Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 8 of 82
Found at i:2593183 original size:2 final size:2
Alignment explanation
Indices: 2593171--2593203 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
2593161 AGCACCGTGT
2593171 TC TC ATC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC -TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2593204 ACACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:2594547 original size:27 final size:27
Alignment explanation
Indices: 2594517--2594569 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
2594507 GAGCCTGCCG
2594517 CCACAACCCCAACAACACCACCAACAT
1 CCACAACCCCAACAACACCACCAACAT
* *
2594544 CCACAACCCCAACAACAGCAGCAACA
1 CCACAACCCCAACAACACCACCAACA
2594570 GCCTCAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.45, C:0.49, G:0.04, T:0.02
Consensus pattern (27 bp):
CCACAACCCCAACAACACCACCAACAT
Found at i:2595339 original size:6 final size:6
Alignment explanation
Indices: 2595320--2595358 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2595310 AGGCTAGGGT
* * *
2595320 GCACCA GCAACA GCAGCA GCACCA GCAGCA GCACCA GCA
1 GCACCA GCACCA GCACCA GCACCA GCACCA GCACCA GCA
2595359 ACAACCCCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.36, C:0.41, G:0.23, T:0.00
Consensus pattern (6 bp):
GCACCA
Found at i:2595345 original size:12 final size:12
Alignment explanation
Indices: 2595324--2595358 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
2595314 TAGGGTGCAC
*
2595324 CAGCAACAGCAG
1 CAGCACCAGCAG
2595336 CAGCACCAGCAG
1 CAGCACCAGCAG
2595348 CAGCACCAGCA
1 CAGCACCAGCA
2595359 ACAACCCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.37, C:0.40, G:0.23, T:0.00
Consensus pattern (12 bp):
CAGCACCAGCAG
Found at i:2600607 original size:25 final size:26
Alignment explanation
Indices: 2600579--2600638 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 26
2600569 TTGATTAATG
2600579 GACAA-TGATAATTCCTCCCCACCAA
1 GACAAGTGATAATTCCTCCCCACCAA
* *
2600604 GACAAGTGTGTTAATTCCTCCCCACCAG
1 GACAA--GTGATAATTCCTCCCCACCAA
2600632 GACAAGT
1 GACAAGT
2600639 TCGTCATCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 5 0.17
26 2 0.07
28 23 0.77
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.22
Consensus pattern (26 bp):
GACAAGTGATAATTCCTCCCCACCAA
Found at i:2603753 original size:28 final size:28
Alignment explanation
Indices: 2603713--2603796 Score: 150
Period size: 28 Copynumber: 3.0 Consensus size: 28
2603703 TTAAATTCTA
* *
2603713 AAAATAGAGCTTAAATAAACTTATAAAT
1 AAAATAAAACTTAAATAAACTTATAAAT
2603741 AAAATAAAACTTAAATAAACTTATAAAT
1 AAAATAAAACTTAAATAAACTTATAAAT
2603769 AAAATAAAACTTAAATAAACTTATAAAT
1 AAAATAAAACTTAAATAAACTTATAAAT
2603797 TACGAATCCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAATAAAACTTAAATAAACTTATAAAT
Found at i:2603755 original size:16 final size:16
Alignment explanation
Indices: 2603736--2603787 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
2603726 AATAAACTTA
2603736 TAAATAAAATAAAACT
1 TAAATAAAATAAAACT
* *
2603752 TAAATAAACT--TA--
1 TAAATAAAATAAAACT
2603764 TAAATAAAATAAAACT
1 TAAATAAAATAAAACT
2603780 TAAATAAA
1 TAAATAAA
2603788 CTTATAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
12 9 0.32
14 2 0.07
16 17 0.61
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAATAAAATAAAACT
Found at i:2603758 original size:11 final size:10
Alignment explanation
Indices: 2603722--2603791 Score: 62
Period size: 10 Copynumber: 7.4 Consensus size: 10
2603712 AAAAATAGAG
2603722 CTTAAATAAA
1 CTTAAATAAA
2603732 CTT--ATAAA
1 CTTAAATAAA
*
2603740 -TAAAATAAAA
1 CTTAAAT-AAA
2603750 CTTAAATAAA
1 CTTAAATAAA
2603760 CTT--ATAAA
1 CTTAAATAAA
*
2603768 -TAAAATAAAA
1 CTTAAAT-AAA
2603778 CTTAAATAAA
1 CTTAAATAAA
2603788 CTTA
1 CTTA
2603792 TAAATTACGA
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
7 2 0.04
8 10 0.21
9 4 0.08
10 22 0.46
11 10 0.21
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (10 bp):
CTTAAATAAA
Found at i:2603919 original size:25 final size:25
Alignment explanation
Indices: 2603891--2603970 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 25
2603881 ATAGATGGTG
2603891 AAAGATCTATGTTATTCTCAACTCA
1 AAAGATCTATGTTATTCTCAACTCA
** *
2603916 AAAGA--TATGTT-TGAT-AGA-TGGTA
1 AAAGATCTATGTTATTCTCA-ACT--CA
2603939 AAAGATCTATGTTTATTCTCAACTCA
1 AAAGATCTATG-TTATTCTCAACTCA
2603965 AAAGAT
1 AAAGAT
2603971 ATGTTTGATA
Statistics
Matches: 40, Mismatches: 6, Indels: 17
0.63 0.10 0.27
Matches are distributed among these distances:
21 2 0.05
22 3 0.08
23 12 0.30
25 9 0.22
26 9 0.22
27 3 0.08
28 2 0.05
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (25 bp):
AAAGATCTATGTTATTCTCAACTCA
Found at i:2603941 original size:23 final size:23
Alignment explanation
Indices: 2603915--2603993 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
2603905 TTCTCAACTC
2603915 AAAAGATATGTTTGATAGATGGT
1 AAAAGATATGTTTGATAGATGGT
** **
2603938 AAAAGATCTATGTTT-AT-TCTCAACT
1 AAAAGA--TATGTTTGATAGAT--GGT
2603963 CAAAAGATATGTTTGATAGATGGT
1 -AAAAGATATGTTTGATAGATGGT
2603987 AAAAGAT
1 AAAAGAT
2603994 CTATGTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
23 14 0.34
24 10 0.24
25 10 0.24
26 7 0.17
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (23 bp):
AAAAGATATGTTTGATAGATGGT
Found at i:2603998 original size:97 final size:96
Alignment explanation
Indices: 2603809--2604000 Score: 330
Period size: 97 Copynumber: 2.0 Consensus size: 96
2603799 CGAATCCACG
* * * *
2603809 TTCTCAACTTAAAAGATATGTTTGATAGATGGTGAAAGATTTATGTTGTTCTCAACTCAAAAGAT
1 TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATGTTATTCTCAACTCAAAAGAT
*
2603874 ATGTTTGATAGATGGTGAAAGATCTATGTTA
66 ATGTTTGATAGATGGTAAAAGATCTATGTTA
2603905 TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATGTTTATTCTCAACTCAAAAGA
1 TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATG-TTATTCTCAACTCAAAAGA
2603970 TATGTTTGATAGATGGTAAAAGATCTATGTT
65 TATGTTTGATAGATGGTAAAAGATCTATGTT
2604001 TATATACCCA
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 42 0.47
97 48 0.53
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.37
Consensus pattern (96 bp):
TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATGTTATTCTCAACTCAAAAGAT
ATGTTTGATAGATGGTAAAAGATCTATGTTA
Found at i:2604003 original size:49 final size:48
Alignment explanation
Indices: 2603809--2604000 Score: 330
Period size: 48 Copynumber: 4.0 Consensus size: 48
2603799 CGAATCCACG
* * * *
2603809 TTCTCAACTTAAAAGATATGTTTGATAGATGGTGAAAGATTTATGTTG
1 TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATGTTA
*
2603857 TTCTCAACTCAAAAGATATGTTTGATAGATGGTGAAAGATCTATGTTA
1 TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATGTTA
2603905 TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATGTTTA
1 TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATG-TTA
2603954 TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATGTT
1 TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATGTT
2604001 TATATACCCA
Statistics
Matches: 139, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 91 0.65
49 48 0.35
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.37
Consensus pattern (48 bp):
TTCTCAACTCAAAAGATATGTTTGATAGATGGTAAAAGATCTATGTTA
Found at i:2617865 original size:33 final size:33
Alignment explanation
Indices: 2617828--2617966 Score: 224
Period size: 33 Copynumber: 4.1 Consensus size: 33
2617818 TGGTGACGAA
2617828 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCT
1 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCT
*
2617861 GCTGCTGCTGTCGCTGAATTTCCAACTGCTGCTGCT
1 GCTGCTGCTGTCGCTGAAGTTCCAA---CTGCTGCT
*
2617897 GCTGCTGCTGTCGCTGAATTTCCAACTGCTGCT
1 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCT
*
2617930 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCT
1 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCT
2617963 GCTG
1 GCTG
2617967 TTGATACTGA
Statistics
Matches: 100, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
33 67 0.67
36 33 0.33
ACGTcount: A:0.12, C:0.31, G:0.27, T:0.31
Consensus pattern (33 bp):
GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCT
Found at i:2617868 original size:36 final size:36
Alignment explanation
Indices: 2617828--2617966 Score: 218
Period size: 36 Copynumber: 4.0 Consensus size: 36
2617818 TGGTGACGAA
2617828 GCTGCTGCTGTCGCTGAAGTTCCAA---CTGCTGCT
1 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCTGCT
*
2617861 GCTGCTGCTGTCGCTGAATTTCCAACTGCTGCTGCT
1 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCTGCT
*
2617897 GCTGCTGCTGTCGCTGAATTTCCAACTGCTGCTGCT
1 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCTGCT
2617933 GCTGCTGC---CGCTGAAGTTCCAACTGCTGCTGCT
