Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 57 of 295
Found at i:16843624 original size:12 final size:12
Alignment explanation
Indices: 16843607--16843636 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
16843597 TTTCAATGAT
16843607 AATGTATGATTC
1 AATGTATGATTC
16843619 AATGTATGATTC
1 AATGTATGATTC
16843631 AATGTA
1 AATGTA
16843637 ATGAAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (12 bp):
AATGTATGATTC
Found at i:16845441 original size:32 final size:32
Alignment explanation
Indices: 16845405--16845468 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
16845395 AAAGATAATC
16845405 GCAATGTTTAATTAATTTAAGACTGACTGCTT
1 GCAATGTTTAATTAATTTAAGACTGACTGCTT
*
16845437 GCAATGTTTAATTAATTTAAGACTGATTGCTT
1 GCAATGTTTAATTAATTTAAGACTGACTGCTT
16845469 AATTTAGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (32 bp):
GCAATGTTTAATTAATTTAAGACTGACTGCTT
Found at i:16845511 original size:19 final size:18
Alignment explanation
Indices: 16845487--16845525 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
16845477 ATTGTTTCTC
16845487 AAAAATACTTTTGAGAAAA
1 AAAAATACTTTTGA-AAAA
*
16845506 AAAAATATTTTTGAAAAA
1 AAAAATACTTTTGAAAAA
16845524 AA
1 AA
16845526 GTTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (18 bp):
AAAAATACTTTTGAAAAA
Found at i:16846989 original size:27 final size:28
Alignment explanation
Indices: 16846936--16846990 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
16846926 TTAATTACAA
*
16846936 ATTTGTTAAAATTATTAATTAAAAATAT
1 ATTTGTTAAAATTACTAATTAAAAATAT
* *
16846964 ATTTTTTAAAA-TACTAATTACAAATAT
1 ATTTGTTAAAATTACTAATTAAAAATAT
16846991 TTAGTAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (28 bp):
ATTTGTTAAAATTACTAATTAAAAATAT
Found at i:16848943 original size:13 final size:14
Alignment explanation
Indices: 16848917--16848948 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
16848907 TCAACTCAAT
16848917 TAATAAATTATATA
1 TAATAAATTATATA
16848931 TAATAAA-TATATA
1 TAATAAATTATATA
16848944 TAATA
1 TAATA
16848949 TATTTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAAATTATATA
Found at i:16850695 original size:28 final size:28
Alignment explanation
Indices: 16850642--16850695 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
16850632 TTGTTTAAAA
* *
16850642 ATATCATAGTTTCATTTAACTATTTCGT
1 ATATCATAGTTTCAATTAAATATTTCGT
*
16850670 ATATCATTTGTTTCAATTAAAT-TTTC
1 ATATCA-TAGTTTCAATTAAATATTTC
16850696 ACAAATGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 10 0.45
29 12 0.55
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.52
Consensus pattern (28 bp):
ATATCATAGTTTCAATTAAATATTTCGT
Found at i:16859230 original size:4 final size:4
Alignment explanation
Indices: 16859221--16859245 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
16859211 TTACCACCAA
16859221 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
16859246 TTTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:16860235 original size:6 final size:6
Alignment explanation
Indices: 16860226--16860261 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
16860216 AATAAAATTT
*
16860226 AAATAA AAATAA AAATAA AAGTAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
16860262 TAGTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:16860240 original size:18 final size:19
Alignment explanation
Indices: 16860219--16860273 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
16860209 AAAAGACAAT
*
16860219 AAAATTTAAA-TAAAAATA
1 AAAATTAAAAGTAAAAATA
16860237 AAAA-TAAAAGTAAAAATA
1 AAAATTAAAAGTAAAAATA
*
16860255 AAAA-TAATAGT-AAAATA
1 AAAATTAAAAGTAAAAATA
16860272 AA
1 AA
16860274 GGGAGTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 12 0.35
18 22 0.65
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (19 bp):
AAAATTAAAAGTAAAAATA
Found at i:16862572 original size:13 final size:13
Alignment explanation
Indices: 16862550--16862586 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
16862540 GTGTGTTTCA
*
16862550 CACGGACGTGTCG
1 CACGGCCGTGTCG
16862563 CACGGCCGTGTCG
1 CACGGCCGTGTCG
16862576 CACGGCCGTGT
1 CACGGCCGTGT
16862587 GGCTCGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.11, C:0.35, G:0.38, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:16862717 original size:73 final size:69
Alignment explanation
Indices: 16862630--16862774 Score: 245
Period size: 73 Copynumber: 2.0 Consensus size: 69
16862620 CCACATAGAC
16862630 TAGGACACGCCCGTGTGTCCAGGCCGTGTGGGCCACTGTACCTACTTAAAAATACTAAATTAATT
1 TAGGACACGCCCGTGTGTCCAGGCCGTGTGGGCCACTGTACCTACTT--AAA-A-TAAATTAATT
16862695 AGTGGTGT
62 AGTGGTGT
*
16862703 TAGGACACGCCCGTGTGTCCAGGCCGTGTGGGCCACTGTACCTAGTTAAAATAAATTAATTAGTG
1 TAGGACACGCCCGTGTGTCCAGGCCGTGTGGGCCACTGTACCTACTTAAAATAAATTAATTAGTG
16862768 GTGT
66 GTGT
16862772 TAG
1 TAG
16862775 TGCTCGGGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
69 21 0.30
70 1 0.01
71 3 0.04
73 46 0.65
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (69 bp):
TAGGACACGCCCGTGTGTCCAGGCCGTGTGGGCCACTGTACCTACTTAAAATAAATTAATTAGTG
GTGT
Found at i:16866541 original size:30 final size:30
Alignment explanation
Indices: 16866505--16866561 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
16866495 ACGGCCATGA
16866505 CACACGGGAGTGTGGTCTACCCGTGTGCTT
1 CACACGGGAGTGTGGTCTACCCGTGTGCTT
* *
16866535 CACACGGGCGTGTGGTTTACCCGTGTG
1 CACACGGGAGTGTGGTCTACCCGTGTG
16866562 AAACACTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.26, G:0.35, T:0.26
Consensus pattern (30 bp):
CACACGGGAGTGTGGTCTACCCGTGTGCTT
Found at i:16867845 original size:23 final size:23
Alignment explanation
Indices: 16867818--16867867 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
16867808 TATACATAAC
16867818 TTCAAAAGTACCAAAATAGACGT
1 TTCAAAAGTACCAAAATAGACGT
16867841 TTCAAAAGTACCAAAATAGACGT
1 TTCAAAAGTACCAAAATAGACGT
16867864 TTCA
1 TTCA
16867868 TAGTGCGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (23 bp):
TTCAAAAGTACCAAAATAGACGT
Found at i:16868091 original size:49 final size:49
Alignment explanation
Indices: 16868022--16868119 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
16868012 AATTTCACAT
16868022 CAACGACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
1 CAACGACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
*
16868071 CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
1 CAACGACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
16868120 TTAAACTTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (49 bp):
CAACGACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
Found at i:16872258 original size:44 final size:46
Alignment explanation
Indices: 16872201--16872293 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
16872191 TACAACATCT
*
16872201 ATTCCATTTAACCAAACACA-AGAATT-CT-ATTACAACTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTGATTACAACTCTATTCC
* * *
16872245 ATTCCATTCAACCAAACAATTGAATTATTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTGATTACAACTCTATTCC
16872291 ATT
1 ATT
16872294 ACAACTCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.52
45 1 0.02
46 18 0.43
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTGATTACAACTCTATTCC
Found at i:16872296 original size:16 final size:16
Alignment explanation
Indices: 16872275--16872318 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
16872265 TGAATTATTG
16872275 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
16872291 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
16872307 ATTATAGCTCTA
1 ATTACAGCTCTA
16872319 GCCCTATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:16875759 original size:21 final size:21
Alignment explanation
Indices: 16875733--16875778 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
16875723 ATACAATAGA
*
16875733 AGAGATTCGCGAGGCACTGGC
1 AGAGATTCGCGAGGCACTAGC
16875754 AGAGATTCGCGAGGCACTAGC
1 AGAGATTCGCGAGGCACTAGC
16875775 AGAG
1 AGAG
16875779 TTGGGCCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.37, T:0.13
Consensus pattern (21 bp):
AGAGATTCGCGAGGCACTAGC
Found at i:16876962 original size:34 final size:34
Alignment explanation
Indices: 16876919--16876988 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
16876909 CGAGTTGGAG
16876919 GGTATAATAGCTAAATTTTGGTGGCAAAAAAATC
1 GGTATAATAGCTAAATTTTGGTGGCAAAAAAATC
16876953 GGTATAATAGCTAAATTTTGGTGGCAAAAAAATC
1 GGTATAATAGCTAAATTTTGGTGGCAAAAAAATC
16876987 GG
1 GG
16876989 GTGAAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (34 bp):
GGTATAATAGCTAAATTTTGGTGGCAAAAAAATC
Found at i:16880021 original size:17 final size:18
Alignment explanation
Indices: 16880001--16880038 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16879991 TTAAAAATAA
*
16880001 AAAATCA-AATCAAATTG
1 AAAATCATAAACAAATTG
*
16880018 AAAATCATAAACAATTTG
1 AAAATCATAAACAAATTG
16880036 AAA
1 AAA
16880039 TATTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAATCATAAACAAATTG
Found at i:16880636 original size:30 final size:30
Alignment explanation
Indices: 16880600--16880662 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
16880590 GATTTTGCTC
16880600 ACCTCTACAAGGGTAGTGAATTCCCATGTT
1 ACCTCTACAAGGGTAGTGAATTCCCATGTT
16880630 ACCTCTACAAGGGTAGTGAATTCCCATGTT
1 ACCTCTACAAGGGTAGTGAATTCCCATGTT
16880660 ACC
1 ACC
