Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2090
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: 55998
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:1193 original size:20 final size:20
Alignment explanation
Indices: 1123--1193 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1113 GGGCCTTAAG
* **
1123 GTATCGATAAATATCCATGCG
1 GTATCGATACA-ATCCATGTA
*
1144 GTATCGATACAACCCATGTA
1 GTATCGATACAATCCATGTA
* *
1164 GTGTCAATACAATCCATGTA
1 GTATCGATACAATCCATGTA
1184 GTATCGATAC
1 GTATCGATAC
1194 TTACATTGCA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 31 0.76
21 10 0.24
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (20 bp):
GTATCGATACAATCCATGTA
Found at i:1387 original size:14 final size:14
Alignment explanation
Indices: 1365--1402 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
1355 TTAATATGTG
1365 TAAATTTAATAACT
1 TAAATTTAATAACT
*
1379 TAAAGTTAATAACT
1 TAAATTTAATAACT
1393 TAAATTTAAT
1 TAAATTTAAT
1403 TTAATAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (14 bp):
TAAATTTAATAACT
Found at i:7098 original size:44 final size:44
Alignment explanation
Indices: 7039--7132 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 44
7029 ATGCCTAAAG
7039 AAAAAAGGATCTAGCATCTCAAGTTAAATTTACCTTAACA-AAA
1 AAAAAAGGATCTAGCATCTCAAGTTAAATTTACCTTAACAGAAA
7082 AAAAGAAGGATCTAGCATCTCAAGTTAAATTTACCTTAACAGAAA
1 AAAA-AAGGATCTAGCATCTCAAGTTAAATTTACCTTAACAGAAA
7127 AAAAAA
1 AAAAAA
7133 AACTAGTAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
43 4 0.08
44 38 0.78
45 7 0.14
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (44 bp):
AAAAAAGGATCTAGCATCTCAAGTTAAATTTACCTTAACAGAAA
Found at i:7575 original size:76 final size:76
Alignment explanation
Indices: 7449--7602 Score: 247
Period size: 76 Copynumber: 2.0 Consensus size: 76
7439 ACCATGAGTT
7449 ATATATGTTGCAAAGCAATTGTGACCTGTTACTTTCCCAACCTAAACACAAAGTAAAACAAGGCC
1 ATATATGTTGCAAAGCAATTGTGACCTGTTACTTTCCCAACCTAAACACAAAGTAAAACAAGGCC
7514 TCTTTAAGCTA
66 TCTTTAAGCTA
* * * * *
7525 ATATATTTTGCAAGGCAATTGTGACTTGTTACTTTCCTAAGCC-AAACACAAAGTAAAACAAGGT
1 ATATATGTTGCAAAGCAATTGTGACCTGTTACTTTCCCAA-CCTAAACACAAAGTAAAACAAGGC
7589 CTCTTTAAGCTA
65 CTCTTTAAGCTA
7601 AT
1 AT
7603 CAAACTAGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
76 70 0.97
77 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (76 bp):
ATATATGTTGCAAAGCAATTGTGACCTGTTACTTTCCCAACCTAAACACAAAGTAAAACAAGGCC
TCTTTAAGCTA
Found at i:8847 original size:67 final size:67
Alignment explanation
Indices: 8776--8927 Score: 162
Period size: 67 Copynumber: 2.3 Consensus size: 67
8766 AGAACAGTTG
* ** * * * * * * *
8776 AGCATAGTACTTGGAGTTTTTGCACCACTAGTTTGCATGG-TAGAACTAATGGGAATAAGAGTAG
1 AGCATAGTACCTAAAGTTCTTGCACCACTACTCTGCATGGCT-GAACCAATGGAAATAAGAGCAA
8840 CTA
65 CTA
* *
8843 AGCATAATACCTAAAGTTCTTGCACCACTACTCTGCATGGCTGAACCAATGGAAATAAGTGCAAC
1 AGCATAGTACCTAAAGTTCTTGCACCACTACTCTGCATGGCTGAACCAATGGAAATAAGAGCAAC
8908 TA
66 TA
* *
8910 AGCATAGTATCTGAAGTT
1 AGCATAGTACCTAAAGTT
8928 GTCCCCTAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
67 68 0.99
68 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (67 bp):
AGCATAGTACCTAAAGTTCTTGCACCACTACTCTGCATGGCTGAACCAATGGAAATAAGAGCAAC
TA
Found at i:10420 original size:186 final size:186
Alignment explanation
Indices: 10104--10477 Score: 721
Period size: 186 Copynumber: 2.0 Consensus size: 186
10094 ACGTTTATTT
10104 GTGGCATAGTCACTAGGTTGTTTCATTGTCCCAAACCATTGCAGGATTACGGAACAAACTCATGA
1 GTGGCATAGTCACTAGGTTGTTTCATTGTCCCAAACCATTGCAGGATTACGGAACAAACTCATGA
*
10169 TGCTTATGTCACTATTTTCCCTATGTCACAAATGTTCGAATGTCCTTGGCTCAAGTTCGACCCCA
