Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011353.1 Corchorus olitorius cultivar O-4 contig11386, 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: 51417
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Found at i:5486 original size:7 final size:7
Alignment explanation
Indices: 5474--5628 Score: 283
Period size: 7 Copynumber: 22.0 Consensus size: 7
5464 GGAGGCAACC
5474 CAATTTT
1 CAATTTT
5481 CAATTTT
1 CAATTTT
5488 CAATTTT
1 CAATTTT
5495 CAATTTT
1 CAATTTT
5502 CAATTTT
1 CAATTTT
5509 CAATTTT
1 CAATTTT
5516 CAATTTT
1 CAATTTT
5523 CAATTTT
1 CAATTTT
5530 CAATTTT
1 CAATTTT
5537 CAATTTT
1 CAATTTT
5544 CAATTTT
1 CAATTTT
5551 CAATTTT
1 CAATTTT
5558 CAATTTT
1 CAATTTT
5565 CAATTTT
1 CAATTTT
5572 CAATTTT
1 CAATTTT
5579 CAATTTT
1 CAATTTT
5586 CAATTTT
1 CAATTTT
5593 CAATTTT
1 CAATTTT
5600 CAATTTT
1 CAATTTT
5607 CAATTTTT
1 CAA-TTTT
*
5615 AAATTTT
1 CAATTTT
*
5622 TAATTTT
1 CAATTTT
5629 ATCTAACTTA
Statistics
Matches: 145, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
7 139 0.96
8 6 0.04
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (7 bp):
CAATTTT
Found at i:7111 original size:24 final size:24
Alignment explanation
Indices: 7084--7130 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7074 AGTTATTTAG
7084 TTTATGTTT-TATCTTTAATTTTCC
1 TTTAT-TTTATATCTTTAATTTTCC
* *
7108 TTTATTTTATGTCTTTATTTTTC
1 TTTATTTTATATCTTTAATTTTC
7131 AAGTTTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTATTTTATATCTTTAATTTTCC
Found at i:16095 original size:18 final size:18
Alignment explanation
Indices: 16072--16110 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16062 GATCCTCTGT
16072 AAATT-AATCTTACAATAA
1 AAATTAAATCTT-CAATAA
*
16090 AAATTAAATCTTTAATAA
1 AAATTAAATCTTCAATAA
16108 AAA
1 AAA
16111 ATTGGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTAAATCTTCAATAA
Found at i:16256 original size:50 final size:50
Alignment explanation
Indices: 16136--16284 Score: 153
Period size: 50 Copynumber: 3.0 Consensus size: 50
16126 AGTGTGGTAT
*
16136 AATAAAAATGTAATCTTT-ATGTTAAAAGA-TGAAATTTTTAGGTAATTTGTA
1 AATAAAAATGTAATCTTTGA-GTTAAAA-ATTG-AATTTTTAAGTAATTTGTA
** *
16187 AATAAAAATGCCA-CGTTTGAGTTAAAAATTGATTTTTTAAGTAATTTGTA
1 AATAAAAATGTAATC-TTTGAGTTAAAAATTGAATTTTTAAGTAATTTGTA
* * * *
16237 AATAAAAGTGTAATCTTTGAG-GAAAGGATAGAATTTTTAAGTAATTTG
1 AATAAAAATGTAATCTTTGAGTTAAA-AATTGAATTTTTAAGTAATTTG
16285 CGAATAAAGA
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
49 3 0.04
50 54 0.66
51 24 0.29
52 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (50 bp):
AATAAAAATGTAATCTTTGAGTTAAAAATTGAATTTTTAAGTAATTTGTA
Found at i:17363 original size:40 final size:39
Alignment explanation
Indices: 17315--17868 Score: 409
Period size: 40 Copynumber: 13.8 Consensus size: 39
17305 CTGTCTTATT
* *
17315 CCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTTCTTTC
1 CCAGTTTGCCCTTCCCCATCGGAAGGTGTTGT-TTATTTC
* * * * *
17355 CCCGTTTGCCCTTCTCGAGCGGAAGGTGTTGTTCATTTTC
1 CCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTA-TTTC
* * ** *
17395 ACCAATTTGCCCTTCCTCATCGGAAGGTGTTGTCGAGTTTG
1 -CCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTA-TTTC
* * * * * *
17436 CCAATTTGCCCTTTCTCATCGGAAGGTATAGTTTAAGTTC
1 CCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTT-ATTTC
* * * * * ** *
17476 ACCTGTTTACCCTTCCTCATCAGAAGGTATTGTCGAATTTG
1 -CCAGTTTGCCCTTCCCCATCGGAAGGTGTTGT-TTATTTC
* * *
17517 CCAGTTTCCCCTTCCCCA-CGGGATGGTGTTGTTTAAATTC
1 CCAGTTTGCCCTTCCCCATC-GGAAGGTGTTGTTT-ATTTC
* *
