Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006711.1 Hibiscus syriacus cultivar Beakdansim tig00016730_pilon, whole genome shotgun sequence
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: 163838
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2758 original size:17 final size:17
Alignment explanation
Indices: 2736--2776 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
2726 CTTTTCTTCG
*
2736 ATATTAATAATAAAATA
1 ATATTAAAAATAAAATA
*
2753 ATATTAAAAATATAATA
1 ATATTAAAAATAAAATA
2770 AT-TTAAA
1 ATATTAAA
2777 TTAAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATTAAAAATAAAATA
Found at i:4256 original size:3 final size:3
Alignment explanation
Indices: 4250--4318 Score: 88
Period size: 3 Copynumber: 23.3 Consensus size: 3
4240 AATAATTATT
*
4250 TAA TAA TAA T-A TAA T-A TAA TAA TAA TATT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
**
4294 TAA TAA TAA TAA TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
4319 TTAAGTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.07
3 51 0.89
4 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:4271 original size:16 final size:16
Alignment explanation
Indices: 4250--4306 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
4240 AATAATTATT
4250 TAATAATAATATAATA
1 TAATAATAATATAATA
4266 TAATAATAATAT--T-
1 TAATAATAATATAATA
4279 TAATAATAATAATAATAA
1 TAATAATAAT-ATAAT-A
4297 TAATAATAAT
1 TAATAATAAT
4307 TTTAATAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
13 10 0.28
14 3 0.08
16 13 0.36
18 10 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATAATATAATA
Found at i:4275 original size:30 final size:31
Alignment explanation
Indices: 4239--4318 Score: 130
Period size: 30 Copynumber: 2.6 Consensus size: 31
4229 TTTGGGCTTG
4239 TAATAATTATTTAATAATAAT-ATAAT-ATAA
1 TAATAA-TATTTAATAATAATAATAATAATAA
4269 TAATAATATTTAATAATAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAATAATAA
4300 TAATAAT-TTTAATAATAAT
1 TAATAATATTTAATAATAAT
4319 TTAAGTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
29 14 0.29
30 23 0.48
31 11 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TAATAATATTTAATAATAATAATAATAATAA
Found at i:8718 original size:19 final size:21
Alignment explanation
Indices: 8671--8719 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
8661 CACTAACAAA
8671 CTAACTAATTAACAACAGCAAT
1 CTAACTAATTAACAACAGC-AT
*
8693 CTAACTAATTATCAACAGC-T
1 CTAACTAATTAACAACAGCAT
8713 -TAACTAA
1 CTAACTAA
8720 CTAAATATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 1 0.04
22 18 0.69
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (21 bp):
CTAACTAATTAACAACAGCAT
Found at i:17139 original size:33 final size:33
Alignment explanation
Indices: 17102--17182 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
17092 AGTCATACTT
17102 GGACTCAAATGC-TTCAGTTTTAGTGTTTCAATA
1 GGACTCAAATGCGTT-AGTTTTAGTGTTTCAATA
* *
17135 GGACTCAAATACGTTGGTTTTAGTGTTTCAATA
1 GGACTCAAATGCGTTAGTTTTAGTGTTTCAATA
* *
17168 TGACTAAAATGCGTT
1 GGACTCAAATGCGTT
17183 GATTTATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 40 0.95
34 2 0.05
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (33 bp):
GGACTCAAATGCGTTAGTTTTAGTGTTTCAATA
Found at i:17262 original size:21 final size:24
Alignment explanation
Indices: 17237--17283 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
17227 GGCCTGCAAA
*
17237 AATAA-AAA-AAATATTAT-TAAT
1 AATAATAAATAAATATAATATAAT
17258 AATAATAAATAAATATAATATAAT
1 AATAATAAATAAATATAATATAAT
17282 AA
1 AA
17284 AATGTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 3 0.14
23 8 0.36
24 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AATAATAAATAAATATAATATAAT
Found at i:17806 original size:83 final size:83
Alignment explanation
Indices: 17648--17888 Score: 302
Period size: 83 Copynumber: 2.9 Consensus size: 83
17638 AGGTCTTTGG
* * * * * * * *
17648 CAGATATCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGGTGCCTTTGAGCTGAGTGGAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGA
**
17713 ACTCGGAGGTCATTATTGA
65 ACTCAAAGGTCATTATTGA
*
17732 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * *
17797 CTCCAAGGTCTTTGTTGG
66 CTCAAAGGTCATTATTGA
* * * *
17815 CAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATTATGTGCATTGAAGTTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
17880 CTCAAAGGT
66 CTCAAAGGT
17889 TTGATGTTTC
Statistics
Matches: 138, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
83 104 0.75
84 34 0.25
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (83 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCAAAGGTCATTATTGA
Found at i:17968 original size:36 final size:36
Alignment explanation
Indices: 17921--18036 Score: 187
Period size: 36 Copynumber: 3.2 Consensus size: 36
17911 TTCAAAGGTT
17921 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
17957 TTTGTATCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
17993 TTTGTTTCAAGAGAAACTGTCTCAAAAGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
18029 CTTTGTTT
1 -TTTGTTT
18037 TGAGTAAATT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 67 0.91
37 7 0.09
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:18004 original size:21 final size:21
Alignment explanation
Indices: 17942--18006 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
17932 GGAAACTGTC
17942 TCAAGAGAGACAAAATTTGTA
1 TCAAGAGAGACAAAATTTGTA
* *
17963 TCAAG-G-G---AAA-CTGTC
1 TCAAGAGAGACAAAATTTGTA
*
17978 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTA
17999 TCAAGAGA
1 TCAAGAGA
18007 AACTGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 1 0.03
19 1 0.03
20 4 0.12
21 16 0.47
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTA
Found at i:18879 original size:110 final size:110
Alignment explanation
Indices: 18748--19070 Score: 497
Period size: 110 Copynumber: 2.9 Consensus size: 110
18738 TATCGTTTCA
* *
18748 AGTCCAATATCCTTCGCTGTGAAGTTGAAATT-ATCTCTGAATGAAACTGTAAAGTTGTTTGTTG
1 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGA-CTCTGAATGAAACTGAAAAGTTGTTTGTTG
*
18812 ATAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
65 ACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
* * * *
18858 TGTCTAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAAC-AAAAATGTTGTTTGTTG
1 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAA-GTTGTTTGTTG
18922 ACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
65 ACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
* * * *
18968 AGTCCAATATCCTTCGATGTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAGTTATTTGTTAA
1 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGA
* *
19033 CAGTCAGTCACCCCTTCGTTGTGAAGTTGAGCTTGTGT
66 CAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGT
19071 CATCAATTTC
Statistics
Matches: 194, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
109 3 0.02
110 186 0.96
111 5 0.03
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (110 bp):
AGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGA
CAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
Found at i:22815 original size:14 final size:13
Alignment explanation
Indices: 22787--22821 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
22777 GAGAAAAGAA
22787 TAATAAAATATAT
1 TAATAAAATATAT
*
22800 TAATATAATAATAT
1 TAATAAAAT-ATAT
22814 TAATAAAA
1 TAATAAAA
22822 AATAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATAAAATATAT
Found at i:22825 original size:13 final size:13
Alignment explanation
Indices: 22787--22825 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
22777 GAGAAAAGAA
*
22787 TAATAAAATATAT
1 TAATAAAAAATAT
*
22800 TAATATAATAATAT
1 TAATA-AAAAATAT
22814 TAATAAAAAATA
1 TAATAAAAAATA
22826 AATATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAAAAAATAT
Found at i:23239 original size:33 final size:33
Alignment explanation
Indices: 23202--23279 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
23192 AGTCATACTT
*
23202 GGACTCAAATGC-TTCAGTTTTAGTGTTTTAATA
1 GGACTCAAATGCGTT-AGTTTTAGTGTTTCAATA
* *
23235 GGACTCAAATACGTTGGTTTTAGTGTTTCAATA