66 TGCTTATGTCACTATTTTCCCTATGTCACAAATGTTCGAATGTCCTTGGCTCAAGTTCAACCCCA
*
10234 AGAAACCCAAAAAATCAAAATAATCTTTATTTTTGCTTTGGCAATAGCATGGTCTA
131 AGAAACCCAAAAAATCAAAATAATCTTTATTTTTGCTTTGGCAACAGCATGGTCTA
10290 GTGGCATAGTCACTAGGTTGTTTCATTGTCCCAAACCATTGCAGGATTACGGAACAAACTCATGA
1 GTGGCATAGTCACTAGGTTGTTTCATTGTCCCAAACCATTGCAGGATTACGGAACAAACTCATGA
10355 TGCTTATGTCACTATTTTCCCTATGTCACAAATGTTCGAATGTCCTTGGCTCAAGTTCAACCCCA
66 TGCTTATGTCACTATTTTCCCTATGTCACAAATGTTCGAATGTCCTTGGCTCAAGTTCAACCCCA
*
10420 AGAAACCCAAAAAATCAAAATAATCTTTATTTTTGCTTTGGCAACATCATGGTCTA
131 AGAAACCCAAAAAATCAAAATAATCTTTATTTTTGCTTTGGCAACAGCATGGTCTA
10476 GT
1 GT
10478 TTTGAAAATT
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 185 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (186 bp):
GTGGCATAGTCACTAGGTTGTTTCATTGTCCCAAACCATTGCAGGATTACGGAACAAACTCATGA
TGCTTATGTCACTATTTTCCCTATGTCACAAATGTTCGAATGTCCTTGGCTCAAGTTCAACCCCA
AGAAACCCAAAAAATCAAAATAATCTTTATTTTTGCTTTGGCAACAGCATGGTCTA
Found at i:13726 original size:20 final size:21
Alignment explanation
Indices: 13692--13730 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13682 ACACAGTGGG
*
13692 GAAAGATATCGATACAATAGA
1 GAAAGATATCAATACAATAGA
13713 GAAAG-TATCAATACAATA
1 GAAAGATATCAATACAATA
13731 TTCAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (21 bp):
GAAAGATATCAATACAATAGA
Found at i:17027 original size:20 final size:19
Alignment explanation
Indices: 17002--17042 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
16992 ATTGTTTCAG
17002 CATAATGTATCGATACTATT
1 CATAATGTATCGATAC-ATT
17022 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
17041 CA
1 CA
17043 AGGGTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:20129 original size:33 final size:33
Alignment explanation
Indices: 20072--20136 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
20062 TAGCCAAACT
* * *
20072 TGTATCGATACACCAAAGTATGTATCGCTACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
20105 TGTATCGATACACAAAAA-ATTGTATCGATACA
1 TGTATCGATACACAAAAATA-TGTATCGATACA
20137 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:21758 original size:19 final size:20
Alignment explanation
Indices: 21734--21771 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21724 ATAATTTCAA
21734 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCGATACATT
21753 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
21772 AGCTACAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:27875 original size:13 final size:13
Alignment explanation
Indices: 27857--27902 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
27847 ATATTTTTTG
27857 TATCGATACATTA
1 TATCGATACATTA
27870 TATCGATAC---A
1 TATCGATACATTA
*
27880 T-TCGATACATTG
1 TATCGATACATTA
27892 TATCGATACAT
1 TATCGATACAT
27903 GGGTTACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
12 1 0.04
13 18 0.64
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:27884 original size:22 final size:22
Alignment explanation
Indices: 27859--27902 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
27849 ATTTTTTGTA
27859 TCGATACATTATATCGATACAT
1 TCGATACATTATATCGATACAT
*
27881 TCGATACATTGTATCGATACAT
1 TCGATACATTATATCGATACAT
27903 GGGTTACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (22 bp):
TCGATACATTATATCGATACAT
Found at i:30431 original size:13 final size:13
Alignment explanation
Indices: 30413--30437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30403 CATTATGCTT
30413 TGTATCGATACAA
1 TGTATCGATACAA
30426 TGTATCGATACA
1 TGTATCGATACA
30438 TGAAACTGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:30593 original size:19 final size:20
Alignment explanation