1 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCTGCT
2617966 G
1 G
2617967 TTGATACTGA
Statistics
Matches: 101, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
33 49 0.49
36 52 0.51
ACGTcount: A:0.12, C:0.31, G:0.27, T:0.31
Consensus pattern (36 bp):
GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCTGCT
Found at i:2617904 original size:69 final size:69
Alignment explanation
Indices: 2617828--2617966 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
2617818 TGGTGACGAA
* *
2617828 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCTGCTGCTGCTGTCGCTGAATTTCCAACTGCTGC
1 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCTGCTGCTGCTGCCGCTGAAGTTCCAACTGCTGC
2617893 TGCT
66 TGCT
*
2617897 GCTGCTGCTGTCGCTGAATTTCCAACTGCTGCTGCTGCTGCTGCCGCTGAAGTTCCAACTGCTGC
1 GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCTGCTGCTGCTGCCGCTGAAGTTCCAACTGCTGC
2617962 TGCT
66 TGCT
2617966 G
1 G
2617967 TTGATACTGA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.12, C:0.31, G:0.27, T:0.31
Consensus pattern (69 bp):
GCTGCTGCTGTCGCTGAAGTTCCAACTGCTGCTGCTGCTGCTGCCGCTGAAGTTCCAACTGCTGC
TGCT
Found at i:2621996 original size:19 final size:19
Alignment explanation
Indices: 2621959--2622002 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2621949 ACCATCAGAG
2621959 GAAAAAATTTTAATAAAAA
1 GAAAAAATTTTAATAAAAA
*
2621978 GAAATAAATTTTATTAAAAA
1 GAAA-AAATTTTAATAAAAA
2621998 -AAAAA
1 GAAAAA
2622003 CTGTAAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 7 0.30
20 14 0.61
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
GAAAAAATTTTAATAAAAA
Found at i:2622305 original size:2 final size:2
Alignment explanation
Indices: 2622298--2622327 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2622288 AGGGCGACGC
*
2622298 AG AG AG AG AG CG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2622328 CGATCAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2640367 original size:14 final size:14
Alignment explanation
Indices: 2640348--2640387 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
2640338 TATCATTTGA
2640348 GCCTTAAACTTATC
1 GCCTTAAACTTATC
*
2640362 GCCTTAAACTTATT
1 GCCTTAAACTTATC
*
2640376 GTCTTAAACTTA
1 GCCTTAAACTTA
2640388 ACCAGCATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (14 bp):
GCCTTAAACTTATC
Found at i:2649450 original size:3 final size:3
Alignment explanation
Indices: 2649442--2649470 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2649432 GATTTGAACA
2649442 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2649471 GCTCAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2649781 original size:33 final size:33
Alignment explanation
Indices: 2649690--2649782 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
2649680 TGATTATATT
* * * * *
2649690 ATTATATTAAATTAATATGTCACGTTATCATTA
1 ATTATAATATATTAATATGTCACATCATCATCA
* *
2649723 ATTATAATATTTTAATATATCACATCATCATCA
1 ATTATAATATATTAATATGTCACATCATCATCA
* *
2649756 ATTATGATATATTAACATGTCACATCA
1 ATTATAATATATTAATATGTCACATCA
2649783 ACGCCACGCA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.42
Consensus pattern (33 bp):
ATTATAATATATTAATATGTCACATCATCATCA
Found at i:2649893 original size:30 final size:30
Alignment explanation
Indices: 2649836--2649900 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
2649826 AATCACTAAT
* *
2649836 TATAAGAACTTATTTAACTCAAGATAAATA
1 TATAAGAACTTATTTAACTCAAAATAAAAA
* *
2649866 TATAAGGACTTATTTATA-TTAAAATAAAAA
1 TATAAGAACTTATTTA-ACTCAAAATAAAAA
2649896 TATAA
1 TATAA
2649901 TAATTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (30 bp):
TATAAGAACTTATTTAACTCAAAATAAAAA
Found at i:2649970 original size:21 final size:22
Alignment explanation
Indices: 2649940--2649980 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2649930 AGGCTTATTT
*
2649940 AAATTTTTTTAAATA-ATTTAA
1 AAATTATTTTAAATATATTTAA
*
2649961 AAATTATTTTAGATATATTT
1 AAATTATTTTAAATATATTT
2649981 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AAATTATTTTAAATATATTTAA
Found at i:2650519 original size:38 final size:38
Alignment explanation
Indices: 2650464--2650542 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
2650454 GCATGCATGC
*
2650464 ATGCATTAGCTCAATGTCAAACAAATGGTGGTGTATTG
1 ATGCATTAGCTCAATGTCAAACAAAAGGTGGTGTATTG
*
2650502 ATGCATTAGCTCCATGTCAAACAAAAGGTGGTGTATTG
1 ATGCATTAGCTCAATGTCAAACAAAAGGTGGTGTATTG
2650540 ATG
1 ATG
2650543 GGGCTAACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (38 bp):
ATGCATTAGCTCAATGTCAAACAAAAGGTGGTGTATTG
Found at i:2652778 original size:2 final size:2
Alignment explanation
Indices: 2652726--2652761 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2652716 AAACAGTCAT
2652726 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2652762 TAATCAGAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2653899 original size:29 final size:28
Alignment explanation
Indices: 2653845--2653901 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2653835 TGATACTTTC
*
2653845 TATTTTTTTTATTAATATCTTATGGATA
1 TATTTTTTTTATTAATATCTCATGGATA
*
2653873 TATTTTATTTTAATTAATAT-TCGTGGATA
1 TATTTT-TTTT-ATTAATATCTCATGGATA
2653902 ACACAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 11 0.44
30 8 0.32
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.58
Consensus pattern (28 bp):
TATTTTTTTTATTAATATCTCATGGATA
Found at i:2656116 original size:18 final size:18
Alignment explanation
Indices: 2656093--2656127 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2656083 AAAACACAAA
2656093 ATTAGAGACTCATCTGAT
1 ATTAGAGACTCATCTGAT
2656111 ATTAGAGACTCATCTGA
1 ATTAGAGACTCATCTGA
2656128 AATACAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (18 bp):
ATTAGAGACTCATCTGAT
Found at i:2659890 original size:12 final size:12
Alignment explanation
Indices: 2659873--2659900 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2659863 AATCTGTTTG
2659873 ATAAATTTTTTT
1 ATAAATTTTTTT
2659885 ATAAATTTTTTT
1 ATAAATTTTTTT
2659897 ATAA
1 ATAA
2659901 GTTATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATAAATTTTTTT
Found at i:2659923 original size:18 final size:19
Alignment explanation
Indices: 2659883--2659923 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
2659873 ATAAATTTTT
*
2659883 TTATAAATTTTTTTATAAG
1 TTATAAATTTTTTTATAAA
2659902 TTAT-AATTTTTGTTA-AAA
1 TTATAAATTTTT-TTATAAA
2659920 TTAT
1 TTAT
2659924 CATAGAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTATAAATTTTTTTATAAA
Found at i:2660087 original size:15 final size:13
Alignment explanation
Indices: 2660050--2660089 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
2660040 TTCTTTAGAG
*
2660050 TTTTTTTTAAACA
1 TTTTTTTTAAAAA
2660063 TTTTTTTTAAAAA
1 TTTTTTTTAAAAA
2660076 TTTTGTTCTTAAAA
1 TTTT-TT-TTAAAA
2660090 CAAAGCTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 16 0.67
14 2 0.08
15 6 0.25
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (13 bp):
TTTTTTTTAAAAA
Found at i:2663876 original size:20 final size:20
Alignment explanation
Indices: 2663831--2663868 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2663821 TTTTGGCCCC
*
2663831 ATTTGAATTATTGGAGTATA
1 ATTTGAATTATTGGAGCATA
*
2663851 ATTTGACTTATTGGAGCA
1 ATTTGAATTATTGGAGCA
2663869 AGATTTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTGAATTATTGGAGCATA
Found at i:2667708 original size:17 final size:18
Alignment explanation
Indices: 2667688--2667721 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2667678 TTTAAATGTT
2667688 TAATATTTTTA-TTTTTA
1 TAATATTTTTACTTTTTA
2667705 TAATATTTTTACTTTTT
1 TAATATTTTTACTTTTT
2667722 CATATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TAATATTTTTACTTTTTA
Found at i:2670621 original size:15 final size:15
Alignment explanation
Indices: 2670581--2670643 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
2670571 GTTTGGTATT
2670581 TTACAATGTAATGTGA
1 TTACAA-GTAATGTGA
* *
2670597 TTATAGGTAATGTGA
1 TTACAAGTAATGTGA
* *
2670612 TTGCAAGTAATGTAA
1 TTACAAGTAATGTGA
*
2670627 TTACAAGCAATGTGA
1 TTACAAGTAATGTGA
2670642 TT
1 TT
2670644 GCAGGAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (15 bp):
TTACAAGTAATGTGA
Found at i:2670961 original size:33 final size:31
Alignment explanation
Indices: 2670862--2671000 Score: 99
Period size: 31 Copynumber: 4.5 Consensus size: 31
2670852 TTTTAATGTC
* *
2670862 ATATATTTTATTTTTATTTCTTATTATAATCTT
1 ATATATTTTATTTTAATTTCTT-TTAT-ATATT
* * * *
2670895 AT-TTTTTTATTTTTAATATATTTTTTATATT
1 ATATATTTTA-TTTTAATTTCTTTTATATATT
2670926 ATATATTTTATTTTAATTTCTTTTACCTATATT
1 ATATATTTTATTTTAATTTCTTTTA--TATATT
* * *
2670959 ATATA---AATTTTAATTTCTTATATTTTATT
1 ATATATTTTATTTTAATTTCTTTTA-TATATT