1 GGACTCAAATGCGTTAGTTTTAGTGTTTCAATA
23268 GGACTCAAATGC
1 GGACTCAAATGC
23280 ATTGATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 38 0.95
34 2 0.05
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (33 bp):
GGACTCAAATGCGTTAGTTTTAGTGTTTCAATA
Found at i:24527 original size:3 final size:3
Alignment explanation
Indices: 24519--24567 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
24509 TATATAAGTA
* *
24519 TAT TAT TAT TAT TAT TAT T-T TAT TAA T-T TAT ATAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
24563 T-T TAT
1 TAT TAT
24568 AGGCCTCGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 5 0.13
3 30 0.79
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:29234 original size:317 final size:318
Alignment explanation
Indices: 28623--29431 Score: 1264
Period size: 317 Copynumber: 2.5 Consensus size: 318
28613 AAAAGTTATC
* * * * * * *
28623 TGTCAACAAATAACTTTCCAATTTCATTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGA
1 TGTCAACAAAAAACTTCCCAATTTCA---A-AGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
28688 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCA
62 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
** *
28753 A-TACTAGAGCCAATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACT
127 ATTAC-AGAGCCAATTTCAACTTCACAGAAAAGGATATTGGACTCCAGACAACACAAGTTCAACT
*
28817 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
191 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
28882 ACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
256 ACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
**
28945 TGTCAA-AAAAAACTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAAAAACTTCCCAATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
29009 AGACGACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTA
*
29074 CAGAGCCAATTTCAACTTCACAGAAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
131 CAGAGCCAATTTCAACTTCACAGAAAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
* *
29139 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATC
196 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
*
29204 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
261 GAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
29262 TGTCAACAAACAACTTCTCAATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
1 TGTCAACAAAAAACTTCCCAATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * * *
29327 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGATTC
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTA
*
29392 CAGAGCCAATTTCAACTTCAC-GACAGAGGATATTGGACTC
131 CAGAGCCAATTTCAACTTCACAGA-AAAGGATATTGGACTC
29432 GGAACAATAC
Statistics
Matches: 450, Mismatches: 34, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
317 279 0.62
318 149 0.33
321 16 0.04
322 6 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (318 bp):
TGTCAACAAAAAACTTCCCAATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTA
CAGAGCCAATTTCAACTTCACAGAAAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
GAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:29432 original size:106 final size:106
Alignment explanation
Indices: 28649--29431 Score: 1232
Period size: 106 Copynumber: 7.4 Consensus size: 106
28639 TCCAATTTCA
* * * * *
28649 TTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
28714 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCAA-
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
28754 TACTAGAGCCAATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTC
1 TTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
28819 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
* *
28861 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
28926 CGACGAAGGGACCGCTGGTTGTCAA-AAAAAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
* *
28966 TTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACGACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
29031 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
**
29072 TTCAGAGCCAATTTCAACTTCACAGAAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
29137 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
*
29178 TTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
29243 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
29284 TTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * *
29349 CAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
*
29390 TCCAGAGCCAATTTCAACTTCAC-GAC-AGAGGATATTGGACTC
1 TTCAGAGCCAATTTCAACTTCACAG-CGA-AGGATATTGGACTC
29432 GGAACAATAC
Statistics
Matches: 630, Mismatches: 43, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
105 104 0.17
106 524 0.83
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
Found at i:29666 original size:22 final size:22
Alignment explanation
Indices: 29638--29685 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
29628 CGACTACGCT
29638 CAGCTCCAAGGCACATCATTTA
1 CAGCTCCAAGGCACATCATTTA
29660 CAGCTCCAAGGCACATCATTTA
1 CAGCTCCAAGGCACATCATTTA
29682 CAGC
1 CAGC
29686 ATAACTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (22 bp):
CAGCTCCAAGGCACATCATTTA
Found at i:30453 original size:13 final size:13
Alignment explanation
Indices: 30431--30472 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
30421 TTATATATAG
30431 TATATATTATTAT
1 TATATATTATTAT
*
30444 TATATTTTATTAAT
1 TATATATTATT-AT
*
30458 T-TATATTATAAT
1 TATATATTATTAT
30470 TAT
1 TAT
30473 TTTATAGGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATATTATTAT
Found at i:31472 original size:5 final size:5
Alignment explanation
Indices: 31462--31516 Score: 57
Period size: 5 Copynumber: 11.8 Consensus size: 5
31452 ATCATTATGT
*
31462 TTTTA TTTTA TTTTA --TTA CTTTTA -TTTA TTTTA -TTT- TTTTA TGTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
31508 TTTTA TTTT
1 TTTTA TTTT
31517 TTCCCTTTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
3 3 0.07
4 10 0.24
5 26 0.62
6 3 0.07
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:31489 original size:18 final size:17
Alignment explanation
Indices: 31462--31518 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
31452 ATCATTATGT
31462 TTTTATTTTATTTTATTAC
1 TTTTA-TTTATTTTATT-C
*
31481 TTTTATTTATTTTATTT
1 TTTTATTTATTTTATTC
31498 TTTTATGTTATTTTATT-
1 TTTTAT-TTATTTTATTC
31515 TTTT
1 TTTT
31519 CCCTTTGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 10 0.28
18 21 0.58
19 5 0.14
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTTTATTC
Found at i:31489 original size:23 final size:23
Alignment explanation
Indices: 31455--31516 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
31445 TCCTTCAATC
31455 ATTATG-T-TTTTATTTTATTTT
1 ATTATGTTATTTTATTTTATTTT
*
31476 ATTACTTTTA-TTTATTTTATTTT
1 ATTA-TGTTATTTTATTTTATTTT
*
31499 TTTATGTTATTTTATTTT
1 ATTATGTTATTTTATTTT
31517 TTCCCTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 25 0.74
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (23 bp):
ATTATGTTATTTTATTTTATTTT
Found at i:35811 original size:30 final size:29
Alignment explanation
Indices: 35777--35833 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
35767 TATAGATAAA
35777 TTATTAAAATTATATAATTATAATTTAAGT
1 TTATTAAAATTATAT-ATTATAATTTAAGT
* **
35807 TTATTTATTTTATATATTATAATTTAA
1 TTATTAAAATTATATATTATAATTTAA
35834 ATATTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
TTATTAAAATTATATATTATAATTTAAGT
Found at i:35833 original size:29 final size:31
Alignment explanation
Indices: 35786--35843 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
35776 ATTATTAAAA
*
35786 TTATATAATTATAATTTAAGT-TTATTTATT
1 TTATATAATTATAATTTAAATATTATTTATT
35816 TTATAT-ATTATAATTTAAATATTATTTA
1 TTATATAATTATAATTTAAATATTATTTA
35844 AACACATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (31 bp):
TTATATAATTATAATTTAAATATTATTTATT
Found at i:37488 original size:80 final size:78
Alignment explanation
Indices: 37322--37481 Score: 187
Period size: 78 Copynumber: 2.0 Consensus size: 78
37312 TTTGGTATGT
* * * *
37322 CATAACTGTTCCTTTAGACGCCGCTAGTTTTATGTTGTCTTTTTCTCTCGGCCGATAAAAAGCTG
