Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 168 of 171
Found at i:49760955 original size:22 final size:21
Alignment explanation
Indices: 49760911--49760957 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
49760901 CGATCTAAGG
*
49760911 AAAAATAAAAGAAACAGATTT
1 AAAAATAAAAGAAACAGAATT
* *
49760932 AAAAATTAAAGAAAGTAGAATT
1 AAAAATAAAAGAAA-CAGAATT
49760954 AAAA
1 AAAA
49760958 GAAATAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.19
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:49761794 original size:19 final size:19
Alignment explanation
Indices: 49761772--49761814 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
49761762 AAATATAAAT
49761772 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
49761791 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
49761810 TAAAT
1 TAAAT
49761815 CTTAACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:49762559 original size:104 final size:103
Alignment explanation
Indices: 49762367--49762562 Score: 227
Period size: 104 Copynumber: 1.9 Consensus size: 103
49762357 ATACATTGGA
* * *
49762367 CCTTTTGACGCGAAATGAAATAACACCCAAACACTCCATCTCGGTTACTCAGCCTAACATGCTCT
1 CCTTTTGACGCGAAATAAAATAACAACCAAACACTCCATCCCGGTTACTCAGCCTAACA-GCTCT
* *
49762432 TAATTTTTTTCTTCACTTTTTTTTTTAGAATGCGTTAGC
65 TAATTTATTTATTCACTTTTTTTTTTAGAATGCGTTAGC
* * * * *
49762471 CCTTTTGACGCGAAGTAAAATGACAACCAAGCACTCCA-CACCGGTTACTCAGTCTAACA-CATT
1 CCTTTTGACGCGAAATAAAATAACAACCAAACACTCCATC-CCGGTTACTCAGCCTAACAGC-TC
*
49762534 TTGAATTTATTTATTTA-TTTCTTTTTTTA
64 TT-AATTTATTTATTCACTTT-TTTTTTTA
49762563 TTCGGGTTAG
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
102 1 0.01
103 7 0.09
104 69 0.90
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (103 bp):
CCTTTTGACGCGAAATAAAATAACAACCAAACACTCCATCCCGGTTACTCAGCCTAACAGCTCTT
AATTTATTTATTCACTTTTTTTTTTAGAATGCGTTAGC
Found at i:49763238 original size:4 final size:4
Alignment explanation
Indices: 49763229--49763273 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
49763219 TTTTGGACAA
* *
49763229 AAAT AAAT AAAT AAAT AAAAT AAGAT AAAA AAAT AAAA AAAT AAA
1 AAAT AAAT AAAT AAAT -AAAT AA-AT AAAT AAAT AAAT AAAT AAA
49763274 AATAATTGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
4 27 0.77
5 8 0.23
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:49763256 original size:18 final size:17
Alignment explanation
Indices: 49763228--49763275 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
49763218 TTTTTGGACA
*
49763228 AAAATAAATAAATAAAT
1 AAAATAAATAAAAAAAT
49763245 AAAATAAGATAAAAAAAT
1 AAAATAA-ATAAAAAAAT
49763263 AAAA-AAATAAAAA
1 AAAATAAATAAAAA
49763276 TAATTGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 7 0.24
17 9 0.31
18 13 0.45
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAAAAAAT
Found at i:49763274 original size:8 final size:8
Alignment explanation
Indices: 49763228--49763275 Score: 60
Period size: 8 Copynumber: 5.6 Consensus size: 8
49763218 TTTTTGGACA
49763228 AAAATAAAT
1 AAAA-AAAT
*
49763237 AAATAAAT
1 AAAAAAAT
49763245 AAAATAAGAT
1 AAAA-AA-AT
49763255 AAAAAAAT
1 AAAAAAAT
49763263 AAAAAAAT
1 AAAAAAAT
49763271 AAAAA
1 AAAAA
49763276 TAATTGGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 22 0.63
9 7 0.20
10 6 0.17
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (8 bp):
AAAAAAAT
Found at i:49764787 original size:15 final size:16
Alignment explanation
Indices: 49764760--49764789 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49764750 TAAGGAAAAA
49764760 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
49764776 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
49764790 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:49765593 original size:19 final size:19
Alignment explanation
Indices: 49765571--49765613 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
49765561 AAATATAAAT
49765571 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
49765590 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
49765609 TAAAT
1 TAAAT
49765614 CATAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:49765630 original size:22 final size:22
Alignment explanation
Indices: 49765615--49765667 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
49765605 ATATTAAATC
*
49765615 ATAATATAAAATATATTTAAAA
1 ATAAAATAAAATATATTTAAAA
**
49765637 ATAAAATAAAATA-AAAT-AAA
1 ATAAAATAAAATATATTTAAAA
49765657 ATAAAATAAAA
1 ATAAAATAAAA
49765668 GCAAGTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 14 0.50
21 2 0.07
22 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAAATAAAATATATTTAAAA
Found at i:49765642 original size:5 final size:5
Alignment explanation
Indices: 49765634--49765667 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
49765624 AATATATTTA
49765634 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
49765668 GCAAGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:49765859 original size:23 final size:24
Alignment explanation
Indices: 49765833--49765877 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
49765823 ATGATTATAC
49765833 TCTAAAAATATAT-ATATTTAATA
1 TCTAAAAATATATCATATTTAATA
* *
49765856 TCTAAAAGTATGTCATATTTAA
1 TCTAAAAATATATCATATTTAA
49765878 GCATTATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (24 bp):
TCTAAAAATATATCATATTTAATA
Found at i:49767715 original size:3 final size:3
Alignment explanation
Indices: 49767707--49767739 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49767697 CCCTTCTAAC
49767707 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
49767740 GTCGCAACTT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:49771870 original size:18 final size:17
Alignment explanation
Indices: 49771827--49771870 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
49771817 TTTTAAAAGG
*
49771827 ATGTAATATTTTATATT
1 ATGTAATTTTTTATATT
* *
49771844 ATATTATTTTTATATATT
1 ATGTAATTTTT-TATATT
49771862 ATGTAATTT
1 ATGTAATTT
49771871 ATAACACATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (17 bp):
ATGTAATTTTTTATATT
Found at i:49776967 original size:273 final size:280
Alignment explanation
Indices: 49776447--49776988 Score: 812
Period size: 273 Copynumber: 2.0 Consensus size: 280
49776437 CCGAATAAGG
* * * *
49776447 AAGAGGAGGGCAAAACCCTAACAACAACCAACGAGCGCGACTCGAACCTAAGCAACAACTGGGAC
1 AAGAGGAAGACAAAACCCTAACAACAACCAACGAGCGCGACTCGAACCCAAGCAACAACTAGGAC
* * **
49776512 GGTGAACACCCTGACTATCAAGCTAACACACGGGGTTCACTATCCTTAACTATATATATATATAT
66 GGTGAACACCCTCACTATCAAGCCAACACACAAGGTTCACTATCCTTAACTATATATATATATAT
49776577 GATTAACATGGTGTTTAGTTTAATTAACTTTAAGTAATCAATCCTTAAGTCCTTTGTTGAATTGA
131 GATTAACATGGTGTTTAGTTTAATTAACTTTAAGTAATCAATCCTTAAGTCCTTTGTTGAATTGA
* *
49776642 CATCCAAGATTATAAATCATTTAGAGTCACATAACAAGTTAGTCCCTGTACTATTTTTAATTATT
196 CATCCAAGATTATAAATCATTTAGAGTCACATAACAAGTTAATCCCTGTACTATTTTTAATAATT
49776707 GATTTAATTCGGTGAATTAT
261 GATTTAATTCGGTGAATTAT
* * *
49776727 AAGAGGAAGACAAAGCCCTAACAACAACCAACGAGCGCGACTCGAACCCAAGCCACATCTAGGAC
1 AAGAGGAAGACAAAACCCTAACAACAACCAACGAGCGCGACTCGAACCCAAGCAACAACTAGGAC
49776792 GGTGAACACCCTCACTATC-AGACCAACACACAAGGTTCACTAT-CTT-A-TATATATATATATA
66 GGTGAACACCCTCACTATCAAG-CCAACACACAAGGTTCACTATCCTTAACTATATATATATATA
* * * *
49776853 T-A-T-ATAT-TTGTTTAGTTTAATTAACTTTAAGTAATTACTCCTTAAGTCCTTTGTTGAATTG
130 TGATTAACATGGTGTTTAGTTTAATTAACTTTAAGTAATCAATCCTTAAGTCCTTTGTTGAATTG
* * * * * *
49776914 TCATCTAAGATTATAAATCATTTATAGTCACGTAACAATTTAATCCTTGTACTATTTTTAATAAT
195 ACATCCAAGATTATAAATCATTTAGAGTCACATAACAAGTTAATCCCTGTACTATTTTTAATAAT
49776979 TGATTTAATT
260 TGATTTAATT
49776989 TAATCATATT
Statistics
Matches: 238, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
273 118 0.50
274 3 0.01
275 1 0.00
276 1 0.00
277 15 0.06
278 1 0.00
279 5 0.02
280 94 0.39
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (280 bp):
AAGAGGAAGACAAAACCCTAACAACAACCAACGAGCGCGACTCGAACCCAAGCAACAACTAGGAC
GGTGAACACCCTCACTATCAAGCCAACACACAAGGTTCACTATCCTTAACTATATATATATATAT
GATTAACATGGTGTTTAGTTTAATTAACTTTAAGTAATCAATCCTTAAGTCCTTTGTTGAATTGA
CATCCAAGATTATAAATCATTTAGAGTCACATAACAAGTTAATCCCTGTACTATTTTTAATAATT
GATTTAATTCGGTGAATTAT
Found at i:49778977 original size:16 final size:16
Alignment explanation
Indices: 49778948--49778988 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
49778938 TCAAGCTTTT
*
49778948 TTATTTTTA-ATT-AA
1 TTATTTTTATTTTAAA
49778962 TTAATTTTTATTTTAAA
1 TT-ATTTTTATTTTAAA
49778979 TTATTTTTAT
1 TTATTTTTAT
49778989 AAGCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 7 0.30
16 10 0.43
17 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTTTTATTTTAAA
Found at i:49780769 original size:41 final size:41
Alignment explanation
Indices: 49780712--49780822 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 41
49780702 TTCCACATGA
* *
49780712 AAGCACTTTTCCTTGAATGAGACAAAAACGCCTTCACGTGG
1 AAGCATTTTTCCTTGAATGAGACAAAAACGCCTTCACGTAG
* * *
49780753 AAGCATTTTTTCTTGAATGAGGCAAAAAGGCCTTCACGTAG
1 AAGCATTTTTCCTTGAATGAGACAAAAACGCCTTCACGTAG
* *
49780794 AAGCGTTTTTCCTTGACTGAGACAAAAAC
1 AAGCATTTTTCCTTGAATGAGACAAAAAC
49780823 ACGTTAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (41 bp):
AAGCATTTTTCCTTGAATGAGACAAAAACGCCTTCACGTAG
Found at i:49788415 original size:5 final size:5
Alignment explanation
Indices: 49788405--49788442 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
49788395 AATTTAGTAC
49788405 TTTAA TTTAA TTTAA TTTTAA TGTTAA -TTAA TTTAA TT
1 TTTAA TTTAA TTTAA -TTTAA T-TTAA TTTAA TTTAA TT
49788443 AAATAATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.13
5 17 0.57
6 9 0.30
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
TTTAA
Found at i:49789761 original size:31 final size:31
Alignment explanation
Indices: 49789723--49789793 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
49789713 TTTAGTTTGT
* *
49789723 GTACCAAATTGAACAATGAAAC-AAA-ACTCAA
1 GTACCAAATTAAACAATAAAACTAAATA-T-AA
*
49789754 GTACCAAATTAAACATTAAAACTAAATATAA
1 GTACCAAATTAAACAATAAAACTAAATATAA
49789785 GTACCAAAT
1 GTACCAAAT
49789794 GGAATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 30 0.86
32 4 0.11
33 1 0.03
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (31 bp):
GTACCAAATTAAACAATAAAACTAAATATAA
Found at i:49793921 original size:16 final size:16
Alignment explanation
Indices: 49793900--49793931 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49793890 TACCTGTGAA
49793900 AAATAATAAAATAAAT
1 AAATAATAAAATAAAT
*
49793916 AAATAATACAATAAAT
1 AAATAATAAAATAAAT
49793932 TAAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATAATAAAATAAAT
Found at i:49793928 original size:21 final size:21
Alignment explanation
Indices: 49793904--49793943 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49793894 TGTGAAAAAT
*
49793904 AATAAAATAAATAAATAATAC
1 AATAAAATAAAAAAATAATAC
*
49793925 AATAAATTAAAAAAATAAT
1 AATAAAATAAAAAAATAAT
49793944 TCTTAATCTA
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:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAAATAAAAAAATAATAC
Found at i:49794009 original size:22 final size:23
Alignment explanation
Indices: 49793981--49794026 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
49793971 AATTGGAACC
*
49793981 TTTTGAA-ACCTCAATAGAAAAA
1 TTTTGAATAACTCAATAGAAAAA
