Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009572.1 Corchorus capsularis cultivar CVL-1 contig09593, 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: 124120
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:838 original size:30 final size:30
Alignment explanation
Indices: 802--863 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
792 TCATCTCTCC
*
802 CCCGTGCGGCCTAACCCGTCAAGTCTTAAG
1 CCCGTGCGGCCCAACCCGTCAAGTCTTAAG
832 CCCGTGCGGCCCAACCCGTCAAGTCTTAAG
1 CCCGTGCGGCCCAACCCGTCAAGTCTTAAG
862 CC
1 CC
864 AGTTACCGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.40, G:0.23, T:0.18
Consensus pattern (30 bp):
CCCGTGCGGCCCAACCCGTCAAGTCTTAAG
Found at i:4160 original size:31 final size:30
Alignment explanation
Indices: 4122--4190 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
4112 TTAATACCCT
* *
4122 TTTTGCCCCT-TGAACTTGTAGTGTTTGGACA
1 TTTTGCCCCTCTGAACTT-CAAT-TTTGGACA
*
4153 TTTTG-CCCTCTGAACTTCAATTTTGGACG
1 TTTTGCCCCTCTGAACTTCAATTTTGGACA
4182 TTTTGCCCC
1 TTTTGCCCC
4191 CTCTAAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 12 0.36
30 9 0.27
31 12 0.36
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (30 bp):
TTTTGCCCCTCTGAACTTCAATTTTGGACA
Found at i:4394 original size:30 final size:28
Alignment explanation
Indices: 4348--4423 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 28
4338 TCATTTGAGG
* *
4348 GGGGCAAAACGTCCAAAATTGAGAGTTCA
1 GGGGTAAAATGTCCAAAATTGA-AGTTCA
4377 TGGGGTAAAATGTCCAAAATTGAAGTTCA
1 -GGGGTAAAATGTCCAAAATTGAAGTTCA
4406 -GGGTACAAAATGTCCAAA
1 GGGGT--AAAATGTCCAAA
4424 CGCTACAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 4 0.10
29 18 0.43
30 20 0.48
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (28 bp):
GGGGTAAAATGTCCAAAATTGAAGTTCA
Found at i:4415 original size:29 final size:30
Alignment explanation
Indices: 4347--4423 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
4337 ATCATTTGAG
* *
4347 GGGGGCAAAACGTCCAAAATTGAGAGTTCA
1 GGGGTCAAAATGTCCAAAATTGAGAGTTCA
4377 TGGGGT-AAAATGTCCAAAATTGA-AGTTCA
1 -GGGGTCAAAATGTCCAAAATTGAGAGTTCA
4406 -GGGTACAAAATGTCCAAA
1 GGGGT-CAAAATGTCCAAA
4424 CGCTACAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 4 0.10
29 18 0.43
30 16 0.38
31 4 0.10
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (30 bp):
GGGGTCAAAATGTCCAAAATTGAGAGTTCA
Found at i:5866 original size:20 final size:20
Alignment explanation
Indices: 5832--5884 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
5822 TTCCTTTAGT
**
5832 TTTGTTTTTACTTTTCGTAC
1 TTTGTTTTTGTTTTTCGTAC
**
5852 TTTGTTTTTGTTTTTCGTTT
1 TTTGTTTTTGTTTTTCGTAC
5872 TTGTGTTTTTGTT
1 TT-TGTTTTTGTT
5885 AATTTTGCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.04, C:0.08, G:0.15, T:0.74
Consensus pattern (20 bp):
TTTGTTTTTGTTTTTCGTAC
Found at i:8938 original size:19 final size:18
Alignment explanation
Indices: 8899--8953 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
8889 TATGCATTTG
*
8899 TTTGTTT-GTCTTTAG-T
1 TTTGTTTAGTTTTTAGCT
8915 TTTGTTTAAGTTTTTAGCT
1 TTTGTTT-AGTTTTTAGCT
*
8934 TTTGTTTTGTTTTCTAGCT
1 TTTGTTTAGTTTT-TAGCT
8953 T
1 T
8954 GCTAGGGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 7 0.21
18 12 0.36
19 14 0.42
ACGTcount: A:0.09, C:0.07, G:0.16, T:0.67
Consensus pattern (18 bp):
TTTGTTTAGTTTTTAGCT
Found at i:12366 original size:16 final size:16
Alignment explanation
Indices: 12320--12366 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
12310 ACACGTAATA
12320 ATTTTGTAATAATTAC
1 ATTTTGTAATAATTAC
12336 ATTTT-T--T--TCTAC
1 ATTTTGTAATAAT-TAC
12348 ATTTTGTAATAATTAC
1 ATTTTGTAATAATTAC
12364 ATT
1 ATT
12367 AACAAGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
11 1 0.04
12 8 0.32
13 2 0.08
15 2 0.08
16 11 0.44
17 1 0.04
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (16 bp):
ATTTTGTAATAATTAC
Found at i:12475 original size:25 final size:22
Alignment explanation
Indices: 12441--12507 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
12431 GGCAATGTCA
*
12441 CTATGAAATTTTGATAACCTCTTTC
1 CTATAAAATTTTGATAACCTC---C
*
12466 CTATAAAATTCTCG-TAACCTCC
1 CTATAAAATT-TTGATAACCTCC
* *
12488 TTATAAAATTCTGATAACCT
1 CTATAAAATTTTGATAACCT
12508 TAGCTTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 1 0.03
22 16 0.46
25 16 0.46
26 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (22 bp):
CTATAAAATTTTGATAACCTCC
Found at i:12641 original size:21 final size:21
Alignment explanation
Indices: 12597--12662 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
12587 CTCCATGTGG
12597 AATTTTAGTAATTTCACTATGA
1 AATTTTAGTAATTTC-CTATGA
12619 AATTTTAGTAATCTTCC-ATGA
1 AATTTTAGTAAT-TTCCTATGA
* *
12640 AATGTTGGTAATTTCCCTATGA
1 AATTTTAGTAATTT-CCTATGA
12662 A
1 A
12663 TTTCTTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.05
21 16 0.41
22 18 0.46
23 3 0.08
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (21 bp):
AATTTTAGTAATTTCCTATGA
Found at i:12825 original size:22 final size:22
Alignment explanation
Indices: 12800--13091 Score: 140
Period size: 22 Copynumber: 13.0 Consensus size: 22
12790 AGGCTACCCG
*
12800 CCTATGAAATTTTAGTAACCTC
1 CCTATGAAATTTTGGTAACCTC
* * *
12822 CCTATCAAATTATGGTAACCTT
1 CCTATGAAATTTTGGTAACCTC
* * *
12844 CATATGAGATTTCGATGGTAACCTA
1 CCTATGAAATTT---TGGTAACCTC
