Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 7 of 427
Found at i:2119732 original size:501 final size:499
Alignment explanation
Indices: 2118877--2119786 Score: 1328
Period size: 501 Copynumber: 1.8 Consensus size: 499
2118867 GTTGATTTTT
* * * *
2118877 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCGCAATAC
* **
2118942 AAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
66 AAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
*
2119007 CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAAATGGAAATTGAAAATACCTCGACGTGT
131 CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAAACGGAAATTGAAAATACCTCGACGTGT
* * * * *
2119072 GATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAGTAAA
196 GACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTTGAAAAACAGAAATT--AG----
* *
2119137 AAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
255 AAAAATACCTCAGCGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
*
2119202 AAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATATGAGGCTCAACTCACCT
319 AAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACATGAGGCTCAACTCACCT
*
2119267 CTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCAGCGCGTGAGCCAAGG
384 CTCGCAATACGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCAGCGCGTGAGCCAAGG
2119332 CTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTGAAAGGCAGAAA
449 CTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTGAAAGGCAGAAA
* * * * *
2119383 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCGCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCGCTCGCAATA
* * * *
2119447 CGAGTTGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
65 CAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCT
* *
2119512 CTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTG-AAAACGGAAATTGAAAATACCTCG
129 CTCGCAATATGAGTTGA---ATTTTGAAA-ACAGAAATTGAAAAACGGAAATTGAAAATACCTCG
* * *
2119576 GCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTTG-ACAACAGAAATT
190 ACGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGA--TTTTTGAAAAACAGAAATT
* *
2119640 -G-AAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
253 AGAAAAATACCTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
2119702 AAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCC
318 AAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACATGAGGCTCAACTCACC
2119767 TCTCGCAATACGAGTTGATT
383 TCTCGCAATACGAGTTGATT
2119787 CTTTCAAAAA
Statistics
Matches: 361, Mismatches: 35, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
501 123 0.34
503 15 0.04
505 2 0.01
506 59 0.16
507 67 0.19
508 1 0.00
510 70 0.19
511 18 0.05
512 6 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (499 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCGCTCGCAATAC
AAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAAACGGAAATTGAAAATACCTCGACGTGT
GACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTTGAAAAACAGAAATTAGAAAAAT
ACCTCAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAG
AAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACATGAGGCTCAACTCACCTCTCGCAA
TACGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACT
CACCTCTCGCAATATGAGTCGATTTTTTTTTTGAAAGGCAGAAA
Found at i:2119995 original size:54 final size:54
Alignment explanation
Indices: 2119933--2120063 Score: 246
Period size: 54 Copynumber: 2.4 Consensus size: 54
2119923 GACCTGAGGC
2119933 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
*
2119987 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
2120041 TCAAC-CACCTCTCGCAATATGAG
1 TCAACTCACCTCTCGCAATATGAG
2120064 TTGAAATTAA
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
53 18 0.24
54 58 0.76
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
Found at i:2120320 original size:185 final size:178
Alignment explanation
Indices: 2119902--2120328 Score: 479
Period size: 179 Copynumber: 2.4 Consensus size: 178
2119892 ATGAAGACAG
* *
2119902 AAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
* * * * * *
2119967 AAAAGTAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAA
66 AAAAGCAAAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTCAATTT-AAAAACTAAAAA
*
2120032 TTAAAAGGTTCAACCACCTCTCGCAATATGAGTTGAAATTAAAACACAA
130 TTAAAAGGCTCAACCACCTCTCGCAATATGAGTTGAAATTAAAACACAA
* * *
2120081 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
2120146 AAAA-CAAAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGAG-TCAATTT-AAAACTAAAAA
66 AAAAGCAAAAATTAAAAGG-TTCAACTCACCTCTCGCAATATGAGTTCAATTTAAAAACTAAAAA
* * ** *
2120207 TACCTAGCATGCCCCGAGGCTCAACTCACTTCT-GCAATATGAGTTGATTTTGAAA-ACAA
130 T---TA--A------AAGGCTCAAC-CACCTCTCGCAATATGAGTTGAAATTAAAACACAA
* * * * * *
2120266 CAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
2120329 CCTTGAAAAG
Statistics
Matches: 210, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
175 10 0.05
177 5 0.02
178 36 0.17
179 66 0.31
180 1 0.00
185 59 0.28
186 27 0.13
187 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (178 bp):
AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AAAAGCAAAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTCAATTTAAAAACTAAAAAT
TAAAAGGCTCAACCACCTCTCGCAATATGAGTTGAAATTAAAACACAA
Found at i:2130294 original size:18 final size:18
Alignment explanation
Indices: 2130245--2130295 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
2130235 AAGGACTAAA
* *
2130245 TTAGA-ATATTTTAAAGT
1 TTAGAGATAATTTAAAAT
2130262 TTAGAGATCAATTTAAAAT
1 TTAGAGAT-AATTTAAAAT
2130281 TTAGAGATAATTTAA
1 TTAGAGATAATTTAA
2130296 GAATGTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 5 0.17
18 9 0.30
19 16 0.53
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (18 bp):
TTAGAGATAATTTAAAAT
Found at i:2131580 original size:20 final size:20
Alignment explanation
Indices: 2131532--2131580 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2131522 AATTTTCTAG
*
2131532 TAAAAAAAATGTTATAAACA
1 TAAAAAAAATGTTATAAAAA
**
2131552 TAAGGAAAATG-TATAAATAA
1 TAAAAAAAATGTTATAAA-AA
2131572 TAAAAAAAA
1 TAAAAAAAA
2131581 GAAGTAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.22
Consensus pattern (20 bp):
TAAAAAAAATGTTATAAAAA
Found at i:2134452 original size:17 final size:17
Alignment explanation
Indices: 2134430--2134484 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 17
2134420 AACAAATATT
2134430 TTAAAAATTATAAAATA
1 TTAAAAATTATAAAATA
2134447 TTAAAAATT-TAAAAT-
1 TTAAAAATTATAAAATA
*
2134462 TTAAAAAAATATAAAATA
1 TT-AAAAATTATAAAATA
2134480 -TAAAA
1 TTAAAA
2134485 TATAGAAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 2 0.06
16 16 0.47
17 16 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAAATTATAAAATA
Found at i:2134711 original size:21 final size:22
Alignment explanation
Indices: 2134680--2134724 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2134670 AAGATCAAAT
2134680 TTAACTAAAAATAA-AAATTAAA
1 TTAACTAAAAA-AATAAATTAAA
*
2134702 TTAA-TAAAAAAATATATTAAA
1 TTAACTAAAAAAATAAATTAAA
2134723 TT
1 TT
2134725 TATTATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 15 0.71
22 4 0.19
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAACTAAAAAAATAAATTAAA
Found at i:2136946 original size:2 final size:2
Alignment explanation
Indices: 2136939--2136968 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2136929 TTTATCTTTC
2136939 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2136969 ATTTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2141052 original size:2 final size:2
Alignment explanation
Indices: 2141045--2141076 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
2141035 TAAGTTAAAT
2141045 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
2141077 GCTAGTGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2143129 original size:16 final size:18
Alignment explanation
Indices: 2143094--2143129 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
2143084 TTAGGTCAAT
2143094 AAAATTATTATTTTAGAAA
1 AAAATTATTATTTTA-AAA
2143113 AAAATTATTA-TTTAAAA
1 AAAATTATTATTTTAAAA
2143130 TTTTAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 4 0.24
19 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
AAAATTATTATTTTAAAA
Found at i:2143384 original size:12 final size:13
Alignment explanation
Indices: 2143353--2143384 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2143343 TTCAAATCGA
2143353 ATTATTTTAATTT
1 ATTATTTTAATTT
2143366 ATT-TTTTAATTT
1 ATTATTTTAATTT
2143378 -TTATTTT
1 ATTATTTT
2143385 TCCAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 13 0.72
13 3 0.17
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTATTTTAATTT
Found at i:2159780 original size:35 final size:33
Alignment explanation
Indices: 2159739--2159807 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
2159729 TATAGCATAA
*
2159739 ATATTAAAATTTCACTTTTTTATACAATTAAATAT
1 ATATTAAAATTTCA--GTTTTATACAATTAAATAT
* *
2159774 ATATTAAAATTTGAGTTTTATTCAATTAAATAT
1 ATATTAAAATTTCAGTTTTATACAATTAAATAT
2159807 A
1 A
2159808 AAAAAATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 18 0.58
35 13 0.42
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (33 bp):
ATATTAAAATTTCAGTTTTATACAATTAAATAT
Found at i:2169903 original size:33 final size:32
Alignment explanation
Indices: 2169862--2169926 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
2169852 CATCTCATAA
* *
2169862 TTATTTATCA-ACATATTAAATCGAACTGTACC
1 TTATTTATCATA-AAATTAAATCGAACCGTACC
2169894 TTATGTTATCATAAAATTAAATCGAACCGTACC
1 TTAT-TTATCATAAAATTAAATCGAACCGTACC
2169927 CAATAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 4 0.14
33 24 0.83
34 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (32 bp):
TTATTTATCATAAAATTAAATCGAACCGTACC
Found at i:2177337 original size:31 final size:31
Alignment explanation
Indices: 2177272--2177338 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
2177262 AACAGCCCAT
* *
2177272 TGACTTAAATAAAAACCTTTTGAATAATTTAG
1 TGACTTAAATAAAAA-CTTTCGAATAATTCAG
*
2177304 TGACTTAAATTAAAAA-TTTCGAATAGTTCAG
1 TGACTTAAA-TAAAAACTTTCGAATAATTCAG
2177335 TGAC
1 TGAC
2177339 CATTTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 16 0.52
32 9 0.29
33 6 0.19
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAATTCAG
Found at i:2180265 original size:18 final size:17
Alignment explanation
Indices: 2180232--2180265 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2180222 GAGCTCAATA
*
2180232 TTTTTCAAAATTTAGTC
1 TTTTTCAAAATATAGTC
2180249 TTTTTCAAATATATAGT
1 TTTTTCAAA-ATATAGT
2180266 AAAGTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTTTCAAAATATAGTC
Found at i:2186267 original size:10 final size:10