*
2670988 TTA-ATTTTATTTT
1 ATATATTTTATTTT
2671001 TCTTGATTTT
Statistics
Matches: 83, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
28 1 0.01
29 7 0.08
30 15 0.18
31 23 0.28
32 15 0.18
33 22 0.27
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (31 bp):
ATATATTTTATTTTAATTTCTTTTATATATT
Found at i:2670993 original size:26 final size:26
Alignment explanation
Indices: 2670914--2671016 Score: 75
Period size: 26 Copynumber: 3.8 Consensus size: 26
2670904 TTTTTAATAT
*
2670914 ATTTTTTATATTATATATTTT-ATTTTA
1 ATTTCTTATATT-T-TATTTTAATTTTA
* * *
2670941 ATTTCTTTTACCTATATTATATAAATTTTA
1 ATTTC--TTA--TATTTTATTTTAATTTTA
2670971 ATTTCTTATATTTTATTTTAATTTTA
1 ATTTCTTATATTTTATTTTAATTTTA
* *
2670997 TTTTTCTT-GATTTTATTTTA
1 -ATTTCTTATATTTTATTTTA
2671017 TTTCGTGGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
26 26 0.43
27 10 0.16
28 3 0.05
29 7 0.11
30 12 0.20
31 3 0.05
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (26 bp):
ATTTCTTATATTTTATTTTAATTTTA
Found at i:2672666 original size:30 final size:28
Alignment explanation
Indices: 2672611--2672676 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
2672601 TTCTCCAAAA
* **
2672611 TTTTAAAATTTTAAAATTTTTCTTTACTT
1 TTTTAAAATATTAAAATTTACCTTTA-TT
2672640 TTTTAAAATATTATAAATTTACCTTTATT
1 TTTTAAAATATTA-AAATTTACCTTTATT
2672669 TTTTAAAA
1 TTTTAAAA
2672677 AATTTTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTTAAAATATTAAAATTTACCTTTATT
Found at i:2672685 original size:31 final size:29
Alignment explanation
Indices: 2672611--2672698 Score: 106
Period size: 31 Copynumber: 3.0 Consensus size: 29
2672601 TTCTCCAAAA
*
2672611 TTTTAAAATTTTA-AAATTTTTCTTTACTT
1 TTTTAAAATTTTATAAATTTATCTTTA-TT
* *
2672640 TTTTAAAATATTATAAATTTACCTTTATT
1 TTTTAAAATTTTATAAATTTATCTTTATT
*
2672669 TTTTAAAAAATTTTATAATTTTATCTTTAT
1 TTTT--AAAATTTTATAAATTTATCTTTAT
2672699 AAATATTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.36
30 11 0.22
31 21 0.42
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTAAAATTTTATAAATTTATCTTTATT
Found at i:2675621 original size:28 final size:29
Alignment explanation
Indices: 2675573--2675638 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
2675563 ATGCATTTTG
**
2675573 GTAATTTTTCAATTT-TTGGGGCAAAAAT
1 GTAATTTTTCAATTTACGGGGGCAAAAAT
* *
2675601 GTAATTTTTCACTTTACGGGGGCAAAAGT
1 GTAATTTTTCAATTTACGGGGGCAAAAAT
2675630 GTAATTTTT
1 GTAATTTTT
2675639 AAAAATTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 14 0.42
29 19 0.58
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (29 bp):
GTAATTTTTCAATTTACGGGGGCAAAAAT
Found at i:2686351 original size:220 final size:219
Alignment explanation
Indices: 2685965--2686615 Score: 913
Period size: 214 Copynumber: 3.0 Consensus size: 219
2685955 ACTTCATCCA
2685965 TATATATATATATATATATATGAAATTAAAT-ATATAACTTATATGTTATAATGA-TTTATATCA
1 TATATATATATATATATATAT--AATT-AATGATATAACTTATATGTTATAAT-ATTTTATATCA
* *
2686028 AAGTTTGTATAAATAATAACTAATTATAAACAATATGTTATAAAATTTAAGGTGATAGCTAATAA
62 AAGTTTGTATAAATAATAACTAATTATAAACAATATGTTATAAAATCTAAGGTGATAACTAATAA
* * *
2686093 ACTTATTAAGTGTAATCATTTAAAT-AAAGTTGATTATAAGTTATAGTAATGCTTATGTATAAAT
127 AGTTATTAAGTGTAATCATATAAATAAAACTT-ATTATAAGTTATAGTAATGCTTATGTATAAAT
2686157 TAAATATATGTATATATAATATATTACTT
191 TAAATATATGTATATATAATATATTACTT
* * * * *
2686186 TATTATATATATTTATATATATAATTAATGATACAAATTATATGTTAAAATATTTTATATCAAAC
1 TA-TATATATATATATATATATAATTAATGATATAACTTATATGTTATAATATTTTATATCAAAG
* *
2686251 TTTGTATAAATAATAACTAATTATAAATAATATGTTATAAAATCTAAGGTAATAACTAATAAAGT
65 TTTGTATAAATAATAACTAATTATAAACAATATGTTATAAAATCTAAGGTGATAACTAATAAAGT
* ** *
2686316 TATTAAGTGTAATCATATAAATAAAACCTATTATAAGTTATAACAATGCTTATTTATAAATTAAA
130 TATTAAGTGTAATCATATAAATAAAACTTATTATAAGTTATAGTAATGCTTATGTATAAATTAAA
* *
2686381 TATATGCATATAT-A-ATATGACTT
195 TATATGTATATATAATATATTACTT
* * * * *
2686404 TAT-TATATATCTATAT-GA-AATTAATGATATAACTTATATGTTATCATGTTTTATAGCAAAGT
1 TATATATATATATATATATATAATTAATGATATAACTTATATGTTATAATATTTTATATCAAAGT
**
2686466 TTGTATAAATAATAACTAATTATAAACAATATGTTATAAAATCTAAAATGATAACTAATAAAGTT
66 TTGTATAAATAATAACTAATTATAAACAATATGTTATAAAATCTAAGGTGATAACTAATAAAGTT
** * * *
2686531 ATTAAGTGTAATCATATAAATAAAGTTTATTATAAATTGTAGTAATGCTTATGTTTAAATTAAAT
131 ATTAAGTGTAATCATATAAATAAAACTTATTATAAGTTATAGTAATGCTTATGTATAAATTAAAT
*
2686596 ATATCTATATATAATATATT
196 ATATGTATATATAATATATT
2686616 TATACAATTA
Statistics
Matches: 381, Mismatches: 43, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
214 164 0.43
215 2 0.01
216 16 0.04
217 1 0.00
218 10 0.03
219 5 0.01
220 159 0.42
221 6 0.02
222 18 0.05
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (219 bp):
TATATATATATATATATATATAATTAATGATATAACTTATATGTTATAATATTTTATATCAAAGT
TTGTATAAATAATAACTAATTATAAACAATATGTTATAAAATCTAAGGTGATAACTAATAAAGTT
ATTAAGTGTAATCATATAAATAAAACTTATTATAAGTTATAGTAATGCTTATGTATAAATTAAAT
ATATGTATATATAATATATTACTT
Found at i:2687384 original size:2 final size:2
Alignment explanation
Indices: 2687371--2687404 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2687361 TTCAACTTAC
*
2687371 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2687405 CTTTGTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2693658 original size:2 final size:2
Alignment explanation
Indices: 2693639--2693673 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2693629 CATTATTTAA
* *
2693639 AT AT AA AT AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2693674 ATTTTCCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2698333 original size:19 final size:20
Alignment explanation
Indices: 2698309--2698349 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2698299 TCTCTACTCG
2698309 TATAAT-TTTAATTTTTTTA
1 TATAATATTTAATTTTTTTA
**
2698328 TATAATATTTTGTTTTTTTA
1 TATAATATTTAATTTTTTTA
2698348 TA
1 TA
2698350 ATTATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TATAATATTTAATTTTTTTA
Found at i:2698349 original size:18 final size:20
Alignment explanation
Indices: 2698321--2698357 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2698311 TAATTTTAAT
2698321 TTTTTTATATAA-TATTTTG
1 TTTTTTATATAATTATTTTG
2698340 TTTTTT-TATAATTATTTT
1 TTTTTTATATAATTATTTT
2698358 CATGTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTTTTATATAATTATTTTG
Found at i:2702796 original size:16 final size:16
Alignment explanation
Indices: 2702772--2702802 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2702762 CTTGAAACCG
2702772 ATTAATAATTTGAAAC
1 ATTAATAATTTGAAAC
*
2702788 ATTATTAATTTGAAA
1 ATTAATAATTTGAAA
2702803 TCGAATAATT
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:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTAATAATTTGAAAC
Found at i:2709318 original size:18 final size:18
Alignment explanation
Indices: 2709292--2709326 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2709282 TAAAATACCC
*
2709292 TTTTCTCTTTCTCTCAAT
1 TTTTATCTTTCTCTCAAT
*
2709310 TTTTATCTTTCTTTCAA
1 TTTTATCTTTCTCTCAA
2709327 ACAATTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.23, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATCTTTCTCTCAAT
Found at i:2712516 original size:2 final size:2
Alignment explanation
Indices: 2712509--2712534 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2712499 TGTAATATTT
2712509 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2712535 ATGTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2714430 original size:22 final size:22
Alignment explanation
Indices: 2714402--2714447 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
2714392 GACGACGATT
2714402 AATT-TTTT-ATTAAAAATAAA
1 AATTATTTTAATTAAAAATAAA
*
2714422 AATTATTTTAATTCAAAATAAA
1 AATTATTTTAATTAAAAATAAA
2714444 AATT
1 AATT
2714448 TAAAAACTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 15 0.65
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTATTTTAATTAAAAATAAA
Found at i:2720385 original size:2 final size:2
Alignment explanation
Indices: 2720378--2720410 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2720368 ACAAGAGAAA
2720378 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2720411 CTATTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2728477 original size:27 final size:27
Alignment explanation
Indices: 2728439--2728491 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
2728429 NNNNNNNNNN
2728439 AAATTATCAATTATTAATATTTTAAAT
1 AAATTATCAATTATTAATATTTTAAAT
2728466 AAATTATCAATTATTAATATTTTAAA
1 AAATTATCAATTATTAATATTTTAAA
2728492 AATAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATTATCAATTATTAATATTTTAAAT
Found at i:2728543 original size:22 final size:21
Alignment explanation
Indices: 2728517--2728584 Score: 57
