Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015230.1 Corchorus olitorius cultivar O-4 contig15263, 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: 153969
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Found at i:11742 original size:27 final size:27
Alignment explanation
Indices: 11712--11776 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
11702 GCATTAAAGT
11712 CATCCAGGGGCATTTTAGTCATTTGCA
1 CATCCAGGGGCATTTTAGTCATTTGCA
* * *
11739 CATCCAGGGGTATTTTGGTCATTTGTA
1 CATCCAGGGGCATTTTAGTCATTTGCA
*
11766 C-TTCAGGGGCA
1 CATCCAGGGGCA
11777 CTTTGGTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 8 0.24
27 25 0.76
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (27 bp):
CATCCAGGGGCATTTTAGTCATTTGCA
Found at i:11781 original size:26 final size:26
Alignment explanation
Indices: 11716--11822 Score: 115
Period size: 26 Copynumber: 4.1 Consensus size: 26
11706 TAAAGTCATC
* * * *
11716 CAGGGGCATTTTAGTCATTTGCACATC
1 CAGGGGCACTTTGGTCATTTGTAC-TT
* *
11743 CAGGGGTATTTTGGTCATTTGTACTT
1 CAGGGGCACTTTGGTCATTTGTACTT
*
11769 CAGGGGCACTTTGGTCTTTTGTACTT
1 CAGGGGCACTTTGGTCATTTGTACTT
* * *
11795 AAGGGGCACTTTTGTCTTTTGTACTT
1 CAGGGGCACTTTGGTCATTTGTACTT
11821 CA
1 CA
11823 TTACTAGCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
26 49 0.70
27 21 0.30
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (26 bp):
CAGGGGCACTTTGGTCATTTGTACTT
Found at i:15453 original size:20 final size:22
Alignment explanation
Indices: 15428--15475 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
15418 CTAGAGATAG
15428 AAAAAG-GAAAAATCCA-AAAA-
1 AAAAAGTGAAAAAT-CAGAAAAT
15448 AAAAAGTGAAAAATCAGAAAAT
1 AAAAAGTGAAAAATCAGAAAAT
15470 AAAAAG
1 AAAAAG
15476 AGGTAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.32
21 11 0.44
22 6 0.24
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.08
Consensus pattern (22 bp):
AAAAAGTGAAAAATCAGAAAAT
Found at i:20325 original size:72 final size:72
Alignment explanation
Indices: 20208--20346 Score: 226
Period size: 72 Copynumber: 1.9 Consensus size: 72
20198 CCACTCTGCG
*
20208 GGATATCCAATGATCTCATAGCACTGATCTTTCAATGGCCCCATCTTTTGACAATGTCCACACCT
1 GGATATCCAATGATCTCATAACACTGATCTTTCAATGGCCCCATCTTTTGACAATGTCCACACCT
20273 TGCAGCA
66 TGCAGCA
* * *
20280 GGATATCCAATGATCTCATAACATTGATCTTTC-GTGTGCCCCATCTTTTGACAATGTTCACACC
1 GGATATCCAATGATCTCATAACACTGATCTTTCAATG-GCCCCATCTTTTGACAATGTCCACACC
20344 TTG
65 TTG
20347 GCTTGTCTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 2 0.03
72 60 0.97
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (72 bp):
GGATATCCAATGATCTCATAACACTGATCTTTCAATGGCCCCATCTTTTGACAATGTCCACACCT
TGCAGCA
Found at i:27162 original size:19 final size:18
Alignment explanation
Indices: 27129--27164 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27119 TTGAAATAAT
27129 TCTTCAATGATCTTCAAA
1 TCTTCAATGATCTTCAAA
*
27147 TCTTCAAATTATCTTCAA
1 TCTTC-AATGATCTTCAA
27165 TGAGTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTTCAATGATCTTCAAA
Found at i:27172 original size:11 final size:10
Alignment explanation
Indices: 27129--27175 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
27119 TTGAAATAAT
27129 TCTTCAATGA
1 TCTTCAATGA
27139 TCTTCAA--A
1 TCTTCAATGA
*
27147 TCTTCAAATTA
1 TCTTC-AATGA
27158 TCTTCAATGA
1 TCTTCAATGA
27168 GTCTTCAA
1 -TCTTCAA
27176 ACACAAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 11 0.34
11 13 0.41