17557 CCTGTTTTGCCCTTCCCCA-CTGGAAGGTGTTGTTTAAATTC
1 CCAG-TTTGCCCTTCCCCATC-GGAAGGTGTTGTTT-ATTTC
* *
17598 CCTGTTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAATTT-
1 CCAG-TTTGCCCTTCCCCATCGGAAGGTGTTGTTT-ATTTC
* * * *
17638 CCTGTTTTGCCCTTCCCCATCGGAAGCTGTTGTTAAATTC
1 CCAG-TTTGCCCTTCCCCATCGGAAGGTGTTGTTTATTTC
* * *
17678 CCTATTTTGCCCTTCCCTACCGGAAGGTGTTGTTTAATTT-
1 CC-AGTTTGCCCTTCCCCATCGGAAGGTGTTGTTT-ATTTC
* * *
17718 CCTGTTTTGCCCTTCCCCATCGGAAGGTGTTGTTAAATT-
1 CCAG-TTTGCCCTTCCCCATCGGAAGGTGTTGTTTATTTC
* ** * *
17757 CCATGTTTTGTCCTTCCTTACCGGAAGGTGTTGTTTAATTTT
1 CCA-G-TTTGCCCTTCCCCATCGGAAGGTGTTGTTT-ATTTC
* * *
17799 CCATTTTGCCCTT-CCCACCGGAAGGTGTTGTTTAATTC
1 CCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTATTTC
*
17837 CCAATTTGCCCTTCCCCATCGGAAGGTGTTGT
1 CCAGTTTGCCCTTCCCCATCGGAAGGTGTTGT
17869 CTAAGTCTAC
Statistics
Matches: 416, Mismatches: 81, Indels: 35
0.78 0.15 0.07
Matches are distributed among these distances:
38 15 0.04
39 45 0.11
40 216 0.52
41 136 0.33
42 4 0.01
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (39 bp):
CCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTATTTC
Found at i:17459 original size:81 final size:80
Alignment explanation
Indices: 17319--17868 Score: 502
Period size: 81 Copynumber: 6.8 Consensus size: 80
17309 CTTATTCCAG
* *** ** * * *
17319 TTTGCCCTTCCTCATCGGAAGGTGTTGTCTTCTTTCCCCGTTTGCCCTTCTCGAGCGGAAGGTGT
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTCTAAATTCCCATTTTGCCCTTCCCCACCGGAAGGTGT
* * **
17384 TGTTCATTTTCACCAA
66 TGTTTAATTTC-CCGT
* * ** * * * * * *
17400 TTTGCCCTTCCTCATCGGAAGGTGTTGTCGAGTTTGCCAATTTGCCCTTTCTCATCGGAAGGTAT
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTCTAAATTCCCATTTTGCCCTTCCCCACCGGAAGGTGT
* *
17465 AGTTTAAGTTCACC-T
66 TGTTTAATTTC-CCGT
* * * * * * * * * * *
17480 GTTTACCCTTCCTCATCAGAAGGTATTGTCGAATTTGCCAGTTTCCCCTTCCCCACGGGATGGTG
1 -TTTGCCCTTCCCCATCGGAAGGTGTTGTCTAAATTCCCATTTTGCCCTTCCCCACCGGAAGGTG
*
17545 TTGTTTAAATTCCCTGT
65 TTGTTTAATTTCCC-GT
* *
17562 TTTGCCCTTCCCCA-CTGGAAGGTGTTGTTTAAATTCCCTGTTTTGCCCTTCCCCACCGGAAGGT
1 TTTGCCCTTCCCCATC-GGAAGGTGTTGTCTAAATTCCC-ATTTTGCCCTTCCCCACCGGAAGGT
*
17626 GTTGTTTAATTTCCTGT
64 GTTGTTTAATTTCCCGT
* *
17643 TTTGCCCTTCCCCATCGGAAGCTGTTGT-TAAATTCCCTATTTTGCCCTTCCCTACCGGAAGGTG
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTCTAAATTCCC-ATTTTGCCCTTCCCCACCGGAAGGTG
*
17707 TTGTTTAATTTCCTGT
65 TTGTTTAATTTCCCGT
* **
17723 TTTGCCCTTCCCCATCGGAAGGTGTTGT-TAAATT-CCATGTTTTGTCCTTCCTTACCGGAAGGT
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTCTAAATTCCCA--TTTTGCCCTTCCCCACCGGAAGGT
* *
17786 GTTGTTTAATTTTCCAT
64 GTTGTTTAATTTCCCGT
* * * *
17803 TTTGCCCTT-CCCACCGGAAGGTGTTGT-TTAATTCCCAATTTGCCCTTCCCCATCGGAAGGTGT
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTCTAAATTCCCATTTTGCCCTTCCCCACCGGAAGGTGT
17866 TGT
66 TGT
17869 CTAAGTCTAC
Statistics
Matches: 398, Mismatches: 62, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
78 25 0.06
79 24 0.06
80 134 0.34
81 180 0.45
82 35 0.09
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (80 bp):
TTTGCCCTTCCCCATCGGAAGGTGTTGTCTAAATTCCCATTTTGCCCTTCCCCACCGGAAGGTGT
TGTTTAATTTCCCGT
Found at i:22331 original size:35 final size:35
Alignment explanation
Indices: 22274--22598 Score: 350
Period size: 35 Copynumber: 9.3 Consensus size: 35
22264 CCGAATCATC
* * *
22274 CTTTAAAGATGCTACACTGAGTCATATGATTCTAA
1 CTTTGAAGATGCTACACCGAGTCATCTGATTCTAA
* * *
22309 CTTTGAAGATGCTGCACCGAGTCATCTGAATCGAA
1 CTTTGAAGATGCTACACCGAGTCATCTGATTCTAA
* *
