Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022031.1 Corchorus olitorius cultivar O-4 contig22064, 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: 75145
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:496 original size:22 final size:22
Alignment explanation
Indices: 470--515 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
460 TTCACATGGC
470 ATACACACACACACACATATAT
1 ATACACACACACACACATATAT
* *
492 ATACACACACATATACATATAT
1 ATACACACACACACACATATAT
514 AT
1 AT
516 GTAATTTACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (22 bp):
ATACACACACACACACATATAT
Found at i:499 original size:18 final size:18
Alignment explanation
Indices: 476--512 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
466 TGGCATACAC
*
476 ACACACACACATATATAT
1 ACACACACACATACATAT
*
494 ACACACACATATACATAT
1 ACACACACACATACATAT
512 A
1 A
513 TATGTAATTT
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:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (18 bp):
ACACACACACATACATAT
Found at i:961 original size:43 final size:45
Alignment explanation
Indices: 914--1017 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 45
904 TCATAGTGTA
*
914 GTTATCAAAATTTTATACAGG-CGTT-ACCAAATTTCATAAAAAG
1 GTTATCAAAATTTTATACAGGTCGTTAACAAAATTTCATAAAAAG
* * * **
957 GTTATC-AAATTTTCT-TAGGTCGTTAACAAAATTTTATACGAAG
1 GTTATCAAAATTTTATACAGGTCGTTAACAAAATTTCATAAAAAG
*
1000 GTTAACAAAATTTTATAC
1 GTTATCAAAATTTTATAC
1018 GAAGGTTATC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
41 3 0.06
42 12 0.25
43 25 0.52
44 8 0.17
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (45 bp):
GTTATCAAAATTTTATACAGGTCGTTAACAAAATTTCATAAAAAG
Found at i:964 original size:65 final size:65
Alignment explanation
Indices: 876--1055 Score: 177
Period size: 65 Copynumber: 2.8 Consensus size: 65
866 TGTGGTTACT
*** * *
876 AAAATTTCATATGGAGGTTATCAAAACGTCATAGTGTAGTTATCAAAATTTTATAC-AGGCGTT-
1 AAAATTTCATAAAAAGGTTATCAAAA-TTCATAGTGTAGTTATCAAAATTTTATACGAAG-GTTA
939 AC
64 AC
* * * * *
941 CAAATTTCATAAAAAGGTTATCAAATTTTCTTAG-GTCGTTAACAAAATTTTATACGAAGGTTAA
1 AAAATTTCATAAAAAGGTTATCAAA-ATTCATAGTGTAGTTATCAAAATTTTATACGAAGGTTAA
1005 C
65 C
* ** * *
1006 AAAATTTTATACGAAGGTTATCAAAATTTATAGTGTGGTTATCAAAATTT
1 AAAATTTCATAAAAAGGTTATCAAAATTCATAGTGTAGTTATCAAAATTT
1056 CATGGGGGGG
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
64 27 0.29
65 65 0.71
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (65 bp):
AAAATTTCATAAAAAGGTTATCAAAATTCATAGTGTAGTTATCAAAATTTTATACGAAGGTTAAC
Found at i:1076 original size:25 final size:22
Alignment explanation
Indices: 831--1311 Score: 156
Period size: 22 Copynumber: 21.6 Consensus size: 22
821 TCAATCAAAC
* *
831 CAAAATTACATAGGAAGGTTAT
1 CAAAATTTCATAGGGAGGTTAT
* * * *
853 GAAATTTTCATAGTGTGGTTA-
1 CAAAATTTCATAGGGAGGTTAT
*
874 CTAAAATTTCATATGGAGGTTAT
1 C-AAAATTTCATAGGGAGGTTAT
** *
897 CAAAACGTCATAGTGTA-GTTAT
1 CAAAATTTCATAG-GGAGGTTAT
* * *
919 CAAAATTTTATACAGG-CGTTA-
1 CAAAATTTCATA-GGGAGGTTAT
* ***
940 CCAAATTTCATAAAAAGGTTAT
1 CAAAATTTCATAGGGAGGTTAT
* * ** *
962 CAAATTTTCTTA-GGTCGTTAA
1 CAAAATTTCATAGGGAGGTTAT
* * * *
983 CAAAATTTTATACGAAGGTTAA
1 CAAAATTTCATAGGGAGGTTAT
* * *
1005 CAAAATTTTATACGAAGGTTAT
1 CAAAATTTCATAGGGAGGTTAT
* *
1027 CAAAATTT-ATAGTGTGGTTAT
1 CAAAATTTCATAGGGAGGTTAT
*
1048 CAAAATTTCATGGGGGGGAGGTTAT
1 CAAAATTTCAT---AGGGAGGTTAT
* * *
1073 CAAAGTTTCCTAGGGAGGTTAA
1 CAAAATTTCATAGGGAGGTTAT
* *
1095 CAAAATTTCATTGGAAGGTTA-
1 CAAAATTTCATAGGGAGGTTAT
** *
1116 CAAAAATTTTGT-GGAGATGTTAT