49794003 TTTTGAATTAACTCAATAGAAAAA
1 TTTTGAA-TAACTCAATAGAAAAA
49794027 CTTCTCACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
24 14 0.67
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (23 bp):
TTTTGAATAACTCAATAGAAAAA
Found at i:49797660 original size:158 final size:158
Alignment explanation
Indices: 49797372--49797688 Score: 634
Period size: 158 Copynumber: 2.0 Consensus size: 158
49797362 AATCTGCAAC
49797372 AGCTTTATCTCATTGTTGCAGCTGTTAAATATACATTAAGTTCCTCAGTTGGAGGAAAGGTGTGG
1 AGCTTTATCTCATTGTTGCAGCTGTTAAATATACATTAAGTTCCTCAGTTGGAGGAAAGGTGTGG
49797437 GAAAGACATTGGTGCGATTGGCATAAGATTGCTCATATCGCTTCAGGTTGGTCTATAATAAATTC
66 GAAAGACATTGGTGCGATTGGCATAAGATTGCTCATATCGCTTCAGGTTGGTCTATAATAAATTC
49797502 AGATTCCTTTTGTTTTAATCCTACTATT
131 AGATTCCTTTTGTTTTAATCCTACTATT
49797530 AGCTTTATCTCATTGTTGCAGCTGTTAAATATACATTAAGTTCCTCAGTTGGAGGAAAGGTGTGG
1 AGCTTTATCTCATTGTTGCAGCTGTTAAATATACATTAAGTTCCTCAGTTGGAGGAAAGGTGTGG
49797595 GAAAGACATTGGTGCGATTGGCATAAGATTGCTCATATCGCTTCAGGTTGGTCTATAATAAATTC
66 GAAAGACATTGGTGCGATTGGCATAAGATTGCTCATATCGCTTCAGGTTGGTCTATAATAAATTC
49797660 AGATTCCTTTTGTTTTAATCCTACTATT
131 AGATTCCTTTTGTTTTAATCCTACTATT
49797688 A
1 A
49797689 CAAATTCTTT
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 159 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (158 bp):
AGCTTTATCTCATTGTTGCAGCTGTTAAATATACATTAAGTTCCTCAGTTGGAGGAAAGGTGTGG
GAAAGACATTGGTGCGATTGGCATAAGATTGCTCATATCGCTTCAGGTTGGTCTATAATAAATTC
AGATTCCTTTTGTTTTAATCCTACTATT
Found at i:49804792 original size:28 final size:28
Alignment explanation
Indices: 49804735--49804793 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
49804725 GATTTTCTTA
*
49804735 TATTTTATTTTACATTCTCTTTTTACAT
1 TATTTTATTTTACATTCTATTTTTACAT
*
49804763 TATTTTAATTTTA-ATTTTATTCTTTA-AT
1 TATTTT-ATTTTACATTCTATT-TTTACAT
49804791 TAT
1 TAT
49804794 AATCTCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.66
Consensus pattern (28 bp):
TATTTTATTTTACATTCTATTTTTACAT
Found at i:49816776 original size:23 final size:23
Alignment explanation
Indices: 49816738--49816811 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
49816728 TAACATAGCA
* * * *
49816738 ATTCACTAAAGTGTTCGCCTGAC
1 ATTCACTAAGGGGTTCGCATAAC
*
49816761 ATTCACTAAGGGGTTCACATAAC
1 ATTCACTAAGGGGTTCGCATAAC
*
49816784 ATTCATTAAGGGGTTCGCATAAC
1 ATTCACTAAGGGGTTCGCATAAC
49816807 ATTCA
1 ATTCA
49816812 TTAACGTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (23 bp):
ATTCACTAAGGGGTTCGCATAAC
Found at i:49816812 original size:23 final size:23
Alignment explanation
Indices: 49816750--49816815 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
49816740 TCACTAAAGT
* * *
49816750 GTTCGCCTGACATTCACTAAGGG
1 GTTCGCATAACATTCATTAAGGG
*
49816773 GTTCACATAACATTCATTAAGGG
1 GTTCGCATAACATTCATTAAGGG
49816796 GTTCGCATAACATTCATTAA
1 GTTCGCATAACATTCATTAA
49816816 CGTGGTAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (23 bp):
GTTCGCATAACATTCATTAAGGG
Found at i:49820299 original size:16 final size:16
Alignment explanation
Indices: 49820265--49820299 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49820255 GATTAAAAAG
*
49820265 AAATCAAGAATACATC
1 AAATCAAGAATACAGC
*
49820281 AAATCAAGAATTCAGC
1 AAATCAAGAATACAGC
49820297 AAA
1 AAA
49820300 ATCAGAGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (16 bp):
AAATCAAGAATACAGC
Found at i:49826139 original size:2 final size:2
Alignment explanation
Indices: 49826132--49826158 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49826122 AAAGAAAGAA
49826132 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
49826159 AAAGGAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49828902 original size:7 final size:7
Alignment explanation
Indices: 49828890--49828920 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
49828880 ATACACTGGT
49828890 AAACTGC
1 AAACTGC
49828897 AAACTGC
1 AAACTGC
*
49828904 AAACAGC
1 AAACTGC
49828911 AAACTGC
1 AAACTGC
49828918 AAA
1 AAA
49828921 ATGTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.52, C:0.26, G:0.13, T:0.10
Consensus pattern (7 bp):
AAACTGC
Found at i:49835281 original size:27 final size:28
Alignment explanation
Indices: 49835229--49835282 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
49835219 TTTTATGTAT
*
49835229 GAAATTTAATCCTTTATTTTTATTTTAA
1 GAAATTTAATCCTTTATTATTATTTTAA
* *
49835257 GAAATTTAGT-CTTTATATATTTTTTT
1 GAAATTTAATCCTTTAT-TATTATTTT
49835283 TAATTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.59
Consensus pattern (28 bp):
GAAATTTAATCCTTTATTATTATTTTAA
Found at i:49835453 original size:21 final size:23
Alignment explanation
Indices: 49835429--49835476 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
49835419 AATCTGAATT
* *
49835429 TAAAAATTA-AAATATTGAAA-A
1 TAAAAAGTACAAAAATTGAAATA
49835450 T-AAAAGTACAAAAATTGAAATA
1 TAAAAAGTACAAAAATTGAAATA
49835472 TAAAA
1 TAAAA
49835477 CTTGGAGCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.27
21 11 0.50
22 2 0.09
23 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (23 bp):
TAAAAAGTACAAAAATTGAAATA
Found at i:49836293 original size:90 final size:90
Alignment explanation
Indices: 49836098--49836304 Score: 240
Period size: 91 Copynumber: 2.3 Consensus size: 90
49836088 AAACCGGGGT
* * * * * *
49836098 CTTAATTGCTTTTTTTTGAAAAAATTTGAGGGTTTTTTTAATGCATTTTGAAAGTTTAAGTACTC
1 CTTAATTGATTTTTTTTAAAAAAATTTGAGGATTTTTTTAATACATTTTGAAAGTTCAAATACTC
* * *
49836163 AATTAAGTGTAAAATAAAAGTAGGGG
66 AAGT-AGAGTAAAATAAAAGTAGGAG
* * * *
49836189 CTTAATTGTTTTTTTTTTAAAAAGTTTGAGGATTTTTTTTATACATTTTGAAAGTTCAAATACTC
1 CTTAATTGATTTTTTTTAAAAAAATTTGAGGATTTTTTTAATACATTTTGAAAGTTCAAATACTC
49836254 AAGT-GAG-AACAGA-AAAAGATAGGAG
66 AAGTAGAGTAA-A-ATAAAAG-TAGGAG
49836279 CTTAATTGATTTTTTTTAAAAAAATT
1 CTTAATTGATTTTTTTTAAAAAAATT
49836305 AAATTTTTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
88 2 0.02
89 8 0.08
90 29 0.29
91 60 0.61
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.43
Consensus pattern (90 bp):
CTTAATTGATTTTTTTTAAAAAAATTTGAGGATTTTTTTAATACATTTTGAAAGTTCAAATACTC
AAGTAGAGTAAAATAAAAGTAGGAG
Found at i:49839783 original size:15 final size:16
Alignment explanation
Indices: 49839753--49839786 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
49839743 AAAATGCAGT
49839753 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
49839769 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
49839784 TTT
1 TTT
49839787 TTAAAGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:49841040 original size:14 final size:15
Alignment explanation
Indices: 49841023--49841052 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49841013 AATATGTGGA
49841023 TGAAATA-ATAGAAG
1 TGAAATACATAGAAG
49841037 TGAAATACATAGAAG
1 TGAAATACATAGAAG
49841052 T
1 T
49841053 TTGATATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.23
Consensus pattern (15 bp):
TGAAATACATAGAAG
Found at i:49856074 original size:343 final size:341
Alignment explanation
Indices: 49855401--49856087 Score: 936
Period size: 343 Copynumber: 2.0 Consensus size: 341
49855391 TTGAAATGGA
* *
49855401 TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTTCAAACAAGTTAGAATTGCTCCGG
1 TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTTAAAAAAAGTTAGAATTGCTCCGG
* * * *
49855466 TACAAACAGTATCGGTACTTTTTGTCTTAGTATCGATATTTTAGAAGATATTAATACCCCTCTGA
66 TACAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAACATATCAATACCCCTCTGA
* *
49855531 TAAACGATACAAAATGAGCATTTTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGATAC
131 TAAACAATACAAAATGAGCATTCTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGATAC
* * *
49855596 CTTAAGTAACGTATCGAGAAAATCTAATGTTGATCTATATTCTTGCTACAACGGTCACTGAAATC
196 CTTAAGTAACGTATCGAGAAAATCCAATGTTGATCTATATTCCTGCTACAACGATCACTGAAATC
** * *
49855661 TGCGTTAATTAAAGAAATTACCGATACCGATTTAGTAGGTATCGATAATCGTTGCTGCAGGAGTA
261 TGAATTAATTAAAGAAAATACCGATACCGATTTAGTAGGTATCGATAATCGTTACTGCAGGAGTA
49855726 ATTAATGAGCTGGTAT
326 ATTAATGAGCTGGTAT
* * * * *
49855742 TTCAATTGAGTTAAACATTTTTAAATATGTTTTGACCATTTTAAAGAAAAAGTTAGAATTGTTCC
1 TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTT-AA-AAAAAGTTAGAATTGCTCC
* *
49855807 AGG-GCAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAACATATCAATACCCCTG
64 -GGTACAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAACATATCAATACCCCTC
* * * *
49855871 TGATAAACAATCCCAAATGAGCATTCTGTTTTACCGAACCCTAGGAAGTATCGATCTGGTATCGA
128 TGATAAACAATACAAAATGAGCATTCTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGA
* ** * *
49855936 TACCTTCTA-TAA-GATATCGATTAAATCCAATG-TG-TCTGTATATTCCTGTTCCAACGATCAC
193 TACCTT-AAGTAACG-TATCGAGAAAATCCAATGTTGATC--TATATTCCTGCTACAACGATCAC
* * * *
49855997 TGATATCTGAATTAATTAAAGAAAATATCGATAACC-TTTTAGTAGGTATCGATACTCGTTACTG
254 TGAAATCTGAATTAATTAAAGAAAATACCGAT-ACCGATTTAGTAGGTATCGATAATCGTTACTG
*
49856061 CAGGTGTAATTAATGAGCTGGTAT
318 CAGGAGTAATTAATGAGCTGGTAT
49856085 TTC
1 TTC
49856088 TTCCCCAATG
Statistics
Matches: 302, Mismatches: 36, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
341 40 0.13
342 4 0.01
343 252 0.83
344 6 0.02
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (341 bp):
TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTTAAAAAAAGTTAGAATTGCTCCGG
TACAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAACATATCAATACCCCTCTGA
TAAACAATACAAAATGAGCATTCTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGATAC
CTTAAGTAACGTATCGAGAAAATCCAATGTTGATCTATATTCCTGCTACAACGATCACTGAAATC
TGAATTAATTAAAGAAAATACCGATACCGATTTAGTAGGTATCGATAATCGTTACTGCAGGAGTA
ATTAATGAGCTGGTAT
Found at i:49865123 original size:343 final size:341
Alignment explanation
Indices: 49864450--49865136 Score: 936
Period size: 343 Copynumber: 2.0 Consensus size: 341
49864440 TTGAAATGGA
* *
49864450 TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTTCAAACAAGTTAGAATTGCTCCGG
1 TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTTAAAAAAAGTTAGAATTGCTCCGG
* * * *
49864515 TACAAACAGTATCGGTACTTTTTGTCTTAGTATCGATATTTTAGAAGATATTAATACCCCTCTGA
66 TACAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAACATATCAATACCCCTCTGA
* *
49864580 TAAACGATACAAAATGAGCATTTTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGATAC
131 TAAACAATACAAAATGAGCATTCTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGATAC
* * *
49864645 CTTAAGTAACGTATCGAGAAAATCTAATGTTGATCTATATTCTTGCTACAACGGTCACTGAAATC
196 CTTAAGTAACGTATCGAGAAAATCCAATGTTGATCTATATTCCTGCTACAACGATCACTGAAATC
** * *
49864710 TGCGTTAATTAAAGAAATTACCGATACCGATTTAGTAGGTATCGATAATCGTTGCTGCAGGAGTA
261 TGAATTAATTAAAGAAAATACCGATACCGATTTAGTAGGTATCGATAATCGTTACTGCAGGAGTA
49864775 ATTAATGAGCTGGTAT
326 ATTAATGAGCTGGTAT
* * * * *
49864791 TTCAATTGAGTTAAACATTTTTAAATATGTTTTGACCATTTTAAAGAAAAAGTTAGAATTGTTCC
1 TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTT-AA-AAAAAGTTAGAATTGCTCC
* *
49864856 AGG-GCAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAACATATCAATACCCCTG
64 -GGTACAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAACATATCAATACCCCTC
* * * *
49864920 TGATAAACAATCCCAAATGAGCATTCTGTTTTACCGAACCCTAGGAAGTATCGATCTGGTATCGA
128 TGATAAACAATACAAAATGAGCATTCTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGA
* ** * *
49864985 TACCTTCTA-TAA-GATATCGATTAAATCCAATG-TG-TCTGTATATTCCTGTTCCAACGATCAC
