Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 37 of 352
Found at i:11768013 original size:23 final size:23
Alignment explanation
Indices: 11767983--11768069 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
11767973 GCTTTACTGA
* *
11767983 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
11768006 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
11768027 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
11768049 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
11768070 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:11776566 original size:3 final size:3
Alignment explanation
Indices: 11776558--11776587 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11776548 CACCCATCTC
11776558 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
11776588 GTTGTCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:11787806 original size:23 final size:22
Alignment explanation
Indices: 11787766--11787814 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
11787756 TTTACTTATA
11787766 AAATAAATGAAAAAAGATAATTC
1 AAATAAATGAAAAAAGAT-ATTC
* *
11787789 AAAT-AATGAAATAGAGATTTTC
1 AAATAAATGAAA-AAAGATATTC
11787811 AAAT
1 AAAT
11787815 TTATTTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.59, C:0.04, G:0.10, T:0.27
Consensus pattern (22 bp):
AAATAAATGAAAAAAGATATTC
Found at i:11795755 original size:33 final size:33
Alignment explanation
Indices: 11795718--11795798 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 33
11795708 CGTACAATTT
**
11795718 GAAAAGGTTAGGTATACTTTGTGTATACCATAA
1 GAAAAGGAAAGGTATACTTTGTGTATACCATAA
* *
11795751 GAAAAGGAAATGTATACTTTGTGTATACCACT-T
1 GAAAAGGAAAGGTATACTTTGTGTATACCA-TAA
11795784 GAAAAAGGAAAGGTA
1 G-AAAAGGAAAGGTA
11795799 CACTACATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 28 0.68
34 13 0.32
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (33 bp):
GAAAAGGAAAGGTATACTTTGTGTATACCATAA
Found at i:11795896 original size:66 final size:66
Alignment explanation
Indices: 11795751--11795899 Score: 174
Period size: 66 Copynumber: 2.3 Consensus size: 66
11795741 TATACCATAA
** * *
11795751 GAAAAGGAAATGTATACTTTGTGTATACCACTTGAAAAAGGAAAGGTACACTACATGTGTACACT
1 GAAAAGGAAATGTGCACTTTGTGTATACAAATTGAAAAAGGAAAGGTACACTACATGTGTACACT
11795816 T
66 T
** * * * * *
11795817 GAAAAGGTTATGTGCACTTTGTGTATACAAATTGAAAATGG-TATGTACACTTCGTGTGTACCAC
1 GAAAAGGAAATGTGCACTTTGTGTATACAAATTGAAAAAGGAAAGGTACACTACATGTGTA-CAC
11795881 TT
65 TT
*
11795883 GAAAAGGGAATGTGCAC
1 GAAAAGGAAATGTGCAC
11795900 CTCGGGTGTA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
65 15 0.22
66 54 0.78
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (66 bp):
GAAAAGGAAATGTGCACTTTGTGTATACAAATTGAAAAAGGAAAGGTACACTACATGTGTACACT
T
Found at i:11795909 original size:33 final size:33
Alignment explanation
Indices: 11795806--11795920 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
11795796 GTACACTACA
* *
11795806 TGTGTAC-ACTTGAAAAGGTTATGTGCACTTTG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* * * *
11795838 TGTATACAAATTGAAAATGGTATGTACACTTCG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* * *
11795871 TGTGTACCACTTGAAAAGGGAATGTGCACCTCG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* *
11795904 GGTGTACAACTAGAAAA
1 TGTGTACAACTTGAAAA
11795921 AGAAAGGTCC
Statistics
Matches: 66, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
32 6 0.09
33 60 0.91
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (33 bp):
TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
Found at i:11795920 original size:66 final size:65
Alignment explanation
Indices: 11795796--11795920 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 65
11795786 AAAAGGAAAG
** * * * *
11795796 GTACACTACATGTGTACACTTGAAAAGGTTATGTGCACTTTGTGTATACAAATTGAAAATGGTAT
1 GTACACTACATGTGTACACTTGAAAAGGGAATGTGCACCTCGGGTATACAAATAGAAAATGGTAT
* * * *
11795861 GTACACTTCGTGTGTACCACTTGAAAAGGGAATGTGCACCTCGGGTGTACAACTAGAAAA
1 GTACACTACATGTGTA-CACTTGAAAAGGGAATGTGCACCTCGGGTATACAAATAGAAAA
11795921 AGAAAGGTCC
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
65 14 0.29
66 35 0.71
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (65 bp):
GTACACTACATGTGTACACTTGAAAAGGGAATGTGCACCTCGGGTATACAAATAGAAAATGGTAT
Found at i:11798033 original size:22 final size:22
Alignment explanation
Indices: 11797971--11798046 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
11797961 GCATAAACGA
11797971 ACAGAGAGCACTA-AAGTGCTAT
1 ACAGAGAGCA-TAGAAGTGCTAT
* * * *
11797993 ACAAAGAGTACAGACGTGCTAT
1 ACAGAGAGCATAGAAGTGCTAT
* *
11798015 ACAGAGAGCATAGATGTGCTAA
1 ACAGAGAGCATAGAAGTGCTAT
11798037 ACAGAGAGCA
1 ACAGAGAGCA
11798047 CTTAACGTGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 1 0.02
22 43 0.98
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.16
Consensus pattern (22 bp):
ACAGAGAGCATAGAAGTGCTAT
Found at i:11799112 original size:7 final size:7
Alignment explanation
Indices: 11799102--11799197 Score: 69
Period size: 7 Copynumber: 14.3 Consensus size: 7
11799092 TACTTATGTT
11799102 TTATATA
1 TTATATA
11799109 -T-TATA
1 TTATATA
11799114 TTATATA
1 TTATATA
*
11799121 TAATATA
1 TTATATA
*
11799128 ATA-ATA
1 TTATATA
*
11799134 TAATATA
1 TTATATA
11799141 TTATATA
1 TTATATA
11799148 TTATATA
1 TTATATA
11799155 TTA-ATA
1 TTATATA
*
11799161 CTTAAATA
1 -TTATATA
11799169 TTA-AGT-
1 TTATA-TA
*
11799175 TAATATA
1 TTATATA
*
11799182 ATATATA
1 TTATATA
*
11799189 ATATATA
1 TTATATA
11799196 TT
1 TT
11799198 TTTATATCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
5 4 0.06
6 13 0.18
7 51 0.72
8 3 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
TTATATA
Found at i:11800530 original size:56 final size:55
Alignment explanation
Indices: 11800413--11800566 Score: 186
Period size: 56 Copynumber: 2.8 Consensus size: 55
11800403 GAAATAGCAC
* * *
11800413 GCCTCTCAACAGGGCTACATATGAGCAT-CCGGACCTAGCATGCATCACATTACCACA
1 GCCTCTCAACAGGGCTACATA--AGC-TCCCGGACCTAGCATGTACCACATAACCACA
* **
11800470 -CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTACA
1 GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATAACCACA
* *
11800524 TGCCTCTCAACGGGGCTACACAAGCTCCCGGACCTAGCATGTA
1 -GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTA
11800567 TCATGTCATC
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.01
54 26 0.31
56 58 0.68
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (55 bp):
GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATAACCACA
Found at i:11806894 original size:17 final size:18
Alignment explanation
Indices: 11806860--11806895 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11806850 TGAAATTCTA
11806860 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
11806878 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
11806895 T
1 T
11806896 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:11807359 original size:22 final size:20
Alignment explanation
Indices: 11807324--11807364 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
11807314 TCTTGTTTCT
11807324 TTTTAGCTTTGTTTCTTTTG
1 TTTTAGCTTTGTTTCTTTTG
11807344 TTTTATGCTTTTGTTTCTTTT
1 TTTTA-GC-TTTGTTTCTTTT
11807365 ATTTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.05, C:0.10, G:0.12, T:0.73
Consensus pattern (20 bp):
TTTTAGCTTTGTTTCTTTTG
Found at i:11808456 original size:20 final size:18
Alignment explanation
Indices: 11808431--11808470 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
11808421 TACAACACAA
11808431 TTCAATTTCACATTGAATAT
1 TTCAATTTCAC-TT-AATAT
*
11808451 TTCAATTTTACTTAATAT
1 TTCAATTTCACTTAATAT
11808469 TT
1 TT
11808471 GCTTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.53
Consensus pattern (18 bp):
TTCAATTTCACTTAATAT
Found at i:11819753 original size:93 final size:93
Alignment explanation
Indices: 11819576--11819754 Score: 216
Period size: 93 Copynumber: 1.9 Consensus size: 93
11819566 AACATATATA
* * * * * * *
11819576 TTTTTAATTTTTTTAGAATTATTATAACAATTATTATTTATTTTATTTCATTTTTGGGTATTTGG
1 TTTTTAATTTTTTTAGAATAATTACAACAATCACTATTTATTTGATTTCATTTTTGGGCACTTGG
** *
11819641 GTTTGAGTCTTATGCTACAATGTTTCTT
66 ACTTGAGTCTGATGCTACAATGTTTCTT
* *
11819669 TTTTTAATTTTTTTGGAATAATTACAATCAA-CACTATTTATTTGGTTTCATTTTTGGGCACTTG
1 TTTTTAATTTTTTTAGAATAATTACAA-CAATCACTATTTATTTGATTTCATTTTTGGGCACTTG
* *
11819733 GACTTGAGTCTGCTGTTACAAT
65 GACTTGAGTCTGATGCTACAAT
11819755 AATAATTTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
93 68 0.96
94 3 0.04
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.53
Consensus pattern (93 bp):
TTTTTAATTTTTTTAGAATAATTACAACAATCACTATTTATTTGATTTCATTTTTGGGCACTTGG
ACTTGAGTCTGATGCTACAATGTTTCTT
Found at i:11819964 original size:9 final size:9
Alignment explanation
Indices: 11819950--11819975 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11819940 TATTTTCTGG
11819950 AATAATTAC
1 AATAATTAC
11819959 AATAATTAC
1 AATAATTAC
11819968 AATAATTA
