Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 138 of 172
Found at i:45523267 original size:13 final size:13
Alignment explanation
Indices: 45523249--45523273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45523239 TATATTTGGT
45523249 AATAATAATATAA
1 AATAATAATATAA
45523262 AATAATAATATA
1 AATAATAATATA
45523274 TACATAAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATATAA
Found at i:45523429 original size:17 final size:17
Alignment explanation
Indices: 45523407--45523448 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
45523397 ACAATAATAT
45523407 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
45523424 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
45523441 ATAATATA
1 AAAATATA
45523449 GTTATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:45524565 original size:30 final size:30
Alignment explanation
Indices: 45524482--45524598 Score: 103
Period size: 30 Copynumber: 3.9 Consensus size: 30
45524472 ATGTAATTTT
* * * *
45524482 AGAAAATTT-AGGGTTAAAATGCATTTTAA
1 AGAAAGTTTAAGGGTCAAAATGAAATTTAA
* * * **
45524511 GGAAAGTTTAGGGGTCTAGGTGAAATTTAA
1 AGAAAGTTTAAGGGTCAAAATGAAATTTAA
45524541 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAAGGGTCAAAATGAAATTTAA
* * *
45524570 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTAAGGGTCAAAATGAAATTT
45524599 TTATTTTTTG
Statistics
Matches: 69, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
29 9 0.13
30 60 0.87
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.30
Consensus pattern (30 bp):
AGAAAGTTTAAGGGTCAAAATGAAATTTAA
Found at i:45524598 original size:60 final size:59
Alignment explanation
Indices: 45524482--45524598 Score: 137
Period size: 60 Copynumber: 2.0 Consensus size: 59
45524472 ATGTAATTTT
* * * * **
45524482 AGAAAATTTAGGGTTAAAATGCATTTTAAGGAAAGTTTAGGGGTCTAGGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
45524541 AGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
45524599 TTATTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 11 0.23
60 37 0.77
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.30
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:45524623 original size:24 final size:24
Alignment explanation
Indices: 45524595--45524640 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
45524585 TCAAAATGCA
45524595 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTGAAAATTTTTT
*
45524619 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTGAAAATTTT
45524641 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTTTGAAAATTTTTT
Found at i:45524910 original size:78 final size:78
Alignment explanation
Indices: 45524780--45525109 Score: 315
Period size: 78 Copynumber: 4.3 Consensus size: 78
45524770 TCATTCTTTA
* * * * *
45524780 TTGAAAAACAAAAAAATTGAAAATAGCTC-GGGATGCGACCCGAAGTTCAACTCACCTCTCG-AA
1 TTGAAAAAC-AAAAAATTGAAAATACCTCAGCG-TGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
45524843 TTATGAGTTGA-TCTT
64 -TATGAGTTGATTTTT
* *
45524858 TTGAAAAAGCAAAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAAT
1 TTGAAAAA-CAAAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
45524923 ATGAGTTGATTTTT
65 ATGAGTTGATTTTT
* * * ** **
45524937 TTGAAAGAC-AGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATA
1 TTGAAAAACAAAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
45524999 TGAGTTGACTTTTT
66 TGAGTTGA-TTTTT
* * * *
45525013 TTTAAAAA-AAACAGGAATTGAAATTACCTCAGC-T-TGTCCCGAGGCTCAACTCACCTCTCGTA
1 TTGAAAAACAAA-A--AATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCA
*
45525075 ATATGAATTGA--TTT
63 ATATGAGTTGATTTTT
*
45525089 TTGAAAAAC-ATAAATTGAAAA
1 TTGAAAAACAAAAAATTGAAAA
45525110 ACGGAAATCG
Statistics
Matches: 211, Mismatches: 29, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
73 8 0.04
75 33 0.16
76 23 0.11
77 25 0.12
78 61 0.29
79 61 0.29
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (78 bp):
TTGAAAAACAAAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTT
Found at i:45525061 original size:79 final size:76
Alignment explanation
Indices: 45524826--45525090 Score: 284
Period size: 79 Copynumber: 3.4 Consensus size: 76
45524816 GACCCGAAGT
* * * *
45524826 TCAACTCACCTCTCG-AATTATGAGTTGA-TCTTTTGAAAAAGCAAAAAATTGAAAATACCTCAG
1 TCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTTAAAAAAC-AGAAATTGAAAATACCTCAG
*
45524889 CGTGTGACCTGAGGC
64 C-T-TGTCCTGAGGC
* * * * *
45524904 TTAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAACAGAAATTGAAAATACCTCAGCT
*
45524968 TGTCTTGAGGC
66 TGTCCTGAGGC
** * *
45524979 TCAACTCATTTCTCGCAATATGAGTTGACTTTTTTTTAAAAAAAACAGGAATTGAAATTACCTCA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTT--AAAAAACAGAAATTGAAAATACCTCA
*
45525044 GCTTGTCCCGAGGC
63 GCTTGTCCTGAGGC
* *
45525058 TCAACTCACCTCTCGTAATATGAATTGATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
45525091 GAAAAACATA
Statistics
Matches: 156, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
75 34 0.22
77 26 0.17
78 38 0.24
79 58 0.37
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (76 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAACAGAAATTGAAAATACCTCAGCT
TGTCCTGAGGC
Found at i:45525228 original size:83 final size:83
Alignment explanation
Indices: 45524944--45525422 Score: 504
Period size: 83 Copynumber: 5.7 Consensus size: 83
45524934 TTTTTGAAAG
* **
45524944 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACT
1 ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
* * *
45525009 TTT----TTTTAA-AAAAA
65 TTTAAAAATATAATTAAAA
* * * * * * *
45525023 ACAGGAATTGAAATTACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
*
45525088 TTTGAAAAACATAAATTGAAAA
65 TTT-AAAAATAT-AATT-AAAA
* * * * * * *
45525110 ACGGAAATCGAAAATACCGCAACGTGTCATGAGGCTCCACTCACATCTCGCAATATCAGTTGA-T
1 ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
45525174 TTAAAAATAGTCATTAAGA
66 TTAAAAATA-TAATTAAAA
*
45525193 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
1 ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
45525257 TTAAAAATAGTCATTAAGA
66 TTAAAAATA-TAATTAAAA
* * *
45525276 ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAATTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
*
45525341 TTTGCAAAATATAAATTGAAAA
65 TTT-AAAAATAT-AATT-AAAA
* * * *
45525363 ACATAAATTGAAATTACCTCAACGTGTCCTAAGGCTCAACTCACCTTTCGCAATATGAGT
1 ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
45525423 CGACTTTTTT
Statistics
Matches: 333, Mismatches: 53, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
79 57 0.17
83 138 0.41
84 10 0.03
85 10 0.03
86 9 0.03
87 109 0.33
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (83 bp):
ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTAAAAATATAATTAAAA
Found at i:45525250 original size:170 final size:169
Alignment explanation
Indices: 45524871--45525420 Score: 469
Period size: 166 Copynumber: 3.3 Consensus size: 169
45524861 AAAAAGCAAA
* * * *
45524871 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTT-
1 AAATTGAAATTACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTA
* * * * * **
45524935 -------T-TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
64 AAAACAGTAATT-AAAAACAGAAATCGAAAATACCGCAACGTGTCATGAGGCTCAACTCACATCT
* * * *
45524992 CGCAATATGAGTTGACTTTT-----TTTTAAA---AAAAACAG
128 CGCAATATCAATTGA-TTTTGAAAAATATAAATTGAAAAACAG
* * * * *
45525027 GAATTGAAATTACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGATTTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGA--TTT-
* *
45525092 AAAAACA-TAAATTGAAAAACGGAAATCGAAAATACCGCAACGTGTCATGAGGCTCCACTCACAT
63 AAAAACAGT-AATT-AAAAACAGAAATCGAAAATACCGCAACGTGTCATGAGGCTCAACTCACAT
* * *
45525156 CTCGCAATATCAGTTGA-TTT-AAAAATAGT-CATT-AAGAACAG
126 CTCGCAATATCAATTGATTTTGAAAAATA-TAAATTGAAAAACAG
* * *
45525197 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAA
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTAAA
* * * * * * * * *
45525262 AATAGTCATTAAGAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGC
66 AACAGTAATTAAAAACAGAAATCGAAAATACCGCAACGTGTCATGAGGCTCAACTCACATCTCGC
* * *
45525327 AATATGAATTGATTTTTGCAAAATATAAATTGAAAAACAT
131 AATATCAATTGA-TTTTGAAAAATATAAATTGAAAAACAG
* *
45525367 AAATTGAAATTACCTCAACGTGTCCTAAGGCTCAACTCACCTTTCGCAATATGA
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
45525421 GTCGACTTTT
Statistics
Matches: 319, Mismatches: 50, Indels: 36
0.79 0.12 0.09
Matches are distributed among these distances:
154 32 0.10
156 23 0.07
164 4 0.01
166 117 0.37
167 9 0.03
168 10 0.03
169 10 0.03
170 114 0.36
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (169 bp):
AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTAAA
AACAGTAATTAAAAACAGAAATCGAAAATACCGCAACGTGTCATGAGGCTCAACTCACATCTCGC
AATATCAATTGATTTTGAAAAATATAAATTGAAAAACAG
Found at i:45525368 original size:14 final size:14
Alignment explanation
Indices: 45525346--45525375 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45525336 TGATTTTTGC
