Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 25 of 250
Found at i:7248419 original size:39 final size:39
Alignment explanation
Indices: 7248398--7248567 Score: 218
Period size: 39 Copynumber: 4.4 Consensus size: 39
7248388 TATGCCTTTA
*
7248398 TTGTACTTCGGTACCCTTGATCGCATTTACGTGCCCCTG
1 TTGTACTTCGGTACCCTTGATCGCACTTACGTGCCCCTG
* * *
7248437 TTGTACTTGGGTA-CTTCTGATCACACTTACGTGCCCCTG
1 TTGTACTTCGGTACCCT-TGATCGCACTTACGTGCCCCTG
*
7248476 TTGTAC-TCTGGTACCCCTGATCGCACTTACGTGCCCCTG
1 TTGTACTTC-GGTACCCTTGATCGCACTTACGTGCCCCTG
* * * * *
7248515 TTTTACTTCGGTATCCTTGATTGCACTTACGTGCCCTTA
1 TTGTACTTCGGTACCCTTGATCGCACTTACGTGCCCCTG
7248554 TTGTACTTCGGTAC
1 TTGTACTTCGGTAC
7248568 TTCTGATAGC
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.03
39 105 0.95
40 3 0.03
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.37
Consensus pattern (39 bp):
TTGTACTTCGGTACCCTTGATCGCACTTACGTGCCCCTG
Found at i:7248506 original size:78 final size:77
Alignment explanation
Indices: 7248370--7248581 Score: 246
Period size: 78 Copynumber: 2.7 Consensus size: 77
7248360 TATATAATTA
** * * *
7248370 TATCACTGATCACACTTATATGCCTTTATTGTACTTCGGTACCCTTGATCGCATTTACGTGCCCC
1 TATC-CTGATCACACTTACGTGCCCTTATTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCC
*
7248435 TGTTGTACTTGGG
65 TGTTGTACTTCGG
* * *
7248448 TACTTCTGATCACACTTACGTGCCCCTGTTGTAC-TCTGGTACCCCTGATCGCACTTACGTGCCC
1 TA-TCCTGATCACACTTACGTGCCCTTATTGTACTTC-GGTACCCCTGATCGCACTTACGTGCCC
*
7248512 CTGTTTTACTTCGG
64 CTGTTGTACTTCGG
** ** *
7248526 TATCCTTGATTGCACTTACGTGCCCTTATTGTACTTCGGTACTTCTGATAGCACTT
1 TATCC-TGATCACACTTACGTGCCCTTATTGTACTTCGGTACCCCTGATCGCACTT
7248582 TTAAGTTGTG
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
77 4 0.04
78 105 0.94
79 3 0.03
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (77 bp):
TATCCTGATCACACTTACGTGCCCTTATTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCT
GTTGTACTTCGG
Found at i:7248514 original size:20 final size:20
Alignment explanation
Indices: 7248453--7248514 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
7248443 TTGGGTACTT
*
7248453 CTGATCACACTTACGTGCCC
1 CTGATCGCACTTACGTGCCC
* * * *
7248473 CTG-TTGTACTCT-GGTACCC
1 CTGATCGCACT-TACGTGCCC
7248492 CTGATCGCACTTACGTGCCC
1 CTGATCGCACTTACGTGCCC
7248512 CTG
1 CTG
7248515 TTTTACTTCG
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.15, C:0.37, G:0.19, T:0.29
Consensus pattern (20 bp):
CTGATCGCACTTACGTGCCC
Found at i:7255177 original size:36 final size:36
Alignment explanation
Indices: 7255137--7255208 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
7255127 GGTGCCCCAA
*
7255137 ACCCAATCGGGACAGCCCGATCTGAGTTTCAAACGT
1 ACCCAATCGGGACAGCCCGATCTAAGTTTCAAACGT
* *
7255173 ACCCAGTCGGGATAGCCCGATCTAAGTTTCAAACGT
1 ACCCAATCGGGACAGCCCGATCTAAGTTTCAAACGT
7255209 CTCATTAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (36 bp):
ACCCAATCGGGACAGCCCGATCTAAGTTTCAAACGT
Found at i:7257066 original size:17 final size:17
Alignment explanation
Indices: 7257019--7257196 Score: 133
Period size: 17 Copynumber: 10.4 Consensus size: 17
7257009 ATATGATAAT
*
7257019 AGGGTTCGCATATATAG
1 AGGGTTCGCACATATAG
**
7257036 TAGGGGTTTACACATATAG
1 -A-GGGTTCGCACATATAG
* *
7257055 AGGGTTCGCACAAATGG
1 AGGGTTCGCACATATAG
* * *
7257072 AAGGTTTGCACATACAG
1 AGGGTTCGCACATATAG
*
7257089 AGGGTTTGCACATATA-
1 AGGGTTCGCACATATAG
* * *
7257105 ACGAGTTCACACATATGG
1 A-GGGTTCGCACATATAG
* * *
7257123 AGGGTTCACACAAATGG
1 AGGGTTCGCACATATAG
* *
7257140 TGGGTTCGCACATATGG
1 AGGGTTCGCACATATAG
*
7257157 AGGGTTCACACATATAG
1 AGGGTTCGCACATATAG
* * *
7257174 AGGGTTTGCACAAATAA
1 AGGGTTCGCACATATAG
7257191 AGGGTT
1 AGGGTT
7257197 TGTACAAATG
Statistics
Matches: 127, Mismatches: 30, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
16 1 0.01
17 110 0.87
18 3 0.02
19 13 0.10
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (17 bp):
AGGGTTCGCACATATAG
Found at i:7257101 original size:51 final size:52
Alignment explanation
Indices: 7257039--7257220 Score: 165
Period size: 51 Copynumber: 3.6 Consensus size: 52
7257029 TATATAGTAG
* * * * *
7257039 GGGTTTACACATATAGA-GGGTTCGCACAAATGGAAGGTTTGCACATACAGA
1 GGGTTTGCACATATAGACGGGTTCACACAAATGGAGGGTTTGCACAAATAGA
* * ** * *
7257090 GGGTTTGCACATATA-ACGAGTTCACACATATGGAGGGTTCACACAAATGGT
1 GGGTTTGCACATATAGACGGGTTCACACAAATGGAGGGTTTGCACAAATAGA
* * * * *
7257141 GGGTTCGCACATATGGA-GGGTTCACACATATAGAGGGTTTGCACAAATAAA
1 GGGTTTGCACATATAGACGGGTTCACACAAATGGAGGGTTTGCACAAATAGA
* * *
7257192 GGGTTTGTACAAAT-GATGGGTTCACACAA
1 GGGTTTGCACATATAGACGGGTTCACACAA
7257221 TGGCTTGGCT
Statistics
Matches: 104, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
50 3 0.03
51 100 0.96
52 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (52 bp):
GGGTTTGCACATATAGACGGGTTCACACAAATGGAGGGTTTGCACAAATAGA
Found at i:7257135 original size:68 final size:68
Alignment explanation
Indices: 7257045--7257172 Score: 175
Period size: 68 Copynumber: 1.9 Consensus size: 68
7257035 GTAGGGGTTT
* * **
7257045 ACACATATAGAGGGTTCGCACAAATGGAAGGTTTGCACATACAGAGGGTTTGCACATATAACGAG
1 ACACATATAGAGGGTTCACACAAATGGAAGGTTCGCACATACAGAGGGTTCACACATATAACGAG
7257110 TTC
66 TTC
* ** **
7257113 ACACATATGGAGGGTTCACACAAATGGTGGGTTCGCACATATGGAGGGTTCACACATATA
1 ACACATATAGAGGGTTCACACAAATGGAAGGTTCGCACATACAGAGGGTTCACACATATA
7257173 GAGGGTTTGC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (68 bp):
ACACATATAGAGGGTTCACACAAATGGAAGGTTCGCACATACAGAGGGTTCACACATATAACGAG
TTC
Found at i:7257220 original size:17 final size:17
Alignment explanation
Indices: 7257109--7257220 Score: 91
Period size: 17 Copynumber: 6.6 Consensus size: 17
7257099 CATATAACGA
*
7257109 GTTCACACATATGGAGG
1 GTTCACACAAATGGAGG
*
7257126 GTTCACACAAATGGTGG
1 GTTCACACAAATGGAGG
* *
7257143 GTTCGCACATATGGAGG
1 GTTCACACAAATGGAGG
* *
7257160 GTTCACACATATAGAGG
1 GTTCACACAAATGGAGG
** **
7257177 GTTTGCACAAATAAAGG
1 GTTCACACAAATGGAGG
***
7257194 GTTTGTACAAAT-GATGG
1 GTTCACACAAATGGA-GG
7257211 GTTCACACAA
1 GTTCACACAA
7257221 TGGCTTGGCT
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
16 1 0.01
17 77 0.99
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (17 bp):
GTTCACACAAATGGAGG
Found at i:7257268 original size:17 final size:17
Alignment explanation
Indices: 7257226--7257343 Score: 94
Period size: 17 Copynumber: 6.9 Consensus size: 17
7257216 CACAATGGCT
*
7257226 TGGCTCGCATAAAGGTA
1 TGGCTCGCATAATGGTA
*
7257243 TGGCCCGCATAATGGTA
1 TGGCTCGCATAATGGTA
* * *
7257260 AGGTTCGCACT-ATTGTA
1 TGGCTCGCA-TAATGGTA
* *
7257277 TGGCTCACACAATGGTA
1 TGGCTCGCATAATGGTA
* *
7257294 TGCCTCGCATAAAGGTA
1 TGGCTCGCATAATGGTA
* * *
7257311 TGGCACTCACAATGGTA
1 TGGCTCGCATAATGGTA
* *
7257328 AGGTTCGCATAATGGT
1 TGGCTCGCATAATGGT
7257344 TTGGTTTGCA
Statistics
Matches: 74, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
17 73 0.99
18 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (17 bp):
TGGCTCGCATAATGGTA
Found at i:7257268 original size:34 final size:34
Alignment explanation
Indices: 7257230--7257339 Score: 114
Period size: 34 Copynumber: 3.2 Consensus size: 34
7257220 ATGGCTTGGC
* * *
7257230 TCGCATAAAGGTATGGCCCGCATAATGGTAAGGT
1 TCGCATAAAGGTATGGCACACACAATGGTAAGGT
** * * **
7257264 TCGCACT-ATTGTATGGCTCACACAATGGTATGCC
1 TCGCA-TAAAGGTATGGCACACACAATGGTAAGGT
*
7257298 TCGCATAAAGGTATGGCACTCACAATGGTAAGGT
1 TCGCATAAAGGTATGGCACACACAATGGTAAGGT
7257332 TCGCATAA
1 TCGCATAA
7257340 TGGTTTGGTT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
33 1 0.02
34 57 0.97
35 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (34 bp):
TCGCATAAAGGTATGGCACACACAATGGTAAGGT
Found at i:7257369 original size:68 final size:68
Alignment explanation
Indices: 7257227--7257370 Score: 164
Period size: 68 Copynumber: 2.1 Consensus size: 68
7257217 ACAATGGCTT
* * * *
7257227 GGCTCGCATAAAGGTATGGCCCGCATAATGGTAAGGTTCGCACTATTGTATGGCTCACACAATGG
1 GGCTCGCATAAAGGTATGGCACGCACAATGGTAAGGTTCGCACTATGGTATGGCTCACACAAAGG
*
7257292 TAT
66 TAA
* * * * **
7257295 GCCTCGCATAAAGGTATGGCACTCACAATGGTAAGGTTCGCA-TAATGGTTTGGTTTGCACAAAG
1 GGCTCGCATAAAGGTATGGCACGCACAATGGTAAGGTTCGCACT-ATGGTATGGCTCACACAAAG
*
7257359 TTAA
65 GTAA
7257363 GGCTCGCA
1 GGCTCGCA
7257371 CTATCACATA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
67 1 0.02
68 61 0.98
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (68 bp):
GGCTCGCATAAAGGTATGGCACGCACAATGGTAAGGTTCGCACTATGGTATGGCTCACACAAAGG
TAA
Found at i:7263641 original size:8 final size:8
Alignment explanation
Indices: 7263628--7263673 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
7263618 GTTTCTCCAT
7263628 TTTTTTAC