1 AATAATTA
11819976 AAATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
AATAATTAC
Found at i:11820431 original size:89 final size:89
Alignment explanation
Indices: 11819959--11820879 Score: 658
Period size: 88 Copynumber: 10.4 Consensus size: 89
11819949 GAATAATTAC
* * * * * * * *
11819959 AATAATTACAATAATTAAAATCTATTTCATTTCATTTTTGAGGCACTTGGACTTTGAGTTTGCTT
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTTGGGC-TTGAGTCTGGTG
* ** *
11820024 CTACAATATTTTTTTTATTTTATGG
65 CTACAATATATTTTTTATTTTCCGA
* * *
11820049 AATAATTATAATAA-TACTTATATATTTCATTTCATTTTTCG-GGCACTTGGGCTTGAGTCTGGC
1 AATAATTATAATAATTAC-AATTTATTTCATTTCA-TTTTCGAGGCACTTGGGCTTGAGTCTGGT
* * * * *
11820112 GTTGCAATAAATTTTTTTTAATTTTTCAA
64 GCTACAAT--ATATTTTTT-ATTTTCCGA
* * * * *
11820141 AATAATTATAAAAATTACAATTTATATCATTTCATTTTC-ATGGCACTTGGGCTTGAATATGTTG
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCGA-GGCACTTGGGCTTGAGTCTGGTG
* * *
11820205 TTGCAATA-ATTTTTCTTATTTTCTGA
65 CTACAATATA-TTTT-TTATTTTCCGA
** *
11820231 AATAATTATAATAATTACAATTTCCTTCATTTCATTTTC-AGGACACTTGGGCTTGAGTCTGATG
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGG-CACTTGGGCTTGAGTCTGGTG
* * *
11820295 AC-GCAATA-AGTTTTTATTTTTCGA
65 -CTACAATATATTTTTTATTTTCCGA
* * * *
11820319 AATAGTTATAATAATTACAATTTATTTCATTAT-ATTTTCGAGGCACTAGGGTTTGAGCCTGGTG
1 AATAATTATAATAATTACAATTTATTTCATT-TCATTTTCGAGGCACTTGGGCTTGAGTCTGGTG
11820383 CTACAATATATTTTTTATTTTCCGA
65 CTACAATATATTTTTTATTTTCCGA
* * * * *
11820408 AATAATTATAACAATTACCATTTATTTCATTCCATTTTCGAGGCACTTGGGCTTGAATTTGGTGC
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTTGGGCTTGAGTCTGGTGC
* *
11820473 TACAAGAAATTTATTTTTTAACTTTT--GG
66 TAC----AATATATTTTTT-A-TTTTCCGA
* * * * * * *
11820501 AATAATTATAATATTTAC----TA-TTGATTTCATTTTCGAGGAACATAGACTTGAGTCTGGTGT
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTTGGGCTTGAGTCTGGTGC
* * *
11820561 TGCAATA-A-ATTTT-TTTT--GG
66 TACAATATATTTTTTATTTTCCGA
* ** * * * * ***
11820580 AATAATTTTAATTGTTACTATTTATTTCATTTCATTTTTGGGGCACTTGGGCTTGATTCTGAAAC
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTTGGGCTTGAGTCTGGTGC
* *
11820645 TACAATA-ATTTTTTATTTTTCGG
66 TACAATATATTTTTTATTTTCCGA
* * * * * * *
11820668 AATAATTATAGTAGTTACCA-TTAGTTTCATTTCATTTTCGGGGCACTTGGGCTTGATTCTAGAG
1 AATAATTATAATAATTACAATTTA-TTTCATTTCATTTTCGAGGCACTTGGGCTTGAGTCTGGTG
*
11820732 CTACAATA-ATTTTATT-TTTT-AG-
65 CTACAATATATTTT-TTATTTTCCGA
* * * * * * *
11820754 AATGATTATAATAATTAC-TTTATATTTCATTTCATTTT-TAGGACATTTAGGCTTGAGTTTAGT
1 AATAATTATAATAATTACAATT-TATTTCATTTCATTTTCGAGG-CACTTGGGCTTGAGTCTGGT
* * *
11820817 GTTGCAATA-ATTTTTTATTTTCTGA
64 GCTACAATATATTTTTTATTTTCCGA
* *
11820842 AATAATTATAATAATTACTATTTATTACATTTCATTTT
1 AATAATTATAATAATTACAATTTATTTCATTTCATTTT
11820880 TGGGTCACTT
Statistics
Matches: 673, Mismatches: 117, Indels: 84
0.77 0.13 0.10
Matches are distributed among these distances:
79 21 0.03
82 4 0.01
83 3 0.00
84 38 0.06
85 8 0.01
86 65 0.10
87 8 0.01
88 201 0.30
89 102 0.15
90 109 0.16
91 21 0.03
92 57 0.08
93 31 0.05
94 1 0.00
95 4 0.01
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (89 bp):
AATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTTGGGCTTGAGTCTGGTGC
TACAATATATTTTTTATTTTCCGA
Found at i:11820575 original size:177 final size:172
Alignment explanation
Indices: 11820034--11820677 Score: 403
Period size: 177 Copynumber: 3.7 Consensus size: 172
11820024 CTACAATATT
* * * *
11820034 TTTTTTATTTTATGGAATAATTATAATAA-TACTTATATATTTCATTTCATTTTTCG-GGCACTT
1 TTTTTTATTTT-CGAAATAATTATAATAATTAC-AATTTATTTCATTTCA-TTTTCGAGGCACTT
* ** ** * * * * *
11820097 GGGCTTGAGTCTGGCGTTGCAATAAATTTTTTTTAATTTTTCAAAATAATTATAAAAATTACAAT
63 GGGCTTGAATCTGATGACGAAAT-AA--GTTTTT-ACTTTTCGAAATAATTATAATAATTACAAT
* * * * * *** * *
11820162 TTATATCATTTCATTTTC-ATGGCACTTGGGCTTGAATATGTTGTTGCAATAAT
124 TGAT-T--TCT-ATTTTCGA-GGAACTAGGACTTGAGCCTGGTGTTGCAATAAA
**
11820215 TTTTCTTATTTTCTGAAATAATTATAATAATTACAATTTCCTTCATTTCATTTTC-AGGACACTT
1 TTTT-TTATTTTC-GAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGG-CACTT
* * * * *
11820279 GGGCTTGAGTCTGATGACGCAATAAGTTTTTATTTTTCGAAATAGTTATAATAATTACAATTTAT
63 GGGCTTGAATCTGATGACGAAATAAGTTTTTACTTTTCGAAATAATTATAATAATTACAATTGAT
* ** * * *
11820344 TTCATTATATTTTCGAGGCACTAGGGTTTGAGCCTGGTGCTACAATATA
128 TTC----TATTTTCGAGGAACTAGGACTTGAGCCTGGTGTTGCAATAAA
* * *
11820393 TTTTTTATTTTCCGAAATAATTATAACAATTACCATTTATTTCATTCCATTTTCGAGGCACTTGG
1 TTTTTTATTTT-CGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTTGG
* * * * * * *
11820458 GCTTGAATTTGGTGCTACAAGAAATTTATTTTTTAACTTTT-GGAATAATTATAATATTTACTAT
65 GCTTGAATCTGATG--AC--GAAA-TAAGTTTTT-ACTTTTCGAAATAATTATAATAATTACAAT
*
11820522 TGATTTC-ATTTTCGAGGAACATA-GACTTGAGTCTGGTGTTGCAATAAA
124 TGATTTCTATTTTCGAGGAAC-TAGGACTTGAGCCTGGTGTTGCAATAAA
* * ** * * *
11820570 --TTTT-TTTT-GGAATAATTTTAATTGTTACTATTTATTTCATTTCATTTTTGGGGCACTTGGG
1 TTTTTTATTTTCGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTTGGG
* * * * * *
11820631 CTTGATTCTGA-AACTACAATAATTTTTTATTTTTCGGAATAATTATA
66 CTTGAATCTGATGACGA-AATAAGTTTTTACTTTTCGAAATAATTATA
11820678 GTAGTTACCA
Statistics
Matches: 377, Mismatches: 65, Indels: 56
0.76 0.13 0.11
Matches are distributed among these distances:
166 5 0.01
167 21 0.06
168 2 0.01
169 2 0.01
172 52 0.14
174 4 0.01
175 5 0.01
177 93 0.25
178 70 0.19
179 9 0.02
181 16 0.04
182 90 0.24
183 8 0.02
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.46
Consensus pattern (172 bp):
TTTTTTATTTTCGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTTGGG
CTTGAATCTGATGACGAAATAAGTTTTTACTTTTCGAAATAATTATAATAATTACAATTGATTTC
TATTTTCGAGGAACTAGGACTTGAGCCTGGTGTTGCAATAAA
Found at i:11821364 original size:22 final size:21
Alignment explanation
Indices: 11821326--11821374 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
11821316 TTAACGAATT
* *
11821326 AATTTTTAAAAAGAAAACAAG
1 AATTTTTAAAAACAAAACAAA
* *
11821347 AATTTTTAAAACCCAAAATAAA
1 AATTTTTAAAA-ACAAAACAAA
11821369 AATTTT
1 AATTTT
11821375 CATTATTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (21 bp):
AATTTTTAAAAACAAAACAAA
Found at i:11821914 original size:21 final size:21
Alignment explanation
Indices: 11821890--11821930 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11821880 AAAAATGATA
*
11821890 TAATTTTA-TTAATTATTAATT
1 TAATATTACTTAA-TATTAATT
11821911 TAATATTACTTAATATTAAT
1 TAATATTACTTAATATTAAT
11821931 ATGTTAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTACTTAATATTAATT
Found at i:11822892 original size:28 final size:28
Alignment explanation
Indices: 11822860--11822914 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
11822850 AACGTTGATG
11822860 ATATT-TTATAAT-TATTTAATTAAGATAA
1 ATATTATTATAATAT-TTTAA-TAAGATAA
*
11822888 ATATTATTTTAATATTTTAATAAGATA
1 ATATTATTATAATATTTTAATAAGATA
11822915 TTTTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 12 0.50
29 11 0.46
30 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
ATATTATTATAATATTTTAATAAGATAA
Found at i:11822939 original size:11 final size:10
Alignment explanation
Indices: 11822917--11822950 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
11822907 ATAAGATATT
11822917 TTATTATTTA
1 TTATTATTTA
11822927 TTATTATTTTA
1 TTATTA-TTTA
11822938 TTATTAATTTA
1 TTATT-ATTTA
11822949 TT
1 TT
11822951 TAATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 15 0.68
12 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATTTA
Found at i:11824699 original size:40 final size:40
Alignment explanation
Indices: 11824586--11824723 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 40
11824576 ATCGAGAATA
* **
11824586 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAAT-ATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
*
11824625 CCAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 -TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
* *
11824666 TAAAGT-GACTAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGA-TAGGATTTGTTCCTGATTCACTATGGTAATT
* *
11824706 TAAGGCGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
11824724 ACCTGAAAAG
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.02
40 78 0.92
41 5 0.06
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
Found at i:11824779 original size:79 final size:79
Alignment explanation
Indices: 11824688--11824919 Score: 315
Period size: 79 Copynumber: 2.9 Consensus size: 79
11824678 GATTTATTCC
* * *
11824688 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGGTAGTCCTGATTCGCTAC
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
* *
11824753 GGTTACATGATATA
66 GGTTACATAATACA
*
11824767 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
*
11824832 GGTTACAAAATACA
66 GGTTACATAATACA
* ** * * *
11824846 TGATTTC-TTATGATAACTTAATATGGGTAGGATTTGACCTGAAAA-GGTAATCCTAATTCACTA
1 TGA-TTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTA
*
11824909 CAGTTACATAA
65 CGGTTACATAA
11824920 GATGTGATTC
