Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020890.1 Corchorus olitorius cultivar O-4 contig20923, 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: 69764
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:272 original size:25 final size:25
Alignment explanation
Indices: 243--292 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
233 TGCTCAATGT
243 GGGGCTTTATTGGATGGAAAATGAC
1 GGGGCTTTATTGGATGGAAAATGAC
268 GGGGCTTTATTGGATGGAAAATGAC
1 GGGGCTTTATTGGATGGAAAATGAC
293 AGGTACAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.36, T:0.28
Consensus pattern (25 bp):
GGGGCTTTATTGGATGGAAAATGAC
Found at i:1381 original size:19 final size:19
Alignment explanation
Indices: 1357--1407 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
1347 CTCGATTTTG
1357 AAGAAGAAAAAATTAGAG-A
1 AAGAAGAAAAAA-TAGAGAA
*
1376 AAGAAGATAAGAATAGAGAA
1 AAGAAGA-AAAAATAGAGAA
*
1396 AAAAAGAAAAAA
1 AAGAAGAAAAAA
1408 AAAAAGAGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.08
Consensus pattern (19 bp):
AAGAAGAAAAAATAGAGAA
Found at i:1583 original size:21 final size:20
Alignment explanation
Indices: 1544--1588 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
1534 AGGGAAGGGA
1544 TTAAATAAATAATAAATTTAT
1 TTAAATAAATAATAAATTT-T
*
1565 TTAAATAAAATAAT-TATTTT
1 TTAAAT-AAATAATAAATTTT
1585 TTAA
1 TTAA
1589 GTTATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAATAAATAATAAATTTT
Found at i:2596 original size:331 final size:331
Alignment explanation
Indices: 1805--3180 Score: 1349
Period size: 330 Copynumber: 4.0 Consensus size: 331
1795 GAGCATTTTG
* * * *
1805 CCGAAATCGTGTGCTAACCATCATAGTTTTCGGCTAAAAACGCATTTCGGGGCCCCGACTCAGTT
1 CCGAAATCGTGTGCTAACCATCACAGTTTTCGGCTAAAAAAGCGTTTCGGGGCCCCGACTCATTT
* *
1870 TTGTATGATTATTT-GCGCCAAGACTCCTTGGAATATCTATATTCATCTGCCCAAATCTCAGCCA
66 TTGTATGATT-TTTGGCGCCAAGACTCCTTGGAATATCTATATTCATCTACCAAAATCTCAGCCA
* * * *
1934 CATAAGATTTAAAGATTTGTTTTTACGAGCATCAGAATCCAGTTTCGATTTAATTGGAAATTAAT
130 CTTAAGATTTAAAGATTTGTCTTTACGAGCATCAGAATCCAGTATCGATTTAATTGAAAATTAAT
* *
1999 TCGGAAAAGCATAAAAAACGATATTCGAAGCGTAAAAAATCCTTCAAAGTTTTTGGAGATGATTT
195 TCGGAAAAGCATAAAAAACGATATTCGAAGCGTAAAAAACCCTTCAAACTTTTTGGAGATGATTT
* *
2064 ATATATATTTTATGAGTATTTTGGCCAAAAATTGAGGAAAAATCATTTGGGTCAATTTTTGCAAA
260 ATATATATTTTATGAGTATTTTGGCCAAAAATTAAGGAAAAATCATTCGGGTCAATTTTTGCAAA
2129 ATCTTGA
325 ATCTTGA
* *
2136 CCGAAATCGTGTGCT-ACCATCACAGTTTTCGGCTAAAAAAGCGTTCCGGGGCCCCGGCTCATTT
1 CCGAAATCGTGTGCTAACCATCACAGTTTTCGGCTAAAAAAGCGTTTCGGGGCCCCGACTCATTT
2200 TTGTATGATTTTTGGCGCCAAGACTCCTTGGAATATCTATATTCATCTACCAAAATCTCAGCCAC
66 TTGTATGATTTTTGGCGCCAAGACTCCTTGGAATATCTATATTCATCTACCAAAATCTCAGCCAC
*
2265 TTAAGATTTAAATATTT-TCTTTACGAGCATCAGAATCCAGTATCGATTTAATTGAAAATTAATT