* * *
12869 CTTATCAAATTCTGGTAACTCACTTC
1 CCTATGAAATTTTGGTAA--C-C-TC
* ** *
12895 CCTATGAAATTCTAATAACCAC
1 CCTATGAAATTTTGGTAACCTC
* *
12917 CCTATGAAATTTTGTTAAGCTC
1 CCTATGAAATTTTGGTAACCTC
*
12939 CCTATG-AATTTCTGGTAAACTC
1 CCTATGAAATTT-TGGTAACCTC
* * ***
12961 ACAATG-AATTTTGGTAA-GAA
1 CCTATGAAATTTTGGTAACCTC
* * ** *
12981 CCAATGAAATTCTCATAGCCTC
1 CCTATGAAATTTTGGTAACCTC
* * *
13003 CCTACGAAATTTTGATAATCTC
1 CCTATGAAATTTTGGTAACCTC
** *
13025 TTTATGAAATTTTGGTAACTTC
1 CCTATGAAATTTTGGTAACCTC
* *
13047 TCTATGGAATTTTGGTAACCTC
1 CCTATGAAATTTTGGTAACCTC
* * *
13069 TCTATTAAATTTCGGTAATCCTC
1 CCTATGAAATTTTGGTAA-CCTC
13092 ATGAAATTCC
Statistics
Matches: 202, Mismatches: 57, Indels: 21
0.72 0.20 0.08
Matches are distributed among these distances:
20 5 0.02
21 18 0.09
22 139 0.69
23 5 0.02
24 2 0.01
25 18 0.09
26 15 0.07
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (22 bp):
CCTATGAAATTTTGGTAACCTC
Found at i:13177 original size:22 final size:22
Alignment explanation
Indices: 13148--13198 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 22
13138 TATGATATAT
*
13148 TTTTGGTAACCTCTTTATGAAA
1 TTTTGGTAACCTCTCTATGAAA
* *
13170 TTCTGGTAATCCAC-CTATGAAA
1 TTTTGGTAA-CCTCTCTATGAAA
*
13192 TTCTGGT
1 TTTTGGT
13199 GATCTACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (22 bp):
TTTTGGTAACCTCTCTATGAAA
Found at i:13207 original size:22 final size:22
Alignment explanation
Indices: 13163--13222 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
13153 GTAACCTCTT
13163 TATGAAATTCTGGTAATCCACC
1 TATGAAATTCTGGTAATCCACC
* *
13185 TATGAAATTCTGGTGATCTACC
1 TATGAAATTCTGGTAATCCACC
* *
13207 TATAAAATTCCGGTAA
1 TATGAAATTCTGGTAA
13223 CCTCCCAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (22 bp):
TATGAAATTCTGGTAATCCACC
Found at i:13332 original size:22 final size:22
Alignment explanation
Indices: 13285--13333 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
13275 CCTTCTTAAT
* * *
13285 TATGAAATTCTTGTAACCCGCC
1 TATGAAACTCTAGTAACCCGCA
13307 TATGAAACTCTAGTAACCTC-CA
1 TATGAAACTCTAGTAACC-CGCA
13329 TATGA
1 TATGA
13334 TATTTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (22 bp):
TATGAAACTCTAGTAACCCGCA
Found at i:13380 original size:22 final size:22
Alignment explanation
Indices: 13352--13428 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
13342 TTAATCTCTT
*
13352 TATGAAATTTTGGTTACCTCCG
1 TATGAAATTTTGGTTACCTCCC
*
13374 TATGAAATTTT-G-TA-ATGCCAC
1 TATGAAATTTTGGTTACCT-CC-C
* * *
13395 TGTGAAATTTTGGTAACCTCCT
1 TATGAAATTTTGGTTACCTCCC
13417 TATGAAATTTTG
1 TATGAAATTTTG
13429 TTAATATCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
19 1 0.02
20 4 0.09
21 11 0.26
22 23 0.53
23 3 0.07
24 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (22 bp):
TATGAAATTTTGGTTACCTCCC
Found at i:13454 original size:22 final size:22
Alignment explanation
Indices: 13408--13492 Score: 62
Period size: 22 Copynumber: 3.9 Consensus size: 22
13398 GAAATTTTGG
* * * *
13408 TAACCTCCTTATGAAATTTTGT
1 TAACATCCATATGAAATTCTAT
* *
13430 TAATATCTATATGAAATTCTAT
1 TAACATCCATATGAAATTCTAT
* * *
13452 TAACATCCCTATGAACTTCTAA
1 TAACATCCATATGAAATTCTAT
* * *
13474 TCACCTCCTTATGAAATTC
1 TAACATCCATATGAAATTC
13493 CGGTAACTCA
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (22 bp):
TAACATCCATATGAAATTCTAT
Found at i:21850 original size:21 final size:21
Alignment explanation
Indices: 21820--21860 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21810 GAATATTCTC
*
21820 ATCTATACAATAACAAATTTT
1 ATCTAAACAATAACAAATTTT
*
21841 ATCTAAACAATAATAAATTT
1 ATCTAAACAATAACAAATTT
21861 AACTCGTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (21 bp):
ATCTAAACAATAACAAATTTT
Found at i:21880 original size:21 final size:21
Alignment explanation
Indices: 21825--21886 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
21815 TTCTCATCTA
*
21825 TACAATAACAAATTTTA-TC-
1 TACAATAACAAATTTAACTCG
*
21844 TAAACAATAATAAATTTAACTCG
1 T--ACAATAACAAATTTAACTCG
* *
21867 TACAATAACCAATTTTACTC
1 TACAATAACAAATTTAACTC
21887 TCACCAAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.03
21 30 0.88
22 2 0.06
23 1 0.03
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.34
Consensus pattern (21 bp):
TACAATAACAAATTTAACTCG
Found at i:29923 original size:58 final size:57
Alignment explanation
Indices: 29840--30203 Score: 408
Period size: 58 Copynumber: 6.3 Consensus size: 57
29830 CAATAACGAT
* * * *
29840 CGAGCATCCCTTGGTCGCACAGCCAAGTGGGCATCCCCCACTCATGTAATAAGAAAAC
1 CGAGCATCCCTCGGTCACACGGCCAA-TGGGCATCCCCCACTCATGCAATAAGAAAAC
29898 CGAGCATCCCTCGGTCACACGGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAAC
1 CGAGCATCCCTCGGTCACACGGCCAA-TGGGCATCCCCCACTCATGCAATAAGAAAAC
* * * *
29956 CGAGCATCCCTCGGTCACATTGCCCAATGGGCATCCCCCACTCATGTAATAA-ATAAAT
1 CGAGCATCCCTCGGTCACA-CGGCCAATGGGCATCCCCCACTCATGCAATAAGA-AAAC
* * *
30014 CGAGCATCCCTCGGTCATACGGCCCAGTGGGCATCCTCCACTCATGCAATAAGAAAAC
1 CGAGCATCCCTCGGTCACACGG-CCAATGGGCATCCCCCACTCATGCAATAAGAAAAC
* * * * * * *
30072 CGAGCATCTCTCGGTCAAATGACCCAATGGGCATCCCCCACTCATGTAACAA-ATAAAT
1 CGAGCATCCCTCGGTCACACG-GCCAATGGGCATCCCCCACTCATGCAATAAGA-AAAC
* * * * * *
30130 CGAGCATCCCTCGGTTACATGGCCCAATGGGCATCCCCCACACGTGCAAGAAGAAAAA
1 CGAGCATCCCTCGGTCACACGG-CCAATGGGCATCCCCCACTCATGCAATAAGAAAAC
