Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 193 of 218
Found at i:57084346 original size:16 final size:16
Alignment explanation
Indices: 57084302--57084346 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
57084292 TTAAAATAAT
57084302 AATAAAGATAATTTAAA
1 AATAAA-ATAATTTAAA
57084319 AA-AATAACTAATTTAAA
1 AATAA-AA-TAATTTAAA
57084336 AATAAAATAAT
1 AATAAAATAAT
57084347 AGAAAGACGG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.28
17 16 0.64
18 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
AATAAAATAATTTAAA
Found at i:57086314 original size:114 final size:114
Alignment explanation
Indices: 57086127--57086573 Score: 567
Period size: 114 Copynumber: 3.9 Consensus size: 114
57086117 CAGCAAAAGT
* * * * **
57086127 TCGAGAATCAGCAGTGCTTTTCTAAAAATGTTGCAAAAATG-TAATCAAAACGCATCGTTCTATC
1 TCGAGAATTAGCGGCGCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATC
* * * * *
57086191 ATGAGCTTTAGTGGCACTAGCGACCCTTATTCAAAAACGCCGATATATG
66 CTGAGCTTTAGTGGCATTAGCGGCGCTTATTCAAAAACGCCGCTATATG
* ** * * * *
57086240 TCAAGAATTAGCGGCATTTTTCTAAAAATGCCGCAAAAATATTAATCAAAATGCAACGTTCTATC
1 TCGAGAATTAGCGGCGCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATC
* *** * *
57086305 CTGAGCTTTAGTGGCATTAGTGGCGCTTACAGAAAAATGCCGCTATAGG
66 CTGAGCTTTAGTGGCATTAGCGGCGCTTATTCAAAAACGCCGCTATATG
* * *
57086354 TCGAGAATTAGCGGCGCTTTTCTAAAAACACCACAAAAATGTTAATCAAAACGCATCGTTCT-GC
1 TCGAGAATTAGCGGCGCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATC
*
57086418 CTTGAGCTTTAGTGGCATTAGCGGCGCTTATTCAAAAACGCCTCTATATG
66 C-TGAGCTTTAGTGGCATTAGCGGCGCTTATTCAAAAACGCCGCTATATG
* *
57086468 TCGAGAATTAGCGGCGCTTTTCTAAAAACGCTGCAAAAATGTTAATCAAAACACATCGTTCTATC
1 TCGAGAATTAGCGGCGCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATC
* *
57086533 TTGAGCTTTAGTGGCATTAGCGGCGCTT-TCCGAAAAACGCC
66 CTGAGCTTTAGTGGCATTAGCGGCGCTTATTC-AAAAACGCC
57086574 ACAAAATGTT
Statistics
Matches: 284, Mismatches: 46, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
113 36 0.13
114 247 0.87
115 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (114 bp):
TCGAGAATTAGCGGCGCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATC
CTGAGCTTTAGTGGCATTAGCGGCGCTTATTCAAAAACGCCGCTATATG
Found at i:57086599 original size:74 final size:73
Alignment explanation
Indices: 57086474--57086619 Score: 170
Period size: 74 Copynumber: 2.0 Consensus size: 73
57086464 TATGTCGAGA
* * * *
57086474 ATTAGCGGCGCTTTTCTAAAAACGCTGCAAAAATGTTAATCAAAACACATCGTTCTAT-CTTGAG
1 ATTAGCGGCGCTTTCCGAAAAACGC-GCAAAAATGTTAAGCAAAACACATCGTT-TATACTGGAG
57086538 CTTTAGTGGC
64 CTTTAGTGGC
* ** *
57086548 ATTAGCGGCGCTTTCCGAAAAACGC-CACAAAATGTTGAGCAAAATGGCATCGTTTATAGTGGAG
1 ATTAGCGGCGCTTTCCGAAAAACGCGCA-AAAATGTTAAGCAAAA-CACATCGTTTATACTGGAG
57086612 CTTTAGTG
64 CTTTAGTG
57086620 ACGTTTTAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
72 2 0.03
73 17 0.28
74 42 0.69
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (73 bp):
ATTAGCGGCGCTTTCCGAAAAACGCGCAAAAATGTTAAGCAAAACACATCGTTTATACTGGAGCT
TTAGTGGC
Found at i:57087394 original size:21 final size:21
Alignment explanation
Indices: 57087368--57087409 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57087358 CTTGTAAAAT
57087368 ATTAACACAATTATTGATTTA
1 ATTAACACAATTATTGATTTA
* * *
57087389 ATTAACATAATTTTTTATTTA
1 ATTAACACAATTATTGATTTA
57087410 TATATTGCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTAACACAATTATTGATTTA
Found at i:57088187 original size:18 final size:19
Alignment explanation
Indices: 57088148--57088198 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
57088138 CCATTTCCAA
57088148 ATTTCCCCAAATCCCTAAC
1 ATTTCCCCAAATCCCTAAC
**
57088167 ATTTCCCCAAA-CCCTTTC
1 ATTTCCCCAAATCCCTAAC
57088185 ATTTTCCCCAAATC
1 A-TTTCCCCAAATC
57088199 AAAATCGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 21 0.75
20 1 0.04
ACGTcount: A:0.27, C:0.41, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTCCCCAAATCCCTAAC
Found at i:57089169 original size:5 final size:5
Alignment explanation
Indices: 57089159--57089184 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57089149 TGAGCATTCG
57089159 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
57089185 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:57090170 original size:29 final size:30
Alignment explanation
Indices: 57090112--57090170 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
57090102 AGGGAAGGGG
* * **
57090112 AGTAAAAGTTTTGGGGGGAAAGTGGGAAAA
1 AGTAAAAGTTTTGAGGGAAAAGTGAAAAAA
57090142 AGTAAAAGTTTTGAGGGAAAAGT-AAAAAA
1 AGTAAAAGTTTTGAGGGAAAAGTGAAAAAA
57090171 GTTTGGGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.20
Consensus pattern (30 bp):
AGTAAAAGTTTTGAGGGAAAAGTGAAAAAA
Found at i:57090231 original size:9 final size:9
Alignment explanation
Indices: 57090213--57090249 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
57090203 TATAGTTTTA
57090213 TATTCGAAT
1 TATTCGAAT
*
57090222 TATTCAAAT
1 TATTCGAAT
*
57090231 TATTCGAGT
1 TATTCGAAT
57090240 TATTCGAAT
1 TATTCGAAT
57090249 T
1 T
57090250 TGAAAACTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:57090905 original size:30 final size:30
Alignment explanation
Indices: 57090824--57090907 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
57090814 GAATTCCATT
* *
57090824 AATTTACATAACTTACATAATGTAAAGTTCA
1 AATTT-CATAACTTACATAATTTAAAGATCA
**
57090855 AATTTCATAACTTACATAATTTTCAGATCA
1 AATTTCATAACTTACATAATTTAAAGATCA
57090885 AATTTCATAACTTACATAATTTA
1 AATTTCATAACTTACATAATTTA
57090908 CATAACTTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 43 0.90
31 5 0.10
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (30 bp):
AATTTCATAACTTACATAATTTAAAGATCA
Found at i:57090908 original size:9 final size:9
Alignment explanation
Indices: 57090885--57090970 Score: 77
Period size: 9 Copynumber: 9.3 Consensus size: 9
57090875 TTTCAGATCA
57090885 AATTT-CAT
1 AATTTACAT
*
57090893 AACTTACAT
1 AATTTACAT
57090902 AATTTACAT
1 AATTTACAT
*
57090911 AACTTACAT
1 AATTTACAT
*
57090920 AATTTTAAGATT
1 AA-TTT-ACA-T
57090932 AAATTT-CAT
1 -AATTTACAT
*
57090941 AAATTACAT
1 AATTTACAT
57090950 AATTTACAT
1 AATTTACAT
*
57090959 AACTTACAT
1 AATTTACAT
57090968 AAT
1 AAT
57090971 ACATAAATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
8 8 0.13
9 43 0.69
10 3 0.05
11 2 0.03
12 4 0.06
13 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (9 bp):
AATTTACAT
Found at i:57090912 original size:48 final size:48
Alignment explanation
Indices: 57090855--57090970 Score: 198
Period size: 48 Copynumber: 2.4 Consensus size: 48
57090845 GTAAAGTTCA
* *
57090855 AATTT-CATAACTTACATAATTTTCAGATCAAATTTCATAACTTACAT
1 AATTTACATAACTTACATAATTTTAAGATCAAATTTCATAAATTACAT
*
57090902 AATTTACATAACTTACATAATTTTAAGATTAAATTTCATAAATTACAT
1 AATTTACATAACTTACATAATTTTAAGATCAAATTTCATAAATTACAT
57090950 AATTTACATAACTTACATAAT
1 AATTTACATAACTTACATAAT
57090971 ACATAAATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
47 5 0.08
48 60 0.92
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (48 bp):
AATTTACATAACTTACATAATTTTAAGATCAAATTTCATAAATTACAT
Found at i:57096056 original size:43 final size:43
Alignment explanation
Indices: 57095993--57096409 Score: 403
Period size: 43 Copynumber: 9.7 Consensus size: 43
57095983 TTGCCCAAAT
* * * *
57095993 TAGCGGCATTTGTA-AAAAAAGTGCCGCTAAAGACTACGAATTA
1 TAGCGGCATTT-TATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * * * * *
57096036 TAGCAGCGTTTTATAAAAAAGCACTGCTAAAGGCCATGGCTTA
1 TAGCGGCATTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * *
57096079 TAGCGGCATTTTATAAAACAA-CACCGCTAAAGGCAATGACTTA
1 TAGCGGCATTTTATAAAA-AAGCGCCGCTAAAGACCATGACTTA
* * *
57096122 TAGCGGCATTTTATAAAAAAGCGTCGCTAAAGGCCATGATTTA
1 TAGCGGCATTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
*
57096165 TAGCGGCATTTTATAAAAAAGCGCCGCTAAAGACCAAGACTTA
1 TAGCGGCATTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * *
57096208 TAGCGGCGTTTTATAAAAAAGTGCCGCTAAAGACCACGACTTA
1 TAGCGGCATTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * * *
57096251 TAGCAGCGTTTTATAAAAAAGCGCCGCTAAAGGCCACGACTTA
1 TAGCGGCATTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * * * *
57096294 TACCGGC-TTTTTTATAATAGCACCGCTAAAGACCATGACCTT-
1 TAGCGGCATTTTATAAAAAAGCGCCGCTAAAGACCATGA-CTTA
* ** * * *
57096336 TAGCGGCGTTTGCTATAATAGCGCCGCTAATGACCATGACCTT-
1 TAGCGGCATTTTATAAAAAAGCGCCGCTAAAGACCATGA-CTTA
* * * * *
57096379 TAGCGGCGTCTTCTATAAAAGCGCCGTTAAA
1 TAGCGGCATTTTATAAAAAAGCGCCGCTAAA
57096410 ATTCAGGATC
Statistics
Matches: 322, Mismatches: 47, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
42 35 0.11
43 285 0.89
44 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (43 bp):
TAGCGGCATTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
Found at i:57097120 original size:48 final size:47
Alignment explanation
Indices: 57096999--57097120 Score: 145
Period size: 48 Copynumber: 2.6 Consensus size: 47
57096989 GGGTGTCACA
* * *
57096999 CGACCAATGGTTTATCCACAACATATTTTAGTCAACAATCATCTACT
1 CGACCAGTGGTTTATCCACAACGTATTCTAGTCAACAATCATCTACT
* * * * ** *
57097046 CGACTAGTGGTTTATCTATAATGTATTCTAGTTGACAGATCATCTGCT
1 CGACCAGTGGTTTATCCACAACGTATTCTAGTCAACA-ATCATCTACT
57097094 CGACCAGTGGTTTATCCACAACGTATT
1 CGACCAGTGGTTTATCCACAACGTATT
57097121 AGTAACTTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
47 28 0.47
48 32 0.53
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (47 bp):
CGACCAGTGGTTTATCCACAACGTATTCTAGTCAACAATCATCTACT
Found at i:57110318 original size:18 final size:18
Alignment explanation
Indices: 57110270--57110321 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
57110260 CAATAAAAAA
*
57110270 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAAATGAAT
* * *
57110288 AACG-ATTGTAAATGAAT
1 AATGTTTTGAAAATGAAT
57110305 AATGTTTTGAAAATGAA
1 AATGTTTTGAAAATGAA
57110322 CGGCACGATT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (18 bp):
AATGTTTTGAAAATGAAT
Found at i:57112674 original size:46 final size:46
Alignment explanation
Indices: 57112624--57112799 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57112614 TGGTTGAGCA
57112624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57112670 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57112715 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57112763 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57112800 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57112780 original size:93 final size:93
Alignment explanation
Indices: 57112621--57112792 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57112611 GGATGGTTGA
* *
57112621 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57112686 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57112714 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57112779 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