131 TTAAGATTTAAAGATTTGTCTTTACGAGCATCAGAATCCAGTATCGATTTAATTGAAAATTAATT
* * * * *
2329 CGGAAAAGCATAGGAAAAATGATATTCGAAGCGT-TAAAACCCTTCTATCTTTTTGGCGATGATT
196 CGGAAAAGCATA--AAAAACGATATTCGAAGCGTAAAAAACCCTTCAAACTTTTTGGAGATGATT
* * *
2393 TATATATTTTTTATGAGTATTTTGGCCAAAATTTAAGGATAAATCATTCGGGTCAATTTTTGCAA
259 TATATATATTTTATGAGTATTTTGGCCAAAAATTAAGGAAAAATCATTCGGGTCAATTTTTGCAA
2458 AATCTTGA
324 AATCTTGA
* * *
2466 CCGAAATCGTGTGCTAACCATCACACTTTTCGGCTAAAAATGTGTTTCGGGGCCCCGACTCATTT
1 CCGAAATCGTGTGCTAACCATCACAGTTTTCGGCTAAAAAAGCGTTTCGGGGCCCCGACTCATTT
* * * *
2531 TTATTTGATTTTTGGCGCCAAGACTCCTTGTAATATCTATATTCATCTACCAAAATCTAAGCCAC
66 TTGTATGATTTTTGGCGCCAAGACTCCTTGGAATATCTATATTCATCTACCAAAATCTCAGCCAC
** *
2596 TTAAGATTTAAACG-TTT-T-TTT-CGGAAAAGCAT-AGGAAAATCTCGATTCGGGTCAATTATT
131 TTAAGATTTAAA-GATTTGTCTTTAC-G---AGCATCA-G--AATC-C-A---GTATCGA-T-TT
* *** ** ****
2656 ACGAGCATCAGAATCCAGTATCGATTTAATT-GGAAATTAATTCGGAAAA-GCATAGGAAAATCG
181 ---A--AT-TG-A---A--A---A-TTAATTCGGAAAAGCA-T-AAAAAACG-ATA--TTCG---
* * * * * * *
2719 ATATTCGAAGCGTGAAAAATCCTTCAATCTTTTTGGCGATGACTTATATATTTTTTATTAGTATT
222 -------AAGCGTAAAAAACCCTTCAAACTTTTTGGAGATGATTTATATATATTTTATGAGTATT
* * *
2784 TAGGCCAAAAATTGAGGAAAAATCATTCGGGTCAATTTTTGCAAAATCTTGC
280 TTGGCCAAAAATTAAGGAAAAATCATTCGGGTCAATTTTTGCAAAATCTTGA
* * * * * * * * * *
2836 CCGAAATTGTGTGCCAACCATCATAGTTTTTGGCTAAAAACGCGTTCCGGGTCCCAG-CTTAGTT
1 CCGAAATCGTGTGCTAACCATCACAGTTTTCGGCTAAAAAAGCGTTTCGGGGCCCCGACTCATTT
* * * * *
2900 TTGAATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTACCCAAATCTTAGCAAC
66 TTGTATGATTTTTGGCGCCAAGACTCCTTGGAATATCTATATTCATCTACCAAAATCTCAGCCAC
* * * * * * * *
2965 ATAAAATTTAATGATTTGTTTTTACGAGTATCAGAATCCAGTTTCGATTTAATTGGAAATTTATT
131 TTAAGATTTAAAGATTTGTCTTTACGAGCATCAGAATCCAGTATCGATTTAATTGAAAATTAATT
* * * * *
3030 CGGAAAAACATAGGAAAAACGGTATTC-AATGCGTGAAAAAGCCTTCAATA-TTTTTGGCGATGA
196 CGGAAAAGCATA--AAAAACGATATTCGAA-GCGTAAAAAACCCTTCAA-ACTTTTTGGAGATGA
* * * * * * * *
3093 TTTATATATTTTTTAGGATTATTTTGGCCAAAAATTGAGAAAAAATTATTCTGGTCAATTTTCGC
257 TTTATATATATTTTATGAGTATTTTGGCCAAAAATTAAGGAAAAATCATTCGGGTCAATTTTTGC
3158 AAAATCTTGA
322 AAAATCTTGA
*
3168 CTGAAATCGTGTG
1 CCGAAATCGTGTG
3181 GAGCCCCGGC
Statistics
Matches: 873, Mismatches: 110, Indels: 123
0.79 0.10 0.11
Matches are distributed among these distances:
329 60 0.07
330 228 0.26
331 157 0.18
332 107 0.12
333 6 0.01
335 4 0.00
336 1 0.00
337 1 0.00
340 4 0.00
341 1 0.00
342 2 0.00
343 6 0.01
344 13 0.01
345 2 0.00
347 3 0.00
348 1 0.00
349 2 0.00
352 1 0.00
353 1 0.00
354 3 0.00
356 2 0.00
357 14 0.02
358 7 0.01
359 2 0.00
360 1 0.00
361 4 0.00
364 1 0.00
365 1 0.00
366 4 0.00
368 6 0.01
369 82 0.09
370 141 0.16
371 4 0.00