* *
30188 CAAGCATCCCTTGGTC
1 CGAGCATCCCTCGGTC
30204 GCACAACCTA
Statistics
Matches: 262, Mismatches: 36, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
57 3 0.01
58 252 0.96
59 7 0.03
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (57 bp):
CGAGCATCCCTCGGTCACACGGCCAATGGGCATCCCCCACTCATGCAATAAGAAAAC
Found at i:30005 original size:116 final size:116
Alignment explanation
Indices: 29840--30203 Score: 495
Period size: 116 Copynumber: 3.1 Consensus size: 116
29830 CAATAACGAT
* * *
29840 CGAGCATCCCTTGGTCGCACA-G-CCAAGTGGGCATCCCCCACTCATGTAATAAGA-AAACCGAG
1 CGAGCATCCCTCGGTCACA-ATGCCCAA-TGGGCATCCCCCACTCATGTAATAA-ATAAATCGAG
29902 CATCCCTCGGTCACACGGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAAC
63 CATCCCTCGGTCACACGGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAAC
*
29956 CGAGCATCCCTCGGTCACATTGCCCAATGGGCATCCCCCACTCATGTAATAAATAAATCGAGCAT
1 CGAGCATCCCTCGGTCACAATGCCCAATGGGCATCCCCCACTCATGTAATAAATAAATCGAGCAT
* * *
30021 CCCTCGGTCATACGGCCCAGTGGGCATCCTCCACTCATGCAATAAGAAAAC
66 CCCTCGGTCACACGGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAAC
* *
30072 CGAGCATCTCTCGGTCA-AATGACCCAATGGGCATCCCCCACTCATGTAACAAATAAATCGAGCA
1 CGAGCATCCCTCGGTCACAATG-CCCAATGGGCATCCCCCACTCATGTAATAAATAAATCGAGCA
* * * * * *
30136 TCCCTCGGTTACATGGCCCAA-TGGGCATCCCCCACACGTGCAAGAAGAAAAA
65 TCCCTCGGTCACACGG-CCAAGTGGGCATCCCCCACTCATGCAATAAGAAAAC
* *
30188 CAAGCATCCCTTGGTC
1 CGAGCATCCCTCGGTC
30204 GCACAACCTA
Statistics
Matches: 221, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
115 4 0.02
116 210 0.95
117 7 0.03
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (116 bp):
CGAGCATCCCTCGGTCACAATGCCCAATGGGCATCCCCCACTCATGTAATAAATAAATCGAGCAT
CCCTCGGTCACACGGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAAC
Found at i:30136 original size:174 final size:174
Alignment explanation
Indices: 29838--30170 Score: 490
Period size: 174 Copynumber: 1.9 Consensus size: 174
29828 AGCAATAACG
* * *
29838 ATCGAGCATCCCTTGGTCGCACAGCCAAGTGGGCATCCCCCACTCATGTAATAAGAAAACCGAGC
1 ATCGAGCATCCCTCGGTCACACAGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAACCGAGC
* * *
29903 ATCCCTCGGTCACACGGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAACCGAGCATCCCTC
66 ATCCCTCGGTCAAACGCCCAAGTGGGCATCCCCCACTCATGCAACAAGAAAACCGAGCATCCCTC
*
29968 GGTCACATTGCCCAATGGGCATCCCCCACTCATGTAATAAATAA
131 GGTCACATGGCCCAATGGGCATCCCCCACTCATGTAATAAATAA
* * * *
30012 ATCGAGCATCCCTCGGTCATACGGCCCAGTGGGCATCCTCCACTCATGCAATAAGAAAACCGAGC
1 ATCGAGCATCCCTCGGTCACACAGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAACCGAGC
* * * *
30077 ATCTCTCGGTCAAATGACCCAA-TGGGCATCCCCCACTCATGTAACAA-ATAAATCGAGCATCCC
66 ATCCCTCGGTCAAACG-CCCAAGTGGGCATCCCCCACTCATGCAACAAGA-AAACCGAGCATCCC
*
30140 TCGGTTACATGGCCCAATGGGCATCCCCCAC
129 TCGGTCACATGGCCCAATGGGCATCCCCCAC
30171 ACGTGCAAGA
Statistics
Matches: 141, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
173 1 0.01
174 136 0.96
175 4 0.03
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (174 bp):
ATCGAGCATCCCTCGGTCACACAGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAACCGAGC
ATCCCTCGGTCAAACGCCCAAGTGGGCATCCCCCACTCATGCAACAAGAAAACCGAGCATCCCTC
GGTCACATGGCCCAATGGGCATCCCCCACTCATGTAATAAATAA
Found at i:30196 original size:174 final size:174
Alignment explanation
Indices: 29842--30208 Score: 479
Period size: 174 Copynumber: 2.1 Consensus size: 174
29832 ATAACGATCG
* *
29842 AGCATCCCTTGGTCGCACAGCCAAGTGGGCATCCCCCACTCATGTAATAAGAAAACCGAGCATCC
1 AGCATCCCTTGGTCACACAGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAACCGAGCATCC
* * *
29907 CTCGGTCACACGGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAACCGAGCATCCCTCGGTC
66 CTCGGTCAAACGCCCAAGTGGGCATCCCCCACTCATGCAACAAGAAAACCGAGCATCCCTCGGTC
* * * * * *
29972 ACATTGCCCAATGGGCATCCCCCACTCATGTAATAAATAAATCG
131 ACATGGCCCAATGGGCATCCCCCACACATGCAAGAAATAAAACA
* * * * * *
30016 AGCATCCCTCGGTCATACGGCCCAGTGGGCATCCTCCACTCATGCAATAAGAAAACCGAGCATCT
1 AGCATCCCTTGGTCACACAGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAACCGAGCATCC
* * *
30081 CTCGGTCAAATGACCCAA-TGGGCATCCCCCACTCATGTAACAA-ATAAATCGAGCATCCCTCGG
66 CTCGGTCAAACG-CCCAAGTGGGCATCCCCCACTCATGCAACAAGA-AAACCGAGCATCCCTCGG
* *
30144 TTACATGGCCCAATGGGCATCCCCCACACGTGCAAGAAGA-AAAACA
129 TCACATGGCCCAATGGGCATCCCCCACACATGCAAGAA-ATAAAACA
*
30190 AGCATCCCTTGGTCGCACA
1 AGCATCCCTTGGTCACACA
30209 ACCTAAAATG
Statistics
Matches: 164, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
173 1 0.01
174 158 0.96
175 5 0.03
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.18
Consensus pattern (174 bp):
AGCATCCCTTGGTCACACAGCCAAGTGGGCATCCCCCACTCATGCAATAAGAAAACCGAGCATCC
CTCGGTCAAACGCCCAAGTGGGCATCCCCCACTCATGCAACAAGAAAACCGAGCATCCCTCGGTC
ACATGGCCCAATGGGCATCCCCCACACATGCAAGAAATAAAACA
Found at i:30267 original size:28 final size:28
Alignment explanation
Indices: 30227--30374 Score: 204
Period size: 28 Copynumber: 5.6 Consensus size: 28
30217 TGGGCACCCC
30227 CCAAAGGCATACAGCCTAGATAAAATTT
1 CCAAAGGCATACAGCCTAGATAAAATTT
* **
30255 CCAAAGGCGTACAGCC----T---A-CC
1 CCAAAGGCATACAGCCTAGATAAAATTT
30275 CCAAAGGCATACAGCCTAGATAAAATTT
1 CCAAAGGCATACAGCCTAGATAAAATTT
*
30303 CCAAAGGCATACAGTCTAGATAAAATTT
1 CCAAAGGCATACAGCCTAGATAAAATTT
30331 CCAAAGGCATACAGCCTAGATAAAATTT