Indices: 30569--30606 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30559 ATAATTTCAA
*
30569 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCAATACATT
30588 ATGAATTGTATCAATACAT
1 ATGAATTGTATCAATACAT
30607 AGCTATGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCAATACATT
Found at i:32948 original size:22 final size:23
Alignment explanation
Indices: 32923--32970 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
32913 GAGGCCAAAT
*
32923 TTTTTCTAAATTTT-AAATTTA-G
1 TTTTT-TAAATTTTGAAAATTACG
32945 -TTTTTAAATTTTGAAAATTACG
1 TTTTTTAAATTTTGAAAATTACG
32967 TTTT
1 TTTT
32971 GTACCTGACG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 8 0.36
21 10 0.45
22 1 0.05
23 3 0.14
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.58
Consensus pattern (23 bp):
TTTTTTAAATTTTGAAAATTACG
Found at i:33715 original size:20 final size:19
Alignment explanation
Indices: 33689--33740 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
33679 GTAGCCAAAC
* *
33689 TTGTATCGATACACCAAAG
1 TTGTATCGATACACAAAAA
33708 TATGTATCGATACACAAAAA
1 T-TGTATCGATACACAAAAA
33728 TTGTATCGATACA
1 TTGTATCGATACA
33741 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (19 bp):
TTGTATCGATACACAAAAA
Found at i:39847 original size:13 final size:13
Alignment explanation
Indices: 39829--39867 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
39819 ACATTTTTCT
39829 TTGTATCGATACA
1 TTGTATCGATACA
*
39842 TTGTATTGATACA
1 TTGTATCGATACA
*
39855 CTGTATCGATACA
1 TTGTATCGATACA
39868 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:40350 original size:21 final size:20
Alignment explanation
Indices: 40308--40350 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
40298 GGCAGCACCA
* *
40308 CCAGGTCGCGACCGGCACTC
1 CCAGGTCGCAACAGGCACTC
*
40328 CCAGGTCGCAACTAGGCAGTC
1 CCAGGTCGCAAC-AGGCACTC
40349 CC
1 CC
40351 CATACTAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.19, C:0.42, G:0.28, T:0.12
Consensus pattern (20 bp):
CCAGGTCGCAACAGGCACTC
Found at i:42507 original size:33 final size:33
Alignment explanation
Indices: 42446--42510 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
42436 TAGCCAAACT
* * *
42446 TGTATCGATACACCAAAGTATGTTTCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
42479 TGTATCGATACACAAAAA-ATTGTATCGATACA
1 TGTATCGATACACAAAAATA-TGTATCGATACA
42511 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:43511 original size:31 final size:32
Alignment explanation
Indices: 43468--43553 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 32
43458 TCAAAAAGTC
43468 AAAAA-CCTGAACCCGAAAT-GACCTAAAC-CA
1 AAAAAGCCTGAACCCGAAATAG-CCTAAACTCA
* *
43498 AAAATAGCC-GAACCCGAGATAGCCTGAACTCA
1 AAAA-AGCCTGAACCCGAAATAGCCTAAACTCA
* *
43530 AGAAAGCCTGAACCCGAAAAAGCC
1 AAAAAGCCTGAACCCGAAATAGCC
43554 CGAACCCGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
30 4 0.09
31 21 0.46
32 21 0.46
ACGTcount: A:0.45, C:0.29, G:0.16, T:0.09
Consensus pattern (32 bp):
AAAAAGCCTGAACCCGAAATAGCCTAAACTCA
Found at i:43551 original size:16 final size:16
Alignment explanation
Indices: 43468--43595 Score: 77
Period size: 16 Copynumber: 8.1 Consensus size: 16
43458 TCAAAAAGTC
43468 AAAAA-CCTGAACCCG
1 AAAAAGCCTGAACCCG
* * *
43483 -AAATGACCT-AAACCA
1 AAAAAG-CCTGAACCCG
43498 AAAATAGCC-GAACCCG
1 AAAA-AGCCTGAACCCG
* * *
43514 AGATAGCCTGAACTC-
1 AAAAAGCCTGAACCCG
43529 AAGAAAGCCTGAACCCG
1 AA-AAAGCCTGAACCCG
*
43546 AAAAAGCCCGAACCCG
1 AAAAAGCCTGAACCCG
* * * *
43562 AAAAAACCTAAAGCTG
1 AAAAAGCCTGAACCCG
* *
43578 AAAGAGCCTGAACTCG
1 AAAAAGCCTGAACCCG
43594 AA
1 AA
43596 TCTGACCCAA
Statistics
Matches: 81, Mismatches: 24, Indels: 15