16880663 ATCATGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (30 bp):
ACCTCTACAAGGGTAGTGAATTCCCATGTT
Found at i:16881659 original size:23 final size:24
Alignment explanation
Indices: 16881630--16881675 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16881620 AAAAAATTTC
*
16881630 TTATATTA-TAAATTCTAAAAAAA
1 TTATATTATTAAATCCTAAAAAAA
16881653 TTATATTATTTAAATCCTAAAAA
1 TTATATTA-TTAAATCCTAAAAA
16881676 TTTTCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
25 12 0.60
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (24 bp):
TTATATTATTAAATCCTAAAAAAA
Found at i:16881938 original size:16 final size:16
Alignment explanation
Indices: 16881917--16881947 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16881907 AAAACTTTTT
16881917 TTATAAATGTTATATA
1 TTATAAATGTTATATA
*
16881933 TTATAAATTTTATAT
1 TTATAAATGTTATAT
16881948 TGTTTTTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTATAAATGTTATATA
Found at i:16890863 original size:21 final size:21
Alignment explanation
Indices: 16890837--16890878 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16890827 ATTTTCATTT
16890837 TTTTC-TATTTAAGTCTAAACA
1 TTTTCTTATTTAAGTC-AAACA
16890858 TTTTCTTATTTAAGTCAAACA
1 TTTTCTTATTTAAGTCAAACA
16890879 ACCACTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (21 bp):
TTTTCTTATTTAAGTCAAACA
Found at i:16891177 original size:31 final size:29
Alignment explanation
Indices: 16891139--16891218 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
16891129 AAATCTCAAA
*
16891139 TTATATATAAACTTT-AGTTTAATGTGTAATT
1 TTATATATAAACTTTGA-TTT--TCTGTAATT
*
16891170 TTATATATAAAGTTTGATTTTCTGTAATT
1 TTATATATAAACTTTGATTTTCTGTAATT
*
16891199 TTATATATAAAATTTGATTT
1 TTATATATAAACTTTGATTT
16891219 GATCTAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 27 0.60
31 17 0.38
32 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.54
Consensus pattern (29 bp):
TTATATATAAACTTTGATTTTCTGTAATT
Found at i:16891195 original size:29 final size:29
Alignment explanation
Indices: 16891163--16891218 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
16891153 TAGTTTAATG
*
16891163 TGTAATTTTATATATAAAGTTTGATTTTC
1 TGTAATTTTATATATAAAATTTGATTTTC
16891192 TGTAATTTTATATATAAAATTTGATTT
1 TGTAATTTTATATATAAAATTTGATTT
16891219 GATCTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (29 bp):
TGTAATTTTATATATAAAATTTGATTTTC
Found at i:16891226 original size:29 final size:29
Alignment explanation
Indices: 16891165--16891229 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
16891155 GTTTAATGTG
* ** *
16891165 TAATTTTATATATAAAGTTTGATTTTCTG
1 TAATTTTATATATAAAATTTGATTTGATC
16891194 TAATTTTATATATAAAATTTGATTTGATC
1 TAATTTTATATATAAAATTTGATTTGATC
16891223 TAATTTT
1 TAATTTT
16891230 CATAAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (29 bp):
TAATTTTATATATAAAATTTGATTTGATC
Found at i:16891294 original size:23 final size:23
Alignment explanation
Indices: 16891250--16891301 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
16891240 TAACACAATT
*
16891250 ATTA-ATATAACATAATTTTATA
1 ATTATATATAACATAATTGTATA
*
16891272 TTTATATATAACAT-ATATGTATA
1 ATTATATATAACATAAT-TGTATA
16891295 ATTATAT
1 ATTATAT
16891302 TTATTCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTATATATAACATAATTGTATA
Found at i:16891399 original size:33 final size:32
Alignment explanation
Indices: 16891362--16891426 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
16891352 ATTGAATCAA
16891362 AATTAAAATTTT-ATATATATATATTTAAATTAC
1 AATT-AAATTTTCATATATATATA-TTAAATTAC
*
16891395 AATTAAATTTTCATATTTATATATTAAATTAC
1 AATTAAATTTTCATATATATATATTAAATTAC
16891427 CTATCGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
AATTAAATTTTCATATATATATATTAAATTAC
Found at i:16898407 original size:26 final size:26
Alignment explanation
Indices: 16898376--16898439 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
16898366 TGACGAATTG
16898376 GTGTTCTCCAGTTAAGTTATGAACTA
1 GTGTTCTCCAGTTAAGTTATGAACTA
* * *
16898402 GTGTTCGT-CAGTTATGTTGTGAACTG
1 GTGTTC-TCCAGTTAAGTTATGAACTA
*
16898428 GTGTTCACCAGT
1 GTGTTCTCCAGT
16898440 CAAAGTTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (26 bp):
GTGTTCTCCAGTTAAGTTATGAACTA
Found at i:16906801 original size:10 final size:10
Alignment explanation
Indices: 16906788--16906814 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16906778 CTGATTTTGG
16906788 TTCATTTTAT
1 TTCATTTTAT
16906798 TTCATTTTAT
1 TTCATTTTAT
16906808 TTCATTT
1 TTCATTT
16906815 AAATGCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCATTTTAT
Found at i:16915000 original size:9 final size:9
Alignment explanation
Indices: 16914986--16915025 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
16914976 TTGGTTTTTA
16914986 TTTATAATT
1 TTTATAATT
16914995 TTTAT-ATT
1 TTTATAATT
16915003 TTTAAATAATT
1 TTT--ATAATT
16915014 TTTATAATT
1 TTTATAATT
16915023 TTT
1 TTT
16915026 TATCCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 6 0.21
9 14 0.50
10 2 0.07
11 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTATAATT
Found at i:16915368 original size:51 final size:51
Alignment explanation
Indices: 16915292--16915395 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
16915282 AAAAAACTAA
16915292 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
16915343 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
16915394 TA
1 TA
16915396 ATTTACCCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (51 bp):
TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
Found at i:16918764 original size:192 final size:193
Alignment explanation
Indices: 16918436--16919236 Score: 1469
Period size: 184 Copynumber: 4.2 Consensus size: 193
16918426 CTTTCCAAGG
16918436 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
16918501 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
*
16918566 GTTTATGATTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
16918629 AAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
16918693 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
16918758 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16918821 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG------T--A-TTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
16918877 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAAGTATTTTTA
66 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
16918942 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16919005 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
*
16919070 TTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
65 TTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
*
16919135 AGTCTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16919199 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
16919237 GGGGCACGCC
Statistics
Matches: 590, Mismatches: 7, Indels: 20
0.96 0.01 0.03
Matches are distributed among these distances:
184 182 0.31
186 1 0.00
190 1 0.00
192 181 0.31
193 60 0.10
194 128 0.22
195 37 0.06
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (193 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:16918937 original size:62 final size:62
Alignment explanation
Indices: 16918821--16918941 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 62
16918811 TTTGTTTTTC
** *
16918821 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAAGTATTTTTAAAA
* ** *
16918883 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAAGTATTTTTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAAGTATTTTTA
16918942 GTTTATGTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (62 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAAGTATTTTTAAAA
Found at i:16919217 original size:54 final size:54
Alignment explanation
Indices: 16919153--16919358 Score: 160
Period size: 54 Copynumber: 3.5 Consensus size: 54
16919143 TTTTAAATTG
16919153 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
** * *** ***
16919207 ACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT-GTTT-T-TCAAAA
**
16919272 ATTG
51 ATCA
16919276 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
* *
16919330 ACTCATATTGCAAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
16919359 CGGCTCACAT
Statistics
Matches: 113, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
54 58 0.51
55 1 0.01
56 4 0.04
57 6 0.05
60 1 0.01
63 1 0.01
66 6 0.05
67 4 0.04
68 1 0.01
69 31 0.27
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (54 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
Found at i:16919228 original size:123 final size:123
Alignment explanation
Indices: 16919059--16919361 Score: 536
Period size: 123 Copynumber: 2.5 Consensus size: 123
16919049 GTTGAGGTAT
* **
16919059 TTTTAAATTTT-TTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
16919123 CGAGGTATTTTTAGTCTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 CGAGGTATTTTTAGTCTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
*
16919181 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGC
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
*
16919246 CGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 CGAGGTATTTTTAGTCTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
* *
16919304 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
