Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 83 of 328
Found at i:23106195 original size:20 final size:20
Alignment explanation
Indices: 23106135--23106195 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
23106125 ATAAATATGG
*
23106135 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
23106155 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
23106175 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
23106195 T
1 T
23106196 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:23106272 original size:24 final size:24
Alignment explanation
Indices: 23106245--23106363 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
23106235 GAGGAAGTGA
*
23106245 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
23106269 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
23106292 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
23106316 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23106340 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23106364 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:23106314 original size:47 final size:48
Alignment explanation
Indices: 23106245--23106363 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
23106235 GAGGAAGTGA
23106245 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
23106292 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
23106340 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23106364 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:23106590 original size:31 final size:31
Alignment explanation
Indices: 23106555--23106618 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
23106545 CGTTTACAGT
*
23106555 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
23106586 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
23106617 AA
1 AA
23106619 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:23108153 original size:27 final size:26
Alignment explanation
Indices: 23108096--23108154 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
23108086 GTACCTAGAC
*
23108096 CCCCTAGTTGATAAATTGACTATTAT
1 CCCCTAGTTGATAAAATGACTATTAT
* * * *
23108122 GCCCTTGTTGATAAAATGATTGTTAT
1 CCCCTAGTTGATAAAATGACTATTAT
23108148 ACCCCTA
1 -CCCCTA
23108155 TGAGATGTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (26 bp):
CCCCTAGTTGATAAAATGACTATTAT
Found at i:23113449 original size:208 final size:208
Alignment explanation
Indices: 23113077--23113486 Score: 696
Period size: 208 Copynumber: 2.0 Consensus size: 208
23113067 ACGCCTACTA
*
23113077 ATCGCGTGATTTCGTGATAGATTTTAAATATTTATAATTAATCATTCTTGAAACTAACTATTATC
1 ATCGCGAGATTTCGTGATAGATTTTAAATATTTATAATTAATCATTCTTGAAACTAACTATTATC
* **
23113142 GCGATGTAGGCAAGTGTACCCATCAAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCCAACCC
66 GCAATACAGGCAAGTGTACCCATCAAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCCAACCC
*
23113207 AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAGAGGTTTT
131 AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAAAGG-TTT
23113272 TGTTTTAACTAATG
195 TGTTTTAACTAATG
* * * *
23113286 ATCGCGAGATTTTGTGATAGGTTTTAAATATTTATAATTACTCGTTCTTG-AACTAACTATTATC
1 ATCGCGAGATTTCGTGATAGATTTTAAATATTTATAATTAATCATTCTTGAAACTAACTATTATC
* * *
23113350 GCAATACAGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCGAACCC
66 GCAATACAGGCAAGTGTACCCATCAAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCCAACCC
23113415 AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAAAGGTTTT
131 AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAAAGGTTTT
23113480 GTTTTAA
196 GTTTTAA
23113487 TTAACTAATT
Statistics
Matches: 189, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
207 11 0.06
208 133 0.70
209 45 0.24
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (208 bp):
ATCGCGAGATTTCGTGATAGATTTTAAATATTTATAATTAATCATTCTTGAAACTAACTATTATC
GCAATACAGGCAAGTGTACCCATCAAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCCAACCC
AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAAAGGTTTT
GTTTTAACTAATG
Found at i:23118764 original size:46 final size:46
Alignment explanation
Indices: 23118697--23118913 Score: 283
Period size: 46 Copynumber: 4.7 Consensus size: 46
23118687 TGGCAACCTG
*
23118697 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
23118743 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
23118789 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** * * *
23118835 AGAATAAGACCATGGTTGAAAGATATCATGGCAACATAACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * * *
23118881 TGAGTAAGATCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
23118914 TCACGTCAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 152 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:23118899 original size:138 final size:130
Alignment explanation
Indices: 23118648--23118913 Score: 336
Period size: 138 Copynumber: 2.0 Consensus size: 130
23118638 AGTGTGCTCT
*
23118648 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * * *
23118713 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATAACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
23118778 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
* *
23118843 ACCATGGTTGAAAGATATCATGGCAACATAACA-GAAAATGAGTAAGATCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACATAACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
23118907 TATGGCA
122 CATGGCA
23118914 TCACGTCAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
130 47 0.41
133 2 0.02
136 1 0.01
137 1 0.01
138 64 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATAACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:23122168 original size:5 final size:5
Alignment explanation
Indices: 23122130--23122225 Score: 56
Period size: 5 Copynumber: 18.2 Consensus size: 5
23122120 TACAAGGTCC
*
23122130 TATTT T-TTT TA-TT TATTCT AATTT T-TATT T-TTT TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TATTT TAT-TT TATTT TATTT TA-TTT
* *
23122174 TATTTT TCTTT TGATTTT TATTT TCATTT CAATTT TATTAT TATTT TATTT
1 TA-TTT TATTT T-A-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT
23122225 T
1 T
23122226 GAAAGACATA
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
4 12 0.16
5 30 0.41
6 28 0.38
7 4 0.05
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:23122169 original size:25 final size:24
Alignment explanation
Indices: 23122133--23122185 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
23122123 AAGGTCCTAT
23122133 TTTTTTTATTTATTCTAATTTTTA
1 TTTTTTTATTTATTCTAATTTTTA
* * *
23122157 TTTTTTTATTTTATTTTTATTTTTC
1 TTTTTTTA-TTTATTCTAATTTTTA
23122182 TTTT
1 TTTT
23122186 GATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTATTTATTCTAATTTTTA
Found at i:23122173 original size:18 final size:20
Alignment explanation
Indices: 23122132--23122224 Score: 86
Period size: 18 Copynumber: 4.7 Consensus size: 20
23122122 CAAGGTCCTA
*
23122132 TTTT-TTTTATTTATTCTAAT
1 TTTTATTTTATTTATT-TTAT
23122152 TTTTATTTT-TTTATTTTAT
1 TTTTATTTTATTTATTTTAT
* *
23122171 TTTTATTTT-TCT-TTTGAT
1 TTTTATTTTATTTATTTTAT
23122189 TTTTATTTTCATTTCAATTTTAT
1 TTTTATTTT-ATTT--ATTTTAT
*
23122212 TATTATTTTATTT
1 TTTTATTTTATTT
23122225 TGAAAGACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
18 14 0.23
19 14 0.23
20 12 0.20
21 4 0.07
22 4 0.07
23 13 0.21
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (20 bp):
TTTTATTTTATTTATTTTAT
Found at i:23122192 original size:7 final size:6
Alignment explanation
Indices: 23122130--23122225 Score: 70
Period size: 6 Copynumber: 16.0 Consensus size: 6
23122120 TACAAGGTCC
* * * *
23122130 TATTTT TTTTATT TATTCT AATTTT TATTTT TTTATTT TATTTT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TAT-TTT TATTTT TATTTT
* * * * * *
23122180 TCTTTT GATTTT TATTTT CA-TTT CAATTT TATTAT TA-TTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
23122226 GAAAGACATA
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
5 9 0.13
6 50 0.72
7 10 0.14
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:23127386 original size:55 final size:55
Alignment explanation
Indices: 23127326--23127432 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 55
23127316 ACCATGGATG
* * *
23127326 TTCCACACGGGCAT-GTCGCACGCCCGTGTTGTTTTGGCAGGCTCGCCCACGGTTC
1 TTCCACACGGGCATAAT-GCACGCCCGTGTTGTTCTGGCAGGCTCGACCACGGTTC
* *
23127381 TTCCACACGGGCGTAATGCACGCCTGTGTTGTTCTGGCAGGCTCGACCACGG
1 TTCCACACGGGCATAATGCACGCCCGTGTTGTTCTGGCAGGCTCGACCACGG
23127433 CCATATCGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 45 0.98
56 1 0.02
ACGTcount: A:0.13, C:0.33, G:0.30, T:0.24
Consensus pattern (55 bp):
TTCCACACGGGCATAATGCACGCCCGTGTTGTTCTGGCAGGCTCGACCACGGTTC
Found at i:23135339 original size:24 final size:24
Alignment explanation