57112793 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57120180 original size:46 final size:46
Alignment explanation
Indices: 57120118--57120291 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
57120108 TGGTTGAGCA
57120118 TCCGAACTCG-T-AGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57120162 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57120207 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57120255 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57120292 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 10 0.09
45 4 0.04
46 50 0.46
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57120272 original size:93 final size:91
Alignment explanation
Indices: 57120115--57120284 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 91
57120105 GGATGGTTGA
* *
57120115 GCATCCGAACTCGTAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 GCATCCGAACTCGTAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
57120180 AGTCCGAGTTCGTGAGATGTAACTAG
66 AGTCCGAGTTCGTGAGATGTAACTAG
*
57120206 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCG-T-AGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57120271 TGAGTCCGAGTTCG
64 TGAGTCCGAGTTCG
57120285 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 13 0.18
92 1 0.01
93 60 0.81
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (91 bp):
GCATCCGAACTCGTAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57122833 original size:69 final size:69
Alignment explanation
Indices: 57122722--57122859 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
57122712 AATAAAGTAT
* *
57122722 ATCCTACCCGTGGACAGCCAAGTATAGGGATAAAAATAATAAAAATCCAAGAAAAGGGATTCAAA
1 ATCCTACCCGCGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
57122787 CACA
66 CACA
* * *
57122791 ATCCTACCCGCGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAATATGGATTCAAG
1 ATCCTACCCGCGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
57122856 CACA
66 CACA
57122860 CATAACTAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.16
Consensus pattern (69 bp):
ATCCTACCCGCGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
CACA
Found at i:57125302 original size:24 final size:24
Alignment explanation
Indices: 57125265--57125319 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
57125255 ATACCAATAA
57125265 AAATTACGTATAATCGATGAGA-TT
1 AAATTACGTATAATCGATGA-ATTT
* * *
57125289 AAATTATGTTTAATTGATGAATTT
1 AAATTACGTATAATCGATGAATTT
57125313 AAATTAC
1 AAATTAC
57125320 TTTAATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (24 bp):
AAATTACGTATAATCGATGAATTT
Found at i:57134912 original size:21 final size:22
Alignment explanation
Indices: 57134866--57134913 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
57134856 GTGGCTAAAT
57134866 CACAC-ACCTATGTGGCTGAGA
1 CACACGACCTATGTGGCTGAGA
* * *
57134887 AACACGACC-ATGTGTCTGAGG
1 CACACGACCTATGTGGCTGAGA
57134908 CACACG
1 CACACG
57134914 CTCGTGCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (22 bp):
CACACGACCTATGTGGCTGAGA
Found at i:57136454 original size:50 final size:49
Alignment explanation
Indices: 57136325--57136455 Score: 140
Period size: 47 Copynumber: 2.7 Consensus size: 49
57136315 TATGTGGCAA
* * **
57136325 TTTATCTACAAATCAGTGGTAGCTTGTCCACAAAGTGTTTCAATGGTAG
1 TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAAGTGTTTCAATGACAG
* * * * *
57136374 TATATTTGCATAT--GTGGTAATTTGTCCACAAAGTGTTATCAGTGACAG
1 TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAAGTGTT-TCAATGACAG
* *
57136422 TTTATCTGTAAATCAGTGGTGGTTTGTCCACAAA
1 TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAA
57136456 TGGTGTTTTA
Statistics
Matches: 64, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
47 22 0.34
48 16 0.25
49 9 0.14
50 17 0.27
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (49 bp):
TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAAGTGTTTCAATGACAG
Found at i:57148747 original size:44 final size:44
Alignment explanation
Indices: 57148693--57148896 Score: 126
Period size: 44 Copynumber: 4.6 Consensus size: 44
57148683 ACCATATTTG
* *
57148693 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTTA
* ** * * * *
57148737 ATCTATTCCACTGTTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTTA
* * ** * * **** *
57148780 ATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTG
1 ATCTACTCCACTAC-TGCTCAGGGAGATAAGATCTGTAATCTTTA
* *
57148825 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTTA
* ** *
57148869 ATCTATTCCACTGTTGCCCAGGGAGATA
1 ATCTACTCCACTACTGCTCAGGGAGATA
57148897 GAATTACTGG
Statistics
Matches: 111, Mismatches: 43, Indels: 12
0.67 0.26 0.07
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 18 0.16
44 72 0.65
45 16 0.14
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTTA
Found at i:57148773 original size:132 final size:132
Alignment explanation
Indices: 57148626--57148963 Score: 581
Period size: 132 Copynumber: 2.6 Consensus size: 132
57148616 GCAGTTTCAA
* * * * *
57148626 GGAGATAGGAA-TACTGGCTTCAACGTACTCCACTGTAACTTTAGGGAGGTAAAATCCACCATAT
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
57148690 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCC
57148755 CAG
130 CAG
57148758 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
57148823 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
57148888 AG
131 AG
*
57148890 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAAGGAGGTAAAAT-CAGCCATCT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCA-CCATCT
*
57148954 TCGATCTGCT
65 TTGATCTGCT
57148964 TCGCTGTTTA
Statistics
Matches: 197, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
131 5 0.03
132 192 0.97
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (132 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
AG
Found at i:57149034 original size:44 final size:44
Alignment explanation
Indices: 57148979--57149079 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
57148969 GTTTATGTAG
* * *
57148979 GAAGGCAAGATCTTCTATATTTGATCTACTTGACGCCAGTACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
* * *
57149023 GAAGACAAGATCTGGTATCTTTGATCTTCTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
57149067 GAAGACAAGATCT
1 GAAGACAAGATCT
57149080 ACTTTTTCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
Found at i:57149218 original size:44 final size:45
Alignment explanation
Indices: 57149137--57149224 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 45
57149127 CTTCAACATA
* * * *
57149137 CTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCTG
1 CTCCACTACAACTTCAGGGAGGCAAAATCCGCAATCTTCAATCTG
* * *
57149182 CTCCACTACTACTT-AGGGAGGCAAAATCTGTAATCTTCAATCT
1 CTCCACTACAACTTCAGGGAGGCAAAATCCGCAATCTTCAATCT
57149225 ACTTTGCCGC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 24 0.67
45 12 0.33
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (45 bp):
CTCCACTACAACTTCAGGGAGGCAAAATCCGCAATCTTCAATCTG
Found at i:57149330 original size:44 final size:44
Alignment explanation
Indices: 57149280--57149786 Score: 258
Period size: 44 Copynumber: 11.4 Consensus size: 44
57149270 ACCAATATAG
* * *
57149280 GAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTACTTTCTTTGATCTACTTCACGCCAGTACAT
* * * * * * ***
57149324 GAAGACACGATCTATTTTCTTCGACCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTACTTTCTTTGATCTACTTCA-CGCCAGTACAT
* *
57149369 GGAGACAAGATCTA-TTTCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTACTTTCTTTGATCTACTTCACGCCAGTACAT
* * * ***
57149412 GAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTACTTTCTTTGATCTACTTCA-CGCCAGTACAT
* * * *
57149457 GGAGACAAGGTCT-GTTGACTTTGATCTACTTCACGCC-GATACAT
1 GAAGACAAGATCTACTT-TCTTTGATCTACTTCACGCCAG-TACAT
* * * ***
57149501 GAAGGCAAGATCTGCTTTCTTTGATCTACTCCAC-CACTAGTATGG
1 GAAGACAAGATCTACTTTCTTTGATCTACTTCACGC-C-AGTACAT
* * ** * *
57149546 GGAGATAAGAT-TTGTTGACTTTGATCTACTTCACG-CTGATACAT
1 GAAGACAAGATCTACTT-TCTTTGATCTACTTCACGCCAG-TACAT
* * * * ***
57149590 GAAGACAATATCTACTTTCTTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTACTTTCTTT-GATCTACTTC-ACGCCAGTACAT
* * * * * * *
57149636 GAAGGCGAGATCT-GTATATTCGATCTACTTCACGCTAGTACAT
1 GAAGACAAGATCTACTTTCTTTGATCTACTTCACGCCAGTACAT
* * * * * ***
57149679 GAAGACAAGATCTGTA-TTCCTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATC--TACTTTCTTTGATCTACTTC-ACGCCAGTACAT
* * * *
57149725 GAAGGCGAGATCT-GTTATCTTTGATCTACTTCACGCCAGAACAT
1 GAAGACAAGATCTACTT-TCTTTGATCTACTTCACGCCAGTACAT
*
57149769 GAAGACAAGATCTGCTTT
1 GAAGACAAGATCTACTTT
57149787 TTCCTTCGAT
Statistics
Matches: 329, Mismatches: 111, Indels: 46
0.68 0.23 0.09
Matches are distributed among these distances:
43 37 0.11
44 139 0.42
45 121 0.37
46 30 0.09
47 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTACTTTCTTTGATCTACTTCACGCCAGTACAT
Found at i:57149375 original size:45 final size:44
Alignment explanation
Indices: 57149326--57149575 Score: 182
Period size: 45 Copynumber: 5.6 Consensus size: 44
57149316 CAGTACATGA
* * *
57149326 AGACACGATCTATTTTCTTCGACCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTA-TTTCTTTGATCTACTCCACCACCAGTATGGGG
* * * *** *
57149371 AGACAAGATCTATTTCTTTGATCTACTTCA-CGCCAATACATGA
1 AGACAAGATCTATTTCTTTGATCTACTCCACCACCAGTATGGGG
*
57149414 AGACAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCT-ATTTCTTTGATCTACTCCACCACCAGTATGGGG
* * * * * *** *
57149459 AGACAAGGTCTGTTGACTTTGATCTACTTCA-CGCC-GATACATGA
1 AGACAAGATCTATT-TCTTTGATCTACTCCACCACCAG-TATGGGG
* * *
57149503 AGGCAAGATCTGCTTTCTTTGATCTACTCCACCACTAGTATGGGG
1 AGACAAGATCT-ATTTCTTTGATCTACTCCACCACCAGTATGGGG
* * * *
57149548 AGATAAGATTTGTTGACTTTGATCTACT
1 AGACAAGATCTATT-TCTTTGATCTACT
57149576 TCACGCTGAT
Statistics
Matches: 154, Mismatches: 43, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
43 19 0.12
44 65 0.42
45 69 0.45
46 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
AGACAAGATCTATTTCTTTGATCTACTCCACCACCAGTATGGGG
Found at i:57149512 original size:89 final size:88
Alignment explanation
Indices: 57149298--57149831 Score: 574
Period size: 89 Copynumber: 6.0 Consensus size: 88
57149288 GACCTACTAT
* ** * *
57149298 CTTTGATCTACTTCACGCC-AGTACATGAAGACACGATCTATTTTCTTCGACCTACTCCACCACC
1 CTTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACC
* *
57149362 AGTATGGGGAGACAAGATCTATTT
65 AGTATGGGGAGACAAGATCTGTTA
*
57149386 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
*
57149451 GTATGGGGAGACAAGGTCTGTTGA
66 GTATGGGGAGACAAGATCTGTT-A
* *
57149475 CTTTGATCTACTTCACGCCGATACATGAAGGCAAGATCTGCTTTCTTTGATCTACTCCACCACTA
1 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
* *
57149540 GTATGGGGAGATAAGATTTGTTGA
66 GTATGGGGAGACAAGATCTGTT-A
* * * * * *
57149564 CTTTGATCTACTTCACGCTGATACATGAAGACAATATCTACTTTCTTTCGATCTGCTTCGCCACC
1 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTT-GATCTACTCCACCACC
