Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 119 of 425
Found at i:35387776 original size:25 final size:25
Alignment explanation
Indices: 35387746--35387797 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
35387736 AGATAATTAT
35387746 TTAATTAAAACAAAAACCCCTTTTA
1 TTAATTAAAACAAAAACCCCTTTTA
35387771 TTAATTAAAACAAAAACCCCTTTTA
1 TTAATTAAAACAAAAACCCCTTTTA
35387796 TT
1 TT
35387798 CTTAGGCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (25 bp):
TTAATTAAAACAAAAACCCCTTTTA
Found at i:35391259 original size:50 final size:50
Alignment explanation
Indices: 35391179--35391511 Score: 373
Period size: 50 Copynumber: 6.7 Consensus size: 50
35391169 CATCACGTAC
* * *
35391179 GTAGTACTAAGTGAAGGCTACTACATGTACCAGATTGATAGGTCGCATGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGT
* * * * * * *
35391229 GTACTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTGATCACATGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCACATGT
* * * * * * *
35391280 GTAGTACTAAGTGCAGGCTACTACATATATCAGATGGTTAAGTCACGTGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGT
*
35391330 GTAGTACTAAGTGCAGGCTACTA-GTGTACCAGATTGATAGGTCGCATGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGT
* * * * *
35391379 GTTGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGT
* *
35391429 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTGACATGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGT
* * * *
35391479 GCAGTACTAAGTTCAGGCTACTATGCGTACCAG
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAG
35391512 GGAGCTTCGG
Statistics
Matches: 231, Mismatches: 48, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
49 43 0.19
50 152 0.66
51 35 0.15
52 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGT
Found at i:35391410 original size:99 final size:100
Alignment explanation
Indices: 35391179--35391501 Score: 427
Period size: 99 Copynumber: 3.2 Consensus size: 100
35391169 CATCACGTAC
* * * * * * *
35391179 GTAGTACTAAGTGAAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTACTACTAAGTGCA
1 GTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCA
* * * * * *
35391244 GGCTACTATGCGTACCCG-TTAACTTTGATCACATGT
66 GGCTACTATGTGTACCAGATTGA--TAGGTCGCATGT
* *
35391280 GTAGTACTAAGTGCAGGCTACTACATATATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTGCA
1 GTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCA
35391345 GGCTACTA-GTGTACCAGATTGATAGGTCGCATGT
66 GGCTACTATGTGTACCAGATTGATAGGTCGCATGT
* *
35391379 GTTGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCA
1 GTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCA
35391444 GGCTACTATGTGTACCAGATTGATAGGT-GACATGT
66 GGCTACTATGTGTACCAGATTGATAGGTCG-CATGT
* *
35391479 GCAGTACTAAGTTCAGGCTACTA
1 GTAGTACTAAGTGCAGGCTACTA
35391502 TGCGTACCAG
Statistics
Matches: 197, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
99 79 0.40
100 51 0.26
101 67 0.34
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
GTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCA
GGCTACTATGTGTACCAGATTGATAGGTCGCATGT
Found at i:35391733 original size:16 final size:16
Alignment explanation
Indices: 35391712--35391743 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35391702 AGAATGGAGT
35391712 AAGTGAAATTTTGTAA
1 AAGTGAAATTTTGTAA
35391728 AAGTGAAATTTTGTAA
1 AAGTGAAATTTTGTAA
35391744 TAAAACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AAGTGAAATTTTGTAA
Found at i:35394395 original size:27 final size:27
Alignment explanation
Indices: 35394364--35394420 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
35394354 CAAAACTCAC
35394364 TTTTACTGAACTTAGCATATAACTATT
1 TTTTACTGAACTTAGCATATAACTATT
*
35394391 TTTTACTGAACTTAGCATATAACTGTT
1 TTTTACTGAACTTAGCATATAACTATT
35394418 TTT
1 TTT
35394421 CTCTCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (27 bp):
TTTTACTGAACTTAGCATATAACTATT
Found at i:35399029 original size:38 final size:38
Alignment explanation
Indices: 35398972--35399191 Score: 296
Period size: 38 Copynumber: 5.7 Consensus size: 38
35398962 TGTGTATCTA
*
35398972 GGTTAAATCCCGTAGGCTTCGTGCTGGTATTATATCCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG
*
35399010 GGTTAAATCCCGCATGCTTCGTGCTGGTATTATATCCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG
* * * *
35399048 GGTGAAGTCCCGCAGGCTTCGTACTAGTATTATATCCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG
* * **
35399086 GGTTAAATCCCGCAGGCTTCTTGTTGGTATTACGTCCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG
*