372 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (331 bp):
CCGAAATCGTGTGCTAACCATCACAGTTTTCGGCTAAAAAAGCGTTTCGGGGCCCCGACTCATTT
TTGTATGATTTTTGGCGCCAAGACTCCTTGGAATATCTATATTCATCTACCAAAATCTCAGCCAC
TTAAGATTTAAAGATTTGTCTTTACGAGCATCAGAATCCAGTATCGATTTAATTGAAAATTAATT
CGGAAAAGCATAAAAAACGATATTCGAAGCGTAAAAAACCCTTCAAACTTTTTGGAGATGATTTA
TATATATTTTATGAGTATTTTGGCCAAAAATTAAGGAAAAATCATTCGGGTCAATTTTTGCAAAA
TCTTGA
Found at i:5261 original size:3 final size:3
Alignment explanation
Indices: 5242--5284 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
5232 CACATCTTTT
*
5242 TTA TCA TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5285 CCTAATGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7905 original size:6 final size:6
Alignment explanation
Indices: 7886--7932 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
7876 TTCCACTGGA
* * * *
7886 AATCCC AATTCC AATCCC AATCCC AATCCC AGTCCC ACTCCT AATCC
1 AATCCC AATCCC AATCCC AATCCC AATCCC AATCCC AATCCC AATCC
7933 ACACCCACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.30, C:0.47, G:0.02, T:0.21
Consensus pattern (6 bp):
AATCCC
Found at i:22057 original size:24 final size:24
Alignment explanation
Indices: 22030--22076 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
22020 ACAAGCGTGG
* *
22030 TGAGGAGTTGAGATACTCATTTTT
1 TGAGGAGTTGACATACCCATTTTT
22054 TGAGGAGTTGACATACCCATTTT
1 TGAGGAGTTGACATACCCATTTT
22077 ATGATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (24 bp):
TGAGGAGTTGACATACCCATTTTT
Found at i:22144 original size:14 final size:14
Alignment explanation
Indices: 22125--22154 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22115 TAAAGAATAC
22125 ATGTCAACTCTTAA
1 ATGTCAACTCTTAA
22139 ATGTCAACTCTTAA
1 ATGTCAACTCTTAA
22153 AT
1 AT
22155 CCTATGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (14 bp):
ATGTCAACTCTTAA
Found at i:23897 original size:27 final size:27
Alignment explanation
Indices: 23856--23911 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
23846 CATGTTTGGG
*
23856 TTAATGAGGGGCTAGATTATTAAATAT
1 TTAATGAGGGACTAGATTATTAAATAT
23883 TTAATGAGGGACTAGATTATTAAATAT
1 TTAATGAGGGACTAGATTATTAAATAT
23910 TT
1 TT
23912 TAGTTTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.39
Consensus pattern (27 bp):
TTAATGAGGGACTAGATTATTAAATAT
Found at i:28866 original size:5 final size:5
Alignment explanation
Indices: 28848--28880 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
28838 TTAAGTGGAT
*
28848 CTAT- CTATA ATATA CTATA CTATA CTATA CTAT
1 CTATA CTATA CTATA CTATA CTATA CTATA CTAT
28881 TTGTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (5 bp):
CTATA
Found at i:32884 original size:20 final size:20
Alignment explanation