Alignment explanation
Indices: 2186252--2186281 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
2186242 TATGGAATGA
2186252 AAAAAAAAAG
1 AAAAAAAAAG
2186262 AAAAAAAAAG
1 AAAAAAAAAG
2186272 AAGAAAAAAA
1 AA-AAAAAAA
2186282 AAAGCGTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:2186269 original size:13 final size:13
Alignment explanation
Indices: 2186251--2186284 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2186241 TTATGGAATG
2186251 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
*
2186264 AAAAAAAGAAGAA
1 AAAAAAAAAAGAA
2186277 AAAAAAAA
1 AAAAAAAA
2186285 GCGTTGGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:2204975 original size:22 final size:22
Alignment explanation
Indices: 2204944--2205001 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
2204934 TGGGGTAAAA
*
2204944 TTTTGAATTTGT-TTCTGATATG
1 TTTTGCATTTGTATT-TGATATG
2204966 TTTTGCATTTGTATTTGATATG
1 TTTTGCATTTGTATTTGATATG
* *
2204988 ATTTGCATCTGTAT
1 TTTTGCATTTGTAT
2205002 CTAATGTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.07, G:0.17, T:0.57
Consensus pattern (22 bp):
TTTTGCATTTGTATTTGATATG
Found at i:2218448 original size:26 final size:25
Alignment explanation
Indices: 2218418--2218466 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
2218408 GAGTATATAA
* *
2218418 AAAATATGATATTTAATAATAAATTT
1 AAAATATAATATATAATAA-AAATTT
2218444 AAAATATAATATATAATAAAAAT
1 AAAATATAATATATAATAAAAAT
2218467 ATATTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAATATAATATATAATAAAAATTT
Found at i:2218475 original size:17 final size:17
Alignment explanation
Indices: 2218444--2218500 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
2218434 TAATAAATTT
*
2218444 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
2218462 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
2218479 ATAATA-A-TTAT-ATA
1 AAAATATATTTATAATA
2218493 AAAATATA
1 AAAATATA
2218501 AAATATATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:2219043 original size:35 final size:37
Alignment explanation
Indices: 2218978--2219056 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
2218968 ATAACAAAAT
*
2218978 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTA
2219014 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTA
1 CATATCATATCTAAGATTGATATCATATCTAAGATTA
2219049 CATATCAT
1 CATATCAT
2219057 TGAAGATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTA
Found at i:2219054 original size:14 final size:17
Alignment explanation
Indices: 2218985--2219047 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 17
2218975 AATCATATCT
2218985 TCTAAGATTGTATATCATA
1 TCTAAGATTG--TATCATA
*
2219004 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
2219022 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
2219039 TCTAAGATT
1 TCTAAGATT
2219048 ACATATCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.37
18 16 0.39
19 10 0.24
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:2227994 original size:26 final size:26
Alignment explanation
Indices: 2227956--2228013 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
2227946 TGATACAAAT
2227956 TGATAATAAGTTAGGTAAATGTTCCA
1 TGATAATAAGTTAGGTAAATGTTCCA
** *
2227982 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAAGTTAGGTAAATGTTCCA
2228008 TGATAA
1 TGATAA
2228014 GAATTTCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATAAGTTAGGTAAATGTTCCA
Found at i:2229498 original size:28 final size:26
Alignment explanation
Indices: 2229456--2229530 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
2229446 AAAAGTAGCT
* *
2229456 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* * *
2229484 AAATTACTGTTATACCTCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
* *
2229510 AAATTACCGTTATACTCCTAG
1 AAATTACTGTTATACCCCTAG
2229531 GGTTAATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.54
27 1 0.03
28 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:2229675 original size:27 final size:27
Alignment explanation
Indices: 2229634--2229746 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
2229624 GAGGAAGCAT
*
2229634 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
2229661 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * * *
2229688 TCTGGTGGCCCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCACAAATATCT-GA
* * * *
2229716 TCTGGTGACTCTGTCAC-ATTATCTGC
1 TCTGGTGGCTCTGCCACAAATATCTGA
2229742 TCTGG
1 TCTGG
2229747 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.07
27 52 0.73
28 14 0.20
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:2229739 original size:54 final size:54
Alignment explanation
Indices: 2229633--2229755 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
2229623 GGAGGAAGCA
* *
2229633 TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TTCTGGTGGCCATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTG
* * * * *
2229687 TTCTGGTGGCCCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCTG
1 TTCTGGTGGCCATGCCACAAATATCT-GATCTGGTGACTCTGCCACATATATCTG
* **
2229741 CTCTGGCAGCCATGC
1 TTCTGGTGGCCATGC
2229756 TGCAAATTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 39 0.68
55 18 0.32
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (54 bp):
TTCTGGTGGCCATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTG
Found at i:2233726 original size:26 final size:25
Alignment explanation
Indices: 2233688--2233823 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 25
2233678 TGATACAAAT
2233688 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
*
2233714 TGATAATGTGTTAGGTAAATGCTTCA
1 TGATAATG-GTTAGGTAAATGTTTCA
*
2233740 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
2233766 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
2233792 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATG-GTTAGGTAAATGTTTCA
2233818 TGATAA
1 TGATAA
2233824 GAATATCATG
Statistics
Matches: 102, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
25 2 0.02
26 99 0.97
27 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:2235800 original size:93 final size:93
Alignment explanation
Indices: 2235688--2235859 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
2235678 CGCCCATAAG
* *
2235688 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
2235753 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
2235781 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
2235846 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
2235860 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:2235856 original size:46 final size:46
Alignment explanation
Indices: 2235681--2235856 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
2235671 TGTAACCCGC
* * *
2235681 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
2235727 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
2235777 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
2235820 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
2235857 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:2243361 original size:93 final size:93
Alignment explanation
Indices: 2243249--2243420 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
2243239 CGCCCATAAG
* *
2243249 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
2243314 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
2243342 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
2243407 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
2243421 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:2243417 original size:46 final size:46
Alignment explanation
Indices: 2243242--2243417 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
2243232 TGTAACCCGC
* * *
2243242 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
2243288 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
2243338 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
2243381 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
2243418 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:2246227 original size:137 final size:137
Alignment explanation
Indices: 2245941--2246215 Score: 487
Period size: 137 Copynumber: 2.0 Consensus size: 137
2245931 GAGTAGTCTC
*
2245941 CCCAAATGGGCTTGCATATGTTTACTGATGTTACATGTATTTTGAAATGGGCCTATGGGTCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTACATGTATTTTGAAATGGGCCTATGGGCCATAC
2246006 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
2246071 ACTGTTA
131 ACTGTTA
* * *
2246078 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAT
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTACATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
2246143 TGTTATCTGAATAAGGGGTTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
2246208 ACTGTTA
131 ACTGTTA
2246215 C
1 C
2246216 TTGAATGGGC
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 131 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTACATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:2250085 original size:26 final size:24
Alignment explanation
Indices: 2250000--2250130 Score: 201
Period size: 25 Copynumber: 5.2 Consensus size: 24
2249990 TGATACAAAT
2250000 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAAT-GGTTAGGTAAATGTTCA
2250025 TGATAAT-GTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
2250048 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTT-CA
2250074 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATG-TTCA
2250100 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATG-TTCA
2250125 TGATAA
1 TGATAA
2250131 GAATTCATGT
Statistics
Matches: 101, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
23 23 0.23
25 45 0.45
26 31 0.31
27 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (24 bp):
TGATAATGGTTAGGTAAATGTTCA
Found at i:2250111 original size:51 final size:48
Alignment explanation
Indices: 2250000--2250130 Score: 210
Period size: 51 Copynumber: 2.6 Consensus size: 48
2249990 TGATACAAAT
2250000 TGATAATAGGTTAGGTAAATGTTCATGATAATGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATGTTAGGTAAATGTTCA
2250048 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAAT--GTTAGGTAAATG-TTCA
2250100 TGATAAT-GGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATG-TTCATGATAA
2250131 GAATTCATGT
Statistics
Matches: 78, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
48 23 0.29
49 9 0.12
51 33 0.42
52 13 0.17
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (48 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATGTTAGGTAAATGTTCA
Found at i:2252215 original size:135 final size:135
Alignment explanation
Indices: 2251900--2252182 Score: 462
