Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015986.1 Corchorus olitorius cultivar O-4 contig16019, 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: 40596
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Found at i:820 original size:325 final size:323
Alignment explanation
Indices: 2--1861 Score: 2589
Period size: 325 Copynumber: 5.8 Consensus size: 323
1 A
* * * * * *
2 AGGATTTATTTTTACGAGCTTTTGAATCTTGTATCGATTTATTTAGAAATTAATTC-CAAAAAAA
1 AGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
* *
66 GTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATATTTTTGGTTTTGAATTATATATTGC
66 GTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTTGAATTATATATT-C
* * ** *
131 -TTATGAGTATTGTGGGAAAAAATTGA-AAAAAAAAAATTGTGTCAGTTTTTAGCCGAAATC--G
130 TTTATGACTATTGCGGGAAAAAATTGAGAAAAAAAATTTTGGGTCAGTTTTTAGCCGAAATCGTG
* *
192 ---------T-ACGGTTTTTAGCTAAAAACGCGTTTTGAGG-CTCTGGCTCAGTTTTGAATGATT
195 TACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTGGGGTC-CCGGCTCAGTTTTGAATGATT
* * * *
246 TTTTGCAGAAAGACTTCTTGAAATATATATATTCATCGAACCAAATCTTAGCCACGTTGGATTTA
259 TTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACGTTGGATTTG
* * *
311 AGGATTTATTTGTATGAGCATCTGAATCTTGTTTCGTTTTAATTAG-AATTAATTCGGAAAAAAA
1 AGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
* *
375 TGTGGAAAAACGATATTAGAAGTGTGAAAATCCCTGCAATCTTTTTGGCTTTGAATTATATATTC
66 -GTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTTGAATTATATATTC
*
440 TTCATGACTATTGCGGGAAAAAATTGAGAAAATAAAATTTTGGGTCAGTTTTTAGCCGAAATCGT
130 TTTATGACTATTGCGGGAAAAAATTGAGAAAA-AAAATTTTGGGTCAGTTTTTAGCCGAAATCGT
* *
505 GTACTAACCCTCACGGTTTTTAGCTAACAACGCGTTTTTGGGGTCCCGGTTCAGTTTTGAATGAT
194 GTACTAACCCTCACGGTTTTTAGCTAAAAACGCG-TTTTGGGGTCCCGGCTCAGTTTTGAATGAT
570 TTTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACGTTGGATTT
258 TTTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACGTTGGATTT
635 G
323 G
* *
636 AGGATTTATTTATACGAGCATCTGAATCTTGTTTTGATTTGATTAGAAATTAATTCGGAAAAAAA
1 AGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
* *
701 GTGGAGAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTGTTGGCTTTGAATTATATATTCT
66 GTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTTGAATTATATATTCT
*
766 TTATGACTATTGCGGGAAGAAATTGAGAAAAAAATATTTTGGGTCAGTTTTTAGCCGAAATCGTG
131 TTATGACTATTGCGGGAAAAAATTGAGAAAAAAA-ATTTTGGGTCAGTTTTTAGCCGAAATCGTG
* *
831 CACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTTGGGGTCCTGGCTCAGTTTTGAATGAAT
195 TACTAACCCTCACGGTTTTTAGCTAAAAACGCG-TTTTGGGGTCCCGGCTCAGTTTTGAATG-AT
* ** * * *
896 TTTTTGCAGAGAGACTCCTAAAAAAATCTATATTCATCAAACCAAATCTCAACCACGTTGGATTT
258 TTTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACGTTGGATTT
961 G
323 G
** *
962 AGGATTTAAATATACGAGCTTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAAA
1 AGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
* *
1026 GTAGG-AAAACGATATTAGAAGGGTGAAAAACCCTTCTATCTTTTTGGCTTTGAATTATATATTC
66 GT-GGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTTGAATTATATATTC
* * * * *
1090 TTTAGGACTATAGCGGGAAAAAATGGAGAAAAAAAATTTTGGGTAATTTTTTAGCCGAAATCGTG
130 TTTATGACTATTGCGGGAAAAAATTGAGAAAAAAAATTTTGGGTCAGTTTTTAGCCGAAATCGTG
* * *
1155 AACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTGGGGCCCCGGCTTAGTTTTGAATGATTT
195 TACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTGGGGTCCCGGCTCAGTTTTGAATGA-TT
* * * * *
1220 TTTTGGCAGAAAGACTCATTGAAATATCTATATTCATCAAACCAAATCTCAACCACATCGGATTT
259 TTTT-GCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACGTTGGATTT
1285 G
323 G
* * *