1 TTTTTTAC
7263636 TTTTTTAC
1 TTTTTTAC
7263644 TTTTTTGAC
1 TTTTTT-AC
*
7263653 TTTTGTAC
1 TTTTTTAC
7263661 TTTTTTAAC
1 TTTTTT-AC
7263670 TTTT
1 TTTT
7263674 CTTTATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 21 0.62
9 13 0.38
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (8 bp):
TTTTTTAC
Found at i:7263641 original size:9 final size:9
Alignment explanation
Indices: 7263627--7263713 Score: 58
Period size: 9 Copynumber: 9.9 Consensus size: 9
7263617 AGTTTCTCCA
7263627 TTTTTTTAC
1 TTTTTTTAC
7263636 -TTTTTTAC
1 TTTTTTTAC
*
7263644 TTTTTTGAC
1 TTTTTTTAC
*
7263653 -TTTTGTAC
1 TTTTTTTAC
*
7263661 TTTTTTAAC
1 TTTTTTTAC
7263670 TTTTCTTTA-
1 TTTT-TTTAC
*
7263679 TTTATTTA-
1 TTTTTTTAC
7263687 TTTATTTTA-
1 TTT-TTTTAC
* *
7263696 TTTATTTAA
1 TTTTTTTAC
7263705 TTTTATTTA
1 TTTT-TTTA
7263714 TTATTATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
8 25 0.40
9 30 0.48
10 7 0.11
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:7263649 original size:17 final size:17
Alignment explanation
Indices: 7263627--7263673 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
7263617 AGTTTCTCCA
* *
7263627 TTTTTTTACTTTTTTAC
1 TTTTTTAACTTTTGTAC
*
7263644 TTTTTTGACTTTTGTAC
1 TTTTTTAACTTTTGTAC
7263661 TTTTTTAACTTTT
1 TTTTTTAACTTTT
7263674 CTTTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTTTAACTTTTGTAC
Found at i:7263684 original size:4 final size:4
Alignment explanation
Indices: 7263675--7263715 Score: 55
Period size: 4 Copynumber: 9.5 Consensus size: 4
7263665 TTAACTTTTC
7263675 TTTA TTTA TTTA TTTA TTTTA TTTA TTTAA TTTTA TTTA TT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTT-A -TTTA TTTA TT
7263716 ATTATTAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 25 0.74
5 6 0.18
6 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:7263697 original size:13 final size:13
Alignment explanation
Indices: 7263675--7263715 Score: 66
Period size: 14 Copynumber: 3.2 Consensus size: 13
7263665 TTAACTTTTC
7263675 TTTA-TTTATTTA
1 TTTATTTTATTTA
7263687 TTTATTTTATTTA
1 TTTATTTTATTTA
7263700 TTTAATTTTATTTA
1 TTT-ATTTTATTTA
7263714 TT
1 TT
7263716 ATTATTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
14 12 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:7263718 original size:17 final size:18
Alignment explanation
Indices: 7263664--7263715 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
7263654 TTTGTACTTT
*
7263664 TTTAACTTTTCTTTATTTA
1 TTTAA-TTTTATTTATTTA
7263683 TTT-A-TTTATTTTATTTA
1 TTTAATTTTA-TTTATTTA
7263700 TTTAATTTTATTTATT
1 TTTAATTTTATTTATT
7263716 ATTATTAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.10
17 11 0.38
18 8 0.28
19 7 0.24
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTAATTTTATTTATTTA
Found at i:7263756 original size:13 final size:13
Alignment explanation
Indices: 7263731--7263780 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
7263721 TAACTTTAAA
*
7263731 TTTTTTGAAATAT
1 TTTTTTAAAATAT
* *
7263744 ATATTTAAAATAT
1 TTTTTTAAAATAT
*
7263757 TTTTTTAATATAT
1 TTTTTTAAAATAT
7263770 TTTTTTAAAAT
1 TTTTTTAAAAT
7263781 TTTAAATATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TTTTTTAAAATAT
Found at i:7263819 original size:7 final size:7
Alignment explanation
Indices: 7263809--7263852 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
7263799 AATTACTTTT
*
7263809 TTAAATT
1 TTAAATA
7263816 TTAAATA
1 TTAAATA
** *
7263823 TTATTTT
1 TTAAATA
7263830 TTAAATA
1 TTAAATA
7263837 TTAAATA
1 TTAAATA
7263844 TTAAATA
1 TTAAATA
7263851 TT
1 TT
7263853 TTTTTAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TTAAATA
Found at i:7263831 original size:21 final size:22
Alignment explanation
Indices: 7263800--7263846 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
7263790 ATACTTTGAA
*
7263800 ATTACTTTTTTAAATTTTAAAT
1 ATTACTTTTTTAAATATTAAAT
7263822 ATTA-TTTTTTAAATATTAAAT
1 ATTACTTTTTTAAATATTAAAT
7263843 ATTA
1 ATTA
7263847 AATATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTACTTTTTTAAATATTAAAT
Found at i:7263833 original size:14 final size:14
Alignment explanation
Indices: 7263814--7263865 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
7263804 CTTTTTTAAA
7263814 TTTTAAATATTATT
1 TTTTAAATATTATT
**
7263828 TTTTAAATATTAAA
1 TTTTAAATATTATT
*
7263842 TATTAAATA-T-TT
1 TTTTAAATATTATT
7263854 TTTT-AATATTAT
1 TTTTAAATATTAT
7263866 AAAATATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 4 0.13
12 4 0.13
13 2 0.07
14 20 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAAATATTATT
Found at i:7263849 original size:28 final size:29
Alignment explanation
Indices: 7263809--7263883 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 29
7263799 AATTACTTTT
*
7263809 TTAAATTTTAAATATTATTTTTTAA-A-TA
1 TTAAATATTAAATATT-TTTTTTAATATTA
7263837 TTAAATATTAAATA-TTTTTTTAATATTA
1 TTAAATATTAAATATTTTTTTTAATATTA
*
7263865 TAAAATATTTAAATATTTT
1 TTAAATA-TTAAATATTTT
7263884 AAACTTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 8 0.20
27 2 0.05
28 21 0.51
29 7 0.17
30 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATATTAAATATTTTTTTTAATATTA
Found at i:7263872 original size:21 final size:21
Alignment explanation
Indices: 7263805--7263874 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 21
7263795 TTGAAATTAC
*
7263805 TTTTTTAA-ATTTTAAATATTAT
1 TTTTTTAATATTATAAA-A-TAT
*
7263827 TTTTTAAATATTAAATATTAAATAT
1 TTTTTTAATATT--ATA--AAATAT
7263852 TTTTTTAATATTATAAAATAT
1 TTTTTTAATATTATAAAATAT
7263873 TT
1 TT
7263875 AAATATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
21 8 0.20
22 7 0.17
23 6 0.15
25 16 0.40
26 1 0.03
27 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTTAATATTATAAAATAT
Found at i:7263879 original size:18 final size:18
Alignment explanation
Indices: 7263832--7263886 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
7263822 ATTATTTTTT
7263832 AAATA-TTAAATATTA-A
1 AAATATTTAAATATTATA
* * *
7263848 ATATTTTTTTAATATTATA
1 A-AATATTTAAATATTATA
*
7263867 AAATATTTAAATATTTTA
1 AAATATTTAAATATTATA
7263885 AA
1 AA
7263887 CTTTCAAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 1 0.03
17 2 0.07
18 24 0.83
19 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATATTTAAATATTATA
Found at i:7264300 original size:28 final size:26
Alignment explanation
Indices: 7264259--7264312 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
7264249 AAAAATTTTA
*
7264259 AATATTAAATATTAATAAAAATATATTT
1 AATATTAAAGATTAA-AAAAATA-ATTT
*
7264287 AATATTTAAGATTAAAAAAATAATTT
1 AATATTAAAGATTAAAAAAATAATTT
7264313 CAAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 7 0.29
28 13 0.54
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
AATATTAAAGATTAAAAAAATAATTT
Found at i:7264322 original size:28 final size:28
Alignment explanation
Indices: 7264255--7264320 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
7264245 ATTTAAAAAT
* *
7264255 TTTAAATATTAAATATTAATAAAAATATA
1 TTTAAA-ATTTAAGATTAATAAAAATATA
*
7264284 TTTAATATTTAAGATTAA-AAAAATA-A
1 TTTAAAATTTAAGATTAATAAAAATATA
7264310 TTTCAAAATTT
1 TTT-AAAATTT
7264321 TATTTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 4 0.12
27 13 0.41
28 10 0.31
29 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TTTAAAATTTAAGATTAATAAAAATATA
Found at i:7264365 original size:36 final size:34
Alignment explanation
Indices: 7264288--7264546 Score: 162
Period size: 34 Copynumber: 7.6 Consensus size: 34
7264278 AATATATTTA
* * * *
7264288 ATATTTAAGA-TTAAAAAAATAATTTCAAAATTTT
1 ATATTTAAAATTTATAAAAATAATTT-AAAAATAT
*
7264322 ATTTTTAAAATTTATAAGAAATAATTTCAAAAATAT
1 ATATTTAAAATTTATAA-AAATAATTT-AAAAATAT
* * **
7264358 ATATTT-AAA-TTA-AATATATATTTTTGAAAT-T
1 ATATTTAAAATTTATAA-AAATAATTTAAAAATAT
** * *
7264389 AT-TTT-ATTTTGTTTAAAAATATATTTTTAAAA-AT
1 ATATTTAAAATT-TATAAAAATA-A-TTTAAAAATAT
*
7264423 ATATTTAAAATTTAGAAAAATATATTTAAAAAAATAT
1 ATATTTAAAATTTATAAAAATA-ATTT--AAAAATAT
* *
7264460 ATTTTTAAAATTTATAAGACATAATTTAAAAATAT
1 ATATTTAAAATTTATAA-AAATAATTTAAAAATAT
* *
7264495 AATACTCAAAATTT-TAAAAATAATTTAAAAATA-
1 -ATATTTAAAATTTATAAAAATAATTTAAAAATAT
7264528 ATATTTAAAAATTT-TAAAA
1 ATATTT-AAAATTTATAAAA
7264547 TATATATATT
Statistics
Matches: 178, Mismatches: 31, Indels: 33
0.74 0.13 0.14
Matches are distributed among these distances:
30 4 0.02
31 4 0.02
32 13 0.07
33 23 0.13
34 39 0.22
35 32 0.18
36 38 0.21
37 21 0.12
38 4 0.02
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (34 bp):
ATATTTAAAATTTATAAAAATAATTTAAAAATAT
Found at i:7264419 original size:14 final size:14
Alignment explanation