16919362 CTCACATGCT
Statistics
Matches: 172, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
122 10 0.06
123 162 0.94
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (123 bp):
TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
CGAGGTATTTTTAGTCTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:16919384 original size:378 final size:366
Alignment explanation
Indices: 16918436--16919359 Score: 1050
Period size: 376 Copynumber: 2.4 Consensus size: 366
16918426 CTTTCCAAGG
**
16918436 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGG------T--A-TTT
* *
16918501 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
57 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT--------G-CGAAG-ATTTTTA
** ** * * * ***
16918566 GTTTATGAT-TTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCA
112 GTTTATG-TCAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCTCAATTGAGGTTTTTCA
16918630 AAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTT
176 AAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTT
16918695 AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
241 AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
*
16918760 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
306 CTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
**
16918821 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAAAAA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAAAAAA
* *
16918886 ATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAAGTATTTTTAGTTTATGTT
66 ATCAACTCATATTGCGAGAAGTGAGTTAAGCCT--------G-CGAAG-ATTTTTAGTTTATGTC
** ** * * * ***
16918951 TTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTC
121 AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCTCAATTGAGGTTTTTCAAAATCAACTC
* *
16919016 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTTTAAAAAAA
186 ATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA--TTTTTAAAAAAAA
16919081 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTCTATGTTT
249 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTCTATGTTT
16919146 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
314 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
** *
16919199 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA----A
*** ** * ***
16919264 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-ATTTTT-GTTT-T-TCAA
61 ---AAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTGCGAAGATTTTTAGTTTATGTCAA
*
16919324 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
123 AAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTC
16919360 GGCTCACATG
Statistics
Matches: 501, Mismatches: 27, Indels: 36
0.89 0.05 0.06
Matches are distributed among these distances:
371 32 0.06
372 1 0.00
373 4 0.01
374 6 0.01
375 1 0.00
376 189 0.38
377 1 0.00
378 129 0.26
379 55 0.11
383 1 0.00
385 51 0.10
386 31 0.06
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (366 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAAAAAA
ATCAACTCATATTGCGAGAAGTGAGTTAAGCCTGCGAAGATTTTTAGTTTATGTCAAAAATCAAC
TCATATTGCAAGAGGTGAGTTAAGCCTCTCAATTGAGGTTTTTCAAAATCAACTCATATTACGAG
AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTAAAAAAAATCAACTCATATT
GCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTCTATGTTTTAAATTGACTCA
TATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:16919399 original size:16 final size:17
Alignment explanation
Indices: 16919378--16919411 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16919368 TGCTGAGGTA
*
16919378 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
16919394 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
16919411 T
1 T
16919412 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:16919522 original size:85 final size:88
Alignment explanation
Indices: 16919317--16919560 Score: 293
Period size: 91 Copynumber: 2.8 Consensus size: 88
16919307 TAATTTTTGT
*
16919317 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGC-CACA-GCTGAGGTATTT
* **
16919381 TCAATTTATGTTTTTTTCAATCTATGC
63 TCAATTTATGCTTTACTCAATCTA-GC
* *
16919408 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGTCTCAAGG-CAC-GCTGAGGTATTTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTC-AGGCCACAGCTGAGGTATTTT
*
16919471 CAATTTCTGCTTTACT-AATTCTA-C
64 CAATTTATGCTTTACTCAA-TCTAGC
**
16919495 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGCCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACA-GCTGAGGTATTTTC
16919559 AA
65 AA
16919561 ATTCTGTTTT
Statistics
Matches: 136, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
84 3 0.02
85 37 0.27
87 20 0.15
88 2 0.01
89 29 0.21
91 43 0.32
93 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACAGCTGAGGTATTTTCA
ATTTATGCTTTACTCAATCTAGC
Found at i:16919575 original size:85 final size:88
Alignment explanation
Indices: 16919317--16919575 Score: 300
Period size: 85 Copynumber: 2.9 Consensus size: 88
16919307 TAATTTTTGT
* *
16919317 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGC-CACACGCTGAGGTATTT
*
16919381 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
16919408 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGTCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTC-AGGCCACACGCTGAGGTATTT
**
16919470 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
**
16919495 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGCCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTATTTTC
*
16919559 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
16919576 TCTGTTTTTT
Statistics
Matches: 147, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 41 0.28
87 28 0.19
88 2 0.01
89 31 0.21
91 40 0.27
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:16919747 original size:54 final size:55
Alignment explanation
Indices: 16919660--16919868 Score: 266
Period size: 54 Copynumber: 4.0 Consensus size: 55
16919650 CGCTGAGGTA
*
16919660 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
16919715 TTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
16919769 --TT---TTTCTA-TTTT------TCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
16919812 TTTTACAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
16919867 TT
1 TT
16919869 GGCTCACGTG
Statistics
Matches: 136, Mismatches: 5, Indels: 26
0.81 0.03 0.16
Matches are distributed among these distances:
43 30 0.22
45 2 0.01
49 12 0.09
50 6 0.04
52 2 0.01
54 48 0.35
55 36 0.26
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (55 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:16919863 original size:98 final size:97
Alignment explanation
Indices: 16919684--16919868 Score: 309
Period size: 98 Copynumber: 1.9 Consensus size: 97
16919674 TTTTCAAAAA
* *
16919684 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATAT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTTCAAAAACCAACTCATAT
*
16919749 TGCGAGAGGTGAGTTGAGCCTTTTTCTATTTT
66 TGCGAGAAGTGAGTTGAGCCTTTTTCTATTTT
*
16919781 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTACAAATTCT-GTTTTCAAAAATCAACTCAT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AAATTCTAGTTTTCAAAAACCAACTCAT
16919845 ATTGCGAGAAGTGAGTTGAGCCTT
64 ATTGCGAGAAGTGAGTTGAGCCTT
16919869 GGCTCACGTG
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
97 35 0.43
98 41 0.50
99 6 0.07
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (97 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTTCAAAAACCAACTCATAT
TGCGAGAAGTGAGTTGAGCCTTTTTCTATTTT
Found at i:16920134 original size:13 final size:15
Alignment explanation
Indices: 16920110--16920143 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
16920100 TTTAATTTTC
16920110 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
16920124 AAAATTT-AAAAATA
1 AAAATTTCAAAAATA
16920138 AAAATT
1 AAAATT
16920144 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:16920173 original size:30 final size:31
Alignment explanation
Indices: 16920139--16920240 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
16920129 TTAAAAATAA
*
16920139 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
16920169 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
16920199 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
16920229 AAATTTCATTTT
1 AAATTTCATTTT
16920241 AATCCCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:16920629 original size:3 final size:3
Alignment explanation
Indices: 16920621--16920666 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
16920611 GCTAGACTTT
*
16920621 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA
16920667 AGAAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16920639 original size:10 final size:10
Alignment explanation
Indices: 16920624--16920652 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
16920614 AGACTTTGAA
16920624 GAAGAAGAAG
1 GAAGAAGAAG
16920634 GAAGAAGAAG
1 GAAGAAGAAG
16920644 GAAGAAGAA
1 GAAGAAGAA
16920653 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:16920639 original size:13 final size:13
Alignment explanation
Indices: 16920621--16920666 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
16920611 GCTAGACTTT
16920621 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
16920634 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