Statistics
Matches: 136, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
78 25 0.18
79 108 0.79
80 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (79 bp):
TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
GGTTACATAATACA
Found at i:11842536 original size:31 final size:31
Alignment explanation
Indices: 11842498--11842558 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
11842488 AGATGGCTCC
*
11842498 CAGGGATGATTTTCTTCCCAACCTTGTCTCT
1 CAGGGATGATTTTCTTCCCAACCTTATCTCT
11842529 CAGGGATGATTTTCTTCCCAACCTTATCTC
1 CAGGGATGATTTTCTTCCCAACCTTATCTC
11842559 AATTTCTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.30, G:0.15, T:0.38
Consensus pattern (31 bp):
CAGGGATGATTTTCTTCCCAACCTTATCTCT
Found at i:11845159 original size:49 final size:47
Alignment explanation
Indices: 11845050--11845182 Score: 169
Period size: 49 Copynumber: 2.8 Consensus size: 47
11845040 ATGCCGACGT
*
11845050 CATGTTCCAAACATGGTCTTACACTAGCTCTCACATCTAAGTCGATGC
1 CATGTTCCAGACA-GGTCTTACACTAGCTCTCACATCTAAGTCGATGC
* **
11845098 CATGTTCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGC
1 CATGTTCCAGACAGGTCTTACACTAGCTCTCAC--ATCTAAGTCGATGC
* *
11845147 CATG-TCTCAGACAGGTCTTACACTAGCACACACATC
1 CATGTTC-CAGACAGGTCTTACACTAGCTCTCACATC
11845183 ACCCAAATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
47 22 0.29
48 14 0.19
49 39 0.52
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (47 bp):
CATGTTCCAGACAGGTCTTACACTAGCTCTCACATCTAAGTCGATGC
Found at i:11855359 original size:200 final size:200
Alignment explanation
Indices: 11855016--11855400 Score: 682
Period size: 200 Copynumber: 1.9 Consensus size: 200
11855006 ACCCCAAATA
11855016 AAGTTTCATACCATTCATTCGATCTCCTCACAAATCCCTTGCGAAATTATCATTAGATTACATGA
1 AAGTTTCATACCATTCATTCGATCTCCTCACAAATCCCTTGCGAAATTATCATTAGATTACATGA
*
11855081 AGTAGATGGGAACCTAAAAAAGGACCATTTGAGCTAAAGTAACTTTTCCTAATAAAGATAATTAT
66 AGTAGATGGAAACCTAAAAAAGGACCATTTGAGCTAAAGTAACTTTTCCTAATAAAGATAATTAT
* *
11855146 TATAACAACTCGTTTTCAATGGTGTCGAAAATAATAGTTTCAAGACCACAATTCCAACATGTGAG
131 TATAACAACTCGTTTTCAATGCTGTCAAAAATAATAGTTTCAAGACCACAATTCCAACATGTGAG
11855211 TCCGT
196 TCCGT
*
11855216 AAGTTTCGTACCATTCATTCGATCTCCTCACAAATCCCTTGCGAAATTATCATTAGATTACATGA
1 AAGTTTCATACCATTCATTCGATCTCCTCACAAATCCCTTGCGAAATTATCATTAGATTACATGA
*
11855281 AGTAGATGGAAACCTAAAGAAGGACCGA-TTGAGCTAAAGTAACTTTTCCTAATAAAGATAATTA
66 AGTAGATGGAAACCTAAAAAAGGACC-ATTTGAGCTAAAGTAACTTTTCCTAATAAAGATAATTA
* * *
11855345 TTGTAACAACTCGTTTTCAATGCTGTCAAAAATAGTAGTTTCAAGACCATAATTCC
130 TTATAACAACTCGTTTTCAATGCTGTCAAAAATAATAGTTTCAAGACCACAATTCC
11855401 GATGTGTAAG
Statistics
Matches: 176, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
200 175 0.99
201 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (200 bp):
AAGTTTCATACCATTCATTCGATCTCCTCACAAATCCCTTGCGAAATTATCATTAGATTACATGA
AGTAGATGGAAACCTAAAAAAGGACCATTTGAGCTAAAGTAACTTTTCCTAATAAAGATAATTAT
TATAACAACTCGTTTTCAATGCTGTCAAAAATAATAGTTTCAAGACCACAATTCCAACATGTGAG
TCCGT
Found at i:11856990 original size:19 final size:19
Alignment explanation
Indices: 11856956--11856993 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11856946 GTAGACCTAG
**
11856956 AAAAAGAAAATTAAAAAAT
1 AAAAAGAAAAGAAAAAAAT
11856975 AAAAAGAAAAGAAAAAAAT
1 AAAAAGAAAAGAAAAAAAT
11856994 GTATAATAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAAAAT
Found at i:11869185 original size:68 final size:69
Alignment explanation
Indices: 11869057--11869193 Score: 222
Period size: 68 Copynumber: 2.0 Consensus size: 69
11869047 CTTGCAAAAA
* *
11869057 TGTGAAAAACTAGATAGGCAAAATAAGTACAAGCAATAATGCAAATTAGGTTTCCCGAGATATAG
1 TGTGAAAAACTAGATAGGCAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCGAGATATAG
11869122 ACAT
66 ACAT
* * *
11869126 TGTGAAAAACTAGATAGGCAAAAT-AGTAAAAGCAATGATACAAATTTGGTTTCCTGAGATATAG
1 TGTGAAAAACTAGATAGGCAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCGAGATATAG
11869190 ACAT
66 ACAT
11869194 GAAGAAAGGA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
68 39 0.62
69 24 0.38
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.25
Consensus pattern (69 bp):
TGTGAAAAACTAGATAGGCAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCGAGATATAG
ACAT
Found at i:11871365 original size:15 final size:15
Alignment explanation
Indices: 11871345--11871373 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11871335 GGAACCCAAA
11871345 TAATCATAAATTATG
1 TAATCATAAATTATG
11871360 TAATCATAAATTAT
1 TAATCATAAATTAT
11871374 CTAAAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATCATAAATTATG
Found at i:11878654 original size:13 final size:13
Alignment explanation
Indices: 11878638--11878703 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
11878628 TTTAAATTAA
11878638 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
11878651 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
11878664 ATTTTTTC-ACAGC
1 A-CTTTTCAAAAGC
*
11878677 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
11878690 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
11878703 A
1 A
11878704 TTGTCAAACT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
12 5 0.12
13 31 0.77
14 4 0.10
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:11878669 original size:26 final size:27
Alignment explanation
Indices: 11878640--11878711 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 27
11878630 TAAATTAAAC
*
11878640 TTTTCAAAAGCACTTCTCAAAAGTATT
1 TTTTCAAAAGCACTTCTCAAAAGTACT
* *
11878667 TTTTC-ACAGCACTTTTCAAAAGTACT
1 TTTTCAAAAGCACTTCTCAAAAGTACT
*
11878693 TTTT-AAAAGCA-TTGTCAAA
1 TTTTCAAAAGCACTTCTCAAA
11878712 CTAACCCTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 7 0.18
26 27 0.69
27 5 0.13
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (27 bp):
TTTTCAAAAGCACTTCTCAAAAGTACT
Found at i:11878846 original size:26 final size:26
Alignment explanation
Indices: 11878797--11878847 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
11878787 GTTCTTTTCT
* *
11878797 AATTCTATTTTCATTTTTAGAAAATA
1 AATTCTATTTTCATTTTAAAAAAATA
* *
11878823 AATTTTATTTTTATTTTAAAAAAAT
1 AATTCTATTTTCATTTTAAAAAAAT
11878848 TTAAAATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (26 bp):
AATTCTATTTTCATTTTAAAAAAATA
Found at i:11880430 original size:13 final size:13
Alignment explanation
Indices: 11880403--11880479 Score: 84
Period size: 13 Copynumber: 5.9 Consensus size: 13
11880393 ACACTTAAAT
* *
11880403 TTTTCCAAAGCAC
1 TTTTCAAAAGTAC
*
11880416 TTCTCAAAAGTAC
1 TTTTCAAAAGTAC
*
11880429 TTATCAAAAGTAC
1 TTTTCAAAAGTAC
* *
11880442 TTTTTC-ACAGCAC
1 -TTTTCAAAAGTAC
11880455 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
11880468 TTTTCAAAAGTA
1 TTTTCAAAAGTA
11880480 ATGAAGAACT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
12 5 0.09
13 44 0.83
14 4 0.08
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:11880462 original size:39 final size:40
Alignment explanation
Indices: 11880402--11880479 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 40
11880392 AACACTTAAA
11880402 TTTTTCCAAAGCACTTCTCAAAAGTACTTATCAAAAGTAC
1 TTTTTCCAAAGCACTTCTCAAAAGTACTTATCAAAAGTAC
* * *
11880442 TTTTT-CACAGCACTTTTCAAAAGTACTTTTCAAAAGTA
1 TTTTTCCAAAGCACTTCTCAAAAGTACTTATCAAAAGTA
11880480 ATGAAGAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 30 0.86
40 5 0.14
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (40 bp):
TTTTTCCAAAGCACTTCTCAAAAGTACTTATCAAAAGTAC
Found at i:11881474 original size:3 final size:3
Alignment explanation
Indices: 11881468--11881494 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11881458 ATTAGAGAGA
11881468 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
11881495 AGGGTGAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:11885611 original size:46 final size:46
Alignment explanation
Indices: 11885559--11885786 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
11885549 AGTGTGCTCT
*
11885559 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11885605 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11885651 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
11885697 GTGATATGAAATGAACAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * *
11885743 ATGACA-GAAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
11885787 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:11887484 original size:19 final size:19
Alignment explanation
Indices: 11887460--11887501 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
11887450 TTACGCTTAG
11887460 TAAGTTCATATGAAAATAA
1 TAAGTTCATATGAAAATAA
11887479 TAAGTTCATATGAAAATAA
1 TAAGTTCATATGAAAATAA
11887498 TAAG
1 TAAG
11887502 CAATTACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (19 bp):
TAAGTTCATATGAAAATAA
Found at i:11888411 original size:51 final size:49
Alignment explanation
Indices: 11888346--11888491 Score: 184
Period size: 49 Copynumber: 2.9 Consensus size: 49
11888336 TAGCCGAAGC
* * *
