Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 73 of 311
Found at i:22749692 original size:23 final size:23
Alignment explanation
Indices: 22749649--22749697 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
22749639 AATTTAGCCC
* *
22749649 TATATATTTATTTTTATTATTAT
1 TATATATATATTTATATTATTAT
*
22749672 TATATATATATTTCATA-TATTGT
1 TATATATATATTT-ATATTATTAT
22749695 TAT
1 TAT
22749698 TTGTTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TATATATATATTTATATTATTAT
Found at i:22749755 original size:23 final size:21
Alignment explanation
Indices: 22749725--22749780 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
22749715 CTTGCTTTTA
22749725 TATTATATATTGTAAGATTATTT
1 TATTATATATT-TAAGATTA-TT
*
22749748 TATTATATATATTAATATTATT
1 TATTATATAT-TTAAGATTATT
*
22749770 TATTATCTATT
1 TATTATATATT
22749781 ATTTTTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 17 0.57
24 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTATATATTTAAGATTATT
Found at i:22749775 original size:25 final size:25
Alignment explanation
Indices: 22749721--22749783 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 25
22749711 TAACCTTGCT
22749721 TTTA-TATTATATATTGTAAGATTA
1 TTTATTATTATATATTGTAAGATTA
*
22749745 -TT-TTATTATATATAT-TAATATTA
1 TTTATTATTATATAT-TGTAAGATTA
22749768 TTTATTATCTAT-TATT
1 TTTATTAT-TATATATT
22749784 TTTCACAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
23 19 0.58
24 4 0.12
25 7 0.21
26 3 0.09
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTATTATTATATATTGTAAGATTA
Found at i:22749816 original size:16 final size:16
Alignment explanation
Indices: 22749795--22749834 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
22749785 TTCACAAATT
22749795 ATTATTATTTTACATC
1 ATTATTATTTTACATC
* * *
22749811 ATTATTTTTTTATATT
1 ATTATTATTTTACATC
22749827 ATTATTAT
1 ATTATTAT
22749835 ATTTTTACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATTATTTTACATC
Found at i:22750534 original size:33 final size:33
Alignment explanation
Indices: 22750489--22750563 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
22750479 TTGATATTGT
22750489 ATTACT-CTTTTTTGTATATCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
*
22750521 ATTATTACTTTTTTGTATATCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
22750554 ATTACTACTT
1 ATTACTACTT
22750564 CATATGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 5 0.12
33 35 0.88
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (33 bp):
ATTACTACTTTTTTGTATATCATGCATTATTTA
Found at i:22754613 original size:13 final size:14
Alignment explanation
Indices: 22754595--22754660 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
22754585 TAATATAAAT
22754595 AAAAATTAAAT-TA
1 AAAAATTAAATGTA
*
22754608 AAAAATTAGAATGTG
1 AAAAATTA-AATGTA
**
22754623 TCAAATTATAATGT-
1 AAAAATTA-AATGTA
*
22754637 AAAAATTAAATTTA
1 AAAAATTAAATGTA
*
22754651 AAAAAATAAA
1 AAAAATTAAA
22754661 AATAGCTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
13 12 0.29
14 18 0.43
15 12 0.29
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (14 bp):
AAAAATTAAATGTA
Found at i:22757358 original size:14 final size:13
Alignment explanation
Indices: 22757333--22757357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22757323 CAGATTTCCT
22757333 GAAAATTTTTTTC
1 GAAAATTTTTTTC
22757346 GAAAATTTTTTT
1 GAAAATTTTTTT
22757358 TTTACATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
GAAAATTTTTTTC
Found at i:22757425 original size:36 final size:36
Alignment explanation
Indices: 22757356--22757425 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
22757346 GAAAATTTTT
*
22757356 TTTTTACATATATTAATAAATTTATATTTTAAATTG
1 TTTTTACATATATTAATAAATTTATATTATAAATTG
22757392 TTTTTACATATATTGCAAT-AATTTAT-TTATAAAT
1 TTTTTACATATATT--AATAAATTTATATTATAAAT
22757426 AAATAAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 21 0.68
37 7 0.23
38 3 0.10
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (36 bp):
TTTTTACATATATTAATAAATTTATATTATAAATTG
Found at i:22758718 original size:32 final size:31
Alignment explanation
Indices: 22758633--22758725 Score: 87
Period size: 32 Copynumber: 2.9 Consensus size: 31
22758623 TTGTCATTGT
* *
22758633 CAATCATTTCAATATCCAACAACCTTAAAACA
1 CAATAATTTCAATATCCAACAA-ATTAAAACA
* * ** *
22758665 TAATAAATTCAATATGTAACAAATTCAAGACA
1 CAATAATTTCAATATCCAACAAATT-AAAACA
* *
22758697 CAATAATTTCAAAATCCAACAAACTAAAA
1 CAATAATTTCAATATCCAACAAATTAAAA
22758726 TTTCAATATC
Statistics
Matches: 46, Mismatches: 14, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
31 5 0.11
32 41 0.89
ACGTcount: A:0.53, C:0.20, G:0.02, T:0.25
Consensus pattern (31 bp):
CAATAATTTCAATATCCAACAAATTAAAACA
Found at i:22760170 original size:12 final size:12
Alignment explanation
Indices: 22760153--22760178 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22760143 ATGAAAGTTT
22760153 CTCAAGCAATGA
1 CTCAAGCAATGA
22760165 CTCAAGCAATGA
1 CTCAAGCAATGA
22760177 CT
1 CT
22760179 AAAGTTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.19
Consensus pattern (12 bp):
CTCAAGCAATGA
Found at i:22762862 original size:24 final size:24
Alignment explanation
Indices: 22762834--22762879 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
22762824 TTAGAAAGAG
22762834 AGATTTGCATTTGCCTGAGAAATT
1 AGATTTGCATTTGCCTGAGAAATT
*
22762858 AGATTTGCCTTTGCCTGAGAAA
1 AGATTTGCATTTGCCTGAGAAA
22762880 GAGAGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (24 bp):
AGATTTGCATTTGCCTGAGAAATT
Found at i:22773708 original size:31 final size:31
Alignment explanation
Indices: 22773665--22773728 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22773655 CCTTTTCATA
22773665 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
22773696 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
22773727 TT
1 TT
22773729 ACTGTAAACG
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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:22773997 original size:23 final size:24
Alignment explanation
Indices: 22773921--22774040 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
22773911 GCTTTATCAT
*
22773921 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
22773946 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
22773971 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22773994 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
22774018 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
22774041 GTAGTTCCTT
Statistics
Matches: 89, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
23 24 0.27
24 34 0.38
25 25 0.28
26 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:22774028 original size:47 final size:47
Alignment explanation
Indices: 22773942--22774039 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
22773932 CCTAGCCTCT
22773942 TTTAATAACTGGGGCAAAGCCCTTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCC-TTTTTAATAACTGGGGCATAAGCCC
22773990 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
22774037 TTT
1 TTT
22774040 TGTAGTTCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 27 0.55
48 16 0.33
49 6 0.12
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
Found at i:22774112 original size:9 final size:9
Alignment explanation
Indices: 22774098--22774154 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22774088 ATCTCGTGTG
22774098 CATATCATA
1 CATATCATA
*
22774107 CATATCATGTG
1 CATATCA--TA
22774118 CATATCATA
1 CATATCATA
* *
22774127 CATGTCATGTG
1 CATATCA--TA
22774138 CATATCATA
1 CATATCATA
22774147 CATATCAT
1 CATATCAT
22774155 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:22774117 original size:20 final size:20
Alignment explanation
Indices: 22774094--22774156 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
22774084 GAACATCTCG
22774094 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
22774114 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
22774134 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
22774154 TGT
1 TGT
22774157 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:22774221 original size:25 final size:25
Alignment explanation
Indices: 22774193--22774240 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22774183 ATATATAAAC
* * *
22774193 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22774218 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22774241 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22784029 original size:20 final size:20
Alignment explanation
