Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1960
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: 26166
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Found at i:7405 original size:96 final size:97
Alignment explanation
Indices: 7290--7525 Score: 363
Period size: 96 Copynumber: 2.5 Consensus size: 97
7280 TTTTTGATTG
*
7290 AAAAACGGAGTTGGAGTATCCCCTC-GAGGGAATGAGGTTGGAGTGTCCCCGATGATGACAATTT
1 AAAAACGGGGTTGGAGTATCCCCTCGGA-GGAATGAGGTTGGAGTGTCCCCGATGATGACAATTT
*
7354 AAGTAAGAATA-GATTTTAACTTTGATGCGTTT
65 AAGTAAGAATATGATTTAAACTTTGATGCGTTT
* * *
7386 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATG-GGTTGAAGTGTCCCCGATGGTGACAATTTA
1 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGAGGTTGGAGTGTCCCCGATGATGACAATTTA
* *
7450 AGTGAGAATATGATTTAAACTTTGATGTGTTT
66 AGTAAGAATATGATTTAAACTTTGATGCGTTT
7482 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAAT-AGAGTTGGAGT
1 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGAG-GTTGGAGT
7526 ATCCTTGATA
Statistics
Matches: 127, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
95 37 0.29
96 81 0.64
97 9 0.07
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (97 bp):
AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGAGGTTGGAGTGTCCCCGATGATGACAATTTA
AGTAAGAATATGATTTAAACTTTGATGCGTTT
Found at i:9753 original size:20 final size:20
Alignment explanation
Indices: 9728--9784 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
9718 GTAAAAAGAC
*
9728 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTAA
9748 AGAATGTATCGATACATTAA
1 AGAATGTATCGATACATTAA
* *
9768 AAAATATATCGATACAT
1 AGAATGTATCGATACAT
9785 CTAGGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:12387 original size:13 final size:14
Alignment explanation
Indices: 12369--12404 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12359 TAATATCAAG
12369 TAAATTTTAA-ATT
1 TAAATTTTAATATT
12382 TAAATTTTAATATT
1 TAAATTTTAATATT
*
12396 TAAAATTTA
1 TAAATTTTA
12405 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAATTTTAATATT
Found at i:18261 original size:28 final size:28
Alignment explanation
Indices: 18207--18457 Score: 116
Period size: 28 Copynumber: 9.0 Consensus size: 28
18197 TGCAGATTTT
* * *
18207 GACTTAAGTGCCAGCTAATATGAGCTTC
1 GACTCAAGTGCCAGCTAATGTGGGCTTC
* *
18235 GACTCAAGTGCCAACTAATGTGGGCTTT
1 GACTCAAGTGCCAGCTAATGTGGGCTTC
* * * * *
18263 GATTCAAATACTAGCTAATGTGGGTTTC
1 GACTCAAGTGCCAGCTAATGTGGGCTTC
* * * *
18291 AACTTATA-TGCCAACTAATGTGGGCTTT
1 GACTCA-AGTGCCAGCTAATGTGGGCTTC
*
18319 GACTCAAGTGCGC-GCTAGTGTGGGCTTC
1 GACTCAAGTGC-CAGCTAATGTGGGCTTC
* * * * * *
18347 AACTTATGTGCTAGCCAGTGTGGGCTTTC
1 GACTCAAGTGCCAGCTAATGTGGGC-TTC
* * * *
18376 -ACTTGAA-TGCCAACTAATGTGGTCTTT
1 GAC-TCAAGTGCCAGCTAATGTGGGCTTC
* * * * * *
18403 GACTCGAGTGCTAGTTGATGTGGGGTTT
1 GACTCAAGTGCCAGCTAATGTGGGCTTC
* * *
18431 GACTC-GGATGCTAGCTAATGTGAGCTT
1 GACTCAAG-TGCCAGCTAATGTGGGCTT
18458 TAACTTTAGG