Period size: 24 Copynumber: 3.0 Consensus size: 21
2728507 AAATTAATCA
2728517 TAATAATATTTTAAATTAAAT
1 TAATAATATTTTAAATTAAAT
* *
2728538 TAAATATTAATATTTAAATGATTAAT
1 T-AATAAT-AT-TTTAAAT--TAAAT
*
2728564 TATTAATATTTT-AATTAAAT
1 TAATAATATTTTAAATTAAAT
2728584 T
1 T
2728585 CTAGATTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
20 5 0.14
21 1 0.03
22 8 0.22
23 5 0.14
24 9 0.24
25 4 0.11
26 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (21 bp):
TAATAATATTTTAAATTAAAT
Found at i:2728554 original size:19 final size:19
Alignment explanation
Indices: 2728532--2728583 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 19
2728522 ATATTTTAAA
2728532 TTAAATTAAATATTAATAT
1 TTAAATTAAATATTAATAT
*
2728551 TTAAATGATTAATTATTAATAT
1 TT-AA--ATTAAATATTAATAT
*
2728573 TTTAATTAAAT
1 TTAAATTAAAT
2728584 TCTAGATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 8 0.30
20 2 0.07
21 1 0.04
22 16 0.59
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TTAAATTAAATATTAATAT
Found at i:2732350 original size:2 final size:2
Alignment explanation
Indices: 2732343--2732377 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2732333 TAAAATATTT
2732343 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2732378 GCCTCAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2733894 original size:7 final size:7
Alignment explanation
Indices: 2733882--2733908 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2733872 CCATCTTTGA
2733882 TTCTTGT
1 TTCTTGT
2733889 TTCTTGT
1 TTCTTGT
2733896 TTCTTGT
1 TTCTTGT
2733903 TTCTTG
1 TTCTTG
2733909 GTCATGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.70
Consensus pattern (7 bp):
TTCTTGT
Found at i:2734713 original size:5 final size:5
Alignment explanation
Indices: 2734703--2734731 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2734693 GTATGTTCCA
2734703 CTTTT CTTTT CTTTT CTTTT CTTTT CTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTT
2734732 ATTTTTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:2737229 original size:20 final size:20
Alignment explanation
Indices: 2737206--2737250 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2737196 CACCCGTAGA
*
2737206 CAGCACAGGCAGCACGCACC
1 CAGCACAGACAGCACGCACC
*
2737226 CAGCATAGACAGCACGCACC
1 CAGCACAGACAGCACGCACC
2737246 CAGCA
1 CAGCA
2737251 GAGGGTATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.42, G:0.22, T:0.02
Consensus pattern (20 bp):
CAGCACAGACAGCACGCACC
Found at i:2741072 original size:29 final size:28
Alignment explanation
Indices: 2741032--2741086 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
2741022 CCCACTGTTT
*
2741032 TAGCACATTGCCT-GACTCGCAACTGACC
1 TAGCACACTGCCTAG-CTCGCAACTGACC
*
2741060 TAGCAGCACTGCCTAGCTCGCAGCTGA
1 TAGCA-CACTGCCTAGCTCGCAACTGA
2741087 TGGCTCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 17 0.74
30 1 0.04
ACGTcount: A:0.24, C:0.35, G:0.22, T:0.20
Consensus pattern (28 bp):
TAGCACACTGCCTAGCTCGCAACTGACC
Found at i:2741339 original size:20 final size:20
Alignment explanation
Indices: 2741316--2741360 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2741306 CACCCGCAGA
2741316 CAGCATAAG-CAGCACGCACC
1 CAGCA-AAGACAGCACGCACC
* *
2741336 CAGCACAGACAGCACGTACC
1 CAGCAAAGACAGCACGCACC
2741356 CAGCA
1 CAGCA
2741361 GAGGGTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.36, C:0.40, G:0.20, T:0.04
Consensus pattern (20 bp):
CAGCAAAGACAGCACGCACC
Found at i:2745664 original size:16 final size:15
Alignment explanation
Indices: 2745632--2745674 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
2745622 CAAATTAATA
*
2745632 AATTATTAATTTATC
1 AATTATTAATATATC
*
2745647 AATTATATAATATCTC
1 AATTAT-TAATATATC
2745663 AATTAATTAATA
1 AATT-ATTAATA
2745675 AATTTTCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 16 0.67
17 2 0.08
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATTAATATATC
Found at i:2745796 original size:14 final size:14
Alignment explanation
Indices: 2745772--2745805 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2745762 TTTAATTATT
2745772 AAGGA-AAGAAGAA
1 AAGGAGAAGAAGAA
*
2745785 CAGGAGAAGAAGAA
1 AAGGAGAAGAAGAA
2745799 AAGGAGA
1 AAGGAGA
2745806 CACACTCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.62, C:0.03, G:0.35, T:0.00
Consensus pattern (14 bp):
AAGGAGAAGAAGAA
Found at i:2747762 original size:3 final size:3
Alignment explanation
Indices: 2747749--2747778 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2747739 TGGAAATGGG
*
2747749 GGT GAT GGT GGT GGT GGT GGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
2747779 TCTTTTGGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.00, G:0.63, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:2754264 original size:54 final size:54
Alignment explanation
Indices: 2754205--2754342 Score: 215
Period size: 54 Copynumber: 2.6 Consensus size: 54
2754195 TTAAGATAGT
* *
2754205 TTAATGTGAAAATCTAATTTTAATTTTTTTTCTGTTCTATATCTATTATGATAC
1 TTAATGTGAAAATCTAATATTAATTTTTTTTCTGTTCTATATCTATTACGATAC
* *
2754259 TTAATGTGAAAATCTAATGTTAATTTTTTTTCTGTTTTATATCTATTACGATAC
1 TTAATGTGAAAATCTAATATTAATTTTTTTTCTGTTCTATATCTATTACGATAC
* *
2754313 TTAATGTG-AAATTTAATATTATTTTTTTTT
1 TTAATGTGAAAATCTAATATTAATTTTTTTT
2754343 GCTTTTATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 19 0.24
54 59 0.76
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.55
Consensus pattern (54 bp):
TTAATGTGAAAATCTAATATTAATTTTTTTTCTGTTCTATATCTATTACGATAC
Found at i:2754450 original size:152 final size:153
Alignment explanation
Indices: 2754258--2754561 Score: 391
Period size: 152 Copynumber: 2.0 Consensus size: 153
2754248 TATTATGATA
* * * * *
2754258 CTTAATGTGAAAATCTAATGTTAATTTTTTTTCTGTTTTATATCTATTACGATACTTAATGTG-A
1 CTTAATCTGAAAACCTAATGTTAATTTTTTTTCAGCTTTATATCTATTACGATACCTAATGTGAA
* * * *
2754322 AATTTAATATT-A-TTTT-TTTTTGCTTTTATGTTTATTTATATTGATGAATTTGAAAGCTTATA
66 AATCTAATATTAATTTTTCTTTTTG-TTTTATATCTATTTATATTGATGAATCTGAAAGCTTATA
2754384 TTTAAATTATTAATGAAATATTTTAG
130 TTTAAATTATTAAT-AAA-ATTTTAG
* **
2754410 CTTAATCTGAAAACCTAATGTTAATTTTTTTTCAGCTTTATATTTATTATTATACCTAATGTGAA
1 CTTAATCTGAAAACCTAATGTTAATTTTTTTTCAGCTTTATATCTATTACGATACCTAATGTGAA
* * * *
2754475 AATCTAATGTTAATTTTTCTTTTTGTTTTATATCTATTTATATTGGTGAATCTGAAAGTTTATGT
66 AATCTAATATTAATTTTTCTTTTTGTTTTATATCTATTTATATTGATGAATCTGAAAGCTTATAT
* *
2754540 TTAAGTTGTTAATAAAATTTTA
131 TTAAATTATTAATAAAATTTTA
2754562 TATTATAATT
Statistics
Matches: 130, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
152 55 0.42
153 16 0.12
154 4 0.03
155 49 0.38
156 6 0.05
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (153 bp):
CTTAATCTGAAAACCTAATGTTAATTTTTTTTCAGCTTTATATCTATTACGATACCTAATGTGAA
AATCTAATATTAATTTTTCTTTTTGTTTTATATCTATTTATATTGATGAATCTGAAAGCTTATAT
TTAAATTATTAATAAAATTTTAG
Found at i:2767645 original size:77 final size:77
Alignment explanation
Indices: 2767564--2767718 Score: 229
Period size: 77 Copynumber: 2.0 Consensus size: 77
2767554 ATAAATTGAA
* * * *
2767564 TAAATCTTCCTAATAATTATAATAAAAAATATTTCAATGATGGTCATTTGATGAATACACATTTA
1 TAAATCTTACTAATAATCATAATAAAAAATATTTCAATGATGGTCATTTAATAAATACACATTTA
*
2767629 TAAGTATAGGTT
66 TAAGTATAAGTT
* **
2767641 TAAATCTTACTAATAGTCATAATAAAAAATATTTCAATGATTTTCATTTAATAAATACACATTTA
1 TAAATCTTACTAATAATCATAATAAAAAATATTTCAATGATGGTCATTTAATAAATACACATTTA
*
2767706 TAATTATAAGTT
66 TAAGTATAAGTT
2767718 T
1 T
2767719 TGGATATCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (77 bp):
TAAATCTTACTAATAATCATAATAAAAAATATTTCAATGATGGTCATTTAATAAATACACATTTA
TAAGTATAAGTT
Found at i:2776133 original size:26 final size:27
Alignment explanation
Indices: 2776103--2776167 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
2776093 ATTGTTATAT
*
2776103 GTCATGTTTAA-AAAATGTTGTTACAC
1 GTCATGTTTAATAAAATGTTATTACAC
* **
2776129 TTCATGTCGAAATAAAATGTTATTACAC
1 GTCATGT-TTAATAAAATGTTATTACAC
2776157 GTCATGTTTAA
1 GTCATGTTTAA
2776168 GGTATTTAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 6 0.20
27 4 0.13
28 20 0.67
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (27 bp):
GTCATGTTTAATAAAATGTTATTACAC
Found at i:2776231 original size:124 final size:124
Alignment explanation
Indices: 2776103--2776489 Score: 295
Period size: 124 Copynumber: 3.1 Consensus size: 124
2776093 ATTGTTATAT
* * * *
2776103 GTCATGTT-TAAAAAATGTTGTTACACT-TCATGTCGAAATAAAATGTTATTACACGTCATGTTT
1 GTCATGTTGAAAAAAAAGTTGTTACA-TGCCATGTCGAAA-AAAA-GTTATTACACGTCATATTT
* *
2776166 AAGGTATTTAA-TTTAAGAGTTTATGTCATT-GTGAAATACAAAGATAGAGATCAAGTTACAA
63 AAGGTATTTAACTCTAAGAGTTTATATC-TTAGTGAAATACAAAGATAGAGATCAAGTTACAA
* * * * *
2776227 GTCATGTTGAAAAAAAAGTTGTTACATGCCATGTTGGAAAAAAGTTATTATACTTTATATTTAAG