*
45525346 AAAATATAAATTGA
1 AAAACATAAATTGA
45525360 AAAACATAAATTGA
1 AAAACATAAATTGA
45525374 AA
1 AA
45525376 TTACCTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:45525388 original size:253 final size:249
Alignment explanation
Indices: 45524944--45525418 Score: 664
Period size: 253 Copynumber: 1.9 Consensus size: 249
45524934 TTTTTGAAAG
**
45524944 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACT
** * * * * *
45525009 TTTTTTTAAAAAAAACAGGAATTGAAATTACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGT
66 TTTAGTCAAAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
45525074 AATATGAATTGATTTTTGAAAAACATAAATTGAAAAACGGAAATCGAAAATACCGCAACGTGTCA
131 AATATGAATTGATTTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCGCAACGTGTCA
* *
45525139 TGAGGCTCCACTCACATCTCGCAATATCAGTTGATTTAAAAATAGTCATTAAGA
196 TAAGGCTCAACTCACATCTCGCAATATCAGTTGATTTAAAAATAGTCATTAAGA
45525193 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACT
** * * *
45525257 TTAAAAATAGTCATTAAGAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCT
66 TT-----TAGTCAAAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCT
* * * * * *
45525322 CTCGCAATATGAATTGATTTTTGCAAAATATAAATTGAAAAACATAAATTGAAATTACCTCAACG
126 CTCGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCGCAACG
* * *
45525387 TGTCCTAAGGCTCAACTCACCTTTCGCAATAT
191 TGTCATAAGGCTCAACTCACATCTCGCAATAT
45525419 GAGTCGACTT
Statistics
Matches: 195, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
248 3 0.02
249 61 0.31
253 131 0.67
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (249 bp):
ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACT
TTTAGTCAAAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
AATATGAATTGATTTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCGCAACGTGTCA
TAAGGCTCAACTCACATCTCGCAATATCAGTTGATTTAAAAATAGTCATTAAGA
Found at i:45525421 original size:170 final size:166
Alignment explanation
Indices: 45524871--45525422 Score: 549
Period size: 170 Copynumber: 3.3 Consensus size: 166
45524861 AAAAAGCAAA
* *
45524871 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTT-
1 AAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTA
* * * * **
45524935 ---TTTTGA--AAG-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
64 AAAATATAATTAAGAACAGAAATTGAAAATACCTCAACGTGTCATGAGGCTCAACTCACATCTCG
*
45524994 CAATATGAGTTGACTTTTT----TTTAAA--AAAAACAG
129 CAATATGAGTTGA-TTTTTAAAATATAAATTAAAAACAG
* * * * * * *
45525027 GAATTGAAATTACCTCAGCTTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT-
* * * * * *
45525092 AAAAACATAAATTGAAAAACGGAAATCGAAAATACCGCAACGTGTCATGAGGCTCCACTCACATC
63 AAAAATAT-AATT-AAGAACAGAAATTGAAAATACCTCAACGTGTCATGAGGCTCAACTCACATC
* * * *
45525157 TCGCAATATCAGTTGA-TTTAAAAATAGT-CATTAAGAACAG
126 TCGCAATATGAGTTGATTTTTAAAATA-TAAATTAAAAACAG
*
45525197 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAA
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAA
* * * * *
45525262 AATAGTCATTAAGAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGC
66 AATA-TAATTAAGAACAGAAATTGAAAATACCTCAACGTGTCATGAGGCTCAACTCACATCTCGC
* *
45525327 AATATGAATTGATTTTTGCAAAATATAAATTGAAAAACAT
130 AATATGAGTTGATTTTT--AAAATATAAATT-AAAAACAG
* * *
45525367 AAATTGAAATTACCTCAACGTGTCCTAAGGCTCAACTCACCTTTCGCAATATGAGT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
45525423 CGACTTTTTT
Statistics
Matches: 318, Mismatches: 53, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
154 32 0.10
156 23 0.07
161 1 0.00
162 1 0.00
164 3 0.01
165 2 0.01
166 111 0.35
167 12 0.04
168 7 0.02
169 10 0.03
170 116 0.36
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (166 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAA
AATATAATTAAGAACAGAAATTGAAAATACCTCAACGTGTCATGAGGCTCAACTCACATCTCGCA
ATATGAGTTGATTTTTAAAATATAAATTAAAAACAG
Found at i:45537417 original size:30 final size:30
Alignment explanation
Indices: 45537288--45537417 Score: 142
Period size: 30 Copynumber: 4.4 Consensus size: 30
45537278 TCCTGGGGCT
*
45537288 AAATGTAATTTTTAAA-AAA-TTTA-GGGTTA
1 AAATGTAA--TTTAAAGAAAGTTTAGGGGTCA
*
45537317 AAATGTAATTTAAAGAAAGTTTAGGGGTCT
1 AAATGTAATTTAAAGAAAGTTTAGGGGTCA
* * *
45537347 AAGTGAAATTTAAAGAAAGTTTAAGGGTCA
1 AAATGTAATTTAAAGAAAGTTTAGGGGTCA
* *
45537377 AAATGAAATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAG-AAAGTTTAGGGGTCA
45537407 AAATGTAATTT
1 AAATGTAATTT
45537418 TTATTTTTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
27 6 0.07
28 3 0.03
29 14 0.16
30 64 0.74
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (30 bp):
AAATGTAATTTAAAGAAAGTTTAGGGGTCA
Found at i:45537441 original size:24 final size:24
Alignment explanation
Indices: 45537414--45537459 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
45537404 TCAAAATGTA
45537414 ATTTTTA-TTTTTTAAAAGTTTTTT
1 ATTTTTATTTTTTTAAAA-TTTTTT
45537438 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTTAAAATTTT
45537460 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTTTTAAAATTTTTT
Found at i:45549450 original size:25 final size:25
Alignment explanation
Indices: 45549380--45549454 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
45549370 AAACTTACAA
* * *
45549380 GGAGAAGCAACAGAGGGCTGCCGAT
1 GGAGATGCAGCAGAGGGCTGCCAAT
*
45549405 GGAGATGCAGCAGCA-GCCTGCCAAT
1 GGAGATGCAGCAG-AGGGCTGCCAAT
*
45549430 GGAGATGCAGCAGTGGGCTGCCAAT
1 GGAGATGCAGCAGAGGGCTGCCAAT
45549455 TTGGGGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.37, T:0.12
Consensus pattern (25 bp):
GGAGATGCAGCAGAGGGCTGCCAAT
Found at i:45549628 original size:79 final size:77
Alignment explanation
Indices: 45549522--45549673 Score: 225
Period size: 79 Copynumber: 1.9 Consensus size: 77
45549512 AAAATAAAAT
* * *
45549522 GGGAAAAAAGAATAAGAGATTTTAGGTGAAATTTTGGGATTTCGAGGGGGAGGGGGGAACCGATT
1 GGGAAAAAAGAAGAAGAGATTTCAGGTGAAATTTTGGGATTTCG-GGGGGA-GGGGGAACAGATT
45549587 TTGGGAAAAAGAAG
64 TTGGGAAAAAGAAG
* *
45549601 GGGAAAAAA-ACAGAAGAGATTTCAGGTGAAATTTTGGGATTTCGTGGGGAGGGGGAATAGATTT
1 GGGAAAAAAGA-AGAAGAGATTTCAGGTGAAATTTTGGGATTTCGGGGGGAGGGGGAACAGATTT
45549665 TGGGAAAAA
65 TGGGAAAAA
45549674 TACTAAGGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
77 21 0.31
78 6 0.09
79 40 0.60
ACGTcount: A:0.37, C:0.04, G:0.37, T:0.22
Consensus pattern (77 bp):
GGGAAAAAAGAAGAAGAGATTTCAGGTGAAATTTTGGGATTTCGGGGGGAGGGGGAACAGATTTT
GGGAAAAAGAAG
Found at i:45550653 original size:41 final size:41
Alignment explanation
Indices: 45550551--45550653 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
45550541 TTGGCGTTTT
* * *
45550551 TGCTAATGCTTGACTTTTTGAGGCGTTTTTCTCATAAACGC
1 TGCTAATGCTAGACCTTTTGCGGCGTTTTTCTCATAAACGC
* *
45550592 CGCTAATGCTAGACCTTTTGCGGCGTTTTTCTCATAAATGC
1 TGCTAATGCTAGACCTTTTGCGGCGTTTTTCTCATAAACGC
45550633 TGCTAATGCTAGACCTTTTGC
1 TGCTAATGCTAGACCTTTTGC
45550654 AGCCACTACT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (41 bp):
TGCTAATGCTAGACCTTTTGCGGCGTTTTTCTCATAAACGC
Found at i:45551184 original size:25 final size:25
Alignment explanation
Indices: 45551135--45551184 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45551125 TTTAATTGTC
* *
45551135 CTAACATGTTGTCCCAAGTGTTGTT
1 CTAACATGTTGTCCCAACTGATGTT
*
45551160 CTAACTTGTTGTCCCAACTGATGTT
1 CTAACATGTTGTCCCAACTGATGTT
45551185 TGAACAAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (25 bp):
CTAACATGTTGTCCCAACTGATGTT
Found at i:45560471 original size:14 final size:14
Alignment explanation
Indices: 45560452--45560494 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
45560442 ATCGTTTGAG
45560452 TTAAAATTAAAATT
1 TTAAAATTAAAATT
*
45560466 TTAAAATATTAAATT
1 TTAAAAT-TAAAATT
45560481 TTGAATAATTAAAA
1 TT-AA-AATTAAAA
45560495 ATAATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.29
15 8 0.33
16 6 0.25
17 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
TTAAAATTAAAATT
Found at i:45565010 original size:17 final size:17
Alignment explanation
Indices: 45564990--45565022 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45564980 TCATATATTT
45564990 TATTTTAAAATATTTTC
1 TATTTTAAAATATTTTC
45565007 TATTTTAAAATATTTT
1 TATTTTAAAATATTTT
45565023 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTTAAAATATTTTC
Found at i:45566131 original size:25 final size:25
Alignment explanation
Indices: 45566084--45566131 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
45566074 ATATGCTTTT
* * * *
45566084 TTATTTATTTTTTATTTTTTATATG
1 TTATATATTTATTATATTATATATG
45566109 TTATATATTTATTATATTATATA
1 TTATATATTTATTATATTATATA
45566132 AAAATTTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
TTATATATTTATTATATTATATATG
Found at i:45566813 original size:19 final size:18
Alignment explanation
Indices: 45566791--45566834 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
45566781 ATATTTTTGT
45566791 GTTTATTATACAAAAAATA
1 GTTTATTA-ACAAAAAATA
*
45566810 GTTTAGTTAACGAAAAATA
1 GTTTA-TTAACAAAAAATA