1286 -GTGATTTATTTATACGAGCATCTGAATCTTGTTTCGAATTAATTATAAATTAATTTGGGAAAAA
1 AG-GATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA-TTCGGAAAAA
* * *
1350 AAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTGTTGGATTTGAATTAGATATT
64 AAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTTGAATTATATATT
* * * *
1415 CTTTATGAGTATTGCGGGAAAAAATTGAGAAAAAAAA-TTTGGGTCTGTTTTTAGTCGAAACCGT
129 CTTTATGACTATTGCGGGAAAAAATTGAGAAAAAAAATTTTGGGTCAGTTTTTAGCCGAAATCGT
* * * *
1479 GTACT-ACCTTCACAGTTTTTAGTTAAAAACGCGTTTTGGGGACCCGGCTCAGTTTTGAATGATT
194 GTACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTGGGGTCCCGGCTCAGTTTTGAATGATT
* * *
1543 TTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCGAAACAAATCTCAGCCACATTGGATTTA
259 TTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACGTTGGATTTG
* * * *
1608 AGGATTTATTTTTACGAGCTTCTGAATCTTGTATCGATTTAATTAGAAATTAATTC-AAAAAAAA
1 AGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
* *
1672 GTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATATTTTTGGTTTTGAATTATATATTAC
66 GTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTTGAATTATATATT-C
* * * * * * *
1737 -TTATGAGTATTGTGGGAAAAAATTGAAAAAAAAAAATTTTTGTGTTAGTTTTTAGCCGAAACCA
130 TTTATGACTATTGCGGGAAAAAATTG-AGAAAAAAAA-TTTTGGGTCAGTTTTTAGCCGAAATCG
* * *
1801 TGTACTAACCCACACGGTTTTTAGCTAAAAACGCGTTTTGGGGTTCTGGCTCAGTTTTGAA
193 TGTACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTGGGGTCCCGGCTCAGTTTTGAA
1862 CATAGTTATT
Statistics
Matches: 1386, Mismatches: 130, Indels: 55
0.88 0.08 0.04
Matches are distributed among these distances:
308 9 0.01
309 47 0.03
310 82 0.06
311 4 0.00
312 27 0.02
314 1 0.00
320 90 0.06
321 12 0.01
322 102 0.07
323 67 0.05
324 283 0.20
325 432 0.31
326 230 0.17
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (323 bp):
AGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
GTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTTGAATTATATATTCT
TTATGACTATTGCGGGAAAAAATTGAGAAAAAAAATTTTGGGTCAGTTTTTAGCCGAAATCGTGT
ACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTGGGGTCCCGGCTCAGTTTTGAATGATTTT
TTGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACGTTGGATTTG
Found at i:3682 original size:322 final size:321
Alignment explanation
Indices: 2699--4497 Score: 2343
Period size: 324 Copynumber: 5.6 Consensus size: 321
2689 AATAACTATG
* * * *
2699 GTTTTGAATGATTTTTTTGCAG-AGGTACTCCTTGAAATATCTATATTCATAGATCCAAATCTCG
1 GTTTTGAATGA-TTTTTTGCAGAAAG-ACTCCTTGAAATATCTATATTCACA-AACCAAATCTCA
*
2763 GCCACATTGGATTTAAGGATTTATTTATACGACCATCTGAATC-TGTTTTCGATTTAATTAGAAA
63 GCCACATTGGATTTAAGGATTTATTTATACGAGCATCTGAATCTTG-TTTCGATTTAATTAGAAA
* * * * **
2827 TTAATTGGGAAAAAAAGTGGAAAAAAGATATTAGAAGTCTGAAAAACCCTTCAATATTTTTATCT
127 TTAATTCGGAAAAAAAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCT
* * ** *
2892 TTGAATTATTTATTCTTTATGAGTATTG-TTGAAAAGTTTGAGAAAAAAAATTTTTTGGGTCAGT
192 TTGAATTATATATTCTTCATGAGTATTGCGGGAAAA-ATTGAGAAAAAAAA---TTTGGGTCAGT
* * * * *
2956 TTTTAGTCGAAATCAT--A-T-A-CCTCACGGTTTTTAGCTAAAAACGC-ATTTTAGGGCCCCGG
253 TTTTAGCCGAAATCGTGCACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTTGGGGTCCCGG
3015 CTCA
318 CTCA
* * *
3019 GTTTTGAATGATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTTATCGAACCGAATCTCAGC
1 GTTTTGAATGATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCA-CAAACCAAATCTCAGC
*
3084 CACATTGGATTTAAGGATTTATTTATACGAGCATATGAATCTTG-TT-GTATTTCAATTAG-AAT
65 CACATTGGATTTAAGGATTTATTTATACGAGCATCTGAATCTTGTTTCG-ATTT-AATTAGAAAT
* * *
3146 GAATTCGGGAAAAAAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTTGCTT
128 TAATTCGGAAAAAAAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTT
*
3211 TGAATTATATATTCTTCATGACTATTGCGGGAAGAAATTGAGAAAAAAAA-TTGGGTCAGTTTTT
193 TGAATTATATATTCTTCATGAGTATTGCGGGAA-AAATTGAGAAAAAAAATTTGGGTCAGTTTTT
*
3275 AGCCGAAATCGTGCACTAACCCTCACGGTTTTTAGCTCAAAACGCGTTTTTGGGGTCCCGGCTCA
257 AGCCGAAATCGTGCACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTTGGGGTCCCGGCTCA
* * *
3340 GTTTTGAATGATGTTTTGCAGAGAGACTCCTTGAAATATCTATATTCACCAAACCAAATATCAGC
1 GTTTTGAATGATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCA-CAAACCAAATCTCAGC
* * *
3405 CACGTTGGATTTAAGGATTTATTTGTACGAGCATCTGAATCTTGTTTCGTTTTAATTA-AAATTA
65 CACATTGGATTTAAGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
* **
3469 ATTCGGAAAAAAATGTTGAAAAACGATATTAGAAGTGTGAAAAACCCCGCAATCTTTTT-GCTTT
130 ATTCGGAAAAAAA-GTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTT
*
3533 GAATTATATATTCTTCATGACTATTGCGGGAAGAAATTGAGAAAAAAAATTTGGGTCAGTTTTTA
194 GAATTATATATTCTTCATGAGTATTGCGGGAA-AAATTGAGAAAAAAAATTTGGGTCAGTTTTTA
3598 GCCGAAATCGTGCACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTTGGGGTCCCGGCTCA
258 GCCGAAATCGTGCACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTTGGGGTCCCGGCTCA
* * *
3662 GTTTTGAATGATGTTTTGCAGAGAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGC
1 GTTTTGAATGATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCA-CAAACCAAATCTCAGC
* * * * *
3727 CACGTTGGATTTGAGGCTTTATTCATACGAGCTTCTGAATCTTGTTTCGATTTAATTA-AAATTA
65 CACATTGGATTTAAGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
3791 ATTCGGGAAAAAAAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTT
130 ATTC-GGAAAAAAAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTT
* ** * *
3856 GAATTATATATTCTTCTTGAGTATTGTTGGATAAAATTGATAAAAAATAAATTTTGGGTCATTTT
194 GAATTATATATTCTTCATGAGTATTGCGGGA-AAAATTGA-GAAAAA-AAA-TTTGGGTCAGTTT
* * * * * * *
3921 TTGGCCGAAATCGTGTATTAACCTTCACGGTTTTTAGCTAATAACG-GCTTTT-GGGTCCCCTGC
255 TTAGCCGAAATCGTGCACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTTGGGGT-CCCGGC
3984 TCA
319 TCA
3987 GTTTTGAATGATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCGAAA-CAAATCTCAG
1 GTTTTGAATGATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCA-C-AAACCAAATCTCAG
* * * * *
4051 CCACATTGGATTTAAGGATTTATTTTTAGGAGCTTCTGAATCTTGTATCGATTTATTTAGAAATT
64 CCACATTGGATTTAAGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
* * * *
4116 AATTC-CAAAAAAAGTGGAAAAACGATATTAGAAGTGCGAAAAACCCTTCAATATTTTTGGATTT
129 AATTCGGAAAAAAAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTT
* * * *
4180 GAATTATATATTACTT-ATGAGTATTGTGGGAAAAAATTAAAAAGAAAAAAAAATTGTGTCAGTT
194 GAATTATATATT-CTTCATGAGTATTGCGGG-AAAAATT---GAGAAAAAAAATTTGGGTCAGTT
* * * *
4244 TTTAGCCGAAACCGTGTACTAACCCACACGGTTTTTAGCTAAAAACGCG-TTTTGGGG-CTCTGG
254 TTTAGCCGAAATCGTGCACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTTGGGGTC-CCGG
*
4307 TTCA
318 CTCA
* * *
4311 GTTTTGAATGATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCATAGACCCAAATCTCGGC
1 GTTTTGAATGATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCACA-AACCAAATCTCAGC
*
4376 CACATTGGATTTAAGGATTTATTTATACGACCATCTGAATC-TGTTTTCGATTTAATTAGAAATT
65 CACATTGGATTTAAGGATTTATTTATACGAGCATCTGAATCTTG-TTTCGATTTAATTAGAAATT
* * * * * *
4440 AATT-GGGAAAAAAGTGGAAAAATGATATTTGAAGTCTGAAAAATCCTTCAATATTTTT
129 AATTCGGAAAAAAAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTT
4498 AGCCGAAATC
Statistics
Matches: 1322, Mismatches: 118, Indels: 74
0.87 0.08 0.05
Matches are distributed among these distances:
315 24 0.02
317 2 0.00
