Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010253.1 Corchorus capsularis cultivar CVL-1 contig10274, 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: 24871
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:1837 original size:2 final size:2
Alignment explanation
Indices: 1830--1854 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1820 CTTAGTAGTG
1830 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1855 GCTTAGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6675 original size:3 final size:3
Alignment explanation
Indices: 6662--6714 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
6652 GTACAGTACT
6662 ATA AT- ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6708 ATA ATA A
1 ATA ATA A
6715 ATACCCCTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.08
3 44 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6687 original size:20 final size:20
Alignment explanation
Indices: 6670--6710 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6660 CTATAATATA
6670 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
6690 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
6710 A
1 A
6711 ATAAATACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:6690 original size:23 final size:23
Alignment explanation
Indices: 6662--6717 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
6652 GTACAGTACT
6662 ATAATATAATAATAATAATAATA
1 ATAATATAATAATAATAATAATA
6685 ATAATATAATAATAATAATAATA
1 ATAATATAATAATAATAATAATA
6708 ATAATA-AATA
1 ATAATATAATA
6718 CCCCTCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATATAATAATAATAATAATA
Found at i:10513 original size:25 final size:25
Alignment explanation
Indices: 10484--10535 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
10474 CAACCCAAAG
10484 CACACATTACCTAGAAAATTCAGCT
1 CACACATTACCTAGAAAATTCAGCT
10509 CACACATTACCTAGAAAATTCAGCT
1 CACACATTACCTAGAAAATTCAGCT
10534 CA
1 CA
10536 AGGTAATTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.29, G:0.08, T:0.23
Consensus pattern (25 bp):
CACACATTACCTAGAAAATTCAGCT
Found at i:12277 original size:33 final size:33
Alignment explanation
Indices: 12235--12307 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
12225 GCCCCATTGC
12235 TTGTTACCCTTCATATGCTTCAAACTATGAAAT
1 TTGTTACCCTTCATATGCTTCAAACTATGAAAT
12268 TTGTTACCCTTCATATGCTTCAAACTATGAAAT
1 TTGTTACCCTTCATATGCTTCAAACTATGAAAT
*
12301 TTCTTAC
1 TTGTTAC
12308 TCTTTCCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (33 bp):
TTGTTACCCTTCATATGCTTCAAACTATGAAAT
Found at i:20204 original size:22 final size:21
Alignment explanation
Indices: 20160--20535 Score: 233
Period size: 22 Copynumber: 17.4 Consensus size: 21
20150 TCATAAGTAG
