Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1834
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: 30690
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Found at i:5476 original size:24 final size:24
Alignment explanation
Indices: 5411--5488 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
5401 TTGATAAAAT
5411 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTT-CA
5436 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAAT-GGTTAGGTAAATGTTCA
5461 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
5485 TGAT
1 TGAT
5489 GAATTTCATG
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
24 21 0.40
25 16 0.31
26 15 0.29
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (24 bp):
TGATAATGGTTAGGTAAATGTTCA
Found at i:8230 original size:43 final size:44
Alignment explanation
Indices: 8159--8246 Score: 169
Period size: 43 Copynumber: 2.0 Consensus size: 44
8149 TTCTATAGGC
8159 TAAATTGAAGTGGCCAAATAAATAGAGTGCAAAATAGGAGGATT
1 TAAATTGAAGTGGCCAAATAAATAGAGTGCAAAATAGGAGGATT
8203 TAAATTGAAGT-GCCAAATAAATAGAGTGCAAAATAGGAGGATT
1 TAAATTGAAGTGGCCAAATAAATAGAGTGCAAAATAGGAGGATT
8246 T
1 T
8247 GCATGACAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 33 0.75
44 11 0.25
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (44 bp):
TAAATTGAAGTGGCCAAATAAATAGAGTGCAAAATAGGAGGATT
Found at i:8368 original size:26 final size:26
Alignment explanation
Indices: 8339--8446 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
8329 TGGTACAAAT
*
8339 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
8365 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
8391 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
8417 TGATAATTGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
8443 TGAT
1 TGAT
8447 GGGCATTTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:11083 original size:14 final size:14
Alignment explanation
Indices: 11064--11093 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11054 TACATCATGT
11064 TTTTTAATACTATA
1 TTTTTAATACTATA
11078 TTTTTAATACTATA
1 TTTTTAATACTATA
11092 TT
1 TT
11094 ATGTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:11182 original size:64 final size:57
Alignment explanation
Indices: 11114--11232 Score: 132
Period size: 64 Copynumber: 2.0 Consensus size: 57
11104 TTTTACATGC
*
11114 ATTATGTACATATTTTCAATAACTATATCATATGTATATATTTTATGTACATACTT-TTAATATT
1 ATTATGTACATATTTT---TAA-TAGAT-ATATGTATATA-TTTATGTA-ATA-TTATTAATATT
**
11178 ATTATGTATTTATTTTTAATAGATATATGTATATATTTATGTAATATTATTAATA
1 ATTATGTACATATTTTTAATAGATATATGTATATATTTATGTAATATTATTAATA
11233 GTCTTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
56 2 0.04
57 9 0.18
58 8 0.16
59 11 0.22
60 4 0.08
61 3 0.06
64 14 0.27
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (57 bp):
ATTATGTACATATTTTTAATAGATATATGTATATATTTATGTAATATTATTAATATT
Found at i:11198 original size:23 final size:23
Alignment explanation
Indices: 11074--11157 Score: 53
Period size: 23 Copynumber: 3.3 Consensus size: 23
11064 TTTTTAATAC
11074 TATATTTTTAATACTATATTATGTA
1 TATATTTTTAATA-T-TATTATGTA
**
11099 TATATTTTTACAT-GCATTATGTA
1 TATATTTTTA-ATATTATTATGTA
* *
11122 CATATTTTCAATAACTATATCATATGTA
1 TATATTTTTAAT-A-T-TAT--TATGTA
11150 TATATTTT
1 TATATTTT
11158 ATGTACATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
22 2 0.04
23 16 0.36
25 10 0.22
26 4 0.09
28 13 0.29
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATTTTTAATATTATTATGTA
Found at i:11472 original size:18 final size:19
Alignment explanation
Indices: 11445--11483 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
11435 TTACAAATTA
11445 AACCCATACCC-CTAAACC
1 AACCCATACCCACTAAACC
* *
11463 AACCCTTACCCACTAACCC
1 AACCCATACCCACTAAACC
11482 AA
1 AA
11484 TACAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (19 bp):
AACCCATACCCACTAAACC