* * *
57149629 AGTATGGGAAGGCGAGATCTGTATA
65 AGTATGGGGAGACAAGATCTGT-TA
* * * * * *
57149654 -TTCGATCTACTTCACG-CTAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCA
1 CTTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCTGCT-TT-CTTTGATCTACTCCACCA
* * *
57149716 CCAGTATGGGAAGGCGAGATCTGTTA
63 CCAGTATGGGGAGACAAGATCTGTTA
* * * *
57149742 TCTTTGATCTACTTCACGCCAGA-ACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGC
1 -CTTTGATCTACTTCACGCC-GATACATGAAGACAAGATCTGC--TTT-CTTTGATCTACTCCAC
* * *
57149806 CACCAGTATGGGAAGGCGAGATCTGT
61 CACCAGTATGGGGAGACAAGATCTGT
57149832 ATATTCGATC
Statistics
Matches: 397, Mismatches: 35, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
88 82 0.21
89 200 0.50
90 66 0.17
91 2 0.01
92 46 0.12
93 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (88 bp):
CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
GTATGGGGAGACAAGATCTGTTA
Found at i:57151217 original size:46 final size:47
Alignment explanation
Indices: 57151165--57151255 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
57151155 AGCCTCTCCA
* * *
57151165 TTTTTTTTT-ACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTC
1 TTTTTTTTTCACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
*
57151211 TTTTTTTTTCACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTTCACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
57151256 CCACCTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 9 0.22
47 31 0.77
ACGTcount: A:0.12, C:0.26, G:0.16, T:0.45
Consensus pattern (47 bp):
TTTTTTTTTCACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
Found at i:57151265 original size:47 final size:47
Alignment explanation
Indices: 57151167--57151266 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
57151157 CCTCTCCATT
* * * * * ***
57151167 TTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTT
1 TTTTTTCACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
*
57151214 TTTTTTCACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTTCACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
57151261 TTTTTT
1 TTTTTT
57151267 AAGCAGAGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.12, C:0.28, G:0.15, T:0.45
Consensus pattern (47 bp):
TTTTTTCACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
Found at i:57165288 original size:10 final size:10
Alignment explanation
Indices: 57165268--57165298 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
57165258 ATACTGTGGC
57165268 ATATGCCAACT
1 ATAT-CCAACT
57165279 ATATCCAACT
1 ATATCCAACT
57165289 ATATCCAACT
1 ATATCCAACT
57165299 TTACTCGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (10 bp):
ATATCCAACT
Found at i:57166990 original size:23 final size:23
Alignment explanation
Indices: 57166946--57166992 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
57166936 ATAGTATATC
* *
57166946 AATATTAATAATTAAATACCTAA
1 AATAATAATAATCAAATACCTAA
* *
57166969 AATAATAATAATCAATTTCCTAA
1 AATAATAATAATCAAATACCTAA
57166992 A
1 A
57166993 GATATTTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAATAATAATCAAATACCTAA
Found at i:57167506 original size:20 final size:22
Alignment explanation
Indices: 57167483--57167528 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
57167473 ACATAAAAAC
*
57167483 ATAAAA-AAAAATATCT-TATA
1 ATAAAATAAAAAGATCTATATA
*
57167503 ATAAAATAAAAGGATCTATATA
1 ATAAAATAAAAAGATCTATATA
57167525 ATAA
1 ATAA
57167529 GATTAGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
22 8 0.36
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (22 bp):
ATAAAATAAAAAGATCTATATA
Found at i:57171635 original size:50 final size:50
Alignment explanation
Indices: 57171574--57172127 Score: 418
Period size: 50 Copynumber: 11.1 Consensus size: 50
57171564 TATAATGTCG
* * * ** *
57171574 GGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
1 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
* * * * *
57171624 GGGAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
* ** ** ** *
57171674 GGGAAGCAAAATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCT
1 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
* * * * * *
57171724 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
* ** * *
57171774 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGCCT
1 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
* * * * * * *
57171824 GAGAAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
* * * *
57171874 GGGAAGCAATATTCATCG-T-TGGCTTTAATCTGCTTT-ACTGCACTG-GA
1 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTG-TTTAACTGCAATGCCA
* ** ** * *
57171921 TGAGAGAGTGAGATTCGTCGTTGTGACTTTAATCCT-TTTAACTGCAATGTC-
1 -GGGA-AGCAAGATTCACCGTTGTGGCTTTAAT-CTGTTTAACTGCAATGCCA
* * * *
57171972 GAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTTCACTGCATTGCCA
1 G-GGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
* * * * * * * * * *
57172023 GGGAAGTAACACTCGCTGCTGTGGCTTTAGTCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
* ** * *
57172073 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGCTA
1 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
57172123 GGGAA
1 GGGAA
57172128 AATATGATCT
Statistics
Matches: 379, Mismatches: 114, Indels: 22
0.74 0.22 0.04
Matches are distributed among these distances:
48 22 0.06
49 16 0.04
50 320 0.84
51 19 0.05
52 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTAACTGCAATGCCA
Found at i:57171728 original size:100 final size:100
Alignment explanation
Indices: 57171549--57172120 Score: 751
Period size: 100 Copynumber: 5.7 Consensus size: 100
57171539 AACTCGTAAT
** ** * *
57171549 TTTAATCTACTTAACTATAATGTCGGGGAAGCAAGATTCGCC-ATTGTAGCTTTAATCTGTTCCA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCA
* *
57171613 CTGCACTGCCAGGGAAGTAAGATTCGCCGTTGTGGC
65 CTGCACTGCCTGGGAAGTAAGATTCGCTGTTGTGGC
* *
57171649 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTCACCAATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* *
57171714 TGCACCGCCTGGGAAGTAAGATTCGCTGTTGTAGC
66 TGCACTGCCTGGGAAGTAAGATTCGCTGTTGTGGC
*
57171749 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* * *
57171814 TGCACTGCCTGAGAAGTAAGATTCACTGTTGTAGC
66 TGCACTGCCTGGGAAGTAAGATTCGCTGTTGTGGC
* * *
57171849 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAATATTCATCG-T-TGGCTTTAATCTGCTT-TA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTG-TTCCA
** * * *
57171911 CTGCACTGGATGAGAGAGTGAGATTCG-TCGTTGTGAC
65 CTGCACTGCCTGGGA-AGTAAGATTCGCT-GTTGTGGC
* * * *
57171948 TTTAATCCTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTG-TTCCA
* * * * *
57172012 CTGCATTGCCAGGGAAGTAACACTCGCTGCTGTGGC
65 CTGCACTGCCTGGGAAGTAAGATTCGCTGTTGTGGC
*
57172048 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
57172113 TGCACTGC
66 TGCACTGC
57172121 TAGGGAAAAT
Statistics
Matches: 415, Mismatches: 49, Indels: 16
0.86 0.10 0.03
Matches are distributed among these distances:
98 28 0.07
99 58 0.14
100 300 0.72
101 29 0.07
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
TGCACTGCCTGGGAAGTAAGATTCGCTGTTGTGGC
Found at i:57172363 original size:46 final size:46
Alignment explanation
Indices: 57172133--57172544 Score: 380
Period size: 46 Copynumber: 9.2 Consensus size: 46
57172123 GGGAAAATAT
*
57172133 GATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
1 GATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
* * *
57172179 AATCTGAAATTCTTCGGTCTATTCCCCTATAATCTCAGGGAGATAA
1 GATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
*
57172225 GATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATCAA
1 GATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGAT-AA
*
57172272 -ATCTGAAATTTTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
1 GATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
** * *
57172317 GATCTGAAATTCTTCACTCTATTCCACTGTAATTTTAGGGAGATAA
1 GATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
* * * * * * *
57172363 GACCTG--A---TGCGATCTACTCTACTGTAATTTCAGAGAGATAA
1 GATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
** ** *** *
57172404 GATCCT-TTATT-TT-AATCCGCTCCACTGTAATCTCAGGGAGATAG
1 GAT-CTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
* * ** ** * *
57172448 GAT-T--ACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAA
1 GATCTGAAAT-TCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
* * *
57172492 GATCTGAAATTTTTCGGTCTATTCCACTGTAATATCAAGGAGATAA
1 GATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
*
57172538 GACCTGA
1 GATCTGA
57172545 TGCAATCTAC
Statistics
Matches: 304, Mismatches: 49, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
41 30 0.10
42 3 0.01
43 3 0.01
44 58 0.19
45 4 0.01
46 202 0.66
47 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (46 bp):
GATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAA
Found at i:57172445 original size:44 final size:45
Alignment explanation
Indices: 57172293--57172670 Score: 200
Period size: 44 Copynumber: 8.6 Consensus size: 45
57172283 TTCGGTCTAT
* * **
57172293 TCCACTGTAATCTCAGGGAGATAAGAT-CTGAAATT-CTTCACTCTAT
1 TCCACTGTAATCTCAGGGAGATAAGATCCT---ATTATTTCAATCTGC
* * * * * *
57172339 TCCACTGTAATTTTAGGGAGATAAGA-CC--TGA-TGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAATCTGC
* * * * *
57172380 TCTACTGTAATTTCAGAGAGATAAGATCCT-TTATTTTAATCCGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAATCTGC
* * *
57172424 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTATTA-TTTCAATCTGC
* * ** **
57172468 TCCGCTGTAATCTCAAGGAGATAAGAT-CTGAAATT-TTTCGGTCTAT
1 TCCACTGTAATCTCAGGGAGATAAGATCCT---ATTATTTCAATCTGC
* * * * *
57172514 TCCACTGTAATATCAAGGAGATAAGA-CC--TGA-TGCAATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAATCTGC
* * * *
57172555 TCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTATTATTTCAATCTGC
* * * *
57172599 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTATTA-TTTCAATCTGC
*
57172643 TCCGCTGTAATCTCAGGGAGATAAGATC
1 TCCACTGTAATCTCAGGGAGATAAGATC
57172671 TGGAACTCTT
Statistics
Matches: 252, Mismatches: 59, Indels: 43
0.71 0.17 0.12
Matches are distributed among these distances:
41 58 0.23
42 6 0.02
43 8 0.03
44 120 0.48
45 2 0.01
46 56 0.22
48 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (45 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAATCTGC
Found at i:57172515 original size:175 final size:175
Alignment explanation
Indices: 57172288--57172684 Score: 668
Period size: 175 Copynumber: 2.3 Consensus size: 175
57172278 AATTTTTCGG
* * * *
57172288 TCTATTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATTTT
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATATC
* * *
57172353 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTA
66 AAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
57172418 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