* *
20160 ATTTCATATGGA-TTATCAAA
1 ATTTCATAGGGAGTTACCAAA
20180 ATTTCATAGGGACGTTACCAAA
1 ATTTCATAGGGA-GTTACCAAA
* * *
20202 ATTTCATTGTGAGGTTACCAAT
1 ATTTCATAGGGA-GTTACCAAA
* *
20224 ATTCCATAGGG-GTTACCAAT
1 ATTTCATAGGGAGTTACCAAA
* *
20244 ATTTTATAGGGAGTCTACAAAA
1 ATTTCATAGGGAGT-TACCAAA
* *
20266 ATTTCATAGTGAGCTTACAAAA
1 ATTTCATAGGGAG-TTACCAAA
* * *
20288 ATTTAATTGTGAGGTTACCAAA
1 ATTTCATAGGGA-GTTACCAAA
* *
20310 ATTTTATAAGGG-GTTATCC-GA
1 ATTTCAT-AGGGAGTTA-CCAAA
* *
20331 ATTTCATAGTGAGATTACAAAA
1 ATTTCATAGGGAG-TTACCAAA
** * *
20353 ATTTCATAGTACAATTACTAAA
1 ATTTCATAG-GGAGTTACCAAA
*
20375 ATTTCATAGGG-GCTAACCAAA
1 ATTTCATAGGGAG-TTACCAAA
* *
20396 ATTTCATATGGAGGTTTCCAAA
1 ATTTCATAGGGA-GTTACCAAA
**
20418 ATTTCATA-GGAGGTTACTGAA
1 ATTTCATAGGGA-GTTACCAAA
** *
20439 ATTTCATACGAAAGTTGCCAGAA
1 ATTTCATA-GGGAGTTACCA-AA
* * *
20462 TTTTCATAGTGATGTTACCCAA
1 ATTTCATAGGGA-GTTACCAAA
**
20484 ATTTCATAATGAGGTTACCAAA
1 ATTTCATAGGGA-GTTACCAAA
*
20506 ATTTCATAGTGAAGTTACCAAA
1 ATTTCATAG-GGAGTTACCAAA
20528 ATTTCATA
1 ATTTCATA
20536 AAATGTGACA
Statistics
Matches: 278, Mismatches: 58, Indels: 38
0.74 0.16 0.10
Matches are distributed among these distances:
20 32 0.12
21 49 0.18
22 175 0.63
23 22 0.08
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34
Consensus pattern (21 bp):
ATTTCATAGGGAGTTACCAAA
Found at i:20376 original size:65 final size:65
Alignment explanation
Indices: 20171--20426 Score: 182
Period size: 65 Copynumber: 3.9 Consensus size: 65
20161 TTTCATATGG
* * * * * * * *
20171 ATTATCAAAATTTCATAGGGACGTTACCAAAATTTCATTGTGAGGTTACCAATATTCCATAG-G-
1 ATTACCAAAATTTCATAGGGGC-TAACCAAAATTTCATAGTGAGATTACAAAAATTTCATAGTGA
*
20234 G
65 A
* * * * * * *
20235 GTTACCAATATTTTATAGGGAGTCT-ACAAAAATTTCATAGTGAGCTTACAAAAATTTAATTGTG
1 ATTACCAAAATTTCATAGGG-G-CTAACCAAAATTTCATAGTGAGATTACAAAAATTTCATAGTG
*
20299 AG
64 AA
* * * * *
20301 GTTACCAAAATTTTATAAGGGGTTATCC-GAATTTCATAGTGAGATTACAAAAATTTCATAGT-A
1 ATTACCAAAATTTCAT-AGGGGCTAACCAAAATTTCATAGTGAGATTACAAAAATTTCATAGTGA
20364 CA
65 -A
* * * *
20366 ATTACTAAAATTTCATAGGGGCTAACCAAAATTTCATA-TGGAGGTTTCCAAAATTTCATAG
1 ATTACCAAAATTTCATAGGGGCTAACCAAAATTTCATAGT-GAGATTACAAAAATTTCATAG
20427 GAGGTTACTG
Statistics
Matches: 152, Mismatches: 31, Indels: 17
0.76 0.16 0.09
Matches are distributed among these distances:
64 56 0.37
65 73 0.48
66 19 0.12
67 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (65 bp):
ATTACCAAAATTTCATAGGGGCTAACCAAAATTTCATAGTGAGATTACAAAAATTTCATAGTGAA
Found at i:20511 original size:44 final size:44
Alignment explanation
Indices: 20160--20536 Score: 258
Period size: 44 Copynumber: 8.7 Consensus size: 44
20150 TCATAAGTAG
* * ** *
20160 ATTTCATA-TG-GATTATCAAAATTTCATAGGGACGTTACCAAA
