Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 156 of 322
Found at i:51271167 original size:102 final size:102
Alignment explanation
Indices: 51270991--51271194 Score: 365
Period size: 102 Copynumber: 2.0 Consensus size: 102
51270981 CAATGGCCCA
51270991 AACCCTAAGCCCAAATCAAAATAAAAGAACCCTAGCCCACAACTTAAACTTTTCTCAACTAAATC
1 AACCCTAAGCCCAAATCAAAATAAAAGAACCCTAGCCCACAACTTAAACTTTTCTCAACTAAATC
*
51271056 TTAGCCTTTTCCACTACCAACTCCACTAGCCACACCT
66 TTAGCCTTTTCCACCACCAACTCCACTAGCCACACCT
*
51271093 AACCCTAAGCCCAAATCAAAATAAAA-ACACCCTAGCCCACAACTTAAACTTTTCTTAACTAAAT
1 AACCCTAAGCCCAAATCAAAATAAAAGA-ACCCTAGCCCACAACTTAAACTTTTCTCAACTAAAT
*
51271157 CTTAGCCTTTTCCACCACCAATTCCACTAGCCACACCT
65 CTTAGCCTTTTCCACCACCAACTCCACTAGCCACACCT
51271195 TTTCCACCAC
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
101 1 0.01
102 97 0.99
ACGTcount: A:0.37, C:0.35, G:0.04, T:0.23
Consensus pattern (102 bp):
AACCCTAAGCCCAAATCAAAATAAAAGAACCCTAGCCCACAACTTAAACTTTTCTCAACTAAATC
TTAGCCTTTTCCACCACCAACTCCACTAGCCACACCT
Found at i:51271198 original size:30 final size:30
Alignment explanation
Indices: 51271162--51271312 Score: 239
Period size: 30 Copynumber: 5.0 Consensus size: 30
51271152 TAAATCTTAG
*
51271162 CCTTTTCCACCACCAATTCCACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACA
* *
51271192 CCTTTTCCACCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAAATCCACTAGCCACA
* *
51271222 CCTTTTCCACCACCAAATCCATTAGCCACT
1 CCTTTTCCACCACCAAATCCACTAGCCACA
* *
51271252 CCTTTTCCACTACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACA
51271282 CCTTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACA
51271312 C
1 C
51271313 TTGCTCCATT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 111 1.00
ACGTcount: A:0.26, C:0.47, G:0.03, T:0.23
Consensus pattern (30 bp):
CCTTTTCCACCACCAAATCCACTAGCCACA
Found at i:51271227 original size:60 final size:60
Alignment explanation
Indices: 51271162--51271356 Score: 259
Period size: 60 Copynumber: 3.2 Consensus size: 60
51271152 TAAATCTTAG
* *
51271162 CCTTTTCCACCACCAATTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAAATCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACA
* * *
51271222 CCTTTTCCACCACCAAATCCATTAGCCACTCCTTTTCCACTACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACA
* ** * *
51271282 CCTTTTCCACCACCAAATCCACTAGCCACA-CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACACCTT-TTCCACCACCAACTCCACTAGCCACA
*
51271342 -CTTGCTCCACCACCA
1 CCTT-TTCCACCACCA
51271357 CTTGTACCTA
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
59 6 0.05
60 115 0.95
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.24
Consensus pattern (60 bp):
CCTTTTCCACCACCAAATCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:51271333 original size:30 final size:30
Alignment explanation
Indices: 51271167--51271356 Score: 154
Period size: 30 Copynumber: 6.3 Consensus size: 30
51271157 CTTAGCCTTT
* * *
51271167 TCCACCACCAATTCCACTAGCCACACCTT-T
1 TCCACTACCAACTCCACTAGCCACA-CTTGC
* * *
51271197 TCCACCACCAACTCCACTAGCCACTCCTT-T
1 TCCACTACCAACTCCACTAGCCAC-ACTTGC
* * * * *
51271227 TCCACCACCAAATCCATTAGCCACTCCTT-T
1 TCCACTACCAACTCCACTAGCCAC-ACTTGC
*
51271257 TCCACTACCAACTCCACTAGCCACACCTT-T
1 TCCACTACCAACTCCACTAGCCACA-CTTGC
* *
51271287 TCCACCACCAAATCCACTAGCCACACTTGC
1 TCCACTACCAACTCCACTAGCCACACTTGC
* * *
51271317 TCCATTACCTACTCCACTAACCACACTTGC
1 TCCACTACCAACTCCACTAGCCACACTTGC
*
51271347 TCCACCACCA
1 TCCACTACCA
51271357 CTTGTACCTA
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
29 3 0.02
30 135 0.98
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.23
Consensus pattern (30 bp):
TCCACTACCAACTCCACTAGCCACACTTGC
Found at i:51271351 original size:90 final size:90
Alignment explanation
Indices: 51271167--51271356 Score: 231
Period size: 90 Copynumber: 2.1 Consensus size: 90
51271157 CTTAGCCTTT
* * * *
51271167 TCCACCACCAATTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCCTTTTCCAC
1 TCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAGCCACTACTTCTCCAC
* * * *
51271232 CACCAAATCCATTAGCCACTCCTTT
66 CACCAAATCCACTAACCACTACTTC
*
51271257 TCCACTACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAGCCAC-ACTTGCTCCA
1 TCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAGCCACTACTT-CTCCA
** * *
51271321 TTACCTACTCCACTAACCAC-ACTTGC
65 CCACCAAATCCACTAACCACTACTT-C
51271347 TCCACCACCA
1 TCCACCACCA
51271357 CTTGTACCTA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
89 6 0.07
90 78 0.93
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.23
Consensus pattern (90 bp):
TCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAGCCACTACTTCTCCAC
CACCAAATCCACTAACCACTACTTC
Found at i:51271873 original size:23 final size:23
Alignment explanation
Indices: 51271836--51271965 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 23
51271826 CTTTTTTTGT
*
51271836 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
51271859 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
51271881 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
51271904 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
51271929 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
51271954 TATTATTTATAT
1 TATTATATATAT
51271966 ATATTTTTTA
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 30 0.37
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:51271941 original size:27 final size:25
Alignment explanation
Indices: 51271901--51272051 Score: 112
Period size: 25 Copynumber: 6.0 Consensus size: 25
51271891 ATTCTAAATT
*
51271901 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATAT-TTAATA
* *
51271926 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* *
51271951 CTATATTATTTATATATATTTTTTACATG
1 CTATATTATGTATATATA---TTTA-ATA
* *
51271980 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * * *
51272003 -TATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATTTAATA
* *
51272027 CTATATTATGTACATATTTTTAATA
1 CTATATTATGTATATATATTTAATA
51272052 TTATCACGTA
Statistics
Matches: 100, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
22 14 0.14
23 4 0.04
24 4 0.04
25 58 0.58
28 4 0.04
29 16 0.16
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:51272010 original size:22 final size:22
Alignment explanation
Indices: 51271980--51272087 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
51271970 TTTTTACATG
*
51271980 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
51272002 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
51272027 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
51272050 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
51272070 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
51272088 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:51272054 original size:20 final size:20
Alignment explanation
Indices: 51272029--51272087 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
51272019 TTTTTACACT
51272029 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
51272049 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
51272072 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
51272088 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:51272068 original size:48 final size:48
Alignment explanation
Indices: 51271967--51272072 Score: 117
Period size: 48 Copynumber: 2.2 Consensus size: 48
51271957 TATTTATATA
* * * * *
51271967 TATTTTTTACATGTTATCTTATGTATATATTTTAATTATATTATGTATG
1 TATTTTTTACA-GCTATATTATGTACATATTTTAATTATATCACGTATG
*
51272016 TATTTTTTACA-CTATATTATGTACATATTTTTAA-TATTATCACGTATT
1 TATTTTTTACAGCTATATTATGTACATA-TTTTAATTA-TATCACGTATG
51272064 TATTTTTTA
1 TATTTTTTA
51272073 TATATGTACA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 15 0.31
48 23 0.47
49 11 0.22
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.58
Consensus pattern (48 bp):
TATTTTTTACAGCTATATTATGTACATATTTTAATTATATCACGTATG
Found at i:51272226 original size:16 final size:15
Alignment explanation
Indices: 51272202--51272236 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
51272192 TAATTATTAT
51272202 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
51272218 TATTTTAATATTTTA
1 TATTCTAATATTTTA
51272233 TATT
1 TATT
51272237 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:51276006 original size:51 final size:51
Alignment explanation
Indices: 51275946--51276072 Score: 218
Period size: 51 Copynumber: 2.5 Consensus size: 51
51275936 AGTACTTCTA
*
51275946 ATCAGTGACAAGTGACAAGTGATCAGTGGTAGCCTCAGCTACACTTATCTG
1 ATCAGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTG
* *
