Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 42 of 196
Found at i:11605830 original size:18 final size:18
Alignment explanation
Indices: 11605803--11605838 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11605793 TATTATTAAG
* *
11605803 AATTTTATTAAATTATAT
1 AATTTAATTAAAATATAT
11605821 AATTTAATTAAAATATAT
1 AATTTAATTAAAATATAT
11605839 TTAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTTAATTAAAATATAT
Found at i:11605931 original size:15 final size:16
Alignment explanation
Indices: 11605903--11605932 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11605893 TAAATTCATA
11605903 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
11605919 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
11605933 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:11605954 original size:14 final size:15
Alignment explanation
Indices: 11605928--11605967 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
11605918 TTAAGAATTT
*
11605928 TATTAAATT-ATATA
1 TATTTAATTAATATA
11605942 T-TTTAATTAATATA
1 TATTTAATTAATATA
11605956 TATTTAA-TAATA
1 TATTTAATTAATA
11605968 ATTATGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTAATTAATATA
Found at i:11605957 original size:18 final size:17
Alignment explanation
Indices: 11605924--11605960 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
11605914 ATTATTAAGA
11605924 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
11605941 ATTTTAATT-AA-TATAT
1 ATTTT-ATTAAATTATAT
11605957 ATTT
1 ATTT
11605961 AATAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 7 0.37
18 3 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:11606147 original size:39 final size:41
Alignment explanation
Indices: 11606102--11606207 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
11606092 TTTCCTTATG
*
11606102 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACACAAGAATTAC
*
11606142 C-ATTACGCCTCTATTCCATTCCATTCAACCAAACAGAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACACAAGAATTAC
11606187 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
11606208 ACACCTCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 9 0.16
40 1 0.02
41 8 0.14
42 1 0.02
43 1 0.02
44 23 0.40
45 4 0.07
46 10 0.18
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACACAAGAATTAC
Found at i:11606182 original size:44 final size:46
Alignment explanation
Indices: 11606115--11606207 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
11606105 TTACACCTCT
11606115 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACACAAGAATTACCTATTACGCCTCTATTCC
*
11606159 ATTCCATTCAACCAAACAGAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACACAAGAATTACCTATTACGCCTCTATTCC
11606205 ATT
1 ATT
11606208 ACACCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 23 0.50
45 4 0.09
46 19 0.41
ACGTcount: A:0.35, C:0.31, G:0.05, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACACAAGAATTACCTATTACGCCTCTATTCC
Found at i:11606214 original size:16 final size:16
Alignment explanation
Indices: 11606189--11606242 Score: 99
Period size: 16 Copynumber: 3.4 Consensus size: 16
11606179 AGAATTACCT
*
11606189 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
11606205 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
11606221 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
11606237 ATTACA
1 ATTACA
11606243 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.26, C:0.35, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:11609537 original size:27 final size:27
Alignment explanation
Indices: 11609479--11609540 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
11609469 AAGTGTTTGC
* * *
11609479 AATATAGTCTACCTATAGTAGTCTTAG
1 AATATACTATACCTATAGCAGTCTTAG
*
11609506 TATATACTATACCTATAGCAGT-TTCAG
1 AATATACTATACCTATAGCAGTCTT-AG
11609533 AATATACT
1 AATATACT
11609541 TGGTGTACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (27 bp):
AATATACTATACCTATAGCAGTCTTAG
Found at i:11637500 original size:27 final size:26
Alignment explanation
Indices: 11637470--11637632 Score: 105
Period size: 27 Copynumber: 6.1 Consensus size: 26
11637460 TCGATATCTA
*
11637470 GACCGAAATACCCTCGAAGGATAAAAT
1 GACCGAAATACCCT-GAAGGGTAAAAT
* *
11637497 GACCAAAATACCCTTAATGGGTAAAAT
1 GACCGAAATACCCTGAA-GGGTAAAAT
* *
11637524 GATCGAAATACTCCTGTA-GGTAAGAAT
1 GACCGAAATAC-CCTGAAGGGTAA-AAT
* * * *
11637551 -ACTGAAATACCCTCATAAGTTAAAAT
1 GACCGAAATACCCTGA-AGGGTAAAAT
* *
11637577 GACCGTAATACTCCTGTAGGGTAAAAT
1 GACCGAAATAC-CCTGAAGGGTAAAAT
** * * *
11637604 GAATGTAATGCCCCTGTAGGGTAAAAT
1 GACCGAAAT-ACCCTGAAGGGTAAAAT
11637631 GA
1 GA
11637633 TCGTAATGGC
Statistics
Matches: 107, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
25 3 0.03
26 19 0.18
27 77 0.72
28 8 0.07
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (26 bp):
GACCGAAATACCCTGAAGGGTAAAAT
Found at i:11637638 original size:27 final size:27
Alignment explanation
Indices: 11637571--11637668 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
11637561 CCTCATAAGT
* *
11637571 TAAAATGACCGTAATACTCCTGTAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
**
11637598 TAAAATGAATGTAATGCCCCTGTAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
* * * *
11637625 TAAAATGATCGTAATGGCCCTATAGGT
1 TAAAATGACCGTAATGCCCCTGTAGGG
11637652 TAAAATGACCGTAATGC
1 TAAAATGACCGTAATGC
11637669 TCTGGTGGGT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (27 bp):
TAAAATGACCGTAATGCCCCTGTAGGG
Found at i:11637638 original size:54 final size:53
Alignment explanation
Indices: 11637502--11637639 Score: 138
Period size: 53 Copynumber: 2.6 Consensus size: 53
11637492 AAAATGACCA
* * *
11637502 AAATACCCTTA-ATGGGTAAAATGATCGAAATACTCCTGTAGGTAAGAATACTG
1 AAATACCCTCATA-GGGTAAAATGATCGTAATACTCCTGTAGGTAAGAATAATG
* * *
11637555 AAATACCCTCATAAGTTAAAATGACCGTAATACTCCTGTAGGGTAA-AATGAATG
1 AAATACCCTCATAGGGTAAAATGATCGTAATACTCCTGTA-GGTAAGAAT-AATG
* * *
11637609 TAATGCCC-CTGTAGGGTAAAATGATCGTAAT
1 AAATACCCTC-ATAGGGTAAAATGATCGTAAT
11637640 GGCCCTATAG
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
53 37 0.54
54 32 0.46
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (53 bp):
AAATACCCTCATAGGGTAAAATGATCGTAATACTCCTGTAGGTAAGAATAATG
Found at i:11637959 original size:32 final size:33
Alignment explanation
Indices: 11637906--11638082 Score: 152
Period size: 32 Copynumber: 5.5 Consensus size: 33
11637896 GCTGCGATGC
* *
11637906 TACTGATGGCTTTGTGTCGATCATAGT-ACCGT
1 TACTGATGGCTGTGTGCCGATCATAGTCACCGT
* *
11637938 TACT-AGTGGCTGTGTGCCGATCAT-TTCACTGT
1 TACTGA-TGGCTGTGTGCCGATCATAGTCACCGT
* ** * *
11637970 TACTGATGGTTGTGTGATGATCATA-TCACTGC
1 TACTGATGGCTGTGTGCCGATCATAGTCACCGT
* *
11638002 TACTGATGGCTTTGTG-CGAATCAT-GTTACCGT
1 TACTGATGGCTGTGTGCCG-ATCATAGTCACCGT
* * *
11638034 TACTGATGGTTGTGTGCCGATCATA-TCACTGC
1 TACTGATGGCTGTGTGCCGATCATAGTCACCGT
*
11638066 TACTGATGGCTTTGTGC
1 TACTGATGGCTGTGTGC
11638083 TAATCACATT
Statistics
Matches: 116, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
31 3 0.03
32 110 0.95
33 3 0.03
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (33 bp):
TACTGATGGCTGTGTGCCGATCATAGTCACCGT
Found at i:11637994 original size:64 final size:63
Alignment explanation
Indices: 11637906--11638088 Score: 187
Period size: 64 Copynumber: 2.9 Consensus size: 63
11637896 GCTGCGATGC
*
11637906 TACTGATGGCTT-TGTGTCGATCATAGT-ACCGTTACT-AGTGGCTGTGTGCCG-ATCAT-TTCA
1 TACTGATGG-TTGTGTGT-GATCATA-TCACCGCTACTGA-TGGCTGTGTG-CGAATCATGTT-A
*
11637966 CTGT
60 CCGT
* *
11637970 TACTGATGGTTGTGTGATGATCATATCACTGCTACTGATGGCTTTGTGCGAATCATGTTACCGT
1 TACTGATGGTTGTGTG-TGATCATATCACCGCTACTGATGGCTGTGTGCGAATCATGTTACCGT
* * * *
11638034 TACTGATGGTTGTGTGCCGATCATATCACTGCTACTGATGGCTTTGTGCTAATCA
1 TACTGATGGTTGTGTG-TGATCATATCACCGCTACTGATGGCTGTGTGCGAATCA
11638089 CATTACTGTA
Statistics
Matches: 106, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
63 5 0.05
64 97 0.92
65 4 0.04
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (63 bp):
TACTGATGGTTGTGTGTGATCATATCACCGCTACTGATGGCTGTGTGCGAATCATGTTACCGT
Found at i:11638070 original size:96 final size:96
Alignment explanation
Indices: 11637903--11638108 Score: 269
Period size: 96 Copynumber: 2.2 Consensus size: 96
11637893 CTTGCTGCGA
*
11637903 TGCTACTGATGGCTTTGTGTCGATCATAGTACCGTTACTAGTGGCTGTGTGCCGATCATTTCACT
1 TGCTACTGATGGCTTTGTGTCGATCATAGTACCGTTACTAGTGGCTGTGTGCCGATCATATCACT
* * *
11637968 GTTACTGATGG-TTGTGTGATGATCATATCAC
66 GCTACTGATGGCTT-TGTGATAATCACATCAC
*
11637999 TGCTACTGATGGCTTTGTG-CGAATCAT-GTTACCGTTACT-GATGGTTGTGTGCCGATCATATC
1 TGCTACTGATGGCTTTGTGTCG-ATCATAG-TACCGTTACTAG-TGGCTGTGTGCCGATCATATC
* *
11638061 ACTGCTACTGATGGCTTTGTGCTAATCACATTAC
63 ACTGCTACTGATGGCTTTGTGATAATCACATCAC
*
11638095 TG-TACTTATGGCTT
1 TGCTACTGATGGCTT
11638109 GTAGTCATTC
Statistics
Matches: 98, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
95 15 0.15
96 81 0.83
97 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (96 bp):
TGCTACTGATGGCTTTGTGTCGATCATAGTACCGTTACTAGTGGCTGTGTGCCGATCATATCACT
GCTACTGATGGCTTTGTGATAATCACATCAC
Found at i:11638373 original size:28 final size:28
Alignment explanation
Indices: 11638339--11638405 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
