Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01015172.1 Corchorus capsularis cultivar CVL-1 contig15193, 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: 17073
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Found at i:69 original size:34 final size:33
Alignment explanation
Indices: 1--115 Score: 124
Period size: 34 Copynumber: 3.5 Consensus size: 33
* *** *
1 GCCCCAGTGGGGCGGCCTATTCATAGTGAAGCC
1 GCCCTAGTGGGGCGGCCTGCCCATGGTGAAGCC
34 GCCCTAGTGGGGCGGCCTGCCCAATGGTGAAGCC
1 GCCCTAGTGGGGCGGCCTGCCC-ATGGTGAAGCC
* *
68 GCCCAAGTGGGGTGGCCTGCCCATGGT-AAGCC
1 GCCCTAGTGGGGCGGCCTGCCCATGGTGAAGCC
* **
100 ACCCTCTTGGGGCGGC
1 GCCCTAGTGGGGCGGC
116 ACGGGTCATC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
32 16 0.23
33 23 0.33
34 30 0.43
ACGTcount: A:0.15, C:0.32, G:0.37, T:0.17
Consensus pattern (33 bp):
GCCCTAGTGGGGCGGCCTGCCCATGGTGAAGCC
Found at i:6146 original size:14 final size:16
Alignment explanation
Indices: 6109--6148 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
6099 TTTTCTACTT
6109 TTATTT-TATTTATTA
1 TTATTTATATTTATTA
6124 TTATTTATATTTA-TA
1 TTATTTATATTTATTA
6139 -TATTTATATT
1 TTATTTATATT
6149 ACCAATGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.42
15 8 0.33
16 6 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTATATTTATTA
Found at i:7312 original size:31 final size:31
Alignment explanation
Indices: 7277--7352 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
7267 ATGGTGTTCG
*
7277 ACGTGTTATGCCACGTGTACCAAAAAGTGAC
1 ACGTGTCATGCCACGTGTACCAAAAAGTGAC
*
7308 ACGTGTCACGCCACGTGTACCAAAAAGTGAC
1 ACGTGTCATGCCACGTGTACCAAAAAGTGAC
*
7339 AAGTGTCATGCCAC
1 ACGTGTCATGCCAC
7353 ATGGATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (31 bp):
ACGTGTCATGCCACGTGTACCAAAAAGTGAC
Found at i:11496 original size:42 final size:42
Alignment explanation
Indices: 11437--11516 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
11427 TTCGGTTCAA
* *
11437 TTCTCTGGGAATCCATCTGCTAGCATTTCCAATCGACCTCAG
1 TTCTCCGGGAATCCATCTGCCAGCATTTCCAATCGACCTCAG
* * *
11479 TTCTCCGGGAATCCATCTGCCAGTATTTCTAGTCGACC
1 TTCTCCGGGAATCCATCTGCCAGCATTTCCAATCGACC
11517 AGATTCTGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.31
Consensus pattern (42 bp):
TTCTCCGGGAATCCATCTGCCAGCATTTCCAATCGACCTCAG
Found at i:14433 original size:31 final size:31
Alignment explanation
Indices: 14377--14465 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 31
14367 GCGGCATCCG
* * * *
14377 ACGTGGTATGCCACATGCCATTTTTTGAAAC
1 ACGTGGCATGCCACGTGTCACTTTTTGAAAC
* **
14408 ATGTGGCATGCCACGTGTCACTTTTTGGTAC
1 ACGTGGCATGCCACGTGTCACTTTTTGAAAC
* * *
14439 ACGTGGCGTGACATGTGTCACTTTTTG
1 ACGTGGCATGCCACGTGTCACTTTTTG
14466 GTATATGTGA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (31 bp):
ACGTGGCATGCCACGTGTCACTTTTTGAAAC
Found at i:15763 original size:331 final size:330
Alignment explanation
Indices: 15092--16784 Score: 1936
Period size: 331 Copynumber: 5.2 Consensus size: 330
15082 ATCTAACTAG