1 CATAACTGTTCCTTTAAACGCCGCTAATTTTATGTTGTCTTTTTCTCTCGACAGATAAAAAGCTG
*
37387 TCCCTCTATGTAA
66 TCCCTCCATGTAA
* * * *
37400 CATAACTGTTCTTTTAAACGCCTCTAATTTTATGTTGTTTTTTTTTCTCTTGACAGATAAAAAAG
1 CATAACTGTTCCTTTAAACGCCGCTAATTTTATGTTG--TCTTTTTCTCTCGACAGAT-AAAAAG
*
37465 TTGT-CCTCCCATGTAA
63 CTGTCCCT-CCATGTAA
37481 C
1 C
37482 GTACTGTGCA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
78 33 0.49
80 18 0.26
81 17 0.25
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (78 bp):
CATAACTGTTCCTTTAAACGCCGCTAATTTTATGTTGTCTTTTTCTCTCGACAGATAAAAAGCTG
TCCCTCCATGTAA
Found at i:45710 original size:29 final size:29
Alignment explanation
Indices: 45668--45727 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
45658 ATTCTACAGT
45668 GATCTCGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
*
45697 GATCTTGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
45726 GA
1 GA
45728 CATACGGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.18
Consensus pattern (29 bp):
GATCTCGTAGGACGCCATGCAATCCAGGC
Found at i:45859 original size:32 final size:32
Alignment explanation
Indices: 45818--45899 Score: 164
Period size: 32 Copynumber: 2.6 Consensus size: 32
45808 TATTATACGA
45818 GGAGAGGTCGCCATGCAGACGAGCCAGCCAAT
1 GGAGAGGTCGCCATGCAGACGAGCCAGCCAAT
45850 GGAGAGGTCGCCATGCAGACGAGCCAGCCAAT
1 GGAGAGGTCGCCATGCAGACGAGCCAGCCAAT
45882 GGAGAGGTCGCCATGCAG
1 GGAGAGGTCGCCATGCAG
45900 TCTGGGCGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.27, C:0.27, G:0.37, T:0.10
Consensus pattern (32 bp):
GGAGAGGTCGCCATGCAGACGAGCCAGCCAAT
Found at i:45930 original size:29 final size:29
Alignment explanation
Indices: 45886--45951 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
45876 GCCAATGGAG
**
45886 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGCAGTCCCGGCGACCTTGT
*
45915 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGCAGTCCCGGCGACCTTGT
45944 AGGTCGCC
1 AGGTCGCC
45952 CCGGCGTCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.14, C:0.30, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGCAGTCCCGGCGACCTTGT
Found at i:46237 original size:21 final size:19
Alignment explanation
Indices: 46213--46253 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
46203 TTGCAGCCGA
46213 GAAAGAAAGAAAGAGAGAAAG
1 GAAAGAAAG-AAGA-AGAAAG
*
46234 GAAAGTAAGAAGAAGAAAG
1 GAAAGAAAGAAGAAGAAAG
46253 G
1 G
46254 GAGATAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.02
Consensus pattern (19 bp):
GAAAGAAAGAAGAAGAAAG
Found at i:46284 original size:16 final size:18
Alignment explanation
Indices: 46263--46301 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
46253 GGAGATAAGG
*
46263 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
46279 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
46297 TAAAT
1 TAAAT
46302 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:46408 original size:41 final size:41
Alignment explanation
Indices: 46362--46469 Score: 114
Period size: 44 Copynumber: 2.6 Consensus size: 41
46352 GTATACATAA
46362 ATTAAAAATTATTTAATTAGTATATG-TTTG-ATAGTTA-TAT
1 ATTAAAAATTATTTAATTAGT-T-TGTTTTGTATAGTTAGTAT
* *
46402 AGTTAAAAAATAATTAATTAGTTTGTTTTGTTAATAGTTAGTTAT
1 A-TTAAAAATTATTTAATTAGTTTGTTTTG-T-ATAGTTAG-TAT
*
46447 ATAAAAAATTATTTAATTAGTTT
1 ATTAAAAATTATTTAATTAGTTT
46470 TTGTTAGTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
39 2 0.04
40 6 0.11
41 18 0.32
43 7 0.12
44 19 0.34
45 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (41 bp):
ATTAAAAATTATTTAATTAGTTTGTTTTGTATAGTTAGTAT
Found at i:46468 original size:44 final size:46
Alignment explanation
Indices: 46405--46495 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 46
46395 GTTATATAGT
46405 TAAAAAATAATTAATTAGTTTGTT-TT-GTT-AATAGTT-AGTTATA
1 TAAAAAATAATTAATTAGTTT-TTGTTAGTTAAATAGTTAAGTTATA
*
46448 TAAAAAATTATTTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATA
1 TAAAAAA-TAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATA
46495 T
1 T
46496 TTGTTTGTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
43 9 0.21
44 15 0.36
45 3 0.07
46 7 0.17
47 8 0.19
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (46 bp):
TAAAAAATAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATA
Found at i:46687 original size:16 final size:16
Alignment explanation
Indices: 46655--46701 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
46645 TTTAAAAAGT
*
46655 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
46671 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
46687 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
46702 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:46696 original size:15 final size:14
Alignment explanation
Indices: 46676--46706 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
46666 GTTTATTAGT
46676 TTATTATATTATAAG
1 TTATTATATTA-AAG
46691 TTATTATATTAAAG
1 TTATTATATTAAAG
46705 TT
1 TT
46707 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:48908 original size:17 final size:17
Alignment explanation
Indices: 48886--48918 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48876 TAATGATGTT
*
48886 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
48903 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
48919 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:48935 original size:24 final size:22
Alignment explanation
Indices: 48903--48971 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
48893 AAATCATTAC
48903 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
48925 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
48950 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
48972 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:49191 original size:35 final size:37
Alignment explanation
Indices: 49110--49196 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
49100 TTAGTATTCT
* * *
49110 ATAATTATTAGT-AATAATTATTAAATCATTAGTATTAA
1 ATAATTATTA-TAAATAATTACTAAATCAATAG-ACTAA
*
49148 ATCATTATTATAAATAATTACTAAAT-AATA-ACTAA
1 ATAATTATTATAAATAATTACTAAATCAATAGACTAA
49183 ATAATTATTATAAA
1 ATAATTATTATAAA
49197 ATCATTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (37 bp):
ATAATTATTATAAATAATTACTAAATCAATAGACTAA
Found at i:49217 original size:12 final size:13
Alignment explanation
Indices: 49126--49706 Score: 280
Period size: 14 Copynumber: 43.1 Consensus size: 13
49116 ATTAGTAATA
49126 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
49140 AGTATTAAATCATT
1 ATTA-TAAATCATT
49154 ATTATAAAT-A--
1 ATTATAAATCATT
49164 ATTACTAAAT-A--
1 ATTA-TAAATCATT
* *
49175 ATAACTAAATAATT
1 ATTA-TAAATCATT
49189 ATTATAAAATCATT
1 ATTAT-AAATCATT
*
49203 ATTAT-AATGATT
1 ATTATAAATCATT
49215 ATTATCAAATCATT
1 ATTAT-AAATCATT
49229 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
49248 AAATATTTAAATCATT
1 --AT-TATAAATCATT
49264 A-T-TAAATCATT
1 ATTATAAATCATT
* *
49275 TTTAT-AATAATT
1 ATTATAAATCATT
49287 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
49301 ATTAT-AATGATT
1 ATTATAAATCATT
49313 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
49327 ACTAT-AATGATT
1 ATTATAAATCATT
49339 ATTATCAAATCATT
1 ATTAT-AAATCATT
*
49353 AAATATTTAAATCATT
1 --AT-TATAAATCATT
49369 A-T-TAAATCATT
1 ATTATAAATCATT
* *
49380 TTTAT-AATGATT
1 ATTATAAATCATT
49392 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
49406 ATTAT-AATGATT
1 ATTATAAATCATT
49418 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
49432 ACTAT-AATGATT
1 ATTATAAATCATT
49444 ATTATCAAATCATT
1 ATTAT-AAATCATT
49458 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
49477 AAATATTTAAATCATT
1 --AT-TATAAATCATT
49493 A-T-TAAATCATT
1 ATTATAAATCATT
* *
49504 TTTAT-AATGATT
1 ATTATAAATCATT
49516 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
49530 ATTAT-AATGATT
1 ATTATAAATCATT
*
49542 ATTATCTAATCATT
1 ATTAT-AAATCATT
* *
49556 ACTAT-AATGATT
1 ATTATAAATCATT
49568 ATTATCAAATCATT
1 ATTAT-AAATCATT
49582 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
49601 AAATATTTAAATCATT
1 --AT-TATAAATCATT
49617 A-T-TAAATCATT
1 ATTATAAATCATT
* *
