Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018935.1 Corchorus olitorius cultivar O-4 contig18968, 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: 51278
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Found at i:817 original size:22 final size:22
Alignment explanation
Indices: 749--1045 Score: 114
Period size: 22 Copynumber: 13.3 Consensus size: 22
739 TCAATAAAAC
*
749 CAAAATTACATA-GGAAGGTTAT
1 CAAAATTTCATATGG-AGGTTAT
* *
771 CAAATTTTCATA-GTGTGG-TA-
1 CAAAATTTCATATG-GAGGTTAT
791 CTAAAATTTCATATGGAGGTTAT
1 C-AAAATTTCATATGGAGGTTAT
* ** *
814 TAAAACGTCATAGTGTA-GTTAT
1 CAAAATTTCATA-TGGAGGTTAT
* * * *
836 CAAAATTCCATATAGACGTTAC
1 CAAAATTTCATATGGAGGTTAT
***
858 CAAAATTTCATAAAAAGGTTAT
1 CAAAATTTCATATGGAGGTTAT
* * * * *
880 CGAATTTTCTTA-GAGTGTCGTTAA
1 CAAAATTTCATATG-GAG--GTTAT
* * *
904 CAAAATTTTATACGAAGGTTAT
1 CAAAATTTCATATGGAGGTTAT
* *
926 CAAAATTT-ATA-GTATGATTAT
1 CAAAATTTCATATGGA-GGTTAT
*
947 CAAAATTTCATAGGGAGGAAGGTTAT
1 CAAAATTTCATA---TGG-AGGTTAT
* * *
973 CAAAGTTTCCTATGGAGGTTAA
1 CAAAATTTCATATGGAGGTTAT
995 CAAAATTTCAT-TGGAAGGTTA-
1 CAAAATTTCATATGG-AGGTTAT
1016 CAAAAATTT--TATGGAGATGTTAT
1 C-AAAATTTCATATGGAG--GTTAT
1039 CAAAATT
1 CAAAATT
1046 AAATAAAGAG
Statistics
Matches: 206, Mismatches: 45, Indels: 48
0.69 0.15 0.16
Matches are distributed among these distances:
20 6 0.03
21 40 0.19
22 122 0.59
23 7 0.03
24 13 0.06
25 1 0.00
26 16 0.08
27 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (22 bp):
CAAAATTTCATATGGAGGTTAT
Found at i:936 original size:21 final size:21
Alignment explanation
Indices: 899--959 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
889 TTAGAGTGTC
*
899 GTTAACAAAATTTTATACG-AAG
1 GTTATCAAAA-TTTATA-GTAAG
*
921 GTTATCAAAATTTATAGTATG
1 GTTATCAAAATTTATAGTAAG
*
942 ATTATCAAAATTTCATAG
1 GTTATCAAAATTT-ATAG
960 GGAGGAAGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 20 0.59
22 13 0.38
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (21 bp):
GTTATCAAAATTTATAGTAAG
Found at i:1176 original size:43 final size:45
Alignment explanation
Indices: 1129--1232 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 45
1119 TATGAAGAGG
* * * * * *
1129 TTATCAAAATTTTCATAGTGCGGTTA-C-CAATTTTATAGTGTGA
1 TTATCAAAATTTTCATAGGGAGATTATCAAAATTTCACAGTGTGA
*
1172 TTATCAAAA-TTTCATAGGGAGATTATCAAAATTTCACAGTGTGG
1 TTATCAAAATTTTCATAGGGAGATTATCAAAATTTCACAGTGTGA
1216 TTATC-AAATTTTCATAG
1 TTATCAAAATTTTCATAG
1233 AAAATTTCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 13 0.25
43 13 0.25
44 25 0.49
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (45 bp):
TTATCAAAATTTTCATAGGGAGATTATCAAAATTTCACAGTGTGA
Found at i:1182 original size:65 final size:66
Alignment explanation
Indices: 1083--1232 Score: 153
Period size: 65 Copynumber: 2.3 Consensus size: 66
1073 CTCATAGGAA
** * * * * * * *
1083 GGTTATCAAAACTTAATGGTGTGGTTATTAAAATTTTAT-GAAGAGGTTATCAAAATTTTCATAG
1 GGTTATCAAATTTTCATAGTGTGATTATCAAAATTTCATAG-AGAGATTATCAAAA-TTTCACAG
1147 TGC
64 TGC
* *
1150 GGTTA-CCAATTTT-ATAGTGTGATTATCAAAATTTCATAGGGAGATTATCAAAATTTCACAGTG
1 GGTTATCAAATTTTCATAGTGTGATTATCAAAATTTCATAGAGAGATTATCAAAATTTCACAGTG
*
1213 T
66 C
1214 GGTTATCAAATTTTCATAG
1 GGTTATCAAATTTTCATAG
1233 AAAATTTCAT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
64 14 0.21
65 39 0.57
66 10 0.15
67 5 0.07
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (66 bp):
GGTTATCAAATTTTCATAGTGTGATTATCAAAATTTCATAGAGAGATTATCAAAATTTCACAGTG
C
Found at i:1188 original size:22 final size:22