*
45566829 ATTTAT
1 GTTTAT
45566835 ACGTCAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 18 0.82
20 3 0.14
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (18 bp):
GTTTATTAACAAAAAATA
Found at i:45567061 original size:27 final size:27
Alignment explanation
Indices: 45567011--45567063 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
45567001 TTTTAAAATA
*
45567011 TTTAAAATTATTAAAATATTATATTTT
1 TTTAAAATTATTAAAATATCATATTTT
*
45567038 TTTAATATTATTAAACATA-CATATTT
1 TTTAAAATTATTAAA-ATATCATATTT
45567064 AATTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTAAAATTATTAAAATATCATATTTT
Found at i:45568547 original size:46 final size:46
Alignment explanation
Indices: 45568480--45568572 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
45568470 GTGAGACTGT
* * *
45568480 AAGTTTGTATACAATTTTGTGAGTCTAATGTTAGAGATTGGGGAGA
1 AAGTTTGCATACAATTTTGTGAGTCAAATGTTAGAGATTGGGAAGA
45568526 AAGTTTGCATACAATTTTGTGAGTCAAATGTTAGAGATTGGGAAGA
1 AAGTTTGCATACAATTTTGTGAGTCAAATGTTAGAGATTGGGAAGA
45568572 A
1 A
45568573 TCAAATAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (46 bp):
AAGTTTGCATACAATTTTGTGAGTCAAATGTTAGAGATTGGGAAGA
Found at i:45571780 original size:19 final size:22
Alignment explanation
Indices: 45571721--45571780 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 22
45571711 CCTGCAAAGA
* *
45571721 AGAAAACAGAGAGCAGAAAACAG
1 AGAAAGCAGAGA-AAGAAAACAG
*
45571744 AGAAAGCAGAGAAA-AAAAGAG
1 AGAAAGCAGAGAAAGAAAACAG
45571765 A-AAAGCA-A-AAAGAAAA
1 AGAAAGCAGAGAAAGAAAA
45571781 AATATTTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.09
19 5 0.15
20 6 0.18
21 7 0.21
22 1 0.03
23 11 0.33
ACGTcount: A:0.68, C:0.08, G:0.23, T:0.00
Consensus pattern (22 bp):
AGAAAGCAGAGAAAGAAAACAG
Found at i:45572800 original size:18 final size:18
Alignment explanation
Indices: 45572548--45572799 Score: 103
Period size: 18 Copynumber: 13.3 Consensus size: 18
45572538 GAACAATTGT
* *
45572548 TTATTCAGTAACAGTCAG
1 TTATTCAGTAATAATCAG
* * *
45572566 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
* *
45572584 TTATTCAATAATAACCAG
1 TTATTCAGTAATAATCAG
*
45572602 TTATTCAGTATCAATCAATTGATCGG
1 TTATTCAG--T-AAT--A---ATCAG
* * * *
45572628 TTATCCAGTAACAGTCAA
1 TTATTCAGTAATAATCAG
*
45572646 TTATTTAGTAA-AATCAG
1 TTATTCAGTAATAATCAG
* * ** *
45572663 ATATTCAATAGCAATTAAG
1 TTATTCAGTAATAA-TCAG
45572682 TTATTCAGTAATGTGACAATCAG
1 TTATTCAGTAA--T---AATCAG
*
45572705 TTATTCAGTAATAATCAT
1 TTATTCAGTAATAATCAG
*
45572723 TTATTCAGTAATATTCAG
1 TTATTCAGTAATAATCAG
* * *
45572741 TTATTTAGTAACAGTCTA-
1 TTATTCAGTAATAATC-AG
* * *
45572759 TTATCCAGTAATAGTCAA
1 TTATTCAGTAATAATCAG
* *
45572777 TTATTTAGAAATAATCAG
1 TTATTCAGTAATAATCAG
45572795 TTATT
1 TTATT
45572800 TTATACCTTT
Statistics
Matches: 173, Mismatches: 44, Indels: 34
0.69 0.18 0.14
Matches are distributed among these distances:
17 12 0.07
18 113 0.65
19 12 0.07
20 1 0.01
21 5 0.03
23 17 0.10
24 3 0.02
26 10 0.06
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:45573062 original size:6 final size:6
Alignment explanation
Indices: 45573051--45573077 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
45573041 TGCCGAATCG
45573051 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
45573078 GTCGGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:45573077 original size:51 final size:45
Alignment explanation
Indices: 45572963--45573071 Score: 182
Period size: 45 Copynumber: 2.4 Consensus size: 45
45572953 ACAAATCCGG
* *
45572963 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGAT
1 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
* *
45573008 AACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
45573053 AACAGTAACAGTAACAGTA
1 AACAGTAACAGTAACAGTA
45573072 ACAGTAGTCG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
Found at i:45574843 original size:5 final size:5
Alignment explanation
Indices: 45574835--45574875 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
45574825 TTTATATAAT
45574835 ATATA ATATA ATATA ATATA ATATA ATAT- A-ATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
45574876 ACAATTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 30 0.88
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:45575007 original size:21 final size:22
Alignment explanation
Indices: 45574968--45575020 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
45574958 CATACAATTG
*
45574968 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
45574990 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
45575010 ATAAAATAATA
1 TTAAAATAATA
45575021 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:45582012 original size:2 final size:2
Alignment explanation
Indices: 45582005--45582041 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
45581995 TAAATCAATT
* *
45582005 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45582042 TTCTTTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45591442 original size:3 final size:3
Alignment explanation
Indices: 45591434--45591460 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
45591424 NNNNNNNNNN
45591434 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
45591461 CATTGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:45593477 original size:9 final size:9
Alignment explanation
Indices: 45593463--45593535 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
45593453 GGCACCTGCA
45593463 ATTAAACAC
1 ATTAAACAC
45593472 ATTAAA-AC
1 ATTAAACAC
*
45593480 ---AAACAT
1 ATTAAACAC
45593486 ATTAAACAC
1 ATTAAACAC
*
45593495 ATTTGAACAC
1 A-TTAAACAC
45593505 TTATTAAACAC
1 --ATTAAACAC
45593516 A--AAACAC
1 ATTAAACAC
45593523 ATTAAACAC
1 ATTAAACAC
45593532 -TTAA
1 ATTAA
45593536 CTTAAATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 7 0.14
8 6 0.12
9 19 0.37
10 7 0.14
11 7 0.14
12 1 0.02
ACGTcount: A:0.55, C:0.19, G:0.01, T:0.25
Consensus pattern (9 bp):
ATTAAACAC
Found at i:45593503 original size:23 final size:21
Alignment explanation
Indices: 45593463--45593516 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
45593453 GGCACCTGCA
45593463 ATTAAACACATTAAAACAAACAT
1 ATTAAACACATTAAAAC--ACAT
** *
45593486 ATTAAACACATTTGAACACTT
1 ATTAAACACATTAAAACACAT
45593507 ATTAAACACA
1 ATTAAACACA
45593517 AAACACATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 13 0.46
23 15 0.54
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.26
Consensus pattern (21 bp):
ATTAAACACATTAAAACACAT
Found at i:45593784 original size:50 final size:52
Alignment explanation
Indices: 45593683--45593791 Score: 152
Period size: 50 Copynumber: 2.1 Consensus size: 52
45593673 ATAAGTTATT
45593683 TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATGAAAGTTACA
1 TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATGAAAGTTACA
* * * *
45593735 TAATGCAAGTCATT-ATTT-ATGATGCATACTT-AACTAACATTAAAGTTACA
1 TAATGCAAGAC-TTAATTTAATAATGCAGACTTAAACTAACATGAAAGTTACA
45593785 TAATGCA
1 TAATGCA
45593792 TTACTTTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
50 25 0.48
51 11 0.21
52 14 0.27
53 2 0.04
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (52 bp):
TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATGAAAGTTACA
Found at i:45599902 original size:1 final size:1
Alignment explanation
Indices: 45599898--45599928 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
45599888 CCCTCCCCCC
45599898 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
45599929 AGGCAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:45613798 original size:59 final size:59
Alignment explanation
Indices: 45613729--45613846 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
45613719 TCGACTTGGT
45613729 GCATTTACGTGACACCTTTAAACCAAAGCTAAATAATCTATATTATATTATTCTTTAAA
1 GCATTTACGTGACACCTTTAAACCAAAGCTAAATAATCTATATTATATTATTCTTTAAA
45613788 GCATTTACGTGACACCTTTAAACCAAAGCTAAATAATCTATATTATATTATTCTTTAAA
1 GCATTTACGTGACACCTTTAAACCAAAGCTAAATAATCTATATTATATTATTCTTTAAA
45613847 TATTTGGCGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (59 bp):
GCATTTACGTGACACCTTTAAACCAAAGCTAAATAATCTATATTATATTATTCTTTAAA
Found at i:45613922 original size:58 final size:58
Alignment explanation
Indices: 45613847--45613963 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
45613837 ATTCTTTAAA
45613847 TATTTGGCGAGTTCATGTCCTCAATTAATCCGTATCAATTGAGTTATATTTAGCGGAG
1 TATTTGGCGAGTTCATGTCCTCAATTAATCCGTATCAATTGAGTTATATTTAGCGGAG
45613905 TATTTGGCGAGTTCATGTCCTCAATTAATCCGTATCAATTGAGTTATATTTAGCGGAG
1 TATTTGGCGAGTTCATGTCCTCAATTAATCCGTATCAATTGAGTTATATTTAGCGGAG
45613963 T
1 T
45613964 CATGTCATCC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (58 bp):
TATTTGGCGAGTTCATGTCCTCAATTAATCCGTATCAATTGAGTTATATTTAGCGGAG
Found at i:45618662 original size:21 final size:21
Alignment explanation
Indices: 45618638--45618677 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45618628 TGTTCTTAAA
*
45618638 AATTAAATTTATTTTTTTTAG