51275997 ATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTG
*
51276048 ATTAGTGACAAGTGACAAGTGATAA
1 ATCAGTGACAAGTGACAAGTGATAA
51276073 ATATGATCCG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (51 bp):
ATCAGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTG
Found at i:51279545 original size:3 final size:3
Alignment explanation
Indices: 51279509--51279721 Score: 99
Period size: 3 Copynumber: 72.7 Consensus size: 3
51279499 TTAATTTGAC
* * * *
51279509 ATT ATT ATC ATT ATT -TT AAT ATT ATC ACT ATT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* ** * *
51279554 ATT ATT ATT AGT AAC ATGT -TT ATT TTT ATT TTT A-T ATTT ATT A-T
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT
* * *
51279598 ATT A-T ATTT ATT -TT ATT ACT GTT ACT ATT ATT -TT A-T ATAT ATTT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT
* * * ** *
51279642 ACT ATC ATT -TT -TT ATTT ATT ATT ATT ATT AGT AAC A-T ATT GTT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
51279685 ATT TTT ATT ATT -TT ATT ATT ATT ATT CTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
51279722 CATGGTACTA
Statistics
Matches: 155, Mismatches: 37, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
2 22 0.14
3 118 0.76
4 14 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:51279602 original size:14 final size:13
Alignment explanation
Indices: 51279573--51279615 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
51279563 AGTAACATGT
*
51279573 TTATTTTTATTT-
1 TTATATTTATTTA
51279585 TTATATTTATTATA
1 TTATATTTATT-TA
51279599 TTATATTTATTTTA
1 TTATATTTA-TTTA
51279613 TTA
1 TTA
51279616 CTGTTACTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 10 0.37
13 1 0.04
14 14 0.52
15 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATATTTATTTA
Found at i:51279643 original size:21 final size:20
Alignment explanation
Indices: 51279585--51279670 Score: 70
Period size: 20 Copynumber: 4.2 Consensus size: 20
51279575 ATTTTTATTT
51279585 TTATATTTAT-TATATTA-TA
1 TTAT-TTTATATATATTACTA
*
51279604 TTTATTTTAT-TACTGTTACTA
1 -TTATTTTATATA-TATTACTA
51279625 TTATTTTATATATATTTACTA
1 TTATTTTATATATA-TTACTA
* * * *
51279646 TCATTTTTTATTTATTATTA
1 TTATTTTATATATATTACTA
51279666 TTATT
1 TTATT
51279671 AGTAACATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
19 7 0.13
20 27 0.49
21 21 0.38
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (20 bp):
TTATTTTATATATATTACTA
Found at i:51284880 original size:6 final size:6
Alignment explanation
Indices: 51284869--51284915 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
51284859 GAAGATATTA
* *
51284869 TTTTAT TTTTAT TTTTGT TTTTA- -TTTAT TTTTA- TTTTAT TTTAAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
51284914 TT
1 TT
51284916 ATTAAATTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
4 4 0.11
5 5 0.14
6 26 0.74
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:51284897 original size:16 final size:15
Alignment explanation
Indices: 51284866--51284909 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
51284856 TAAGAAGATA
51284866 TTATTTTATTTTTATTT
1 TTATTTTA--TTTATTT
*
51284883 TTGTTTTTATTTATTT
1 TT-ATTTTATTTATTT
51284899 TTATTTTATTT
1 TTATTTTATTT
51284910 TAATTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 8 0.33
16 9 0.38
17 2 0.08
18 5 0.21
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (15 bp):
TTATTTTATTTATTT
Found at i:51284901 original size:10 final size:11
Alignment explanation
Indices: 51284866--51284915 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
51284856 TAAGAAGATA
51284866 TTATTTTATTT
1 TTATTTTATTT
*
51284877 TTATTTTTGTTT
1 TTA-TTTTATTT
51284889 TTA-TTTATTT
1 TTATTTTATTT
51284899 TTATTTTATTT
1 TTATTTTATTT
*
51284910 TAATTT
1 TTATTT
51284916 ATTAAATTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.26
11 15 0.44
12 10 0.29
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:51285503 original size:29 final size:29
Alignment explanation
Indices: 51285471--51285539 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 29
51285461 TATTCTAATA
51285471 CTATTATTATTTAT-CTAATTATTAT-TTAT
1 CTATTATTATTTATACT-ATTATTATATT-T
51285500 CTATT-TATATTTATACTATTATTATATTT
1 CTATTAT-TATTTATACTATTATTATATTT
51285529 CTATTTATTAT
1 CTA-TTATTAT
51285540 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
28 1 0.03
29 24 0.69
30 9 0.26
31 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (29 bp):
CTATTATTATTTATACTATTATTATATTT
Found at i:51285516 original size:44 final size:44
Alignment explanation
Indices: 51285468--51285585 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 44
51285458 TGCTATTCTA
51285468 ATACTATTATTATTTATCTAATTATTATTTATCTATTTATA-TT-T
1 ATACTATTATTATTT-TCTAATTATTATTT-TCTATTTATATTTAT
* * *
51285512 ATACTATTATTATATTTCTATTTATTATATTTTTATTTCTATTTAT
1 ATACTATTATTAT-TTTCTAATTATTAT-TTTCTATTTATATTTAT
*
51285558 ATACTAATATTATTTTC--ATTATTATTTT
1 ATACTATTATTATTTTCTAATTATTATTTT
51285586 TCTTATATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
42 3 0.05
43 7 0.11
44 32 0.49
45 10 0.15
46 13 0.20
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.63
Consensus pattern (44 bp):
ATACTATTATTATTTTCTAATTATTATTTTCTATTTATATTTAT
Found at i:51285543 original size:15 final size:15
Alignment explanation
Indices: 51285474--51285539 Score: 84
Period size: 15 Copynumber: 4.5 Consensus size: 15
51285464 TCTAATACTA
*
51285474 TTATTATTTATCTAA
1 TTATTATTTATCTAT
51285489 TTATTATTTATCTAT
1 TTATTATTTATCTAT
51285504 TTA-TATTTATACTA-
1 TTATTATTTAT-CTAT
51285518 TTATTATATT-TCTAT
1 TTATTAT-TTATCTAT
51285533 TTATTAT
1 TTATTAT
51285540 ATTTTTATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
14 13 0.28
15 31 0.67
16 2 0.04
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATTTATCTAT
Found at i:51285548 original size:15 final size:15
Alignment explanation
Indices: 51285431--51285549 Score: 58
Period size: 15 Copynumber: 7.1 Consensus size: 15
51285421 ATTGCTATTA
* *
51285431 TTATTATGTTTCTAT
1 TTATTATATTTTTAT
*
51285446 TTATATTTATTTTGCTAT
1 TTAT-TATATTTT--TAT
* *
51285464 TCTAATACTATTATTAT
1 T-TATTA-TATTTTTAT
51285481 TTATCTAATTATTATTTAT
1 TTAT-T-A-TATT-TTTAT
* *
51285500 CTATTTATATTTATACT
1 TTA-TTATATTTTTA-T
*
51285517 ATTATTATATTTCTAT
1 -TTATTATATTTTTAT
51285533 TTATTATATTTTTAT
1 TTATTATATTTTTAT
51285548 TT
1 TT
51285550 CTATTTATAT
Statistics
Matches: 79, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
15 20 0.25
16 11 0.14
17 20 0.25
18 13 0.16
19 14 0.18
20 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.64
Consensus pattern (15 bp):
TTATTATATTTTTAT
Found at i:51287377 original size:19 final size:20
Alignment explanation
Indices: 51287353--51287393 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
51287343 AGGTGAGAAG
51287353 TAAAAA-TTTAGGGGGAAAA
1 TAAAAAGTTTAGGGGGAAAA
*
51287372 TAAAAAGTTTTGGGGGAAAA
1 TAAAAAGTTTAGGGGGAAAA
51287392 TA
1 TA
51287394 GTAGATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (20 bp):
TAAAAAGTTTAGGGGGAAAA
Found at i:51288218 original size:28 final size:28
Alignment explanation
Indices: 51288187--51288241 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
51288177 TTAAATATGA
51288187 TAAT-TTATTTTTTAATTTAATATTAAAT
1 TAATATTATTTTTTAATTTAA-ATTAAAT
* * *
51288215 TAATATTTTTTTTTCATTTCAATTAAA
1 TAATATTATTTTTTAATTTAAATTAAA
51288242 AATAACATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (28 bp):
TAATATTATTTTTTAATTTAAATTAAAT
Found at i:51291723 original size:9 final size:8
Alignment explanation
Indices: 51291694--51291731 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
51291684 TTGATTTTTT
*
51291694 TTTTTATT
1 TTTTTATA
51291702 TTTTTATA
1 TTTTTATA
51291710 TTTTTATA
1 TTTTTATA
51291718 TGTTTTATA
1 T-TTTTATA
51291727 TTTTT
1 TTTTT
51291732 GCACTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:51291723 original size:17 final size:16
Alignment explanation
Indices: 51291694--51291731 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
51291684 TTGATTTTTT
*
51291694 TTTTTATTTTTTTATA
1 TTTTTATTGTTTTATA
51291710 TTTTTATATGTTTTATA
1 TTTTTAT-TGTTTTATA
51291727 TTTTT
1 TTTTT
51291732 GCACTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTATTGTTTTATA
Found at i:51293249 original size:74 final size:74
Alignment explanation
Indices: 51293054--51293290 Score: 359
Period size: 75 Copynumber: 3.2 Consensus size: 74
51293044 ACATAAATTG
* *
51293054 AACAGGAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
51293119 TTTCTTGAA
66 TTTTTTGAA
* *
51293128 AAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
1 AA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
