Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 25 of 255
Found at i:6749339 original size:63 final size:63
Alignment explanation
Indices: 6748406--6749347 Score: 441
Period size: 63 Copynumber: 15.0 Consensus size: 63
6748396 GGTGGTTTTA
* * * * * *
6748406 CAACAGAGCCATGATGCTTGGGTGAGTGTGCTGGCCCCT-GAGATGAGGCTT-TGGCTGGTTCTG
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGG-CTCTGGAGATGATGCTTCAGG-TGATTCTG
* * * ** *
6748469 CAACAGGGCCATGATGCTCGGGAGAGTGGGCTGGCCCAAGAGATGATACTTTCAGAG-G-TTCTA
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGATGATGC-TTCAG-GTGATTCT-
6748532 G
63 G
* * * ** * * * * **
6748533 -AACAGGTCCAT-AGTGCTTGGGAGAATTTTTTGTCTCT--AGATTCGATGTTTCTGGGGCCTCT
1 CAACAGGGCCATGA-TGCTTGGGAGAGTGTGCTGGCTCTGGAGA-T-GATGCTTCAGGTGATTCT
*
6748594 A
63 G
* * * * * *
6748595 CAA-TGGAGCCATGATACTTGGGTGAGTGTGCTGGC-CATGGAGATGAGGCTT-TGGCTGGTTCT
1 CAACAGG-GCCATGATGCTTGGGAGAGTGTGCTGGCTC-TGGAGATGATGCTTCAGG-TGATTCT
6748657 G
63 G
* * * * * ** * *
6748658 CAACAGGGCCATGGTGCTTGGGAGAGGGGGCTGGCTCTGGTGATGAGGCTTTGGGAGGTTCTG
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGATGATGCTTCAGGTGATTCTG
* * * * * * * * * * * **
6748721 CAATAGTGCCATGATGATCGGGAGACTGTGCTTGCTCTGGACATGAGGCTTCGGGGGGTTCCA
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGATGATGCTTCAGGTGATTCTG
* * * * * * * *
6748784 CAACAGGGCTATGATGTTTGGGTGAGTATGCTGGCCCCGGAGATGATGCTT-TGAGAGATTCTAG
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGATGATGCTTCAG-GTGATTCT-G
* * * * * * *
6748848 -AACGGGGCCATGATGCTTGAGAGAGTGTTCTGGCTCTAGA-ATTGATGTTTGAGG-GAGTTCAG
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGA-TGATGCTTCAGGTGA-TTCTG
* * * * * *
6748910 AAACAGGGCCATGATGCTTGGGTGAGTATGCTGG-TCCTGGAGATGATGCTTCAGGAGTTTCTC
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCT-CTGGAGATGATGCTTCAGGTGATTCTG
** * * * * ** * *
6748973 CAACAGGGTGATCATTCTTGGGAGAGTGTGCAGGCACCAGAGATGAGGCTTTAGGTGATTCTG
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGATGATGCTTCAGGTGATTCTG
* * * * * * * * * *
6749036 CAACATGGCTATGATGTTTGAGTGAGTATGCTGGCCCCGGAGATGATGCCTTGAGAT-ATTCTG
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGATGATG-CTTCAGGTGATTCTG
* * * * * * * * * **
6749099 GAACAGGGCCGTGATGATTGAGAGAGTGTTCTGGCTCTAGA-ATTGATGTTTCAGGGGGTTCAA
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGA-TGATGCTTCAGGTGATTCTG
* * * * * * * * *
6749162 AAACAGGGCCATGATGCCTGGGTGAGTATGCTGG-TCCCGGAGATGATACTTCAGGAGTTTCTC
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCT-CTGGAGATGATGCTTCAGGTGATTCTG
** * * * ** *
6749225 CAACAGGGTGATGATTCTTGGGAGAGTGTGCGGGCACCAGAGATGAGGCTTCAGGTGATTCTG
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGATGATGCTTCAGGTGATTCTG
* * * *
6749288 CAACATGGCTATGATGCTCGGGAGAGTGCGCTGGCTCTGGAGATGATGCTTCA--TGATTCT
1 CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGATGATGCTTCAGGTGATTCT
6749348 TGGGAGAGTG
Statistics
Matches: 648, Mismatches: 195, Indels: 74
0.71 0.21 0.08
Matches are distributed among these distances:
61 11 0.02
62 28 0.04
63 583 0.90
64 21 0.03
65 4 0.01
66 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (63 bp):
CAACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCTCTGGAGATGATGCTTCAGGTGATTCTG
Found at i:6749440 original size:105 final size:105
Alignment explanation
Indices: 6749235--6749441 Score: 290
Period size: 105 Copynumber: 2.0 Consensus size: 105
6749225 CAACAGGGTG
** * * * *
6749235 ATGATTCTTGGGAGAGTGTGCGGGCACCAGAGATGAGGCTTCAGGTGATTCTGCAACATGGCTAT
1 ATGATTCTTGGGAGAGTGCACAGGCACCAGAGATAAGGCTTCAGGTGATTCTGCAACATGGCCAG
* *
6749300 GATGCTCGGGAGAGTGCGCTGGCTCTGGAGATGATGCTTC
66 GATGCTCGGGAGAGTGCGCTAGCTCGGGAGATGATGCTTC
* * *
6749340 ATGATTCTTGGGAGAGTGCACAGGCACCAGAGATAAGGCTTTAGGTGGTTCTGCAATATGGCCAG
1 ATGATTCTTGGGAGAGTGCACAGGCACCAGAGATAAGGCTTCAGGTGATTCTGCAACATGGCCAG
*
6749405 GATGCTCGGGAGAGTGAC-CTAGCTCGGGAGGTGATGC
66 GATGCTCGGGAGAGTG-CGCTAGCTCGGGAGATGATGC
6749442 AATGGGAGGT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
105 88 0.99
106 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (105 bp):
ATGATTCTTGGGAGAGTGCACAGGCACCAGAGATAAGGCTTCAGGTGATTCTGCAACATGGCCAG
GATGCTCGGGAGAGTGCGCTAGCTCGGGAGATGATGCTTC
Found at i:6750417 original size:32 final size:32
Alignment explanation
Indices: 6750380--6750444 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6750370 ATAAAGAAAG
6750380 ATAAAAATTGGGTTCAACTTCAAATGTTTCCT
1 ATAAAAATTGGGTTCAACTTCAAATGTTTCCT
6750412 ATAAAAATTGGGTTCAACTTCAAATGTTTCCT
1 ATAAAAATTGGGTTCAACTTCAAATGTTTCCT
6750444 A
1 A
6750445 CTTTGTTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
ATAAAAATTGGGTTCAACTTCAAATGTTTCCT
Found at i:6762323 original size:18 final size:17
Alignment explanation
Indices: 6762280--6762323 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
6762270 AATGATGAGT
*
6762280 AAAAAAAATTATTATAA
1 AAAAAAAAATATTATAA
* *
6762297 AAAATAAAATATTTTCAA
1 AAAAAAAAATATTAT-AA
6762315 AAAAAAAAA
1 AAAAAAAAA
6762324 AATAACGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAAAAAATATTATAA
Found at i:6763872 original size:11 final size:11
Alignment explanation
Indices: 6763856--6763890 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
6763846 GCTAGTGTCG
6763856 TATACGAGTCA
1 TATACGAGTCA
6763867 TATACGAGTTCA
1 TATACGAG-TCA
6763879 TATACGAGTCA
1 TATACGAGTCA
6763890 T
1 T
6763891 TGACTATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (11 bp):
TATACGAGTCA
Found at i:6763881 original size:12 final size:12
Alignment explanation
Indices: 6763856--6763887 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
6763846 GCTAGTGTCG
6763856 TATACGAG-TCA
1 TATACGAGTTCA
6763867 TATACGAGTTCA
1 TATACGAGTTCA
6763879 TATACGAGT
1 TATACGAGT
6763888 CATTGACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (12 bp):
TATACGAGTTCA
Found at i:6766555 original size:17 final size:18
Alignment explanation
Indices: 6766519--6766556 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6766509 TTATGTTTAA
6766519 AAAATTGAATAATGAATT
1 AAAATTGAATAATGAATT
6766537 AAAATT-AATTAAT-AATT
1 AAAATTGAA-TAATGAATT
6766554 AAA
1 AAA
6766557 TGTGTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
AAAATTGAATAATGAATT
Found at i:6775632 original size:20 final size:22
Alignment explanation
Indices: 6775587--6775641 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
6775577 TAGAAAATAG
6775587 AAAAATAA-TAAAA-AGTTATT
1 AAAAATAATTAAAATAGTTATT
*
6775607 ATAAATAATTAAAATA-TTA-T
1 AAAAATAATTAAAATAGTTATT
*
6775627 AAAAATTATTAAAAT
1 AAAAATAATTAAAAT
6775642 TATGAACTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 21 0.70
21 8 0.27
22 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAAATAATTAAAATAGTTATT
Found at i:6775634 original size:9 final size:9
Alignment explanation
Indices: 6775604--6775738 Score: 60
Period size: 9 Copynumber: 14.2 Consensus size: 9
6775594 ATAAAAAGTT
6775604 ATTATAAATA
1 ATTATAAA-A
*
6775614 ATTA-AAAT
1 ATTATAAAA
6775622 ATTATAAAA
1 ATTATAAAA
*
6775631 ATTATTAAA
1 ATTATAAAA
**
6775640 ATTATGAACT
1 ATTAT-AAAA
6775650 ATTATAGAAA
1 ATTATA-AAA
6775660 ATTATAGAAAAA
1 ATTAT---AAAA
6775672 ATT-T-AAA
1 ATTATAAAA
6775679 ATTATTAAAA
1 ATTA-TAAAA
*
6775689 ATTTATTAAA
1 A-TTATAAAA
* *
6775699 GTTATTAGAA
1 ATTA-TAAAA
* *
6775709 CTTAATAAAT
1 ATT-ATAAAA
*
6775719 GTTATAAAA
1 ATTATAAAA
*
6775728 ATTAGAAAA
1 ATTATAAAA
6775737 AT
1 AT
6775739 ATTAAAGTAT
Statistics
Matches: 94, Mismatches: 19, Indels: 25
0.68 0.14 0.18
Matches are distributed among these distances:
7 6 0.06
8 4 0.04
9 38 0.40
10 34 0.36
11 5 0.05
12 6 0.06
13 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.37
Consensus pattern (9 bp):
ATTATAAAA
Found at i:6775696 original size:11 final size:10
Alignment explanation
Indices: 6775595--6775744 Score: 66
Period size: 10 Copynumber: 15.4 Consensus size: 10
6775585 AGAAAAATAA
6775595 TAAAAAGTTAT
1 TAAAAA-TTAT
* *
6775606 TATAAATAAT
1 TAAAAATTAT
6775616 TAAAATATTA-
1 TAAAA-ATTAT
6775626 TAAAAATTAT
1 TAAAAATTAT
6775636 T-AAAATTAT
1 TAAAAATTAT
* **
6775645 GAACTATTA-
1 TAAAAATTAT
6775654 TAGAAAATTA-
1 TA-AAAATTAT
*
6775664 TAGAAAA-AAT
1 TA-AAAATTAT
*
6775674 TTAAAATTAT
1 TAAAAATTAT
6775684 TAAAAATTTAT
1 TAAAAA-TTAT
*
6775695 T-AAAGTTAT
1 TAAAAATTAT
* * *
6775704 TAGAACTTAA
1 TAAAAATTAT
**
6775714 TAAATGTTA-
1 TAAAAATTAT
6775723 TAAAAATTA-
1 TAAAAATTAT
*
6775732 GAAAAA-TAT
1 TAAAAATTAT
6775741 TAAA
1 TAAA
6775745 GTATTATAAT
Statistics
Matches: 105, Mismatches: 25, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
8 2 0.02
9 38 0.36
10 52 0.50
11 13 0.12
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:6775804 original size:37 final size:37
Alignment explanation
Indices: 6775725--6775796 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
6775715 AAATGTTATA