1 AATTAAATTTAGTTTTTTTAG
*
45618659 AATTAATTTTAGTTTTTTT
1 AATTAAATTTAGTTTTTTT
45618678 CTAGTAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
AATTAAATTTAGTTTTTTTAG
Found at i:45618916 original size:19 final size:19
Alignment explanation
Indices: 45618865--45618930 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
45618855 TTTTTTCATT
*
45618865 TTTAAAATTATTTTTAATATA
1 TTTAAAATT-TTTTTAA-AAA
*
45618886 TTT-ATATATTTTTTAAAAA
1 TTTAAAAT-TTTTTTAAAAA
* * *
45618905 TTTAAAATTTTTATAATAT
1 TTTAAAATTTTTTTAAAAA
45618924 TTTAAAA
1 TTTAAAA
45618931 GAAATTGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 20 0.54
20 13 0.35
21 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAAAATTTTTTTAAAAA
Found at i:45618917 original size:28 final size:27
Alignment explanation
Indices: 45618877--45618930 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
45618867 TAAAATTATT
* *
45618877 TTTAATATATTTATATATTTTTTAAAAA
1 TTTAAAATATTTATA-ATATTTTAAAAA
*
45618905 TTTAAAATTTTTATAATATTTTAAAA
1 TTTAAAATATTTATAATATTTTAAAA
45618931 GAAATTGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTAAAATATTTATAATATTTTAAAAA
Found at i:45621521 original size:18 final size:18
Alignment explanation
Indices: 45621498--45621534 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45621488 TTAAAAATTC
*
45621498 TTTATATATAAAGTTTAT
1 TTTATATACAAAGTTTAT
*
45621516 TTTATATACAAATTTTAT
1 TTTATATACAAAGTTTAT
45621534 T
1 T
45621535 GGAGTTCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTATATACAAAGTTTAT
Found at i:45622002 original size:22 final size:23
Alignment explanation
Indices: 45621960--45622005 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
45621950 AATATTAGTT
45621960 TTTTATTTTTCTCTTGTCATGAG
1 TTTTATTTTTCTCTTGTCATGAG
*
45621983 TTTTCTTTTTCTCTTG-CATGAG
1 TTTTATTTTTCTCTTGTCATGAG
45622005 T
1 T
45622006 AAATAGTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.11, C:0.15, G:0.13, T:0.61
Consensus pattern (23 bp):
TTTTATTTTTCTCTTGTCATGAG
Found at i:45624714 original size:3 final size:3
Alignment explanation
Indices: 45624706--45624753 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
45624696 GTATATACAT
* * *
45624706 ATA ATA ATA ATG ATG ATA ATC ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45624754 TGAAAATACA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:45625177 original size:11 final size:11
Alignment explanation
Indices: 45625161--45625187 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45625151 TAAAAAAATA
45625161 TTTTTTTTATT
1 TTTTTTTTATT
45625172 TTTTTTTTATT
1 TTTTTTTTATT
45625183 TTTTT
1 TTTTT
45625188 ATGTTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:45625783 original size:17 final size:17
Alignment explanation
Indices: 45625761--45625794 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
45625751 GACGGGTTAT
45625761 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
45625778 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
45625795 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:45655126 original size:19 final size:18
Alignment explanation
Indices: 45655068--45655127 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
45655058 TCAAAAGATA
45655068 ATTTATCCTTATTAAATAT
1 ATTTATCCTTATT-AATAT
* *
45655087 ATTTAGT-GTTA-T-ATCT
1 ATTTA-TCCTTATTAATAT
45655103 ATTTATCCTTATTAATTAT
1 ATTTATCCTTATTAA-TAT
45655122 ATTTAT
1 ATTTAT
45655128 TCTAACATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 1 0.03
16 11 0.34
17 1 0.03
18 2 0.06
19 16 0.50
20 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTATCCTTATTAATAT
Found at i:45663048 original size:76 final size:76
Alignment explanation
Indices: 45662962--45663114 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
45662952 ATTGATGTAG
45662962 TCAGTTCATAGGTAGAAGAGTGACCGAAACTGATTAATCCGGTCATCAAAGCTTACAGAAGCAGC
1 TCAGTTCATAGGTAGAAGAGTGACCGAAACTGATTAATCCGGTCATCAAAGCTTACAGAAGCAGC
45663027 AAAATTAGGAC
66 AAAATTAGGAC
45663038 TCAGTTCATAGGTAGAAGAGTGACCGAAACTGATTAATCCGGTCATCAAAGCTTACAGAAGCAGC
1 TCAGTTCATAGGTAGAAGAGTGACCGAAACTGATTAATCCGGTCATCAAAGCTTACAGAAGCAGC
45663103 AAAATTAGGAC
66 AAAATTAGGAC
45663114 T
1 T
45663115 TACTTGTTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (76 bp):
TCAGTTCATAGGTAGAAGAGTGACCGAAACTGATTAATCCGGTCATCAAAGCTTACAGAAGCAGC
AAAATTAGGAC
Found at i:45663222 original size:22 final size:22
Alignment explanation
Indices: 45663197--45663243 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
45663187 TAAGAAACAG
* *
45663197 GATTTAGTTAGATGTCAGAAGA
1 GATTTAATTAGATCTCAGAAGA
*
45663219 GATTTAATTAGTTCTCAGAAGA
1 GATTTAATTAGATCTCAGAAGA
45663241 GAT
1 GAT
45663244 GAAATAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (22 bp):
GATTTAATTAGATCTCAGAAGA
Found at i:45664359 original size:26 final size:26
Alignment explanation
Indices: 45664323--45664374 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
45664313 ATGTTGAAAT
45664323 GGGAATGAAGAAAACCGTTAAACAAG
1 GGGAATGAAGAAAACCGTTAAACAAG
45664349 GGGAATGAAGAAAACCGTTAAACAAG
1 GGGAATGAAGAAAACCGTTAAACAAG
45664375 TGCTAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.27, T:0.12
Consensus pattern (26 bp):
GGGAATGAAGAAAACCGTTAAACAAG
Found at i:45669522 original size:13 final size:14
Alignment explanation
Indices: 45669504--45669544 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
45669494 TTTACTGATA
45669504 CAGATA-ATAGAAT
1 CAGATATATAGAAT
* *
45669517 CAGATATGTTGAAT
1 CAGATATATAGAAT
45669531 -AGATATATAGAAT
1 CAGATATATAGAAT
45669544 C
1 C
45669545 CTACCCACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.29
Consensus pattern (14 bp):
CAGATATATAGAAT
Found at i:45676317 original size:15 final size:17
Alignment explanation
Indices: 45676293--45676327 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
45676283 GTTAAGGACT
45676293 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
45676309 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
45676325 AAA
1 AAA
45676328 AATTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:45679727 original size:13 final size:14
Alignment explanation
Indices: 45679690--45679730 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
45679680 TTTATAGATA
45679690 CAGATA-ACAGAAT
1 CAGATATACAGAAT
* *
45679703 CAGATGTGCAGAAT
1 CAGATATACAGAAT
45679717 -AGATATACAGAAT
1 CAGATATACAGAAT
45679730 C
1 C
45679731 CTACCCCCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:45683915 original size:9 final size:9
Alignment explanation
Indices: 45683872--45683915 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
45683862 TTATATAGAA
45683872 TTTTTTTAT
1 TTTTTTTAT
* *
45683881 CTTTTCTAAT
1 -TTTTTTTAT
45683891 TTTTTTGTAT
1 TTTTTT-TAT
45683901 TTTTTTTAT
1 TTTTTTTAT
45683910 TTTTTT
1 TTTTTT
45683916 AGAATTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:45684762 original size:25 final size:24
Alignment explanation
Indices: 45684715--45684763 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
45684705 CTATCGGACC
* * *
45684715 TTTTCTCTTGATTAGTAACAAAAA
1 TTTTCTCTTGATAAGAAAAAAAAA
45684739 TTTTCTCATTGATAAGAAAAAAAAA
1 TTTTCTC-TTGATAAGAAAAAAAAA
45684764 ATAGTCTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (24 bp):
TTTTCTCTTGATAAGAAAAAAAAA
Found at i:45688551 original size:27 final size:27
Alignment explanation
Indices: 45688500--45688600 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
45688490 TACTGAAATG
* *
45688500 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
45688527 CCCTCGATTTATAGAATTACTATTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
45688554 CCATCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
45688581 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAAAATTAC
45688601 TGAAATACCC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:45688610 original size:27 final size:27
Alignment explanation
Indices: 45688480--45688603 Score: 108
Period size: 27 Copynumber: 4.6 Consensus size: 27
45688470 AATACTTTAG
* ** *
45688480 TTTACCAAATTACTGAAATGCCCTCGA
1 TTTACAAAATTACTGATTTACCCTCGA
* * *
45688507 TTTATAGAATTAC-CATTTTACCCTCGA
1 TTTACAAAATTACTGA-TTTACCCTCGA
* * *
45688534 TTTATAGAATTACT-ATTTCACCATCGA
1 TTTACAAAATTACTGATTT-ACCCTCGA
* *
45688561 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACTGATTTACCCTCGA
45688588 TTTACAAAATTACTGA
1 TTTACAAAATTACTGA
45688604 AATACCCCTA
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 4 0.05
27 71 0.91
28 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTACTGATTTACCCTCGA
Found at i:45688625 original size:27 final size:27
Alignment explanation
Indices: 45688595--45689004 Score: 563
Period size: 27 Copynumber: 15.3 Consensus size: 27
45688585 CGATTTACAA
* *
45688595 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45688622 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45688649 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45688676 AATTACCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45688703 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
45688730 AATTACCGAAATACCCCTACATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
45688757 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45688784 AATTACTGAAACACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
45688811 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
45688838 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45688865 AATTACCGGAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45688892 AATTATCGTAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45688919 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
45688946 AATTACTAAAATACCCCTGTATGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
45688973 AATTACCGAGATA-CCTTGTGGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
45688998 AATTACC
1 AATTACC
45689005 ATTTTGCCCT
Statistics
Matches: 341, Mismatches: 42, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
25 7 0.02
26 8 0.02
27 326 0.96
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:45689483 original size:22 final size:22
Alignment explanation
Indices: 45689431--45689486 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
45689421 TTAAATCCTT
* *
45689431 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
45689453 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
45689475 TTGATTATGGCT
1 CTGATTATGGCT
45689487 GTATGCAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:45689735 original size:25 final size:25
Alignment explanation
Indices: 45689705--45689762 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
45689695 TTCTGATTTT
* * *
45689705 TGATTCTGTTACCTGATACTGATTC
1 TGATTCTGTCACCTAATACTAATTC
* *
45689730 TGATTCTATCACCTAATTCTAATTC
1 TGATTCTGTCACCTAATACTAATTC
45689755 TGATTCTG
1 TGATTCTG
45689763 ATTCTAGTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (25 bp):
TGATTCTGTCACCTAATACTAATTC
Found at i:45692808 original size:16 final size:16
Alignment explanation
Indices: 45692787--45692817 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45692777 AGTCCTAATT
45692787 TATTTATTCGTTTATC
1 TATTTATTCGTTTATC
*
45692803 TATTTATTGGTTTAT
1 TATTTATTCGTTTAT
45692818 ACATACCTAT
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:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (16 bp):
TATTTATTCGTTTATC
Found at i:45692944 original size:18 final size:18
Alignment explanation
Indices: 45692921--45692960 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45692911 TTATCTTGGT
45692921 TATTATTATCTTATTATC
1 TATTATTATCTTATTATC
* * *
45692939 TATTATTGTTTTATTATT
1 TATTATTATCTTATTATC
45692957 TATT
1 TATT
45692961 CACTCATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATCTTATTATC
Found at i:45700845 original size:16 final size:16
Alignment explanation
Indices: 45700829--45700869 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 16
45700819 TTAAAAAAAT
45700829 TAAAAAGAATGATAATTA
1 TAAAAA-AAT-ATAATTA
45700847 TAAAAAAATATAATTA
1 TAAAAAAATATAATTA
45700863 TAAAAAA
1 TAAAAAA
45700870 TCCAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 14 0.61
17 3 0.13
18 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (16 bp):
TAAAAAAATATAATTA
Found at i:45703236 original size:32 final size:32
Alignment explanation
Indices: 45703200--45703264 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
45703190 TGTATGCATT
45703200 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
45703232 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
45703264 T
1 T
45703265 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:45706167 original size:54 final size:54
Alignment explanation
Indices: 45706102--45706212 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
45706092 AATGTTCTTG
45706102 TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
1 TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
*
45706156 TCATTAGTGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
1 TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
45706210 TCA
1 TCA
45706213 CCTAGTATGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (54 bp):
TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
Found at i:45710487 original size:23 final size:24
Alignment explanation
Indices: 45710452--45710502 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
45710442 AATTAACTTC
*
45710452 TTTTAATGTTA-TTAAAAATTTTA
1 TTTTAATGATATTTAAAAATTTTA
* * *
45710475 TTTTTATGATATTTATATATTTTA
1 TTTTAATGATATTTAAAAATTTTA
45710499 TTTT
1 TTTT
45710503 CCGAAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTAATGATATTTAAAAATTTTA
Found at i:45714395 original size:12 final size:11
Alignment explanation
Indices: 45714374--45714409 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
45714364 TTAATACATG
45714374 ATATAAAAATA
1 ATATAAAAATA
45714385 ATATCAAAAATA
1 ATAT-AAAAATA
45714397 ATATGAAAAATA
1 ATAT-AAAAATA
45714409 A
1 A
45714410 ATTAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:45714510 original size:16 final size:16
Alignment explanation
Indices: 45714489--45714530 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45714479 TTATTAAATT
*
45714489 ATATATTTTAATTATA
1 ATATATTTTAATAATA
45714505 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
45714520 AT-TATGTTTAA
1 ATATAT-TTTAA
45714531 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:45714515 original size:15 final size:15
Alignment explanation
Indices: 45714480--45714521 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45714470 TTAAGAATTT
*
45714480 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45714494 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45714508 TATTTAATAATAAT
1 TATTTAATTATAAT
45714522 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45714766 original size:16 final size:16
Alignment explanation
Indices: 45714744--45714813 Score: 77
Period size: 16 Copynumber: 4.4 Consensus size: 16
45714734 TTGATTTGCT
*
45714744 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
* *
45714760 GTTACACTTCTATTCC
1 ATTACACCTCTATTCC
* *
45714776 ATTACGCCTTTATTCC
1 ATTACACCTCTATTCC
*
45714792 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
45714808 AATACA
1 ATTACA
45714814 GCGAACCAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:45719659 original size:18 final size:20
Alignment explanation
Indices: 45719635--45719687 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
45719625 TATATAAGTT
45719635 TAAAATTATAAAAAA-TTAA
1 TAAAATTATAAAAAAGTTAA
45719654 -AAAATTATATAAAAAGTTAA
1 TAAAATTATA-AAAAAGTTAA
45719674 TAAAATTA-AAAAAA
1 TAAAATTATAAAAAA
45719688 AATAACATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 9 0.29
19 10 0.32
20 5 0.16
21 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
TAAAATTATAAAAAAGTTAA
Found at i:45719666 original size:20 final size:21
Alignment explanation
Indices: 45719641--45719690 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
45719631 AGTTTAAAAT
45719641 TATAAAAAATTAA-AAAATTA
1 TATAAAAAATTAATAAAATTA
*
45719661 TATAAAAAGTTAATAAAATTA
1 TATAAAAAATTAATAAAATTA
*
45719682 -AAAAAAAAT
1 TATAAAAAAT
45719691 AACATGAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
TATAAAAAATTAATAAAATTA
Found at i:45721773 original size:21 final size:22
Alignment explanation
Indices: 45721747--45721787 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
45721737 ACAAAAAAAC
45721747 TACTATTTT-TTGTTATTTTAA
1 TACTATTTTCTTGTTATTTTAA
*
45721768 TACTATTTTCTTGTTGTTTT
1 TACTATTTTCTTGTTATTTT
45721788 CTTCCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.68
Consensus pattern (22 bp):
TACTATTTTCTTGTTATTTTAA
Found at i:45738941 original size:30 final size:30
Alignment explanation
Indices: 45738905--45738961 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
45738895 ACGGCCATGA
45738905 CACACGGGCGTGTGGCCTACCCGTGTGTAT
1 CACACGGGCGTGTGGCCTACCCGTGTGTAT
**
45738935 CACACGGGCGTGTGGTTTACCCGTGTG
1 CACACGGGCGTGTGGCCTACCCGTGTG
45738962 AAAATACCTA
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:0.28, G:0.35, T:0.25
Consensus pattern (30 bp):
CACACGGGCGTGTGGCCTACCCGTGTGTAT
Found at i:45750078 original size:36 final size:36
Alignment explanation
Indices: 45749983--45750088 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 36
45749973 CAGGTAAACT
* * * *
45749983 AACGTCTTACACCCAACGCTAGTCGGATAACCCAAC
1 AACGTCTTGCGCCCAACGCTAGTCGCATAAACCAAC
* * * * * *
45750019 AATGTTTTGCGCCCAGCGATAGTCGCATAAATCGAC
1 AACGTCTTGCGCCCAACGCTAGTCGCATAAACCAAC
* *
45750055 AACGTCTTGCGCCCAAAGCTAGTCGGTATAAACC
1 AACGTCTTGCGCCCAACGCTAGTC-GCATAAACC
45750089 GATGATGTCA
Statistics
Matches: 52, Mismatches: 17, Indels: 1
0.74 0.24 0.01
Matches are distributed among these distances:
36 45 0.87
37 7 0.13
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (36 bp):