131 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
* * * **
57172463 TCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTTTTCGGTCTATTCCACTGTAATATC
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATATC
57172528 AAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
66 AAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
57172593 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
131 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
* *
57172638 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGGAACTCTTCACT
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACT
57172685 TATCTATTCT
Statistics
Matches: 203, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
175 203 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (175 bp):
TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATATC
AAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
Found at i:57175164 original size:16 final size:16
Alignment explanation
Indices: 57175101--57175168 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
57175091 ATTAAGAGAA
*
57175101 AAAAATAATAA-AATAA
1 AAAAATAATAACAA-AT
* *
57175117 AAAAAGTAAAAGACTAAT
1 AAAAA-TAATA-ACAAAT
* *
57175135 AATAATAATGACAAAT
1 AAAAATAATAACAAAT
57175151 AAAAATAATAAC-AAT
1 AAAAATAATAACAAAT
57175166 AAA
1 AAA
57175169 TCAATTAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
15 6 0.15
16 20 0.50
17 7 0.17
18 6 0.15
19 1 0.03
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAAATAATAACAAAT
Found at i:57176671 original size:100 final size:100
Alignment explanation
Indices: 57176492--57177064 Score: 725
Period size: 100 Copynumber: 5.7 Consensus size: 100
57176482 AACTCGCAAT
** ** * *
57176492 TTTAATCTGCTTAACTGTGATGTCGGGGAAGTAAGATTCACC-ATTGTAGCTTTAATCTGTTCCA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCA
* *
57176556 CTGCACTGCCAGGGAAGTAAGATTTGCCGTTGTGGC
65 CTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
57176592 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
** * * *
57176657 TGCACCACCTGGGAAGCAAGATTCGCTGTTGTAGC
66 TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
* * *
57176692 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCTATGTGGATTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* * *
57176757 TGCACTGCCTGAGAAGTAAGATTCGCTGTTGTAGC
66 TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
* * * * * *
57176792 TTTAATCTTTTTAACTCCAATATCGGGGAAGCAATATTCACCGTTGTGGCTTTAATCTGCTCTAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* * * * * *
57176857 TGAACTGGCTGAGAGAGTGAGATTCGTCGTTGTGAC
66 TGCACTGCCTGGGA-AGTAAGATTCGCCGTTGTGGC
* * * * *
57176893 TTTAATCCTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* * ** * * *
57176958 TGTATTGCCAAGGAAGTAACACTCGCCGCTGTGGC
66 TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
*
57176993 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
57177058 TGCACTG
66 TGCACTG
57177065 TAGGGAAAAT
Statistics
Matches: 406, Mismatches: 65, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
100 325 0.80
101 81 0.20
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (100 bp):
TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
Found at i:57177033 original size:301 final size:300
Alignment explanation
Indices: 57176514--57177064 Score: 778
Period size: 301 Copynumber: 1.8 Consensus size: 300
57176504 AACTGTGATG
* * * *
57176514 TCGGGGAAGTAAGATTCACCATTGTAGCTTTAATCTGTTCCACTGCACTGCCAGGGAAGTAAGAT
1 TCGGGGAAGCAAGATTCACCATTGTAGCTTTAATCTGCTCCACTGAACTGCCAGAGAAGTAAGAT
* * * * *
57176579 TTGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTT
66 TCGCCGTTGTGACTTTAATCCTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCGATGTGGCTT
** * * * *
57176644 TAATCTGTTCCACTGCACCACCTGGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTG
131 TAATCTGTTCCACTGCACCACCAAGGAAGCAACACTCGCCGCTGTAGCTTTAATCTTTTTAACTG
*
57176709 CAATGTCAGGGAAGCAAGATTCACCTATGTGGATTTAATCTGTTCCACTGCACTGCCTGAGAAGT
196 CAATGTCAGGGAAGCAAGATTCACCGATGTGGATTTAATCTGTTCCACTGCACTGCCTGAGAAGT
57176774 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTCCAATA
261 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTCCAATA
* * * * * * *
57176814 TCGGGGAAGCAATATTCACCGTTGTGGCTTTAATCTGCTCTACTGAACTGGCTGAGAGAGTGAGA
1 TCGGGGAAGCAAGATTCACCATTGTAGCTTTAATCTGCTCCACTGAACTGCCAGAGA-AGTAAGA
* *
57176879 TTCGTCGTTGTGACTTTAATCCTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTGGCT
65 TTCGCCGTTGTGACTTTAATCCTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCGATGTGGCT
* * *** * * *
57176944 TTAATCTGTTTCACTGTATTGCCAAGGAAGTAACACTCGCCGCTGTGGCTTTAGTCTTTTTAACT
130 TTAATCTGTTCCACTGCACCACCAAGGAAGCAACACTCGCCGCTGTAGCTTTAATCTTTTTAACT
* *
57177009 GCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTG
195 GCAATGTCAGGGAAGCAAGATTCACCGATGTGGATTTAATCTGTTCCACTGCACTG
57177065 TAGGGAAAAT
Statistics
Matches: 215, Mismatches: 35, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
300 47 0.22
301 168 0.78
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (300 bp):
TCGGGGAAGCAAGATTCACCATTGTAGCTTTAATCTGCTCCACTGAACTGCCAGAGAAGTAAGAT
TCGCCGTTGTGACTTTAATCCTTTTAACTGCAATGTCGAGAAAGCAAGATTCACCGATGTGGCTT
TAATCTGTTCCACTGCACCACCAAGGAAGCAACACTCGCCGCTGTAGCTTTAATCTTTTTAACTG
CAATGTCAGGGAAGCAAGATTCACCGATGTGGATTTAATCTGTTCCACTGCACTGCCTGAGAAGT
AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTCCAATA
Found at i:57177061 original size:50 final size:50
Alignment explanation
Indices: 57176492--57177053 Score: 439
Period size: 50 Copynumber: 11.2 Consensus size: 50
57176482 AACTCGCAAT
* ** * * *
57176492 TTTAATCTGCTTAACTGTGATGTCGGGGAAGTAAGATTCACCATTGTAGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
** * * * * **
57176542 TTTAATCTGTTCCACTGCACTGCCAGGGAAGTAAGATTTGCCGTTGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* *
57176592 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
** **** * * * *
57176642 TTTAATCTGTTCCACTGCACCACCTGGGAAGCAAGATTCGCTGTTGTAGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * *
57176692 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACC-TATGTGGA
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT-TGTGGC
** * * * * * * * *
57176742 TTTAATCTGTTCCACTGCACTGCCTGAGAAGTAAGATTCGCTGTTGTAGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * *
57176792 TTTAATCTTTTTAACTCCAATATCGGGGAAGCAATATTCACCGTTGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * * ** ** *
57176842 TTTAATCTGCTCT-ACTG-AACTGGCTGAGAGAGTGAGATTCGTCGTTGTGAC
1 TTTAATCTG-TTTAACTGCAA-TGTCGGGGA-AGCAAGATTCACCGTTGTGGC
* *
57176893 TTTAATCCT-TTTAACTGCAATGTCGAGAAAGCAAGATTCACCGTTGTGGC
1 TTTAAT-CTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * * ** * * * * *
57176943 TTTAATCTGTTTCACTGTATTGCCAAGGAAGTAACACTCGCCGCTGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * *
57176993 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
57177043 TTTAATCTGTT
1 TTTAATCTGTT
57177054 CCACTGCACT
Statistics
Matches: 381, Mismatches: 122, Indels: 18
0.73 0.23 0.03
Matches are distributed among these distances:
49 5 0.01
50 340 0.89
51 32 0.08
52 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (50 bp):
TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
Found at i:57177388 original size:44 final size:45
Alignment explanation
Indices: 57177326--57177613 Score: 190
Period size: 44 Copynumber: 6.6 Consensus size: 45
57177316 CGATCTACTT
* * *
57177326 ACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATCCTATTATTTCAATCTGCTCC
* * *
57177370 ACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCTATTA-TTTCAATCTGCTCC
* ** **
57177414 GCTGTAATCTCAGGGAGATAAGAT-CTGAAATT-TTTCGGTCTATTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT---ATTATTTCAATCTGCTCC
* * * * *
57177460 ACTGTAATCTCAAGGAGATAAGA-CC--TGA-TGCAATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAATCTGCTCC
* * *
57177501 ACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATCCTATTATTTCAATCTGCTCC
* * * * *
57177545 ACTATAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTACTCC
1 ACTGTAATCTCAGGGAGATAAGATCCTATTA-TTTCAATCTGCTCC
*
57177589 GCTGTAATCTCAGGGAGATAAGATC
1 ACTGTAATCTCAGGGAGATAAGATC
57177614 TGGAACTCTT
Statistics
Matches: 186, Mismatches: 41, Indels: 33
0.72 0.16 0.13
Matches are distributed among these distances:
40 1 0.01
41 28 0.15
42 4 0.02
43 6 0.03
44 111 0.60
45 3 0.02
46 31 0.17
48 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (45 bp):
ACTGTAATCTCAGGGAGATAAGATCCTATTATTTCAATCTGCTCC
Found at i:57177438 original size:88 final size:88
Alignment explanation
Indices: 57177327--57177613 Score: 329
Period size: 88 Copynumber: 3.3 Consensus size: 88
57177317 GATCTACTTA
57177327 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
*
57177392 ATTACTAGCTTCAATCTGCTCCG
66 ATTACTAGCTTCAATCTACTCCG
* ** * *
57177415 CTGTAA-TCTCAGGGAGATAAGAT-CTGAAATTTT--TCGGTCTATTCCACTGTAATCTCAAGGA
1 CTGTAACT-TCAGAGAGATAAGATCCT-TTATTTTAATCCG-C---TCCACTGTAATCTCAGGGA
* * * * **
57177476 GATAAGA--CCT-GATGCAATCTACTCTA
60 GATAGGATTACTAGCTTCAATCTACTCCG
*
57177502 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAGGGAGATAGG
1 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
57177567 ATTACTAGCTTCAATCTACTCCG
66 ATTACTAGCTTCAATCTACTCCG
*
57177590 CTGTAA-TCTCAGGGAGATAAGATC
1 CTGTAACT-TCAGAGAGATAAGATC
57177614 TGGAACTCTT
Statistics
Matches: 160, Mismatches: 25, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
85 23 0.14
86 3 0.02
87 43 0.27
88 64 0.40
89 3 0.02
90 24 0.15
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (88 bp):
CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
ATTACTAGCTTCAATCTACTCCG
Found at i:57177482 original size:46 final size:46
Alignment explanation
Indices: 57177073--57177487 Score: 399
Period size: 46 Copynumber: 9.2 Consensus size: 46
57177063 TGTAGGGAAA
*
57177073 ATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * *
57177119 ATAAAATCTAAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
57177165 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * *
57177211 ATAAAATTTGAAATTTTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * *
57177257 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGAGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * * * *
57177303 ATCAGACCTG--A---TGCGATCTACTT--ACTGTAA-CTTCAGAGAG
1 ATAAGATCTGAAATTCTTCGGTCTA-TTCCACTGTAATC-TCAGGGAG
** ** ***
57177343 ATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAATCTCAGGGAG
1 ATAAGAT-CTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * * ** ** *
57177387 ATAGGAT-T--ACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 ATAAGATCTGAAAT-TCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* *
57177431 ATAAGATCTGAAATTTTTCGGTCTATTCCACTGTAATCTCAAGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
*
57177477 ATAAGACCTGA
1 ATAAGATCTGA
57177488 TGCAATCTAC
