103905942 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:103908618 original size:17 final size:18
Alignment explanation
Indices: 103908580--103908618 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
103908570 ATTATTTCTC
* *
103908580 AAAAGTACTTTTGGGATA
1 AAAAATACTTTTGAGATA
103908598 AAAAATACTTTTGAGATA
1 AAAAATACTTTTGAGATA
103908616 AAA
1 AAA
103908619 TTATTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (18 bp):
AAAAATACTTTTGAGATA
Found at i:103909320 original size:19 final size:19
Alignment explanation
Indices: 103909278--103909338 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
103909268 TCTCTCAACA
* *
103909278 AAAATTACAAAAAAATTTAA
1 AAAATT-CAAAATAATTTAT
*
103909298 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTAT
103909317 AAAA-TCTAAAAT-ATTTAT
1 AAAATTC-AAAATAATTTAT
103909335 AAAA
1 AAAA
103909339 AAATTCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.31
19 19 0.53
20 6 0.17
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:103909337 original size:18 final size:18
Alignment explanation
Indices: 103909287--103909338 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
103909277 AAAAATTACA
* *
103909287 AAAAAATTTAAAAAATTC
1 AAAATATTTATAAAATTC
*
103909305 AAAATAATTTTTAAAA-TC
1 AAAAT-ATTTATAAAATTC
103909323 TAAAATATTTATAAAA
1 -AAAATATTTATAAAA
103909339 AAATTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATATTTATAAAATTC
Found at i:103909339 original size:19 final size:19
Alignment explanation
Indices: 103909277--103909349 Score: 53
Period size: 19 Copynumber: 3.7 Consensus size: 19
103909267 CTCTCTCAAC
*
103909277 AAAAATTACAAAAAAATTTA-
1 AAAAATT-C-AAAATATTTAT
103909297 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
103909316 TAAAA-TCTAAAATATTTAT
1 AAAAATTC-AAAATATTTAT
103909335 AAAAAAATTCAAAAT
1 --AAAAATTCAAAAT
103909350 TTATATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
18 10 0.23
19 15 0.35
20 7 0.16
21 9 0.21
22 2 0.05
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:103912333 original size:20 final size:19
Alignment explanation
Indices: 103912303--103912343 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
103912293 ATATATATAT
103912303 ATCAATTTAATCCAATTCA
1 ATCAATTTAATCCAATTCA
*
103912322 ATCAAGTTTAATTCAATTCA
1 ATCAA-TTTAATCCAATTCA
103912342 AT
1 AT
103912344 ATCAAAGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (19 bp):
ATCAATTTAATCCAATTCA
Found at i:103913179 original size:25 final size:25
Alignment explanation
Indices: 103913145--103913194 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
103913135 TTTTTTCATT
103913145 CTTTTAATAACCA-TCCCACTTAAAG
1 CTTTTAATAA-CAGTCCCACTTAAAG
103913170 CTTTTAATAACAGTCCCACTTAAAG
1 CTTTTAATAACAGTCCCACTTAAAG
103913195 ACCAATCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (25 bp):
CTTTTAATAACAGTCCCACTTAAAG
Found at i:103924027 original size:17 final size:17
Alignment explanation
Indices: 103924005--103924039 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
103923995 AGTCACACAC
103924005 TTAAATAATAGA-ATAGA
1 TTAAATAAT-GATATAGA
103924022 TTAAATAATGATATAGA
1 TTAAATAATGATATAGA
103924039 T
1 T
103924040 ATACACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
TTAAATAATGATATAGA
Found at i:103926022 original size:26 final size:25
Alignment explanation
Indices: 103925993--103926055 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
103925983 TAAAATAATT
103925993 AAAAAATTAATTGAATCGA-AATTAAA
1 AAAAAATTAATTG-ATC-ATAATTAAA
* * *
103926019 AAAAAAGTCATTGATCATACTTAAA
1 AAAAAATTAATTGATCATAATTAAA
*
103926044 AAAACATTAATT
1 AAAAAATTAATT
103926056 TTATTACTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 1 0.03
25 18 0.60
26 11 0.37
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (25 bp):
AAAAAATTAATTGATCATAATTAAA
Found at i:103926637 original size:21 final size:22
Alignment explanation
Indices: 103926597--103926637 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
103926587 TAAAAAAATT
*
103926597 CGACATATATTACCTATTTAAC
1 CGACATATATTACATATTTAAC
*
103926619 CGACATATTTTA-ATATTTA
1 CGACATATATTACATATTTA
103926638 TATCATAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (22 bp):
CGACATATATTACATATTTAAC
Done.