Indices: 32859--32896 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32849 ATTAATATAC
*
32859 ATGGAAACTATCAAGGATGA
1 ATGGAAAATATCAAGGATGA
*
32879 ATGGAAAATATCTAGGAT
1 ATGGAAAATATCAAGGAT
32897 TTTCTGGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.24
Consensus pattern (20 bp):
ATGGAAAATATCAAGGATGA
Found at i:34989 original size:7 final size:7
Alignment explanation
Indices: 34977--35001 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34967 ACTTTATGCG
34977 GTGAGAT
1 GTGAGAT
34984 GTGAGAT
1 GTGAGAT
34991 GTGAGAT
1 GTGAGAT
34998 GTGA
1 GTGA
35002 CATGAGACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.44, T:0.28
Consensus pattern (7 bp):
GTGAGAT
Found at i:39256 original size:13 final size:14
Alignment explanation
Indices: 39234--39268 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
39224 TATTGTGAAC
*
39234 GGAAGGAAAGGAAA
1 GGAAGAAAAGGAAA
39248 -GAAGAAAAGGAAA
1 GGAAGAAAAGGAAA
39261 GGAAGAAA
1 GGAAGAAA
39269 CTTACAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (14 bp):
GGAAGAAAAGGAAA
Found at i:39400 original size:5 final size:5
Alignment explanation
Indices: 39391--39424 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
39381 AGTAAGAGGA
*
39391 AAAAG GAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
39425 AAGAGTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:40741 original size:21 final size:21
Alignment explanation
Indices: 40703--40746 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
40693 ATTTGACTTT
*
40703 AAAATCGTTATCTTTTTAATAAA
1 AAAATCATTATC-TTTTAA-AAA
40726 AAAATCATTATC-TTTAAAAA
1 AAAATCATTATCTTTTAAAAA
40746 A
1 A
40747 CTTTTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
23 11 0.55
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATCATTATCTTTTAAAAA
Found at i:41716 original size:2 final size:2
Alignment explanation
Indices: 41711--41738 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
41701 GTATATATGC
41711 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
41739 GGAGTAATAG
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:41837 original size:22 final size:23
Alignment explanation
Indices: 41786--41840 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
41776 ATTAATAATT
41786 AATTAATTATTTATTCTTTTGGCACA
1 AATTAATTATTTATTCTTTTGG---A
*
41812 AATTAATTATTTATTTTTTTGGA
1 AATTAATTATTTATTCTTTTGGA
*
41835 ATTTAA
1 AATTAA
41841 ATAAATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 6 0.22
26 21 0.78
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (23 bp):
AATTAATTATTTATTCTTTTGGA
Found at i:42706 original size:87 final size:87
Alignment explanation
Indices: 42560--42821 Score: 524
Period size: 87 Copynumber: 3.0 Consensus size: 87