Alignment explanation
Indices: 1129--1232 Score: 104
Period size: 22 Copynumber: 4.8 Consensus size: 22
1119 TATGAAGAGG
* *
1129 TTATCAAAATTTTCATAGTGCGG
1 TTATCAAAA-TTTCATAGTGTGA
* *
1152 TTA-C-CAATTTTATAGTGTGA
1 TTATCAAAATTTCATAGTGTGA
* *
1172 TTATCAAAATTTCATAGGGAGA
1 TTATCAAAATTTCATAGTGTGA
* *
1194 TTATCAAAATTTCACAGTGTGG
1 TTATCAAAATTTCATAGTGTGA
*
1216 TTATCAAATTTTCATAG
1 TTATCAAAATTTCATAG
1233 AAAATTTCAT
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
20 13 0.20
21 3 0.05
22 46 0.71
23 3 0.05
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (22 bp):
TTATCAAAATTTCATAGTGTGA
Found at i:25182 original size:30 final size:30
Alignment explanation
Indices: 25146--25203 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
25136 GGATTGGGCG
25146 CTGACCGATACGGAAAGCCCAGATTCTTCT
1 CTGACCGATACGGAAAGCCCAGATTCTTCT
25176 CTGACCGATACGGAAAGCCCAGATTCTT
1 CTGACCGATACGGAAAGCCCAGATTCTT
25204 GTAGGCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (30 bp):
CTGACCGATACGGAAAGCCCAGATTCTTCT
Found at i:27866 original size:19 final size:20
Alignment explanation
Indices: 27836--27899 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
27826 TTGACACTGT
27836 TTAGCAACTGTACAGATGAGA
1 TTAGC-ACTGTACAGATGAGA
*
27857 TTA-CACTGTACAGATTAGA
1 TTAGCACTGTACAGATGAGA
* *
27876 TTAGGTATTGTACAGATGAGA
1 TTA-GCACTGTACAGATGAGA
27897 TTA
1 TTA
27900 TTAGAGCAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.46
20 1 0.03
21 19 0.51
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (20 bp):
TTAGCACTGTACAGATGAGA
Found at i:30524 original size:1 final size:1
Alignment explanation
Indices: 30518--30549 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
30508 CTGAGTTTGA
30518 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30550 ACGACGGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:36928 original size:25 final size:26
Alignment explanation
Indices: 36892--36940 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
36882 TTAATGTTTA
36892 AATTTTATTTTTA-TTAAAAAAATTT
1 AATTTTATTTTTATTTAAAAAAATTT
*
36917 AATTATTA-TTTTATTTTAAAAAAT
1 AATT-TTATTTTTATTTAAAAAAAT
36941 AAATATGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTTTATTTTTATTTAAAAAAATTT
Found at i:38794 original size:13 final size:13
Alignment explanation
Indices: 38776--38803 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38766 CTATAACCTC
38776 ATAAATCATATTT
1 ATAAATCATATTT
38789 ATAAATCATATTT
1 ATAAATCATATTT
38802 AT
1 AT
38804 TATATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAAATCATATTT
Found at i:38942 original size:19 final size:18
Alignment explanation
Indices: 38913--38954 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
38903 TGAGTAGTTT
* *
38913 TTAAGTAAAAATGTAATA
1 TTAAATAAAAATATAATA
38931 TATAAATAAAAATATAATA
1 T-TAAATAAAAATATAATA
38950 TTAAA
1 TTAAA
38955 GTAATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
TTAAATAAAAATATAATA
Found at i:39562 original size:2 final size:2
Alignment explanation
Indices: 39555--39585 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
39545 TAGAAGCAAG
39555 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
39586 GCTAAGTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42597 original size:15 final size:15
Alignment explanation
Indices: 42574--42619 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
42564 TTCAAGAAAA
*
42574 TAATTATTATTTAAT
1 TAATAATTATTTAAT
42589 TAATAATTATTTAAT
1 TAATAATTATTTAAT
*
42604 TAATAATTAATTAAT