Statistics
Matches: 306, Mismatches: 47, Indels: 32
0.79 0.12 0.08
Matches are distributed among these distances:
40 20 0.07
41 9 0.03
42 5 0.02
43 5 0.02
44 53 0.17
45 2 0.01
46 210 0.69
47 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (46 bp):
ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
Found at i:57177486 original size:174 final size:175
Alignment explanation
Indices: 57177232--57177625 Score: 666
Period size: 175 Copynumber: 2.3 Consensus size: 175
57177222 AATTTTTCGG
* * *
57177232 TCTATTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTC
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTC
* *
57177297 AGAGAGATCAGACCTGATGCGATCTACT-TACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
66 AGAGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
*
57177361 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
131 ATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAA
* * *
57177406 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTATTCCACTGTAATCTC
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTC
57177471 A-AGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
66 AGA-GAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
57177535 AATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAA
130 AATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAA
* *
57177581 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGGAACTCTTCA
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCA
57177626 CTGATCTATT
Statistics
Matches: 204, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
173 1 0.00
174 83 0.41
175 120 0.59
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (175 bp):
TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTC
AGAGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAA
Found at i:57177534 original size:87 final size:88
Alignment explanation
Indices: 57177277--57177564 Score: 260
Period size: 87 Copynumber: 3.3 Consensus size: 88
57177267 AAATTCTTCA
* * *
57177277 GTCTATTCCACTGTAATTTC-AGAGAGATCAGACCTGATGCGATCTACT-TACTGTAACTTCAGA
1 GTCTATTCCACTGTAATCTCAAG-GAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGA
57177340 GAGATAAGATCCTTTATTTTAATCC
65 GAGATAAGATCCTTTATTTT-ATCC
* * * * * * **
57177365 G-C---TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-TCTC
1 GTCTATTCCACTGTAATCTCAAGGAGATAAGA--CCT-GATGCAATCTACTCTACTGTAACT-TC
* ** *
57177425 AGGGAGATAAGAT-CTGAAATTTT-TCG
62 AGAGAGATAAGATCCT-TTATTTTATCC
57177451 GTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAG
1 GTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAG
57177516 AGATAAGATCCTTTATTTTAATCC
66 AGATAAGATCCTTTATTTT-ATCC
* *
57177540 G-C---TCCACTATAATCTCAGGGAGATA
1 GTCTATTCCACTGTAATCTCAAGGAGATA
57177565 GGATTACTAG
Statistics
Matches: 156, Mismatches: 29, Indels: 33
0.72 0.13 0.15
Matches are distributed among these distances:
84 20 0.13
85 22 0.14
86 5 0.03
87 50 0.32
88 32 0.21
89 3 0.02
90 24 0.15
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (88 bp):
GTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAG
AGATAAGATCCTTTATTTTATCC
Found at i:57178890 original size:21 final size:22
Alignment explanation
Indices: 57178848--57178890 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
57178838 TTAGCCTCTC
*
57178848 CATTTTTACGTTTTCATTTTTT
1 CATTTTTACATTTTCATTTTTT
57178870 CATTTTT-CATTTTCATTTTTT
1 CATTTTTACATTTTCATTTTTT
57178891 TGACTCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (22 bp):
CATTTTTACATTTTCATTTTTT
Found at i:57184895 original size:8 final size:8
Alignment explanation
Indices: 57184882--57184909 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
57184872 AGATTAGGAG
57184882 AAAAAAAT
1 AAAAAAAT
57184890 AAAAAAAT
1 AAAAAAAT
57184898 AAAAAAAT
1 AAAAAAAT
57184906 AAAA
1 AAAA
57184910 GACTAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:57191400 original size:44 final size:44
Alignment explanation
Indices: 57191334--57191657 Score: 285
Period size: 44 Copynumber: 7.4 Consensus size: 44
57191324 TTCCTATACC
** * *
57191334 CCTAAAGTTTTAGTGG-GTTAGATTGAAGCTACAAATCTTATCTT
1 CCTAAAGTTGCAGTGGAG-TAGATTGAAACAACAAATCTTATCTT
* *
57191378 CCTAAAGTTGTAGTGGAATAGATTGAAACAACAAATCTTATCTT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
* * * * * *
57191422 CTTGAAGTTGCAGTAGAGTAGATTGAGACAACAAATCTTATATC
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
* * * * * * *
57191466 CCTAAAATTGTAGTAGAGCAGACTGAAACAATAAATCTTAT-AT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
* * * * *
57191509 CTCTAAAATTGCAGTGGAGCAGACTGAAACAACGAATCTTAACTT
1 C-CTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
* * *
57191554 CCTGAAGTTGCAGTGGAGTAGATTGAAACAACGAATCTTCTCTT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
* * * * * * * *
57191598 CCTGAAGTTGCAGTGGAGCAAATTGAAGCGATAAATCCTATACCT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTAT-CTT
57191643 -CTAAAGTTGCAGTGG
1 CCTAAAGTTGCAGTGG
57191658 GTTAGAATGA
Statistics
Matches: 232, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
43 1 0.00
44 227 0.98
45 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (44 bp):
CCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCTT
Found at i:57191573 original size:132 final size:132
Alignment explanation
Indices: 57191366--57191657 Score: 343
Period size: 132 Copynumber: 2.2 Consensus size: 132
57191356 TTGAAGCTAC
* * * * * *
57191366 AAATCTTATCT-TCCTAAAGTTGTAGTGGAATAGATTGAAACAACAAATCTTATCTTCTTGAAGT
1 AAATCTTATATCT-CTAAAGTTGCAGTGGAACAGACTGAAACAACAAATCTTAACTTCCTGAAGT
* * *
57191430 TGCAGTAGAGTAGATTGAGACAACAAATCTTATATCCCTAAAATTGTAGTAGAGCAGACTGAAAC
65 TGCAGTAGAGTAGATTGAAACAACAAATCTTATATCCCTAAAATTGCAGTAGAGCAAACTGAAAC
57191495 AAT
130 AAT
* * *
57191498 AAATCTTATATCTCTAAAATTGCAGTGGAGCAGACTGAAACAACGAATCTTAACTTCCTGAAGTT
1 AAATCTTATATCTCTAAAGTTGCAGTGGAACAGACTGAAACAACAAATCTTAACTTCCTGAAGTT
* * * * * * * * * * *
57191563 GCAGTGGAGTAGATTGAAACAACGAATCTTCTCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCG
66 GCAGTAGAGTAGATTGAAACAACAAATCTTATATCCCTAAAATTGCAGTAGAGCAAACTGAAACA
57191628 AT
131 AT
* *
57191630 AAATCCTATACCTCTAAAGTTGCAGTGG
1 AAATCTTATATCTCTAAAGTTGCAGTGG
57191658 GTTAGAATGA
Statistics
Matches: 133, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
132 132 0.99
133 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (132 bp):
AAATCTTATATCTCTAAAGTTGCAGTGGAACAGACTGAAACAACAAATCTTAACTTCCTGAAGTT
GCAGTAGAGTAGATTGAAACAACAAATCTTATATCCCTAAAATTGCAGTAGAGCAAACTGAAACA
AT
Found at i:57193114 original size:4 final size:4
Alignment explanation
Indices: 57193105--57193134 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
57193095 AATTGTTCTT
*
57193105 TTTA TTTA TTTA TTTA TTTA CTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
57193135 ATTCCTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:57195170 original size:34 final size:35
Alignment explanation
Indices: 57195131--57195197 Score: 127
Period size: 34 Copynumber: 1.9 Consensus size: 35
57195121 CAGTAAAATA
57195131 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
57195165 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
57195198 CTGGTGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 18 0.56
35 14 0.44
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:57207321 original size:21 final size:21
Alignment explanation
Indices: 57207278--57207321 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
57207268 CTGGAGTTTA
*
57207278 TAATTAATATTTAATAATATT
1 TAATTAATATTTAACAATATT
*
57207299 TAATTAAT-TTGTAACAATGTT
1 TAATTAATATT-TAACAATATT
57207320 TA
1 TA
57207322 CTTTCTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATTAATATTTAACAATATT
Found at i:57211152 original size:28 final size:28
Alignment explanation
Indices: 57211119--57211207 Score: 178
Period size: 28 Copynumber: 3.2 Consensus size: 28
57211109 AATCCTATAA
57211119 AAGTTGAATTTCTAGTCTGCACATGATT
1 AAGTTGAATTTCTAGTCTGCACATGATT
57211147 AAGTTGAATTTCTAGTCTGCACATGATT
1 AAGTTGAATTTCTAGTCTGCACATGATT
57211175 AAGTTGAATTTCTAGTCTGCACATGATT
1 AAGTTGAATTTCTAGTCTGCACATGATT
57211203 AAGTT
1 AAGTT
57211208 TGTTGATCGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (28 bp):
AAGTTGAATTTCTAGTCTGCACATGATT
Found at i:57213102 original size:6 final size:6
Alignment explanation
Indices: 57213091--57213116 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
57213081 CTCGGCTCTG
57213091 GGTACT GGTACT GGTACT GGTACT GG
1 GGTACT GGTACT GGTACT GGTACT GG
57213117 ATACCCACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (6 bp):
GGTACT
Found at i:57213664 original size:20 final size:20
Alignment explanation
Indices: 57213639--57213699 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
57213629 AGATTTACAT
57213639 ATTCTATCAATTTTATTTAA
1 ATTCTATCAATTTTATTTAA
** *
57213659 ATTCTA--AAAATAATTT--
1 ATTCTATCAATTTTATTTAA
57213675 A-TCTATCAATTTTATTTAA
1 ATTCTATCAATTTTATTTAA
57213694 ATTCTA
1 ATTCTA
57213700 AAAATAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
15 4 0.13
16 1 0.03
17 7 0.23
18 7 0.23
19 1 0.03
20 10 0.33
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTCTATCAATTTTATTTAA
Found at i:57213681 original size:35 final size:35
Alignment explanation
Indices: 57213641--57213712 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
57213631 ATTTACATAT
57213641 TCTATCAATTTTATTTAAATTCTAAAAATAATTTA
1 TCTATCAATTTTATTTAAATTCTAAAAATAATTTA
57213676 TCTATCAATTTTATTTAAATTCTAAAAATAATTTA
1 TCTATCAATTTTATTTAAATTCTAAAAATAATTTA
57213711 TC
1 TC
57213713 ATTTTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.49
Consensus pattern (35 bp):
TCTATCAATTTTATTTAAATTCTAAAAATAATTTA
Found at i:57214193 original size:22 final size:23
Alignment explanation
Indices: 57214149--57214193 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
57214139 TAATATAATA
* *
57214149 ACAAAATGACCAATAAAACAGTG
1 ACAAAATGAACAACAAAACAGTG
*
57214172 ACAAAAT-AACAACAAAATAGTG
1 ACAAAATGAACAACAAAACAGTG
57214194 GAAATAGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (23 bp):
ACAAAATGAACAACAAAACAGTG
Found at i:57230934 original size:19 final size:19
Alignment explanation
Indices: 57230910--57230950 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
57230900 TATTCCTCGT
57230910 TTTCTATATATATTTT-TAA
1 TTTCTATATAT-TTTTATAA
57230929 TTTCTATATATTTTTATAA
1 TTTCTATATATTTTTATAA
57230948 TTT
1 TTT
57230951 AGAAAACTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTATATATTTTTATAA
Found at i:57231454 original size:40 final size:40
Alignment explanation
Indices: 57231356--57231456 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
57231346 TATTTAGTAA
* *
57231356 AATAAAATTTTTACTATATTTATTTGTGTTTTTTTAATAT
1 AATAAAATTTTTAATATATTTATTAGTGTTTTTTTAATAT
* *
57231396 AATAAAATATTTATTATATTTATGGTAGTG-TTTTTTAATAT