22344 CTTTGAAGATGCTACACCGAGTCATATGGTTCTAA
1 CTTTGAAGATGCTACACCGAGTCATCTGATTCTAA
* * * *
22379 CTTTGAAGATGCCACACCGAGTCGTCTAAATC-AA
1 CTTTGAAGATGCTACACCGAGTCATCTGATTCTAA
* *
22413 GCTTTGAAGATGTTACACCGAGTCATCTGGTT-TAAA
1 -CTTTGAAGATGCTACACCGAGTCATCTGATTCT-AA
* * * * * * *
22449 CTTTGAGGATGCCACATCGAGTCGTCTAAATCAAA
1 CTTTGAAGATGCTACACCGAGTCATCTGATTCTAA
*
22484 CTTTGAAGATGCTACACCGAGTCATCTGGTTCTAA
1 CTTTGAAGATGCTACACCGAGTCATCTGATTCTAA
* * * *
22519 CTTTGAAGATGCAACACCGATTCATCTAAATCTAA
1 CTTTGAAGATGCTACACCGAGTCATCTGATTCTAA
* *
22554 CTTTGACGATGCTACACCGAGTCATTTGAATTC-AA
1 CTTTGAAGATGCTACACCGAGTCATCTG-ATTCTAA
22589 CTTTGAAGAT
1 CTTTGAAGAT
22599 AAACCTAAAT
Statistics
Matches: 233, Mismatches: 52, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
34 2 0.01
35 226 0.97
36 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (35 bp):
CTTTGAAGATGCTACACCGAGTCATCTGATTCTAA
Found at i:22379 original size:70 final size:69
Alignment explanation
Indices: 22274--22598 Score: 420
Period size: 70 Copynumber: 4.7 Consensus size: 69
22264 CCGAATCATC
* * * ** *
22274 CTTTAAAGATGCTACACTGAGTCATATGATTCTAACTTTGAAGATGCTGCACCGAGTCATCTGAA
1 CTTTGAAGATGCTACACCGAGTCATATGGTTCTAACTTTGAAGATGCCACACCGAGTCATCTAAA
22339 TCGAA
66 TC-AA
*
22344 CTTTGAAGATGCTACACCGAGTCATATGGTTCTAACTTTGAAGATGCCACACCGAGTCGTCTAAA
1 CTTTGAAGATGCTACACCGAGTCATATGGTTCTAACTTTGAAGATGCCACACCGAGTCATCTAAA
22409 TCAA
66 TCAA
* * * * *
22413 GCTTTGAAGATGTTACACCGAGTCATCTGGTT-TAAACTTTGAGGATGCCACATCGAGTCGTCTA
1 -CTTTGAAGATGCTACACCGAGTCATATGGTTCT-AACTTTGAAGATGCCACACCGAGTCATCTA
22477 AATCAAA
64 AATC-AA
* * *
22484 CTTTGAAGATGCTACACCGAGTCATCTGGTTCTAACTTTGAAGATGCAACACCGATTCATCTAAA
1 CTTTGAAGATGCTACACCGAGTCATATGGTTCTAACTTTGAAGATGCCACACCGAGTCATCTAAA
22549 TCTAA
66 TC-AA
* * *
22554 CTTTGACGATGCTACACCGAGTCATTTGAATTC-AACTTTGAAGAT
1 CTTTGAAGATGCTACACCGAGTCATATG-GTTCTAACTTTGAAGAT
22599 AAACCTAAAT
Statistics
Matches: 229, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
69 3 0.01
70 220 0.96
71 6 0.03
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (69 bp):
CTTTGAAGATGCTACACCGAGTCATATGGTTCTAACTTTGAAGATGCCACACCGAGTCATCTAAA
TCAA
Found at i:22653 original size:54 final size:54
Alignment explanation
Indices: 22591--22751 Score: 191
Period size: 54 Copynumber: 3.0 Consensus size: 54
22581 GAATTCAACT
* * * *
22591 TTGAAGATAAACCTAAATCACTG-AAATTTTCCTTAATTGGCCGTACTGGATCAC
1 TTGAAGATAAACTTAAACCACTGCAAATTTT-CTTAATTGACCGCACTGGATCAC
* * * *
22645 TTGAAGATAAACTTAAACCACTGTAAATTTTCTTGATTGATCGCATTGGATCAC
1 TTGAAGATAAACTTAAACCACTGCAAATTTTCTTAATTGACCGCACTGGATCAC
* ** *
22699 TTGAGGA-AAACTTAAACCACTGCAAATTTGATTGATTGACCGCACTGGATCAC
1 TTGAAGATAAACTTAAACCACTGCAAATTTTCTTAATTGACCGCACTGGATCAC
22752 CTTTAAACTT
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 41 0.44
54 45 0.48
55 7 0.08
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (54 bp):
TTGAAGATAAACTTAAACCACTGCAAATTTTCTTAATTGACCGCACTGGATCAC
Found at i:22913 original size:50 final size:49
Alignment explanation
Indices: 22800--23180 Score: 321
Period size: 50 Copynumber: 7.7 Consensus size: 49
22790 TAGGACCTTA
* * * *
22800 AACCACTGTAAACATGATGGATCACACTGGATCACTTTGAAGAGAAAACTT
1 AACCATTGTAAACTTGATTGATCGCACTGGATCAC-TTGAAGA-AAAACTT
** * * *
22851 AAACCAAAGTAAACTTGACTAATCGCACTAGATCACTTGAAGAAAAACTT
1 -AACCATTGTAAACTTGATTGATCGCACTGGATCACTTGAAGAAAAACTT
* * *
22901 AAGTCATTGTAAATTTGATTGATCGCACTGGATCACTTAAAGAAAAA-TT
1 AA-CCATTGTAAACTTGATTGATCGCACTGGATCACTTGAAGAAAAACTT
* * ** *