11638329 TAACGGGCAG
11638339 AGGCCCACACTATTTCTATATTGGGCTA
1 AGGCCCACACTATTTCTATATTGGGCTA
*
11638367 AGGCCCACACTATTTCTGTATTGGGCTA
1 AGGCCCACACTATTTCTATATTGGGCTA
11638395 AGGCCCACACT
1 AGGCCCACACT
11638406 GTACTATTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (28 bp):
AGGCCCACACTATTTCTATATTGGGCTA
Found at i:11641292 original size:17 final size:17
Alignment explanation
Indices: 11641251--11641299 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
11641241 TCATTTATAT
*
11641251 ACATATAATATATATAC
1 ACATATAATATATACAC
*
11641268 ACACATAATATATACAC
1 ACATATAATATATACAC
11641285 A-ATTATAATAATATA
1 ACA-TATAAT-ATATA
11641300 AAAAATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 21 0.78
18 5 0.19
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (17 bp):
ACATATAATATATACAC
Found at i:11644753 original size:21 final size:21
Alignment explanation
Indices: 11644720--11644768 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
11644710 ATCATGTTAT
*
11644720 TTAT-TTTTATTTGATTTTG-
1 TTATGTTTTATTTGAATTTGA
11644739 TTATGTTTATATTTGAATTTGAA
1 TTATGTTT-TATTTGAATTTG-A
11644762 TTATGTT
1 TTATGTT
11644769 AGCACCACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 3 0.12
21 11 0.44
23 7 0.28
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.65
Consensus pattern (21 bp):
TTATGTTTTATTTGAATTTGA
Found at i:11645746 original size:23 final size:23
Alignment explanation
Indices: 11645720--11645765 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11645710 GAGTGTATAA
*
11645720 ATGTATGCATATGAAT-TATTTTG
1 ATGTATGAAT-TGAATGTATTTTG
*
11645743 ATGTTTGAATTGAATGTATTTTG
1 ATGTATGAATTGAATGTATTTTG
11645766 TTATAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (23 bp):
ATGTATGAATTGAATGTATTTTG
Found at i:11646887 original size:14 final size:14
Alignment explanation
Indices: 11646868--11646901 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11646858 ATTTTCTTCA
11646868 CTTGAACCCTGCAC
1 CTTGAACCCTGCAC
*
11646882 CTTGAATCCTGCAC
1 CTTGAACCCTGCAC
11646896 CTTGAA
1 CTTGAA
11646902 ACTTAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (14 bp):
CTTGAACCCTGCAC
Found at i:11650601 original size:3 final size:3
Alignment explanation
Indices: 11650593--11650630 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11650583 ACAACCTTGA
11650593 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11650631 AACAAAGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11654531 original size:43 final size:43
Alignment explanation
Indices: 11654486--11654746 Score: 195
Period size: 43 Copynumber: 6.1 Consensus size: 43
11654476 GGACAGGACG
* * *
11654486 AAGTAATTATACTGGTACACATAGTACATCATTGGATAAACCG
1 AAGTAATTATACTGGCACACATAGTGCATCATTGGATAAACCA
* ** ** ** *
11654529 AAGCAATTATGTTGGCACGTA-AGTGCATCATTGGATGTACCG
1 AAGTAATTATACTGGCACACATAGTGCATCATTGGATAAACCA
* * * * * *
11654571 AAGAAAATATA-TCG-ACATATAAGTGCATCATAGGATATACCA
1 AAGTAATTATACTGGCACACAT-AGTGCATCATTGGATAAACCA
* ** * * * **
11654613 AAGCAATTATACTAACACACATAGTGCATTATCGGACAAGTCA
1 AAGTAATTATACTGGCACACATAGTGCATCATTGGATAAACCA
* * * * ***
11654656 AATTAATTATACTAGCACACACAGTGCATCATTGGACAAGGTA
1 AAGTAATTATACTGGCACACATAGTGCATCATTGGATAAACCA
*
11654699 AAGTAATTATACTGGCACACATAGTGCATCATTGGATAAATCA
1 AAGTAATTATACTGGCACACATAGTGCATCATTGGATAAACCA
11654742 AAGTA
1 AAGTA
11654747 TAAATTGTAC
Statistics
Matches: 171, Mismatches: 43, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
40 4 0.02
41 2 0.01
42 53 0.31
43 107 0.63
44 5 0.03
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (43 bp):
AAGTAATTATACTGGCACACATAGTGCATCATTGGATAAACCA
Found at i:11654564 original size:42 final size:42
Alignment explanation
Indices: 11654484--11654623 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 42
11654474 TCGGACAGGA
* * * *
11654484 CGAAGTAATTATACTGGTACACAT-AGTACATCATTGGATAAAC
1 CGAAGCAATTATA-TCG-ACACATAAGTGCATCATTGGATATAC
* * * * *
11654527 CGAAGCAATTATGTTGGCACGTAAGTGCATCATTGGATGTAC
1 CGAAGCAATTATATCGACACATAAGTGCATCATTGGATATAC
* * * *
11654569 CGAAGAAAATATATCGACATATAAGTGCATCATAGGATATAC
1 CGAAGCAATTATATCGACACATAAGTGCATCATTGGATATAC
*
11654611 CAAAGCAATTATA
1 CGAAGCAATTATA
11654624 CTAACACACA
Statistics
Matches: 76, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
41 4 0.05
42 61 0.80
43 11 0.14
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (42 bp):
CGAAGCAATTATATCGACACATAAGTGCATCATTGGATATAC
Found at i:11659402 original size:46 final size:47
Alignment explanation
Indices: 11659338--11659428 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 47
11659328 CTTTGAATTG
* *
11659338 CGAACTCAAATCTCAAACCATAAATTTCAAATCTCAAAC-TCGAACT
1 CGAACTCAAATCTCAAACCATAAATCTCAAACCTCAAACTTCGAACT
* * *
11659384 CGAACTCGAA-CTCTAAACCTTAAATCTCAAACCTTAAACTTCGAA
1 CGAACTCAAATCTC-AAACCATAAATCTCAAACCTCAAACTTCGAA
11659429 ACTTAAACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
45 3 0.08
46 30 0.79
47 5 0.13
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.24
Consensus pattern (47 bp):
CGAACTCAAATCTCAAACCATAAATCTCAAACCTCAAACTTCGAACT
Found at i:11661324 original size:14 final size:14
Alignment explanation
Indices: 11661305--11661331 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11661295 AAAATAAAAA
11661305 AAAATATTAGAATT
1 AAAATATTAGAATT
11661319 AAAATATTAGAAT
1 AAAATATTAGAAT
11661332 CACAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAATATTAGAATT
Found at i:11661338 original size:14 final size:14
Alignment explanation
Indices: 11661305--11661338 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11661295 AAAATAAAAA
*
11661305 AAAATATTAGAATT
1 AAAATATTAGAATC
11661319 AAAATATTAGAATC
1 AAAATATTAGAATC
*
11661333 ACAATA
1 AAAATA
11661339 AAACAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
AAAATATTAGAATC
Found at i:11662297 original size:7 final size:7
Alignment explanation
Indices: 11662285--11662315 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
11662275 TAGTTGAACA
11662285 AATTGCT
1 AATTGCT
11662292 AATTGCT
1 AATTGCT
11662299 AATTGCT
1 AATTGCT
11662306 AATTGCT
1 AATTGCT
11662313 AAT
1 AAT
11662316 CGCTTAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (7 bp):
AATTGCT
Found at i:11663551 original size:24 final size:23
Alignment explanation
Indices: 11663514--11663569 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
11663504 GAGAAGAAAA
**
11663514 AAAATAAAAGAAAAAGGAAAGACGG
1 AAAA-AAAAGAAAAAAAAAAGA-GG
* *
11663539 TAAAAAAATAAAAAAAAAAGAGG
1 AAAAAAAAGAAAAAAAAAAGAGG
11663562 AAAAAAAA
1 AAAAAAAA
11663570 AGGATTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (23 bp):
AAAAAAAAGAAAAAAAAAAGAGG
Found at i:11663675 original size:31 final size:30
Alignment explanation
Indices: 11663618--11663680 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
11663608 AAATTCTATT
*
11663618 TTTTCGAAAAATTTAAAATTTTAAAAAATA
1 TTTTCGAAAAATTTAAAATTTAAAAAAATA
* *
11663648 TTTTCTAAAAATTTTAATAA-TTAAAAAATTA
1 TTTTCGAAAAA-TTTAA-AATTTAAAAAAATA
11663679 TT
1 TT
11663681 AAATTTTGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 10 0.36
31 16 0.57
32 2 0.07
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (30 bp):
TTTTCGAAAAATTTAAAATTTAAAAAAATA
Found at i:11665802 original size:14 final size:14
Alignment explanation
Indices: 11665791--11665820 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11665781 TTAAAATGTT
11665791 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
11665804 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
11665818 TTT
1 TTT
11665821 ACTTTTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:11665964 original size:20 final size:20
Alignment explanation
Indices: 11665941--11665979 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11665931 ATTTTTACAT
11665941 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
11665961 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
11665980 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:11667284 original size:32 final size:32
Alignment explanation
Indices: 11667238--11667302 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
11667228 TGTCAATCAT
11667238 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
11667270 TTCAATATCTAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
11667302 T
1 T
11667303 ATCTAACATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:11667305 original size:27 final size:29
Alignment explanation
Indices: 11667241--11667310 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 29
11667231 CAATCATTTC
*
11667241 AATATCCAACAAGCTTAAAACATAATAAATT
1 AATATCTAACAAGCTTAAAACATAAT-AA-T
11667272 CAATATCTAACAAGCTTAAAACATAAT-A-
1 -AATATCTAACAAGCTTAAAACATAATAAT
11667300 AATATCTAACA
1 AATATCTAACA
11667311 TTCAAGACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 11 0.30
30 1 0.03
32 25 0.68
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.26
Consensus pattern (29 bp):
AATATCTAACAAGCTTAAAACATAATAAT
Found at i:11668923 original size:23 final size:21
Alignment explanation
Indices: 11668878--11668924 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
11668868 AGATGCAAGC