1 C-AAAATTTCATAGG-GAGGTTAT
** ** *
1139 CAAAATTAAATAAAGAGGATAT
1 CAAAATTTCATAGGGAGGTTAT
**
1161 CACTGTTTCATTCTCATAGGGAGGTTAT
1 CA-----AAATT-TCATAGGGAGGTTAT
* * * *
1189 CGAAACTTAAT-GGTATGGTTAT
1 CAAAATTTCATAGGGA-GGTTAT
** * *
1211 CAAAATTTTCATAATGCGCTTA-
1 CAAAA-TTTCATAGGGAGGTTAT
* * * *
1233 C-CAATTTCATAGTGTGATTAT
1 CAAAATTTCATAGGGAGGTTAT
* *
1254 CAAAATTTCATAGGAAGATTAT
1 CAAAATTTCATAGGGAGGTTAT
* * *
1276 CAAAATTTCACAGAGTGGTTAT
1 CAAAATTTCATAGGGAGGTTAT
*
1298 CAAATTTTCATAGG
1 CAAAATTTCATAGG
1312 TTATCGAAAT
Statistics
Matches: 329, Mismatches: 103, Indels: 54
0.68 0.21 0.11
Matches are distributed among these distances:
20 14 0.04
21 53 0.16
22 217 0.66
23 14 0.04
25 17 0.05
27 3 0.01
28 11 0.03
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (22 bp):
CAAAATTTCATAGGGAGGTTAT
Found at i:1315 original size:18 final size:19
Alignment explanation
Indices: 1292--1347 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
1282 TTCACAGAGT
1292 GGTTATCAAATTTTCAT-A
1 GGTTATCAAATTTTCATGA
*
1310 GGTTATCGAAATTTCGTAATGA
1 GGTTATC-AAATTT--TCATGA
*
1332 TGTTATCAAATTTTCA
1 GGTTATCAAATTTTCA
1348 CATCATTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 7 0.23
19 8 0.26
21 9 0.29
22 7 0.23
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (19 bp):
GGTTATCAAATTTTCATGA
Found at i:8570 original size:13 final size:13
Alignment explanation
Indices: 8552--8576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8542 ATTTTTTCAG
8552 TAATTACTGTAAC
1 TAATTACTGTAAC
8565 TAATTACTGTAA
1 TAATTACTGTAA
8577 ATTTGATAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
TAATTACTGTAAC
Found at i:9330 original size:21 final size:21
Alignment explanation
Indices: 9292--9332 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9282 AAGAAACCGA
*
9292 GCGGTCGGTGTTATGTCGGTG
1 GCGGTCGGTGTTAGGTCGGTG
* *
9313 GCGGTCGGTTTTCGGTCGGT
1 GCGGTCGGTGTTAGGTCGGT
9333 TTTGTCGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.17, G:0.46, T:0.34
Consensus pattern (21 bp):
GCGGTCGGTGTTAGGTCGGTG
Found at i:13276 original size:17 final size:16
Alignment explanation
Indices: 13244--13278 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13234 AAGTTAAGAA
13244 AAAAAAAAACAAAAAC
1 AAAAAAAAACAAAAAC
*
13260 AAAAAAAAATAACAAAC
1 AAAAAAAAACAA-AAAC
13277 AA
1 AA
13279 GAAAGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAAAAACAAAAAC
Found at i:20384 original size:19 final size:19
Alignment explanation
Indices: 20360--20417 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
20350 CTGTTTAGCA
*
20360 ACTGTACATATGAGATTAC
1 ACTGTACAGATGAGATTAC
* *
20379 ACTGTACAGATTAGATTAGGT
1 ACTGTACAGATGAGATTA--C
*
20400 ACTATACAGATGAGATTA
1 ACTGTACAGATGAGATTA
20418 TTAGAGCAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.50
21 16 0.50
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (19 bp):
ACTGTACAGATGAGATTAC
Found at i:22805 original size:61 final size:61
Alignment explanation
Indices: 22731--22852 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
22721 CTCAATCCAC
22731 TGTTAATTTCACATGTAAACTGTCAAAGTTGTATGCATCTAATGGATACATGATAACAGAG
1 TGTTAATTTCACATGTAAACTGTCAAAGTTGTATGCATCTAATGGATACATGATAACAGAG
22792 TGTTAATTTCACATGTAAACTGTCAAAGTTGTATGCATCTAATGGATACATGATAACAGAG
1 TGTTAATTTCACATGTAAACTGTCAAAGTTGTATGCATCTAATGGATACATGATAACAGAG
22853 ATGAACAAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (61 bp):
TGTTAATTTCACATGTAAACTGTCAAAGTTGTATGCATCTAATGGATACATGATAACAGAG
Found at i:24854 original size:20 final size:23