Indices: 7264400--7264469 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 14
7264390 TTTTATTTTG
7264400 TTTAAAAATATATT
1 TTTAAAAATATATT
7264414 TTTAAAAATATATTT
1 TTTAAAAATATA-TT
7264429 AAAATTTAGAAAAATATATT
1 ----TTT--AAAAATATATT
**
7264449 TAAAAAAATATATT
1 TTTAAAAATATATT
7264463 TTTAAAA
1 TTTAAAA
7264470 TTTATAAGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
14 28 0.62
15 2 0.04
16 1 0.02
19 3 0.07
20 2 0.04
21 9 0.20
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:7264487 original size:37 final size:35
Alignment explanation
Indices: 7264402--7264546 Score: 129
Period size: 35 Copynumber: 4.1 Consensus size: 35
7264392 TTATTTTGTT
**
7264402 TAAAAATATATTTTTAAAAATATA-TTTAAAATTTA
1 TAAAAATA-ATTTAAAAAAATATATTTTAAAATTTA
*
7264437 GAAAAATATATTTAAAAAAATATATTTTTAAAATTTA
1 TAAAAATA-ATTTAAAAAAATATA-TTTTAAAATTTA
* * * *
7264474 TAAGACATAATTTAAAAATATA-ATACTCAAAATTT-
1 TAA-AAATAATTTAAAAAAATATAT-TTTAAAATTTA
* *
7264509 TAAAAATAATTTAAAAATA-ATATTTAAAAATTT-
1 TAAAAATAATTTAAAAAAATATATTTTAAAATTTA
7264542 TAAAA
1 TAAAA
7264547 TATATATATT
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
33 14 0.15
34 17 0.18
35 25 0.27
36 9 0.10
37 25 0.27
38 4 0.04
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.39
Consensus pattern (35 bp):
TAAAAATAATTTAAAAAAATATATTTTAAAATTTA
Found at i:7264523 original size:11 final size:13
Alignment explanation
Indices: 7264507--7264539 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
7264497 TACTCAAAAT
7264507 TTTAAAAAT-A-A
1 TTTAAAAATAATA
7264518 TTTAAAAATAATA
1 TTTAAAAATAATA
7264531 TTTAAAAAT
1 TTTAAAAAT
7264540 TTTAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TTTAAAAATAATA
Found at i:7264534 original size:24 final size:24
Alignment explanation
Indices: 7264507--7264584 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
7264497 TACTCAAAAT
7264507 TTTAAAAATAATTTAAAA-ATA-ATA
1 TTTAAAAAT--TTTAAAATATATATA
7264531 TTTAAAAATTTTAAAATATATATA
1 TTTAAAAATTTTAAAATATATATA
* *
7264555 TTATAAAACA-TTTCAAATATACAT-
1 TT-TAAAA-ATTTTAAAATATATATA
7264579 TTTAAA
1 TTTAAA
7264585 TTTTTTTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
22 7 0.15
23 7 0.15
24 16 0.33
25 17 0.35
26 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAAAATTTTAAAATATATATA
Found at i:7264683 original size:20 final size:20
Alignment explanation
Indices: 7264657--7264710 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
7264647 ATAAAACTTA
*
7264657 AAAAAAGAAAAAAATTTAA-
1 AAAAAAGAAAAAAAGTTAAT
*
7264676 AGAAAAAG-ATAAAAGTTAAT
1 A-AAAAAGAAAAAAAGTTAAT
7264696 AAAAAAGTAAAAAAA
1 AAAAAAG-AAAAAAA
7264711 AGAAGAAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 16 0.57
20 7 0.25
21 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (20 bp):
AAAAAAGAAAAAAAGTTAAT
Found at i:7264708 original size:19 final size:19
Alignment explanation
Indices: 7264640--7264708 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
7264630 ATAAAATAAT
7264640 AAAAAA-TATAAAACTT-A
1 AAAAAAGTATAAAACTTAA
* * *
7264657 AAAAAAGAAAAAAATTTAA
1 AAAAAAGTATAAAACTTAA
*
7264676 AGAAAAAG-ATAAAAGTTAA
1 A-AAAAAGTATAAAACTTAA
7264695 TAAAAAAGTA-AAAA
1 -AAAAAAGTATAAAA
7264709 AAAGAAGAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.14
18 7 0.17
19 21 0.50
20 8 0.19
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.17
Consensus pattern (19 bp):
AAAAAAGTATAAAACTTAA
Found at i:7264821 original size:13 final size:13
Alignment explanation
Indices: 7264805--7264844 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
7264795 TTATAATATA
7264805 TATTTTTAATTTT
1 TATTTTTAATTTT
7264818 TATTTTT-ATTTT
1 TATTTTTAATTTT
*
7264830 TATTTTTATTTTT
1 TATTTTTAATTTT
7264843 TA
1 TA
7264845 ATATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTTAATTTT
Found at i:7264844 original size:7 final size:6
Alignment explanation
Indices: 7264805--7264842 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
7264795 TTATAATATA
7264805 TATTTT TAATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT T-ATTTT TATTTT TATTTT TATTTT TATTTT T
7264843 TAATATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:7265118 original size:10 final size:11
Alignment explanation
Indices: 7265105--7265202 Score: 55
Period size: 11 Copynumber: 8.6 Consensus size: 11
7265095 AATATTTTAT
7265105 AATA-TTAAAA
1 AATATTTAAAA
7265115 AATATTTAAAA
1 AATATTTAAAA
*
7265126 AATAATATT-TAA
1 AAT-AT-TTAAAA
7265138 AAT-TTTAAAA
1 AATATTTAAAA
7265148 AATAATTTCAAAA
1 AAT-ATTT-AAAA
7265161 TATATATTT--AA
1 -A-ATATTTAAAA
*
7265172 AAT-TTAAAAAA
1 AATATT-TAAAA
7265183 AATATATTAATAA
1 AATAT-TTAA-AA
7265196 AATATTT
1 AATATTT
7265203 CAAATATATA
Statistics
Matches: 69, Mismatches: 4, Indels: 28
0.68 0.04 0.28
Matches are distributed among these distances:
8 2 0.03
9 4 0.06
10 11 0.16
11 16 0.23
12 15 0.22
13 14 0.20
14 5 0.07
15 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (11 bp):
AATATTTAAAA
Found at i:7265135 original size:34 final size:33
Alignment explanation
Indices: 7265095--7265182 Score: 101
Period size: 33 Copynumber: 2.6 Consensus size: 33
7265085 AAAATATTTA
*
7265095 AATATTTTATAATATTAAAAAAT-ATTTAAAAAAT
1 AATATTTTAAAAT-TTAAAAAATAATTT-AAAAAT
*
7265129 AATA-TTTAAAATTTTAAAAAATAATTTCAAAAT
1 AATATTTTAAAA-TTTAAAAAATAATTTAAAAAT
7265162 -ATATATTTAAAATTTAAAAAA
1 AATAT-TTTAAAATTTAAAAAA
7265183 AATATATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
32 3 0.06
33 29 0.60
34 16 0.33
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (33 bp):
AATATTTTAAAATTTAAAAAATAATTTAAAAAT
Found at i:7265147 original size:22 final size:23
Alignment explanation
Indices: 7265103--7265163 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
7265093 TAAATATTTT
7265103 ATAATATTAAAAAATATTTAAAAA
1 ATAATATT-AAAAATATTTAAAAA
*
7265127 ATAATATTTAAAAT-TTTAAAAA
1 ATAATATTAAAAATATTTAAAAA
*
7265149 ATAAT-TTCAAAATAT
1 ATAATATTAAAAATAT
7265164 ATATTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 7 0.21
22 14 0.41
23 5 0.15
24 8 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAATATTAAAAATATTTAAAAA
Found at i:7265148 original size:33 final size:33
Alignment explanation
Indices: 7265095--7265199 Score: 113
Period size: 34 Copynumber: 3.0 Consensus size: 33
7265085 AAAATATTTA
* *
7265095 AATATTTTATAATATTAAAAAATATTTAAAAAAT
1 AATA-TTTAAAATTTTAAAAAATATTTAAAAAAT
*
7265129 AATATTTAAAATTTTAAAAAATAATTT-CAAAAT
1 AATATTTAAAATTTTAAAAAAT-ATTTAAAAAAT
*
7265162 ATATATTTAAAATTTAAAAAAAATATATTAATAAAAT
1 A-ATATTTAAAATTT-TAAAAAATAT-TTAA-AAAAT
7265199 A
1 A
7265200 TTTCAAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
33 22 0.37
34 23 0.38
35 9 0.15
37 6 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
AATATTTAAAATTTTAAAAAATATTTAAAAAAT
Found at i:7265160 original size:13 final size:12
Alignment explanation
Indices: 7265103--7265173 Score: 60
Period size: 13 Copynumber: 5.9 Consensus size: 12
7265093 TAAATATTTT
7265103 ATAATATTAAAAA
1 ATAAT-TTAAAAA
7265116 AT-ATTTAAAAA
1 ATAATTTAAAAA
*
7265127 ATAATATT-TAAA
1 ATAAT-TTAAAAA
7265139 AT--TTTAAAAA
1 ATAATTTAAAAA
*
7265149 ATAATTTCAAAAT
1 ATAATTT-AAAAA
7265162 ATATATTTAAAA
1 ATA-ATTTAAAA
7265174 TTTAAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
9 2 0.04
10 6 0.12
11 9 0.19
12 12 0.25
13 15 0.31
14 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATTTAAAAA
Found at i:7265201 original size:33 final size:32
Alignment explanation
Indices: 7265111--7265207 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 32
7265101 TTATAATATT
7265111 AAAAAATATTTAAAAAATAATATTTAAAATTTTAA
1 AAAAAATATTT--AAAATAATATTTAAAA-TTTAA
*
7265146 AAAATAAT-TTCAAAATATATATTTAAAATTTAA
1 AAAA-AATATTTAAAATA-ATATTTAAAATTTAA
*
7265179 AAAAAATATATTAATAA-AATATTTCAAAT
1 AAAAAATAT-TTAA-AATAATATTTAAAAT
7265208 ATATATTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
32 3 0.06
33 26 0.48
34 14 0.26
35 8 0.15
36 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (32 bp):
AAAAAATATTTAAAATAATATTTAAAATTTAA
Found at i:7265213 original size:26 final size:25
Alignment explanation
Indices: 7265142--7265214 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 25
7265132 ATTTAAAATT
7265142 TTAA-AAAATAATTTCAAAATATATA
1 TTAATAAAAT-ATTTCAAAATATATA
** *
7265167 TT--TAAAAT-TTAAAAAAAATATA
1 TTAATAAAATATTTCAAAATATATA
7265189 TTAATAAAATATTTC-AAATATATA
1 TTAATAAAATATTTCAAAATATATA
7265213 TT
1 TT
7265215 TTAAATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
22 13 0.34
24 21 0.55
25 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (25 bp):
TTAATAAAATATTTCAAAATATATA
Found at i:7265264 original size:8 final size:8