AACGTCTTGCGCCCAACGCTAGTCGCATAAACCAAC
Found at i:45750237 original size:76 final size:76
Alignment explanation
Indices: 45750053--45750268 Score: 218
Period size: 76 Copynumber: 2.8 Consensus size: 76
45750043 GCATAAATCG
** ** *
45750053 ACAACGTCTTGCGCCCAAAGCTAGTCGGTATAAACCGATGATGTCAAATATGTGCCCAGCACTAG
1 ACAACGTCTTGCGCCCAGTGCTAGTC-AAATAAACCGACGATGTCAAATATGTGCCCAGCACTAG
* *
45750118 TCAGATAACCCG
65 TCAGATAAACCA
* * * *
45750130 ATAATGTTTTGCGCCCAGTGCTAGTCAAATAAACCGACGATGTCAAATGTGTGCCCAGCACTAGT
1 ACAACGTCTTGCGCCCAGTGCTAGTCAAATAAACCGACGATGTCAAATATGTGCCCAGCACTAGT
45750195 C-GAATAAACCA
66 CAG-ATAAACCA
* * * ** * * * * *
45750206 ACAACGTCTTGTGCCTAGTGTTAGTTGAATAAACCAACAATGTTAAATATGAGCCCAACACTA
1 ACAACGTCTTGCGCCCAGTGCTAGTCAAATAAACCGACGATGTCAAATATGTGCCCAGCACTA
45750269 CTTGGATAAC
Statistics
Matches: 113, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
75 1 0.01
76 91 0.81
77 21 0.19
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (76 bp):
ACAACGTCTTGCGCCCAGTGCTAGTCAAATAAACCGACGATGTCAAATATGTGCCCAGCACTAGT
CAGATAAACCA
Found at i:45755670 original size:29 final size:28
Alignment explanation
Indices: 45755638--45755738 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 28
45755628 GTAGCCATAG
45755638 AGGCTTTCCTTTGACAGAGATTGCCACAA
1 AGGCTTTCCTTT-ACAGAGATTGCCACAA
* *
45755667 AGGCATTTCATTT-CAGAGATTTGCCACAG
1 AGGC-TTTCCTTTACAGAGA-TTGCCACAA
* * *
45755696 AGGCATT-CTTAAACAGAGGTTGCCACAA
1 AGGCTTTCCTT-TACAGAGATTGCCACAA
45755724 AGGCTTTCCTTTACA
1 AGGCTTTCCTTTACA
45755739 TTCAATACTC
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
27 2 0.03
28 25 0.43
29 24 0.41
30 7 0.12
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (28 bp):
AGGCTTTCCTTTACAGAGATTGCCACAA
Found at i:45755753 original size:32 final size:32
Alignment explanation
Indices: 45755717--45755824 Score: 105
Period size: 32 Copynumber: 3.5 Consensus size: 32
45755707 AACAGAGGTT
45755717 GCCACAAAGGCTTTCCTTTACATTCAATACTC
1 GCCACAAAGGCTTTCCTTTACATTCAATACTC
* * ** * * *
45755749 GCCACAAAGGCTTTACTGT-C-TAGAGT-TTT
1 GCCACAAAGGCTTTCCTTTACATTCAATACTC
* * *
45755778 GCTAGAAAGGCTATCCTTTACATTCAATACTC
1 GCCACAAAGGCTTTCCTTTACATTCAATACTC
45755810 GCCACAAAGGCTTTC
1 GCCACAAAGGCTTTC
45755825 GTGTCCAGAA
Statistics
Matches: 53, Mismatches: 20, Indels: 6
0.67 0.25 0.08
Matches are distributed among these distances:
29 15 0.28
30 4 0.08
31 4 0.08
32 30 0.57
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (32 bp):
GCCACAAAGGCTTTCCTTTACATTCAATACTC
Found at i:45755843 original size:29 final size:28
Alignment explanation
Indices: 45755810--45755879 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
45755800 TTCAATACTC
* *
45755810 GCCACAAAGGCTTTCGTGTCCAGAATTGT
1 GCCACAAAGGCTTTC-TATCCAGAATTGA
* *
45755839 GCCACAAAGGCTTTTCTATCTAGATTTGA
1 GCCACAAAGGC-TTTCTATCCAGAATTGA
45755868 GCCACAAAGGCT
1 GCCACAAAGGCT
45755880 ATCCTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.03
29 31 0.86
30 4 0.11
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (28 bp):
GCCACAAAGGCTTTCTATCCAGAATTGA
Found at i:45755848 original size:61 final size:61
Alignment explanation
Indices: 45755716--45755850 Score: 200
Period size: 61 Copynumber: 2.2 Consensus size: 61
45755706 AAACAGAGGT
* * * *
45755716 TGCCACAAAGGCTTTCCTTTACATTCAATACTCGCCACAAAGGCTTTACTGTCTAGAGTTT
1 TGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGCTTTACTGTCCAGAATTG
* *
45755777 TGCTAGAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGCTTT-CGTGTCCAGAATTG
1 TGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGCTTTAC-TGTCCAGAATTG
45755838 TGCCACAAAGGCT
1 TGCCACAAAGGCT
45755851 TTTCTATCTA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
60 1 0.02
61 64 0.98
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (61 bp):
TGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGCTTTACTGTCCAGAATTG
Found at i:45756839 original size:11 final size:11
Alignment explanation
Indices: 45756823--45756853 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
45756813 TTATGATATG
45756823 ATTTCGTGAAA
1 ATTTCGTGAAA
45756834 ATTTCGTGAAA
1 ATTTCGTGAAA
45756845 ATTTCGTGA
1 ATTTCGTGA
45756854 TGAAATTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:45761219 original size:26 final size:27
Alignment explanation
Indices: 45761180--45761235 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
45761170 TTATAATATT
** * *
45761180 AAATAAAATTTTATTATTAT-TTTGAA
1 AAATAAAAAATTATAATTATATTTAAA
45761206 AAATAAAAAATTATAATTATATTTAAA
1 AAATAAAAAATTATAATTATATTTAAA
45761233 AAA
1 AAA
45761236 ACATGTCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
AAATAAAAAATTATAATTATATTTAAA
Found at i:45761496 original size:185 final size:184
Alignment explanation
Indices: 45761180--45761604 Score: 643
Period size: 185 Copynumber: 2.3 Consensus size: 184
45761170 TTATAATATT
* * *
45761180 AAATAAAATTTTATTATTATTTTGAAAAATAAAAAATTATAATTATATTTAAAAAAACATGTCAC
1 AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAAAATTATATTTAAAAAAACATGTCAC
* **
45761245 TTAGTACATAATTTGTGGCATAAATTACGCTTTTCCATAACATTATAACTTTCAGTTATATTTAT
66 TTAGTACATAACTTGTGGCATAAATTACGCTTTTCCATAACATTATAACTTTCAACTATATTTAT
* * *
45761310 TCATTACGAATCTTTTCTAAAAGCTATGCTTATTTGATTAAATCTATTCAGATGC
131 TCATTACGAAT-TTTTCTAAAAGCTATGCTTATTTGAATAAATCTACTCAAATGC
* *
45761365 AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAAAATTATGTTTAAAAAAATATGTCAC
1 AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAAAATTATATTTAAAAAAACATGTCAC
* * *
45761430 TTAGTACATAACTTGTGGCATAAGTTACGCTTTTCCATAACATTATAGCTTTCAACTATGTTTAT
66 TTAGTACATAACTTGTGGCATAAATTACGCTTTTCCATAACATTATAACTTTCAACTATATTTAT
* * * *
45761495 TCATTACGAATTTTTTTTAAAGTTATGCTTATTTGAATAAATCTACTCAAATGG
131 TCATTACGAATTTTTCTAAAAGCTATGCTTATTTGAATAAATCTACTCAAATGC
* ** *
45761549 AAATAAAAATTTATTATTGTTTTGAAAAATAAAAAATAATTATTGTATTTAAAAAA
1 AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAAAATTATATTTAAAAAA
45761605 TTATTTGCAC
Statistics
Matches: 217, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
184 87 0.40
185 130 0.60
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (184 bp):
AAATAAAAATTTATTATTATTTTGAAAAATAAAAAATAAAAATTATATTTAAAAAAACATGTCAC
TTAGTACATAACTTGTGGCATAAATTACGCTTTTCCATAACATTATAACTTTCAACTATATTTAT
TCATTACGAATTTTTCTAAAAGCTATGCTTATTTGAATAAATCTACTCAAATGC
Found at i:45761582 original size:26 final size:27
Alignment explanation
Indices: 45761549--45761605 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
45761539 ACTCAAATGG
* * *
45761549 AAATAAAAATTTATTATTGT-TTTGAA
1 AAATAAAAAATAATTATTGTATTTAAA
45761575 AAATAAAAAATAATTATTGTATTTAAA
1 AAATAAAAAATAATTATTGTATTTAAA
45761602 AAAT
1 AAAT
45761606 TATTTGCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.40
Consensus pattern (27 bp):
AAATAAAAAATAATTATTGTATTTAAA
Found at i:45763998 original size:18 final size:18
Alignment explanation
Indices: 45763975--45764011 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45763965 TTACCATATT
45763975 ACATGGTATTAATCTATA
1 ACATGGTATTAATCTATA
45763993 ACATGGTATTAATCTATA
1 ACATGGTATTAATCTATA
45764011 A
1 A
45764012 GCTAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
ACATGGTATTAATCTATA
Found at i:45767621 original size:32 final size:32
Alignment explanation
Indices: 45767580--45767640 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
45767570 GTTAATTTCG
45767580 TGTGTTATTATGATTAATTAGTTCCAAACTAT
1 TGTGTTATTATGATTAATTAGTTCCAAACTAT
45767612 TGTGTTATTATGATTAATTAGTTCCAAAC
1 TGTGTTATTATGATTAATTAGTTCCAAAC
45767641 CATATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (32 bp):
TGTGTTATTATGATTAATTAGTTCCAAACTAT
Found at i:45768534 original size:30 final size:30
Alignment explanation
Indices: 45768498--45768560 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
45768488 ACTTATTTTA
*
45768498 TTGTTAATTTTTTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
45768528 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
45768558 TTG
1 TTG
45768561 CTTGTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:45771448 original size:12 final size:13
Alignment explanation
Indices: 45771426--45771454 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
45771416 AAATTAAATT
45771426 TATTAAATATTAA
1 TATTAAATATTAA
45771439 TATT-AATATTAA
1 TATTAAATATTAA
45771451 TATT
1 TATT
45771455 TTTAATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTAAATATTAA
Found at i:45771779 original size:26 final size:26
Alignment explanation
Indices: 45771727--45771807 Score: 82
Period size: 24 Copynumber: 3.3 Consensus size: 26
45771717 AAGAATATAT
* *
45771727 TTTTTATTTAATA-TTAAATAATTATA
1 TTTTTATTTAATATTTAAA-CATAATA
*
45771753 TTTTTATTAAATATTTAAACATAATA
1 TTTTTATTTAATATTTAAACATAATA
45771779 --TTTATTTAATATTT--ACATAATA
1 TTTTTATTTAATATTTAAACATAATA
*
45771801 ATTTTAT
1 TTTTTAT
45771808 ATTTTAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
22 8 0.17