42550 GCTAATTGAT
42560 AATCAGGGTAAGTCATGGATCAAGATTACTTCTCCCCTCCAGGCCCAATATTATGCCGAGCATCT
1 AATCAGGGTAAGTCATGGATCAAGATTACTTCTCCCCTCCAGGCCCAATATTATGCCGAGCATCT
42625 ACCAAAGCGTCATTTCTTTATG
66 ACCAAAGCGTCATTTCTTTATG
42647 AATCAGGGTAAGTCATGGATCAAGATTACTTCTCCCCTCCAGGCCCAATATTATGCCGAGCATCT
1 AATCAGGGTAAGTCATGGATCAAGATTACTTCTCCCCTCCAGGCCCAATATTATGCCGAGCATCT
42712 ACCAAAGCGTCATTTCTTTATG
66 ACCAAAGCGTCATTTCTTTATG
42734 AATCAGGGTAAGTCATGGATCAAGATTACTTCTCCCCTCCAGGCCCAATATTATGCCGAGCATCT
1 AATCAGGGTAAGTCATGGATCAAGATTACTTCTCCCCTCCAGGCCCAATATTATGCCGAGCATCT
42799 ACCAAAGCGTCATTTCTTTATG
66 ACCAAAGCGTCATTTCTTTATG
42821 A
1 A
42822 TTGTCCGTAA
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 175 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (87 bp):
AATCAGGGTAAGTCATGGATCAAGATTACTTCTCCCCTCCAGGCCCAATATTATGCCGAGCATCT
ACCAAAGCGTCATTTCTTTATG
Found at i:58111 original size:108 final size:110
Alignment explanation
Indices: 57927--58206 Score: 350
Period size: 109 Copynumber: 2.6 Consensus size: 110
57917 TGATATTGTG
* * * * * *
57927 TCTTAAATTTTGAGATTCACCCTTTTAGAAAATAAAATA-ACTTTATAATTGGGGCTAAACCTTA
1 TCTTAAAATTTAAGATTTACCC-TTAAAAAAATAAAACATA-TTTATAATTGGGGCTAAACCTTA
* * * *
57991 TTTATAACTGTTCAAACTTATTTTTCTAAAATCC-TAAGATAGTGGA
64 TTTAAAACTGTTCAAACTTATTTTTCTAAAACCCTTAAAATAATGGA
* ** * *
58037 TTTTATCATTTAAGATTTACCCTTAAAAAAATAAAACATATTT-TAGTTGGGGCTAAATCTTATT
1 TCTTAAAATTTAAGATTTACCCTTAAAAAAATAAAACATATTTATAATTGGGGCTAAACCTTATT
* *
58101 TAAAAGTGTTCAAACTTATTTTTCTAAAACCCTTAAAATAATGGG
66 TAAAACTGTTCAAACTTATTTTTCTAAAACCCTTAAAATAATGGA
* *
58146 TCTTAAAATTTAAGATTTATCCTTTAAAAAATAAAACATATTTATAATTGGGGCTAAACCT
1 TCTTAAAATTTAAGATTTACCCTTAAAAAAATAAAACATATTTATAATTGGGGCTAAACCT
58207 GAATTATTGT
Statistics
Matches: 143, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
108 48 0.34
109 63 0.44
110 32 0.22
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (110 bp):
TCTTAAAATTTAAGATTTACCCTTAAAAAAATAAAACATATTTATAATTGGGGCTAAACCTTATT
TAAAACTGTTCAAACTTATTTTTCTAAAACCCTTAAAATAATGGA
Found at i:59324 original size:6 final size:7
Alignment explanation
Indices: 59300--59331 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
59290 GAAAAGTGAG
*
59300 AAAAGAC
1 AAAAAAC
59307 AAAAAAC
1 AAAAAAC
59314 AAAAAAC
1 AAAAAAC
59321 AAAAAAC
1 AAAAAAC
59328 AAAA
1 AAAA
59332 GGAGACACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:69448 original size:14 final size:14
Alignment explanation
Indices: 69429--69458 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
69419 TAATATGCCT
69429 TGATCATAAGGTCC
1 TGATCATAAGGTCC
69443 TGATCATAAGGTCC
1 TGATCATAAGGTCC
69457 TG
1 TG
69459 GGTTCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (14 bp):
TGATCATAAGGTCC
Done.