1 TAATAATTATTTAAT
42619 T
1 T
42620 TCAGCCCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATAATTATTTAAT
Found at i:42638 original size:4 final size:4
Alignment explanation
Indices: 42574--42619 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
42564 TTCAAGAAAA
* *
42574 TAAT T-AT TATT TAAT TAA- TAAT TATT TAAT TAA- TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
42619 T
1 T
42620 TCAGCCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 9 0.26
4 26 0.74
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TAAT
Found at i:42793 original size:22 final size:21
Alignment explanation
Indices: 42770--43421 Score: 271
Period size: 22 Copynumber: 30.2 Consensus size: 21
42760 TTTTTATGAT
42770 CTCCTTATGAAATTTTGATAATC
1 CTCC-TATGAAATTTTGATAA-C
* *
42793 TTCCTATGAAATTTTAATAAC
1 CTCCTATGAAATTTTGATAAC
* * * * *
42814 GATACTATGGAATTTCGAGAAC
1 -CTCCTATGAAATTTTGATAAC
** * **
42836 CTTTTTATAAAATTTTTTTAAC
1 C-TCCTATGAAATTTTGATAAC
* *
42858 CT--TATGAAATTTTGTTAAT
1 CTCCTATGAAATTTTGATAAC
* *
42877 CTCCCTAAGGAATTTTGA-AGAC
1 CT-CCTATGAAATTTTGATA-AC
*
42899 CTCACTATTAAATTTTGATAAC
1 CTC-CTATGAAATTTTGATAAC
* * *
42921 TTCCCAATGAAATTTTAATAAC
1 CT-CCTATGAAATTTTGATAAC
* * *
42943 CAACACTATGAGATGTTGATAAC
1 C-TC-CTATGAAATTTTGATAAC
* *
42966 CTCCATATGATATATTGATAAC
1 CTCC-TATGAAATTTTGATAAC
* * * * *
42988 CACGTTATGAAAATTTAAAAAC
1 CTC-CTATGAAATTTTGATAAC
* *
43010 CTTCATATG-AATTGTT-AGTAAT
1 C-TCCTATGAAATT-TTGA-TAAC
* * * *
43032 CACACTCTGAAAATTTGATAAT
1 CTC-CTATGAAATTTTGATAAC
* *
43054 CACACTATGAAATTGTGATAAC
1 CTC-CTATGAAATTTTGATAAC
43076 CTCGCTATGAAATTTTGATAAAC
1 CTC-CTATGAAATTTTGAT-AAC
* *
43099 CTTCCTATAAAATTTTGATAAAT
1 C-TCCTATGAAATTTTGAT-AAC
* *
43122 CTCCCTATAAAATTTTGATAAT
1 CT-CCTATGAAATTTTGATAAC
*
43144 CTCCTTATGAAATCTTGATAA-
1 CTCC-TATGAAATTTTGATAAC
*
43165 ---CTA-CAAATTTTGATAAC
1 CTCCTATGAAATTTTGATAAC
**
43182 CTCCCTATGATTTTTTGATAAC
1 CT-CCTATGAAATTTTGATAAC
* * *
43204 CTCATTATGAAATTTTGTTAAT
1 CTC-CTATGAAATTTTGATAAC
*
43226 CTCCCTATGAAATTTTGATCTAC
1 CT-CCTATGAAATTTTGAT-AAC
* *
43249 ATACTATGAAATTTTGATAACC
1 CTCCTATGAAATTTTGATAA-C
*
43271 CTCCTATGAAATTTTTGA-AAA
1 CTCCTATGAAA-TTTTGATAAC
* **
43292 CTAAACTATGGTATTTTGATAAC
1 CT--CCTATGAAATTTTGATAAC
* *
43315 CTTCATATGAAATTTTGATATC
1 C-TCCTATGAAATTTTGATAAC
*
43337 CTGCC--TGGAATTTTGATAA-
1 CT-CCTATGAAATTTTGATAAC
* *
43356 CTCCATAATAAAATTTTAATAAC
1 CTCC-T-ATGAAATTTTGATAAC
*
43379 CTTCC--T--AA-TTTGGTAAC
1 C-TCCTATGAAATTTTGATAAC
*
43396 CATACTATGAAATTTTGATAAC
1 C-TCCTATGAAATTTTGATAAC
43418 CTCC
1 CTCC
43422 CCAAAAATAC
Statistics
Matches: 471, Mismatches: 108, Indels: 102
0.69 0.16 0.15
Matches are distributed among these distances:
16 11 0.02
17 12 0.03
18 5 0.01
19 19 0.04
20 13 0.03
21 24 0.05
22 299 0.63
23 82 0.17
24 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (21 bp):
CTCCTATGAAATTTTGATAAC
Found at i:43235 original size:82 final size:84
Alignment explanation
Indices: 43085--43244 Score: 207
Period size: 82 Copynumber: 1.9 Consensus size: 84
43075 CCTCGCTATG
* * * *
43085 AAATTTTGATAAACCTTCCTATAAAATTTTGATAAATCTCCCTATAAAATTTTGATAATCTCCTT
1 AAATTTTGATAAACCTCCCTATAAAATTTTGATAAACCTCACTATAAAATTTTGATAATCTCCCT
43150 ATGAAATCTTGATAACTAC
66 ATGAAATCTTGATAACTAC
* ** * * *
43169 AAATTTTGAT-AACCTCCCTATGATTTTTTGAT-AACCTCATTATGAAATTTTGTTAATCTCCCT
1 AAATTTTGATAAACCTCCCTATAAAATTTTGATAAACCTCACTATAAAATTTTGATAATCTCCCT
*
43232 ATGAAATTTTGAT
66 ATGAAATCTTGAT
43245 CTACATACTA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