1 AATAAAATTTTTAATATATTTAT--TAGTGTTTTTTTAATAT
* *
57231437 AA-ATATTTTTTAATATATTT
1 AATAAAATTTTTAATATATTT
57231457 TTAATGTGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 35 0.67
41 13 0.25
42 4 0.08
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (40 bp):
AATAAAATTTTTAATATATTTATTAGTGTTTTTTTAATAT
Found at i:57231754 original size:12 final size:12
Alignment explanation
Indices: 57231737--57231763 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57231727 TATTCTAGAA
57231737 TTTTTTTAAAAT
1 TTTTTTTAAAAT
57231749 TTTTTTTAAAAT
1 TTTTTTTAAAAT
57231761 TTT
1 TTT
57231764 GCTTATGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTTAAAAT
Found at i:57232122 original size:22 final size:23
Alignment explanation
Indices: 57232083--57232127 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
57232073 TTGAATTAAA
57232083 TATGAAATTAAAATATATATTTT
1 TATGAAATTAAAATATATATTTT
57232106 TATGAAA-T-AAATAATATATTTT
1 TATGAAATTAAAAT-ATATATTTT
57232128 CAATTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 10 0.48
23 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
TATGAAATTAAAATATATATTTT
Found at i:57234598 original size:21 final size:22
Alignment explanation
Indices: 57234573--57234614 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
57234563 ATGTTGTTTA
57234573 AATTTATCACAT-ATTATTTTT
1 AATTTATCACATAATTATTTTT
*
57234594 AATTTATCATATAATTATTTT
1 AATTTATCACATAATTATTTT
57234615 AAGTTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTATCACATAATTATTTTT
Found at i:57238946 original size:52 final size:52
Alignment explanation
Indices: 57238889--57238993 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
57238879 AGGTGTAAAA
* * * ** *
57238889 ACATAATGCATGAAATACAACAAAGGTTGGGCCTGTTTTTGCCCCTATGTGT
1 ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGCCCCTATGTGT
*
57238941 ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGTCCCTATGTGT
1 ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGCCCCTATGTGT
57238993 A
1 A
57238994 GGCCTATAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (52 bp):
ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGCCCCTATGTGT
Found at i:57243377 original size:16 final size:16
Alignment explanation
Indices: 57243356--57243443 Score: 110
Period size: 15 Copynumber: 5.7 Consensus size: 16
57243346 ATTATTTGTT
*
57243356 TAACCTTTTTAATCAA
1 TAACCTTTTCAATCAA
*
57243372 TAACCTTTTCAATTAA
1 TAACCTTTTCAATCAA
*
57243388 TAACCTTTTC-ATCGA
1 TAACCTTTTCAATCAA
*
57243403 TAGCCTTTTCAA-CAA
1 TAACCTTTTCAATCAA
*
57243418 TAACCTTTTCAAT-GA
1 TAACCTTTTCAATCAA
57243433 TAACCTTTTCA
1 TAACCTTTTCA
57243444 CGGATAACCT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
15 37 0.60
16 25 0.40
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (16 bp):
TAACCTTTTCAATCAA
Found at i:57243411 original size:15 final size:15
Alignment explanation
Indices: 57243356--57243460 Score: 97
Period size: 15 Copynumber: 6.9 Consensus size: 15
57243346 ATTATTTGTT
* *
57243356 TAACCTTTTTAATCAA
1 TAACC-TTTTCATCGA
**
57243372 TAACCTTTTCAATTAA
1 TAACCTTTTC-ATCGA
57243388 TAACCTTTTCATCGA
1 TAACCTTTTCATCGA
* * *
57243403 TAGCCTTTTCAACAA
1 TAACCTTTTCATCGA
57243418 TAACCTTTTCAAT-GA
1 TAACCTTTTC-ATCGA
57243433 TAACCTTTTCA-CGGA
1 TAACCTTTTCATC-GA
57243448 TAACCTTTTCATC
1 TAACCTTTTCATC
57243461 ATTTTCATTG
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
14 1 0.01
15 52 0.70
16 21 0.28
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (15 bp):
TAACCTTTTCATCGA
Found at i:57243422 original size:30 final size:30
Alignment explanation
Indices: 57243356--57243460 Score: 115
Period size: 30 Copynumber: 3.4 Consensus size: 30
57243346 ATTATTTGTT
* * *
57243356 TAACCTTTTTAATCAATAACCTTTTCAATTAA
1 TAACC-TTTTCATCGATAACCTTTTCAA-CAA
*
57243388 TAACCTTTTCATCGATAGCCTTTTCAACAA
1 TAACCTTTTCATCGATAACCTTTTCAACAA
*
57243418 TAACCTTTTCAAT-GATAACCTTTTC-ACGGA
1 TAACCTTTTC-ATCGATAACCTTTTCAAC-AA
57243448 TAACCTTTTCATC
1 TAACCTTTTCATC
57243461 ATTTTCATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.06
30 34 0.53
31 21 0.33
32 5 0.08
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (30 bp):
TAACCTTTTCATCGATAACCTTTTCAACAA
Found at i:57250904 original size:23 final size:23
Alignment explanation
Indices: 57250878--57250932 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
57250868 ACTTCAAGGG
*
57250878 TTGACACTTATCATTCTCTTATA
1 TTGACACTTATCATCCTCTTATA
57250901 TTGACA-TCTATCATCCTCTTATA
1 TTGACACT-TATCATCCTCTTATA
*
57250924 TCGACACTT
1 TTGACACTT
57250933 GTTGAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 26 0.93
24 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.44
Consensus pattern (23 bp):
TTGACACTTATCATCCTCTTATA
Found at i:57251526 original size:74 final size:75
Alignment explanation
Indices: 57251434--57251572 Score: 235
Period size: 74 Copynumber: 1.9 Consensus size: 75
57251424 TATTATAATA
* * * *
57251434 AATATTAATTTTTTTAAAAATTATAGTTTTTAATTTTTAATATTATAAATTTTGATATTACTAAA
1 AATATTAATTTTTTTAAAAACTAGAATTTTTAATTTTTAATATTATAAATTTTGATATTAATAAA
57251499 CATATATTTT
66 CATATATTTT
57251509 AATATTAA-TTTTTTAAAAACTAGAATTTTTAATTTTTAATATTATAAATTTTGATATTAATAAA
1 AATATTAATTTTTTTAAAAACTAGAATTTTTAATTTTTAATATTATAAATTTTGATATTAATAAA
57251573 TTTGTGTTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
74 52 0.87
75 8 0.13
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (75 bp):
AATATTAATTTTTTTAAAAACTAGAATTTTTAATTTTTAATATTATAAATTTTGATATTAATAAA
CATATATTTT
Found at i:57251565 original size:15 final size:16
Alignment explanation
Indices: 57251542--57251575 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
57251532 AATTTTTAAT
57251542 TTTTAATATT-ATAAA
1 TTTTAATATTAATAAA
*
57251557 TTTTGATATTAATAAA
1 TTTTAATATTAATAAA
57251573 TTT
1 TTT
57251576 GTGTTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTTAATATTAATAAA
Found at i:57254387 original size:54 final size:54
Alignment explanation
Indices: 57254268--57254389 Score: 136
Period size: 54 Copynumber: 2.3 Consensus size: 54
57254258 TGAAGCAGAC
* * * * * **
57254268 ATTGTGTTACGGGCCGAGACTTTAGCTTCATTAACGCGCAATTTTAGTCGGGAG
1 ATTGTGTTACGGGCCGACACTTTAGCCTCATCAACACGCAAGTTTAGTCGAAAG
** * * *
57254322 ATAATGCTACGGGCTGACACTTTAGCCTCATCAACATGCAAGTTTAGTCGAAAG
1 ATTGTGTTACGGGCCGACACTTTAGCCTCATCAACACGCAAGTTTAGTCGAAAG
57254376 ATTGTGTTACGGGC
1 ATTGTGTTACGGGC
57254390 AAAGACTTCA
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (54 bp):
ATTGTGTTACGGGCCGACACTTTAGCCTCATCAACACGCAAGTTTAGTCGAAAG
Found at i:57255948 original size:6 final size:6
Alignment explanation
Indices: 57255939--57255964 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
57255929 ACATATATAT
57255939 ATGGTG ATGGTG ATGGTG ATGGTG AT
1 ATGGTG ATGGTG ATGGTG ATGGTG AT
57255965 ACTTACAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (6 bp):
ATGGTG
Found at i:57262906 original size:7 final size:7
Alignment explanation
Indices: 57262894--57262926 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
57262884 GTCAAAACCA
57262894 TTCAAAT
1 TTCAAAT
57262901 TTCAAAT
1 TTCAAAT
57262908 TTCAAAT
1 TTCAAAT
57262915 TTCAAAT
1 TTCAAAT
57262922 TTCAA
1 TTCAA
57262927 TAATCTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (7 bp):
TTCAAAT
Found at i:57266453 original size:86 final size:86
Alignment explanation
Indices: 57266360--57266519 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 86
57266350 AAAATTATTT
** *
57266360 TTTTAGAAAATTT-TAAA-A-TTTTAACTTTATTTATATATTCTTTAGAATTTTTTAAAA-AATT
1 TTTTAGAAAATTTATAAATATTTTTAACTTTATAAAT-TA-T-TTTA-AATTTTTAAAAATAATT
57266421 ATTATAATTTTTAAAAAAATATAAA
62 ATTATAATTTTTAAAAAAATATAAA
** * *
57266446 TTTTAGAATTTTTATAAATATTTTTAATTTTATAAATTATTTTAAATTTTTAAAAATAATTTTTA
1 TTTTAGAAAATTTATAAATATTTTTAACTTTATAAATTATTTTAAATTTTTAAAAATAATTATTA
57266511 TAATTTTTA
66 TAATTTTTA
57266520 TTCAAAGAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
85 11 0.17
86 31 0.49
87 5 0.08
88 3 0.05
89 13 0.21
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (86 bp):
TTTTAGAAAATTTATAAATATTTTTAACTTTATAAATTATTTTAAATTTTTAAAAATAATTATTA
TAATTTTTAAAAAAATATAAA
Found at i:57266461 original size:18 final size:17
Alignment explanation
Indices: 57266440--57266483 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
57266430 TTTAAAAAAA
57266440 TATAAATTTTAGAATTTT
1 TATAAATTTTAGAA-TTT
**
57266458 TATAAATATTTTTAATTT
1 TATAAAT-TTTAGAATTT
57266476 TATAAATT
1 TATAAATT
57266484 ATTTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 17 0.74
19 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TATAAATTTTAGAATTT
Found at i:57266476 original size:19 final size:19
Alignment explanation
Indices: 57266452--57266520 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
57266442 TAAATTTTAG
57266452 AATTTTTATAAATATTTTT
1 AATTTTTATAAATATTTTT
*
57266471 AA-TTTTATAAATTATTTTA
1 AATTTTTATAAA-TATTTTT
*
57266490 AATTTTTAAAAATAATTTTTAT
1 AATTTTTATAAAT-A-TTTT-T
57266512 AATTTTTAT
1 AATTTTTAT
57266521 TCAAAGAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 9 0.22
19 11 0.27
20 9 0.22
21 4 0.10
22 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTTTATAAATATTTTT
Found at i:57266488 original size:18 final size:19
Alignment explanation
Indices: 57266455--57266517 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 19
57266445 ATTTTAGAAT
57266455 TTTTATAAATATTTTT-AA
1 TTTTATAAATATTTTTAAA
57266473 TTTTATAAAT-TATTTTAAA
1 TTTTATAAATAT-TTTTAAA
*
57266492 TTTTTAAAAATAATTTTTATAA
1 -TTTTATAAAT-ATTTTTA-AA
57266514 TTTT
1 TTTT
57266518 TATTCAAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 1 0.03
18 14 0.37
19 2 0.05
20 9 0.24
21 9 0.24
22 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTATAAATATTTTTAAA
Found at i:57267326 original size:48 final size:48
Alignment explanation
Indices: 57267244--57267337 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
57267234 TTTCTTGGCT
* *
57267244 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
57267292 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
57267338 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:57268222 original size:20 final size:18
Alignment explanation
Indices: 57268187--57268223 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
57268177 TGAAACATGT
57268187 AATAAAATTAATTTTTAA
1 AATAAAATTAATTTTTAA
57268205 AATAATAATTATATTTTTA
1 AATAA-AATTA-ATTTTTA
57268224 TCATTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAAAATTAATTTTTAA
Found at i:57298998 original size:22 final size:22
Alignment explanation
Indices: 57298973--57299024 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
57298963 TTGGTGAATT
57298973 GTTGATGATTTTGAAATGTGCC
1 GTTGATGATTTTGAAATGTGCC
*
57298995 GTTGATGATTTTGAAATGTGTC
1 GTTGATGATTTTGAAATGTGCC
*
57299017 ATTGATGA
1 GTTGATGA
57299025 ATGCTTGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.06, G:0.27, T:0.42