0.68 0.20 0.12
Matches are distributed among these distances:
14 3 0.04
15 9 0.11
16 66 0.81
17 3 0.04
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.09
Consensus pattern (16 bp):
AAAAAGCCTGAACCCG
Found at i:44083 original size:16 final size:15
Alignment explanation
Indices: 44062--44091 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44052 ATGTTACACT
44062 TAGAATAGCAATATAG
1 TAGAATAG-AATATAG
44078 TAGAATAGAATATA
1 TAGAATAGAATATA
44092 AAGTTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.27
Consensus pattern (15 bp):
TAGAATAGAATATAG
Found at i:44797 original size:18 final size:19
Alignment explanation
Indices: 44776--44814 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
44766 AAATTATTTG
44776 AAAAATTAATTT-TATATA
1 AAAAATTAATTTATATATA
44794 AAAAATTAATTTATATATA
1 AAAAATTAATTTATATATA
44813 AA
1 AA
44815 TATAGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTAATTTATATATA
Found at i:44890 original size:30 final size:30
Alignment explanation
Indices: 44825--44899 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
44815 TATAGATTTT
44825 AATA-AATAA-ATAAT-AAAATATATTAAA
1 AATATAATAATATAATAAAAATATATTAAA
* *
44852 AATATAATAGTATAATAAAAATTTACTTAAA
1 AATATAATAATATAATAAAAATATA-TTAAA
*
44883 AAT-TAATAATTTAATAA
1 AATATAATAATATAATAA
44900 TTTACTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.10
28 4 0.10
29 5 0.12
30 19 0.47
31 8 0.20
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (30 bp):
AATATAATAATATAATAAAAATATATTAAA
Found at i:45571 original size:21 final size:21
Alignment explanation
Indices: 45520--45591 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 21
45510 TTGGTATGGC
*
45520 TGCTGCTTGTTGGAGTTTCAGTT
1 TGCTGCTTGCTGGAGTTT--GTT
45543 AT--TGCTTGCTGGAGTTTGTT
1 -TGCTGCTTGCTGGAGTTTGTT
45563 TGCTGCTTGCTGGAGTTTGTT
1 TGCTGCTTGCTGGAGTTTGTT
45584 TGCTGCTT
1 TGCTGCTT
45592 TTTTCTTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 26 0.58
22 14 0.31
24 1 0.02
ACGTcount: A:0.07, C:0.14, G:0.31, T:0.49
Consensus pattern (21 bp):
TGCTGCTTGCTGGAGTTTGTT
Found at i:46045 original size:24 final size:24
Alignment explanation
Indices: 46018--46082 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
46008 GCTGCAGTTT
*
46018 CTTCTTTCTTCATTGCAGCTGTTA
1 CTTCTTTCTTCATTGCAGCTATTA
46042 CTTCTTTCTTCATTGCAGCTATTA
1 CTTCTTTCTTCATTGCAGCTATTA
*
46066 TTTCTTTCTTCATTGCA
1 CTTCTTTCTTCATTGCA
46083 ACAGCTGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.14, C:0.25, G:0.09, T:0.52
Consensus pattern (24 bp):
CTTCTTTCTTCATTGCAGCTATTA
Found at i:46093 original size:24 final size:24
Alignment explanation
Indices: 46006--46082 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
45996 TTTCATTTGC
*
46006 TTGCTGCAGTT-TCTTCTTTCTTCA
1 TTGCAGCAGTTAT-TTCTTTCTTCA
* *
46030 TTGCAGCTGTTACTTCTTTCTTCA
1 TTGCAGCAGTTATTTCTTTCTTCA
46054 TTGCAGCTA-TTATTTCTTTCTTCA
1 TTGCAGC-AGTTATTTCTTTCTTCA
46078 TTGCA
1 TTGCA
46083 ACAGCTGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.13, C:0.23, G:0.12, T:0.52
Consensus pattern (24 bp):
TTGCAGCAGTTATTTCTTTCTTCA
Found at i:46496 original size:43 final size:43
Alignment explanation
Indices: 46441--46559 Score: 195
Period size: 43 Copynumber: 2.8 Consensus size: 43
46431 TTGCATGAAT
* * *
46441 GCATG-AATTGCCACCTAATTGATTTAGGTGGCAATTGAATTAA
1 GCATGCAA-TGCCACCTAAATCAATTAGGTGGCAATTGAATTAA
46484 GCATGCAATGCCACCTAAATCAATTAGGTGGCAATTGAATTAA
1 GCATGCAATGCCACCTAAATCAATTAGGTGGCAATTGAATTAA
46527 GCATGCAATGCCACCTAAATCAATTAGGTGGCA
1 GCATGCAATGCCACCTAAATCAATTAGGTGGCA
46560 GAAACGTTGA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