318 91 0.07
319 105 0.08
320 41 0.03
321 190 0.14
322 292 0.22
323 53 0.04
324 317 0.24
325 136 0.10
326 70 0.05
327 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (321 bp):
GTTTTGAATGATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCACAAACCAAATCTCAGCC
ACATTGGATTTAAGGATTTATTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
TTCGGAAAAAAAGTGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAATCTTTTTGGCTTTGA
ATTATATATTCTTCATGAGTATTGCGGGAAAAATTGAGAAAAAAAATTTGGGTCAGTTTTTAGCC
GAAATCGTGCACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTTTGGGGTCCCGGCTCA
Found at i:5050 original size:27 final size:27
Alignment explanation
Indices: 5020--5077 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
5010 AACTTAAAAT
5020 ATGTTTCAATCAAAACTTCAACCCCAC
1 ATGTTTCAATCAAAACTTCAACCCCAC
5047 ATGTTTCAATCAAAACTTCAACCCCAC
1 ATGTTTCAATCAAAACTTCAACCCCAC
5074 ATGT
1 ATGT
5078 GATGGCTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.36, C:0.31, G:0.05, T:0.28
Consensus pattern (27 bp):
ATGTTTCAATCAAAACTTCAACCCCAC
Found at i:10193 original size:2 final size:2
Alignment explanation
Indices: 10186--10217 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10176 TGGAAAAATA
10186 AT AT 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 AT AT
10218 TCTGTATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11457 original size:111 final size:111
Alignment explanation
Indices: 11257--11506 Score: 286
Period size: 111 Copynumber: 2.3 Consensus size: 111
11247 TCGATTTCTT
* * *
11257 GTGCAATAAGCTCATTCTCGATTGCAATCTCTGCCAGGTTAGAATTAGTCCTGACTTCTGTTTCT
1 GTGCAATGAGCTCATTCTCAAGTGCAATCTCTGCCAGGTTAGAATTAGTCCTGACTTCTGTTTCT
*
11322 CCCTCTTCACAAGCAGCAGGCAGTTCCACTCTACAATTTGATTCCA
66 CCCTCTTCACAAGCAGCAAGCAGTTCCACTCTACAATTTGATTCCA
** * * *
11368 GTGCAATGAGCTCATTCTCAAGTGCTGTCTCTGCCTGGTTA-ATTGTAGTCCTGGCTTCTGTTTC
1 GTGCAATGAGCTCATTCTCAAGTGCAATCTCTGCCAGGTTAGAAT-TAGTCCTGACTTCTGTTTC
* ** * * *** **
11432 TCTCTCTTCAGGAGCAGGAATCAGTTCTGTTCTACAATTTGATTCTT
65 TCCCTCTTCACAAGCAGCAAGCAGTTCCACTCTACAATTTGATTCCA
* * *
11479 GTGCAGTGAGCTCATTCTCCATTGCAAT
1 GTGCAATGAGCTCATTCTCAAGTGCAAT
11507 GAGCTCATTC
Statistics
Matches: 114, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
110 2 0.02
111 112 0.98
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (111 bp):
GTGCAATGAGCTCATTCTCAAGTGCAATCTCTGCCAGGTTAGAATTAGTCCTGACTTCTGTTTCT
CCCTCTTCACAAGCAGCAAGCAGTTCCACTCTACAATTTGATTCCA
Found at i:11509 original size:21 final size:21
Alignment explanation
Indices: 11480--11539 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
11470 TTGATTCTTG
*
11480 TGCAGTGAGCTCATTCTCCAT
1 TGCAATGAGCTCATTCTCCAT
11501 TGCAATGAGCTCATTCTCCAT
1 TGCAATGAGCTCATTCTCCAT
*
11522 TGCAATGATCTCATTCTC
1 TGCAATGAGCTCATTCTC
11540 TTCACAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (21 bp):
TGCAATGAGCTCATTCTCCAT
Found at i:15391 original size:22 final size:22
Alignment explanation
Indices: 15366--15409 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15356 TAATTAATTG
15366 GTTCGAATATTTTAATTCTTGT
1 GTTCGAATATTTTAATTCTTGT
*
15388 GTTCGAATATTTTAGTTCTTGT
1 GTTCGAATATTTTAATTCTTGT
15410 ATTTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.55
Consensus pattern (22 bp):
GTTCGAATATTTTAATTCTTGT
Found at i:40543 original size:2 final size:2
Alignment explanation
Indices: 40536--40570 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
40526 TCTTTACAAT
40536 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40571 GCAACCACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.