49628 TTTAT-AATGATT
1 ATTATAAATCATT
49640 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
49654 ATTAT-AATGATT
1 ATTATAAATCATT
49666 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
49680 ACTAT-AATGATT
1 ATTATAAATCATT
49692 ATTATCAAATCATT
1 ATTAT-AAATCATT
49706 A
1 A
49707 CTAAATCATC
Statistics
Matches: 453, Mismatches: 51, Indels: 126
0.72 0.08 0.20
Matches are distributed among these distances:
10 4 0.01
11 51 0.11
12 141 0.31
13 18 0.04
14 149 0.33
15 3 0.01
16 34 0.08
17 5 0.01
18 9 0.02
19 33 0.07
20 3 0.01
21 3 0.01
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:49224 original size:26 final size:26
Alignment explanation
Indices: 49126--49706 Score: 453
Period size: 26 Copynumber: 23.2 Consensus size: 26
49116 ATTAGTAATA
* * *
49126 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* *
49151 ATTATTATAA--ATAATTA-CTAAATA
1 ATTATTATAATGATTATTATC-AAATC
* * * *
49175 ATAACTA-AATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
49200 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
49226 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
49249 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* * *
49272 ATTTTTATAATAATTATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
49298 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
49324 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * *
49350 ATTAAATATTTAA--ATCATTATTAAATC
1 ATT--AT-TATAATGATTATTATCAAATC
*
49377 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
49403 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
49429 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
49455 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
49478 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
49501 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
*
49527 ATTATTATAATGATTATTATCTAATC
1 ATTATTATAATGATTATTATCAAATC
*
49553 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
49579 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
49602 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
49625 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
49651 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
49677 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
49703 ATTA
1 ATTA
49707 CTAAATCATC
Statistics
Matches: 443, Mismatches: 78, Indels: 69
0.75 0.13 0.12
Matches are distributed among these distances:
21 12 0.03
22 6 0.01
23 44 0.10
24 36 0.08
25 41 0.09
26 281 0.63
27 18 0.04
28 1 0.00
29 4 0.01
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:49350 original size:124 final size:124
Alignment explanation
Indices: 49142--49764 Score: 984
Period size: 124 Copynumber: 5.2 Consensus size: 124
49132 AAATCATTAG
* * * * * * *
49142 TATTAAATCATTATTATAA--ATAATTACTAAATAATAACTA-AATAATTATTATAAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
*
49204 TTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
* *
49263 TATTAAATCATTTTTATAATAATTATTATTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
*
49328 CTATAATGATTATTATCAAATCA-T--T-AA--AT---AT--TT-AA-A--T-CAT---
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
49368 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
49433 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
*
49492 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCTAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
49557 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
49616 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
49681 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
49740 TATTAAATCATTTTTATAATGATTA
1 TATTAAATCATTTTTATAATGATTA
49765 ATAAATACAT
Statistics
Matches: 465, Mismatches: 15, Indels: 41
0.89 0.03 0.08
Matches are distributed among these distances:
105 86 0.18
106 1 0.00
108 3 0.01
109 3 0.01
111 3 0.01
112 2 0.00
113 2 0.00
114 2 0.00
115 2 0.00
116 2 0.00
117 2 0.00
118 3 0.01
120 3 0.01
121 21 0.05
123 17 0.04
124 313 0.67
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (124 bp):
TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
Found at i:49430 original size:229 final size:227
Alignment explanation
Indices: 49142--49683 Score: 804
Period size: 229 Copynumber: 2.4 Consensus size: 227
49132 AAATCATTAG
* * * * * * *
49142 TATTAAATCATTATTATAA-ATAATTACTAAATAATAACTA-AATAATTATTATAAAATCATTAT
1 TATTAAATCATTTTTATAATATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTAT
49205 TATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAA
66 TATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAA
*
49270 TCATTTTTATAATAATTATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAAT
131 TCATTTTTATAATAATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAAT
*
49335 GATTATTATCAAATCATT--AAATATTTAAATC
196 GATTATTATCAAATCATTACAAATA-TCAAATC
49366 ATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
1 --TATTAAATCATTTTTATAAT-ATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
*
49431 TACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATT
63 TATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATT
* *
49496 AAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCTAATCATTACTAT
128 AAATCATTTTTATAATAATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAT
49561 AATGATTATTATCAAATCATTACTAAATCATCAAATC
193 AATGATTATTATCAAATCATTAC-AAAT-ATCAAATC
*
49598 -ATTAAAT-A--TTTA-AATCATTA-T--TAAATCATTTTTATAATGATTATTA-CTAAATCATT
1 TATTAAATCATTTTTATAAT-ATTATTACTAAATCATTATTATAATGATTATTATC-AAATCATT
49654 ATTATAATGATTATTATCAAATCATTACTA
64 ATTATAATGATTATTATCAAATCATTACTA
49684 TAATGATTAT
Statistics
Matches: 293, Mismatches: 15, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
221 1 0.00
222 61 0.21
224 1 0.00
225 7 0.02
226 22 0.08
228 18 0.06
229 172 0.59
232 10 0.03
233 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (227 bp):
TATTAAATCATTTTTATAATATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTAT
TATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAA
TCATTTTTATAATAATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTATAAT
GATTATTATCAAATCATTACAAATATCAAATC
Found at i:52667 original size:26 final size:24
Alignment explanation
Indices: 52607--52667 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
52597 TACTAATATT
*
52607 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
52631 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
52658 ATTTAATAAT
1 A-TTAATAAT
52668 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:53056 original size:18 final size:17
Alignment explanation
Indices: 53033--53066 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
53023 TTACACATAC
53033 ACAACAACAAAAAAATAG
1 ACAACAA-AAAAAAATAG
*
53051 ACAACAAAAAATAATA
1 ACAACAAAAAAAAATA
53067 AATTACTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.15, G:0.03, T:0.09
Consensus pattern (17 bp):
ACAACAAAAAAAAATAG
Found at i:53473 original size:21 final size:21
Alignment explanation
Indices: 53440--53488 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
53430 AATATAATAT
*
53440 ATAACTTAAACTAACCAACTA
1 ATAACTTAAACTAACAAACTA
* *
53461 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
53482 ATTAACT
1 A-TAACT
53489 AGATTTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:53962 original size:35 final size:35
Alignment explanation
Indices: 53920--53987 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
53910 TGGATGCAAC
53920 GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
1 GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
*
53955 GCATGCATGAGTGCTACAGTTAAAGCTTGGTCG
1 GCATGCATGAGTGATACAGTTAAAGCTTGGTCG
53988 CGATGCAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (35 bp):
GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
Found at i:60267 original size:23 final size:21
Alignment explanation
Indices: 60215--60276 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
60205 TTTTGGTGCA
*
60215 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
60235 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