Found at i:12068 original size:18 final size:17
Alignment explanation
Indices: 12033--12074 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
12023 GCACGGTGGC
*
12033 CGGC-GCCGGCGACGGA
1 CGGCGGCCGACGACGGA
12049 CGGCGGCCGACGATCGGA
1 CGGCGGCCGACGA-CGGA
*
12067 CGGTGGCC
1 CGGCGGCC
12075 CTCCTGGCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 7 0.32
18 11 0.50
ACGTcount: A:0.12, C:0.36, G:0.48, T:0.05
Consensus pattern (17 bp):
CGGCGGCCGACGACGGA
Found at i:12583 original size:3 final size:3
Alignment explanation
Indices: 12577--12656 Score: 85
Period size: 3 Copynumber: 27.0 Consensus size: 3
12567 TTCTTTAGTT
* * *
12577 TTA TTA TT- TT- TTA TAA TT- TTA TCA TTA TTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
12622 TTA TTA TTA TATA TTA GTA TTA TTA TTA TATA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA
12657 GTATATACTC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
2 6 0.09
3 53 0.82
4 6 0.09
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:12644 original size:19 final size:19
Alignment explanation
Indices: 12602--12660 Score: 93
Period size: 19 Copynumber: 3.2 Consensus size: 19
12592 ATTTTATCAT
* *
12602 TATTATTATTAT-TAGTAT
1 TATTATTATTATATATTAG
12620 TATTATTATTATATATTAG
1 TATTATTATTATATATTAG
12639 TATTATTATTATATATTAG
1 TATTATTATTATATATTAG
12658 TAT
1 TAT
12661 ATACTCTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
18 12 0.32
19 26 0.68
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTATTATTATATATTAG
Found at i:12922 original size:21 final size:21
Alignment explanation
Indices: 12883--12928 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
12873 TGTATTTCAA
*
12883 TATTATTATATTTATTATTAT
1 TATTATTATATGTATTATTAT
*
12904 TATTATTATAGTGTA-TATTTT
1 TATTATTATA-TGTATTATTAT
12925 TATT
1 TATT
12929 TATGTACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (21 bp):
TATTATTATATGTATTATTAT
Found at i:13130 original size:20 final size:20
Alignment explanation
Indices: 13107--13145 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13097 GTTATATACG
*
13107 TATATATATTATGTGTATTT
1 TATATATATTATGTATATTT
13127 TATATATATTATGTATATT
1 TATATATATTATGTATATT
13146 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TATATATATTATGTATATTT
Found at i:13138 original size:9 final size:9
Alignment explanation
Indices: 13107--13216 Score: 55
Period size: 9 Copynumber: 11.8 Consensus size: 9
13097 GTTATATACG
13107 TATATATAT
1 TATATATAT
* *
13116 TATGTGTATTT
1 TA--TATATAT
13127 TATATATAT
1 TATATATAT
*
13136 TATGTATAT
1 TATATATAT
* *
13145 TATTTTTAT
1 TATATATAT
*
13154 TATACATAT
1 TATATATAT
13163 TACGTATATAT
1 TA--TATATAT
13174 TA-A-ATAT
1 TATATATAT
*
13181 CATAT-TAT
1 TATATATAT
* *
13189 TCATGTATTT
1 T-ATATATAT
13199 TATGATATAT
1 TAT-ATATAT
13209 GTATATAT
1 -TATATAT
13217 CTTTAATATA
Statistics
Matches: 74, Mismatches: 17, Indels: 19
0.67 0.15 0.17
Matches are distributed among these distances:
7 5 0.07
8 5 0.07
9 35 0.47
10 11 0.15
11 18 0.24
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:13221 original size:21 final size:21
Alignment explanation
Indices: 13197--13244 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
13187 ATTCATGTAT
*
13197 TTTATGATATATGTA-TATATC
1 TTTATGATATAT-AAGTATATC
13218 TTTAAT-ATATATAAGTATATC
1 TTT-ATGATATATAAGTATATC
13239 TTTATG
1 TTTATG
13245 TAATATTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
20 3 0.13
21 18 0.78
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (21 bp):
TTTATGATATATAAGTATATC
Found at i:13441 original size:27 final size:28
Alignment explanation
Indices: 13411--13477 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
13401 ATTCTATTAT
*
13411 ATTTTTCATATTATATCATGTATATAC-
1 ATTTTTCATATTATATCATGTACATACA
* *
13438 ATTTTTCATA-TATGTCATGTACATGCA
1 ATTTTTCATATTATATCATGTACATACA
13465 ATTTTTCAATATT