Statistics
Matches: 163, Mismatches: 51, Indels: 18
0.70 0.22 0.08
Matches are distributed among these distances:
27 6 0.04
28 150 0.92
29 7 0.04
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (28 bp):
GACTCAAGTGCCAGCTAATGTGGGCTTC
Found at i:18303 original size:56 final size:56
Alignment explanation
Indices: 18243--18353 Score: 159
Period size: 56 Copynumber: 2.0 Consensus size: 56
18233 TCGACTCAAG
* * *
18243 TGCCAACTAATGTGGGCTTTGATTCAAATACTAGCTAATGTGGGTTTCAACTTATA
1 TGCCAACTAATGTGGGCTTTGACTCAAATACGAGCTAATGTGGGCTTCAACTTATA
* * * *
18299 TGCCAACTAATGTGGGCTTTGACTCAAGTGCGCGCTAGTGTGGGCTTCAACTTAT
1 TGCCAACTAATGTGGGCTTTGACTCAAATACGAGCTAATGTGGGCTTCAACTTAT
18354 GTGCTAGCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (56 bp):
TGCCAACTAATGTGGGCTTTGACTCAAATACGAGCTAATGTGGGCTTCAACTTATA
Found at i:18341 original size:84 final size:84
Alignment explanation
Indices: 18215--18413 Score: 199
Period size: 84 Copynumber: 2.4 Consensus size: 84
18205 TTGACTTAAG
* * * * ** *
18215 TGCCAGCTAATATGAGCTTCGACTCAAGTGCCAACTAATGTGGGCTTTGA-TTCAAATACTAGCT
1 TGCCAACTAATGTGGGCTTTGACTCAAGTGCCAACTAATGTGGGCTTCAACTT-AAATACTAGCC
18279 AATGTGGG-TTTCAACTT-ATA
65 AATGTGGGCTTTC-ACTTGA-A
* * ** *
18299 TGCCAACTAATGTGGGCTTTGACTCAAGTGCGC-GCTAGTGTGGGCTTCAACTTATGTGCTAGCC
1 TGCCAACTAATGTGGGCTTTGACTCAAGTGC-CAACTAATGTGGGCTTCAACTTAAATACTAGCC
*
18363 AGTGTGGGCTTTCACTTGAA
65 AATGTGGGCTTTCACTTGAA
* *
18383 TGCCAACTAATGTGGTCTTTGACTCGAGTGC
1 TGCCAACTAATGTGGGCTTTGACTCAAGTGC
18414 TAGTTGATGT
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
84 88 0.92
85 8 0.08
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (84 bp):
TGCCAACTAATGTGGGCTTTGACTCAAGTGCCAACTAATGTGGGCTTCAACTTAAATACTAGCCA
ATGTGGGCTTTCACTTGAA
Found at i:18369 original size:56 final size:56
Alignment explanation
Indices: 18243--18374 Score: 147
Period size: 56 Copynumber: 2.4 Consensus size: 56
18233 TCGACTCAAG
* * * *
18243 TGCCAACTAATGTGGGCTTTGATTCAAATACTAGCTAATGTGGGTTTCAACTTATA
1 TGCCAACCAATGTGGGCTTTGACTCAAATACGAGCTAATGTGGGCTTCAACTTATA
* * * * * *
18299 TGCCAACTAATGTGGGCTTTGACTCAAGTGCGCGCTAGTGTGGGCTTCAACTTATG
1 TGCCAACCAATGTGGGCTTTGACTCAAATACGAGCTAATGTGGGCTTCAACTTATA
* * *
18355 TGCTAGCCAGTGTGGGCTTT
1 TGCCAACCAATGTGGGCTTT
18375 CACTTGAATG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (56 bp):
TGCCAACCAATGTGGGCTTTGACTCAAATACGAGCTAATGTGGGCTTCAACTTATA
Found at i:18639 original size:58 final size:58
Alignment explanation
Indices: 18526--18720 Score: 171
Period size: 58 Copynumber: 3.3 Consensus size: 58
18516 TGACTCTTAA
* * * * * *
18526 GCTTTCCATATGGCCAGCTACATCAAGCTTGACTTTTAGAAT-GGGCCAACGTCACTAG
1 GCTTACCATATGACTAGCTACATCAAGCTTGACTCTTAGTATAGGG-CAACTTCACTAG
* * * *
18584 GTTTACCATATGACTAGCTACATCACGCTTGACTCTTGGTATAGGGCAATTTCACTAG
1 GCTTACCATATGACTAGCTACATCAAGCTTGACTCTTAGTATAGGGCAACTTCACTAG
* * ***
18642 GCTTACCATGT-AGTAGCTACATTGGGCTTGACTCTCTTTA-TATAGGGCAACTTCACTAG