43 70 0.97
44 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (43 bp):
GCATGCAATGCCACCTAAATCAATTAGGTGGCAATTGAATTAA
Found at i:46630 original size:17 final size:16
Alignment explanation
Indices: 46610--46701 Score: 58
Period size: 15 Copynumber: 6.1 Consensus size: 16
46600 AATATGATTA
46610 ATTTTATATATATTTTT
1 ATTTTATAT-TATTTTT
*
46627 A-TTTA-ATTATGATTAT
1 ATTTTATATTAT--TTTT
*
46643 ATTTTTTATT-TTATTT
1 ATTTTATATTATT-TTT
46659 ATTTT-TA-T-TTTTT
1 ATTTTATATTATTTTT
*
46672 ATTTTATTTTA-TTTT
1 ATTTTATATTATTTTT
46687 ATTTTA-ATT-TTTTT
1 ATTTTATATTATTTTT
46701 A
1 A
46702 AAAATAACCC
Statistics
Matches: 61, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
13 8 0.13
14 14 0.23
15 16 0.26
16 15 0.25
17 5 0.08
18 3 0.05
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.74
Consensus pattern (16 bp):
ATTTTATATTATTTTT
Found at i:46632 original size:22 final size:22
Alignment explanation
Indices: 46607--46691 Score: 84
Period size: 22 Copynumber: 3.8 Consensus size: 22
46597 TTTAATATGA
46607 TTAATTTTA-TATATATTTTTAT
1 TTAATTTTATTATAT-TTTTTAT
*
46629 TTAATTATGATTATATTTTTTAT
1 TTAATT-TTATTATATTTTTTAT
* *
46652 TTTA-TTTATTTTTATTTTTTAT
1 TTAATTTTA-TTATATTTTTTAT
* *
46674 TTTATTTTATTTTATTTT
1 TTAATTTTATTATATTTT
46692 AATTTTTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.04
22 32 0.58
23 16 0.29
24 5 0.09
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.74
Consensus pattern (22 bp):
TTAATTTTATTATATTTTTTAT
Found at i:46656 original size:5 final size:5
Alignment explanation
Indices: 46646--46701 Score: 66
Period size: 5 Copynumber: 12.0 Consensus size: 5
46636 TGATTATATT
*
46646 TTTTA TTTTA -TTTA TTTT- TATT- TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
46693 ATTT- TTTTA
1 TTTTA TTTTA
46702 AAAATAACCC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
4 13 0.30
5 31 0.70
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:46861 original size:151 final size:151
Alignment explanation
Indices: 46692--46994 Score: 579
Period size: 151 Copynumber: 2.0 Consensus size: 151
46682 ATTTTATTTT
*
46692 AATTTTTTTAAAAATAACCCGACAAATTTATCCTATTAATTGTAACTTTCTTTGAACCTCCGAGA
1 AATTTTTTTAAAAATAACCCGAAAAATTTATCCTATTAATTGTAACTTTCTTTGAACCTCCGAGA
46757 AAATGTTCAAATGATACAACCTACACTCATCCGAGAAAAATGAATTTTCGATCGTGTAGTCATTC
66 AAATGTTCAAATGATACAACCTACACTCATCCGAGAAAAATGAATTTTCGATCGTGTAGTCATTC
46822 ATTTCACCGTTTCAATTGTGA
131 ATTTCACCGTTTCAATTGTGA
*
46843 AATTTTTTTAAAAATAACCTGAAAAATTTATCCTATTAATTGTAACTTTCTTTGAACCTCCGAGA
1 AATTTTTTTAAAAATAACCCGAAAAATTTATCCTATTAATTGTAACTTTCTTTGAACCTCCGAGA
*
46908 AAATGTTCAAATGATACAACCTACACTCATCCGAGAAAGATGAATTTTCGATCGTGTAGTCATTC
66 AAATGTTCAAATGATACAACCTACACTCATCCGAGAAAAATGAATTTTCGATCGTGTAGTCATTC
46973 ATTTCACCGTTTCAATTGTGA
131 ATTTCACCGTTTCAATTGTGA
46994 A
1 A
46995 TGTGTGAAAT
Statistics
Matches: 149, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
151 149 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (151 bp):
AATTTTTTTAAAAATAACCCGAAAAATTTATCCTATTAATTGTAACTTTCTTTGAACCTCCGAGA
AAATGTTCAAATGATACAACCTACACTCATCCGAGAAAAATGAATTTTCGATCGTGTAGTCATTC
ATTTCACCGTTTCAATTGTGA
Found at i:50427 original size:20 final size:20
Alignment explanation
Indices: 50402--50456 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
50392 ATTTGCCTAC
50402 ATGTATCGATACATTAAATA
1 ATGTATCGATACATTAAATA
50422 ATGTATCGATACATTAAATA
1 ATGTATCGATACATTAAATA
50442 ATGTATCGATACATT
1 ATGTATCGATACATT
50457 TCCTTGGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTAAATA
Found at i:51463 original size:49 final size:49
Alignment explanation
Indices: 51304--51770 Score: 435