60256 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
60277 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:60284 original size:21 final size:21
Alignment explanation
Indices: 60258--60297 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60248 CCCCCTTTGA
*
60258 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
60279 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
60298 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:63975 original size:31 final size:31
Alignment explanation
Indices: 63940--64004 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
63930 CCCATGCATA
63940 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
1 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
63971 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
1 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
64002 GCA
1 GCA
64005 AAGAACCAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.29, T:0.03
Consensus pattern (31 bp):
GCACCAAAGCAGCATCAGCGAGCAACAGCGG
Found at i:64069 original size:29 final size:29
Alignment explanation
Indices: 64027--64140 Score: 203
Period size: 29 Copynumber: 3.9 Consensus size: 29
64017 AAATAATGAT
64027 GGACGCCGGGCGTGCATGGCGACCT-TATA
1 GGACGCCGGGCGTGCATGGCGACCTATA-A
64056 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
64085 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
*
64114 GGACGTCGGGCGTGCATGGCGACCTAT
1 GGACGCCGGGCGTGCATGGCGACCTAT
64141 GTTGCCACTG
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 81 0.98
30 2 0.02
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.16
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTATAA
Found at i:67809 original size:11 final size:11
Alignment explanation
Indices: 67772--67814 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
67762 TTTTTCCCCT
67772 TTTTGTGTTAA
1 TTTTGTGTTAA
*
67783 TTTCTG-GTTGAT
1 TTT-TGTGTT-AA
67795 TTTTGTGTTAA
1 TTTTGTGTTAA
67806 TTTTGTGTT
1 TTTTGTGTT
67815 TTAATATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.12, C:0.02, G:0.21, T:0.65
Consensus pattern (11 bp):
TTTTGTGTTAA
Found at i:70467 original size:25 final size:26
Alignment explanation
Indices: 70439--70531 Score: 64
Period size: 27 Copynumber: 3.5 Consensus size: 26
70429 AATATTTTAT
70439 ATATAAT-TAGTATAAAAAATAT-AAA
1 ATATAATATA-TATAAAAAATATAAAA
* **
70464 ATATTATATATATAATTAATATAAAA
1 ATATAATATATATAAAAAATATAAAA
* * * * * *
70490 ATATAAAAAATTATATAATATATATAT
1 ATATAATATA-TATAAAAAATATAAAA
70517 ATATATATATATATA
1 ATATA-ATATATATA
70532 TATATATAAT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
25 16 0.32
26 12 0.24
27 19 0.38
28 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (26 bp):
ATATAATATATATAAAAAATATAAAA
Found at i:70474 original size:34 final size:33
Alignment explanation
Indices: 70427--70511 Score: 125
Period size: 34 Copynumber: 2.5 Consensus size: 33
70417 CCCGAACCCA
* *
70427 AAAATATTTTATATATAATTAGTATAAAAAATAT
1 AAAATATTATATATATAATTAATAT-AAAAATAT
70461 AAAATATTATATATATAATTAATATAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAATAT
*
70494 AAAAAATTATATAATATA
1 AAAATATTATAT-ATATA
70512 TATATATATA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 19 0.40
34 28 0.60
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (33 bp):
AAAATATTATATATATAATTAATATAAAAATAT
Found at i:70506 original size:2 final size:2
Alignment explanation
Indices: 70501--70539 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
70491 TATAAAAAAT
70501 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70540 ATCAGGGCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:77859 original size:23 final size:23
Alignment explanation
Indices: 77791--77859 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
77781 CAACCTTATA
77791 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
* * * *
77814 TGGCACTACGTTGTAATTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
77837 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTCTACG
77860 AGTTGTGGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:82003 original size:21 final size:20
Alignment explanation
Indices: 81917--82074 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
81907 AAATGACCAA
**
81917 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
81936 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
81956 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
81976 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
81997 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
82018 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
82038 CCAAAATCGTAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
82059 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
82075 ACACATAAAA
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:82107 original size:20 final size:20
Alignment explanation
Indices: 82082--82235 Score: 211
Period size: 20 Copynumber: 7.7 Consensus size: 20
82072 CGAACACATA
82082 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
82102 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
82122 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
82142 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
82162 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
82182 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
82202 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
82223 AAATCGCAACGCG
1 AAATCGCAACGCG
82236 ATATTTAAAG
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 98 0.85
21 15 0.13
22 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:82161 original size:60 final size:61
Alignment explanation
Indices: 82061--82235 Score: 237
Period size: 60 Copynumber: 2.9 Consensus size: 61
82051 GCGAATATGA
** * *
82061 AAATCGCAACGCGAACACATAAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
* *** * *
82122 AAATCGCAACGCGT-ATGGGT-AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACG-ATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
82182 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
82236 ATATTTAAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
59 1 0.01
60 51 0.53
61 44 0.46
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (61 bp):
AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:82656 original size:33 final size:33
Alignment explanation
Indices: 82617--82687 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
82607 TTCACTTAGA
* *
82617 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
82650 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
82683 TTTCA
1 TTTCA
82688 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:82824 original size:41 final size:38
Alignment explanation
Indices: 82760--82876 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
82750 TTCAATTTGC
* *
82760 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
82798 AGAATGACTGTCGCAACGAGAGAAATGACAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
82839 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
82872 AGAAT
1 AGAAT
82877 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.45, C:0.18, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:82840 original size:21 final size:21
Alignment explanation
Indices: 82767--82842 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
82757 TGCAGAAGAG
* *
82767 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGACAA
**
82788 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGACAA
82808 TCGCAACGAGAGAAATGACAA
1 TCGCAACGAGAGAAATGACAA
82829 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
82843 TCGCAACGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGACAA
Found at i:82846 original size:14 final size:14
Alignment explanation
Indices: 82827--82883 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
82817 GAGAAATGAC
82827 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
82841 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
82860 AATCGCAACGAGAG
1 AATCGCAACGAGAG
82874 AATCGCAACG
1 AATCGCAACG