Alignment explanation
Indices: 7265253--7265298 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
7265243 AGAAAGAAAG
7265253 AAAAGTAAA
1 AAAAGT-AA
*
7265262 AAAAGTAC
1 AAAAGTAA
7265270 AAAAGTCAA
1 AAAAGT-AA
*
7265279 AAAAATAA
1 AAAAGTAA
7265287 AAAAGTAA
1 AAAAGTAA
7265295 AAAA
1 AAAA
7265299 AAAAAGAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 20 0.62
9 12 0.38
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (8 bp):
AAAAGTAA
Found at i:7265265 original size:9 final size:9
Alignment explanation
Indices: 7265240--7265299 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
7265230 TTAATAATAA
*
7265240 TAAAGAAAG
1 TAAAAAAAG
7265249 -AAAGAAAAG
1 TAAA-AAAAG
7265258 TAAAAAAAG
1 TAAAAAAAG
*
7265267 T-ACAAAAG
1 TAAAAAAAG
7265275 TCAAAAAAA-
1 T-AAAAAAAG
7265284 T-AAAAAAG
1 TAAAAAAAG
7265292 TAAAAAAA
1 TAAAAAAA
7265300 AAAAGAAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
7 6 0.14
8 11 0.26
9 17 0.40
10 8 0.19
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (9 bp):
TAAAAAAAG
Found at i:7265275 original size:17 final size:16
Alignment explanation
Indices: 7265253--7265303 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
7265243 AGAAAGAAAG
*
7265253 AAAAGTAAAAAAAGTAC
1 AAAAGTAAAAAAA-TAA
7265270 AAAAGTCAAAAAAATAA
1 AAAAGT-AAAAAAATAA
7265287 AAAAGTAAAAAAA-AA
1 AAAAGTAAAAAAATAA
7265302 AA
1 AA
7265304 GAAACTGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 4 0.12
16 7 0.22
17 14 0.44
18 7 0.22
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (16 bp):
AAAAGTAAAAAAATAA
Found at i:7276482 original size:21 final size:21
Alignment explanation
Indices: 7276456--7276496 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7276446 ATCTGCTCAA
* *
7276456 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7276477 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7276497 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:7280141 original size:12 final size:12
Alignment explanation
Indices: 7280106--7280141 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
7280096 AGGCTCGTAG
7280106 AAGGTTCTTTTT
1 AAGGTTCTTTTT
*
7280118 AAGAGTTGTTTTT
1 AAG-GTTCTTTTT
7280131 AAGGTTCTTTT
1 AAGGTTCTTTT
7280142 ATCATTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (12 bp):
AAGGTTCTTTTT
Found at i:7295377 original size:38 final size:39
Alignment explanation
Indices: 7295317--7295612 Score: 263
Period size: 46 Copynumber: 6.9 Consensus size: 39
7295307 CTAATATGAA
* *
7295317 ATGTTTAAGACCATGGTTGAAAGATACAATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
7295356 -TGTGTAAAACCATGGTTGAAAGATACCATGGTAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
7295399 AAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACCTG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
7295440 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
7295478 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAG
1 -------ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
7295531 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
7295570 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
7295613 ATGACAGAAA
Statistics
Matches: 217, Mismatches: 10, Indels: 53
0.77 0.04 0.19
Matches are distributed among these distances:
38 69 0.32
39 1 0.00
41 6 0.03
43 2 0.01
44 1 0.00
46 136 0.63
51 1 0.00
53 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:7295423 original size:46 final size:46
Alignment explanation
Indices: 7295356--7295656 Score: 377
Period size: 46 Copynumber: 6.7 Consensus size: 46
7295346 TGGCAACCTG
* *
7295356 TGTGTAAAACCATGGTTGAAAGATACCATGGTAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
7295402 TGTGTAAGACTATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
7295440 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
7295486 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
7295532 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
7295578 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
7295624 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
7295657 TCACGTCAAA
Statistics
Matches: 225, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
38 35 0.16
41 2 0.01
43 1 0.00
45 1 0.00
46 186 0.83
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:7295442 original size:84 final size:84
Alignment explanation
Indices: 7295310--7295612 Score: 435
Period size: 84 Copynumber: 3.5 Consensus size: 84
7295300 GTGCTCTCTA
* * *
7295310 ATATGAAATGTTTAAGACCATGGTTGAAAGATACAATGGCAACCTGTGTGTAAAACCATGGTTGA
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
*
7295375 AAGATACCATGGTAACCTG
66 AAGATACCATGGCAACCTG
*
7295394 ATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
7295459 AAGATACCATGGCAACCTG
66 AAGATACCATGGCAACCTG
*
7295478 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAGATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAGACC
*
7295543 ATGGTTGAAAGATACCATGGCAACGTG
58 ATGGTTGAAAGATACCATGGCAACCTG
* * **
7295570 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7295613 ATGACAGAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
84 121 0.61
89 1 0.01
91 1 0.01
92 75 0.38
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (84 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
AAGATACCATGGCAACCTG
Found at i:7295962 original size:23 final size:25
Alignment explanation
Indices: 7295917--7295963 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7295907 AATAAATATA
*
7295917 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
7295942 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
7295964 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:7301300 original size:93 final size:93
Alignment explanation
Indices: 7301141--7301311 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
7301131 GCCCATAAGT
* * *
7301141 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATGAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
7301206 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
7301234 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
7301298 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
7301312 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:7301308 original size:46 final size:45
Alignment explanation
Indices: 7301133--7301307 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
7301123 TGTAACCCGC
*
7301133 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
* * *
7301179 CCATGAGTGAACTTGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
7301225 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
7301272 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
7301308 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 65 0.61
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:7301327 original size:46 final size:46
Alignment explanation
Indices: 7301138--7301327 Score: 128
Period size: 46 Copynumber: 4.1 Consensus size: 46
7301128 CCCGCCCATA
* * *
7301138 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTC-GGATGCTCAACCATCC-T
*
7301183 GAGTGAACTTGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
7301233 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
7301277 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
7301323 AGTGA
1 AGTGA
7301328 CATGTCACTT
Statistics
Matches: 114, Mismatches: 14, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
44 9 0.08
45 3 0.03
46 62 0.54
47 29 0.25
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:7304652 original size:33 final size:32
Alignment explanation
Indices: 7304615--7304678 Score: 110
Period size: 33 Copynumber: 2.0 Consensus size: 32
7304605 TAAAGAATAA
7304615 TATTTTTATATTAAATTACATTAAAAGATTTTT
1 TATTTTTATATTAAATTACATTAAAA-ATTTTT
*
7304648 TATTTTTATATTAAATTATATTAAAAATTTT
1 TATTTTTATATTAAATTACATTAAAAATTTT
7304679 AAAACATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
TATTTTTATATTAAATTACATTAAAAATTTTT
Found at i:7311116 original size:13 final size:14
Alignment explanation
Indices: 7311098--7311129 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
7311088 ATCGTCCATC
7311098 TCTTTTTAT-TTAT
1 TCTTTTTATATTAT
7311111 TCTTTTTATATTAT
1 TCTTTTTATATTAT
7311125 TCTTT
1 TCTTT
7311130 AATTATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (14 bp):
TCTTTTTATATTAT
Found at i:7324836 original size:29 final size:30
Alignment explanation
Indices: 7324789--7324889 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
7324779 TTTACAAATT
*
7324789 TGCTCAAATGAAG-GTCAAACC-CTTCAAAA
1 TGCTTAAAT-AAGAGTCAAACCTCTTCAAAA