Period size: 49 Copynumber: 9.8 Consensus size: 49
51294 CGAAGAATGA
* * * * *
51304 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
** * * *
51351 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGGTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA--AA-GATGAAGGTGC
* * * ** *
51403 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* *
51452 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * *
51501 AAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * * * * *
51550 CAATGTGCTGATTCAAGGCCGGTGACATTGGTCTTAAAAAAGAA--TGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * *
51597 CAATGTGCTGATACAAGGCCAGCGATATTGGGCTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* *
51646 CAATATGCTGATTCAAGGCCAACGACATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * * * *
51685 CAATGTGCTGATTCAGGGCTAGCGACATTTGTCTTAAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
* * *
51732 CAATGTGCTGATACAAGGCCAGTGATATTGGGCTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAG
51771 GTGGCACGGA
Statistics
Matches: 336, Mismatches: 68, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
39 31 0.09
40 1 0.00
43 1 0.00
47 103 0.31
48 1 0.00
49 163 0.49
50 5 0.01
52 31 0.09
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
Found at i:51762 original size:86 final size:87
Alignment explanation
Indices: 51597--51766 Score: 207
Period size: 88 Copynumber: 2.0 Consensus size: 87
51587 AAAAGAATGT
* ** *
51597 CAATGTGCTGATACAAGGCCAGCGATATTGGGCTTAAAGGTGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATACAAGGCCAGCGACATTGGGCTTAAAGAAGAA-GTGCCAATATGCTGATACAA
51662 GGCCAACGACATTGGGCTTGTGC
65 GGCCAACGACATTGGGCTTGTGC
* * * * * *
51685 CAATGTGCTGATTCAGGGCTAGCGACATTTGTCTTAAAGAAGAA-TGCCAATGTGCTGATACAAG
1 CAATGTGCTGATACAAGGCCAGCGACATTGGGCTTAAAGAAGAAGTGCCAATATGCTGATACAAG
** *
51749 GCCAGTGATATTGGGCTT
66 GCCAACGACATTGGGCTT
51767 AAAGGTGGCA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
86 33 0.48
88 36 0.52
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (87 bp):
CAATGTGCTGATACAAGGCCAGCGACATTGGGCTTAAAGAAGAAGTGCCAATATGCTGATACAAG
GCCAACGACATTGGGCTTGTGC
Found at i:51859 original size:66 final size:67
Alignment explanation
Indices: 51788--51932 Score: 195
Period size: 66 Copynumber: 2.2 Consensus size: 67
51778 GGAGTAGGAA
* *
51788 AAAAAGATGCCAAAGAGGTGTGGGC-TTAAAAGGGAAAAGGGTGCCATGGAGTTGTGGACTTAAA
1 AAAAAGATGCCAAAGAGGTGTGGGCTTTAAAA-AGAAAAAGGTGCCATGGAGTTGTGGACTTAAA
51852 AAG
65 AAG
* ** * *
51855 -AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCATGGAGTTGTGGACTTAAAA
1 AAAAAGATGCCAAAGAGGTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTAAAA
*
51919 GG
66 AG
51921 AAAAAGATGCCA
1 AAAAAGATGCCA
51933 CAGACTTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
66 51 0.76
67 16 0.24
ACGTcount: A:0.39, C:0.10, G:0.32, T:0.19
Consensus pattern (67 bp):
AAAAAGATGCCAAAGAGGTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTAAAA
AG
Found at i:51932 original size:33 final size:33
Alignment explanation
Indices: 51788--51932 Score: 150
Period size: 34 Copynumber: 4.4 Consensus size: 33
51778 GGAGTAGGAA
** * * *
51788 AAAAAGATGCCAAAGAGGTGTGGGCTTAAAAGGG
1 AAAAAGATGCCATGGAGTTGTGGACTTAAAA-AG
* *
51822 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAAG
1 AAAAAGATGCCATGGAGTTGTGGACTTAAAAAG
* * *
51855 -AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGATGCCATGGAGTTGTGGAC-TTAAAAAG
*
51888 AAAAATG-TGCCATGGAGTTGTGGACTTAAAAGG
1 AAAAA-GATGCCATGGAGTTGTGGACTTAAAAAG
51921 AAAAAGATGCCA
1 AAAAAGATGCCA
51933 CAGACTTTTA
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
32 22 0.23
33 26 0.28