Indices: 22783997--22784035 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22783987 TATCACTTAT
22783997 CTCATGAAGTCAGACCACAA
1 CTCATGAAGTCAGACCACAA
*
22784017 CTCAT-AAGTTCAGATCACA
1 CTCATGAAG-TCAGACCACA
22784036 TTGTTTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (20 bp):
CTCATGAAGTCAGACCACAA
Found at i:22787011 original size:22 final size:22
Alignment explanation
Indices: 22786986--22787027 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
22786976 TTAGCATAGC
22786986 TTGTAGACTCTCTTTAATAAGT
1 TTGTAGACTCTCTTTAATAAGT
22787008 TTGTAGACTCTCTTTAATAA
1 TTGTAGACTCTCTTTAATAA
22787028 CTTTCTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (22 bp):
TTGTAGACTCTCTTTAATAAGT
Found at i:22791521 original size:20 final size:21
Alignment explanation
Indices: 22791474--22791521 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
22791464 AAAATTTACC
*
22791474 AATATAATTTCATGTATTAAA
1 AATATATTTTCATGTATTAAA
22791495 AAT-TATTTTCAT-T-TTATAA
1 AATATATTTTCATGTATTA-AA
22791514 AATATATT
1 AATATATT
22791522 ACTATATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 6 0.25
20 12 0.50
21 3 0.12
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (21 bp):
AATATATTTTCATGTATTAAA
Found at i:22795512 original size:15 final size:15
Alignment explanation
Indices: 22795492--22795521 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22795482 CTCCCCCCCC
22795492 CCCAAAAAAAAAAAG
1 CCCAAAAAAAAAAAG
*
22795507 CCCAAAAATAAAAAG
1 CCCAAAAAAAAAAAG
22795522 AAACAAAAAA
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:0.70, C:0.20, G:0.07, T:0.03
Consensus pattern (15 bp):
CCCAAAAAAAAAAAG
Found at i:22799015 original size:5 final size:5
Alignment explanation
Indices: 22799005--22799030 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22798995 TTAGCGCTCA
22799005 CTGAC CTGAC CTGAC CTGAC CTGAC C
1 CTGAC CTGAC CTGAC CTGAC CTGAC C
22799031 AATCCAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (5 bp):
CTGAC
Found at i:22799930 original size:31 final size:30
Alignment explanation
Indices: 22799895--22799954 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
22799885 GTGAAATTTA
*
22799895 ATTA-TTTTATTAAAATAATATTTTAATTAAG
1 ATTATTTTTATT-AAATAA-ATTATAATTAAG
*
22799926 ATTATTTTTATTTAATAAATTATAATTAA
1 ATTATTTTTATTAAATAAATTATAATTAA
22799955 TAGCCTTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 10 0.38
31 9 0.35
32 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTATTTTTATTAAATAAATTATAATTAAG
Found at i:22801343 original size:30 final size:31
Alignment explanation
Indices: 22801274--22801343 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
22801264 TTGGTAAAAC
*
22801274 GCCGCT-AAAAACAGAGCAATAGCGGCATTT
1 GCCGCTAAAAAACAGAGCAATAGCGGCACTT
* * *
22801304 GCTGCTAAAAAACAGAGCATTAGCGGCGCTT
1 GCCGCTAAAAAACAGAGCAATAGCGGCACTT
*
22801335 -CCGGTAAAA
1 GCCGCTAAAA
22801344 CACCGCTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 12 0.36
31 21 0.64
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (31 bp):
GCCGCTAAAAAACAGAGCAATAGCGGCACTT
Found at i:22801352 original size:41 final size:41
Alignment explanation
Indices: 22801307--22801395 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
22801297 GGCATTTGCT
*
22801307 GCTAAAAAACAGAGCATTAGCGGCGCTTCCGGTAAAACACC
1 GCTAAAAAACAGAGCATTAGCGGCACTTCCGGTAAAACACC
* * *
22801348 GCTAAAAACCAGAGCATTAGCGGCACTTTCGGTAAAACGCC
1 GCTAAAAAACAGAGCATTAGCGGCACTTCCGGTAAAACACC
22801389 GCTAAAA
1 GCTAAAA
22801396 TTCATATAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (41 bp):
GCTAAAAAACAGAGCATTAGCGGCACTTCCGGTAAAACACC
Found at i:22801480 original size:21 final size:21
Alignment explanation
Indices: 22801435--22801474 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
22801425 CAAAAAATAA
22801435 TAAACACTAATA-TATAACCCC
1 TAAACACTAA-ACTATAACCCC
22801456 TAAACACTAAACTATAACC
1 TAAACACTAAACTATAACC
22801475 TTTAAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACACTAAACTATAACCCC
Found at i:22802216 original size:7 final size:7
Alignment explanation
Indices: 22802204--22802228 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22802194 ACTATAATTA
22802204 AGGGTTT
1 AGGGTTT
22802211 AGGGTTT
1 AGGGTTT
22802218 AGGGTTT
1 AGGGTTT
22802225 AGGG
1 AGGG
22802229 ATTATAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (7 bp):
AGGGTTT
Found at i:22808425 original size:42 final size:41
Alignment explanation
Indices: 22808373--22808580 Score: 193
Period size: 42 Copynumber: 4.9 Consensus size: 41
22808363 TTTAGTGGCG
* *
22808373 TTTTTGGGGAAAGCGTCGCTAAAGATCATGTCTTTAGTGGTGA
1 TTTTT-GGGAAAGCGTCGCTAAAGGTCATGTCTTTAGCGG-GA
* * *
22808416 TTTTTGGGAAAACGTCGCTAAAGGTCATGTTTTTAGCGGCA
1 TTTTTGGGAAAGCGTCGCTAAAGGTCATGTCTTTAGCGGGA
* * * *
22808457 TTTTTGGGGATAGCGTTGCTAAAGGTTATGATCTTTAGCGGTGT
1 TTTTT-GGGAAAGCGTCGCTAAAGGTCATG-TCTTTAGCGG-GA
* * *
22808501 TTTTTGGGAAAGCG-CAGCTAAAGGTCATGACTTTTAGAGGCA
1 TTTTTGGGAAAGCGTC-GCTAAAGGTCATGTC-TTTAGCGGGA
* * * *
22808543 TTTTTGGGAAAGTGCCGCTAAAAGTCATGACCTTTAGC
1 TTTTTGGGAAAGCGTCGCTAAAGGTCATG-TCTTTAGC
22808581 AGCATTATCT
Statistics
Matches: 135, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
41 6 0.04
42 81 0.60
43 43 0.32
44 5 0.04
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.34
Consensus pattern (41 bp):
TTTTTGGGAAAGCGTCGCTAAAGGTCATGTCTTTAGCGGGA
Found at i:22808563 original size:85 final size:85
Alignment explanation
Indices: 22808363--22808580 Score: 262
Period size: 85 Copynumber: 2.6 Consensus size: 85
22808353 ATATATGGTA
* * * *
22808363 TTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGATCATG-TCTTTAGTGGTGATTTTTGGGAAA
1 TTTAGAGGCATTTTTGGGGAAAGCGTCGCTAAAGGTCATGATCTTTAGCGGTGATTTTTGGGAAA
*
22808427 ACGTCGCTAAAGGTCATGTT
66 ACGTCGCTAAAGGTCATGCT
* * * * *
22808447 TTTAGCGGCATTTTTGGGGATAGCGTTGCTAAAGGTTATGATCTTTAGCGGTGTTTTTTGGGAAA
1 TTTAGAGGCATTTTTGGGGAAAGCGTCGCTAAAGGTCATGATCTTTAGCGGTGATTTTTGGGAAA
*
22808512 GCG-CAGCTAAAGGTCATGACT
66 ACGTC-GCTAAAGGTCATG-CT
* * * *
22808533 TTTAGAGGCATTTTT-GGGAAAGTGCCGCTAAAAGTCATGACCTTTAGC
1 TTTAGAGGCATTTTTGGGGAAAGCGTCGCTAAAGGTCATGATCTTTAGC
22808581 AGCATTATCT
Statistics
Matches: 113, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
84 35 0.31
85 63 0.56
86 15 0.13
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.34
Consensus pattern (85 bp):
TTTAGAGGCATTTTTGGGGAAAGCGTCGCTAAAGGTCATGATCTTTAGCGGTGATTTTTGGGAAA
ACGTCGCTAAAGGTCATGCT
Found at i:22808624 original size:35 final size:35
Alignment explanation
Indices: 22808575--22808643 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
22808565 AGTCATGACC
*
22808575 TTTAGCAGCATTATCTATAGCGGTGATTTTTGCGT
1 TTTAGCAGCATTATCTATAGCGGCGATTTTTGCGT
* *
22808610 TTTAGCGGCGTTATCTATAGCGGCGATTTTTGCG
1 TTTAGCAGCATTATCTATAGCGGCGATTTTTGCG
22808644 GTATTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.17, C:0.16, G:0.26, T:0.41
Consensus pattern (35 bp):
TTTAGCAGCATTATCTATAGCGGCGATTTTTGCGT
Found at i:22809298 original size:15 final size:16
Alignment explanation
Indices: 22809268--22809300 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22809258 ATTTTACATG
*
22809268 ATATTTGAATAATTAA
1 ATATTTGAACAATTAA
22809284 ATATTT-AACAATTAA
1 ATATTTGAACAATTAA
22809299 AT
1 AT
22809301 TCTTGTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
ATATTTGAACAATTAA
Found at i:22809757 original size:21 final size:21
Alignment explanation
Indices: 22809707--22809758 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
22809697 AACTTGTGGT
** *
22809707 GCATTTTTAAAAGGAATCTAG
1 GCATTTTTGGAAGGAATATAG
*
22809728 GCATTTTTGGAAGGGATATAG
1 GCATTTTTGGAAGGAATATAG
22809749 GCATTTTTGG
1 GCATTTTTGG
22809759 CTCAATATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.37
Consensus pattern (21 bp):
GCATTTTTGGAAGGAATATAG
Found at i:22811404 original size:94 final size:95
Alignment explanation
Indices: 22811243--22811438 Score: 376
Period size: 94 Copynumber: 2.1 Consensus size: 95
22811233 ACTTTAAGAG
22811243 CTTTTTTGGACTTGATATTGGAGAATGATTTTAGCCTTATTTCTCTAGATCAGACAAGATCCAAA
1 CTTTTTTGGACTTGATATTGGAGAATGATTTTAGCCTTATTTCTCTAGATCAGACAAGATCCAAA
22811308 AGTAGCTTTCTTTATAACGAATTCGGC-TT
66 AGTAGCTTTCTTTATAACGAATTCGGCTTT
*
22811337 CTTTTTTGGACTTGATCTTGGAGAATGATTTTAGCCTTATTTCTCTAGATCAGACAAGATCCAAA
1 CTTTTTTGGACTTGATATTGGAGAATGATTTTAGCCTTATTTCTCTAGATCAGACAAGATCCAAA
22811402 AGTAGCTTTCTTTATAACGAATTCGGCTTT
66 AGTAGCTTTCTTTATAACGAATTCGGCTTT
22811432 CTTTTTT
1 CTTTTTT
22811439 TTTTTTTTAA
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 91 0.91