Period size: 135 Copynumber: 2.1 Consensus size: 135
2251890 GAGTAGTCTC
* * *
2251900 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-CTA-TGATGCTGCATGTACTTTGAAATGGGCCTATGGGCCATAC
2251965 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
64 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
2252030 ACTGTTA
129 ACTGTTA
* * *
2252037 CCCAAATGGGCTTGCATATGTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCCAAATGGGCTTGCATATGCTATGATGCTGCATGTACTTTGAAATGGGCCTATGGGCCATACTG
2252102 TTATCTGAATAAGGGGCTAAGGCCCA-TTTATTGTAATCTGAAAA-GGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
2252165 TGTTA
131 TGTTA
**
2252170 CCTGAATGGGCTT
1 CCCAAATGGGCTT
2252183 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
133 35 0.24
134 18 0.12
135 68 0.47
136 3 0.02
137 20 0.14
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATATGCTATGATGCTGCATGTACTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:2253376 original size:21 final size:24
Alignment explanation
Indices: 2253341--2253385 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
2253331 GTAAGGGGGG
2253341 ATCGATGGTATTTT-GAG-GAAGA
1 ATCGATGGTATTTTGGAGAGAAGA
*
2253363 ATCGATTG-ATTTTGGAGAGAAGA
1 ATCGATGGTATTTTGGAGAGAAGA
2253386 GATTGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.31
Consensus pattern (24 bp):
ATCGATGGTATTTTGGAGAGAAGA
Found at i:2254045 original size:78 final size:76
Alignment explanation
Indices: 2253961--2254120 Score: 203
Period size: 78 Copynumber: 2.1 Consensus size: 76
2253951 TTTTTTTATG
* * * *
2253961 ATAAAAAAAGAGAAAATAAAGTATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 ATAAAAAAAAAGAAAATAAAGAATAGTTTTAATTAATAAT-AAAACAAAATAGTAT-GGGGAATA
2254026 GTTTTAATTAATA
64 GTTTTAATTAATA
* ** *** *
2254039 ATAAAAAAAAATAGTATGGGGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGAGTAGT
1 ATAAAAAAAAAGAAAATAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGAATAGT
2254104 TTTAATTAATA
66 TTTAATTAATA
2254115 ATAAAA
1 ATAAAA
2254121 CAAGTAGCAT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
76 25 0.35
77 15 0.21
78 31 0.44
ACGTcount: A:0.53, C:0.01, G:0.16, T:0.30
Consensus pattern (76 bp):
ATAAAAAAAAAGAAAATAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGAATAGT
TTTAATTAATA
Found at i:2254121 original size:38 final size:38
Alignment explanation
Indices: 2253986--2254123 Score: 231
Period size: 38 Copynumber: 3.6 Consensus size: 38
2253976 ATAAAGTATG
*
2253986 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAAT-AAAACAAAATAGTAT-GGGGAATA
*
2254026 GTTTTAATTAATAATAAAAAAAAATAGTATGGGGAATA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATA
*
2254064 GTTTTAATTAATAATAAAACAAAATAGTATGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATA
2254102 GTTTTAATTAATAATAAAACAA
1 GTTTTAATTAATAATAAAACAA
2254124 GTAGCATGGG
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 65 0.69
39 14 0.15
40 15 0.16
ACGTcount: A:0.50, C:0.02, G:0.16, T:0.32
Consensus pattern (38 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATA
Found at i:2258626 original size:13 final size:13
Alignment explanation
Indices: 2258608--2258636 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2258598 TTTACTTTCC
2258608 AGAGAGGTAGAAA
1 AGAGAGGTAGAAA
2258621 AGAGAGGTAGAAA
1 AGAGAGGTAGAAA
2258634 AGA
1 AGA
2258637 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (13 bp):
AGAGAGGTAGAAA
Found at i:2266913 original size:205 final size:205
Alignment explanation
Indices: 2266561--2267318 Score: 1193
Period size: 205 Copynumber: 3.7 Consensus size: 205
2266551 TAAATGTTAT
*
2266561 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* * * * * *
2266626 AATTTGGCTTTCACGTGATTACCATG-AAGAAAATCTAAGATGATTTGTCGTCTTTGTATTGTTA
66 GATTTGGCTTTCACGTGATTACGA-GAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCA
2266690 GAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTT
130 GAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTT
2266755 CAGATGATTTC
195 CAGATGATTTC
2266766 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
2266831 GATTTGGCTTTCACGTGATTACGAGAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAG
66 GATTTGGCTTTCACGTGATTACGAGAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAG
*
2266896 AGAATGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTC
131 AGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTC
2266961 AGATGATTTC
196 AGATGATTTC
*
2266971 ACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
2267036 GATTTGTCTTTTACGTGATTACGAGAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAG
66 GATTTGGCTTTCACGTGATTACGAGAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAG
* *
2267101 AGAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
131 AGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTC
*
2267166 GGATG-TTT-
196 AGATGATTTC
* * * * *
2267174 ATGCTGAAGCGGATCCAAGATGGTTTGGCGTCGTTGTGCTTACAAGGAGCAAATC-AA-ATCATA
1 A--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGA-CATA
* * ** * * * *
2267237 GTTGATTTGGCTTTCACGTGCTTACGTTAAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGT
63 GCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGT
*
2267302 CAGAGAACAAATCGAAG
128 CAGAGAACGAATCGAAG
2267319 AAATAGATTT
Statistics
Matches: 516, Mismatches: 33, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
203 2 0.00
204 80 0.16
205 434 0.84
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (205 bp):
ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGATTACGAGAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAG
AGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTC
AGATGATTTC
Found at i:2267464 original size:44 final size:45
Alignment explanation
Indices: 2267415--2267984 Score: 416
Period size: 44 Copynumber: 13.0 Consensus size: 45
2267405 GATTTCAGCA
* * *
2267415 TGGCATCTCTGTGCTTATAGGGAACAAG-TTGAAGATAGTAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGATT
*
2267459 TGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGATT
* * * * * *
2267503 TGACATTCTTGTGCTTAGAGTGAAGC-AGATCGAAGATTTTGC--A--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGATCGAAGA--TAGCAGATT
* * * *
2267546 TGGCATCCCTATGCTTATAGGGAACAAG-TTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGATT
* *
2267590 TGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAACAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGATT
* * * ** **
2267634 TGACATTCCTGTGCTTACAGTAAAGC-AGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGATCGAAGATAGCAG-ATT
* * *
2267678 AGGCATCCCTGTGCTTATAGTGAAC-AGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGATT
* * * ** * **
2267722 TGACATTCCTGTGCTTACAGTAAAGC-AGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGATCGAAGATAGCAG-ATT
* * * *
2267766 TGGCATCCCTGTGCTTATAGAGAACAAG-TTGAAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCG-AAGATAGCAGATT
** *
2267811 TGGCATCCCTGTGCTTATAGGG-ATTAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGATT
* * * * * *
2267855 TGACATTCCTATGCTTACAGTGAAGC-AGATCGAAGACT-TCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGATCGAAGA-TAGCAG-ATT
* *
2267899 TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGATT
*
2267943 TGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGA-AGCAGAT
1 TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGAT
2267985 CAAAGAACTC
Statistics
Matches: 414, Mismatches: 82, Indels: 61
0.74 0.15 0.11
Matches are distributed among these distances:
40 2 0.00
42 10 0.02
43 61 0.15
44 256 0.62
45 78 0.19
46 4 0.01
47 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (45 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGATT
Found at i:2267547 original size:131 final size:132
Alignment explanation
Indices: 2267377--2267738 Score: 541
Period size: 131 Copynumber: 2.8 Consensus size: 132
2267367 AGATATCGCC
* *
2267377 TTCCTGAG-TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCTCTGTGCTTATAGGGAACA
1 TTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACA
* *
2267441 AGTTGAAGATAGTAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGA
66 AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGA
2267506 CA
131 CA
* * * *
2267508 TTCTTGTGCTTAGAGTGAAGCAGATCGAAGATTT-TGCATGGCATCCCTATGCTTATAGGGAACA
1 TTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACA
* *
2267572 AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGA
66 AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGA
2267637 CA
131 CA
* * *
2267639 TTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCAAGGCATCCCTGTGCTTATAGTGAAC-
1 TTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACA
* * * *
2267703 AGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
66 AG-TTGAAGATAGCAGATTTGGCATCCCTGTGCTTA
2267739 CAGTAAAGCA
Statistics
Matches: 205, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
131 129 0.63
132 76 0.37
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACA
AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGA
CA
Found at i:2267840 original size:133 final size:132
Alignment explanation
Indices: 2267679--2267985 Score: 490
Period size: 133 Copynumber: 2.3 Consensus size: 132
2267669 ATTTCAGCAA
* *
2267679 GGCATCCCTGTGCTTATAGTGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTA
1 GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTA
*
2267744 AAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGAGAACAAGTTGAAAAACAGCAGA
66 AAGCAGATCAAAGACTTCAGCATGGCATCCCTGTGCTTATAGAGAACAAGTTG-AAAACAGCAGA
2267809 TTT
130 TTT
** *
2267812 GGCATCCCTGTGCTTATAGGGATTAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTG
1 GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTA
* * * * *
2267877 AAGCAGATCGAAGACTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT
66 AAGCAGATCAAAGACTTCAGCATGGCATCCCTGTGCTTATAGAGAACAAGTTGAAAACAGCAGAT
2267942 TT
131 TT
*
2267944 GGCATCCCTGTGTTTATAGGGAACAGATCGAAGA-AGCAGATC
1 GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
2267986 AAAGAACTCA
Statistics
Matches: 160, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 8 0.05
132 43 0.27
133 109 0.68
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTA
AAGCAGATCAAAGACTTCAGCATGGCATCCCTGTGCTTATAGAGAACAAGTTGAAAACAGCAGAT
TT
Found at i:2267875 original size:221 final size:219
Alignment explanation
Indices: 2267460--2267955 Score: 778
Period size: 221 Copynumber: 2.3 Consensus size: 219
2267450 TAGTAGATTT
* * *
2267460 GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTAGAGTG
1 GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTA
* * *
2267525 AAGCAGATCGAAGATTTTGCATGGCATCCCTATGCTTATAGGGAACAAGTTGAAAACAGCAGATT