11888346 TATCTGGTACGCATAGTAGCCTGCACTTATTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
11888397 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
11888446 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACCCGTGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
11888492 TCACAATAGT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 42 0.51
50 1 0.01
51 39 0.48
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:11888474 original size:49 final size:51
Alignment explanation
Indices: 11888346--11888483 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 51
11888336 TAGCCGAAGC
* * * * *
11888346 TATCTGGTACGCATAGTAGCCTGCACTTATTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAAT
* * * *
11888397 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAAT
*
11888446 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACAC
11888484 CCGTGACCTC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 37 0.48
50 1 0.01
51 39 0.51
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (51 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAAT
Found at i:11894993 original size:15 final size:15
Alignment explanation
Indices: 11894973--11895007 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
11894963 TCATTAATAA
11894973 TTTAAACTTGTAAAT
1 TTTAAACTTGTAAAT
11894988 TTTAAACTTGTAAAT
1 TTTAAACTTGTAAAT
11895003 TTTAA
1 TTTAA
11895008 CCCCTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (15 bp):
TTTAAACTTGTAAAT
Found at i:11897264 original size:31 final size:31
Alignment explanation
Indices: 11897229--11897287 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
11897219 AAATCCAATG
11897229 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
1 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
* *
11897260 ACTTAAGTAAAAACTTTCGAATAGTTCA
1 ACTTAAATAAAAACTTTCAAATAGTTCA
11897288 ATGATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAGTTCAGTA
Found at i:11898046 original size:24 final size:23
Alignment explanation
Indices: 11898003--11898050 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
11897993 ATTAAAAATT
* * *
11898003 TTATCATATTTATTATAATTTAAA
1 TTATCATAGTTA-TAAAAATTAAA
11898027 TTATCATAGTTATAAAAATTAAA
1 TTATCATAGTTATAAAAATTAAA
11898050 T
1 T
11898051 ATTCATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
TTATCATAGTTATAAAAATTAAA
Found at i:11904761 original size:12 final size:12
Alignment explanation
Indices: 11904744--11904769 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11904734 ATTAATTAAA
11904744 AGTAAAATATTT
1 AGTAAAATATTT
11904756 AGTAAAATATTT
1 AGTAAAATATTT
11904768 AG
1 AG
11904770 ACAGATTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (12 bp):
AGTAAAATATTT
Found at i:11914763 original size:15 final size:15
Alignment explanation
Indices: 11914743--11914773 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11914733 GTCATGTAAG
11914743 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
11914758 TGAAAGGTCTAGAGT
1 TGAAAGGTCAAGAGT
11914773 T
1 T
11914774 ATATTGTTTT
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:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:11914964 original size:17 final size:17
Alignment explanation
Indices: 11914931--11914970 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
11914921 TAAGCTTTTG
11914931 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
11914948 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
11914965 ATTTTA
1 ATTTTA
11914971 CACAATTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 6 0.29
18 9 0.43
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:11915735 original size:15 final size:15
Alignment explanation
Indices: 11915711--11915740 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11915701 TGGAGATCGA
*
11915711 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
11915726 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
11915741 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:11919322 original size:17 final size:17
Alignment explanation
Indices: 11919289--11919328 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
11919279 TAAGCTTTTG
11919289 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
11919306 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
11919323 ATTTTA
1 ATTTTA
11919329 CACACCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 6 0.29
18 9 0.43
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:11928689 original size:41 final size:41
Alignment explanation
Indices: 11928629--11929003 Score: 590
Period size: 41 Copynumber: 9.1 Consensus size: 41
11928619 AAAAAAATTG
*
11928629 TAAAACAT-AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAA-ATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
11928670 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
11928711 TAAAAATAAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGC
1 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
11928752 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAGCGCCGC
1 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * * *
11928793 TAAAAATCAGAGTATTTGGGGCGCTTTTGGTAAAACGCCGC
1 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
11928834 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
** *
11928875 TAAAAATCGGAGCATTAGCGGCGCTTTTGGTAAAGCGCCGC
1 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
** * * * *
11928916 TAAAAATCGGAGTATTTGGGGTGCTTTTGGTAAAACGCCGC
1 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
11928957 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
11928998 TAAAAA
1 TAAAAA
11929004 GTTTAGGATT
Statistics
Matches: 306, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 2 0.01
41 304 0.99
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (41 bp):
TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:11934623 original size:31 final size:31
Alignment explanation
Indices: 11934577--11934643 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
11934567 TGATTATATT
* *
11934577 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
11934608 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
11934639 TTTTA
1 TTTTA
11934644 ATGCAGGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:11934784 original size:43 final size:43
Alignment explanation
Indices: 11934719--11935054 Score: 523
Period size: 43 Copynumber: 7.8 Consensus size: 43
11934709 GTAAAAAAAG
* * *
11934719 CGCCGCTAAAAGCCTTGACCTTTAGAGGCGCTTTTCCCCCAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
11934762 CGCTGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTATCC-CAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTA-CCACAAA
*
11934805 CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
** *
11934848 CGTTGCTAAAAGCCTTGACCTTTAGCGACGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
* *
11934891 CGCTGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
* *
11934934 CGCCGCTAAAAGCCTTGACCTTTAGTGGCACTTTT-CTCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTAC-CACAAA
11934977 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
11935020 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
11935055 TCCCAATAAA
Statistics
Matches: 270, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
42 3 0.01
43 264 0.98
44 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
Found at i:11939658 original size:51 final size:51
Alignment explanation
Indices: 11939603--11939707 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
11939593 GACAGCCACT
*
11939603 TGGTCAAGAAGAAGCCGTCATGATGAGGCCTCCATGTCCTTACTTATGTCA
1 TGGTCAAGAAGAAGCCGTCATGATGAAGCCTCCATGTCCTTACTTATGTCA
11939654 TGGTCAAGAAGAAGCCGTCATGATGAAGCCTCCATGTCCTTACTTATGTCA
1 TGGTCAAGAAGAAGCCGTCATGATGAAGCCTCCATGTCCTTACTTATGTCA
11939705 TGG
1 TGG
11939708 GTTGTGTATG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (51 bp):
TGGTCAAGAAGAAGCCGTCATGATGAAGCCTCCATGTCCTTACTTATGTCA
Found at i:11941264 original size:21 final size:21
Alignment explanation
Indices: 11941224--11941262 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11941214 AATTTAGTTC
*
11941224 TTTTTTATTTAATATTAAATT
1 TTTTTTATTTAATATAAAATT
11941245 TTTTTTATTTAAT-TAAAA
1 TTTTTTATTTAATATAAAA
11941263 ATAACACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTATTTAATATAAAATT
Found at i:11944834 original size:17 final size:17
Alignment explanation
Indices: 11944814--11944848 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11944804 TTATATTTTA
*
11944814 AAAAATCCTAAAAAAAT
1 AAAAATCATAAAAAAAT
*
11944831 AAAAATTATAAAAAAAT
1 AAAAATCATAAAAAAAT
11944848 A
1 A
11944849 TAATTGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATCATAAAAAAAT
Found at i:11946584 original size:12 final size:13
Alignment explanation
Indices: 11946558--11946591 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
11946548 ATGCATCCAA