95 9 0.09
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (95 bp):
CTTTTTTGGACTTGATATTGGAGAATGATTTTAGCCTTATTTCTCTAGATCAGACAAGATCCAAA
AGTAGCTTTCTTTATAACGAATTCGGCTTT
Found at i:22816434 original size:16 final size:16
Alignment explanation
Indices: 22816413--22816443 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22816403 TTTATAATGA
*
22816413 TAAAAAATATTTTAAT
1 TAAAAAATAATTTAAT
22816429 TAAAAAATAATTTAA
1 TAAAAAATAATTTAA
22816444 ATTTAACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAAAATAATTTAAT
Found at i:22823823 original size:23 final size:22
Alignment explanation
Indices: 22823770--22823861 Score: 80
Period size: 22 Copynumber: 4.0 Consensus size: 22
22823760 ATTGAGCTAA
* *
22823770 AACAGTAAACTC-TATCAAGCTG
1 AACAGTAAGCTCATA-CGAGCTG
22823792 AACAGTAAGCTCATACGAGCTG
1 AACAGTAAGCTCATACGAGCTG
* *
22823814 AATCAGTAAGCTCCA-ATGAGCTAAA
1 AA-CAGTAAGCT-CATACGAGCT--G
*
22823839 AACAGTAAGCTCTTACGAGCTG
1 AACAGTAAGCTCATACGAGCTG
22823861 A
1 A
22823862 TATATCGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
22 20 0.35
23 18 0.32
24 17 0.30
25 2 0.04
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (22 bp):
AACAGTAAGCTCATACGAGCTG
Found at i:22823849 original size:24 final size:24
Alignment explanation
Indices: 22823763--22823859 Score: 78
Period size: 23 Copynumber: 4.2 Consensus size: 24
22823753 AAGCTTTATT
* *
22823763 GAGCTAAAACAGTAAACTCTAT-C
1 GAGCTAAAACAGTAAGCTCCATAC
* *
22823786 AAGCT-GAACAGTAAGCT-CATAC
1 GAGCTAAAACAGTAAGCTCCATAC
* * *
22823808 GAGCTGAATCAGTAAGCTCCA-AT
1 GAGCTAAAACAGTAAGCTCCATAC
*
22823831 GAGCTAAAAACAGTAAGCT-CTTAC
1 GAGCT-AAAACAGTAAGCTCCATAC
22823855 GAGCT
1 GAGCT
22823860 GATATATCGA
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
21 2 0.04
22 15 0.26
23 21 0.37
24 19 0.33
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (24 bp):
GAGCTAAAACAGTAAGCTCCATAC
Found at i:22826448 original size:18 final size:18
Alignment explanation
Indices: 22826425--22826459 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22826415 AAACAGTTAT
22826425 TTTTTTCCTTTGCTTCTG
1 TTTTTTCCTTTGCTTCTG
*
22826443 TTTTTTCTTTTGCTTCT
1 TTTTTTCCTTTGCTTCT
22826460 ATTCTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTTTTCCTTTGCTTCTG
Found at i:22826482 original size:20 final size:21
Alignment explanation
Indices: 22826443--22826482 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22826433 TTTGCTTCTG
*
22826443 TTTTTTCTTTTGCTTCTATTC
1 TTTTTGCTTTTGCTTCTATTC
*
22826464 TTTTTGCTTTTTCTT-TATT
1 TTTTTGCTTTTGCTTCTATT
22826483 TTCCTTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTTTGCTTTTGCTTCTATTC
Found at i:22832024 original size:29 final size:29
Alignment explanation
Indices: 22831938--22832024 Score: 133
Period size: 28 Copynumber: 3.1 Consensus size: 29
22831928 GTGAGCATGA
*
22831938 ATAT-AATGTGATTTGGGCCGAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
22831966 ACATAAATGTGATTT-GGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
22831994 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
22832023 AT
1 AT
22832025 GTGAATATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 28 0.54
29 24 0.46
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:22848752 original size:21 final size:20
Alignment explanation
Indices: 22848716--22848834 Score: 76
Period size: 20 Copynumber: 6.1 Consensus size: 20
22848706 TTTTTATAAA
*
22848716 TTTT-ATTATATGTTATATT
1 TTTTAATTATATATTATATT
22848735 TTTTAATATATATATTAT-TT
1 TTTTAAT-TATATATTATATT
*
22848755 ATTCT-ATTATAT-TTATA--
1 -TTTTAATTATATATTATATT
*
22848772 TTTT-ATTATATGTTATATAT
1 TTTTAATTATATATTATAT-T
*
22848792 TTTT-ACTATATATTATTTATT
1 TTTTAATTATATATTA--TATT
*
22848813 TTTTACTTATTATATTAT-TT
1 TTTTAATTA-TATATTATATT
22848833 TT
1 TT
22848835 ATATTTTATC
Statistics
Matches: 81, Mismatches: 7, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
16 10 0.12
17 5 0.06
18 4 0.05
19 9 0.11
20 23 0.28
21 18 0.22
22 5 0.06
23 7 0.09
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTAATTATATATTATATT
Found at i:22848773 original size:16 final size:17
Alignment explanation
Indices: 22848754--22848789 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
22848744 ATATATTATT
22848754 TATTCTATTATAT-TTA
1 TATTCTATTATATGTTA
*
22848770 TATTTTATTATATGTTA
1 TATTCTATTATATGTTA
22848787 TAT
1 TAT
22848790 ATTTTTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTCTATTATATGTTA
Found at i:22848778 original size:11 final size:11
Alignment explanation
Indices: 22848759--22848843 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
22848749 TTATTTATTC
*
22848759 TATTATATTTA
1 TATTTTATTTA
22848770 TATTTTA-TTA
1 TATTTTATTTA
* *
22848780 TATGTTATATA
1 TATTTTATTTA
*
22848791 T-TTTTA-CTA
1 TATTTTATTTA
*
22848800 TATATTATTTA
1 TATTTTATTTA
*
22848811 TTTTTTACTTATTA
1 TATTTTA--T-TTA
22848825 TATTATT-TTTA
1 TATT-TTATTTA
22848836 TATTTTAT
1 TATTTTAT
22848844 CTATCATATA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
9 3 0.05
10 19 0.34
11 24 0.43
12 1 0.02
13 1 0.02
14 6 0.11
15 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (11 bp):
TATTTTATTTA
Found at i:22848781 original size:56 final size:60
Alignment explanation
Indices: 22848715--22848836 Score: 175
Period size: 56 Copynumber: 2.1 Consensus size: 60
22848705 TTTTTTATAA
22848715 ATTTTATTATATGTTATAT-TTTTTAATATATA-TA-TTATTTATT-C-TATTATATTTAT
1 ATTTTATTATATGTTATATATTTTTAATATATATTATTTATTTATTACTTATTATA-TTAT
* *
22848771 ATTTTATTATATGTTATATATTTTTACTATATATTATTTATTTTTTACTTATTATATTAT
1 ATTTTATTATATGTTATATATTTTTAATATATATTATTTATTTATTACTTATTATATTAT
22848831 -TTTTAT
1 ATTTTAT
22848837 ATTTTATCTA
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
56 19 0.32
57 12 0.20
58 2 0.03
59 14 0.24
60 5 0.08
61 7 0.12
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (60 bp):
ATTTTATTATATGTTATATATTTTTAATATATATTATTTATTTATTACTTATTATATTAT
Found at i:22848836 original size:25 final size:21
Alignment explanation
Indices: 22848731--22848832 Score: 90
Period size: 20 Copynumber: 5.0 Consensus size: 21
22848721 TTATATGTTA
*
22848731 TATTTTTTAATATATA-TA-T
1 TATTTTTTACTATATATTATT
*
22848750 TATTTATT-CTAT-TA-TATT
1 TATTTTTTACTATATATTATT
* * * *
22848768 TATATTTTATTATATGTTATA
1 TATTTTTTACTATATATTATT
22848789 TA-TTTTTACTATATATTATT
1 TATTTTTTACTATATATTATT
22848809 TATTTTTTACTTATTATATTATT
1 TATTTTTTAC-TA-TATATTATT
22848832 T
1 T
22848833 TTATATTTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
17 4 0.06
18 10 0.15
19 10 0.15
20 17 0.26
21 12 0.18
22 2 0.03
23 10 0.15
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (21 bp):
TATTTTTTACTATATATTATT
Found at i:22848852 original size:25 final size:21
Alignment explanation
Indices: 22848764--22848861 Score: 83
Period size: 20 Copynumber: 4.4 Consensus size: 21
22848754 TATTCTATTA
* *
22848764 TATTTATATTTTATTATATGT
1 TATTTATATTTTACTATATAT
*
22848785 TATATAT-TTTTACTATATAT
1 TATTTATATTTTACTATATAT
*
22848805 TATTTATTTTTTACTTATTATAT
1 TATTTATATTTTAC-TA-TATAT
22848828 TATTTTTATATTTTATCTATCATA-
1 TA--TTTATATTTTA-CTAT-ATAT
22848852 TAGTTTATAT
1 TA-TTTATAT
22848862 CATTATACAT
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
20 17 0.27
21 12 0.19
22 2 0.03
23 14 0.22
24 3 0.05
25 15 0.23
26 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTATATTTTACTATATAT
Found at i:22858662 original size:40 final size:40
Alignment explanation
Indices: 22858431--22858655 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
22858421 TTGAATGATG
* * * *
22858431 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
22858471 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22858511 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
22858550 TCCAAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22858590 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22858631 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22858656 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 117 0.74
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22863752 original size:13 final size:13
Alignment explanation
Indices: 22863730--22863778 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
22863720 GGCCTCTCCA
*
22863730 TTTTTTTTTTCTC
1 TTTTTCTTTTCTC
22863743 TTTTTCTTTTCTTC
1 TTTTTCTTTTC-TC
* *
22863757 TTTTT-TCTTCTT
1 TTTTTCTTTTCTC
22863769 TTTTTCTTTT
1 TTTTTCTTTT
22863779 TTTGAAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 6 0.20
13 17 0.57
14 7 0.23