**
6775725 AAAATTAGAAAAATATTAAAGTATTATAATTTTTTAG
1 AAAATTAGAAAAATATTAAAAAATTATAATTTTTTAG
* *
6775762 AAAATTATAAGAAATA-TAAAAAATTATGATTTTTT
1 AAAATTAGAA-AAATATTAAAAAATTATAATTTTTT
6775797 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 25 0.83
38 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (37 bp):
AAAATTAGAAAAATATTAAAAAATTATAATTTTTTAG
Found at i:6776282 original size:17 final size:16
Alignment explanation
Indices: 6776256--6776289 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6776246 TTTATAATAC
*
6776256 TTTATATTATGTTATT
1 TTTATATTATGTAATT
6776272 TTTATTATTATGTAATT
1 TTTA-TATTATGTAATT
6776289 T
1 T
6776290 AGAACATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTATATTATGTAATT
Found at i:6779807 original size:18 final size:18
Alignment explanation
Indices: 6779784--6779872 Score: 124
Period size: 18 Copynumber: 4.9 Consensus size: 18
6779774 CGTTTACGGT
6779784 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
*
6779802 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGC
* *
6779820 ACTATTCACATATACGGC
1 ACTATTCACGTATACAGC
* *
6779838 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGC
*
6779856 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
6779873 TAGTTGGGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:6779834 original size:36 final size:36
Alignment explanation
Indices: 6779782--6779872 Score: 146
Period size: 36 Copynumber: 2.5 Consensus size: 36
6779772 ACCGTTTACG
6779782 GTACTATTCACGTATACAGCACTATTCACGTATACA
1 GTACTATTCACGTATACAGCACTATTCACGTATACA
* * *
6779818 GTACTATTCACATATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACAGCACTATTCACGTATACA
*
6779854 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
6779873 TAGTTGGGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGTATACA
Found at i:6785762 original size:24 final size:21
Alignment explanation
Indices: 6785735--6785785 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 21
6785725 TAAGTGAAAC
6785735 AAATATTATTATATTTATTAATAT
1 AAAT-TTATT-TATTT-TTAATAT
6785759 AAATTTATTTATTTTTAAT-T
1 AAATTTATTTATTTTTAATAT
*
6785779 AATTTTA
1 AAATTTA
6785786 AATTGAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 5 0.19
23 5 0.19
24 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
AAATTTATTTATTTTTAATAT
Found at i:6786126 original size:21 final size:21
Alignment explanation
Indices: 6786088--6786143 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
6786078 TAGAAAATAG
* * *
6786088 AAAAAT-ACTAAAAAGTTATT
1 AAAAATAATTAAAATGTTATA
*
6786108 ATAAATAATTAAAATGTTATA
1 AAAAATAATTAAAATGTTATA
*
6786129 AAAAATTATTAAAAT
1 AAAAATAATTAAAAT
6786144 TATAAACGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (21 bp):
AAAAATAATTAAAATGTTATA
Found at i:6786148 original size:19 final size:19
Alignment explanation
Indices: 6786110--6786201 Score: 69
Period size: 19 Copynumber: 4.6 Consensus size: 19
6786100 AAGTTATTAT
*
6786110 AAATAATTAAAATGTTATAAA
1 AAATTATTAAAA--TTATAAA
6786131 AAATTATTAAAATTATAAA
1 AAATTATTAAAATTATAAA
** *
6786150 CGATTATTGAAAACTATAGAA
1 AAATTATT-AAAATTATA-AA
* *
6786171 AAAAT-TTATAATTATTAAA
1 AAATTATTAAAATTA-TAAA
*
6786190 AAGTTATTAAAA
1 AAATTATTAAAA
6786202 ATTAATAAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
19 23 0.42
20 17 0.31
21 15 0.27
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATTATTAAAATTATAAA
Found at i:6786935 original size:34 final size:35
Alignment explanation
Indices: 6786887--6786952 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
6786877 AAAAGATATA
*
6786887 TAAAATTTTATT-AAATATT-AAAATAATATAATC
1 TAAAATTTTATTAAAAAATTAAAAATAATATAATC
*
6786920 TAAATATTTTTTTAAAAAATTAAAAATAATATA
1 TAAA-ATTTTATTAAAAAATTAAAAATAATATA
6786953 GACGGGTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 7 0.25
35 6 0.21
36 11 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (35 bp):
TAAAATTTTATTAAAAAATTAAAAATAATATAATC
Found at i:6789305 original size:21 final size:22
Alignment explanation
Indices: 6789262--6789305 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
6789252 CCATCTTTAC
*
6789262 CCACACTTTTATAATAATAATT
1 CCACACTTTTATAATAACAATT
6789284 CCAC-CTTTTA-AATAACACATT
1 CCACACTTTTATAATAACA-ATT
6789305 C
1 C
6789306 AAACCCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (22 bp):
CCACACTTTTATAATAACAATT
Found at i:6797160 original size:131 final size:131
Alignment explanation
Indices: 6796979--6797235 Score: 390
Period size: 131 Copynumber: 2.0 Consensus size: 131
6796969 TAATTATCCA
* * *
6796979 TTTAAAAATTCTTAAAAACGAAGGCAATGTTCGATGCTTGGAAATTCGGGGAATCGTGCCCTATT
1 TTTAAAAATTCTTAAAAACGAAGGCAATGTTCGATGCTTGGAAATTCGGGGAATAGTACCCTATC
* *
6797044 GTGCTAGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATGTTCCTTTGGAATTTCACTCATGT
66 GTGCTAGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTCCACTCATGT
6797109 C
131 C
* * * * *
6797110 TTTAAAAATTCTTCAAAAA-TAAGGTAATGTTCGGTGTTTGGCAATTCGGGGAATAGTACCCTAT
1 TTTAAAAATTCTT-AAAAACGAAGGCAATGTTCGATGCTTGGAAATTCGGGGAATAGTACCCTAT
* *
6797174 CGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTCCACTC
65 CGTGCTAGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTCCACTC
6797236 GTGTTTTCTA
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
131 108 0.96
132 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (131 bp):
TTTAAAAATTCTTAAAAACGAAGGCAATGTTCGATGCTTGGAAATTCGGGGAATAGTACCCTATC
GTGCTAGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTCCACTCATGT
C
Found at i:6800317 original size:38 final size:38
Alignment explanation
Indices: 6800251--6800325 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
6800241 GTTTGGCGGC
* ***
6800251 ACCATGAAAATGGTTATCTACGTGCTCTACGAAGCGAA
1 ACCATGAAAACGGTTATCTACAACCTCTACGAAGCGAA
*
6800289 ACCATGAAAACGGTTATCTATAACCTCTACGAAGCGA
1 ACCATGAAAACGGTTATCTACAACCTCTACGAAGCGA
6800326 CACATCTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (38 bp):
ACCATGAAAACGGTTATCTACAACCTCTACGAAGCGAA
Found at i:6804289 original size:20 final size:21
Alignment explanation
Indices: 6804266--6804336 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 21
6804256 AATAAAAGTG
6804266 ATAAAAAATATT-AAATTTTA
1 ATAAAAAATATTAAAATTTTA
*
6804286 AT--AAAATATTAAAATTATA
1 ATAAAAAATATTAAAATTTTA
6804305 A-AAAAAAT-TGTAAAATTTT-
1 ATAAAAAATAT-TAAAATTTTA
*
6804324 ATAAAAATTATTA
1 ATAAAAAATATTA
6804337 TAAAATTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
18 8 0.19
19 10 0.24
20 23 0.55
21 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (21 bp):
ATAAAAAATATTAAAATTTTA
Found at i:6804345 original size:20 final size:20
Alignment explanation
Indices: 6804295--6804349 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
6804285 AATAAAATAT
*
6804295 TAAAATTATAAAAAAAATTG
1 TAAAATTATAAAAAAAATTA
**
6804315 TAAAATTTTATAAAAATTATTA
1 TAAAA--TTATAAAAAAAATTA
6804337 TAAAATTATAAAA
1 TAAAATTATAAAA
6804350 TGCACTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAATTATAAAAAAAATTA
Found at i:6804669 original size:9 final size:9
Alignment explanation
Indices: 6804657--6804782 Score: 62
Period size: 9 Copynumber: 13.6 Consensus size: 9
6804647 ATTATAAATT
6804657 TTTTTATAA
1 TTTTTATAA
*
6804666 TTTTTTTACTA
1 TTTTTATA--A
6804677 TTTTTATAA
1 TTTTTATAA
*
6804686 TATTCTTCT-A
1 T-TT-TTATAA
6804696 TTTTTAATAA
1 TTTTT-ATAA
*
6804706 ATTTTA-AA
1 TTTTTATAA
* *
6804714 TATTTATTA
1 TTTTTATAA
6804723 TTTTTATTAAA
1 TTTTTA-T-AA
* *
6804734 ATTTAATAA
1 TTTTTATAA
6804743 TTTTTATAA
1 TTTTTATAA
* *
6804752 CTTTTATTGA
1 TTTTTA-TAA
6804762 TTTTTAT--
1 TTTTTATAA
*
6804769 TTTTTATCA
1 TTTTTATAA
6804778 TTTTT
1 TTTTT
6804783 TGCCACATGT
Statistics
Matches: 88, Mismatches: 17, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
7 7 0.08
8 8 0.09
9 39 0.44
10 18 0.20
11 16 0.18
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6804696 original size:19 final size:20
Alignment explanation
Indices: 6804657--6804701 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
6804647 ATTATAAATT
* *
6804657 TTTTTATAATTTTTTTACTA
1 TTTTTATAATATTCTTACTA
6804677 TTTTTATAATATTCTT-CTA
1 TTTTTATAATATTCTTACTA
6804696 TTTTTA
1 TTTTTA
6804702 ATAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTATAATATTCTTACTA
Found at i:6804745 original size:27 final size:26
Alignment explanation
Indices: 6804679--6804749 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
6804669 TTTTACTATT
*
6804679 TTTATAATATTCTTCTATTTTTAATAAAT
1 TTTA-AATATT-TT-TATTTTTAATAAAA
*
6804708 TTTAAATATTTATTATTTTTATTAAAA
1 TTTAAATATTT-TTATTTTTAATAAAA
6804735 TTT-AATAATTTTTAT
1 TTTAAAT-ATTTTTAT
6804750 AACTTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 7 0.18
27 20 0.53
28 7 0.18
29 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTAAATATTTTTATTTTTAATAAAA
Found at i:6804746 original size:19 final size:20