66 AAGCAGATCAAAGATTTAGCATGGCATCCCTATGCTTATAGAGAACAAGTTGAAAACAGCAGATT
*
2267590 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
131 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTATGCTTACAGT
*
2267655 AAAGCAGATCGAAGATTTCAGCAA
196 AAAGCAGATCGAAGACTTCAGCAA
*
2267679 GGCATCCCTGTGCTTATAGTGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTA
1 GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTA
*
2267744 AAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGAGAACAAGTTGAAAAACAGCAGA
66 AAGCAGATCAAAGATTT-AGCATGGCATCCCTATGCTTATAGAGAACAAGTTG-AAAACAGCAGA
** *
2267809 TTTGGCATCCCTGTGCTTATAGGGATTAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACA
129 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTATGCTTACA
* *
2267874 GTGAAGCAGATCGAAGACTTCAGCAT
194 GTAAAGCAGATCGAAGACTTCAGCAA
* * * * *
2267900 GGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTG
1 GGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTG
2267956 TTTATAGGGA
Statistics
Matches: 253, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
219 77 0.30
220 33 0.13
221 143 0.57
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (219 bp):
GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTA
AAGCAGATCAAAGATTTAGCATGGCATCCCTATGCTTATAGAGAACAAGTTGAAAACAGCAGATT
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTATGCTTACAGT
AAAGCAGATCGAAGACTTCAGCAA
Found at i:2286335 original size:20 final size:20
Alignment explanation
Indices: 2286312--2286363 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2286302 AAATCCAAAT
2286312 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* * *
2286332 TAAAATCCTGAAATTTAGGA
1 TAAAATACTAAAATTCAGGA
2286352 TAAGAATACTAA
1 TAA-AATACTAA
2286364 TGTGGCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.27
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:2290626 original size:13 final size:13
Alignment explanation
Indices: 2290608--2290633 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2290598 GTGTTCGAAT
2290608 AACTATAAATGAA
1 AACTATAAATGAA
2290621 AACTATAAATGAA
1 AACTATAAATGAA
2290634 TGGGTGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AACTATAAATGAA
Found at i:2292473 original size:26 final size:26
Alignment explanation
Indices: 2292444--2292553 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
2292434 TGATACAAAT
2292444 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
2292470 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
2292496 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
2292522 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2292548 TGATAA
1 TGATAA
2292554 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:2296558 original size:45 final size:45
Alignment explanation
Indices: 2296508--2296600 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
2296498 TTTAGGCATA
2296508 CATAACACCGAAATATGTTCTTCATTAGCCATTTCAATAGCTAAT
1 CATAACACCGAAATATGTTCTTCATTAGCCATTTCAATAGCTAAT
*
2296553 CATAACACTGAAATATGTTCTTCATTAGCCATTTCAATAGCTAAT
1 CATAACACCGAAATATGTTCTTCATTAGCCATTTCAATAGCTAAT
2296598 CAT
1 CAT
2296601 TATCAAATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (45 bp):
CATAACACCGAAATATGTTCTTCATTAGCCATTTCAATAGCTAAT
Found at i:2297393 original size:55 final size:54
Alignment explanation
Indices: 2297245--2297435 Score: 203
Period size: 54 Copynumber: 3.5 Consensus size: 54
2297235 AACTTACCAT
* * * *
2297245 TGCCATGTCTTAACATGGTCTTACTTGGTTTCCTTGCCTTATA-AACTCA-CTAA
1 TGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATC-AA
* * *
2297298 TGCCATGCCTTGGCATGGTCTTACACGGCACATT--TT-CCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACA-TG-A-TTTCCTTGCCTTATAG-AACTCATCAA
* * *
2297353 TGCCATGTCTTCACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATCAA
*
2297407 TGCCATGCCTTGGCATGGTCTTACATGAT
1 TGCCATGCCTTGACATGGTCTTACATGAT
2297436 ATCTTTATCT
Statistics
Matches: 113, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
52 2 0.02
53 29 0.26
54 41 0.36
55 38 0.34
56 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATCAA
Found at i:2297608 original size:45 final size:45
Alignment explanation
Indices: 2297543--2297628 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
2297533 CCTTAATCAA
*
2297543 TACCGATGCCATGTCTTGACATAGTCTTACACGGGATCCTTGCCT
1 TACCAATGCCATGTCTTGACATAGTCTTACACGGGATCCTTGCCT
* * *
2297588 TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TACCAATGCCATGTCTTGACATAGTCTTACACGGGATCCTT
2297629 AACCGTCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.34
Consensus pattern (45 bp):
TACCAATGCCATGTCTTGACATAGTCTTACACGGGATCCTTGCCT
Found at i:2297698 original size:44 final size:44
Alignment explanation
Indices: 2297634--2297761 Score: 168
Period size: 44 Copynumber: 2.9 Consensus size: 44
2297624 TCCTTAACCG
* * * *
2297634 TCAATTCCTCCTTAAATGCCATGTTATGAACATGGACTTTTCCT
1 TCAATTCTTCCTTAATTGCCATGGTATGAACATGGACTTTTCCA
* *
2297678 TCTATTCTTCCTTAATTGCCATGGTATGAACATGAACTTTTCCA
1 TCAATTCTTCCTTAATTGCCATGGTATGAACATGGACTTTTCCA
* *
2297722 TCAATTCTTCCATAATTGCCATGGTA-CAACCATGGACTTT
1 TCAATTCTTCCTTAATTGCCATGGTATGAA-CATGGACTTT
2297762 GAGATATCAA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 2 0.03
44 71 0.97
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (44 bp):
TCAATTCTTCCTTAATTGCCATGGTATGAACATGGACTTTTCCA
Found at i:2300777 original size:21 final size:21
Alignment explanation
Indices: 2300753--2300795 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2300743 TTTATAGATA
2300753 CCTCTATTTTCTGTTGAAAAT
1 CCTCTATTTTCTGTTGAAAAT
* *
2300774 CCTCTGTTTTCTTTTGAAAAT
1 CCTCTATTTTCTGTTGAAAAT
2300795 C
1 C
2300796 AACAGTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (21 bp):
CCTCTATTTTCTGTTGAAAAT
Found at i:2300803 original size:21 final size:21
Alignment explanation
Indices: 2300759--2300803 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2300749 GATACCTCTA
** *
2300759 TTTTCTGTTGAAAATCCTCTG
1 TTTTCTGTTGAAAATCAACAG
*
2300780 TTTTCTTTTGAAAATCAACAG
1 TTTTCTGTTGAAAATCAACAG
2300801 TTT
1 TTT
2300804 GTCGTGGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (21 bp):
TTTTCTGTTGAAAATCAACAG
Found at i:2302428 original size:12 final size:12
Alignment explanation
Indices: 2302411--2302441 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2302401 AAATAATATC
2302411 ACAATAATCCTA
1 ACAATAATCCTA
2302423 ACAATAATCCTA
1 ACAATAATCCTA
*
2302435 AAAATAA
1 ACAATAA
2302442 AATTCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (12 bp):
ACAATAATCCTA
Found at i:2303433 original size:17 final size:17
Alignment explanation
Indices: 2303413--2303458 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
2303403 AAAATATGTT
2303413 TATATTAAATAATTATA
1 TATATTAAATAATTATA
2303430 TATATTAAACTAA-TATA
1 TATATTAAA-TAATTATA
2303447 TA-ATT-AATAATT
1 TATATTAAATAATT
2303459 TAAAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.11
15 3 0.11
16 3 0.11
17 15 0.56
18 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATATTAAATAATTATA
Found at i:2311513 original size:18 final size:18
Alignment explanation
Indices: 2311492--2311541 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
2311482 CATATACGGT
*
2311492 ACTATTTACGTATATGAC
1 ACTATTCACGTATATGAC
* *
2311510 ACTATTCATGTATATGGC
1 ACTATTCACGTATATGAC
*
2311528 ACTGTTCACGTATA
1 ACTATTCACGTATA
2311542 CAGTAGTTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (18 bp):
ACTATTCACGTATATGAC
Found at i:2320289 original size:17 final size:17
Alignment explanation
Indices: 2320267--2320300 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2320257 ATAGACTCGC
*
2320267 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
2320284 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
2320301 AATATATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:2329834 original size:40 final size:40
Alignment explanation
Indices: 2329779--2329883 Score: 183
Period size: 40 Copynumber: 2.6 Consensus size: 40
2329769 TATATATGTG
*
2329779 GAAGGCAATCGTGCGGGTTATTATAACCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC
2329819 GAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC
* *
2329859 GAAGGCATTCGTGCTGGTTGTTATA
1 GAAGGCATTCGTGCGGGTTATTATA
2329884 TCCGAGCCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (40 bp):
GAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC
Found at i:2344543 original size:26 final size:25
Alignment explanation
Indices: 2344513--2344561 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
2344503 CATATAAAAG
*
2344513 AATAAAGTTTATATAATTATTTATAT
1 AATAAAATTTATA-AATTATTTATAT
*
2344539 AATAAAATTTATAATTTATTTAT
1 AATAAAATTTATAAATTATTTAT
2344562 TTTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
AATAAAATTTATAAATTATTTATAT
Found at i:2347174 original size:22 final size:21
Alignment explanation
Indices: 2347138--2347190 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
2347128 ATATTTACTT
*
2347138 TTTTTAATATAATTA-TCATTA
1 TTTTTATTATAATTACT-ATTA
*
2347159 TATTTTATTATTATTACTATTA
1 T-TTTTATTATAATTACTATTA
2347181 TTTTTATTAT
1 TTTTTATTAT
2347191 CCGTCTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.36
22 17 0.61
23 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTATTATAATTACTATTA
Found at i:2348187 original size:20 final size:20
Alignment explanation
Indices: 2348162--2348199 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2348152 ATTGATTTCT
2348162 CCACAGGTGTGAAACGCAAA
1 CCACAGGTGTGAAACGCAAA
2348182 CCACAGGTGTGAAACGCA
1 CCACAGGTGTGAAACGCA
2348200 TGTTAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.26, G:0.26, T:0.11
Consensus pattern (20 bp):
CCACAGGTGTGAAACGCAAA
Found at i:2350307 original size:27 final size:26
Alignment explanation
Indices: 2350270--2350384 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
2350260 AGCATGGCTG
* *
2350270 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
2350296 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
2350324 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
2350351 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
2350378 CCAGAAC
1 CCAGAAC
2350385 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:2350329 original size:54 final size:54
Alignment explanation
Indices: 2350270--2350384 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
2350260 AGCATGGCTG
*
2350270 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
2350324 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
2350378 CCAGAAC
1 CCAGAAC
2350385 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:2352030 original size:26 final size:26