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTTCTC
Found at i:22863760 original size:21 final size:21
Alignment explanation
Indices: 22863736--22863781 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22863726 TCCATTTTTT
22863736 TTTTCTCTT-TTTCTTTTCTTC
1 TTTTCTCTTCTTT-TTTTCTTC
* *
22863757 TTTTTTCTTCTTTTTTTCTTT
1 TTTTCTCTTCTTTTTTTCTTC
22863778 TTTT
1 TTTT
22863782 GAAATAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTCTCTTCTTTTTTTCTTC
Found at i:22863767 original size:18 final size:18
Alignment explanation
Indices: 22863746--22863780 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22863736 TTTTCTCTTT
22863746 TTCTTTTCTTCTTTTTTC
1 TTCTTTTCTTCTTTTTTC
*
22863764 TTCTTTTTTTCTTTTTT
1 TTCTTTTCTTCTTTTTT
22863781 TGAAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTCTTTTCTTCTTTTTTC
Found at i:22863780 original size:8 final size:8
Alignment explanation
Indices: 22863733--22863781 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
22863723 CTCTCCATTT
22863733 TTTTTTTC
1 TTTTTTTC
*
22863741 TCTTTTTC
1 TTTTTTTC
*
22863749 TTTTCTTC
1 TTTTTTTC
22863757 TTTTTTCTTC
1 -TTTTT-TTC
22863767 TTTTTTTC
1 TTTTTTTC
22863775 TTTTTTT
1 TTTTTTT
22863782 GAAATAGAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 23 0.66
9 9 0.26
10 3 0.09
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:22869506 original size:22 final size:19
Alignment explanation
Indices: 22869480--22869553 Score: 93
Period size: 18 Copynumber: 3.9 Consensus size: 19
22869470 AAGATTACAA
22869480 AATCATATCTTTTAAGATTGT
1 AATCATATC--TTAAGATTGT
22869501 ATATCATATC-TAAGATTGT
1 A-ATCATATCTTAAGATTGT
22869520 AATCATATC-TAAGATTGT
1 AATCATATCTTAAGATTGT
22869538 -ATCATATC-TAAGATTG
1 AATCATATCTTAAGATTG
22869554 CATATCACAT
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.31
18 17 0.33
19 10 0.19
21 1 0.02
22 8 0.15
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (19 bp):
AATCATATCTTAAGATTGT
Found at i:22869516 original size:19 final size:19
Alignment explanation
Indices: 22869492--22869580 Score: 121
Period size: 19 Copynumber: 4.8 Consensus size: 19
22869482 TCATATCTTT
*
22869492 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
*
22869511 TAAGATTGTA-ATCATATC
1 TAAGATTGCATATCATATC
22869529 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
22869546 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
*
22869565 GAAGATTGCATATCAT
1 TAAGATTGCATATCAT
22869581 TGAAGATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 32 0.50
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:22869547 original size:35 final size:37
Alignment explanation
Indices: 22869492--22869580 Score: 119
Period size: 35 Copynumber: 2.4 Consensus size: 37
22869482 TCATATCTTT
* *
22869492 TAAGATTGTATATCATATCTAAGATTGTA-ATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCACATC
22869529 TAAGATTG-TATCATATCTAAGATTGCATATCACATC
1 TAAGATTGATATCATATCTAAGATTGCATATCACATC
*
22869565 GAAGATTGCATATCAT
1 TAAGATTG-ATATCAT
22869581 TGAAGATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
35 18 0.39
36 14 0.30
37 8 0.17
38 6 0.13
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCACATC
Found at i:22869559 original size:14 final size:15
Alignment explanation
Indices: 22869504--22869559 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
22869494 AGATTGTATA
22869504 TCATATCTAAGATTG
1 TCATATCTAAGATTG
22869519 TAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
22869537 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
22869554 -CATATC
1 TCATATC
22869560 ACATCGAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:22869587 original size:17 final size:18
Alignment explanation
Indices: 22869547--22869588 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
22869537 TATCATATCT
22869547 AAGATTGCATATCACATCG
1 AAGATTGCATAT-ACATCG
*
22869566 AAGATTGCATAT-CATTG
1 AAGATTGCATATACATCG
22869583 AAGATT
1 AAGATT
22869589 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (18 bp):
AAGATTGCATATACATCG
Found at i:22887682 original size:23 final size:23
Alignment explanation
Indices: 22887654--22887734 Score: 96
Period size: 22 Copynumber: 3.5 Consensus size: 23
22887644 AAGTTGATAC
*
22887654 ACAGTAAGCTCTATTCAGCTGAA
1 ACAGTAAGCTCTATACAGCTGAA
*
22887677 ACAGTAAGCTCTGA-AGAGCT-AA
1 ACAGTAAGCTCT-ATACAGCTGAA
22887699 ACAGTAAGCTC-ATACGAGCTGAGA
1 ACAGTAAGCTCTATAC-AGCTGA-A
22887723 ACAGTAAGCTCT
1 ACAGTAAGCTCT
22887735 TAAGAGCTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 17 0.35
23 17 0.35
24 13 0.27
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (23 bp):
ACAGTAAGCTCTATACAGCTGAA
Found at i:22887730 original size:24 final size:23
Alignment explanation
Indices: 22887654--22887769 Score: 103
Period size: 24 Copynumber: 4.9 Consensus size: 23
22887644 AAGTTGATAC
*
22887654 ACAGTAAGCTCTATTC-AGCTGAA
1 ACAGTAAGCTC-ATACGAGCTGAA
*
22887677 ACAGTAAGCTC-TGAAGAGCT-AA
1 ACAGTAAGCTCAT-ACGAGCTGAA
22887699 ACAGTAAGCTCATACGAGCTGAGA
1 ACAGTAAGCTCATACGAGCTGA-A
* *
22887723 ACAGTAAGCTCTTAAGAGCTGATA
1 ACAGTAAGCTCATACGAGCTGA-A
* *
22887747 TATCGGTAAGCTCATACAAGCTG
1 -A-CAGTAAGCTCATACGAGCTG
22887770 CGGTGAGTCC
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
21 1 0.01
22 19 0.25
23 17 0.22
24 22 0.29
25 1 0.01
26 16 0.21
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (23 bp):
ACAGTAAGCTCATACGAGCTGAA
Found at i:22887740 original size:46 final size:47
Alignment explanation
Indices: 22887648--22887769 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 47
22887638 CCTCCTAAGT
* *
22887648 TGATACACAGTAAGCTCTATTCAGCTGAAACAGTAAGCTCTGAAGAGC
1 TGATATACAGTAAGCTC-ATACAGCTGAAACAGTAAGCTCTGAAGAGC
*
22887696 T-A-A-ACAGTAAGCTCATACGAGCTGAGAACAGTAAGCTCTTAAGAGC
1 TGATATACAGTAAGCTCATAC-AGCTGA-AACAGTAAGCTCTGAAGAGC
*
22887742 TGATATATCGGTAAGCTCATACAAGCTG
1 TGATATA-CAGTAAGCTCATAC-AGCTG
22887770 CGGTGAGTCC
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
44 3 0.05
45 17 0.27
46 21 0.33
47 2 0.03
48 2 0.03
49 1 0.02
50 18 0.28
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (47 bp):
TGATATACAGTAAGCTCATACAGCTGAAACAGTAAGCTCTGAAGAGC
Found at i:22890568 original size:24 final size:24
Alignment explanation
Indices: 22890540--22890593 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
22890530 TACAAATTAT
*
22890540 AATAAAAACAGA-AATTATAATAAA
1 AATAAAAACAGATAAAT-TAATAAA
**
22890564 AATAAAAATGGATAAATTAATAAA
1 AATAAAAACAGATAAATTAATAAA
22890588 AATAAA
1 AATAAA
22890594 GTGTTCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (24 bp):
AATAAAAACAGATAAATTAATAAA
Found at i:22890572 original size:18 final size:18
Alignment explanation
Indices: 22890533--22890572 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22890523 TAGAAAGTAC
*
22890533 AAATTATAATAAAAACAG
1 AAATTATAATAAAAACAA
*
22890551 AAATTATAATAAAAATAA
1 AAATTATAATAAAAACAA
22890569 AAAT
1 AAAT
22890573 GGATAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (18 bp):
AAATTATAATAAAAACAA
Found at i:22894748 original size:16 final size:16
Alignment explanation
Indices: 22894723--22894753 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22894713 GACATTCAAT
*
22894723 AAAGAGATTGTTATTC
1 AAAGAAATTGTTATTC
22894739 AAAGAAATTGTTATT
1 AAAGAAATTGTTATT
22894754 TAATCTGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (16 bp):
AAAGAAATTGTTATTC
Found at i:22922263 original size:48 final size:49
Alignment explanation
Indices: 22922132--22922265 Score: 146
Period size: 50 Copynumber: 2.7 Consensus size: 49
22922122 AGGGTTATGT
* *
22922132 GTGATCCCATGAAAGACTATGTCTGGGACATGGCATTGGAATCGATATA
1 GTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCGATATA
* * * *
22922181 TGTGATCCCATGTAGGACCATATCTGGGATATGGCATTGGCATC-AGTATA
1 -GTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCGA-TATA
** * *
22922231 -TGATTTCGTGTAAGACCATGTTTGGGACATGGCAT
1 GTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
22922266 CAATATGAGA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 28 0.40
49 1 0.01
50 41 0.59
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (49 bp):
GTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCGATATA
Found at i:22927902 original size:37 final size:36
Alignment explanation
Indices: 22927852--22927927 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
22927842 ATTCCAAAAA
22927852 TAATATTATTTTTAATAGT-TTATTATTAAATTTAAT-T
1 TAATATTATTTTTAATAGTATT-TT-TT-AATTTAATAT
22927889 TAATACTTA-TTTTAATAGTATTTTTTAATTTAATAT
1 TAATA-TTATTTTTAATAGTATTTTTTAATTTAATAT