193 TACCTT-AAGTAACG-TATCGAGAAAATCCAATGTTGATC--TATATTCCTGCTACAACGATCAC
* * * *
49865046 TGATATCTGAATTAATTAAAGAAAATATCGATAACC-TTTTAGTAGGTATCGATACTCGTTACTG
254 TGAAATCTGAATTAATTAAAGAAAATACCGAT-ACCGATTTAGTAGGTATCGATAATCGTTACTG
*
49865110 CAGGTGTAATTAATGAGCTGGTAT
318 CAGGAGTAATTAATGAGCTGGTAT
49865134 TTC
1 TTC
49865137 TTCCCCAATG
Statistics
Matches: 302, Mismatches: 36, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
341 40 0.13
342 4 0.01
343 252 0.83
344 6 0.02
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (341 bp):
TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTTAAAAAAAGTTAGAATTGCTCCGG
TACAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAACATATCAATACCCCTCTGA
TAAACAATACAAAATGAGCATTCTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGATAC
CTTAAGTAACGTATCGAGAAAATCCAATGTTGATCTATATTCCTGCTACAACGATCACTGAAATC
TGAATTAATTAAAGAAAATACCGATACCGATTTAGTAGGTATCGATAATCGTTACTGCAGGAGTA
ATTAATGAGCTGGTAT
Found at i:49874174 original size:343 final size:341
Alignment explanation
Indices: 49873499--49874185 Score: 968
Period size: 343 Copynumber: 2.0 Consensus size: 341
49873489 TTGAAATGGA
* * *
49873499 TTCAATTGAGTCAAACATTTTCGAATATATTTTAACCATTTTCAAACAAGTTAGAATTGCTCCGG
1 TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTTAAAAAAAGTTAGAATTGCTCCGG
* * *
49873564 TACAAACAGTATCGGTACTTTTTGTCTTAGTATCGATATTTTAGAAGATATTAATACCCCTCTGA
66 TACAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAAGATATCAATACCCCTCTGA
* *
49873629 TAAACGATACAAAATGAGCATTTTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGATAC
131 TAAACAATACAAAATGAGCATTCTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGATAC
* * * *
49873694 CTTAAGTAACGTATCGAGAAAATCTAATGTTTATCTATATTCTTGCTACAACGGTCATTGAAATC
196 CTTAAGTAACGTATCGAGAAAATCCAATGTGTATCTATATTCCTGCTACAACGATCATTGAAATC
* * *
49873759 TGCGTTAATTAAAGAAATTACCGATATCCATTTAGTAGGTATCGATAATCGTTGTTGCAGGAGTA
261 TGCGTTAATTAAAGAAAATACCGATAACCATTTAGTAGGTATCGATAATCGTTGCTGCAGGAGTA
49873824 ATTAATGAGCTGGTAT
326 ATTAATGAGCTGGTAT
* * * * *
49873840 TTCAATTGAGTTAAACATTTTTAAATATGTTTTGACCATTTTAAAGAAAAGGTTAGAATTGTTCC
1 TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTTAAA-AAAA-GTTAGAATTGCTCC
* * *
49873905 AGG-GCAAACAGTATCAGTAGTTTTTGTCTTAGTATCGATATTTTACAAGATATCAATACCCCTG
64 -GGTACAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAAGATATCAATACCCCTC
* * *
49873969 TGATAAACAATACCAAATGAGCATTCTGTTTTACCGAACCCTAGGAAGTATCGATCTGGTATCGA
128 TGATAAACAATACAAAATGAGCATTCTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGA
* * * * *
49874034 TACCTTCTA-TAA-GATATCGATAAAATCCAATGTGTCTCTATATTCCTGTTCCAACGATCATTG
193 TACCTT-AAGTAACG-TATCGAGAAAATCCAATGTGTATCTATATTCCTGCTACAACGATCATTG
* * * *
49874097 AAATCTG-GATTAATTACAGAAAATATCGATAACCTTTTAGTAGGTATCGATACTCGTTGCTGCA
256 AAATCTGCG-TTAATTAAAGAAAATACCGATAACCATTTAGTAGGTATCGATAATCGTTGCTGCA
*
49874161 GGTGTAATTAATGAGCTGGTAT
320 GGAGTAATTAATGAGCTGGTAT
49874183 TTC
1 TTC
49874186 TTCCCCAATG
Statistics
Matches: 304, Mismatches: 36, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
341 39 0.13
342 5 0.02
343 257 0.85
344 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (341 bp):
TTCAATTGAGTCAAACATTTTCAAATATATTTTAACCATTTTAAAAAAAGTTAGAATTGCTCCGG
TACAAACAGTATCAGTACTTTTTGTCTTAGTATCGATATTTTACAAGATATCAATACCCCTCTGA
TAAACAATACAAAATGAGCATTCTGTTTTACCAAACCCTAGGAAGTATCGATCTGATATCGATAC
CTTAAGTAACGTATCGAGAAAATCCAATGTGTATCTATATTCCTGCTACAACGATCATTGAAATC
TGCGTTAATTAAAGAAAATACCGATAACCATTTAGTAGGTATCGATAATCGTTGCTGCAGGAGTA
ATTAATGAGCTGGTAT
Found at i:49884783 original size:52 final size:51
Alignment explanation
Indices: 49884712--49884904 Score: 226
Period size: 52 Copynumber: 3.7 Consensus size: 51
49884702 ATTTCACTTC
* * *
49884712 ATTCATATACTCACGATGACACATAGCCATCGAACCTTATAATCCATAAGGG
1 ATTCATATACTCACGATGACACATAGTCATCGAACCTT-TAATCCGTAAAGG
* * * *
49884764 ATTCGTATACTCACAATGACACAGAGTCATCGGACCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGAACCT-TTAATCCGTAAAGG
* * *
49884816 ATCCATATACTCACGATGACACTTAGTCATC-AGACCGTTTAATCCGTAAATG
1 ATTCATATACTCACGATGACACATAGTCATCGA-ACC-TTTAATCCGTAAAGG
* * *
49884868 ATTCACATACTCACGATGACACTTAATCATCGAACCT
1 ATTCATATACTCACGATGACACATAGTCATCGAACCT
49884905 CTTCGTTTAT
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.01
52 116 0.97
53 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (51 bp):
ATTCATATACTCACGATGACACATAGTCATCGAACCTTTAATCCGTAAAGG
Found at i:49890534 original size:3 final size:3
Alignment explanation
Indices: 49890526--49890551 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49890516 TAAATAAATA
49890526 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
49890552 AACATCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:49891998 original size:11 final size:11
Alignment explanation
Indices: 49891982--49892015 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
49891972 GAGTCACGTG
49891982 GCTGACGTGGC
1 GCTGACGTGGC
*
49891993 GCTGACGTGGT
1 GCTGACGTGGC
*
49892004 GCTGATGTGGC
1 GCTGACGTGGC
49892015 G
1 G
49892016 TGTGATGACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.47, T:0.24
Consensus pattern (11 bp):
GCTGACGTGGC
Found at i:49892495 original size:24 final size:24
Alignment explanation
Indices: 49892463--49892513 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
49892453 TAATTCAATC
* *
49892463 AATGTAAAATATATTATGCTAATA
1 AATGCAAAATATATTATACTAATA
*
49892487 AATGCAAAATATATTATACTATTA
1 AATGCAAAATATATTATACTAATA
49892511 AAT
1 AAT
49892514 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
AATGCAAAATATATTATACTAATA
Found at i:49894958 original size:20 final size:20
Alignment explanation
Indices: 49894933--49894972 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
49894923 ACATATAAGA
49894933 AAATAAATTGCTAAATATAT
1 AAATAAATTGCTAAATATAT
*
49894953 AAATAAATTGCTATATATAT
1 AAATAAATTGCTAAATATAT
49894973 TATACTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
AAATAAATTGCTAAATATAT
Found at i:49895797 original size:22 final size:21
Alignment explanation
Indices: 49895762--49895803 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
49895752 TTTACTTATA
*
49895762 TATTTAACATTATATTCAATT
1 TATTTAACATTATATACAATT
*
49895783 TATTTATATATTATATACAAT
1 TATTTA-ACATTATATACAAT
49895804 AAAAATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTTAACATTATATACAATT
Found at i:49898460 original size:184 final size:184
Alignment explanation
Indices: 49898146--49898652 Score: 969
Period size: 184 Copynumber: 2.8 Consensus size: 184
49898136 AAAACTAATA
*
49898146 TTTTACCTTAATGCGATTTGCATCAAGAATTTGTTTATTTTACCTCTAAGAGATTAGACCCAACA
1 TTTTTCCTTAATGCGATTTGCATCAAGAATTTGTTTATTTTACCTCTAAGAGATTAGACCCAACA
49898211 TCTTAACCGTAGTGTGGGCAAAGCAAGGACGACGCCAAGGGAGCTGGTAGAGGCCAAGCCACCCT
66 TCTTAACCGTAGTGTGGGCAAAGCAAGGACGACGCCAAGGGAGCTGGTAGAGGCCAAGCCACCCT
49898276 AAAATTAAATTCCTTGAGTTATCTTTGTTATTATTAAACTCAATATTTATTGGT
131 AAAATTAAATTCCTTGAGTTATCTTTGTTATTATTAAACTCAATATTTATTGGT
49898330 TTTTTCCTTAATGCGATTTGCATCAAGAATTTGTTTATTTTACCTCTAAGAGATTAGACCCAACA
1 TTTTTCCTTAATGCGATTTGCATCAAGAATTTGTTTATTTTACCTCTAAGAGATTAGACCCAACA
49898395 TCTTAACCGTAGTGTGGGCAAAGCAAGGACGACGCCAAGGGAGCTGGTAGAGGCCAAGCCACCCT
66 TCTTAACCGTAGTGTGGGCAAAGCAAGGACGACGCCAAGGGAGCTGGTAGAGGCCAAGCCACCCT
49898460 AAAATTAAATTCCTTGAGTTATCTTTGTTATTATTAAACTCAATATTTATTGGT
131 AAAATTAAATTCCTTGAGTTATCTTTGTTATTATTAAACTCAATATTTATTGGT
49898514 TTTTTCCTTAATGCGATTTGCATCAAGAATTTGTTTATTTTACCTCTAAGAGATTAGACCCAACA
1 TTTTTCCTTAATGCGATTTGCATCAAGAATTTGTTTATTTTACCTCTAAGAGATTAGACCCAACA
* * * *
49898579 TCTTAACCGTAGTGTGGGCAAAGCAAGGACAACGCCAAGGGAGCTGATAGAGGCTAAGCCACCCC
66 TCTTAACCGTAGTGTGGGCAAAGCAAGGACGACGCCAAGGGAGCTGGTAGAGGCCAAGCCACCCT
49898644 AAAATTAAA
131 AAAATTAAA
49898653 AGATATCACT
Statistics
Matches: 318, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 318 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (184 bp):
TTTTTCCTTAATGCGATTTGCATCAAGAATTTGTTTATTTTACCTCTAAGAGATTAGACCCAACA
TCTTAACCGTAGTGTGGGCAAAGCAAGGACGACGCCAAGGGAGCTGGTAGAGGCCAAGCCACCCT
AAAATTAAATTCCTTGAGTTATCTTTGTTATTATTAAACTCAATATTTATTGGT
Found at i:49899829 original size:13 final size:13
Alignment explanation
Indices: 49899811--49899835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49899801 CATTATTCTT
49899811 TAAAAGAAGTCAC
1 TAAAAGAAGTCAC
49899824 TAAAAGAAGTCA
1 TAAAAGAAGTCA
49899836 AATCTCTCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (13 bp):
TAAAAGAAGTCAC
Found at i:49903572 original size:55 final size:55
Alignment explanation
Indices: 49903472--49903576 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
49903462 ATATTGTTTA
* * * * *
49903472 TTTTGAATCGATTGTTTTTATGTTTAAATCGATTATCATGTTGGAATACTGCTTT
1 TTTTGAATCAATTGTTTATATGTTTAAAACAATTATCATGGTGGAATACTGCTTT
* *
49903527 TTTTGAATCAATTGTTTATATGTTTAAAACAATTGTTATGGTGGAATACT
1 TTTTGAATCAATTGTTTATATGTTTAAAACAATTATCATGGTGGAATACT
49903577 AATTCTTCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.49
Consensus pattern (55 bp):
TTTTGAATCAATTGTTTATATGTTTAAAACAATTATCATGGTGGAATACTGCTTT
Found at i:49904235 original size:31 final size:31
Alignment explanation
Indices: 49904169--49904235 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
49904159 CAGACAAGGG
** *
49904169 TAATTTAGGTATTAGAAATTTGGAGTAGGGG
1 TAATTTAGGTATTAGAAATTTGGAGTAAAGC
*
49904200 TAATTTAGGTATTAGAAATTTTGA-TAAAAGC
1 TAATTTAGGTATTAGAAATTTGGAGT-AAAGC
49904231 TAATT
1 TAATT
49904236 AATTATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (31 bp):
TAATTTAGGTATTAGAAATTTGGAGTAAAGC
Found at i:49905181 original size:17 final size:16
Alignment explanation
Indices: 49905159--49905196 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
49905149 TAAATACTTT
49905159 ATTAAAATAATATTTTA
1 ATTAAAATAAT-TTTTA
49905176 ATTAAAATAATTTTTA
1 ATTAAAATAATTTTTA
*
49905192 TTTAA
1 ATTAA
49905197 TAAATAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAAAATAATTTTTA
Found at i:49905196 original size:16 final size:16
Alignment explanation
Indices: 49905151--49905193 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
49905141 GTGAAATTTA
*
49905151 AATACTTTATTAAAAT
1 AATATTTTATTAAAAT
49905167 AATATTTTAATTAAAAT
1 AATATTTT-ATTAAAAT
49905184 AAT-TTTTATT
1 AATATTTTATT
49905194 TAATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 11 0.44
17 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:49908476 original size:21 final size:21
Alignment explanation
Indices: 49908435--49908476 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
49908425 TAAATCTGAT
*
49908435 TCTTCCATGCTGCTGGAAAGC
1 TCTTCCATGCTGCTGCAAAGC
*
49908456 TCTT-CATGCTGCATGCTAAGC
1 TCTTCCATGCTGC-TGCAAAGC
49908477 CATCGATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (21 bp):
TCTTCCATGCTGCTGCAAAGC
Found at i:49914732 original size:15 final size:16
Alignment explanation
Indices: 49914714--49914743 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49914704 CTTCTCTATT
49914714 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
49914729 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
49914744 TTTTTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:49917871 original size:12 final size:12
Alignment explanation