11946558 ATAATTAATAAAT
1 ATAATTAATAAAT
11946571 ATAATTAA-AAAT
1 ATAATTAATAAAT
11946583 ATAATTAAT
1 ATAATTAAT
11946592 TTGACTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATTAATAAAT
Found at i:11948357 original size:31 final size:31
Alignment explanation
Indices: 11948320--11948526 Score: 285
Period size: 31 Copynumber: 6.7 Consensus size: 31
11948310 TTTGTACAAT
*
11948320 GTGAAAAGCGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
11948351 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
11948382 GTGAAAAGTGGTAGCTTCGGTTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
11948413 GTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
11948444 GTGAAAAGTGGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
11948475 GTGAATAGTGTTAGCTTCGGCTATC-GA--A
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
11948503 TGTGAAAAGAGATAGCTTCGGCTA
1 -GTGAAAAGTGGTAGCTTCGGCTA
11948527 TCGAATGTGA
Statistics
Matches: 158, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
28 1 0.01
29 20 0.13
30 2 0.01
31 135 0.85
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:11948570 original size:29 final size:29
Alignment explanation
Indices: 11948486--11948570 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
11948476 TGAATAGTGT
*
11948486 TAGCTTCGGCTATCGAATGTGAAAAGAGA
1 TAGCTTCGGCTATCGAATGTGAAAAGGGA
11948515 TAGCTTCGGCTATCGAATGTGAAAAGGGA
1 TAGCTTCGGCTATCGAATGTGAAAAGGGA
* *
11948544 TAGCTTTGGCCATCGAATGTGAAAAGG
1 TAGCTTCGGCTATCGAATGTGAAAAGG
11948571 TTAGGTATAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (29 bp):
TAGCTTCGGCTATCGAATGTGAAAAGGGA
Found at i:11948637 original size:32 final size:32
Alignment explanation
Indices: 11948563--11948667 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
11948553 CCATCGAATG
* * * *
11948563 TGAAAAGGTTAGGTATACTTTGTGTATATCACA
1 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT
11948596 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
11948628 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
11948660 TGAAAAGG
1 TGAAAAGG
11948668 AAAGGTATAC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
32 43 0.63
33 25 0.37
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (32 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACT
Found at i:11948756 original size:33 final size:33
Alignment explanation
Indices: 11948563--11948756 Score: 207
Period size: 33 Copynumber: 5.9 Consensus size: 33
11948553 CCATCGAATG
** * *
11948563 TGAAAAGGTTAGGTATACTTTGTGTATATCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
** * * *
11948596 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA-TA
** * * *
11948628 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA-TA
11948660 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
11948693 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
*
11948726 TGAAAAGGAAAGGTATACTTTGTGTGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA
11948757 CTCAGAAAGA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
32 58 0.39
33 90 0.61
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:11948785 original size:130 final size:131
Alignment explanation
Indices: 11948563--11948804 Score: 292
Period size: 130 Copynumber: 1.9 Consensus size: 131
11948553 CCATCGAATG
** * ** *
11948563 TGAAAAGGTTAGGTATACTTTGTGTATATCACATGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAGGTACACTTTGTGTGTACACT
* ** * * * * * *
11948628 TGAAAAGGTTATGTACACTTTGTGTGTACACTT-GAAAAGGAAAGGTATACTTTGTGTATACCAT
66 AGAAAAGGAAACGTACACCTCGAGTGTACAATTGGAAAAGAAAAGGTATACTTTGTGTATACCAT
11948692 A
131 A
* *
11948693 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTGTACCAC
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAGGTACACTTTGTGTGTA-CAC
11948758 TCAG-AAA-GAAACGTACACCTCGAGTGTACAATTGGAAAAGAAAAGGT
65 T-AGAAAAGGAAACGTACACCTCGAGTGTACAATTGGAAAAGAAAAGGT
11948805 CCATCAGAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
130 72 0.78
131 19 0.21
132 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (131 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAGGTACACTTTGTGTGTACACT
AGAAAAGGAAACGTACACCTCGAGTGTACAATTGGAAAAGAAAAGGTATACTTTGTGTATACCAT
A
Found at i:11953245 original size:11 final size:11
Alignment explanation
Indices: 11953229--11953254 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11953219 ATACAAATAG
11953229 AAAACTGAATT
1 AAAACTGAATT
11953240 AAAACTGAATT
1 AAAACTGAATT
11953251 AAAA
1 AAAA
11953255 TAAGAGGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (11 bp):
AAAACTGAATT
Found at i:11956858 original size:3 final size:3
Alignment explanation
Indices: 11956844--11956927 Score: 54
Period size: 3 Copynumber: 29.0 Consensus size: 3
11956834 ATATATAAGT
* *
11956844 TAA TAA TGA TAA TAA TAA TAA -AA GAA T-A TAA -AA -AA T-A TAA CTTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA
* * *
11956889 TAA TAT TAA AAA TAA -AA TAA TAGG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
11956928 GGGTAAATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
2 12 0.19
3 47 0.73
4 2 0.03
5 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:11957118 original size:10 final size:10
Alignment explanation
Indices: 11957103--11957134 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
11957093 ATATATACAA
11957103 AAATAATAAT
1 AAATAATAAT
11957113 AAATAATAAT
1 AAATAATAAT
11957123 AATATAATAAT
1 AA-ATAATAAT
11957134 A
1 A
11957135 TTAAAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATAATAAT
Found at i:11957142 original size:8 final size:8
Alignment explanation
Indices: 11957031--11957135 Score: 51
Period size: 8 Copynumber: 13.0 Consensus size: 8
11957021 TAATGATAGC
11957031 AATAATAAT
1 AATAAT-AT
*
11957040 ACTAATAT
1 AATAATAT
*
11957048 AATAAATGT
1 AAT-AATAT
* *
11957057 AATAGTGGT
1 AATAAT-AT
11957066 AATAATAT
1 AATAATAT
11957074 AATAATGAT
1 AATAAT-AT
*
11957083 AGCATGA-AT
1 A--ATAATAT
11957092 AAT-ATAT
1 AATAATAT
*
11957099 ACA-AAAAT
1 A-ATAATAT
11957107 AATAATA-
1 AATAATAT
11957114 AAT-A-AT
1 AATAATAT
11957120 AATAATAT
1 AATAATAT
11957128 AATAATAT
1 AATAATAT
11957136 TAAAATACAA
Statistics
Matches: 75, Mismatches: 9, Indels: 25
0.69 0.08 0.23
Matches are distributed among these distances:
5 1 0.01
6 5 0.07
7 10 0.13
8 31 0.41
9 25 0.33
11 3 0.04
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (8 bp):
AATAATAT
Found at i:11957175 original size:14 final size:14
Alignment explanation
Indices: 11957110--11957175 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
11957100 CAAAAATAAT
*
11957110 AATAAATAATAATAA
1 AATAAA-AATATTAA
* *
11957125 TATAATAATATTAA
1 AATAAAAATATTAA
* *
11957139 AATACAAAAGCTACTAT
1 AATA-AAAA--TATTAA
11957156 AATAAAAATATTAA
1 AATAAAAATATTAA
11957170 AATAAA
1 AATAAA
11957176 GTAATAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
14 20 0.51
15 7 0.18
16 4 0.10
17 8 0.21
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (14 bp):
AATAAAAATATTAA
Found at i:11957234 original size:3 final size:3
Alignment explanation
Indices: 11957222--11957277 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
11957212 AAATATACAC
* * * * *
11957222 TAA T-A TAA TAA TAA TAA TAA CAA TAC TAG CAA TAA TAA TAA TTAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
11957267 TAA TAA TAA TA
1 TAA TAA TAA TA
11957278 TATACACAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:11957411 original size:22 final size:22
Alignment explanation
Indices: 11957269--11957427 Score: 89
Period size: 22 Copynumber: 7.0 Consensus size: 22
11957259 ATAATTAGTA
* *
11957269 ATAATAATATATACACAATATGGT
1 ATAA-AATATATACATAATAT-AT
*
11957293 ATTAAATATAT--ATAATAGTAT
1 ATAAAATATATACATAATA-TAT
* *
11957314 TTAAGAATATATACATAAGATGAT
1 ATAA-AATATATACATAATAT-AT
* *
11957338 ATAAAGTACATACATGGAATAGTAT
1 ATAAAATATATACAT--AATA-TAT
*
11957363 A-AGAAATATATA-ACTAATGACAT
1 ATA-AAATATATACA-TAAT-ATAT
11957386 -TAAAATATATACATAATATAT
1 ATAAAATATATACATAATATAT
*
11957407 ATAAAATACAT--ATAATATAT
1 ATAAAATATATACATAATATAT
11957427 A
1 A
11957428 CACATATTAG
Statistics
Matches: 106, Mismatches: 15, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
20 10 0.09
21 11 0.10
22 30 0.28
23 24 0.23
24 16 0.15
25 14 0.13
26 1 0.01
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (22 bp):
ATAAAATATATACATAATATAT
Found at i:11957427 original size:33 final size:34
Alignment explanation
Indices: 11957368--11957433 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 34
11957358 AGTATAAGAA
*
11957368 ATATATAACTAATGACATTAAAATATATACATAAT
1 ATATATAAC-AATGACATTAAAATATACACATAAT
*
11957403 ATATATAA-AAT-ACATATAATATATACACATA
1 ATATATAACAATGACAT-TAAAATATACACATA
11957434 TTAGAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.14
33 16 0.57
35 8 0.29
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (34 bp):
ATATATAACAATGACATTAAAATATACACATAAT
Found at i:11957609 original size:14 final size:14