1 GTCATGTTGAAAAAAAAGTTGTTACATGCCATGTCGAAAAAAAGTTATTACACGTCATATTTAAG
* * * *
2776292 GTATTTAACTCTAAGAGTTTATATCTTAGTGAAATACAAAAATAAAGA-CTAAATTACAT
66 GTATTTAACTCTAAGAGTTTATATCTTAGTGAAATACAAAGATAGAGATC-AAGTTACAA
* * * * * ** * * * * *
2776351 GCCAAGTT-TAAAAAAA-TTGTTGCATGTCATGTTAAAAATAAAAATTATTGCATGCCATATTAA
1 GTCATGTTGAAAAAAAAGTTGTTACATGCCATG-TCGAAA-AAAAGTTATTACACGTCATATTTA
* * * * * * ** * * * *
2776414 AGATATTTAACTCCAACAATTTATGT-TATAATGAAATACAGCGATAAAGACCAAGTTATAT
64 AGGTATTTAACTCTAAGAGTTTATATCT-TAGTGAAATACAAAGATAGAGATCAAGTTACAA
2776475 GTCATGTTGAAAAAA
1 GTCATGTTGAAAAAA
2776490 TAAAAGTTAT
Statistics
Matches: 208, Mismatches: 45, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
122 13 0.06
123 40 0.19
124 126 0.61
125 29 0.14
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (124 bp):
GTCATGTTGAAAAAAAAGTTGTTACATGCCATGTCGAAAAAAAGTTATTACACGTCATATTTAAG
GTATTTAACTCTAAGAGTTTATATCTTAGTGAAATACAAAGATAGAGATCAAGTTACAA
Found at i:2776706 original size:123 final size:125
Alignment explanation
Indices: 2776476--2776714 Score: 301
Period size: 123 Copynumber: 1.9 Consensus size: 125
2776466 AAGTTATATG
2776476 TCATGTTGAAAAAATAAAAGTTATTACATGTCATGTTTAAGGGGTTTAACTTCAATAGTTTATGT
1 TCATGTTGAAAAAATAAAAGTTATTACATGTCATGTTTAAGGGGTTTAACTTC-ATA---TATGT
*
2776541 TCTAATAAAATAAAAAGATAGACACTAAATTACATGCCATATTGAAAGAAAAAAAAATTTTATAC
62 TCTAATAAAATAAAAAGATAGACACCAAATTACATGCCATATT-AAA-AAAAAAAAATTTTATAC
2776606 A
125 A
* *
2776607 TCATGTTGGAAAAAA-AAAA-TTATTACATG-CTATGTTTAAGGTGTTTAAC-TC-TA-ATGTTT
1 TCATGTT-GAAAAAATAAAAGTTATTACATGTC-ATGTTTAAGGGGTTTAACTTCATATATGTTC
* * **
2776666 TAATAAAATACAAAGATAGAGACCAAATTACATGTTATATTAAAAAAAA
64 TAATAAAATAAAAAGATAGACACCAAATTACATGCCATATTAAAAAAAA
2776715 TTATTACATA
Statistics
Matches: 99, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
121 5 0.05
122 3 0.03
123 41 0.41
127 2 0.02
129 3 0.03
130 27 0.27
131 11 0.11
132 7 0.07
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (125 bp):
TCATGTTGAAAAAATAAAAGTTATTACATGTCATGTTTAAGGGGTTTAACTTCATATATGTTCTA
ATAAAATAAAAAGATAGACACCAAATTACATGCCATATTAAAAAAAAAAAATTTTATACA
Found at i:2776722 original size:25 final size:27
Alignment explanation
Indices: 2776692--2776764 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
2776682 TAGAGACCAA
* *
2776692 ATTACATGTTATATT-AAAA-AAAATT
1 ATTACATATCATATTAAAAATAAAATT
*
2776717 ATTACATATCATGTTAAAAATAAAATT
1 ATTACATATCATATTAAAAATAAAATT
* *
2776744 ATTACACATCATGTTAAAAAT
1 ATTACATATCATATTAAAAAT
2776765 CAAGAAAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.29
26 4 0.10
27 26 0.62
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (27 bp):
ATTACATATCATATTAAAAATAAAATT
Found at i:2776748 original size:27 final size:27
Alignment explanation
Indices: 2776707--2776764 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
2776697 ATGTTATATT
*
2776707 AAAA-AAAATTATTACATATCATGTTA
1 AAAATAAAATTATTACACATCATGTTA
2776733 AAAATAAAATTATTACACATCATGTTA
1 AAAATAAAATTATTACACATCATGTTA
2776760 AAAAT
1 AAAAT
2776765 CAAGAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAATAAAATTATTACACATCATGTTA
Found at i:2776758 original size:116 final size:120
Alignment explanation
Indices: 2776476--2776758 Score: 274
Period size: 123 Copynumber: 2.3 Consensus size: 120
2776466 AAGTTATATG
**
2776476 TCATGTTGAAAAAATAAAAGTTATTACATGTCATGTTTAAGGGGTTTAACTTCAATAGTTTATGT
1 TCATGTTG-AAAAATAAAA-TTATTACACATCATGTTTAAGGGGTTTAACTTC-ATA---TATGT
* *
2776541 TCTAATAAAATAAAAAGATAGACACTAAATTACATGCCATATTGAAAGAAAAAAAAATTTTATAC
60 TCTAATAAAATAAAAAGATAGACACCAAATTACATGCCATATT-----AAAAAAAAATTTTACAC
2776606 A
120 A
* * *
2776607 TCATGTTGGAAAAAAAAAATTATT--ACATGCTATGTTTAAGGTGTTTAAC-TC-TA-ATGTTTT
1 TCATGTT-GAAAAATAAAATTATTACACAT-C-ATGTTTAAGGGGTTTAACTTCATATATGTTCT
* * ** *
2776667 AATAAAATACAAAGATAGAGACCAAATTACATGTTATATT-AAAAAAAATTATTACATA
63 AATAAAATAAAAAGATAGACACCAAATTACATGCCATATTAAAAAAAAATT-TTACACA
2776725 TCATGTT-AAAAATAAAATTATTACACATCATGTT
1 TCATGTTGAAAAATAAAATTATTACACATCATGTT
2776759 AAAAATCAAG
Statistics
Matches: 133, Mismatches: 13, Indels: 27
0.77 0.08 0.16
Matches are distributed among these distances:
116 19 0.14
117 11 0.08
118 16 0.12
123 41 0.31
127 2 0.02
128 2 0.02
129 3 0.02
130 22 0.17
131 16 0.12
132 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (120 bp):
TCATGTTGAAAAATAAAATTATTACACATCATGTTTAAGGGGTTTAACTTCATATATGTTCTAAT
AAAATAAAAAGATAGACACCAAATTACATGCCATATTAAAAAAAAATTTTACACA
Found at i:2776969 original size:2 final size:2
Alignment explanation
Indices: 2776962--2776999 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2776952 ACTATTATGA
*
2776962 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2777000 TATTATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2790511 original size:2 final size:2
Alignment explanation
Indices: 2790498--2790557 Score: 75
Period size: 2 Copynumber: 30.0 Consensus size: 2
2790488 ACCTGGCTAC
* * *
2790498 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2790540 AT GT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2790558 GGTTTATTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2797492 original size:2 final size:2
Alignment explanation
Indices: 2797485--2797521 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2797475 TTCCATGAAA
2797485 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2797522 TGAACCAGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2811511 original size:21 final size:22
Alignment explanation
Indices: 2811479--2811519 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
2811469 AATATAAAAA
2811479 TATTATGTTATTATTTTAATGT
1 TATTATGTTATTATTTTAATGT
2811501 TATTA-GTTATTATTTTAAT
1 TATTATGTTATTATTTTAAT
2811520 TGCTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATTATGTTATTATTTTAATGT
Found at i:2811867 original size:16 final size:16
Alignment explanation
Indices: 2811845--2811882 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2811835 TTATTATTTT
*
2811845 TTAAAAAATATTT-AA
1 TTAAAAAACATTTGAA
2811860 TATAAAAAACATTTGAA
1 T-TAAAAAACATTTGAA
2811877 TTAAAA
1 TTAAAA
2811883 TTTCTGTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.80
17 3 0.15
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (16 bp):
TTAAAAAACATTTGAA
Found at i:2813967 original size:3 final size:3
Alignment explanation
Indices: 2813959--2813985 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2813949 TCAGCCATTA
2813959 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
2813986 TTGTTATCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2837289 original size:13 final size:13
Alignment explanation
Indices: 2837271--2837297 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2837261 TACTAAAGCC
2837271 TTTTTGTTTTTGA
1 TTTTTGTTTTTGA
2837284 TTTTTGTTTTTGA
1 TTTTTGTTTTTGA
2837297 T
1 T
2837298 GGAACCCGCT
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:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (13 bp):
TTTTTGTTTTTGA
Found at i:2846147 original size:15 final size:15
Alignment explanation
Indices: 2846113--2846153 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
2846103 AAAGATTTTA
*
2846113 ATTTTAAAGCTTTGG
1 ATTTTAAAGTTTTGG
2846128 ATTTTAAAGTTTTCGG
1 ATTTTAAAGTTTT-GG
2846144 -TTTTAAAGTT
1 ATTTTAAAGTT
2846154 GTTTTAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 22 0.92
16 2 0.08
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (15 bp):
ATTTTAAAGTTTTGG
Found at i:2848955 original size:65 final size:65
Alignment explanation
Indices: 2848809--2849045 Score: 199
Period size: 65 Copynumber: 3.6 Consensus size: 65
2848799 ATAACTTTAA
* * ** * * * * * **
2848809 CAACCATAGAATAGTGATATTTCCCCCTCACTATCAAGGGAAATTGCATACTACCATGGGACTTC
1 CAACCATGGGATAGTGATATTTTGCCTTTACTATCAAGGG-AATCGTATAATACTGTGGGACTTC
2848874 T
65 T
** * *
2848875 CAACCATTAGATAGTGAT-TTTTGCCTTTCACTATCAAGGGAATCGTATATTGCTGTGGGACTTC
1 CAACCATGGGATAGTGATATTTTGCCTTT-ACTATCAAGGGAATCGTATAATACTGTGGGACTTC
2848939 T
65 T
* ** * * * * *
2848940 CAACCACGGGATAGTGATATTTCCCCTTTACTATTAAGTGAATTGTATAATATTGTGGAACTTCT
1 CAACCATGGGATAGTGATATTTTGCCTTTACTATCAAGGGAATCGTATAATACTGTGGGACTTCT
* * *
2849005 CAACAATGGGATATTGATATTTTGTCC-TTACTATCTAGGGA
1 CAACCATGGGATAGTGATATTTTG-CCTTTACTATCAAGGGA
2849046 GCTCATGTAT
Statistics
Matches: 135, Mismatches: 33, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
65 99 0.73
66 36 0.27
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (65 bp):
CAACCATGGGATAGTGATATTTTGCCTTTACTATCAAGGGAATCGTATAATACTGTGGGACTTCT
Found at i:2851044 original size:21 final size:21
Alignment explanation
Indices: 2851020--2851059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2851010 CAATAATTGG