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.40
Consensus pattern (10 bp):
TCTTCAATGA
Found at i:27869 original size:18 final size:18
Alignment explanation
Indices: 27846--27880 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27836 AAAAATTTGA
27846 AATTTTATTTCAAAAATC
1 AATTTTATTTCAAAAATC
* *
27864 AATTTTTTTTCGAAAAT
1 AATTTTATTTCAAAAAT
27881 TTTTTCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTTTATTTCAAAAATC
Found at i:29827 original size:6 final size:6
Alignment explanation
Indices: 29816--29840 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29806 CAAATCAAAT
29816 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
29841 TAATACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:31398 original size:18 final size:19
Alignment explanation
Indices: 31375--31410 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31365 TTGAAATAAT
31375 TCTTCAA-TGATCTTCAAA
1 TCTTCAATTGATCTTCAAA
*
31393 TCTTCAATTTATCTTCAA
1 TCTTCAATTGATCTTCAA
31411 TGAGTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (19 bp):
TCTTCAATTGATCTTCAAA
Found at i:31418 original size:11 final size:10
Alignment explanation
Indices: 31375--31421 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
31365 TTGAAATAAT
31375 TCTTCAATGA
1 TCTTCAATGA
31385 TCTTCAA--A
1 TCTTCAATGA
*
31393 TCTTCAATTTA
1 TCTTCAA-TGA
31404 TCTTCAATGA
1 TCTTCAATGA
31414 GTCTTCAA
1 -TCTTCAA
31422 ACACGAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (10 bp):
TCTTCAATGA
Found at i:33350 original size:5 final size:6
Alignment explanation
Indices: 33319--33349 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
33309 AGTGGAACTA
33319 TGTTTT TGATTTT TGTTTT TGTTTT TGTTTT
1 TGTTTT TG-TTTT TGTTTT TGTTTT TGTTTT
33350 GGATGATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.03, C:0.00, G:0.16, T:0.81
Consensus pattern (6 bp):
TGTTTT
Found at i:36930 original size:18 final size:17
Alignment explanation
Indices: 36904--36939 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
36894 CCCTTAGAAA
*
36904 AACTTGAAGAAAAACTAG
1 AACTAGAAGAAAAA-TAG
36922 AACTAGAAGAAAAATAG
1 AACTAGAAGAAAAATAG
36939 A
1 A
36940 TGAAGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.61, C:0.08, G:0.17, T:0.14
Consensus pattern (17 bp):
AACTAGAAGAAAAATAG
Found at i:37921 original size:25 final size:25
Alignment explanation
Indices: 37887--37935 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
37877 AATTTGCATA
*
37887 GCATTGTTATACTTCATGGTAGATG
1 GCATTGTTATACTACATGGTAGATG
37912 GCATTGTTATACTACATGGTAGAT
1 GCATTGTTATACTACATGGTAGAT
37936 TAGAGATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (25 bp):
GCATTGTTATACTACATGGTAGATG
Found at i:43599 original size:21 final size:21
Alignment explanation
Indices: 43573--43615 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
43563 TAGATCCATG
43573 AGAAACTTAAGAAAACTTACA
1 AGAAACTTAAGAAAACTTACA
43594 AGAAACTTAAGAAAACTTACA
1 AGAAACTTAAGAAAACTTACA
43615 A
1 A
43616 ACTTGAGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.19
Consensus pattern (21 bp):
AGAAACTTAAGAAAACTTACA
Found at i:43605 original size:9 final size:10
Alignment explanation
Indices: 43575--43612 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
43565 GATCCATGAG
43575 AAACTTAAGA
1 AAACTTAAGA
43585 AAACTTACA-A
1 AAACTTA-AGA
43595 GAAACTTAAGA
1 -AAACTTAAGA
43606 AAACTTA
1 AAACTTA
43613 CAAACTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (10 bp):