Alignment explanation
Indices: 24826--24868 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24816 CGTTTGATTC
24826 GTGGAAAG-TA-AT-GGGAAAAT
1 GTGGAAAGTTACATAGGGAAAAT
*
24846 GTGGTAAGTTACATAGGGAAAAT
1 GTGGAAAGTTACATAGGGAAAAT
24869 AACTTTCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 2 0.11
23 8 0.42
ACGTcount: A:0.42, C:0.02, G:0.33, T:0.23
Consensus pattern (23 bp):
GTGGAAAGTTACATAGGGAAAAT
Found at i:27201 original size:22 final size:23
Alignment explanation
Indices: 27156--27203 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 23
27146 TTGAAGTGGT
27156 TTCTGCTTTCTAATCTAAGTAATTTA
1 TTCTGCTTTCTAATC--A-TAATTTA
27182 TTCTGCTTTCTAATC-TAATTTA
1 TTCTGCTTTCTAATCATAATTTA
27204 CACAAAGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
26 15 0.68
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (23 bp):
TTCTGCTTTCTAATCATAATTTA
Found at i:34065 original size:3 final size:3
Alignment explanation
Indices: 34057--34084 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
34047 AATAAAATTA
34057 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34085 TTCTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:43910 original size:50 final size:50
Alignment explanation
Indices: 43818--43914 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
43808 GCTTGTGGAA
*
43818 TCCAAAATTTACACCGTCGTAAATCAAATAATTACTCTATATATTATGGG
1 TCCAAAATTTACACCATCGTAAATCAAATAATTACTCTATATATTATGGG
**
43868 TCCAAAATTTACACCATCGGTGTATCAAATAATTACTC-ATATATTAT
1 TCCAAAATTTACACCATC-GTAAATCAAATAATTACTCTATATATTAT
43915 ATATTATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 26 0.60
51 17 0.40
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (50 bp):
TCCAAAATTTACACCATCGTAAATCAAATAATTACTCTATATATTATGGG
Found at i:43917 original size:2 final size:2
Alignment explanation
Indices: 43906--43943 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
43896 ATAATTACTC
43906 AT AT AT -T AT AT AT -T AT AT A- 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 AT AT AT AT AT A
43944 ATTAGTTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43943 original size:12 final size:12
Alignment explanation
Indices: 43906--43943 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
43896 ATAATTACTC
43906 ATATAT-TATAT
1 ATATATATATAT
43917 AT-TATATA-AT
1 ATATATATATAT
43927 ATATATATATAT
1 ATATATATATAT
43939 ATATA
1 ATATA
43944 ATTAGTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.29
11 10 0.42
12 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATATATATAT
Found at i:50318 original size:109 final size:109
Alignment explanation
Indices: 50127--50351 Score: 423
Period size: 109 Copynumber: 2.1 Consensus size: 109
50117 CACCCCGGTT
50127 TAAGCCATTTTCTTAGCTAATTGTTATTTTCATGATTTGAAGAGCTAAATATGATTAAGTATGAG
1 TAAGCCATTTTCTTAGCTAATTGTTATTTTCATGATTTGAAGAGCTAAATATGATTAAGTATGAG
* *
50192 TAATTTCGTGGCCTTAGTGTTCAAAGTGCAATTCATGATGTCAG
66 TAATTTCGTGGCCTTAGTGCTCAAAGTCCAATTCATGATGTCAG
50236 TAAGCCATTTTCTTAGCTAATTGTTATTTTCATGATTTGAAGAGCTAAATATGATTAAGTATGAG
1 TAAGCCATTTTCTTAGCTAATTGTTATTTTCATGATTTGAAGAGCTAAATATGATTAAGTATGAG
50301 TAATTTCGTGGCCTTAGTGCTCAAAGTCCAATTCATGATGTCAG
66 TAATTTCGTGGCCTTAGTGCTCAAAGTCCAATTCATGATGTCAG
*
50345 TAGGCCA
1 TAAGCCA
50352 CTACTTAGTC
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 113 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (109 bp):
TAAGCCATTTTCTTAGCTAATTGTTATTTTCATGATTTGAAGAGCTAAATATGATTAAGTATGAG
TAATTTCGTGGCCTTAGTGCTCAAAGTCCAATTCATGATGTCAG