* *
11668878 TATTAAAAGCAAAAGATATAA
1 TATTAAAAGCAAAAAAAATAA
11668899 TATTAAAAGCTAAAAAAAATGAA
1 TATTAAAAGC-AAAAAAAAT-AA
11668922 TAT
1 TAT
11668925 AGCTCATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 7 0.32
23 5 0.23
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.26
Consensus pattern (21 bp):
TATTAAAAGCAAAAAAAATAA
Found at i:11673149 original size:24 final size:24
Alignment explanation
Indices: 11673122--11673173 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11673112 TTTCTAGAAG
* **
11673122 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
11673146 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
11673170 ATTT
1 ATTT
11673174 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:11676740 original size:19 final size:18
Alignment explanation
Indices: 11676716--11676751 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
11676706 CATGCTTTCT
11676716 ATTCACATTTTCATATTCA
1 ATTCACATTTT-ATATTCA
11676735 ATTCACATTTTATATTC
1 ATTCACATTTTATATTC
11676752 CACAATCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTCACATTTTATATTCA
Found at i:11677978 original size:22 final size:21
Alignment explanation
Indices: 11677953--11677993 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
11677943 TCTTTTTCTA
11677953 TTTGTTTTATCTATTTATTTGT
1 TTTGTTTTATCT-TTTATTTGT
11677975 TTTGTTTTATCTTTTATTT
1 TTTGTTTTATCTTTTATTT
11677994 TACTTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (21 bp):
TTTGTTTTATCTTTTATTTGT
Found at i:11678299 original size:29 final size:29
Alignment explanation
Indices: 11678257--11678313 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
11678247 ATCTTTTCTT
*
11678257 AATTTATTTCATAATATAATAATATAATC
1 AATTTATTTCATAATATAATAAAATAATC
11678286 AATTTAATTT-ATAATATAATAAAATAAT
1 AATTT-ATTTCATAATATAATAAAATAAT
11678314 AACAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTTATTTCATAATATAATAAAATAATC
Found at i:11678334 original size:37 final size:37
Alignment explanation
Indices: 11678267--11678337 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
11678257 AATTTATTTC
* * *
11678267 ATAATATAATAATATAATCAATTTAATTTATAATATA
1 ATAAAATAATAAAATAATCAATATAATTTATAATATA
*
11678304 ATAAAATAATAACAATAAT-AATATATTTTATAAT
1 ATAAAATAATAA-AATAATCAATATAATTTATAAT
11678338 TAAACAGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 24 0.83
38 5 0.17
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (37 bp):
ATAAAATAATAAAATAATCAATATAATTTATAATATA
Found at i:11681736 original size:38 final size:38
Alignment explanation
Indices: 11681694--11681768 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
11681684 TCTTTTCACA
11681694 GCAATCCAAAATCACTCCATGTTCAGATAACCAATCCG
1 GCAATCCAAAATCACTCCATGTTCAGATAACCAATCCG
11681732 GCAATCCAAAATCACTCCATGTTCAGATAACCAATCC
1 GCAATCCAAAATCACTCCATGTTCAGATAACCAATCC
11681769 ATCCCTAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.32, G:0.09, T:0.21
Consensus pattern (38 bp):
GCAATCCAAAATCACTCCATGTTCAGATAACCAATCCG
Found at i:11684270 original size:18 final size:18
Alignment explanation
Indices: 11684247--11684281 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11684237 CATGCTTTCT
11684247 ATTCACATTTCATATTCA
1 ATTCACATTTCATATTCA
*
11684265 ATTCACATTTTATATTC
1 ATTCACATTTCATATTC
11684282 CACAATCACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTCACATTTCATATTCA
Found at i:11685255 original size:29 final size:29
Alignment explanation
Indices: 11685207--11685264 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
11685197 TTAAGCAATT
11685207 CTAATCAATAATTCTATCAA-ATAAACCC
1 CTAATCAATAATTCTATCAACATAAACCC
* *
11685235 CTAATTCAATCATT-TATTCAACATGAACCC
1 CTAA-TCAATAATTCTA-TCAACATAAACCC
11685265 TACTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (29 bp):
CTAATCAATAATTCTATCAACATAAACCC
Found at i:11685522 original size:22 final size:22
Alignment explanation
Indices: 11685494--11685535 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
11685484 TCTTTTTCTA
11685494 TTTG-TTTTATCTATTTATTTGT
1 TTTGTTTTTATCT-TTTATTTGT
11685516 TTTGTTTTTATCTTTTATTT
1 TTTGTTTTTATCTTTTATTT
11685536 TACTTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (22 bp):
TTTGTTTTTATCTTTTATTTGT
Found at i:11690551 original size:24 final size:24
Alignment explanation
Indices: 11690517--11690568 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11690507 TTTCAAGAAG
* **
11690517 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
11690541 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
11690565 ATTT
1 ATTT
11690569 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:11692886 original size:51 final size:52
Alignment explanation
Indices: 11692826--11693046 Score: 236
Period size: 51 Copynumber: 4.3 Consensus size: 52
11692816 TTCGGTGGGT
* *
11692826 TGCACATAGTACCACCCATGTGACCATTGTC-ATCCGATACACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* * * * * *
11692877 TGCACATAGTACTACACATGTGATCA-AG-CTTTTCGGTTCACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* ** * * * * *
11692927 TACACATAGTACTACACACATGACCA-AGGCCATCCGGTACACATAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* *
11692978 TGCACATAGTACTACACATGTGATCATTATCTAT-CGATACACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
*
11693029 TGCACTTAGTACTACACA
1 TGCACATAGTACTACACA
11693047 CGTGTTCATA
Statistics
Matches: 139, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
49 1 0.01
50 41 0.29
51 94 0.68
52 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (52 bp):
TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
Found at i:11693003 original size:101 final size:101
Alignment explanation
Indices: 11692856--11693047 Score: 287
Period size: 101 Copynumber: 1.9 Consensus size: 101
11692846 TGACCATTGT
* * * *
11692856 CATCCGATACACGTAGTAGCCTGCACATAGTACTACACATGTGATCA-AGCTTTTCGGTTCACGT
1 CATCCGATACACATAGTAGCCTGCACATAGTACTACACATGTGATCATAGC-TATCGATACACGT
11692920 AGTAGCCTACACATAGTACTACACACATGACCAAGGC
65 AGTAGCCTACACATAGTACTACACACATGACCAAGGC
* *
11692957 CATCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGATCATTATCTATCGATACACGT
1 CATCCGATACACATAGTAGCCTGCACATAGTACTACACATGTGATCA-TAGCTATCGATACACGT
* *
11693022 AGTAGCCTGCACTTAGTACTACACAC
65 AGTAGCCTACACATAGTACTACACAC
11693048 GTGTTCATAG
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 45 0.56
102 34 0.42
103 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
CATCCGATACACATAGTAGCCTGCACATAGTACTACACATGTGATCATAGCTATCGATACACGTA
GTAGCCTACACATAGTACTACACACATGACCAAGGC
Found at i:11700825 original size:54 final size:54
Alignment explanation
Indices: 11700754--11700948 Score: 223
Period size: 54 Copynumber: 3.5 Consensus size: 54
11700744 CCTTACAGTG
*
11700754 GGATTACCAATCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
* * * * * *
11700808 GGATTACCAGTCAAGGCTAAATCCCCAGCAATGACAATTACTC-TAATGAGCT-TGGATCT
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAAT-ATAA--ACTCAT-A-GAG-TATTG-TCA
* * *
11700867 GAATTACCAGTCCAGGATAAATCCCCTGTAATATAAACTCATAGAGTATTGTCG
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
11700921 GGATTACCAGTCCAGGCTAAATCCCCTG
1 GGATTACCAGTCCAGGCTAAATCCCCTG
11700949 CAATGACAAT
Statistics
Matches: 115, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
54 57 0.50
55 8 0.07
56 6 0.05
57 6 0.05
58 8 0.07
59 30 0.26
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
Found at i:11700954 original size:113 final size:113
Alignment explanation
Indices: 11700756--11701001 Score: 447
Period size: 113 Copynumber: 2.2 Consensus size: 113
11700746 TTACAGTGGG
*
11700756 ATTACCAATCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCA
1 ATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCA
11700821 AGGCTAAATCCCCAGCAATGACAATTACTCTAATGAGCTTGGATCTGA
66 AGGCTAAATCCCCAGCAATGACAATTACTCTAATGAGCTTGGATCTGA
* * *
11700869 ATTACCAGTCCAGGATAAATCCCCTGTAATATAAACTCATAGAGTATTGTCGGGATTACCAGTCC
1 ATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCA
*
11700934 AGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
66 AGGCTAAATCCCCAGCAATGACAATTACTCTAATGAGCTTGGATCTGA
11700982 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
11701002 TCAGACCCTA
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 127 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (113 bp):
ATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCA
AGGCTAAATCCCCAGCAATGACAATTACTCTAATGAGCTTGGATCTGA
Found at i:11711141 original size:50 final size:51
Alignment explanation
Indices: 11711070--11711257 Score: 195
Period size: 51 Copynumber: 3.7 Consensus size: 51
11711060 TGTCATCCGA
* *
11711070 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAA-GCTTTCAGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGCATTCAGG
* * *
11711120 TGCATGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGCATTCCGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGCATTCAGG
* ** * * *
11711171 TACACATAGTAGCCTGGACATAGTACTACACATGTGACCATTA-TC-TATCA-A
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCA--AGGCAT-TCAGG
* * *
11711222 TACACGTAGTAGGCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTG
11711258 CTCATAGGTA