1 ATTTCATAGTGAGGTTACCAAAATTTCATAATGAGGTTACCAAA
* * * * *
20202 ATTTCATTGTGAGGTTACCAATATTCCAT-A-GGGGTTACCAAT
1 ATTTCATAGTGAGGTTACCAAAATTTCATAATGAGGTTACCAAA
* * * * * *
20244 ATTTTATAGGGA-GTCTACAAAAATTTCATAGTGAGCTTACAAAA
1 ATTTCATAGTGAGGT-TACCAAAATTTCATAATGAGGTTACCAAA
* * * * *
20288 ATTTAATTGTGAGGTTACCAAAATTTTATAA-GGGGTTATCC-GA
1 ATTTCATAGTGAGGTTACCAAAATTTCATAATGAGGTTA-CCAAA
* * * ** *
20331 ATTTCATAGTGAGATTACAAAAATTTCATAGT-ACAATTACTAAA
1 ATTTCATAGTGAGGTTACCAAAATTTCATAATGA-GGTTACCAAA
* *
20375 ATTTCATAG-G-GGCTAACCAAAATTTCAT-ATGGAGGTTTCCAAA
1 ATTTCATAGTGAGG-TTACCAAAATTTCATAAT-GAGGTTACCAAA
** * * *
20418 ATTTCATAG-GAGGTTACTGAAATTTCAT-ACGAAAGTTGCCAGAA
1 ATTTCATAGTGAGGTTACCAAAATTTCATAATG-AGGTTACCA-AA
* * *
20462 TTTTCATAGTGATGTTACCCAAATTTCATAATGAGGTTACCAAA
1 ATTTCATAGTGAGGTTACCAAAATTTCATAATGAGGTTACCAAA
*
20506 ATTTCATAGTGAAGTTACCAAAATTTCATAA
1 ATTTCATAGTGAGGTTACCAAAATTTCATAA
20537 AATGTGACAA
Statistics
Matches: 252, Mismatches: 65, Indels: 34
0.72 0.19 0.10
Matches are distributed among these distances:
41 2 0.01
42 39 0.15
43 84 0.33
44 100 0.40
45 25 0.10
46 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34
Consensus pattern (44 bp):
ATTTCATAGTGAGGTTACCAAAATTTCATAATGAGGTTACCAAA
Found at i:21607 original size:2 final size:2
Alignment explanation
Indices: 21600--21628 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21590 CCAGCAACTT
21600 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21629 TTTAACAGTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24161 original size:333 final size:329
Alignment explanation
Indices: 23354--24837 Score: 1358
Period size: 334 Copynumber: 4.5 Consensus size: 329
23344 CGGTTCAATG
* * * * * * * *
23354 TTGCAAGATTTTTTGCGCCGAGACTCCTTGAAATATTTACATTCATCTAACCAAATTTCGGCCAA
1 TTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATCAGCCAC
* *** * *
23419 ATTGGATTTAAGGATTTG-TAAAACAAGTATCTGAAT-TATGTTTCGATTTAATTAGAAATTAAT
66 ATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCT-TGTTTCGATTTAATTAG-AATTAAT
* * * *** * *
23482 TCTAAAAATAATAGGATAAACGATATTAGAACCATGAAAA-ACCGTTCAATC-TTTTTGGCGTTG
129 TC-AGAAA-AATATGAAAAACGATATTA-AAAGGTGAAAAGTCC-TTCAATCTTTTTTGACGTTG
* * * * * *
23545 AAATATA-ATTTTTATGAGTATTGTGGCTAAAAACTG-AGGAAATAA-CTTTCGAGTCAATTTTT
190 AATTATATATTTTTATGAGTATTTTAGCCAAAAATTGAAGGAAA-AATCTTTCGGGTCAATTTTT
* * * * * *
23607 GCAAAATTCTATCCGATCGAAATCATGTAATAATCATCACGGTTTTTGGCTAAAAACGCGTTCCG
254 GCAAAATT-T-T-AG-CCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTG
* *
23672 GTGCCCCGGCTAAGTT
315 G-GCCCCGACTTAGTT
* * * * * * * * * *
23688 TTGAATGATTTTTGACGCCAAGACTCTTTGAGATAACCATATTCATTTAACCAAATCTCAGCTAA
1 TTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATCAGCCAC
* * **
23753 AATGGATTTAAGAATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATACAATTAGAAATTAATT
66 ATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG-AATTAATT
* *
23818 CAGAAAAATATGAAAAACGATATTAAAAGGATGAAAAGTCCTCCAATCTTTTTTGACATTGAATT
130 CAGAAAAATATGAAAAACGATATTAAAAGG-TGAAAAGTCCTTCAATCTTTTTTGACGTTGAATT
** * *
23883 ATATATATTTTATGAGTATTTTAGCCAAAAATTGATTGAAAAATTTTTCGGGTCATTTTTTGCAA
194 ATATAT-TTTTATGAGTATTTTAGCCAAAAATTGAAGGAAAAATCTTTCGGGTCAATTTTTGCAA
* * * * **
23948 AATTTTAGTCGAAATCGTGCACTAAACATCACGTTTTTTTTTTACTAAAAA-GCGTT-TCGGGAC
258 AATTTTAGCCGAAATCGTGTACTAACCATCACG---GTTTTTGGCTAAAAACGCGTTCT-GGG-C
*
24011 CCCGGCTTAGTT
318 CCCGACTTAGTT
* * * * * *
24023 TTGCATGATTTTTGGCACCAAGACTCATTGAAATATCTATATCCACCTAATCAAATCTCAGCCAC
1 TTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATCAGCCAC
*
24088 ATTGAATTTAAGAATTTG-TTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTAATTC
66 ATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTAATTC
* * *
24152 AGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAAGGCTTTCAAT-TTTTTTGGCGTTGAATT
131 AGAAAAATATGAAAAACGATATTAAAAG-GTG-AAAAGTCCTTCAATCTTTTTTGACGTTGAATT
* * * * *
24216 ATATATTTTGTATGAGTATTTTCGCTAAAAA-TCAAGGAAAAATCTTTCAGATCAATTTTTGCAA
194 ATATATTTT-TATGAGTATTTTAGCCAAAAATTGAAGGAAAAATCTTTCGGGTCAATTTTTGCAA
* * *
24280 AATTTTAGCCTAAATCGTGTACTAACCATTACGGTTTTCGGCTAAAAACGCGTTCTGAGG-CCCG
258 AATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTG-GGCCCCG
24344 ACTTAGTT
322 ACTTAGTT
* **
24352 TTGCATGATTTTTGGTG-C-A-A-TCCTTGAAATATCTATATAAATCTAACCAAATATCAGCCAC
1 TTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATCAGCCAC
* * * ** * *
24413 ATTAGATTTAAGAATTTGTTTTTACGAACATCTGTATCTTGTTTTAATTTAATTATAAATTCATT
66 ATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA-GAATTAATT
* * * * * * * *
24478 CGGAAAAA-ATTGGGAAAACAATATTAGAAGCGTTAAAAGTCCTTTAAATCTTTTTT-ATGTCGA
130 CAGAAAAATA-T-GAAAAACGATATTAAAAG-GTGAAAAGTCC-TTCAATCTTTTTTGACGTTGA
* * *
24541 ATTATATAATTTTTATGAGAATTTTAGACAAAAATT-AAGGAAATATCTTTCGGGTCAATTTTTT
191 ATTATAT-ATTTTTATGAGTATTTTAGCCAAAAATTGAAGGAAAAATCTTTCGGGTCAA-TTTTT
* * * * **
24605 GTGAAAGTTTT-GCCGAAATCGTGTACTAACCATTACAGTTTTTGGCTAAAAACGCGTTCTAGAA
254 G-CAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCT-GGG
* *
24669 CCAC-AATTATGTT
317 CCCCGACTTA-GTT
* * * * * * *
24682 TTGCATGATTTTTGACGCCGAGATTCCTTGAAATATATTTATTCATCTAATCAAATATCAGGCAC
1 TTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATCAGCCAC
* * * * * *
24747 AGTGGATTTAATG-ATTTGTTTTTATGTGCATCTGAATCTTATTTCAATTTAATTGAAAATTAAT
66 ATTGGATTTAA-GAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT-AGAATTAAT
* *
24811 TTAGAAAAATATGAAAAACAATATTAA
