Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 55 of 144
Found at i:16960636 original size:28 final size:28
Alignment explanation
Indices: 16960579--16960649 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
16960569 CTCAAAACCA
** * *
16960579 AACTAAATTTT-ATTTTTATTTAATTTAT
1 AACT-AATTTTAATTTTTATGAAAATAAT
16960607 AACTAATTTTAATTTTTATGAAAATAAT
1 AACTAATTTTAATTTTTATGAAAATAAT
16960635 AACT-ATTTTATATTT
1 AACTAATTTTA-ATTT
16960650 AAAATAATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.32
28 25 0.68
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (28 bp):
AACTAATTTTAATTTTTATGAAAATAAT
Found at i:16962591 original size:42 final size:42
Alignment explanation
Indices: 16962488--16962609 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
16962478 GAATAGCTCG
* * * *
16962488 TACAATGCCAACGTCCCAGA-TGTGTTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACAG-GGTCTTACACGTAATCAAA
* * * * *
16962530 TAACAATGTCACTATCCCAGACAGGGTCCTACACGTAATCATA
1 T-ACAATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAA
*
16962573 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACACGTAA
16962610 ATCTCTAGTC
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 32 0.50
43 31 0.48
44 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAA
Found at i:16963943 original size:9 final size:9
Alignment explanation
Indices: 16963929--16963964 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
16963919 CAAAAATGAT
16963929 AATTTTTTG
1 AATTTTTTG
16963938 AA--TTTTG
1 AATTTTTTG
16963945 AATTTTTT-
1 AATTTTTTG
16963953 AATTTTTTG
1 AATTTTTTG
16963962 AAT
1 AAT
16963965 ATTTGTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.29
8 8 0.33
9 9 0.38
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (9 bp):
AATTTTTTG
Found at i:16963950 original size:16 final size:15
Alignment explanation
Indices: 16963929--16963958 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16963919 CAAAAATGAT
16963929 AATTTTTTGAATTTTG
1 AATTTTTT-AATTTTG
16963945 AATTTTTTAATTTT
1 AATTTTTTAATTTT
16963959 TTGAATATTT
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:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
AATTTTTTAATTTTG
Found at i:16964229 original size:14 final size:14
Alignment explanation
Indices: 16964210--16964236 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16964200 TCATTTAGCC
16964210 CAACCAAACTGGCA
1 CAACCAAACTGGCA
16964224 CAACCAAACTGGC
1 CAACCAAACTGGC
16964237 CCGGTGATTG
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:0.41, C:0.37, G:0.15, T:0.07
Consensus pattern (14 bp):
CAACCAAACTGGCA
Found at i:16969352 original size:14 final size:14
Alignment explanation
Indices: 16969333--16969364 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
16969323 AGGTCATTTA
16969333 GCCCAACCAAACTG
1 GCCCAACCAAACTG
16969347 GCCCAACCAAACTG
1 GCCCAACCAAACTG
16969361 GCCC
1 GCCC
16969365 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:16973042 original size:2 final size:2
Alignment explanation
Indices: 16973035--16973067 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16973025 TCAATATTAT
16973035 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16973068 AGGATTCGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16988461 original size:21 final size:20
Alignment explanation
Indices: 16988437--16988533 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 20
16988427 TGCTAATGTA
16988437 TTAATATCTTATTATAAATAT
1 TTAATAT-TTATTATAAATAT
*
16988458 TTAATGGTTATATT-TAAATAT
1 TTAAT-ATT-TATTATAAATAT
* * * *
16988479 TTAAAATATATTTTATATAT
1 TTAATATTTATTATAAATAT
*
16988499 TCTAATTAATTT-TTATAAATAA
1 T-TAA-T-ATTTATTATAAATAT
16988521 TTAATATTTATTA
1 TTAATATTTATTA
16988534 CTTAAAAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
19 8 0.14
20 12 0.20
21 23 0.39
22 13 0.22
23 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAATATTTATTATAAATAT
Found at i:17003219 original size:30 final size:28
Alignment explanation
Indices: 17003181--17003241 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
17003171 GGTGGGTGAA
17003181 TTAAAATTTAATCCATATACT-TTTCTTTT
1 TTAAAATTTAATCCATATA-TATTT-TTTT
* *
17003210 TTAAGAATTTGATCCTTATATATTTTTTT
1 TTAA-AATTTAATCCATATATATTTTTTT
17003239 TTA
1 TTA
17003242 GATTGCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (28 bp):
TTAAAATTTAATCCATATATATTTTTTT
Found at i:17003526 original size:15 final size:15
Alignment explanation
Indices: 17003496--17003532 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17003486 ACATTTTATT
17003496 TTTATTT-TTTGAAG
1 TTTATTTATTTGAAG
*
17003510 TTTATTTATTTGTAG
1 TTTATTTATTTGAAG
17003525 TTT-TTTAT
1 TTTATTTAT
17003533 AGTATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (15 bp):
TTTATTTATTTGAAG
Found at i:17005798 original size:35 final size:35
Alignment explanation
Indices: 17005759--17005827 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
17005749 GATTGTGAAG
* *
17005759 AAAAATATTTTTGAATTCTTTAGATGGTCATAACT
1 AAAAATATGTTTGAATTCTTTAAATGGTCATAACT
17005794 AAAAATATGTTTGAATTCTTTAAATGGTCATAAC
1 AAAAATATGTTTGAATTCTTTAAATGGTCATAAC
17005828 AAACATTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.41
Consensus pattern (35 bp):
AAAAATATGTTTGAATTCTTTAAATGGTCATAACT
Found at i:17007437 original size:25 final size:25
Alignment explanation
Indices: 17007415--17007475 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
17007405 ATAGCTCTTT
17007415 TGAGCTTCCCGATACTTGGCTCTCA
1 TGAGCTTCCCGATACTTGGCTCTCA
* * *
17007440 TGAGCTTCTCGATATTTGGCTCGCA
1 TGAGCTTCCCGATACTTGGCTCTCA
*
17007465 AGAGCTTCCCG
1 TGAGCTTCCCG
17007476 TTTACATGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.16, C:0.30, G:0.23, T:0.31
Consensus pattern (25 bp):
TGAGCTTCCCGATACTTGGCTCTCA
Found at i:17012359 original size:25 final size:25
Alignment explanation
Indices: 17012325--17012373 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
17012315 TAAGGTTAGA
*
17012325 TTGCTCTCTATGATCCAAATCAAAG
1 TTGCTCTCTACGATCCAAATCAAAG
17012350 TTGCTCTCTACGATCCAAATCAAA
1 TTGCTCTCTACGATCCAAATCAAA
17012374 TTAGGCTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.31
Consensus pattern (25 bp):
TTGCTCTCTACGATCCAAATCAAAG
Found at i:17014642 original size:16 final size:18
Alignment explanation
Indices: 17014623--17014660 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
17014613 TTCCCCACGT
17014623 TTTTGTTTC-TCTG-CAA
1 TTTTGTTTCTTCTGACAA
*
17014639 TTTTTTTTCTTCTGACAA
1 TTTTGTTTCTTCTGACAA
17014657 TTTT
1 TTTT
17014661 TTATCCCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.13, C:0.16, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTTGTTTCTTCTGACAA
Found at i:17014652 original size:17 final size:17
Alignment explanation
Indices: 17014622--17014662 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
17014612 TTTCCCCACG
17014622 TTTTTGTTTCTCTG-CAA
1 TTTTT-TTTCTCTGACAA
17014639 TTTTTTTTCTTCTGACAA
1 TTTTTTTTC-TCTGACAA
17014657 TTTTTT
1 TTTTTT
17014663 ATCCCTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.18
17 9 0.41
18 9 0.41
ACGTcount: A:0.12, C:0.15, G:0.07, T:0.66
Consensus pattern (17 bp):
TTTTTTTTCTCTGACAA
Found at i:17017268 original size:44 final size:44
Alignment explanation
Indices: 17017218--17017308 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
17017208 AACTCTGTTT
* *
17017218 TTAGTTTCTCACTTAAGCTCTAATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
*
17017262 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
17017306 TTA
1 TTA
17017309 TTTGACCTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.47
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
Found at i:17019082 original size:13 final size:13
Alignment explanation
Indices: 17019064--17019090 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17019054 GTAGCTCCGC
17019064 CAGCCATATCATT
1 CAGCCATATCATT
17019077 CAGCCATATCATT
1 CAGCCATATCATT
17019090 C
1 C
17019091 TTAGTTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (13 bp):
CAGCCATATCATT
Found at i:17020298 original size:13 final size:13
Alignment explanation
Indices: 17020280--17020304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17020270 TAATGGTATA
17020280 TTGAATCCATGAC
1 TTGAATCCATGAC
17020293 TTGAATCCATGA
1 TTGAATCCATGA
17020305 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:17020888 original size:27 final size:26
Alignment explanation
Indices: 17020857--17021034 Score: 142
Period size: 27 Copynumber: 6.6 Consensus size: 26
17020847 TAAATTGTAC
*
17020857 AGCACTAAGTGTGCGATTCTACTTTGT
1 AGCACTAAGTGTGCGATT-TACTATGT
* * * *
17020884 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTTACTATGT
* * *
17020910 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTTACTATGT
*
17020938 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTT-ACTATGT
* *
17020966 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTT-ACTATGT