51293193 TTTTTTTGAC
65 TTTTTTTGAA
* * *
51293203 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
51293267 TTTTTTGAA
66 TTTTTTGAA
* *
51293276 AACAAAAATTTAAAA
1 AACAGAAATTGAAAA
51293291 GAAATACCTC
Statistics
Matches: 147, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
73 20 0.14
74 59 0.40
75 68 0.46
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (74 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGAA
Found at i:51293347 original size:149 final size:149
Alignment explanation
Indices: 51293054--51293347 Score: 369
Period size: 149 Copynumber: 2.0 Consensus size: 149
51293044 ACATAAATTG
* *
51293054 AACAGGAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * ** * ** *
51293119 TTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCACAAT
66 TTTCTTGAAAAGCAAAAATTAAAAATACCTCAACATGACCCGAGGCTCAACTCACATCTCACAAT
51293184 ATGAGTTGATTTTTTTGAC
131 ATGAGTTGATTTTTTTGAC
* * *
51293203 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
** *
51293268 TTT-TTGAAAA-CAAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACATCT-G
66 TTTCTTGAAAAGCAAAAA-TT--AA-AAATACCTCAACATGACCCGAGGCTCAACTCACATCTCA
* *
51293330 TATTATGAGTTGATTTTT
127 CAATATGAGTTGATTTTT
51293348 GAAAAAAGTA
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
147 5 0.04
148 9 0.07
149 63 0.51
150 17 0.14
151 29 0.24
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (149 bp):
AACAGAAATTGAAAATACCTCAACGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTCTTGAAAAGCAAAAATTAAAAATACCTCAACATGACCCGAGGCTCAACTCACATCTCACAAT
ATGAGTTGATTTTTTTGAC
Found at i:51293685 original size:73 final size:71
Alignment explanation
Indices: 51293508--51293685 Score: 200
Period size: 73 Copynumber: 2.5 Consensus size: 71
51293498 AGGAATTAAA
* * *
51293508 AGGCTTAACTCACTTCTCGCAATATGAGTCAA--TTTAAAACATAAACTAAAAGTACCTCGGCGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTAAAACAAAAACTAAAAGTACCTCAGCGT
*
51293571 GCCCCG
66 GACCCG
* * ** * *
51293577 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAACAAAAGGAATTAAAA-TACCTCAG
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTAAAAC-AAA--AACTAAAAGTACCTCAG
*
51293641 CGTGACCTG
63 CGTGACCCG
*
51293650 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTT
51293686 CCTTGGAAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
69 27 0.31
71 7 0.08
72 2 0.02
73 45 0.51
74 7 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (71 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTAAAACAAAAACTAAAAGTACCTCAGCGT
GACCCG
Found at i:51312116 original size:8 final size:8
Alignment explanation
Indices: 51312105--51312134 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
51312095 AAAATTTTTT
51312105 TTTTTATA
1 TTTTTATA
51312113 TTTTTATA
1 TTTTTATA
51312121 TGTTTTATA
1 T-TTTTATA
51312130 TTTTT
1 TTTTT
51312135 GCACTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:51312845 original size:31 final size:31
Alignment explanation
Indices: 51312810--51312874 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
51312800 TTGATTGCAA
51312810 TTGATATAGTATGTTAGCAAGTCTCAATTTC
1 TTGATATAGTATGTTAGCAAGTCTCAATTTC
51312841 TTGATATAGTATGTTAGCAAGTCTCAATTTC
1 TTGATATAGTATGTTAGCAAGTCTCAATTTC
51312872 TTG
1 TTG
51312875 TAAATTGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (31 bp):
TTGATATAGTATGTTAGCAAGTCTCAATTTC
Found at i:51328448 original size:18 final size:17
Alignment explanation
Indices: 51328422--51328466 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
51328412 TTTGAGATTC
*
51328422 AAAACTCAAAATCCAAA
1 AAAACTCAAAACCCAAA
*
51328439 GAAAATTCAAAACCCAAA
1 -AAAACTCAAAACCCAAA
51328457 AAAAC-CAAAA
1 AAAACTCAAAA
51328467 TTCAAAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 15 0.62
ACGTcount: A:0.67, C:0.22, G:0.02, T:0.09
Consensus pattern (17 bp):
AAAACTCAAAACCCAAA
Found at i:51330249 original size:15 final size:15
Alignment explanation
Indices: 51330229--51330306 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
51330219 TTTATGGAAA
51330229 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
51330244 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
51330258 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
51330274 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
51330288 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
51330304 ATC
1 ATC
51330307 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:51330266 original size:30 final size:30
Alignment explanation
Indices: 51330225--51330306 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
51330215 CATATTTATG
*
51330225 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
51330255 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
51330285 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
51330307 GAGATATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:51334911 original size:15 final size:15
Alignment explanation
Indices: 51334891--51334998 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
51334881 TTTATGGAAA
51334891 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
51334906 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
51334920 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
51334936 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
51334950 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
51334966 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
51334980 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
51334996 ATC
1 ATC
51334999 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:51334920 original size:30 final size:30
Alignment explanation
Indices: 51334884--51334998 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
51334874 ATCCATATTT
*
51334884 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
51334914 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
51334944 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
51334974 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
51334999 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:51339642 original size:21 final size:21
Alignment explanation
Indices: 51339616--51339664 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
51339606 TTGAATTTAA
51339616 TTTTTACTTT-TAAAAAAAATC
1 TTTTTA-TTTATAAAAAAAATC
*
51339637 TTTTTATTTATAAAATAAAT-
1 TTTTTATTTATAAAAAAAATC
*
51339657 TTATTATT
1 TTTTTATT
51339665 AAAATATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTTATTTATAAAAAAAATC
Found at i:51342633 original size:17 final size:17
Alignment explanation
Indices: 51342611--51342647 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
51342601 GGGAACTATG
51342611 ATAATTATTAGTAATTT
1 ATAATTATTAGTAATTT
51342628 ATAATTATTAGTAATTT
1 ATAATTATTAGTAATTT
51342645 ATA
1 ATA
51342648 TATGTAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
ATAATTATTAGTAATTT
Found at i:51347083 original size:27 final size:25
Alignment explanation
Indices: 51347036--51347085 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
51347026 TTTAAATAAT
**
51347036 TAATATAAATTATTTGTAAAATTAA
1 TAATATAAAAAATTTGTAAAATTAA
51347061 TAATATAAAAAATATTGTTAAAATT
1 TAATATAAAAAAT-TTG-TAAAATT
51347086 TTAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 3 0.14
27 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
TAATATAAAAAATTTGTAAAATTAA
Found at i:51347105 original size:30 final size:27
Alignment explanation
Indices: 51347057--51347125 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 27
51347047 ATTTGTAAAA
51347057 TTAATA-ATATAAAAAATATTGTTAAA-ATT
1 TTAATATA-ATAAAAAATA-T-TTAAATA-T
*
51347086 TTAAATATAATAAATAATATTTAAATAT
1 TT-AATATAATAAAAAATATTTAAATAT
51347114 TTAATATAATAA
1 TTAATATAATAA
51347126 TATATAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 10 0.28
28 8 0.22
29 4 0.11
30 13 0.36
31 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (27 bp):
TTAATATAATAAAAAATATTTAAATAT
Found at i:51347110 original size:20 final size:21
Alignment explanation
Indices: 51347085--51347139 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 21
51347075 TTGTTAAAAT
51347085 TTTAAATATAATA-AATAATA
1 TTTAAATATAATATAATAATA
51347105 TTTAAATATTTAATATAATAATA
1 TTTAAATA--TAATATAATAATA
*
51347128 TATAAAATATAA
1 T-TTAAATATAA
51347140 ATCAATCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.27
22 8 0.27
23 8 0.27
24 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAAATATAATATAATAATA
Found at i:51347111 original size:27 final size:27
Alignment explanation
Indices: 51347061--51347137 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
51347051 GTAAAATTAA
* * *
