Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018030.1 Corchorus olitorius cultivar O-4 contig18063, 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: 97519
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Found at i:607 original size:34 final size:34
Alignment explanation
Indices: 564--630 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
554 CAATCTAAGC
*
564 AAACTGTGAATTTCCTTTAGCAGAGCATGCACTA
1 AAACTGTGAATTTCCTTTAACAGAGCATGCACTA
*
598 AAACTGTGAATTTCCTTTAATAGAGCATGCACT
1 AAACTGTGAATTTCCTTTAACAGAGCATGCACT
631 TCAGGAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (34 bp):
AAACTGTGAATTTCCTTTAACAGAGCATGCACTA
Found at i:1545 original size:28 final size:27
Alignment explanation
Indices: 1491--1592 Score: 105
Period size: 28 Copynumber: 3.7 Consensus size: 27
1481 GGTGAGCTTA
* * * *
1491 AAATGACCGAGATGCCCTTGAATGTGC
1 AAATGACCAAAATGCCCCTGAACGTGC
* * *
1518 AAAATTACCAAAATGTCCCTGGACGTGC
1 -AAATGACCAAAATGCCCCTGAACGTGC
* *
1546 AAATGACAAAAATGCCCCTGAACATGC
1 AAATGACCAAAATGCCCCTGAACGTGC
1573 AAATGACCCAAAATGCCCCT
1 AAATGA-CCAAAATGCCCCT
1593 AGATTACCTT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 28 0.47
28 32 0.53
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACCAAAATGCCCCTGAACGTGC
Found at i:1557 original size:27 final size:27
Alignment explanation
Indices: 1527--1592 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
1517 CAAAATTACC
* * *
1527 AAAATGTCCCTGGACGTGCAAATGACA
1 AAAATGCCCCTGAACATGCAAATGACA
*
1554 AAAATGCCCCTGAACATGCAAATGACCC
1 AAAATGCCCCTGAACATGCAAATGA-CA
1582 AAAATGCCCCT
1 AAAATGCCCCT
1593 AGATTACCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (27 bp):
AAAATGCCCCTGAACATGCAAATGACA
Found at i:2709 original size:23 final size:23
Alignment explanation
Indices: 2683--2737 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
2673 CTTGTCGACG
2683 ATTTGCTTCACCTTGAGTCGA-TA
1 ATTTGCTTCACCTT-AGTCGACTA
* **
2706 ATTTTCTTCTTCTTAGTCGACTA
1 ATTTGCTTCACCTTAGTCGACTA
*
2729 CTTTGCTTC
1 ATTTGCTTC
2738 TTTAAGTCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.16, C:0.24, G:0.13, T:0.47
Consensus pattern (23 bp):
ATTTGCTTCACCTTAGTCGACTA
Found at i:2745 original size:22 final size:23
Alignment explanation
Indices: 2698--2762 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
2688 CTTCACCTTG
* *
2698 AGTCGA-TAATTTTCTTCTTCTT
1 AGTCGACTAATTTGCTTCTTCTA
*
2720 AGTCGACTACTTTGCTTCTT-TA
1 AGTCGACTAATTTGCTTCTTCTA
*
2742 AGTCGAC-AAGTTTGCTCCTTC
1 AGTCGACTAA-TTTGCTTCTTC
2763 CTTGTCGACC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 23 0.66
23 11 0.31
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (23 bp):
AGTCGACTAATTTGCTTCTTCTA
Found at i:2770 original size:45 final size:44
Alignment explanation
Indices: 2670--2771 Score: 100
Period size: 45 Copynumber: 2.3 Consensus size: 44
2660 TTGTTGCTTA
* * * *
2670 TTCCTTGTCGACGATTTGCTTCACCTTGAGTCGATAATTTTCTTC
1 TTCCTTGTCGACGATTTGCTT-ACCTTAAGTCGACAATTTGCTCC
* *
2715 TT-CTTAGTCGACTACTTTGCTT-CTTTAAGTCGACAAGTTTGCTCC
1 TTCCTT-GTCGACGA-TTTGCTTACCTTAAGTCGACAA-TTTGCTCC
2760 TTCCTTGTCGAC
1 TTCCTTGTCGAC
2772 CTTGCCTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
44 14 0.30
45 23 0.49
46 10 0.21
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (44 bp):
TTCCTTGTCGACGATTTGCTTACCTTAAGTCGACAATTTGCTCC
Found at i:3350 original size:23 final size:23
Alignment explanation