16920647 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
16920658 GAAGAAGAA
1 GAAGAAGAA
16920667 AGAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:16920805 original size:12 final size:13
Alignment explanation
Indices: 16920787--16920819 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16920777 CAAAGCAGCC
*
16920787 CAAAAAAATAAAG
1 CAAAAAAACAAAG
16920800 -AAAAAAACAAAG
1 CAAAAAAACAAAG
16920812 CAAAAAAA
1 CAAAAAAA
16920820 ATAAGCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.82, C:0.09, G:0.06, T:0.03
Consensus pattern (13 bp):
CAAAAAAACAAAG
Found at i:16920898 original size:26 final size:26
Alignment explanation
Indices: 16920847--16920899 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16920837 AGGGGGCAGG
** *
16920847 CCAACAGCAGGCCCAATTCCAGCAGC
1 CCAACAGCAGGCCCAAGCCCAACAGC
*
16920873 CCAACAGCAGGCCCTAGCCCAACAGC
1 CCAACAGCAGGCCCAAGCCCAACAGC
16920899 C
1 C
16920900 AGCCTGTCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.45, G:0.19, T:0.06
Consensus pattern (26 bp):
CCAACAGCAGGCCCAAGCCCAACAGC
Found at i:16920990 original size:5 final size:5
Alignment explanation
Indices: 16920982--16921040 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
16920972 GCCCAGCAGA
* *
16920982 AAAAG AAAAG AAAA- AAGAA- AAAAG AAAA- AAAGAA AAAAG AAGAG AAAAAG
1 AAAAG AAAAG AAAAG AA-AAG AAAAG AAAAG AAA-AG AAAAG AAAAG -AAAAG
16921032 AAAAG AAAA
1 AAAAG AAAA
16921041 ATTCAATTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 7 0.15
5 32 0.70
6 7 0.15
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:16920995 original size:11 final size:11
Alignment explanation
Indices: 16920979--16921041 Score: 76
Period size: 11 Copynumber: 5.6 Consensus size: 11
16920969 GCAGCCCAGC
16920979 AGAAAAAGAAA
1 AGAAAAAGAAA
16920990 AGAAAAAAGAAA
1 AG-AAAAAGAAA
16921002 A-AAGAAA-AAA
1 AGAA-AAAGAAA
*
16921012 AGAAAAAAGAAG
1 AG-AAAAAGAAA
16921024 AGAAAAAGAAA
1 AGAAAAAGAAA
16921035 AGAAAAA
1 AGAAAAA
16921042 TTCAATTTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
10 6 0.13
11 23 0.51
12 16 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:16920999 original size:7 final size:7
Alignment explanation
Indices: 16920987--16921041 Score: 67
Period size: 7 Copynumber: 7.4 Consensus size: 7
16920977 GCAGAAAAAG
16920987 AAAAGAA
1 AAAAGAA
16920994 AAAAGAA
1 AAAAGAA
16921001 AAAAGAAA
1 AAAAG-AA
16921009 AAAAGAA
1 AAAAGAA
16921016 AAAAGAA
1 AAAAGAA
16921023 GAGAAA-AA
1 -A-AAAGAA
16921031 GAAAAGAA
1 -AAAAGAA
16921039 AAA
1 AAA
16921042 TTCAATTTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
7 27 0.61
8 14 0.32
9 3 0.07
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:16921002 original size:18 final size:16
Alignment explanation
Indices: 16920982--16921040 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 16
16920972 GCCCAGCAGA
16920982 AAAAGAAAAGAAAAAAG
1 AAAA-AAAAGAAAAAAG
*
16920999 AAAAAAGA-AAAAAAG
1 AAAAAAAAGAAAAAAG
16921014 AAAAAAGAAGAGAAAAAG
1 AAAAAA-AAGA-AAAAAG
16921032 AAAAGAAAA
1 AAAA-AAAA
16921041 ATTCAATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
15 13 0.36
16 4 0.11
17 5 0.14
18 12 0.33
19 2 0.06
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:16921015 original size:22 final size:23
Alignment explanation
Indices: 16920979--16921041 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
16920969 GCAGCCCAGC
*
16920979 AGAAAAAGAAAAGAAAAAAGAA-
1 AGAAAAAAAAAAGAAAAAAGAAG
16921001 A-AAAGAAAAAAAGAAAAAAGAAG
1 AGAAA-AAAAAAAGAAAAAAGAAG
*
16921024 AGAAAAAGAAAAGAAAAA
1 AGAAAAAAAAAAGAAAAA
16921042 TTCAATTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 3 0.08
22 17 0.47
23 13 0.36
24 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAAAAGAAAAAAGAAG
Found at i:16921192 original size:14 final size:15
Alignment explanation
Indices: 16921165--16921198 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16921155 CATTTTATGC
16921165 ATTTTTATATTTTAT
1 ATTTTTATATTTTAT
*
16921180 ATTTTTGTA-TTTAT
1 ATTTTTATATTTTAT
16921194 ATTTT
1 ATTTT
16921199 CAATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTTATATTTTAT
Found at i:16921422 original size:20 final size:22
Alignment explanation
Indices: 16921397--16921439 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16921387 TCGGGTTTCG
16921397 AAATTT-TCGTG-TCTTCAAAA
1 AAATTTCTCGTGTTCTTCAAAA
*
16921417 AAATTTCTCGTGTTTTTCAAAA
1 AAATTTCTCGTGTTCTTCAAAA
16921439 A
1 A
16921440 TAAGGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 5 0.25
22 9 0.45
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (22 bp):
AAATTTCTCGTGTTCTTCAAAA
Found at i:16921573 original size:18 final size:18
Alignment explanation
Indices: 16921551--16921941 Score: 137
Period size: 17 Copynumber: 22.0 Consensus size: 18
16921541 GGAAAATTTT
*
16921551 TCGTGTTTTCAAAAGTTC
1 TCGTGTTTTCAAAAATTC
* * *
16921569 CCGTG-TTGCAAAAATTT
1 TCGTGTTTTCAAAAATTC
*
16921586 TCATGTTTTTCAAAAATTC
1 TCGTG-TTTTCAAAAATTC
16921605 TCGTGTTTTCAAAAAAAATTC
1 TCGTGTTTTC---AAAAATTC
** * *
16921626 -C-AATTTTCAAAATTTT
1 TCGTGTTTTCAAAAATTC
*
16921642 TCGTGTTTTCTGAAAACTTC
1 TCGTGTTTTC--AAAAATTC
*
16921662 T-GTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
* * *
16921678 TCTTG-TTTCTAAAATTT
1 TCGTGTTTTCAAAAATTC
* *
16921695 TCGT-ATTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
* * *
16921712 TCTTGTTTTC-AAATTTT
1 TCGTGTTTTCAAAAATTC
* * *
16921729 TCGT-ATTTAAAAAATCC
1 TCGTGTTTTCAAAAATTC
16921746 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTC
* *
16921763 -CAGTG-TTTCAAAATTTT
1 TC-GTGTTTTCAAAAATTC
16921780 TCGTG-TTTCAAAAAAAAATTC
1 TCGTGTTTTC----AAAAATTC
* *
16921801 CCGT-TTTCCAAAAACTT-
1 TCGTGTTTTCAAAAA-TTC
16921818 TCGTGTTTT-AAGAAATTGAC
1 TCGTGTTTTCAA-AAATT--C
*
16921838 -CGTG-TTTCAAAGAAATC
1 TCGTGTTTTCAAA-AATTC
*
16921855 TCGTG-TTTCAAAGAAATC
1 TCGTGTTTTCAAA-AATTC
*
16921873 TCGTG-TTTC-AAAATTT
1 TCGTGTTTTCAAAAATTC
*
16921889 TCGTGTTTTTTTAAAAATT-
1 TCGTG--TTTTCAAAAATTC
*
16921908 T-GTG-TTTCTAAAATTC
1 TCGTGTTTTCAAAAATTC
* * *
16921924 TTGTATTTTAAAAAATTC
1 TCGTGTTTTCAAAAATTC
16921942 GTGTTTAAAA
Statistics
Matches: 283, Mismatches: 52, Indels: 76
0.69 0.13 0.18
Matches are distributed among these distances:
15 9 0.03
16 30 0.11
17 98 0.35
18 77 0.27
19 35 0.12
20 14 0.05
21 20 0.07
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTC
Found at i:16921596 original size:36 final size:35
Alignment explanation
Indices: 16921543--16921611 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
16921533 TAAAAATCGG
* * *
16921543 AAAATTTTTCGTGTTTTCAAAAGTTCCCGTGTTGC
1 AAAAATTTTCATGTTTTCAAAAATTCCCGTGTTGC
*
16921578 AAAAATTTTCATGTTTTTCAAAAATTCTCGTGTT
1 AAAAATTTTCATG-TTTTCAAAAATTCCCGTGTT
16921612 TTCAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 11 0.38
36 18 0.62
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (35 bp):
AAAAATTTTCATGTTTTCAAAAATTCCCGTGTTGC
Found at i:16921730 original size:17 final size:18
Alignment explanation
Indices: 16921577--16921724 Score: 99
Period size: 18 Copynumber: 8.2 Consensus size: 18
16921567 TCCCGTGTTG
*
16921577 CAAAAATTTTCATGTTTTT
1 CAAAAATTTTCTTG-TTTT
* *
16921596 CAAAAATTCTCGTGTTTT
1 CAAAAATTTTCTTGTTTT
** ***
16921614 CAAAAAAAATTCCAATTTT
1 C-AAAAATTTTCTTGTTTT
* *
16921633 CAAAATTTTTCGTGTTTT
1 CAAAAATTTTCTTGTTTT
* *
16921651 CTGAAAA-CTTC-TGTGTTT
1 C-AAAAATTTTCTTGT-TTT
16921669 CAAAAATTTTCTTG-TTT
1 CAAAAATTTTCTTGTTTT
*
16921686 CTAAAATTTTC--GTATTT
1 CAAAAATTTTCTTGT-TTT
16921703 CAAAAATTTTCTTGTTTT
1 CAAAAATTTTCTTGTTTT
16921721 CAAA
1 CAAA
16921725 TTTTTCGTAT
Statistics
Matches: 99, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
15 1 0.01
17 33 0.33
18 34 0.34
19 31 0.31
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (18 bp):
CAAAAATTTTCTTGTTTT
Found at i:16921785 original size:17 final size:17
Alignment explanation
Indices: 16921543--16921896 Score: 155
Period size: 17 Copynumber: 19.9 Consensus size: 17
16921533 TAAAAATCGG
*
16921543 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* ** *
16921561 AAAAGTTCCCGTGTTGC
1 AAAAATTTTCGTGTTTC
*
16921578 AAAAATTTTCATGTTTTTC
1 AAAAATTTTC--GTGTTTC
*
16921597 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
16921615 AAAAAAAATTCCAAT-TTTC
1 --AAAAATTTTC-GTGTTTC
*
16921634 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
16921652 TGAAAA-CTTCTGTGTTTC
1 -AAAAATTTTC-GTGTTTC
*
16921670 AAAAATTTTCTTGTTTC
1 AAAAATTTTCGTGTTTC
* *
16921687 TAAAATTTTCGTATTTC
1 AAAAATTTTCGTGTTTC
*
16921704 AAAAATTTTCTTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
16921722 -AAATTTTTCGTATTTA
1 AAAAATTTTCGTGTTTC
**
16921738 AAAAATCCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
16921756 -AAAA-TTCCAGTGTTTC
1 AAAAATTTTC-GTGTTTC
*
16921772 AAAATTTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
**
16921789 AAAAAAAAATTCCCGT-TTTCC
1 ----AAAAATTTTCGTGTTT-C
* *
16921810 AAAAACTTTCGTGTTTT
1 AAAAATTTTCGTGTTTC
**
16921827 AAGAAATTGACCGTGTTTC
1 AA-AAATT-TTCGTGTTTC
* *
16921846 AAAGAAATCTCGTGTTTC
1 AAA-AATTTTCGTGTTTC
* *
16921864 AAAGAAATCTCGTGTTTC
1 AAA-AATTTTCGTGTTTC
16921882 -AAAATTTTCGTGTTT
1 AAAAATTTTCGTGTTT
16921897 TTTTAAAAAT
Statistics
Matches: 249, Mismatches: 61, Indels: 54
0.68 0.17 0.15
Matches are distributed among these distances:
16 20 0.08
17 100 0.40
18 72 0.29
19 36 0.14
20 10 0.04
21 11 0.04
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:16921852 original size:20 final size:19
Alignment explanation
Indices: 16921838--16921884 Score: 80
Period size: 18 Copynumber: 2.6 Consensus size: 19
16921828 AGAAATTGAC
16921838 CGTGTTTCAAAGAAA-TCT
1 CGTGTTTCAAAGAAATTCT
16921856 CGTGTTTCAAAGAAA-TCT
1 CGTGTTTCAAAGAAATTCT
16921874 CGTGTTTCAAA
1 CGTGTTTCAAA
16921885 ATTTTCGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (19 bp):
CGTGTTTCAAAGAAATTCT
Found at i:16921937 original size:17 final size:16
Alignment explanation
Indices: 16921896--16921947 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
16921886 TTTTCGTGTT
16921896 TTTTTAAAAATTTGTG
1 TTTTTAAAAATTTGTG
* * *
16921912 TTTCTAAAATTCTTGTA
1 TTTTTAAAAAT-TTGTG
* *
16921929 TTTTAAAAAATTCGTG
1 TTTTTAAAAATTTGTG
16921945 TTT
1 TTT
16921948 AAAAAAAAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.54
Consensus pattern (16 bp):
TTTTTAAAAATTTGTG
Found at i:16921946 original size:33 final size:33
Alignment explanation
Indices: 16921868--16921952 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 33
16921858 TGTTTCAAAG
* *
16921868 AAATCTCGTGTTTCAAAATTTTCGTGTTTTTTTAA
1 AAAT-TCGTGTTTCAAAA-TTTCGTGTATTTTAAA
* *
16921903 AAATTTGTGTTTCTAAAA-TTCTTGTATTTTAAA
1 AAATTCGTGTTTC-AAAATTTCGTGTATTTTAAA
*
16921936 AAATTCGTGTTTAAAAA
1 AAATTCGTGTTTCAAAA
16921953 AAAAGGAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
32 4 0.09
33 23 0.53
34 8 0.19
35 8 0.19
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (33 bp):
AAATTCGTGTTTCAAAATTTCGTGTATTTTAAA
Found at i:16930575 original size:62 final size:62
Alignment explanation
Indices: 16930462--16930582 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 62
16930452 TTTGTTTTTC
**
16930462 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAAA
* ** *
16930524 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
16930583 TTTATGTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (62 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAAA
Found at i:16930831 original size:193 final size:192
Alignment explanation
Indices: 16930079--16930875 Score: 1481
Period size: 183 Copynumber: 4.2 Consensus size: 192
16930069 CTTTCCAAGG
16930079 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
16930144 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
16930209 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16930271 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
16930336 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAG
66 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
16930400 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16930462 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG------T--ATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
16930519 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA-
66 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
16930583 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16930645 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA--TT
16930710 TTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
64 TTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
16930775 AG-TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
129 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
16930838 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
16930876 GGGGCACGCC
Statistics
Matches: 591, Mismatches: 1, Indels: 24
0.96 0.00 0.04
Matches are distributed among these distances:
183 160 0.27
184 21 0.04
185 1 0.00
189 1 0.00
191 136 0.23
192 106 0.18
193 129 0.22
194 37 0.06
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:16930851 original size:54 final size:54
Alignment explanation
Indices: 16930792--16930997 Score: 160
Period size: 54 Copynumber: 3.5 Consensus size: 54
16930782 TTTTAAATTG
16930792 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
** * *** ***
16930846 ACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT-GTTT-T-TCAAAA
**
16930911 ATTG
51 ATCA
16930915 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
* *
16930969 ACTCATATTGCAAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
16930998 CGGCTCACAT
Statistics
Matches: 113, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
54 58 0.51
55 1 0.01
56 4 0.04
57 6 0.05
60 1 0.01
63 1 0.01
66 6 0.05
67 4 0.04
68 1 0.01
69 31 0.27
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (54 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
Found at i:16930944 original size:123 final size:123
Alignment explanation
Indices: 16930716--16931033 Score: 539
Period size: 123 Copynumber: 2.6 Consensus size: 123
16930706 TTTTTTTAAA
16930716 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG-TTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
16930780 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
16930838 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
16930903 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * ** * * *
16930961 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAC--GCCGAGGTATTTTTAGTT
16931026 TATGTTTT
64 TATGTTTT
16931034 TTTCAATCTA
Statistics
Matches: 184, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
122 60 0.33
123 101 0.55
125 23 0.12
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (123 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:16931038 original size:16 final size:17
Alignment explanation
Indices: 16931017--16931050 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16931007 TGCTGAGGTA
*
16931017 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
16931033 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
16931050 T
1 T
16931051 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:16931205 original size:87 final size:89
Alignment explanation
Indices: 16930956--16931205 Score: 307
Period size: 91 Copynumber: 2.8 Consensus size: 89
16930946 TAATTTTTGT
* *
16930956 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGC-CACACGCTGAGGTATTT
* * **
16931020 TCAATTTATGTTTTTTTCAATCTATGC
64 TCAATTTCTGCTTTACTCAATCTA-GC
* *
16931047 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGTCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTC-AGGCCACACGCTGAGGTATTT
16931109 TCAATTTCTGCTTTACT-AATTCTA-C
64 TCAATTTCTGCTTTACTCAA-TCTAGC
*
16931134 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTATTTTC
*
16931198 AAATTCTG
66 AATTTCTG
16931206 TTTTTAATTT
Statistics
Matches: 141, Mismatches: 12, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
84 3 0.02
85 34 0.24
87 29 0.21
88 2 0.01
89 31 0.22
91 40 0.28
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (89 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGCTTTACTCAATCTAGC
Found at i:16931214 original size:85 final size:88
Alignment explanation
Indices: 16930956--16931214 Score: 309
Period size: 85 Copynumber: 2.9 Consensus size: 88
16930946 TAATTTTTGT
* *
16930956 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGC-CACACGCTGAGGTATTT
*
16931020 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
16931047 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGTCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTC-AGGCCACACGCTGAGGTATTT
**
16931109 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
*
16931134 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTATTTTC
*
16931198 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
16931215 TCTGTTTTTT
Statistics
Matches: 148, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 41 0.28
87 29 0.20
88 2 0.01
89 31 0.21
91 40 0.27
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:16931217 original size:13 final size:13
Alignment explanation
Indices: 16931201--16931240 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
16931191 TCTTTTCAAA
16931201 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
16931214 TTCTGTTTTTTTAAT
1 TTCTG--TTTTTAAT
*
16931229 TTCTGTGTTTAA
1 TTCTGTTTTTAA
16931241 AAAAAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:16931226 original size:15 final size:15
Alignment explanation
Indices: 16931206--16931234 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16931196 TCAAATTCTG
16931206 TTTTTAATTTCTGTT
1 TTTTTAATTTCTGTT
16931221 TTTTTAATTTCTGT
1 TTTTTAATTTCTGT
16931235 GTTTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTTAATTTCTGTT
Found at i:16931384 original size:54 final size:55
Alignment explanation
Indices: 16931297--16931505 Score: 257
Period size: 54 Copynumber: 4.0 Consensus size: 55
16931287 CGCTGAGGTA
*
16931297 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
16931352 TTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
16931406 --TT---TTTCTA-TTTT------TCAACTCATATTGCGACAGGTGAGTTGAGCC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
16931449 TTTTACAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
16931504 TT
1 TT
16931506 GGTCACGTGC
Statistics
Matches: 134, Mismatches: 7, Indels: 26
0.80 0.04 0.16
Matches are distributed among these distances:
43 29 0.22
45 2 0.01
49 12 0.09
50 6 0.04
52 2 0.01
54 48 0.36
55 35 0.26