* * *
17020993 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTACTATGT
*
17021020 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17021035 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 100 0.80
28 24 0.19
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTTACTATGT
Found at i:17020918 original size:54 final size:54
Alignment explanation
Indices: 17020857--17021034 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 54
17020847 TAAATTGTAC
* *
17020857 AGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-TACTTTGTAGCACTAAGTGTGCGAATTGAATATGAT
* ** ** * *
17020912 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTTACTTTGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * *
17020966 AGCACTAAGTGTGCGATTTGA-TTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTT-ACTT-TGTAGCACTAAGTGTGCGAATTGAATATGAT
*
17021020 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17021035 GGCTCAATAT
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
54 59 0.59
55 41 0.41
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTACTTTGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:17020981 original size:55 final size:54
Alignment explanation
Indices: 17020885--17021034 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 54
17020875 CTACTTTGTT
** * *
17020885 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACGCA
* * ** *
17020939 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
* * *
17020994 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
17021035 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 37 0.45
55 44 0.54
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
Found at i:17020981 original size:82 final size:81
Alignment explanation
Indices: 17020858--17021013 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
17020848 AAATTGTACA
* * *
17020858 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17020922 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17020939 GCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
17021003 GTGCGAGTTGA
64 GTGCGAATTGA
17021014 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 16 0.25
82 48 0.74
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17021025 original size:82 final size:81
Alignment explanation
Indices: 17020854--17021034 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
17020844 GATTAAATTG
* * *
17020854 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17020919 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17020935 TGCGGCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
17020998 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
17021017 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17021035 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 19 0.23
82 63 0.77
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17021045 original size:27 final size:27
Alignment explanation
Indices: 17020939--17021045 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
17020929 TGACCATGCG
* * * *
17020939 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
17020967 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
17020994 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
17021021 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
17021046 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:17030156 original size:12 final size:12
Alignment explanation
Indices: 17030137--17030168 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17030127 GCTTGAATTA
17030137 AATTAATTATAG
1 AATTAATTATAG
*
17030149 AGTTAATTATAG
1 AATTAATTATAG
17030161 AATTAATT
1 AATTAATT
17030169 TAATTGGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (12 bp):
AATTAATTATAG
Found at i:17032792 original size:22 final size:22
Alignment explanation
Indices: 17032767--17032811 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17032757 ACCGAGTTAA
*
17032767 ATTCATTCATATAGATCTGGAT
1 ATTCATTCATATAGATCCGGAT
17032789 ATTCATTCATATAGATCCGGAT
1 ATTCATTCATATAGATCCGGAT
17032811 A
1 A
17032812 GACCTAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (22 bp):
ATTCATTCATATAGATCCGGAT
Found at i:17032933 original size:22 final size:23
Alignment explanation
Indices: 17032907--17032970 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
17032897 TGTGTAACTA
*
17032907 AATTGTATATTTGTATGT-TTTG
1 AATTGTATATTTGTATGTGTGTG
*
17032929 AATTGAATA-TTGTTATGTGTGTG
1 AATTGTATATTTG-TATGTGTGTG
* *
17032952 AAATGTGTATTTGTCATGT
1 AATTGTATATTTGT-ATGT
17032971 AAAATACTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.09
22 13 0.39
23 10 0.30
24 7 0.21
ACGTcount: A:0.25, C:0.02, G:0.22, T:0.52
Consensus pattern (23 bp):
AATTGTATATTTGTATGTGTGTG
Found at i:17034083 original size:18 final size:17
Alignment explanation
Indices: 17034050--17034088 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
17034040 TTGTATAAAT
17034050 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
17034068 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
17034085 TGTG
1 TGTG
17034089 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:17034341 original size:23 final size:23
Alignment explanation
Indices: 17034315--17034388 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
17034305 GTGTTATTGA
17034315 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
17034338 TCAGTGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
17034360 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
17034383 TCAGTG
1 TCAGTG
17034389 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
22 20 0.44
23 25 0.56
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:17034367 original size:22 final size:22
Alignment explanation
Indices: 17034316--17034381 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
17034306 TGTTATTGAT
*
17034316 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACA-TC
*
17034339 CAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
17034361 CAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACAT
17034382 ATCAGTGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 21 0.52
23 19 0.47
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (22 bp):
CAGTGGTAGCTTCGGCTACATC
Found at i:17043064 original size:25 final size:25
Alignment explanation
Indices: 17042969--17043049 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
17042959 ATACACCACA
* * * *
17042969 GCTCTCACGAGCTTCCCGTTGTTTA
1 GCTCTCACGAGCTTCCAGATATTTG
* * * * *
17042994 TCTCTTATGAGCATCCTGATATTTG
1 GCTCTCACGAGCTTCCAGATATTTG
17043019 GCTCTCACGAGCTTCCAGATATTTG
1 GCTCTCACGAGCTTCCAGATATTTG
17043044 GCTCTC
1 GCTCTC
17043050 TTGATCTTCC
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTCTCACGAGCTTCCAGATATTTG
Found at i:17046193 original size:26 final size:26
Alignment explanation
Indices: 17046163--17046245 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
17046153 TATGAACACG
17046163 TGTGTAGTACTAAGTAAAGGCTACTA
1 TGTGTAGTACTAAGTAAAGGCTACTA
* *
17046189 TGTGTA-T-CGATAGATAATGG-TCAC-A
1 TGTGTAGTACTA-AG-TAAAGGCT-ACTA
* **
17046214 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTAAAGGCTACTA
17046240 TGTGTA
1 TGTGTA
17046246 CCTGATGGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
24 2 0.05
25 16 0.37
26 23 0.53
27 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (26 bp):
TGTGTAGTACTAAGTAAAGGCTACTA
Found at i:17046239 original size:51 final size:50
Alignment explanation
Indices: 17046163--17046383 Score: 185
Period size: 51 Copynumber: 4.4 Consensus size: 50
17046153 TATGAACACG
* ** * *
17046163 TGTGTAGTACTAAGTAAAGGCTACTATGTGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGAT--TGGTCACA
* * * * *
17046214 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCTGATGGCCTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-ATTGGTCACA
* * * * * *
17046265 TGTGTAGTACTATGTGTAGGCTACTACGTGAACCAGAAAGCTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGATTGGTCACA
* *** * *
17046315 TGTGTAGTACTATGTGTAGGCTACTACGTGTATTGGATGACAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT-AGATTGGTCACA
17046366 T-TGGTAGTACTATGTGCA
1 TGT-GTAGTACTATGTGCA
17046384 AACCACCGAA
Statistics
Matches: 141, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
50 43 0.30
51 93 0.66
52 4 0.03
53 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGATTGGTCACA
Found at i:17046331 original size:50 final size:51
Alignment explanation
Indices: 17046209--17046344 Score: 193
Period size: 50 Copynumber: 2.7 Consensus size: 51
17046199 TAGATAATGG
* * * * * ** *
17046209 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCTGATGGCCTTGG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCAGAAAGCCTTGA
17046260 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCAGAAAG-CTTGA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCAGAAAGCCTTGA
17046310 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTG
17046345 TATTGGATGA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 39 0.51
51 38 0.49
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCAGAAAGCCTTGA
Found at i:17064822 original size:136 final size:134
Alignment explanation
Indices: 17064387--17065076 Score: 612
Period size: 128 Copynumber: 5.2 Consensus size: 134
17064377 GACAAAACAC
* * * *
17064387 ATATGAATGAACATTGATCTTTGT-ATGAATGTTAGACATAAATGATAAAAACATCAACATAAAA
1 ATATGAATAAACATTGATCTTT-TAATGAATCTTAGACATAATTGA-CAAAACATCAACATAAAA
* * * * *
17064451 TCCAAAC--AC--ATTGAGATTATTACATGGT-GTTCTGCTTTTTACATTGCGAAAACGC-AATA
64 TCCAAACAAACATATTGAGATTAATACATGGTGGTT-TGGTTTTTACACTGC-AAGACGCTTATA
17064510 TTAGCAA-
127 TTAGCAAT
* * * *
17064517 ATATGAATGAGCATTGATCTCTTTTAATGAATGTTAGACATAACTGACAAAACTATCAACATAAA
1 ATATGAATAAACATTGA--TCTTTTAATGAATCTTAGACATAATTGACAAAAC-ATCAACAT-AA
* * * *
17064582 AATCCAAACAAACATATTGAGATAAATACATGATGGCTTGGTTTTTTACACTGCACAGACACTTA
62 AATCCAAACAAACATATTGAGATTAATACATGGTGGTTTGG-TTTTTACACTGCA-AGACGCTTA
* *
17064647 TACTAGAAAT
125 TATTAGCAAT
* * * * *
17064657 ATTTGAATAAAAATTGATCTTTTAGTGAATCTTAGACATAATTAATAAAACATCAACATAAAAAT
1 ATATGAATAAACATTGATCTTTTAATGAATCTTAGACATAATTGACAAAACATCAACAT-AAAAT
* * * *
17064722 CAAAACAAATATATTGAGATTAATGCACGGTGGTTTGGTTTTTACACTGCAAGGACGCTTATATT
65 CCAAACAAACATATTGAGATTAATACATGGTGGTTTGGTTTTTACACTGCAA-GACGCTTATATT
17064787 AGCAAT
129 AGCAAT
* * ** * * *
17064793 GTATGAATAAACATTGATCTTGTAATGAATCACAGACATAAGTGACAAAAAAACCAACATAAAAT
1 ATATGAATAAACATTGATCTTTTAATGAATCTTAGACATAATTGAC-AAAACATCAACATAAAAT
* * * * * *
17064858 CCAAAC-AA-ATA-T--G-TT--GAGATGGTAGATTGGTTTTTATACTGCACAGACACTTATATT
65 CCAAACAAACATATTGAGATTAATACATGGTGGTTTGGTTTTTACACTGCA-AGACGCTTATATT
17064915 AGCAAT
129 AGCAAT
* ** * * * *
17064921 ACATGAATGGACATTGATCTTTTAATGAATCTTGGACATAAGTGACGAAACATTAACATAAAATC
1 ATATGAATAAACATTGATCTTTTAATGAATCTTAGACATAATTGACAAAACATCAACATAAAATC
* * * *
17064986 CAAAC-AA-ATATTGAGATTAATACATGGTGATCTGGTTTTTACATTGCAAAAACGC--AGTATT
66 CAAACAAACATATTGAGATTAATACATGGTGGTTTGGTTTTTACACTGC-AAGACGCTTA-TATT
17065047 AGCAA-
129 AGCAAT
*
17065052 ATATGAATAAGCATTGATCTTTTAA
1 ATATGAATAAACATTGATCTTTTAA
17065077 AGAAAACATC
Statistics
Matches: 455, Mismatches: 80, Indels: 49
0.78 0.14 0.08
Matches are distributed among these distances:
127 25 0.05
128 77 0.17
129 1 0.00
130 19 0.04
131 31 0.07
132 42 0.09
133 35 0.08
134 4 0.01
135 5 0.01
136 74 0.16
137 75 0.16
138 46 0.10
139 8 0.02
140 13 0.03
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (134 bp):
ATATGAATAAACATTGATCTTTTAATGAATCTTAGACATAATTGACAAAACATCAACATAAAATC
CAAACAAACATATTGAGATTAATACATGGTGGTTTGGTTTTTACACTGCAAGACGCTTATATTAG
CAAT
Found at i:17064940 original size:128 final size:127
Alignment explanation
Indices: 17064619--17064996 Score: 337
Period size: 136 Copynumber: 2.9 Consensus size: 127
17064609 ACATGATGGC
* * ** * * *
17064619 TTGGTTTTTTACACTGCACA-GACACTTATACTAGAAATATTTGAATAAAAATTGATCTTTTAGT
1 TTGG-TTTTTACACTGCA-AGGACACTTATATTAGCAATACATGAATAAACATTGATCTTGTAAT
** * * * * * * *
17064683 GAATCTTAGACATAATTAATAAAACATCAACATAAAAATCAAAACAAATATATTGAGATTAATGC
64 GAATCACAGACATAAGTGACAAAAAACCAACAT-AAAATCCAAACAAATATGTTGAG----AT--
* *
17064748 ACGGTGGT
122 --GGTAGA
* **
17064756 TTGGTTTTTACACTGCAAGGACGCTTATATTAGCAATGTATGAATAAACATTGATCTTGTAATGA
1 TTGGTTTTTACACTGCAAGGACACTTATATTAGCAATACATGAATAAACATTGATCTTGTAATGA
17064821 ATCACAGACATAAGTGACAAAAAAACCAACATAAAATCCAAACAAATATGTTGAGATGGTAGA
66 ATCACAGACATAAGTGAC-AAAAAACCAACATAAAATCCAAACAAATATGTTGAGATGGTAGA
* ** *
17064884 TTGGTTTTTATACTGCACA-GACACTTATATTAGCAATACATGAATGGACATTGATCTTTTAATG
1 TTGGTTTTTACACTGCA-AGGACACTTATATTAGCAATACATGAATAAACATTGATCTTGTAATG
*** * * **
17064948 AATCTTGGACATAAGTGACGAAACATTAACATAAAATCCAAACAAATAT
65 AATCACAGACATAAGTGACAAAAAACCAACATAAAATCCAAACAAATAT
17064997 TGAGATTAAT
Statistics
Matches: 205, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
127 26 0.13
128 75 0.37
129 1 0.00
132 2 0.01
135 1 0.00
136 85 0.41
137 15 0.07
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (127 bp):
TTGGTTTTTACACTGCAAGGACACTTATATTAGCAATACATGAATAAACATTGATCTTGTAATGA
ATCACAGACATAAGTGACAAAAAACCAACATAAAATCCAAACAAATATGTTGAGATGGTAGA
Found at i:17066011 original size:50 final size:50
Alignment explanation
Indices: 17065951--17066046 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
17065941 GCTCACTTTA
* *
17065951 AAGTTTGAAGGTTAAATTACTATTAGGTGCCTAAATTTGGCAATAATTCT
1 AAGTTGGAAGGTTAAATCACTATTAGGTGCCTAAATTTGGCAATAATTCT
* *
17066001 AAGTTGGAAGGTTAAATCACTATTAGTTGCCTAAATTTGGTAATAA
1 AAGTTGGAAGGTTAAATCACTATTAGGTGCCTAAATTTGGCAATAA
17066047 CTCTCATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (50 bp):
AAGTTGGAAGGTTAAATCACTATTAGGTGCCTAAATTTGGCAATAATTCT
Found at i:17066227 original size:31 final size:31
Alignment explanation
Indices: 17066161--17066258 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 31
17066151 TTAGTCATTG
* * *
17066161 AACTTGACAATTATTCTCATATCGGGTC-TA
1 AACTTGATAATTATTCTCATATTGGGACTTA
* *
17066191 AACTTGATAATTATTCTCACATTGAGACTTA
1 AACTTGATAATTATTCTCATATTGGGACTTA
* * * *
17066222 AACTTGGTAATTCTTTTCATATTGGGACTTG
1 AACTTGATAATTATTCTCATATTGGGACTTA
17066253 AACTTG
1 AACTTG
17066259 GCAGCTATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
30 23 0.41
31 33 0.59
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (31 bp):
AACTTGATAATTATTCTCATATTGGGACTTA
Found at i:17071274 original size:2 final size:2
Alignment explanation
Indices: 17071267--17071295 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17071257 TGAGTGGAAA
17071267 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17071296 ATACGTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17071995 original size:13 final size:13
Alignment explanation
Indices: 17071977--17072001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17071967 TTTAACTATT
17071977 TTAGATTTTCTAA
1 TTAGATTTTCTAA
17071990 TTAGATTTTCTA
1 TTAGATTTTCTA
17072002 TAATATGTGT
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:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
TTAGATTTTCTAA
Found at i:17078421 original size:18 final size:17
Alignment explanation
Indices: 17078400--17078441 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
17078390 ATTGAAGCCA
17078400 AGAAAAAAAAACAAAAGG
1 AGAAAAAAAAA-AAAAGG
*
17078418 AGAATGAAAAAAAAAAGG
1 AGAA-AAAAAAAAAAAGG
17078436 AGAAAA
1 AGAAAA
17078442 TTGAGAGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.67
19 6 0.29
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.02
Consensus pattern (17 bp):
AGAAAAAAAAAAAAAGG
Found at i:17078573 original size:7 final size:7
Alignment explanation
Indices: 17078561--17078591 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
17078551 TATATATGTG
17078561 TATAATA
1 TATAATA
17078568 TATAATA
1 TATAATA
17078575 TATAATA
1 TATAATA
17078582 TATAATA
1 TATAATA
17078589 TAT
1 TAT
17078592 TTCTAACTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATAATA
Found at i:17078773 original size:18 final size:18
Alignment explanation
Indices: 17078729--17078784 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
17078719 CGTCTTCAAA
17078729 TTAT-TATTTT-AATTTT
1 TTATATATTTTAAATTTT
* *
17078745 TTTTAAAATTTTAAATTTT
1 TTAT-ATATTTTAAATTTT
17078764 TTATATATTTTTAGAATTTT
1 TTATATA-TTTTA-AATTTT
17078784 T
1 T
17078785 CTTAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 3 0.10
18 7 0.23
19 14 0.45
20 7 0.23
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATATATTTTAAATTTT
Found at i:17078829 original size:18 final size:18
Alignment explanation
Indices: 17078808--17078849 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17078798 ATTTTAAATT
17078808 TTTTTTAAA-TATTTTGAA
1 TTTTTTAAATTATTTTG-A
**
17078826 TTTTAAAAATTATTTTGA
1 TTTTTTAAATTATTTTGA
17078844 TTTTTT
1 TTTTTT
17078850 TTTGTAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTTTAAATTATTTTGA
Found at i:17079089 original size:25 final size:28
Alignment explanation
Indices: 17079055--17079122 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 28
17079045 ATAATACAAC
17079055 ATTTATATATAATTT-AT-ATATTTTTA
1 ATTTATATATAATTTAATAATATTTTTA
*
17079081 ATTTA-ATATCATTTAATAATA-TTTTA
1 ATTTATATATAATTTAATAATATTTTTA
* *
17079107 ACCTTATTTATAATTT
1 A-TTTATATATAATTT
17079123 TATTTTACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 8 0.24
26 13 0.38
27 6 0.18
28 7 0.21
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTTATATATAATTTAATAATATTTTTA
Found at i:17079105 original size:26 final size:26
Alignment explanation
Indices: 17079055--17079122 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
17079045 ATAATACAAC
17079055 ATTTATATATAATTTATATATTTTTA
1 ATTTATATATAATTTATATATTTTTA
*
17079081 ATTTA-ATATCATTTA-ATAATATTTTA
1 ATTTATATATAATTTATAT-AT-TTTTA
* *
17079107 ACCTTATTTATAATTT
1 A-TTTATATATAATTT
17079123 TATTTTACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 2 0.06