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 38 0.33
51 73 0.63
52 3 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (51 bp):
TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGCATTCAGG
Found at i:11713921 original size:46 final size:46
Alignment explanation
Indices: 11713854--11713941 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
11713844 ATATGTGCAG
* *
11713854 TGTGGGCCTTAGCTAATTACAGT-ATCAGAATCAGAAATAGAATACA
1 TGTGGGCCTAAGCCAATTACAGTGA-CAGAATCAGAAATAGAATACA
*
11713900 TGTGGGCCTAAGCCCAA-TACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAG-CCAATTACAGTGACAGAATCAGAAATAGAA
11713942 ATGCAACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 33 0.89
47 4 0.11
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.23
Consensus pattern (46 bp):
TGTGGGCCTAAGCCAATTACAGTGACAGAATCAGAAATAGAATACA
Found at i:11714212 original size:32 final size:31
Alignment explanation
Indices: 11714157--11714295 Score: 154
Period size: 32 Copynumber: 4.4 Consensus size: 31
11714147 GAATGACTAC
* * *
11714157 AAGCCATAAGTACAGTAATATGATTGGCACA
1 AAGCCATCAGTACAGTAATATGATCGACACA
* *
11714188 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTA-CAGTAATATGATCGACACA
* * * *
11714220 TAGGCATCAGTAACGGTAATATGATCAACACA
1 AAGCCATCAGT-ACAGTAATATGATCGACACA
11714252 AAGCCATCAGTA-ATGATAATATGATCGACACA
1 AAGCCATCAGTACA-G-TAATATGATCGACACA
11714284 AAGCCATCAGTA
1 AAGCCATCAGTA
11714296 GCATCGTAGC
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
31 13 0.14
32 77 0.85
33 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (31 bp):
AAGCCATCAGTACAGTAATATGATCGACACA
Found at i:11714492 original size:11 final size:11
Alignment explanation
Indices: 11714476--11714518 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
11714466 AATCAGTCAT
11714476 ACAAATCACAA
1 ACAAATCACAA
*
11714487 ACAAATCAGTCAT
1 ACAAATCA--CAA
*
11714500 ACCAATCACAA
1 ACAAATCACAA
11714511 ACAAATCA
1 ACAAATCA
11714519 GTCATTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.56, C:0.28, G:0.02, T:0.14
Consensus pattern (11 bp):
ACAAATCACAA
Found at i:11714498 original size:24 final size:24
Alignment explanation
Indices: 11714466--11714523 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
11714456 CCATGCTCAG
11714466 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
*
11714490 AATCAGTCATACCAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
11714514 AATCAGTCAT
1 AATCAGTCAT
11714524 TTACATCACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.50, C:0.26, G:0.05, T:0.19
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:11714531 original size:24 final size:24
Alignment explanation
Indices: 11714466--11714552 Score: 88
Period size: 24 Copynumber: 3.6 Consensus size: 24
11714456 CCATGCTCAG
** *
11714466 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATTTACATCACAAACA
11714490 AATCAGTCA--TACCAATCACAAACA
1 AATCAGTCATTTA-C-ATCACAAACA
**
11714514 AATCAGTCATTTACATCACCGACA
1 AATCAGTCATTTACATCACAAACA
*
11714538 AATCAATCATTTACA
1 AATCAGTCATTTACA
11714553 CTCGAGGGGC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
22 1 0.02
24 50 0.93
25 1 0.02
26 2 0.04
ACGTcount: A:0.47, C:0.26, G:0.05, T:0.22
Consensus pattern (24 bp):
AATCAGTCATTTACATCACAAACA
Found at i:11714625 original size:27 final size:28
Alignment explanation
Indices: 11714589--11714660 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
11714579 CTCTAGGGGC
* *
11714589 ATTACGGTCATTTTACCTGAA-AAGGGT
1 ATTACAGTCATTTTACCTCAATAAGGGT
* *
11714616 ATTTCAGTCATTTTACC-CAATGAGGGT
1 ATTACAGTCATTTTACCTCAATAAGGGT
11714643 ATTACAGTCATTTTACCT
1 ATTACAGTCATTTTACCT
11714661 TACAGGGGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (28 bp):
ATTACAGTCATTTTACCTCAATAAGGGT
Found at i:11714673 original size:27 final size:27
Alignment explanation
Indices: 11714583--11714695 Score: 79
Period size: 27 Copynumber: 4.1 Consensus size: 27
11714573 TTTACCCTCT
* * *
11714583 AGGGGCATTACGGTCATTTTACCTGAA
1 AGGGGCATTACAGTCATTTTACCTTAC
* * * *
11714610 AAGGGTATTTCAGTCATTTTACC-CA-
1 AGGGGCATTACAGTCATTTTACCTTAC
*
11714635 ATGAGGGTATTACAGTCATTTTACCTTAC
1 A-G-GGGCATTACAGTCATTTTACCTTAC
* *
11714664 AGGGGCATTA-TGATCATTTTACCCTAC
1 AGGGGCATTACAG-TCATTTTACCTTAC
11714691 GAGGG
1 -AGGG
11714696 TATTTCGATC
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.01
26 2 0.03
27 59 0.86
28 6 0.09
29 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (27 bp):
AGGGGCATTACAGTCATTTTACCTTAC
Found at i:11714705 original size:27 final size:27
Alignment explanation
Indices: 11714611--11714978 Score: 385
Period size: 27 Copynumber: 13.7 Consensus size: 27
11714601 TTACCTGAAA
11714611 AGGGTATTTC-AGTCATTTTACCCAAT-G
1 AGGGTATTTCGA-TCATTTTACCC-ATCG
* *
11714638 AGGGTATTAC-AGTCATTTTA-CCTTAC-
1 AGGGTATTTCGA-TCATTTTACCCAT-CG
*
11714664 AGGGGCATTAT-GATCATTTTACCC-TACG
1 A-GGGTATT-TCGATCATTTTACCCAT-CG
*
11714692 AGGGTATTTCGATCATTTTACCGATCG
1 AGGGTATTTCGATCATTTTACCCATCG
* * *
11714719 AGGATATTT-TAGTAATTTTACCCATCG
1 AGGGTATTTCGA-TCATTTTACCCATCG
**
11714746 AGGGTATTTCGATCATTTTATTCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
* *
11714773 AGGGTATTTCAATAATTTTACCCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
*
11714800 AGGGTAGTTCGATCATTTTACCCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
* *
11714827 AGGGTATTTTGGTCATTTTACCCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
*
11714854 AGGGTATTTCAATCATTTTACCCATC-
1 AGGGTATTTCGATCATTTTACCCATCG
*
11714880 AGGGTATTTCGATCATTTTACCCAGCG
1 AGGGTATTTCGATCATTTTACCCATCG
* * * *
11714907 GGGGCATTTTGGTCATTTTACCCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
* *
11714934 AGGGTATTTCGGTAATTTTACCCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
* *
11714961 AGGTTTTTTCGATCATTT
1 AGGGTATTTCGATCATTT
11714979 AACAAATATT
Statistics
Matches: 286, Mismatches: 43, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.00
26 29 0.10
27 250 0.87
28 6 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATCATTTTACCCATCG
Found at i:11716751 original size:40 final size:41
Alignment explanation
Indices: 11716692--11716783 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 41
11716682 GATTCCCTTC
11716692 CATTTTCTGTCTGT-TTGTTTCTAGTTAATCCGGGTAACTT
1 CATTTTCTGTCTGTCTTGTTTCTAGTTAATCCGGGTAACTT
* *
11716732 CATTTTCTGTCTAGCTGTTTGTTTCTGGTTAATCCGGGTAACTT
1 CATTTTCTGTCT-G-T-CTTGTTTCTAGTTAATCCGGGTAACTT
11716776 CATTTTCT
1 CATTTTCT
11716784 TGTTCTTGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
40 12 0.26
41 1 0.02
42 1 0.02
44 33 0.70
ACGTcount: A:0.14, C:0.18, G:0.17, T:0.50
Consensus pattern (41 bp):
CATTTTCTGTCTGTCTTGTTTCTAGTTAATCCGGGTAACTT
Found at i:11717955 original size:11 final size:11
Alignment explanation
Indices: 11717939--11717973 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
11717929 TTTTCCAAAC
11717939 TTGTTTTTTTT
1 TTGTTTTTTTT
*
11717950 TTGTTTTTGTT
1 TTGTTTTTTTT
11717961 TTGTTTTTTTT
1 TTGTTTTTTTT
11717972 TT
1 TT
11717974 TTTGCGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (11 bp):
TTGTTTTTTTT
Found at i:11718558 original size:5 final size:5
Alignment explanation
Indices: 11718548--11718577 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
11718538 TTGCTTTTAG
11718548 AATTT AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT
11718578 TACTTTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:11718678 original size:73 final size:73
Alignment explanation
Indices: 11718593--11718740 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
11718583 TGTACAATAT
11718593 TTTGCAATTAAATGCAGGATTAGTAGATTTTCTAGATGATAATTTGTGTCATTATCTCAAAACAT
1 TTTGCAATTAAATGCAGGATTAGTAGATTTTCTAGATGATAATTTGTGTCATTATCTCAAAACAT
11718658 TGCTATGA
66 TGCTATGA
11718666 TTTGCAATTAAATGCAGGATTAGTAGATTTTCTAGATGATAATTTGTGTCATTATCTCAAAACAT
1 TTTGCAATTAAATGCAGGATTAGTAGATTTTCTAGATGATAATTTGTGTCATTATCTCAAAACAT
11718731 TGCTATGA
66 TGCTATGA
11718739 TT
1 TT
11718741 ATTGATTCCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (73 bp):
TTTGCAATTAAATGCAGGATTAGTAGATTTTCTAGATGATAATTTGTGTCATTATCTCAAAACAT
TGCTATGA
Found at i:11720786 original size:22 final size:23
Alignment explanation
Indices: 11720761--11720815 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
11720751 TGTACTATGA
*
11720761 TGCCTACTGATTCA-CACTTCGG
1 TGCCTACTGATTAATCACTTCGG
* *
11720783 TGCCTACT-ACTAATCACTTTGG
1 TGCCTACTGATTAATCACTTCGG
11720805 TGCCTACTGAT
1 TGCCTACTGAT
11720816 ATGGTGTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.11
22 23 0.85
23 1 0.04
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (23 bp):
TGCCTACTGATTAATCACTTCGG
Found at i:11721460 original size:16 final size:16
Alignment explanation
Indices: 11721439--11721469 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11721429 TTCATTATTA
*
11721439 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
11721455 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
11721470 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:11730832 original size:68 final size:70
Alignment explanation
Indices: 11730723--11730851 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 70