Alignment explanation
Indices: 11957586--11957620 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
11957576 AAATATAGCT
11957586 AAAT-ATAATATAA
1 AAATAATAATATAA
*
11957599 TAATAATAATATAA
1 AAATAATAATATAA
11957613 AAATAATA
1 AAATAATA
11957621 GTGATAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATAATAATATAA
Found at i:11960970 original size:29 final size:29
Alignment explanation
Indices: 11960938--11960999 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
11960928 AAAATAGTAT
11960938 ATATTATTT-TATTT-ATATGATATTTTATC
1 ATATTATTTATATTTCAT-T-ATATTTTATC
*
11960967 ATATTATTTATATTTCATTATATTTTATT
1 ATATTATTTATATTTCATTATATTTTATC
11960996 ATAT
1 ATAT
11961000 ATTATTCCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 22 0.73
30 6 0.20
31 2 0.07
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (29 bp):
ATATTATTTATATTTCATTATATTTTATC
Found at i:11961004 original size:10 final size:10
Alignment explanation
Indices: 11960935--11961005 Score: 60
Period size: 10 Copynumber: 7.1 Consensus size: 10
11960925 AAAAAAATAG
11960935 TATATATTAT
1 TATATATTAT
*
11960945 TTTAT-TTA-
1 TATATATTAT
11960953 TATGATATT-T
1 TAT-ATATTAT
11960963 TATCATATTAT
1 TAT-ATATTAT
11960974 T-TATATTTCAT
1 TATATA-TT-AT
*
11960985 TATATTTTAT
1 TATATATTAT
11960995 TATATATTAT
1 TATATATTAT
11961005 T
1 T
11961006 CCCTATATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
8 2 0.04
9 8 0.16
10 29 0.59
11 7 0.14
12 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (10 bp):
TATATATTAT
Found at i:11961037 original size:7 final size:7
Alignment explanation
Indices: 11961023--11961058 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
11961013 TTATCTTCCT
11961023 TTTATTA
1 TTTATTA
*
11961030 TATATTA
1 TTTATTA
11961037 TTTCATTA
1 TTT-ATTA
11961045 TTTATTA
1 TTTATTA
11961052 TTTATTA
1 TTTATTA
11961059 GTATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:11963440 original size:18 final size:17
Alignment explanation
Indices: 11963399--11963445 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
11963389 TTACAAGCCC
* *
11963399 AAACCATAGGCCCAAAT
1 AAACCCTAGACCCAAAT
*
11963416 TAACCCTAGACCCAAACT
1 AAACCCTAGACCCAAA-T
11963434 AAACCCTA-ACCC
1 AAACCCTAGACCC
11963446 TCAATAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.43, C:0.38, G:0.06, T:0.13
Consensus pattern (17 bp):
AAACCCTAGACCCAAAT
Found at i:11967318 original size:52 final size:54
Alignment explanation
Indices: 11967217--11967324 Score: 193
Period size: 52 Copynumber: 2.0 Consensus size: 54
11967207 TTATTTTCTC
*
11967217 CTAGTTTCTTTTTTAATATAATTTTTTTATTTTATAACTATTAAATCAGTTAAA
1 CTAGTTTCTTTTTTAATATAATTTTTTTATTTTATAACCATTAAATCAGTTAAA
11967271 CTAGTTTCTTTTTTAATATAA-TTTTTT-TTTTATAACCATTAAATCAGTTAAA
1 CTAGTTTCTTTTTTAATATAATTTTTTTATTTTATAACCATTAAATCAGTTAAA
11967323 CT
1 CT
11967325 GAAAATTCTA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 26 0.49
53 6 0.11
54 21 0.40
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (54 bp):
CTAGTTTCTTTTTTAATATAATTTTTTTATTTTATAACCATTAAATCAGTTAAA
Found at i:11976115 original size:6 final size:6
Alignment explanation
Indices: 11976104--11976134 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
11976094 GGGAACGGAA
11976104 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG G
1 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG G
11976135 CTAGCTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GTTAGG
Found at i:11976686 original size:7 final size:7
Alignment explanation
Indices: 11976668--11976699 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
11976658 CAATATAAAT
11976668 TTAA-AA
1 TTAATAA
11976674 TT-ATAA
1 TTAATAA
11976680 TTAATAA
1 TTAATAA
11976687 TTAATAA
1 TTAATAA
11976694 TTAATA
1 TTAATA
11976700 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 1 0.04
6 6 0.25
7 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAATAA
Found at i:11986832 original size:21 final size:19
Alignment explanation
Indices: 11986806--11986852 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
11986796 CTTTTTTAAA
*
11986806 ATAATATTAGTTTTAATATAT
1 ATAATATTAATTTT--TATAT
*
11986827 ATAATAATAATTTTTATAT
1 ATAATATTAATTTTTATAT
11986846 -TAATATT
1 ATAATATT
11986853 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 6 0.26
19 5 0.22
21 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATAATATTAATTTTTATAT
Found at i:11987608 original size:22 final size:21
Alignment explanation
Indices: 11987574--11987625 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
11987564 CTTTTTAACT
*
11987574 TTTTTTAACTTTT-TTGACTTTA
1 TTTTTTATCTTTTGTT-A-TTTA
*
11987596 TTTTTTATGTTTTGTTATTTA
1 TTTTTTATCTTTTGTTATTTA
11987617 TTTATTTAT
1 TTT-TTTAT
11987626 TATTATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 7 0.27
22 17 0.65
23 2 0.08
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (21 bp):
TTTTTTATCTTTTGTTATTTA
Found at i:11987730 original size:21 final size:21
Alignment explanation
Indices: 11987699--11987766 Score: 93
Period size: 21 Copynumber: 3.1 Consensus size: 21
11987689 ATATTTTGAA
11987699 ATTACTTTTTTAAATATTAAAT
1 ATTA-TTTTTTAAATATTAAAT
11987721 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
*
11987742 A-TATTTTTTAATAATATAAAAT
1 ATTATTTTTT-A-AATATTAAAT
11987764 ATT
1 ATT
11987767 TAAATATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
20 8 0.19
21 19 0.45
22 14 0.33
23 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:11987767 original size:20 final size:20
Alignment explanation
Indices: 11987657--11987752 Score: 96
Period size: 21 Copynumber: 5.0 Consensus size: 20
11987647 TAGAATATTT
11987657 TATTAATATATATTTTTCTAAA
1 TATTAA-ATATATTTTT-TAAA
* *
11987679 TATTAAATATATATTTTGAA
1 TATTAAATATATTTTTTAAA
*
11987699 -A-T---TA-CTTTTTTAAA
1 TATTAAATATATTTTTTAAA
11987713 TATTAAATATTATTTTTTAAA
1 TATTAAATA-TATTTTTTAAA
11987734 TATTAAATATATTTTTTAA
1 TATTAAATATATTTTTTAA
11987753 TAATATAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
14 7 0.11
15 3 0.05
16 1 0.02
18 1 0.02
19 3 0.05
20 13 0.21
21 27 0.44
22 6 0.10
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (20 bp):
TATTAAATATATTTTTTAAA
Found at i:11987964 original size:29 final size:30
Alignment explanation
Indices: 11987919--11987976 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
11987909 CACTGTTGTT
* *
11987919 ACTTTGTTTTTTGTTTTTT-ACTTTTTTTC
1 ACTTTGTTTCTTGTTTTTTAAATTTTTTTC
11987948 ACTTTCGTTTCTT-TTTTTTAAATTTTTTT
1 ACTTT-GTTTCTTGTTTTTTAAATTTTTTT
11987977 TATGTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.74
Consensus pattern (30 bp):
ACTTTGTTTCTTGTTTTTTAAATTTTTTTC
Found at i:11987996 original size:20 final size:20
Alignment explanation
Indices: 11987973--11988015 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11987963 TTTTAAATTT
11987973 TTTTTATGTT-TTGTATTTTA
1 TTTTTAT-TTATTGTATTTTA
*
11987993 TTTTTATTTATTTTATTTTA
1 TTTTTATTTATTGTATTTTA
11988013 TTT
1 TTT
11988016 ATTTTTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTATTTATTGTATTTTA
Found at i:11988011 original size:14 final size:15
Alignment explanation
Indices: 11987986--11988020 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
11987976 TTATGTTTTG
11987986 TATTTTATTTTTATT
1 TATTTTATTTTTATT
11988001 TATTTTA-TTTTATT
1 TATTTTATTTTTATT
11988015 TATTTT
1 TATTTT
11988021 TTATGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTTATTTTTATT
Found at i:11988709 original size:212 final size:206
Alignment explanation
Indices: 11988342--11988788 Score: 743
Period size: 212 Copynumber: 2.1 Consensus size: 206
11988332 CCTACTGCTA
11988342 CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACA
1 CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACA
*
11988407 ATATATTATTTAGAAAATAACTATTATTGTAATGAGATGCATATTTTATTAGGTATAAGTATTTA
66 ATATATTATTTAGAAAATAACTATTATTGTAATGAGATACATATTTTATTAGGTATAAGTATTTA
*
11988472 AATTTTTATTTTTGTAATGTGATACATGCCTAAATCCATATATATATAATCATATTAG-TGAATC
131 AATTTTTATTTTTGTAATGTGATACATG--T--AT--AAATATATATAATCATATT-GTTGAATC
11988536 TACTAATACATACTTCAT
189 TACTAATACATACTTCAT
11988554 CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACA
1 CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACA
* * *
11988619 ATATGTTATTTGGAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTA
66 ATATATTATTTAGAAAATAACTATTATTGTAATGAGATACATATTTTATTAGGTATAAGTATTTA
* *
11988684 AATTTTTGTTTTTGTAATGTGATACATGTGTAAATATATATAATCATATTGTTGAATCTACTAAT
131 AATTTTTATTTTTGTAATGTGATACATGTATAAATATATATAATCATATTGTTGAATCTACTAAT
*
11988749 ACATATTTCAT
196 ACATACTTCAT
*
11988760 CCGGATAAAGTGTGCATTATTAAAATTAA
1 CCGGATAAAGTATGCATTATTAAAATTAA
11988789 TGGTTTGTTT
Statistics
Matches: 225, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
205 1 0.00
206 69 0.31
208 1 0.00
210 1 0.00
212 153 0.68
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (206 bp):
CCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACA
ATATATTATTTAGAAAATAACTATTATTGTAATGAGATACATATTTTATTAGGTATAAGTATTTA
AATTTTTATTTTTGTAATGTGATACATGTATAAATATATATAATCATATTGTTGAATCTACTAAT
ACATACTTCAT
Found at i:11990350 original size:93 final size:93
Alignment explanation
Indices: 11990191--11990362 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
11990181 CGCCTATAAG
* * *
11990191 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11990256 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
11990284 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11990349 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
11990363 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:11990359 original size:46 final size:46
Alignment explanation
Indices: 11990186--11990359 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
11990176 TAACCCGCCT
* * * *
11990186 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCC
* * * *
11990232 ATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCC
*
11990281 -TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCC
*
11990325 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
11990360 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCC
Found at i:11992770 original size:15 final size:15
Alignment explanation
Indices: 11992746--11992793 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
11992736 AGGAAACCGA
11992746 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
11992761 ATAGAGAAAT-CTAG
1 ATAAAGAAATCCAAG
*
11992775 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
11992791 ATA
1 ATA
11992794 CGATACTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:11993103 original size:10 final size:10
Alignment explanation
Indices: 11993088--11993133 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
11993078 AATCATAATT
11993088 TAAAATATTA
1 TAAAATATTA
11993098 TAAAATAAATTA
1 TAAAAT--ATTA
11993110 -AATAATATT-
1 TAA-AATATTA
11993119 TAAAATATTA
1 TAAAATATTA
11993129 TAAAA
1 TAAAA
11993134 CTAATAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 6 0.19
10 16 0.52
11 2 0.06
12 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAAAATATTA
Found at i:11993206 original size:21 final size:21
Alignment explanation
Indices: 11993166--11993233 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 21
11993156 AAAATATTTA
*
11993166 AATATTTTATATTATTAAAAAAT
1 AATATTTAATA-T-TTAAAAAAT
11993189 -ATATTTAATATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
*
11993209 AATATTTAAAATTTAAAAAAGT
1 AATATTTAATATTTAAAAAA-T
11993231 AAT
1 AAT
11993234 TTCAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
20 9 0.22
21 19 0.46
22 13 0.32
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:11993235 original size:20 final size:20
Alignment explanation
Indices: 11993180--11993241 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
11993170 TTTTATATTA
*
11993180 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAAAAT
11993200 TTAAAAAATAATATTTAAAAT
1 TTAAAAAAT-ATATTTAAAAT
11993221 TTAAAAAAGTA-ATTTCAAAAT
1 TTAAAAAA-TATATTT-AAAAT
11993242 ATATATTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
20 13 0.34
21 24 0.63
22 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:11993264 original size:17 final size:16
Alignment explanation
Indices: 11993237--11993279 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
11993227 AAGTAATTTC
* *
11993237 AAAATATATATTTATT
1 AAAAAATATATATATT
11993253 AGAAAAATATATATATT
1 A-AAAAATATATATATT
11993270 AATAAAATAT
1 AA-AAAATAT
11993280 TCTAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AAAAAATATATATATT
Found at i:11993313 original size:4 final size:4
Alignment explanation
Indices: 11993304--11993334 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
11993294 AGTTGATAAT
11993304 AATA AATAA AATA AATA AATA AATA AATA AA
1 AATA AAT-A AATA AATA AATA AATA AATA AA
11993335 CATAAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:11993910 original size:20 final size:22
Alignment explanation
Indices: 11993887--11993928 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
11993877 TTTTATTAAT
11993887 ATATTAAAG-AAA-ATATTTTA
1 ATATTAAAGTAAAGATATTTTA
11993907 ATATTAAAGTAAAGATATTTTA
1 ATATTAAAGTAAAGATATTTTA
11993929 CCCAAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
ATATTAAAGTAAAGATATTTTA
Found at i:11993910 original size:22 final size:23
Alignment explanation
Indices: 11993882--11993928 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 23
11993872 AAATATTTTA
11993882 TTAATATATTAAAG-AAA-ATATT
1 TTAA-ATATTAAAGTAAAGATATT
11993904 TT-AATATTAAAGTAAAGATATT
1 TTAAATATTAAAGTAAAGATATT
11993926 TTA
1 TTA
11993929 CCCAAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 9 0.41
21 4 0.18
22 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (23 bp):
TTAAATATTAAAGTAAAGATATT
Found at i:11993919 original size:25 final size:25
Alignment explanation
Indices: 11993872--11993921 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11993862 AAAAATTTTG
* * *
11993872 AAATATTTTATTAATATATTAAAGA
1 AAATATTTTAATAATAAAGTAAAGA
*
11993897 AAATATTTTAATATTAAAGTAAAGA
1 AAATATTTTAATAATAAAGTAAAGA
11993922 TATTTTACCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (25 bp):
AAATATTTTAATAATAAAGTAAAGA
Found at i:11994286 original size:20 final size:21
Alignment explanation
Indices: 11994263--11994311 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
11994253 TTTTATATTA
*
11994263 TTAAAAAAT-ATATTCAATAT
1 TTAAAAAATCATATTCAAAAT
* *
11994283 TTAAAAAATCATTTTTAAAAT
1 TTAAAAAATCATATTCAAAAT
11994304 TTAAAAAA
1 TTAAAAAA
11994312 ATCTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAAATCATATTCAAAAT
Found at i:11994341 original size:23 final size:24
Alignment explanation
Indices: 11994309--11994359 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
11994299 AAAATTTAAA
11994309 AAAATCTAAAAATATATATATT-T
1 AAAATCTAAAAATATATATATTAT
*
11994332 AAAATTTAAAAATATATATATTAT
1 AAAATCTAAAAATATATATATTAT
11994356 AAAA
1 AAAA
11994360 CAATTCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATCTAAAAATATATATATTAT
Found at i:11994419 original size:14 final size:13
Alignment explanation
Indices: 11994402--11994437 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
11994392 TTAATCATAA
11994402 AAAATAAATAAAAT
1 AAAATAAAT-AAAT
11994416 AAAATAAATAAAT
1 AAAATAAATAAAT
11994429 AAAGATAAA
1 AAA-ATAAA
11994438 AAACAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:11994424 original size:18 final size:19
Alignment explanation
Indices: 11994403--11994438 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
11994393 TAATCATAAA
11994403 AAATAAATAAA-ATAAAAT
1 AAATAAATAAAGATAAAAT
11994421 AAATAAATAAAGATAAAA
1 AAATAAATAAAGATAAAA
11994439 AACAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (19 bp):
AAATAAATAAAGATAAAAT
Found at i:11995052 original size:21 final size:19
Alignment explanation
Indices: 11995028--11995083 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
11995018 AATAAATAAA
11995028 TAAATAAACATAAAAAAAAG
1 TAAATAAACA-AAAAAAAAG
11995048 TTAAA-AAAGTCAAAAAAAAAG
1 -TAAATAAA--CAAAAAAAAAG
11995069 T-AATAAA-AAAAAAAA
1 TAAATAAACAAAAAAAA
11995084 CTGACATGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 8 0.25
19 2 0.06
20 7 0.22
21 13 0.41
22 2 0.06
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (19 bp):
TAAATAAACAAAAAAAAAG
Found at i:12006566 original size:26 final size:26
Alignment explanation
Indices: 12006526--12006576 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
12006516 CATGCATAAA
* *
12006526 TTAGGCTTAGTACTTAACTTGGGCTG
1 TTAGGCTTAGCACTTAACTTCGGCTG
*
12006552 TTAGGCTTAGCACTTGACTTCGGCT
1 TTAGGCTTAGCACTTAACTTCGGCT
12006577 TGTAACACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (26 bp):
TTAGGCTTAGCACTTAACTTCGGCTG
Found at i:12006981 original size:26 final size:26
Alignment explanation
Indices: 12006931--12006981 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
12006921 TAGTTATTAT
* * *
12006931 ATACAAAAGTAAATATGTTTTTTTTA
1 ATACAAAAGTAAATATATATATTTTA
*
12006957 ATACAAACGTAAATATATATATTTT
1 ATACAAAAGTAAATATATATATTTT
12006982 TAACTCCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (26 bp):
ATACAAAAGTAAATATATATATTTTA
Found at i:12016181 original size:24 final size:24
Alignment explanation
Indices: 12016149--12016196 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12016139 TATGATTTTA
*
12016149 CAATAATTTTAAAATAAAATAAAC
1 CAATAATTTAAAAATAAAATAAAC
* *
12016173 CAATAATTTAAAAATTAGATAAAC
1 CAATAATTTAAAAATAAAATAAAC
12016197 TGTATTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (24 bp):
CAATAATTTAAAAATAAAATAAAC
Found at i:12017691 original size:16 final size:16
Alignment explanation
Indices: 12017662--12017695 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12017652 ACTATACTAT
*
12017662 TAAATGTAAAATATTA