Indices: 23135312--23135361 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
23135302 TCCCAAGGGT
23135312 CAGTGGTTAGGAGGG-CTCGAATCG
1 CAGTGGTTAGGAGGGAC-CGAATCG
23135336 CAGTGGTTAGGAGGGACCGAATCG
1 CAGTGGTTAGGAGGGACCGAATCG
23135360 CA
1 CA
23135362 TCAGCCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.24, C:0.18, G:0.40, T:0.18
Consensus pattern (24 bp):
CAGTGGTTAGGAGGGACCGAATCG
Found at i:23135966 original size:122 final size:120
Alignment explanation
Indices: 23135706--23135926 Score: 336
Period size: 120 Copynumber: 1.8 Consensus size: 120
23135696 AATAACCATG
*
23135706 AGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAATCTTGATTTAACACGAAATGTATG
1 AGAAAGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAATCTTGATTTAACACGAAATGTATG
* * ** *
23135771 ATAACTAATCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATG
66 ATAACTAACCTAAGAATGCAAATTAAATGATAGAAATTGGCATGAAAATAGCATC
* * *
23135826 AGAATGAGCATAGTAATGTCATGGGTATGAGGTTTTCCTAATAACTTGATTTAACATGAAATGTA
1 AGAAAGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAAT--CTTGATTTAACACGAAATGTA
23135891 TGATAACTAACCTAAGAATG-AAATTAAATGATAGAA
64 TGATAACTAACCTAAGAATGCAAATTAAATGATAGAA
23135927 TAATTTGCAA
Statistics
Matches: 95, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
120 41 0.43
121 15 0.16
122 39 0.41
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (120 bp):
AGAAAGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAATCTTGATTTAACACGAAATGTATG
ATAACTAACCTAAGAATGCAAATTAAATGATAGAAATTGGCATGAAAATAGCATC
Found at i:23143990 original size:18 final size:19
Alignment explanation
Indices: 23143958--23143995 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
23143948 GCCATTTTAC
23143958 TTTTATTTCAATTTC-AAT
1 TTTTATTTCAATTTCTAAT
**
23143976 TTTTATTTCCTTTTCTAAT
1 TTTTATTTCAATTTCTAAT
23143995 T
1 T
23143996 GTTCATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATTTCAATTTCTAAT
Found at i:23147866 original size:41 final size:41
Alignment explanation
Indices: 23147821--23147938 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23147811 TGAAAGATAA
23147821 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
23147862 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23147892 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23147933 ATGTAG
1 ATGTAG
23147939 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23147878 original size:71 final size:71
Alignment explanation
Indices: 23147789--23147952 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
23147779 GATATGTATC
*
23147789 CCATGTAGGCAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23147854 AGGACA
66 AGGACA
23147860 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23147925 AGGACA
66 AGGACA
23147931 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23147953 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23154904 original size:18 final size:18
Alignment explanation
Indices: 23154864--23154904 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
23154854 AGGCCATTTC
23154864 TGGGCTATGTGGGCCACA
1 TGGGCTATGTGGGCCACA
*
23154882 CGGGC-ATGTGGGCCCACA
1 TGGGCTATGTGGG-CCACA
23154900 TGGGC
1 TGGGC
23154905 CCATAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.15, C:0.27, G:0.41, T:0.17
Consensus pattern (18 bp):
TGGGCTATGTGGGCCACA
Found at i:23155068 original size:26 final size:26
Alignment explanation
Indices: 23155012--23155068 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
23155002 TACCTAGACC
* *
23155012 CCCTAGTTGATAAAATGACTATTATG
1 CCCTTGTTGATAAAATAACTATTATG
*
23155038 CCCTTGTTGATAAAATAACTGTTATG
1 CCCTTGTTGATAAAATAACTATTATG
23155064 CCCTT
1 CCCTT
23155069 ATGAGATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (26 bp):
CCCTTGTTGATAAAATAACTATTATG
Found at i:23160273 original size:25 final size:25
Alignment explanation
Indices: 23160245--23160296 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
23160235 TGGTAGCTTT
*
23160245 TCTTTCTCGTCTTCTCG-TAGATCAG
1 TCTTTCTCGTCTTC-AGATAGATCAG
*
23160270 TCTTTCTTGTCTTCAGATAGATCAG
1 TCTTTCTCGTCTTCAGATAGATCAG
23160295 TC
1 TC
23160297 ACTTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.44
Consensus pattern (25 bp):
TCTTTCTCGTCTTCAGATAGATCAG
Found at i:23161445 original size:15 final size:15
Alignment explanation
Indices: 23161427--23161455 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23161417 TAATAACTTT
23161427 TTTCAACGGTTATAA
1 TTTCAACGGTTATAA
23161442 TTTCAACGGTTATA
1 TTTCAACGGTTATA
23161456 TCCTAACAAA
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:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (15 bp):
TTTCAACGGTTATAA
Found at i:23161616 original size:20 final size:20
Alignment explanation
Indices: 23161578--23161616 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23161568 ATTTCTCTGA
*
23161578 ATTTTATTCTCTTTGATTTT
1 ATTTTATTCTCTTTAATTTT
23161598 ATTTTATTCT-TTATAATTT
1 ATTTTATTCTCTT-TAATTT
23161617 ATAAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (20 bp):
ATTTTATTCTCTTTAATTTT
Found at i:23174240 original size:24 final size:24
Alignment explanation
Indices: 23174190--23174258 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
23174180 TTTATTATTT
* *
23174190 TATTTTTA-TTTATCTTCTTTCAG
1 TATTTTTATTTTATTTTCTTTCAA
*
23174213 TATTTTTATTTTATTTTCTTTTAA
1 TATTTTTATTTTATTTTCTTTCAA
23174237 TATTATTTTAATTTTAGTTTTC
1 TA-T-TTTT-ATTTTA-TTTTC
23174259 ATAATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 8 0.21
24 14 0.37
25 1 0.03
26 4 0.11
27 6 0.16
28 5 0.13
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (24 bp):
TATTTTTATTTTATTTTCTTTCAA
Found at i:23177608 original size:14 final size:17
Alignment explanation
Indices: 23177589--23177630 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
23177579 TCCAAAAATG
23177589 AATTTATT-TT-A-TTA
1 AATTTATTATTAATTTA
23177603 AATTTATTATTAATTTA
1 AATTTATTATTAATTTA
*
23177620 AATTTAATATT
1 AATTTATTATT
23177631 TATCTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 2 0.08
16 1 0.04
17 13 0.54
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTATTATTAATTTA
Found at i:23181503 original size:26 final size:26
Alignment explanation
Indices: 23181472--23181523 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23181462 ATTCAGTTTG
23181472 AGTATTGATTGAATCGACTATTTGAA
1 AGTATTGATTGAATCGACTATTTGAA
23181498 AGTATTGATTGAATCGACTATTTGAA
1 AGTATTGATTGAATCGACTATTTGAA
23181524 CACCCCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (26 bp):
AGTATTGATTGAATCGACTATTTGAA
Found at i:23187653 original size:13 final size:13
Alignment explanation
Indices: 23187635--23187666 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
23187625 TTGCCATTTT
23187635 TCCCTCTTCCCAA
1 TCCCTCTTCCCAA
23187648 TCCCTCTTCCCAA
1 TCCCTCTTCCCAA
23187661 TCCCTC
1 TCCCTC
23187667 CTTTTGCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.56, G:0.00, T:0.31
Consensus pattern (13 bp):
TCCCTCTTCCCAA
Found at i:23192594 original size:13 final size:13
Alignment explanation
Indices: 23192576--23192600 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23192566 CAGGGGAAGA
23192576 GATACGGCCGTGC
1 GATACGGCCGTGC
23192589 GATACGGCCGTG
1 GATACGGCCGTG
23192601 TGGAAGCAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GATACGGCCGTGC
Found at i:23194841 original size:6 final size:6
Alignment explanation
Indices: 23194830--23194872 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
23194820 TCCTCCTATC
* *
23194830 TTTTTA TTTTTA TTTTAA TTTTAA TTTTAA TTTTAA -TTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TT
23194873 ATTTTCTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:23194851 original size:11 final size:11
Alignment explanation
Indices: 23194831--23194872 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
23194821 CCTCCTATCT
*
23194831 TTTTATTTTTA
1 TTTTAATTTTA
23194842 TTTTAATTTTAA
1 TTTTAATTTT-A
23194854 TTTTAATTTTA
1 TTTTAATTTTA
*
23194865 ATTTAATT
1 TTTTAATT
23194873 ATTTTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTAATTTTA
Found at i:23205069 original size:17 final size:18
Alignment explanation
Indices: 23205047--23205082 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
23205037 CAATTTGGGC
23205047 TGTGTGGGC-CACACGGA
1 TGTGTGGGCACACACGGA
*
23205064 TGTGTGGGCACATACGGA
1 TGTGTGGGCACACACGGA
23205082 T
1 T
23205083 AGGCCACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.19, G:0.39, T:0.22
Consensus pattern (18 bp):
TGTGTGGGCACACACGGA
Found at i:23207091 original size:24 final size:24
Alignment explanation
Indices: 23207064--23207109 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23207054 AAATAACTAG
* *
23207064 AAAAGTTTCTAGAAAAATAAGGGT
1 AAAAGTTTCTAAAAAAAAAAGGGT