1 CCAAAGGCATACAGCCTAGATAAAATTT
30359 CCAAAGGCATACAGCC
1 CCAAAGGCATACAGCC
30375 AAAATAGAGC
Statistics
Matches: 104, Mismatches: 8, Indels: 16
0.81 0.06 0.12
Matches are distributed among these distances:
20 15 0.14
21 1 0.01
24 2 0.02
27 1 0.01
28 85 0.82
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.19
Consensus pattern (28 bp):
CCAAAGGCATACAGCCTAGATAAAATTT
Found at i:30280 original size:20 final size:20
Alignment explanation
Indices: 30255--30292 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30245 GATAAAATTT
*
30255 CCAAAGGCGTACAGCCTACC
1 CCAAAGGCATACAGCCTACC
30275 CCAAAGGCATACAGCCTA
1 CCAAAGGCATACAGCCTA
30293 GATAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.37, G:0.18, T:0.11
Consensus pattern (20 bp):
CCAAAGGCATACAGCCTACC
Found at i:30295 original size:48 final size:50
Alignment explanation
Indices: 30225--30374 Score: 196
Period size: 48 Copynumber: 2.9 Consensus size: 50
30215 AATGGGCACC
*
30225 CCCCAAAGGCATACAGCCTAGATAAAATTTCCAAAGGCGTACAGCCT-A-
1 CCCCAAAGGCATACAGCCTAGATAAAATTTCCAAAGGCATACAGCCTAAT
*
30273 CCCCAAAGGCATACAGCCTAGATAAAATTTCCAAAGGCATACAGTCTAGATAAAAT
1 CCCCAAAGGCATACAGCCTAGATAAAATTTCCAAAGGCATACAG-C---CT--AAT
**
30329 TTCCAAAGGCATACAGCCTAGATAAAATTTCCAAAGGCATACAGCC
1 CCCCAAAGGCATACAGCCTAGATAAAATTTCCAAAGGCATACAGCC
30375 AAAATAGAGC
Statistics
Matches: 89, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
48 43 0.48
49 1 0.01
52 1 0.01
55 2 0.02
56 42 0.47
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (50 bp):
CCCCAAAGGCATACAGCCTAGATAAAATTTCCAAAGGCATACAGCCTAAT
Found at i:30774 original size:29 final size:29
Alignment explanation
Indices: 30725--30794 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
30715 AAAAAAGGTC
* *
30725 GTAGTACGCCCCCTAAGGCTCACGAAGTG
1 GTAGTACGCCCCCTAAAGCTCACAAAGTG
*
30754 GTAGTACTCCCTCC-AAAGCTCACAAAGTG
1 GTAGTACGCCC-CCTAAAGCTCACAAAGTG
*
30783 GTAGTACACCCC
1 GTAGTACGCCCC
30795 TAGATGGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.03
29 33 0.92
30 2 0.06
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (29 bp):
GTAGTACGCCCCCTAAAGCTCACAAAGTG
Found at i:30955 original size:26 final size:25
Alignment explanation
Indices: 30926--31029 Score: 93
Period size: 26 Copynumber: 3.9 Consensus size: 25
30916 GAGAGCGTCC
30926 TACAACCATCTTGGAAGAGAGCACTG
1 TACAACCATCTTGGAAGAGAGCAC-G
* * *
30952 TACATCCACCATTTTGGACGAGCGC-CG
1 TACA---ACCATCTTGGAAGAGAGCACG
*
30979 TACATCAACCATCTTGGAATAGAGCACCG
1 T--A-CAACCATCTTGGAAGAGAGCA-CG
31008 TACAACCATCTTGGAAGAGAGC
1 TACAACCATCTTGGAAGAGAGC
31030 GCCGTACATC
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
26 23 0.37
27 17 0.27
28 1 0.02
29 19 0.31
30 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (25 bp):
TACAACCATCTTGGAAGAGAGCACG
Found at i:31011 original size:29 final size:29
Alignment explanation
Indices: 30930--31327 Score: 467
Period size: 29 Copynumber: 14.0 Consensus size: 29
30920 GCGTCCTACA
* * *
30930 ACCATCTTGGAAGAGAGCACTGTACATCC
1 ACCATTTTGGAAGAGAGCGCCGTACATCC
* *
30959 ACCATTTTGG-A-CGAGCGCCGTACATCA
1 ACCATTTTGGAAGAGAGCGCCGTACATCC
* * *
30986 ACCATCTTGGAATAGAGCACCGTACA---
1 ACCATTTTGGAAGAGAGCGCCGTACATCC
*
31012 ACCATCTTGGAAGAGAGCGCCGTACATCC
1 ACCATTTTGGAAGAGAGCGCCGTACATCC
*
31041 ACCATTTTGGACA-AGAGCGCTGTACATCC
1 ACCATTTTGGA-AGAGAGCGCCGTACATCC
*
31070 ACCATTTTGGACGAGAGCGCCGTACATCC
1 ACCATTTTGGAAGAGAGCGCCGTACATCC
* *
31099 ACCATTTTGGACA-AGATCGCTGTACATCC
1 ACCATTTTGGA-AGAGAGCGCCGTACATCC
* *
31128 ACCATTTTGGACGAGAGCACCGTACATCC
1 ACCATTTTGGAAGAGAGCGCCGTACATCC
31157 ACCATTTTGGACA-AGAGCGCCGTACATCC
1 ACCATTTTGGA-AGAGAGCGCCGTACATCC
* *
31186 ACCATTTTAGACGAGAGCGCCGTACATCC
1 ACCATTTTGGAAGAGAGCGCCGTACATCC
*
31215 ACCATCTTGGAAGAGAGCGCCGTACATCC
1 ACCATTTTGGAAGAGAGCGCCGTACATCC
* *
31244 ACCATTTTGG-A-CGAGCGCTGTACATCC
1 ACCATTTTGGAAGAGAGCGCCGTACATCC
* **
31271 ACCATTTTGGACA-AGAACGATGTACATCC
1 ACCATTTTGGA-AGAGAGCGCCGTACATCC
*
31300 ACCATCTTGGAAGAGAGCGCCGTACATC
1 ACCATTTTGGAAGAGAGCGCCGTACATC
31328 AATCTTGGAA
Statistics
Matches: 317, Mismatches: 38, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.08
27 45 0.14
28 4 0.01
29 243 0.77
30 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (29 bp):
ACCATTTTGGAAGAGAGCGCCGTACATCC
Found at i:31094 original size:58 final size:58
Alignment explanation
Indices: 30930--31327 Score: 528
Period size: 58 Copynumber: 7.0 Consensus size: 58
30920 GCGTCCTACA
* * *
30930 ACCATCTTGGA-AGAGAGCACTGTACATCCACCATTTTGGAC--GAGCGCCGTACATCA
1 ACCATTTTGGACA-AGAGCGCTGTACATCCACCATTTTGGACGAGAGCGCCGTACATCC
* * * * *
30986 ACCATCTTGGA-ATAGAGCACCGTACA---ACCATCTTGGAAGAGAGCGCCGTACATCC
1 ACCATTTTGGACA-AGAGCGCTGTACATCCACCATTTTGGACGAGAGCGCCGTACATCC
31041 ACCATTTTGGACAAGAGCGCTGTACATCCACCATTTTGGACGAGAGCGCCGTACATCC
1 ACCATTTTGGACAAGAGCGCTGTACATCCACCATTTTGGACGAGAGCGCCGTACATCC
* *
31099 ACCATTTTGGACAAGATCGCTGTACATCCACCATTTTGGACGAGAGCACCGTACATCC
1 ACCATTTTGGACAAGAGCGCTGTACATCCACCATTTTGGACGAGAGCGCCGTACATCC
* *
31157 ACCATTTTGGACAAGAGCGCCGTACATCCACCATTTTAGACGAGAGCGCCGTACATCC
1 ACCATTTTGGACAAGAGCGCTGTACATCCACCATTTTGGACGAGAGCGCCGTACATCC
* * *
31215 ACCATCTTGGA-AGAGAGCGCCGTACATCCACCATTTTGGAC--GAGCGCTGTACATCC
1 ACCATTTTGGACA-AGAGCGCTGTACATCCACCATTTTGGACGAGAGCGCCGTACATCC
* * * *
31271 ACCATTTTGGACAAGAACGATGTACATCCACCATCTTGGAAGAGAGCGCCGTACATC