Indices: 49917854--49917890 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
49917844 AAAAGGAAAT
49917854 AGAGAGAAAAGA
1 AGAGAGAAAAGA
49917866 AGAGAGAAAAGA
1 AGAGAGAAAAGA
*
49917878 AGAGATAAAAGA
1 AGAGAGAAAAGA
49917890 A
1 A
49917891 ACTGAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (12 bp):
AGAGAGAAAAGA
Found at i:49918080 original size:24 final size:24
Alignment explanation
Indices: 49918043--49918101 Score: 109
Period size: 24 Copynumber: 2.4 Consensus size: 24
49918033 AATTACAAAT
49918043 ATTTTATTTTAGGTGTTTAAAATGA
1 ATTTT-TTTTAGGTGTTTAAAATGA
49918068 ATTTTTTTTAGGTGTTTAAAATGA
1 ATTTTTTTTAGGTGTTTAAAATGA
49918092 ATTTTTTTTA
1 ATTTTTTTTA
49918102 TAATTAGGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.58
Consensus pattern (24 bp):
ATTTTTTTTAGGTGTTTAAAATGA
Found at i:49931453 original size:18 final size:18
Alignment explanation
Indices: 49931432--49931474 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
49931422 TTTTTAGCTG
49931432 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
49931450 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
49931468 TAATTAA
1 TAATTAA
49931475 AAAAGTCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:49931763 original size:12 final size:12
Alignment explanation
Indices: 49931746--49931775 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49931736 ATCTTTAAAA
49931746 AATTAATATTTT
1 AATTAATATTTT
49931758 AATTAATATTTT
1 AATTAATATTTT
*
49931770 CATTAA
1 AATTAA
49931776 AAAGATAATC
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:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTAATATTTT
Found at i:49933031 original size:34 final size:34
Alignment explanation
Indices: 49932970--49933036 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
49932960 AACACCGTAA
* * *
49932970 AAGGTAAGAGCATTAGTGGCGTTTATGACAAAAT
1 AAGGTAAGAGCATTAGCGGCGTGTATGAAAAAAT
* *
49933004 AAGGTAAGAGGATTAGCGTCGTGTATGAAAAAA
1 AAGGTAAGAGCATTAGCGGCGTGTATGAAAAAA
49933037 CGCCGCAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.24
Consensus pattern (34 bp):
AAGGTAAGAGCATTAGCGGCGTGTATGAAAAAAT
Found at i:49934152 original size:29 final size:30
Alignment explanation
Indices: 49934115--49934173 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
49934105 ATACACATAA
*
49934115 TGTGCAATTATATACATG-ATTTTTGATTT
1 TGTGCAATTATATACATGAAATTTTGATTT
* *
49934144 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTATATACATGAAATTTTGATTT
49934174 GATCTAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTGCAATTATATACATGAAATTTTGATTT
Found at i:49934182 original size:30 final size:29
Alignment explanation
Indices: 49934120--49934182 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
49934110 CATAATGTGC
* *
49934120 AATTATATACATGATTTTTGATTTTGTGT
1 AATTATATACATGAATTTTGATTTTGTCT
*
49934149 AATTTTATACATGAAATTTTGA-TTTGATCT
1 AATTATATACATG-AATTTTGATTTTG-TCT
49934179 AATT
1 AATT
49934183 CTTGTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (29 bp):
AATTATATACATGAATTTTGATTTTGTCT
Found at i:49956829 original size:23 final size:23
Alignment explanation
Indices: 49956803--49956864 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 23
49956793 ATTTGATTTC
49956803 TGTTTTGATGCTGTTTTTTTTAT
1 TGTTTTGATGCTGTTTTTTTTAT
*
49956826 TGTTTTGGTGCTG--TTTTTTAT
1 TGTTTTGATGCTGTTTTTTTTAT
* *
49956847 TGTTTCGATTCTGTTTTT
1 TGTTTTGATGCTGTTTTT
49956865 GCTATTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 18 0.55
23 15 0.45
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.68
Consensus pattern (23 bp):
TGTTTTGATGCTGTTTTTTTTAT
Found at i:49956876 original size:56 final size:57
Alignment explanation
Indices: 49956765--49956890 Score: 141
Period size: 56 Copynumber: 2.2 Consensus size: 57
49956755 AAAAATTATA
* * * *
49956765 TTATTATTTTGGTGCTGTTTTTTTACTGATTTGATTTCTGTTTTGATGCTGTTTTTT
1 TTATTGTTTTGGTGCTGTTTTTTTACTGATTTGATTTCTGTTTTGATACTATTTTTG
* * *
49956822 TTATTGTTTTGGTGCTG-TTTTTTATTG-TTTCGA-TTCTGTTTTTGCTATTATTTTTG
1 TTATTGTTTTGGTGCTGTTTTTTTACTGATTT-GATTTCTG-TTTTGATACTATTTTTG
*
49956878 TTGTTGTTTTGGT
1 TTATTGTTTTGGT
49956891 TACTATTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
55 8 0.14
56 35 0.59
57 16 0.27
ACGTcount: A:0.09, C:0.06, G:0.19, T:0.66
Consensus pattern (57 bp):
TTATTGTTTTGGTGCTGTTTTTTTACTGATTTGATTTCTGTTTTGATACTATTTTTG
Found at i:49956882 original size:21 final size:21
Alignment explanation
Indices: 49956878--49956944 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 21
49956868 ATTATTTTTG
49956878 TTGTTGTTTTGGTTACTATTTT
1 TTGTTGTTTTGGTTACTA-TTT
49956900 TGCTGTTGTTTTGGTTACTATTT
1 T--TGTTGTTTTGGTTACTATTT
* *
49956923 TTGTTG-TTTGGATATTATTT
1 TTGTTGTTTTGGTTACTATTT
49956943 TT
1 TT
49956945 ATGCGGCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 14 0.34
21 5 0.12
22 1 0.02
23 4 0.10
24 17 0.41
ACGTcount: A:0.10, C:0.04, G:0.19, T:0.66
Consensus pattern (21 bp):
TTGTTGTTTTGGTTACTATTT
Found at i:49956886 original size:24 final size:24
Alignment explanation
Indices: 49956870--49956930 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
49956860 TTTTTGCTAT
49956870 TATTTTTGTTGTTGTTTTGGTTAC
1 TATTTTTGTTGTTGTTTTGGTTAC
*
49956894 TATTTTTGCTGTTGTTTTGGTTAC
1 TATTTTTGTTGTTGTTTTGGTTAC
49956918 TATTTTTGTTGTT
1 TATTTTTGTTGTT
49956931 TGGATATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.08, C:0.05, G:0.20, T:0.67
Consensus pattern (24 bp):
TATTTTTGTTGTTGTTTTGGTTAC
Found at i:49957985 original size:14 final size:14
Alignment explanation
Indices: 49957966--49957995 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49957956 TATTAATTTG
49957966 TTTCTTCTTTCTTT
1 TTTCTTCTTTCTTT
*
49957980 TTTCTTTTTTCTTT
1 TTTCTTCTTTCTTT
49957994 TT
1 TT
49957996 ATTCTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTCTTTCTTT
Found at i:49960153 original size:30 final size:30
Alignment explanation
Indices: 49960045--49960229 Score: 148
Period size: 30 Copynumber: 6.3 Consensus size: 30
49960035 TAAAACGGTC
* * **
49960045 ATTTTTGCAAGTCTCGGGGTCAAAAACAAA
1 ATTTTTGGAAGTTTCGGGGTCAAAAATGAA
* * *
49960075 ATTTTTAGAAGTTTCAGAGTCAAAAAT-ATA
1 ATTTTTGGAAGTTTCGGGGTCAAAAATGA-A
* *
49960105 A-TTTCGGGAGTTTCGGGGTCAAAAATGAA
1 ATTTTTGGAAGTTTCGGGGTCAAAAATGAA
* *
49960134 ATTTTTGGAAGTTTGGGGGTC-AAAATGTA
1 ATTTTTGGAAGTTTCGGGGTCAAAAATGAA
* * *
49960163 ATTTTTGGATAGTTTAGGGGTC-AAATTGGA
1 ATTTTTGGA-AGTTTCGGGGTCAAAAATGAA
* * **
49960193 ATTTTTAGAAGTTT-GGGG-AAAAAATTCA
1 ATTTTTGGAAGTTTCGGGGTCAAAAATGAA
49960221 ATTTTTGGA
1 ATTTTTGGA
49960230 CATTTTAGGG
Statistics
Matches: 126, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
28 17 0.13
29 44 0.35
30 65 0.52
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (30 bp):
ATTTTTGGAAGTTTCGGGGTCAAAAATGAA
Found at i:49960207 original size:59 final size:59
Alignment explanation
Indices: 49960060--49960210 Score: 162
Period size: 59 Copynumber: 2.6 Consensus size: 59
49960050 TGCAAGTCTC
** ** * *
49960060 GGGGTCAAAAACAAAATTTTTAGAAGTTTCAGAGTCAAAAATATAATTTCGGGAGTTTC
1 GGGGTCAAAAATGAAATTTTTAGAAGTTTGGGGGTCAAAAATATAATTTCGGGAGTTTA
* * * *
49960119 GGGGTCAAAAATGAAATTTTTGGAAGTTTGGGGGTC-AAAATGTAATTTTTGGATAGTTTA
1 GGGGTCAAAAATGAAATTTTTAGAAGTTTGGGGGTCAAAAATATAA-TTTCGG-GAGTTTA
* *
49960179 GGGGTC-AAATTGGAATTTTTAGAAGTTTGGGG
1 GGGGTCAAAAATGAAATTTTTAGAAGTTTGGGG
49960211 AAAAAATTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 8 0.10
59 58 0.75
60 11 0.14
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (59 bp):
GGGGTCAAAAATGAAATTTTTAGAAGTTTGGGGGTCAAAAATATAATTTCGGGAGTTTA
Found at i:49969747 original size:18 final size:17
Alignment explanation
Indices: 49969706--49969771 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 17
49969696 ATTTTTTAAA
*
49969706 ATATTTATTTTAT-TTT
1 ATATATATTTTATATTT
*
49969722 AT-TTTATTTTAATATTT
1 ATATATATTTT-ATATTT
*
49969739 ATATATATTTTTTATTT
1 ATATATATTTTATATTT
*
49969756 ATTAAATATTTTATAT
1 A-TATATATTTTATAT
49969772 AGTCATCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.19
16 4 0.10
17 11 0.26
18 19 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATATATATTTTATATTT
Found at i:49969760 original size:27 final size:29
Alignment explanation
Indices: 49969704--49969772 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 29
49969694 AAATTTTTTA
*
49969704 AAATATTTAT-TTTATTTTATTTTAT-TT
1 AAATATTTATATATATTTTATTTTATATT
*
49969731 TAATATTTATATATATTTT-TTATT-TATT
1 AAATATTTATATATATTTTATT-TTATATT
49969759 AAATATTT-TATATA
1 AAATATTTATATATA
49969773 GTCATCATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 18 0.50
28 18 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
AAATATTTATATATATTTTATTTTATATT
Found at i:49971369 original size:21 final size:21
Alignment explanation
Indices: 49971343--49971386 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
49971333 TGAGCAAAAT
49971343 AAACTTTCACATTTAATACTG
1 AAACTTTCACATTTAATACTG
49971364 AAACTTTCACATTTAATACTG
1 AAACTTTCACATTTAATACTG
49971385 AA
1 AA
49971387 TACATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (21 bp):
AAACTTTCACATTTAATACTG
Found at i:49975972 original size:40 final size:39
Alignment explanation
Indices: 49975922--49976102 Score: 164
Period size: 40 Copynumber: 4.6 Consensus size: 39
49975912 TATTGCTTAT
* ** * **
49975922 TGGCAGTGACACTGTAAATACTGTGATATTATTACTCAAC
1 TGGCAATGACACTGTAAATACTGCAATATGACAACT-AAC
* * * * **
49975962 TGGCAATGACATTGTAAACACTACAATATTATTACTGAAC
1 TGGCAATGACACTGTAAATACTGCAATATGACAACT-AAC
* * * * *
49976002 TAGCAGTGACATTATAAACACTGCAATATGACAACTAAAC
1 TGGCAATGACACTGTAAATACTGCAATATGACAACT-AAC
* *
49976042 TGGTAATGACACTGTAAATACTGCAATATGACAACTGAC
1 TGGCAATGACACTGTAAATACTGCAATATGACAACTAAC
49976081 TGGCAATGACACTGTAAATACT
1 TGGCAATGACACTGTAAATACT
49976103 TCTAGGTTAT
Statistics
Matches: 118, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 23 0.19
40 95 0.81
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (39 bp):
TGGCAATGACACTGTAAATACTGCAATATGACAACTAAC
Found at i:49978616 original size:97 final size:97
Alignment explanation
Indices: 49978447--49978633 Score: 293
Period size: 97 Copynumber: 1.9 Consensus size: 97
49978437 GAAAAGGGTA
* * *
49978447 TTCGATTATCTCGATTTGAAGAAAACTCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACTAG
1 TTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAG
49978512 AGATAAAGAAACATTACCTCGATTTAAGAGTT
66 AGATAAAGAAACATTACCTCGATTTAAGAGTT
* *
49978544 TTCGATTATCCCGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCCG
1 TTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAG
* * * *
49978609 AGGTAAAGGAATATTGCCTCGATTT
66 AGATAAAGAAACATTACCTCGATTT
49978634 TAAAGGTTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 81 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (97 bp):
TTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACCAG
AGATAAAGAAACATTACCTCGATTTAAGAGTT
Found at i:49978888 original size:29 final size:29
Alignment explanation
Indices: 49978847--49979364 Score: 387
Period size: 29 Copynumber: 17.9 Consensus size: 29
49978837 AACATAGTCA
* *
49978847 AAAAT-GTGATTTTTGGATGTTCGAGGGT
1 AAAATGGTAATTTTTGGAAGTTCGAGGGT
* *
49978875 AAAATGGTAATTTTTGG-AGGTCCAGGGGT
1 AAAATGGTAATTTTTGGAAGTTCGA-GGGT
* * *
49978904 AAAACGGTAA-TTTTGGATA-CTCGAGGGG