AAACTTAAGA
Found at i:49477 original size:11 final size:11
Alignment explanation
Indices: 49461--49485 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49451 CCCTCTTCTT
49461 AAACTAGAGAA
1 AAACTAGAGAA
49472 AAACTAGAGAA
1 AAACTAGAGAA
49483 AAA
1 AAA
49486 TAAAAGATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (11 bp):
AAACTAGAGAA
Found at i:50116 original size:30 final size:30
Alignment explanation
Indices: 50061--50119 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
50051 ATTCTTGCTC
**
50061 CTTGAAATAATTCTTCAATGGTCTTCAATT
1 CTTGAAATAATTCTTCAATAATCTTCAATT
50091 CTTGAAATAA-TCTTCAATAAATCTTCAAT
1 CTTGAAATAATTCTTCAAT-AATCTTCAAT
50120 CACGAACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (30 bp):
CTTGAAATAATTCTTCAATAATCTTCAATT
Found at i:50557 original size:16 final size:15
Alignment explanation
Indices: 50519--50560 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
50509 ACAGAGATTG
*
50519 ACAGAAAGCAATTAA
1 ACAGAAAACAATTAA
50534 ACAGAAAACAATTAA
1 ACAGAAAACAATTAA
50549 ACTAGAAAACAA
1 AC-AGAAAACAA
50561 AGCAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.64, C:0.14, G:0.10, T:0.12
Consensus pattern (15 bp):
ACAGAAAACAATTAA
Found at i:51337 original size:11 final size:11
Alignment explanation
Indices: 51321--51346 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51311 CCTTTGCCTA
51321 AAAACTAGAAG
1 AAAACTAGAAG
51332 AAAACTAGAAG
1 AAAACTAGAAG
51343 AAAA
1 AAAA
51347 GAAATTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (11 bp):
AAAACTAGAAG
Found at i:53897 original size:20 final size:21
Alignment explanation
Indices: 53867--53916 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
53857 ACGGGCATGG
53867 CCGGTGGTGGCACAGGCTTAA
1 CCGGTGGTGGCACAGGCTTAA
*
53888 CCGG-GGTGGCACGGGCTTAA
1 CCGGTGGTGGCACAGGCTTAA
53908 CCGGTGGTG
1 CCGGTGGTG
53917 TCACGATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.14, C:0.24, G:0.44, T:0.18
Consensus pattern (21 bp):
CCGGTGGTGGCACAGGCTTAA
Found at i:53921 original size:21 final size:21
Alignment explanation
Indices: 53848--53921 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
53838 GGCTTGGAAT
* * **
53848 GGTGATGGCACGGGCATGGCC
1 GGTGGTGGCACGGGCTTAACC
*
53869 GGTGGTGGCACAGGCTTAACC
1 GGTGGTGGCACGGGCTTAACC
53890 GG-GGTGGCACGGGCTTAACC
1 GGTGGTGGCACGGGCTTAACC
*
53910 GGTGGTGTCACG
1 GGTGGTGGCACG
53922 ATGAATGGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 19 0.42
21 26 0.58
ACGTcount: A:0.15, C:0.23, G:0.45, T:0.18
Consensus pattern (21 bp):
GGTGGTGGCACGGGCTTAACC
Found at i:57476 original size:16 final size:15
Alignment explanation
Indices: 57438--57479 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
57428 ACAAAGATTG
*
57438 ACAGAAAGCAATTAA
1 ACAGAAAACAATTAA
57453 ACAGAAAACAATTAA
1 ACAGAAAACAATTAA
57468 ACTAGAAAACAA
1 AC-AGAAAACAA
57480 AGCAAAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.64, C:0.14, G:0.10, T:0.12
Consensus pattern (15 bp):
ACAGAAAACAATTAA
Found at i:59617 original size:29 final size:29
Alignment explanation
Indices: 59558--59617 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
59548 TAAAGTAGAA
*
59558 AAGTATGGGGGTCATTTGATAAATAAGCC
1 AAGTATGGGGGTCATTTGATAAATAACCC
59587 AAGTATGGGGGTCATTTGATAAATAACCC
1 AAGTATGGGGGTCATTTGATAAATAACCC
59616 AA
1 AA
59618 CTAAGAAAGT
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:0.37, C:0.12, G:0.25, T:0.27