Alignment explanation
Indices: 6804709--6804746 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
6804699 TTAATAAATT
* *
6804709 TTAAATATTTATTATTTTTA
1 TTAAATATTTAATAATTTTA
6804729 TTAAA-ATTTAATAATTTT
1 TTAAATATTTAATAATTTT
6804747 TATAACTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAAATATTTAATAATTTTA
Found at i:6806742 original size:33 final size:34
Alignment explanation
Indices: 6806700--6806766 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
6806690 TTCAACCCTC
* *
6806700 ACAACAATTTTCTGTCTTCGCCT-CTAGTGGAAG
1 ACAACAATTTTCTGACTTCGCCTCCAAGTGGAAG
6806733 ACAACAATTTTCTGACTTCGCCTCCAAGTGGAAG
1 ACAACAATTTTCTGACTTCGCCTCCAAGTGGAAG
6806767 GCGAGCATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 22 0.71
34 9 0.29
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (34 bp):
ACAACAATTTTCTGACTTCGCCTCCAAGTGGAAG
Found at i:6810275 original size:23 final size:24
Alignment explanation
Indices: 6810235--6810295 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
6810225 AAATATTTTA
*
6810235 ATATTTTTAAAAAATTATAAAAA-
1 ATATTATTAAAAAATTATAAAAAT
*
6810258 A-ATTATTAAAAATGTTATAAAAAT
1 ATATTATTAAAAA-ATTATAAAAAT
*
6810282 ATTTTATTAAAAAA
1 ATATTATTAAAAAA
6810296 ATAACAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 10 0.32
23 10 0.32
24 1 0.03
25 10 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATTATTAAAAAATTATAAAAAT
Found at i:6810281 original size:11 final size:11
Alignment explanation
Indices: 6810242--6810284 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
6810232 TTAATATTTT
6810242 TAAAAA-ATTA
1 TAAAAATATTA
*
6810252 TAAAAAAATTA
1 TAAAAATATTA
*
6810263 TTAAAAATGTTA
1 -TAAAAATATTA
6810275 TAAAAATATT
1 TAAAAATATT
6810285 TTATTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 6 0.21
11 13 0.46
12 9 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
TAAAAATATTA
Found at i:6811502 original size:19 final size:20
Alignment explanation
Indices: 6811467--6811504 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6811457 TTAAATTAAC
*
6811467 ATAAAATGTTAAAAATAAAG
1 ATAAAATGGTAAAAATAAAG
6811487 ATAAAATGGT-AAAATAAA
1 ATAAAATGGTAAAAATAAA
6811505 AAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (20 bp):
ATAAAATGGTAAAAATAAAG
Found at i:6815383 original size:24 final size:24
Alignment explanation
Indices: 6815355--6815415 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
6815345 AACCGAATTT
* * *
6815355 GCACACATAGTGCTA-ATTATACTC
1 GCACACATAGTGCCATAGTAAAC-C
6815379 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
6815403 GCACACATAGTGC
1 GCACACATAGTGC
6815416 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:6819294 original size:44 final size:44
Alignment explanation
Indices: 6819231--6819319 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
6819221 GAAGTAAATA
* *
6819231 TGTAAAATTTTAGGGGCAAAAATGTAATTTTGTCAAAGTTTGAG
1 TGTAAAAGTTTAGGGGCAAAAATGTAATTTTGCCAAAGTTTGAG
6819275 TGTAAAAGTTTAGGGGCAAAAATGTAATTTTGCCAAAGTTTGAG
1 TGTAAAAGTTTAGGGGCAAAAATGTAATTTTGCCAAAGTTTGAG
6819319 T
1 T
6819320 CAAGGACTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.35
Consensus pattern (44 bp):
TGTAAAAGTTTAGGGGCAAAAATGTAATTTTGCCAAAGTTTGAG
Found at i:6819742 original size:55 final size:54
Alignment explanation
Indices: 6819654--6819908 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
6819644 ATTAGGGTTT
**
6819654 AAGGATACCATGTAAGACCATGCCAAGGTATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
6819709 AAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
6819764 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
6819817 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
*** * *
6819866 AAGGATACCCCATAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
6819909 GTACCCGTGT
Statistics
Matches: 171, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
49 38 0.22
52 7 0.04
53 41 0.24
54 12 0.07
55 69 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:6819860 original size:108 final size:110
Alignment explanation
Indices: 6819661--6819861 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
6819651 TTTAAGGATA
* *
6819661 CCATGTAAGACCATGCCAAGGTATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
6819726 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
*
6819771 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
6819833 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
6819862 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.58
109 7 0.08
110 26 0.31
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:6820003 original size:23 final size:24
Alignment explanation
Indices: 6819977--6820021 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
6819967 AAGGTAAAGT
6819977 AAGGTAAGA-AGAGTT-ATGCTAAA
1 AAGGTAAGACA-AGTTCATGCTAAA
6820000 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
6820022 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:6825838 original size:18 final size:18
Alignment explanation
Indices: 6825808--6825842 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6825798 TAACTCGTTT
6825808 TTAATATTTTATATTACG
1 TTAATATTTTATATTACG
6825826 TTAAT-TTTATATATTAC
1 TTAATATTT-TATATTAC
6825843 ATAATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (18 bp):
TTAATATTTTATATTACG
Found at i:6825994 original size:21 final size:19
Alignment explanation
Indices: 6825970--6826013 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
6825960 TTAAATATTG
6825970 AATTAAAAATAATAAAAATAT
1 AATTAAAAA-AATAAAAA-AT
*
6825991 AATTTTAAAAAATAAAAAAT
1 AA-TTAAAAAAATAAAAAAT
6826011 AAT
1 AAT
6826014 ATGGGCAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.05
20 4 0.19
21 10 0.48
22 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTAAAAAAATAAAAAAT
Found at i:6828665 original size:284 final size:283
Alignment explanation
Indices: 6828140--6828712 Score: 893
Period size: 284 Copynumber: 2.0 Consensus size: 283
6828130 GTATACATAT
* *
6828140 TTATAATACGCATAATATGTTGCTTTATTAAAAACCTTATCAGGAAAACCCAATGGGACAAAACC
1 TTATAATACGCATAATATGTTGCTTCATTAAAAACCTTATCAGGAAAACCCAATAGGACAAAACC
* *
6828205 TCGGTTAAGGGAAAAAGAGTACAACGCGTATTTATTCCCCTCATGAAAACATCACATACTTTCTC
66 TCGGTTAAGGGAAAAAGAGTACAACACGTATTTACTCCCCTCATGAAAACATCACATACTTTCTC
6828270 ATAATCTACGTATTCAATCTTGAATACTAGTATTTCAAATGACTATTTGAAATGTATTTGCTAAC
131 ATAATCTACGTATTCAATCTTGAATACTAGTATTTCAAATGACTATTTGAAATGTATTTGCTAAC
* *
6828335 AATTTATATCACCATTCTTATGAAAGTCATTAATAAGGGGAAATTTTAGG-AAAATATATTTTAA
196 AATTCATATCACCATTCTTATGAAAGTCATTAATAAGGGAAAATTTT-GGAAAAATATATTTTAA
6828399 TCTCTTCAAG-AGTTTCAACAATAA
260 TCTCTT-AAGAAGTTTCAACAATAA
* *
6828423 TCTATAATACGCATAATATGTTG-TCTCATTAAAAACCTTATTAGGAAAACCTAATAGGACAAAA
1 T-TATAATACGCATAATATGTTGCT-TCATTAAAAACCTTATCAGGAAAACCCAATAGGACAAAA
* * * * *
6828487 TCTTGGTTGAGGGAAAAAGAGTACAACACGTATTTACTCCCCTTCATGAAAATATTACATACTTT
64 CCTCGGTTAAGGGAAAAAGAGTACAACACGTATTTACTCCCC-TCATGAAAACATCACATACTTT
* *
6828552 CTCATAATCTACGTATTCAATCTTGAATACTAGTTTTTCAAATGATTATTTG-AATGTATTTGCT
128 CTCATAATCTACGTATTCAATCTTGAATACTAGTATTTCAAATGACTATTTGAAATGTATTTGCT
* * * *
6828616 AACCATTCATATCACCTTTCTTTTGAAAGTCATTAGTAAGGGAAAATTTTGGAAAAATATATTTT
193 AACAATTCATATCACCATTCTTATGAAAGTCATTAATAAGGGAAAATTTTGGAAAAATATATTTT
*
6828681 AATCTCTTTAGAAGTTTCAACAATAA
258 AATCTCTTAAGAAGTTTCAACAATAA
6828707 TTATAA
1 TTATAA
6828713 CAAACTTTAA
Statistics
Matches: 265, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
283 11 0.04
284 184 0.69
285 70 0.26
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (283 bp):
TTATAATACGCATAATATGTTGCTTCATTAAAAACCTTATCAGGAAAACCCAATAGGACAAAACC
TCGGTTAAGGGAAAAAGAGTACAACACGTATTTACTCCCCTCATGAAAACATCACATACTTTCTC
ATAATCTACGTATTCAATCTTGAATACTAGTATTTCAAATGACTATTTGAAATGTATTTGCTAAC
AATTCATATCACCATTCTTATGAAAGTCATTAATAAGGGAAAATTTTGGAAAAATATATTTTAAT
CTCTTAAGAAGTTTCAACAATAA
Found at i:6830997 original size:25 final size:25
Alignment explanation
Indices: 6830945--6830994 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
6830935 ATATAATACG
* *
6830945 GTATTAAAATACATACATCATATAA
1 GTATTAAAATACATACATAAGATAA
*
6830970 GTATTAAAAATATATACATAAGATA
1 GTATT-AAAATACATACATAAGATA
6830995 GTACGAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (25 bp):
GTATTAAAATACATACATAAGATAA
Found at i:6831077 original size:25 final size:25
Alignment explanation
Indices: 6831049--6831129 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
6831039 TAAAAAAATC
*
6831049 TATGTAATATAGTATTGAAAATCTA
1 TATGTAATATAGTATTGAAAATATA
* * * *
6831074 TATGCAATATGGTATTAAAAGGATAGA
1 TATGTAATATAGTATTGAAA--ATATA
*
6831101 TATATAATATAGTA-TGAAAA-ATA
1 TATGTAATATAGTATTGAAAATATA
6831124 TATGTA
1 TATGTA
6831130 CATGAGATAA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
23 7 0.16
24 1 0.02
25 17 0.40
26 4 0.09
27 14 0.33