25 11 0.32
26 11 0.32
27 3 0.09
28 7 0.21
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTATATATAATTTATATATTTTTA
Found at i:17079364 original size:21 final size:20
Alignment explanation
Indices: 17079323--17079361 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17079313 CTCCGTCCAC
17079323 ATTTTTTTAATTGAAAATTA
1 ATTTTTTTAATTGAAAATTA
*
17079343 ATTTTTGTT-ATTTAAAATT
1 ATTTTT-TTAATTGAAAATT
17079362 TAAAAATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTTTTAATTGAAAATTA
Found at i:17085179 original size:24 final size:23
Alignment explanation
Indices: 17085118--17085179 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
17085108 TATATATTCT
17085118 AATTAA-ATTTTATAAATAATTAA
1 AATTAATA-TTTATAAATAATTAA
* * *
17085141 TATTAATTACTTATAAATATTTAA
1 AATTAA-TATTTATAAATAATTAA
17085165 AATTAATATTATATA
1 AATTAATATT-TATA
17085180 TTAAAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 8 0.26
24 22 0.71
25 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTAATATTTATAAATAATTAA
Found at i:17086657 original size:80 final size:80
Alignment explanation
Indices: 17086522--17086682 Score: 234
Period size: 80 Copynumber: 2.0 Consensus size: 80
17086512 AGATAAGATG
* * *
17086522 TAGATCTTAGAACAACATGAAGACATGTTAACCCAGAAATGTCTGAATTCTATCCAAAAAGTCAT
1 TAGATCTTAGAACAACATGAAGACATATTAACCCAAAAATGTCTGAATTCCATCCAAAAAGTCAT
*
17086587 CACAAGTTGGCTAGT
66 CACAAGTTGACTAGT
* * **
17086602 TAGATCTTAGAACACCATGAAGACATATTAACCCAAAAATG-CATGGATTCCATCCAAAAAGTTG
1 TAGATCTTAGAACAACATGAAGACATATTAACCCAAAAATGTC-TGAATTCCATCCAAAAAGTCA
17086666 TCACAAGTTGACTAGT
65 TCACAAGTTGACTAGT
17086682 T
1 T
17086683 TTCCAAACTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 1 0.01
80 71 0.99
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (80 bp):
TAGATCTTAGAACAACATGAAGACATATTAACCCAAAAATGTCTGAATTCCATCCAAAAAGTCAT
CACAAGTTGACTAGT
Found at i:17089806 original size:14 final size:14
Alignment explanation
Indices: 17089787--17089818 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
17089777 AAATACACTA
17089787 AAATAATCCTTCAC
1 AAATAATCCTTCAC
17089801 AAATAATCCTTCAC
1 AAATAATCCTTCAC
17089815 AAAT
1 AAAT
17089819 CGAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAATCCTTCAC
Found at i:17090116 original size:52 final size:53
Alignment explanation
Indices: 17090040--17090142 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 53
17090030 ATAGATTGCA
** *
17090040 AATTAATTATTCATGTGCACTATT-CAAATTAAAAGTGATGATTTATCATCTT
1 AATTAATTATTCATAAGCACTATTCCAAATTAAAACTGATGATTTATCATCTT
*
17090092 AATTAATTTTTCATAAGCACTATTCCAAATTAAAACTGATGATTTATCATC
1 AATTAATTATTCATAAGCACTATTCCAAATTAAAACTGATGATTTATCATC
17090143 CAATGAATAC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 21 0.46
53 25 0.54
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.41
Consensus pattern (53 bp):
AATTAATTATTCATAAGCACTATTCCAAATTAAAACTGATGATTTATCATCTT
Found at i:17091536 original size:3 final size:3
Alignment explanation
Indices: 17091528--17091561 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
17091518 GATTAATATG
* *
17091528 ATA ATA ATA ATA ATA ATA GTA ATG ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17091562 GAAAAGTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17092536 original size:6 final size:6
Alignment explanation
Indices: 17092525--17092554 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
17092515 ACAACAGAAA
17092525 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
17092555 AACGAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:17092540 original size:13 final size:12
Alignment explanation
Indices: 17092525--17092554 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
17092515 ACAACAGAAA
17092525 AAAAATAAAAAT
1 AAAAATAAAAAT
17092537 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
17092550 AAAAA
1 AAAAA
17092555 AACGAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:17096845 original size:20 final size:20
Alignment explanation
Indices: 17096820--17096860 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17096810 ATTGGAAAGG
17096820 AATTTGTAGGATTTTTGGCT
1 AATTTGTAGGATTTTTGGCT
17096840 AATTTGTAGGATTTTTGGCT
1 AATTTGTAGGATTTTTGGCT
17096860 A
1 A
17096861 TCTTAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (20 bp):
AATTTGTAGGATTTTTGGCT
Found at i:17100794 original size:43 final size:42
Alignment explanation
Indices: 17100643--17100806 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 42
17100633 GACTCGTACA
* *
17100643 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-ATCG
17100686 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC--AAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA-CACAAT-CG
* *
17100727 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAA-TCG
* *
17100770 ATGCCAACGTCCCAGACGTAGTCTTACACGAAAACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAC
17100807 GTATCGAAAT
Statistics
Matches: 103, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
40 2 0.02
41 29 0.28
42 7 0.07
43 63 0.61
44 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAATCG
Found at i:17100794 original size:84 final size:84
Alignment explanation
Indices: 17100643--17100798 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 84
17100633 GACTCGTACA
* * * *
17100643 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACAGAGT
17100708 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
*
17100727 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGAC-GT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGACAG-
17100789 AGTCTTACAC
63 AGTCTTACAC
17100799 GAAAACACGT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
83 2 0.03
84 60 0.94
85 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACAGAGT
CTTACACAAATCAAATACG
Found at i:17103370 original size:54 final size:55
Alignment explanation
Indices: 17103310--17103417 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
17103300 AAATTATAGA
* *
17103310 TTGCAAATT-ATTATTCATTAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCACTATTAAAATTAAAAGTGATGATTTATCATC
17103364 TTGCAAATTAATTATTCATAAGCACTATTAAAATTAAAAGTGATGATTTATCAT
1 TTGCAAATTAATTATTCATAAGCACTATTAAAATTAAAAGTGATGATTTATCAT
17103418 TCCATGGGAC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 9 0.18
55 42 0.82
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (55 bp):
TTGCAAATTAATTATTCATAAGCACTATTAAAATTAAAAGTGATGATTTATCATC
Found at i:17105600 original size:22 final size:19
Alignment explanation
Indices: 17105574--17105618 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
17105564 TAGCCTTGGT
17105574 TTAAAACAATAATAAATTTCA
1 TTAAAA-AA-AATAAATTTCA
17105595 TGT-AAAAAAATAAATTTCA
1 T-TAAAAAAAATAAATTTCA
17105614 TTAAA
1 TTAAA
17105619 TATTTCATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 2 0.09
21 4 0.18
22 1 0.05
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAAAAAATAAATTTCA
Found at i:17112501 original size:30 final size:30
Alignment explanation
Indices: 17112452--17112510 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
17112442 AATTAAAAAT
* *
17112452 TAAGGGCTTATTTGGATACTAAATAAAGTA
1 TAAGGGCTTACTTGAATACTAAATAAAGTA
* * *
17112482 TAAGGGCTTGCTTGAATACTGATTAAAGT
1 TAAGGGCTTACTTGAATACTAAATAAAGT
17112511 TTAACTGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (30 bp):
TAAGGGCTTACTTGAATACTAAATAAAGTA
Found at i:17130091 original size:20 final size:20
Alignment explanation
Indices: 17130066--17130105 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17130056 CGTAAAATGA
*
17130066 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
17130086 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
17130106 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:17130095 original size:34 final size:35
Alignment explanation
Indices: 17130051--17130117 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
17130041 CAGTAAAATA
*
17130051 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
17130085 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
17130118 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:17130121 original size:14 final size:15
Alignment explanation
Indices: 17130045--17130121 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
17130035 GATTGCCAGT
* *
17130045 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
17130059 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
17130073 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
17130093 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
17130108 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
17130122 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:17141428 original size:209 final size:208
Alignment explanation
Indices: 17141013--17141436 Score: 814
Period size: 207 Copynumber: 2.0 Consensus size: 208
17141003 ATTTATCTTT
17141013 TGAACTTAATTAACCAATGCCTATACACTATAACAGTGTAAACCATAATGTACCACAACAAACAA