*
23207088 AAAAGTTTTTAAAAAAAAAAGG
1 AAAAGTTTCTAAAAAAAAAAGG
23207110 CGACACAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.17, T:0.24
Consensus pattern (24 bp):
AAAAGTTTCTAAAAAAAAAAGGGT
Found at i:23209335 original size:33 final size:33
Alignment explanation
Indices: 23209298--23209363 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
23209288 TTATTCAAAG
23209298 AAAGAATCATATTTTATGACTATTTATTTACTT
1 AAAGAATCATATTTTATGACTATTTATTTACTT
23209331 AAAGAATCATATTTTATGACTATTTATTTACTT
1 AAAGAATCATATTTTATGACTATTTATTTACTT
23209364 CTTCTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (33 bp):
AAAGAATCATATTTTATGACTATTTATTTACTT
Found at i:23210022 original size:17 final size:17
Alignment explanation
Indices: 23210000--23210043 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
23209990 CCCTGGTCAC
23210000 CCCCATGCCTTTTGCCA
1 CCCCATGCCTTTTGCCA
23210017 CCCCATGCCTTTTGCCA
1 CCCCATGCCTTTTGCCA
*
23210034 CCCCACGCCT
1 CCCCATGCCT
23210044 CTGCAAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.11, C:0.52, G:0.11, T:0.25
Consensus pattern (17 bp):
CCCCATGCCTTTTGCCA
Found at i:23211694 original size:2 final size:2
Alignment explanation
Indices: 23211684--23211714 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23211674 CAAAATTTTT
*
23211684 TA TA CA 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 T
23211715 TTCAAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23212163 original size:21 final size:21
Alignment explanation
Indices: 23212117--23212167 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
23212107 TTTATTGTTA
23212117 TTTATTTTAGACCTTTCATATG
1 TTTATTTTAGA-CTTTCATATG
*
23212139 -TTATTTTAGA-TTGTTATATG
1 TTTATTTTAGACTT-TCATATG
23212159 TTTATTTTA
1 TTTATTTTA
23212168 ATTCGCTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 6 0.23
21 18 0.69
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.61
Consensus pattern (21 bp):
TTTATTTTAGACTTTCATATG
Found at i:23214773 original size:21 final size:20
Alignment explanation
Indices: 23214749--23214810 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
23214739 AATAAAAATT
23214749 TATAAACAAAGTATATAATAA
1 TATAAACAAA-TATATAATAA
*
23214770 TATAAAC-CATATGATAAGTAA
1 TATAAACAAATAT-ATAA-TAA
* *
23214791 TATAAATATATATATAATAA
1 TATAAACAAATATATAATAA
23214811 AATATAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 3 0.09
20 8 0.23
21 20 0.57
22 4 0.11
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TATAAACAAATATATAATAA
Found at i:23214820 original size:17 final size:17
Alignment explanation
Indices: 23214788--23214881 Score: 65
Period size: 17 Copynumber: 5.7 Consensus size: 17
23214778 ATATGATAAG
23214788 TAATATAAATAT-ATATA
1 TAATA-AAATATAATATA
23214805 TAATAAAATATAATATA
1 TAATAAAATATAATATA
**
23214822 TAA-AAAGGA-AGATAT-
1 TAATAAAATATA-ATATA
*
23214837 T-ATAAGGA-ATAATATA
1 TAATAA-AATATAATATA
* **
23214853 TAATAAAATATGATAGG
1 TAATAAAATATAATATA
23214870 TAATAAAATATA
1 TAATAAAATATA
23214882 TAAATAAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
14 1 0.02
15 9 0.15
16 17 0.28
17 33 0.55
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (17 bp):
TAATAAAATATAATATA
Found at i:23214824 original size:14 final size:15
Alignment explanation
Indices: 23214790--23214894 Score: 53
Period size: 17 Copynumber: 6.8 Consensus size: 15
23214780 ATGATAAGTA
23214790 ATAT-AAATATATAT
1 ATATAAAATATATAT
23214804 ATAATAAAATATA-AT
1 AT-ATAAAATATATAT
* *
23214819 ATATAAAA-AGGAAGAT
1 ATATAAAATA--TATAT
23214835 ATTATAAGGAATA-ATAT
1 A-TATAA--AATATATAT
23214852 ATAATAAAATATGATAGGT
1 AT-ATAAAATAT-ATA--T
23214871 A-ATAAAATATATA-
1 ATATAAAATATATAT
23214884 A-ATAAAATATA
1 ATATAAAATATA
23214895 GTGAAATATA
Statistics
Matches: 75, Mismatches: 2, Indels: 29
0.71 0.02 0.27
Matches are distributed among these distances:
13 12 0.16
14 8 0.11
15 11 0.15
16 14 0.19
17 25 0.33
19 4 0.05
20 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (15 bp):
ATATAAAATATATAT
Found at i:23215059 original size:14 final size:14
Alignment explanation
Indices: 23215042--23215077 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23215032 AATATAAGGA
23215042 ATAATATATA-TAGT
1 ATAATATATAGT-GT
23215056 ATAATATATAGTGT
1 ATAATATATAGTGT
23215070 ATAATATA
1 ATAATATA
23215078 ATTTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (14 bp):
ATAATATATAGTGT
Found at i:23217006 original size:57 final size:59
Alignment explanation
Indices: 23216930--23217040 Score: 172
Period size: 57 Copynumber: 1.9 Consensus size: 59
23216920 TAGCCAACTA
23216930 GTGACCAAAAAGACAAAATCGAATAGTTGGGTGACTATTTTGTAACTTTTCATATTTGG
1 GTGACCAAAAAGACAAAATCGAATAGTTGGGTGACTATTTTGTAACTTTTCATATTTGG
* * * *
23216989 GTGATCAAAAA-A-AAAATCTAATAGTTTGGTGACTATTTTGTAATTTTTCATA
1 GTGACCAAAAAGACAAAATCGAATAGTTGGGTGACTATTTTGTAACTTTTCATA
23217041 GTTAAGTAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 37 0.77
58 1 0.02
59 10 0.21
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (59 bp):
GTGACCAAAAAGACAAAATCGAATAGTTGGGTGACTATTTTGTAACTTTTCATATTTGG
Found at i:23217055 original size:57 final size:58
Alignment explanation
Indices: 23216933--23217057 Score: 162
Period size: 57 Copynumber: 2.2 Consensus size: 58
23216923 CCAACTAGTG
* ** *
23216933 ACCAAAAAGACAAAATCGAATAGTTGGGTGACTATTTTGTAACTTTTCATATTTGGGTG
1 ACCAAAAA-ACAAAATCGAATAGTTGGGTGACTATTTTGTAACTTTTCATAGTTAAGTA
* * * *
23216992 ATCAAAAAA-AAAATCTAATAGTTTGGTGACTATTTTGTAATTTTTCATAGTTAAGTA
1 ACCAAAAAACAAAATCGAATAGTTGGGTGACTATTTTGTAACTTTTCATAGTTAAGTA
23217049 ACCAAAAAA
1 ACCAAAAAA
23217058 GAAACCATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 49 0.86
58 1 0.02
59 7 0.12
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.34
Consensus pattern (58 bp):
ACCAAAAAACAAAATCGAATAGTTGGGTGACTATTTTGTAACTTTTCATAGTTAAGTA
Found at i:23219709 original size:7 final size:7
Alignment explanation
Indices: 23219697--23219724 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
23219687 CGTTAGCTTT
23219697 ATTGTTA
1 ATTGTTA
23219704 ATTGTTA
1 ATTGTTA
23219711 ATTGTTA
1 ATTGTTA
23219718 ATTGTTA
1 ATTGTTA
23219725 CCTTAATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
ATTGTTA
Found at i:23226831 original size:60 final size:60
Alignment explanation
Indices: 23226755--23226889 Score: 168
Period size: 60 Copynumber: 2.2 Consensus size: 60
23226745 GTGTTAACTT
* *
23226755 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATATTG
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATATTG
* *
23226816 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTG
*
23226876 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
23226890 TAACATAGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 53 0.80
61 11 0.17
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTG
Found at i:23226853 original size:28 final size:27
Alignment explanation
Indices: 23226755--23226853 Score: 74
Period size: 28 Copynumber: 3.4 Consensus size: 27
23226745 GTGTTAACTT
* *
23226755 GGCCTTAGCCCATATCAATATTAATCTG
1 GGCC-TAGCCCATATCAGTATCAATCTG
* *
23226783 GGCCATAGCCCCT-TACAGTATCAGAGTATATTG
1 GGCC-TAGCCCATAT-CAGTATC--A--AT-CTG
23226816 GGCCTAGCCCATATCAGTATCAATCTG
1 GGCCTAGCCCATATCAGTATCAATCTG
23226843 GGCCGTAGCCC
1 GGCC-TAGCCC
23226854 TATTACAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 24 0.43
30 2 0.04
32 16 0.29
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (27 bp):
GGCCTAGCCCATATCAGTATCAATCTG
Found at i:23229351 original size:19 final size:18
Alignment explanation
Indices: 23229314--23229357 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
23229304 ATACATGCAG
23229314 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
23229331 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
23229350 TACTAATT
1 TAATAATT
23229358 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:23231447 original size:13 final size:13
Alignment explanation
Indices: 23231425--23231457 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23231415 AAGGGTTTGT
23231425 TTAT-TAAACTAA
1 TTATCTAAACTAA
23231437 TTATCTAAACTAA
1 TTATCTAAACTAA
*
23231450 TTAACTAA
1 TTATCTAA
23231458 TTTAACTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:23233318 original size:19 final size:19
Alignment explanation
Indices: 23233294--23233331 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23233284 TCGCCGGACT
23233294 AGGGTTAAAGGTGTTACCA
1 AGGGTTAAAGGTGTTACCA
23233313 AGGGTTAAAGGTGTTACCA
1 AGGGTTAAAGGTGTTACCA
23233332 GATGAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (19 bp):
AGGGTTAAAGGTGTTACCA
Found at i:23235152 original size:43 final size:42
Alignment explanation
Indices: 23235102--23235214 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 42