Alignment explanation
Indices: 2351994--2352127 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
2351984 ACATGAATTC
2351994 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2352020 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2352046 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2352072 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2352096 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2352122 TTATCA
1 TTATCA
2352128 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
24 10 0.10
25 26 0.25
26 66 0.65
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2352118 original size:50 final size:52
Alignment explanation
Indices: 2351994--2352127 Score: 236
Period size: 50 Copynumber: 2.6 Consensus size: 52
2351984 ACATGAATTC
* *
2351994 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
2352046 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
2352096 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
2352128 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 35 0.44
51 13 0.16
52 32 0.40
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:2356082 original size:27 final size:26
Alignment explanation
Indices: 2356045--2356159 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
2356035 AGCATGGCTG
* *
2356045 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
2356071 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
2356099 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
2356126 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
2356153 CCAGAAC
1 CCAGAAC
2356160 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:2356104 original size:54 final size:54
Alignment explanation
Indices: 2356045--2356159 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
2356035 AGCATGGCTG
*
2356045 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
2356099 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
2356153 CCAGAAC
1 CCAGAAC
2356160 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:2357802 original size:25 final size:25
Alignment explanation
Indices: 2357769--2357901 Score: 189
Period size: 25 Copynumber: 5.2 Consensus size: 25
2357759 GCATGAATTC
*
2357769 TTATCATGAAATATTTACCTAATCC-
1 TTATCATGAAACATTTACCTAA-CCA
2357794 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
2357820 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
2357846 TTATCATG-AACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
2357870 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
2357896 TTATCA
1 TTATCA
2357902 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
24 9 0.09
25 55 0.54
26 37 0.37
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:2357891 original size:50 final size:52
Alignment explanation
Indices: 2357769--2357901 Score: 211
Period size: 50 Copynumber: 2.6 Consensus size: 52
2357759 GCATGAATTC
* *
2357769 TTATCATGAAATATTTACCTAATCC--TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAA-CCTATTATCATGAAACATTTACCTAACCCA
2357820 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
2357870 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
2357902 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
50 37 0.47
51 33 0.42
52 8 0.10
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:2366253 original size:16 final size:18
Alignment explanation
Indices: 2366229--2366270 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
2366219 ATAATAAAAA
*
2366229 TTATAATTT-ATTTA-TT
1 TTATTATTTAATTTACTT
2366245 TTATTATTTAAATTTACTT
1 TTATTATTT-AATTTACTT
2366264 TTATTAT
1 TTATTAT
2366271 ATAACTAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
18 5 0.23
19 9 0.41
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATTATTTAATTTACTT
Found at i:2368989 original size:17 final size:17
Alignment explanation
Indices: 2368967--2369001 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2368957 GATATGGATT
2368967 TTATTAAAAGTTTTTAC
1 TTATTAAAAGTTTTTAC
2368984 TTATTAAAAGTTTTTAC
1 TTATTAAAAGTTTTTAC
2369001 T
1 T
2369002 CATCCTTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TTATTAAAAGTTTTTAC
Found at i:2378829 original size:16 final size:16
Alignment explanation
Indices: 2378796--2378829 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2378786 GGAGATTGTT
* *
2378796 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
2378812 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
2378828 AA
1 AA
2378830 TACAAAATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:2392147 original size:46 final size:46
Alignment explanation
Indices: 2392081--2392308 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
2392071 GGAGTGTGCT
2392081 CCTGATAT-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
2392126 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
2392172 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * ***
2392218 CGTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * * *
2392264 CATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
2392309 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
45 8 0.05
46 160 0.95
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:2394690 original size:25 final size:25
Alignment explanation
Indices: 2394662--2394712 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2394652 TTTTACTCGG
2394662 TATGTGATCCTGAGCTCAACTCATT
1 TATGTGATCCTGAGCTCAACTCATT
2394687 TATGTGATCCTGAGCTCAACTCATT
1 TATGTGATCCTGAGCTCAACTCATT
2394712 T
1 T
2394713 CTCACAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (25 bp):
TATGTGATCCTGAGCTCAACTCATT
Found at i:2394852 original size:88 final size:87
Alignment explanation
Indices: 2394700--2394912 Score: 216
Period size: 88 Copynumber: 2.4 Consensus size: 87
2394690 GTGATCCTGA
* * * * *
2394700 GCTCAACTCATTTCTCACAATATGAATTGAATCTTTAAAAATAGACATTAAAAACAGGAATTGAA
1 GCTCAACTCACTTCTCGCAATATGAGTTG-ATTTTTAAAAACAGACATTAAAAACAGGAATTGAA
* * *
2394765 AATAGCTTAG-CACGTGAGCCAAG
65 AATA-CCTAGACACGTAACCCAAG
* * *
2394788 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGA-ATTTGAAAAATA-GATTTTG
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAACAGACA-TT-AAAAACAGGA-ATTG
* * *
2394851 AAAATACCTCGACATGTAACCCGAG
63 AAAATACCTAGACACGTAACCCAAG
*
2394876 GCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTA
1 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTA
2394913 TAAATTGAAA
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
86 1 0.01
87 19 0.18
88 79 0.76
89 5 0.05
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (87 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAACAGACATTAAAAACAGGAATTGAAA
ATACCTAGACACGTAACCCAAG
Found at i:2395026 original size:14 final size:14
Alignment explanation
Indices: 2395009--2395035 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2394999 TTTTGAACAG
2395009 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
2395023 CAGAAATTGAAAA
1 CAGAAATTGAAAA
2395036 TATCTCGCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:2395060 original size:181 final size:181
Alignment explanation
Indices: 2394818--2395171 Score: 462
Period size: 181 Copynumber: 2.0 Consensus size: 181
2394808 TATGAGTTGA
* * ** *
2394818 TTTTTGAAAACAGAATTTGAAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAAC
1 TTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGCAACCCGAGGCTCAAC
* * *
2394883 TCACCTCTCGCAATATGAGTT-GAGTTTTTATAAATTGAAA-AAACAGAAATTGAAAATACCTCA
66 TCACCTCTCGCAATACGAGTTAAAGTTTTTATAAA--AAAATAAACAGAAATTGAAAATACCTCA
* *
2394946 GC-GTGTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTGATTTTT
129 GCAGTGACCTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTGATTTTT
* * * * * *
2394998 TTTTTGAACAGCAGAAATTGAAAAACAGAAATTGAAAATATCTCGCCGTGCGACCTGAGGCTCAA
1 TTTTTGAA-AACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGCAACCCGAGGCTCAA
* * * *
2395063 CTCGCCTCTCGCAATACGAGTTAAATTTTTTTTAAAAAAATAAACAGGAATTGAAAATACCTCAG
65 CTCACCTCTCGCAATACGAGTTAAAGTTTTTATAAAAAAATAAACAGAAATTGAAAATACCTCAG
*
2395128 CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
130 CA-GTGACCTGAGGCTCAACCCACCTCTCGCAATATGAGTTGAT
2395172 AAATTGAAAA
Statistics
Matches: 148, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
180 11 0.07
181 89 0.60
182 10 0.07
183 38 0.26
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (181 bp):
TTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGCAACCCGAGGCTCAAC
TCACCTCTCGCAATACGAGTTAAAGTTTTTATAAAAAAATAAACAGAAATTGAAAATACCTCAGC
AGTGACCTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTGATTTTT
Found at i:2395208 original size:62 final size:62
Alignment explanation
Indices: 2395111--2395233 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 62
2395101 AATAAACAGG
* * *
2395111 AATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATA
1 AATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATA
*
2395173 AATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGAT
1 AATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGAT
2395234 TTTTGAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (62 bp):
AATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATA
Found at i:2395255 original size:14 final size:14
Alignment explanation
Indices: 2395236--2395270 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2395226 GAATTGATTT
*
2395236 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
*
2395250 TTGAAAAACAGAAT
1 TTGAAAAACAGAAA
2395264 TTGAAAA
1 TTGAAAA
2395271 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:2395348 original size:14 final size:14
Alignment explanation
Indices: 2395329--2395355 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2395319 ATTTTTTTGA
2395329 AAAGCAGAAATTGG
1 AAAGCAGAAATTGG
2395343 AAAGCAGAAATTG
1 AAAGCAGAAATTG
2395356 AAAATACCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.15
Consensus pattern (14 bp):
AAAGCAGAAATTGG
Found at i:2395351 original size:89 final size:88
Alignment explanation
Indices: 2395175--2395676 Score: 622
Period size: 89 Copynumber: 5.7 Consensus size: 88
2395165 AGTTGATAAA
* * * *
2395175 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGA--TTTTT
1 TTGAAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
2395238 GAAAAACATAAATTGAAAAACAGAAT
64 G-AAAACATAAATTGAAAAGCAGAAT
* * *
2395264 TTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTATCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * *
2395329 AAAGCAGAAATTGGAAAGCAGAAA
66 AAA-CATAAATTGAAAAGCAGAAT
* *
2395353 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTTGA
1 TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* *