51347061 TAATATAAAAAATATTGTTAAAAT-TT
1 TAATATAATAAATAATATTAAAATATT
*
51347087 TAAATATAATAAATAATATTTAAATATT
1 T-AATATAATAAATAATATTAAAATATT
51347115 TAATATAAT-AAT-ATA-TAAAATAT
1 TAATATAATAAATAATATTAAAATAT
51347138 AAATCAATCT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 7 0.16
25 3 0.07
26 4 0.09
27 27 0.61
28 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (27 bp):
TAATATAATAAATAATATTAAAATATT
Found at i:51361990 original size:11 final size:11
Alignment explanation
Indices: 51361976--51362040 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
51361966 ATATTGAAAC
51361976 AATAAAATAAT
1 AATAAAATAAT
*
51361987 AATAATATAAT
1 AATAAAATAAT
* **
51361998 ATTAAAATGGT
1 AATAAAATAAT
**
51362009 AATAAAATAGG
1 AATAAAATAAT
*
51362020 AAGAAAATAAT
1 AATAAAATAAT
*
51362031 AAGAAAATAA
1 AATAAAATAA
51362041 CATTTAAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 43 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:51361999 original size:30 final size:30
Alignment explanation
Indices: 51361943--51362000 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
51361933 AAACAAAATG
* * *
51361943 AACAATAAAATGATATTTATACAATATTGA
1 AACAATAAAATAATAATAATACAATATTGA
*
51361973 AACAATAAAATAATAATAATATAATATT
1 AACAATAAAATAATAATAATACAATATT
51362001 AAAATGGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (30 bp):
AACAATAAAATAATAATAATACAATATTGA
Found at i:51366058 original size:17 final size:18
Alignment explanation
Indices: 51366036--51366072 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
51366026 TAATAAAAAT
51366036 ATAA-TTATATTATTT-TA
1 ATAATTTATA-TATTTGTA
51366053 ATAATTTATATATTTGTA
1 ATAATTTATATATTTGTA
51366071 AT
1 AT
51366073 TTTTAAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATAATTTATATATTTGTA
Found at i:51369695 original size:3 final size:3
Alignment explanation
Indices: 51369687--51369711 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51369677 TTCATCTTCA
51369687 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
51369712 AAAGAGTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:51370539 original size:11 final size:11
Alignment explanation
Indices: 51370523--51370549 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
51370513 ATAAAAATCC
51370523 ATTAATTAAAT
1 ATTAATTAAAT
51370534 ATTAATTAAAT
1 ATTAATTAAAT
51370545 ATTAA
1 ATTAA
51370550 ACACTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAATTAAAT
Found at i:51377197 original size:31 final size:30
Alignment explanation
Indices: 51377162--51377252 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 30
51377152 TATTTCTTTA
51377162 AATGTGTACAACTGAATCAAAATCAAAGTTT
1 AATGTGTACAA-TGAATCAAAATCAAAGTTT
* *
51377193 AATGTGTACATTTGAACCAAAAGT-AAAGTTT
1 AATGTGTACA-ATGAATCAAAA-TCAAAGTTT
* * *
51377224 CATGTGTATAATTACATC-AAATCAAAGTT
1 AATGTGTACAATGA-ATCAAAATCAAAGTT
51377253 CATATATTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
29 1 0.02
30 11 0.22
31 36 0.73
32 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (30 bp):
AATGTGTACAATGAATCAAAATCAAAGTTT
Found at i:51379994 original size:18 final size:19
Alignment explanation
Indices: 51379958--51379995 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
51379948 TTTTAATTTC
*
51379958 TATTCCTGAATACTTTGTT
1 TATTCATGAATACTTTGTT
51379977 TATTCATGAATA-TTTGTT
1 TATTCATGAATACTTTGTT
51379995 T
1 T
51379996 CCTTGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (19 bp):
TATTCATGAATACTTTGTT
Found at i:51385614 original size:56 final size:56
Alignment explanation
Indices: 51385554--51385668 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
51385544 AAGTGTGGGT
*
51385554 TTTGAAATTAGGACATGTAATGGAAGAGCAACAGTTATTTATCCATTAACAGGCTC
1 TTTGAAATTAGGACATGTAATGGAAGAACAACAGTTATTTATCCATTAACAGGCTC
51385610 TTTGAAATTAGGACATGTAATGGAAGAACAACAGTTATTTATCCATTAACAGGCTC
1 TTTGAAATTAGGACATGTAATGGAAGAACAACAGTTATTTATCCATTAACAGGCTC
51385666 TTT
1 TTT
51385669 AATGGTTTCT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (56 bp):
TTTGAAATTAGGACATGTAATGGAAGAACAACAGTTATTTATCCATTAACAGGCTC
Found at i:51395013 original size:18 final size:18
Alignment explanation
Indices: 51394989--51395034 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
51394979 TTATAAATAG
*
51394989 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
51395008 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
51395026 TATTATTTT
1 TATTATTTT
51395035 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:51403864 original size:3 final size:3
Alignment explanation
Indices: 51403858--51403888 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
51403848 ATAATAATAC
51403858 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
51403889 AGTCTTCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:51408570 original size:42 final size:42
Alignment explanation
Indices: 51408503--51408590 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
51408493 GGTCTTCAAT
*
51408503 ATAATAATAATAATAATAATAAGTACTAGACAAAGATGAGTA
1 ATAACAATAATAATAATAATAAGTACTAGACAAAGATGAGTA
*
51408545 ATAACAATAATAATAATAATTAGTACTAGACAAAGATGAGTA
1 ATAACAATAATAATAATAATAAGTACTAGACAAAGATGAGTA
51408587 ATAA
1 ATAA
51408591 TAGCTAGGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (42 bp):
ATAACAATAATAATAATAATAAGTACTAGACAAAGATGAGTA
Found at i:51417321 original size:18 final size:18
Alignment explanation
Indices: 51417287--51417323 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51417277 TGAATTTTCG
**
51417287 AATTCAAATAATTCGAAT
1 AATTCAAATAAACCGAAT
51417305 AATTCAAATAAACCGAAT
1 AATTCAAATAAACCGAAT
51417323 A
1 A
51417324 TAAATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAACCGAAT
Found at i:51417376 original size:24 final size:23
Alignment explanation
Indices: 51417340--51417385 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
51417330 ATATATTTTT
**
51417340 TTAATTTTTTTAATAGACTTTTAC
1 TTAATTTAATTAA-AGACTTTTAC
*
51417364 TTAATTTAATTAAAGTCTTTTA
1 TTAATTTAATTAAAGACTTTTA
51417386 ACCCAATTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
TTAATTTAATTAAAGACTTTTAC
Found at i:51418082 original size:17 final size:17
Alignment explanation
Indices: 51418060--51418111 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
51418050 AATTTCCCAA
51418060 AGTAATAATGTAATATT
1 AGTAATAATGTAATATT
*
51418077 AGTAATAATATAATATT
1 AGTAATAATGTAATATT
* **
51418094 ATTAATACCGTAATATT
1 AGTAATAATGTAATATT
51418111 A
1 A
51418112 ATAGAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (17 bp):
AGTAATAATGTAATATT
Found at i:51418526 original size:96 final size:96
Alignment explanation
Indices: 51418312--51418799 Score: 745
Period size: 96 Copynumber: 5.1 Consensus size: 96
51418302 TATGCTGTTG
* * * *
51418312 TATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAGGTTAATATACTATTTTT
1 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAATTTAAACTATAGTTTAACATAC---TTTT
*
51418377 TTTTGTTTAATTTATGCCGTTGTACTTGTACTAT
63 TTTTGTTTAATTTATGCTGTTGTACTTGTACTAT
*
51418411 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAATTTAAACTATATTTTAACATACTTTTTTT
1 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAATTTAAACTATAGTTTAACATACTTTTTTT
*
51418476 TGTTTAATTTATGTTGTTGTACTTGTACTAT
66 TGTTTAATTTATGCTGTTGTACTTGTACTAT
*
51418507 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAATTTAAACTATATTTTAACATACTTTTTTT
1 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAATTTAAACTATAGTTTAACATACTTTTTTT
*
51418572 TGTTTAATTTATGTTGTTGTACTTGTACTAT
66 TGTTTAATTTATGCTGTTGTACTTGTACTAT
* * * *
51418603 TATATTAATTTAGGCTTCAATTAACTAACTTTAAAATTTAAACTGTAGCTTAACAGACTTTTTTT
1 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAATTTAAACTATAGTTTAACATAC-TTTTTT
51418668 TTGTTTAATTTATGC-----TA-TTGTACTAT
65 TTGTTTAATTTATGCTGTTGTACTTGTACTAT
* * *
51418694 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAGTTTAAAATGTAGTTTAACATACTTTTTTT
1 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAATTTAAACTATAGTTTAACATACTTTTTTT
*
51418759 TGTTTAATTTATGCTGTTGTACCTGTACTAT
66 TGTTTAATTTATGCTGTTGTACTTGTACTAT
51418790 TATATTAATT
1 TATATTAATT
51418800 AATTTTTAAT
Statistics
Matches: 363, Mismatches: 19, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
90 21 0.06
91 62 0.17
92 2 0.01
95 2 0.01
96 203 0.56
97 20 0.06
99 53 0.15
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (96 bp):
TATATTAATTTAGGCTTCAATTAACTAATTTTAAAATTTAAACTATAGTTTAACATACTTTTTTT
TGTTTAATTTATGCTGTTGTACTTGTACTAT
Found at i:51418779 original size:187 final size:189
Alignment explanation
Indices: 51418312--51418799 Score: 748
Period size: 187 Copynumber: 2.6 Consensus size: 189