82 37 0.57
83 18 0.28
84 10 0.15
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.42
Consensus pattern (84 bp):
AAATTTTGATAAACCTCCCTATAAAATTTTGATAAACCTCACTATAAAATTTTGATAATCTCCCT
ATGAAATCTTGATAACTAC
Found at i:43484 original size:22 final size:22
Alignment explanation
Indices: 43459--43538 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
43449 AATCACATTT
*
43459 TGAAAATTTGATAACCTCTTTA
1 TGAAAATTTGATAACCTCTCTA
* * *
43481 TGAAATTTTAATAAACTCTCTA
1 TGAAAATTTGATAACCTCTCTA
* * *
43503 T-AAAATTTTGTTGACCCCTCTA
1 TGAAAA-TTTGATAACCTCTCTA
*
43525 TGAAATTTTGATAA
1 TGAAAATTTGATAA
43539 TTATATTATG
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
21 3 0.07
22 37 0.86
23 3 0.07
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (22 bp):
TGAAAATTTGATAACCTCTCTA
Found at i:43548 original size:22 final size:23
Alignment explanation
Indices: 43523--43583 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
43513 TTGACCCCTC
*
43523 TATGAAATTTTGATAAT-TATAT
1 TATGAAATTTTGATAATCTAGAT
* * *
43545 TATGTAATTTTGATAATCTCGCT
1 TATGAAATTTTGATAATCTAGAT
43568 T-TGAAATTTTGATAAT
1 TATGAAATTTTGATAAT
43584 AACACTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (23 bp):
TATGAAATTTTGATAATCTAGAT
Found at i:43592 original size:88 final size:88
Alignment explanation
Indices: 43434--43600 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 88
43424 AAAAATACCA
* * * *
43434 CTATGAAATTTTGGTAATCACATTTTGAAAATTTGATAACCTCTTTATGAAATTTTAATAAACTC
1 CTATGAAATTTTGATAATCACATTATGAAAATTTGATAACCTCCTTATGAAATTTTAATAAACAC
*
43499 TCTATAAAATTTTGTTGACCCCT
66 ACTATAAAATTTTGTTGACCCCT
* * * * * *
43522 CTATGAAATTTTGATAATTATATTATGTAATTTTGATAATCTCGCTT-TGAAATTTTGATAATA-
1 CTATGAAATTTTGATAATCACATTATGAAAATTTGATAACCTC-CTTATGAAATTTTAATAA-AC
43585 ACACTATAAAATTTTG
64 ACACTATAAAATTTTG
43601 CTAATCTGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
88 63 0.95
89 3 0.05
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (88 bp):
CTATGAAATTTTGATAATCACATTATGAAAATTTGATAACCTCCTTATGAAATTTTAATAAACAC
ACTATAAAATTTTGTTGACCCCT
Found at i:43720 original size:21 final size:20
Alignment explanation
Indices: 43669--43722 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
43659 CAAATTTTAG
43669 TACTAAATTT--TAACACTA
1 TACTAAATTTAATAACACTA
43687 TACTAAATTTAATAACACTA
1 TACTAAATTTAATAACACTA
43707 TACTAAATTTTAATAA
1 TACTAAA-TTTAATAA
43723 TGACAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.30
20 15 0.45
21 8 0.24
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (20 bp):
TACTAAATTTAATAACACTA
Found at i:47342 original size:14 final size:14
Alignment explanation
Indices: 47323--47352 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
47313 TCAAGTGACC
47323 AATAATATTATCGT
1 AATAATATTATCGT
47337 AATAATATTATCGT
1 AATAATATTATCGT
47351 AA
1 AA
47353 AAAGGTTATG
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:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
AATAATATTATCGT
Found at i:50255 original size:25 final size:24
Alignment explanation
Indices: 50227--50288 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 24
50217 GTGGATTGTA
*
50227 AAATAAATTGAATAATTAAGACATT
1 AAATAAATTGAAGAATTAA-ACATT
*
50252 AAATAAATTTAAGAATTAAACATT
1 AAATAAATTGAAGAATTAAACATT
*
50276 AAA-AAATTCAAGA
1 AAATAAATTGAAGA
50289 CTGACCCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 9 0.26
24 8 0.24
25 17 0.50
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (24 bp):
AAATAAATTGAAGAATTAAACATT
Done.