1 TGAACTTAATTAACCAATGCCTATACACTATAACAGTGTAAACCATAATGTACCACAACAAACAA
17141078 GCAGGCCTTTCAATGTGATGCAAAATGCTGAACTTTCCACCATATATTGCCACAAAAAGTAAAAC
66 GCAGGCCTTTCAATGTGATGCAAAATGCTGAACTTTCCACCA-ATATTGCCACAAAAAGTAAAAC
*
17141143 AATATACATGTAAATGAAAGTGCGCCATATAGGTTGAAACTGCAAGCTTGCAATCTTCTCCTTAG
130 AATATACATGTAAATGAAAGCGCGCCATATAGGTTGAAACTGCAAGCTTGCAATCTTCTCCTTAG
17141208 AAACAATATATATA
195 AAACAATATATATA
*
17141222 TGAACTTAATTAACCAATGCCTATACACTATAACAGTGTAAACCATAATGTACCACAGCAAACAA
1 TGAACTTAATTAACCAATGCCTATACACTATAACAGTGTAAACCATAATGTACCACAACAAACAA
17141287 GCAGGCCTTTCAATGTGATGCAAAATGCTGAACTTTCCACC-ATATTGCCACAAAAAGTAAAACA
66 GCAGGCCTTTCAATGTGATGCAAAATGCTGAACTTTCCACCAATATTGCCACAAAAAGTAAAACA
17141351 ATATACATGTAAATGAAAGCGCGCCATATAGGTTGAAACTGCAAGCTTGCAATCTTCTCCTTAGA
131 ATATACATGTAAATGAAAGCGCGCCATATAGGTTGAAACTGCAAGCTTGCAATCTTCTCCTTAGA
17141416 AACAATATATATA
196 AACAATATATATA
17141429 TGAACTTA
1 TGAACTTA
17141437 TATTTGATGC
Statistics
Matches: 213, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
207 108 0.51
209 105 0.49
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (208 bp):
TGAACTTAATTAACCAATGCCTATACACTATAACAGTGTAAACCATAATGTACCACAACAAACAA
GCAGGCCTTTCAATGTGATGCAAAATGCTGAACTTTCCACCAATATTGCCACAAAAAGTAAAACA
ATATACATGTAAATGAAAGCGCGCCATATAGGTTGAAACTGCAAGCTTGCAATCTTCTCCTTAGA
AACAATATATATA
Found at i:17145134 original size:28 final size:29
Alignment explanation
Indices: 17145103--17145172 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
17145093 TAGAAACTAC
17145103 ATTAAATTAGTTCT-T-TTATTATTAAAAA
1 ATTAAATTAGTTCTATATTATTA-TAAAAA
* *
17145131 ATTAATTTTGTCTCTATATTATTATAAAAA
1 ATTAAATTAGT-TCTATATTATTATAAAAA
*
17145161 ATTAAATAAGTT
1 ATTAAATTAGTT
17145173 TAAATTGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 9 0.26
29 4 0.12
30 15 0.44
31 6 0.18
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (29 bp):
ATTAAATTAGTTCTATATTATTATAAAAA
Found at i:17147727 original size:26 final size:26
Alignment explanation
Indices: 17147695--17147777 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
17147685 AGCTTTTCGG
17147695 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* * *
17147721 TACACAT-GT-GACCATCATTTA-TCAA
1 TACACATAGTAG-CCTTCACTTAGT-AC
* **
17147746 TTCACATAGTAGCCTTCACACAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
17147772 TACACA
1 TACACA
17147778 CGTGACCAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 2 0.05
25 17 0.40
26 21 0.50
27 2 0.05
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.29
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:17147773 original size:51 final size:51
Alignment explanation
Indices: 17147697--17147938 Score: 297
Period size: 51 Copynumber: 4.7 Consensus size: 51
17147687 CTTTTCGGTA
** * *
17147697 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATT
1 CACATAGTAGCCTTCACACAGTACTACACATGTGACCATTATTTATCGATT
* * * * * *
17147748 CACATAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTCTCGGTA
1 CACATAGTAGCCTTCACACAGTACTACACATGTGACCATTA-TTTATCGATT
* * ** *
17147799 CATATTGTAGCCTTCACTTAGTACTACACATGTGACTATTATTTATCGATT
1 CACATAGTAGCCTTCACACAGTACTACACATGTGACCATTATTTATCGATT
* *
17147850 CACGTAGTAGCCTTCACACAGTACTACACATGTGACAATTATTTATCGATT
1 CACATAGTAGCCTTCACACAGTACTACACATGTGACCATTATTTATCGATT
* *
17147901 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCA
1 CACATAGTAGCCTTCACACAGTACTACACATGTGACCA
17147939 ACACTTTCAC
Statistics
Matches: 161, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
50 1 0.01
51 159 0.99
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (51 bp):
CACATAGTAGCCTTCACACAGTACTACACATGTGACCATTATTTATCGATT
Found at i:17147859 original size:102 final size:102
Alignment explanation
Indices: 17147683--17147938 Score: 336
Period size: 102 Copynumber: 2.5 Consensus size: 102
17147673 ATTTCGAACT
*
17147683 AAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATT
1 AAAGCTTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATT
17147748 CACATAGTAGCCTTCACACAGTACTACACACGTGACC
66 CACATAGTAGCCTTCACACAGTACTACACACGTGACC
* * * * *
17147785 AAAGCTTCTCGGTACATATTGTAGCCTTCACTTAGTACTACACATGTGACTATTATTTATCGATT
1 AAAGCTTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATT
* *
17147850 CACGTAGTAGCCTTCACACAGTACTACACATGTGA-C
66 CACATAGTAGCCTTCACACAGTACTACACACGTGACC
* * * * * ** *
17147886 AATTA-TTTATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCA
1 AA--AGCTTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCA
17147939 ACACTTTCAC
Statistics
Matches: 133, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
101 3 0.02
102 129 0.97
103 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (102 bp):
AAAGCTTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATT
CACATAGTAGCCTTCACACAGTACTACACACGTGACC
Found at i:17148190 original size:15 final size:16
Alignment explanation
Indices: 17148161--17148192 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17148151 AATCCAGTCC
17148161 AAAAATCACATTTTTG
1 AAAAATCACATTTTTG
*
17148177 AAAAATTACATTTTTG
1 AAAAATCACATTTTTG
17148193 CCCCTAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAAATCACATTTTTG
Found at i:17152879 original size:21 final size:22
Alignment explanation
Indices: 17152855--17152899 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
17152845 AGAAAAAGAG
17152855 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
17152876 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
17152898 AA
1 AA
17152900 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:17153217 original size:35 final size:34
Alignment explanation
Indices: 17153173--17153427 Score: 297
Period size: 35 Copynumber: 7.6 Consensus size: 34
17153163 GTAATTTATT
*
17153173 TCCTGTTCACGCATTATTCTGTTGCAGGGAATCTT
1 TCCTGTTCACGCATTATT-TGTTGCAGGGAATCTC
* *
17153208 TCCTGTTCA--CATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACGCATTATTTGTTGCAGGGAATCTC
17153240 TCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
1 TCCTGTTCACGCATTA-TTTGTTGCAGGGAATCTC
* * *
17153275 TCCTGTTCACACATTATTTTGTTGCAGTGAATCTT
1 TCCTGTTCACGCATTA-TTTGTTGCAGGGAATCTC
* * *
17153310 TCCTGTTCA--CATCATTTCTTGTAGGGAATCTC
1 TCCTGTTCACGCATTATTTGTTGCAGGGAATCTC
*
17153342 TCCTGTTCACGGATTATTTTGTTGCAGGGAATCTC
1 TCCTGTTCACGCATTA-TTTGTTGCAGGGAATCTC
* * *
17153377 TCTTGTTCA--CATCATTTCTTGCAGGGAATCTC
1 TCCTGTTCACGCATTATTTGTTGCAGGGAATCTC
* *
17153409 TCCTGTTCATGTATTATTT
1 TCCTGTTCACGCATTATTT
17153428 CTTTTTGGAC
Statistics
Matches: 188, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
32 71 0.38
33 13 0.07
34 13 0.07
35 91 0.48
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (34 bp):
TCCTGTTCACGCATTATTTGTTGCAGGGAATCTC
Found at i:17153349 original size:102 final size:102
Alignment explanation
Indices: 17153173--17153417 Score: 388
Period size: 102 Copynumber: 2.4 Consensus size: 102
17153163 GTAATTTATT
* *
17153173 TCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATC
1 TCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATC
17153238 TCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
66 TCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
* *
17153275 TCCTGTTCACACATTATTTTGTTGCAGTGAATCTTTCCTGTTCACATCATTTCTTGTAGGGAATC
1 TCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATC
*
17153340 TCTCCTGTTCACGGATTATTTTGTTGCAGGGAATCTC
66 TCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
* * * *
17153377 TCTTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
17153418 TGTATTATTT
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
99 24 0.18
100 6 0.05
102 103 0.77
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (102 bp):
TCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATC
TCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTC
Found at i:17153425 original size:67 final size:67
Alignment explanation
Indices: 17153194--17153427 Score: 303
Period size: 67 Copynumber: 3.5 Consensus size: 67
17153184 CATTATTCTG
* * * *
17153194 TTGCAGGGAATCTTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCA
*
17153256 TTTTG
64 -TTTC
* * *
17153261 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGTGAATCTTTCCTGTTCACATCATT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
17153326 TC
66 TC
* * *
17153328 TTGTAGGGAATCTCTCCTGTTCACGGATTATTTTGTTGCAGGGAATCTCTCTTGTTCACATCATT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
17153393 TC
66 TC
* *
17153395 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
17153428 CTTTTTGGAC
Statistics
Matches: 148, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
67 116 0.78
68 4 0.03
69 4 0.03
70 24 0.16
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (67 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
TC
Found at i:17156258 original size:21 final size:22
Alignment explanation
Indices: 17156228--17156272 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