1 ACCATTTTGGACAAGAGCGCTGTACATCCACCATTTTGGACGAGAGCGCCGTACATC
31328 AATCTTGGAA
Statistics
Matches: 306, Mismatches: 26, Indels: 18
0.87 0.07 0.05
Matches are distributed among these distances:
53 10 0.03
55 35 0.11
56 72 0.24
57 2 0.01
58 187 0.61
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (58 bp):
ACCATTTTGGACAAGAGCGCTGTACATCCACCATTTTGGACGAGAGCGCCGTACATCC
Found at i:31557 original size:28 final size:27
Alignment explanation
Indices: 31517--31635 Score: 110
Period size: 28 Copynumber: 4.6 Consensus size: 27
31507 ACGCTCCAAT
31517 AGCGGTAGTACGCTCCCAATGACCTCAA
1 AGCGGTAGTACGCTCCCAATGACCT-AA
* *
31545 AGCGGTAGTACGCTCCAAATGACCATGA
1 AGCGGTAGTACGCTCCCAATGACC-TAA
31573 AGCGGTAGTACG----C--T--CCTAA
1 AGCGGTAGTACGCTCCCAATGACCTAA
*
31592 AGCGGTAGTACGCTCCCAATGACCGCAA
1 AGCGGTAGTACGCTCCCAATGACC-TAA
* *
31620 AGCGATAGCACGCTCC
1 AGCGGTAGTACGCTCC
31636 AAAAGCGGTA
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
19 14 0.19
20 2 0.03
22 1 0.01
23 1 0.01
25 1 0.01
27 2 0.03
28 52 0.70
29 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.24, T:0.17
Consensus pattern (27 bp):
AGCGGTAGTACGCTCCCAATGACCTAA
Found at i:31575 original size:75 final size:75
Alignment explanation
Indices: 31481--31638 Score: 246
Period size: 75 Copynumber: 2.1 Consensus size: 75
31471 ATGATGGAGT
* * *
31481 GCTCCCAATGACCGCGAAGCGGTAGTACGCTCC-AATAGCGGTAGTACGCTCCCAATGACCTCAA
1 GCTCCAAATGACCACGAAGCGGTAGTACGCTCCTAA-AGCGGTAGTACGCTCCCAATGACCGCAA
* *
31545 AGCGGTAGTAC
65 AGCGATAGCAC
*
31556 GCTCCAAATGACCATGAAGCGGTAGTACGCTCCTAAAGCGGTAGTACGCTCCCAATGACCGCAAA
1 GCTCCAAATGACCACGAAGCGGTAGTACGCTCCTAAAGCGGTAGTACGCTCCCAATGACCGCAAA
31621 GCGATAGCAC
66 GCGATAGCAC
31631 GCTCCAAA
1 GCTCCAAA
31639 AGCGGTAGAA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
75 74 0.97
76 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.24, T:0.16
Consensus pattern (75 bp):
GCTCCAAATGACCACGAAGCGGTAGTACGCTCCTAAAGCGGTAGTACGCTCCCAATGACCGCAAA
GCGATAGCAC
Found at i:31594 original size:47 final size:47
Alignment explanation
Indices: 31543--31657 Score: 158
Period size: 47 Copynumber: 2.4 Consensus size: 47
31533 CAATGACCTC
** * * *
31543 AAAGCGGTAGTACGCTCCAAATGACCATGAAGCGGTAGTACGCTCCT
1 AAAGCGGTAGTACGCTCCAAATGACCACAAAGCGATAGCACGCTCCA
* *
31590 AAAGCGGTAGTACGCTCCCAATGACCGCAAAGCGATAGCACGCTCCA
1 AAAGCGGTAGTACGCTCCAAATGACCACAAAGCGATAGCACGCTCCA
*
31637 AAAGCGGTAGAACGCTCCAAA
1 AAAGCGGTAGTACGCTCCAAA
31658 AAAAAAGGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 59 1.00
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (47 bp):
AAAGCGGTAGTACGCTCCAAATGACCACAAAGCGATAGCACGCTCCA
Found at i:31642 original size:19 final size:19
Alignment explanation
Indices: 31618--31658 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
31608 CAATGACCGC
*
31618 AAAGCGATAGCACGCTCCA
1 AAAGCGATAGAACGCTCCA
*
31637 AAAGCGGTAGAACGCTCCA
1 AAAGCGATAGAACGCTCCA
31656 AAA
1 AAA
31659 AAAAAGGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.27, G:0.22, T:0.10
Consensus pattern (19 bp):
AAAGCGATAGAACGCTCCA
Found at i:31759 original size:24 final size:24
Alignment explanation
Indices: 31726--31787 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
31716 TCACCATAGG
* *
31726 AGAACACTCACCATCAAATGTGGT
1 AGAACGCTCACCATCAAATGAGGT
31750 AGAACGCTCACCATCAAATGAGGT
1 AGAACGCTCACCATCAAATGAGGT
*
31774 AGAATGCTCACCAT
1 AGAACGCTCACCAT
31788 GGAAGCGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (24 bp):
AGAACGCTCACCATCAAATGAGGT
Found at i:38908 original size:120 final size:117
Alignment explanation
Indices: 38697--38918 Score: 320
Period size: 120 Copynumber: 1.9 Consensus size: 117
38687 TAAGTTATAT
* * *
38697 ATGGTTGTTTATCTTGAATTATTATATAATGTTTATGATTATGTTTCTTTGTCTGACATAATATT
1 ATGGTGGTCTATCTTGAATTATTATATAATGTTTATGATTATGTTCCTTTGTCTGACATAATATT
38762 TCTGAAATAGTTATTCCTGACTTGAAATAATATATATAAATATGTGTGTGTGA
66 TCTGAAATAGTTATT-CTGACTTGAAATAATATATATAAATATGTGTGTGTGA
* * * **
38815 ATGGTGGTCTATCTTGAATTATTATATAATGTGTTTTTGTTTATGTTCCTTTGTCTTATTTAATA
1 ATGGTGGTCTATCTTGAATTATTATATAA--TGTTTATGATTATGTTCCTTTGTCTGACATAATA
38880 TTTCTGAAATAGTTATT-TGCAACTTGAAATAATATATAT
64 TTTCTGAAATAGTTATTCTG--ACTTGAAATAATATATAT
38919 GTGATCTAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
118 29 0.32
120 63 0.68
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.49
Consensus pattern (117 bp):
ATGGTGGTCTATCTTGAATTATTATATAATGTTTATGATTATGTTCCTTTGTCTGACATAATATT
TCTGAAATAGTTATTCTGACTTGAAATAATATATATAAATATGTGTGTGTGA
Found at i:40228 original size:26 final size:28
Alignment explanation
Indices: 40195--40248 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
40185 CTTTTTTTTC
40195 TCTTTTTTTA-CTCCTTAAAATAATTCTT
1 TCTTTTTTTAGCTCCTTAAAATAATTC-T
* *
40223 TTTTTTTTTAGCTTCTTAAAATAATT
1 TCTTTTTTTAGCTCCTTAAAATAATT
40249 TATCTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (28 bp):
TCTTTTTTTAGCTCCTTAAAATAATTCT
Found at i:42458 original size:11 final size:11
Alignment explanation
Indices: 42415--42452 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
42405 TTCCTATATA
*
42415 AAATAAATTAT
1 AAATTAATTAT
42426 CAAA-TAATTAT
1 -AAATTAATTAT
42437 AAATTAATTAT
1 AAATTAATTAT
42448 AAATT
1 AAATT