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGT
* *
49978932 AAAATGGTAATTTTTGGACA-TCCGAGAGT
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGT
* **
49978961 AAAATGGTAATTTTTAGATCTTCGAGGGT
1 AAAATGGTAATTTTTGGAAGTTCGAGGGT
49978990 AAAATGGTAATTTTTGGATAGTTCG-GGGT
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGT
49979019 CAAAAAT-GTAATTTTTGG-A-TATCGAGGGT
1 --AAAATGGTAATTTTTGGAAGT-TCGAGGGT
* *
49979048 AAAATGGTAATTTTTGGACA-CTCGGGGGT
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGT
* *
49979077 AAAATGGTAACTTTTGGAAGTTTG-GGGT
1 AAAATGGTAATTTTTGGAAGTTCGAGGGT
* *
49979105 CAAAATTGTAATTTTTGGAAGTTCGAGGGAA
1 -AAAATGGTAATTTTTGGAAGTTCGAGGG-T
*
49979136 AAAAT-ATAATTTTTGGACA-TTCTG-GGGT
1 AAAATGGTAATTTTTGGA-AGTTC-GAGGGT
**
49979164 AAAATGGTAATTTTTGGAAGTTC-AAAGT
1 AAAATGGTAATTTTTGGAAGTTCGAGGGT
* * * *
49979192 CAAAATTGTAATTTTTTGAAGTTCAAGGGCA
1 -AAAATGGTAATTTTTGGAAGTTCGAGGG-T
* * *
49979223 AAAAT-GTGATTTTTGGAAGTTCGGGGGCA
1 AAAATGGTAATTTTTGGAAGTTCGAGGG-T
*
49979252 AAAATGG-AATTTTTGGAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGAAGTTCGAGGGT
* * *
49979280 GAAAAT-GAAATTTTTTGAAAGTT-TAGGGTT
1 -AAAATGGTAA-TTTTTGGAAGTTCGAGGG-T
* * *
49979310 AAAAAT-GTAA-TTTTGAAAGTTTGAAGGT
1 -AAAATGGTAATTTTTGGAAGTTCGAGGGT
49979338 AAAAAT-GTAATTTTTGGAAGTTCGAGG
1 -AAAATGGTAATTTTTGGAAGTTCGAGG
49979365 TCAAAATATG
Statistics
Matches: 400, Mismatches: 57, Indels: 65
0.77 0.11 0.12
Matches are distributed among these distances:
27 6 0.01
28 78 0.19
29 256 0.64
30 55 0.14
31 5 0.01
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAGTTCGAGGGT
Found at i:49980434 original size:18 final size:18
Alignment explanation
Indices: 49980398--49980437 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49980388 TTCCTTTGCT
* * *
49980398 TTTATTGTTTATTATATA
1 TTTATTGTTAATAAAATA
49980416 TTTATTGTTAATAAAATA
1 TTTATTGTTAATAAAATA
49980434 TTTA
1 TTTA
49980438 GTAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTATTGTTAATAAAATA
Found at i:49981207 original size:17 final size:16
Alignment explanation
Indices: 49981180--49981240 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
49981170 AAATTTAAAA
*
49981180 TTAAGTTTAAAACCAT
1 TTAAATTTAAAACCAT
*
49981196 TTCAAATTT-AAACTAAAT
1 TT-AAATTTAAAAC--CAT
49981214 TTAAATTTAAAACCAAT
1 TTAAATTTAAAACC-AT
*
49981231 TTAAACTTAA
1 TTAAATTTAA
49981241 TATAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 6 0.17
17 22 0.61
18 8 0.22
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (16 bp):
TTAAATTTAAAACCAT
Found at i:49981231 original size:28 final size:28
Alignment explanation
Indices: 49981200--49981253 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
49981190 AACCATTTCA
*
49981200 AATTTAAACTAAATTTAAATTTAAAACC
1 AATTTAAACTAAATATAAATTTAAAACC
*
49981228 AATTTAAACTTAATATAAATTTAAAA
1 AATTTAAACTAAATATAAATTTAAAA
49981254 TCAAAAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
AATTTAAACTAAATATAAATTTAAAACC
Found at i:49981247 original size:34 final size:32
Alignment explanation
Indices: 49981162--49981252 Score: 94
Period size: 34 Copynumber: 2.7 Consensus size: 32
49981152 GTGGGACCTT
* * *
49981162 TTTAAATTAAATTTAAAATTAAGTTTAAAACCA
1 TTTAAATT-AATATAAATTTAAATTTAAAACCA
49981195 TTTCAAATTTAA-ACTAAATTTAAATTTAAAACCAA
1 TTT-AAA-TTAATA-TAAATTTAAATTTAAAACC-A
49981230 TTTAAACTTAATATAAATTTAAA
1 TTTAAA-TTAATATAAATTTAAA
49981253 ATCAAAAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
33 3 0.06
34 39 0.80
35 7 0.14
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.40
Consensus pattern (32 bp):
TTTAAATTAATATAAATTTAAATTTAAAACCA
Found at i:49981248 original size:17 final size:17
Alignment explanation
Indices: 49981203--49981252 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
49981193 CATTTCAAAT
* *
49981203 TTAAACTAAATTTAAAT
1 TTAAAATAAATTTAAAC
**
49981220 TTAAAACCAATTTAAAC
1 TTAAAATAAATTTAAAC
*
49981237 TTAATATAAATTTAAA
1 TTAAAATAAATTTAAA
49981253 ATCAAAAGTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAATAAATTTAAAC
Found at i:49982490 original size:12 final size:12
Alignment explanation
Indices: 49982473--49982497 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49982463 ATTTTGAGGT
49982473 AAGTCACTATAA
1 AAGTCACTATAA
49982485 AAGTCACTATAA
1 AAGTCACTATAA
49982497 A
1 A
49982498 CGTTACAAGT
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AAGTCACTATAA
Found at i:49987568 original size:13 final size:13
Alignment explanation
Indices: 49987558--49987594 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
49987548 ATTCATAAAG
49987558 TTAAA-AAATAAC
1 TTAAAGAAATAAC
*
49987570 TTAAAGAAATAAT
1 TTAAAGAAATAAC
49987583 TTAAAGAAATAA
1 TTAAAGAAATAA
49987595 ACATAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (13 bp):
TTAAAGAAATAAC
Found at i:49991149 original size:16 final size:17
Alignment explanation
Indices: 49991119--49991153 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
49991109 TCGTTTGAGC
49991119 TTGTGTTCTTCTTTCTT
1 TTGTGTTCTTCTTTCTT
*
49991136 TTGT-TTCTTTTTTCTT
1 TTGTGTTCTTCTTTCTT
49991152 TT
1 TT
49991154 CTTTATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (17 bp):
TTGTGTTCTTCTTTCTT
Found at i:49992072 original size:39 final size:40
Alignment explanation
Indices: 49991993--49992138 Score: 172
Period size: 39 Copynumber: 3.7 Consensus size: 40
49991983 ATCATTACTC
* * **
49991993 AACTGGCAGA-GACACTGTAAACACTACAATATTATTACTG
1 AACTGGCA-ATGACACTGTAAACACTGCAATATGACAACTG
* * *
49992033 AACTAGCAATGAC-TTATAAACACTGCAATATGACAACTG
1 AACTGGCAATGACACTGTAAACACTGCAATATGACAACTG
* *
49992072 AACTGGTAATAACACTGTAAACACTGCAATATGACAACTG
1 AACTGGCAATGACACTGTAAACACTGCAATATGACAACTG
*
49992112 -ACTGGCAGTGACACTGTAAACACTGCA
1 AACTGGCAATGACACTGTAAACACTGCA
49992139 CTATTACCAT
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
39 55 0.62
40 34 0.38
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (40 bp):
AACTGGCAATGACACTGTAAACACTGCAATATGACAACTG
Found at i:49998936 original size:19 final size:20
Alignment explanation
Indices: 49998914--49998951 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49998904 TTTTTGAACA
*
49998914 ATTTATTT-TTTTTCTTTTT
1 ATTTATTTATTTTCCTTTTT
*
49998933 ATTTCTTTATTTTCCTTTT
1 ATTTATTTATTTTCCTTTT
49998952 CTTCTTCCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (20 bp):
ATTTATTTATTTTCCTTTTT
Found at i:50002919 original size:109 final size:109
Alignment explanation
Indices: 50002721--50002920 Score: 287
Period size: 109 Copynumber: 1.8 Consensus size: 109
50002711 TTTAAATTGG
* * *
50002721 ATAACAAATGGTTAAATTCAAATCAATGAACTAAATCTCAAGTTGTGATCTATTGATCGAGTATT
1 ATAACAAATGGTTAAAATCAAATCAATGAACTAAATCTCAAGTTGCGATCCATTGATCGAGTATT
50002786 TATTTTCTATAAAAATAACCTAAATTTTAGTCATCGATGTATCT
66 TATTTTCTATAAAAATAACCTAAATTTTAGTCATCGATGTATCT
* * *
50002830 ATAACAAATGGTTAAAATCTAAAT-AGTGAA-TCAAATTTCAAGTTGCGATCCATTGATCGAGTG
1 ATAACAAATGGTTAAAATC-AAATCAATGAACT-AAATCTCAAGTTGCGATCCATTGATCGAGTA
* * *
50002893 TTTATTTTTTATAAAAATAGCTTAAATT
64 TTTATTTTCTATAAAAATAACCTAAATT
50002921 CGGGTCATCC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
108 1 0.01
109 75 0.94
110 4 0.05
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (109 bp):
ATAACAAATGGTTAAAATCAAATCAATGAACTAAATCTCAAGTTGCGATCCATTGATCGAGTATT
TATTTTCTATAAAAATAACCTAAATTTTAGTCATCGATGTATCT
Found at i:50003410 original size:19 final size:19
Alignment explanation
Indices: 50003388--50003432 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
50003378 TTTTATTAGG
50003388 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
50003407 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
50003426 ATTTAAT
1 ATTTAAT
50003433 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:50008101 original size:17 final size:17
Alignment explanation
Indices: 50008079--50008167 Score: 106
Period size: 17 Copynumber: 5.2 Consensus size: 17
50008069 CCAACTTTTA
*
50008079 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
50008096 ATTTTAAATTTAAATTC
1 ATTTTAAATTTAAATTT
* *
50008113 ATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
50008130 ATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
* * *
50008147 ATTTTGAACTAAAATTT
1 ATTTTAAATTTAAATTT
50008164 ATTT
1 ATTT
50008168 AATATTAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 60 1.00
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:50008999 original size:3 final size:3
Alignment explanation
Indices: 50008991--50009021 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
50008981 TAAATATATT
50008991 TAA TAA TAA TAA TAA TAA TTAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
50009022 GTTAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:50010310 original size:29 final size:29
Alignment explanation
Indices: 50010230--50010607 Score: 336
Period size: 30 Copynumber: 12.9 Consensus size: 29
50010220 CTAAATTGTT
*
50010230 CAAAAATTACATTTTGACCC-CAAAACTTC
1 CAAAAATTACATTTTTACCCTC-AAACTTC
* * *
50010259 TCCAAAATTACATTTTTGACCCTTAAACTTT
1 -CAAAAATTACATTTTT-ACCCTCAAACTTC
* * *
50010290 AAAAAATTACATTTTTTCCCTCGAACTTC
1 CAAAAATTACATTTTTACCCTCAAACTTC
* * *
50010319 CAAAAATTCCATTTTTAACCTTGAAACTTC
1 CAAAAATTACATTTTT-ACCCTCAAACTTC
*
50010349 C-AAAATTACATTTTTACCCCCAAACTTC
1 CAAAAATTACATTTTTACCCTCAAACTTC
* *
50010377 CAAAAATTACATTTTTGA-CTTCAAAACTCC
1 CAAAAATTACATTTTT-ACCCTC-AAACTTC
*
50010407 CAAAAATTACATTTTTGACCCTGAAACTTC
1 CAAAAATTACATTTTT-ACCCTCAAACTTC
* * * * *
50010437 CCAATATTACGTTTTTA-CCTCGAACTTT
1 CAAAAATTACATTTTTACCCTCAAACTTC
* * ** *
50010465 CAGAAATTGCATTTTTAACATTGAAACTTC
1 CAAAAATTACATTTTT-ACCCTCAAACTTC
* *
50010495 CAAAAATTACATTTTTGACCTTAAAACTTC
1 CAAAAATTACATTTTT-ACCCTCAAACTTC
* *
50010525 CAAAAATTATATTTTTACCCCCAAACTTC
1 CAAAAATTACATTTTTACCCTCAAACTTC
* *
50010554 CAAAAATTTCATTTTTTA-CCTCGAACTTC
1 CAAAAATTACA-TTTTTACCCTCAAACTTC
*
50010583 CAAAAATTCCATTTTTGACCC-CAAA
1 CAAAAATTACATTTTT-ACCCTCAAA
50010608 ACTCTCGAAA
Statistics
Matches: 279, Mismatches: 57, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
28 35 0.13
29 96 0.34
30 136 0.49
31 12 0.04
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (29 bp):
CAAAAATTACATTTTTACCCTCAAACTTC
Found at i:50010609 original size:88 final size:88
Alignment explanation
Indices: 50010230--50010627 Score: 426
Period size: 88 Copynumber: 4.5 Consensus size: 88
50010220 CTAAATTGTT
* ** **
50010230 CAAAAATTACA-TTTTGACCCCAAAACTTCTCCAAAATTACATTTTTGACCCTTAAACTTTAAAA
1 CAAAAATTACATTTTTGACCCTAAAACTTC-CCAAAATTACATTTTT-ACCCCCAAACTTCCAAA
*
50010294 AATTACATTTTTTCCCTCGAACTTC
64 AATTACATTTTTTACCTCGAACTTC
* * * *
50010319 CAAAAATTCCATTTTTAACCTTGAAACTT-CCAAAATTACATTTTTACCCCCAAACTTCCAAAAA
1 CAAAAATTACATTTTTGACCCTAAAACTTCCCAAAATTACATTTTTACCCCCAAACTTCCAAAAA
* * * *
50010383 TTACATTTTTGACTTCAAAACTCC
66 TTACATTTTTTACCTC-GAACTTC
* * * * * * *
50010407 CAAAAATTACATTTTTGACCCTGAAACTTCCCAATATTACGTTTTTA-CCTCGAACTTTCAGAAA
1 CAAAAATTACATTTTTGACCCTAAAACTTCCCAAAATTACATTTTTACCCCCAAACTTCCAAAAA
* * * *
50010471 TTGCATTTTTAACATTGAAACTTC
66 TTACATTTTTTACCTCG-AACTTC
* * *
50010495 CAAAAATTACATTTTTGACCTTAAAACTTCCAAAAATTATATTTTTACCCCCAAACTTCCAAAAA
1 CAAAAATTACATTTTTGACCCTAAAACTTCCCAAAATTACATTTTTACCCCCAAACTTCCAAAAA
*
50010560 TTTCATTTTTTACCTCGAACTTC