* * * * * *
15092 ATCTCAGTCAAATTAGATTTAATGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTGAATT
1 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATT
* * *
15157 AGAAATTAATTCAGAAAAATAAGAAAAACGATAATAGAAACGTGAAAAG--C-TTTTT-TTTTTG
66 AGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCCCTTTTTTATTTTTG
* * *
15218 GCATTGAATTATATATCTTTTATGAGTATTATGGCCAAAAATTAAGAAAAAAATTTTTCGGGTCA
131 GCGTTGAATTATATATCTTTTATGAGTATTGTGGCCAAAAATTGAG-AAAAAATTTTTCGGGTCA
* * * *
15283 G-TTTTGCCAAATTTTGGACGAAATTGTGTGCTAACCATCACAGTTTTCTGGATGAAAATGCGTT
195 GTTTTTGCCAAATTTTAGACGAAATCGTGTGCTAACCATCACGGTTTT-TGGCTGAAAATGCGTT
*
15347 CC-GGGACC-CGGCT-ATGCTTTGCATGATTTTTGGCGCCAAGAGTAATTGAAATATCTATATTC
259 CCAGGG-CCTCGGCTCA-GTTTTGCATGATTTTTGGCGCCAAGAGTAATTGAAATATCTATATTC
*
15409 ATC-TAACAAA
322 ATCAT-TC-AA
* * * * *
15419 ATAC-CAACCACATTTGATTTAAGAATTTGTTTTTACGAGTATATGAATCATGTTTCGATTTAAT
1 AT-CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAAT
* * * *
15483 TAGAAATTAATTTGGAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAACTCTTTTTTCTTTTT
65 TAGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCCCTTTTTTATTTTT
* * * *
15548 GGCGTTGAACTATAAATCTTTTATGAGTATTGTGGCCTAAAATTGAGGAAAAATTTTTCGGGTCA
130 GGCGTTGAATTATATATCTTTTATGAGTATTGTGGCCAAAAATTGAGAAAAAATTTTTCGGGTCA
** * * *
15613 GTTTTTGGAAAATTTTAGACGAAATCGTGTGCTAACCATCACGGTTATTGGCTGAAAAAGAGTTC
195 GTTTTTGCCAAATTTTAGACGAAATCGTGTGCTAACCATCACGGTTTTTGGCTGAAAATGCGTTC
* ** * *
15678 CAGGGCCTCGGTTTTGTTTTGCATGATTTTTGACGCTAAGAGTAATTGAAATATCTATATTCATT
260 CAGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGAGTAATTGAAATATCTATATTCA-T
15743 CATTCAA
324 CATTCAA
* *
15750 ATCTCAGCCACATTGGATTTAAGGATTTGATTTTACGAGCATCTGAATCACGTTTCGATTTAATT
1 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATT
* * * * * *
15815 AGATATTAATTCGGAAAAGTAAGAAAAAAGGTATTAGAA-CATTGAAAAGCCCTTTTTTCTTTTT
66 AGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGC-GTGAAAAGCCCTTTTTTATTTTT
* * *
15879 GGCGTTGAATTATATATCTTTTATAAGTATTGTGGCAAAAAATT-ACTG-AAAAATTTTTAGGGT
130 GGCGTTGAATTATATATCTTTTATGAGTATTGTGGCCAAAAATTGA--GAAAAAATTTTTCGGGT
* * *
15942 CAGTTTTTGCCAAATTTTGGACGAAATCGTGTGGTAACCATCACTGTTTTTGGCTGAAAATGCGT
193 CAGTTTTTGCCAAATTTTAGACGAAATCGTGTGCTAACCATCACGGTTTTTGGCTGAAAATGCGT
* * * * * *
16007 TCCGGGGCCCCGGCTCAGTTTTGCATGATTTCTGGCTCCAAAAGTAATTGAAATATCTATATCCA
258 TCCAGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGAGTAATTGAAATATCTATATTCA
**
16072 TCTAACCAA
323 TC-ATTCAA
* * * * *
16081 ATCTCAGCCACATTGGATTTAGGGATTTGCTTTTATGAGCATCTAAATTATGTTTCGATTTAATT
1 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATT
**
16146 AGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGCACGAAAAGCCCTTTTTTATTTTTG
66 AGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCCCTTTTTTATTTTTG
* * *
16211 GCGATGAAATATATATCTTTTATGAGTATTCTGGCCAAAAATTGAGAAAAAATTTTTCGGGTCAG
131 GCGTTGAATTATATATCTTTTATGAGTATTGTGGCCAAAAATTGAGAAAAAATTTTTCGGGTCAG
* * * * * * *