17156218 GAGCAAATTG
17156228 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
17156250 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
17156271 TT
1 TT
17156273 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:17172191 original size:23 final size:24
Alignment explanation
Indices: 17172150--17172199 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
17172140 GCTTAGGTTT
* * *
17172150 TTTTTTTAATTTGATGTACTTGAG
1 TTTTTTTAAATTGAAGTACTTAAG
17172174 TTTTTTTAAATT-AAGTACTTAAG
1 TTTTTTTAAATTGAAGTACTTAAG
17172197 TTT
1 TTT
17172200 GACTTCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (24 bp):
TTTTTTTAAATTGAAGTACTTAAG
Found at i:17184237 original size:20 final size:21
Alignment explanation
Indices: 17184192--17184238 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
17184182 AATACCATCC
* *
17184192 TTGA-AATAAAATTTATTGTT
1 TTGATAATAAAAATTATTCTT
17184212 TT-ATAATAAAAATT-TTCTT
1 TTGATAATAAAAATTATTCTT
17184231 TTGATAAT
1 TTGATAAT
17184239 TTCATTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (21 bp):
TTGATAATAAAAATTATTCTT
Found at i:17186318 original size:22 final size:22
Alignment explanation
Indices: 17186293--17186344 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
17186283 TATTTTTATT
* *
17186293 TAAATTTAATTATAAAAATATA
1 TAAATTTAAATATAAAAATAAA
* *
17186315 TAAATATAAATATAAATATAAA
1 TAAATTTAAATATAAAAATAAA
17186337 TATAATTT
1 TA-AATTT
17186345 TTTATATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTTAAATATAAAAATAAA
Found at i:17186323 original size:6 final size:6
Alignment explanation
Indices: 17186312--17186341 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
17186302 TTATAAAAAT
17186312 ATATAA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA
17186342 TTTTTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:17190808 original size:61 final size:59
Alignment explanation
Indices: 17190694--17190817 Score: 203
Period size: 61 Copynumber: 2.1 Consensus size: 59
17190684 TCAGCTCATG
*
17190694 GTAATGGCTTTGTCGCAACAAGCACAAACAAGTTGCAACTTACCATGCAACTAATTTTA
1 GTAATGGCTTTGTCGCAACAAGCACAAACAAGTTGCAACTCACCATGCAACTAATTTTA
* *
17190753 GTAATGGCTTTGTCGCAACAAGTCACAAACTACGTTGCAACTCACCATGCAACTAATTTTT
1 GTAATGGCTTTGTCGCAACAAG-CACAAAC-AAGTTGCAACTCACCATGCAACTAATTTTA
17190814 GTAA
1 GTAA
17190818 CTAGTCGCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 22 0.37
60 7 0.12
61 31 0.52
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (59 bp):
GTAATGGCTTTGTCGCAACAAGCACAAACAAGTTGCAACTCACCATGCAACTAATTTTA
Found at i:17193083 original size:18 final size:19
Alignment explanation
Indices: 17193054--17193093 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
17193044 TATTTTAAAG
17193054 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
17193073 TTATTTA-GTAGATAAATC
1 TTATTTAGGTAGATAAATC
17193091 TTA
1 TTA
17193094 GAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:17193176 original size:41 final size:42
Alignment explanation
Indices: 17193131--17193213 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 42
17193121 ATATTTTATT
*
17193131 TTATCTTTTAG-TAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGATAATTTATTAGAATAAGAGAATTATTTTCC
*
17193172 TTATCTTTTAGTACTAATTTATTAGAATAAGGGAATTATTTT
1 TTATCTTTTAG-A-TAATTTATTAGAATAAGAGAATTATTTT
17193214 TCTAATTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 11 0.30
44 26 0.70
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (42 bp):
TTATCTTTTAGATAATTTATTAGAATAAGAGAATTATTTTCC
Found at i:17197025 original size:41 final size:41
Alignment explanation
Indices: 17196978--17197057 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
17196968 ATATTTTATT
17196978 TTATCTTTTAGTAATTTATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAATTTATTAGAATAAGAGAATTATTTTCC
**
17197019 TTATCTTTTAGTTCTTTATTAGAATAAGAGAATTATTTT
1 TTATCTTTTAGTAATTTATTAGAATAAGAGAATTATTTT
17197058 TCCAATTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (41 bp):
TTATCTTTTAGTAATTTATTAGAATAAGAGAATTATTTTCC
Found at i:17202453 original size:11 final size:11
Alignment explanation
Indices: 17202439--17202464 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17202429 TATTTTTTAA
17202439 TTTTAAAATAC
1 TTTTAAAATAC
17202450 TTTTAAAATAC
1 TTTTAAAATAC
17202461 TTTT
1 TTTT
17202465 TTAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:17202475 original size:11 final size:11
Alignment explanation
Indices: 17202461--17202520 Score: 86
Period size: 11 Copynumber: 5.5 Consensus size: 11
17202451 TTTAAAATAC
17202461 TTTTTTAAATT
1 TTTTTTAAATT
17202472 TTTTTTAAATT
1 TTTTTTAAATT
17202483 TTTTTTAAATT
1 TTTTTTAAATT
* *
17202494 TTTTTAAAATAC
1 TTTTTTAAAT-T
17202506 TTTTTT-AATT
1 TTTTTTAAATT
17202516 TTTTT
1 TTTTT
17202521 AATTTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
10 5 0.11
11 34 0.77
12 5 0.11
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTTAAATT
Found at i:17202475 original size:22 final size:23
Alignment explanation
Indices: 17202450--17202522 Score: 114
Period size: 22 Copynumber: 3.3 Consensus size: 23
17202440 TTTAAAATAC
17202450 TTTTAAAATACTTTTTTAAATTT
1 TTTTAAAATACTTTTTTAAATTT
* *
17202473 TTTTTAAAT-TTTTTTTAAATTT
1 TTTTAAAATACTTTTTTAAATTT
17202495 TTTTAAAATACTTTTTT-AATTT
1 TTTTAAAATACTTTTTTAAATTT
17202517 TTTTAA
1 TTTTAA
17202523 TTTTAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
22 31 0.69
23 14 0.31
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTAAAATACTTTTTTAAATTT
Found at i:17202534 original size:28 final size:32
Alignment explanation
Indices: 17202471--17202565 Score: 110
Period size: 32 Copynumber: 3.0 Consensus size: 32
17202461 TTTTTTAAAT
17202471 TTTTTTTAAATTTT-TTTTAAATTTTTTTAAAATAC
1 TTTTTTT-AATTTTATTTT-AA--TTTTTAAAATAC
17202506 -TTTTTTAA-TTT-TTTTAA-TTTTAAAATAC
1 TTTTTTTAATTTTATTTTAATTTTTAAAATAC
17202534 TTTTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTTTTAA-TTTTATTTTAATTTTTAAAATA
17202566 AATTTTTGGT
Statistics
Matches: 55, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
28 11 0.20
29 8 0.15
31 5 0.09
32 13 0.24
33 12 0.22
34 6 0.11
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (32 bp):
TTTTTTTAATTTTATTTTAATTTTTAAAATAC
Found at i:17227184 original size:23 final size:23
Alignment explanation
Indices: 17227145--17227201 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
17227135 ACTTCTTTAA
17227145 AAAAATAAAATAGAATAAAATT-T
1 AAAAAT-AAATAGAATAAAATTAT
* *
17227168 AAAAATAAATACTAATAATATTAT
1 AAAAATAAATA-GAATAAAATTAT
*
17227192 AAATATAAAT
1 AAAAATAAAT
17227202 TTTATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.17
23 14 0.48
24 10 0.34
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAATAAATAGAATAAAATTAT
Found at i:17230447 original size:18 final size:18
Alignment explanation
Indices: 17230424--17230465 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17230414 GCCAGGTGCA
* *
17230424 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
17230442 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
17230460 TTTCCT
1 TATCCT
17230466 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:17231427 original size:125 final size:125
Alignment explanation
Indices: 17231205--17231493 Score: 420
Period size: 125 Copynumber: 2.3 Consensus size: 125
17231195 GCCAAATAGG
* * * * *
17231205 AACTACTGTTGCAAAAGAGCATCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
* *
17231270 TGATTGAAGGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGACTAAAGGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* *
17231330 AACTACTGTAGCAAAAGAGCGTACACATGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
** * *
17231395 TG-CTAAAGTGTTTTTGACACTATTTGCTCAGAAATGTCTTCTCAAAATTATTTTTTGAGG
66 TGACTAAAG-GTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
*
17231455 AACTATTGTAGCAAAAGAGCG-CCTACGTGGGAGCTTTTT
1 AACTACTGTAGCAAAAGAGCGTCC-ACGTGGGAGCTTTTT
17231494 CAAATTAACA
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
124 5 0.03
125 141 0.97
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (125 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCC
TGACTAAAGGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:17231701 original size:96 final size:96
Alignment explanation
Indices: 17231527--17231707 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 96
17231517 AGTAACCCTA
17231527 AACCCCAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCAAAACAATAAACCCTAATCTAATT
1 AACCCCAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCAAAACAATAAACCCTAATCTAATT
*
17231592 TTTCTAAAATTTATAATTAATTTACTCAAGT
66 TTTCAAAAATTTATAATTAATTTACTCAAGT
* * ***
17231623 AACCCTAAACCCTAGTTTATTTGATTTTTTCCTTAAAAA-CCATAAATGCTAAACCCTAATCTAA
1 AACCCCAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCA-AAACAATAAACCCTAATCTAA
17231687 TTTTT-AAAAATTTATAATTAA
64 TTTTTCAAAAATTTATAATTAA
17231708 CCTAAACCCT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