* * * *
7324818 TGGTTAAATATGAGTCAAACCTTTTTAAAA
1 TGCTTAAATAAGAGTCAAACCTCTTCAAAA
* * * *
7324848 TGCTTAAATAAGGGTCAAACATTTTCGAAAG
1 TGCTTAAATAAGAGTCAAACCTCTTC-AAAA
7324879 TGCTTAAATAA
1 TGCTTAAATAA
7324890 AGGATTCTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
28 2 0.03
29 15 0.26
30 27 0.47
31 14 0.24
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (30 bp):
TGCTTAAATAAGAGTCAAACCTCTTCAAAA
Found at i:7324855 original size:30 final size:31
Alignment explanation
Indices: 7324814--7324889 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
7324804 CAAACCCTTC
* * * *
7324814 AAAATGGTTAAATATGAGTCAAACCTTTT-T
1 AAAATGCTTAAATAAGAGTCAAACATTTTCG
*
7324844 AAAATGCTTAAATAAGGGTCAAACATTTTCG
1 AAAATGCTTAAATAAGAGTCAAACATTTTCG
*
7324875 AAAGTGCTTAAATAA
1 AAAATGCTTAAATAA
7324890 AGGATTCTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 25 0.64
31 14 0.36
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (31 bp):
AAAATGCTTAAATAAGAGTCAAACATTTTCG
Found at i:7327368 original size:18 final size:18
Alignment explanation
Indices: 7327340--7327385 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
7327330 AGTGAAATTT
* *
7327340 ATATGAAAATCCCTGAATG
1 ATAT-AAAATCCCAGAAGG
*
7327359 ATTTAAAATCCCAGAAGG
1 ATATAAAATCCCAGAAGG
7327377 ATATAAAAT
1 ATATAAAAT
7327386 TTTTCGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGG
Found at i:7329830 original size:18 final size:18
Alignment explanation
Indices: 7329809--7329848 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7329799 GAAATATTTA
*
7329809 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
7329827 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
7329845 TTTT
1 TTTT
7329849 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:7329880 original size:12 final size:12
Alignment explanation
Indices: 7329850--7329882 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
7329840 TATATTTTTT
7329850 AAAATT-ATATA
1 AAAATTAATATA
7329861 AAAA-TAATATA
1 AAAATTAATATA
7329872 AAAATTAATAT
1 AAAATTAATAT
7329883 GGGCGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:7337544 original size:12 final size:12
Alignment explanation
Indices: 7337514--7337555 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
7337504 TCATAGAGTT
*
7337514 ACACGGATGAGG
1 ACACGGGTGAGG
7337526 ACACGGGTGAGG
1 ACACGGGTGAGG
*
7337538 GCACGGGCTGA-G
1 ACACGGG-TGAGG
7337550 ACACGG
1 ACACGG
7337556 TAATGTGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 23 0.88
13 3 0.12
ACGTcount: A:0.26, C:0.21, G:0.45, T:0.07
Consensus pattern (12 bp):
ACACGGGTGAGG
Found at i:7343850 original size:21 final size:21
Alignment explanation
Indices: 7343825--7343864 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7343815 CGGCACAGGT
7343825 GGAGGGGAAGGGGGAGGAGGA
1 GGAGGGGAAGGGGGAGGAGGA
* *
7343846 GGAGGGGGAGGTGGAGGAG
1 GGAGGGGAAGGGGGAGGAG
7343865 CTGGAGGAGG
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:0.25, C:0.00, G:0.72, T:0.03
Consensus pattern (21 bp):
GGAGGGGAAGGGGGAGGAGGA
Found at i:7343851 original size:15 final size:15
Alignment explanation
Indices: 7343833--7343874 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
7343823 GTGGAGGGGA
7343833 AGGGGGAGGAGGAGG
1 AGGGGGAGGAGGAGG
*
7343848 AGGGGGAGGTGGAGG
1 AGGGGGAGGAGGAGG
**
7343863 AGCTGGAGGAGG
1 AGGGGGAGGAGG
7343875 GGGAAGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.69, T:0.05
Consensus pattern (15 bp):
AGGGGGAGGAGGAGG
Found at i:7343870 original size:21 final size:21
Alignment explanation
Indices: 7343824--7343871 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7343814 GCGGCACAGG
*
7343824 TGGAGGGGAAGGGGGAGGAGG
1 TGGAGGGGAAGGGGGAGGAGC
* * *
7343845 AGGAGGGGGAGGTGGAGGAGC
1 TGGAGGGGAAGGGGGAGGAGC
7343866 TGGAGG
1 TGGAGG
7343872 AGGGGGAAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.02, G:0.69, T:0.06
Consensus pattern (21 bp):
TGGAGGGGAAGGGGGAGGAGC
Found at i:7347376 original size:37 final size:37
Alignment explanation
Indices: 7347326--7347402 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
7347316 ACTTCACTGG
*
7347326 TTATGTTTCCTTGCTATGTGAAACCTTTTCCATCATT
1 TTATGTCTCCTTGCTATGTGAAACCTTTTCCATCATT
*
7347363 TTATGTCTCCTTGCTATGTGAAACCTTTTTCATCATT
1 TTATGTCTCCTTGCTATGTGAAACCTTTTCCATCATT
7347400 TTA
1 TTA
7347403 ACTTTCGGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.49
Consensus pattern (37 bp):
TTATGTCTCCTTGCTATGTGAAACCTTTTCCATCATT
Found at i:7348995 original size:14 final size:14
Alignment explanation
Indices: 7348976--7349006 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7348966 ACCTATGCAA
7348976 TTTGGTTAATTTGG
1 TTTGGTTAATTTGG
*
7348990 TTTGGTTAGTTTGG
1 TTTGGTTAATTTGG
7349004 TTT
1 TTT
7349007 TAATGTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.29, T:0.61
Consensus pattern (14 bp):
TTTGGTTAATTTGG
Found at i:7350462 original size:17 final size:17
Alignment explanation
Indices: 7350440--7350483 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
7350430 GATTTCTAAA
7350440 TCTTTTTAGTTATTTCT
1 TCTTTTTAGTTATTTCT
* *
7350457 TCTTTTTTGTTCTTTCT
1 TCTTTTTAGTTATTTCT
* *
7350474 ACATTTTAGT
1 TCTTTTTAGT
7350484 AAGTATTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.07, T:0.68
Consensus pattern (17 bp):
TCTTTTTAGTTATTTCT
Found at i:7353816 original size:198 final size:198
Alignment explanation
Indices: 7353478--7353858 Score: 735
Period size: 198 Copynumber: 1.9 Consensus size: 198
7353468 TTATTAGAAG
*
7353478 CACCTAATTGGTTACTAAAAAATTCCCCACCATTGTCACTCCGAAGTACTTCTATTCTCACACCA
1 CACCTAATTGGTGACTAAAAAATTCCCCACCATTGTCACTCCGAAGTACTTCTATTCTCACACCA
7353543 AATTGTGTTTTCACCATAGCATAAATAGACTAAAACACATTTTTAACTTCAGACTTATTTTTTAA
66 AATTGTGTTTTCACCATAGCATAAATAGACTAAAACACATTTTTAACTTCAGACTTATTTTTTAA
*
7353608 TAAAAACACCCAGCAAATGTGAGTATGATCATCAATAAATGTCACAAACCAACATTTGGTTAATA
131 TAAAAACACCCAACAAATGTGAGTATGATCATCAATAAATGTCACAAACCAACATTTGGTTAATA
7353673 AAA
196 AAA
*
7353676 CACCTAATTGGTGACTAAAAAATTCCCCATCATTGTCACTCCGAAGTACTTCTATTCTCACACCA
1 CACCTAATTGGTGACTAAAAAATTCCCCACCATTGTCACTCCGAAGTACTTCTATTCTCACACCA
7353741 AATTGTGTTTTCACCATAGCATAAATAGACTAAAACACATTTTTAACTTCAGACTTATTTTTTAA
66 AATTGTGTTTTCACCATAGCATAAATAGACTAAAACACATTTTTAACTTCAGACTTATTTTTTAA
7353806 TAAAAACACCCAACAAATGTGAGTATGATCATCAATAAATGTCACAAACCAAC
131 TAAAAACACCCAACAAATGTGAGTATGATCATCAATAAATGTCACAAACCAAC
7353859 GTTTTCTTGA
Statistics
Matches: 180, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
198 180 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.30
Consensus pattern (198 bp):
CACCTAATTGGTGACTAAAAAATTCCCCACCATTGTCACTCCGAAGTACTTCTATTCTCACACCA
AATTGTGTTTTCACCATAGCATAAATAGACTAAAACACATTTTTAACTTCAGACTTATTTTTTAA
TAAAAACACCCAACAAATGTGAGTATGATCATCAATAAATGTCACAAACCAACATTTGGTTAATA
AAA
Found at i:7366546 original size:15 final size:15
Alignment explanation
Indices: 7366523--7366563 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
7366513 AAGAAAAGCT
*
7366523 ATAATAATAATAGTA
1 ATAATAATAAAAGTA
*
7366538 ATTATAATAAAAGTA
1 ATAATAATAAAAGTA
7366553 ATAATAATAAA
1 ATAATAATAAA
7366564 TATAACAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
ATAATAATAAAAGTA
Found at i:7366554 original size:24 final size:24
Alignment explanation
Indices: 7366527--7366584 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
7366517 AAAGCTATAA
* *
7366527 TAATAATAGTAATTATAATAAAAG
1 TAATAATAGTAAATATAACAAAAG
* *
7366551 TAATAATAATAAATATAACAATAG
1 TAATAATAGTAAATATAACAAAAG
*
7366575 TAATATTAGT
1 TAATAATAGT
7366585 GATAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (24 bp):
TAATAATAGTAAATATAACAAAAG
Found at i:7366800 original size:3 final size:3
Alignment explanation
Indices: 7366787--7366904 Score: 62
Period size: 3 Copynumber: 37.0 Consensus size: 3
7366777 AGGAAAGTGT
* * *
7366787 ATA AT- ATA ATA ATA ATA ATA TTA A-A ATA AGGTA ATTA AAA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA A-TA ATA ATA ATA
* * *
7366833 ATA TATA TATA TATGC ATA TATA ATA AAA AT- ATA CACTA ATA TTA ATA
1 ATA -ATA -ATA -AT-A ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA ATA
*
7366881 ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
7366905 TTGAAATCCA
Statistics
Matches: 90, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
2 6 0.07
3 59 0.66
4 20 0.22
5 5 0.06
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7367040 original size:43 final size:43
Alignment explanation
Indices: 7366992--7367189 Score: 111
Period size: 45 Copynumber: 4.4 Consensus size: 43
7366982 ACATACACAT
*
7366992 ATAATAAAAATACACACTAATATTAATAATAATGATAATAGTA