22927925 TAA
1 TAA
22927928 AGTATTATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
35 8 0.22
36 6 0.17
37 17 0.47
38 5 0.14
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (36 bp):
TAATATTATTTTTAATAGTATTTTTTAATTTAATAT
Found at i:22927941 original size:37 final size:37
Alignment explanation
Indices: 22927863--22927942 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
22927853 AATATTATTT
*
22927863 TTAATAGTTTATTATTAAATTTAATTTAATACTTATT
1 TTAATAGTTTATTATTAAATTTAATTTAATACTTATC
22927900 TTAATAGTATT-TT-TT-AATTTAATATTAAAGTA-TTATC
1 TTAATAGT-TTATTATTAAATTTAAT-TT-AA-TACTTATC
22927937 TTAATA
1 TTAATA
22927943 TTAAATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
35 8 0.21
36 4 0.11
37 22 0.58
38 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.55
Consensus pattern (37 bp):
TTAATAGTTTATTATTAAATTTAATTTAATACTTATC
Found at i:22927976 original size:29 final size:31
Alignment explanation
Indices: 22927915--22927976 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
22927905 AGTATTTTTT
*
22927915 AATTTAATATTAAAGTATTATCTTAATATTA
1 AATTTAATATTAAAGTATTATCTTAATAATA
*
22927946 AATTTAAT-TTAATGT-TTATCTT-ATAAATA
1 AATTTAATATTAAAGTATTATCTTAAT-AATA
22927975 AA
1 AA
22927977 CATTCTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 12 0.43
30 6 0.21
31 8 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
AATTTAATATTAAAGTATTATCTTAATAATA
Found at i:22953137 original size:180 final size:181
Alignment explanation
Indices: 22952877--22953239 Score: 665
Period size: 180 Copynumber: 2.0 Consensus size: 181
22952867 AAGCCACCAG
* * **
22952877 TGAATTAGCTCAGTTAAGTAGACCACCATTTGACAATATTAGAAAGTATAGGGCCGAAGAGTTTT
1 TGAATCAGCTCAGTTAAGTAGACCACCAGTTGACAATATTAGAAAG-ATAGGGCCGAAGAGTTCC
22952942 GAGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTT
65 GAGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTT
22953007 GATGAATTGTCATTGAATCCCGAGGAATGTATAAAATGTATCATTTCCCTTT
130 GATGAATTGTCATTGAATCCCGAGGAATGTATAAAATGTATCATTTCCCTTT
*
22953059 TGAATCAGTTCAGTTAAGTAGACCACCAGTTGACAATATTAGAAAG-TAGGGCCGAAGAGTTCCG
1 TGAATCAGCTCAGTTAAGTAGACCACCAGTTGACAATATTAGAAAGATAGGGCCGAAGAGTTCCG
22953123 AGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTTG
66 AGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTTG
22953188 ATGAATTGTCATTGAATCCCGAGGAATGTATAAAATGTATCATTTCCCTTT
131 ATGAATTGTCATTGAATCCCGAGGAATGTATAAAATGTATCATTTCCCTTT
22953239 T
1 T
22953240 AAGAGATACA
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
180 133 0.76
182 43 0.24
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (181 bp):
TGAATCAGCTCAGTTAAGTAGACCACCAGTTGACAATATTAGAAAGATAGGGCCGAAGAGTTCCG
AGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTTG
ATGAATTGTCATTGAATCCCGAGGAATGTATAAAATGTATCATTTCCCTTT
Found at i:22957510 original size:46 final size:45
Alignment explanation
Indices: 22957457--22957632 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
22957447 TATTTGGGCA
22957457 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
22957503 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
22957550 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
22957596 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22957633 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:22957612 original size:93 final size:93
Alignment explanation
Indices: 22957453--22957624 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
22957443 AGGATATTTG
* *
22957453 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
22957518 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
22957546 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
22957611 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
22957625 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:22959193 original size:13 final size:13
Alignment explanation
Indices: 22959160--22959195 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
22959150 TAAAATTTAT
22959160 GATACATATGT--
1 GATACATATGTGA
22959171 GATA-ATATGTGA
1 GATACATATGTGA
22959183 GATACATATGTGA
1 GATACATATGTGA
22959196 TAAATATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.27
11 4 0.18
12 4 0.18
13 8 0.36
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (13 bp):
GATACATATGTGA
Found at i:22960629 original size:29 final size:29
Alignment explanation
Indices: 22960563--22960645 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
22960553 CATAGTATCG
* * * *
22960563 TATCTTGGGTTTC-TTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGG-TTTCTC
22960592 TAT-TCTGGATTTCTTTATTCTGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGTTTCTC
22960621 TATCTTGGATTTCTTTATTC-GGTTT
1 TATCTTGGATTTCTTTATTCTGGTTT
22960646 TCTTGTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 6 0.13
29 32 0.68
30 9 0.19
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGTTTCTC
Found at i:22960649 original size:14 final size:15
Alignment explanation
Indices: 22960572--22960649 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
22960562 GTATCTTGGG
*
22960572 TTTC-TTATCCTGGA
1 TTTCTTTATTCTGGA
*
22960586 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
22960601 TTTCTTTATTCTGG-
1 TTTCTTTATTCTGGA
*
22960615 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
22960630 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
22960644 TTTCTT
1 TTTCTT
22960650 GTTATCTTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
13 2 0.04
14 21 0.39
15 29 0.54
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22963090 original size:46 final size:46
Alignment explanation
Indices: 22963034--22963302 Score: 253
Period size: 46 Copynumber: 5.8 Consensus size: 46
22963024 TATTTGGGCA
*
22963034 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *** *
22963080 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GGGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
* * *
22963125 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *** *
22963173 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GGGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
* * *
22963218 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
22963266 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22963303 GCGGGTTACA
Statistics
Matches: 178, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
43 11 0.06
45 6 0.03
46 91 0.51
47 54 0.30
48 6 0.03
50 10 0.06
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:22963155 original size:47 final size:47
Alignment explanation
Indices: 22963086--22963248 Score: 201
Period size: 47 Copynumber: 3.5 Consensus size: 47
22963076 AATGTCTGAA
22963086 CTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAACTAGGCATCCGAG
*** * * *
22963133 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GGGA--GATG-TAACTAGGCATCCGAG
22963179 CTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAACTAGGCATCCGAG
22963226 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
22963249 ACTTATGGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 27 0.28
47 50 0.53
48 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAACTAGGCATCCGAG
Found at i:22963189 original size:93 final size:93
Alignment explanation
Indices: 22963030--22963294 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
22963020 AGGATATTTG
* *
22963030 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
22963095 TTGAGTCCGAGTTCGGGAGATGTAACTA
66 TTGAGTCCGAGTTCGGGAGATGTAACTA
22963123 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
22963188 TTGAGTCCGAGTTCGGGAGATGTAACTA
66 TTGAGTCCGAGTTCGGGAGATGTAACTA
* * * *
22963216 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
22963281 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
22963295 ACTTATGGGC
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
TTGAGTCCGAGTTCGGGAGATGTAACTA
Found at i:22976577 original size:17 final size:17
Alignment explanation
Indices: 22976555--22976595 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
22976545 CAACTAGCAA
* *
22976555 CTGGCTTTTCGAACCCC
1 CTGGCTCTTCAAACCCC
22976572 CTGGCTCTTCAAACCCC
1 CTGGCTCTTCAAACCCC
22976589 CTGGCTC
1 CTGGCTC
22976596 GTATCCTACC
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:0.12, C:0.44, G:0.17, T:0.27
Consensus pattern (17 bp):
CTGGCTCTTCAAACCCC
Found at i:22979303 original size:17 final size:18
Alignment explanation
Indices: 22979269--22979303 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22979259 CAATGTATGG
*
22979269 GTTCGCACATGACATATA