Indices: 3302--3363 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
3292 GCCTTCTTGC
* *
3302 GCAGCAACATGCGGCCCTGCGAA
1 GCAGCAGCAGGCGGCCCTGCGAA
*
3325 GCAGCAGCAGGCGGCCCTGTTG-A
1 GCAGCAGCAGGCGGCCCTG-CGAA
3348 GCAGCAGCAGGCGGCC
1 GCAGCAGCAGGCGGCC
3364 TTGCTGATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.34, G:0.37, T:0.08
Consensus pattern (23 bp):
GCAGCAGCAGGCGGCCCTGCGAA
Found at i:3585 original size:6 final size:6
Alignment explanation
Indices: 3559--3597 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
3549 AATTAGTGTA
*
3559 AAAATT AAAAAT AATAA-T AAAATT AAAATT AAAATT AAA
1 AAAATT AAAATT AA-AATT AAAATT AAAATT AAAATT AAA
3598 TATGCAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 2 0.07
6 26 0.87
7 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
AAAATT
Found at i:13275 original size:22 final size:21
Alignment explanation
Indices: 13250--13294 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13240 GATGAGGTCG
* *
13250 GGATAGACCGGGCAGGTGGCTC
1 GGAT-GACCGGGCAAGTGACTC
*
13272 GGATGGCCGGGCAAGTGACTC
1 GGATGACCGGGCAAGTGACTC
13293 GG
1 GG
13295 TGCAGCACGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.18, C:0.22, G:0.47, T:0.13
Consensus pattern (21 bp):
GGATGACCGGGCAAGTGACTC
Found at i:16343 original size:31 final size:31
Alignment explanation
Indices: 16307--16380 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
16297 CTATTCCTTA
* *
16307 CTTCCCCAGCAAAAACCAGGAGAAAGTTTTC
1 CTTCCCCGGCAAAAACCAAGAGAAAGTTTTC
16338 CTTCCCCGGCAAAAACCAAGAGAAAGTTTTC
1 CTTCCCCGGCAAAAACCAAGAGAAAGTTTTC
16369 CTTCCCCGGCAA
1 CTTCCCCGGCAA
16381 CGGCACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (31 bp):
CTTCCCCGGCAAAAACCAAGAGAAAGTTTTC
Found at i:17436 original size:21 final size:23
Alignment explanation
Indices: 17407--17450 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
17397 TTTCAGCCTT
17407 GTTTCGA-CCTAGA-GAAGGTCGA
1 GTTTCGACCCT-GATGAAGGTCGA
17429 GTTT-GACCCTGATGAAGGTCGA
1 GTTTCGACCCTGATGAAGGTCGA
17451 AACAGGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (23 bp):
GTTTCGACCCTGATGAAGGTCGA
Found at i:29011 original size:17 final size:18
Alignment explanation
Indices: 28976--29011 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
28966 CTCCTCTATC
*
28976 ATGAAAACACTTATTTTT
1 ATGAAAACAATTATTTTT
28994 ATGAAAACAATT-TTTTT
1 ATGAAAACAATTATTTTT
29011 A
1 A
29012 ATTACCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (18 bp):
ATGAAAACAATTATTTTT
Found at i:33508 original size:16 final size:15
Alignment explanation
Indices: 33482--33512 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
33472 GTGTAAGTTA
33482 TTCAAAAATCAATTT
1 TTCAAAAATCAATTT
33497 TTCAAGAAATCAATTT
1 TTCAA-AAATCAATTT
33513 GAATTCACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (15 bp):
TTCAAAAATCAATTT
Found at i:37124 original size:11 final size:11
Alignment explanation
Indices: 37108--37143 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
37098 AAGTTCGTGT
37108 TTGAAGACTTA
1 TTGAAGACTTA
37119 TTGAAGACTTA
1 TTGAAGACTTA
*
37130 TTTGAAGATTTA
1 -TTGAAGACTTA
37142 TT
1 TT
37144 TCAAGAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (11 bp):
TTGAAGACTTA
Found at i:37136 original size:12 final size:12
Alignment explanation
Indices: 37107--37149 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
37097 AAAGTTCGTG
37107 TTTGAAGACTTA
1 TTTGAAGACTTA
37119 -TTGAAGACTTA
1 TTTGAAGACTTA
*