1 TAAATCTAAAATATTA
*
12017678 TAAATCTAACATATTA
1 TAAATCTAAAATATTA
12017694 TA
1 TA
12017696 CTACATATAA
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:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAATCTAAAATATTA
Found at i:12025615 original size:22 final size:22
Alignment explanation
Indices: 12025590--12025637 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
12025580 TATTTTAATA
12025590 ATATTGAA-AATTATAAT-ATTTT
1 ATATT-AACAATT-TAATAATTTT
*
12025612 ATATTAACAATTTATTAATTTT
1 ATATTAACAATTTAATAATTTT
12025634 ATAT
1 ATAT
12025638 ATTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTAACAATTTAATAATTTT
Found at i:12027053 original size:11 final size:11
Alignment explanation
Indices: 12027037--12027077 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
12027027 TAATTTAAAA
12027037 TTTTTAAT-TT
1 TTTTTAATATT
* *
12027047 TTTTTTATATA
1 TTTTTAATATT
12027058 TTTTTAATATT
1 TTTTTAATATT
12027069 TTTTTAATA
1 TTTTTAATA
12027078 AGATCAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 7 0.27
11 19 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTAATATT
Found at i:12027987 original size:24 final size:23
Alignment explanation
Indices: 12027948--12027992 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
12027938 ATACAATACC
*
12027948 AATTAACAAACTAATAATTAACA
1 AATTAACAAACCAATAATTAACA
12027971 AATTAACAAAACCAATAATTAA
1 AATTAAC-AAACCAATAATTAA
12027993 GTATAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (23 bp):
AATTAACAAACCAATAATTAACA
Found at i:12028732 original size:38 final size:38
Alignment explanation
Indices: 12028681--12028758 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
12028671 TACAGGTCAA
12028681 AAACTCAATTACATGTACCAATATATATAGAACAATTT
1 AAACTCAATTACATGTACCAATATATATAGAACAATTT
12028719 AAACTCAATTACATGTACCAATATATATAGAACAATTT
1 AAACTCAATTACATGTACCAATATATATAGAACAATTT
12028757 AA
1 AA
12028759 GCTAAGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (38 bp):
AAACTCAATTACATGTACCAATATATATAGAACAATTT
Found at i:12030376 original size:14 final size:15
Alignment explanation
Indices: 12030352--12030380 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12030342 AATGGTTACC
12030352 AAAATTATAATTAAA
1 AAAATTATAATTAAA
12030367 AAAATT-TAATTAAA
1 AAAATTATAATTAAA
12030381 CGTACTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATTATAATTAAA
Found at i:12031559 original size:34 final size:35
Alignment explanation
Indices: 12031508--12031576 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
12031498 TCAACATTTA
12031508 ATAATTTTTTTAAAAAAATTAAAAATT-TAGAAAAT
1 ATAATTTTTTTAAAAAAATTAAAAATTATA-AAAAT
*
12031543 ATAATTTTTTT-TAAAAATTAAAAATTATAAAAAT
1 ATAATTTTTTTAAAAAAATTAAAAATTATAAAAAT
12031577 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (35 bp):
ATAATTTTTTTAAAAAAATTAAAAATTATAAAAAT
Found at i:12039548 original size:5 final size:5
Alignment explanation
Indices: 12039538--12039570 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
12039528 GAAAGACCAT
12039538 AAGCC AAGCC AAGCC AAGCC AAGCC AAGCC AAG
1 AAGCC AAGCC AAGCC AAGCC AAGCC AAGCC AAG
12039571 GCGGAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.36, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGCC
Found at i:12048658 original size:6 final size:6
Alignment explanation
Indices: 12048647--12048678 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
12048637 CTTCCTCTCA
12048647 ACAGCC ACAGCC ACAGCC ACAGCC ACAGCC AC
1 ACAGCC ACAGCC ACAGCC ACAGCC ACAGCC AC
12048679 CGGTCAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACAGCC
Found at i:12057828 original size:25 final size:25
Alignment explanation
Indices: 12057784--12057833 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
12057774 GGCATTAAGG
12057784 GTTTTCTTTAAAAAGAAAGAACAAAA
1 GTTTTCTTTAAAAAGAAAGAA-AAAA
*
12057810 GTTTTCTTT-AAAAGCAAGAAAAAA
1 GTTTTCTTTAAAAAGAAAGAAAAAA
12057834 CAAGGGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 10 0.43
26 9 0.39
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (25 bp):
GTTTTCTTTAAAAAGAAAGAAAAAA
Found at i:12059066 original size:40 final size:38
Alignment explanation
Indices: 12058977--12059092 Score: 128
Period size: 38 Copynumber: 3.0 Consensus size: 38
12058967 CTTTGAGATT
* *
12058977 TAGTGGCATTAGCGGCGT-TTTTAAAAAAACACCGCTAA
1 TAGTGGCATTAGCGGC-TCTTTTTAAAAAACGCCGCTAA
12059015 TAGTGGCATTAGCGGCTCTTTTTAAAAAACGCCG-TAA
1 TAGTGGCATTAGCGGCTCTTTTTAAAAAACGCCGCTAA
* * * *
12059052 TAGATTGAGTATTAGCGGCGCTTTTTGATAAACGCCGCTAA
1 TAG--TG-GCATTAGCGGCTCTTTTTAAAAAACGCCGCTAA
12059093 AGCTCGATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
37 7 0.10
38 30 0.45
39 2 0.03
40 25 0.37
41 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (38 bp):
TAGTGGCATTAGCGGCTCTTTTTAAAAAACGCCGCTAA
Found at i:12059642 original size:22 final size:21
Alignment explanation
Indices: 12059597--12059666 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
12059587 CTATAGGCCT
12059597 TAAATT-TCAAAC-CTTAAACTA
1 TAAATTCT-AAACTCTTAAAC-A
12059618 TAAATTCTAAACTCTTAAATCA
1 TAAATTCTAAACTCTTAAA-CA
** * *
12059640 TAAACCCTAAAATCTTAAAAA
1 TAAATTCTAAACTCTTAAACA
12059661 TAAATT
1 TAAATT
12059667 TTAATATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
21 15 0.38
22 24 0.60
23 1 0.03
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATTCTAAACTCTTAAACA
Found at i:12060095 original size:34 final size:35
Alignment explanation
Indices: 12060045--12060137 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 35
12060035 ATTTAAGTTC
*
12060045 AAGGTTTAGGGTATTGGGTTTAGAATTTAGTTTAT
1 AAGGTTTAGGGTATTGGGTTTAGAATTTAGTCTAT
* **
12060080 AAGGTTTAAGG-ATTGGGTATT-GGGTTTAGTCTAT
1 AAGGTTTAGGGTATTGGGT-TTAGAATTTAGTCTAT
*
12060114 AGGGTTTAGGGTATTGGGGTTTAG
1 AAGGTTTAGGGTATT-GGGTTTAG
12060138 TGTATTGGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
34 26 0.54
35 17 0.35
36 5 0.10
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (35 bp):
AAGGTTTAGGGTATTGGGTTTAGAATTTAGTCTAT
Found at i:12060135 original size:15 final size:15
Alignment explanation
Indices: 12060094--12060145 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
12060084 TTTAAGGATT
12060094 GGGTATT-GGGTTTA
1 GGGTATTGGGGTTTA
** *
12060108 GTCTA-TAGGGTTTA
1 GGGTATTGGGGTTTA
12060122 GGGTATTGGGGTTTA
1 GGGTATTGGGGTTTA
*
12060137 GTGTATTGG
1 GGGTATTGG
12060146 TTTTGGGATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 1 0.03
14 13 0.43
15 16 0.53
ACGTcount: A:0.15, C:0.02, G:0.40, T:0.42
Consensus pattern (15 bp):
GGGTATTGGGGTTTA
Found at i:12060548 original size:84 final size:84
Alignment explanation
Indices: 12060447--12060626 Score: 270
Period size: 84 Copynumber: 2.1 Consensus size: 84
12060437 GGTAGTGGAT
* * * * *
12060447 TTAGTGGCGCTATCTTATAAACGCCACTAATAATATGAAAAATCGAATGAAAACTACATCGTTTT
1 TTAGTGGCGCTACCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAAATACATCATTTT
* *
12060512 ATGTGGCGCGGTTTAGGAA
66 ATGTGGCACGATTTAGGAA
* * *
12060531 TTAGTGGCGCTACCTTATAAATGCCACTAAGAATATGAGAAACCGAATGAAAAATACGTCATTTT
1 TTAGTGGCGCTACCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAAATACATCATTTT
12060596 ATGTGGCACGATTTAGGAA
66 ATGTGGCACGATTTAGGAA
12060615 TTAGTGGCGCTA
1 TTAGTGGCGCTA
12060627 TCCTAAAAAC
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (84 bp):
TTAGTGGCGCTACCTTATAAACGCCACTAAGAATATGAAAAACCGAATGAAAAATACATCATTTT
ATGTGGCACGATTTAGGAA
Found at i:12064072 original size:9 final size:9
Alignment explanation
Indices: 12064049--12064124 Score: 71
Period size: 9 Copynumber: 8.1 Consensus size: 9
12064039 ATTGAATATT
*
12064049 ACTTAAATA
1 ACTTACATA
*
12064058 AATTACATA
1 ACTTACATA
12064067 ACTTACATA
1 ACTTACATA
* *
12064076 ACTCATATA
1 ACTTACATA
12064085 ACTTACATA
1 ACTTACATA
*
12064094 ATTTACATAACA
1 ACTTACAT---A
12064106 ACTTACATA
1 ACTTACATA
*
12064115 ACTCACATA
1 ACTTACATA
12064124 A
1 A
12064125 TTTCCTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 46 0.85
12 8 0.15
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:12064110 original size:21 final size:21
Alignment explanation
Indices: 12064066--12064124 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
12064056 TAAATTACAT
*
12064066 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
12064084 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
12064105 AACTTACATAACTCACATAA
1 AACTTACATAACTCACATAA
12064125 TTTCCTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.35
20 3 0.09
21 19 0.56
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:12068743 original size:14 final size:15
Alignment explanation
Indices: 12068724--12068756 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12068714 GAGAGACCAT
12068724 AAAAGAAT-TTTGAA
1 AAAAGAATATTTGAA
*
12068738 AAAAGAATATTTTAA
1 AAAAGAATATTTGAA
12068753 AAAA
1 AAAA
12068757 CCCATAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (15 bp):
AAAAGAATATTTGAA
Done.