96 40 0.52
97 37 0.48
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (96 bp):
AACCCCAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCAAAACAATAAACCCTAATCTAATT
TTTCAAAAATTTATAATTAATTTACTCAAGT
Found at i:17231716 original size:89 final size:91
Alignment explanation
Indices: 17231523--17231749 Score: 257
Period size: 96 Copynumber: 2.5 Consensus size: 91
17231513 ATTAAGTAAC
*
17231523 CCTAAACCCCAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCAAAACAATAAACCCTAATC
1 CCTAAACCCTAAACCCT-ATTTATTTGATTTTTTCCTTAAAAACCCAAAACAATAAACCCTAATC
*
17231587 TAATTTTTCTAAAATTTATAATTAATTTA
65 TAATTTTTCAAAAATTTATAATTAA--TA
* ***
17231616 CTCAAGTAACCCTAAACCCTAGTTTATTTGATTTTTTCCTTAAAAA-CCATAAATGCTAAACCCT
1 C-CTA--AACCCTAAACCCTA-TTTATTTGATTTTTTCCTTAAAAACCCA-AAACAATAAACCCT
17231680 AATCTAATTTTT-AAAAATTTATAATT-A-A
61 AATCTAATTTTTCAAAAATTTATAATTAATA
* * *
17231708 CCTAAACCCTAAACCTTTATTTATTTAATTTTGTCCTTAAAA
1 CCTAAACCCTAAACC-CTATTTATTTGATTTTTTCCTTAAAA
17231750 CCCTGAAATC
Statistics
Matches: 117, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
89 32 0.27
90 2 0.02
91 2 0.02
92 2 0.02
93 1 0.01
94 2 0.02
95 2 0.02
96 37 0.32
97 37 0.32
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (91 bp):
CCTAAACCCTAAACCCTATTTATTTGATTTTTTCCTTAAAAACCCAAAACAATAAACCCTAATCT
AATTTTTCAAAAATTTATAATTAATA
Found at i:17231799 original size:16 final size:16
Alignment explanation
Indices: 17231778--17231812 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17231768 CCAAAACCTT
*
17231778 AACCCTAATCATAAAA
1 AACCCTAACCATAAAA
17231794 AACCCTAACCATAAAA
1 AACCCTAACCATAAAA
17231810 AAC
1 AAC
17231813 GGGGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (16 bp):
AACCCTAACCATAAAA
Found at i:17234162 original size:20 final size:21
Alignment explanation
Indices: 17234134--17234174 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
17234124 ATTAAATGTT
* *
17234134 AAAATGTATCGATAC-TTTTG
1 AAAAAGTATCAATACATTTTG
17234154 AAAAAGTATCAATACATTTTG
1 AAAAAGTATCAATACATTTTG
17234175 TTGCAGGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAAGTATCAATACATTTTG
Found at i:17236422 original size:19 final size:19
Alignment explanation
Indices: 17236374--17236425 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
17236364 TCAACAAAAA
*
17236374 AAAATGCAAAATAACTTTC
1 AAAATTCAAAATAACTTTC
* * *
17236393 AAATTTTCAAAATAATTTTT
1 AAA-ATTCAAAATAACTTTC
17236413 AAAATTCAAAATA
1 AAAATTCAAAATA
17236426 CTTATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATAACTTTC
Found at i:17236483 original size:21 final size:20
Alignment explanation
Indices: 17236451--17236490 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17236441 AAATTTATAT
* *
17236451 TTTTTAAAAAAATTTTAAAA
1 TTTTAAAAAAAATTCTAAAA
17236471 TTTTAAAATAAAATTCTAAA
1 TTTTAAAA-AAAATTCTAAA
17236491 TAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTAAAAAAAATTCTAAAA
Found at i:17238352 original size:21 final size:21
Alignment explanation
Indices: 17238328--17238369 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17238318 TTCTCCCCAC
* *
17238328 GTTAGGTTTTGGGTTTTTAGG
1 GTTAGGGTTAGGGTTTTTAGG
17238349 GTTAGGGTTAGGGTTTTTAGG
1 GTTAGGGTTAGGGTTTTTAGG
17238370 ATTTTTAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.48
Consensus pattern (21 bp):
GTTAGGGTTAGGGTTTTTAGG
Found at i:17238780 original size:124 final size:124
Alignment explanation
Indices: 17238557--17238964 Score: 633
Period size: 124 Copynumber: 3.3 Consensus size: 124
17238547 ATTTTATTAA
* * * *
17238557 TGAAATCGCTCCCATGTAGATGCGCTTTTGCTACAGTAGGTCCTG-AAAAATAATTTCGAGTTGA
1 TGAAATCGCTCCCACGTGGACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGA
*
17238621 CGTTTCTGAGCAAATAGTATAAAAATGCTTCAAGCAGGATGCTTTATTAGAAGAATTTC
66 CGTTTCTGAGCAAATAGTATAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTC
* *
17238680 TGAAATTGCTCCCATGTGGACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGA
1 TGAAATCGCTCCCACGTGGACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGA
* *
17238745 CATTTCTGAGCAAATAGTATAAAAATGCTTGAAGCAGGATGCTTTATCAGAAGAATTTC
66 CGTTTCTGAGCAAATAGTATAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTC
*
17238804 TGAAATCGCTCCCACGGGGACGTGCTTTTGCTACAGTAGGTCCT-AAAAAATAATTTCGAGTTGA
1 TGAAATCGCTCCCACGTGGACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGA
* * * *
17238868 CGTTTCAGAGAAAATAGTAT-AAAACGCTTCAAGCAGGATGCTTTATCACAAGAATTTC
66 CGTTTCTGAGCAAATAGTATAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTC
* ** *
17238926 TGAAATCGCTCCCACGCGGACAAGTTTTTGCTACAGTAG
1 TGAAATCGCTCCCACGTGGACGTGCTTTTGCTACAGTAG
17238965 CATGTTTGGG
Statistics
Matches: 264, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
122 70 0.27
123 78 0.30
124 116 0.44
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (124 bp):
TGAAATCGCTCCCACGTGGACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGA
CGTTTCTGAGCAAATAGTATAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTC
Found at i:17241545 original size:49 final size:49
Alignment explanation
Indices: 17241491--17241758 Score: 464
Period size: 49 Copynumber: 5.5 Consensus size: 49
17241481 TAAAAATATT
* * * *
17241491 AACTATTTTGTATTTTATTAAATGAAATAAAATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
* * * *
17241540 AACTATTTTATATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
17241589 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
17241638 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
17241687 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
17241736 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
17241759 TAATATAAAC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 213 1.00
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
Found at i:17243619 original size:34 final size:34
Alignment explanation
Indices: 17243551--17243623 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
17243541 TGCGTACCTG
* *
17243551 TCCACTGGAAGATGGAATGTGTGCGTTTCAGGTC
1 TCCACTGGAAGATGGAATGTGTGCCTCTCAGGTC
*
17243585 TCCACATGGAAGATGGAAT-T-TGCACTCTCGGGTC
1 TCCAC-TGGAAGATGGAATGTGTGC-CTCTCAGGTC
17243619 TCCAC
1 TCCAC
17243624 CTCTCAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 3 0.09
34 18 0.53
35 13 0.38
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (34 bp):
TCCACTGGAAGATGGAATGTGTGCCTCTCAGGTC
Found at i:17244063 original size:10 final size:10
Alignment explanation
Indices: 17244025--17244068 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
17244015 AAATATAAAT
*
17244025 TTGAGAGGAAT
1 TTGAGA-GAAA
17244036 TTGAGAGAATA
1 TTGAGAGAA-A
17244047 TTAGAGAGAAA
1 TT-GAGAGAAA
17244058 TTGAGAGAAA
1 TTGAGAGAAA
17244068 T
1 T
17244069 GATTTAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 12 0.40
11 11 0.37
12 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:17256310 original size:93 final size:93
Alignment explanation
Indices: 17256151--17256339 Score: 351
Period size: 93 Copynumber: 2.0 Consensus size: 93
17256141 GAACAGATAG
* *
17256151 CAAGTAGACACTTAAACTTTAATTAACAAATATCGACAAACACAACCAAAAATGCAACATAATCA
1 CAAGTAGACACTTAAACTTTAATTAACAAACATCCACAAACACAACCAAAAATGCAACATAATCA
*
17256216 CAATGCTTTGTGTAACAAATTCAACAAA
66 CAATGCTTTGTGTAACAAAATCAACAAA
17256244 CAAGTAGACACTTAAACTTTAATTAACAAACATCCACAAACACAACCAAAAATGCAACATAATCA
1 CAAGTAGACACTTAAACTTTAATTAACAAACATCCACAAACACAACCAAAAATGCAACATAATCA
17256309 CAATGCTTTGTGTAACAAAATCAACAAA
66 CAATGCTTTGTGTAACAAAATCAACAAA
17256337 CAA
1 CAA
17256340 TCCTAAAAAC
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.50, C:0.22, G:0.07, T:0.21
Consensus pattern (93 bp):
CAAGTAGACACTTAAACTTTAATTAACAAACATCCACAAACACAACCAAAAATGCAACATAATCA
CAATGCTTTGTGTAACAAAATCAACAAA
Found at i:17260511 original size:27 final size:27
Alignment explanation
Indices: 17260471--17260526 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
17260461 AATACAGGTT
* *
17260471 GACTAGTTGAGCCTATCTCGGAGGCGC
1 GACTAGTTGAGCCTAACTCAGAGGCGC
*
17260498 GACTAGTTGTGCCTAACTCAGAGGCGC
1 GACTAGTTGAGCCTAACTCAGAGGCGC
17260525 GA
1 GA
17260527 ATGGTGGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.21
Consensus pattern (27 bp):
GACTAGTTGAGCCTAACTCAGAGGCGC
Found at i:17261208 original size:28 final size:28
Alignment explanation
Indices: 17261127--17261208 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
17261117 ACTTGTATAT
*
17261127 ATATTTAAATATTTTTAATA-AAAATAAAA
1 ATATATAAATA-TTTTAATATAAAA-AAAA
* *
17261156 A-A-ATTAATATTTT-ATTTAAACAAAAA
1 ATATATAAATATTTTAATATAAA-AAAAA
17261182 ATATATAAATATTTTAATATAAAAAAA
1 ATATATAAATATTTTAATATAAAAAAA
17261209 TTGATTTGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
25 2 0.05
26 12 0.28
27 7 0.16
28 15 0.35
29 7 0.16
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
ATATATAAATATTTTAATATAAAAAAAA
Found at i:17264331 original size:42 final size:41
Alignment explanation
Indices: 17264274--17264416 Score: 202