2851020 TCCTTAAGCATCAATACTTAT
1 TCCTTAAGCATCAATACTTAT
* *
2851041 TCCTTAAGTATCGATACTT
1 TCCTTAAGCATCAATACTT
2851060 TTCACAATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (21 bp):
TCCTTAAGCATCAATACTTAT
Found at i:2858829 original size:38 final size:37
Alignment explanation
Indices: 2858782--2858871 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 37
2858772 TACGTGTGTT
2858782 ATTCAAAACACCCTAGTAGAAAAAG-A-ATTGCAAGTAGA
1 ATTCAAAACACCCTA--A-AAAAAGAACATTGCAAGTAGA
* * *
2858820 ATTCGAAACACCCCAAAAAAAGAAACATTGCAAGTAGT
1 ATTCAAAACACCCTAAAAAAAG-AACATTGCAAGTAGA
2858858 ATTCAAAACACCCT
1 ATTCAAAACACCCT
2858872 CAAGAGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 6 0.14
36 1 0.02
37 1 0.02
38 36 0.82
ACGTcount: A:0.49, C:0.21, G:0.12, T:0.18
Consensus pattern (37 bp):
ATTCAAAACACCCTAAAAAAAGAACATTGCAAGTAGA
Found at i:2859106 original size:33 final size:33
Alignment explanation
Indices: 2859068--2859162 Score: 102
Period size: 33 Copynumber: 2.9 Consensus size: 33
2859058 GACAACTTCA
* *
2859068 ATAGTGGCATTCACATTATCACCACCAACT-CT
1 ATAGTGGCATTCACATCATCACCACCAACTCCC
* * *
2859100 AGTAGTGGCATCCACATCATCATCACTAACTCCC
1 A-TAGTGGCATTCACATCATCACCACCAACTCCC
* * *
2859134 ATAATGGCATTCACCTCATCACCCCCAAC
1 ATAGTGGCATTCACATCATCACCACCAAC
2859163 ATTTTATATA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
32 1 0.02
33 47 0.94
34 2 0.04
ACGTcount: A:0.31, C:0.36, G:0.09, T:0.24
Consensus pattern (33 bp):
ATAGTGGCATTCACATCATCACCACCAACTCCC
Found at i:2861332 original size:2 final size:2
Alignment explanation
Indices: 2861319--2861381 Score: 101
Period size: 2 Copynumber: 31.5 Consensus size: 2
2861309 TAAACAAATA
*
2861319 AT AT AT AGT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2861362 AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
2861382 AATCATTAGG
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 54 0.95
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2861991 original size:3 final size:3
Alignment explanation
Indices: 2861980--2862015 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2861970 TAATAAATGA
2861980 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2862016 GTACAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2863339 original size:27 final size:27
Alignment explanation
Indices: 2863309--2863394 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
2863299 TCCCAAAGCG
* * *
2863309 GAAGCATTTAGGGGTGTTTCAAGTATA
1 GAAGCATCTAGAGGTGTTTCAAGTACA
* *
2863336 GAAGCATCTAGAGTTGTTTCAAGTGCA
1 GAAGCATCTAGAGGTGTTTCAAGTACA
* * **
2863363 GAAGCACCTA-AGGTTGTTCCAAGCGCA
1 GAAGCATCTAGAGG-TGTTTCAAGTACA
2863390 GAAGC
1 GAAGC
2863395 GCTCAAGGGC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.04
27 47 0.96
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (27 bp):
GAAGCATCTAGAGGTGTTTCAAGTACA
Found at i:2863402 original size:27 final size:27
Alignment explanation
Indices: 2863335--2863394 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
2863325 TTTCAAGTAT
* * *
2863335 AGAAGCATCT-AGAGTTGTTTCAAGTGC
1 AGAAGCACCTAAG-GTTGTTCCAAGCGC
2863362 AGAAGCACCTAAGGTTGTTCCAAGCGC
1 AGAAGCACCTAAGGTTGTTCCAAGCGC
2863389 AGAAGC
1 AGAAGC
2863395 GCTCAAGGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (27 bp):
AGAAGCACCTAAGGTTGTTCCAAGCGC
Found at i:2863926 original size:27 final size:27
Alignment explanation
Indices: 2863892--2863961 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
2863882 GCCTTGAGGT
*
2863892 TGTTCCAAGCGTAAAAGCACCCAAGAG
1 TGTTCCAAGCGCAAAAGCACCCAAGAG
* * * *
2863919 TGTTCCAAGCACAAAAGCATCTAAGGG
1 TGTTCCAAGCGCAAAAGCACCCAAGAG
2863946 TGTTCCAAGCGCAAAA
1 TGTTCCAAGCGCAAAA
2863962 TCGCCTAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (27 bp):
TGTTCCAAGCGCAAAAGCACCCAAGAG
Found at i:2864534 original size:14 final size:14
Alignment explanation
Indices: 2864515--2864549 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2864505 AATATTTTTT
2864515 CCATTCAACTCTTC
1 CCATTCAACTCTTC
*
2864529 CCATTCAACTTTTC
1 CCATTCAACTCTTC
2864543 CCATTCA
1 CCATTCA
2864550 TTGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (14 bp):
CCATTCAACTCTTC
Found at i:2865458 original size:16 final size:16
Alignment explanation
Indices: 2865426--2865472 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
2865416 TTTAATTATG
2865426 TATATCTAGATTTAGATT
1 TATAT-TAGA-TTAGATT
2865444 TATATTAGATTAGATT
1 TATATTAGATTAGATT
*
2865460 AATATTAGGATTA
1 TATATTA-GATTA
2865473 AATCCATCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 13 0.48
17 9 0.33
18 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (16 bp):
TATATTAGATTAGATT
Found at i:2881230 original size:12 final size:12
Alignment explanation
Indices: 2881213--2881237 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2881203 GTTAAGAGTG
2881213 TTTTTTTCTTTT
1 TTTTTTTCTTTT
2881225 TTTTTTTCTTTT
1 TTTTTTTCTTTT
2881237 T
1 T
2881238 CCAAGTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:2889135 original size:15 final size:15
Alignment explanation
Indices: 2889115--2889147 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2889105 TTGAGAAGAA
2889115 TTAAAATGAAAAGTT
1 TTAAAATGAAAAGTT
*
2889130 TTAAAATGGAAAGTT
1 TTAAAATGAAAAGTT
2889145 TTA
1 TTA
2889148 TTTCAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (15 bp):
TTAAAATGAAAAGTT
Found at i:2890092 original size:28 final size:28
Alignment explanation
Indices: 2890052--2890112 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
2890042 ACATGCGGTC
2890052 TTATTGGTGAGTGGTATTGTGTATGGTG
1 TTATTGGTGAGTGGTATTGTGTATGGTG
*
2890080 TTATTGGTGAGTGGTATTGTGTATGTTG
1 TTATTGGTGAGTGGTATTGTGTATGGTG
2890108 TTATT
1 TTATT
2890113 AGGTTTGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (28 bp):
TTATTGGTGAGTGGTATTGTGTATGGTG
Found at i:2890802 original size:3 final size:3
Alignment explanation
Indices: 2890794--2890845 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
2890784 TGAATCCTAA
*
2890794 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
2890843 AAT
1 AAT
2890846 GGTTGGTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2891766 original size:21 final size:22
Alignment explanation
Indices: 2891717--2891809 Score: 107
Period size: 22 Copynumber: 4.3 Consensus size: 22
2891707 GCGATCCTGA
* * *
2891717 TTTTTAAGTATTACGTGACTGG
1 TTTTTAGGCATTACGTGATTGG
* *
2891739 TTTTTAGACGTTACGTGATTGG
1 TTTTTAGGCATTACGTGATTGG
* *
2891761 -TTTTAGGCATTGCATGATTGG
1 TTTTTAGGCATTACGTGATTGG
*
2891782 TTTTTAGGCATTGCGTGATTGG
1 TTTTTAGGCATTACGTGATTGG
2891804 TTTTTA
1 TTTTTA
2891810 AGCAATGCCT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.28
22 43 0.72
ACGTcount: A:0.18, C:0.09, G:0.26, T:0.47
Consensus pattern (22 bp):
TTTTTAGGCATTACGTGATTGG
Found at i:2891911 original size:23 final size:23
Alignment explanation
Indices: 2891821--2891922 Score: 102
Period size: 23 Copynumber: 4.5 Consensus size: 23
2891811 GCAATGCCTA
*
2891821 AGTCATACAATGCCATACTAACT
1 AGTCATGCAATGCCATACTAACT
* * *
2891844 AATCATGCAATGCCTTACTAACA
1 AGTCATGCAATGCCATACTAACT
*
2891867 AGTCACGCAATGCC-TA-TCAACT
1 AGTCATGCAATGCCATACT-AACT
*
2891889 AGTTATGCAATGCCATA-TCAACT
1 AGTCATGCAATGCCATACT-AACT
*
2891912 AGTCACGCAAT
1 AGTCATGCAAT
2891923 ACTTAAAAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 1 0.02
22 17 0.26
23 48 0.73
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.25
Consensus pattern (23 bp):
AGTCATGCAATGCCATACTAACT
Found at i:2891934 original size:45 final size:45
Alignment explanation
Indices: 2891840--2891945 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 45
2891830 ATGCCATACT
* * * **
2891840 AACTAATCATGCAATGCCTTACTAACAAGTCACGCAATGCCTATC
1 AACTAGTCATGCAATGCCATACTAACAAGTCACGCAATACCTAAA
* * *
2891885 AACTAGTTATGCAATGCCATA-TCAACTAGTCACGCAATACTTAAA
1 AACTAGTCATGCAATGCCATACT-AACAAGTCACGCAATACCTAAA
*
2891930 AACTAGTCACGCAATG
1 AACTAGTCATGCAATG
2891946 TCCAAAGTCA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.02
45 49 0.98
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (45 bp):
AACTAGTCATGCAATGCCATACTAACAAGTCACGCAATACCTAAA
Found at i:2891936 original size:22 final size:22
Alignment explanation
Indices: 2891908--2892005 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 22
2891898 ATGCCATATC
2891908 AACTAGTCACGCAATACTTAAA
1 AACTAGTCACGCAATACTTAAA
* **
2891930 AACTAGTCACGCAAT--GTCCA
1 AACTAGTCACGCAATACTTAAA
* *
2891950 AAGTCAGTCACACAATACTTAAA
1 AACT-AGTCACGCAATACTTAAA
* * * **
2891973 AATTAATCACACAATGGTTAAA
1 AACTAGTCACGCAATACTTAAA
2891995 AACTAGTCACG
1 AACTAGTCACG
2892006 TAATGCTCAA
Statistics
Matches: 58, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