1 GTTCACACATGACATATA
22979287 GTTCACACATG-CATATA
1 GTTCACACATGACATATA
22979304 AGCTCGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (18 bp):
GTTCACACATGACATATA
Found at i:22979445 original size:18 final size:17
Alignment explanation
Indices: 22979424--22979457 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22979414 TGCAATGTAT
*
22979424 GGCTCGCTCACATATATA
1 GGCTCGCACACA-ATATA
22979442 GGCTCGCACACAATAT
1 GGCTCGCACACAATAT
22979458 TTATATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (17 bp):
GGCTCGCACACAATATA
Found at i:22979929 original size:19 final size:19
Alignment explanation
Indices: 22979907--22979943 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
22979897 TTCTTAACTT
22979907 CAGATCTAGTGC-TTAATTA
1 CAGATCTAG-GCATTAATTA
22979926 CAGATCTAGGCATTAATT
1 CAGATCTAGGCATTAATT
22979944 TCACTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
CAGATCTAGGCATTAATTA
Found at i:22985472 original size:61 final size:64
Alignment explanation
Indices: 22985353--22985480 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 64
22985343 GATAAGGAAA
22985353 TCCAATTTACAGCACTGCATCAAAAGACCGAGAACTAGACTCATAAAATATGAAAGACCCCAATG
1 TCCAATTTACAGCACTGCATC-AAAGACCGAGAAC-AGACTCATAAAATATGAAAGACCCCAATG
22985418 G
64 G
22985419 TCCAATTTACAGCACTGCATC-AAGACCGAG-A-AGACTCATAAAATATGAAAGACCCCAATGG
1 TCCAATTTACAGCACTGCATCAAAGACCGAGAACAGACTCATAAAATATGAAAGACCCCAATGG
22985480 T
1 T
22985481 TTTTCAAAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
61 31 0.50
63 1 0.02
64 9 0.15
66 21 0.34
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (64 bp):
TCCAATTTACAGCACTGCATCAAAGACCGAGAACAGACTCATAAAATATGAAAGACCCCAATGG
Found at i:22993633 original size:90 final size:89
Alignment explanation
Indices: 22993525--22993690 Score: 260
Period size: 90 Copynumber: 1.9 Consensus size: 89
22993515 GTAGATTCCC
* *
22993525 TGAAAATATTTCAAAAAAGATATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCTTTT
1 TGAAAATATTTCAAAAAAGATATTTTAAACGAAACAAACATACATTTAAATTTTT-TTGTCATTT
22993590 AATTGGTTAGCTAAATTCACTTTCT
65 AATTGGTTAGCTAAATTCACTTTCT
* * * *
22993615 TGAAAATATTTCAAAAAAGCTATTTTAAATGAAACAAACATATATTTAAATTTTTTTTTCATTTA
1 TGAAAATATTTCAAAAAAGATATTTTAAACGAAACAAACATACATTTAAATTTTTTTGTCATTTA
*
22993680 ATTGTTTAGCT
66 ATTGGTTAGCT
22993691 TTAATAGCCC
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 18 0.26
90 51 0.74
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (89 bp):
TGAAAATATTTCAAAAAAGATATTTTAAACGAAACAAACATACATTTAAATTTTTTTGTCATTTA
ATTGGTTAGCTAAATTCACTTTCT
Found at i:22995082 original size:43 final size:43
Alignment explanation
Indices: 22994922--22995082 Score: 143
Period size: 43 Copynumber: 3.7 Consensus size: 43
22994912 TATGTGTTTT
*
22994922 CGTGTAAGACCACGTCTGGGATGTTGGCATCGACTTATGTT--TTA
1 CGTGTAAGACCACGTCTGGGATGTTGGCATTGA--TAT-TTGATTA
* * * * *
22994966 TGTGTAAGACCATGTCTGGGATATTGGCA-TCATATTTGATTT
1 CGTGTAAGACCACGTCTGGGATGTTGGCATTGATATTTGATTA
* * *
22995008 CGTGTAAGACC-CTGTCTAGGACAG-TGACATTGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-TGTTGGCATTGATATTTGATTA
* *
22995051 CATTTAAGACCACGTCTGGGATGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGATGTTGGCATTG
22995083 TACGAGCTTT
Statistics
Matches: 91, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 24 0.26
43 35 0.38
44 27 0.30
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGATGTTGGCATTGATATTTGATTA
Found at i:23000863 original size:13 final size:13
Alignment explanation
Indices: 23000845--23000870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23000835 AGGCAGCCAA
23000845 TTTTTTCATTTTC
1 TTTTTTCATTTTC
23000858 TTTTTTCATTTTC
1 TTTTTTCATTTTC
23000871 AACTTTTAAT
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:0.15, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTCATTTTC
Found at i:23002373 original size:19 final size:19
Alignment explanation
Indices: 23002340--23002381 Score: 68
Period size: 18 Copynumber: 2.2 Consensus size: 19
23002330 TTAAAGCTTT
23002340 TTTTTTAAATAAAAAT-AA
1 TTTTTTAAATAAAAATAAA
23002358 TTTTTTAAATAAAAAATAAA
1 TTTTTTAAAT-AAAAATAAA
23002378 TTTT
1 TTTT
23002382 AATTTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTTTAAATAAAAATAAA
Found at i:23002432 original size:29 final size:28
Alignment explanation
Indices: 23002400--23002462 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
23002390 GATAAATTTG
* *
23002400 TAAAAAATTATTAAAATCTATAAAAATAT
1 TAAAAAATT-TTAAAAACTATAAAAAAAT
*
23002429 TAAATAAATTTTAAAAACTTTAAAAAAAT
1 TAAA-AAATTTTAAAAACTATAAAAAAAT
23002458 TAAAA
1 TAAAA
23002463 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 24 0.80
30 5 0.17
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (28 bp):
TAAAAAATTTTAAAAACTATAAAAAAAT
Found at i:23003221 original size:11 final size:10
Alignment explanation
Indices: 23003197--23003230 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
23003187 AAAGTAAAAG
23003197 GAAAAA-AAA
1 GAAAAAGAAA
23003206 GAAAAAGAATA
1 GAAAAAGAA-A
23003217 GAAAAAGAAA
1 GAAAAAGAAA
23003227 GAAA
1 GAAA
23003231 GGATGAAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 7 0.30
11 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:23003280 original size:14 final size:14
Alignment explanation
Indices: 23003261--23003292 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
23003251 CAGGGGAAAG
*
23003261 AAAGAATGAAGGAA
1 AAAGAAAGAAGGAA
23003275 AAAGAAAGAAGGAA
1 AAAGAAAGAAGGAA
23003289 AAAG
1 AAAG
23003293 GGAAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (14 bp):
AAAGAAAGAAGGAA
Found at i:23004959 original size:53 final size:53
Alignment explanation
Indices: 23004892--23005012 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 53
23004882 TACTGTTACC
* *
23004892 GTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAAT
1 GTTACTGTTACTGTTTCAGATTTGTTCCAATGAGGTACTCTATGTACCGTAAT
* * *
23004945 GTTACTGTTACTGTTTCGGATTTGTTCCAATGAGGTACTTTATGTACCGTACT
1 GTTACTGTTACTGTTTCAGATTTGTTCCAATGAGGTACTCTATGTACCGTAAT
*
23004998 GCTACTGTTACTGTT
1 GTTACTGTTACTGTT
23005013 ACTGTTCCGG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (53 bp):
GTTACTGTTACTGTTTCAGATTTGTTCCAATGAGGTACTCTATGTACCGTAAT
Found at i:23005158 original size:19 final size:19
Alignment explanation
Indices: 23005136--23005185 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
23005126 AGTTCGACTA
23005136 TTACTGAATAATTTAATTG
1 TTACTGAATAATTTAATTG
* * * *
23005155 TTACTGTAT-ATCTGATTT
1 TTACTGAATAATTTAATTG
23005173 TTACTGAATAATT
1 TTACTGAATAATT
23005186 GACTGTTACT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (19 bp):
TTACTGAATAATTTAATTG
Found at i:23005194 original size:18 final size:18
Alignment explanation
Indices: 23005131--23005201 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
23005121 TGGAAAGTTC
*
23005131 GACTATTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * *
23005150 AATTGTTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
23005168 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
23005186 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
23005202 CCGATCAGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
17 1 0.03
18 27 0.68
19 12 0.30
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:23007399 original size:18 final size:20
Alignment explanation
Indices: 23007361--23007404 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
23007351 TTGTGATTGA
23007361 TCTTTAAGCTTGATAATATC
1 TCTTTAAGCTTGATAATATC
*
23007381 TCTTTAAGCTTGATAATCTC
1 TCTTTAAGCTTGATAATATC
23007401 TCTT
1 TCTT
23007405 GTTGTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (20 bp):
TCTTTAAGCTTGATAATATC
Found at i:23010106 original size:39 final size:39
Alignment explanation
Indices: 23010061--23010220 Score: 275
Period size: 39 Copynumber: 4.1 Consensus size: 39
23010051 AAGCAAGACA
23010061 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
23010100 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* *
23010139 CTGGAAATGTATCGGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* * *
23010178 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
23010217 CTGG
1 CTGG
23010221 TAATATAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:23014093 original size:19 final size:19
Alignment explanation
Indices: 23014069--23014108 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23014059 TAAATTCTAA
23014069 AAGATAAATACAA-ATAAAT
1 AAGATAAATA-AAGATAAAT
*
23014088 AAGATAATTAAAGATAAAT
1 AAGATAAATAAAGATAAAT
23014107 AA