16276 TTTTTACCAAATTTTAGGCAAAACCGTGAGTTAACCATCACGGTTTTTAGCTGAAAATGCGTTCC
196 TTTTTGCCAAATTTTAGACGAAATCGTGTGCTAACCATCACGGTTTTTGGCTGAAAATGCGTTCC
** * *
16341 GAGACCCT-GCCTCAGTTTTGCAT-ATTTTTTGGCACCAAGAGTAATTGAAATATCTATATTCAT
261 -AGGGCCTCGGCTCAGTTTTGCATGA-TTTTTGGCGCCAAGAGTAATTGAAATATCTATATTCAT
*
16404 C-TAACTAA
324 CAT-TC-AA
* * * * *
16412 ATCTCAACCATATTGGATTTAAGGATTTGTTTTTATGAGCGTCTGAATCATGTTTCGATTAAATT
1 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATT
16477 AGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCCCTTTTTTTATTTTT
66 AGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCCC-TTTTTTATTTTT
* * * * * *
16542 GGCGATGAATTATATTTATTTTGTGTGTA-T-T-G--------TG-GAAAAAA-TTCTCGGGTCA
130 GGCGTTGAATTATATATCTTTTATGAGTATTGTGGCCAAAAATTGAGAAAAAATTTTTCGGGTCA
* * * * *
16594 GTTTTTCCCAAATTTTGGACGAAAATCGTGTGCTAACCATTACGG-TTTTGGCTAAAAATTCGTT
195 GTTTTTGCCAAATTTTAGACG-AAATCGTGTGCTAACCATCACGGTTTTTGGCTGAAAATGCGTT
* * * * * * * * * * * * * *
16658 CCGGGGCCCCGACTCAATTTTGCCTAATTTTTTGCCCCAAGATTAGTGGAAATATCCAAATTAAT
259 CCAGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGAGTAATTGAAATATCTATATTCAT
*
16723 C-TAACTAA
324 CAT-TC-AA
*
16731 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTCAATCATGTT
1 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTT
16785 ACATTACGGT
Statistics
Matches: 1176, Mismatches: 163, Indels: 62
0.84 0.12 0.04
Matches are distributed among these distances:
318 3 0.00
319 144 0.12
320 27 0.02
321 2 0.00
327 99 0.08
328 1 0.00
329 2 0.00
330 49 0.04
331 803 0.68
332 45 0.04
333 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (330 bp):
ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATT
AGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCCCTTTTTTATTTTTG
GCGTTGAATTATATATCTTTTATGAGTATTGTGGCCAAAAATTGAGAAAAAATTTTTCGGGTCAG
TTTTTGCCAAATTTTAGACGAAATCGTGTGCTAACCATCACGGTTTTTGGCTGAAAATGCGTTCC
AGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGAGTAATTGAAATATCTATATTCATCA
TTCAA
Found at i:16331 original size:662 final size:659
Alignment explanation
Indices: 15072--16784 Score: 2151
Period size: 662 Copynumber: 2.6 Consensus size: 659
15062 GGAAGTTGGA
* * * * *
15072 ATCTATATTCATCTAACTAGATCTCAGTCAAATTAGATTTAATGATTTGTTTTTACGAGCATATG
1 ATCTATATTCATCTAACTAAATCTCAGCCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTG
* * *
15137 AATCATGTTTCGATTGAATTAGAAATTAATTCAGAAAAATAAGAAAAACGATAATAGAA-ACGTG
66 AATCATGTTTCGATTAAATTAGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAACA-GTG
* * * *
15201 AAAAG--C-TTTTTTTTTTGGCATTGAATTATATATCTTTTATGAGTATTATGGCCAAAAATTAA
130 AAAAGCCCTTTTTTTTTTTGGCGTTGAATTATATATCTTTTATGAGTATTGTGGCAAAAAATTAC
*
15263 GAAAAAAATTTTTCGGGTCAG-TTTTGCCAAATTTTGGACGAAATTGTGTGCTAACCATCACAGT
195 G--AAAAATTTTTCGGGTCAGTTTTTGCCAAATTTTGGACGAAATCGTGTGCTAACCATCAC-GT
* * * *
15327 TTTCTGGATGAAAATGCGTTCC-GGGACCCGGCT-ATGCTTTGCATGATTTTTGGCGCCAAGAGT
257 TTT-TGGCTGAAAATGCGTTCCGGGGCCCCGGCTCA-GTTTTGCATGATTTTTGGCCCCAAGAGT
* * *