1 ATTTTTC-ATATT
13478 CATTTTATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.38
27 17 0.50
28 3 0.09
29 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (28 bp):
ATTTTTCATATTATATCATGTACATACA
Found at i:13455 original size:26 final size:25
Alignment explanation
Indices: 13411--13489 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 25
13401 ATTCTATTAT
13411 ATTTTTCATATTATATCATGTATATAC
1 ATTTTTCATA-TAT-TCATGTATATAC
* *
13438 ATTTTTCATATATGTCATGTACATGC
1 ATTTTTCATATAT-TCATGTATATAC
*
13464 AATTTTTCA-ATATTCAT-TTTATAC
1 -ATTTTTCATATATTCATGTATATAC
13488 AT
1 AT
13490 ATAAATGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.04
24 4 0.09
25 4 0.09
26 17 0.38
27 18 0.40
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.51
Consensus pattern (25 bp):
ATTTTTCATATATTCATGTATATAC
Found at i:25859 original size:102 final size:99
Alignment explanation
Indices: 25683--25879 Score: 238
Period size: 102 Copynumber: 2.0 Consensus size: 99
25673 CATGCTGAGG
*
25683 TATTTTTAATTTCTACTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTGACAT
1 TATTTTTAATTTCTACTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTCACAT
* *
25748 GCCGGGGTATTTTCAAATTCTG-TTGTTCAAATTC
66 ACCGAGGTATTTTCAAATTCTGCTT-TTCAAATTC
* * *
25782 TATTTTT-ATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGTT
1 TATTTTTAAT-TTCTACTTTTC--AA-TCAACTCATATTGCGAGAGGTGAGTTGA-ACTTCGGGT
* * *
25845 CACGTACTGAGGTATTTTCAATTTCTGCTTTTCAA
61 CACATACCGAGGTATTTTCAAATTCTGCTTTTCAA
25880 TCAACTCATA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
98 2 0.02
99 17 0.20
101 2 0.02
102 57 0.69
103 5 0.06
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (99 bp):
TATTTTTAATTTCTACTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTCACAT
ACCGAGGTATTTTCAAATTCTGCTTTTCAAATTC
Found at i:25892 original size:72 final size:72
Alignment explanation
Indices: 25808--25951 Score: 202
Period size: 72 Copynumber: 2.0 Consensus size: 72
25798 TTTTCAAAAG
* * * * *
25808 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGTTCACGTACTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGA-ACTTCGGGTCACATACCGAGGTATTTTCAAATTCTG
25872 CTT-TTCAA
65 -TTGTTCAA
*
25880 TCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTCACATGCCGAGGTATTTTCAAATTCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTCACATACCGAGGTATTTTCAAATTCTGT
25945 TGTTCAA
66 TGTTCAA
25952 ATTCTGTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
71 5 0.08
72 59 0.92
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTCACATACCGAGGTATTTTCAAATTCTGT
TGTTCAA
Found at i:25913 original size:174 final size:174
Alignment explanation
Indices: 25612--26483 Score: 1309
Period size: 174 Copynumber: 5.0 Consensus size: 174
25602 GATATTTTGA
* *
25612 TGTTTTTAT-TTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
1 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTTC
* * * *
25672 ACATGCTGAGGTATTTTTAATTTCTACTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACT
65 ACGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACT
* *
25737 TCGGGTGACATGCCGGGGTATTTTCAAATTCTGTTGTTCAAATTC
130 TCGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
*
25782 TATTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
1 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
25847 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
66 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
25912 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
131 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
*
25956 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTAAGTTGAGCCTTGGTTCA
1 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
26021 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
66 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