23235092 AATGCCGACA
* * *
23235102 TCCCAGAC-GTGGCCTTACATGTAATCAAATATCAATGCCACTG
1 TCCCAGACAG-GGCCTTACACGAAATCAAATA-CAATGCCAATG
* * *
23235145 TCCCAGACAGGGTCTTACACGAAATCATATACGATGCCAATG
1 TCCCAGACAGGGCCTTACACGAAATCAAATACAATGCCAATG
* **
23235187 TCCCAGACATGGTTTTACACGTAAATCA
1 TCCCAGACAGGGCCTTACACG-AAATCA
23235215 CAAATCGATG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 28 0.47
43 31 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
TCCCAGACAGGGCCTTACACGAAATCAAATACAATGCCAATG
Found at i:23235249 original size:44 final size:42
Alignment explanation
Indices: 23235143--23235252 Score: 121
Period size: 44 Copynumber: 2.6 Consensus size: 42
23235133 TCAATGCCAC
* * * **
23235143 TGTCCCAGACAGGGTCTTACACGAAATCATATACGATGCCAA
1 TGTCCCAGACATGGTCTTACACGAAATCACAAACGATGAAAA
*
23235185 TGTCCCAGACATGGTTTTACACGTAAATCACAAATCGATGAAAA
1 TGTCCCAGACATGGTCTTACACG-AAATCACAAA-CGATGAAAA
* * *
23235229 TGTTCCGGACGTGGTCTTACACGA
1 TGTCCCAGACATGGTCTTACACGA
23235253 TAACACATAT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
42 21 0.38
43 9 0.16
44 26 0.46
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACGAAATCACAAACGATGAAAA
Found at i:23241756 original size:42 final size:43
Alignment explanation
Indices: 23241676--23241815 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
23241666 CCCAGACGCG
* * *
23241676 GTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAAAGT
1 GTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGAAAGT
* * * *
23241719 GTCTTACACGAAATCATATA-CGATGCCAATTTTCCAGACA-T
1 GTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGAAAGT
* * * *
23241760 GGTCTTTCACGTAAATCACAA-ATTGATGCCAACGCCCCA-AAAGT
1 -GTCTTACACG-AAATCA-AATATCGATGCCAATGTCCCAGAAAGT
23241804 GGTCTTACACGA
1 -GTCTTACACGA
23241816 TAACATATAT
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
41 1 0.01
42 25 0.33
43 27 0.36
44 23 0.30
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGAAAGT
Found at i:23245268 original size:42 final size:43
Alignment explanation
Indices: 23245206--23245333 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
23245196 ACATAGGATC
* * *
23245206 CGATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
* *
23245249 CG-TATTTGATTTCATGTAAGACC-CTATCTGGGACAATGGCAT
1 CGATATTTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCAT
* * *
23245291 TGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
23245334 TGTACAAACT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 34 0.47
43 36 0.50
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
Found at i:23245322 original size:43 final size:42
Alignment explanation
Indices: 23245221--23245337 Score: 164
Period size: 43 Copynumber: 2.8 Consensus size: 42
23245211 TGTGTTTTCG
* *
23245221 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATTGTATTTGATTACA
* *
23245263 TGTAAGACC-CTATCTGGGACAATGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATTG-TATTTGATTACA
*
23245306 TGTAAGACCACGTCTGGGACGTTGGCATTGTA
1 TGTAAGACCACGTCTGGGACATTGGCATTGTA
23245338 CAAACTTTCT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.42
43 36 0.55
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATTGTATTTGATTACA
Found at i:23246023 original size:33 final size:34
Alignment explanation
Indices: 23245970--23246051 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 34
23245960 GGTCATTTTG
*
23245970 GGTAAGATTGTGGTAAGTGCTT-ATTTTGGAGTTT
1 GGTAAGATTGTGGTAAGTGCTTAATTTTGGA-ATT
* *
23246004 GGTAAG-TTTTGGTATGTGCTTAATTTTGGAATT
1 GGTAAGATTGTGGTAAGTGCTTAATTTTGGAATT
* *
23246037 GGTAAAAATGTGGTA
1 GGTAAGATTGTGGTA
23246052 TGAAATTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 20 0.50
34 20 0.50
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.43
Consensus pattern (34 bp):
GGTAAGATTGTGGTAAGTGCTTAATTTTGGAATT
Found at i:23246052 original size:34 final size:33
Alignment explanation
Indices: 23245978--23246053 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 33
23245968 TGGGTAAGAT
* * **
23245978 TGTGGTAAGTGCTTATTTTGGAGTTTGGTAAGT
1 TGTGGTATGTGCTTATTTTGGAGATTGGTAAAA
*
23246011 TTTGGTATGTGCTTAATTTTGGA-ATTGGTAAAAA
1 TGTGGTATGTGCTT-ATTTTGGAGATTGGT-AAAA
23246045 TGTGGTATG
1 TGTGGTATG
23246054 AAATTGAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (33 bp):
TGTGGTATGTGCTTATTTTGGAGATTGGTAAAA
Found at i:23252918 original size:35 final size:35
Alignment explanation
Indices: 23252879--23252954 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
23252869 AATTTAATTT
23252879 ATATTTT-ATTATCTGATT-TAAATATAATTTGTAAA
1 ATATTTTGA-TATCTGATTATAAATATAATTT-TAAA
* * *
23252914 ATATTTTGATATTTTATTATGAATATAATTTTAAA
1 ATATTTTGATATCTGATTATAAATATAATTTTAAA
23252949 ATATTT
1 ATATTT
23252955 AAATTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 24 0.67
36 12 0.33
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (35 bp):
ATATTTTGATATCTGATTATAAATATAATTTTAAA
Found at i:23254723 original size:26 final size:26
Alignment explanation
Indices: 23254666--23254735 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
23254656 AATTTTCTTG
* * *
23254666 AAATTTTACCA-GGGAAAAATTGTCA
1 AAATTTTACTAGGGGTAAAATCGTCA
* *
23254691 AATTTTTACTAGGGGTAAAATCGTTA
1 AAATTTTACTAGGGGTAAAATCGTCA
* *
23254717 AAATTTTATTGGGGGTAAA
1 AAATTTTACTAGGGGTAAA
23254736 GTAGGGATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 9 0.25
26 27 0.75
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCGTCA
Found at i:23257950 original size:27 final size:27
Alignment explanation
Indices: 23257832--23257960 Score: 168
Period size: 27 Copynumber: 4.8 Consensus size: 27
23257822 TCTTCCCTTA
* *
23257832 AAGGGAAAAACAATCATTTTACCCCAT
1 AAGGGCAAAATAATCATTTTACCCCAT
23257859 AAGGGCAAAATAATCATTTTACCCCAT
1 AAGGGCAAAATAATCATTTTACCCCAT
* * *
23257886 AAGGGAAAAACAATCATTTTACCACAT
1 AAGGGCAAAATAATCATTTTACCCCAT
* **
23257913 AAAGGCAAAATAGCCATTTTACCCCAT
1 AAGGGCAAAATAATCATTTTACCCCAT
**
23257940 AAGGGCAAAATTGTCATTTTA
1 AAGGGCAAAATAATCATTTTA
23257961 TCGATTAAGG
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (27 bp):
AAGGGCAAAATAATCATTTTACCCCAT
Found at i:23257960 original size:54 final size:54
Alignment explanation
Indices: 23257832--23257949 Score: 191
Period size: 54 Copynumber: 2.2 Consensus size: 54
23257822 TCTTCCCTTA
* * *
23257832 AAGGGAAAAACAATCATTTTACCCCATAAGGGCAAAATAATCATTTTACCCCAT
1 AAGGGAAAAACAATCATTTTACCACATAAAGGCAAAATAACCATTTTACCCCAT
*
23257886 AAGGGAAAAACAATCATTTTACCACATAAAGGCAAAATAGCCATTTTACCCCAT
1 AAGGGAAAAACAATCATTTTACCACATAAAGGCAAAATAACCATTTTACCCCAT
*
23257940 AAGGGCAAAA
1 AAGGGAAAAA
23257950 TTGTCATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (54 bp):
AAGGGAAAAACAATCATTTTACCACATAAAGGCAAAATAACCATTTTACCCCAT
Found at i:23261857 original size:56 final size:56
Alignment explanation
Indices: 23261797--23261929 Score: 221
Period size: 56 Copynumber: 2.4 Consensus size: 56
23261787 TCCCAGACAG
*
23261797 GGTCTTACTTGCACACATGTAACAGAATCACATATCGACGCCAACGTATTAAATGT
1 GGTCTTACTTGCACACATATAACAGAATCACATATCGACGCCAACGTATTAAATGT
* *
23261853 GGTCTTACTTGCACACATATAACGGGATCACATATCGACGCCAACGTATTAAATGT
1 GGTCTTACTTGCACACATATAACAGAATCACATATCGACGCCAACGTATTAAATGT
**
23261909 GGTCTTACCCGCACACATATA
1 GGTCTTACTTGCACACATATA
23261930 TCGATGCCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (56 bp):
GGTCTTACTTGCACACATATAACAGAATCACATATCGACGCCAACGTATTAAATGT
Found at i:23269126 original size:22 final size:18
Alignment explanation
Indices: 23269079--23269116 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23269069 CTTCGATGCT
23269079 ATAATGTTTATGAAATGA
1 ATAATGTTTATGAAATGA
23269097 ATAATGTTTATGAAATGA
1 ATAATGTTTATGAAATGA
23269115 AT
1 AT
23269117 GTTAAATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (18 bp):
ATAATGTTTATGAAATGA
Found at i:23269224 original size:52 final size:52
Alignment explanation
Indices: 23269141--23269241 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
23269131 ATTGTCCGAA
* * *
23269141 AATGCCTTTAACCCTAGTCCGGCAACGGATACGAGTTAGGGGTGTTACAGGT
1 AATGCCTTTAACCCTAGTCCGACAACAGATACGAGTTAGGGGAGTTACAGGT
* * *
23269193 AATGCCTCTTAA-CCTATTCCGACGACAGATACGGGTTAGGGGAGTTACA
1 AATGCCT-TTAACCCTAGTCCGACAACAGATACGAGTTAGGGGAGTTACA
23269242 ATTGGAGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 38 0.90
53 4 0.10
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (52 bp):
AATGCCTTTAACCCTAGTCCGACAACAGATACGAGTTAGGGGAGTTACAGGT
Found at i:23274454 original size:36 final size:38
Alignment explanation
Indices: 23274377--23274533 Score: 212
Period size: 46 Copynumber: 4.0 Consensus size: 38
23274367 GATATGAAAT
23274377 GTGTAAGACCATGGTTGAAAGATA-CATGGCAACCTGA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
23274414 GTGTAAGACCATGGTTGAAAGATACCAT-G-AACCTGA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