34 45 0.48
35 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.32, T:0.19
Consensus pattern (33 bp):
AAAAAGATGCCATGGAGTTGTGGACTTAAAAAG
Found at i:52027 original size:29 final size:29
Alignment explanation
Indices: 51920--52241 Score: 273
Period size: 29 Copynumber: 11.1 Consensus size: 29
51910 GACTTAAAAG
* * *
51920 GAAAAAGATGCCACAGACTTTTAGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* * *
51950 G--AAGGTTGCCACTAACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* * *
51978 G--AAGGTTGCCACTAACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
52005 GAAAAAGATGCCACTAACCTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* * *
52035 AAAAAAGATGCCATTGACTTGTAGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* * *
52064 CG--AAGGTTGCCATTGACTTGTGGGCTTT
1 -GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
52092 GGAAAAGATGCCACTGACTTATGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
* *
52121 GGAAAAGATGCCACTGACCTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
* *
52151 GAAAAAGATGCCACTAACTTGTGGGTTTTT
1 GAAAAAGATGCCACTGACTTGTGGG-CTTT
* * * *
52181 G--AAGGTTGCCACTGACTTGCGGGTTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
*
52208 GGAAAAGATGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGC-TTT
52238 GAAA
1 GAAA
52242 GGTGAGGAAT
Statistics
Matches: 244, Mismatches: 37, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
27 10 0.04
28 86 0.35
29 88 0.36
30 60 0.25
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (29 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTT
Found at i:52069 original size:87 final size:86
Alignment explanation
Indices: 51922--52240 Score: 351
Period size: 87 Copynumber: 3.7 Consensus size: 86
51912 CTTAAAAGGA
* * * * * *
51922 AAAAGATGCCACAGACTTTTAGGCTTTT-G-AAGGTTGCCACTAACTTGTGGGCTTTTGAAGGTT
1 AAAAGATGCCACTGACTTGTGGGCTTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTT
51985 GCCACTAACTTGTGGGCTTTG
66 GCCACTAACTTGTGGGCTTTG
* * ** * * *
52006 AAAAAGATGCCACTAACCTGTGGGCTTTTAAAAAAGATGCCATTGACTTGTAGGCTTTCGAAGGT
1 -AAAAGATGCCACTGACTTGTGGGCTTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGT
* *
52071 TGCCATTGACTTGTGGGCTTTGG
65 TGCCACTAACTTGTGGGCTTT-G
* * *
52094 AAAAGATGCCACTGACTTATGGGC-TTTGGAAAAGATGCCACTGACCTGTGGGCTTTTGAAAAAG
1 AAAAGATGCCACTGACTTGTGGGCTTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTG--AAGG
* *
52158 ATGCCACTAACTTGTGGGTTTTTG
64 TTGCCACTAACTTGTGGG-CTTTG
* * *
52182 -AAGGTTGCCACTGACTTGCGGG-TTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAA
1 AAAAGATGCCACTGACTTGTGGGCTTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAA
52241 AGGTGAGGAA
Statistics
Matches: 194, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
85 25 0.13
86 28 0.14
87 118 0.61
88 20 0.10
89 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (86 bp):
AAAAGATGCCACTGACTTGTGGGCTTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTT
GCCACTAACTTGTGGGCTTTG
Found at i:52157 original size:116 final size:116
Alignment explanation
Indices: 51920--52241 Score: 457
Period size: 116 Copynumber: 2.8 Consensus size: 116
51910 GACTTAAAAG
* * * * * *
51920 GAAAAAGATGCCACAGACTTTTAGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTTG-AAGGT
1 GAAAAAGATGCCACTGACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
51984 TGCCACTAACTTGTGGGCTTTGAAAAAGATGCCACTAACCTGTGGGCTTTT
66 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACCTGTGGGCTTTT
* * * *
52035 AAAAAAGATGCCATTGACTTGTAGGCTTTCGAAGGTTGCCATTGACTTGTGGGCTTTGGAAAAGA
1 GAAAAAGATGCCACTGACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