Period size: 42 Copynumber: 3.5 Consensus size: 41
17264264 AATATATTTA
* *
17264274 TTTTTTTAACTTTAAAATATTGTTT-ACATACTTTTTTTAAAT
1 TTTTTTTAATTTTAAAATATT-TTTAAAATACTTTTTTT-AAT
17264316 TTTTTTTAATTTTAAAATATTTTTAAAATA-TATTTTTTAA-
1 TTTTTTTAATTTTAAAATATTTTTAAAATACT-TTTTTTAAT
17264356 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
*
17264397 TTTTTTAAATTTTTAAAATA
1 TTTTTTTAA-TTTTAAAATA
17264417 AAAATGGGCC
Statistics
Matches: 93, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
40 38 0.41
41 15 0.16
42 40 0.43
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
Found at i:17264371 original size:40 final size:40
Alignment explanation
Indices: 17264273--17264416 Score: 202
Period size: 40 Copynumber: 3.5 Consensus size: 40
17264263 AAATATATTT
* *
17264273 ATTTTTTTAACTTTAAAATATTGTTT-ACATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATATT-TTTAAAATACTTTTTTT-A
17264314 ATTTTTTTTAATTTTAAAATATTTTTAAAATA-TATTTTTTA
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATACT-TTTTTTA
17264355 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
17264395 ATTTTTTTAAATTTTTAAAATA
1 ATTTTTTT-AA-TTTTAAAATA
17264417 AAAATGGGCC
Statistics
Matches: 95, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
40 45 0.47
41 10 0.11
42 40 0.42
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:17264381 original size:17 final size:17
Alignment explanation
Indices: 17264308--17264341 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17264298 TACATACTTT
* *
17264308 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
17264325 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
17264342 AATATATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:17264390 original size:29 final size:29
Alignment explanation
Indices: 17264336--17264391 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
17264326 TTTAAAATAT
** *
17264336 TTTTAAAATATATTTTTTAATTTTTTTAA
1 TTTTAAAATATATTTTAAAATCTTTTTAA
17264365 TTTTAAAATAT-TTTTAAAATACTTTTT
1 TTTTAAAATATATTTTAAAAT-CTTTTT
17264392 TTAATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTAAAATATATTTTAAAATCTTTTTAA
Found at i:17264394 original size:31 final size:31
Alignment explanation
Indices: 17264356--17264416 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
17264346 TATTTTTTAA
17264356 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
**
17264387 TTTTTTTAATTTTTTTAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
17264417 AAAATGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:17264430 original size:5 final size:5
Alignment explanation
Indices: 17264422--17264451 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
17264412 AAATAAAAAT
17264422 GGGCC GGGCC GGGCC GGGCC GGGCTC GGGC
1 GGGCC GGGCC GGGCC GGGCC GGGC-C GGGC
17264452 TTATGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.37, G:0.60, T:0.03
Consensus pattern (5 bp):
GGGCC
Found at i:17265914 original size:22 final size:23
Alignment explanation
Indices: 17265889--17265931 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
17265879 CAAATATTAT
17265889 AAAAGAAGAAA-AATG-AAAAAGA
1 AAAAG-AGAAATAATGTAAAAAGA
17265911 AAAAGAGAAATAATGTAAAAA
1 AAAAGAGAAATAATGTAAAAA
17265932 AGGAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.09
Consensus pattern (23 bp):
AAAAGAGAAATAATGTAAAAAGA
Found at i:17276179 original size:33 final size:35
Alignment explanation
Indices: 17276131--17276230 Score: 111
Period size: 33 Copynumber: 3.0 Consensus size: 35
17276121 TTAAAATACG
*
17276131 AGAA-TTTTTTT-AAAACACGAAGATTTTTGAAA-
1 AGAATTTTTTTTGAAAACACGAAGAATTTTGAAAT
* *
17276163 CG-ATTTTTTTTGAAAACACGAAAAATTTTGAAAAT
1 AGAATTTTTTTTGAAAACACGAAGAATTTTG-AAAT
* *
17276198 AGAATTTTTTTTGAGAACATG-AGAATTTTGAAA
1 AGAATTTTTTTTGAAAACACGAAGAATTTTGAAA
17276231 AACGGATTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
31 1 0.02
32 8 0.14
33 16 0.29
34 6 0.11
35 9 0.16
36 16 0.29
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (35 bp):
AGAATTTTTTTTGAAAACACGAAGAATTTTGAAAT
Found at i:17276244 original size:36 final size:36
Alignment explanation
Indices: 17276135--17276244 Score: 106
Period size: 35 Copynumber: 3.2 Consensus size: 36
17276125 AATACGAGAA
* *
17276135 TTTTTTT-AAAACACGAAGATTTTTG--AAAC-GAT
1 TTTTTTTGAAAACACGAAAAATTTTGAAAAACGGAT
*
17276167 TTTTTTTGAAAACACGAAAAATTTTGAAAATA-GAAT
1 TTTTTTTGAAAACACGAAAAATTTTGAAAA-ACGGAT
* * *
17276203 TTTTTTTGAGAACATG-AGAATTTTGAAAAACGGAT
1 TTTTTTTGAAAACACGAAAAATTTTGAAAAACGGAT
*
17276238 TCTTTTT
1 TTTTTTT
17276245 ATTTTTATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
32 7 0.11
33 16 0.25
34 1 0.02
35 23 0.36
36 17 0.27
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTTTTTGAAAACACGAAAAATTTTGAAAAACGGAT
Found at i:17276457 original size:21 final size:21
Alignment explanation
Indices: 17276428--17276475 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
17276418 TTGAAAACAC
*
17276428 AAATATTTTTTGAA-ACATGA
1 AAATTTTTTTTGAAGACATGA
17276448 GAAATTTTTTTTGAAGACATGA
1 -AAATTTTTTTTGAAGACATGA
17276470 AAATTT
1 AAATTT
17276476 CGAAACACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (21 bp):
AAATTTTTTTTGAAGACATGA
Found at i:17276502 original size:21 final size:21
Alignment explanation
Indices: 17276415--17276514 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 21
17276405 CGTTGCCTTA
*
17276415 TTTTTGAAAACAC-A-AATAT
1 TTTTTGAAAACACGAGAATTT
*
17276434 TTTTTG-AAACATGAGAAATTT
1 TTTTTGAAAACACGAG-AATTT
* *
17276455 TTTTTGAAGACATGA-AA---
1 TTTTTGAAAACACGAGAATTT
* *
17276472 ATTTCG-AAACACGAGAATTT
1 TTTTTGAAAACACGAGAATTT
17276492 TTTTTGAAAACAC--GAATTT
1 TTTTTGAAAACACGAGAATTT
17276511 TTTT
1 TTTT
17276515 GAATATTTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
16 6 0.10
17 6 0.10
18 5 0.08
19 17 0.27
20 6 0.10
21 16 0.25
22 7 0.11
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTTTGAAAACACGAGAATTT
Found at i:17276642 original size:5 final size:5
Alignment explanation
Indices: 17276632--17276665 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
17276622 TATTTATTTA
*
17276632 AAATT AAATT AAATCG AAATT AAATT AAATT AAA
1 AAATT AAATT AAAT-T AAATT AAATT AAATT AAA
17276666 AATATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (5 bp):
AAATT
Found at i:17277131 original size:7 final size:7
Alignment explanation
Indices: 17277119--17277184 Score: 60
Period size: 7 Copynumber: 8.9 Consensus size: 7
17277109 AAAAAATTAT
17277119 TTTCTTC
1 TTTCTTC
17277126 TTTCTTC
1 TTTCTTC
17277133 TTTCTTC
1 TTTCTTC
* *
17277140 TTCCCCTTT
1 TT--TCTTC
17277149 TCTTCTTTC
1 T-TTC-TTC
17277158 TTTCTTC
1 TTTCTTC
*
17277165 TTTTTTC
1 TTTCTTC
*
17277172 TTTCTCC
1 TTTCTTC
17277179 TTTCTT
1 TTTCTT
17277185 TCTTCCCCGA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
7 35 0.74
8 4 0.09
9 7 0.15
10 1 0.02
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTCTTC
Found at i:17277308 original size:23 final size:23
Alignment explanation
Indices: 17277282--17277326 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17277272 CCTTTCCCCC
17277282 TTTTTTCTCTT-TTTTCTTCTTTG
1 TTTTTTCTCTTCTTTT-TTCTTTG
*
17277305 TTTTTTTTCTTCTTTTTTCTTT
1 TTTTTTCTCTTCTTTTTTCTTT
17277327 TTGCTTGCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTTCTCTTCTTTTTTCTTTG
Found at i:17277312 original size:16 final size:15
Alignment explanation
Indices: 17277291--17277353 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 15
17277281 CTTTTTTCTC
17277291 TTTTTTCTTCTTTGTT
1 TTTTTTCTTCTTT-TT
17277307 TTTTTTCTTCTTTTT
1 TTTTTTCTTCTTTTT
*
17277322 TCTTTTTGCTTGCGGTTTT
1 T-TTTTT-CTT-C-TTTTT
*
17277341 TTTTCTCTTCTTT
1 TTTTTTCTTCTTT
17277354 GCTTCTTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
15 5 0.12
16 19 0.47
17 6 0.15
18 5 0.12
19 5 0.12
ACGTcount: A:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (15 bp):
TTTTTTCTTCTTTTT
Found at i:17277318 original size:26 final size:24
Alignment explanation
Indices: 17277282--17277329 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 24
17277272 CCTTTCCCCC
17277282 TTTTTTCTCTTTTTTCTTCTTTGTT
1 TTTTTTCTCTTTTTTCTT-TTTGTT
17277307 TTTTTTCTTCTTTTTTCTTTTTG
1 TTTTTTC-TCTTTTTTCTTTTTG
17277330 CTTGCGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (24 bp):
TTTTTTCTCTTTTTTCTTTTTGTT
Found at i:17277712 original size:30 final size:30
Alignment explanation
Indices: 17277678--17277772 Score: 126
Period size: 29 Copynumber: 3.2 Consensus size: 30
17277668 GGCCGAAACA
*
17277678 TAATTTTGAGAAAGTTTAGATGTCAAAATG
1 TAATTTTGAGAAAGTTTAGAGGTCAAAATG
*
17277708 TAATTTAGAGAAAGTTTAG-GGTCAAAATG
1 TAATTTTGAGAAAGTTTAGAGGTCAAAATG
17277737 TAATTTT-AGAAAAGTTTA-AGGGTCAAAATG
1 TAATTTTGAG-AAAGTTTAGA-GGTCAAAATG
17277767 -AATTTT
1 TAATTTT
17277773 TTTAAAAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
28 2 0.03
29 29 0.49
30 28 0.47
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (30 bp):
TAATTTTGAGAAAGTTTAGAGGTCAAAATG
Done.