Consensus pattern (29 bp):
AAGTATGGGGGTCATTTGATAAATAACCC
Found at i:65164 original size:13 final size:13
Alignment explanation
Indices: 65146--65171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65136 ATCAAGGGAA
65146 CAACAAGAATCAT
1 CAACAAGAATCAT
65159 CAACAAGAATCAT
1 CAACAAGAATCAT
65172 TAATTCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (13 bp):
CAACAAGAATCAT
Found at i:73492 original size:35 final size:35
Alignment explanation
Indices: 73445--73810 Score: 601
Period size: 35 Copynumber: 10.5 Consensus size: 35
73435 CATATTATTT
73445 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
1 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
* * *
73480 AGTGTAGCATCTTCAAAAATG-ATCTTAGATGACTC
1 GGTGTAGCATCTTCAAAGATGAAT-TCAGATGACTC
73515 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
1 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
* *
73550 GGTGTAGCATCTTCAAAAATG-ATCTCGGATGACTC
1 GGTGTAGCATCTTCAAAGATGAAT-TCAGATGACTC
73585 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
1 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
*
73620 GGTGTAGCATCTTCAAAGATGAATTTAGATGACTC
1 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
*
73655 GGTGTAGCATCTTCAAAGATGAATTTAGATGACTC
1 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
* *
73690 GGTGTAGCATCTTTAAAGATAAATTCAGATGACTC
1 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
*
73725 TGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
1 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
*
73760 GGTGTAGCATCTTCAAAGATGAATTAAGATGACTC
1 GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
73795 GGTGTAGCATCTTCAA
1 GGTGTAGCATCTTCAA
73811 TATGAACTCG
Statistics
Matches: 308, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
34 4 0.01
35 300 0.97
36 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (35 bp):
GGTGTAGCATCTTCAAAGATGAATTCAGATGACTC
Found at i:74112 original size:28 final size:28
Alignment explanation
Indices: 74067--74165 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
74057 GTCACTTGAG
*
74067 GGGGCATTTTGGTCATTTTGCATGTCTA
1 GGGGCATTTTGGTCATTTTGCATATCTA
* * *
74095 GTGGCATTTTGGTTATTTTGCATATCCA
1 GGGGCATTTTGGTCATTTTGCATATCTA
* *
74123 GGGGCATTTTGGTCATTTTACACATCTA
1 GGGGCATTTTGGTCATTTTGCATATCTA
74151 GGGGCATTTTGGTCA
1 GGGGCATTTTGGTCA
74166 CTTCAAGTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.17, C:0.15, G:0.26, T:0.41
Consensus pattern (28 bp):
GGGGCATTTTGGTCATTTTGCATATCTA
Found at i:79398 original size:69 final size:69
Alignment explanation
Indices: 79311--79509 Score: 281
Period size: 69 Copynumber: 2.9 Consensus size: 69
79301 AATGCTTTGA
*
79311 CTTTTCCATAAGTCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCACA
1 CTTTTCCACAAGTCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCACA
79376 TAAG
66 TAAG
* * * * * *
79380 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTATGCATTGGTTCTATCTAAGCCATA
1 CTTTTCCACAAGTCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCACA
*
79445 TAGG
66 TAAG
* * * * *
79449 CCTTTCAACAAGTCAAACTCGTTTCCATACGAGTCAATTGAAGCCTTGGTTCCACCCAAGC
1 CTTTTCCACAAGTCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGC
79510 AACAGGGGTT
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 112 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (69 bp):
CTTTTCCACAAGTCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCACA
TAAG