1 ATAATAAAAATACAAACTAATATTAATAATAATGATAATAGTA
* * * *
7367035 ATAATATTAAAATACAAAAACAAATA-TAAT-ATAATAAAAATATTA
1 ATAATA--AAAATAC--AAACTAATATTAATAATAATGATAATAGTA
* * *
7367080 A-AATAAACTAA-A-AAACTATGTATAAATATATATACAT-ATACATACATA
1 ATAATAAA--AATACAAACTA-ATAT-TA-ATA-ATA-ATGATA-ATA-GTA
* * *
7367128 TATAATAAAAATATACACTAATATTAATAATAATGACAATAGTA
1 -ATAATAAAAATACAAACTAATATTAATAATAATGATAATAGTA
7367172 ATAATATTAAAATACAAA
1 ATAATA--AAAATACAAA
7367190 AACAAATATA
Statistics
Matches: 116, Mismatches: 17, Indels: 42
0.66 0.10 0.24
Matches are distributed among these distances:
40 5 0.04
41 2 0.02
42 2 0.02
43 14 0.12
44 10 0.09
45 33 0.28
46 14 0.12
47 15 0.13
48 5 0.04
49 5 0.04
50 11 0.09
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.30
Consensus pattern (43 bp):
ATAATAAAAATACAAACTAATATTAATAATAATGATAATAGTA
Found at i:7367144 original size:23 final size:22
Alignment explanation
Indices: 7367115--7367157 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
7367105 ATATATATAC
7367115 ATATACA-TACATATATAATAAAA
1 ATATACACTA-ATAT-TAATAAAA
7367138 ATATACACTAATATTAATAA
1 ATATACACTAATATTAATAA
7367158 TAATGACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 11 0.58
24 2 0.11
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATACACTAATATTAATAAAA
Found at i:7367153 original size:137 final size:136
Alignment explanation
Indices: 7366833--7367304 Score: 593
Period size: 137 Copynumber: 3.4 Consensus size: 136
7366823 AAAAATACTA
* * *
7366833 ATATATATATATATGCATATATAATAAAAATATACACTAATATTAATAATAATAATAATAATAGT
1 ATATACATATACATACATATATAATAAAAATATACACTAATA-T--TAATAATAATAATAATAGT
* * * *
7366898 AATAATATTGAAATCCAAAAAGCAAATATAA-A-AATATTAAAATA--AAGTAATAAAGAATAAT
63 AATAATATTAAAATACAAAAA-CAAATATAATATAATA--AAAATATTAA--AATAAATAA-AAA
7366959 ACTATATAT-AA-AT
122 ACTATATATAAATAT
* * *
7366972 ATATACATATACATACACATATAATAAAAATACACACTAATATTAATAATAATGATAATAGTAAT
1 ATATACATATACATACATATATAATAAAAATATACACTAATATTAATAATAATAATAATAGTAAT
*
7367037 AATATTAAAATACAAAAACAAATATAATATAATAAAAATATTAAAATAAACTAAAAAACTATGTA
66 AATATTAAAATACAAAAACAAATATAATATAATAAAAATATTAAAATAAA-TAAAAAACTATATA
7367102 TAAATAT
130 TAAATAT
* *
7367109 ATATACATATACATACATATATAATAAAAATATACACTAATATTAATAATAATGACAATAGTAAT
1 ATATACATATACATACATATATAATAAAAATATACACTAATATTAATAATAATAATAATAGTAAT
*
7367174 AATATTAAAATACAAAAACAAATATAATATAATAAAAATATTAAAATAAAGTAAATAAA--AAAT
66 AATATTAAAATACAAAAACAAATATAATATAATAAAAATATTAAAATAAA-TAAA-AAACTATAT
**
7367237 ACTATGTAT
129 A-TAAATAT
* * *
7367246 AAATATATATACATACATATATAAT-AAAACATACACTAATATTAATAATAATAATAATA
1 ATATACATATACATACATATATAATAAAAATATACACTAATATTAATAATAATAATAATA
7367305 CTAGAAATAA
Statistics
Matches: 300, Mismatches: 24, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
135 31 0.10
136 76 0.25
137 152 0.51
138 4 0.01
139 37 0.12
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.31
Consensus pattern (136 bp):
ATATACATATACATACATATATAATAAAAATATACACTAATATTAATAATAATAATAATAGTAAT
AATATTAAAATACAAAAACAAATATAATATAATAAAAATATTAAAATAAATAAAAAACTATATAT
AAATAT
Found at i:7367296 original size:3 final size:3
Alignment explanation
Indices: 7367282--7367493 Score: 139
Period size: 3 Copynumber: 70.7 Consensus size: 3
7367272 AAACATACAC
* * *
7367282 TAA TAT TAA TAA TAA TAA TAA TAC TAGA -AA TAA TAA TAA CTAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA
* ** * * *
7367328 TAA TAA TACA TTAA GAA TAA TAA T-A TGT TAA TAA AAA TAG TAG TAA
1 TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *** *
7367374 TGAA -AA TAA TAC TAA CGG TAA TAA TAA TAA TAA TAC TAA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
7367419 TAA TAA TAA TAA TAA TAGA -AA TAA -AA TAA TAA TAT TAT TAT TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
7367463 TAT TAA TAA TAT TAA -AA AAA TAA TAA GAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7367494 TTTAATAAAG
Statistics
Matches: 163, Mismatches: 34, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
2 10 0.06
3 144 0.88
4 7 0.04
5 2 0.01
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7369343 original size:15 final size:15
Alignment explanation
Indices: 7369323--7369353 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7369313 ATGAGGCGGC
7369323 ATATATAAATATTAT
1 ATATATAAATATTAT
*
7369338 ATATATAATTATTAT
1 ATATATAAATATTAT
7369353 A
1 A
7369354 ATTATTAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATAAATATTAT
Found at i:7369360 original size:3 final size:3
Alignment explanation
Indices: 7369332--7369399 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
7369322 CATATATAAA
* * * * **
7369332 TAT TA- TAT ATAT AAT TAT TAT AAT TAT TAAC CAT TAT TAT GGT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
7369377 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
7369400 AATAAAGTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
2 4 0.08
3 42 0.84
4 4 0.08
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:7370702 original size:17 final size:17
Alignment explanation
Indices: 7370676--7370728 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
7370666 TTGGAAGGAT
7370676 ATTG-AATGG-ATTGTAA
1 ATTGAAATGGAATTG-AA
7370692 ATTGAAATGGAATTGAA
1 ATTGAAATGGAATTGAA
* * *
7370709 ATTGATATGAAAATGAA
1 ATTGAAATGGAATTGAA
7370726 ATT
1 ATT
7370729 AAAAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 4 0.12
17 24 0.75
18 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (17 bp):
ATTGAAATGGAATTGAA
Found at i:7370927 original size:28 final size:28
Alignment explanation
Indices: 7370874--7370957 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
7370864 CACTCTGTGC
7370874 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
7370903 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* * * *
7370931 GATACTGATGTGTTTTAGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
7370958 CTAGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 31 0.63
29 18 0.37
ACGTcount: A:0.21, C:0.04, G:0.29, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:7374578 original size:14 final size:15
Alignment explanation
Indices: 7374561--7374595 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
7374551 ATTTAAGTTA
7374561 ATTATTTTAGTAT-T
1 ATTATTTTAGTATCT
7374575 ATTATTTTAGTATCT
1 ATTATTTTAGTATCT
7374590 ATTATT
1 ATTATT
7374596 AATGTCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (15 bp):
ATTATTTTAGTATCT
Found at i:7375594 original size:24 final size:25
Alignment explanation
Indices: 7375566--7375630 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
7375556 TTTATATATA
7375566 TATTATTATGTATATATACTC-TAGC
1 TATTATTATGTATATATACTCTTA-C
* *
7375591 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
7375615 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
7375631 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 22 0.67
25 8 0.24
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:7382307 original size:5 final size:5
Alignment explanation
Indices: 7382297--7382338 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
7382287 TGATACAAAA
7382297 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
7382339 CGTTTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:7383537 original size:3 final size:3
Alignment explanation
Indices: 7383531--7383561 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7383521 ACAATTTTCC
*
7383531 CTT CTT CTT CTT TTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
7383562 CTCCGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:7383933 original size:13 final size:13
Alignment explanation
Indices: 7383889--7383949 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
7383879 AGGAAAGAAG
7383889 TTTAAAAGTTAAAAT
1 TTTAAAA-TT-AAAT
* *
7383904 TGTTATAA-TAAAA
1 T-TTAAAATTAAAT
7383917 TTTAAAATTAAAT
1 TTTAAAATTAAAT
* *
7383930 TTTAAAAATAAAG
1 TTTAAAATTAAAT
7383943 TTTAAAA
1 TTTAAAA
7383950 CAATTTTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 5 0.13
13 26 0.68
14 1 0.03
15 1 0.03
16 5 0.13
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (13 bp):
TTTAAAATTAAAT
Found at i:7383937 original size:14 final size:13
Alignment explanation
Indices: 7383910--7383949 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
7383900 AAATTGTTAT
*
7383910 AATAAAATTTAAA
1 AATAAAGTTTAAA
* *
7383923 ATTAAATTTTAAA
1 AATAAAGTTTAAA
7383936 AATAAAGTTTAAA
1 AATAAAGTTTAAA
7383949 A
1 A
7383950 CAATTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
AATAAAGTTTAAA
Found at i:7385703 original size:17 final size:18
Alignment explanation