82884 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:82864 original size:33 final size:33
Alignment explanation
Indices: 82819--82899 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
82809 CGCAACGAGA
*
82819 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
82852 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
82885 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
82900 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:82917 original size:19 final size:19
Alignment explanation
Indices: 82895--82992 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
82885 GAAACCAAAA
*
82895 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
82914 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
82928 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
82947 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
82961 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
82980 TCGCGTTGCGATT
1 TCGCGTTGCGATT
82993 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:82936 original size:14 final size:14
Alignment explanation
Indices: 82917--83006 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
82907 TTTCATTTCG
82917 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
82931 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
82950 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
82964 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
82981 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
82997 CGTTGCGATT
1 CGTTGCGATT
83007 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:82942 original size:33 final size:33
Alignment explanation
Indices: 82900--83014 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
82890 CAAAATCGCA
82900 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
82933 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
82966 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
82999 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
83015 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:84866 original size:93 final size:93
Alignment explanation
Indices: 84707--84988 Score: 486
Period size: 93 Copynumber: 3.1 Consensus size: 93
84697 TAGATTGCTT
*
84707 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
84772 TTTGTCTTTGTTTTATCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
84800 AGTAAATTTGTTCGGTTGCTGCAAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
84865 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
84893 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
84955 ---GTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
84980 AGTAAATTT
1 AGTAAATTT
84989 ATCCATTCAA
Statistics
Matches: 183, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
87 34 0.19
90 2 0.01
91 1 0.01
92 2 0.01
93 144 0.79
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:85067 original size:19 final size:19
Alignment explanation
Indices: 85027--85103 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
85017 AAGTTTACTT
* *
85027 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
85047 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
85066 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
85080 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
85099 TCGCA
1 TCGCA
85104 TTGCGATTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 19 0.40
20 13 0.27
ACGTcount: A:0.45, C:0.30, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:85139 original size:14 final size:14
Alignment explanation
Indices: 85120--85176 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
85110 TTTCATTTCG
85120 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
85134 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
85151 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
85167 CGTTGCGATT
1 CGTTGCGATT
85177 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:85151 original size:33 final size:33
Alignment explanation
Indices: 85104--85195 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
85094 CAAAATCGCA
*
85104 TTGCGA-TTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
85136 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
85169 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
85196 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 6 0.11
33 50 0.89
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:85160 original size:19 final size:19
Alignment explanation
Indices: 85099--85232 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
85089 GAAACCAAAA
*
85099 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
85117 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
85133 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
85150 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
85166 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
85183 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
85202 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
85222 TCGTGTTGCGA
1 TCGCGTTGCGA
85233 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
18 10 0.11
19 36 0.38
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:87170 original size:14 final size:14
Alignment explanation
Indices: 87151--87186 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
87141 ATTGTTTAAT
87151 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
87165 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
87179 TGATTTGT
1 TGATTTGT
87187 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:87316 original size:19 final size:19
Alignment explanation
Indices: 87292--87391 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
87282 AAAATTGACT
*
87292 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
87311 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
87330 ATCGCAA--CG--A-GATA
1 ATCGCAATGCGAAATGAAA
87344 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
87363 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
87383 ATCGCAATG
1 ATCGCAATG
87392 GGAGAATCGC
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.53
20 18 0.25
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:87421 original size:53 final size:53
Alignment explanation
Indices: 87292--87408 Score: 191
Period size: 53 Copynumber: 2.2 Consensus size: 53
87282 AAAATTGACT
* *
87292 ATCGCAATGCGAAATAAAAATCGCAATGC-GAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
87344 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
87397 ATCGCAATGCGA
1 ATCGCAATGCGA
87409 TTTTAATTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 28 0.47
53 32 0.53
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:87426 original size:19 final size:19
Alignment explanation
Indices: 87398--87565 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
87388 AATGGGAGAA
* *
87398 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
87417 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
87433 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
87450 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
87469 TCGCATTGTGA--TTC-TC
1 TCGCATTGCGATTTTCATT
87485 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
87502 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
87521 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
87537 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
87554 TCCGCATTGCGA
1 T-CGCATTGCGA
87566 AATGTAATGG
Statistics
Matches: 123, Mismatches: 10, Indels: 31
0.75 0.06 0.19
Matches are distributed among these distances:
14 17 0.14
16 21 0.17
17 18 0.15
18 2 0.02
19 59 0.48
20 6 0.05
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:87441 original size:33 final size:33
Alignment explanation
Indices: 87404--87565 Score: 166
Period size: 33 Copynumber: 4.7 Consensus size: 33
87394 AGAATCGCAA
*
87404 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
87437 TGCGATTTTCATTTCGCATTGCGATT-T-TCAT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
* * * * * *
87468 TTCGCATTGTGATTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCG-ATTTTCATT-TCGCATTGCGA--TTC-TCTCG--T