51418302 TATGCTGTTG
* * *
51418312 TATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAGGTTAATATACTATTTTT
1 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAGTTTAAACTATAGTTTAACATAC---TTTT
* *
51418377 TTTTGTTTAATTTATGCCGTTGTACTTGTACTATTATATTAATTTAGGCTTCAATTAACTAATTT
63 TTTTGTTTAATTTATGCTGTTGTACTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTT
** * *
51418442 TAAAATTTAAACTATATTTTAACATACTTTTTTTTGTTTAATTTATGTTGTTGTACTTGTACTAT
128 TAAAATTTAAACTATAGCTTAACAGACTTTTTTTTGTTTAATTTA--TTG-TCTACTTGTACTAT
* *
51418507 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAATTTAAACTATATTTTAACATACTTTTTTT
1 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAGTTTAAACTATAGTTTAACATACTTTTTTT
*
51418572 TGTTTAATTTATGTTGTTGTACTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAA
66 TGTTTAATTTATGCTGTTGTACTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAA
*
51418637 AATTTAAACTGTAGCTTAACAGACTTTTTTTTTGTTTAATTTA-TG-CTA-TTGTACTAT
131 AATTTAAACTATAGCTTAACAGAC-TTTTTTTTGTTTAATTTATTGTCTACTTGTACTAT
* *
51418694 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAGTTTAAAATGTAGTTTAACATACTTTTTTT
1 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAGTTTAAACTATAGTTTAACATACTTTTTTT
*
51418759 TGTTTAATTTATGCTGTTGTACCTGTACTATTATATTAATT
66 TGTTTAATTTATGCTGTTGTACTTGTACTATTATATTAATT
51418800 AATTTTTAAT
Statistics
Matches: 273, Mismatches: 19, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
187 109 0.40
188 2 0.01
190 2 0.01
192 89 0.33
193 18 0.07
195 53 0.19
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (189 bp):
TATATTAATTTAGGCTTCAATTAACTAATTTTAAAGTTTAAACTATAGTTTAACATACTTTTTTT
TGTTTAATTTATGCTGTTGTACTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAA
AATTTAAACTATAGCTTAACAGACTTTTTTTTGTTTAATTTATTGTCTACTTGTACTAT
Found at i:51419960 original size:100 final size:94
Alignment explanation
Indices: 51419681--51419973 Score: 389
Period size: 90 Copynumber: 3.1 Consensus size: 94
51419671 ATTAAAAATT
* *
51419681 AATTAATATAATAGTACAAGTACAGCAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACATT
1 AATTAATATAATAGTACAAGTACAAC-GCATAAATTAAACAAAAAAAAGTATGTTAAACTACA-G
*
51419746 TTAAACTTTAAAGTTAGTTAATTGAAGCCTA
64 TTAAAATTTAAAGTTAGTTAATTGAAGCCTA
* * * *
51419777 AATTAATATAATAGTACAA-T---A-GTATAAATTAAACAAAAAAAAGTTTGTTAAGCTACCGTT
1 AATTAATATAATAGTACAAGTACAACGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAG-T
51419837 TAAAATTTAAAGTTAGTTAATTGAAGCCTA
65 TAAAATTTAAAGTTAGTTAATTGAAGCCTA
51419867 AATTAATATAATAGTACAAGTACAACGGCATAAATTAAACAAAAAAAAAATAGTATGTTAAACTA
1 AATTAATATAATAGTACAAGTACAAC-GCATAAATTAAAC---AAAAAAA-AGTATGTTAAACTA
* *
51419932 TAGTTAAAGTTTTAAAGTTAGTTAATTGAAGCCTA
61 CAGTTAAA-ATTTAAAGTTAGTTAATTGAAGCCTA
51419967 AATTAAT
1 AATTAAT
51419974 GTACAACAGC
Statistics
Matches: 172, Mismatches: 13, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
90 81 0.47
91 1 0.01
94 1 0.01
95 1 0.01
96 31 0.18
99 12 0.07
100 45 0.26
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (94 bp):
AATTAATATAATAGTACAAGTACAACGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTT
AAAATTTAAAGTTAGTTAATTGAAGCCTA
Found at i:51420198 original size:17 final size:17
Alignment explanation
Indices: 51420176--51420227 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
51420166 TTTTCTCTAT
*
51420176 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
*
51420193 TAATATTATATTATTAC
1 TAATATTACATTATTAC
51420210 TAATATTACATTATTAC
1 TAATATTACATTATTAC
51420227 T
1 T
51420228 TTGGGAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:51427978 original size:16 final size:16
Alignment explanation
Indices: 51427957--51427989 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51427947 ACATAGCAAT
51427957 AGCGGCGTTTTACCAA
1 AGCGGCGTTTTACCAA
51427973 AGCGGCGTTTTACCAA
1 AGCGGCGTTTTACCAA
51427989 A
1 A
51427990 AACGCCGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (16 bp):
AGCGGCGTTTTACCAA
Found at i:51428040 original size:41 final size:42
Alignment explanation
Indices: 51427987--51428289 Score: 293
Period size: 41 Copynumber: 7.4 Consensus size: 42
51427977 GCGTTTTACC
* *
51427987 AAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTAGTA
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGTA
* * * *
51428028 AAAAACACCGCTAAAAAGCAGAGCAATAGCGGCGCATTTGGT-
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTTTGTA
51428070 -AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTAGT-
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GTA
* * ** *
51428111 -AAAACGCCACTAAAAACTAGAGCATTAGCTACGCTTTTG-G
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGTA
* * *
51428151 AAAAACGCCGCTAAAAACTAGAGCATTAGCGGCTCTTTTG-G
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGTA
* * * *
51428192 AAAAATGCCGCTAAAAATCAAAGCATTAGCGGCACTTTTG-A
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGTA
* * * * * *
51428233 TAAAATGCCGCTAAAAACCAAAACACTAGTGGCGC-TTT-TA
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGTA
51428273 GAAAAACGCCGCTAAAA
1 -AAAAACGCCGCTAAAA
51428290 GTCATATAAC
Statistics
Matches: 227, Mismatches: 28, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
40 8 0.04
41 197 0.87
42 17 0.07
43 5 0.02
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (42 bp):
AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGTA
Found at i:51428080 original size:82 final size:82
Alignment explanation
Indices: 51427988--51428289 Score: 328
Period size: 82 Copynumber: 3.7 Consensus size: 82
51427978 CGTTTTACCA
* *
51427988 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTAGTAAAAAACACCGCTAAAAAGCAGAGC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGTAAAAAACGCCGCTAAAAA-CAGAGC
* *
51428052 AATAGCGGCGCATTTGGT
65 ATTAGCGGCGCTTTTGGT
*
51428070 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTAGT--AAAACGCCACTAAAAACTAGAG
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTTAGTAAAAAACGCCGCTAAAAAC-AGAG
** *
51428133 CATTAGCTACGCTTTTGGA
64 CATTAGCGGCGCTTTTGGT
* * * * * *
51428152 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCTCTTTTG-GAAAAATGCCGCTAAAAATCAAAGC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGTAAAAAACGCCGCTAAAAA-CAGAGC
* *
51428216 ATTAGCGGCACTTTTGAT
65 ATTAGCGGCGCTTTTGGT
* * * * *
51428234 AAAATGCCGCTAAAAACCAAAACACTAGTGGCGCTTT--TAGAAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGTA-AAAAACGCCGCTAAAA
51428290 GTCATATAAC
Statistics
Matches: 184, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
81 5 0.03
82 156 0.85
83 17 0.09
84 6 0.03
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGTAAAAAACGCCGCTAAAAACAGAGCA
TTAGCGGCGCTTTTGGT
Found at i:51428202 original size:123 final size:122
Alignment explanation
Indices: 51427988--51428289 Score: 349
Period size: 123 Copynumber: 2.5 Consensus size: 122
51427978 CGTTTTACCA
* * * *
51427988 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTAGTAAAAAACACCGCTAAAAAGCAGAGCA
1 AAAACGCCGCTAAAAACAGAGCAATAGCTGCGCTTTTG-GAAAAACGCCGCTAAAAAGCAGAGCA
* * *
51428053 ATAGCGGCGCATTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-AGT
65 ATAGCGGCGCATTTGGAAAAACGCCGCTAAAAACCAAAGCATTAGCGGCACTTTTGA-T
* * *
51428111 AAAACGCCACTAAAAACTAGAGCATTAGCTACGCTTTTGGAAAAACGCCGCTAAAAA-CTAGAGC
1 AAAACGCCGCTAAAAAC-AGAGCAATAGCTGCGCTTTTGGAAAAACGCCGCTAAAAAGC-AGAGC
* * * * *
51428175 ATTAGCGGCTCTTTTGGAAAAATGCCGCTAAAAATCAAAGCATTAGCGGCACTTTTGAT
64 AATAGCGGCGCATTTGGAAAAACGCCGCTAAAAACCAAAGCATTAGCGGCACTTTTGAT
* * * * *
51428234 AAAATGCCGCTAAAAACCAAAACACTAG-TGGCGCTTTTAGAAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAA-CAGAGCAATAGCT-GCGCTTTTGGAAAAACGCCGCTAAAA
51428290 GTCATATAAC
Statistics
Matches: 152, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
122 2 0.01
123 131 0.86
124 19 0.12
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (122 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCTGCGCTTTTGGAAAAACGCCGCTAAAAAGCAGAGCAA
TAGCGGCGCATTTGGAAAAACGCCGCTAAAAACCAAAGCATTAGCGGCACTTTTGAT
Found at i:51428468 original size:14 final size:14
Alignment explanation
Indices: 51428446--51428539 Score: 52
Period size: 14 Copynumber: 6.7 Consensus size: 14
51428436 TTAATTATCA
*
51428446 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
51428460 TTATGGTTTAAGATGGT
1 TTATGGTTT-A-A-GGT
* *
51428477 TTAGGGTTTAGGGT
1 TTATGGTTTAAGGT
51428491 TTATGAG-TTAA---
1 TTATG-GTTTAAGGT
* *
51428502 ATATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
51428516 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
51428530 TTAAGGTTTA
1 TTATGGTTTA
51428540 GGAGTTAACT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