66 TTACATTTTTTACCTCGAACTTC
* * * *
50010583 CAAAAATTCCATTTTTGACCCCAAAAC-TCTCGAAATTACCATTTT
1 CAAAAATTACATTTTTGACCCTAAAACTTCCCAAAATTA-CATTTT
50010628 ACCACCGGAT
Statistics
Matches: 253, Mismatches: 50, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
87 36 0.14
88 153 0.60
89 51 0.20
90 13 0.05
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (88 bp):
CAAAAATTACATTTTTGACCCTAAAACTTCCCAAAATTACATTTTTACCCCCAAACTTCCAAAAA
TTACATTTTTTACCTCGAACTTC
Found at i:50010764 original size:145 final size:144
Alignment explanation
Indices: 50010580--50010917 Score: 339
Period size: 145 Copynumber: 2.3 Consensus size: 144
50010570 TACCTCGAAC
* * * * **
50010580 TTCCAAAAATT-CCATTTTTGACCCC-AAAACTCTCGAAATTACCATTTTACCACCGGATGTCCA
1 TTCCCAAAATTACCA-TTTTGTCCCCGAAAA-TC-CAAAATTACCATTTTACC-CCAGACATCCA
* *
50010643 AAAA-TC-AATTTTTGATCCCGATTA-TTCTAAAAATTATCATTTTACCCTT-GATTATCTAAAA
62 AAAAGTCTAATTTTTGATCCCGATTATTTC-AAAAATTACCATTTTA-CCTTCGA-CATCTAAAA
*
50010704 TGTCATTTCTAACCCCAAATTT
124 TGTCATTTCTAA-CCCAAAATT
* * *
50010726 TTCCTAAAATTACCATTTTG-CCCTTGAAAATCCAAAATTACCATTTTACCCTAGACATCCAAAA
1 TTCCCAAAATTACCATTTTGTCCC-CGAAAATCCAAAATTACCATTTTACCCCAGACATCCAAAA
** * * * * *
50010790 AGTCTTCTTTTTTATCTCGATTCTTTCGAAAATTACCATTTTACCTTCGGACATTTAAAATGTCA
65 AGTCTAATTTTTGATCCCGATTATTTCAAAAATTACCATTTTACCTTC-GACATCTAAAATGTCA
*
50010855 TTTTTAACCCAAAATT
129 TTTCTAACCCAAAATT
* *
50010871 TTCCCAAAATTATCATTTTGTCCCCGAAAGTCCAAAATTACCATTTT
1 TTCCCAAAATTACCATTTTGTCCCCGAAAATCCAAAATTACCATTTT
50010918 GCCCTCGGGT
Statistics
Matches: 161, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
144 11 0.07
145 73 0.45
146 65 0.40
147 12 0.07
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (144 bp):
TTCCCAAAATTACCATTTTGTCCCCGAAAATCCAAAATTACCATTTTACCCCAGACATCCAAAAA
GTCTAATTTTTGATCCCGATTATTTCAAAAATTACCATTTTACCTTCGACATCTAAAATGTCATT
TCTAACCCAAAATT
Found at i:50010790 original size:28 final size:28
Alignment explanation
Indices: 50010731--50010789 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
50010721 AATTTTTCCT
* *
50010731 AAAATTACCATTTTGCCCTTGAAAATCC
1 AAAATTACCATTTTACCCTAGAAAATCC
*
50010759 AAAATTACCATTTTACCCTAG-ACATCC
1 AAAATTACCATTTTACCCTAGAAAATCC
50010786 AAAA
1 AAAA
50010790 AGTCTTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAATTACCATTTTACCCTAGAAAATCC
Found at i:50024503 original size:92 final size:92
Alignment explanation
Indices: 50024258--50025088 Score: 1356
Period size: 92 Copynumber: 8.9 Consensus size: 92
50024248 ATCAAAATAG
50024258 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
1 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
*
50024323 GTAGTAAGAGCAAGATGAACCATCAAA
66 GTAGTAAGAGCAAGATGAAGCATCAAA
50024350 CATCAATTCCTATCCTCTTGAAGTTGTTGAAGTTATAGTAAAGTTGGATAGCAAGTCTTTATCTC
1 CATCAATTCCTATCCTCTTGAA---GTT---G---TAGTAAAGTTGGATAGCAAGTCTTTATCTC
* * *
50024415 TCTGAAGTTATAGTAAGAGTAAGATCAAGCATCAAA
57 TCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAA
*
50024451 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTAGATAGCAAGTCTTTATCTCTCTGAAGTT
1 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
*
50024516 GTAGTAAGAGTAAGATGAAGCATCAAA
66 GTAGTAAGAGCAAGATGAAGCATCAAA
* * * *
50024543 CATCAATTTCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAACAAGTTTTTATCTCTCAGAAGTT
1 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
* * **
50024608 GTAGTAAGAACAAGATAAAGTTTCAAA
66 GTAGTAAGAGCAAGATGAAGCATCAAA
* * *
50024635 CATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTTGAATGGCAAGTCTTTATCTCTCTGAAGTT
1 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
*
50024700 GTAGTAAGAGCAAGGTGAAGCATCAAA
66 GTAGTAAGAGCAAGATGAAGCATCAAA
* *
50024727 CATCAATTCCTATCCTCTTGAAGTTGCAGTAAATTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
1 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
*
50024792 GTAGTAAGAGCAAGGTGAAGCATCAAA
66 GTAGTAAGAGCAAGATGAAGCATCAAA
50024819 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
1 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
*
50024884 GTAGTAAGAGCAAGGTGAAGCATCAAA
66 GTAGTAAGAGCAAGATGAAGCATCAAA
*
50024911 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAAGTT
1 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
*
50024976 GTAGTAAGAGTAAGATGAAGCATCAAA
66 GTAGTAAGAGCAAGATGAAGCATCAAA
50025003 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
1 CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
*
50025068 GTAGTAAGAGTAAGATGAAGC
66 GTAGTAAGAGCAAGATGAAGC
50025089 CTCGACATCA
Statistics
Matches: 692, Mismatches: 38, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
92 600 0.87
95 4 0.01
98 4 0.01
101 84 0.12
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (92 bp):
CATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTT
GTAGTAAGAGCAAGATGAAGCATCAAA
Found at i:50025280 original size:17 final size:17
Alignment explanation
Indices: 50025258--50025335 Score: 93
Period size: 17 Copynumber: 4.6 Consensus size: 17
50025248 CCAACTTTTA
*
50025258 ATTTTAAATTTTAATTC
1 ATTTTAAATTTAAATTC
* *
50025275 ATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTC
50025292 ATTTTAAATTTAAATTC
1 ATTTTAAATTTAAATTC
* * *
50025309 ATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTC
*
50025326 ATTTTGAATT
1 ATTTTAAATT
50025336 AAAAATTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (17 bp):
ATTTTAAATTTAAATTC
Found at i:50025297 original size:34 final size:34
Alignment explanation
Indices: 50025258--50025335 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
50025248 CCAACTTTTA
* *
50025258 ATTTTAAATTTTAATTCATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTCATTTTAAATTTAAATTT
* *
50025292 ATTTTAAATTTAAATTCATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTCATTTTAAATTTAAATTT
*
50025326 ATTTTGAATT
1 ATTTTAAATT
50025336 AAAAATTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (34 bp):
ATTTTAAATTTAAATTCATTTTAAATTTAAATTT
Found at i:50025344 original size:17 final size:16
Alignment explanation
Indices: 50025290--50025346 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
50025280 AAATTTGAAT
* *
50025290 TTATTTTAAATTTAAA
1 TTATTTTGAATTAAAA
* *
50025306 TTCATTTTGAGTTTAAAT
1 TT-ATTTTGA-ATTAAAA
50025324 TTATTTTGAATTAAAAA
1 TTATTTTGAATT-AAAA
50025341 TTATTT
1 TTATTT
50025347 AATATTCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.12
17 22 0.69
18 6 0.19
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (16 bp):
TTATTTTGAATTAAAA
Found at i:50026242 original size:23 final size:23
Alignment explanation
Indices: 50026209--50026268 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
50026199 CTTCCCTTGT
*
50026209 GCCATCGTCGGAGGTTTGCCTGC
1 GCCATCATCGGAGGTTTGCCTGC
*
50026232 GTCATCATCGGAGGTTTGCCTGC
1 GCCATCATCGGAGGTTTGCCTGC
*
50026255 GCCGTCATCGGAGG
1 GCCATCATCGGAGG
50026269 ACAAAGGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.12, C:0.28, G:0.35, T:0.25
Consensus pattern (23 bp):
GCCATCATCGGAGGTTTGCCTGC
Found at i:50026305 original size:20 final size:20
Alignment explanation
Indices: 50026280--50026347 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
50026270 CAAAGGGTTT
50026280 TTTTTTTTTAAGAAAAAGGG
1 TTTTTTTTTAAGAAAAAGGG
* **
50026300 TTTTTTTTTAAGAAAATGTA
1 TTTTTTTTTAAGAAAAAGGG
*** *
50026320 AACTCTTTTAAGAAAAAGGG
1 TTTTTTTTTAAGAAAAAGGG
50026340 TTTTTTTT
1 TTTTTTTT
50026348 AAAAAAAATG
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTTTTTTTAAGAAAAAGGG
Found at i:50027262 original size:30 final size:30
Alignment explanation
Indices: 50027214--50027562 Score: 360
Period size: 30 Copynumber: 11.7 Consensus size: 30
50027204 GGAGGTCCTT
* *
50027214 AAACTGTCCAGAAGTTACA-TTTTGACCTCG
1 AAACT-TCCAAAAATTACATTTTTGACCTCG
**
50027244 AAACTTCTTTAAAATTACATTTTTGACCTCG
1 AAACTTC-CAAAAATTACATTTTTGACCTCG
*
50027275 AAACTTCCAAGAATTACATTTTT-ACCTCCG
1 AAACTTCCAAAAATTACATTTTTGACCT-CG
*
50027305 -AACTTCCAAAAATTCCATTTTTGACCTCG
1 AAACTTCCAAAAATTACATTTTTGACCTCG
* *
50027334 AAACTTTCAAAAATTACATGTTTGA-CTCTG
1 AAACTTCCAAAAATTACATTTTTGACCTC-G
*
50027364 AAAC-TCCAAAAAATTACATTTTTGCCCTCG
1 AAACTTCC-AAAAATTACATTTTTGACCTCG
* *
50027394 -AACTTCCAAAAATTCCATTTTTAACCTCG
1 AAACTTCCAAAAATTACATTTTTGACCTCG
* * *
50027423 AAACTTCCCAAAATTACGTTTTTGACCTTG
1 AAACTTCCAAAAATTACATTTTTGACCTCG
* *
50027453 AAACTTCAAAAAATTACATTTTTGCCCTC-
1 AAACTTCCAAAAATTACATTTTTGACCTCG
* *
50027482 AAACTTCCAAAAATTCCATTTTTGACC-CC
1 AAACTTCCAAAAATTACATTTTTGACCTCG
* * *
50027511 AAACTTTCAAAAA-TACCATTTTTGACCCCA
1 AAACTTCCAAAAATTA-CATTTTTGACCTCG
50027541 AAAC-TCTC-AAAATTACCATTTT
1 AAACTTC-CAAAAATTA-CATTTT
50027563 ACCCCCGGAT
Statistics
Matches: 269, Mismatches: 35, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
28 2 0.01
29 107 0.40
30 139 0.52
31 21 0.08
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.34
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTGACCTCG
Found at i:50027333 original size:59 final size:60
Alignment explanation
Indices: 50027214--50027562 Score: 328
Period size: 59 Copynumber: 5.9 Consensus size: 60
50027204 GGAGGTCCTT
* * * **
50027214 AAACTGTCCAGAAGTTACATTTTGACCT-CGAAACTTCTTTAAAATTACATTTTTGACCTCG
1 AAACT-TCCAAAAATTACATTTTTACCTCCGAAACTTC-CAAAAATTACATTTTTGACCTCG
* *
50027275 AAACTTCCAAGAATTACATTTTTACCTCCG-AACTTCCAAAAATTCCATTTTTGACCTCG
1 AAACTTCCAAAAATTACATTTTTACCTCCGAAACTTCCAAAAATTACATTTTTGACCTCG
* * * *
50027334 AAACTTTCAAAAATTACATGTTTGA-CTCTGAAAC-TCCAAAAAATTACATTTTTGCCCTCG
1 AAACTTCCAAAAATTACAT-TTTTACCTCCGAAACTTCC-AAAAATTACATTTTTGACCTCG
* * * *
50027394 -AACTTCCAAAAATTCCATTTTTAACCT-CGAAACTTCCCAAAATTACGTTTTTGACCTTG
1 AAACTTCCAAAAATTACATTTTT-ACCTCCGAAACTTCCAAAAATTACATTTTTGACCTCG
* * * *
50027453 AAACTTCAAAAAATTACATTTTTGCC-CTC-AAACTTCCAAAAATTCCATTTTTGACC-CC
1 AAACTTCCAAAAATTACATTTTTACCTC-CGAAACTTCCAAAAATTACATTTTTGACCTCG
* *
50027511 AAACTTTCAAAAA-TACCATTTTTGACC-CCAAAAC-TCTC-AAAATTACCATTTT
1 AAACTTCCAAAAATTA-CATTTTT-ACCTCCGAAACTTC-CAAAAATTA-CATTTT
50027563 ACCCCCGGAT
Statistics
Matches: 240, Mismatches: 33, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
57 2 0.01
58 30 0.12
59 124 0.52
60 77 0.32
61 7 0.03
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.34
Consensus pattern (60 bp):
AAACTTCCAAAAATTACATTTTTACCTCCGAAACTTCCAAAAATTACATTTTTGACCTCG
Found at i:50027382 original size:89 final size:88
Alignment explanation
Indices: 50027233--50027537 Score: 411
Period size: 89 Copynumber: 3.4 Consensus size: 88
50027223 AGAAGTTACA
** *
50027233 TTTTGACCTCGAAACTTCTTTAAAATTACATTTTTGACCTCGAAACTTCC-AAGAATTACATTTT
1 TTTTGACCTCGAAACTT-TCAAAAATTACATTTTTGACCT-GAAAC-TCCAAAAAATTACATTTT
*
50027297 T-ACCTCCGAACTTCCAAAAATTCCAT
63 TGCCCT-CGAACTTCCAAAAATTCCAT
*
50027323 TTTTGACCTCGAAACTTTCAAAAATTACATGTTTGACTCTGAAACTCCAAAAAATTACATTTTTG
1 TTTTGACCTCGAAACTTTCAAAAATTACATTTTTGAC-CTGAAACTCCAAAAAATTACATTTTTG
50027388 CCCTCGAACTTCCAAAAATTCCAT
65 CCCTCGAACTTCCAAAAATTCCAT
* * * * *
50027412 TTTTAACCTCGAAACTTCCCAAAATTACGTTTTTGACCTTGAAACTTCAAAAAATTACATTTTTG
1 TTTTGACCTCGAAACTTTCAAAAATTACATTTTTGACC-TGAAACTCCAAAAAATTACATTTTTG
*
50027477 CCCTCAAACTTCCAAAAATTCCAT
65 CCCTCGAACTTCCAAAAATTCCAT
*
50027501 TTTTGACC-CCAAACTTTCAAAAA-TACCATTTTTGACC
1 TTTTGACCTCGAAACTTTCAAAAATTA-CATTTTTGACC
50027538 CCAAAACTCT
Statistics