42453 TGTTATGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATTAATTAT
Found at i:42920 original size:30 final size:32
Alignment explanation
Indices: 42874--42968 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 32
42864 GACAAATTGT
* *
42874 CCCGTGAACTACCAATTTAAGCCTCCGTTGCC
1 CCCGTAAACTATCAATTTAAGCCTCCGTTGCC
** * ***
42906 CCC-TAAACT-TCAATTTTGGAC-AAATTGCC
1 CCCGTAAACTATCAATTTAAGCCTCCGTTGCC
*
42935 CCCGTGAACTATCAATTTAAGCCTCCGTTGCC
1 CCCGTAAACTATCAATTTAAGCCTCCGTTGCC
42967 CC
1 CC
42969 TTCATTAATA
Statistics
Matches: 45, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
29 8 0.18
30 13 0.29
31 14 0.31
32 10 0.22
ACGTcount: A:0.24, C:0.35, G:0.14, T:0.27
Consensus pattern (32 bp):
CCCGTAAACTATCAATTTAAGCCTCCGTTGCC
Found at i:42921 original size:60 final size:61
Alignment explanation
Indices: 42848--42968 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
42838 GATTTGTCCT
*
42848 CTAAACTTCAATTTTGGACAAATTG-TCCCGTGAACTACCAATTTAAGCCTCCGTTGCCCC
1 CTAAACTTCAATTTTGGACAAATTGCCCCCGTGAACTACCAATTTAAGCCTCCGTTGCCCC
*
42908 CTAAACTTCAATTTTGGACAAATTGCCCCCGTGAACTATCAATTTAAGCCTCCGTTGCCCC
1 CTAAACTTCAATTTTGGACAAATTGCCCCCGTGAACTACCAATTTAAGCCTCCGTTGCCCC
42969 TTCATTAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 25 0.43
61 33 0.57
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (61 bp):
CTAAACTTCAATTTTGGACAAATTGCCCCCGTGAACTACCAATTTAAGCCTCCGTTGCCCC
Found at i:49711 original size:20 final size:20
Alignment explanation
Indices: 49660--49718 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
49650 TATATATATT
**
49660 TATATTATTAGTAAATTAGTA
1 TATATTATTA-TTTATTAGTA
*
49681 AATA-T-TTATTTATTAGTA
1 TATATTATTATTTATTAGTA
49699 TATATTATTATTTATTAGTA
1 TATATTATTATTTATTAGTA
49719 AAACATATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 11 0.34
19 4 0.12
20 14 0.44
21 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (20 bp):
TATATTATTATTTATTAGTA
Found at i:49795 original size:10 final size:9
Alignment explanation
Indices: 49780--49812 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
49770 TAAAAAAAAC
49780 ATATATATTA
1 ATATATA-TA
49790 ATATATAT-
1 ATATATATA
49798 ATATATATA
1 ATATATATA
49807 ATATAT
1 ATATAT
49813 TTCGGGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 7 0.32
10 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
ATATATATA
Found at i:60006 original size:30 final size:29
Alignment explanation
Indices: 59931--60015 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
59921 ATTTGGATTT
*
59931 TTATTATATATAATTTATAAAAAATTAATTA
1 TTATTATATAT-ATATAT-AAAAATTAATTA
* *
59962 TTATTATTTTTATATATAAAAATTAATTA
1 TTATTATATATATATATAAAAATTAATTA
*
59991 TTCATCT-TATATATAT-TACAAATTA
1 TT-AT-TATATATATATATAAAAATTA
60016 TAATATATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
29 22 0.48
30 14 0.30
31 10 0.22
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (29 bp):
TTATTATATATATATATAAAAATTAATTA
Found at i:60013 original size:29 final size:28
Alignment explanation
Indices: 59950--60036 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
59940 ATAATTTATA
* *
59950 AAAAATTAATTATT-ATTATTTTTATATAT
1 AAAAATTAATTATTCATT-TATATATAT-T
59979 AAAAATTAATTATTCATCTTATATATATT
1 AAAAATTAATTATTCAT-TTATATATATT
* *
60008 ACAAATTATAATATATCATTTAT-TATATT
1 AAAAATTA-ATTAT-TCATTTATATATATT
60037 TATATTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
29 28 0.56
30 17 0.34
31 5 0.10
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.51
Consensus pattern (28 bp):
AAAAATTAATTATTCATTTATATATATT
Found at i:60212 original size:2 final size:2
Alignment explanation
Indices: 60205--60232 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
60195 ATCAAAGTCA
60205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60233 TCAGTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60579 original size:17 final size:17
Alignment explanation
Indices: 60557--60589 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
60547 CAATATATAC
60557 TAGGCTTTATCAACAAT
1 TAGGCTTTATCAACAAT
60574 TAGGCTTTATCAACAA
1 TAGGCTTTATCAACAA
60590 AATAAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (17 bp):
TAGGCTTTATCAACAAT
Found at i:67350 original size:65 final size:65
Alignment explanation
Indices: 67246--67371 Score: 207
Period size: 65 Copynumber: 1.9 Consensus size: 65
67236 TGATGCCCAA
* * *
67246 CCATTTTACTTAACGAATCTTATATCCGACTATCCTTGCCTGTGTAAGTATATCTCATTACCCGG
1 CCATTTTACTTAACGAATCTCATACCCGACTATCCTTGCCTGCGTAAGTATATCTCATTACCCGG
* *
67311 CCATTTTACTTAATGAATCTCATACCCGGCTATCCTTGCCTGCGTAAGTATATCTCATTAC
1 CCATTTTACTTAACGAATCTCATACCCGACTATCCTTGCCTGCGTAAGTATATCTCATTAC
67372 TCCGAACCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (65 bp):
CCATTTTACTTAACGAATCTCATACCCGACTATCCTTGCCTGCGTAAGTATATCTCATTACCCGG
Found at i:72362 original size:30 final size:29
Alignment explanation
Indices: 72313--72372 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
72303 ATTTAGAAAT
*
72313 ATATATTTTAAAAAAGGGTATAATCAGAA
1 ATATATTTTAAAAAAGGGTACAATCAGAA
*
72342 ATATATTTTAAAAAAGGGGTACAATCGGAA
1 ATATATTTTAAAAAA-GGGTACAATCAGAA
72372 A
1 A
72373 ACATAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (29 bp):
ATATATTTTAAAAAAGGGTACAATCAGAA
Found at i:76502 original size:55 final size:55
Alignment explanation