10 1 0.02
11 8 0.13
14 38 0.61
15 2 0.03
16 2 0.03
17 11 0.18
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:51428524 original size:32 final size:31
Alignment explanation
Indices: 51428457--51428530 Score: 76
Period size: 32 Copynumber: 2.4 Consensus size: 31
51428447 TATAGTTTAA
* * * *
51428457 GGTTTATGGTTTAAGATGGTTTAGGGTTTAG
1 GGTTTATGGTTAAAGATGGTTTAAGATATAG
* *
51428488 GGTTTATGAGTTAAATATGGTTTAAGATATAT
1 GGTTTATG-GTTAAAGATGGTTTAAGATATAG
*
51428520 GGTTTAGGGTT
1 GGTTTATGGTT
51428531 TAAGGTTTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
31 11 0.31
32 24 0.69
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (31 bp):
GGTTTATGGTTAAAGATGGTTTAAGATATAG
Found at i:51436879 original size:7 final size:7
Alignment explanation
Indices: 51436867--51436977 Score: 61
Period size: 7 Copynumber: 15.7 Consensus size: 7
51436857 GGGATTATGA
51436867 TTTAGGG
1 TTTAGGG
51436874 TTTAGGG
1 TTTAGGG
51436881 -TTAGGG
1 TTTAGGG
51436887 -TT-GGAG
1 TTTAGG-G
*
51436893 TTTAAGG
1 TTTAGGG
*
51436900 TGTAAGGG
1 T-TTAGGG
51436908 TTT-GGTG
1 TTTAGG-G
*
51436915 TTAAGGG
1 TTTAGGG
*
51436922 TTAAGGG
1 TTTAGGG
*
51436929 TTTAGTG
1 TTTAGGG
*
51436936 TTTAGTG
1 TTTAGGG
51436943 TTTATGGG
1 TTTA-GGG
*
51436951 -ATAGGGG
1 TTTA-GGG
*
51436958 TTAAGAGG
1 TTTAG-GG
51436966 TTTAGGG
1 TTTAGGG
51436973 TTTAG
1 TTTAG
51436978 ATTAATTAGT
Statistics
Matches: 82, Mismatches: 13, Indels: 18
0.73 0.12 0.16
Matches are distributed among these distances:
5 2 0.02
6 11 0.13
7 52 0.63
8 17 0.21
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:51443395 original size:13 final size:13
Alignment explanation
Indices: 51443377--51443407 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
51443367 TAAATCAAAC
51443377 AAAAAAAACACGAA
1 AAAAAAAAC-CGAA
51443391 AAAAAAAACCGAA
1 AAAAAAAACCGAA
51443404 AAAA
1 AAAA
51443408 TATGGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.81, C:0.13, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAACCGAA
Found at i:51446098 original size:21 final size:22
Alignment explanation
Indices: 51446074--51446114 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
51446064 CTTCAATTTT
*
51446074 TGAAAATTTTCATTA-ATCTCA
1 TGAAAATTTTAATTAGATCTCA
51446095 TGAAAATTTTAATTAGATCT
1 TGAAAATTTTAATTAGATCT
51446115 TCAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (22 bp):
TGAAAATTTTAATTAGATCTCA
Found at i:51457290 original size:17 final size:17
Alignment explanation
Indices: 51457265--51457305 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
51457255 AACGAAAGAG
* *
51457265 AGAAGAAAAAGGAAAAA
1 AGAAAAAAAAAGAAAAA
51457282 AGAAAAAAAAAGAAAAA
1 AGAAAAAAAAAGAAAAA
51457299 AGAAAAA
1 AGAAAAA
51457306 GGAAGGCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAAGAAAAA
Found at i:51469234 original size:39 final size:40
Alignment explanation
Indices: 51469191--51469274 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 40
51469181 TGATTTATTG
51469191 TTTTTAATAATTAAAATA-TATAAA-ATTA-ATTCATATTAT
1 TTTTTAATAATTAAAA-ACTA-AAATATTATATTCATATTAT
* * *
51469230 TTTTT-ATATTTAAAAACTAAAATATTATTTTCATTTTAT
1 TTTTTAATAATTAAAAACTAAAATATTATATTCATATTAT
51469269 TTTTTA
1 TTTTTA
51469275 TATTTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
37 4 0.11
38 15 0.39
39 19 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (40 bp):
TTTTTAATAATTAAAAACTAAAATATTATATTCATATTAT
Found at i:51474558 original size:21 final size:21
Alignment explanation
Indices: 51474532--51474572 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51474522 AGACGAGCAA
* *
51474532 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
51474553 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
51474573 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:51476511 original size:16 final size:16
Alignment explanation
Indices: 51476478--51476511 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51476468 GGAGATTGTT
* *
51476478 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
51476494 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
51476510 AA
1 AA
51476512 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:51487587 original size:23 final size:22
Alignment explanation
Indices: 51487553--51487598 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
51487543 TAACCAAACC
51487553 AATTCAACATATTT-TCAAGATA
1 AATTCAACATATTTAT-AAGATA
51487575 AATTCATACATATTTATAAGATA
1 AATTCA-ACATATTTATAAGATA
51487598 A
1 A
51487599 CGTCATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
AATTCAACATATTTATAAGATA
Found at i:51487604 original size:23 final size:24
Alignment explanation
Indices: 51487559--51487610 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
51487549 AACCAATTCA
*
51487559 ACATATTTTCAAGATAAATTCAT-
1 ACATATTTTCAAGATAAAGTCATC
*
51487582 ACATATTTAT-AAGATAACGTCATC
1 ACATATTT-TCAAGATAAAGTCATC
51487606 ACATA
1 ACATA
51487611 CCCAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (24 bp):
ACATATTTTCAAGATAAAGTCATC
Found at i:51498147 original size:42 final size:42
Alignment explanation
Indices: 51498101--51498183 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
51498091 CTCCATGTAA
*
51498101 CCTGACAATCTCAGATATGTACAGTTCAGCTAGTTTATCTAG
1 CCTGACAATCTCAGATATGTACAGTTCAGCTAATTTATCTAG
*
51498143 CCTGACAATCTCAGATATGTATAGTTCAGCTAATTTATCTA
1 CCTGACAATCTCAGATATGTACAGTTCAGCTAATTTATCTA
51498184 AAGAATAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (42 bp):
CCTGACAATCTCAGATATGTACAGTTCAGCTAATTTATCTAG
Found at i:51502231 original size:23 final size:23
Alignment explanation
Indices: 51502188--51502231 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
51502178 CCAATTCAAC
*
51502188 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
51502211 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
51502232 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:51513724 original size:21 final size:21
Alignment explanation
Indices: 51513692--51513732 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51513682 GAACATTTGG
51513692 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
51513713 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
51513733 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:51519405 original size:15 final size:15
Alignment explanation
Indices: 51519387--51519416 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51519377 CTCTGCAGTC
*
51519387 TTCAACTCTTAAAAA
1 TTCAACCCTTAAAAA
51519402 TTCAACCCTTAAAAA
1 TTCAACCCTTAAAAA
51519417 GTTATTAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (15 bp):
TTCAACCCTTAAAAA
Found at i:51529288 original size:11 final size:11
Alignment explanation
Indices: 51529272--51529309 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
51529262 AACTCAAGTT
51529272 TAATTTTTAGA
1 TAATTTTTAGA
51529283 TAATTTTTTAGA
1 TAA-TTTTTAGA
*
51529295 TAATTTTTATA
1 TAATTTTTAGA
51529306 TAAT
1 TAAT
51529310 ACAGTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (11 bp):
TAATTTTTAGA
Found at i:51529292 original size:12 final size:12
Alignment explanation
Indices: 51529275--51529302 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
51529265 TCAAGTTTAA
51529275 TTTTTAGATAAT
1 TTTTTAGATAAT
51529287 TTTTTAGATAAT
1 TTTTTAGATAAT
51529299 TTTT
1 TTTT
51529303 ATATAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (12 bp):
TTTTTAGATAAT
Found at i:51529521 original size:19 final size:20
Alignment explanation
Indices: 51529477--51529527 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
51529467 CAATATCCAA
51529477 ATAATAATAACAAAATAAATG
1 ATAAT-ATAACAAAATAAATG
* *
51529498 -CAATATAACAATA-AAATG
1 ATAATATAACAAAATAAATG
*
51529516 ATAATAAAACAA
1 ATAATATAACAA
51529528 CAACAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.20
19 17 0.68
20 3 0.12
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.22
Consensus pattern (20 bp):
ATAATATAACAAAATAAATG
Found at i:51529529 original size:22 final size:22
Alignment explanation
Indices: 51529504--51529551 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
51529494 AATGCAATAT
* *
51529504 AACAATAAAAT-GATAATAAAAC
1 AACAACAAAATAG-TAACAAAAC
51529526 AACAACAAAATAGTAACAAAAC
1 AACAACAAAATAGTAACAAAAC
51529548 AACA
1 AACA
51529552 GGAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.69, C:0.15, G:0.04, T:0.12
Consensus pattern (22 bp):
AACAACAAAATAGTAACAAAAC
Found at i:51530286 original size:17 final size:17
Alignment explanation
Indices: 51530264--51530297 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51530254 ATCCACTAAT
*