1 GCTTACCATATGACTAGCTACATCAAGCTTGA--CTC-TTAGTATAGGGCAACTTCACTAG
* * *
18701 GCTTGCCATAGGGCTAGCTA
1 GCTTACCATATGACTAGCTA
18721 TATTGGGCTT
Statistics
Matches: 109, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
57 16 0.15
58 53 0.49
59 32 0.29
60 8 0.07
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (58 bp):
GCTTACCATATGACTAGCTACATCAAGCTTGACTCTTAGTATAGGGCAACTTCACTAG
Found at i:18675 original size:57 final size:57
Alignment explanation
Indices: 18572--18752 Score: 157
Period size: 58 Copynumber: 3.1 Consensus size: 57
18562 TAGAATGGGC
* * * * *** *
18572 CAACGTCACTAGGTTTACCATATGACTAGCTACATCACGCTTGACTCTTGGTATAGGG
1 CAACTTCACTAGGCTTACCATGT-AGTAGCTACATTGGGCTTGACTCTTGATATAGGG
* *
18630 CAATTTCACTAGGCTTACCATGTAGTAGCTACATTGGGCTTGACTCTCTTTATATAGGG
1 CAACTTCACTAGGCTTACCATGTAGTAGCTACATTGGGCTTGA--CTCTTGATATAGGG
* * * * ** *
18689 CAACTTCACTAGGCTTGCCATAG-GGCTAGCTATATTGGGCTTTACTCTCAATATAGGT
1 CAACTTCACTAGGCTTACCAT-GTAG-TAGCTACATTGGGCTTGACTCTTGATATAGGG
18747 CAACTT
1 CAACTT
18753 TACATTGGGC
Statistics
Matches: 101, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
57 16 0.16
58 36 0.36
59 32 0.32
60 17 0.17
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (57 bp):
CAACTTCACTAGGCTTACCATGTAGTAGCTACATTGGGCTTGACTCTTGATATAGGG
Found at i:18697 original size:59 final size:60
Alignment explanation
Indices: 18572--18737 Score: 171
Period size: 59 Copynumber: 2.8 Consensus size: 60
18562 TAGAATGGGC
* * *** **
18572 CAACGTCACTAGGTTTACCATATGA-CTAGCTACATCACGCTTGA--CTCTTGGTATAGGG
1 CAACTTCACTAGGCTTACCATA-GAGCTAGCTACATTGGGCTTGACTCTCTTTATATAGGG
*
18630 CAATTTCACTAGGCTTACCAT-GTAG-TAGCTACATTGGGCTTGACTCTCTTTATATAGGG
1 CAACTTCACTAGGCTTACCATAG-AGCTAGCTACATTGGGCTTGACTCTCTTTATATAGGG
* * * *
18689 CAACTTCACTAGGCTTGCCATAGGGCTAGCTATATTGGGCTTTACTCTC
1 CAACTTCACTAGGCTTACCATAGAGCTAGCTACATTGGGCTTGACTCTC
18738 AATATAGGTC
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
56 1 0.01
57 16 0.18
58 18 0.20
59 32 0.36
60 22 0.25
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (60 bp):
CAACTTCACTAGGCTTACCATAGAGCTAGCTACATTGGGCTTGACTCTCTTTATATAGGG
Found at i:20177 original size:166 final size:166
Alignment explanation
Indices: 20000--20454 Score: 465
Period size: 165 Copynumber: 2.7 Consensus size: 166
19990 TTTTTCACCG
* * *
20000 TAAAATTTTTTGGGGAGGATTTTCATGGGTTTAAAATTTTTATATTCATCAAATATTATTACTTA
1 TAAATTTTTTTGGGGA-GATTTTCATGGGTTTAAAATTTTTAAATTCATCAAATATTATTATTTA
* *
20065 TTTCATAGTAAATTAGTTTTTAAAAAATT-ATTCATTTTCATGAGTTTCT-ATATTTTTTTCTTG
65 TTTCATAGTAAATTAG-TTTTAAAAAATTCATTCATTTTCATGAGTTTCTGA-ATTTTTTCCTTA
** * *
20128 AAATTTC-TCTGTTTTCGAAATACGCAGTTTTCTACTTCA
128 AAATTTCAT-TGTTTTCGAAATACAAAATTTTCTACTCCA
* ** ** *
20167 T-AATTTTTTTGGAGAGATTTTC-TTAGTTTTTAATTTTTAAAATTCATCAAATATTACTATTTA
1 TAAATTTTTTTGGGGAGATTTTCATGGGTTTAAAATTTTT-AAATTCATCAAATATTATTATTTA
* * * * *