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.36
Consensus pattern (25 bp):
TATGTAATATAGTATTGAAAATATA
Found at i:6840663 original size:11 final size:11
Alignment explanation
Indices: 6840649--6840685 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
6840639 TTTTTTACCT
6840649 GTATAAAATCC
1 GTATAAAATCC
6840660 GTATAAAATCC
1 GTATAAAATCC
*
6840671 ATATAAAATCC
1 GTATAAAATCC
6840682 GTAT
1 GTAT
6840686 TTTTACACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (11 bp):
GTATAAAATCC
Found at i:6842023 original size:78 final size:78
Alignment explanation
Indices: 6841931--6842087 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
6841921 ATGCGAATTT
* *
6841931 TAGAGTCCCATACCCATACCTAACTCGAATATCACTCCCAACTTAAATATTATTGGAAGAACTTT
1 TAGAGTCCCATACCCATACCCAACTCGAATATCACTCCCAACTTAAATATTATTGAAAGAACTTT
6841996 ACCTGAATATCAC
66 ACCTGAATATCAC
6842009 TAGAGTCCCATACCCATACCCAACTCGAATATCACTCCCAACTTAAATATTATTGAAAGAACTTT
1 TAGAGTCCCATACCCATACCCAACTCGAATATCACTCCCAACTTAAATATTATTGAAAGAACTTT
6842074 ACCTGAATATCAC
66 ACCTGAATATCAC
6842087 T
1 T
6842088 CCCAACTCGA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.28
Consensus pattern (78 bp):
TAGAGTCCCATACCCATACCCAACTCGAATATCACTCCCAACTTAAATATTATTGAAAGAACTTT
ACCTGAATATCAC
Found at i:6843532 original size:16 final size:16
Alignment explanation
Indices: 6843511--6843543 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6843501 AAGGCAAGTG
6843511 ATCCATAATCATGTTT
1 ATCCATAATCATGTTT
6843527 ATCCATAATCATGTTT
1 ATCCATAATCATGTTT
6843543 A
1 A
6843544 CTTTCCATTT
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:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (16 bp):
ATCCATAATCATGTTT
Found at i:6845512 original size:40 final size:41
Alignment explanation
Indices: 6845457--6845722 Score: 143
Period size: 41 Copynumber: 6.5 Consensus size: 41
6845447 GCAAAAATTG
* * *
6845457 TAAAACACATAGCAATAGCGGC-GTTTTACCAAAAACACCAC
1 TAAAA-ACAGAGCAATAGCGGCAGTTTTACCAAAAACGCCGC
* **
6845498 TAAAAACAGAGCAATAGTGGC-GTTTTAGTAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCAGTTTTACCAAAAACGCCGC
* * * * **
6845538 AAAAAATAGAGCATTAGCGGCACTTTTTTC-AAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCAGTTTTACCAAAAACGCCGC
* * **
6845578 TAAAAACCAGAGCATTAGCGGCGGTTTT-GGAAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCAGTTTTACCAAAAACGCCGC
* * * ***
6845619 TGACAACCAGAGCATTAGCGGC-GCTTTT-GGTAAAACGCCGC
1 T-AAAAACAGAGCAATAGCGGCAG-TTTTACCAAAAACGCCGC
* * * *** *
6845660 TGACAACCAGAGCATTAGCGGC-GCTTTT-GGTAAAACGCTGC
1 T-AAAAACAGAGCAATAGCGGCAG-TTTTACCAAAAACGCCGC
*
6845701 TAAAAACCAGAGCATTAGCGGC
1 TAAAAA-CAGAGCAATAGCGGC
6845723 GCTTTTGGTA
Statistics
Matches: 193, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
40 65 0.34
41 125 0.65
42 3 0.02
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.19
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCAGTTTTACCAAAAACGCCGC
Found at i:6845595 original size:41 final size:41
Alignment explanation
Indices: 6845488--6845746 Score: 328
Period size: 41 Copynumber: 6.4 Consensus size: 41
6845478 CGTTTTACCA
* * * * *
6845488 AAAACACCACTAAAAA-CAGAGCAATAGTGGCG-TTTTAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
** * *
6845527 AAAAACGCCGC-AAAAAATAGAGCATTAGCGGCACTTTT-TT
1 -AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
6845567 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGGTTTTGGA
1 -AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
6845609 AAAACGCCGCTGACAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
6845650 AAAACGCCGCTGACAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
6845691 AAAACGCTGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
6845732 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
6845747 GTCATATAAC
Statistics
Matches: 193, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 5 0.03
40 31 0.16
41 157 0.81
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:6845931 original size:14 final size:14
Alignment explanation
Indices: 6845908--6845981 Score: 51
Period size: 14 Copynumber: 5.0 Consensus size: 14
6845898 TATCATTATA
*
6845908 GTTTATGGTTTAGG
1 GTTTAAGGTTTAGG
*
6845922 GTTTAAGGTTTATGA
1 GTTTAAGGTTTA-GG
6845937 GTTAACTATA-GTTTAGG
1 GTT---TA-AGGTTTAGG
* * *
6845954 ATATATGGTTTAGG
1 GTTTAAGGTTTAGG
6845968 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
6845982 AGTTAACTAG
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
14 31 0.69
15 4 0.09
17 2 0.04
18 7 0.16
19 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:6846340 original size:14 final size:14
Alignment explanation
Indices: 6846317--6846361 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
6846307 TTAATTATCA
*
6846317 TTATAGTTTAGGGT
1 TTATAATTTAGGGT
* *
6846331 TTATGATTTAAGGT
1 TTATAATTTAGGGT
*
6846345 ATATAATTTAGGGT
1 TTATAATTTAGGGT
6846359 TTA
1 TTA
6846362 AGGTGTAGGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTATAATTTAGGGT
Found at i:6847984 original size:25 final size:25
Alignment explanation
Indices: 6847956--6848020 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
6847946 CTCATCGTCG
6847956 TTCACCGTCGTCTCTTCTGCGTCCC
1 TTCACCGTCGTCTCTTCTGCGTCCC
6847981 TTCACCGTCGTCTCTTCTGCGTCCC
1 TTCACCGTCGTCTCTTCTGCGTCCC
*
6848006 TTCGCCGTCGCTCTC
1 TTCACCGTCG-TCTC
6848021 CGCTTTCGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 34 0.89
26 4 0.11
ACGTcount: A:0.03, C:0.45, G:0.17, T:0.35
Consensus pattern (25 bp):
TTCACCGTCGTCTCTTCTGCGTCCC
Found at i:6850420 original size:21 final size:20
Alignment explanation
Indices: 6850383--6850422 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
6850373 ATGAATAAGT
6850383 GAATATTTTAATATTTATAG
1 GAATATTTTAATATTTATAG
6850403 GAATAATTATTAA-ATTTATA
1 GAAT-ATT-TTAATATTTATA
6850423 CATAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
GAATATTTTAATATTTATAG
Found at i:6851203 original size:39 final size:39
Alignment explanation
Indices: 6851154--6851231 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
6851144 TAAATTACAT
* *
6851154 AACTTTCATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
* *
6851193 AACTTACATAATTTACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
6851232 TCACATAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:6851227 original size:48 final size:48
Alignment explanation
Indices: 6851148--6851240 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
6851138 CTTCAATAAA
* * *
6851148 TTACATAACTTTCATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTTCATAACTCACATAACTTACATAACTCACATAACAAC
* *
6851196 TTACATAA-TTTACATAACTTACATAATTTACATAACTCACATAAC
1 TTACATAACTTT-CATAACTCACATAACTTACATAACTCACATAAC
6851241 GTACATAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 3 0.08
48 36 0.92
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.35
Consensus pattern (48 bp):
TTACATAACTTTCATAACTCACATAACTTACATAACTCACATAACAAC
Found at i:6851237 original size:9 final size:9
Alignment explanation
Indices: 6851143--6851264 Score: 109
Period size: 9 Copynumber: 12.9 Consensus size: 9
6851133 CATTACTTCA
*
6851143 ATAAATTAC
1 ATAACTTAC
*
6851152 ATAACTTTC
1 ATAACTTAC
* *
6851161 ATAACTCAT
1 ATAACTTAC
6851170 ATAACTTAC
1 ATAACTTAC
*
6851179 ATAATTTAC
1 ATAACTTAC
6851188 ATAACAACTTAC
1 AT---AACTTAC
*
6851200 ATAATTTAC
1 ATAACTTAC
6851209 ATAACTTAC
1 ATAACTTAC
*
6851218 ATAATTTAC
1 ATAACTTAC
*
6851227 ATAACTCAC
1 ATAACTTAC
*
6851236 ATAACGTAC
1 ATAACTTAC
6851245 ATAACAACTTAC
1 AT---AACTTAC
6851257 ATAACTTA
1 ATAACTTA
6851265 ACTAATACAT
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
9 74 0.82
12 16 0.18
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:6851238 original size:57 final size:57
Alignment explanation
Indices: 6851143--6851260 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 57
6851133 CATTACTTCA
* * * **
6851143 ATAAATTACATAACTTTCATAACTCATATAACTTACATAATTTACATAACAACTTAC
1 ATAAATTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTAC
* * *
6851200 ATAATTTACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTAC
1 ATAAATTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTAC
6851257 ATAA
1 ATAA
6851261 CTTAACTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (57 bp):
ATAAATTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTAC
Found at i:6856236 original size:17 final size:17
Alignment explanation
Indices: 6856198--6856271 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
6856188 GTATTATGAA
* *
6856198 ATTATTAAT-TCTTTCA
1 ATTATTAATAACTTTCT
*
6856214 AATATTAATAACTTTCT
1 ATTATTAATAACTTTCT
6856231 ATTATTAAATAA-TATTC-
1 ATTATT-AATAACT-TTCT
6856248 -TTATTAATAACTTTCT
1 ATTATTAATAACTTTCT
6856264 ATTATTAA
1 ATTATTAA
6856272 ATAATATTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
15 8 0.17