Consensus pattern (22 bp):
GTTGATGATTTTGAAATGTGCC
Found at i:57300392 original size:2 final size:2
Alignment explanation
Indices: 57300385--57300410 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57300375 TTTTCGGTTT
57300385 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
57300411 CCTTGGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57303471 original size:16 final size:16
Alignment explanation
Indices: 57303452--57303506 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
57303442 TTTAGTCCTG
57303452 TTTTATTTTATTTTGT
1 TTTTATTTTATTTTGT
*
57303468 TTTT-TTATTATTTGTCT
1 TTTTATT-TTATTT-TGT
57303485 TTTTA-TTTATTTATTGT
1 TTTTATTTTA-TT-TTGT
57303502 TTTTA
1 TTTTA
57303507 AAAATTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 2 0.06
16 13 0.41
17 16 0.50
18 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTGT
Found at i:57303481 original size:15 final size:15
Alignment explanation
Indices: 57303450--57303506 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
57303440 AATTTAGTCC
*
57303450 TGTTTTATT-TTATTT
1 TGTTTTTTTATTA-TT
57303465 TGTTTTTTTATTATT
1 TGTTTTTTTATTATT
*
57303480 TGTCTTTTTATTTATT
1 TGTTTTTTTA-TTATT
*
57303496 TATTGTTTTTA
1 TGTT-TTTTTA
57303507 AAAATTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 19 0.54
16 10 0.29
17 6 0.17
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (15 bp):
TGTTTTTTTATTATT
Found at i:57303557 original size:15 final size:15
Alignment explanation
Indices: 57303521--57303549 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57303511 TTAATTAGTT
57303521 TTATTATCATTATTA
1 TTATTATCATTATTA
57303536 TTATTATCATTATT
1 TTATTATCATTATT
57303550 GCTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:57311549 original size:7 final size:8
Alignment explanation
Indices: 57311519--57311547 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
57311509 TTATTTTTTT
57311519 ATTTTTAA
1 ATTTTTAA
57311527 ATTTTTAA
1 ATTTTTAA
57311535 ATTTTTAA
1 ATTTTTAA
57311543 ATTTT
1 ATTTT
57311548 AAGAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:57317259 original size:14 final size:14
Alignment explanation
Indices: 57317242--57317275 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57317232 GGGTCGGGAA
*
57317242 TTTTTAAAGCAAAAT
1 TTTTTAAAG-AAAAC
57317257 TTTTTAAAGAAAAC
1 TTTTTAAAGAAAAC
57317271 TTTTT
1 TTTTT
57317276 GATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (14 bp):
TTTTTAAAGAAAAC
Found at i:57317262 original size:15 final size:15
Alignment explanation
Indices: 57317242--57317275 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
57317232 GGGTCGGGAA
57317242 TTTTTAAAGCAAAA-T
1 TTTTTAAAG-AAAACT
57317257 TTTTTAAAGAAAACT
1 TTTTTAAAGAAAACT
57317272 TTTT
1 TTTT
57317276 GATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTTAAAGAAAACT
Found at i:57326271 original size:21 final size:21
Alignment explanation
Indices: 57326242--57326281 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57326232 AACGAGACTG
57326242 CTGACGTGGCAAGTTAACTAA
1 CTGACGTGGCAAGTTAACTAA
*
57326263 CTGATGTGGCAAGTTAACT
1 CTGACGTGGCAAGTTAACT
57326282 TGCCATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (21 bp):
CTGACGTGGCAAGTTAACTAA
Found at i:57326924 original size:6 final size:6
Alignment explanation
Indices: 57326723--57326906 Score: 197
Period size: 6 Copynumber: 29.7 Consensus size: 6
57326713 TTCAATTTCA
*** * **
57326723 ATTTTG ATTTTG ATTCAA ATTTTG ATTTTG ATTTTG ATTTCG ATTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
**
57326771 ATTTTG AAACACTCACTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
1 ATTTTG ----A-T-TTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
57326819 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * * * *
57326867 ATTTTG ATTTCG ATTTCG ATCTCG ATTTAG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
57326907 AGACTTCAAT
Statistics
Matches: 153, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
6 147 0.96
7 1 0.01
8 1 0.01
10 1 0.01
11 1 0.01
12 2 0.01
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.59
Consensus pattern (6 bp):
ATTTTG
Found at i:57330470 original size:36 final size:36
Alignment explanation
Indices: 57330409--57330484 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
57330399 GTTAGCCATG
* * *
57330409 TATACCAGCAGCCATGTATAACAACATAAGCAACAA
1 TATACCAGCAACCATATATAACAACATAAACAACAA
* *
57330445 TATACCATCAACCATATATACCAACATAAACAACAA
1 TATACCAGCAACCATATATAACAACATAAACAACAA
57330481 TATA
1 TATA
57330485 TATACCAGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.50, C:0.25, G:0.05, T:0.20
Consensus pattern (36 bp):
TATACCAGCAACCATATATAACAACATAAACAACAA
Found at i:57330898 original size:28 final size:29
Alignment explanation
Indices: 57330853--57330914 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
57330843 GGCATATCCA
57330853 TTTTTCCTCTTCTCCTTCCTCTTCTTT-TT
1 TTTTTCCTCTTCTCCTTCCTCTT-TTTCTT
* * *
57330882 TTTTTCTTC-TCTTCTTCTTCTTTTTCTT
1 TTTTTCCTCTTCTCCTTCCTCTTTTTCTT
57330910 TTTTT
1 TTTTT
57330915 AACCCTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 3 0.10
28 18 0.62
29 8 0.28
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTTTCCTCTTCTCCTTCCTCTTTTTCTT
Found at i:57331511 original size:15 final size:15
Alignment explanation
Indices: 57331487--57331532 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
57331477 TATTATATGA
57331487 TTTATATTTTAAAAT
1 TTTATATTTTAAAAT
*
57331502 TTTATTTTTTAAAAAT
1 TTTATATTTT-AAAAT
57331518 ATTTATATTATTAAA
1 -TTTATATT-TTAAA
57331533 TATAATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 9 0.35
16 5 0.19
17 10 0.38
18 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATATTTTAAAAT
Found at i:57334132 original size:31 final size:31
Alignment explanation
Indices: 57334097--57334159 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
57334087 TAGCCTAATA
* *
57334097 ACTTAAATAAAAACTTTT-GAATAGTTTAGTG
1 ACTTAAATAAAAA-TTTTCAAATAATTTAGTG
*
57334128 ACTTAAATGAAAATTTTCAAATAATTTAGTG
1 ACTTAAATAAAAATTTTCAAATAATTTAGTG
57334159 A
1 A
57334160 ACAATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (31 bp):
ACTTAAATAAAAATTTTCAAATAATTTAGTG
Found at i:57334797 original size:15 final size:14
Alignment explanation
Indices: 57334770--57334796 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57334760 GAATATAGTA
57334770 AAATATTAAAAAAT
1 AAATATTAAAAAAT
57334784 AAATATTAAAAAA
1 AAATATTAAAAAA
57334797 ACATATGATA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:57335576 original size:17 final size:17
Alignment explanation
Indices: 57335554--57335588 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
57335544 TTTAAGTCTT
57335554 AAAACACTACATAATTA
1 AAAACACTACATAATTA
*
57335571 AAAACACTATATAATTA
1 AAAACACTACATAATTA
57335588 A
1 A
57335589 GTTCAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAACACTACATAATTA
Found at i:57335892 original size:34 final size:32
Alignment explanation
Indices: 57335842--57335911 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
57335832 AAAATCAAAA
*
57335842 TAAAATTTAAAATTTAAAATATTTATAAAAATTC
1 TAAAATTTAAAATTTAAAA-A-ATATAAAAATTC
* *
57335876 TAAAATTTATATTTTAAAAAATATAAAAATTC
1 TAAAATTTAAAATTTAAAAAATATAAAAATTC
57335908 TAAA
1 TAAA
57335912 GAATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 15 0.45
33 1 0.03
34 17 0.52
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (32 bp):
TAAAATTTAAAATTTAAAAAATATAAAAATTC
Found at i:57335906 original size:32 final size:32
Alignment explanation
Indices: 57335842--57335945 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 32
57335832 AAAATCAAAA
* * *
57335842 TAAAATTTAAAATTTAAAATATTTATAAAAATTC
1 TAAAATTTATATTTTAAAA-A-ATATAAAAATTC
57335876 TAAAATTTATATTTTAAAAAATATAAAAATTC
1 TAAAATTTATATTTTAAAAAATATAAAAATTC
* * * *
57335908 TAAAGA-ATATATATAAAAAAAT-TAAAAAGT-
1 TAAA-ATTTATATTTTAAAAAATATAAAAATTC
57335938 TAAAATTT
1 TAAAATTT
57335946 TAAAAATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
29 1 0.02
30 5 0.08
31 7 0.12
32 28 0.47
33 2 0.03
34 17 0.28
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (32 bp):
TAAAATTTATATTTTAAAAAATATAAAAATTC
Found at i:57350615 original size:20 final size:20
Alignment explanation
Indices: 57350590--57350629 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
57350580 TTCACCTCAT
*
57350590 GCATCGTATCATATGCATTA
1 GCATCGCATCATATGCATTA
57350610 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
57350630 AAGACCTTTA
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:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:57358842 original size:100 final size:100
Alignment explanation
Indices: 57358667--57359332 Score: 1023
Period size: 100 Copynumber: 6.7 Consensus size: 100
57358657 CCTGAGCAGT
* *
57358667 AGTGGAACAGATTGAAGCTACGACGGTGGATCTAGTTTCCCTGATATTGCAATTAAAAAGATTGA
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGA
*
57358732 AGCCATAACGGCGGATCTTACTTCCTTAGCAGTGC
66 AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
57358767 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGA
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGA
* *
57358832 AGCCGCAACGGTGGATCTTACTTCCTTAGCAGTGC
66 AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
* * * * *
57358867 AGCGGAATAGATT-AAGGCTACGACAGCAGATCTAGTTTCCCTGATATTGCAATTAAAAAGATTG
1 AGTGGAACAGATTGAA-GCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTG
57358931 AAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
65 AAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
* * *
57358967 ACTGGAACAGATTGAAGCTACGACGGTGGATCTGGTTTCCCTGATATTGCAATTAAAAAGTTTGA
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGA
* *
57359032 AGCCACAACGGCGGATTTTACTTTCTTAGCAGTGC
66 AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
* * *
57359067 AGTGGAACAGATTGAAGCTACAACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAATATTGA
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGA
57359132 AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
66 AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
* *
57359167 AGTAGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGA
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGA
* * *
57359232 AGCCACAACGGCAGATCTTACTTTCCTGA-CGGTGC
66 AGCCACAACGGCGGATCTTAC-TTCCTTAGCAGTGC
* * * * * *
57359267 GGTAGAACAGATTGAAGCTACGACGTCGGATCTGGTTTCCCCGACATTGCAGTTAAACAA-ATTG
1 AGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAA-AAGATTG
57359331 AA
65 AA
57359333 AATTTCAGCT
Statistics
Matches: 519, Mismatches: 43, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
99 2 0.00
100 507 0.98
101 10 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (100 bp):
AGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGA
AGCCACAACGGCGGATCTTACTTCCTTAGCAGTGC