22950 CGAACCACTGTAAACTTGATTGATCGCACTGGATCACTCG-A-AAGCACTGG
1 --AACCATTGTAAACTTGATTGATCGCACTGGATCACTTGAAGAAAAACT-T
* * * * *
23000 AAAC-TT-T---CTCGATTGACCGCACTGGATCATTTGAAGATAAACTT
1 AACCATTGTAAACTTGATTGATCGCACTGGATCACTTGAAGAAAAACTT
* * * *
23044 AAACCACTGTAAATTTGATTGATCGCACTAGATCACTTAAAGAAAAACTT
1 -AACCATTGTAAACTTGATTGATCGCACTGGATCACTTGAAGAAAAACTT
* * * * *
23094 AAGCCATTGTAAATTTGATTGATCGCACTAGATCAATTAAAGATAAA-TT
1 AA-CCATTGTAAACTTGATTGATCGCACTGGATCACTTGAAGAAAAACTT
23143 CGAACCATTGTAAACTTGATTGATCGCACTGGATCACT
1 --AACCATTGTAAACTTGATTGATCGCACTGGATCACT
23181 CAAAACCACC
Statistics
Matches: 264, Mismatches: 49, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
43 22 0.08
44 1 0.00
45 7 0.03
46 2 0.01
47 2 0.01
48 6 0.02
49 10 0.04
50 176 0.67
51 11 0.04
52 27 0.10
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (49 bp):
AACCATTGTAAACTTGATTGATCGCACTGGATCACTTGAAGAAAAACTT
Found at i:23056 original size:93 final size:93
Alignment explanation
Indices: 22917--23224 Score: 323
Period size: 93 Copynumber: 3.2 Consensus size: 93
22907 TTGTAAATTT
* * *
22917 GATTGATCGCACTGGATCACTTAAAGAAAAATTCGAACCACTGTAAACTTGATTGATCGCACTGG
1 GATTGACCGCACTGGATCATTTAAAGATAAATTCGAACCACTGTAAACTTGATTGATCGCACTGG
*
22982 ATCACTCGAAAGCACTGGAAACTTTCTC
66 ATCACTCAAAAGCACTGGAAACTTTCTC
* * * *
23010 GATTGACCGCACTGGATCATTTGAAGATAAACTT-AAACCACTGTAAATTTGATTGATCGCACTA
1 GATTGACCGCACTGGATCATTTAAAGATAAA-TTCGAACCACTGTAAACTTGATTGATCGCACTG
* ** * * * *
23074 GATCACTTAAAGAAAAACT-TAAGCCATTGTAAATTT
65 GATCAC-TCAA-AAGCACTGGAA-AC-TT-T---CTC
* * * *
23110 GATTGATCGCACTAGATCAATTAAAGATAAATTCGAACCATTGTAAACTTGATTGATCGCACTGG
1 GATTGACCGCACTGGATCATTTAAAGATAAATTCGAACCACTGTAAACTTGATTGATCGCACTGG
* * *
23175 ATCACTCAAAACCACCGGAAATTTTCTC
66 ATCACTCAAAAGCACTGGAAACTTTCTC
23203 GATTGACCGCACTGGATCATTT
1 GATTGACCGCACTGGATCATTT
23225 GAAGTAACTT
Statistics
Matches: 169, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
93 80 0.47
94 6 0.04
95 6 0.04
96 3 0.02
97 3 0.02
98 4 0.02
99 7 0.04
100 60 0.36
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (93 bp):
GATTGACCGCACTGGATCATTTAAAGATAAATTCGAACCACTGTAAACTTGATTGATCGCACTGG
ATCACTCAAAAGCACTGGAAACTTTCTC
Found at i:23074 original size:193 final size:194
Alignment explanation
Indices: 22824--23228 Score: 650
Period size: 193 Copynumber: 2.1 Consensus size: 194
22814 TGATGGATCA
22824 CACTGGATCACTTTGAAGAGAAAACTTAAACCAAAGTAAACTTGACTAATCGCACTAGATCACTT
1 CACTGGATCA-TTTGAAGAGAAAACTTAAACCAAAGTAAACTTGACTAATCGCACTAGATCACTT
* * * *
22889 GAAGAAAAACTTAAGTCATTGTAAATTTGATTGATCGCACTGGATCACTTAAAGAAAAATTCGAA
65 AAAGAAAAACTTAAGCCATTGTAAATTTGATTGATCGCACTAGATCAATTAAAGAAAAATTCGAA
* * *
22954 CCACTGTAAACTTGATTGATCGCACTGGATCACTCGAAAGCACTGGAAACTTTCTCGATTGACCG
130 CCACTGTAAACTTGATTGATCGCACTGGATCACTCAAAACCACCGGAAACTTTCTCGATTGACCG
* ** * * *
23019 CACTGGATCATTTGAAGA-TAAACTTAAACCACTGTAAATTTGATTGATCGCACTAGATCACTTA
1 CACTGGATCATTTGAAGAGAAAACTTAAACCAAAGTAAACTTGACTAATCGCACTAGATCACTTA
*
23083 AAGAAAAACTTAAGCCATTGTAAATTTGATTGATCGCACTAGATCAATTAAAGATAAATTCGAAC
66 AAGAAAAACTTAAGCCATTGTAAATTTGATTGATCGCACTAGATCAATTAAAGAAAAATTCGAAC
* *
23148 CATTGTAAACTTGATTGATCGCACTGGATCACTCAAAACCACCGGAAATTTTCTCGATTGACCG
131 CACTGTAAACTTGATTGATCGCACTGGATCACTCAAAACCACCGGAAACTTTCTCGATTGACCG
23212 CACTGGATCATTTGAAG
1 CACTGGATCATTTGAAG
23229 TAACTTTGAA
Statistics
Matches: 194, Mismatches: 16, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
193 176 0.91
194 8 0.04
195 10 0.05
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (194 bp):