20 5 0.09
21 10 0.17
22 38 0.66
23 5 0.09
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (22 bp):
AACTAGTCACGCAATACTTAAA
Found at i:2892037 original size:21 final size:21
Alignment explanation
Indices: 2891912--2892046 Score: 67
Period size: 22 Copynumber: 6.3 Consensus size: 21
2891902 CATATCAACT
* * *
2891912 AGTCACGCAATACTTAAAAAC
1 AGTCACGCAATGCTCAAAATC
*
2891933 TAGTCACGCAATG-TCCAAAGTC
1 -AGTCACGCAATGCT-CAAAATC
* * * *
2891955 AGTCACACAATACTTAAAAATT
1 AGTCACGCAATGC-TCAAAATC
* * * * *
2891977 AATCACACAATGGTTAAAAAC
1 AGTCACGCAATGCTCAAAATC
* *
2891998 TAGTCACGTAATGCTCAAAGTC
1 -AGTCACGCAATGCTCAAAATC
2892020 AGTCACGCAATG-TCCAAAATC
1 AGTCACGCAATGCT-CAAAATC
*
2892041 AATCAC
1 AGTCAC
2892047 ATAATCTTTT
Statistics
Matches: 83, Mismatches: 25, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
20 1 0.01
21 38 0.46
22 43 0.52
23 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (21 bp):
AGTCACGCAATGCTCAAAATC
Found at i:2892682 original size:22 final size:22
Alignment explanation
Indices: 2892638--2892684 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2892628 CAATTAATTA
* * *
2892638 TTAGGTATTGCATTACTGGTTT
1 TTAGGCATTGCATGACTGATTT
*
2892660 TTAGGCATTGCATGATTGATTT
1 TTAGGCATTGCATGACTGATTT
2892682 TTA
1 TTA
2892685 AGCAATGCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.09, G:0.21, T:0.49
Consensus pattern (22 bp):
TTAGGCATTGCATGACTGATTT
Found at i:2892724 original size:23 final size:24
Alignment explanation
Indices: 2892693--2892740 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
2892683 TAAGCAATGC
2892693 CTAAGTCATACAATGCCATACTAA
1 CTAAGTCATACAATGCCATACTAA
* *
2892717 CTAA-TCATGCAATGCCTTACTAA
1 CTAAGTCATACAATGCCATACTAA
2892740 C
1 C
2892741 AATTCACGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (24 bp):
CTAAGTCATACAATGCCATACTAA
Found at i:2892751 original size:23 final size:23
Alignment explanation
Indices: 2892703--2892756 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
2892693 CTAAGTCATA
* *
2892703 CAATGCCATACTAACTAATCATG
1 CAATGCCTTACTAACTAATCACG
2892726 CAATGCCTTACTAAC-AATTCACG
1 CAATGCCTTACTAACTAA-TCACG
2892749 CAATGCCT
1 CAATGCCT
2892757 ATCAACTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 2 0.07
23 26 0.93
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (23 bp):
CAATGCCTTACTAACTAATCACG
Found at i:2892811 original size:22 final size:22
Alignment explanation
Indices: 2892783--2892878 Score: 79
Period size: 22 Copynumber: 4.5 Consensus size: 22
2892773 ATGTCATATC
2892783 AACTAGTCACACAATACTTAAA
1 AACTAGTCACACAATACTTAAA
* * *
2892805 AACTAGTCACGCAATGC-CAAA
1 AACTAGTCACACAATACTTAAA
** *
2892826 GTC-AGTTACACAATACTTAAA
1 AACTAGTCACACAATACTTAAA
* * **
2892847 AATTAATCACACAATGGTTAAA
1 AACTAGTCACACAATACTTAAA
*
2892869 AATTAGTCAC
1 AACTAGTCAC
2892879 GAAATGCTCA
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
20 10 0.18
21 7 0.13
22 38 0.69
ACGTcount: A:0.46, C:0.21, G:0.09, T:0.24
Consensus pattern (22 bp):
AACTAGTCACACAATACTTAAA
Found at i:2892911 original size:21 final size:21
Alignment explanation
Indices: 2892867--2892933 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
2892857 ACAATGGTTA
*
2892867 AAAATTAGTCACGAAATG-CTC
1 AAAATCAGTCACGAAATGTC-C
* *
2892888 AAAGTCAGTCACGCAATGTCC
1 AAAATCAGTCACGAAATGTCC
*
2892909 AAAATCAATCAC-ATAATGTCC
1 AAAATCAGTCACGA-AATGTCC
2892930 AAAA
1 AAAA
2892934 ACTACCAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.21
Consensus pattern (21 bp):
AAAATCAGTCACGAAATGTCC
Found at i:2892913 original size:64 final size:64
Alignment explanation
Indices: 2892789--2892926 Score: 161
Period size: 64 Copynumber: 2.2 Consensus size: 64
2892779 TATCAACTAG
* * * * *
2892789 TCACACAATACTTAAAAACTAGTCACGCAATGCCAAAGTCAGTTACACAATACTTAAAAATTAA
1 TCACACAATGCTTAAAAACTAGTCACGAAATGCCAAAGTCAGTCACACAATACTCAAAAATCAA
* * * * *
2892853 TCACACAATGGTTAAAAATTAGTCACGAAATGCTCAAAGTCAGTCACGCAAT-GTCCAAAATCAA
1 TCACACAATGCTTAAAAACTAGTCACGAAATGC-CAAAGTCAGTCACACAATACTCAAAAATCAA
*
2892917 TCACATAATG
1 TCACACAATG
2892927 TCCAAAAACT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
64 46 0.74
65 16 0.26
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (64 bp):
TCACACAATGCTTAAAAACTAGTCACGAAATGCCAAAGTCAGTCACACAATACTCAAAAATCAA
Found at i:2899424 original size:14 final size:13
Alignment explanation
Indices: 2899399--2899432 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
2899389 TTATAAAAAT
*
2899399 AAATAGAAAATAA
1 AAATAAAAAATAA
2899412 AAAGTAAAAAATAA
1 AAA-TAAAAAATAA
2899426 AAATAAA
1 AAATAAA
2899433 GGACATACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:2899966 original size:14 final size:14
Alignment explanation
Indices: 2899949--2899979 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2899939 TATTTTAGCC
*
2899949 TTATTATTATTTTG
1 TTATTATTATATTG
2899963 TTATTATTATATTG
1 TTATTATTATATTG
2899977 TTA
1 TTA
2899980 GTCGTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (14 bp):
TTATTATTATATTG
Found at i:2901169 original size:48 final size:48
Alignment explanation
Indices: 2901075--2901169 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
2901065 TCAAAGTCTC
* *
2901075 AGATAGAACTAGTGGTGAAGTCTAAAAGAACTAACATAAAAGGATATG
1 AGATAGAACTAGTGGTGAAGCCTAAAAGAACTAACACAAAAGGATATG
*
2901123 AGATATAACTAGTGGTGAAGCCTAAAAGAACTAACACAGAAA-GATAT
1 AGATAGAACTAGTGGTGAAGCCTAAAAGAACTAACACA-AAAGGATAT
2901170 AAGAGTAGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 40 0.93
49 3 0.07
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.20
Consensus pattern (48 bp):
AGATAGAACTAGTGGTGAAGCCTAAAAGAACTAACACAAAAGGATATG
Found at i:2914500 original size:20 final size:20
Alignment explanation
Indices: 2914453--2914500 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2914443 TCCAAACTAG
*
2914453 TAATGTTTTAATCAATTAAAA
1 TAAT-TTTTAACCAATTAAAA
*
2914474 -ATCTTTTTAACCAATTAAAA
1 TA-ATTTTTAACCAATTAAAA
2914494 TAATTTT
1 TAATTTT
2914501 GTTCTCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (20 bp):
TAATTTTTAACCAATTAAAA
Found at i:2916102 original size:22 final size:22
Alignment explanation
Indices: 2916053--2916109 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
2916043 GTTGTGTAAT
* * *
2916053 GCGTGACTAGTTTGTAGGTATT
1 GCGTGACTTGTTTGTAGGCATC
2916075 GCGTGACTTGTTTGTAGGCATC
1 GCGTGACTTGTTTGTAGGCATC
*
2916097 GTGTGACTTGTTT
1 GCGTGACTTGTTT
2916110 TTAGTAATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.14, C:0.12, G:0.32, T:0.42
Consensus pattern (22 bp):
GCGTGACTTGTTTGTAGGCATC
Found at i:2916932 original size:22 final size:22
Alignment explanation
Indices: 2916913--2916977 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
2916903 TGGGCATTAA
2916913 GTGAATGGATATTATGCATTGT
1 GTGAATGGATATTATGCATTGT
2916935 GTGAATGGATATTATGCATTGT
1 GTGAATGGATATTATGCATTGT
* *
2916957 CTGAATGGATATTAGGCATTG
1 GTGAATGGATATTATGCATTG
2916978 CGTGTCTAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.38
Consensus pattern (22 bp):
GTGAATGGATATTATGCATTGT
Found at i:2917776 original size:31 final size:31
Alignment explanation
Indices: 2917738--2918439 Score: 709
Period size: 31 Copynumber: 22.5 Consensus size: 31
2917728 ATGACATTGA
* *
2917738 TTATATGCATGGCGTGTTACAACATTTAACG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2917769 TTATATGCATGGCGTGTTACCACATTTTATG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2917800 TTATATGCATGGCGTTTTACCACATTTTACG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2917831 TTATATGCATGGCGTGTTACCACATTTTATG
1 TTATATGCATGGCGTGTTACCACATTTTACG
* * *
2917862 CTATATGCATGGCGTGTTACAACATTTTATG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2917893 TTATATGCATGGCGTGTTACAACATTTTACG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2917924 TTATATACATGGCGTGTTACCACATTTTACG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2917955 TTATATGCATGGTGTGTTACCACATTTT-CTG
1 TTATATGCATGGCGTGTTACCACATTTTAC-G
* * *
2917986 TTAAATGCATGGCGTGTTACAACATTTTATG
1 TTATATGCATGGCGTGTTACCACATTTTACG
* *
2918017 CTATATGCATGGCGTGTTACCACATTTTATG
1 TTATATGCATGGCGTGTTACCACATTTTACG
* *
2918048 CTATATGCATGGCGTGTTACCACATTTTATG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2918079 TTATATGCATGGCGTGTTACAACATTTTACG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*************************
2918110 TTATATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 TTATAT---------GCATGGCGTGTTACCACATTTTACG
** *
2918150 NNATATGTCATGGCGTGTTACCACATTTTATG
1 TTATATG-CATGGCGTGTTACCACATTTTACG
*
2918182 TTATATGCATGGCGTGTTACAACATTTTACG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2918213 TTATATGCATGGCGTGTTATCACATTTTACG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2918244 TTATATGCATGGCGTGTTACCACATTTTTCG