23274450 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG-------A
*
23274495 TGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGA
1 -GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
23274534 TATGAAATGT
Statistics
Matches: 108, Mismatches: 1, Indels: 20
0.84 0.01 0.16
Matches are distributed among these distances:
36 35 0.32
37 26 0.24
38 9 0.08
39 1 0.01
45 1 0.01
46 36 0.33
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (38 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
Found at i:23274520 original size:46 final size:46
Alignment explanation
Indices: 23274453--23274664 Score: 268
Period size: 46 Copynumber: 4.6 Consensus size: 46
23274443 AACCTGAGTG
23274453 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTA
* *
23274499 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTA
* * * *
23274545 TAAGACATATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGAC-CATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTA
* * * *
23274592 CAAGACCATGGTTGAAAGATACCATGGCAACATG--ACAGAATG-A
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTA
* * *
23274635 GTAAGACCATAGTTGAAAGACACTATGGCA
1 -TAAGACCATGGTTGAAAGATACCATGGCA
23274665 TCATGTCAAA
Statistics
Matches: 148, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.01
44 30 0.20
46 76 0.51
47 41 0.28
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTA
Found at i:23274561 original size:93 final size:91
Alignment explanation
Indices: 23274450--23274664 Score: 292
Period size: 93 Copynumber: 2.4 Consensus size: 91
23274440 ATGAACCTGA
* * *
23274450 GTGTAAGAC-CATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTATAAGACCATGGTTGA
1 GTGTAAGACATATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGA
* *
23274514 AAGATACCATGGCAACCTGATATGAAAT
66 AAGATACCATGGCAACATGACA-G-AAT
* *
23274542 GTGTAAGACATATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACCATGGTTGA
1 GTGTAAGACATATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGA
23274607 AAGATACCATGGCAACATGACAGAAT
66 AAGATACCATGGCAACATGACAGAAT
* * *
23274633 GAGTAAGACCATA--GTTGAAAGACACTATGGCA
1 GTGTAAGA-CATATGGTTGAAAGATACCATGGCA
23274665 TCATGTCAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 17 0.15
91 10 0.09
92 14 0.13
93 70 0.63
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (91 bp):
GTGTAAGACATATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGA
AAGATACCATGGCAACATGACAGAAT
Found at i:23277926 original size:38 final size:40
Alignment explanation
Indices: 23277872--23278122 Score: 294
Period size: 46 Copynumber: 5.9 Consensus size: 40
23277862 TCTGATATGA
23277872 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
23277912 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
23277950 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
23277988 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ------AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
23278039 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
23278080 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
23278123 ATGACAGAAA
Statistics
Matches: 190, Mismatches: 2, Indels: 32
0.85 0.01 0.14
Matches are distributed among these distances:
38 75 0.39
39 1 0.01
40 1 0.01
41 5 0.03
44 2 0.01
45 1 0.01
46 103 0.54
51 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:23278018 original size:46 final size:46
Alignment explanation
Indices: 23277951--23278166 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
23277941 GGCAACCTGA
23277951 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
23277997 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
23278043 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
23278089 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
23278135 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
23278167 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:23283311 original size:46 final size:46
Alignment explanation
Indices: 23283244--23283459 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
23283234 GGCAACCTGA
23283244 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
23283290 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
23283336 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
23283382 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
23283428 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
23283460 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:23283439 original size:138 final size:130
Alignment explanation
Indices: 23283194--23283459 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
23283184 AGTGTGCTCT
*
23283194 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
23283259 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
23283324 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
23283389 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
23283454 ATGGCA
123 ATGGCA
23283460 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:23289114 original size:6 final size:6
Alignment explanation
Indices: 23289096--23289177 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
23289086 AAGAAACATT
*
23289096 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
23289145 CTCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
23289178 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 47 0.78
7 7 0.12
8 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:23289140 original size:31 final size:31
Alignment explanation
Indices: 23289105--23289177 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
23289095 TATCAGAACT
*
23289105 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
23289136 AGAATCAGACTCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
23289167 AAAATCAGAAT
1 AGAATCAGAAT
23289178 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:23289442 original size:27 final size:26
Alignment explanation
Indices: 23289394--23289445 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
23289384 GCGAGGCTGC
*
23289394 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
23289420 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
23289446 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23289715 original size:27 final size:27
Alignment explanation
Indices: 23289692--23290011 Score: 385
Period size: 27 Copynumber: 11.8 Consensus size: 27
23289682 GGTTAAAATG
*
23289692 GTAATTTTATAAATCGAGGGTAAAAC-
1 GTAATTTTGTAAATCGAGGGTAAAACA
* *
23289718 GATAATTCTATAAATCGAGGGTAAAACA
1 G-TAATTTTGTAAATCGAGGGTAAAACA
*
23289746 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAACA
* * *
23289773 GTAATTCTGTCAATCGAGGGTAAAA-T
1 GTAATTTTGTAAATCGAGGGTAAAACA
*
23289799 GATAATTTTGTAAATAGAGGGTAAAACA
1 G-TAATTTTGTAAATCGAGGGTAAAACA
23289827 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAACA
* * *
23289854 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAACA
* * * *
23289881 ATAATTTTATAAATCAAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACA
*
23289908 GTAATTTTATAAATCGAGGGTAAAAC-
1 GTAATTTTGTAAATCGAGGGTAAAACA
* *
23289934 GATAATTTTATAAATCAAGGGTAAAACA
1 G-TAATTTTGTAAATCGAGGGTAAAACA
** *
23289962 GTAATTTTGTAAATTAAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAACA
*
23289989 GTAATTTTTGTAATTCGAGGGTA
1 GTAA-TTTTGTAAATCGAGGGTA
23290012 CTTTGATAAT
Statistics
Matches: 258, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 237 0.92
28 18 0.07
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAACA
Found at i:23290062 original size:27 final size:27
Alignment explanation
Indices: 23290032--23290157 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
23290022 TTTACATGTC
* *
23290032 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTTCGGTAATTTTACAAACT
23290059 GAGGGTATTTCGGTAATTTTACAAA-T
1 GAGGGTATTTCGGTAATTTTACAAACT
* * * *
23290085 CGAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCGGTAATTTTACAAACT
*
23290113 GGGGGTACTTT-GGTAATTTTAC-AACT
1 GAGGGTA-TTTCGGTAATTTTACAAACT
* *
23290139 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCGGTAATTT
23290158 GGTAAACTAA
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
25 3 0.04
26 18 0.21
27 60 0.71
28 3 0.04
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTACAAACT
Found at i:23290076 original size:54 final size:54
Alignment explanation
Indices: 23290004--23290157 Score: 177
Period size: 54 Copynumber: 2.9 Consensus size: 54
23289994 TTTTGTAATT
* ** *
23290004 CGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTCAGTAATTTTGCAAAC
1 CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * ** *
23290058 TGAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTACTTT-GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * *
23290112 CGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTT
1 CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
23290158 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 16, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
53 18 0.22
54 61 0.74
55 3 0.04
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.38
Consensus pattern (54 bp):
CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
Found at i:23290154 original size:26 final size:26
Alignment explanation
Indices: 23290005--23290157 Score: 121
Period size: 27 Copynumber: 5.7 Consensus size: 26
23289995 TTTGTAATTC
* **
23290005 GAGGGTACTTT-GATAATTTTACATGT
1 GAGGGTA-TTTCGGTAATTTTACAACT
* *
23290031 CGAGGGTATTTCAGTAATTTTGCAAACT
1 -GAGGGTATTTCGGTAATTTTAC-AACT
*
23290059 GAGGGTATTTCGGTAATTTTACAAAT
1 GAGGGTATTTCGGTAATTTTACAACT
* * * *
23290085 CGAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCGGTAATTTTA-CAACT
*
23290113 GGGGGTACTTT-GGTAATTTTACAACT
1 GAGGGTA-TTTCGGTAATTTTACAACT
* *
23290139 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCGGTAATTT
23290158 GGTAAACTAA
Statistics
Matches: 102, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
25 3 0.03
26 23 0.23
27 69 0.68
28 7 0.07
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (26 bp):
GAGGGTATTTCGGTAATTTTACAACT
Found at i:23294968 original size:27 final size:27
Alignment explanation
Indices: 23294926--23295037 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
23294916 AGGAAGCGTC
*
23294926 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
23294953 CTGGTGGCTCTACCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
23294980 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
23295008 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
23295034 CTGG
1 CTGG
23295038 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:23295032 original size:54 final size:54
Alignment explanation
Indices: 23294926--23295037 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
23294916 AGGAAGCGTC
* *
23294926 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * **
23294980 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
23295034 CTGG
1 CTGG
23295038 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:23298666 original size:93 final size:93
Alignment explanation
Indices: 23298561--23298732 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
23298551 GCCCATAAGT
* * *
23298561 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23298626 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
*
23298654 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
23298719 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
23298733 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:23298728 original size:46 final size:46
Alignment explanation
Indices: 23298553--23298728 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
23298543 TGTAACCCGC
* * *
23298553 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
23298599 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
23298645 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
23298692 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
23298729 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 69 0.64
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:23301145 original size:30 final size:30
Alignment explanation
Indices: 23301101--23301189 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
23301091 CAAAGATAAC
23301101 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
23301130 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
23301160 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
23301190 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:23301149 original size:15 final size:15
Alignment explanation
Indices: 23301101--23301180 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
23301091 CAAAGATAAC
*
23301101 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
23301115 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
23301130 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
23301145 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
23301160 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
23301175 AAGAAA
1 AAGAAA
23301181 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:23301189 original size:15 final size:15
Alignment explanation
Indices: 23301112--23301189 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
23301102 AGAAAACCGA
23301112 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
23301127 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
23301141 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
23301156 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
23301172 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
23301187 ATA
1 ATA
23301190 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:23304193 original size:93 final size:93
Alignment explanation
Indices: 23304081--23304252 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
23304071 GCCCATAAGT
* *
23304081 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23304146 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
23304174 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23304239 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
23304253 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:23304248 original size:46 final size:46
Alignment explanation
Indices: 23304073--23304248 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
23304063 TGTAACCCGC
* *
23304073 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
23304119 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
23304165 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
23304212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
23304249 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:23305721 original size:6 final size:6
Alignment explanation
Indices: 23305703--23305790 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
23305693 AAGAAACATT
*
23305703 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
23305752 ATCAAA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
23305791 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 5 0.08
6 52 0.79
7 6 0.09
8 3 0.05
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:23305724 original size:18 final size:18
Alignment explanation
Indices: 23305703--23305790 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
23305693 AAGAAACATT
23305703 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
23305721 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* *
23305738 GTGACAGAATCAGAATCAAA
1 AT--CAGAATCAGAATCAGA
*
23305758 ATCAGTATCAGGTAAT-AGA
1 ATCAGAATCA-G-AATCAGA
*
23305777 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
23305791 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
17 4 0.07
18 23 0.40
19 26 0.46
20 4 0.07
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:23305750 original size:31 final size:31
Alignment explanation
Indices: 23305712--23305790 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
23305702 TATCAGAACT
*
23305712 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
23305743 AGAATCAGAATCAAAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
23305774 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
23305791 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:23305957 original size:27 final size:26
Alignment explanation
Indices: 23305909--23305968 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
23305899 GCGAGGCTGC
*
23305909 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
23305936 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
23305962 CAGATAT
1 CAGATAT
23305969 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23306054 original size:26 final size:25
Alignment explanation
Indices: 23306007--23306055 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
23305997 ACGAGGCTGC
*
23306007 CAGATATTGTGACGAAGTCACCAAA
1 CAGATATTGTGACGAAGCCACCAAA
* *
23306032 CAGATATATGTGGCGAGGCCACCA
1 CAGATAT-TGTGACGAAGCCACCA
23306056 GCAGCGAGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (25 bp):
CAGATATTGTGACGAAGCCACCAAA
Found at i:23306320 original size:27 final size:27
Alignment explanation
Indices: 23306290--23306619 Score: 480
Period size: 27 Copynumber: 12.2 Consensus size: 27
23306280 AACACCCTAG
** *
23306290 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
23306317 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
23306344 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
23306371 GGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