Found at i:57359279 original size:50 final size:50
Alignment explanation
Indices: 57358671--57359299 Score: 295
Period size: 50 Copynumber: 12.6 Consensus size: 50
57358661 AGCAGTAGTG
* * * * * * *
57358671 GAACAGATTGAAGCTACGACGGTGGATC-TAGTTTCCCTGATATTGCAATTA
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTT-CCTGACAGTGC-AGTA
* * * *
57358722 -AAAAGATTGAAGCCATAACGGCGGATCTTAC-TTCCTTAGCAGTGCAGTG
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGA-CAGTGCAGTA
* * ** * * *
57358771 GAACAGATTGAAGCTACGACGGCGGATC-TGGTTTCCCTGATATTGCAATTA
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTT-CCTGACAGTGC-AGTA
* * * * **
57358822 -AAAAGATTGAAGCCGCAACGGTGGATCTTAC-TTCCTTAGCAGTGCAGCG
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGA-CAGTGCAGTA
* * * * * * * * *
57358871 GAATAGATT-AAGGCTACGACAGCAGATC-TAGTTTCCCTGATATTGCAATTA
1 GAACAGATTGAA-GCCACAACGGCGGATCTTACTTT-CCTGACAGTGC-AGTA
* * * *
57358922 -AAAAGATTGAAGCCACAACGGCGGATCTTAC-TTCCTTAGCAGTGCACTG
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGA-CAGTGCAGTA
* * * ** * * *
57358971 GAACAGATTGAAGCTACGACGGTGGATC-TGGTTTCCCTGATATTGCAATTA
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTT-CCTGACAGTGC-AGTA
* * * * *
57359022 -AAAAGTTTGAAGCCACAACGGCGGATTTTACTTT-CTTAGCAGTGCAGTG
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGA-CAGTGCAGTA
* * ** * * *
57359071 GAACAGATTGAAGCTACAACGGCAGATC-TGGTTTCCCTGATATTGCAATTA
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTT-CCTGACAGTGC-AGTA
* * *
57359122 -AAAATATTGAAGCCACAACGGCGGATCTTAC-TTCCTTAGCAGTGCAGTA
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGA-CAGTGCAGTA
* * * ** * * *
57359171 GAACAGATTGAAGCTACGACGACGGATC-TGGTTTCCCTGATATTGCAATTA
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTT-CCTGACAGTGC-AGTA
* * * *
57359222 -AAAAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGACGGTGCGGTA
1 GAACAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGACAGTGCAGTA
* * *
57359271 GAACAGATTGAAGCTACGACGTCGGATCT
1 GAACAGATTGAAGCCACAACGGCGGATCT
57359300 GGTTTCCCCG
Statistics
Matches: 410, Mismatches: 134, Indels: 69
0.67 0.22 0.11
Matches are distributed among these distances:
49 42 0.10
50 323 0.79
51 45 0.11
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (50 bp):
GAACAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGACAGTGCAGTA
Found at i:57359521 original size:44 final size:45
Alignment explanation
Indices: 57359458--57359555 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 45
57359448 CAGTGGAATC
*
57359458 GATCGAAGAAAGCAGATCTTGTCTT-CATGTATTGG-CGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCCAT-TACTGGTCGTGAAGTA
* *
57359502 GATCGAAGAAAGCAGATCTTGTCTTCCCTTACTGGTGGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCCATTACTGGTCGTGAAGTA
57359547 GATCGAAGA
1 GATCGAAGA
57359556 TACAAGTCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
44 30 0.61
45 19 0.39
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (45 bp):
GATCGAAGAAAGCAGATCTTGTCTTCCATTACTGGTCGTGAAGTA
Found at i:57366335 original size:37 final size:38
Alignment explanation
Indices: 57366293--57366368 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
57366283 ATAAAGTTTA
57366293 ATATTTTAAAAT-AAAAAAAATGGATAGAGTTTATATT
1 ATATTTTAAAATAAAAAAAAATGGATAGAGTTTATATT
57366330 ATATTTTAAAATAAAAAAAAATGGATAGAGTTTATATT
1 ATATTTTAAAATAAAAAAAAATGGATAGAGTTTATATT
57366368 A
1 A
57366369 ACTAAATTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 12 0.32
38 26 0.68
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (38 bp):
ATATTTTAAAATAAAAAAAAATGGATAGAGTTTATATT
Found at i:57367727 original size:18 final size:19
Alignment explanation
Indices: 57367697--57367732 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
57367687 TTTTTCTGAT
57367697 TTTAAATAAAAAAATATAA
1 TTTAAATAAAAAAATATAA
*
57367716 TTTAAA-AAAAAAGTATA
1 TTTAAATAAAAAAATATA
57367733 TATATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
TTTAAATAAAAAAATATAA
Found at i:57367999 original size:21 final size:23
Alignment explanation
Indices: 57367973--57368014 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
57367963 CTTTTTATAA
57367973 TTTTT-AAT-ATTTTTATTTTGG
1 TTTTTAAATAATTTTTATTTTGG
*
57367994 TTTTTAAATAATTTTTTTTTT
1 TTTTTAAATAATTTTTATTTT
57368015 ATTTGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTTTAAATAATTTTTATTTTGG
Found at i:57374527 original size:9 final size:9
Alignment explanation
Indices: 57374513--57374537 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57374503 AACCCAATTT
57374513 TTATTTTTA
1 TTATTTTTA
57374522 TTATTTTTA
1 TTATTTTTA
57374531 TTATTTT
1 TTATTTT
57374538 CTTTGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTATTTTTA
Found at i:57374553 original size:21 final size:22
Alignment explanation
Indices: 57374527--57374580 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
57374517 TTTTATTATT
*
57374527 TTTATTATTTTCTTT-GTTTAC
1 TTTATTATTTACTTTAGTTTAC
* *
57374548 TTTATT-TATTACTTTATTTTAT
1 TTTATTAT-TTACTTTAGTTTAC
57374570 TTTATTATTTA
1 TTTATTATTTA
57374581 TTACTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 13 0.48
23 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTATTATTTACTTTAGTTTAC
Found at i:57374561 original size:12 final size:12
Alignment explanation
Indices: 57374544--57374590 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
57374534 TTTTCTTTGT
57374544 TTACTTTATTTA
1 TTACTTTATTTA
57374556 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
57374569 TT-TTATTATTTA
1 TTACT-TTATTTA
57374581 TTAC-TTATTT
1 TTACTTTATTT
57374591 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:57374568 original size:17 final size:17
Alignment explanation
Indices: 57374511--57374582 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
57374501 GCAACCCAAT
57374511 TTTTATTTTTATTATTT-
1 TTTTA-TTTTATTATTTA
* *
57374528 TTATTATTTTCTTTGTTTA
1 TT-TTATTTT-ATTATTTA
*
57374547 CTTTA-TTTATTACTTTA
1 TTTTATTTTATTA-TTTA
57374564 TTTTATTTTATTATTTA
1 TTTTATTTTATTATTTA
57374581 TT
1 TT
57374583 ACTTATTTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
16 2 0.05
17 23 0.52
18 18 0.41
19 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTATTTTATTATTTA
Found at i:57378579 original size:12 final size:13
Alignment explanation
Indices: 57378557--57378585 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
57378547 AGTTAAAAAT
57378557 TAATCTTTTAAAC
1 TAATCTTTTAAAC
57378570 TAAT-TTTTAAAC
1 TAATCTTTTAAAC
57378582 TAAT
1 TAAT
57378586 ATTATGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATCTTTTAAAC
Found at i:57379944 original size:24 final size:25
Alignment explanation
Indices: 57379912--57379966 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
57379902 AGAAAAAGTT
* *
57379912 TTCTTTTTTCCTTTTTTGATTG-TG
1 TTCTTTTTTCCTTTTTCGATTGCTC
*
57379936 TTCTTTTTTTCTTTTTCGATTGCTC
1 TTCTTTTTTCCTTTTTCGATTGCTC
57379961 TTCTTT
1 TTCTTT
57379967 CTTCTTTCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.04, C:0.16, G:0.09, T:0.71
Consensus pattern (25 bp):
TTCTTTTTTCCTTTTTCGATTGCTC
Found at i:57379971 original size:24 final size:23
Alignment explanation
Indices: 57379912--57379973 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
57379902 AGAAAAAGTT
* *
57379912 TTCTTTTTTCCTTTTTTGATTGTG
1 TTCTTTTTT-CTTTTTCGATTGTC
57379936 TTCTTTTTTTCTTTTTCGATTGCTC
1 TTC-TTTTTTCTTTTTCGATTG-TC
*
57379961 TTCTTTCTTCTTT
1 TTCTTTTTTCTTT
57379974 CTGTTTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.03, C:0.18, G:0.08, T:0.71
Consensus pattern (23 bp):
TTCTTTTTTCTTTTTCGATTGTC
Found at i:57385700 original size:6 final size:6
Alignment explanation
Indices: 57385689--57385722 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
57385679 AGAACTAAGC
57385689 TTGGTG TTGGTG TTGGTG TTGGTG TTGGTG TTGG
1 TTGGTG TTGGTG TTGGTG TTGGTG TTGGTG TTGG
57385723 GTGATTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
TTGGTG
Found at i:57385939 original size:2 final size:2
Alignment explanation
Indices: 57385921--57385970 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
57385911 CACCCAACAT
*
57385921 GA GA GT GA GA G- GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
57385962 GA GA GA GA G
1 GA GA GA GA G
57385971 GCATTGTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.46, C:0.00, G:0.52, T:0.02
Consensus pattern (2 bp):
GA
Found at i:57386455 original size:3 final size:3
Alignment explanation
Indices: 57386449--57386492 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
57386439 TGATTGTTGT
* *
57386449 TGC TGC TGC TGT TGC TGT TGC TGC TGC TGC TGC TGC TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
57386493 TTGTTGTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.27, G:0.34, T:0.39
Consensus pattern (3 bp):
TGC
Found at i:57386463 original size:12 final size:12
Alignment explanation
Indices: 57386446--57386503 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
57386436 AGCTGATTGT
57386446 TGTTGCTGCTGC
1 TGTTGCTGCTGC
*
57386458 TGTTGCTGTTGC
1 TGTTGCTGCTGC
*
57386470 TGCTGCTGCTGC
1 TGTTGCTGCTGC
* *
57386482 TGCTGCTGCTGT
1 TGTTGCTGCTGC
*
57386494 TGTTGTTGCT
1 TGTTGCTGCT
57386504 TGGAAGCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.00, C:0.22, G:0.33, T:0.45
Consensus pattern (12 bp):
TGTTGCTGCTGC
Found at i:57386464 original size:6 final size:6
Alignment explanation
Indices: 57386446--57386503 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
57386436 AGCTGATTGT
* * * *
57386446 TGTTGC TGCTGC TGTTGC TGTTGC TGCTGCTGC TGCTGC TGCTGC TGTTGT
1 TGTTGC TGTTGC TGTTGC TGTTGC TG-T--TGC TGTTGC TGTTGC TGTTGC
57386497 TGTTGC T
1 TGTTGC T
57386504 TGGAAGCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 37 0.86
7 1 0.02
9 5 0.12
ACGTcount: A:0.00, C:0.22, G:0.33, T:0.45
Consensus pattern (6 bp):
TGTTGC
Found at i:57391921 original size:3 final size:3
Alignment explanation
Indices: 57391909--57391952 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
57391899 TTTCCCTCTC
57391909 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
57391953 AGCTTATTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:57393587 original size:58 final size:58
Alignment explanation
Indices: 57393497--57393607 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
57393487 CCATTCCTGA
* *
57393497 AATCCCCACATCTGATTTGAAAATGAAACCCTAGCCTC-AATTCCTTCCTCTTCACTTT
1 AATCCCCACATCCGATTTGAAAATGAAACCCTAACC-CAAATTCCTTCCTCTTCACTTT
*
57393555 AATCCCCA-ATTCCGATTTGAAAATGAAACCCTAACCCAAATTCCTTCGTCTTC
1 AATCCCCACA-TCCGATTTGAAAATGAAACCCTAACCCAAATTCCTTCCTCTTC
57393608 CCTTCCCGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
57 2 0.04
58 46 0.96
ACGTcount: A:0.30, C:0.32, G:0.07, T:0.31
Consensus pattern (58 bp):
AATCCCCACATCCGATTTGAAAATGAAACCCTAACCCAAATTCCTTCCTCTTCACTTT
Done.