2395417 CAAACATAAATTGAAAAAACAGAAA
66 -AAACATAAATTG-AAAAGCAGAAT
*
2395442 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--
1 TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * *
2395505 AAACTTAATTTGAAAAGCAGACT
66 AAACATAAATTGAAAAGCAGAAT
* * *
2395528 TTAAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
1 TTGAAAATACCTCAG-C--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * * *
2395592 TG-GAACTTAATTTGAAAAGCAGATT
63 TGAAAACATAAATTGAAAAGCAGAAT
* *
2395617 TTGAAAATTCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
2395677 GACAAACAGA
Statistics
Matches: 366, Mismatches: 36, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
85 1 0.00
86 21 0.06
87 85 0.23
88 64 0.17
89 188 0.51
90 7 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (88 bp):
TTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
AAACATAAATTGAAAAGCAGAAT
Found at i:2395442 original size:15 final size:15
Alignment explanation
Indices: 2395418--2395448 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2395408 ATTTTTTGAC
*
2395418 AAACATAAATTGAAA
1 AAACAGAAATTGAAA
2395433 AAACAGAAATTGAAA
1 AAACAGAAATTGAAA
2395448 A
1 A
2395449 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.06, G:0.10, T:0.16
Consensus pattern (15 bp):
AAACAGAAATTGAAA
Found at i:2395468 original size:327 final size:320
Alignment explanation
Indices: 2394848--2395498 Score: 843
Period size: 327 Copynumber: 2.0 Consensus size: 320
2394838 AAAATAGATT
* *
2394848 TTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTA
1 TTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGAGTTTTTA
* *
2394913 TAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACCCACCTCTCGCAA
66 TAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACCCACCTATCGCAA
* *
2394978 TATGAGTTGATTTGATTTTTTTTTTGAACAGCAGAAATTGAAAAACAGAAATTGAAAATATCTCG
131 TATGA--TGA-TTGA--TTTTTTTTGAAAAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCG
* * **
2395043 CCGTGCGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTAAATTTTTTTTAAAAAAATAAAC
191 CCGTGC-ACCTGAGGCTCAACTCACCTCTCGCAATACGAATTAAATTTTTTACAAAAAAATAAAC
*
2395108 AGGAATTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATA
255 AGAAATTGAAAATACCTCAGCA-GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATA
2395173 AA
319 AA
* *
2395175 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGA-TTTTTG
1 TTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGAGTTTTT-
* * *
2395239 AAAAACATAAATTG-AAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCT
65 ------ATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACCCACCT
* *
2395303 ATCGCAATATGA-G-TTGA-TTTTTTTGAAAAGCAGAAATTGGAAAGCAGAAATTGAAAATACCT
124 ATCGCAATATGATGATTGATTTTTTTTGAAAAGCAGAAATTGAAAAACAGAAATTGAAAATACCT
* *
2395365 CAG-CGTGC-CCTGAGGCTCAACTCACCTCTCGCAATATGAATT-GATTTTTTGACAAACATAAA
189 C-GCCGTGCACCTGAGGCTCAACTCACCTCTCGCAATACGAATTAAATTTTTT-ACAAA-A-AAA
*
2395427 TTGAAAAAACAGAAATTGAAAATACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
250 -T----AAACAGAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
2395491 GAGTTGAT
310 GAGTTGAT
2395499 TTTTTTAAAC
Statistics
Matches: 287, Mismatches: 21, Indels: 32
0.84 0.06 0.09
Matches are distributed among these distances:
321 7 0.02
322 34 0.12
323 1 0.00
324 50 0.17
325 2 0.01
326 5 0.02
327 98 0.34
329 25 0.09
332 57 0.20
333 8 0.03
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (320 bp):
TTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGAGTTTTTA
TAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACCCACCTATCGCAA
TATGATGATTGATTTTTTTTGAAAAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCGCCGTG
CACCTGAGGCTCAACTCACCTCTCGCAATACGAATTAAATTTTTTACAAAAAAATAAACAGAAAT
TGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAAA
Found at i:2395549 original size:415 final size:407
Alignment explanation
Indices: 2394758--2395586 Score: 982
Period size: 415 Copynumber: 2.0 Consensus size: 407
2394748 TAAAAACAGG
* * * * * *
2394758 AATTGAAAATAGCTTAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTT
* * *
2394823 GAAAACAGAATTTGAAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACC
66 GAAAACAGAAATTGAAAAACAGAATTTGAAAATACCTCGACATGT-ACCCGAGGCTCAACTCACC
* ** *
2394888 TCTCGCAATATGAGTTGAGTTTTTATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTC
130 TATCGCAATATGAGTTGAGTTTTTATAAACAGAAAAAACAGAAATTGAAAATACCTCAGCGTGCC
* *
2394953 TTGAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTGATTTTTTTTTTGAACAGCAGAAATTG
195 CTGAGGCTCAACCCACCTCTCGCAATATGA---GATTTGA---TTTTTTTGAACAACAGAAATTG
* *
2395018 AAAAACAGAAATTGAAAATATCTCGCCGTGCGACCTGAGGCTCAACTCGCCTCTCGCAATACGAG
254 AAAAACAGAAATTGAAAATACCTCGCCGT-CGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
* *
2395083 TTAAATTTTTTTTAAAAAAATAAACAGGAATTGAAAATACCTCAGCATGTGACCTGAGGCTCAAC
318 TTAAATTTTTTTTAAAAAAATAAACAGGAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAAC
*
2395148 TCACCTCTCGCAATATGAGTTGATA
383 TCACCTCTCACAATATGAGTTGATA
* * *
2395173 AATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTT
1 AATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTT
* * * *
2395238 GAAAAACATAAATTGAAAAACAGAATTTGAAAATACCTC-AGCGTGT-CCTGAGGCTTAACTCAC
66 G-AAAACAGAAATTGAAAAACAGAATTTGAAAATACCTCGA-CATGTACCCGAGGCTCAACTCAC
*
2395301 CTATCGCAATATGAGTTGA-TTTTTTTGAAAAGCAGAAATTGGAAAGCAGAAATTGAAAATACCT
129 CTATCGCAATATGAGTTGAGTTTTTAT--AAA-CAGAAA----AAA-CAGAAATTGAAAATACCT
* *
2395365 CAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA-A-TTGA-TTTTTTG-ACAAACATAA
186 CAGCGTGCCCTGAGGCTCAACCCACCTCTCGCAATATGAGATTTGATTTTTTTGAAC-AACAGAA
*
2395426 ATTGAAAAAACAGAAATTGAAAATACCTCAG-CGT-GTCCTGAGGCTCAACTCACCTCTCGCAAT
250 ATTG-AAAAACAGAAATTGAAAATACCTC-GCCGTCGACCTGAGGCTCAACTCACCTCTCGCAAT
* * ** *
2395489 ATGAGTT-GA-TTTTTTTAAACTTAATTTGAAA-AGCAGACTTTAAAAATACCTC-GACATGTGA
313 ACGAGTTAAATTTTTTTTAAA---AAAAT-AAACAG--GA-ATTAAAAATACCTCAG-CATGTGA
2395550 CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
370 CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
2395587 TTTTTTGGAA
Statistics
Matches: 357, Mismatches: 36, Indels: 42
0.82 0.08 0.10
Matches are distributed among these distances:
409 10 0.03
410 1 0.00
411 35 0.10
412 21 0.06
413 35 0.10
414 37 0.10
415 115 0.32
416 45 0.13
417 1 0.00
420 3 0.01
421 54 0.15
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (407 bp):
AATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTT
GAAAACAGAAATTGAAAAACAGAATTTGAAAATACCTCGACATGTACCCGAGGCTCAACTCACCT
ATCGCAATATGAGTTGAGTTTTTATAAACAGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCC
TGAGGCTCAACCCACCTCTCGCAATATGAGATTTGATTTTTTTGAACAACAGAAATTGAAAAACA
GAAATTGAAAATACCTCGCCGTCGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTAAATTT
TTTTTAAAAAAATAAACAGGAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCT
CACAATATGAGTTGATA
Found at i:2395719 original size:72 final size:71
Alignment explanation
Indices: 2395602--2395836 Score: 274
Period size: 72 Copynumber: 3.2 Consensus size: 71
2395592 TGGAACTTAA
** * *
2395602 TTTGAAAAGCAGATTTTGAAAATT-CCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTGAAAA-CAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATAT
2395666 GAGTTGAT
64 GAGTTGAT
*
2395674 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCCCGTAATATG
1 TTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATG
2395739 AGTTGATTTT
65 AGTTGA---T
* * * * **
2395749 TTTGAAAGACTGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATG
1 TTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATG
*
2395814 AGTTAAAT
65 AGTT-GAT
*
2395822 TTTGAAAATAGAAAT
1 TTTGAAAACAGAAAT
2395837 AAAAACATCA
Statistics
Matches: 141, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
71 5 0.04
72 62 0.44
73 11 0.08
74 2 0.01
75 60 0.43
76 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (71 bp):
TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGA
GTTGAT
Found at i:2395792 original size:75 final size:72
Alignment explanation
Indices: 2395617--2395836 Score: 273
Period size: 75 Copynumber: 3.0 Consensus size: 72
2395607 AAAGCAGATT
* * *
2395617 TTGAAAATTCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTGACAA
2395682 ACAGAAA
66 ACAGAAA
* *
2395689 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCCCGTAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA---TTTTGA
*
2395754 -AAGACTGAAA
63 CAA-ACAGAAA
* * ** *
2395764 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTAAATTTTGA-A
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTT-GATTTTGACA
*
2395828 AATAGAAA
65 AACAGAAA
2395836 T
1 T
2395837 AAAAACATCA
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
72 57 0.45
73 8 0.06
74 2 0.02
75 60 0.47
76 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (72 bp):
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTGACAA
ACAGAAA
Found at i:2397766 original size:27 final size:26
Alignment explanation
Indices: 2397714--2397896 Score: 110
Period size: 25 Copynumber: 7.5 Consensus size: 26
2397704 ATATATTAGG
*
2397714 TATATTTTAAATTA-TATATTACGTATA
1 TATATTTT-AA-TACTATATTATGTATA
* *
2397741 TATATTTTCTATACTATTTTATGTATA
1 TATATTTT-AATACTATATTATGTATA
*
2397768 TAT-CTTTAATACTATATTAT-T-TA
1 TATATTTTAATACTATATTATGTATA
*
2397791 TATA---T-ATA-TATA-TATATATA
1 TATATTTTAATACTATATTATGTATA
** *
2397811 TATATTTCTACATGTTATCTTATGT--A
1 TATATTT-TA-ATACTATATTATGTATA
*
2397837 TATATTTT-A-ACTATATTATGTATG
1 TATATTTTAATACTATATTATGTATA
* *
2397861 TAT-TTTTAACACTATATTATGTACA
1 TATATTTTAATACTATATTATGTATA
2397886 TAT-TTTTAATA
1 TATATTTTAATA
2397897 TTATCACGTA
Statistics
Matches: 123, Mismatches: 17, Indels: 34
0.71 0.10 0.20
Matches are distributed among these distances:
18 3 0.02
19 5 0.04
20 9 0.07
21 1 0.01
22 9 0.07
23 10 0.08
24 6 0.05
25 35 0.28
26 15 0.12
27 26 0.21
28 4 0.03
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.54
Consensus pattern (26 bp):
TATATTTTAATACTATATTATGTATA
Found at i:2397767 original size:25 final size:25
Alignment explanation
Indices: 2397662--2397896 Score: 108
Period size: 25 Copynumber: 9.9 Consensus size: 25
2397652 CTTTTTTTGT
* * *
2397662 TATTATTTATATTTC-TTAATATTA
1 TATTATGTATATATCTTTAATACTA
* *
2397686 TATTATAT-TAT-TCTTT--TAATA
1 TATTATGTATATATCTTTAATACTA
* *
2397707 TATTAGGTATAT-T-TTAAATTA-TA
1 TATTATGTATATATCTTTAA-TACTA
* * *
2397730 TATTACGTATATATATTTTCTATACTA
1 TATTATGTATATAT-CTTT-AATACTA
*
2397757 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCTTTAATACTA
* *
2397782 TATTAT-T-TATATATAT-ATA-TA
1 TATTATGTATATATCTTTAATACTA
* **
2397803 TA-TATATATATAT-TTCTACATGTTA