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (55 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:16931499 original size:98 final size:97
Alignment explanation
Indices: 16931321--16931505 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
16931311 TTTTCAAAAA
* * *
16931321 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATAT
1 TCAACTCATATTGCGACAGGTGAGTTGAGCCTTTTAAATTCTAGTTTTCAAAAACCAACTCATAT
*
16931386 TGCGAGAGGTGAGTTGAGCCTTTTTCTATTTT
66 TGCGAGAAGTGAGTTGAGCCTTTTTCTATTTT
*
16931418 TCAACTCATATTGCGACAGGTGAGTTGAGCCTTTTACAAATTCT-GTTTTCAAAAATCAACTCAT
1 TCAACTCATATTGCGACAGGTGAGTTGAGCCTTTT--AAATTCTAGTTTTCAAAAACCAACTCAT
16931482 ATTGCGAGAAGTGAGTTGAGCCTT
64 ATTGCGAGAAGTGAGTTGAGCCTT
16931506 GGTCACGTGC
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
97 34 0.42
98 41 0.51
99 6 0.07
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (97 bp):
TCAACTCATATTGCGACAGGTGAGTTGAGCCTTTTAAATTCTAGTTTTCAAAAACCAACTCATAT
TGCGAGAAGTGAGTTGAGCCTTTTTCTATTTT
Found at i:16931768 original size:13 final size:15
Alignment explanation
Indices: 16931744--16931777 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
16931734 TTTAATTTTC
16931744 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
16931758 AAAATTT-AAAAATA
1 AAAATTTCAAAAATA
16931772 AAAATT
1 AAAATT
16931778 ACATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:16931807 original size:30 final size:31
Alignment explanation
Indices: 16931773--16931874 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
16931763 TTAAAAATAA
*
16931773 AAATTACATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
16931803 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
16931833 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
16931863 AAATTTCATTTT
1 AAATTTCATTTT
16931875 AATCCCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:16932152 original size:16 final size:16
Alignment explanation
Indices: 16932128--16932158 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16932118 AAAAAGCTTT
16932128 GAAAAAAAGAAAAGAA
1 GAAAAAAAGAAAAGAA
*
16932144 GAAAGAAAGAAAAGA
1 GAAAAAAAGAAAAGA
16932159 GGAAGGAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
GAAAAAAAGAAAAGAA
Found at i:16932198 original size:15 final size:16
Alignment explanation
Indices: 16932186--16932215 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16932176 GAGTCGGCAG
16932186 ACCG-GGCGTCGGCGC
1 ACCGTGGCGTCGGCGC
16932201 ACCGTGGCGTCGGCG
1 ACCGTGGCGTCGGCG
16932216 GCAGCAGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.37, G:0.47, T:0.10
Consensus pattern (16 bp):
ACCGTGGCGTCGGCGC
Found at i:16932266 original size:3 final size:3
Alignment explanation
Indices: 16932258--16932305 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
16932248 AGGTAGACTT
* *
16932258 GAA GAA GAA GAA GGAA GAA GAA GAA GAA GAA -AA GAG GAA GAA AAA
1 GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
16932303 GAA
1 GAA
16932306 AAAAAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16932279 original size:16 final size:15
Alignment explanation
Indices: 16932258--16932305 Score: 62
Period size: 14 Copynumber: 3.2 Consensus size: 15
16932248 AGGTAGACTT
16932258 GAAGAAGAAGAAGGAA
1 GAAGAAGAAGAA-GAA
16932274 GAAGAAGAAGAAGAA
1 GAAGAAGAAGAAGAA
* *
16932289 -AAGAGGAAGAAAAA
1 GAAGAAGAAGAAGAA
16932303 GAA
1 GAA
16932306 AAAAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.41
15 5 0.17
16 12 0.41
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAGAAGAA
Found at i:16932299 original size:23 final size:23
Alignment explanation
Indices: 16932258--16932315 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
16932248 AGGTAGACTT
* *
16932258 GAAGAAGAAGA-AGGAAGAAGAA
1 GAAGAAGAAAAGAGGAAGAAAAA
16932280 GAAGAAGAAAAGAGGAAGAAAAA
1 GAAGAAGAAAAGAGGAAGAAAAA
* *
16932303 GAAAAAAAAAAGA
1 GAAGAAGAAAAGA
16932316 AAAAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (23 bp):
GAAGAAGAAAAGAGGAAGAAAAA
Found at i:16932630 original size:11 final size:11
Alignment explanation
Indices: 16932614--16932677 Score: 76
Period size: 11 Copynumber: 5.6 Consensus size: 11
16932604 GCAGCCCAGC
16932614 AGAAAAAGAAA
1 AGAAAAAGAAA
16932625 AGAAAAAAGAAA
1 AG-AAAAAGAAA
*
16932637 A-AAGAAAAAAA
1 AGAA-AAAGAAA
*
16932648 AGAAAAAAGAAG
1 AG-AAAAAGAAA
16932660 AGAAAAAGAAA
1 AGAAAAAGAAA
16932671 AGAAAAA
1 AGAAAAA
16932678 TTCAATTTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.04
11 24 0.53
12 17 0.38
13 2 0.04
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:16932634 original size:7 final size:7
Alignment explanation
Indices: 16932622--16932677 Score: 60
Period size: 7 Copynumber: 7.4 Consensus size: 7
16932612 GCAGAAAAAG
16932622 AAAAGAA
1 AAAAGAA
16932629 AAAAGAA
1 AAAAGAA
16932636 AAAAGAAAA
1 AAAAG--AA
16932645 AAAAGAA
1 AAAAGAA
16932652 AAAAGAA
1 AAAAGAA
16932659 GAGAAA-AA
1 -A-AAAGAA
16932667 GAAAAGAA
1 -AAAAGAA
16932675 AAA
1 AAA
16932678 TTCAATTTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
7 27 0.61
8 7 0.16
9 10 0.23
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:16932640 original size:19 final size:19
Alignment explanation
Indices: 16932616--16932671 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 19
16932606 AGCCCAGCAG
16932616 AAAAAGAAAAGAAAAAAGA
1 AAAAAGAAAAGAAAAAAGA
16932635 AAAAAG--AA-AAAAAAGA
1 AAAAAGAAAAGAAAAAAGA
*
16932651 AAAAAGAAGAG-AAAAAGA
1 AAAAAGAAAAGAAAAAAGA
16932669 AAA
1 AAA
16932672 GAAAAATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 14 0.42
17 2 0.06
18 11 0.33
19 6 0.18
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAAAGA
Found at i:16932648 original size:16 final size:17
Alignment explanation
Indices: 16932614--16932671 Score: 82
Period size: 18 Copynumber: 3.4 Consensus size: 17
16932604 GCAGCCCAGC
*
16932614 AGAAAAAGAAAAGAAAAA
1 AGAAAAA-AGAAGAAAAA
16932632 AGAAAAAAGAA-AAAAA
1 AGAAAAAAGAAGAAAAA
16932648 AGAAAAAAGAAGAGAAAA
1 AGAAAAAAGAAGA-AAAA
16932666 AGAAAA
1 AGAAAA
16932672 GAAAAATTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
16 16 0.43
17 4 0.11
18 17 0.46
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAAAAAGAAGAAAAA
Found at i:16932652 original size:23 final size:23
Alignment explanation
Indices: 16932616--16932677 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
16932606 AGCCCAGCAG
*
16932616 AAAAAGAAAAGAAAAAAGAA-AA
1 AAAAAAAAAAGAAAAAAGAAGAA
*
16932638 AAGAAAAAAAAGAAAAAAGAAGAG
1 AA-AAAAAAAAGAAAAAAGAAGAA
*
16932662 AAAAAGAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
16932678 TTCAATTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 2 0.06
23 30 0.86
24 3 0.09
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAGAAAAAAGAAGAA
Found at i:16932672 original size:16 final size:14
Alignment explanation
Indices: 16932616--16932677 Score: 72
Period size: 14 Copynumber: 4.1 Consensus size: 14
16932606 AGCCCAGCAG
16932616 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
16932630 AAAGAA-AAAAGAAA
1 AAA-AAGAAAAGAAA
16932644 AAAAAGAAAAAAGAAGA
1 AAAAAG--AAAAGAA-A
16932661 GAAAAAGAAAAGAAA
1 -AAAAAGAAAAGAAA
16932676 AA
1 AA
16932678 TTCAATTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 2 0.05
14 16 0.38
15 3 0.07
16 14 0.33
17 1 0.02
18 6 0.14
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:16933056 original size:20 final size:22
Alignment explanation
Indices: 16933031--16933073 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16933021 TCGGGTTTCG
16933031 AAATTT-TCGTG-TCTTCAAAA
1 AAATTTCTCGTGTTCTTCAAAA
*
16933051 AAATTTCTCGTGTTTTTCAAAA
1 AAATTTCTCGTGTTCTTCAAAA
16933073 A
1 A
16933074 TAAGGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 5 0.25
22 9 0.45
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (22 bp):
AAATTTCTCGTGTTCTTCAAAA
Found at i:16933233 original size:18 final size:19
Alignment explanation
Indices: 16933210--16933356 Score: 89
Period size: 18 Copynumber: 8.2 Consensus size: 19
16933200 TCCCGTGTTG
*
16933210 CAAAAATTTTCATGTTTTT
1 CAAAAATTTTCGTGTTTTT
*
16933229 CAAAAATTCTCGTG-TTTT
1 CAAAAATTTTCGTGTTTTT
** ***
16933247 CAAAAAAATTC-CAATTTT
1 CAAAAATTTTCGTGTTTTT
*
16933265 CAAAATTTTTCGTG-TTTT
1 CAAAAATTTTCGTGTTTTT
* * *
16933283 CTGAAAA-CTTC-TGTGTTT
1 C-AAAAATTTTCGTGTTTTT
16933301 CAAAAATTTTCGTG--TTT
1 CAAAAATTTTCGTGTTTTT
* *
16933318 CTAAAATTTTC--GTATTT
1 CAAAAATTTTCGTGTTTTT
*
16933335 CAAAAATTTTCTTG-TTTT
1 CAAAAATTTTCGTGTTTTT
16933353 CAAA
1 CAAA
16933357 TTTTTCGTAT
Statistics
Matches: 97, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
15 1 0.01
17 32 0.33
18 46 0.47
19 18 0.19
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (19 bp):
CAAAAATTTTCGTGTTTTT
Found at i:16933243 original size:36 final size:35
Alignment explanation
Indices: 16933177--16933244 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
16933167 TAAAAATCGG
*
16933177 AAAATTTTTGTGTTTTCAAAAGTTCCCGTGTTGCA
1 AAAATTTTTGTGTTTTCAAAAATTCCCGTGTTGCA
*
16933212 AAAATTTTCATGT-TTTTCAAAAATTCTCGTGTT
1 AAAATTTT--TGTGTTTTCAAAAATTCCCGTGTT
16933245 TTCAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 8 0.28
36 18 0.62
37 3 0.10
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (35 bp):
AAAATTTTTGTGTTTTCAAAAATTCCCGTGTTGCA
Found at i:16933315 original size:17 final size:17
Alignment explanation