Found at i:51858 original size:74 final size:74
Alignment explanation
Indices: 51731--51878 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
51721 TCGTATACCT
*
51731 CTTCCAATCCTATTAATTTCAAAGTATCTCTCACATGGCAATAATGGAGGGATGTCAAACTTTCT
1 CTTCCAATCCTATTAATTTCAAAGTATCTCTCACATGGCAATAATGGAAGGATGTCAAACTTTCT
51796 CCAGGTATG
66 CCAGGTATG
* * *
51805 CTTCCACTTCTATTAATTTCAAAGTATCTCTCACATGGCAATAGTGGAAGGATGTCAAACTTTCT
1 CTTCCAATCCTATTAATTTCAAAGTATCTCTCACATGGCAATAATGGAAGGATGTCAAACTTTCT
51870 CCAGGTATG
66 CCAGGTATG
51879 GATTTTCATA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (74 bp):
CTTCCAATCCTATTAATTTCAAAGTATCTCTCACATGGCAATAATGGAAGGATGTCAAACTTTCT
CCAGGTATG
Found at i:53902 original size:2 final size:2
Alignment explanation
Indices: 53895--53923 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
53885 CATTATTAAA
53895 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 A
53924 CCTTAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55883 original size:32 final size:32
Alignment explanation
Indices: 55842--55904 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
55832 CGTTAAGTTT
55842 CATCAACTATAAAATACTTAAAAATCAGTTCC
1 CATCAACTATAAAATACTTAAAAATCAGTTCC
55874 CATCAACTATAAAATACTTAAAAATCAGTTC
1 CATCAACTATAAAATACTTAAAAATCAGTTC
55905 ATAAACTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.29
Consensus pattern (32 bp):
CATCAACTATAAAATACTTAAAAATCAGTTCC
Found at i:64222 original size:21 final size:22
Alignment explanation
Indices: 64182--64222 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
64172 GACAAACTCG
*
64182 TAACCCGAATAACCCGAGAAGA
1 TAACCCGAATAACCCAAGAAGA
*
64204 TAACCCG-ATGACCCAAGAA
1 TAACCCGAATAACCCAAGAA
64223 TATTATAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.44, C:0.29, G:0.17, T:0.10
Consensus pattern (22 bp):
TAACCCGAATAACCCAAGAAGA
Found at i:64446 original size:31 final size:31
Alignment explanation
Indices: 64423--64486 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
64413 CCGGACCTGC
64423 ATGACCCTAAATCCAGCAGACCCGAGACCCGA
1 ATGA-CCTAAATCCAGCAGACCCGAGACCCGA
* * *
64455 ATGACCTGAATCCAG-ATGAGCCGAAACCCGA
1 ATGACCTAAATCCAGCA-GACCCGAGACCCGA
64486 A
1 A
64487 CGATCTGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 1 0.04
31 23 0.82
32 4 0.14
ACGTcount: A:0.36, C:0.33, G:0.20, T:0.11
Consensus pattern (31 bp):
ATGACCTAAATCCAGCAGACCCGAGACCCGA
Found at i:67152 original size:29 final size:29
Alignment explanation
Indices: 67120--67181 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
67110 AAACAGGATA
67120 TTAGATTTAATTA-AATAAAAATAGAGTTT
1 TTAGATTTAATTACAA-AAAAATAGAGTTT
* ** *
67149 TTAGTTTTTTTTACCAAAAAATAGAGTTT
1 TTAGATTTAATTACAAAAAAATAGAGTTT
67178 TTAG
1 TTAG
67182 TTGAGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.45
Consensus pattern (29 bp):
TTAGATTTAATTACAAAAAAATAGAGTTT
Found at i:73679 original size:58 final size:58
Alignment explanation
Indices: 73582--73691 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
73572 ATTAATCAAA
*
73582 TATCAAGTGACATGTTCTTTATTAGATGCATAAAGAAAGACGTTTTCGGACCAAGACT
1 TATCAAGTGACATGTTCTTTATTAGATGCATAAAGAAAGACGTTTTAGGACCAAGACT
* * *
73640 TATCGAGTGACATGTTTTTTTATTAGATGTC-TAAA-AAAGACTTTTTAGGACC
1 TATCAAGTGACATG-TTCTTTATTAGATG-CATAAAGAAAGACGTTTTAGGACC
73692 GAGGCATGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
58 28 0.61
59 17 0.37
60 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (58 bp):
TATCAAGTGACATGTTCTTTATTAGATGCATAAAGAAAGACGTTTTAGGACCAAGACT
Done.