23306398 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
23306425 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
23306452 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
23306479 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
23306506 GGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
23306533 GGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
23306560 TGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * * *
23306587 GGGTAAAATATTAATTTTTTTAATTCGA
1 GGGTAAAACAGTAA-TTTTGTAAATCGA
23306615 GGGTA
1 GGGTA
23306620 CTTTGATAAT
Statistics
Matches: 275, Mismatches: 27, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
27 259 0.94
28 16 0.06
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:23306641 original size:27 final size:25
Alignment explanation
Indices: 23306604--23306714 Score: 82
Period size: 27 Copynumber: 4.2 Consensus size: 25
23306594 ATATTAATTT
*
23306604 TTTTAATTCGAGGGTACTTTGA-TAA
1 TTTTAATTCGAGGGTA-TTTCAGTAA
23306629 TTTTACATGTCGAGGGTATTTCAGTAA
1 TTTTA-AT-TCGAGGGTATTTCAGTAA
*
23306656 TTTTGCAA-ACTGAGGGTATTTCAGTAA
1 TTTT--AATTC-GAGGGTATTTCAGTAA
* * **
23306683 TTTTACAAATCGAGGATATTTGGGTAA
1 TTTT--AATTCGAGGGTATTTCAGTAA
23306710 TTTTA
1 TTTTA
23306715 TAAACCGGGG
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
25 6 0.08
26 7 0.10
27 56 0.78
28 2 0.03
29 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (25 bp):
TTTTAATTCGAGGGTATTTCAGTAA
Found at i:23306688 original size:54 final size:54
Alignment explanation
Indices: 23306612--23306765 Score: 161
Period size: 54 Copynumber: 2.9 Consensus size: 54
23306602 TTTTTTAATT
** *
23306612 CGAGGGTACTTT-GATAATTTTACATGTCGAGGGTATTTCAGTAATTTTGCAAAC
1 CGAGGGTACTTTAG-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * ** *
23306666 TGAGGGTA-TTTCAGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTACTTT-AGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * * *
23306720 CGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTT
1 CGAGGGTACTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
23306766 AGTAAACTAA
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
53 18 0.22
54 59 0.73
55 4 0.05
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (54 bp):
CGAGGGTACTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
Found at i:23306773 original size:27 final size:25
Alignment explanation
Indices: 23306640--23306765 Score: 101
Period size: 27 Copynumber: 4.8 Consensus size: 25
23306630 TTTACATGTC
23306640 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTTCAGTAATTTT--AAACT
*
23306667 GAGGGTATTTCAGTAATTTTACAAAT
1 GAGGGTATTTCAGTAATTTTA-AACT
* ** *
23306693 CGAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCAGTAA-TTT-TAAACT
* *
23306721 GGGGGTACTTT-GGTAATTTTACAACT
1 GAGGGTA-TTTCAGTAATTTTA-AACT
*
23306747 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCAGTAATTT
23306766 AGTAAACTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
25 6 0.07
26 23 0.28
27 43 0.52
28 8 0.10
29 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (25 bp):
GAGGGTATTTCAGTAATTTTAAACT
Found at i:23306864 original size:26 final size:26
Alignment explanation
Indices: 23306834--23306917 Score: 168
Period size: 26 Copynumber: 3.2 Consensus size: 26
23306824 GGCCCAAATG
23306834 AGCCCACACGCTCGTGTGGCCCTTTT
1 AGCCCACACGCTCGTGTGGCCCTTTT
23306860 AGCCCACACGCTCGTGTGGCCCTTTT
1 AGCCCACACGCTCGTGTGGCCCTTTT
23306886 AGCCCACACGCTCGTGTGGCCCTTTT
1 AGCCCACACGCTCGTGTGGCCCTTTT
23306912 AGCCCA
1 AGCCCA
23306918 AATCTAGCCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 58 1.00
ACGTcount: A:0.13, C:0.39, G:0.23, T:0.25
Consensus pattern (26 bp):
AGCCCACACGCTCGTGTGGCCCTTTT
Found at i:23307770 original size:45 final size:45
Alignment explanation
Indices: 23307654--23307760 Score: 169
Period size: 45 Copynumber: 2.4 Consensus size: 45
23307644 AATTCAGGGT
*
23307654 GTTACAGTGTAAGACCACGTATGGGACGTTGGCATCGATATATGTG
1 GTTAC-GTGTAAGACCACGTATGGGACGTTGGCATCAATATATGTG
* * *
23307700 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATATATGTG
1 GTTACGTGTAAGACCACGTATGGGACGTTGGCATCAATATATGTG
23307745 GTTACGTGTAAGACCA
1 GTTACGTGTAAGACCA
23307761 TGCTTGGGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
45 52 0.95
46 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (45 bp):
GTTACGTGTAAGACCACGTATGGGACGTTGGCATCAATATATGTG
Found at i:23312473 original size:46 final size:46
Alignment explanation
Indices: 23312371--23312498 Score: 150
Period size: 46 Copynumber: 2.8 Consensus size: 46
23312361 AAATTGAGAT
* * *
23312371 CCGAACTTGTTGAGTTGCATTCCGAGTTCACTTATGGATGCAAGCAT
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAGCAC
* * * *
23312418 CTGAACTCGTTGAGTTGTGTTCCAAGTTCATTATGGATGTGAA-CAC
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATG-CAAGCAC
* *
23312464 CCGAGCTCGTTGAGTTGCGTTCTGAGTTCATTATG
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATG
23312499 TGTGAAATTA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
46 41 0.60
47 27 0.40
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAGCAC
Found at i:23319947 original size:46 final size:46
Alignment explanation
Indices: 23319847--23319973 Score: 175
Period size: 46 Copynumber: 2.7 Consensus size: 46
23319837 ATTGAGATCT
* *
23319847 GAACTCGTTGAGTTGCATTCCGAGTTCACTTATGGATGCAAGCATCC
1 GAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAGCACCC
* * *
23319894 GAACTCGTTGAGTTGTGTTCCGAGATCATTATGGATGTGAA-CACCC
1 GAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATG-CAAGCACCC
*
23319940 GAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 GAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
23319974 GTGAAATTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
46 44 0.62
47 27 0.38
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAGCACCC
Found at i:23326621 original size:21 final size:21
Alignment explanation
Indices: 23326593--23326639 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
23326583 CACAAACTAT
23326593 AATG-TCCATATCGAGTTCGA
1 AATGCTCCATATCGAGTTCGA
23326613 AATGCTCCATATCGAGTTCGA
1 AATGCTCCATATCGAGTTCGA
23326634 AATGCT
1 AATGCT
23326640 GTTTATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (21 bp):
AATGCTCCATATCGAGTTCGA
Found at i:23343090 original size:26 final size:26
Alignment explanation
Indices: 23343061--23343111 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
23343051 TACAGTTTTG
23343061 CCCCTAGGAGATAAATT-ACCGAAATA
1 CCCCTAGG-GATAAATTGACCGAAATA
* *
23343087 CCCCTAGGGTTAAATTGACCTAAAT
1 CCCCTAGGGATAAATTGACCGAAAT
23343112 GCATGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCCTAGGGATAAATTGACCGAAATA
Found at i:23350575 original size:2 final size:2
Alignment explanation
Indices: 23350568--23350594 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23350558 AGTTAAATGC
23350568 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 T
23350595 GCTGTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23356366 original size:32 final size:32
Alignment explanation
Indices: 23356299--23356366 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
23356289 CTGTAAACCA
*
23356299 ACACGCCCAAATTGGCCTTGCCCATGTGACTC
1 ACACGCCCAAATTGGCCTTGCCCATGTGACCC
* * ** *
23356331 ACACGCCTAGATTGGCCTTGCCTGTGTGGCCC
1 ACACGCCCAAATTGGCCTTGCCCATGTGACCC
23356363 ACAC
1 ACAC
23356367 AACATGGCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.19, C:0.37, G:0.22, T:0.22
Consensus pattern (32 bp):
ACACGCCCAAATTGGCCTTGCCCATGTGACCC
Found at i:23362211 original size:48 final size:48
Alignment explanation
Indices: 23362108--23362472 Score: 228
Period size: 46 Copynumber: 7.7 Consensus size: 48
23362098 TTATTTGTGT
* *
23362108 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-C-ACTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCGA-GATGAGA
*
23362154 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGAGATGAGA
* * *
23362202 ACTACTGTAAGA-CATGTCTGGGACAT-GCATC-AGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATCGAGATG-AGA
* ** * * *
23362248 GCCAGTGTAAGA-CATGTCAAGGATAT-GCATCGGC-TACGAGATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-CGAGATGAGA
* * *
23362293 TC-AATGTAAGACCATGTCTGGGACATGGCATCGACA-CG-TAT-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGAGATGAGA
* * *
23362337 GGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGGATATGTGAGA
1 -G-CT-AGTGTAAGACCATGTCTGGGACATGGCATCGACATC-GAGA--TGAGA
* * * * * ** * *
23362390 GGTAGTGTAAGACCATGTCTGGGACAGGGCGTC-AGCCTCTATTTCAATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATCGAGAT-GAGA
23362439 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
23362473 GCATTATACC
Statistics
Matches: 255, Mismatches: 37, Indels: 50
0.75 0.11 0.15