87508 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
87541 TGCGATTTTCATTTCCGCATTGCGA
1 TGCGATTTTCATTT-CGCATTGCGA
87566 AATGTAATGG
Statistics
Matches: 105, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
31 6 0.06
32 8 0.08
33 49 0.47
34 10 0.10
35 6 0.06
36 3 0.03
37 1 0.01
38 11 0.10
39 7 0.07
40 4 0.04
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:87461 original size:52 final size:52
Alignment explanation
Indices: 87398--87565 Score: 300
Period size: 52 Copynumber: 3.2 Consensus size: 52
87388 AATGGGAGAA
* *
87398 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
87450 TCGCATTGCGATTTTCATTTCGCATTGTGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
87502 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
87554 TCCGCATTGCGA
1 T-CGCATTGCGA
87566 AATGTAATGG
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 101 0.91
53 10 0.09
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:87648 original size:19 final size:19
Alignment explanation
Indices: 87624--87721 Score: 99
Period size: 19 Copynumber: 5.6 Consensus size: 19
87614 AAAATTGACT
87624 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
87643 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
87662 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
87676 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
87696 ATCGCAA--CGAAA-G--A
1 ATCGCAATGCGAAATGAAA
87710 ATCGCAATGCGA
1 ATCGCAATGCGA
87722 TTTTCATTTC
Statistics
Matches: 67, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
14 18 0.27
15 1 0.01
16 5 0.07
17 6 0.09
18 1 0.01
19 26 0.39
20 10 0.15
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:87697 original size:34 final size:34
Alignment explanation
Indices: 87642--87721 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
87632 GCGAAATGAA
*
87642 AATCGCAATGC-AAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAAATGAAAATCGCAACGAAAG
*
87675 AATCGCAATGCGGAAATGAAAATCGCAACGAAAG
1 AATCGCAATGCGAAAATGAAAATCGCAACGAAAG
87709 AATCGCAATGCGA
1 AATCGCAATGCGA
87722 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
33 11 0.26
34 32 0.74
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (34 bp):
AATCGCAATGCGAAAATGAAAATCGCAACGAAAG
Found at i:90055 original size:12 final size:12
Alignment explanation
Indices: 90038--90062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90028 TCTTCGGGGA
90038 CTTTTTCTTCTT
1 CTTTTTCTTCTT
90050 CTTTTTCTTCTT
1 CTTTTTCTTCTT
90062 C
1 C
90063 AGGATTATAT
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:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:90271 original size:24 final size:24
Alignment explanation
Indices: 90237--90283 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
90227 CTGAAACATC
90237 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
90261 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
90284 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:90994 original size:20 final size:20
Alignment explanation
Indices: 90966--91215 Score: 250
Period size: 20 Copynumber: 12.5 Consensus size: 20
90956 AAATTTCAGT
* * *
90966 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
90986 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
91006 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
91026 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
91046 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
91066 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
91086 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
91106 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
91126 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
91146 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
91166 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
91186 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
91206 GTTGCGATTT
1 GTTGCGATTT
91216 TGGAAAATCG
Statistics
Matches: 198, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:91232 original size:21 final size:21
Alignment explanation
Indices: 91202--91284 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
91192 ATTTTCATAT
*
91202 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
91223 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
91244 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
91265 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
91285 TTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:91275 original size:42 final size:43
Alignment explanation
Indices: 91182--91280 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
91172 ATTTATGTGT
* *
91182 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
91223 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
91265 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
91281 GAAATTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:100174 original size:49 final size:50
Alignment explanation
Indices: 100121--100223 Score: 172
Period size: 51 Copynumber: 2.1 Consensus size: 50
100111 CACCGCTCCT
* *
100121 TATATAATTATATCAG-TTAAAGGTATGGTGCGGCCCCTGCCCCGCGCTA
1 TATATAATTATATCAGATTAAAGGTAAGGCGCGGCCCCTGCCCCGCGCTA
100170 TATATAATTATATCAGAATTAAAGGTAAGGCGCGGCCCCTGCCCCGCGCTA
1 TATATAATTATATCAG-ATTAAAGGTAAGGCGCGGCCCCTGCCCCGCGCTA
100221 TAT
1 TAT
100224 CCCTACGTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
49 16 0.32
51 34 0.68
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (50 bp):
TATATAATTATATCAGATTAAAGGTAAGGCGCGGCCCCTGCCCCGCGCTA
Found at i:105891 original size:61 final size:61
Alignment explanation
Indices: 105793--105912 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 61
105783 CAATCTCTCG
* * **
105793 AAAACAAATGCAATCCGCATGGCAATTTGCGACCTAAATGAACAATATAATAATTTAAACA
1 AAAACAAATGCAATCCACATAGCAATTCACGACCTAAATGAACAATATAATAATTTAAACA
* *
105854 AAAACAAATGCAATCCACATAGCAATTCATGATCTAAATGAACAATATAATAATTTAAA
1 AAAACAAATGCAATCCACATAGCAATTCACGACCTAAATGAACAATATAATAATTTAAA
105913 AGGCGTAGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.50, C:0.17, G:0.09, T:0.24
Consensus pattern (61 bp):
AAAACAAATGCAATCCACATAGCAATTCACGACCTAAATGAACAATATAATAATTTAAACA
Found at i:108421 original size:101 final size:101
Alignment explanation
Indices: 108217--108417 Score: 368
Period size: 100 Copynumber: 2.0 Consensus size: 101
108207 TAGGATAAAA
** *
108217 CTTTAACCACAGCCGGACAGCACTTTACAAATCCTATGGAAAACAACTCAAATTACAAACCATGA
1 CTTTAACCACAGCCGGACAGCACTCAACAAATCCTATGGAAAACAACTCAAATTACAAACAATGA
108282 TGCTATAATCCAAAAAACAGAAACCACTGTTTATTT
66 TGCTATAATCCAAAAAACAGAAACCACTGTTTATTT
108318 CTTTAACCACAGCCGGACAGCACTCAACAAATCCTATGG-AAACAACTCAAATTACAAACAATGA
1 CTTTAACCACAGCCGGACAGCACTCAACAAATCCTATGGAAAACAACTCAAATTACAAACAATGA
108382 TGCTATAATCCAAAAAACAGAAACCACTGTTTATTT
66 TGCTATAATCCAAAAAACAGAAACCACTGTTTATTT
108418 TCTTCTGTCA
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
100 60 0.62
101 37 0.38
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (101 bp):
CTTTAACCACAGCCGGACAGCACTCAACAAATCCTATGGAAAACAACTCAAATTACAAACAATGA
TGCTATAATCCAAAAAACAGAAACCACTGTTTATTT
Found at i:112441 original size:14 final size:15
Alignment explanation
Indices: 112414--112443 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
112404 GCAAAAAGGG
112414 AAATAATCTAAAAAT
1 AAATAATCTAAAAAT
112429 AAATAAT-TAAAAAT
1 AAATAATCTAAAAAT
112443 A
1 A
112444 TTTCATTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAATCTAAAAAT
Found at i:112512 original size:16 final size:16
Alignment explanation
Indices: 112491--112522 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
112481 CGAAGATAAG
112491 AGAAGGAAACCTGAGC
1 AGAAGGAAACCTGAGC
112507 AGAAGGAAACCTGAGC
1 AGAAGGAAACCTGAGC
112523 CTGTCCCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.31, T:0.06
Consensus pattern (16 bp):
AGAAGGAAACCTGAGC
Found at i:114195 original size:15 final size:15
Alignment explanation
Indices: 114175--114205 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
114165 AACAATATAT
114175 AAAAAAAACAATGAA
1 AAAAAAAACAATGAA
*