1 AA
23014109 AATTAAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (19 bp):
AAGATAAATAAAGATAAAT
Found at i:23014101 original size:10 final size:10
Alignment explanation
Indices: 23014068--23014109 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
23014058 TTAAATTCTA
23014068 AAAGATAAAT
1 AAAGATAAAT
23014078 ACAA-ATAAAT
1 A-AAGATAAAT
*
23014088 -AAGATAATT
1 AAAGATAAAT
23014097 AAAGATAAAT
1 AAAGATAAAT
23014107 AAA
1 AAA
23014110 ATTAAATCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.07
9 5 0.19
10 18 0.67
11 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23016033 original size:5 final size:5
Alignment explanation
Indices: 23016023--23016125 Score: 75
Period size: 5 Copynumber: 18.6 Consensus size: 5
23016013 AGTAATAAAT
23016023 AATAA AATAA AATAA AATAA AATAA TGAATAA TAATGAA TAATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA --AATAA -AAT-AA -AATAA AATAA
*
23016073 AATAA AGTAA TGAAT-A AATAAA TAATAA AATAAA AATAA AGA-AA AATACA
1 AATAA AATAA --AATAA AAT-AA -AATAA AAT-AA AATAA A-ATAA AATA-A
23016123 AAT
1 AAT
23016126 TGGGTTGCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 23
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.05
5 44 0.53
6 19 0.23
7 16 0.19
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:23016042 original size:30 final size:32
Alignment explanation
Indices: 23016009--23016120 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
23015999 CCCAAACAAA
23016009 ATAAAGTAATAAATAAT-AA-AATAAAATAAA
1 ATAAAGTAATAAATAATAAATAATAAAATAAA
* *
23016039 ATAAAATAATGAATAATAATGAATAATAAAATAAA
1 ATAAAGTAAT--A-AATAATAAATAATAAAATAAA
*
23016074 ATAAAGTAATGAATAAATAAATAATAAAATAAAA
1 ATAAAGTAATAAAT-AATAAATAATAAAAT-AAA
23016108 ATAAAG-AA-AAATA
1 ATAAAGTAATAAATA
23016121 CAAATTGGGT
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
30 9 0.13
31 1 0.01
32 7 0.10
33 22 0.31
34 11 0.16
35 20 0.29
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (32 bp):
ATAAAGTAATAAATAATAAATAATAAAATAAA
Found at i:23019739 original size:10 final size:10
Alignment explanation
Indices: 23019712--23019764 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
23019702 TTAAATTCTA
23019712 AAAGATAAAT
1 AAAGATAAAT
23019722 ACAA-ATAAAT
1 A-AAGATAAAT
*
23019732 AAAGATAATT
1 AAAGATAAAT
* *
23019742 AGAGATAATT
1 AAAGATAAAT
23019752 AAAGATAAAT
1 AAAGATAAAT
23019762 AAA
1 AAA
23019765 ATTGAATCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 2 0.05
10 33 0.89
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23019821 original size:14 final size:13
Alignment explanation
Indices: 23019785--23019822 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
23019775 AAAATTAAAT
23019785 CTAAATAATTATC
1 CTAAATAATTATC
*
23019798 CTTAATAATTATC
1 CTAAATAATTATC
23019811 CTAATATAATTA
1 CTAA-ATAATTA
23019823 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:23021041 original size:17 final size:17
Alignment explanation
Indices: 23021019--23021052 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23021009 TTGGGTTGAG
*
23021019 TAGAATCAATTGATTAT
1 TAGAATCAATTAATTAT
*
23021036 TAGAATGAATTAATTAT
1 TAGAATCAATTAATTAT
23021053 GAATATTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (17 bp):
TAGAATCAATTAATTAT
Found at i:23029478 original size:30 final size:31
Alignment explanation
Indices: 23029442--23029499 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
23029432 TGGAGAATTC
23029442 TTGCTCAACTA-GCTTTGTGGCTAGGAATAT
1 TTGCTCAACTAGGCTTTGTGGCTAGGAATAT
*
23029472 TTGCTCAATTAGGCTTTGTGGCTAGGAA
1 TTGCTCAACTAGGCTTTGTGGCTAGGAA
23029500 CGGGAGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (31 bp):
TTGCTCAACTAGGCTTTGTGGCTAGGAATAT
Found at i:23030065 original size:46 final size:47
Alignment explanation
Indices: 23029972--23030066 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 47
23029962 AGAGGCAAAA
* * * * * *
23029972 TTGTTTGGTGTAATATTATCCATTGAAGGAGTTTTGTGAAATACAAT
1 TTGTTTAGTGTAATAGTAGCCATTGAAGAAGGTTTGTGAAAGACAAT
* *
23030019 TTGTTTAGTGTAATAGTAGCC-TTGAAGAAGGTTTGTGATAGCCAAT
1 TTGTTTAGTGTAATAGTAGCCATTGAAGAAGGTTTGTGAAAGACAAT
23030065 TT
1 TT
23030067 TTTGACATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 22 0.55
47 18 0.45
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (47 bp):
TTGTTTAGTGTAATAGTAGCCATTGAAGAAGGTTTGTGAAAGACAAT
Found at i:23033883 original size:46 final size:45
Alignment explanation
Indices: 23033833--23034008 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
23033823 TGGTTGAGCA
23033833 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
23033879 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
23033926 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
23033972 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23034009 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 66 0.60
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:23033989 original size:93 final size:93
Alignment explanation
Indices: 23033830--23034000 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
23033820 GGATGGTTGA
*
23033830 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
23033895 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
23033923 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
23033987 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
23034001 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:23042042 original size:17 final size:18
Alignment explanation
Indices: 23042020--23042055 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23042010 GATATGATAC
*
23042020 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
23042037 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
23042055 T
1 T
23042056 CAAGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:23042353 original size:23 final size:22
Alignment explanation
Indices: 23042309--23042367 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
23042299 AAAAGGTATC
* *
23042309 TACAAATTAAATCT-CTAAGAT
1 TACAAATCATATCTACTAAGAT
23042330 TACAAAATCATATCTACTAAGAT
1 TAC-AAATCATATCTACTAAGAT
* *
23042353 TGCATATCATATCTA
1 TACAAATCATATCTA
23042368 AGATTGCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 3 0.09
22 20 0.62
23 9 0.28
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTACTAAGAT
Found at i:23042370 original size:19 final size:19
Alignment explanation
Indices: 23042338--23042435 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
23042328 ATTACAAAAT
23042338 CATATC-TA-CTAAGATTG
1 CATATCATATCTAAGATTG
23042355 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
23042374 CA-ATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
23042392 --TATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
* *
23042409 CATATCATACCTACGATTG
1 CATATCATATCTAAGATTG
23042428 CATATCAT
1 CATATCAT
23042436 TGAAGATTAT
Statistics
Matches: 74, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
17 22 0.30
18 18 0.24
19 34 0.46
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:23042400 original size:35 final size:37
Alignment explanation
Indices: 23042338--23042435 Score: 132
Period size: 35 Copynumber: 2.7 Consensus size: 37
23042328 ATTACAAAAT
23042338 CATATC-TA-CTAAGATTGCATATCATATCTAAGATTG
1 CATATCATACCTAAGATTG-ATATCATATCTAAGATTG
*
23042374 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATACCTAAGATTGATATCATATCTAAGATTG
*
23042409 CATATCATACCTACGATTGCATATCAT
1 CATATCATACCTAAGATTG-ATATCAT
23042436 TGAAGATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
35 22 0.40
36 18 0.33
37 9 0.16
38 6 0.11
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (37 bp):
CATATCATACCTAAGATTGATATCATATCTAAGATTG
Found at i:23042414 original size:14 final size:15
Alignment explanation
Indices: 23042359--23042414 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
23042349 AGATTGCATA
23042359 TCATATCTAAGATTG
1 TCATATCTAAGATTG
23042374 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
23042392 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
23042409 -CATATC
1 TCATATC
23042415 ATACCTACGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:23042593 original size:21 final size:21
Alignment explanation
Indices: 23042554--23042594 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23042544 TTGGACTTTG
* **
23042554 TTTTTTTTTTTGGGTTTATTA
1 TTTTTGTTTTTGGACTTATTA
23042575 TTTTTGTTTTTGGACTTATT
1 TTTTTGTTTTTGGACTTATT
23042595 TCTGGGCCCG
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:0.10, C:0.02, G:0.15, T:0.73