11730713 TTTTAATAGT
*
11730723 TTAATATTAAATTAAATTTAATACTTATATTAATAGCATTTT-ATTA-ATTTAATATTAAAGTAA
1 TTAATATTAAATTAAATTTAATACTTATATTAATAGCATTTTAATAAGATTTAATATTAAAGTAA
11730786 TTATC
66 TTATC
** * ** *
11730791 TTAATATTAAATTAAATTTAATGTTTATCATT-CTATTATTTTAATAAGATTTACTATTAAA
1 TTAATATTAAATTAAATTTAATACTTAT-ATTAATAGCATTTTAATAAGATTTAATATTAAA
11730852 TTTAATCTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
68 33 0.65
69 6 0.12
70 12 0.24
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.50
Consensus pattern (70 bp):
TTAATATTAAATTAAATTTAATACTTATATTAATAGCATTTTAATAAGATTTAATATTAAAGTAA
TTATC
Found at i:11730914 original size:15 final size:17
Alignment explanation
Indices: 11730853--11730913 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
11730843 ACTATTAAAT
11730853 TTAATCTAATATTTATC
1 TTAATCTAATATTTATC
11730870 TTAATCTAATATTTATC
1 TTAATCTAATATTTATC
* * *
11730887 TTGAT-AAATA-TTATA
1 TTAATCTAATATTTATC
11730902 TTAAT-TAATATT
1 TTAATCTAATATT
11730914 AAAGTGATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
15 12 0.32
16 5 0.13
17 21 0.55
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAATCTAATATTTATC
Found at i:11745726 original size:11 final size:13
Alignment explanation
Indices: 11745702--11745733 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11745692 TAGTTTATTA
11745702 ATATTTTAATATG
1 ATATTTTAATATG
11745715 AT-TTTTAA-ATG
1 ATATTTTAATATG
11745726 ATATTTTA
1 ATATTTTA
11745734 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:11747718 original size:2 final size:2
Alignment explanation
Indices: 11747711--11747738 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11747701 CAAAAACAAG
11747711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11747739 GTAAAATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11758413 original size:29 final size:29
Alignment explanation
Indices: 11758377--11758440 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
11758367 AGCTCCATCC
11758377 AACAAATAGGTGTTCTACAGCTTCTACCA
1 AACAAATAGGTGTTCTACAGCTTCTACCA
11758406 AACAAATAGGTGTTCTACAGCTTCTACCA
1 AACAAATAGGTGTTCTACAGCTTCTACCA
11758435 AACAAA
1 AACAAA
11758441 GCTTCGAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.25
Consensus pattern (29 bp):
AACAAATAGGTGTTCTACAGCTTCTACCA
Found at i:11766802 original size:30 final size:30
Alignment explanation
Indices: 11766767--11766827 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11766757 AGATGTTATT
11766767 TTTAATGAAACTTTTATGTTGTCTAACTTA
1 TTTAATGAAACTTTTATGTTGTCTAACTTA
11766797 TTTAATGAAACTTTTATGTTGTCTAACTTA
1 TTTAATGAAACTTTTATGTTGTCTAACTTA
11766827 T
1 T
11766828 CTCTTAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.51
Consensus pattern (30 bp):
TTTAATGAAACTTTTATGTTGTCTAACTTA
Found at i:11782692 original size:21 final size:21
Alignment explanation
Indices: 11782659--11782699 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11782649 GTCCTCCTAT
*
11782659 TTTTCTTTAATTTTATTTTTG
1 TTTTATTTAATTTTATTTTTG
*
11782680 TTTTATTTTATTTTATTTTT
1 TTTTATTTAATTTTATTTTT
11782700 TTATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTATTTAATTTTATTTTTG
Found at i:11782699 original size:16 final size:16
Alignment explanation
Indices: 11782656--11782710 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
11782646 CTAGTCCTCC
* *
11782656 TATTTTTCTTTAATTT
1 TATTTTTATTTTATTT
*
11782672 TATTTTTGTTTTATTT
1 TATTTTTATTTTATTT
11782688 TA-TTTTA-TTT-TTT
1 TATTTTTATTTTATTT
11782701 TATTTTTATT
1 TATTTTTATT
11782711 GATTTGATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 5 0.15
14 8 0.24
15 5 0.15
16 16 0.47
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (16 bp):
TATTTTTATTTTATTT
Found at i:11784817 original size:20 final size:20
Alignment explanation
Indices: 11784792--11784831 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11784782 AAGATCTAGC
11784792 CCTGTGACATAAGTACTAAG
1 CCTGTGACATAAGTACTAAG
11784812 CCTGTGACATAAGTACTAAG
1 CCTGTGACATAAGTACTAAG
11784832 TTAGGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (20 bp):
CCTGTGACATAAGTACTAAG
Found at i:11795291 original size:24 final size:23
Alignment explanation
Indices: 11795247--11795291 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
11795237 TAATAATTTT
**
11795247 ATTTTTATGATACATTTTTTTAA
1 ATTTTTATGATACATGCTTTTAA
*
11795270 ATTTTTATGTATATATGCTTTT
1 ATTTTTATG-ATACATGCTTTT
11795292 GTGCTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (23 bp):
ATTTTTATGATACATGCTTTTAA
Found at i:11799392 original size:39 final size:38
Alignment explanation
Indices: 11799343--11799439 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 38
11799333 GATATAATTT
* *
11799343 AATGAAATACATAAATATAATA-ATACATGATA-ATGCATG
1 AATGAAATACATAAATATAATACATA-ATAATATAT--ATA
*
11799382 AATGCAATACATAAATATAATACATAATAATATATATA
1 AATGAAATACATAAATATAATACATAATAATATATATA
*
11799420 AATGTAATACATAAATATAA
1 AATGAAATACATAAATATAA
11799440 CAAGGATAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
38 21 0.40
39 26 0.50
40 5 0.10
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (38 bp):
AATGAAATACATAAATATAATACATAATAATATATATA
Found at i:11799415 original size:15 final size:13
Alignment explanation
Indices: 11799348--11799439 Score: 82
Period size: 13 Copynumber: 7.2 Consensus size: 13
11799338 AATTTAATGA
11799348 AATACATAAATAT
1 AATACATAAATAT
*
11799361 AATA-ATACATGAT
1 AATACATAAAT-AT
* * **
11799374 AATGCATGAATGC
1 AATACATAAATAT
11799387 AATACATAAATAT
1 AATACATAAATAT
11799400 AATACAT-AATA-
1 AATACATAAATAT
* *
11799411 ATATATATAAATGT
1 A-ATACATAAATAT
11799425 AATACATAAATAT
1 AATACATAAATAT
11799438 AA
1 AA
11799440 CAAGGATAAG
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
11 1 0.02
12 14 0.23
13 40 0.67
14 5 0.08
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (13 bp):
AATACATAAATAT
Found at i:11800718 original size:23 final size:24
Alignment explanation
Indices: 11800677--11800726 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
11800667 TGGACTTTAT
11800677 TTTTTTTATTTTGGGTTTGTTTGA
1 TTTTTTTATTTTGGGTTTGTTTGA
* *
11800701 TTTTTTTATTTT-GTTTTGTTTTA
1 TTTTTTTATTTTGGGTTTGTTTGA
11800724 TTT
1 TTT
11800727 ATTTGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.08, C:0.00, G:0.14, T:0.78
Consensus pattern (24 bp):
TTTTTTTATTTTGGGTTTGTTTGA
Found at i:11800731 original size:18 final size:18
Alignment explanation
Indices: 11800692--11800730 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
11800682 TTATTTTGGG
11800692 TTTGTTTGATTTTTTTAT
1 TTTGTTTGATTTTTTTAT
11800710 TTTGTTTTG-TTTTATTTAT
1 TTTG-TTTGATTTT-TTTAT
11800729 TT
1 TT
11800731 GGGTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (18 bp):
TTTGTTTGATTTTTTTAT
Found at i:11802305 original size:18 final size:17
Alignment explanation
Indices: 11802282--11802324 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
11802272 ATACAAGTAC
*
11802282 TTTGGTTGGTAATGTGAA
1 TTTGGTTGATAAT-TGAA
11802300 TTTGGTTTGATAATTGAA
1 TTTGG-TTGATAATTGAA
11802318 TTGTGGT
1 TT-TGGT
11802325 GCCAATAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (17 bp):
TTTGGTTGATAATTGAA
Found at i:11804667 original size:18 final size:17
Alignment explanation
Indices: 11804621--11804668 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
11804611 TAAAATTGTT
11804621 ATGTGAAGTGAATAAGC
1 ATGTGAAGTGAATAAGC
* *
11804638 -TCGTGAATTGAACTAGGC
1 AT-GTGAAGTGAA-TAAGC
11804656 ATGTGAAGTGAAT
1 ATGTGAAGTGAAT
11804669 TAAATATGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
16 1 0.04
17 10 0.40
18 13 0.52
19 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.27
Consensus pattern (17 bp):
ATGTGAAGTGAATAAGC
Found at i:11807828 original size:29 final size:30
Alignment explanation
Indices: 11807767--11807831 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
11807757 TATATATAAT
*
11807767 ATATATTTATAAAAATATAAAAGAATTACA
1 ATATATTTAGAAAAATATAAAAGAATTACA
* *
11807797 ATAT-TTTAGAAAACATATAAAA-ATTTATA
1 ATATATTTAGAAAA-ATATAAAAGAATTACA
11807826 ATATAT
1 ATATAT
11807832 AAATTAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (30 bp):
ATATATTTAGAAAAATATAAAAGAATTACA
Found at i:11807835 original size:15 final size:15
Alignment explanation
Indices: 11807811--11807866 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 15
11807801 TTTAGAAAAC
*
11807811 ATATAAAAATTTATA
1 ATATATAAATTTATA
11807826 ATATATAAA--T-TA
1 ATATATAAATTTATA
11807838 ATA-A-AAATTTATA
1 ATATATAAATTTATA
* *
11807851 ATTTATAATTTTATA
1 ATATATAAATTTATA
11807866 A
1 A
11807867 AAATATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
10 3 0.09
11 1 0.03
12 6 0.18
13 5 0.15
14 1 0.03
15 17 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATAAATTTATA
Found at i:11807841 original size:25 final size:25
Alignment explanation
Indices: 11807813--11807885 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
11807803 TAGAAAACAT
11807813 ATAAAAATTTATAATATATAAATTA
1 ATAAAAATTTATAATATATAAATTA
* * *
11807838 ATAAAAATTTATAATTTATAATTTT
1 ATAAAAATTTATAATATATAAATTA
* *
11807863 ATAAAAATATATAAACATATAAA
1 ATAAAAATTTAT-AATATATAAA