16 14 0.29
17 18 0.38
18 8 0.17
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTATTAATAACTTTCT
Found at i:6856248 original size:18 final size:18
Alignment explanation
Indices: 6856227--6856281 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
6856217 ATTAATAACT
6856227 TTCTATTATTAAATAATA
1 TTCTATTATTAAATAATA
6856245 TTC--TTATT-AATAACT-
1 TTCTATTATTAAATAA-TA
6856260 TTCTATTATTAAATAATA
1 TTCTATTATTAAATAATA
6856278 TTCT
1 TTCT
6856282 TACTACTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 8 0.25
16 6 0.19
17 6 0.19
18 12 0.38
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
TTCTATTATTAAATAATA
Found at i:6856253 original size:33 final size:33
Alignment explanation
Indices: 6856216--6856283 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
6856206 TTCTTTCAAA
6856216 TATTAATAACTTTCTATTATTAAATAATATTCT
1 TATTAATAACTTTCTATTATTAAATAATATTCT
6856249 TATTAATAACTTTCTATTATTAAATAATATTCT
1 TATTAATAACTTTCTATTATTAAATAATATTCT
6856282 TA
1 TA
6856284 CTACTATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (33 bp):
TATTAATAACTTTCTATTATTAAATAATATTCT
Found at i:6856899 original size:15 final size:16
Alignment explanation
Indices: 6856874--6856904 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6856864 GCAACAACTT
6856874 AGAGCGGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
6856890 AGAG-GGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
6856905 CTGCAGCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGCGGAGGCAGCAG
Found at i:6862447 original size:61 final size:60
Alignment explanation
Indices: 6862358--6862478 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 60
6862348 TAACGTTTTG
* * * *
6862358 ACATTCAAGCATGCAAATCTAACTATTTCCCCCTTTTAGGATTTCTTAAAATTTGTTTCCC
1 ACATTCAAGCATGCAAATCTAACTATTTCCCCCTCTTAGGA-TCCCTAAAATTTATTTCCC
* * *
6862419 ACATTCAAGGATGGAACTCTATAC-ATTTCCCCCTCTTAGGATCCCTAAAATTTATTTCCC
1 ACATTCAAGCATGCAAATCTA-ACTATTTCCCCCTCTTAGGATCCCTAAAATTTATTTCCC
6862479 CTATAAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 16 0.31
61 34 0.65
62 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (60 bp):
ACATTCAAGCATGCAAATCTAACTATTTCCCCCTCTTAGGATCCCTAAAATTTATTTCCC
Found at i:6865446 original size:17 final size:16
Alignment explanation
Indices: 6865413--6865444 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6865403 TCAAAAATAA
6865413 ATTTTCTAAAATATTT
1 ATTTTCTAAAATATTT
*
6865429 ATTTTTTAAAATATTT
1 ATTTTCTAAAATATTT
6865445 TAATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTCTAAAATATTT
Found at i:6870175 original size:39 final size:39
Alignment explanation
Indices: 6870089--6870242 Score: 231
Period size: 39 Copynumber: 3.9 Consensus size: 39
6870079 ATAAAGTATG
*
6870089 GTTTTAATTAATAATAAAAATAAAATAGTATGGGGGAAT-
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
6870128 GATTTTAATTAATAATGAAAACAAAATAGTAT-GGGGAATA
1 G-TTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
*
6870168 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
* *
6870207 GTTTTAATTAATAATAAAACAAAGTAGCATGGGGGA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGA
6870243 GTGGAATCAA
Statistics
Matches: 107, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
38 15 0.14
39 63 0.59
40 29 0.27
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
Found at i:6887012 original size:13 final size:13
Alignment explanation
Indices: 6886994--6887022 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6886984 GTTTCTTTCC
6886994 AGAGAGGTAGAAA
1 AGAGAGGTAGAAA
6887007 AGAGAGGTAGAAA
1 AGAGAGGTAGAAA
6887020 AGA
1 AGA
6887023 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (13 bp):
AGAGAGGTAGAAA
Found at i:6895304 original size:205 final size:205
Alignment explanation
Indices: 6894925--6895711 Score: 1328
Period size: 205 Copynumber: 3.8 Consensus size: 205
6894915 TAGGCCGCAG
* * *
6894925 CATAACAGATCTGGCCTTCAAATG-TTAT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTCGCCTTCAGATGATT-TCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
* * * * *
6894988 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCACGTGATTATGATG-GAGAAAAT
65 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAAT
* *
6895052 CTAAGATGATTTGTTGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
129 CTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
6895117 GGAGAGCAGACA
194 GGAGAGCAGACA
* *
6895129 CATAGCAGATCTCGCCTTCAGATGATTTTACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
6895194 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTAATTACGAGAAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* * *
6895259 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAATGAATCGAAGTTTTGCATCTTCACTTTGATAG
131 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
6895324 AGAGCAGACA
196 AGAGCAGACA
6895334 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
6895399 TTTACAAGGAACAAATCGAAGACATAGCTAATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* *
6895464 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCAAAGTTTGGCATCTTTACTTTGATGG
131 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
6895529 AGAGCAGACA
196 AGAGCAGACA
*
6895539 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAATATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
6895604 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGACTTTCACGTGATTACGAGAAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* *
6895669 AAGATGATTTGTCGTCTCTGTATCGTCAGGGAACAAATCGAAG
131 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
6895712 AAATAGATTT
Statistics
Matches: 550, Mismatches: 30, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
204 23 0.04
205 527 0.96
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (205 bp):
CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
AGAGCAGACA
Found at i:6897095 original size:39 final size:39
Alignment explanation
Indices: 6897009--6897161 Score: 254
Period size: 39 Copynumber: 3.9 Consensus size: 39
6896999 ATAAAGTATG
*
6897009 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
6897049 GTTTTAATTAATAATGAAAACAAAATAGTAT-GGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
*
6897088 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
*
6897127 GTTTTAATTAATAATAAAACAAAGTAGTATGGGGG
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGG
6897162 GAGTGGAATC
Statistics
Matches: 108, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
38 15 0.14
39 63 0.58
40 30 0.28
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
Found at i:6897692 original size:35 final size:35
Alignment explanation
Indices: 6897652--6897725 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
6897642 TTTTTTACAT
* *
6897652 TATTATGTATATACCATGTAAATATTTTAATATTA
1 TATTATGTATACACCATATAAATATTTTAATATTA
** * *
6897687 TATTATGTATACATTATATATATATTTTAATATTG
1 TATTATGTATACACCATATAAATATTTTAATATTA
6897722 TATT
1 TATT
6897726 TTTATTGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (35 bp):
TATTATGTATACACCATATAAATATTTTAATATTA
Found at i:6901670 original size:19 final size:19
Alignment explanation
Indices: 6901622--6901663 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
6901612 TATGAGTTTG
6901622 TGCA-CTCATGTGCCAGGA
1 TGCATCTCATGTGCCAGGA
6901640 TGCATCTCATGTGCCAGGA
1 TGCATCTCATGTGCCAGGA
6901659 TGCAT
1 TGCAT
6901664 TTTATGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (19 bp):
TGCATCTCATGTGCCAGGA
Found at i:6907727 original size:19 final size:19
Alignment explanation
Indices: 6907695--6907734 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6907685 AAATAATAAA
*
6907695 TATTATTTTAATAATATTT
1 TATTATTTTAATAAAATTT
6907714 TATT-TTTTATATAAAATTT
1 TATTATTTTA-ATAAAATTT
6907733 TA
1 TA
6907735 AAAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATTTTAATAAAATTT
Found at i:6908158 original size:14 final size:15
Alignment explanation
Indices: 6908111--6908158 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
6908101 GATTAATATT
*
6908111 AAAATAATTGAAATTA
1 AAAATAATTTAAA-TA
* *
6908127 AAAATAAATT-ACTA
1 AAAATAATTTAAATA
6908141 AAAATAATTTAAATA
1 AAAATAATTTAAATA
6908156 AAA
1 AAA
6908159 GTTAGATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 11 0.42
15 7 0.27
16 8 0.31
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAATAATTTAAATA
Found at i:6922076 original size:3 final size:3
Alignment explanation
Indices: 6922012--6922050 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6922002 AATGAAAATG
6922012 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6922051 TAACGTAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6922275 original size:25 final size:23
Alignment explanation
Indices: 6922243--6922329 Score: 72
Period size: 23 Copynumber: 3.7 Consensus size: 23
6922233 GAATAATGTG