Matches are distributed among these distances:
43 1 0.00
44 10 0.04
45 16 0.06
46 66 0.26
47 32 0.13
48 56 0.22
49 33 0.13
50 33 0.13
51 3 0.01
52 2 0.01
53 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGAGATGAGA
Found at i:23366985 original size:43 final size:43
Alignment explanation
Indices: 23366924--23367088 Score: 115
Period size: 43 Copynumber: 3.8 Consensus size: 43
23366914 CAACGCGAAC
*
23366924 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCC-ACT
1 GTCCCAGAAG-GGTCTTACATGTAATCACATATCGATGCCAACT
** * * *
23366967 GTCCCAGATAGGGTCTTACA-CAAACTCATATAT-GTTGCCGA-T
1 GTCCCAGA-AGGGTCTTACATGTAA-TCACATATCGATGCCAACT
** * * *
23367009 GTCCCAGACATAGTCTTACATGTAAATCATAAATCAATGCCAAC-
1 GTCCCAGA-AGGGTCTTACATGT-AATCACATATCGATGCCAACT
* * *
23367053 GTCCCAGACGTGGTCTTACACGCAATCACATATCGA
1 GTCCCAGAAG-GGTCTTACATGTAATCACATATCGA
23367089 AATCCTATGT
Statistics
Matches: 92, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
42 25 0.27
43 42 0.46
44 25 0.27
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
GTCCCAGAAGGGTCTTACATGTAATCACATATCGATGCCAACT
Found at i:23368189 original size:13 final size:13
Alignment explanation
Indices: 23368171--23368195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23368161 ACAAACAATA
23368171 AAATTTTCACACG
1 AAATTTTCACACG
23368184 AAATTTTCACAC
1 AAATTTTCACAC
23368196 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:23379700 original size:10 final size:10
Alignment explanation
Indices: 23379687--23379720 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
23379677 TTAGTACTTA
23379687 TTTTTTTC-T
1 TTTTTTTCTT
23379696 TTTTTTTCTT
1 TTTTTTTCTT
*
23379706 TTTTTTTATT
1 TTTTTTTCTT
23379716 TTTTT
1 TTTTT
23379721 AAATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:23379701 original size:9 final size:9
Alignment explanation
Indices: 23379687--23379720 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
23379677 TTAGTACTTA
23379687 TTTTTTTCT
1 TTTTTTTCT
23379696 TTTTTTTCT
1 TTTTTTTCT
23379705 TTTTTTT-T
1 TTTTTTTCT
23379713 ATTTTTTT
1 -TTTTTTT
23379721 AAATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 1 0.04
9 23 0.96
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:23380006 original size:118 final size:117
Alignment explanation
Indices: 23379846--23380075 Score: 379
Period size: 118 Copynumber: 2.0 Consensus size: 117
23379836 TATTTCCGGT
23379846 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
23379911 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTA-CCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
23379964 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
23380029 CCTACCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
23380076 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
117 39 0.38
118 65 0.62
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (117 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:23380882 original size:43 final size:42
Alignment explanation
Indices: 23380835--23380925 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 42
23380825 TGAAAAGGGG
* * * *
23380835 TGTTTGGCTGCAG-GTTTTGGGGATTCTAAGGCTGGAATAGGAC
1 TGTTTGGCTGCAGAGATAT-GGCATTCT-AGGCTGGAATAGAAC
*
23380878 TGTTTGGCTGCAGAGATATGGCATTCTGGGCTGGAATAGAAC
1 TGTTTGGCTGCAGAGATATGGCATTCTAGGCTGGAATAGAAC
23380920 TGTTTG
1 TGTTTG
23380926 ACAGCATGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 19 0.45
43 20 0.48
44 3 0.07
ACGTcount: A:0.20, C:0.12, G:0.35, T:0.33
Consensus pattern (42 bp):
TGTTTGGCTGCAGAGATATGGCATTCTAGGCTGGAATAGAAC
Found at i:23381058 original size:16 final size:15
Alignment explanation
Indices: 23381033--23381103 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 15
23381023 AATATTTAAC
23381033 TAAAATAAAATAAAAA
1 TAAAA-AAAATAAAAA
23381049 TAAAAGAAAATAATAAA
1 TAAAA-AAAATAA-AAA
23381066 TAATAAAAGAA-AAAAA
1 TAA-AAAA-AATAAAAA
23381082 TAAATAAAAATAAAAA
1 TAAA-AAAAATAAAAA
*
23381098 GAAAAA
1 TAAAAA
23381104 GAAAGATTGG
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.10
16 29 0.60
17 10 0.21
18 4 0.08
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.15
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:23381081 original size:23 final size:23
Alignment explanation
Indices: 23381034--23381103 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 23
23381024 ATATTTAACT
23381034 AAAATAAAATAAAAATAAAAGAAA
1 AAAAT-AAATAAAAATAAAAGAAA
*
23381058 ATAATAAAT---AATAAAAGAAA
1 AAAATAAATAAAAATAAAAGAAA
23381078 AAAATAAATAAAAATAAAAAGAAA
1 AAAATAAATAAAAAT-AAAAGAAA
23381102 AA
1 AA
23381104 GAAAGATTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 19 0.47
23 7 0.17
24 14 0.35
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.14
Consensus pattern (23 bp):
AAAATAAATAAAAATAAAAGAAA
Found at i:23394907 original size:43 final size:43
Alignment explanation
Indices: 23394855--23394938 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
23394845 TTGTAGAAAG
*
23394855 GAAACAAATCAATTGAAACAAAATCT-CAATCGAGAAACCTAGA
1 GAAACAAATCAAGTGAAACAAAAT-TACAATCGAGAAACCTAGA
* * * *
23394898 GAAAGAAATCTAGTGAAATAAAATTACAATTGAGAAACCTA
1 GAAACAAATCAAGTGAAACAAAATTACAATCGAGAAACCTA
23394939 TTAGAAAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.54, C:0.14, G:0.13, T:0.19
Consensus pattern (43 bp):
GAAACAAATCAAGTGAAACAAAATTACAATCGAGAAACCTAGA
Found at i:23397864 original size:17 final size:15
Alignment explanation
Indices: 23397827--23397857 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23397817 GTGTAGCATG
23397827 GTTTAATGAAATAGA
1 GTTTAATGAAATAGA
23397842 GTTTAATGAAATAGA
1 GTTTAATGAAATAGA
23397857 G
1 G
23397858 CGTTTAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (15 bp):
GTTTAATGAAATAGA
Found at i:23403916 original size:3 final size:3
Alignment explanation
Indices: 23403908--23403935 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23403898 TCCACCTGAC
23403908 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23403936 TCACCCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23411484 original size:5 final size:5
Alignment explanation
Indices: 23411480--23411514 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
23411470 ACGTATCGCA
* *
23411480 CCGCA CCGCA CCGCC CCGCC CCGCC CCGCC CCGCC
1 CCGCC CCGCC CCGCC CCGCC CCGCC CCGCC CCGCC
23411515 ACAAACCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.06, C:0.74, G:0.20, T:0.00
Consensus pattern (5 bp):
CCGCC
Found at i:23411491 original size:10 final size:10
Alignment explanation
Indices: 23411476--23411514 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
23411466 CTAAACGTAT
*
23411476 CGCACCGCAC
1 CGCACCGCCC
23411486 CGCACCGCCC
1 CGCACCGCCC
*
23411496 CGCCCCGCCC
1 CGCACCGCCC
*
23411506 CGCCCCGCC
1 CGCACCGCC
23411515 ACAAACCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.08, C:0.72, G:0.21, T:0.00
Consensus pattern (10 bp):
CGCACCGCCC
Found at i:23413361 original size:2 final size:2
Alignment explanation
Indices: 23413354--23413393 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
23413344 AGTCAATCAC
*
23413354 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23413394 CTTTTTTGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23418578 original size:57 final size:56
Alignment explanation
Indices: 23418481--23418609 Score: 145
Period size: 57 Copynumber: 2.3 Consensus size: 56
23418471 AGAAATGGTG
*
23418481 AAATGGAGAAACATGAAACATTGGGAAATGATTAAAGTTTTCTCCAAAATTAAAATAA
1 AAATGGAG-AA-ATGAAACATTGGGAAATGAATAAAGTTTTCTCCAAAATTAAAATAA
* *** * * *
23418539 AAATGGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATTGAAGTGA
1 AAATGGAGAAATGAAA-CATTGGGAAATGAATAAAGTTTTCTCCAAAATTAAAATAA
23418596 AAAT-GA-AAATGAAA
1 AAATGGAGAAATGAAA
23418610 ATGAAAATGA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
55 8 0.13
56 8 0.13
57 38 0.61
58 8 0.13
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (56 bp):
AAATGGAGAAATGAAACATTGGGAAATGAATAAAGTTTTCTCCAAAATTAAAATAA
Found at i:23418604 original size:6 final size:6
Alignment explanation
Indices: 23418593--23418619 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23418583 AAAATTGAAG
23418593 TGAAAA TGAAAA TGAAAA TGAAAA TGA
1 TGAAAA TGAAAA TGAAAA TGAAAA TGA
23418620 GAAACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.19
Consensus pattern (6 bp):
TGAAAA
Found at i:23428120 original size:21 final size:21
Alignment explanation
Indices: 23428094--23428137 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
23428084 ATTGAGATTC
23428094 AATTCGATATGACATATGAAG
1 AATTCGATATGACATATGAAG
23428115 AATTCGATATGACATATGAAG
1 AATTCGATATGACATATGAAG
23428136 AA
1 AA
23428138 GAACTGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (21 bp):
AATTCGATATGACATATGAAG
Done.