Found at i:79546 original size:69 final size:69
Alignment explanation
Indices: 79311--79533 Score: 275
Period size: 69 Copynumber: 3.2 Consensus size: 69
79301 AATGCTTTGA
* *
79311 CTTTTCCATAAGTCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCACA
1 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCACA
*
79376 TAAG
66 TAGG
* * * * *
79380 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTATGCATTGGTTCTATCTAAGCCATA
1 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCACA
79445 TAGG
66 TAGG
* * * * * * *
79449 CCTTTCAACAAGTCAAACTCGTTTCCATACGAGTCAATTGAAGCCTTGGTTCCACCCAAGCAACA
1 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCACA
**
79514 GGGG
66 TAGG
* *
79518 TTTTTCCATAAGCCAA
1 CTTTTCCACAAGCCAA
79534 GTTCATTTCC
Statistics
Matches: 127, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 127 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (69 bp):
CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCACA
TAGG
Found at i:79988 original size:39 final size:39
Alignment explanation
Indices: 79935--80049 Score: 110
Period size: 39 Copynumber: 2.9 Consensus size: 39
79925 TTATGACTCG
* *
79935 ATTTCAATCATGATTAAGGATTATTGCTTTGTCAGTTTT
1 ATTTCGATCATGATTAAGGATTATTGCTTTGTCAGTTTA
* * * *
79974 ATTTCGATCCTGATTTAGGATCATTTC-TTGTCAG-TTA
1 ATTTCGATCATGATTAAGGATTATTGCTTTGTCAGTTTA
* *
80011 ATTTCAGAATCAT-ATTCAGGATTGTTGCTTTCGTCAGTT
1 ATTTC-G-ATCATGATTAAGGATTATTGCTTT-GTCAGTT
80050 AGTTTCAGGA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
37 7 0.12
38 19 0.32
39 28 0.47
40 5 0.08
41 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (39 bp):
ATTTCGATCATGATTAAGGATTATTGCTTTGTCAGTTTA
Found at i:80361 original size:27 final size:27
Alignment explanation
Indices: 80331--80403 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
80321 AGGGTCACCT
* *
80331 AGGGGCATTTTAGTCATTTGCACGTCC
1 AGGGGCATTTTGGTCATTTGCACATCC
* *
80358 AGGGGCATTTTGGTCATTTGTACATTC
1 AGGGGCATTTTGGTCATTTGCACATCC
80385 AGGGGCATTTTGGTCATTT
1 AGGGGCATTTTGGTCATTT
80404 TATGTTCACA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.38
Consensus pattern (27 bp):
AGGGGCATTTTGGTCATTTGCACATCC
Found at i:88361 original size:16 final size:17
Alignment explanation
Indices: 88340--88371 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
88330 GAGATTGCGT
88340 TTTATTTTTCT-TTTTC
1 TTTATTTTTCTATTTTC
88356 TTTATTTTTCTATTTT
1 TTTATTTTTCTATTTT
88372 AATTTGCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTATTTTTCTATTTTC
Found at i:93383 original size:22 final size:21
Alignment explanation
Indices: 93355--93403 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
93345 ATTTTTCAAT
*
93355 TTAATTGTAAGAAGAAAAAATA
1 TTAATTGGAAGAA-AAAAAATA
**
93377 TTAATTGGAATTAAAAAAATA
1 TTAATTGGAAGAAAAAAAATA
93398 TTAATT
1 TTAATT
93404 AGAACCATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (21 bp):
TTAATTGGAAGAAAAAAAATA
Found at i:93517 original size:32 final size:32
Alignment explanation
Indices: 93444--93517 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
93434 GACATCAAGA
* * *
93444 CAAGGCCCGGGCATGTCCAAGCCACAGCCGGC
1 CAAGGCCCGGCCATGACCAAGACACAGCCGGC
* * *
93476 CATGACCCGGCCATGACCGAGACA-AGCCAGGC
1 CAAGGCCCGGCCATGACCAAGACACAGCC-GGC
93508 CAAGGCCCGG
1 CAAGGCCCGG
93518 ACTATACCGA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.24, C:0.39, G:0.31, T:0.05
Consensus pattern (32 bp):
CAAGGCCCGGCCATGACCAAGACACAGCCGGC