Matches: 193, Mismatches: 17, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
87 2 0.01
88 26 0.13
89 143 0.74
90 22 0.11
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.35
Consensus pattern (88 bp):
TTTTGACCTCGAAACTTTCAAAAATTACATTTTTGACCTGAAACTCCAAAAAATTACATTTTTGC
CCTCGAACTTCCAAAAATTCCAT
Found at i:50027681 original size:148 final size:144
Alignment explanation
Indices: 50027517--50027871 Score: 357
Period size: 148 Copynumber: 2.4 Consensus size: 144
50027507 CCCCAAACTT
* * **
50027517 TCAAAAATACCATTTTTGACCCCAAAACTCTCAAAATTACCATTTTACCCCCGGATGT-CATAAA
1 TCAAAATTACCATTTTTG-CCCCAAAA-TC-CAAAATTACCATTTTACCCCCGAACATCCA-AAA
* **
50027581 A-TCCCA-TTTTTGATCTCGATT-TTTCTAAAAATTACCGTTTTA-CCCTTA-ATTGTCTAAAAT
62 AGTCCCAGTTTTT-ATCCCGATTCTTTC-AAAAATTACCGTTTTACCCCGGACA-T-T-TAAAAT
50027641 GTCATTTTTAATCCCAAAATTTTC
122 GTCATTTTTAA-CCCAAAATTTTC
* * *
50027665 -CTAAAATTACCATTTTTCCCCTCGAAAATCCAAAATTACCATTTTGCTCCCGAACATCCAAAAA
1 TC-AAAATTACCATTTTTGCCC-C-AAAATCCAAAATTACCATTTTACCCCCGAACATCCAAAAA
* * *
50027729 GTCTCAGTTTTTATCCCGATTCTTTCGAAAATTATCGTTTTACCCCCGGACATTTAAAATGTCAT
63 GTCCCAGTTTTTATCCCGATTCTTTCAAAAATTACCGTTTTA-CCCCGGACATTTAAAATGTCAT
50027794 TTTTAACCCAAAATTTTC
127 TTTTAACCCAAAATTTTC
* * * * *
50027812 TCAAAATTATCA-TTTTGTCCCGAAAGTCCAAAATTACCATTTTACCCTCGAGCATCCAAA
1 TCAAAATTACCATTTTTG-CCCCAAAATCCAAAATTACCATTTTACCCCCGAACATCCAAA
50027872 GGTCTCGTTT
Statistics
Matches: 174, Mismatches: 21, Indels: 27
0.78 0.09 0.12
Matches are distributed among these distances:
145 33 0.19
146 4 0.02
147 54 0.31
148 63 0.36
149 14 0.08
150 5 0.03
151 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.35
Consensus pattern (144 bp):
TCAAAATTACCATTTTTGCCCCAAAATCCAAAATTACCATTTTACCCCCGAACATCCAAAAAGTC
CCAGTTTTTATCCCGATTCTTTCAAAAATTACCGTTTTACCCCGGACATTTAAAATGTCATTTTT
AACCCAAAATTTTC
Found at i:50027728 original size:29 final size:29
Alignment explanation
Indices: 50027667--50027727 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
50027657 AAATTTTCCT
*
50027667 AAAATTACCATTTTTCCCCTCGAAAATCC
1 AAAATTACCATTTTGCCCCTCGAAAATCC
* *
50027696 AAAATTACCATTTTGCTCC-CGAACATCC
1 AAAATTACCATTTTGCCCCTCGAAAATCC
50027724 AAAA
1 AAAA
50027728 AGTCTCAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAATTACCATTTTGCCCCTCGAAAATCC
Found at i:50041839 original size:29 final size:29
Alignment explanation
Indices: 50041780--50041845 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
50041770 AAAATACGAC
* * ***
50041780 TTTTGGATGCTCGGGGGTAAAACGGTGA-
1 TTTTGGATACTCGGGGGCAAAACGAAAAT
50041808 TTTTGGATACTTCGGGGGCAAAACGAAAAT
1 TTTTGGATAC-TCGGGGGCAAAACGAAAAT
50041838 TTTTGGAT
1 TTTTGGAT
50041846 GTTCAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 9 0.29
29 14 0.45
30 8 0.26
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (29 bp):
TTTTGGATACTCGGGGGCAAAACGAAAAT
Found at i:50041854 original size:29 final size:30
Alignment explanation
Indices: 50041808--50041873 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
50041798 AAAACGGTGA
**
50041808 TTTTGGATACTTC-GGGGGCAAAACGAAAAT
1 TTTTGGATACTTCAGGGGTAAAAAC-AAAAT
* *
50041838 TTTTGGAT-GTTCAGGGGTAAAAACATAAT
1 TTTTGGATACTTCAGGGGTAAAAACAAAAT
50041867 TTTTGGA
1 TTTTGGA
50041874 AAGTTTAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (30 bp):
TTTTGGATACTTCAGGGGTAAAAACAAAAT
Found at i:50041884 original size:29 final size:29
Alignment explanation
Indices: 50041835--50042384 Score: 297
Period size: 30 Copynumber: 18.6 Consensus size: 29
50041825 GCAAAACGAA
* * **
50041835 AATTTTTGG-ATGTTCAGGGGTAAAAACAT
1 AATTTTTGGAAAGTTTA-GGGTAAAAATGT
*
50041864 AATTTTTGGAAAGTTTAGGGTCAATAATGT
1 AATTTTTGGAAAGTTTAGGGT-AAAAATGT
*
50041894 AATTTTTGGACA-TTTGAGGGT-AAAATGGT
1 AATTTTTGGAAAGTTT-AGGGTAAAAAT-GT
* ** * *
50041923 AATTTTTGGAAACTTCGGGGTTAAAGATGG
1 AATTTTTGGAAAGTTTAGGG-TAAAAATGT
*
50041953 AATTTTTGGACA-TTTGAGGGT-AAAATGGT
1 AATTTTTGGAAAGTTT-AGGGTAAAAAT-GT
* * *
50041982 AATTTTTGGAAATTTTGGGGTCAAAAATGG
1 AATTTTTGGAAAGTTTAGGGT-AAAAATGT
* * *
50042012 AATTTTTAGACA-TTCGAGGGT-AAAATGGT
1 AATTTTTGGAAAGTT-TAGGGTAAAAAT-GT
* *
50042041 AACTTTTGGAAAGTTT-GGAGTTAAAAATGG
1 AATTTTTGGAAAGTTTAGG-G-TAAAAATGT
* * * *
50042071 AATTTTTGGACA-TTCAGGGGTAAAATTAT
1 AATTTTTGGAAAGTTTA-GGGTAAAAATGT
** * * *
50042100 AA-TTTTCAAAAG-TTCGAGGTCAAAAAGGG
1 AATTTTTGGAAAGTTTAG-GGT-AAAAATGT
* ** * *
50042129 AATTTTTCG-AAGTTCGGGGGT-GAAATGC
1 AATTTTTGGAAAGTT-TAGGGTAAAAATGT
50042157 AATTTTTGGAAAGTTTAGGGTTAAAAAT-T
1 AATTTTTGGAAAGTTTAGGG-TAAAAATGT
* * *
50042186 GATTTTTTGGAAAGTTTAAGGTCAAAAATGG
1 -AATTTTTGGAAAGTTTAGGGT-AAAAATGT
* * *
50042217 AATTTTTAG-AAGTTTGGGGGCAAAAATGT
1 AATTTTTGGAAAGTTT-AGGGTAAAAATGT
*
50042246 AATTTTTGTG-AAGTTTTGAGGGTCAAAATGT
1 AATTTTTG-GAAAG-TTT-AGGGTAAAAATGT
50042277 AATTTTTTGGAAAG-TTAGGGGTAAAAATGT
1 AA-TTTTTGGAAAGTTTA-GGGTAAAAATGT
* **
50042307 AATTTTTGAAAAGTTTAAGGGCCAAAATGT
1 AATTTTTGGAAAGTTT-AGGGTAAAAATGT
* * *
50042337 AATTTTTGAAAAGTTTAGGGGTCAAAATAT
1 AATTTTTGGAAAGTTTA-GGGTAAAAATGT
* *
50042367 GATTTTTGGATAGTTTAG
1 AATTTTTGGAAAGTTTAG
50042385 AGACCTCCCG
Statistics
Matches: 402, Mismatches: 78, Indels: 82
0.72 0.14 0.15
Matches are distributed among these distances:
27 1 0.00
28 40 0.10
29 123 0.31
30 194 0.48
31 35 0.09
32 9 0.02
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (29 bp):
AATTTTTGGAAAGTTTAGGGTAAAAATGT
Found at i:50041900 original size:59 final size:58
Alignment explanation
Indices: 50041835--50042377 Score: 338
Period size: 59 Copynumber: 9.2 Consensus size: 58
50041825 GCAAAACGAA
*** * * *
50041835 AATTTTTGGATGTTCAGGGGTAAAAACATAATTTTTGGAAAGTTTAGGGTCAATAATGT
1 AATTTTTGGAT-TTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGG
* * * * *
50041894 AATTTTTGGACATTTGA-GGGTAAAATGGTAATTTTTGGAAACTTCGGGGTTAAAGATGG
1 AATTTTTGG--ATTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGG
* *
50041953 AATTTTTGGACATTTGA-GGGTAAAATGGTAATTTTTGGAAATTTTGGGGTCAAAAATGG
1 AATTTTTGG--ATTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGG
* * * * *
50042012 AATTTTTAGACATTC-GAGGGTAAAATGGTAACTTTTGGAAAGTTTGGAGTTAAAAATGG
1 AATTTTTGGA-TTTCAG-GGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGG
* ** ** * * *
50042071 AATTTTTGGACATTCAGGGGTAAAATTATAA-TTTTCAAAAGTTCGAGGTCAAAAAGGG
1 AATTTTTGGA-TTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGG
* * * * * * * *
50042129 AATTTTTCGAAGTTCGGGGGTGAAAT-GCAATTTTTGGAAAGTTTAGGGTTAAAAATTG
1 AATTTTT-GGATTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGG
* * *** * * *
50042187 ATTTTTTGGAAAGTTTAAGGTCAAAAATGG-AATTTTTAG-AAGTTTGGGGGCAAAAATGT
1 AATTTTTGG--A-TTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGG
* * *
50042246 AATTTTTGTGAAGTTT-TGAGGGTCAAAAT-GTAATTTTTTGGAAAGTTAGGGGT-AAAAATGT
1 AATTTTTG-G-A-TTTCAG-GGGT-AAAATGGTAA-TTTTTGGAAAGTTTGGGGTCAAAAATGG
* * ** *
50042307 AATTTTTGAAAAGTTTAAGGGCCAAAAT-GTAATTTTTGAAAAGTTTAGGGGTCAAAATAT-G
1 AATTTTTG--GA-TTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTT-GGGGTCAAAA-ATGG
50042368 -ATTTTTGGAT
1 AATTTTTGGAT
50042378 AGTTTAGAGA
Statistics
Matches: 383, Mismatches: 78, Indels: 48
0.75 0.15 0.09
Matches are distributed among these distances:
57 5 0.01
58 68 0.18
59 213 0.56
60 49 0.13
61 36 0.09
62 12 0.03
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (58 bp):
AATTTTTGGATTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGG
Found at i:50042334 original size:91 final size:89
Alignment explanation
Indices: 50042151--50042381 Score: 252
Period size: 91 Copynumber: 2.6 Consensus size: 89
50042141 TTCGGGGGTG
* * * * *
50042151 AAATGCAATTTTTGGAAAGTTTAGGGTTAAAAAT-TGATTTTTTGGAAAGTTTAAGGTCAAAAAT
1 AAATGTAATTTTTGAAAAGTTTAGGGGTCAAAATATAATTTTTTGGAAAG-TTAAGGTCAAAAAT
* **
50042215 GGAATTTTTAGAAGTTTGGGGGCAA
65 GGAATTTTTAAAAGTTTAAGGGCAA
** * * *
50042240 AAATGTAATTTTTGTGAAGTTTTGAGGGTCAAAATGTAATTTTTTGGAAAGTTAGGGGT-AAAAA
1 AAATGTAATTTTTGAAAAGTTTAG-GGGTCAAAATATAATTTTTTGGAAAGTTA-AGGTCAAAAA
* *
50042304 TGTAATTTTTGAAAAGTTTAAGGGCCA
64 TGGAATTTTT-AAAAGTTTAAGGGCAA
* *
50042331 AAATGTAATTTTTGAAAAGTTTAGGGGTCAAAATATGA-TTTTTGGATAGTT
1 AAATGTAATTTTTGAAAAGTTTAGGGGTCAAAATATAATTTTTTGGAAAGTT
50042382 TAGAGACCTC
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
89 32 0.27
90 37 0.31
91 50 0.42
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (89 bp):
AAATGTAATTTTTGAAAAGTTTAGGGGTCAAAATATAATTTTTTGGAAAGTTAAGGTCAAAAATG
GAATTTTTAAAAGTTTAAGGGCAA
Found at i:50044269 original size:6 final size:6
Alignment explanation
Indices: 50044258--50044320 Score: 69
Period size: 6 Copynumber: 11.0 Consensus size: 6
50044248 CTTTTATTCT
* *
50044258 TTTAAA TTTAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
50044304 -ACAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
50044321 GTAAACTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 12 0.26
6 35 0.74
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:50044276 original size:11 final size:11
Alignment explanation
Indices: 50044260--50044349 Score: 67
Period size: 11 Copynumber: 8.0 Consensus size: 11
50044250 TTTATTCTTT
50044260 TAAATTTAAAA
1 TAAATTTAAAA
*
50044271 TAAATTTAAACT
1 TAAATTTAAA-A
*
50044283 TAAA-TTAAATT
1 TAAATTTAAA-A
50044294 TAAATTTAAAA
1 TAAATTTAAAA
* *
50044305 CAAATTTAAATT
1 TAAATTTAAA-A
* *
50044317 TAAA-GTAAAC
1 TAAATTTAAAA
*
50044327 TTAATCTTAAAA
1 TAAAT-TTAAAA
50044339 TAAATTTAAAA
1 TAAATTTAAAA
50044350 ATGGGTTTAG
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
10 3 0.05
11 39 0.63
12 20 0.32
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:50044280 original size:17 final size:17
Alignment explanation
Indices: 50044258--50044348 Score: 121
Period size: 17 Copynumber: 5.4 Consensus size: 17
50044248 CTTTTATTCT
50044258 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
50044275 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
50044292 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
*
50044309 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
*
50044326 CTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
50044343 TTTAAA
1 TTTAAA
50044349 AATGGGTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
16 3 0.05
17 57 0.92
18 2 0.03
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:50044959 original size:161 final size:161
Alignment explanation
Indices: 50044778--50045126 Score: 599
Period size: 161 Copynumber: 2.2 Consensus size: 161
50044768 GCTTCGACCT
**
50044778 ACTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGGTTTCATT
1 ACTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGACTTCATT
*
50044843 GATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTATTTCAATCCACTTCT
66 GATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTATTTCAATCCACTTCT
50044908 CTGTATCTCATCAGGAAGACAAATTTGGTCA
131 CTGTATCTCATCAGGAAGACAAATTTGGTCA
* * *
50044939 ATTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGACTTCATT
1 ACTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGACTTCATT
* * * *
50045004 GATTTGGTCTTCTTCTCAATATTTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCT
66 GATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTATTTCAATCCACTTCT
*
50045069 CTGTATCTCATCAGGAAGACGAATTTGGTCA
131 CTGTATCTCATCAGGAAGACAAATTTGGTCA
50045100 ACTTCTCAGTATCTCATCAGGAAGCTA