20230 TTCCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCATGGGTTTTTGAATTTTTTCCTTAAA
65 TTTCATAGTAAATTAGTTTTAAAAAATTCATTCATTTTCATGAGTTTCTGAATTTTTTCCTTAAA
* * * *
20295 ATTTCATTGTTTTTGAAATATAAAATTTTTTACTCCG
130 ATTTCATTGTTTTCGAAATACAAAATTTTCTACTCCA
* *
20332 TAAATTTTTTTGGGAAGATTTTCATGGGTGTAAAATTTTTTTAAATTCCA-CAAATATTATTATT
1 TAAATTTTTTTGGGGAGATTTTCATGGGTTTAAAA--TTTTTAAATT-CATCAAATATTATTATT
*** * * * * * * *
20396 TATTTTGGATTGAATCAGTTTTGAGAAATTCTTTCATTTTCATGAGTTT-TTAATTTTTT
63 TATTTCATAGTAAATTAGTTTTAAAAAATTCATTCATTTTCATGAGTTTCTGAATTTTTT
20455 TTCTTTGGAA
Statistics
Matches: 236, Mismatches: 43, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
164 23 0.10
165 100 0.42
166 33 0.14
167 16 0.07
168 57 0.24
169 7 0.03
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.51
Consensus pattern (166 bp):
TAAATTTTTTTGGGGAGATTTTCATGGGTTTAAAATTTTTAAATTCATCAAATATTATTATTTAT
TTCATAGTAAATTAGTTTTAAAAAATTCATTCATTTTCATGAGTTTCTGAATTTTTTCCTTAAAA
TTTCATTGTTTTCGAAATACAAAATTTTCTACTCCA
Found at i:20631 original size:131 final size:132
Alignment explanation
Indices: 20484--20748 Score: 432
Period size: 131 Copynumber: 2.0 Consensus size: 132
20474 CCCCCAAAAA
*
20484 ATCGAGTTTTCTAATCCATAACTATTTTT-GG-GGTGATTTTCTTT-ATTTTAAAATTTTTAAAA
1 ATCGAGTTTTCTAATCCATAAATATTTTTAGGAGG-G-TTTTCTTTGA-TTTAAAATTTTTAAAA
*
20546 TGTATCTAATAATGTCATGGAATT-TTATTAAAATAGTTTTAAAAAATTAATTTATTTTCATGAG
63 TGTATCTAATAATGTCATGGAATTCTCATTAAAATAGTTTTAAAAAATTAATTTATTTTCATGAG
20610 TTTTG
128 TTTTG
20615 ATCGAGTTCTT-TAATCCATAAATATTTTTAGGAGGGTTTTCTTTGATTTAAAATTTTTAAAATG
1 ATCGAGTT-TTCTAATCCATAAATATTTTTAGGAGGGTTTTCTTTGATTTAAAATTTTTAAAATG
*
20679 TATCTAATAATGTCATGGAATTCTCATTAAAATAGTTTTGAAAAATTAATTTATTTTCATGAGTT
65 TATCTAATAATGTCATGGAATTCTCATTAAAATAGTTTTAAAAAATTAATTTATTTTCATGAGTT
20744 TTG
130 TTG
20747 AT
1 AT
20749 TTTTTTCTTT
Statistics
Matches: 126, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
131 73 0.58
132 51 0.40
133 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (132 bp):
ATCGAGTTTTCTAATCCATAAATATTTTTAGGAGGGTTTTCTTTGATTTAAAATTTTTAAAATGT
ATCTAATAATGTCATGGAATTCTCATTAAAATAGTTTTAAAAAATTAATTTATTTTCATGAGTTT
TG
Found at i:20902 original size:167 final size:165
Alignment explanation
Indices: 20626--21068 Score: 538
Period size: 167 Copynumber: 2.7 Consensus size: 165
20616 TCGAGTTCTT
20626 TAATCCATAAATATTTTTAGGAGGG-TTTTCTTTGATTTAAAATTTTTAAAATGTATCTAATAAT
1 TAATCCATAAATATTTTT-GG-GGGATTTTCTTTGATTTAAAATTTTTAAAATGTATCTAATAAT
* *
20690 GTCATGGAATTCTCATTAAAATAGTTTTGAAAAATTAATTTATTTTCATGAGTTTTGATTTTTTT
64 GTCATGGAATTCTCATTAAAATAGTTTTGAAAAATTAATTTATTTTCATGAGTTTTAAATTTTTT
**
20755 CTTTGA-AATCTCTTTTTTTCCCGAAAAATC-AAGTTTTC
129 CTTT-ACAATC-CCCTTTTTCCCGAAAAA-CAAAGTTTTC
20793 TAATCCATAAATATTTTTGGGGTGATTTTCTTTGATTTAAAATTTTTAAAATGTATCTAATAATG
1 TAATCCATAAATATTTTTGGGG-GATTTTCTTTGATTTAAAATTTTTAAAATGTATCTAATAATG
*
20858 TCATGGAATT-TCCATTAAAA-AGGTTTTGAAAAATTAATTTATTTTCATTAGTTTTAAATTTTT