Found at i:95681 original size:21 final size:21
Alignment explanation
Indices: 95657--95710 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
95647 CGCCCATTGT
* *
95657 CGTGCCACCATCGGTTAAGCC
1 CGTGCCACCACCGGCTAAGCC
*
95678 CGTGCCACCACCGGCTATGCC
1 CGTGCCACCACCGGCTAAGCC
*
95699 CGTGCCATCACC
1 CGTGCCACCACC
95711 ATTCAGTGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.44, G:0.22, T:0.17
Consensus pattern (21 bp):
CGTGCCACCACCGGCTAAGCC
Found at i:100876 original size:32 final size:32
Alignment explanation
Indices: 100832--100978 Score: 222
Period size: 32 Copynumber: 4.6 Consensus size: 32
100822 ATAGCGGCGC
* * **
100832 TACCGAAGCGCCGCTATTCAGTGGCGTTTATG
1 TACCGAAACGCCGCTATTTAGTGGCGTTTCCG
* * *
100864 TACCGAAACGCCGCAATTTAATGGCGTTTTCG
1 TACCGAAACGCCGCTATTTAGTGGCGTTTCCG
*
100896 TACCGAAACGCCGCTATTTAGTGGCGTTTCCA
1 TACCGAAACGCCGCTATTTAGTGGCGTTTCCG
100928 TACCGAAACGCCGCTATTTAGTGGCGTTTCCG
1 TACCGAAACGCCGCTATTTAGTGGCGTTTCCG
100960 TACCGAAACGCCGCTATTT
1 TACCGAAACGCCGCTATTT
100979 TGGCTTGTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 104 1.00
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (32 bp):
TACCGAAACGCCGCTATTTAGTGGCGTTTCCG
Found at i:101051 original size:2 final size:2
Alignment explanation
Indices: 101044--101079 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
101034 TTTAAATTGA
*
101044 AT AT AT AT AT AT AT AT AT TT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101080 AACATTGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111948 original size:134 final size:132
Alignment explanation
Indices: 111717--112267 Score: 673
Period size: 134 Copynumber: 4.1 Consensus size: 132
111707 CTTTCTCAAG
* * *
111717 TGAAACGCCACTAATTAGTGGCGTTTCTAACCAACAACGCCGCTAAATGTTTTACTTTGTTTCTA
1 TGAAACGCCACTAATTAGTGGCGTTTCAAACCAACAACGCCGCTAAATGGTTTACTTTATTTCTA
* *
111782 ACTTTTCCTTTAATTATTTTGGGAGGAAAATTTTTCCCACCAATTTTTCTAA-ATAGCGGCGTCT
66 ACTTTTCCTTGAATTATTTTGGG-GG-AAA-TTTTCCCACCAATTATTCTAATATAGCGGCGT-T
*
111846 T-TATA
127 TGTACA
* * *
111851 TGAAACGCCACTAAATAGTGGCGTTTCCAATACCAA-AATGCCGCTAAATGGTTTAGTTTATCTT
1 TGAAACGCCACTAATTAGTGGCGTTT-CAA-ACCAACAACGCCGCTAAATGGTTTACTTTAT-TT
* * * *
111915 TTAACTTTTTCTTGAATTATTTTGGGGGGAATTTTCCCACCAATTATTCTAATTTAGCGGCGTTT
63 CTAACTTTTCCTTGAATTATTTTGGGGGAAATTTTCCCACCAATTATTCTAATATAGCGGCGTTT
111980 GTACA
128 GTACA
* * * *
111985 GGAAACGCCACTAATTAGTGGCGTTTCTAACAAACAACGCCGCTAAATGTTTTACTTTATTTCTA
1 TGAAACGCCACTAATTAGTGGCGTTTCAAACCAACAACGCCGCTAAATGGTTTACTTTATTTCTA
* * *
112050 ACTTTTCCTTTAATTATTTTGAGAGGAAAATTTTTTCCCACCAATTTTTCTAA-ATAGCGGCGTC
66 ACTTTTCCTTGAATTATTTTG-G-GGGAAA--TTTTCCCACCAATTATTCTAATATAGCGGCGT-
*
112114 TT-TATA
126 TTGTACA
* *
112120 TGAAACGCCACTATTTAGTGGCGTTTCCAATACCAA-AACGCCGCTAAATGGTTTAGTTTATCTT
1 TGAAACGCCACTAATTAGTGGCGTTT-CAA-ACCAACAACGCCGCTAAATGGTTTACTTTAT-TT
* * * *
112184 TTAACTTTTTCTTGAATTATTTTGGGGGGAATTTTCCCACCAATTATTCTAATTTAGCGGCGTTT
63 CTAACTTTTCCTTGAATTATTTTGGGGGAAATTTTCCCACCAATTATTCTAATATAGCGGCGTTT
112249 GTACA
128 GTACA
*
112254 GGAAACGCCACTAA
1 TGAAACGCCACTAA
112268 ATTGTTTAGT
Statistics
Matches: 357, Mismatches: 44, Indels: 32
0.82 0.10 0.07
Matches are distributed among these distances:
132 27 0.08
133 69 0.19
134 91 0.25
135 65 0.18
136 78 0.22
137 27 0.08
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (132 bp):
TGAAACGCCACTAATTAGTGGCGTTTCAAACCAACAACGCCGCTAAATGGTTTACTTTATTTCTA
ACTTTTCCTTGAATTATTTTGGGGGAAATTTTCCCACCAATTATTCTAATATAGCGGCGTTTGTA