51530264 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
51530281 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
51530298 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:51534926 original size:17 final size:17
Alignment explanation
Indices: 51534904--51534937 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51534894 ATCCACTAAT
*
51534904 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
51534921 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
51534938 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:51536117 original size:18 final size:18
Alignment explanation
Indices: 51536096--51536210 Score: 66
Period size: 19 Copynumber: 6.6 Consensus size: 18
51536086 AAAAAATTAT
51536096 AAATTATAAATTTTATAA
1 AAATTATAAATTTTATAA
*
51536114 AAATTATTAAATTTTA-ATG
1 AAATTA-TAAATTTTATA-A
*
51536133 AAA--ATACA----ATAA
1 AAATTATAAATTTTATAA
*
51536145 AAATT-TAAAATTTATTAA
1 AAATTATAAATTTTA-TAA
* *
51536163 AAATTAGAATTTTTTATAA
1 AAATTATAA-ATTTTATAA
*
51536182 AAATCATAAAATTTTATAA
1 AAATTAT-AAATTTTATAA
*
51536201 AAATCATAAA
1 AAATTATAAA
51536211 AAATAATAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
12 4 0.05
13 4 0.05
16 3 0.04
17 2 0.03
18 18 0.24
19 37 0.50
20 6 0.08
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATTATAAATTTTATAA
Found at i:51536219 original size:19 final size:19
Alignment explanation
Indices: 51536178--51536219 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
51536168 AGAATTTTTT
** *
51536178 ATAAAAATCATAAAATTTT
1 ATAAAAATCATAAAAAATA
51536197 ATAAAAATCATAAAAAATA
1 ATAAAAATCATAAAAAATA
51536216 ATAA
1 ATAA
51536220 CCCCTAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAAAATCATAAAAAATA
Found at i:51536435 original size:55 final size:55
Alignment explanation
Indices: 51536372--51536478 Score: 146
Period size: 55 Copynumber: 1.9 Consensus size: 55
51536362 ATTTACGAAA
*
51536372 TTTATATTTCTTTACATTTTGTATAA-TTTTCTTACGA-CTTTATAAAATTTTATTT
1 TTTATATTTCTATACA-TTT-TATAATTTTTCTTACGATCTTTATAAAATTTTATTT
* * *
51536427 TTTATATTTCTATATATTTTATAATTTTTTTTACGATTTTTATAAAATTTTA
1 TTTATATTTCTATACATTTTATAATTTTTCTTACGATCTTTATAAAATTTTA
51536479 CAATCTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 5 0.11
54 13 0.28
55 28 0.61
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.62
Consensus pattern (55 bp):
TTTATATTTCTATACATTTTATAATTTTTCTTACGATCTTTATAAAATTTTATTT
Found at i:51536512 original size:8 final size:9
Alignment explanation
Indices: 51536425--51536524 Score: 53
Period size: 9 Copynumber: 10.7 Consensus size: 9
51536415 AAAATTTTAT
51536425 TTTTTAT-A
1 TTTTTATAA
*
51536433 TTTCTAT-A
1 TTTTTATAA
51536441 TATTTTATAA
1 T-TTTTATAA
*
51536451 TTTTTTTTACGA
1 -TTTTTATA--A
51536463 TTTTTATAAA
1 TTTTTAT-AA
* *
51536473 ATTTTACAA
1 TTTTTATAA
*
51536482 TCTTTTTATAT
1 --TTTTTATAA
*
51536493 TTTTTATGA
1 TTTTTATAA
51536502 TTTTTAT-A
1 TTTTTATAA
*
51536510 TTTTTCTAA
1 TTTTTATAA
51536519 TTTTTA
1 TTTTTA
51536525 ATAAAAGTAG
Statistics
Matches: 70, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
8 15 0.21
9 27 0.39
10 13 0.19
11 13 0.19
12 2 0.03
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:51537322 original size:22 final size:21
Alignment explanation
Indices: 51537297--51537343 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
51537287 ATCAAAACTT
51537297 TTAAATTAGAAAATATAGAATA
1 TTAAATTAGAAAAT-TAGAATA
**
51537319 TTAAAATTATTAAATTAGAATA
1 TT-AAATTAGAAAATTAGAATA
51537341 TTA
1 TTA
51537344 CCTATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.05
22 11 0.50
23 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (21 bp):
TTAAATTAGAAAATTAGAATA
Found at i:51543811 original size:21 final size:21
Alignment explanation
Indices: 51543786--51543833 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
51543776 CAGAAGGTAG
51543786 CCATTCG-AGCAAACTAACCAT
1 CCATTCGAAG-AAACTAACCAT
51543807 CCATTCGAAGAAACTAACCAT
1 CCATTCGAAGAAACTAACCAT
*
51543828 CTATTC
1 CCATTC
51543834 CTCTAGGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (21 bp):
CCATTCGAAGAAACTAACCAT
Found at i:51544134 original size:7 final size:7
Alignment explanation
Indices: 51544122--51544148 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
51544112 ATCAACTTAC
51544122 CTCAACA
1 CTCAACA
51544129 CTCAACA
1 CTCAACA
51544136 CTCAACA
1 CTCAACA
51544143 CTCAAC
1 CTCAAC
51544149 CTTTCATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (7 bp):
CTCAACA
Found at i:51546710 original size:22 final size:23
Alignment explanation
Indices: 51546685--51546736 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
51546675 GTTGATTGAA
*
51546685 TAAAAAATT-GTTTAAA-AATATT
1 TAAAAAATTAG-TAAAAGAATATT
*
51546707 T-AAAATTTAGTAAAAGAATATT
1 TAAAAAATTAGTAAAAGAATATT
51546729 TAAAAAAT
1 TAAAAAAT
51546737 ATAAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 10 0.42
22 9 0.38
23 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
TAAAAAATTAGTAAAAGAATATT
Found at i:51546743 original size:22 final size:22
Alignment explanation
Indices: 51546701--51546742 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
51546691 ATTGTTTAAA
**
51546701 AATATTTAAAATTTAGTAAAAG
1 AATATTTAAAAAATAGTAAAAG
51546723 AATATTTAAAAAATA-TAAAA
1 AATATTTAAAAAATAGTAAAA
51546743 AATTATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
AATATTTAAAAAATAGTAAAAG
Found at i:51546752 original size:31 final size:32
Alignment explanation
Indices: 51546698--51546775 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
51546688 AAAATTGTTT
* *
51546698 AAAAATATTTAAAATTTAGTAAAAG-AATATTTA
1 AAAAATA-TAAAAAATTAGTAAAAGAAATA-TTA
*
51546731 AAAAATATAAAAAATTA-TAAAATAAATATTA
1 AAAAATATAAAAAATTAGTAAAAGAAATATTA
*
51546762 AAAATTTATAAAAA
1 AAAA-ATATAAAAA
51546776 TAATTAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 12 0.31
32 20 0.51
33 7 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAAATATAAAAAATTAGTAAAAGAAATATTA
Found at i:51546757 original size:21 final size:22
Alignment explanation
Indices: 51546733--51546774 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
51546723 AATATTTAAA
51546733 AAATA-TAAAAAATTATAAAAT
1 AAATATTAAAAAATTATAAAAT
*
51546754 AAATATTAAAAATTTATAAAA
1 AAATATTAAAAAATTATAAAA
51546775 ATAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATTAAAAAATTATAAAAT
Found at i:51546759 original size:32 final size:33
Alignment explanation
Indices: 51546723--51546794 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 33
51546713 TTAGTAAAAG
51546723 AATATTTAAAAA-ATAT-AAAA-AATTATAAAATA
1 AATA-TTAAAAATATATAAAAATAATTA-AAAATA
*
51546755 AATATTAAAAATTTATAAAAATAATTAAAAATA
1 AATATTAAAAATATATAAAAATAATTAAAAATA
51546788 AA-ATTAA
1 AATATTAA
51546795 GTTGTCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 7 0.19
32 12 0.33
33 12 0.33
34 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (33 bp):
AATATTAAAAATATATAAAAATAATTAAAAATA
Found at i:51546776 original size:10 final size:10
Alignment explanation
Indices: 51546729--51546775 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
51546719 AAAGAATATT
51546729 TAAAAAA-TA
1 TAAAAAATTA
51546738 TAAAAAATTA
1 TAAAAAATTA
*
51546748 TAAAATAAATA
1 TAAAA-AATTA
*
51546759 TTAAAAATTTA
1 -TAAAAAATTA
51546770 TAAAAA
1 TAAAAA
51546776 TAATTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 7 0.22
10 13 0.41
11 7 0.22
12 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:51547412 original size:29 final size:30
Alignment explanation
Indices: 51547380--51547442 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
51547370 AAGAGTTTCT
51547380 AATATATATTT-ATTTTT-TTACAAATTTTA
1 AATATAT-TTTAATTTTTCTTACAAATTTTA
** *
51547409 AATA-ATTTTAATTTTTCTTTTACATTTTA
1 AATATATTTTAATTTTTCTTACAAATTTTA
51547438 AATAT
1 AATAT
51547443 TTTCTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 3 0.11
28 8 0.29
29 17 0.61
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (30 bp):
AATATATTTTAATTTTTCTTACAAATTTTA
Found at i:51547447 original size:21 final size:19
Alignment explanation
Indices: 51547413--51547451 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
51547403 ATTTTAAATA
51547413 ATTTTAATTTTTCTTTTAC
1 ATTTTAATTTTTCTTTTAC
51547432 ATTTTAAATATTTTCTTTTA
1 ATTTT-AAT-TTTTCTTTTA
51547452 TAGTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAATTTTTCTTTTAC
Found at i:51556925 original size:27 final size:28
Alignment explanation
Indices: 51556885--51556940 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
51556875 GAAATCGTAG
*
51556885 TTTTTAATTTTCTTTTACAAACAAACAA
1 TTTTTAATTCTCTTTTACAAACAAACAA
*
51556913 TTTTT-ATTCTCTTTTACAAGCAAACAA