24 18 0.38
26 17 0.35
27 5 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTTATTTAATATTTAAACATAATA
Found at i:45773846 original size:18 final size:18
Alignment explanation
Indices: 45773815--45773853 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
45773805 ATCAAATTTT
45773815 TTAAACTAATAATTATATA
1 TTAAACTAATAATTATA-A
45773834 TTAAACT-ATAATTATAA
1 TTAAACTAATAATTATAA
45773851 TTA
1 TTA
45773854 TCACAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAACTAATAATTATAA
Found at i:45780209 original size:10 final size:10
Alignment explanation
Indices: 45780190--45780218 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
45780180 TGAATTGTTA
45780190 AATATA-ATT
1 AATATATATT
45780199 AATATATATT
1 AATATATATT
45780209 AATATATATT
1 AATATATATT
45780219 TTTTCATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AATATATATT
Found at i:45781040 original size:22 final size:22
Alignment explanation
Indices: 45781008--45781055 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
45780998 AATTGAGAAT
*
45781008 ATATAATTATTAACT-AAAAATA
1 ATATAAATATT-ACTAAAAAATA
*
45781030 ATATAAATATTATTAAAAAATA
1 ATATAAATATTACTAAAAAATA
45781052 ATAT
1 ATAT
45781056 GAGTGATCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAAATATTACTAAAAAATA
Found at i:45781054 original size:25 final size:24
Alignment explanation
Indices: 45781005--45781054 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
45780995 AATAATTGAG
* *
45781005 AATATATAATTATTAACTAAAAAT
1 AATATAAAATTATTAACAAAAAAT
45781029 AATATAAATATTATTAA-AAAATAAT
1 AATATAAA-ATTATTAACAAAA-AAT
45781054 A
1 A
45781055 TGAGTGATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AATATAAAATTATTAACAAAAAAT
Found at i:45781750 original size:6 final size:6
Alignment explanation
Indices: 45781741--45781769 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
45781731 GTTCTCTTGT
45781741 TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
45781770 TTTCCCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCC
Found at i:45785373 original size:17 final size:17
Alignment explanation
Indices: 45785351--45785384 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
45785341 TATTTGTTTC
45785351 TTTAAGGAGCAATTGTG
1 TTTAAGGAGCAATTGTG
45785368 TTTAAGGAGCAATTGTG
1 TTTAAGGAGCAATTGTG
45785385 GTTAGTGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (17 bp):
TTTAAGGAGCAATTGTG
Found at i:45785682 original size:20 final size:20
Alignment explanation
Indices: 45785640--45785682 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
45785630 TATTTGTTAA
**
45785640 TTTTATTTGACTTGAAATTT
1 TTTTATTTGACTTGAAAAAT
*
45785660 TTTTATTTGATTTGAAAAAT
1 TTTTATTTGACTTGAAAAAT
45785680 TTT
1 TTT
45785683 AAATGAGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTATTTGACTTGAAAAAT
Found at i:45787120 original size:239 final size:239
Alignment explanation
Indices: 45786696--45787173 Score: 559
Period size: 239 Copynumber: 2.0 Consensus size: 239
45786686 ATGAACAAAT
* * * *
45786696 CAAATGCTCTTGTATCAACAAAAGCACTTATTCTTCAGCCTGCTAAGTTGATGTCTACGAATATC
1 CAAATGCCCATGTATCAACAAAAGCACTTATTCTTCAGCCTGCTAAGTTAATGTCTACGAACATC
* * * *
45786761 AATCATTTTTGCTTGTAATCCCTCTTCACTCTAATAGAATTGAATATCATTGGACCAATCTTTAA
66 AACCATTTCTGCTTGTAATCCCTCTTCACTCTAACAGAATTGAATATCATTGGACCAAGCTTTAA
* ** * *
45786826 AGCCTCTGTAACACCCCTTGCTTGACCCGTTCGTCAAGTCTGAGCTACAGAATGCTATATTCATT
131 AGCCTCTATAACACCCCTTGCTCAACCCGTTCATCAAGTCTGAGCTACAGAATGCTACATTCATT
* * * * *
45786891 GCCGGAGCAATTACAGCCAATTAGACATCATATAATCATTTATA
196 GCCAGAACAACTACAACCAATTAGACATCATACAATCATTTATA
* * *
45786935 CAAATGCCCATGTATCAACAAAAGCACTTATTCTT-TGACCTG-TGATGTTAATGTCTATGAACA
1 CAAATGCCCATGTATCAACAAAAGCACTTATTCTTCAG-CCTGCT-AAGTTAATGTCTACGAACA
* * ** * * *
45786998 TCAACCATTTCTGCTTGTGATCCCTTTTTGCTTTAGCAGAATTGAGTATCATTGGACCAAGCTTT
64 TCAACCATTTCTGCTTGTAATCCCTCTTCACTCTAACAGAATTGAATATCATTGGACCAAGCTTT
* * * * **
45787063 AAAGCTTCTATAACATCCCTT-ATCCAACCCCG-TCATCAGGTCTGAGCTATGGAATGCTACATT
129 AAAGCCTCTATAACACCCCTTGCT-CAA-CCCGTTCATCAAGTCTGAGCTACAGAATGCTACATT
* * *
45787126 CGTTGTCAGAACAACTACAACCAATTAGACATCATACAATTATTTATA
192 CATTGCCAGAACAACTACAACCAATTAGACATCATACAATCATTTATA
45787174 TATATAATTT
Statistics
Matches: 198, Mismatches: 37, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
238 3 0.02
239 191 0.96
240 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (239 bp):
CAAATGCCCATGTATCAACAAAAGCACTTATTCTTCAGCCTGCTAAGTTAATGTCTACGAACATC
AACCATTTCTGCTTGTAATCCCTCTTCACTCTAACAGAATTGAATATCATTGGACCAAGCTTTAA
AGCCTCTATAACACCCCTTGCTCAACCCGTTCATCAAGTCTGAGCTACAGAATGCTACATTCATT
GCCAGAACAACTACAACCAATTAGACATCATACAATCATTTATA
Found at i:45790953 original size:16 final size:16
Alignment explanation
Indices: 45790931--45790999 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
45790921 TTTGGTTCGC
45790931 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
45790947 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
45790963 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
45790980 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
45790996 TGTA
1 TGTA
45791000 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:45790977 original size:33 final size:32
Alignment explanation
Indices: 45790931--45790999 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
45790921 TTTGGTTCGC
45790931 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
45790963 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
45790996 TGTA
1 TGTA
45791000 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:45791064 original size:44 final size:45
Alignment explanation
Indices: 45790980--45791070 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
45790970 GGATTAGAGG
* * *
45790980 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
45791025 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
45791069 TG
1 TG
45791071 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:45791256 original size:18 final size:17
Alignment explanation
Indices: 45791235--45791269 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45791225 TTATTATTAA
*
45791235 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
45791253 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
45791270 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:45791376 original size:18 final size:17
Alignment explanation
Indices: 45791355--45791389 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45791345 TTATTATTAA
*
45791355 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
45791373 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
45791390 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:45791431 original size:120 final size:120
Alignment explanation
Indices: 45791218--45791741 Score: 939
Period size: 120 Copynumber: 4.4 Consensus size: 120
45791208 ATCATATTTA
45791218 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
45791283 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
45791338 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
45791403 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
45791458 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
45791523 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
45791578 AACATAATTATTATTAAATATATTTTAATT-AAA-CTATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
45791641 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAA-TT
* * *
45791696 GAA-ATAATTAATATTAAATATATTTTAATTATAATATATGATTTAA
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA
45791742 AATAATTTAA
Statistics
Matches: 392, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
117 3 0.01
118 103 0.26
119 7 0.02
120 279 0.71
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:45791496 original size:18 final size:17
Alignment explanation
Indices: 45791475--45791509 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45791465 TTATTATTAA
*
45791475 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
45791493 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
45791510 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:45791841 original size:92 final size:91
Alignment explanation
Indices: 45791764--45791972 Score: 226
Period size: 92 Copynumber: 2.3 Consensus size: 91
45791754 TAATTATAAC
* * *
45791764 TAATAAATTATATTTTATGAATTTGTATAATCTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATATAATCTAAAATAATTAA-TATTAAATATAATTTAATAA
* *
45791828 TTAATATTAAATTTCATAAAATACTTGA
65 TTAATATTAAATTTCAAAAAATAC-TAA
* * * *
45791856 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAAT-AG
1 TAATAAATTATATTATATGAATTTATATAATCTAAAATAATTAATATTAAATATAATTTAATAAT
* * *
45791920 TGATA-TATAATTTCATAAAATTCTCAA
66 TAATATTA-AATTTCAAAAAATACT-AA
* *
45791947 TAATAAATTGTTCTTATATGAATTTA
1 TAATAAATT-ATATTATATGAATTTA
45791973 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
90 3 0.03
91 29 0.28
92 68 0.66