15390 AATTGAAATATCTATATTCATCTAACAAAATAC-CAACCACATTTGATTTAAGAATTTGTTTTTA
320 AATTGAAATATCTATATTCATCTAACAAAAT-CTCAGCCACATTGGATTTAAGGATTTGTTTTTA
* * * *
15454 CGAGTATATGAATCATGTTTCGATTTAATTAGAAATTAATTTGGAAAAATAAGAAAAACGATATT
384 CGAGCATCTAAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAAGAAAAACGATATT
** * * * * *
15519 AGAAGCGTGAAAAACTCTTTTTTCTTTTTGGCGTTGAACTATAAATCTTTTATGAGTATTGTGGC
449 AGAAGCACGAAAAACCCTTTTTTATTTTTGGCGATGAAATATAAATCTTTTATGAGTATTCTGGC
* * ** * * *
15584 CTAAAATTGAGGAAAAATTTTTCGGGTCAGTTTTTGGAAAATTTTAGACGAAATCGTGTGCTAAC
514 CAAAAATTGAGAAAAAATTTTTCGGGTCAGTTTTTACAAAATTTTAGACAAAACCGTGAGCTAAC
* ** ** **
15649 CATCACGGTTATTGGCTGAAAAAGAGTTCC-AGGGCCTCGGTTTTGTTTTGCATGA-TTTTTGAC
579 CATCACGGTTATTAGCTGAAAAAGAGTTCCGAGACCCT-GCCTCAGTTTTGCAT-ATTTTTTGAC
* *
15712 GCTAAGAGTAATTGAAAT
642 ACCAAGAGTAATTGAAAT
* * * *
15730 ATCTATATTCAT-TCATTCAAATCTCAGCCACATTGGATTTAAGGATTTGATTTTACGAGCATCT
1 ATCTATATTCATCTAACT-AAATCTCAGCCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCT
* * * * * * *
15794 GAATCACGTTTCGATTTAATTAGATATTAATTCGGAAAAGTAAGAAAAAAGGTATTAGAACATTG
65 GAATCATGTTTCGATTAAATTAGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAACAGTG
*
15859 AAAAGCCCTTTTTTCTTTTTGGCGTTGAATTATATATCTTTTATAAGTATTGTGGCAAAAAATTA
130 AAAAGCCCTTTTTT-TTTTTGGCGTTGAATTATATATCTTTTATGAGTATTGTGGCAAAAAATTA
* *
15924 CTGAAAAATTTTTAGGGTCAGTTTTTGCCAAATTTTGGACGAAATCGTGTGGTAACCATCACTGT
194 C-GAAAAATTTTTCGGGTCAGTTTTTGCCAAATTTTGGACGAAATCGTGTGCTAACCATCAC-GT
* * *
15989 TTTTGGCTGAAAATGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTCTGGCTCCAAAAGTAA
257 TTTTGGCTGAAAATGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCCCCAAGAGTAA
* * * * *
16054 TTGAAATATCTATATCCATCTAACCAAATCTCAGCCACATTGGATTTAGGGATTTGCTTTTATGA
322 TTGAAATATCTATATTCATCTAACAAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGA
*
16119 GCATCTAAATTATGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGA
387 GCATCTAAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGA
* *
16184 AGCACGAAAAGCCCTTTTTTATTTTTGGCGATGAAATATATATCTTTTATGAGTATTCTGGCCAA
452 AGCACGAAAAACCCTTTTTTATTTTTGGCGATGAAATATAAATCTTTTATGAGTATTCTGGCCAA
* * *
16249 AAATTGAGAAAAAATTTTTCGGGTCAGTTTTTACCAAATTTTAGGCAAAACCGTGAGTTAACCAT
517 AAATTGAGAAAAAATTTTTCGGGTCAGTTTTTACAAAATTTTAGACAAAACCGTGAGCTAACCAT
* * * *
16314 CACGGTTTTTAGCTGAAAATGCGTTCCGAGACCCTGCCTCAGTTTTGCATATTTTTTGGCACCAA
582 CACGGTTATTAGCTGAAAAAGAGTTCCGAGACCCTGCCTCAGTTTTGCATATTTTTTGACACCAA
16379 GAGTAATTGAAAT
647 GAGTAATTGAAAT
* * * *
16392 ATCTATATTCATCTAACTAAATCTCAACCATATTGGATTTAAGGATTTGTTTTTATGAGCGTCTG
1 ATCTATATTCATCTAACTAAATCTCAGCCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTG
16457 AATCATGTTTCGATTAAATTAGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGC-GTG
66 AATCATGTTTCGATTAAATTAGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAA-CAGTG
* * * * *
16521 AAAAGCCCTTTTTTTATTTTTGGCGATGAATTATATTTATTTTGTGTGTATTGTGG-AAAAAATT
130 AAAAGCCC-TTTTTT-TTTTTGGCGTTGAATTATATATCTTTTATGAGTATTGTGGCAAAAAATT