Indices: 76418--76528 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
76408 TTGAATTGTA
76418 TTCATGGAGGGCCTTGTTCGGCATGCCCCCCAGCACATTTGGGGGGCCAGTTGGG
1 TTCATGGAGGGCCTTGTTCGGCATGCCCCCCAGCACATTTGGGGGGCCAGTTGGG
76473 TTCATGGAGGGCCTTGTTCGGCATGCCCCCCAGCACATTTGGGGGGCCAGTTGGG
1 TTCATGGAGGGCCTTGTTCGGCATGCCCCCCAGCACATTTGGGGGGCCAGTTGGG
76528 T
1 T
76529 CCATTCGCGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.13, C:0.27, G:0.36, T:0.24
Consensus pattern (55 bp):
TTCATGGAGGGCCTTGTTCGGCATGCCCCCCAGCACATTTGGGGGGCCAGTTGGG
Found at i:76788 original size:2 final size:2
Alignment explanation
Indices: 76783--76819 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
76773 TTTACCTCTC
*
76783 TA TA TA TA TA AA 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 TA T
76820 TATTTTGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:81534 original size:55 final size:55
Alignment explanation
Indices: 81468--81607 Score: 271
Period size: 55 Copynumber: 2.5 Consensus size: 55
81458 GCTTATGAAG
81468 AAATTGAAGAACTTCAAGTGATGGAAAACGAAGCTGCTGCAATTTTGAACCAACC
1 AAATTGAAGAACTTCAAGTGATGGAAAACGAAGCTGCTGCAATTTTGAACCAACC
81523 AAATTGAAGAACTTCAAGTGATGGAAAACGAAGCTGCTGCAATTTTGAACCAACC
1 AAATTGAAGAACTTCAAGTGATGGAAAACGAAGCTGCTGCAATTTTGAACCAACC
*
81578 AAATTGAAAAACTTCAAGTGATGGAAAACG
1 AAATTGAAGAACTTCAAGTGATGGAAAACG
81608 GCAAGGAGCT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 84 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.21
Consensus pattern (55 bp):
AAATTGAAGAACTTCAAGTGATGGAAAACGAAGCTGCTGCAATTTTGAACCAACC
Found at i:91160 original size:50 final size:50
Alignment explanation
Indices: 91093--91203 Score: 206
Period size: 50 Copynumber: 2.2 Consensus size: 50
91083 TTGTGTTTGG
91093 TACACGATTCTAGTCAACTTAATTGTATATGATGAATTCAATTTTGGAAT
1 TACACGATTCTAGTCAACTTAATTGTATATGATGAATTCAATTTTGGAAT
91143 TACACGATTCTAGTCAACTTAATTGTATATGATGAATTCAATTTTGGAAT
1 TACACGATTCTAGTCAACTTAATTGTATATGATGAATTCAATTTTGGAAT
*
91193 TCCAC-ATTCTA
1 TACACGATTCTA
91204 TATGATGAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
49 6 0.10
50 54 0.90
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (50 bp):
TACACGATTCTAGTCAACTTAATTGTATATGATGAATTCAATTTTGGAAT
Found at i:91206 original size:34 final size:34
Alignment explanation
Indices: 91168--91232 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
91158 AACTTAATTG
91168 TATATGATGAATTCAATTTTGGAATTCCACATTC
1 TATATGATGAATTCAATTTTGGAATTCCACATTC
*
91202 TATATGATGAATTGAATTTTGGAATTCCACA
1 TATATGATGAATTCAATTTTGGAATTCCACA
91233 AACTGAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (34 bp):
TATATGATGAATTCAATTTTGGAATTCCACATTC
Found at i:95534 original size:17 final size:17
Alignment explanation
Indices: 95512--95566 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
95502 GATCACCCCC
* **
95512 AGATCACTAGTGATTTA
1 AGATCACCAGTGATGCA
95529 AGATCACCAGTGATGCA
1 AGATCACCAGTGATGCA
* *
95546 AGATCACCGGTGATGAA
1 AGATCACCAGTGATGCA
95563 AGAT
1 AGAT
95567 TACATGAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (17 bp):
AGATCACCAGTGATGCA
Found at i:106299 original size:22 final size:21
Alignment explanation
Indices: 106274--106331 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
106264 TGAAACATTA
106274 ATATAGGAAAATAATTAAAATT
1 ATATAGG-AAATAATTAAAATT
* *
106296 ATATATGATATAA-TAAAATT
1 ATATAGGAAATAATTAAAATT
*
106316 TTATGAGGTAAATAAT
1 ATAT-AGG-AAATAAT
106332 GTATGATCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 10 0.36
21 7 0.25
22 11 0.39
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.36
Consensus pattern (21 bp):
ATATAGGAAATAATTAAAATT
Found at i:112328 original size:1 final size:1
Alignment explanation
Indices: 112322--112347 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
112312 TTTAATGAAC
112322 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
112348 GAAACAGAAG
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:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:112779 original size:21 final size:21
Alignment explanation
Indices: 112755--112799 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
112745 AATAACTGGA
112755 TTGCTAAAT-ACCGCCCCATCT
1 TTGCT-AATCACCGCCCCATCT
* *
112776 TTGCTATTCACCGCCCCATTT
1 TTGCTAATCACCGCCCCATCT
112797 TTG
1 TTG
112800 ACGTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.18, C:0.36, G:0.11, T:0.36
Consensus pattern (21 bp):
TTGCTAATCACCGCCCCATCT
Found at i:113040 original size:32 final size:32
Alignment explanation
Indices: 112999--113066 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
112989 CCAAGAGGGC
112999 GGCTTACCGTGGCGAAACCGCCCCACTGGGGA
1 GGCTTACCGTGGCGAAACCGCCCCACTGGGGA
* *
113031 GGCTTACCGTGGCGAAGCCGCCTCACTGGGGA
1 GGCTTACCGTGGCGAAACCGCCCCACTGGGGA
113063 GGCT
1 GGCT
113067 CCAGCCGTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.16, C:0.32, G:0.37, T:0.15
Consensus pattern (32 bp):
GGCTTACCGTGGCGAAACCGCCCCACTGGGGA
Found at i:113084 original size:34 final size:32
Alignment explanation
Indices: 112999--113098 Score: 105
Period size: 32 Copynumber: 3.1 Consensus size: 32
112989 CCAAGAGGGC
* * *
112999 GGCTTACCGTGGCGAAACCGCCCCACTGGGGA
1 GGCTCACCGTGGCGAAGCCGCCTCACTGGGGA
*
113031 GGCTTACCGTGGCGAAGCCGCCTCACTGGGGA