Indices: 16933177--16933526 Score: 176
Period size: 17 Copynumber: 19.9 Consensus size: 17
16933167 TAAAAATCGG
*
16933177 AAAATTTTTGTGTTTTCA
1 AAAATTTTCGTG-TTTCA
* ** *
16933195 AAAGTTCCCGTGTTGCA
1 AAAATTTTCGTGTTTCA
*
16933212 AAAATTTTCATGTTTTTCA
1 AAAATTTTC--GTGTTTCA
*
16933231 AAAATTCTCGTGTTTTCAA
1 AAAATTTTCGTG-TTTC-A
* * *
16933250 AAAAATTCCAAT-TTTCA
1 AAAATTTTC-GTGTTTCA
* *
16933267 AAATTTTTCGTGTTTTCTG
1 AAAATTTTCGTG-TTTC-A
*
16933286 AAAA-CTTCTGTGTTTCA
1 AAAATTTTC-GTGTTTCA
*
16933303 AAAATTTTCGTGTTTCT
1 AAAATTTTCGTGTTTCA
*
16933320 AAAATTTTCGTATTTCA
1 AAAATTTTCGTGTTTCA
*
16933337 AAAATTTTCTTGTTTTC-
1 AAAATTTTCGTG-TTTCA
* * *
16933354 AAATTTTTCGTATTTAA
1 AAAATTTTCGTGTTTCA
**
16933371 AAAATCCTCGTGTTTTC-
1 AAAATTTTCGTG-TTTCA
*
16933388 AAAA-TTCCAGTGTTTCA
1 AAAATTTTC-GTGTTTCA
*
16933405 AAATTTTTCGTGTTTCAAAAA
1 AAAATTTTCGTGTTTC----A
**
16933426 AAAATTCCCGT-TTTCCA
1 AAAATTTTCGTGTTT-CA
* *
16933443 AAAACTTTCGTGTTTTA
1 AAAATTTTCGTGTTTCA
**
16933460 AGAAATTGACCGTGTTTCA
1 A-AAATT-TTCGTGTTTCA
*
16933479 AAAA-TCTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
* *
16933495 AAGAAATCTCGTGTTTC-
1 AA-AATTTTCGTGTTTCA
16933512 AAAATTTTCGTGTTT
1 AAAATTTTCGTGTTT
16933527 TTTTAAAAAT
Statistics
Matches: 247, Mismatches: 59, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
16 31 0.13
17 105 0.43
18 61 0.25
19 36 0.15
20 4 0.02
21 10 0.04
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCA
Found at i:16934402 original size:24 final size:24
Alignment explanation
Indices: 16934374--16934450 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 24
16934364 ACAACATTAA
16934374 AAATTGGAACAAACTTTGTAATAT
1 AAATTGGAACAAACTTTGTAATAT
* * **
16934398 AAATT--AA-ATACATTACAATATT
1 AAATTGGAACAAACTTTGTAATA-T
16934420 AAAACTTGGAACAAACTTTGTAATAT
1 -AAA-TTGGAACAAACTTTGTAATAT
16934446 AAATT
1 AAATT
16934451 TTGTTATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
21 9 0.23
22 3 0.08
23 3 0.08
24 9 0.23
25 3 0.08
26 3 0.08
27 9 0.23
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (24 bp):
AAATTGGAACAAACTTTGTAATAT
Found at i:16934423 original size:48 final size:48
Alignment explanation
Indices: 16934359--16934450 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
16934349 ATTAATTGCA
16934359 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
* *
16934407 ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
16934451 TTGTTATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (48 bp):
ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
Found at i:16934485 original size:62 final size:62
Alignment explanation
Indices: 16934388--16934512 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
16934378 TGGAACAAAC
* *
16934388 TTTGTAATATAAATTAAATACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAAT
1 TTTGTAATATAAATTAAATACATTAAAACATTAAAACTTGGAACAAACTTTGTAATATAAAT
* *
16934450 TTTGTTATATAAATTAAATACATTAAAACATTAAAACTTGGAACAAGCTTTGTAATATAAAT
1 TTTGTAATATAAATTAAATACATTAAAACATTAAAACTTGGAACAAACTTTGTAATATAAAT
16934512 T
1 T
16934513 AGGTACATAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (62 bp):
TTTGTAATATAAATTAAATACATTAAAACATTAAAACTTGGAACAAACTTTGTAATATAAAT
Found at i:16938218 original size:52 final size:52
Alignment explanation
Indices: 16938157--16938257 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
16938147 CGACTTGACG
* * *
16938157 GGATTAAAAAAGTTCTTTTTTCGATCAAAATCAATGTTTTTAGAACTAGGCA
1 GGATCAAAAAAGTTCTTTTATCGATCAAAATCAATGTTTTCAGAACTAGGCA
*
16938209 GGATCAAAAAAGTTCTTTTATCGATCAAAATCAGTGTTTTCAGAACTAG
1 GGATCAAAAAAGTTCTTTTATCGATCAAAATCAATGTTTTCAGAACTAG
16938258 ACTGGATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (52 bp):
GGATCAAAAAAGTTCTTTTATCGATCAAAATCAATGTTTTCAGAACTAGGCA
Found at i:16948654 original size:16 final size:16
Alignment explanation
Indices: 16948629--16948660 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16948619 TAATGTGTTT
16948629 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
*
16948645 TGCTGTTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
16948661 ATGCAGAATG
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:0.12, C:0.09, G:0.25, T:0.53
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:16948842 original size:45 final size:45
Alignment explanation
Indices: 16948774--16948935 Score: 261
Period size: 45 Copynumber: 3.6 Consensus size: 45
16948764 AAGAGGTGGA
** * * *
16948774 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
16948819 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
16948864 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
16948909 CAACATTATGCATAATTCATGGAAGAA
1 CAACATCATGCATAATTCATGGAAGAA
16948936 CCTTGAATTA
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 110 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:16952290 original size:16 final size:16
Alignment explanation
Indices: 16952269--16952300 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16952259 TAATGTGTTT
16952269 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
16952285 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
16952301 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:16952482 original size:45 final size:45
Alignment explanation
Indices: 16952414--16952575 Score: 270
Period size: 45 Copynumber: 3.6 Consensus size: 45
16952404 AAGAGGTGGA
** * * *
16952414 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
16952459 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
16952504 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
16952549 CAACATCATGCATAATTCATGGAAGAA
1 CAACATCATGCATAATTCATGGAAGAA
16952576 CCTTGAATTA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:16965695 original size:25 final size:25
Alignment explanation
Indices: 16965667--16965714 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16965657 AACCTCTTTC
*
16965667 GAGCTGAATAACGGAAAGCTCATGT
1 GAGCTAAATAACGGAAAGCTCATGT
*
16965692 GAGCTAAATAACGGGAAGCTCAT
1 GAGCTAAATAACGGAAAGCTCAT
16965715 AAGAGTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (25 bp):
GAGCTAAATAACGGAAAGCTCATGT
Found at i:16973878 original size:5 final size:5
Alignment explanation
Indices: 16973868--16973894 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16973858 ATTTCTTGGG
16973868 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
16973895 ACCAAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:16975730 original size:8 final size:8
Alignment explanation
Indices: 16975719--16975757 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
16975709 AGCTACAATA
16975719 AAACTAAC
1 AAACTAAC
16975727 AAACTAAC
1 AAACTAAC
16975735 AAACT-AC
1 AAACTAAC
*
16975742 CAACTAAC
1 AAACTAAC
16975750 ACAACTAA
1 A-AACTAA
16975758 GAACTAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
8 15 0.56
9 6 0.22
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (8 bp):
AAACTAAC
Found at i:16975740 original size:16 final size:16
Alignment explanation
Indices: 16975719--16975757 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
16975709 AGCTACAATA
16975719 AAACTAACAAACTAAC
1 AAACTAACAAACTAAC
*
16975735 AAACT-ACCAACTAAC
1 AAACTAACAAACTAAC
16975750 ACAACTAA
1 A-AACTAA
16975758 GAACTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 10 0.50
16 9 0.45
17 1 0.05
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (16 bp):
AAACTAACAAACTAAC
Found at i:16975762 original size:16 final size:15
Alignment explanation
Indices: 16975719--16975763 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
16975709 AGCTACAATA
16975719 AAACTAACAAACTAAC
1 AAACTAAC-AACTAAC
*
16975735 AAACTACCAACTAAC
1 AAACTAACAACTAAC
*
16975750 ACAACTAAGAACTA
1 A-AACTAACAACTA
16975764 GAAAAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.58, C:0.27, G:0.02, T:0.13
Consensus pattern (15 bp):
AAACTAACAACTAAC
Found at i:16982543 original size:21 final size:21
Alignment explanation
Indices: 16982517--16982557 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16982507 AGACGAGCAA
* *
16982517 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
16982538 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
16982558 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:16989252 original size:13 final size:15
Alignment explanation
Indices: 16989228--16989262 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
16989218 GACACCAGAT
16989228 TATTTTTAA-ATAAG
1 TATTTTTAATATAAG
16989242 TATTTTTAATATAAG
1 TATTTTTAATATAAG
16989257 TATTTT
1 TATTTT
16989263 ATTAGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (15 bp):
TATTTTTAATATAAG
Found at i:16990198 original size:22 final size:22
Alignment explanation
Indices: 16990173--16990216 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16990163 AATAATGGAG
*
16990173 AAAT-ATATATTAATATTATATT
1 AAATAATA-ATTAAAATTATATT
16990195 AAATAATAATTAAAATTATATT
1 AAATAATAATTAAAATTATATT
16990217 TATACCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAATTAAAATTATATT
Found at i:16991478 original size:17 final size:17
Alignment explanation
Indices: 16991448--16991481 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16991438 AGTTAACAAT
**
16991448 ATTAATTATTTAAACTA
1 ATTAATTACATAAACTA
16991465 ATTAATTACATAAACTA
1 ATTAATTACATAAACTA