* * *
16585 -C----------TCGGGTCAGTTTTTCCCAAATTTTGGACGAAAATCGTGTGCTAACCATTACGG
193 ACGAAAAATTTTTCGGGTCAGTTTTTGCCAAATTTTGGACG-AAATCGTGTGCTAACCATCACGT
* * * * * * * * *
16639 TTTTGGCTAAAAATTCGTTCCGGGGCCCCGACTCAATTTTGCCTAATTTTTTGCCCCAAGATTAG
257 TTTTGGCTGAAAATGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCCCCAAGAGTAA
* * * * *
16704 TGGAAATATCCAAATTAATCTAACTAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGA
322 TTGAAATATCTATATTCATCTAACAAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGA
*
16769 GCATCTCAATCATGTT
387 GCATCTAAATCATGTT
16785 ACATTACGGT
Statistics
Matches: 911, Mismatches: 127, Indels: 42
0.84 0.12 0.04
Matches are distributed among these distances:
650 151 0.17
651 19 0.02
657 3 0.00
658 110 0.12
659 1 0.00
660 1 0.00
661 42 0.05
662 533 0.59
663 51 0.06
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (659 bp):
ATCTATATTCATCTAACTAAATCTCAGCCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTG
AATCATGTTTCGATTAAATTAGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAACAGTGA
AAAGCCCTTTTTTTTTTTGGCGTTGAATTATATATCTTTTATGAGTATTGTGGCAAAAAATTACG
AAAAATTTTTCGGGTCAGTTTTTGCCAAATTTTGGACGAAATCGTGTGCTAACCATCACGTTTTT
GGCTGAAAATGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCCCCAAGAGTAATTGA
AATATCTATATTCATCTAACAAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCAT
CTAAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAAGAAAAACGATATTAGAAGCA
CGAAAAACCCTTTTTTATTTTTGGCGATGAAATATAAATCTTTTATGAGTATTCTGGCCAAAAAT
TGAGAAAAAATTTTTCGGGTCAGTTTTTACAAAATTTTAGACAAAACCGTGAGCTAACCATCACG
GTTATTAGCTGAAAAAGAGTTCCGAGACCCTGCCTCAGTTTTGCATATTTTTTGACACCAAGAGT
AATTGAAAT
Found at i:16817 original size:156 final size:155
Alignment explanation
Indices: 16631--16936 Score: 405
Period size: 156 Copynumber: 2.0 Consensus size: 155
16621 GTGTGCTAAC
* * *
16631 CATTACGGTTTTGGCTAAAAATTCGTTCCGGGGCCCCGACTCAATTTTGCCTAATTTTTTGCCCC
1 CATTACGGTTTTGGCTAAAAATGCGTTCCGGGGCCCCGACTCAATTTTGCATAATTTTTGGCCCC
* * * *
16696 AAGATTAGTGGAAATATCCAAATTAATCTAACTAAATCTCAGCCACATTGGATTTAAGGATTTGT
66 AAGAGTAATGGAAATATCCAAATTAATCTAACTAAATCTCAGCCACATTCGATTTAAGGAGTTGT
* *
16761 TTTTACGAGCATCTCAATCATGTTA
131 TTTTAAGAGAATCTCAATCATGTTA
* * * * * *
16786 CATTACGGTTTTTGGCTGAAAATGCGTTCCGGGGCCCTGGCTCAGTTTTGCATGATTTTTGGCGC
1 CATTACGG-TTTTGGCTAAAAATGCGTTCCGGGGCCCCGACTCAATTTTGCATAATTTTTGGCCC
* * * * **
16851 CAAGAGTAATTGAAATATCTATATTCATCTATTTAAATCTCAGCCACATTCGATTTAAGGAGTTG
65 CAAGAGTAATGGAAATATCCAAATTAATCTAACTAAATCTCAGCCACATTCGATTTAAGGAGTTG
*
16916 TTTTTAAGAGAATCTGAATCA
130 TTTTTAAGAGAATCTCAATCA
16937 CGTTTCGATT
Statistics
Matches: 128, Mismatches: 22, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
155 8 0.06
156 120 0.94
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (155 bp):
CATTACGGTTTTGGCTAAAAATGCGTTCCGGGGCCCCGACTCAATTTTGCATAATTTTTGGCCCC
AAGAGTAATGGAAATATCCAAATTAATCTAACTAAATCTCAGCCACATTCGATTTAAGGAGTTGT
TTTTAAGAGAATCTCAATCATGTTA
Done.