CACTGGATCATTTGAAGAGAAAACTTAAACCAAAGTAAACTTGACTAATCGCACTAGATCACTTA
AAGAAAAACTTAAGCCATTGTAAATTTGATTGATCGCACTAGATCAATTAAAGAAAAATTCGAAC
CACTGTAAACTTGATTGATCGCACTGGATCACTCAAAACCACCGGAAACTTTCTCGATTGACCG
Found at i:23348 original size:26 final size:26
Alignment explanation
Indices: 23319--23370 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
23309 TAAAATAAAG
*
23319 TGAAGAAAGACCACCCTGGGTCAATT
1 TGAAGAAAGACCACCCTGGATCAATT
* *
23345 TGAAGAAAGATCGCCCTGGATCAATT
1 TGAAGAAAGACCACCCTGGATCAATT
23371 GAAATAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
TGAAGAAAGACCACCCTGGATCAATT
Found at i:23489 original size:35 final size:35
Alignment explanation
Indices: 23405--23798 Score: 292
Period size: 35 Copynumber: 11.2 Consensus size: 35
23395 CTAGATCAGT
* * * * * *
23405 TGAAGAAAGATCGCCCTAGATCAATTGAAGTAAA-
1 TGAAGAAAGACCACCCTGGGTCAACTGAAATAAAC
* *
23439 TCGAAGAGAGACCACCCTGGGTTAACTGAAATAAAC
1 T-GAAGAAAGACCACCCTGGGTCAACTGAAATAAAC
* * * * * *
23475 TGAAGAACGGCCACCCTCGATCATTCTGACATAAAC
1 TGAAGAAAGACCACCCTGGGTCA-ACTGAAATAAAC
* **
23511 TGAAGAAAAACTGCCCTGGGTCAACTGAAATAAAC
1 TGAAGAAAGACCACCCTGGGTCAACTGAAATAAAC
* * * * * *
23546 TGCAGAACGACCGCCTTGGGTCAACTAAAATAGAC
1 TGAAGAAAGACCACCCTGGGTCAACTGAAATAAAC
* * * *
23581 CGAAGAAAGACCGCCCTGGGTCAACTAAAATTAAC
1 TGAAGAAAGACCACCCTGGGTCAACTGAAATAAAC
* * *
23616 TGAAGAATGATCACCCTGGATCAACTTGAGAAT-AAC
1 TGAAGAAAGACCACCCTGGGTCAAC-TGA-AATAAAC
* * *
23652 TGAAGAAAGACCACTCTGGGTCAACTAAAATAAAA
1 TGAAGAAAGACCACCCTGGGTCAACTGAAATAAAC
* * *
23687 TGAAGAATGATCACCCTGGATCAACTTGAGAAT-AAC
1 TGAAGAAAGACCACCCTGGGTCAAC-TGA-AATAAAC
* * * * * *
23723 TGAAGAAAGACCACTCTAGGTAAATTAAAATAAGC
1 TGAAGAAAGACCACCCTGGGTCAACTGAAATAAAC
* * * *
23758 TGAAGAAAGACC-GCCTTGGTCAACTTAAATAAAT
1 TGAAGAAAGACCACCCTGGGTCAACTGAAATAAAC
23792 TGAAGAA
1 TGAAGAA
23799 TGATCGCCCT
Statistics
Matches: 278, Mismatches: 73, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
34 28 0.10
35 169 0.61
36 75 0.27
37 6 0.02
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (35 bp):
TGAAGAAAGACCACCCTGGGTCAACTGAAATAAAC
Found at i:23676 original size:71 final size:70
Alignment explanation
Indices: 23405--23798 Score: 330
Period size: 71 Copynumber: 5.6 Consensus size: 70
23395 CTAGATCAGT
* * * * * * * *
23405 TGAAGAAAGATCGCCCTAGATCAA-TTGAAGTAAATCGAAGAGAGACCACCCTGGGTTAACTGAA
1 TGAAGAACGATCACCCTGGATCAACTTGAAATAACT-GAAGAAAGACCACCCTGGGTCAACTAAA
23469 ATAAAC
65 ATAAAC
** * * * * ** *
23475 TGAAGAACGGCCACCCTCGATC-ATTCTGACATAAACTGAAGAAAAACTGCCCTGGGTCAACTGA
1 TGAAGAACGATCACCCTGGATCAACT-TGAAAT-AACTGAAGAAAGACCACCCTGGGTCAACTAA
23539 AATAAAC
64 AATAAAC
* * * * * * * *
23546 TGCAGAACGACCGCCTTGGGTCAAC-TAAAATAGACCGAAGAAAGACCGCCCTGGGTCAACTAAA
1 TGAAGAACGATCACCCTGGATCAACTTGAAATA-ACTGAAGAAAGACCACCCTGGGTCAACTAAA
*
23610 ATTAAC
65 ATAAAC
* *
23616 TGAAGAATGATCACCCTGGATCAACTTGAGAATAACTGAAGAAAGACCACTCTGGGTCAACTAAA
1 TGAAGAACGATCACCCTGGATCAACTTGA-AATAACTGAAGAAAGACCACCCTGGGTCAACTAAA
*
23681 ATAAAA
65 ATAAAC
* * * * *
23687 TGAAGAATGATCACCCTGGATCAACTTGAGAATAACTGAAGAAAGACCACTCTAGGTAAATTAAA
1 TGAAGAACGATCACCCTGGATCAACTTGA-AATAACTGAAGAAAGACCACCCTGGGTCAACTAAA
*
23752 ATAAGC
65 ATAAAC
* * * * *
23758 TGAAGAAAGACCGCCTTGG-TCAACTT-AAATAAATTGAAGAA
1 TGAAGAACGATCACCCTGGATCAACTTGAAAT-AACTGAAGAA
23799 TGATCGCCCT
Statistics
Matches: 267, Mismatches: 49, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
68 3 0.01
69 12 0.04
70 80 0.30
71 164 0.61
72 8 0.03
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (70 bp):