1 ACTTCTCAGTATCTCATCAGGAAGCTA
50045127 ACCACTTTAT
Statistics
Matches: 174, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
161 174 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (161 bp):
ACTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGACTTCATT
GATTTGGTCTTCTTCTCAATATCTCATCAGGAAGATGACCGCATCACTTATTTCAATCCACTTCT
CTGTATCTCATCAGGAAGACAAATTTGGTCA
Found at i:50047371 original size:3 final size:3
Alignment explanation
Indices: 50047363--50047387 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
50047353 GGTCATCCTT
50047363 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
50047388 ACCTCGATAT
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:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:50055329 original size:59 final size:59
Alignment explanation
Indices: 50055266--50055683 Score: 335
Period size: 59 Copynumber: 7.1 Consensus size: 59
50055256 AGCAAAATAA
* * * *
50055266 TAATTTTTGGATGTTTGAGGGTAAAAACGTAATTCTTGGAAAGTATGGGGTCAAAAATG
1 TAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGGAAAGTTTGGGGTCAAAAATG
* * * *
50055325 TAATTTTTGGACA-TTTAAGGGT-AAAATGGTAATTTTTTGAAATTTTAGGGTCAAAAATG
1 TAATTTTTGGA-AGTTTGAGGGTAAAAAT-GTAATTTTTGGAAAGTTTGGGGTCAAAAATG
* *** * *
50055384 GAATTTTTGGACA-TTTGAGGGT-AAAATGGTAATTTTT-GAAAGTTCAAGGACAAAAAGG
1 TAATTTTTGGA-AGTTTGAGGGTAAAAAT-GTAATTTTTGGAAAGTTTGGGGTCAAAAATG
* * * *
50055442 GAA-TTTAGGAAGTTTGCA-AG-AGAAATGTAATTTTTGGAAAGTTTGGGGTCAAAAATG
1 TAATTTTTGGAAGTTTG-AGGGTAAAAATGTAATTTTTGGAAAGTTTGGGGTCAAAAATG
* * * *
50055499 GAATTTTTGGAAAGTTTG-GGGTTAAAAATGGAATTTTTAG-AAGTTTGGGGGT-AAAAATA
1 TAATTTTTGG-AAGTTTGAGGG-TAAAAATGTAATTTTTGGAAAGTTT-GGGGTCAAAAATG
* * **
50055558 TAATTTTTATGAAGTTTG-GGAGTCAAAACATAATTTTTGGAAAGTTTGGGGT-AAAAATG
1 TAATTTTT-GGAAGTTTGAGG-GTAAAAATGTAATTTTTGGAAAGTTTGGGGTCAAAAATG
* * * * *
50055617 TAAGTTTTAGAAAGTTT-AGGGGTCAAAATGTAATTTTTGGAAAGCTTGGGG-CCAAAATG
1 TAA-TTTTTGGAAGTTTGA-GGGTAAAAATGTAATTTTTGGAAAGTTTGGGGTCAAAAATG
*
50055676 TGATTTTT
1 TAATTTTT
50055684 ATATAGTTTA
Statistics
Matches: 294, Mismatches: 46, Indels: 39
0.78 0.12 0.10
Matches are distributed among these distances:
56 10 0.03
57 34 0.12
58 34 0.12
59 183 0.62
60 33 0.11
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (59 bp):
TAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGGAAAGTTTGGGGTCAAAAATG
Found at i:50055362 original size:30 final size:29
Alignment explanation
Indices: 50055319--50055421 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 29
50055309 TATGGGGTCA
50055319 AAAAT-GTAATTTTTGGACATTTAAGGGT
1 AAAATGGTAATTTTTGGACATTTAAGGGT
* * *
50055347 AAAATGGTAATTTTTTGAAATTTTAGGGT
1 AAAATGGTAATTTTTGGACATTTAAGGGT
*
50055376 CAAAAATGG-AATTTTTGGACATTTGAGGGT
1 --AAAATGGTAATTTTTGGACATTTAAGGGT
50055406 AAAATGGTAATTTTTG
1 AAAATGGTAATTTTTG
50055422 AAAGTTCAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
28 12 0.18
29 28 0.43
30 18 0.28
31 7 0.11
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGACATTTAAGGGT
Found at i:50055498 original size:30 final size:30
Alignment explanation
Indices: 50055266--50055683 Score: 302
Period size: 30 Copynumber: 14.3 Consensus size: 30
50055256 AGCAAAATAA
* *
50055266 TAATTTTTGG-ATGTTTGAGGGT-AAAAACG
1 TAATTTTTGGAAAGTTTG-GGGTCAAAAATG
* *
50055295 TAATTCTTGGAAAGTATGGGGTCAAAAATG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATG
* *
50055325 TAATTTTTGGACA-TTTAAGGGT--AAAATGG
1 TAATTTTTGGAAAGTTT-GGGGTCAAAAAT-G
* * *
50055354 TAATTTTTTGAAATTTTAGGGTCAAAAATG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATG
* *
50055384 GAATTTTTGGACA-TTTGAGGGT--AAAATGG
1 TAATTTTTGGAAAGTTTG-GGGTCAAAAAT-G
*** * *
50055413 TAATTTTT-GAAAGTTCAAGGACAAAAAGG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATG
* * ** *
50055442 GAA-TTTAGG-AAGTTTGCAAG--AGAAATG
1 TAATTTTTGGAAAGTTTG-GGGTCAAAAATG
50055469 TAATTTTTGGAAAGTTTGGGGTCAAAAATG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATG
* *
50055499 GAATTTTTGGAAAGTTTGGGGTTAAAAATG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATG
* * *
50055529 GAATTTTTAG-AAGTTTGGGGGT-AAAAATA
1 TAATTTTTGGAAAGTTT-GGGGTCAAAAATG
*
50055558 TAATTTTTATG-AAGTTTGGGAGTCAAAACA--
1 TAATTTTT-GGAAAGTTTGGG-GTCAAAA-ATG
50055588 TAATTTTTGGAAAGTTTGGGGT-AAAAATG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATG
* *
50055617 TAAGTTTTAGAAAGTTTAGGGGTC-AAAATG
1 TAATTTTTGGAAAGTTT-GGGGTCAAAAATG
* *
50055647 TAATTTTTGGAAAGCTTGGGG-CCAAAATG
1 TAATTTTTGGAAAGTTTGGGGTCAAAAATG
*
50055676 TGATTTTT
1 TAATTTTT
50055684 ATATAGTTTA
Statistics
Matches: 314, Mismatches: 46, Indels: 58
0.75 0.11 0.14
Matches are distributed among these distances:
27 8 0.03
28 34 0.11
29 115 0.37
30 147 0.47
31 9 0.03
32 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (30 bp):
TAATTTTTGGAAAGTTTGGGGTCAAAAATG
Found at i:50057556 original size:6 final size:6
Alignment explanation
Indices: 50057534--50057594 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
50057524 CTTTTATTCT
*
50057534 TTTAAA TTTAGAA --TAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
50057580 -ATAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTA
50057595 CAATAAACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 2 0.04
5 11 0.23
6 32 0.68
7 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:50057556 original size:17 final size:17
Alignment explanation
Indices: 50057534--50057624 Score: 121
Period size: 17 Copynumber: 5.4 Consensus size: 17
50057524 CTTTTATTCT
*
50057534 TTTAAATTTAGAATAAA
1 TTTAAATTTAAAATAAA
* *
50057551 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
50057568 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
50057585 TTTAAATTTACAATAAA
1 TTTAAATTTAAAATAAA
*
50057602 CTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
50057619 TTTAAA
1 TTTAAA
50057625 AATGAGTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
16 3 0.05
17 58 0.92
18 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:50057601 original size:11 final size:11
Alignment explanation
Indices: 50057535--50057592 Score: 66
Period size: 11 Copynumber: 5.2 Consensus size: 11
50057525 TTTTATTCTT
50057535 TTAAATTTAGAA
1 TTAAATTTA-AA
50057547 -TAAATTTAAA
1 TTAAATTTAAA
50057557 CTTAAA-TTAAA
1 -TTAAATTTAAA
50057568 TTTAAATTTAAA
1 -TTAAATTTAAA
*
50057580 ATAAATTTAAA
1 TTAAATTTAAA
50057591 TT
1 TT
50057593 TACAATAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 2 0.05
11 29 0.73
12 9 0.22
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:50057625 original size:11 final size:11
Alignment explanation
Indices: 50057536--50057625 Score: 60
Period size: 11 Copynumber: 8.0 Consensus size: 11
50057526 TTTATTCTTT
*
50057536 TAAATTTAGAA
1 TAAATTTAAAA
*
50057547 TAAATTTAAACT
1 TAAATTTAAA-A
*
50057559 TAAA-TTAAATT
1 TAAATTTAAA-A
50057570 TAAATTTAAAA
1 TAAATTTAAAA
*
50057581 TAAATTTAAATT
1 TAAATTTAAA-A
*
50057593 TACAA--TAAAC
1 TA-AATTTAAAA
*
50057603 TTAATCTTAAAA
1 TAAAT-TTAAAA
50057615 TAAATTTAAAA
1 TAAATTTAAAA
50057626 ATGAGTTTAG
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
9 2 0.03
10 1 0.02
11 39 0.62
12 19 0.30
13 2 0.03
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:50059717 original size:19 final size:19
Alignment explanation
Indices: 50059695--50059744 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
50059685 TATTTTACAT
50059695 ATTTATATTTATTGTTT-TA
1 ATTTATATTTATT-TTTGTA
*
50059714 ATTTTTATTT-TTTTTGTA
1 ATTTATATTTATTTTTGTA
*
50059732 AATTATATGTTAT
1 ATTTATAT-TTAT
50059745 ATAATCAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 3 0.12
18 10 0.40
19 11 0.44
20 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (19 bp):
ATTTATATTTATTTTTGTA
Found at i:50059730 original size:21 final size:22
Alignment explanation
Indices: 50059677--50059730 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
50059667 GAGTTTATCA
*
50059677 ATATTTTTTATTTTACATATTT
1 ATATTTTTTGTTTTACATATTT
* *
50059699 ATATTTATTGTTTTA-ATTTTT
1 ATATTTTTTGTTTTACATATTT
*
50059720 ATTTTTTTTGT
1 ATATTTTTTGT
50059731 AAATTATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
ATATTTTTTGTTTTACATATTT
Found at i:50061161 original size:68 final size:68
Alignment explanation
Indices: 50061082--50061213 Score: 185
Period size: 68 Copynumber: 1.9 Consensus size: 68
50061072 AGATGTCACC
* * *
50061082 ATTAGTGATTTAACGAAAGCGTGACCAAAATATTAAAATTTTG-TAACGTGACTAAAATAGACAT
1 ATTAGTAATTTAACGAAAGCGTGACCAAAATATT-AAATTTCGATAACGTGACTAAAATAAACAT
50061146 CGCT
65 CGCT
* * * *
50061150 ATTAGTAATTTAACGGAGGTGTGACCAAAATATTAAATTTCGATAACGTGACTAAGATAAACAT
1 ATTAGTAATTTAACGAAAGCGTGACCAAAATATTAAATTTCGATAACGTGACTAAAATAAACAT
50061214 TTTTAAACCT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 7 0.12
68 49 0.88
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.30
Consensus pattern (68 bp):
ATTAGTAATTTAACGAAAGCGTGACCAAAATATTAAATTTCGATAACGTGACTAAAATAAACATC
GCT
Found at i:50065547 original size:221 final size:221
Alignment explanation
Indices: 50065164--50065828 Score: 1303
Period size: 221 Copynumber: 3.0 Consensus size: 221
50065154 CATTTGATCT
*
50065164 CTGCATAAGGAAAAGGATTGAATGAAACAGTGACACCACGTTATTTGTGTCCCTTTTCCAATAGT
1 CTGCATAAGGAAAAGGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCCAATAGT
50065229 TTTATGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTTATCCTGAAAAAAATCAAATTAC
66 TTTATGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTTATCCTGAAAAAAATCAAATTAC
50065294 AATTAAAATCCTGAAATTTAGGATGAAATTATTGATGTGTCATAAAACTATTGGAAAGGGATAAT
131 AATTAAAATCCTGAAATTTAGGATGAAATTATTGATGTGTCATAAAACTATTGGAAAGGGATAAT
50065359 ATCCCTGTTTCATACAATCCTTTCTC
196 ATCCCTGTTTCATACAATCCTTTCTC
*
50065385 CTGCATAAGGAAAAGGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGT
1 CTGCATAAGGAAAAGGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCCAATAGT
*
50065450 TTTATGCCATATCAGTATTTTCATTCTTAATTTCAACATTTTTATCCTGAAAAAAATCAAATTAC
66 TTTATGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTTATCCTGAAAAAAATCAAATTAC
50065515 AATTAAAATCCTGAAATTTAGGATGAAATTATTGATGTGTCATAAAACTATTGGAAAGGGATAAT
131 AATTAAAATCCTGAAATTTAGGATGAAATTATTGATGTGTCATAAAACTATTGGAAAGGGATAAT
50065580 ATCCCTGTTTCATACAATCCTTTCTC
196 ATCCCTGTTTCATACAATCCTTTCTC
50065606 CTGCATAAGGAAAAGGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCCAATAGT
1 CTGCATAAGGAAAAGGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCCAATAGT
50065671 TTTATGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTTATCCTGAAAAAAATCAAATTAC
66 TTTATGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTTATCCTGAAAAAAATCAAATTAC
50065736 AATTAAAATCCTGAAATTTAGGATGAAATTATTGATGTGTCATAAAACTATTGGAAAGGGATAAT
131 AATTAAAATCCTGAAATTTAGGATGAAATTATTGATGTGTCATAAAACTATTGGAAAGGGATAAT
50065801 ATCCCTGTTTCATACAATCCTTTCTC
196 ATCCCTGTTTCATACAATCCTTTCTC
50065827 CT
1 CT
50065829 CTGCATAATA
Statistics
Matches: 439, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 439 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (221 bp):
CTGCATAAGGAAAAGGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCCAATAGT
TTTATGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTTATCCTGAAAAAAATCAAATTAC
AATTAAAATCCTGAAATTTAGGATGAAATTATTGATGTGTCATAAAACTATTGGAAAGGGATAAT
ATCCCTGTTTCATACAATCCTTTCTC
Done.