Indices: 7385668--7385710 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7385658 AACATATATA
*
7385668 TAAAGTGTATAATAAAAT
1 TAAAATGTATAATAAAAT
7385686 TAAAATGTATAA-AAAAT
1 TAAAATGTATAATAAAAT
7385703 TCAAAATG
1 T-AAAATG
7385711 AAGTTTTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (18 bp):
TAAAATGTATAATAAAAT
Found at i:7389360 original size:14 final size:14
Alignment explanation
Indices: 7389341--7389371 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7389331 AGCTTGGCAA
7389341 TTGGGAACTATTTG
1 TTGGGAACTATTTG
7389355 TTGGGAACTATTTG
1 TTGGGAACTATTTG
7389369 TTG
1 TTG
7389372 TTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGAACTATTTG
Found at i:7389651 original size:12 final size:12
Alignment explanation
Indices: 7389631--7389660 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7389621 TATGGTTAAT
*
7389631 TTCTTTAGCAGC
1 TTCTGTAGCAGC
7389643 TTCTGTAGCAGC
1 TTCTGTAGCAGC
7389655 TTCTGT
1 TTCTGT
7389661 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:7390307 original size:91 final size:91
Alignment explanation
Indices: 7390175--7390382 Score: 274
Period size: 91 Copynumber: 2.3 Consensus size: 91
7390165 TTGATTTTAG
* *
7390175 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
7390240 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
7390267 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
7390332 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
7390358 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
7390383 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 83 0.81
92 19 0.19
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:7390431 original size:16 final size:17
Alignment explanation
Indices: 7390412--7390443 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7390402 TTATTAAATC
7390412 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
7390428 ATATATTTAATATTAA
1 ATATATTTAATATTAA
7390444 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:7390507 original size:66 final size:63
Alignment explanation
Indices: 7390436--7390648 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
7390426 AAATATATTT
7390436 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
7390500 AG
62 AG
* * * * * * *
7390502 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
7390562 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
7390622 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
7390649 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:7390522 original size:120 final size:120
Alignment explanation
Indices: 7390398--7390690 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
7390388 AATTATTTTA
* * *
7390398 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
7390461 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
7390518 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
7390583 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
7390638 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
7390691 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:7390550 original size:18 final size:17
Alignment explanation
Indices: 7390519--7390553 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7390509 ATTATTAAGA
7390519 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
7390536 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
7390554 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:7390667 original size:18 final size:17
Alignment explanation
Indices: 7390639--7390673 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7390629 ATTATTAAGA
*
7390639 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7390656 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7390674 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7390787 original size:147 final size:149
Alignment explanation
Indices: 7390627--7390901 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
7390617 ATAAGAATAT
*
7390627 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
7390692 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
7390755 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
7390774 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
7390839 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
7390902 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:7390814 original size:18 final size:17
Alignment explanation
Indices: 7390786--7390820 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7390776 ATTATTAAGA
*
7390786 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7390803 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7390821 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7391031 original size:44 final size:44
Alignment explanation
Indices: 7390982--7391159 Score: 170
Period size: 44 Copynumber: 4.1 Consensus size: 44
7390972 TTACACCTCT
*
7390982 ATTACATTCAACCAAACACAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGTTTTACTATTACACCTCTATTCC
***** * * *
7391026 ATTACATTCAAGTTTTCTCCA-TTATGCTATTACACCTC---T--
1 ATTACATTCAACCAAAC-ACAGTTTTACTATTACACCTCTATTCC
*
7391065 ATTACATTCAACCAAACACAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGTTTTACTATTACACCTCTATTCC
** * *
7391109 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACA-CAGTTTTACTATTACACCTCTATTCC
7391154 ATTACA
1 ATTACA
7391160 CCTTTAATCC
Statistics
Matches: 103, Mismatches: 23, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
38 2 0.02
39 26 0.25
41 1 0.01
42 1 0.01
44 44 0.43
45 29 0.28
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.37
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGTTTTACTATTACACCTCTATTCC
Found at i:7391048 original size:83 final size:83
Alignment explanation
Indices: 7390953--7391119 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
7390943 TGGTCATTTT
*
7390953 AGTTTTTTCCATTATGCTATTACACCTCTATTACATTCAACCAAACACAGTTTTACTATTACGCC
1 AGTTTTCTCCATTATGCTATTACACCTCTATTACATTCAACCAAACACAGTTTTACTATTACGCC
7391018 TCTATTCCATTACATTCA
66 TCTATTCCATTACATTCA
7391036 AGTTTTCTCCATTATGCTATTACACCTCTATTACATTCAACCAAACACAGTTTTACTATTACGCC
1 AGTTTTCTCCATTATGCTATTACACCTCTATTACATTCAACCAAACACAGTTTTACTATTACGCC
7391101 TCTATTCCATTACATTCA
66 TCTATTCCATTACATTCA
7391119 A
1 A
7391120 CCAAACAGTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (83 bp):
AGTTTTCTCCATTATGCTATTACACCTCTATTACATTCAACCAAACACAGTTTTACTATTACGCC
TCTATTCCATTACATTCA
Found at i:7391159 original size:16 final size:16
Alignment explanation
Indices: 7391140--7391207 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
7391130 GATTTGCTAT
* *
7391140 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
7391156 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
7391172 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7391188 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7391204 TACA
1 TACA
7391208 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7391764 original size:26 final size:24
Alignment explanation
Indices: 7391725--7391774 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
7391715 CATTAAAAAA
*
7391725 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
7391751 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
7391775 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:7392305 original size:5 final size:5
Alignment explanation
Indices: 7392295--7392327 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
7392285 ACAATTTTTT
*
7392295 AAAA- AAAAA AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
7392328 CAAATCTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:7398101 original size:112 final size:112
Alignment explanation
Indices: 7397859--7398084 Score: 452
Period size: 112 Copynumber: 2.0 Consensus size: 112
7397849 ATCCAATCAG
7397859 AACAGAACTCTTCAATATTTGGAAACAAAATAGGTTTGAGTAGAAAAAAGAAAAAAATATTTAAA
1 AACAGAACTCTTCAATATTTGGAAACAAAATAGGTTTGAGTAGAAAAAAGAAAAAAATATTTAAA
7397924 ATATGGGTTGGCCTAACTTGTTTTGCAAGTTTCTGATAACAAAAAGA
66 ATATGGGTTGGCCTAACTTGTTTTGCAAGTTTCTGATAACAAAAAGA
7397971 AACAGAACTCTTCAATATTTGGAAACAAAATAGGTTTGAGTAGAAAAAAGAAAAAAATATTTAAA
1 AACAGAACTCTTCAATATTTGGAAACAAAATAGGTTTGAGTAGAAAAAAGAAAAAAATATTTAAA
7398036 ATATGGGTTGGCCTAACTTGTTTTGCAAGTTTCTGATAACAAAAAGA
66 ATATGGGTTGGCCTAACTTGTTTTGCAAGTTTCTGATAACAAAAAGA
7398083 AA
1 AA
7398085 TGATCTCTTT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (112 bp):
AACAGAACTCTTCAATATTTGGAAACAAAATAGGTTTGAGTAGAAAAAAGAAAAAAATATTTAAA
ATATGGGTTGGCCTAACTTGTTTTGCAAGTTTCTGATAACAAAAAGA
Found at i:7408987 original size:26 final size:26
Alignment explanation