TGAAGAACGATCACCCTGGATCAACTTGAAATAACTGAAGAAAGACCACCCTGGGTCAACTAAAA
TAAAC
Found at i:23692 original size:106 final size:104
Alignment explanation
Indices: 23508--23813 Score: 305
Period size: 106 Copynumber: 2.9 Consensus size: 104
23498 TTCTGACATA
* ** * *
23508 AACTGAAGAAAAACTGCCCTGGGTCAAC-TGAAATAAACTGCAGAACGACCGCCTTGGGTCAACT
1 AACTGAAGAAAGACCACCCT-GGTCAACTTGAAAT-AACTGAAGAAAGACCGCC-TGGGTCAACT
* ** * * *
23572 AAAATAGACCGAAGAAAGACCGCCCTGGGTCAAC-T-AAAATT
63 AAAATAAAATGAAGAATGATCGCCCTGGATCAACTTGAAAA-T
* * *
23613 AACTGAAGAATGATCACCCTGGATCAACTTGAGAATAACTGAAGAAAGACCACTCTGGGTCAACT
1 AACTGAAGAAAGACCACCCTGG-TCAACTTGA-AATAACTGAAGAAAGACCGC-CTGGGTCAACT
* *
23678 AAAATAAAATGAAGAATGATCACCCTGGATCAACTTGAGAAT
63 AAAATAAAATGAAGAATGATCGCCCTGGATCAACTTGAAAAT
* * * * *
23720 AACTGAAGAAAGACCACTCTAGGT-AAATTAAAATAAGCTGAAGAAAGACCGCCTTGGTCAACTT
1 AACTGAAGAAAGACCACCCT-GGTCAACTTGAAATAA-CTGAAGAAAGACCGCCTGGGTCAACTA
*
23784 AAATAAATTGAAGAATGATCGCCCTGGATC
64 AAATAAAATGAAGAATGATCGCCCTGGATC
23814 GATTAAAATA
Statistics
Matches: 167, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
104 2 0.01
105 63 0.38
106 73 0.44
107 24 0.14
108 5 0.03
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (104 bp):
AACTGAAGAAAGACCACCCTGGTCAACTTGAAATAACTGAAGAAAGACCGCCTGGGTCAACTAAA
ATAAAATGAAGAATGATCGCCCTGGATCAACTTGAAAAT
Found at i:23711 original size:141 final size:142
Alignment explanation
Indices: 23440--23769 Score: 326
Period size: 141 Copynumber: 2.3 Consensus size: 142
23430 TGAAGTAAAT
* * * * * *
23440 CGAAGAGAGACCACCCTGGGTTAACTGAAATAAACTGAAGAACGGCCACCCTCGATCATTCTGAC
1 CGAAGAAAGACCACCCTGGGTCAACTAAAATAAACTGAAGAACGACCACCCTCGATCACTCTGAA
** * * * * * *
23505 ATAAACTGAAGAAAAACTGCCCTGGGTCAACTGAAATAAACTGCAGAACGACCGCCTTGGGTCAA
66 ATAAACTGAAGAAAAACCACCCTGGGTCAACTAAAATAAAATGAAGAACGACCACCCTGGATCAA
23570 C-T-AAAATAGAC
131 CTTGAAAATA-AC
* * * * *
23581 CGAAGAAAGACCGCCCTGGGTCAACTAAAATTAACTGAAGAATGATCACCCTGGATCAACT-TGA
1 CGAAGAAAGACCACCCTGGGTCAACTAAAATAAACTGAAGAACGACCACCCTCGATC-ACTCTGA
* * * *
23645 GAAT-AACTGAAGAAAGACCACTCTGGGTCAACTAAAATAAAATGAAGAATGATCACCCTGGATC
65 -AATAAACTGAAGAAAAACCACCCTGGGTCAACTAAAATAAAATGAAGAACGACCACCCTGGATC
*
23709 AACTTGAGAATAAC
129 AACTTGAAAATAAC
* * * * * * *
23723 TGAAGAAAGACCACTCTAGGTAAATTAAAATAAGCTGAAGAAAGACC
1 CGAAGAAAGACCACCCTGGGTCAACTAAAATAAACTGAAGAACGACC
23770 GCCTTGGTCA
Statistics
Matches: 151, Mismatches: 34, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
141 102 0.68
142 44 0.29
143 5 0.03
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (142 bp):
CGAAGAAAGACCACCCTGGGTCAACTAAAATAAACTGAAGAACGACCACCCTCGATCACTCTGAA
ATAAACTGAAGAAAAACCACCCTGGGTCAACTAAAATAAAATGAAGAACGACCACCCTGGATCAA
CTTGAAAATAAC
Found at i:26204 original size:14 final size:13
Alignment explanation
Indices: 26178--26237 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 13
26168 TAAAAGACTC
26178 AAAACCTTTTTTG
1 AAAACCTTTTTTG
26191 AAAACCTATTTTTG
1 AAAACCT-TTTTTG
26205 AAAACCTTTTCTTG
1 AAAACCTTTT-TTG
*
26219 AAAACAATTTTCTTG
1 AAAAC-CTTTT-TTG
26234 AAAA
1 AAAA
26238 ACATGTCTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
13 10 0.23
14 21 0.49
15 12 0.28
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (13 bp):
AAAACCTTTTTTG
Found at i:26228 original size:27 final size:27
Alignment explanation
Indices: 26178--26229 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
26168 TAAAAGACTC
*
26178 AAAACCTTTTTTGAAAACCTATTTTTG
1 AAAACCTTTTTTGAAAACCAATTTTTG
26205 AAAACCTTTTCTTGAAAA-CAATTTT
1 AAAACCTTTT-TTGAAAACCAATTTT