26086 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
131 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
26130 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
1 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
26195 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
66 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
*
26260 TGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
131 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
* * * * ** *
26304 TGTTTTAAT-TTCTACTTTTCCAAAA-TTAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGATC
1 TGTTTTTATCTTCTAGTTTT-CAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTC
* * * * *
26367 ACG--CTGAAGTATTTTCAGTTTATG--TTTCAAAAAAATCAACTCATATTGCGTGAGGTGGGTT
65 ACGTACTGAGGTATTTTCAATTTCTGCTTTTC-----AATCAACTCATATTGCGAGAGGTGAGTT
* * * * ** *
26428 GAGCCTT-GGTTCACATGCTGTGGTATTTTCAGTTTCTGTTTTTCAAATTAC
125 GA-ACTTCGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATT-C
26479 TGTTT
1 TGTTT
26484 GTCAAAAAGT
Statistics
Matches: 657, Mismatches: 32, Indels: 21
0.93 0.05 0.03
Matches are distributed among these distances:
169 4 0.01
170 8 0.01
171 24 0.04
172 42 0.06
173 45 0.07
174 525 0.80
175 9 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (174 bp):
TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
Found at i:25952 original size:14 final size:14
Alignment explanation
Indices: 25933--25959 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25923 CCGAGGTATT
25933 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
25947 TTCAAATTCTGTT
1 TTCAAATTCTGTT
25960 TTTATCTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:26060 original size:72 final size:72
Alignment explanation
Indices: 25982--26125 Score: 193
Period size: 72 Copynumber: 2.0 Consensus size: 72
25972 TTTTCAAAAG
* * * * *
25982 TCAACTCATATTGCGAGAGGTAAGTTGAGCCTT-GGTTCACGTACTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTAAGTTGA-ACTTCGGGTCACATACCGAGGTATTTTCAAATTCTG
26046 CTT-TTCAA
65 -TTGTTCAA
* *
26054 TCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTCACATGCCGAGGTATTTTCAAATTCTGT
1 TCAACTCATATTGCGAGAGGTAAGTTGAACTTCGGGTCACATACCGAGGTATTTTCAAATTCTGT
26119 TGTTCAA
66 TGTTCAA
26126 ATTCTGTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
71 5 0.08
72 58 0.92
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAGGTAAGTTGAACTTCGGGTCACATACCGAGGTATTTTCAAATTCTGT
TGTTCAA
Found at i:26126 original size:14 final size:14
Alignment explanation
Indices: 26107--26133 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26097 CCGAGGTATT
26107 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
26121 TTCAAATTCTGTT
1 TTCAAATTCTGTT
26134 TTTATCTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:26235 original size:72 final size:72
Alignment explanation
Indices: 26156--26299 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 72
26146 TTTTCAAAAG
* * * * *
26156 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCACGTACTGAGGTATTTTCAATTTCTGC
1 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTGGGTCACATACCGAGGTATTTTCAAATTCTG-
26221 TT-TTCAA
65 TTGTTCAA
* *
26228 TCAACTCATATTGCGAGAGGTGAGTTGAACTTTGGGTCACATGCCGAGGTATTTTCAAATTCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTGGGTCACATACCGAGGTATTTTCAAATTCTGT
26293 TGTTCAA
66 TGTTCAA
26300 ATTCTGTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 2 0.03
72 62 0.97
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAACCTTGGGTCACATACCGAGGTATTTTCAAATTCTGT
TGTTCAA
Found at i:26300 original size:14 final size:14
Alignment explanation
Indices: 26281--26307 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26271 CCGAGGTATT
26281 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
26295 TTCAAATTCTGTT
1 TTCAAATTCTGTT
26308 TTAATTTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Done.