114190 AAAAAAAAGAATGAA
1 AAAAAAAACAATGAA
114205 A
1 A
114206 TATGACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.81, C:0.03, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAAAAAACAATGAA
Found at i:114305 original size:19 final size:19
Alignment explanation
Indices: 114275--114330 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
114265 AAAAGAAGAA
*
114275 AATATAATAAAATATAAAT
1 AATAAAATAAAATATAAAT
* * *
114294 GGATAAAA-AAAATACACAT
1 -AATAAAATAAAATATAAAT
114313 AATAAAATAAAATATAAA
1 AATAAAATAAAATATAAA
114331 GCAATGAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
18 6 0.21
19 17 0.61
20 5 0.18
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATATAAAT
Found at i:116384 original size:105 final size:105
Alignment explanation
Indices: 116149--116837 Score: 1218
Period size: 105 Copynumber: 6.6 Consensus size: 105
116139 CGTCATGAGA
116149 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
*
116214 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
66 GAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* * *
116255 TTAAACTTTCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
*
116320 GAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
66 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
116360 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
116425 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
66 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* *
116465 TTGAACTTTCGTTGTCTGGGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
*
116530 GAAACGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
66 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
116570 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
116635 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
66 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* *
116675 TTGAACTTTCGTTGTCTGGGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGG
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-G
* * *
116739 AGAAATGTTTGGTGACAATCAGCGGTCCCTTCGTCATGAAG
65 AGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
**
116780 TTGAACTTGCGTTGTCTATAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
116838 GGTAAAACCT
Statistics
Matches: 558, Mismatches: 24, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
104 4 0.01
105 489 0.88
106 65 0.12
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
Found at i:117061 original size:1 final size:1
Alignment explanation
Indices: 117055--117080 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
117045 CACATGCTGG
117055 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
117081 GAGATGCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:117676 original size:49 final size:49
Alignment explanation
Indices: 117617--117711 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
117607 TTCTTTTTTC
** * * *
117617 TTTTTCTTTTTTTAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAATG
1 TTTTTCTTTTTCCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAATG
* *
117666 TTTTTTTTTTTCCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTCTTTTTCCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
117712 GCGAAATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (49 bp):
TTTTTCTTTTTCCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAATG
Found at i:128105 original size:15 final size:15
Alignment explanation
Indices: 128085--128115 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
128075 AACAATATAT
128085 AAAAAAAACAATGAA
1 AAAAAAAACAATGAA
*
128100 AAAAAAAAGAATGAA
1 AAAAAAAACAATGAA
128115 A
1 A
128116 TATGACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.81, C:0.03, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAAAAAACAATGAA
Found at i:128215 original size:19 final size:19
Alignment explanation
Indices: 128185--128240 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
128175 AAAAGAAGAA
*
128185 AATATAATAAAATATAAAT
1 AATAAAATAAAATATAAAT
* * *
128204 GGATAAAA-AAAATACACAT
1 -AATAAAATAAAATATAAAT
128223 AATAAAATAAAATATAAA
1 AATAAAATAAAATATAAA
128241 GCAATGAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
18 6 0.21
19 17 0.61
20 5 0.18
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATATAAAT
Found at i:128414 original size:35 final size:35
Alignment explanation
Indices: 128340--128417 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
128330 AATAATGATG
* ** *
128340 AAAATAATAAATAAAATATATATATATGTAGAATAT
1 AAAA-AATAAATAAAAGATATATATAAATAGAAGAT
*
128376 AAAAAATACATAAAAGATATATATAAATA-AAGAGT
1 AAAAAATAAATAAAAGATATATATAAATAGAAGA-T
128411 AAAAAAT
1 AAAAAAT
128418 GAGTAATACA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 3 0.08
35 29 0.81
36 4 0.11
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.27
Consensus pattern (35 bp):
AAAAAATAAATAAAAGATATATATAAATAGAAGAT
Found at i:128610 original size:2 final size:2
Alignment explanation
Indices: 128603--128640 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
128593 GGTAAAATGA
* *
128603 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128641 GTAAATACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:128641 original size:12 final size:12
Alignment explanation
Indices: 128606--128649 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
128596 AAAATGAATA
* *
128606 TATATATATATA
1 TATATACATATG
*
128618 TATATATATATG
1 TATATACATATG
128630 TATATACATATG
1 TATATACATATG
*
128642 TAAATACA
1 TATATACA
128650 AAAAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (12 bp):
TATATACATATG
Found at i:130569 original size:20 final size:20
Alignment explanation
Indices: 130544--130604 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
130534 TTTTGGTGCA
*
130544 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
* *
130564 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC-AT
*
130585 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATACCCCC
130605 CCACAGGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:130612 original size:22 final size:22
Alignment explanation
Indices: 130587--130628 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
130577 CCCCCTTTGA
*
130587 AGGGGAACCGATTCCCCCCCAC
1 AGGGGAACCGATACCCCCCCAC
*
130609 AGGGGAATCGATACCCCCCC
1 AGGGGAACCGATACCCCCCC
130629 TGGGGTTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.43, G:0.24, T:0.10
Consensus pattern (22 bp):
AGGGGAACCGATACCCCCCCAC
Found at i:136678 original size:20 final size:20
Alignment explanation
Indices: 136649--136686 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
136639 CCCCTTCAAA
*
136649 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
136669 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
136687 TGCACCAAAA
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:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:152971 original size:17 final size:16
Alignment explanation
Indices: 152949--152983 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
152939 TTTCCATACT
*
152949 ATCCAATTCCAAATAAA
1 ATCCAATT-CAAACAAA
152966 ATCCAATTCAAACAAA
1 ATCCAATTCAAACAAA
152982 AT
1 AT
152984 ATTCTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (16 bp):
ATCCAATTCAAACAAA
Found at i:159045 original size:2 final size:2
Alignment explanation
Indices: 159038--159097 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
159028 TATTTGAATT
159038 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
159080 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
159098 ATAATTAATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:160382 original size:3 final size:3
Alignment explanation
Indices: 160376--160433 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
160366 TTTTTTTAAT
* * *
160376 TTA TTA TT- TTA TT- TTA TTA GTA TTA TTA TTA TTA TTA TTA GTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
160422 TTA TTA TTA TTA
1 TTA TTA TTA TTA
160434 ATTTACATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 4 0.08
3 44 0.92
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Done.