26230 CTTGAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (27 bp):
AAAACCTTTTTTGAAAACCAATTTTTG
Found at i:26240 original size:16 final size:15
Alignment explanation
Indices: 26202--26237 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
26192 AAACCTATTT
*
26202 TTGAAAAC-CTTTTC
1 TTGAAAACAATTTTC
26216 TTGAAAACAATTTTC
1 TTGAAAACAATTTTC
26231 TTGAAAA
1 TTGAAAA
26238 ACATGTCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (15 bp):
TTGAAAACAATTTTC
Found at i:44392 original size:50 final size:51
Alignment explanation
Indices: 44273--44421 Score: 146
Period size: 50 Copynumber: 3.0 Consensus size: 51
44263 AGTGTGGTAT
*
44273 AATAAAAATGTAATCTTT-ATGTTAAAAGATGAAATTTTTAGGTAATTTGTA
1 AATAAAAATGTAATCTTTGA-GTTAAAAGATGAAATTTTTAAGTAATTTGTA
* ** * *
44324 AATAAAATTGCCACCTTTGAGTTAAAA-ATTG-ATTTTTTAAGTAATTTGTA
1 AATAAAAATGTAATCTTTGAGTTAAAAGA-TGAAATTTTTAAGTAATTTGTA
* * * *
44374 AATAAAAGTGTAATCTTTGAG-GAAAGGGT-AGAATTTTTAAGTAATTTG
1 AATAAAAATGTAATCTTTGAGTTAAAAGATGA-AATTTTTAAGTAATTTG
44422 CGAATAAAGA
Statistics
Matches: 79, Mismatches: 14, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
49 4 0.05
50 51 0.65
51 23 0.29
52 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (51 bp):
AATAAAAATGTAATCTTTGAGTTAAAAGATGAAATTTTTAAGTAATTTGTA
Found at i:45530 original size:40 final size:39
Alignment explanation
Indices: 45485--46000 Score: 342
Period size: 40 Copynumber: 12.8 Consensus size: 39
45475 TCTTATTCCA
* * *
45485 GTTTGCCCTTCCTCATCGGAAGGTCTTGTCTTCTTTCCCC
1 GTTTGCCCTTCCTCATCGGAAGGTGTTGT-TTATTTCCCT
* * * *
45525 GTTTGCCCTTCC-CGAGCGAAAGGTGTTGTTCATTTCCACCA
1 GTTTGCCCTTCCTC-ATCGGAAGGTGTTGTTTATTT-C-CCT
* * ** * *
45566 ATTTGCCCTTCCTCATTGGAAGGTGTTGTCGAGTTTGCCA
1 GTTTGCCCTTCCTCATCGGAAGGTGTTGTTTA-TTTCCCT
* * * * * * *
45606 ATTTGCCCTTTCTTATCGGAAGGTATAGTTTAAGTTCACCA
1 GTTTGCCCTTCCTCATCGGAAGGTGTTGTTT-ATTTC-CCT
* ** * *
45647 GTTCGCCCTTCCTCATCGGAAGGTGTTGTCGAGTTTGCCA
1 GTTTGCCCTTCCTCATCGGAAGGTGTTGTTTA-TTTCCCT
* *
45687 GTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAATTT-CCT
1 GTTTGCCCTTCCTCATCGGAAGGTGTTGTTT-ATTTCCCT
* * *
45726 GTTTTGCCCTTCTTCATCGGAAGGTGTTGTTAAATTCCCT
1 G-TTTGCCCTTCCTCATCGGAAGGTGTTGTTTATTTCCCT
* * *
45766 GTTTTGCCCTTCCCCACCAGAAGGTGTTGTTTAATTT-CCT
1 G-TTTGCCCTTCCTCATCGGAAGGTGTTGTTT-ATTTCCCT
* * *
45806 GTTTTGCCCTTCCCCATCGGAAGGTGTTGTTAAATTCCCT
1 G-TTTGCCCTTCCTCATCGGAAGGTGTTGTTTATTTCCCT
* * *
45846 GTTTTGCCTTTCCCCATCGGAAGGTGTTGTTTAATTTCTC-
1 G-TTTGCCCTTCCTCATCGGAAGGTGTTGTTT-ATTTCCCT
* * * *
45886 GTTTTGCCCTTCC-CACCGAAAGGTGTTGTTTAATT-CCA
1 G-TTTGCCCTTCCTCATCGGAAGGTGTTGTTTATTTCCCT
* * * *
45924 GTTTTCCCTTCCCCATCCGAAGGTGTTGTCTAAGTCTACTATTCCCA
1 GTTTGCCCTTCCTCATCGGAAGGTGTTG--T---T-TA-T-TTCCCT
*
45971 GTTTGCCCTTCCCCATCGGAAGGTGTTGTT
1 GTTTGCCCTTCCTCATCGGAAGGTGTTGTT
46001 CCTATTCCCT
Statistics
Matches: 382, Mismatches: 69, Indels: 48
0.77 0.14 0.10
Matches are distributed among these distances:
37 11 0.03
38 16 0.04
39 30 0.08
40 221 0.58
41 64 0.17
42 5 0.01
43 1 0.00
44 2 0.01
45 1 0.00
46 2 0.01
47 29 0.08
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (39 bp):
GTTTGCCCTTCCTCATCGGAAGGTGTTGTTTATTTCCCT
Found at i:45772 original size:80 final size:80
Alignment explanation
Indices: 45651--45952 Score: 400
Period size: 80 Copynumber: 3.8 Consensus size: 80
45641 TCACCAGTTC
* * ** *
45651 GCCCTTCCTCATCGGAAGGTGTTGTCGAGTTTGCCAG-TTTGCCCTTCCCCACCGGAAGGTGTTG
1 GCCCTTCCCCATCGGAAGGTGTTGT-TAAATTCCCAGTTTTGCCCTTCCCCACCGGAAGGTGTTG
45715 TTTAATTTCCTGTTTT