11807886 AGAACTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 33 0.82
26 7 0.17
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAAAATTTATAATATATAAATTA
Found at i:11810969 original size:44 final size:44
Alignment explanation
Indices: 11810832--11811169 Score: 134
Period size: 44 Copynumber: 7.8 Consensus size: 44
11810822 ACTTGATGCG
* * * * *
11810832 ATCTGCTCTATTGCAACCTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTCTTACTTCA
* ** * * * * *
11810876 ATCCGCTCCACCACAACCTCAGGGAAATAGGAT-TATCGACTTTA
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTCT-TACTTCA
*
11810920 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTT-CTTCA
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCT-CTTACTTCA
* * * ** * * * *
11810964 GTCTGCCCCATTGTGACTTTAGGGGGATAAGACCTGCTTAC-TCA
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCT-CTTACTTCA
* * * * * * *
11811008 GTCTGCTCTACTACAACCTCAGGAAGATAAGA-C-CTGA-TGCG
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTCTTACTTCA
** * * * * * *
11811049 ATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTCTTACTTCA
* * * * * * *
11811093 ATCCGCTCCACTACAACTTCAAGGAGATAGGATTATCGGT--TTCA
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGA-TCTC-TTACTTCA
* * * *
11811137 ATCTGCTCCGCTGTAACTTCAGCGAGATAAGAT
1 ATCTGCTCCACTGCAACCTCAGGGAGATAAGAT
11811170 TTGTAGTTTC
Statistics
Matches: 213, Mismatches: 71, Indels: 21
0.70 0.23 0.07
Matches are distributed among these distances:
41 28 0.13
42 1 0.00
43 7 0.03
44 171 0.80
45 4 0.02
46 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTCTTACTTCA
Found at i:11812498 original size:15 final size:14
Alignment explanation
Indices: 11812471--11812522 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
11812461 TTAGCCTCTC
11812471 CATTTTTACTTTTT
1 CATTTTTACTTTTT
*
11812485 CATTTTTCATTTTTT
1 CATTTTT-ACTTTTT
11812500 CATTTTTTACTCTTTT
1 CA-TTTTTACT-TTTT
11812516 -ATTTTTA
1 CATTTTTA
11812523 GTTTGAGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 13 0.39
15 11 0.33
16 9 0.27
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.71
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:11828559 original size:12 final size:12
Alignment explanation
Indices: 11828529--11828561 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
11828519 TTGGGTGTTG
11828529 TCTTTTATTTAA
1 TCTTTTATTTAA
*
11828541 T-TTTTATTTAC
1 TCTTTTATTTAA
11828552 TCTTTTATTT
1 TCTTTTATTT
11828562 TTATTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (12 bp):
TCTTTTATTTAA
Found at i:11830164 original size:3 final size:3
Alignment explanation
Indices: 11830156--11830209 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
11830146 TATATATAGG
* *
11830156 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11830204 AAT AAT
1 AAT AAT
11830210 GGAGCTGTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11835760 original size:23 final size:24
Alignment explanation
Indices: 11835715--11835760 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
11835705 GCGCATTATG
* *
11835715 TTGGCCTTTGTGGTGTACTTCTGT
1 TTGGCCTTTGTGGCGTACATCTGT
11835739 TTGGCCTTTGTGGCGTA-ATCTG
1 TTGGCCTTTGTGGCGTACATCTG
11835761 CTAAGCCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.07, C:0.17, G:0.30, T:0.46
Consensus pattern (24 bp):
TTGGCCTTTGTGGCGTACATCTGT
Found at i:11838879 original size:42 final size:42
Alignment explanation
Indices: 11838801--11838904 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
11838791 AACCCTACTG
*
11838801 GGTTTCCGTTCAGCTCTTTTGACCTTCAGCTTAACCCTTATA
1 GGTTTCCGTTCAGCTCTTATGACCTTCAGCTTAACCCTTATA
* * *
11838843 GGTTTTCGTTCAGCTCTTATGAGCTTTC-G-TTCAACCCTTATG
1 GGTTTCCGTTCAGCTCTTATGA-CCTTCAGCTT-AACCCTTATA
* * *
11838885 GGTTTCTGTTTAGCACTTAT
1 GGTTTCCGTTCAGCTCTTAT
11838905 ATGCTTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
41 2 0.04
42 46 0.88
43 4 0.08
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (42 bp):
GGTTTCCGTTCAGCTCTTATGACCTTCAGCTTAACCCTTATA
Found at i:11839643 original size:13 final size:13
Alignment explanation
Indices: 11839625--11839649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11839615 TAAGTTATAT
11839625 GTGTGAAAATTTC
1 GTGTGAAAATTTC
11839638 GTGTGAAAATTT
1 GTGTGAAAATTT
11839650 GATAGTTTGA
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:11841356 original size:41 final size:41
Alignment explanation
Indices: 11841311--11841497 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
11841301 CGTTTAAAAC
* * * *
11841311 CTAGCAGGCTTAAG-GCCGGTGAAGTTATTTGGACTTTATGT
1 CTAGCAGGCTT-TGTGCCGGTGAAATAATTCGGACTTTATGT
*
11841352 CTAGCAGGCTTTGTGCCAGTGAAATAATTCGGACTTTATGT
1 CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
11841393 CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
1 CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
* * * ** *
11841434 CTAACAGGCTTTGTGCTGGTGAAATAATTTGGACGATAAGT
1 CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
*
11841475 CTAGCAGGCTAAT-TGCCGGTGAA
1 CTAGCAGGCT-TTGTGCCGGTGAA
11841498 TTGAATCGGG
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 127 0.98
42 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (41 bp):
CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
Found at i:11848822 original size:41 final size:42
Alignment explanation
Indices: 11848777--11848922 Score: 122
Period size: 41 Copynumber: 3.6 Consensus size: 42
11848767 TGTTTAAAAC
* *
11848777 CTAGCAAGCTTAAG-GCCGGTGAAGTTATTCAGACTTTATGT
1 CTAGCAAGCTTAAGTGCCGGTGAAATAATTCAGACTTTATGT
* ** *
11848818 CTAGC-AGGTTTTGTGCCGGTGAAATAATTCGGACTTTATGT
1 CTAGCAAGCTTAAGTGCCGGTGAAATAATTCAGACTTTATGT
* * * * * *
11848859 CTAGCAGGCTT-TGTGCTGGTGAAATAATTCGGACGATAAT-T
1 CTAGCAAGCTTAAGTGCCGGTGAAATAATTCAGAC-TTTATGT
* *
11848900 CTAGCAGGC-TAATTGCCGGTGAA
1 CTAGCAAGCTTAAGTGCCGGTGAA
11848923 TTGAATCGGG
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 6 0.07
41 75 0.86
42 6 0.07
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
CTAGCAAGCTTAAGTGCCGGTGAAATAATTCAGACTTTATGT
Found at i:11853653 original size:21 final size:23
Alignment explanation
Indices: 11853627--11853677 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
11853617 AATCAAATTG
* *
11853627 ACACACATAAAACACTGAATATA
1 ACACACACAAGACACTGAATATA
*
11853650 ACACACACAAGATACTGAATATA
1 ACACACACAAGACACTGAATATA
11853673 ACACA
1 ACACA
11853678 AATAGAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.55, C:0.24, G:0.06, T:0.16
Consensus pattern (23 bp):
ACACACACAAGACACTGAATATA
Found at i:11854836 original size:9 final size:9
Alignment explanation
Indices: 11854822--11854919 Score: 69
Period size: 10 Copynumber: 10.6 Consensus size: 9
11854812 ATATAAACTT
11854822 TAAAAATTA
1 TAAAAATTA
11854831 TAAAAAATTA
1 T-AAAAATTA
*
11854841 TAAGAAATCA
1 TAA-AAATTA
*
11854851 TACAAACTTA
1 TA-AAAATTA
*
11854861 TAAATATTA
1 TAAAAATTA
11854870 TAAAAAATTA
1 T-AAAAATTA
11854880 T-AAAATCTA
1 TAAAAAT-TA
*
11854889 -ATAAATT-
1 TAAAAATTA
11854896 TAAAAAATTA
1 T-AAAAATTA
11854906 T-AAAATTGA
1 TAAAAATT-A
11854915 TAAAA
1 TAAAA
11854920 CATATTTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
8 12 0.17
9 23 0.33
10 34 0.49
11 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:11854836 original size:10 final size:10
Alignment explanation
Indices: 11854823--11854910 Score: 78
Period size: 10 Copynumber: 9.3 Consensus size: 10
11854813 TATAAACTTT
11854823 AAAAATTATA
1 AAAAATTATA
11854833 AAAAATTATA
1 AAAAATTATA
* *
11854843 AGAAATCATA
1 AAAAATTATA
* *
11854853 CAAACTTAT-
1 AAAAATTATA
*
11854862 AAATATTATA
1 AAAAATTATA
11854872 AAAAATTAT-
1 AAAAATTATA
*
11854881 -AAAA-TCTA
1 AAAAATTATA
*
11854889 ATAAATT-TA
1 AAAAATTATA
11854898 AAAAATTATA
1 AAAAATTATA
11854908 AAA
1 AAA
11854911 TTGATAAAAC
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
7 2 0.03
8 4 0.07
9 17 0.28
10 37 0.62
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:11854861 original size:20 final size:19
Alignment explanation
Indices: 11854816--11854910 Score: 72
Period size: 18 Copynumber: 5.1 Consensus size: 19
11854806 AAATTGATAT
*
11854816 AAACTT-TAAAAATTATAA
1 AAACTTATAAAAATCATAA
* *
11854834 AAAATTATAAGAAATCATAC
1 AAACTTATAA-AAATCATAA
* *
11854854 AAACTTATAAATATTATAA
1 AAACTTATAAAAATCATAA
*
11854873 AAAATTAT-AAAATC-TAA
1 AAACTTATAAAAATCATAA
* *
11854890 TAAATTTA-AAAAATTATAA
1 -AAACTTATAAAAATCATAA
11854909 AA
1 AA
11854911 TTGATAAAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
17 3 0.05
18 22 0.37
19 19 0.32
20 16 0.27
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (19 bp):
AAACTTATAAAAATCATAA
Found at i:11854872 original size:29 final size:29
Alignment explanation
Indices: 11854828--11854911 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
11854818 ACTTTAAAAA
* *
11854828 TTATAAAAAATTATAAGAAATCATACAAA-C
1 TTAT-AAATATTATAAAAAATCATA-AAATC
*
11854858 TTATAAATATTATAAAAAATTATAAAATC
1 TTATAAATATTATAAAAAATCATAAAATC
* *
11854887 TAAT-AA-ATT-TAAAAAATTATAAAAT
1 TTATAAATATTATAAAAAATCATAAAAT
11854912 TGATAAAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.33
27 3 0.06
28 5 0.10
29 21 0.43
30 4 0.08