1 TATTATGTATATATCTT-TA-ATACTA
*
2397828 TCTTATGTATATAT-TTT-A-ACTA
1 TATTATGTATATATCTTTAATACTA
* * *
2397850 TATTATGTATGTATTTTTAACACTA
1 TATTATGTATATATCTTTAATACTA
* *
2397875 TATTATGTACATATTTTTAATA
1 TATTATGTATATATCTTTAATA
2397897 TTATCACGTA
Statistics
Matches: 165, Mismatches: 26, Indels: 39
0.72 0.11 0.17
Matches are distributed among these distances:
20 3 0.02
21 18 0.11
22 29 0.18
23 29 0.18
24 14 0.08
25 38 0.23
26 19 0.12
27 15 0.09
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TATTATGTATATATCTTTAATACTA
Found at i:2397796 original size:2 final size:2
Alignment explanation
Indices: 2397780--2397815 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2397770 TCTTTAATAC
*
2397780 TA TA T- TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2397816 TTCTACATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:2397899 original size:20 final size:20
Alignment explanation
Indices: 2397874--2397932 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
2397864 TTTTAACACT
2397874 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
2397894 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
2397917 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
2397933 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:2398073 original size:16 final size:15
Alignment explanation
Indices: 2398049--2398096 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
2398039 TAATTATTAT
*
2398049 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
2398065 TATTTTAATATTTTA
1 TATTTTAATATTTTA
2398080 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
2398096 T
1 T
2398097 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:2398084 original size:7 final size:8
Alignment explanation
Indices: 2398049--2398100 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
2398039 TAATTATTAT
*
2398049 TATTCTAA
1 TATTTTAA
*
2398057 TATTTTGA
1 TATTTTAA
2398065 TATTTTAA
1 TATTTTAA
2398073 TATTTT-A
1 TATTTTAA
2398080 TATTTTATA
1 TATTTTA-A
*
2398089 TATTTTAT
1 TATTTTAA
2398097 TATT
1 TATT
2398101 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:2411561 original size:75 final size:75
Alignment explanation
Indices: 2411473--2412058 Score: 461
Period size: 75 Copynumber: 7.5 Consensus size: 75
2411463 TTCCGTTTTC
* * **
2411473 AAAATTCAACTCATACTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTCTAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC-AATTT
*
2411537 CTGTTCATCAA
65 CTGTTTATCAA
* * *
2411548 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
2411613 TGTCTT-TCAAAA
66 TGT-TTATC--AA
**
2411625 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AGGACACGCTGAGGTAATTTCAATT
* *
2411690 TCCGTTTGTC--
64 TCTGTTTATCAA
*
2411700 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACACTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATT
* *
2411765 TCTATTTGTC--
64 TCTGTTTATCAA
* * * * * * *
2411775 AAAAATCAACTCGTATTGTGAGAGATGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA--ATTTCAA
* * * *
2411840 TTTATATTTTTTAA
62 TTTCTGTTTATCAA
* * * * *
2411854 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTAATTTCAAT
* *
2411918 ATCTGTTTTTCAAATTA
63 TTCTGTTTATC--A--A
* * * *
2411935 TGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGA-GCAA
1 -------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTAA
*
2411998 TTTTCAATTTCTGTTTTTTTTCAA
56 -TTTCAATTTCTG---TTTATCAA
*
2412022 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
2412059 TTTAATTTCT
Statistics
Matches: 424, Mismatches: 51, Indels: 67
0.78 0.09 0.12
Matches are distributed among these distances:
73 1 0.00
75 175 0.41
76 4 0.01
77 69 0.16
78 3 0.01
79 71 0.17
80 35 0.08
81 1 0.00
86 2 0.00
87 5 0.01
88 50 0.12
89 2 0.00
91 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTATCAA
Found at i:2411702 original size:154 final size:154
Alignment explanation
Indices: 2411473--2412058 Score: 564
Period size: 154 Copynumber: 3.7 Consensus size: 154
2411463 TTCCGTTTTC
* * * *
2411473 AAAATTCAACTCATACTGCGAGAAATGAGTTGAGCCTCAG--GACACGCTGAGGTAA-TTCTAAT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGATCACACGCTGAGGTAATTTC-AAT
** *
2411535 TTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGTTGAG
65 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGTTGAG
2411599 GTATTTTCAATTTCTGTCTTTCAAAA
130 GTATTTTCAATTTCTGT-TTTCAAAA
* *
2411625 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGATCACACGCTGAGGTAATTTCAATT
* * **
2411690 TCCGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACACTGAG
66 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-ACACGTTGAG
* *
2411753 GTAATTTCAATTTCTATTTGTC----
130 GTATTTTCAATTTCTGTTT-TCAAAA
* * * * *
2411775 AAAAATCAACTCGTATTGTGAGAGATGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGATCACACGCTGAGGTA--ATTTCAA
* * * * * * *
2411840 TTTATATTTTTTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTTACATGTCG
64 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TACACGTTG
**
2411905 AGGTATTTTCAAAATCTGTTTTTCAAATTA
128 AGGTATTTTCAATTTCTG-TTTTCAAA--A
* * ** * ** *
2411935 TGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGA-GCAAT
1 -------AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGATCACACGCTGAGGTAA-
*
2411999 TTTCAATTTCTGTTTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
58 TTTCAATTTCTG---TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
2412059 TTTAATTTCT
Statistics
Matches: 351, Mismatches: 54, Indels: 42
0.79 0.12 0.09
Matches are distributed among these distances:
150 50 0.14
152 88 0.25
153 2 0.01
154 109 0.31
155 7 0.02
165 10 0.03
166 2 0.01
167 41 0.12
168 42 0.12
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (154 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGATCACACGCTGAGGTAATTTCAATT
TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGTTGAGG
TATTTTCAATTTCTGTTTTCAAAA
Found at i:2412003 original size:88 final size:88
Alignment explanation
Indices: 2411854--2412015 Score: 236
Period size: 88 Copynumber: 1.8 Consensus size: 88
2411844 TATTTTTTAA
* * **
2411854 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGTCGAGCAATTTTCAAAA
2411919 TCTGTTTTTCAAATTATGTTTTC
66 TCTGTTTTTCAAATTATGTTTTC
* * *
2411942 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCAATTTTCAAT
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGTC-GAGCAATTTTCAAA
*
2412006 TTCTGTTTTT
65 ATCTGTTTTT
2412016 TTTCAAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
87 1 0.02
88 64 0.98
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGTCGAGCAATTTTCAAAA
TCTGTTTTTCAAATTATGTTTTC
Found at i:2412098 original size:53 final size:55
Alignment explanation
Indices: 2412015--2412121 Score: 182
Period size: 53 Copynumber: 2.0 Consensus size: 55
2412005 TTTCTGTTTT
2412015 TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
1 TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
* *
2412070 TTTTC-AAAAA-TCAACTCATATTGGGAGAGGTGAGTTGAGCTTTTTAATTTCT
1 TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
2412122 ACGAGAGGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 40 0.80
54 5 0.10
55 5 0.10
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (55 bp):
TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
Found at i:2412205 original size:237 final size:238
Alignment explanation
Indices: 2411924--2412379 Score: 833
Period size: 238 Copynumber: 1.9 Consensus size: 238
2411914 CAAAATCTGT
*
2411924 TTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACGT
1 TTTTCAAATTATGTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTTGGCTCACGT
2411989 GCTGAGCAATTTTCAATTTCT-GTTTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
66 GCTGAGCAATTTTCAATTTCTAGTTTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
2412053 GAGCCTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCTTTTTAAT
131 GAGCCTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCTTTTTAAT
*
2412118 TTCTACGAGAGGTGAGTTGAGCCTCGGGTTACATGTCGAGGTA
196 TTCTACGAGAGGTAAGTTGAGCCTCGGGTTACATGTCGAGGTA
* * *
2412161 TTTTCAAATTCTGTTTTCAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGT
1 TTTTCAAATTATGTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTTGGCTCACGT
* *
2412226 GCTGAGCTATTTTCAATTTCTATTTTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
66 GCTGAGCAATTTTCAATTTCTAGTTTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
2412291 GAGCCTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCTTTTTAAT
131 GAGCCTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCTTTTTAAT
*
2412356 TTCTGCGAGAGGTAAGTTGAGCCT
196 TTCTACGAGAGGTAAGTTGAGCCT
2412380 TTTAATTTCT
Statistics
Matches: 210, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
237 81 0.39
238 129 0.61
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (238 bp):
TTTTCAAATTATGTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTTGGCTCACGT
GCTGAGCAATTTTCAATTTCTAGTTTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
GAGCCTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCTTTTTAAT
TTCTACGAGAGGTAAGTTGAGCCTCGGGTTACATGTCGAGGTA
Found at i:2412336 original size:53 final size:55
Alignment explanation
Indices: 2412253--2412360 Score: 184
Period size: 53 Copynumber: 2.0 Consensus size: 55
2412243 TTCTATTTTT
2412253 TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
1 TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
* *
2412308 TTTTC-AAAAA-TCAACTCATATTGGGAGAGGTGAGTTGAGCTTTTTAATTTCTG
1 TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
2412361 CGAGAGGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 41 0.80
54 5 0.10
55 5 0.10
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (55 bp):
TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
Found at i:2412368 original size:30 final size:30
Alignment explanation
Indices: 2412332--2412389 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
2412322 CTCATATTGG
* *
2412332 GAGAGGTGAGTTGAGCTTTTTAATTTCTGC
1 GAGAGGTAAGTTGAGCCTTTTAATTTCTGC
2412362 GAGAGGTAAGTTGAGCCTTTTAATTTCT
1 GAGAGGTAAGTTGAGCCTTTTAATTTCT
2412390 ATTTTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.40
Consensus pattern (30 bp):
GAGAGGTAAGTTGAGCCTTTTAATTTCTGC
Found at i:2412422 original size:84 final size:83
Alignment explanation
Indices: 2412276--2412431 Score: 276
Period size: 84 Copynumber: 1.9 Consensus size: 83
2412266 CAACTCATAT
* *
2412276 TGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGGGAGAGGTGA
1 TGCGAGAGGTAAGTTGAGCCTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
2412341 GTTGAGCTTTTTAATTTC
66 GTTGAGCTTTTTAATTTC
*