16991482 TAAAGAGTAA
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:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAATTACATAAACTA
Found at i:16991773 original size:3 final size:3
Alignment explanation
Indices: 16991765--16991790 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16991755 TTTTCTTTCT
16991765 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
16991791 TATACAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17009995 original size:11 final size:11
Alignment explanation
Indices: 17009981--17010013 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
17009971 AATGTTTATG
17009981 TATTGTTTGTT
1 TATTGTTTGTT
17009992 TATTGTTTGTT
1 TATTGTTTGTT
*
17010003 T-TTGTGTGTT
1 TATTGTTTGTT
17010013 T
1 T
17010014 TAATTTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.06, C:0.00, G:0.21, T:0.73
Consensus pattern (11 bp):
TATTGTTTGTT
Found at i:17014853 original size:25 final size:24
Alignment explanation
Indices: 17014805--17014853 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
17014795 TTTTTTTCAA
17014805 TTTAATTTTTTAATTAAATTTTAAT
1 TTTAATTTTTTAA-TAAATTTTAAT
17014830 TTTAATTTTTTTAA-AAATTGTTAA
1 TTTAA-TTTTTTAATAAATT-TTAA
17014854 AATTAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 9 0.41
26 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTAATTTTTTAATAAATTTTAAT
Found at i:17014859 original size:25 final size:25
Alignment explanation
Indices: 17014806--17014861 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
17014796 TTTTTTCAAT
**
17014806 TTAA-TTTTTTAATTAAATTTTAATT
1 TTAATTTTTTTAA-TAAATTTTAAAA
17014831 TTAATTTTTTTAA-AAATTGTTAAAA
1 TTAATTTTTTTAATAAATT-TTAAAA
17014856 TTAATT
1 TTAATT
17014862 ATCAACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 14 0.52
26 8 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTAATTTTTTTAATAAATTTTAAAA
Found at i:17015203 original size:24 final size:24
Alignment explanation
Indices: 17015157--17015208 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
17015147 TCTCTTTTTG
17015157 AAAAAAATAATGACTAAATTTAAGT
1 AAAAAAATAATGACTAAATTTAA-T
17015182 AAAAAAATAA-GAACTAAA-TTAAT
1 AAAAAAATAATG-ACTAAATTTAAT
17015205 AAAA
1 AAAA
17015209 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 16 0.62
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (24 bp):
AAAAAAATAATGACTAAATTTAAT
Found at i:17017590 original size:40 final size:40
Alignment explanation
Indices: 17017535--17017651 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
17017525 CGTTTGGAGC
* * * **
17017535 AAAAGCGCCGGTAAAGAGTGAGCAATAGCGGCGTTTAATT
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
17017575 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
17017615 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
17017652 TAGATAACGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
Found at i:17017989 original size:112 final size:112
Alignment explanation
Indices: 17017599--17018302 Score: 1178
Period size: 112 Copynumber: 6.3 Consensus size: 112
17017589 AGAGTGAGCA
** * *
17017599 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
17017664 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT--GGGGGGGAC
*
17017713 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
*
17017778 CAAACAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* *
17017824 TTAGTGGCATTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
17017889 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* *
17017936 TTAGTGGCGTTTATTGCAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
17018001 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
17018048 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
*
17018113 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* ** * * *
17018160 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCC
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AAATAACGCC
* *
17018225 GCAAATAATACTCCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGGG-C
65 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
17018272 ATTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 -TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
17018303 TCTAGGTGTT
Statistics
Matches: 562, Mismatches: 25, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
111 107 0.19
112 275 0.49
113 81 0.14
114 99 0.18
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (112 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:17018101 original size:224 final size:224
Alignment explanation
Indices: 17017599--17018302 Score: 1187
Period size: 225 Copynumber: 3.1 Consensus size: 224
17017589 AGAGTGAGCA
** * *
17017599 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
17017664 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGGGACTTAGTGGCGTTTATTG
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT--GGGGGGGACTTAGTGGCGTTTATTG
*
17017729 TAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAACAATACACCCAG
129 TAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAG
17017794 ACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
194 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* *
17017824 TTAGTGGCATTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
*
17017889 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGCA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
17017954 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGAC
131 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGAC
17018019 GGTGCCGTTTTGTGGCCTTTGGGGGGGAC
196 GGTGCCGTTTTGTGGCCTTTGGGGGGGAC
17018048 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
*
17018113 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAATTAGTGGCGTTTATTGTA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
* ** * * * * *
17018178 AAGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCCGCAAATAATACTCCCAGA
131 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AGATAACGCCGCAAATAATACACCCAGA
*
17018243 CGGTGCCGTTTTGTGTCCTTTGGGGGGG-C
195 CGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
17018272 ATTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 -TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
17018303 TCTAGGTGTT
Statistics
Matches: 454, Mismatches: 22, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
223 110 0.24
224 167 0.37
225 177 0.39
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (224 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGAC
GGTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:17018932 original size:12 final size:12
Alignment explanation
Indices: 17018915--17018940 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17018905 ATATATAATT
17018915 GTAAAAGAGGTC
1 GTAAAAGAGGTC
17018927 GTAAAAGAGGTC
1 GTAAAAGAGGTC
17018939 GT
1 GT
17018941 GCTATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.35, T:0.19
Consensus pattern (12 bp):
GTAAAAGAGGTC
Found at i:17019429 original size:84 final size:84
Alignment explanation
Indices: 17019318--17019518 Score: 332
Period size: 84 Copynumber: 2.4 Consensus size: 84
17019308 TAGTTAAACT
* *
17019318 TTTAGTGGCGTTTTT-AAGAAAATGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGT
1 TTTAGTGGCGTTTTTCAA-AAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGT
17019382 TTCTGTTCACAGCTGTAATA
65 TTCTGTTCACAGCTGTAATA
* *
17019402 TTTAGTGGCGTTTTTCTAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTTGTT
1 TTTAGTGGCGTTTTTCAAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
17019467 TCTGTTCACAGCTGTAATA
66 TCTGTTCACAGCTGTAATA
*
17019486 TTTAGTGGCGTTTTTACCAAAAACGCCACAAAA
1 TTTAGTGGCGTTTTT-CAAAAAACGCCACAAAA
17019519 CGGTGTTAAT
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
84 93 0.85
85 17 0.15
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (84 bp):
TTTAGTGGCGTTTTTCAAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
TCTGTTCACAGCTGTAATA
Found at i:17020540 original size:11 final size:11
Alignment explanation
Indices: 17020503--17020542 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
17020493 GAATATCTCA
17020503 AACT-ATGGGT
1 AACTAATGGGT
*
17020513 AACTAGTGGGT
1 AACTAATGGGT
17020524 AACTAATGGGT
1 AACTAATGGGT
17020535 AACTAATG
1 AACTAATG
17020543 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:17021959 original size:40 final size:40
Alignment explanation
Indices: 17021902--17022066 Score: 150
Period size: 40 Copynumber: 3.7 Consensus size: 40
17021892 AATACATTAC
*
17021902 TTACTAAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACT-AAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
17021943 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAA
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT---TAAA----TTT--A
17021996 TTTATTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTA---CTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
17022040 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
17022067 ACATTACTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 35
0.73 0.02 0.25
Matches are distributed among these distances:
40 45 0.43
41 5 0.05
43 5 0.05
44 3 0.03
46 3 0.03
47 4 0.04
50 4 0.04
51 3 0.03
53 3 0.03
54 5 0.05
57 24 0.23
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Done.