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (29 bp):
TTATAAATATTATAAAAAATCATAAAATC
Found at i:11854989 original size:19 final size:18
Alignment explanation
Indices: 11854967--11855018 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
11854957 ATAAATTCTA
*
11854967 ATAAATTATAAAAATATAT
1 ATAAATTATAAAAAAAT-T
11854986 ATAAA-TACTAAAAAAATT
1 ATAAATTA-TAAAAAAATT
*
11855004 AGAAATTATAAAAAA
1 ATAAATTATAAAAAA
11855019 TAAAGTCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAAATTATAAAAAAATT
Found at i:11855388 original size:22 final size:22
Alignment explanation
Indices: 11855328--11855385 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
11855318 AATCTTCAAG
11855328 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
11855347 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
11855369 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
11855386 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:11855664 original size:7 final size:7
Alignment explanation
Indices: 11855652--11855682 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
11855642 GATTTAGTCC
11855652 TTTTTTA
1 TTTTTTA
11855659 TTTTTTA
1 TTTTTTA
11855666 TTTTTTA
1 TTTTTTA
11855673 TTTTTTA
1 TTTTTTA
11855680 TTT
1 TTT
11855683 ATTTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:11855706 original size:21 final size:22
Alignment explanation
Indices: 11855680--11855728 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
11855670 TTATTTTTTA
*
11855680 TTTATTTTTATTAAAT-TTAAT
1 TTTATTGTTATTAAATATTAAT
* *
11855701 TTTATTGTTATTAAGTATTATT
1 TTTATTGTTATTAAATATTAAT
11855723 TTTATT
1 TTTATT
11855729 ATATATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATTGTTATTAAATATTAAT
Found at i:11858011 original size:25 final size:25
Alignment explanation
Indices: 11857980--11858029 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
11857970 ATGTATTTAC
* *
11857980 CATTCAATTTAACGTTTATCGATTA
1 CATTCAATTCAACGTTTATCAATTA
11858005 CATTCAATTCAACGTTTATCAATTA
1 CATTCAATTCAACGTTTATCAATTA
11858030 TATTTGGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (25 bp):
CATTCAATTCAACGTTTATCAATTA
Found at i:11858910 original size:14 final size:14
Alignment explanation
Indices: 11858891--11858943 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
11858881 TTTTGCCAGC
11858891 AAAATATTTTCCGG
1 AAAATATTTTCCGG
* *
11858905 AAAATAATTTCTGG
1 AAAATATTTTCCGG
* *
11858919 AAAATGA-TTTACTG
1 AAAAT-ATTTTCCGG
11858933 AAAATATTTTC
1 AAAATATTTTC
11858944 TGGTGTTTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 1 0.03
14 29 0.94
15 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (14 bp):
AAAATATTTTCCGG
Found at i:11859052 original size:22 final size:20
Alignment explanation
Indices: 11859029--11859067 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11859019 ATTTTTACAT
11859029 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
11859049 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
11859068 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:11861140 original size:19 final size:19
Alignment explanation
Indices: 11861112--11861175 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
11861102 AATTTTCGAG
* *
11861112 GATATACAATCTTAAATAT
1 GATATGCAATCTTAGATAT
11861131 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11861150 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
11861171 GATAT
1 GATAT
11861176 ATACAATCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11861194 original size:19 final size:21
Alignment explanation
Indices: 11861113--11861188 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
11861103 ATTTTCGAGG
*
11861113 ATATACAATCTTAAATATG--
1 ATATACAATCTTAGATATGAT
*
11861132 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
11861153 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
11861174 ATATACAATCTTAGA
1 ATATACAATCTTAGA
11861189 AGATATGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 17 0.33
21 35 0.67
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:11863309 original size:27 final size:27
Alignment explanation
Indices: 11863242--11863447 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
11863232 TAAATTGTAC
11863242 AGCACTAAGTGTGCGATTTGACTATTGT
1 AGCACTAAGTGTGCGATTTGACTA-TGT
11863270 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
11863297 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
11863323 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
11863351 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
11863379 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
11863406 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
11863433 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11863448 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
27 109 0.70
28 47 0.30
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:11863438 original size:82 final size:80
Alignment explanation
Indices: 11863242--11863447 Score: 259
Period size: 82 Copynumber: 2.5 Consensus size: 80
11863232 TAAATTGTAC
* *
11863242 AGCACTAAGTGTGCGATTTGACTATTGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTA-TGTAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGT
*
11863307 GTGCGAAATGAATATG
65 GTGCGAAATGAATACG
* **
11863323 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 A-GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAG
** *
11863388 TGTGCGATTTGATTACG
64 TGTGCGAAATGAATACG
* * * *
11863405 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
11863448 GACTCAATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.17
82 87 0.82
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (80 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTG
TGCGAAATGAATACG
Found at i:11863438 original size:109 final size:109
Alignment explanation
Indices: 11863243--11863447 Score: 315
Period size: 109 Copynumber: 1.9 Consensus size: 109
11863233 AAATTGTACA
* *
11863243 GCACTAAGTGTGCGATTTGACTATTGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATTGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
11863308 TGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 TGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
*
11863352 GCACTAAGTGTGCGAGTTTGACTA-TGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATTGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGT
** * *
11863416 GTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
65 GTGCGAAATGAATATGAT-GCACTAAGTGTGCG
11863448 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
108 2 0.02
109 77 0.89
110 8 0.09
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (109 bp):
GCACTAAGTGTGCGATTTGACTATTGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
TGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:11871307 original size:27 final size:27
Alignment explanation
Indices: 11871269--11871473 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
11871259 TAAATTGTAC
11871269 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
11871296 AGCACAAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
11871323 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
11871349 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
11871377 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
11871405 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
11871432 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
11871459 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11871474 GACTCAATAT
Statistics
Matches: 153, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 129 0.84
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:11872911 original size:12 final size:13
Alignment explanation
Indices: 11872894--11872929 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
11872884 TTTTATTCTA
11872894 TTTTATTAATT-T
1 TTTTATTAATTAT
11872906 TTTTATT-ATTAT
1 TTTTATTAATTAT
11872918 TTTTATT-ATTAT
1 TTTTATTAATTAT
11872930 ATTATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 3 0.13
12 20 0.87
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTAATTAT
Found at i:11872914 original size:3 final size:3
Alignment explanation
Indices: 11872908--11872947 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
11872898 ATTAATTTTT
*
11872908 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
11872948 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11872916 original size:15 final size:15
Alignment explanation
Indices: 11872892--11872947 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
11872882 GTTTTTATTC
11872892 TATT-TTATTAATTTT
1 TATTATTATT-ATTTT
11872907 T-TTATTATTATTTT
1 TATTATTATTATTTT
*
11872921 TATTATTA-TATTATA
1 TATTATTATTATT-TT
11872936 TATTATTATTAT
1 TATTATTATTAT
11872948 ACCTACATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 12 0.33
15 21 0.58
16 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTATTATTTT
Found at i:11873315 original size:51 final size:52
Alignment explanation
Indices: 11873205--11873316 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
11873195 TTTCACGTTT
**
11873205 TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATATTTTA
1 TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
* * * * *
11873256 TATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTATTTTA
1 TATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATATTTTA
11873307 TATATATATA
1 TATATATATA
11873317 AGTTTTATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 28 0.55
52 23 0.45
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (52 bp):
TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
Found at i:11878211 original size:15 final size:15
Alignment explanation
Indices: 11878191--11878224 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11878181 TTTCAAAAAA
11878191 AAAAGAGAAA-GAAAG
1 AAAAGA-AAACGAAAG
11878206 AAAAGAAAACGAAAG
1 AAAAGAAAACGAAAG
11878221 AAAA
1 AAAA
11878225 AGGAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAGAAAACGAAAG
Found at i:11878237 original size:17 final size:16
Alignment explanation
Indices: 11878198--11878245 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
11878188 AAAAAAAGAG
11878198 AAAGAAAG-AAAA-GA
1 AAAGAAAGAAAAAGGA
11878212 AAACGAAAGAAAAAGGA
1 AAA-GAAAGAAAAAGGA
*
11878229 AAAGAAAAGCAAAAGGA
1 AAAG-AAAGAAAAAGGA
11878246 GAGGCCAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 5 0.17
16 5 0.17
17 16 0.55
ACGTcount: A:0.73, C:0.04, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAAAGGA
Found at i:11879539 original size:44 final size:44
Alignment explanation
Indices: 11879491--11879817 Score: 161
Period size: 44 Copynumber: 7.4 Consensus size: 44
11879481 GAGAAGGTTG
* *
11879491 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
1 AAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * * *
11879535 AAGATGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATGGTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
*** * * * * * * *
11879579 AAGCCACAAT-G-TCTTGTCTCTCTGAGCAGTAGCGGAGAAGGTTG
1 AAG--ATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* **
11879623 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
1 AAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * * * *
11879667 AAGACGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATGGTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
*** * * * * *
11879711 AAGCCA-CCAAG-CCTTGTCTCCCTGAGCAGCAGTGGAGCAGGTTA
1 AAG--ATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * *
11879755 AAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCA
1 AAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* *
11879799 AAGATGGCAAATCTTATCT
1 AAGATGGTAGATCTTATCT
11879818 TTCCAAGATA
Statistics
Matches: 203, Mismatches: 60, Indels: 40
0.67 0.20 0.13
Matches are distributed among these distances:
42 11 0.05
43 14 0.07
44 157 0.77
45 13 0.06
46 8 0.04
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
AAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
Found at i:11879838 original size:44 final size:44
Alignment explanation
Indices: 11879790--11879928 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
11879780 GTAGTAGTGG
*
11879790 AGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGA
1 AGCAGATCAAAGATCGCAAATCTTATCTTTCCAAGATAGTGGGA
** * * * * **
11879834 AGCAGATTTAAG-TCACAAAGCCTTGTCTCTCTGAGCAGTAGT-GG-
1 AGCAGATCAAAGATCGCAAA-TCTTATCTTTCCAAG-A-TAGTGGGA
* *
11879878 AGTAGATCAAAGATTGCAAATCTTATCTTTCCAAGATAGTGGGA
1 AGCAGATCAAAGATCGCAAATCTTATCTTTCCAAGATAGTGGGA
11879922 AGCAGAT
1 AGCAGAT
11879929 TTAAGCCACA
Statistics
Matches: 69, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
42 4 0.06
43 8 0.12
44 45 0.65
45 8 0.12
46 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (44 bp):
AGCAGATCAAAGATCGCAAATCTTATCTTTCCAAGATAGTGGGA
Found at i:11879875 original size:88 final size:88
Alignment explanation
Indices: 11879782--11879959 Score: 329
Period size: 88 Copynumber: 2.0 Consensus size: 88
11879772 CTCCCTAAGT
*
11879782 AGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGT
1 AGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
11879847 CACAAAGCCTTGTCTCTCTGAGC
66 CACAAAGCCTTGTCTCTCTGAGC
* *
11879870 AGTAGTGGAGTAGATCAAAGATTGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
1 AGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
11879935 CACAAAGCCTTGTCTCTCTGAGC
66 CACAAAGCCTTGTCTCTCTGAGC
11879958 AG
1 AG
11879960 CAGCGAAGAA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (88 bp):
AGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
CACAAAGCCTTGTCTCTCTGAGC
Found at i:11879877 original size:132 final size:132
Alignment explanation
Indices: 11879455--11879905 Score: 697
Period size: 132 Copynumber: 3.4 Consensus size: 132
11879445 GTGAAACACC
* *
11879455 AAGCCTTGTCTC-CTTGAGCAGCAGCAGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
1 AAGCCTTGTCTCTC-TGAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
11879519 GTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
65 GTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
11879584 ACA
130 ACA
* * * *
11879587 ATGTCTTGTCTCTCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
11879652 TAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
11879717 CC
131 CA
* * * *
11879719 AAGCCTTGTCTCCCTGAGCAGCAGTGGAGCAGGTTAAAGATTGTAGATCTTATCTCCCTAAGTAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCAG
*
11879784 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGTCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11879849 CA
131 CA
* * * * * * *
11879851 AAGCCTTGTCTCTCTGAGCAGTAGTGGAGTAGATCAAAGATTGCAAATCTTATCT
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCT
11879906 TTCCAAGATA
Statistics
Matches: 292, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
132 291 1.00
133 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CA
Found at i:11879911 original size:220 final size:220
Alignment explanation
Indices: 11879635--11880102 Score: 695
Period size: 220 Copynumber: 2.1 Consensus size: 220
11879625 GATTGTAGAT
* * * *
11879635 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
1 CTTATCTCACTGAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
* * * *
11879700 GAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGCAGGTTAAAGATTGTAG
66 GAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTAAAGATTGTAG
* * ** *
11879765 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGAT-GGCAAATCTTATCTTTCCAAGATAG
131 ATCTTATCTCCCTAAGCAGGAGTAAAGCAGATCAAAG-TCGGCAAATCTTATCCTTCCAAGATAG
* *
11879829 TGGGAAGCAGATTTAAGTCACAAAGC
195 TAGGAAGCAGATTTAAGCCACAAAGC
* * **
11879855 CTTGTCTCTCTGAGCAGTAGTGGAGTAGATCAAAGATTGCAAATCTTATCTTTCCAAGATAGTGG
1 CTTATCTCACTGAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
* *
11879920 GAAGCAGATTTAAGCCACAAAGCCTTGTCTCTCTGAGCAGCAGCGAAGAAGGTTGAAGATTGTAG
66 GAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTAAAGATTGTAG
*
11879985 ATCTTATTTCCCTAAGCAGGAGTAAAGCAGATCAAAGTCGGCAAATCTTATCCTTCCAAGATAGT
131 ATCTTATCTCCCTAAGCAGGAGTAAAGCAGATCAAAGTCGGCAAATCTTATCCTTCCAAGATAGT
*
11880050 AGGAAGCAGATTTAAGCCACCAAGC
196 AGGAAGCAGATTTAAGCCACAAAGC
* *
11880075 CTTATCTCACTGAGCAGCAGCGGAGTAG
1 CTTATCTCACTGAGCAGTAGTGGAGTAG
11880103 GTCGAAGTTG
Statistics
Matches: 221, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
219 1 0.00
220 220 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (220 bp):
CTTATCTCACTGAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGG
GAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTAAAGATTGTAG
ATCTTATCTCCCTAAGCAGGAGTAAAGCAGATCAAAGTCGGCAAATCTTATCCTTCCAAGATAGT
AGGAAGCAGATTTAAGCCACAAAGC
Found at i:11879919 original size:42 final size:42
Alignment explanation
Indices: 11879520--11879928 Score: 123
Period size: 44 Copynumber: 9.3 Consensus size: 42
11879510 CCCTAAGCAG
*
11879520 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGA
1 TAGTGGAGCAGATCAAAGATCGCAAATCTTATCTTTCCAAGA
** * * * * * **
11879562 TAGTGGGAAGCAGATTTAAG-CCACAATGTCTTGTCTCTCTGAGCA
1 TAGT-GG-AGCAGATCAAAGATCGCAA-ATCTTATCTTTCCAAG-A
* * * ** * * * *
11879607 GTAGCGGAGAAGGTTGAAGATTGTAGATCTTATC-TCCCTAAGCA
1 -TAGTGGAGCAGATCAAAGATCGCAAATCTTATCTTTCC-AAG-A
*
11879651 GTAGTGGAGCAGATCGAAGA-CGGCAAATCTTATCTTTCCAAGA
1 -TAGTGGAGCAGATCAAAGATC-GCAAATCTTATCTTTCCAAGA
** ** * * *
11879694 TAGTGGGAAGCAGATTTAAGCCA-C-CAAGCCTTGTC-TCCCTGAGCA
1 TAGT-GG-AGCAGATCAAAG--ATCGCAAATCTTATCTTTCC-AAG-A
* * * * * * *
11879739 GCAGTGGAGCAGGTTAAAGATTGTAGATCTTATC-TCCCTAAGTA
1 -TAGTGGAGCAGATCAAAGATCGCAAATCTTATCTTTCC-AAG-A
*
11879783 GTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGA
1 -TAGTGGAGCAGATCAAAGATCGCAAATCTTATCTTTCCAAGA
** * * * * **
11879826 TAGTGGGAAGCAGATTTAAG-TCACAAAGCCTTGTCTCTCTGAGCA
1 TAGT-GG-AGCAGATCAAAGATCGCAAA-TCTTATCTTTCCAAG-A
* *
11879871 GTAGTGGAGTAGATCAAAGATTGCAAATCTTATCTTTCCAAGA
1 -TAGTGGAGCAGATCAAAGATCGCAAATCTTATCTTTCCAAGA
11879914 TAGTGGGAAGCAGAT
1 TAGT-GG-AGCAGAT
11879929 TTAAGCCACA
Statistics
Matches: 262, Mismatches: 78, Indels: 52
0.67 0.20 0.13
Matches are distributed among these distances:
42 17 0.06
43 23 0.09
44 189 0.72
45 21 0.08
46 12 0.05
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (42 bp):
TAGTGGAGCAGATCAAAGATCGCAAATCTTATCTTTCCAAGA
Done.