129 TCAGAAAAATATGAAAAACGATATTAA
24838 TGCTTAAAAA
Statistics
Matches: 950, Mismatches: 160, Indels: 81
0.80 0.13 0.07
Matches are distributed among these distances:
325 51 0.05
326 34 0.04
327 22 0.02
328 71 0.07
329 105 0.11
330 34 0.04
331 4 0.00
332 60 0.06
333 143 0.15
334 230 0.24
335 131 0.14
336 39 0.04
337 26 0.03
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.37
Consensus pattern (329 bp):
TTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATCAGCCAC
ATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTAATTC
AGAAAAATATGAAAAACGATATTAAAAGGTGAAAAGTCCTTCAATCTTTTTTGACGTTGAATTAT
ATATTTTTATGAGTATTTTAGCCAAAAATTGAAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAT
TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCTGGGCCCCGACTT
AGTT
Found at i:24799 original size:660 final size:661
Alignment explanation
Indices: 23459--24837 Score: 1486
Period size: 660 Copynumber: 2.1 Consensus size: 661
23449 CTGAATTATG
* * * *
23459 TTTCGATTTAATTAGAAATTAATTCTAAAAATAATAGGATAAACGATATTAGAACCATGAAAAAC
1 TTTCGATTTAATTAG-AATTAATTC-AGAAA-AATATGAAAAACGATATTAAAACCATGAAAAAC
* *
23524 CGTTCAATCTTTTTGGCGTTGAAATATAATTTTTATGAGTATTGTGGCTAAAAACTGAGGAAATA
63 CGTTCAATCTTTTTGGCGTTGAAATATAATTTTTATGAGTATTGTCGCTAAAAACTAAGGAAATA
* * *
23589 ACTTTCGAGTCAATTTTTGCAAAATTCTATCCGATCGAAATCATGTAATAATCATCACGGTTTTT
128 ACTTTCGAGTCAATTTTTGCAAAATTCTAGCC-ATC-AAATCATGTAATAACCATCACGGTTTTC
* *
23654 GGCTAAAAACGCGTTCCGGTGCCCCGGCTAAGTTTTGAATGATTTTTGACGCCAAGACTCTTTGA
191 GGCTAAAAACGCGTTCCGGTGCCCCGACTAAGTTTTGAATGATTTTTGACGCCAAGACTCCTTGA
* ** * * * * *
23719 GATAACCATATTCATTTAACCAAATCTCAGCTAAAATGGATTTAAGAATTTGTTTTTACGAGCAT
256 AATAACCATATAAATCTAACCAAATATCAGCCAAAATAGATTTAAGAATTTGTTTTTACGAACAT
* * *
23784 CTGAATTTTGTTTCGATACAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGGA
321 CTGAATCTTGTTTCAATACAATTAGAAATTAATTCAGAAAAATATGAAAAACAATATTAAAAGGA
* * * *
23849 TGAAAAGTCCTCCAATCTTTTTTGACATTGAATTATATATATTTTATGAGTATTTTAGCCAAAAA
386 TGAAAAGTCCTCAAATCTTTTTTGACATCGAATTATATATATTTTATGAGAATTTTAGACAAAAA
** * *
23914 TTGATTGAAAAATTTTTCGGGTCATTTTTTGCAAAATTTTAGTCGAAATCGTGCACTAAACATCA
451 TTGAAGGAAAAATCTTTCGGGTCATTTTTTGCAAAATTTTAGCCGAAATCGTGCACTAAACATCA
* * * * ** *
23979 CGTTTTTTTTTTACTAAAAAGCGTTTCGGGACCCCGGCTTAGTTTTGCATGATTTTTGGCACCAA
516 CG---TTTTTTGACTAAAAAGCGTTTCAGAACCACGAATTAGTTTTGCATGATTTTTGACACCAA
* * *
24044 GACTCATTGAAATATCTATATCCACCTAATCAAATCTCAGCCACATTGAATTTAAGAATTTGTTT
578 GACTCATTGAAATATATATATCCACCTAATCAAATATCAGCCACAGTGAATTTAAGAATTTGTTT
*
24109 TACGAGCATCTGAATCTTG
643 TACGAGCATCTGAATCTTA
* * * *
24128 TTTCGATTTAATTAGAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAAGGCT
1 TTTCGATTTAATTAGAATTAATTCAGAAAAATATGAAAAACGATATTAAAACCATGAAAAA-CCG
* * *
24193 TTCAATTTTTTTGGCGTTGAATTATATATTTTGTATGAGTATTTTCGCTAAAAA-TCAAGGAAA-
65 TTCAATCTTTTTGGCGTTGAAATATA-ATTTT-TATGAGTATTGTCGCTAAAAACT-AAGGAAAT
* * * *
24256 AATCTTTC-AGATCAATTTTTGCAAAATTTTAGCC-T-AAATCGTGTACTAACCATTACGGTTTT
127 AA-CTTTCGAG-TCAATTTTTGCAAAATTCTAGCCATCAAATCATGTAATAACCATCACGGTTTT
* * * **
24318 CGGCTAAAAACGCGTTCTGAG-G-CCCGACTTAGTTTTGCATGATTTTTGGTG-C-A-A-TCCTT
190 CGGCTAAAAACGCGTTCCG-GTGCCCCGACTAAGTTTTGAATGATTTTTGACGCCAAGACTCCTT
* * * *
24377 GAAATATCTATATAAATCTAACCAAATATCAGCCACATTAGATTTAAGAATTTGTTTTTACGAAC
254 GAAATAACCATATAAATCTAACCAAATATCAGCCAAAATAGATTTAAGAATTTGTTTTTACGAAC
* * ** * * * * *
24442 ATCTGTATCTTGTTTTAATTTAATTATAAATTCATTCGGAAAAA-ATTGGGAAAACAATATTAGA
319 ATCTGAATCTTGTTTCAATACAATTAGAAATTAATTCAGAAAAATA-T-GAAAAACAATATTAAA
* * **
24506 AGCG-TTAAAAGTCCTTTAAATCTTTTTT-ATGTCGAATTATATA-ATTTTTATGAGAATTTTAG
382 AG-GATGAAAAGTCC-TCAAATCTTTTTTGACATCGAATTATATATA-TTTTATGAGAATTTTAG
* * * *
24568 ACAAAAATT-AAGGAAATATCTTTCGGGTCAATTTTTTGTGAAAGTTTT-GCCGAAATCGTGTAC
444 ACAAAAATTGAAGGAAAAATCTTTCGGGTC-ATTTTTTG-CAAAATTTTAGCCGAAATCGTGCAC
* * *
24631 TAACCATTACAG-TTTTTGGCTAAAAACGCG-TTCTAGAACCAC-AATTATGTTTTGCATGATTT
507 TAAACATCAC-GTTTTTTGACTAAAAA-GCGTTTC-AGAACCACGAATTA-GTTTTGCATGATTT
* * * * * * * * *
24693 TTGACGCCGAGATTCCTTGAAATATATTTATTCATCTAATCAAATATCAGGCACAGTGGATTTAA
568 TTGACACCAAGACTCATTGAAATATATATATCCACCTAATCAAATATCAGCCACAGTGAATTTAA
* *
24758 TG-ATTTGTTTTTATGTGCATCTGAATCTTA
633 -GAATTTG-TTTTACGAGCATCTGAATCTTA
* * * *
24788 TTTCAATTTAATTGAAAATTAATTTAGAAAAATATGAAAAACAATATTAA
1 TTTCGATTTAATT-AGAATTAATTCAGAAAAATATGAAAAACGATATTAA
24838 TGCTTAAAAA
Statistics
Matches: 593, Mismatches: 96, Indels: 50
0.80 0.13 0.07
Matches are distributed among these distances:
658 18 0.03
659 80 0.13
660 142 0.24
661 123 0.21
662 21 0.04
663 1 0.00
664 24 0.04
665 41 0.07
666 28 0.05
667 30 0.05
668 19 0.03
669 66 0.11
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.37
Consensus pattern (661 bp):
TTTCGATTTAATTAGAATTAATTCAGAAAAATATGAAAAACGATATTAAAACCATGAAAAACCGT
TCAATCTTTTTGGCGTTGAAATATAATTTTTATGAGTATTGTCGCTAAAAACTAAGGAAATAACT
TTCGAGTCAATTTTTGCAAAATTCTAGCCATCAAATCATGTAATAACCATCACGGTTTTCGGCTA
AAAACGCGTTCCGGTGCCCCGACTAAGTTTTGAATGATTTTTGACGCCAAGACTCCTTGAAATAA
CCATATAAATCTAACCAAATATCAGCCAAAATAGATTTAAGAATTTGTTTTTACGAACATCTGAA
TCTTGTTTCAATACAATTAGAAATTAATTCAGAAAAATATGAAAAACAATATTAAAAGGATGAAA
AGTCCTCAAATCTTTTTTGACATCGAATTATATATATTTTATGAGAATTTTAGACAAAAATTGAA
GGAAAAATCTTTCGGGTCATTTTTTGCAAAATTTTAGCCGAAATCGTGCACTAAACATCACGTTT
TTTGACTAAAAAGCGTTTCAGAACCACGAATTAGTTTTGCATGATTTTTGACACCAAGACTCATT
GAAATATATATATCCACCTAATCAAATATCAGCCACAGTGAATTTAAGAATTTGTTTTACGAGCA
TCTGAATCTTA
Done.