1 TTATATGCATGGCGTGTTACCACATTTTACG
* * *
2918275 TTAAATGCATGGCGTGTTACGATATTTTACG
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2918306 TTATATGCATGGCGTGTTACCACATTTTTCG
1 TTATATGCATGGCGTGTTACCACATTTTACG
* * *
2918337 TTAAATGCATGGCGTGTTACGATATTTTAC-
1 TTATATGCATGGCGTGTTACCACATTTTACG
* *
2918367 ------GCATGGTGTGTTACCACATTTTACA
1 TTATATGCATGGCGTGTTACCACATTTTACG
*
2918392 TTATATGCATGGCGTGTTACAACATTTTACG
1 TTATATGCATGGCGTGTTACCACATTTTACG
2918423 TTATATGCATGGCGTGT
1 TTATATGCATGGCGTGT
2918440 AACAACATGA
Statistics
Matches: 549, Mismatches: 103, Indels: 38
0.80 0.15 0.06
Matches are distributed among these distances:
24 21 0.04
30 1 0.00
31 518 0.94
32 5 0.01
40 4 0.01
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.38
Consensus pattern (31 bp):
TTATATGCATGGCGTGTTACCACATTTTACG
Found at i:2918377 original size:24 final size:24
Alignment explanation
Indices: 2918343--2918390 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2918333 TTCGTTAAAT
* *
2918343 GCATGGCGTGTTACGATATTTTAC
1 GCATGGCGTGTTACCACATTTTAC
*
2918367 GCATGGTGTGTTACCACATTTTAC
1 GCATGGCGTGTTACCACATTTTAC
2918391 ATTATATGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (24 bp):
GCATGGCGTGTTACCACATTTTAC
Found at i:2918382 original size:55 final size:55
Alignment explanation
Indices: 2918312--2918422 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 55
2918302 TACGTTATAT
* * * *
2918312 GCATGGCGTGTTACCACATTTTTCGTTAAATGCATGGCGTGTTACGATATTTTAC
1 GCATGGCGTGTTACCACATTTTACATTAAATGCATGGCGTGTTACAACATTTTAC
* *
2918367 GCATGGTGTGTTACCACATTTTACATTATATGCATGGCGTGTTACAACATTTTAC
1 GCATGGCGTGTTACCACATTTTACATTAAATGCATGGCGTGTTACAACATTTTAC
2918422 G
1 G
2918423 TTATATGCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (55 bp):
GCATGGCGTGTTACCACATTTTACATTAAATGCATGGCGTGTTACAACATTTTAC
Found at i:2918431 original size:86 final size:86
Alignment explanation
Indices: 2918281--2918439 Score: 255
Period size: 86 Copynumber: 1.8 Consensus size: 86
2918271 TTCGTTAAAT
* * * * *
2918281 GCATGGCGTGTTACGATATTTTACGTTATATGCATGGCGTGTTACCACATTTTTCGTTAAATGCA
1 GCATGGCGTGTTACCACATTTTACATTATATGCATGGCGTGTTACAACATTTTACGTTAAATGCA
2918346 TGGCGTGTTACGATATTTTAC
66 TGGCGTGTTACGATATTTTAC
* *
2918367 GCATGGTGTGTTACCACATTTTACATTATATGCATGGCGTGTTACAACATTTTACGTTATATGCA
1 GCATGGCGTGTTACCACATTTTACATTATATGCATGGCGTGTTACAACATTTTACGTTAAATGCA
2918432 TGGCGTGT
66 TGGCGTGT
2918440 AACAACATGA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (86 bp):
GCATGGCGTGTTACCACATTTTACATTATATGCATGGCGTGTTACAACATTTTACGTTAAATGCA
TGGCGTGTTACGATATTTTAC
Found at i:2923260 original size:31 final size:31
Alignment explanation
Indices: 2923218--2923317 Score: 155
Period size: 31 Copynumber: 3.2 Consensus size: 31
2923208 GTCGATTGTG
* **
2923218 GTGACATGTTGAGTGCATGCAGACTTATGGC
1 GTGACACGTTGAGTTAATGCAGACTTATGGC
2923249 GTGACACGTTGAGTTAATGCAGACTTATGGC
1 GTGACACGTTGAGTTAATGCAGACTTATGGC
*
2923280 GTGACACGCTGAGTTAATGCAGACTTATGGC
1 GTGACACGTTGAGTTAATGCAGACTTATGGC
*
2923311 ATGACAC
1 GTGACAC
2923318 CCTGACTTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (31 bp):
GTGACACGTTGAGTTAATGCAGACTTATGGC
Found at i:2923467 original size:83 final size:84
Alignment explanation
Indices: 2923280--2923482 Score: 246
Period size: 83 Copynumber: 2.4 Consensus size: 84
2923270 GACTTATGGC
* ** * * * *
2923280 GTGACACGCTGAGTTAATGCAGACTTATGGCATGACACCCTGACTTGTTGCAGTCTTGTGGGGTG
1 GTGACACGCTAAGTGCATGCAGAC-T-TGGCATGACACCCTGACTTCTTGCAGTATTATGGAGTG
* * *
2923345 ACCCGACAGGGGCCAATTGTG
64 ACACAACAGAGGCCAATTGTG
* * *
2923366 GTGACACGCTGAGTGCATGCAGACTTGGCATGACACGCTGACTTCTTGCAGTATTATGGAGT-AT
1 GTGACACGCTAAGTGCATGCAGACTTGGCATGACACCCTGACTTCTTGCAGTATTATGGAGTGAC
2923430 ACAACAGAGGCCAATTGTG
66 ACAACAGAGGCCAATTGTG
* *
2923449 GTGACATGCTAAGTGCATGCAGACTTGGCGTGAC
1 GTGACACGCTAAGTGCATGCAGACTTGGCATGAC
2923483 GGGCCAAATT
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
83 48 0.47
84 32 0.31
85 1 0.01
86 22 0.21
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (84 bp):
GTGACACGCTAAGTGCATGCAGACTTGGCATGACACCCTGACTTCTTGCAGTATTATGGAGTGAC
ACAACAGAGGCCAATTGTG
Found at i:2925056 original size:81 final size:81
Alignment explanation
Indices: 2924951--2925120 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
2924941 GAATATGCTG
** * *
2924951 TCCTTCAATCACGAGCGACTGAAGGTCCCCTTCCCCTCTCGCAGATGCATCGATAAACGAATCAG
1 TCCTTCAGCCACGAGCGACTGAAGGTCCCCTCCCCCTCTCGCAGATGCATCAATAAACGAATCAG
2925016 CCTAAAAAACATGGAC
66 CCTAAAAAACATGGAC
* * * *
2925032 TCCTTCAGCCACGAGTGAGTGAAGGTCCCCTCCCCCTCTCGTAGATGCATCAATAACCGAATCAG
1 TCCTTCAGCCACGAGCGACTGAAGGTCCCCTCCCCCTCTCGCAGATGCATCAATAAACGAATCAG
* * **
2925097 CTTGAGGAACATGGAC
66 CCTAAAAAACATGGAC
2925113 TCCTTCAG
1 TCCTTCAG
2925121 TATAATCTGA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (81 bp):
TCCTTCAGCCACGAGCGACTGAAGGTCCCCTCCCCCTCTCGCAGATGCATCAATAAACGAATCAG
CCTAAAAAACATGGAC
Found at i:2925149 original size:81 final size:80
Alignment explanation
Indices: 2924982--2925149 Score: 176
Period size: 81 Copynumber: 2.1 Consensus size: 80
2924972 AAGGTCCCCT
* * *
2924982 TCCCCTCTCGCAGATGCATCGATAAACGAATCAGCCTAAAAAACATGGACTCCTTCAGCCACGAG
1 TCCCCTCTCGCAGATGCATCAATAAACGAATCAGCCTAAAAAACATGGACTCCTTCAGCCACAAC
* *
2925047 TGAGTGAAGGTCCCC
66 TGAGTGAAGGTCACA
* * * * ** * *
2925062 TCCCCCTCTCGTAGATGCATCAATAACCGAATCAGCTTGAGGAACATGGACTCCTTCAG-TATAA
1 T-CCCCTCTCGCAGATGCATCAATAAACGAATCAGCCTAAAAAACATGGACTCCTTCAGCCACAA
*
2925126 TCTGATTGAAGGGTCACA
65 -CTGAGTGAA-GGTCACA
2925144 TCCCCT
1 TCCCCT
2925150 GCCACAACAT
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
80 3 0.04
81 62 0.87
82 6 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (80 bp):
TCCCCTCTCGCAGATGCATCAATAAACGAATCAGCCTAAAAAACATGGACTCCTTCAGCCACAAC
TGAGTGAAGGTCACA
Found at i:2927430 original size:30 final size:31
Alignment explanation
Indices: 2927396--2927475 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
2927386 AGAAAGAAAT
* *
2927396 AAATGTTGTTACACGCCATG-ATATCAAGTA
1 AAATGTTGTAACACGCCATGCATAACAAGTA
*
2927426 AAATGTTGTAACACGCCATGCATAACAAGTC
1 AAATGTTGTAACACGCCATGCATAACAAGTA
* *
2927457 AAATGTCGTGACACGCCAT
1 AAATGTTGTAACACGCCAT
2927476 ACATTAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 19 0.43
31 25 0.57
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (31 bp):
AAATGTTGTAACACGCCATGCATAACAAGTA
Found at i:2927490 original size:23 final size:23
Alignment explanation
Indices: 2927460--2927589 Score: 170
Period size: 23 Copynumber: 5.7 Consensus size: 23
2927450 ACAAGTCAAA
* * *
2927460 TGTCGTGACACGCCATACATTAG
1 TGTCGTGACATGCCATGCATCAG
*
2927483 TGTCGTGACATGCCATGCATCAC
1 TGTCGTGACATGCCATGCATCAG
* *
2927506 TGTCATGACACGCCATGCATCAG
1 TGTCGTGACATGCCATGCATCAG
* * *
2927529 TTTCGTGACATACCATGCATCAC
1 TGTCGTGACATGCCATGCATCAG
2927552 TGTCGTGACATGCCATGCATCAG
1 TGTCGTGACATGCCATGCATCAG
*
2927575 AGTCGTGACATGCCA
1 TGTCGTGACATGCCA
2927590 AAAACCCATG
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 91 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (23 bp):
TGTCGTGACATGCCATGCATCAG
Found at i:2927518 original size:46 final size:46
Alignment explanation
Indices: 2927460--2927589 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
2927450 ACAAGTCAAA
* *
2927460 TGTCGTGACACGCCATACATTAGTGTCGTGACATGCCATGCATCAC
1 TGTCGTGACACGCCATGCATCAGTGTCGTGACATGCCATGCATCAC
* * *
2927506 TGTCATGACACGCCATGCATCAGTTTCGTGACATACCATGCATCAC
1 TGTCGTGACACGCCATGCATCAGTGTCGTGACATGCCATGCATCAC
* *
2927552 TGTCGTGACATGCCATGCATCAGAGTCGTGACATGCCA
1 TGTCGTGACACGCCATGCATCAGTGTCGTGACATGCCA
2927590 AAAACCCATG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (46 bp):
TGTCGTGACACGCCATGCATCAGTGTCGTGACATGCCATGCATCAC
Found at i:2927666 original size:55 final size:53
Alignment explanation
Indices: 2927605--2927788 Score: 163
Period size: 55 Copynumber: 3.4 Consensus size: 53
2927595 CCATGTGACC
*
2927605 AGTTAACCCACAACACGCTAGAAACAGCCATGACACGCTAAAAATCCATTAATAT
1 AGTTAACCCACAACACGCCAGAAACAGCCATGACACGCTAAAAATCCA--AATAT
* * * * * *
2927660 AGTTAACCTACGACATGCCA-AGAACAGCCGTGACACGCTAAAAACTCAAAAAATT
1 AGTTAACCCACAACACGCCAGA-AACAGCCATGACACGCTAAAAA-TCCAAATA-T
* * * * * * * * *
2927715 AGCTAACCCATAACAAGCCAGGAACAGCCTTGACACTCTAAAAACCCAAAAACC
1 AGTTAACCCACAACACGCCAGAAACAGCCATGACACGCTAAAAATCCAAATA-T
2927769 AGTTAACCCACAACACGCCA
1 AGTTAACCCACAACACGCCA
2927789 TATGCAGACG
Statistics
Matches: 103, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
54 27 0.26
55 73 0.71
56 3 0.03
ACGTcount: A:0.43, C:0.30, G:0.12, T:0.15
Consensus pattern (53 bp):
AGTTAACCCACAACACGCCAGAAACAGCCATGACACGCTAAAAATCCAAATAT
Done.