65 TCATGGAATTCT-CATTAAAATA-GTTTTGAAAAATTAATTTATTTTCATGAGTTTTAAATTTTT
* *
20921 TCTTTACAATCCCCTTTTTCTCGACAAACAAAGTTTTC
128 TCTTTACAATCCCCTTTTTCCCGAAAAACAAAGTTTTC
* * ** * * * * * *
20959 TATTCGATAAATATTTCCGAAGGGATTTTCTTTGGTCTAAAACTTTTAAAATGCATCTAATATTG
1 TAATCCATAAATATTTTTG-GGGGATTTTCTTTGATTTAAAATTTTTAAAATGTATCTAATAATG
* ** * * *
21024 TAATTAAACTCTCATT-AATTCAGTTTTGAAAATTTTAATTTATTT
65 TCATGGAATTCTCATTAAAAT-AGTTTTGAAAA-ATTAATTTATTT
21069 CATTAATTTT
Statistics
Matches: 242, Mismatches: 23, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
165 5 0.02
166 99 0.41
167 138 0.57
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.47
Consensus pattern (165 bp):
TAATCCATAAATATTTTTGGGGGATTTTCTTTGATTTAAAATTTTTAAAATGTATCTAATAATGT
CATGGAATTCTCATTAAAATAGTTTTGAAAAATTAATTTATTTTCATGAGTTTTAAATTTTTTCT
TTACAATCCCCTTTTTCCCGAAAAACAAAGTTTTC
Found at i:23346 original size:155 final size:153
Alignment explanation
Indices: 23061--23439 Score: 413
Period size: 155 Copynumber: 2.4 Consensus size: 153
23051 AGCATTATCC
* * *
23061 TAAGTCCTTTAGGGGTATTGGGTACTTTTACATTGAAGTAA-T-CCTCTAGGGTCATTTTCATAA
1 TAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAA--AATTCCCT-TAGGG-CATTTTCATAA
* * * * * *
23124 TTTTTTAAAATCGAGTCCTAGGTTGTCACCGGGTTTGCTTTTATGTCGGAGGTAGATATTTAGGA
62 TTTTTCAAAATCGAGTCCTAGGTTATCACCGGGTCTGCTTTTATGCCGAAGGTAGATATTAAGGA
*
23189 TAGGCTCATCTCATATGTTATCCTTTT
127 TAGGCTCATCTCATATATTATCCTTTT
* *
23216 TAAGTCCTTTAGGGATATCGGGTACTTTTACGTCGAAAATGTCCCTTATGGGCAATTTCATAATT
1 TAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAAT-TCCCTTA-GGGCATTTTCATAATT
* * ** *
23281 TTTCAGAAT-TACGTCCTAGGTTATCATTGGGTCTGCTTTTATGCCGAAGGTAGATATTAATGAT
64 TTTCAAAATCGA-GTCCTAGGTTATCACCGGGTCTGCTTTTATGCCGAAGGTAGATATTAAGGAT
* * *
23345 AGGTTCATCTCATCTATTATCTTTTT
128 AGGCTCATCTCATATATTATCCTTTT
** * ** * *
23371 TAAGTTTTTTAGGGGTATCGAGTACTTTTACGTCGAAGGTATCCCTTAAGAGCATTTTCGTAATT
1 TAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAAT-TCCCTT-AGGGCATTTTCATAATT
23436 TTTC
64 TTTC
23440 TTGAACTTAG
Statistics
Matches: 188, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
153 2 0.01
154 1 0.01
155 178 0.95
156 7 0.04
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.41
Consensus pattern (153 bp):
TAAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAAATTCCCTTAGGGCATTTTCATAATTTT
TCAAAATCGAGTCCTAGGTTATCACCGGGTCTGCTTTTATGCCGAAGGTAGATATTAAGGATAGG
CTCATCTCATATATTATCCTTTT
Found at i:25898 original size:12 final size:12
Alignment explanation
Indices: 25870--25914 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
25860 TTTTCACTTT
25870 ATTTTTCTTTTTC
1 ATTTTTC-TTTTC
25883 -TTTTTCTTTTC
1 ATTTTTCTTTTC
25894 A-TTTT-TTTTC
1 ATTTTTCTTTTC
*
25904 ATTTTCCTTTT
1 ATTTTTCTTTT
25915 ACGCTTTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 6 0.21
11 12 0.43
12 10 0.36
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (12 bp):
ATTTTTCTTTTC
Done.