Consensus pattern (21 bp):
TTTTTGTTTTTGGACTTATTA
Found at i:23046597 original size:46 final size:45
Alignment explanation
Indices: 23046510--23046726 Score: 204
Period size: 46 Copynumber: 4.6 Consensus size: 45
23046500 GGTAAGGTGT
*
23046510 CAATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCATAGC
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCA-AGC
* * *
23046558 CAATGCATGTCTCAGACATTTCTTACACTGGCTTACATCTCGAGGC
1 CAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGC
* * *
23046604 CAATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAATGC
1 CAATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCTCAA-GC
* * ** **
23046650 CAATGCCATGTCCCAAACATGGTCTTACACTGGCTTTCATAACGTGGC
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTC-AAGC
*
23046698 CAATGCATGTCCCAGATATGTCTTACACT
1 CAATGCATGTCCCAGACATGTCTTACACT
23046727 AGCTCACACA
Statistics
Matches: 141, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 70 0.50
47 43 0.30
48 27 0.19
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
CAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGC
Found at i:23046699 original size:94 final size:93
Alignment explanation
Indices: 23046510--23046729 Score: 277
Period size: 94 Copynumber: 2.3 Consensus size: 93
23046500 GGTAAGGTGT
* *
23046510 CAATGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCATAGCCAATGCATGTCTCAG
1 CAATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-ATCATCTCATAGCCAATGCATGTCCCAA
* **
23046573 ACATTTCTTACACTGGCTTACATCTCGAGGC
63 ACATGTCTTACACTGGCTTACATAACGAGGC
*
23046604 CAATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCA-ATGCCAATGCCATGTCCCAAA
1 CAATGCATGTCCCAGACATGTCTTACACTAGCACATCATCTCATA-GCCAATG-CATGTCCCAAA
* *
23046667 CATGGTCTTACACTGGCTTTCATAACGTGGC
64 CAT-GTCTTACACTGGCTTACATAACGAGGC
*
23046698 CAATGCATGTCCCAGATATGTCTTACACTAGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGC
23046730 TCACACAAGT
Statistics
Matches: 112, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
91 1 0.01
92 24 0.21
93 27 0.24
94 60 0.54
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (93 bp):
CAATGCATGTCCCAGACATGTCTTACACTAGCACATCATCTCATAGCCAATGCATGTCCCAAACA
TGTCTTACACTGGCTTACATAACGAGGC
Found at i:23047577 original size:20 final size:20
Alignment explanation
Indices: 23047552--23047591 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23047542 ATGGAGGAAG
23047552 AAGATGAAAAGGGATGATAT
1 AAGATGAAAAGGGATGATAT
23047572 AAGATGAAAAGGGATGATAT
1 AAGATGAAAAGGGATGATAT
23047592 CATCCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (20 bp):
AAGATGAAAAGGGATGATAT
Found at i:23048569 original size:21 final size:21
Alignment explanation
Indices: 23048514--23048570 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
23048504 CATGTTGTAA
* *
23048514 TGACCACATGGGCATGTTGCC
1 TGACCACACGGGCGTGTTGCC
*
23048535 CGACCACACGGGCGTGTTGCC
1 TGACCACACGGGCGTGTTGCC
23048556 TGACCACACGGGCGT
1 TGACCACACGGGCGT
23048571 CTGCCCAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.18
Consensus pattern (21 bp):
TGACCACACGGGCGTGTTGCC
Found at i:23051183 original size:35 final size:35
Alignment explanation
Indices: 23051143--23051253 Score: 161
Period size: 35 Copynumber: 3.0 Consensus size: 35
23051133 CCACATAATA
23051143 ATCATTTTAAACTATACCTAACATAAATATAAATC
1 ATCATTTTAAACTATACCTAACATAAATATAAATC
23051178 ATCATTTTAAACTATACTATACCTAACATAAATATAAATC
1 ATCATTTT--A--A-ACTATACCTAACATAAATATAAATC
23051218 ATCATTTT-AACTTATACCTAACATAAATATAAATC
1 ATCATTTTAAAC-TATACCTAACATAAATATAAATC
23051253 A
1 A
23051254 AAATTTCTCC
Statistics
Matches: 70, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
34 2 0.03
35 33 0.47
37 1 0.01
39 1 0.01
40 33 0.47
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (35 bp):
ATCATTTTAAACTATACCTAACATAAATATAAATC
Found at i:23051208 original size:40 final size:37
Alignment explanation
Indices: 23051143--23051253 Score: 167
Period size: 40 Copynumber: 3.0 Consensus size: 37
23051133 CCACATAATA
23051143 ATCATTTTAA--ACTATACCTAACATAAATATAAATC
1 ATCATTTTAACTACTATACCTAACATAAATATAAATC
23051178 ATCATTTTAAACTATACTATACCTAACATAAATATAAATC
1 ATCATTTT-AAC--TACTATACCTAACATAAATATAAATC
23051218 ATCATTTTAACT--TATACCTAACATAAATATAAATC
1 ATCATTTTAACTACTATACCTAACATAAATATAAATC
23051253 A
1 A
23051254 AAATTTCTCC
Statistics
Matches: 71, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
35 32 0.45
36 2 0.03
37 1 0.01
39 3 0.04
40 33 0.46
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (37 bp):
ATCATTTTAACTACTATACCTAACATAAATATAAATC
Found at i:23060842 original size:3 final size:3
Alignment explanation
Indices: 23060834--23061050 Score: 61
Period size: 3 Copynumber: 70.0 Consensus size: 3
23060824 ATTTTTATCG
* * * * * *
23060834 TAT TAT TAT TAT TAT CAC TAT TAT CAT TAT T-T TAC TAT TAC AACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * *
23060879 TAACG TAT TAT TAT TACT T-T TAT TTT TAT TAT TAC TAC CAT TAT TAT
1 T-A-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
23060926 TAT TAAT CTAT TAT TAG TAG TAG TA- TAT TAT TAT T-T CCTAT T-T T-T
1 TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT
* * * * * *
23060971 TA- TAT TAT TAT TGTT TAA CAT ATAT TAT TAT TAAT GTAC TGT TAT TTT
1 TAT TAT TAT TAT T-AT TAT TAT -TAT TAT TAT T-AT -TAT TAT TAT TAT
* *
23061019 CTAT TAC TAT TAT TTT CTAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
23061051 ACCATAAAAC
Statistics
Matches: 158, Mismatches: 37, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
2 13 0.08
3 120 0.76
4 19 0.12
5 6 0.04
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:23061031 original size:16 final size:16
Alignment explanation
Indices: 23061007--23061048 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
23060997 ATTATTAATG
*
23061007 TACTGTTATTTTCTAT
1 TACTATTATTTTCTAT
23061023 TACTATTATTTTCTAT
1 TACTATTATTTTCTAT
*
23061039 TATTATTATT
1 TACTATTATT
23061049 ATACCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (16 bp):
TACTATTATTTTCTAT
Found at i:23062735 original size:40 final size:39
Alignment explanation
Indices: 23062691--23062819 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
23062681 ATTTTAAGGA
* *
23062691 AAATCCTATCCACCTTAAGTTACCATAGTGAATCAGGAAC
1 AAATCCTATCCACCTTAA-TTACTATAGTGAATCAGGAAT
* *
23062731 AAATCCTATCCA-CTTTATATATTTATAGTGAATCAGGAAT
1 AAATCCTATCCACCTTAAT-TA-CTATAGTGAATCAGGAAT
* * * *
23062771 AAATCCTATTCACTTTAATTTCTTTTAGTGAATCAGGAAT
1 AAATCCTATCCACCTTAATTAC-TATAGTGAATCAGGAAT
23062811 AAATCCTAT
1 AAATCCTAT
23062820 TCACTTTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 6 0.08
40 64 0.85
41 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (39 bp):
AAATCCTATCCACCTTAATTACTATAGTGAATCAGGAAT
Found at i:23062820 original size:40 final size:39
Alignment explanation
Indices: 23062715--23062831 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 39
23062705 TTAAGTTACC
* * *
23062715 ATAGTGAATCAGGAACAAATCCTATCCACTTTATATATTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTA-ATTTTT
23062755 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTT-TT
*
23062795 TTAGTGAATCAGGAATAAATCCTATTCACTTTTAATT
1 ATAGTGAATCAGGAATAAATCCTATTCAC-TTTAATT
23062832 CTCGAGAAGG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.04
40 61 0.86
41 7 0.10
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (39 bp):
ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTTTT
Found at i:23063086 original size:18 final size:18
Alignment explanation
Indices: 23063063--23063098 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23063053 ATTTAAATTA
23063063 ACATATTTTCATACTCAT
1 ACATATTTTCATACTCAT
23063081 ACATATTTTCATACTCAT
1 ACATATTTTCATACTCAT
23063099 TCAAGTTATA
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:0.00, T:0.44
Consensus pattern (18 bp):
ACATATTTTCATACTCAT
Found at i:23063744 original size:25 final size:24
Alignment explanation
Indices: 23063712--23063796 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 24
23063702 ATTTATTCCT
23063712 TTTCTTTCTTGCCCTTTTTCCTTTC
1 TTTCTTTCTT-CCCTTTTTCCTTTC
*
23063737 TTTCTTTC-TCCCTGTTTTTCGTTTC
1 TTTCTTTCTTCCC--TTTTTCCTTTC
*
23063762 TATTCTGTTCTT-CCTTTTTCTTTTTC
1 T-TTCT-TTCTTCCCTTTTTC-CTTTC
23063788 TTT-TTTCTT
1 TTTCTTTCTT
23063797 TTGCTTATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
23 8 0.15
24 2 0.04
25 27 0.52
26 9 0.17
27 5 0.10
28 1 0.02
ACGTcount: A:0.01, C:0.26, G:0.05, T:0.68
Consensus pattern (24 bp):
TTTCTTTCTTCCCTTTTTCCTTTC
Done.