37130 TTTGAAGATTTA
1 TTTGAAGACTTA
*
37142 TTTCAAGA
1 TTTGAAGA
37150 GGAAGAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (12 bp):
TTTGAAGACTTA
Found at i:43774 original size:22 final size:21
Alignment explanation
Indices: 43743--43788 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
43733 CTCGGTGGCA
43743 CCCGGGCATGACTAGGCCATAG
1 CCCGGGCATGACTAGGCCAT-G
* *
43765 CCCGGTCATGACTCGGCCATG
1 CCCGGGCATGACTAGGCCATG
43786 CCC
1 CCC
43789 CACGTCAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.17, C:0.39, G:0.28, T:0.15
Consensus pattern (21 bp):
CCCGGGCATGACTAGGCCATG
Found at i:47054 original size:12 final size:12
Alignment explanation
Indices: 47025--47067 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
47015 AAAGTTCGTG
*
47025 TTTGAGGACTTA
1 TTTGAAGACTTA
47037 -TTGAAGACTTA
1 TTTGAAGACTTA
*
47048 TTTGAAGATTTA
1 TTTGAAGACTTA
*
47060 TTTCAAGA
1 TTTGAAGA
47068 GGAAGAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.42
Consensus pattern (12 bp):
TTTGAAGACTTA
Found at i:47923 original size:31 final size:31
Alignment explanation
Indices: 47879--47954 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
47869 TATTGTAGAA
*
47879 TAAACGCCGCTAAATAATGGCATTTGG-TTT
1 TAAACGCCACTAAATAATGGCATTTGGATTT
* * *
47909 GTAAACGACACTAAATAGTGGCTTTTGGATTT
1 -TAAACGCCACTAAATAATGGCATTTGGATTT
47941 TAAACGCCACTAAA
1 TAAACGCCACTAAA
47955 GTTATGATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 36 0.92
32 3 0.08
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (31 bp):
TAAACGCCACTAAATAATGGCATTTGGATTT
Found at i:49014 original size:47 final size:48
Alignment explanation
Indices: 48916--49024 Score: 166
Period size: 49 Copynumber: 2.3 Consensus size: 48
48906 TTTAAAAGGA
48916 AAAGTATGAATATTCATCATATTTTAGGGAGTTCATTCAATATGTTATT
1 AAAGTATGAATATTCATCATATTTTAGGGAGTTCATT-AATATGTTATT
* * * *
48965 AAAGTATGAATATTCATCATTTTTTAGGGAGTTTATT-TTATGTTTTT
1 AAAGTATGAATATTCATCATATTTTAGGGAGTTCATTAATATGTTATT
49012 AAAGTATGAATAT
1 AAAGTATGAATAT
49025 CCTGTTATGG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
47 21 0.38
49 35 0.62
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.46
Consensus pattern (48 bp):
AAAGTATGAATATTCATCATATTTTAGGGAGTTCATTAATATGTTATT
Found at i:51186 original size:1 final size:1
Alignment explanation
Indices: 51180--51215 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
51170 AGATGTTGGA
51180 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
51216 AGTTAGATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:57354 original size:22 final size:22
Alignment explanation
Indices: 57326--57375 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
57316 TAATCTAACT
57326 AACAATCAA-AATCAATT-AAGAA
1 AACAATCAAGAA--AATTAAAGAA
57348 AACAATCAAGAAAATTAAAGAA
1 AACAATCAAGAAAATTAAAGAA
57370 AACAAT
1 AACAAT
57376 TGATAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.15
22 20 0.77
23 2 0.08
ACGTcount: A:0.66, C:0.12, G:0.06, T:0.16
Consensus pattern (22 bp):
AACAATCAAGAAAATTAAAGAA
Found at i:63261 original size:25 final size:25
Alignment explanation
Indices: 63227--63288 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
63217 AAACTGCCAA
* * *
63227 AGAAACTTTATAAGAGGATGTGGTG
1 AGAAACTTTATAAAAGAATATGGTG
63252 AGAAACTTTATAAAAGAATATGGTG
1 AGAAACTTTATAAAAGAATATGGTG
63277 AGAAACTTTATA
1 AGAAACTTTATA
63289 GTCCTCTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.29