6922243 ATAT-TAAAAATATATACATAAAA
1 ATATATAAAAATATATA-ATAAAA
* *
6922266 ATATAATAAATATATATAAT-ATA
1 ATAT-ATAAAAATATATAATAAAA
* *
6922289 ATATATACATAATATAGTATTAAAA
1 ATATATA-AAAATATA-TAATAAAA
*
6922314 ATATAT-ATAATATATA
1 ATATATAAAAATATATA
6922330 CACATTAGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
22 5 0.09
23 24 0.45
24 5 0.09
25 19 0.36
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (23 bp):
ATATATAAAAATATATAATAAAA
Found at i:6922291 original size:23 final size:23
Alignment explanation
Indices: 6922247--6922327 Score: 59
Period size: 25 Copynumber: 3.7 Consensus size: 23
6922237 AATGTGATAT
* *
6922247 TAAAAATATATACATAAAAATATAA
1 TAAATATATATA-AT-ATAATATAA
6922272 TAAATATATATAATATAATAT-A
1 TAAATATATATAATATAATATAA
* *
6922294 TACATA-ATAT-A-GT-AT-TAA
1 TAAATATATATAATATAATATAA
6922312 -AAATATATATAATATA
1 TAAATATATATAATATA
6922328 TACACATTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
17 5 0.11
18 7 0.16
19 2 0.04
20 2 0.04
21 4 0.09
22 6 0.13
23 6 0.13
24 2 0.04
25 11 0.24
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.36
Consensus pattern (23 bp):
TAAATATATATAATATAATATAA
Found at i:6922297 original size:37 final size:39
Alignment explanation
Indices: 6922251--6922327 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 39
6922241 TGATATTAAA
6922251 AATATATACATAA-A-AATA-TAATAAATATATATAATAT
1 AATATATACATAATATAATATTAA-AAATATATATAATAT
*
6922288 AATATATACATAATATAGTATTAAAAATATATATAATAT
1 AATATATACATAATATAATATTAAAAATATATATAATAT
6922327 A
1 A
6922328 TACACATTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
37 13 0.36
38 1 0.03
39 19 0.53
40 3 0.08
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (39 bp):
AATATATACATAATATAATATTAAAAATATATATAATAT
Found at i:6922303 original size:9 final size:8
Alignment explanation
Indices: 6922260--6922327 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 8
6922250 AAATATATAC
*
6922260 ATAAAAAT
1 ATAATAAT
6922268 ATAATAAAT
1 ATAAT-AAT
6922277 ATATATAAT
1 ATA-ATAAT
6922286 ATAAT-AT
1 ATAATAAT
6922293 ATACATAAT
1 ATA-ATAAT
*
6922302 ATAGT-AT
1 ATAATAAT
*
6922309 -TAAAAAT
1 ATAATAAT
6922316 ATATATAAT
1 ATA-ATAAT
6922325 ATA
1 ATA
6922328 TACACATTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
6 2 0.04
7 9 0.19
8 11 0.23
9 24 0.50
10 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (8 bp):
ATAATAAT
Found at i:6922401 original size:12 final size:12
Alignment explanation
Indices: 6922381--6922416 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6922371 AATAATACTT
*
6922381 CATAAATATATA
1 CATACATATATA
6922393 CATACATATATA
1 CATACATATATA
*
6922405 TATACATATATA
1 CATACATATATA
6922417 TGTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (12 bp):
CATACATATATA
Found at i:6922405 original size:16 final size:16
Alignment explanation
Indices: 6922381--6922417 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6922371 AATAATACTT
*
6922381 CATAAATATATACATA
1 CATATATATATACATA
6922397 CATATATATATACATA
1 CATATATATATACATA
*
6922413 TATAT
1 CATAT
6922418 GTTAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (16 bp):
CATATATATATACATA
Found at i:6922417 original size:12 final size:12
Alignment explanation
Indices: 6922386--6922417 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6922376 TACTTCATAA
*
6922386 ATATATACATAC
1 ATATATATATAC
6922398 ATATATATATAC
1 ATATATATATAC
6922410 ATATATAT
1 ATATATAT
6922418 GTTAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:6922590 original size:24 final size:24
Alignment explanation
Indices: 6922523--6922579 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
6922513 TAGTAATTAT
* * * *
6922523 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
6922547 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
6922571 AATAATAAT
1 AATAATAAT
6922580 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:6923331 original size:13 final size:13
Alignment explanation
Indices: 6923315--6923340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6923305 CATCCGCCGC
6923315 CGCCGGCCACCGT
1 CGCCGGCCACCGT
6923328 CGCCGGCCACCGT
1 CGCCGGCCACCGT
6923341 GGAAATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.54, G:0.31, T:0.08
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:6929248 original size:14 final size:14
Alignment explanation
Indices: 6929211--6929254 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6929201 ACGATAAAAA
*
6929211 AAATAAAACATAAT
1 AAATAAAATATAAT
6929225 AAATAAAATATAAT
1 AAATAAAATATAAT
* * *
6929239 AAGTATAATAAAAT
1 AAATAAAATATAAT
6929253 AA
1 AA
6929255 TATTTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (14 bp):
AAATAAAATATAAT
Found at i:6931030 original size:133 final size:133
Alignment explanation
Indices: 6930799--6931419 Score: 951
Period size: 133 Copynumber: 4.7 Consensus size: 133
6930789 GATCTGCTGT
* *
6930799 AATTTAATCTGCTTTACTCCTGCTCAGTA-AAGATAAGATCTAGTATGTTTAGCCTGCTCCACTC
1 AATTTGATCTGCTTCACTCCTGCTCAG-AGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTC
* ** * *
6930863 CTGCTCGGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCAATACATGGAGATAAGA-T
63 CTGCTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACT
*
6930927 TCACCAA
128 T-GCCAA
* * *
6930934 AATTTGATCTGCTCCGCTCCTGCTCAGAGAAGATAAGATTTAGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGAGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
6930999 CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
66 CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
6931064 CAA
131 CAA
* *
6931067 AATTTGATCTGCTTCACTCTTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGAGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* *
6931132 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATAGAGATAAGACTTGC
66 CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
6931197 CAA
131 CAA
* * * *
6931200 AATTTGATCTGCTTCACTCCTGCTCAGTGAAAATAAGATCTAGTATTTAGCCTACTCCACTCTTG
1 AATTTGATCTGCTTCACTCCTGCTCAGAGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* * *
6931265 CTCAATGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCTGATACATGGAGATAAGACTTGC
66 CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
6931330 CAA
131 CAA
* *
6931333 AATTTGATCTGCTTCACTCCTGCTCAGTA-AAGATAAGATCTAATATTTAGCCTACTCCACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAG-AGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCT
*
6931397 ACTCAGTGAAGATAAGGCTGATG
65 GCTCAGTGAAGATAAGGCTGATG
6931420 ATATCTGTAA
Statistics
Matches: 451, Mismatches: 32, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
133 410 0.91
134 3 0.01
135 38 0.08
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
AATTTGATCTGCTTCACTCCTGCTCAGAGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
CAA
Found at i:6932678 original size:24 final size:24
Alignment explanation
Indices: 6932651--6932705 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
6932641 TCGCCTTGGC
*
6932651 CTCTCCTTTGCTTTTCTTTTCTTT
1 CTCTCCTTTGCTTTTCTCTTCTTT
** *
6932675 CTCTTTTTTGTTTTTCTCTTCTTT
1 CTCTCCTTTGCTTTTCTCTTCTTT
6932699 -T-TCCTTT
1 CTCTCCTTT
6932706 TCCTTTTTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 4 0.16
23 1 0.04
24 20 0.80
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.71
Consensus pattern (24 bp):
CTCTCCTTTGCTTTTCTCTTCTTT
Found at i:6932731 original size:38 final size:38
Alignment explanation
Indices: 6932685--6932834 Score: 207
Period size: 38 Copynumber: 3.9 Consensus size: 38
6932675 CTCTTTTTTG
6932685 TTTTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTTTCC
1 TTTTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTTTCC
*
6932723 TTTTTCTCTTCTTTTTCCTTTTCTTTTTTTCTCTTTCC
1 TTTTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTTTCC
*
6932761 TTTTTCTCTTCTTTTTCCTTTTCTTTTTTTCTCTTAT--
1 TTTTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTT-TCC
* * *
6932798 TTTTCCTTTTCCTTTTTTCTCTTTCC-TTTTTCTCTTT
1 TTTTTCTCTT-CTTTTTCCT-TTTCCTTTTTTCTCTTT
6932835 TTTTTTGAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
37 9 0.09
38 90 0.87
39 5 0.05
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.73
Consensus pattern (38 bp):
TTTTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTTTCC
Found at i:6932775 original size:63 final size:63
Alignment explanation
Indices: 6932662--6932840 Score: 215
Period size: 63 Copynumber: 2.9 Consensus size: 63
6932652 TCTCCTTTGC
* * *
6932662 TTTTCTTTTCTTTCT-CTTTT-TTGTTTTTCTC-TT-CTTTTTCCTTTTCCTTTTTTCTCTTTC-
1 TTTTCTCTTCTTTTTCCTTTTCTT-TTTTTCTCTTTCCTTTTT-CTCTT-CTTTTTTCT-TTTCT
6932722 CT
62 CT
* *
6932724 TTTTCTCTTCTTTTTCCTTTTCTTTTTTTCTCTTTCCTTTTTCTCTTCTTTTTCCTTTTCTTT
1 TTTTCTCTTCTTTTTCCTTTTCTTTTTTTCTCTTTCCTTTTTCTCTTCTTTTTTCTTTTCTCT
* * *
6932787 TTTTCTCTTATTTTTCCTTTTCCTTTTTTCTCTTTCCTTTTTCTCTTTTTTTTT