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATATAATCTAAAATAATTAATATTAAATATAATTTAATAAT
TAATATTAAATTTCAAAAAATACTAA
Found at i:45795048 original size:33 final size:33
Alignment explanation
Indices: 45795009--45795118 Score: 136
Period size: 33 Copynumber: 3.3 Consensus size: 33
45794999 ATTATAAAGC
45795009 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
45795042 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
45795075 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
45795108 ATGTATAATTG
1 ATGTATAATTG
45795119 TTGGTTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
32 9 0.14
33 49 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:45795125 original size:51 final size:51
Alignment explanation
Indices: 45795065--45795167 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
45795055 CTAAAATTAC
45795065 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
45795116 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
45795167 T
1 T
45795168 CTTTTAATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 1 0.02
51 50 0.98
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:45795345 original size:86 final size:86
Alignment explanation
Indices: 45795242--45795508 Score: 527
Period size: 86 Copynumber: 3.1 Consensus size: 86
45795232 TTCTCTCCAC
45795242 ATAA-AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
45795306 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
45795327 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
45795392 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
45795413 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
45795478 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
45795499 ATAATAATTA
1 ATAATAATTA
45795509 CAATTATATT
Statistics
Matches: 181, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.02
86 177 0.98
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.40
Consensus pattern (86 bp):
ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
TTAATATTAAAGATAAAAATT
Found at i:45797440 original size:76 final size:76
Alignment explanation
Indices: 45797314--45797500 Score: 374
Period size: 76 Copynumber: 2.5 Consensus size: 76
45797304 TAACATTTTC
45797314 ATCTTACCTATTTTTGCTACTTTCAGAGGACCAAATTACAACAGAACAAACAAACAAAAGAACTC
1 ATCTTACCTATTTTTGCTACTTTCAGAGGACCAAATTACAACAGAACAAACAAACAAAAGAACTC
45797379 GAACTGCAGAA
66 GAACTGCAGAA
45797390 ATCTTACCTATTTTTGCTACTTTCAGAGGACCAAATTACAACAGAACAAACAAACAAAAGAACTC
1 ATCTTACCTATTTTTGCTACTTTCAGAGGACCAAATTACAACAGAACAAACAAACAAAAGAACTC
45797455 GAACTGCAGAA
66 GAACTGCAGAA
45797466 ATCTTACCTATTTTTGCTACTTTCAGAGGACCAAA
1 ATCTTACCTATTTTTGCTACTTTCAGAGGACCAAA
45797501 AGAACTCAAT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 111 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (76 bp):
ATCTTACCTATTTTTGCTACTTTCAGAGGACCAAATTACAACAGAACAAACAAACAAAAGAACTC
GAACTGCAGAA
Found at i:45810118 original size:18 final size:16
Alignment explanation
Indices: 45810082--45810113 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45810072 TAGATATTAA
45810082 TATATATTTAAATAAT
1 TATATATTTAAATAAT
*
45810098 TATATATTTGAATAAT
1 TATATATTTAAATAAT
45810114 CTTATTTTTA
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:45830359 original size:30 final size:30
Alignment explanation
Indices: 45830325--45830384 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
45830315 TATTTTATTA
45830325 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
45830355 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
45830385 CTTGTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:45830486 original size:18 final size:19
Alignment explanation
Indices: 45830460--45830507 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
45830450 TTGTTGGAAA
* *
45830460 ATATTTATTTTGATTTATT
1 ATATATATTTTGATGTATT
*
45830479 TTA-ATATTTTTGATGTATT
1 ATATATA-TTTTGATGTATT
45830498 ATATATATTT
1 ATATATATTT
45830508 AAAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.09
19 18 0.78
20 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (19 bp):
ATATATATTTTGATGTATT
Found at i:45830489 original size:19 final size:20
Alignment explanation
Indices: 45830467--45830507 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
45830457 AAAATATTTA
* *
45830467 TTTTGATTTATTTTA-ATAT
1 TTTTGATGTATTATATATAT
45830486 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
45830506 TT
1 TT
45830508 AAAAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:45833209 original size:19 final size:18
Alignment explanation
Indices: 45833178--45833215 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
45833168 TTCCTAAACA
45833178 TATTCTCCTCTCTTCTTC
1 TATTCTCCTCTCTTCTTC
*
45833196 TATTCTCTCTCTCTTTTTC
1 TATTCTC-CTCTCTTCTTC
45833215 T
1 T
45833216 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTCTCCTCTCTTCTTC
Found at i:45835615 original size:3 final size:3
Alignment explanation
Indices: 45835541--45835589 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
45835531 CAAAAATGGC
*
45835541 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45835589 A
1 A
45835590 TAACGTAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:45835775 original size:14 final size:14
Alignment explanation
Indices: 45835756--45835851 Score: 73
Period size: 14 Copynumber: 7.1 Consensus size: 14
45835746 TGGGATAATG
45835756 TATAAAAATATATA
1 TATAAAAATATATA
*
45835770 TATAAATAATGTGATA
1 TATAAA-AATAT-ATA
45835786 T-TAAAAATATATA
1 TATAAAAATATATA
*
45835799 CATAAAAATA-ATA
1 TATAAAAATATATA
45835812 TAT----ATATA-A
1 TATAAAAATATATA
*
45835821 TATACATAATATAGTA
1 TATA-AAAATATA-TA
45835837 T-TAAAAATATATA
1 TATAAAAATATATA
45835850 TA
1 TA
45835852 ATACATACAC
Statistics
Matches: 65, Mismatches: 5, Indels: 24
0.69 0.05 0.26
Matches are distributed among these distances:
9 7 0.11
10 1 0.02
13 11 0.17
14 30 0.46
15 10 0.15
16 6 0.09
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.36
Consensus pattern (14 bp):
TATAAAAATATATA
Found at i:45835806 original size:15 final size:17
Alignment explanation
Indices: 45835791--45835858 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
45835781 TGATATTAAA
45835791 AATATATACATAAAAAT
1 AATATATACATAAAAAT
*
45835808 AATATATATATAATATACAT
1 AATATATACATAA-A-A-AT
*
45835828 AATATAGTA-TTAAAAAT
1 AATATA-TACATAAAAAT
45835845 ATATATAATACATA
1 A-ATAT-ATACATA
45835859 CACACTAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
17 15 0.37
18 8 0.20
19 5 0.12
20 11 0.27
21 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (17 bp):
AATATATACATAAAAAT
Found at i:45836116 original size:24 final size:24
Alignment explanation
Indices: 45836049--45836105 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
45836039 TAGTAATTAT
* * * *
45836049 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
45836073 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
45836097 AATAATAAT
1 AATAATAAT
45836106 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:45839084 original size:7 final size:7
Alignment explanation
Indices: 45839074--45839106 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
45839064 TATGAATTAT
45839074 GATATTG
1 GATATTG
45839081 GATATTG
1 GATATTG
45839088 GATATTG
1 GATATTG
45839095 GATATTG
1 GATATTG
45839102 GATAT
1 GATAT
45839107 GAATTGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
GATATTG
Found at i:45848827 original size:192 final size:193
Alignment explanation
Indices: 45848500--45848887 Score: 679
Period size: 192 Copynumber: 2.0 Consensus size: 193
45848490 CTTAGCTCAG
*
45848500 TTGGTAGAGCGGAGGACTGTAGTGGTAAAAGTCAGAGCAATCCTTAGGTCGCTGGTTCGAATCCG
1 TTGGTAGAGCGGAGGACTGTAGTGGTAAAAGTCAGAGCAATCCTTAGGTCGCTGGTTCGAATCCA
* ** *
45848565 GCAGGTCGGAATTTTTTTTAACTATACTTTTATAATTGGGTTAATATGCGCTTTGATATCTTAAT
66 GCAGGTCAGAACCTTTTTTAACTATACTTTTATAATTGGGTTAATATACGCTTTGATATCTTAAT
* *
45848630 TTTGCTTCAATGTTCAATTTAGCAACCGGGTCTTTTTT-TTTTTATCAATTTGGTACATATGT
131 TTTGCTTCAATGTTCAATTTAGCAACCAGGTCTTTTTTATTATTATCAATTTGGTACATATGT
* *
45848692 TTGGTAGAGCGGAGGACTGTAGTGGTAAATGTCAGAGCAATCGTTAGGTCGCTGGTTCGAATCCA
1 TTGGTAGAGCGGAGGACTGTAGTGGTAAAAGTCAGAGCAATCCTTAGGTCGCTGGTTCGAATCCA
*
45848757 GCAGGTCAGAACCTTTTTTAACTATACTTTTATAATTGGGTTAATATACTCTTTGATATCTTAAT
66 GCAGGTCAGAACCTTTTTTAACTATACTTTTATAATTGGGTTAATATACGCTTTGATATCTTAAT
45848822 TTTGCTTCAATGTTCAATTTAGCAACCAGGTCTTTTTTATTATTATCAATTTGGTACATATGT
131 TTTGCTTCAATGTTCAATTTAGCAACCAGGTCTTTTTTATTATTATCAATTTGGTACATATGT
45848885 TTG
1 TTG
45848888 ATTTCAATAT
Statistics
Matches: 185, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
192 159 0.86
193 26 0.14
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (193 bp):
TTGGTAGAGCGGAGGACTGTAGTGGTAAAAGTCAGAGCAATCCTTAGGTCGCTGGTTCGAATCCA
GCAGGTCAGAACCTTTTTTAACTATACTTTTATAATTGGGTTAATATACGCTTTGATATCTTAAT
TTTGCTTCAATGTTCAATTTAGCAACCAGGTCTTTTTTATTATTATCAATTTGGTACATATGT
Done.