65 TTTAATTTCCTGTTTT
** * *
45731 GCCCTTCTTCATCGGAAGGTGTTGTTAAATTCCCTGTTTTGCCCTTCCCCACCAGAAGGTGTTGT
1 GCCCTTCCCCATCGGAAGGTGTTGTTAAATTCCCAGTTTTGCCCTTCCCCACCGGAAGGTGTTGT
45796 TTAATTTCCTGTTTT
66 TTAATTTCCTGTTTT
* * *
45811 GCCCTTCCCCATCGGAAGGTGTTGTTAAATTCCCTGTTTTGCCTTTCCCCATCGGAAGGTGTTGT
1 GCCCTTCCCCATCGGAAGGTGTTGTTAAATTCCCAGTTTTGCCCTTCCCCACCGGAAGGTGTTGT
45876 TTAATTT-CTCGTTTT
66 TTAATTTCCT-GTTTT
* * *
45891 GCCCTT-CCCACCGAAAGGTGTTGTTTAATT-CCAGTTTT-CCCTTCCCCATCC-GAAGGTGTTG
1 GCCCTTCCCCATCGGAAGGTGTTGTTAAATTCCCAGTTTTGCCCTTCCCCA-CCGGAAGGTGTTG
45952 T
65 T
45953 CTAAGTCTAC
Statistics
Matches: 201, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
77 20 0.10
78 8 0.04
79 29 0.14
80 144 0.72
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.39
Consensus pattern (80 bp):
GCCCTTCCCCATCGGAAGGTGTTGTTAAATTCCCAGTTTTGCCCTTCCCCACCGGAAGGTGTTGT
TTAATTTCCTGTTTT
Found at i:45819 original size:120 final size:118
Alignment explanation
Indices: 45684--46000 Score: 385
Period size: 120 Copynumber: 2.6 Consensus size: 118
45674 GTCGAGTTTG
* * **
45684 CCAG-TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAATTTCCTGTTTTGCCCTTCTTCATCGGAA
1 CCAGTTTTGCCCTTCCCCACCGGAAGGTGTTGTTAAATTCCCTGTTTTGCCCTTCCCCATCGGAA
45748 GGTGTTGTTAAATTCC-CTGTTTTGCCCTTCCCCACC-AGAAGGTGTTGTTTAATTT
66 GGTGTTGTTAAATTCCTC-GTTTTGCCCTT-CCCACCGA-AAGGTGTTGTTTAA-TT
* * *
45803 CCTGTTTTGCCCTTCCCCATCGGAAGGTGTTGTTAAATTCCCTGTTTTGCCTTTCCCCATCGGAA
1 CCAGTTTTGCCCTTCCCCACCGGAAGGTGTTGTTAAATTCCCTGTTTTGCCCTTCCCCATCGGAA
* *
45868 GGTGTTGTTTAATTTCTCGTTTTGCCCTTCCCACCGAAAGGTGTTGTTTAATT
66 GGTGTTGTTAAATTCCTCGTTTTGCCCTTCCCACCGAAAGGTGTTGTTTAATT
*
45921 CCAGTTTT-CCCTTCCCCATCC-GAAGGTGTTGTCTAAGTCTACTATTCCCAG-TTTGCCCTTCC
1 CCAGTTTTGCCCTTCCCCA-CCGGAAGGTGTTGT-T-A----A--ATTCCCTGTTTTGCCCTTCC
45983 CCATCGGAAGGTGTTGTT
57 CCATCGGAAGGTGTTGTT
46001 CCTATTCCCT
Statistics
Matches: 173, Mismatches: 13, Indels: 19
0.84 0.06 0.09
Matches are distributed among these distances:
117 21 0.12
118 11 0.06
119 24 0.14
120 80 0.46
121 1 0.01
123 1 0.01
124 28 0.16
125 7 0.04
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (118 bp):
CCAGTTTTGCCCTTCCCCACCGGAAGGTGTTGTTAAATTCCCTGTTTTGCCCTTCCCCATCGGAA
GGTGTTGTTAAATTCCTCGTTTTGCCCTTCCCACCGAAAGGTGTTGTTTAATT
Found at i:51360 original size:33 final size:33
Alignment explanation
Indices: 51288--51386 Score: 114
Period size: 33 Copynumber: 3.0 Consensus size: 33
51278 CTATGATCAA
** *
51288 CTAAAACAGAA-TTGTTTTCATCACAATTAGCATC
1 CTAAAACAGAATTTG-TTTCATCACAAACAACA-C
51322 C-AAAACAGAATTTGTTTCATCACAAACAACAC
1 CTAAAACAGAATTTGTTTCATCACAAACAACAC
*
51354 CTAAAACAG-ATTTAGTGTCATCACAAACAACAC
1 CTAAAACAGAATTT-GTTTCATCACAAACAACAC
51387 TCAAATTAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
32 6 0.10
33 48 0.83
34 4 0.07
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.25
Consensus pattern (33 bp):
CTAAAACAGAATTTGTTTCATCACAAACAACAC
Found at i:51401 original size:33 final size:33
Alignment explanation
Indices: 51323--51417 Score: 95
Period size: 33 Copynumber: 2.9 Consensus size: 33
51313 ATTAGCATCC
*
51323 AAAACAGAATTT-GTTTCATCACAAACAACACCT
1 AAAACAG-ATTTAGTATCATCACAAACAACACCT
*
51356 AAAACAGATTTAGTGTCATCACAAACAACA-CT
1 AAAACAGATTTAGTATCATCACAAACAACACCT
** * **
51388 CAAATTAGGTTTAGTATCATTGCAAACAAC
1 -AAAACAGATTTAGTATCATCACAAACAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 6 0.11
33 47 0.89
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.25
Consensus pattern (33 bp):
AAAACAGATTTAGTATCATCACAAACAACACCT
Done.