2412359 TGCGAGAGGTAAGTTGAGCCTTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTG
1 TGCGAGAGGTAAGTTGAGCCTTTTAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTG
2412424 AGTTGAGC
65 AGTTGAGC
2412432 CTCGAGTCAC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 30 0.43
84 39 0.57
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (83 bp):
TGCGAGAGGTAAGTTGAGCCTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
GTTGAGCTTTTTAATTTC
Found at i:2413849 original size:2 final size:2
Alignment explanation
Indices: 2413844--2413868 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2413834 TCTTTAATAC
2413844 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2413869 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2413939 original size:25 final size:24
Alignment explanation
Indices: 2413889--2413953 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 24
2413879 ACATGTTATC
2413889 TTATGTATATA-TTTT-AACTATA
1 TTATGTATATATTTTTAAACTATA
*
2413911 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAA-ACTATA
*
2413936 TTATGTACATATTTTTAA
1 TTATGTATATATTTTTAA
2413954 TATTATCACG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.27
23 4 0.11
24 1 0.03
25 22 0.59
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (24 bp):
TTATGTATATATTTTTAAACTATA
Found at i:2414125 original size:16 final size:15
Alignment explanation
Indices: 2414104--2414146 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
2414094 ATTATAATTC
2414104 TAATATTTTGATATTT
1 TAATATTTT-ATATTT
2414120 TAATATTTTATATTT
1 TAATATTTTATATTT
2414135 TATATATTTTAT
1 TA-ATATTTTAT
2414147 TATTCACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TAATATTTTATATTT
Found at i:2414134 original size:7 final size:8
Alignment explanation
Indices: 2414104--2414150 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
2414094 ATTATAATTC
2414104 TAATATTT
1 TAATATTT
*
2414112 TGATATTT
1 TAATATTT
2414120 TAATATTT
1 TAATATTT
2414128 T-ATATTT
1 TAATATTT
2414135 TATATATTT
1 TA-ATATTT
*
2414144 TATTATT
1 TAATATT
2414151 CACATCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.21
8 19 0.56
9 8 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TAATATTT
Found at i:2422157 original size:14 final size:14
Alignment explanation
Indices: 2422140--2422166 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2422130 TTTGTAAGTT
2422140 TTCTTTTTCTTTTA
1 TTCTTTTTCTTTTA
2422154 TTCTTTTTCTTTT
1 TTCTTTTTCTTTT
2422167 TTTTAACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (14 bp):
TTCTTTTTCTTTTA
Found at i:2422170 original size:24 final size:25
Alignment explanation
Indices: 2422138--2422188 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
2422128 TTTTTGTAAG
* *
2422138 TTTTCTTTT-TCTTTTATTCTTTTTC
1 TTTTCTTTTAACTTTTA-ACTTTTTC
2422163 TTTT-TTTTAACTTTTAACTTTTTC
1 TTTTCTTTTAACTTTTAACTTTTTC
2422187 TT
1 TT
2422189 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTCTTTTAACTTTTAACTTTTTC
Found at i:2422184 original size:17 final size:17
Alignment explanation
Indices: 2422162--2422196 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2422152 TATTCTTTTT
*
2422162 CTTTTTTTTAACTTTTAA
1 CTTTTTCTTAA-TTTTAA
2422180 CTTTTTCTTAATTTTAA
1 CTTTTTCTTAATTTTAA
2422197 AAAAAATTTA
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:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (17 bp):
CTTTTTCTTAATTTTAA
Found at i:2422184 original size:38 final size:37
Alignment explanation
Indices: 2422112--2422188 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
2422102 TTTTGTCCTT
* *
2422112 TTTTATTTTTTTATTTTTTTTGTAAGTTTTCTTTTTC
1 TTTTATTTTTTTACTTTTTTTGTAACTTTTCTTTTTC
2422149 TTTTATTCTTTTT-CTTTTTTT-TAACTTTTAACTTTTTC
1 TTTTATT-TTTTTACTTTTTTTGTAACTTTT--CTTTTTC
2422187 TT
1 TT
2422189 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 7 0.20
37 14 0.40
38 14 0.40
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.77
Consensus pattern (37 bp):
TTTTATTTTTTTACTTTTTTTGTAACTTTTCTTTTTC
Found at i:2422410 original size:53 final size:51
Alignment explanation
Indices: 2422349--2422451 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 51
2422339 CATATCTTTA
* *
2422349 AATATTTAAATGTCTTATATTATTAAAAAAT-TATATTTAACACTTAAAAAAT
1 AATATTTAAAT-T-TTAAATTATTAAAAAATATATATTTAAAACTTAAAAAAT
* **
2422401 AATATTTTAAATTTTAAATTTTTTTAAAATATATATTTAAAACTTAAAAAA
1 AATA-TTTAAATTTTAAATTATTAAAAAATATATATTTAAAACTTAAAAAA
2422452 AAAAGGATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
51 13 0.30
52 24 0.55
53 7 0.16
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (51 bp):
AATATTTAAATTTTAAATTATTAAAAAATATATATTTAAAACTTAAAAAAT
Found at i:2422562 original size:7 final size:7
Alignment explanation
Indices: 2422552--2422576 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2422542 TATTTAAAAC
2422552 TAAATTT
1 TAAATTT
2422559 TAAATTT
1 TAAATTT
2422566 TAAATTT
1 TAAATTT
2422573 TAAA
1 TAAA
2422577 ATAAACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:2422705 original size:22 final size:21
Alignment explanation
Indices: 2422656--2422708 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
2422646 TTGTATTATT
2422656 AAAAATATATATTTAATATTTA
1 AAAAATA-ATATTTAATATTTA
*
2422678 ATAAATAATATTTAA-ACTTTA
1 AAAAATAATATTTAATA-TTTA
2422699 CAAAAATAAT
1 -AAAAATAAT
2422709 TTCAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 14 0.52
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATAATATTTAATATTTA
Found at i:2422854 original size:61 final size:62
Alignment explanation
Indices: 2422735--2422879 Score: 222
Period size: 62 Copynumber: 2.3 Consensus size: 62
2422725 TAAAATTAAG
* * *
2422735 AATAAAAAATAAATAAA-ATAAATAAGGATAAAGACAACATTTAAATTTTAAAATTTAAAATT
1 AATAATAAATAAATAAATA-AAATAAGGATAAAGACAAAATATAAATTTTAAAATTTAAAATT
*
2422797 AATAATAAATAAATAAATAAAATAAGGATAAAGACAAAATATATA-TTTAAAATTTAAAATT
1 AATAATAAATAAATAAATAAAATAAGGATAAAGACAAAATATAAATTTTAAAATTTAAAATT
2422858 AATAATAAATAAAATAAATAAA
1 AATAATAAAT-AAATAAATAAA
2422880 TTTAAAATAT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
61 26 0.34
62 50 0.65
63 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (62 bp):
AATAATAAATAAATAAATAAAATAAGGATAAAGACAAAATATAAATTTTAAAATTTAAAATT
Found at i:2422907 original size:61 final size:59
Alignment explanation
Indices: 2422723--2422911 Score: 174
Period size: 61 Copynumber: 3.2 Consensus size: 59
2422713 AAAATATATA
* * * *
2422723 TTTAAAA-TTAAGAATAAAAAATAAATAAAATAAATAAGGATAAAGACAACATTT-AAA--T
1 TTTAAAATTTAA-AATTAATAATAAATAAAATAAATAA-AATAAA-ATAACATTTAAAATTT
* ***
2422781 TTTAAAATTTAAAATTAATAATAAAT-AAATAAATAAAATAAGGATAA-AGACAAAATATAT
1 TTTAAAATTTAAAATTAATAATAAATAAAATAAATAAAATAA-AATAACATTTAAAAT-T-T
*
2422841 ATTTAAAATTTAAAATTAATAATAAATAAAATAAATAAATTTAAAATATACATTTAAAATTT
1 -TTTAAAATTTAAAATTAATAATAAATAAAATAAATAAA-ATAAAATA-ACATTTAAAATTT
2422903 TTTAAAATT
1 TTTAAAATT
2422912 AAGAAAAAGT
Statistics
Matches: 106, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
55 1 0.01
56 10 0.09
57 10 0.09
58 19 0.18
59 4 0.04
60 1 0.01
61 35 0.33
62 15 0.14
63 5 0.05
64 6 0.06
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (59 bp):
TTTAAAATTTAAAATTAATAATAAATAAAATAAATAAAATAAAATAACATTTAAAATTT
Found at i:2430522 original size:6 final size:6
Alignment explanation
Indices: 2430506--2430551 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
2430496 TAAGGTGAAT
*
2430506 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTTA TTTTCA -TTTTA TTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
2430552 CGAAATTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 4 0.11
6 26 0.72
7 6 0.17
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:2430595 original size:10 final size:10
Alignment explanation
Indices: 2430576--2430606 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2430566 CTGTATCTGT
*
2430576 AAATACATAA
1 AAATAAATAA
2430586 AAATAAATAA
1 AAATAAATAA
2430596 AAATAAATAA
1 AAATAAATAA
2430606 A
1 A
2430607 GAAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAAATAA
Found at i:2430603 original size:14 final size:15
Alignment explanation
Indices: 2430575--2430615 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
2430565 TCTGTATCTG
*
2430575 TAAATACATAA-AAA
1 TAAATAAATAATAAA
2430589 TAAATAAA-AATAAA
1 TAAATAAATAATAAA
*
2430603 TAAAGAAATAATA
1 TAAATAAATAATA
2430616 TTATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 17 0.74
15 4 0.17
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
TAAATAAATAATAAA
Found at i:2431288 original size:3 final size:3
Alignment explanation
Indices: 2431280--2431388 Score: 62
Period size: 3 Copynumber: 34.7 Consensus size: 3
2431270 TGAATTTCTA
* * * *
2431280 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTAAA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -T-AT TAT
* *
2431328 TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TATT TAT TA- TATT
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T
*
2431374 TAT ATAA TAT TAT TA
1 TAT -TAT TAT TAT TA
2431389 ATAGGTACTT
Statistics
Matches: 82, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
2 5 0.06
3 62 0.76
4 14 0.17
5 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:2431306 original size:19 final size:19
Alignment explanation
Indices: 2431282--2431318 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2431272 AATTTCTATA
*
2431282 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
2431301 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
2431319 TGTAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:2431680 original size:22 final size:22
Alignment explanation
Indices: 2431640--2431681 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2431630 TACATGTATA
**
2431640 TATACTCTCAATATTATATTCT
1 TATACTCTCAATACCATATTCT
*
2431662 TATACTCTTAATACCATATT
1 TATACTCTCAATACCATATT
2431682 ATTCTTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (22 bp):
TATACTCTCAATACCATATTCT
Found at i:2432098 original size:34 final size:32
Alignment explanation
Indices: 2432060--2432172 Score: 77
Period size: 34 Copynumber: 3.3 Consensus size: 32
2432050 ACATTTTTCA
2432060 ATATTTATTTTATATATATGTAAATATTATGTAT
1 ATATTT-TTTTATATATATGT-AATATTATGTAT
** * *
2432094 ATATTTTTAAATACTATATTGTACAT-GTATATAT
1 ATATTTTTTTATA-TATA-TGTA-ATATTATGTAT
* *
2432128 ATATTCTTTGTACTATATTACGT-ATATTATGTAT
1 ATATT-TTTTTA-TATA-TATGTAATATTATGTAT
2432162 ATATTTATTTT
1 ATATTT-TTTT
2432173 TACCCCTATT
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
33 8 0.13
34 36 0.59
35 13 0.21
36 4 0.07
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (32 bp):
ATATTTTTTTATATATATGTAATATTATGTAT
Done.