Indices: 7408888--7408994 Score: 124
Period size: 26 Copynumber: 4.1 Consensus size: 26
7408878 ATTCTTGTGA
* * * *
7408888 ACTCATGCTTGGAATAGTGCTTGTGG
1 ACTCATACATGGAATAGTCCTTGCGG
* * *
7408914 ACTCATACATGGAATAATCCTCGTGG
1 ACTCATACATGGAATAGTCCTTGCGG
*
7408940 AATCATACATGGAATAGTCCTTGCGG
1 ACTCATACATGGAATAGTCCTTGCGG
* *
7408966 ACTCATACAGGGAATAGTCCTTGCAG
1 ACTCATACATGGAATAGTCCTTGCGG
7408992 ACT
1 ACT
7408995 TTTGCTTAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
ACTCATACATGGAATAGTCCTTGCGG
Found at i:7414337 original size:39 final size:39
Alignment explanation
Indices: 7414294--7414370 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
7414284 CACAGAAGGG
7414294 TTAAGAACCTTACCTGCTTGCTAGTTTCCCTACTTTTTA
1 TTAAGAACCTTACCTGCTTGCTAGTTTCCCTACTTTTTA
* *
7414333 TTAAGAACCTTACCTGTTTGCTAGTTTTCCTACTTTTT
1 TTAAGAACCTTACCTGCTTGCTAGTTTCCCTACTTTTT
7414371 TTTATCTCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.47
Consensus pattern (39 bp):
TTAAGAACCTTACCTGCTTGCTAGTTTCCCTACTTTTTA
Found at i:7418601 original size:12 final size:12
Alignment explanation
Indices: 7418584--7418608 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7418574 CATAAGACTT
7418584 CCAACTTTGAAG
1 CCAACTTTGAAG
7418596 CCAACTTTGAAG
1 CCAACTTTGAAG
7418608 C
1 C
7418609 ATATGGAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (12 bp):
CCAACTTTGAAG
Found at i:7424824 original size:23 final size:23
Alignment explanation
Indices: 7424781--7424824 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
7424771 AATGGTGACC
*
7424781 AGGAGATAAAATATAATCTAATT
1 AGGAGATAAAATATAACCTAATT
*
7424804 AGGAGAATAAATTA-AACCTAA
1 AGGAG-ATAAAATATAACCTAA
7424825 ATAGATCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.25
Consensus pattern (23 bp):
AGGAGATAAAATATAACCTAATT
Found at i:7442179 original size:20 final size:20
Alignment explanation
Indices: 7442156--7442231 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
7442146 TAAATTTTAA
* *
7442156 TTCATTCATATAACCAGTAG
1 TTCATCCATATAAACAGTAG
* *
7442176 TTCATCCGTATAAATAGTAG
1 TTCATCCATATAAACAGTAG
* *
7442196 TTCAT-CAGTA-ATAAGAGTAA
1 TTCATCCA-TATA-AACAGTAG
7442216 TTCATCCATATAAACA
1 TTCATCCATATAAACA
7442232 CATATATTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
19 2 0.05
20 39 0.89
21 3 0.07
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (20 bp):
TTCATCCATATAAACAGTAG
Found at i:7442458 original size:23 final size:23
Alignment explanation
Indices: 7442405--7442459 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
7442395 GATAAACAGT
7442405 TGAGCTG-AACGGTAAGCTCATA
1 TGAGCTGAAACGGTAAGCTCATA
* *
7442427 CGAGTTGAAACGGTAAGCTCCA-A
1 TGAGCTGAAACGGTAAGCT-CATA
7442450 TGAGCTGAAA
1 TGAGCTGAAA
7442460 AATAATAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 5 0.19
23 20 0.74
24 2 0.07
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (23 bp):
TGAGCTGAAACGGTAAGCTCATA
Found at i:7442757 original size:35 final size:36
Alignment explanation
Indices: 7442695--7442765 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
7442685 AGTACATACA
* *
7442695 TTTAAATATTCAATTTGCACACCTAATGCATATTAT
1 TTTAAATACTCAATTCGCACACCTAATGCATATTAT
*
7442731 TTTAAATACTC-ATTCGCATACCTAATGCATATTAT
1 TTTAAATACTCAATTCGCACACCTAATGCATATTAT
7442766 CATACCGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 22 0.69
36 10 0.31
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (36 bp):
TTTAAATACTCAATTCGCACACCTAATGCATATTAT
Found at i:7448078 original size:17 final size:17
Alignment explanation
Indices: 7448056--7448090 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7448046 AAATACGGAA
7448056 AATAAGCACAGTAAGCT
1 AATAAGCACAGTAAGCT
**
7448073 AATAAGCTTAGTAAGCT
1 AATAAGCACAGTAAGCT
7448090 A
1 A
7448091 GTATGACTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (17 bp):
AATAAGCACAGTAAGCT
Found at i:7448611 original size:20 final size:19
Alignment explanation
Indices: 7448588--7448685 Score: 79
Period size: 20 Copynumber: 4.9 Consensus size: 19
7448578 AATACATTCA
* *
7448588 TATAACCAGTAGTTCATCTG
1 TATAA-CAGTAATTCATCAG
* **
7448608 TATAAATAGTAGCTCATCAG
1 TAT-AACAGTAATTCATCAG
* *
7448628 TAATAATAGTAATTCATCCG
1 T-ATAACAGTAATTCATCAG
*
7448648 TATTAACAGTAATTCATCAA
1 TA-TAACAGTAATTCATCAG
7448668 TATTAACAGTAATTCATC
1 TA-TAACAGTAATTCATC
7448686 CATATAAACA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 61 0.92
21 4 0.06
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (19 bp):
TATAACAGTAATTCATCAG
Found at i:7448644 original size:40 final size:40
Alignment explanation
Indices: 7448589--7448695 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
7448579 ATACATTCAT
* * * * *
7448589 ATAACCAGTAGTTCATCTGTATAAATAGTAGCTCATCAGTA
1 ATAA-CAGTAATTCATCCGTATAAACAGTAACTCATCAATA
* * *
7448630 ATAATAGTAATTCATCCGTATTAACAGTAATTCATCAATA
1 ATAACAGTAATTCATCCGTATAAACAGTAACTCATCAATA
* *
7448670 TTAACAGTAATTCATCCATATAAACA
1 ATAACAGTAATTCATCCGTATAAACA
7448696 CATATCTTAT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
40 50 0.93
41 4 0.07
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (40 bp):
ATAACAGTAATTCATCCGTATAAACAGTAACTCATCAATA
Found at i:7448690 original size:20 final size:20
Alignment explanation
Indices: 7448635--7448695 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
7448625 CAGTAATAAT
*
7448635 AGTAATTCATCCGTATTAAC
1 AGTAATTCATCCATATTAAC
*
7448655 AGTAATTCATCAATATTAAC
1 AGTAATTCATCCATATTAAC
*
7448675 AGTAATTCATCCATATAAAC
1 AGTAATTCATCCATATTAAC
7448695 A
1 A
7448696 CATATCTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (20 bp):
AGTAATTCATCCATATTAAC
Found at i:7448908 original size:23 final size:23
Alignment explanation
Indices: 7448862--7448918 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
7448852 CTGAGTTGAT
* *
7448862 AAACAGTAAGCTCTATTGAGCTG
1 AAACAGTAAGCTCTATCGAACTG
* *
7448885 AAACTGTAAGCTTTATCGAACTG
1 AAACAGTAAGCTCTATCGAACTG
*
7448908 -AACAATAAGCT
1 AAACAGTAAGCT
7448919 TATAAGAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (23 bp):
AAACAGTAAGCTCTATCGAACTG
Found at i:7461932 original size:39 final size:39
Alignment explanation
Indices: 7461870--7461970 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
7461860 ATCGTGATCT
* * *
7461870 GAAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAACG
* *
7461909 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAACG
7461948 GAAGCCCGAAAGCTAACTGAAGC
1 GAAGCCCGAAAGCTAACTGAAGC
7461971 TCATCAGAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:7475366 original size:37 final size:37
Alignment explanation
Indices: 7475315--7475404 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
7475305 ATCATTCAGA
*
7475315 ATAACGGTAAGATTTGCTTAG-TTAAGCTCCATTTAGT
1 ATAACGATAAGATTTGC-TAGATTAAGCTCCATTTAGT
* * * *
7475352 ATAACGATATGATTTGCTCGATTGAGCTTCATTTAGT
1 ATAACGATAAGATTTGCTAGATTAAGCTCCATTTAGT
* *
7475389 ATAACAATAGGATTTG
1 ATAACGATAAGATTTG
7475405 GCTCGATAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 2 0.04
37 43 0.96
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (37 bp):
ATAACGATAAGATTTGCTAGATTAAGCTCCATTTAGT
Found at i:7480858 original size:8 final size:8
Alignment explanation
Indices: 7480847--7480900 Score: 58
Period size: 8 Copynumber: 6.6 Consensus size: 8
7480837 TTTAAGAAAT
7480847 TAATATAA
1 TAATATAA
*
7480855 TAATATAT
1 TAATATAA
7480863 TAATATAA
1 TAATATAA
7480871 T-ATA-ATA
1 TAATATA-A
7480878 TAATATAATA
1 TAATAT-A-A
7480888 TAATATAA
1 TAATATAA
7480896 TAATA
1 TAATA
7480901 AAAGAAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 1 0.03
7 5 0.12
8 24 0.60
9 1 0.03
10 9 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAATATAA
Found at i:7480871 original size:5 final size:5
Alignment explanation
Indices: 7480847--7480897 Score: 77
Period size: 5 Copynumber: 10.0 Consensus size: 5
7480837 TTTAAGAAAT
7480847 TAATA TAATA -ATATA TTAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TA-ATA -TAATA TAATA TAATA TAATA TAATA TAATA TAATA
7480898 ATAAAAGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.02
5 38 0.88
6 3 0.07
7 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:7482089 original size:25 final size:25
Alignment explanation
Indices: 7482054--7482109 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
7482044 CTGTACTGGA
*
7482054 AATTGATTGTTATTGATTGATATAT
1 AATTGAATGTTATTGATTGATATAT
7482079 AATTGAATGTTATTGATTGATATAT
1 AATTGAATGTTATTGATTGATATAT
7482104 AATTGA
1 AATTGA
7482110 GCTGAATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (25 bp):
AATTGAATGTTATTGATTGATATAT
Done.