Consensus pattern (25 bp):
AGAAACTTTATAAAAGAATATGGTG
Found at i:84188 original size:19 final size:18
Alignment explanation
Indices: 84164--84215 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
84154 AGGGCTGAAT
84164 TAATTAATTATTAAATAAA
1 TAATT-ATTATTAAATAAA
* * *
84183 TAATTATTATTTTATTGAA
1 TAATTATTA-TTAAATAAA
84202 TAATTATTATTAAA
1 TAATTATTATTAAA
84216 AATCTCACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATTATTATTAAATAAA
Found at i:84197 original size:23 final size:22
Alignment explanation
Indices: 84171--84213 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
84161 AATTAATTAA
84171 TTATTAAATAAATAATTATTATT
1 TTATTAAAT-AATAATTATTATT
* *
84194 TTATTGAATAATTATTATTA
1 TTATTAAATAATAATTATTA
84214 AAAATCTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATTAAATAATAATTATTATT
Found at i:87024 original size:5 final size:6
Alignment explanation
Indices: 87005--87044 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
86995 TTTTCTAATA
87005 TTTGTT TTTGTT TTTG-T TTTGTT TTTG-T TTTGTT TTTGTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT
87045 GCGATGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (6 bp):
TTTGTT
Found at i:87026 original size:11 final size:11
Alignment explanation
Indices: 87005--87044 Score: 71
Period size: 11 Copynumber: 3.5 Consensus size: 11
86995 TTTTCTAATA
87005 TTTGTTTTTGTT
1 TTTG-TTTTGTT
87017 TTTGTTTTGTT
1 TTTGTTTTGTT
87028 TTTGTTTTGTT
1 TTTGTTTTGTT
87039 TTTGTT
1 TTTGTT
87045 GCGATGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 24 0.86
12 4 0.14
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (11 bp):
TTTGTTTTGTT
Found at i:90115 original size:10 final size:9
Alignment explanation
Indices: 90096--90135 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
90086 CTGACGTGGA
90096 ATATTATAT
1 ATATTATAT
90105 ATATATATAT
1 ATAT-TATAT
*
90115 ATATTACATT
1 ATATTATA-T
90125 ATATTATAT
1 ATATTATAT
90134 AT
1 AT
90136 TAATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 10 0.37
10 17 0.63
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (9 bp):
ATATTATAT
Found at i:91906 original size:2 final size:2
Alignment explanation
Indices: 91899--91925 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
91889 AGCTAGATCA
91899 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
91926 AATCGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:92909 original size:2 final size:2
Alignment explanation
Indices: 92902--92928 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92892 TATTGTTTCC
92902 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
92929 TAATTGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93862 original size:2 final size:2
Alignment explanation
Indices: 93857--93882 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93847 ATTTTTTGCA
93857 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
93883 TACCTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94685 original size:2 final size:2
Alignment explanation
Indices: 94678--94758 Score: 103
Period size: 2 Copynumber: 41.5 Consensus size: 2
94668 ATATCAAGTG
* *
94678 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TT 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
* * *
94720 TA TA TA TA TA CA TA CA TA TA TA TA -A TA T- TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94759 TGTTAGAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Done.