1 GGCTCACCGTGGCGAAGCCGCCTCACTGGGGA
*
113063 GGCTCCAGCCGTGGCTG-AGCCGTCCT-AGTGGGGA
1 GGCT-CA-CCGTGGC-GAAGCCG-CCTCACTGGGGA
113097 GG
1 GG
113099 TTAGTGTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
32 34 0.57
33 1 0.02
34 21 0.35
35 4 0.07
ACGTcount: A:0.15, C:0.31, G:0.39, T:0.15
Consensus pattern (32 bp):
GGCTCACCGTGGCGAAGCCGCCTCACTGGGGA
Found at i:118354 original size:168 final size:168
Alignment explanation
Indices: 117952--118462 Score: 763
Period size: 168 Copynumber: 3.0 Consensus size: 168
117942 GGTTGTTGCA
* *
117952 AAGATATTAATGTAGAGATTTTTGAAGGGGAAATCGGAAATAAATCCGTGGAAGCTGATTTGGTG
1 AAGATATTAATTTAGAGATTTTTGAAGGGGAAATCGGCAATAAATCCGTGGAAGCTGATTTGGTG
* * *
118017 GTGAATAATTTGAATTCAAATAGGAGTGATGTTGCTAATGGAGATTTAGTTATTTATGATAGCAT
66 ATGAATAATTTGAATTCAATTAGGAGTGATGTTGCTAATGGAGATTTAGTTATTTATGATAACAT
* * *
118082 TGACTCTAGAAAAGATCGAGTTTGTTGCAGAATCTACT-
131 TGACTCTAGTAAAGA-GGAGTTTGTTGCAGAATCTAATG
*
118120 AATGATATTAATTTAGAGATTTTTGAAGGGGAGATCGGCAATAAATCCGTGGAAGCTGATTTGGT
1 AA-GATATTAATTTAGAGATTTTTGAAGGGGAAATCGGCAATAAATCCGTGGAAGCTGATTTGGT
*
118185 GATGAATAATTTGAATTCAATTAGGAGTGATGTTGCTAATGGAGATTTTGTTATTTATGATAACA
65 GATGAATAATTTGAATTCAATTAGGAGTGATGTTGCTAATGGAGATTTAGTTATTTATGATAACA
* * *
118250 TTGGCTCTAGTAAAGAGGAATTTGTTGTAGAATCTAATG
130 TTGACTCTAGTAAAGAGGAGTTTGTTGCAGAATCTAATG
** * **
118289 AAGATATTAATTTAGAGATTTTCAAAGGGGAAATCGGCATTAAATCTATGGAAGCTGATTTGGTG
1 AAGATATTAATTTAGAGATTTTTGAAGGGGAAATCGGCAATAAATCCGTGGAAGCTGATTTGGTG
* * * * * *
118354 ATGAATAATTTGAATTCAATTAGGAGTGATGTTGCTAATGGAAATTCAGCTAATTATGATACCTT
66 ATGAATAATTTGAATTCAATTAGGAGTGATGTTGCTAATGGAGATTTAGTTATTTATGATAACAT
*
118419 TGACTCTAGTAAAGAGGTGTTTGTTGCAGAATCTAATG
131 TGACTCTAGTAAAGAGGAGTTTGTTGCAGAATCTAATG
*
118457 ATGATA
1 AAGATA
118463 CTCAGGGCTT
Statistics
Matches: 310, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
168 174 0.56
169 136 0.44
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.35
Consensus pattern (168 bp):
AAGATATTAATTTAGAGATTTTTGAAGGGGAAATCGGCAATAAATCCGTGGAAGCTGATTTGGTG
ATGAATAATTTGAATTCAATTAGGAGTGATGTTGCTAATGGAGATTTAGTTATTTATGATAACAT
TGACTCTAGTAAAGAGGAGTTTGTTGCAGAATCTAATG
Found at i:119564 original size:32 final size:32
Alignment explanation
Indices: 119528--119592 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
119518 TTTCCTAACA
119528 AAAGTACACATATTTTTGTAAGGCAAAATTTT
1 AAAGTACACATATTTTTGTAAGGCAAAATTTT
119560 AAAGTACACATATTTTTGTAAGGCAAAATTTT
1 AAAGTACACATATTTTTGTAAGGCAAAATTTT
119592 A
1 A
119593 TTCAACAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (32 bp):
AAAGTACACATATTTTTGTAAGGCAAAATTTT
Found at i:124009 original size:18 final size:18
Alignment explanation
Indices: 123988--124049 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
123978 ATAAAAGTAA
123988 ATATATATTTATTATAAT
1 ATATATATTTATTATAAT
124006 ATATATAATTATAATTATAAT
1 ATATAT-ATT-T-ATTATAAT
124027 -TATA-ATTTA-TATAAT
1 ATATATATTTATTATAAT
*
124042 AAATATAT
1 ATATATAT
124050 ATAAAGTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
15 6 0.16
16 4 0.11
17 3 0.08
18 9 0.24
19 3 0.08
20 5 0.13
21 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATATATTTATTATAAT
Found at i:124018 original size:15 final size:15
Alignment explanation
Indices: 123987--124119 Score: 94
Period size: 13 Copynumber: 9.5 Consensus size: 15
123977 TATAAAAGTA
*
123987 AATATATATTTATTAT
1 AATATATA-TAATTAT
124003 AATATATATAATTAT
1 AATATATATAATTAT
124018 -A-AT-TATAATTAT
1 AATATATATAATTAT
*
124030 AATTTATATAA-TA-
1 AATATATATAATTAT
124043 AATATATATAA--AGT
1 AATATATATAATTA-T
124057 AA-ATATATAATTACT
1 AATATATATAATTA-T
*
124072 -TTATATAT-ATTAT
1 AATATATATAATTAT
* *
124085 -ATGTATA-AAGTA-
1 AATATATATAATTAT
*
124097 AATACATATAATTAT
1 AATATATATAATTAT
124112 AATATATA
1 AATATATA
124120 A
Statistics
Matches: 93, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
12 10 0.11
13 35 0.38
14 14 0.15
15 26 0.28
16 8 0.09
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
AATATATATAATTAT
Found at i:124020 original size:6 final size:6
Alignment explanation
Indices: 123998--124033 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
123988 ATATATATTT
123998 ATTATA A-TAT- A-TATA ATTATA ATTATA ATTATA ATT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATT
124034 TATATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 4 0.14
6 20 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:124118 original size:41 final size:41
Alignment explanation
Indices: 123959--124119 Score: 118
Period size: 41 Copynumber: 3.9 Consensus size: 41
123949 ATTTATTTAT
* * * *
123959 ATATATATAAAATAAAGTTATAAAAGTA-AATATATATTTATTATA
1 ATATATATAAAGTAAA--TATATAATTATAATATATA--TAATA-A
* *
124004 ATATATAT-AATTATAAT-TATAATTATAATTTATATAATAA
1 ATATATATAAAGTA-AATATATAATTATAATATATATAATAA
* *
124044 ATATATATAAAGTAAATATATAATTACT-TTATATAT-AT-T
1 ATATATATAAAGTAAATATATAATTA-TAATATATATAATAA
*
124083 ATATGTATAAAGTAAATACATATAATTATAATATATA
1 ATATATATAAAGTAAAT--ATATAATTATAATATATA
124120 A
Statistics
Matches: 97, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
39 16 0.16
40 15 0.15
41 37 0.38
42 7 0.07
43 8 0.08
44 4 0.04
45 10 0.10
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (41 bp):
ATATATATAAAGTAAATATATAATTATAATATATATAATAA
Done.