CA
Found at i:112196 original size:269 final size:268
Alignment explanation
Indices: 111718--112267 Score: 1037
Period size: 269 Copynumber: 2.0 Consensus size: 268
111708 TTTCTCAAGT
* *
111718 GAAACGCCACTAATTAGTGGCGTTTCTAACCAACAACGCCGCTAAATGTTTTACTTTGTTTCTAA
1 GAAACGCCACTAATTAGTGGCGTTTCTAACAAACAACGCCGCTAAATGTTTTACTTTATTTCTAA
*
111783 CTTTTCCTTTAATTATTTTGGGAGGAAAATTTTTCCCACCAATTTTTCTAAATAGCGGCGTCTTT
66 CTTTTCCTTTAATTATTTTGAGAGGAAAATTTTTCCCACCAATTTTTCTAAATAGCGGCGTCTTT
*
111848 ATATGAAACGCCACTAAATAGTGGCGTTTCCAATACCAAAATGCCGCTAAATGGTTTAGTTTATC
131 ATATGAAACGCCACTAAATAGTGGCGTTTCCAATACCAAAACGCCGCTAAATGGTTTAGTTTATC
111913 TTTTAACTTTTTCTTGAATTATTTTGGGGGGAATTTTCCCACCAATTATTCTAATTTAGCGGCGT
196 TTTTAACTTTTTCTTGAATTATTTTGGGGGGAATTTTCCCACCAATTATTCTAATTTAGCGGCGT
111978 TTGTACAG
261 TTGTACAG
111986 GAAACGCCACTAATTAGTGGCGTTTCTAACAAACAACGCCGCTAAATGTTTTACTTTATTTCTAA
1 GAAACGCCACTAATTAGTGGCGTTTCTAACAAACAACGCCGCTAAATGTTTTACTTTATTTCTAA
112051 CTTTTCCTTTAATTATTTTGAGAGGAAAATTTTTTCCCACCAATTTTTCTAAATAGCGGCGTCTT
66 CTTTTCCTTTAATTATTTTGAGAGGAAAA-TTTTTCCCACCAATTTTTCTAAATAGCGGCGTCTT
**
112116 TATATGAAACGCCACTATTTAGTGGCGTTTCCAATACCAAAACGCCGCTAAATGGTTTAGTTTAT
130 TATATGAAACGCCACTAAATAGTGGCGTTTCCAATACCAAAACGCCGCTAAATGGTTTAGTTTAT
112181 CTTTTAACTTTTTCTTGAATTATTTTGGGGGGAATTTTCCCACCAATTATTCTAATTTAGCGGCG
195 CTTTTAACTTTTTCTTGAATTATTTTGGGGGGAATTTTCCCACCAATTATTCTAATTTAGCGGCG
112246 TTTGTACAG
260 TTTGTACAG
112255 GAAACGCCACTAA
1 GAAACGCCACTAA
112268 ATTGTTTAGT
Statistics
Matches: 275, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
268 91 0.33
269 184 0.67
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (268 bp):
GAAACGCCACTAATTAGTGGCGTTTCTAACAAACAACGCCGCTAAATGTTTTACTTTATTTCTAA
CTTTTCCTTTAATTATTTTGAGAGGAAAATTTTTCCCACCAATTTTTCTAAATAGCGGCGTCTTT
ATATGAAACGCCACTAAATAGTGGCGTTTCCAATACCAAAACGCCGCTAAATGGTTTAGTTTATC
TTTTAACTTTTTCTTGAATTATTTTGGGGGGAATTTTCCCACCAATTATTCTAATTTAGCGGCGT
TTGTACAG
Found at i:112309 original size:101 final size:100
Alignment explanation
Indices: 112155--112348 Score: 361
Period size: 101 Copynumber: 1.9 Consensus size: 100
112145 TCCAATACCA
*
112155 AAACGCCGCTAAATGGTTTAGTTTATCTTTTAACTTTTTCTTGAATTATTTTGGGGGGAATTTTC
1 AAACGCCACTAAATGGTTTAGTTTATCTTTTAACTTTTTCTTGAATTATTTT-GGGGGAATTTTC
112220 CCACCAATTATTCTAATTTAGCGGCGTTTGTACAGG
65 CCACCAATTATTCTAATTTAGCGGCGTTTGTACAGG
*
112256 AAACGCCACTAAATTGTTTAGTTTATCTTTTAACTTTTTCTTGAATTATTTTGGGGGAATTTTCC
1 AAACGCCACTAAATGGTTTAGTTTATCTTTTAACTTTTTCTTGAATTATTTTGGGGGAATTTTCC
112321 CACCAATTATTCTAATTTAGCGGCGTTT
66 CACCAATTATTCTAATTTAGCGGCGTTT
112349 CCAGTACAAA
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 41 0.45
101 50 0.55
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (100 bp):
AAACGCCACTAAATGGTTTAGTTTATCTTTTAACTTTTTCTTGAATTATTTTGGGGGAATTTTCC
CACCAATTATTCTAATTTAGCGGCGTTTGTACAGG
Found at i:114509 original size:29 final size:29
Alignment explanation
Indices: 114476--114532 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
114466 AGAACCTGCA
114476 GACCGCAAAGGTCTTTTGAACTCTTTATT
1 GACCGCAAAGGTCTTTTGAACTCTTTATT
114505 GACCGCAAAGGTCTTTTGAACTCTTTAT
1 GACCGCAAAGGTCTTTTGAACTCTTTAT
114533 CGGCGGCTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (29 bp):
GACCGCAAAGGTCTTTTGAACTCTTTATT
Found at i:116338 original size:30 final size:30
Alignment explanation
Indices: 116302--116361 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