52100 TGCCACTGACTTATGGGCTTTGGAAAAGATGCCACTGACCTGTGGGCTTTT
66 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACCTGTGGGCTTTT
* * * * *
52151 GAAAAAGATGCCACTAACTTGTGGGTTTTTGAAGGTTGCCACTGACTTGCGGGTTTTGGAAAAGA
1 GAAAAAGATGCCACTGACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGA
*
52216 TGCCACTGACTTGTGGGCTTTTGAAA
66 TGCCACTGACTTGTGGGCTTTGGAAA
52242 GGTGAGGAAT
Statistics
Matches: 181, Mismatches: 25, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
115 51 0.28
116 130 0.72
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (116 bp):
GAAAAAGATGCCACTGACTTGTAGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGA
TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACCTGTGGGCTTTT
Found at i:53693 original size:4 final size:4
Alignment explanation
Indices: 53684--53749 Score: 53
Period size: 4 Copynumber: 16.0 Consensus size: 4
53674 TTTTTTGTTG
* * *
53684 TTGT TTGT TTGT TT-T TTTT TTGT TTGC TTGTT TTGTT TTGT TTGT TTTT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTG-T TTG-T TTGT TTGT TTGT
* *
53733 TTATT TTGT TTTT TTGT
1 TT-GT TTGT TTGT TTGT
53750 GCGGAGGACG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
3 3 0.06
4 37 0.71
5 12 0.23
ACGTcount: A:0.02, C:0.02, G:0.17, T:0.80
Consensus pattern (4 bp):
TTGT
Found at i:53694 original size:14 final size:13
Alignment explanation
Indices: 53677--53749 Score: 66
Period size: 13 Copynumber: 5.8 Consensus size: 13
53667 CCGGACCTTT
53677 TTTGTTGTTGTTTG
1 TTTGTT-TTGTTTG
53691 TTTGTTTT-TTT-
1 TTTGTTTTGTTTG
*
53702 TTTG-TTTGCTTG
1 TTTGTTTTGTTTG
53714 TTTTGTTTTGTTTG
1 -TTTGTTTTGTTTG
*
53728 TTT-TTTTATTTTG
1 TTTGTTTT-GTTTG
53741 TTT-TTTTGT
1 TTTGTTTTGT
53750 GCGGAGGACG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
10 3 0.06
11 6 0.12
12 8 0.16
13 20 0.40
14 13 0.26
ACGTcount: A:0.01, C:0.01, G:0.18, T:0.79
Consensus pattern (13 bp):
TTTGTTTTGTTTG
Found at i:53701 original size:22 final size:22
Alignment explanation
Indices: 53674--53749 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
53664 CATCCGGACC
53674 TTTTTTGTTGTTGTTTGTTTGT
1 TTTTTTGTTGTTGTTTGTTTGT
* *
53696 TTTTTTTTTGTTTGCTTGTTTTGT
1 TTTTTTGTTG-TTGTTTG-TTTGT
*
53720 TTTGTTTGTT-TT-TTTATTTTGT
1 TTT-TTTGTTGTTGTTT-GTTTGT
53742 TTTTTTGT
1 TTTTTTGT
53750 GCGGAGGACG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
21 5 0.11
22 19 0.42
23 8 0.18
24 8 0.18
25 5 0.11
ACGTcount: A:0.01, C:0.01, G:0.17, T:0.80
Consensus pattern (22 bp):
TTTTTTGTTGTTGTTTGTTTGT
Found at i:53715 original size:33 final size:35
Alignment explanation
Indices: 53678--53743 Score: 102
Period size: 33 Copynumber: 1.9 Consensus size: 35
53668 CGGACCTTTT
53678 TTGTTGTTG-TTTGTTTG-TTTTTT-TTTTGTTTGC
1 TTGTT-TTGTTTTGTTTGTTTTTTTATTTTGTTTGC
53711 TTGTTTTGTTTTGTTTGTTTTTTTATTTTGTTT
1 TTGTTTTGTTTTGTTTGTTTTTTTATTTTGTTT
53744 TTTTGTGCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 3 0.10
33 13 0.43
34 6 0.20
35 8 0.27
ACGTcount: A:0.02, C:0.02, G:0.18, T:0.79
Consensus pattern (35 bp):
TTGTTTTGTTTTGTTTGTTTTTTTATTTTGTTTGC
Found at i:53740 original size:13 final size:13
Alignment explanation
Indices: 53674--53747 Score: 62
Period size: 14 Copynumber: 5.4 Consensus size: 13
53664 CATCCGGACC
53674 TTTTTTG-TTGTT
1 TTTTTTGTTTGTT
*
53686 GTTTGTTTGTTTTTTT
1 -TTT-TTTG-TTTGTT
*
53702 TTTGTTTGCTTGTT
1 TTT-TTTGTTTGTT
53716 TTGTTTTGTTTGTT
1 TT-TTTTGTTTGTT
53730 TTTTTAT-TTTGTT
1 TTTTT-TGTTTGTT
53743 TTTTT
1 TTTTT
53748 GTGCGGAGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 17 0.33
14 22 0.42
15 9 0.17
16 4 0.08
ACGTcount: A:0.01, C:0.01, G:0.16, T:0.81
Consensus pattern (13 bp):
TTTTTTGTTTGTT
Done.