1 TTTTCTCTTCTTTTTCCTTTTCTTTTTTTCTCTTTCCTTTTTCTCTTCTTTTTT
6932841 GAAAGTGAAG
Statistics
Matches: 103, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
62 17 0.17
63 72 0.70
64 8 0.08
65 6 0.06
ACGTcount: A:0.01, C:0.24, G:0.01, T:0.75
Consensus pattern (63 bp):
TTTTCTCTTCTTTTTCCTTTTCTTTTTTTCTCTTTCCTTTTTCTCTTCTTTTTTCTTTTCTCT
Found at i:6943376 original size:13 final size:14
Alignment explanation
Indices: 6943360--6943395 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
6943350 CAATCTTATA
6943360 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
6943373 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
6943386 TCTC-ATTTCA
1 TCTCAATTTCA
6943396 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:6943577 original size:21 final size:21
Alignment explanation
Indices: 6943551--6943635 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
6943541 TTATCAGTAT
*
6943551 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
6943572 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
6943593 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
6943615 TACGACACATAAAGTGCCTAA
1 -ACGACACACAAAGTGCCTAA
6943636 TCGGTAAAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 34 0.65
22 3 0.06
23 15 0.29
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:6943601 original size:23 final size:22
Alignment explanation
Indices: 6943549--6943623 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
6943539 CCTTATCAGT
** *
6943549 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
6943570 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
6943591 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
6943614 ATACGACACA
1 ATACGACACA
6943624 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:6943944 original size:15 final size:15
Alignment explanation
Indices: 6943919--6943972 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
6943909 TCATATATAT
6943919 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
6943935 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
6943950 AATAATTTCAATCAA
1 TATAAATTCAATCAA
6943965 TATAAATT
1 TATAAATT
6943973 TAATAAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 30 0.88
16 4 0.12
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:6943961 original size:30 final size:28
Alignment explanation
Indices: 6943922--6943980 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
6943912 TATATATTAT
6943922 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
*
6943951 ATAATTTCAATCAATATAAATTTAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
6943980 A
1 A
6943981 CATATATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:6948919 original size:10 final size:10
Alignment explanation
Indices: 6948862--6948919 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 10
6948852 CTTAATTTTG
6948862 TATAAAAAT-
1 TATAAAAATA
6948871 TATAAAAA-A
1 TATAAAAATA
*
6948880 T-TAAAATTA
1 TATAAAAATA
*
6948889 TTTATAAAATA
1 TATA-AAAATA
*
6948900 GATAAAAAATA
1 TAT-AAAAATA
6948911 TATAAAAAT
1 TATAAAAAT
6948920 TGTAGAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
8 5 0.13
9 11 0.28
10 8 0.21
11 14 0.36
12 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
TATAAAAATA
Found at i:6949520 original size:28 final size:28
Alignment explanation
Indices: 6949463--6949520 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 28
6949453 TTATCCCTCA
*
6949463 TTTTATTTATTTTTGAAATGTTTATCTAT
1 TTTTATTTATTTTT-AAATGTTTATATAT
6949492 TTTTATTTAATTTTT-AAT-TTTATAATAT
1 TTTTATTT-ATTTTTAAATGTTTAT-ATAT
6949520 T
1 T
6949521 CTCAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 5 0.19
28 7 0.27
29 8 0.31
30 6 0.23
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTATTTATTTTTAAATGTTTATATAT
Found at i:6957696 original size:12 final size:12
Alignment explanation
Indices: 6957673--6957703 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
6957663 ATATAATACA
6957673 TATAACAATTAAT
1 TATAA-AATTAAT
6957686 TATAAAATTAAT
1 TATAAAATTAAT
6957698 TATAAA
1 TATAAA
6957704 CTTATTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
TATAAAATTAAT
Found at i:6964858 original size:17 final size:18
Alignment explanation
Indices: 6964828--6964861 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6964818 ATGTGGCCTA
6964828 CCCGTGTGGGCCCACACG
1 CCCGTGTGGGCCCACACG
6964846 CCCGTGT-GGCCCACAC
1 CCCGTGTGGGCCCACAC
6964862 ATCCTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.12, C:0.47, G:0.29, T:0.12
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACG
Found at i:6975312 original size:136 final size:135
Alignment explanation
Indices: 6975135--6975404 Score: 486
Period size: 136 Copynumber: 2.0 Consensus size: 135
6975125 CTGTTATAGC
*
6975135 AGCTAGCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGGTTTCATCTAGTGATTATCA
1 AGCTAGCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGATTTCATCTAGTGATTATCA
*
6975200 ACAGTTTTAGATTTTAAGACAGGATGATCAGTAGACATAATCTACTATAGATACAAATTAATACG
66 ACAGTTTTAGATTTTAAGACAGGATGATCAGCAGACATAATCTACTATAGATACAAATTAATACG
6975265 AAAAG
131 AAAAG
*
6975270 AGCTATGCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGATTTCCTCTAGTGATTATC
1 AGCTA-GCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGATTTCATCTAGTGATTATC
* *
6975335 AACAGTTTTAGGTTTTAAGACAGGATGATCAGCAGACATAATCTACTATAGATGCAAATTAATAC
65 AACAGTTTTAGATTTTAAGACAGGATGATCAGCAGACATAATCTACTATAGATACAAATTAATAC
6975400 GAAAA
130 GAAAA
6975405 AATCCACCCA
Statistics
Matches: 129, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
135 5 0.04
136 124 0.96
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (135 bp):
AGCTAGCTTTGTAAGATAGTCAAGGTAATAAGATCTGAAGCAATGATTTCATCTAGTGATTATCA
ACAGTTTTAGATTTTAAGACAGGATGATCAGCAGACATAATCTACTATAGATACAAATTAATACG
AAAAG
Found at i:6982841 original size:16 final size:16
Alignment explanation
Indices: 6982820--6982853 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6982810 ATCTTCACTT
6982820 AGCTATAAATGCTCAA
1 AGCTATAAATGCTCAA
6982836 AGCTATAAATGCTCAA
1 AGCTATAAATGCTCAA
6982852 AG
1 AG
6982854 GTATCAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (16 bp):
AGCTATAAATGCTCAA
Found at i:6985397 original size:11 final size:11
Alignment explanation
Indices: 6985381--6985408 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6985371 TGCATTTAGT
6985381 TTTATTCTTAA
1 TTTATTCTTAA
6985392 TTTATTCTTAA
1 TTTATTCTTAA
6985403 TTTATT
1 TTTATT
6985409 ATTGATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTCTTAA
Found at i:6986272 original size:40 final size:40
Alignment explanation
Indices: 6986194--6986272 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
6986184 GTACTCGTAG
* * * *
6986194 ACGGCCGTGTGATCGATGAAGGCTAGGCCGTACGCAGGAC
1 ACGGCCGTGTGATCGATGAAGGCAAAGCCATACACAGGAC
* *
6986234 ACGGCCGTGTGATCGATGAAGGCAAAGCTATGCACAGGA
1 ACGGCCGTGTGATCGATGAAGGCAAAGCCATACACAGGA
6986273 TACAGCCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.35, T:0.15
Consensus pattern (40 bp):
ACGGCCGTGTGATCGATGAAGGCAAAGCCATACACAGGAC
Found at i:6988350 original size:19 final size:19
Alignment explanation
Indices: 6988326--6988378 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
6988316 CACTTATGCA
6988326 CCAGAATGCACTTTGTGTT
1 CCAGAATGCACTTTGTGTT
* *
6988345 CCAGAATGCATTTTATGTT
1 CCAGAATGCACTTTGTGTT
** *
6988364 CTGGTATGCACTTTG
1 CCAGAATGCACTTTG
6988379 AGCATCAAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (19 bp):
CCAGAATGCACTTTGTGTT
Found at i:6990649 original size:18 final size:18
Alignment explanation
Indices: 6990626--6990661 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6990616 TTGAAATCTG
6990626 ATACTGTTGAACATTTTA
1 ATACTGTTGAACATTTTA
6990644 ATACTGTTGAACATTTTA
1 ATACTGTTGAACATTTTA
6990662 GCTCTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (18 bp):
ATACTGTTGAACATTTTA
Found at i:6994907 original size:36 final size:36
Alignment explanation
Indices: 6994858--6994929 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
6994848 CATATTATAG
* *
6994858 AACTTGTAGTATAAATCCATTTTAC-TTTATAAAATA
1 AACTTGTACTATAAATACATTTT-CGTTTATAAAATA
* * *
6994894 AACTTTTACTATAATTATATTTTCGTTTATAAAATA
1 AACTTGTACTATAAATACATTTTCGTTTATAAAATA
6994930 TCATTTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (36 bp):
AACTTGTACTATAAATACATTTTCGTTTATAAAATA
Found at i:7004476 original size:32 final size:32
Alignment explanation
Indices: 7004435--7004498 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
7004425 TGGCATTAAA
7004435 ATTCGAATCATAATGCGTAGAATCAGAGTAAT
1 ATTCGAATCATAATGCGTAGAATCAGAGTAAT
7004467 ATTCGAATCATAATGCGTAGAATCAGAGTAAT
1 ATTCGAATCATAATGCGTAGAATCAGAGTAAT
7004499 CCGAAGCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (32 bp):
ATTCGAATCATAATGCGTAGAATCAGAGTAAT