1 TTTTTAATTCTCTTTTACAAACAAACAA
51556940 T
1 T
51556941 CTCTACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.46
Consensus pattern (28 bp):
TTTTTAATTCTCTTTTACAAACAAACAA
Found at i:51561225 original size:17 final size:17
Alignment explanation
Indices: 51561199--51561232 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51561189 AGGTTTAGGT
51561199 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
*
51561216 TTAAATTTTTTAATTAA
1 TTAAAATTTTTAATTAA
51561233 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:51561393 original size:29 final size:29
Alignment explanation
Indices: 51561360--51561433 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
51561350 ATAAAATAAT
51561360 AACATAAGTGACTAAAACGTAACATT-TCA
1 AACATAAGTGACTAAAACGTAAC-TTGTCA
* *
51561389 AACATAAATGACTAAAATGTAACTTGAGTCA
1 AACATAAGTGACTAAAACGTAACTT--GTCA
*
51561420 AACAAAAGTGACTA
1 AACATAAGTGACTA
51561434 TTTTTATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.05
29 21 0.55
31 15 0.39
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACTTGTCA
Found at i:51562588 original size:22 final size:23
Alignment explanation
Indices: 51562540--51562598 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
51562530 TATTTTCAAA
*
51562540 AAATATATAATA-TTATTATTTT
1 AAATATAAAATATTTATTATTTT
51562562 AAATATAAAATATTTA-T-TTTT
1 AAATATAAAATATTTATTATTTT
51562583 ACAATATAAAAT-TTTA
1 A-AATATAAAATATTTA
51562599 AATGAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.26
22 22 0.65
23 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATATAAAATATTTATTATTTT
Found at i:51563671 original size:12 final size:11
Alignment explanation
Indices: 51563644--51563677 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
51563634 TTTTCAAGTG
51563644 AAAATTAATAA
1 AAAATTAATAA
51563655 AAAATTAATATA
1 AAAATTAATA-A
51563667 AAAATT-ATAA
1 AAAATTAATAA
51563677 A
1 A
51563678 TTATTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 13 0.59
12 7 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATTAATAA
Found at i:51569123 original size:6 final size:6
Alignment explanation
Indices: 51569114--51569141 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
51569104 TCTATATTTT
51569114 AAATAA AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAAT
51569142 TTTAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:51569244 original size:16 final size:16
Alignment explanation
Indices: 51569221--51569258 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
51569211 TTTAAAATTT
51569221 TAAA-AATATAAAATA
1 TAAATAATATAAAATA
*
51569236 TAAATAATATTAAATA
1 TAAATAATATAAAATA
51569252 TAAATAA
1 TAAATAA
51569259 AATTCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAATAATATAAAATA
Found at i:51570461 original size:22 final size:22
Alignment explanation
Indices: 51570431--51570472 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
51570421 CAAAAAAATC
*
51570431 TACTTTTTTATTATTTTTTTAA
1 TACTATTTTATTATTTTTTTAA
* *
51570453 TACTATTTTCTTGTTTTTTT
1 TACTATTTTATTATTTTTTT
51570473 CTCTCTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (22 bp):
TACTATTTTATTATTTTTTTAA
Found at i:51576225 original size:18 final size:18
Alignment explanation
Indices: 51576204--51576238 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
51576194 TACTCTCAAC
51576204 AAAAAAATTT-TAAAAAT
1 AAAAAAATTTATAAAAAT
*
51576221 AAAAATATTTATAAAAAT
1 AAAAAAATTTATAAAAAT
51576239 TTCAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAAATTTATAAAAAT
Found at i:51593898 original size:18 final size:18
Alignment explanation
Indices: 51593875--51593909 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51593865 ATGAGTTTTT
51593875 AATTAAATT-AATATCACA
1 AATT-AATTAAATATCACA
51593893 AATTAATTAAATATCAC
1 AATTAATTAAATATCAC
51593910 TCTAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAATTAAATATCACA
Found at i:51596878 original size:46 final size:46
Alignment explanation
Indices: 51596852--51597029 Score: 347
Period size: 46 Copynumber: 3.9 Consensus size: 46
51596842 TCTGTCATGT
*
51596852 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
51596898 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
51596944 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
51596990 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
51597030 TCAAAGAGCA
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.34
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
Found at i:51599133 original size:16 final size:16
Alignment explanation
Indices: 51599114--51599146 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51599104 AATTTTTCCC
*
51599114 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
51599130 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
51599146 T
1 T
51599147 CCCCTGCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:51599218 original size:2 final size:2
Alignment explanation
Indices: 51599213--51599240 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51599203 CCTTTTACTT
51599213 TA 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 TA
51599241 ATAGCTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51599394 original size:18 final size:18
Alignment explanation
Indices: 51599351--51599386 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
51599341 AATATCTTTT
*
51599351 ATTTAATAATAATATATA
1 ATTTAATAATAATAAATA
51599369 ATTTAATAATAATAAATA
1 ATTTAATAATAATAAATA
51599387 CATTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAATAATAATAAATA
Found at i:51602063 original size:5 final size:5
Alignment explanation
Indices: 51602053--51602107 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
51602043 GCAACCCAAT
* * *
51602053 TTTTA TTTTA TTTTA GTTTA TTTTA TTTTTA TTTATT TTTTC TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTT-TA TTTTA TT-TTA
51602101 TTTTA TT
1 TTTTA TT
51602108 ATTTATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
5 29 0.69
6 13 0.31
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:51602098 original size:25 final size:25
Alignment explanation
Indices: 51602051--51602119 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
51602041 AGGCAACCCA
*
51602051 ATTTTTATTTTATTTTAGTTTATT-TT
1 ATTTTTA-TTTATTTT-TTTTATTATT
51602077 ATTTTTATTTATTTTTTCTTATTATT
1 ATTTTTATTTATTTTTT-TTATTATT
* *
51602103 -TTATTATTTATTATTTT
1 ATTTTTATTTATTTTTTT
51602120 GAGATATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 2 0.05
25 27 0.71
26 9 0.24
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (25 bp):
ATTTTTATTTATTTTTTTTATTATT
Found at i:51602115 original size:15 final size:14
Alignment explanation
Indices: 51602055--51602119 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 14
51602045 AACCCAATTT
51602055 TTATTTTA-TTTTA
1 TTATTTTATTTTTA
51602068 GTTTATTTTATTTTTA
1 --TTATTTTATTTTTA
*
51602084 TTTATTTT-TTCTTA
1 -TTATTTTATTTTTA
51602098 TTATTTTATTATTTA
1 TTATTTTATT-TTTA
51602113 TTATTTT
1 TTATTTT
51602120 GAGATATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.16
14 7 0.16
15 26 0.58
16 5 0.11
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TTATTTTATTTTTA
Found at i:51602127 original size:28 final size:28
Alignment explanation
Indices: 51602070--51602128 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
51602060 TTATTTTAGT
** *
51602070 TTATTTTATTTTTATTTATTTTTTCTTA
1 TTATTTTATTTTTATTTATTTTGACATA
*
51602098 TTATTTTATTATTTA-TTATTTTGAGATA
1 TTATTTTATT-TTTATTTATTTTGACATA
51602126 TTA
1 TTA
51602129 ATAAAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (28 bp):
TTATTTTATTTTTATTTATTTTGACATA
Found at i:51603049 original size:5 final size:4
Alignment explanation
Indices: 51603025--51603082 Score: 55
Period size: 4 Copynumber: 14.2 Consensus size: 4
51603015 ACATACATAC
* * * *
51603025 ATAA ATAA ATAA ATAA ATAAA ATAAA ATAA A-AA ATAT ATAT ATAT GTAA
1 ATAA ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA
51603074 ATAA ATAA A
1 ATAA ATAA A
51603083 ATTTGGGACT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 3 0.06
4 36 0.75
5 9 0.19
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (4 bp):
ATAA
Found at i:51603692 original size:17 final size:17
Alignment explanation
Indices: 51603658--51603697 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
51603648 ATATTAAGAC
51603658 AATTATTAGGATTATTT
1 AATTATTAGGATTATTT
*
51603675 AATT-TTAGGATTTTTTT
1 AATTATTAGGA-TTATTT
51603692 AATTAT
1 AATTAT
51603698 CTTTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 6 0.30
17 13 0.65
18 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (17 bp):
AATTATTAGGATTATTT
Done.