116292 TTGGATCCCC
*
116302 AGCGAAGTTGGTTCAGCGAATATCATTGAT
1 AGCGAAGTTGGTTCAGCGAATAGCATTGAT
116332 AGCGAAGTTGGTTCAGCGAATAGCATTGAT
1 AGCGAAGTTGGTTCAGCGAATAGCATTGAT
116362 TTTCCGAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (30 bp):
AGCGAAGTTGGTTCAGCGAATAGCATTGAT
Found at i:118661 original size:15 final size:15
Alignment explanation
Indices: 118641--118671 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
118631 CTTTCTACAA
*
118641 TCATCCTCCATTATC
1 TCATCCTACATTATC
118656 TCATCCTACATTATC
1 TCATCCTACATTATC
118671 T
1 T
118672 TCGGACAATC
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:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATCCTACATTATC
Found at i:126595 original size:21 final size:21
Alignment explanation
Indices: 126565--126614 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
126555 AGGGATCGAG
*
126565 CTGGGCGCTGA-GCCTTGTCGC
1 CTGGGCGCTGAGGCATT-TCGC
*
126586 CTGGGTGCTGAGGCATTTCGC
1 CTGGGCGCTGAGGCATTTCGC
126607 CTGGGCGC
1 CTGGGCGC
126615 CCAGCGGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.06, C:0.30, G:0.40, T:0.24
Consensus pattern (21 bp):
CTGGGCGCTGAGGCATTTCGC
Found at i:138967 original size:51 final size:50
Alignment explanation
Indices: 138866--138967 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 50
138856 GTTCTTCATA
* ***
138866 TTTTCCTTGTTTAGATCTTGTCTCCGGACAAATAAACACTCTTTTAGTGT
1 TTTTCCTTGTTTAGATCTTGTCTCCGGACAAACAAACACTCTACGAGTGT
* * *
138916 TTTTCTCTTGTTTCA-ATCTTGTCTCCGGACATACAAACACTGTACGCGTGT
1 TTTTC-CTTGTTT-AGATCTTGTCTCCGGACAAACAAACACTCTACGAGTGT
138967 T
1 T
138968 CTTCATTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
50 5 0.12
51 37 0.86
52 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (50 bp):
TTTTCCTTGTTTAGATCTTGTCTCCGGACAAACAAACACTCTACGAGTGT
Found at i:141401 original size:76 final size:76
Alignment explanation
Indices: 141270--141422 Score: 193
Period size: 76 Copynumber: 2.0 Consensus size: 76
141260 AGTGCAAAGC
* * *
141270 CATGACACAGCCTACCTGGGTGATCAGACACATCACATGGGTCCTCAGACAAACCATGTGGGCAC
1 CATGACACAGCCCACCTGGGTCATCAGACAAATCACATGGGTCCTCAGACAAACCATGTGGGCAC
*
141335 CCAGGTAGAGT
66 CCAGGGAGAGT
* * * *
141346 CATGACACTGCCCACCTGGGTCCTCA-AGCAAATCACATGGGTGCTCAAGGC-AACCATGTGGGC
1 CATGACACAGCCCACCTGGGTCATCAGA-CAAATCACATGGGTCCTC-AGACAAACCATGTGGGC
*
141409 GCCCAGGGAGAGT
64 ACCCAGGGAGAGT
141422 C
1 C
141423 GGAGACAGCC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
75 1 0.02
76 62 0.94
77 3 0.05
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (76 bp):
CATGACACAGCCCACCTGGGTCATCAGACAAATCACATGGGTCCTCAGACAAACCATGTGGGCAC
CCAGGGAGAGT
Found at i:147475 original size:22 final size:22
Alignment explanation
Indices: 147450--147492 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
147440 ATTTGATTGT
147450 TTTTTGGATTAATCTTATTTTG
1 TTTTTGGATTAATCTTATTTTG
147472 TTTTTGGATTAATCTTATTTT
1 TTTTTGGATTAATCTTATTTT
147493 CCCCAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.65
Consensus pattern (22 bp):
TTTTTGGATTAATCTTATTTTG
Found at i:147864 original size:18 final size:18
Alignment explanation
Indices: 147841--147877 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
147831 AAAGGGTAAT
*
147841 TAAAAAAAATTGTTTTCA
1 TAAAAAAAAGTGTTTTCA
*
147859 TAAAAAGAAGTGTTTTCA
1 TAAAAAAAAGTGTTTTCA
147877 T
1 T
147878 GATAGAGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (18 bp):
TAAAAAAAAGTGTTTTCA
Done.