Found at i:7014492 original size:9 final size:8
Alignment explanation
Indices: 7014474--7014511 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
7014464 GATATGACAC
*
7014474 AAAATAAA
1 AAAATTAA
7014482 AAAATTAA
1 AAAATTAA
7014490 AAAATTAA
1 AAAATTAA
7014498 AAAATTAA
1 AAAATTAA
7014506 AAAATT
1 AAAATT
7014512 GAAGTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATTAA
Found at i:7015087 original size:7 final size:7
Alignment explanation
Indices: 7015077--7015115 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
7015067 ATCACATTCT
7015077 TCATTGA
1 TCATTGA
7015084 TCATTGA
1 TCATTGA
7015091 TCATTGA
1 TCATTGA
7015098 TCATTGA
1 TCATTGA
*
7015105 TCCTTG-
1 TCATTGA
7015111 TCATT
1 TCATT
7015116 TGTTTTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (7 bp):
TCATTGA
Found at i:7015095 original size:21 final size:20
Alignment explanation
Indices: 7015071--7015115 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
7015061 TAAAACATCA
*
7015071 CATTCTTCATTGATCATTGAT
1 CATTCATCATTGATCATTG-T
* *
7015092 CATTGATCATTGATCCTTGT
1 CATTCATCATTGATCATTGT
7015112 CATT
1 CATT
7015116 TGTTTTTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (20 bp):
CATTCATCATTGATCATTGT
Found at i:7018022 original size:13 final size:13
Alignment explanation
Indices: 7018004--7018030 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7017994 ATTTACATCA
7018004 AAGTATACGAATC
1 AAGTATACGAATC
7018017 AAGTATACGAATC
1 AAGTATACGAATC
7018030 A
1 A
7018031 CGCATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AAGTATACGAATC
Found at i:7030398 original size:6 final size:6
Alignment explanation
Indices: 7030387--7030433 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
7030377 TGGAGATAGA
* * * *
7030387 ATCTGT ATCTGT ATCTGT ATCTGC ATATGT ATCTAT AACTG- ATCTGT
1 ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
7030434 CTGCCACATT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (6 bp):
ATCTGT
Found at i:7033859 original size:18 final size:18
Alignment explanation
Indices: 7033836--7033871 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7033826 ATGCAATTTG
7033836 ACTCTTAATACATGAGCT
1 ACTCTTAATACATGAGCT
7033854 ACTCTTAATACATGAGCT
1 ACTCTTAATACATGAGCT
7033872 TCTATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
ACTCTTAATACATGAGCT
Found at i:7034650 original size:15 final size:16
Alignment explanation
Indices: 7034630--7034663 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7034620 AATTGGTTTA
7034630 AAAAATT-ATTTAATT
1 AAAAATTAATTTAATT
*
7034645 AAAAATTAATTTATTT
1 AAAAATTAATTTAATT
7034661 AAA
1 AAA
7034664 TGAATTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAAATTAATTTAATT
Found at i:7036412 original size:20 final size:19
Alignment explanation
Indices: 7036383--7036422 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
7036373 AATAGTGATG
*
7036383 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
7036402 AATTATATTTTCTAAGAATA
1 AATT-TATTTTCTAAGAATA
7036422 A
1 A
7036423 CAATTCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:7038061 original size:18 final size:16
Alignment explanation
Indices: 7038030--7038065 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
7038020 GCAAATTAAT
7038030 AAAAAAAGAAGAAAGA
1 AAAAAAAGAAGAAAGA
7038046 AAAATAAAGAAAGAAAGA
1 AAAA-AAAG-AAGAAAGA
7038064 AA
1 AA
7038066 GGTGACCGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAAAAAGAAGAAAGA
Found at i:7038373 original size:20 final size:20
Alignment explanation
Indices: 7038345--7038418 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
7038335 AATCGTGAAA
7038345 AATTCAAAATTTAGGGGTAT
1 AATTCAAAATTTAGGGGTAT
*
7038365 AATT-AAAA-ATAGGGAGTCAAATT
1 AATTCAAAATTTAGGG-GT---A-T
7038388 AAATTCAAAATTTAGGGGTAT
1 -AATTCAAAATTTAGGGGTAT
*
7038409 AATTGAAAAT
1 AATTCAAAAT
7038419 AGGGAGTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
18 5 0.12
19 6 0.14
20 13 0.30
21 1 0.02
22 2 0.05
23 1 0.02
24 4 0.09
25 6 0.14
26 5 0.12
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (20 bp):
AATTCAAAATTTAGGGGTAT
Found at i:7038395 original size:44 final size:44
Alignment explanation
Indices: 7038344--7038431 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
7038334 AAATCGTGAA
7038344 AAATTCAAAATTTAGGGGTATAATTAAAAATAGGGAGTCAAATT
1 AAATTCAAAATTTAGGGGTATAATTAAAAATAGGGAGTCAAATT
* *
7038388 AAATTCAAAATTTAGGGGTATAATTGAAAATAGGGAGTTAAATT
1 AAATTCAAAATTTAGGGGTATAATTAAAAATAGGGAGTCAAATT
7038432 TAGTTTCAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (44 bp):
AAATTCAAAATTTAGGGGTATAATTAAAAATAGGGAGTCAAATT
Found at i:7044876 original size:25 final size:25
Alignment explanation
Indices: 7044843--7044890 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7044833 TTATAATATG
* * *
7044843 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
7044868 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
7044891 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:7044952 original size:20 final size:20
Alignment explanation
Indices: 7044927--7044977 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
7044917 ATTTTGATAA
7044927 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
7044947 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
7044967 ACATGAGATGT
1 ACATGATATGT
7044978 TCATAAATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:7045054 original size:24 final size:24
Alignment explanation
Indices: 7045022--7045127 Score: 169
Period size: 24 Copynumber: 4.4 Consensus size: 24
7045012 GGAGGAAGTG
7045022 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
7045046 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
* *
7045070 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
*
7045094 CAAAAGGGC-TTTGCCCCAGTTAT
1 TAAAAGGGCTTTTGCCCCAGTTAT
7045117 TAAAAGAGGCT
1 TAAAAG-GGCT
7045128 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
23 18 0.24
24 58 0.76
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTTTGCCCCAGTTAT
Found at i:7045112 original size:23 final size:23
Alignment explanation
Indices: 7045023--7045141 Score: 157
Period size: 24 Copynumber: 5.0 Consensus size: 23
7045013 GAGGAAGTGT
*
7045023 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGC-TTTGCCCCAGTTATC
7045047 AAAAGGGCTTTTGCCCCAGTTATC
1 AAAAGGGC-TTTGCCCCAGTTATC
7045071 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTT-TGCCCCAGTTATC
*
7045095 AAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTTGCCCCAGTTATC
**
7045118 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
7045142 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
23 19 0.22
24 61 0.69
25 8 0.09
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:7045372 original size:31 final size:31
Alignment explanation
Indices: 7045334--7045397 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
7045324 CGTTTACAGT
7045334 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
7045365 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
7045396 AA
1 AA
7045398 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:7060807 original size:30 final size:29
Alignment explanation
Indices: 7060762--7060820 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
7060752 ATTTAATACG
*
7060762 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTT-CCCCTA
* *
7060792 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTCCCCTA
7060821 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (29 bp):
AACTTTGGCAAAATTACACTTTTCCCCTA
Found at i:7065250 original size:44 final size:44
Alignment explanation
Indices: 7065187--7065271 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
7065177 CTCTTCGGGA
*
7065187 AGTCTCTAATAAAATGATCCATAGAACCACACCGAAAACATGGC
1 AGTCTCTAATAAAATGATCCAGAGAACCACACCGAAAACATGGC
7065231 AGTCTCTAATAAAATGATCCAGAGAACCACACCGAAAACAT
1 AGTCTCTAATAAAATGATCCAGAGAACCACACCGAAAACAT
7065272 TCATTCGCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.45, C:0.25, G:0.13, T:0.18
Consensus pattern (44 bp):
AGTCTCTAATAAAATGATCCAGAGAACCACACCGAAAACATGGC
Found at i:7066099 original size:21 final size:21
Alignment explanation
Indices: 7066075--7066115 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7066065 TCATCAGATC
*
7066075 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
7066096 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
7066116 AAGGTGGGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:7068360 original size:30 final size:30
Alignment explanation
Indices: 7068315--7068374 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
7068305 ATTTAATACG
7068315 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
7068345 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
7068375 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Done.