35399124 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATTCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG
* * *
35399162 AGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 -GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
35399192 GACTGGATTC
Statistics
Matches: 157, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 132 0.84
39 6 0.04
40 19 0.12
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.33
Consensus pattern (38 bp):
GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG
Found at i:35399491 original size:44 final size:45
Alignment explanation
Indices: 35399377--35399509 Score: 162
Period size: 45 Copynumber: 3.0 Consensus size: 45
35399367 AGCGATATGT
* ** *
35399377 GTGATTTTCGTGTAAGACCACGTTTGGGACGTTGGCAGCGATATAC
1 GTGA-TTTCGTGTAAGACCACGTCTGGGATATTGGCACCGATATAC
* *
35399423 GTGATTTCGTGTAAGACCGCGTCTGGGATATTGGCATCGAT-TA-
1 GTGATTTCGTGTAAGACCACGTCTGGGATATTGGCACCGATATAC
* *
35399466 GTGATTTACGTGTAAGACCATGTCTGGGATAGTGGCACCGATAT
1 GTGATTT-CGTGTAAGACCACGTCTGGGATATTGGCACCGATAT
35399510 TTGATTACAC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
43 7 0.09
44 32 0.42
45 33 0.43
46 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (45 bp):
GTGATTTCGTGTAAGACCACGTCTGGGATATTGGCACCGATATAC
Found at i:35399515 original size:44 final size:45
Alignment explanation
Indices: 35399377--35399509 Score: 155
Period size: 44 Copynumber: 3.0 Consensus size: 45
35399367 AGCGATATGT
* * * *
35399377 GTGATTTTCGTGTAAGACCACGTTTGGGA-CGTTGGCAGCGATATA
1 GTGATTTACGTGTAAGACCACGTCTGGGATAG-TGGCACCGATATA
* * *
35399422 CGTGATTT-CGTGTAAGACCGCGTCTGGGATATTGGCATCGAT-TA
1 -GTGATTTACGTGTAAGACCACGTCTGGGATAGTGGCACCGATATA
*
35399466 GTGATTTACGTGTAAGACCATGTCTGGGATAGTGGCACCGATAT
1 GTGATTTACGTGTAAGACCACGTCTGGGATAGTGGCACCGATAT
35399510 TTGATTACAC
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
43 7 0.09
44 32 0.43
45 29 0.39
46 7 0.09
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (45 bp):
GTGATTTACGTGTAAGACCACGTCTGGGATAGTGGCACCGATATA
Found at i:35405191 original size:38 final size:38
Alignment explanation
Indices: 35405125--35405253 Score: 213
Period size: 38 Copynumber: 3.4 Consensus size: 38
35405115 ATTTGATGTG
* *
35405125 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
* * *
35405163 TATACGGGTTAAATCCCACAGACATCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
35405201 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
35405239 TATCCGGGTTAAATC
1 TATCCGGGTTAAATC
35405254 TCGTTATATC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 83 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
Found at i:35405262 original size:21 final size:21
Alignment explanation
Indices: 35405236--35405277 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
35405226 CGTGCTGGTA
35405236 TTATATCCGGGTTAAATCTCG
1 TTATATCCGGGTTAAATCTCG
35405257 TTATATCCGGGTTAAATCTCG
1 TTATATCCGGGTTAAATCTCG
35405278 CAGGCTTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (21 bp):
TTATATCCGGGTTAAATCTCG
Found at i:35405633 original size:44 final size:45
Alignment explanation
Indices: 35405519--35405688 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 45
35405509 AGTGATATAT
* * *
35405519 GTGATTTTCGTGTAAGACCACGTCTGGGACGTTGGCAGCGATATAC
1 GTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGAT-TAC
* *
35405565 GTGATTT-CGTGTAAGACCGCGTCTGGGATATTGGCATCGATTA-
1 GTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATTAC
* * *
35405608 GTGATTTACGTGTAAGACCATGTCTGGGACAGTGGCATCGA-TAT
1 GTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATTAC
* ** * *
35405652 TTGA-TTACACGTAAGACCATGTCTGGGACGTTGGCAT
1 GTGATTTACGTGTAAGACCACGTCTGGGACATTGGCAT
35405689 TGTACGAGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
43 38 0.35
44 34 0.31
45 30 0.28
46 7 0.06
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (45 bp):
GTGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATTAC
Found at i:35405680 original size:43 final size:44
Alignment explanation
Indices: 35405512--35405688 Score: 189
Period size: 44 Copynumber: 4.0 Consensus size: 44
35405502 ATCAAAGAGT
* *
35405512 GATATATGTGATTTTCGTGTAAGACCACGTCTGGGACGTTGGCAGC
1 GATATA-GTGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * **
35405558 GATATACGTGATTTCGTGTAAGACCGCGTCTGGGATATTGGCATC
1 GATATA-GTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
*
35405603 GAT-TAGTGATTTACGTGTAAGACCATGTCTGGGACAG-TGGCATC
1 GATATAGTGA-TTACGTGTAAGACCACGTCTGGGAC-GTTGGCATC
* ** *
35405647 GATAT-TTGATTACACGTAAGACCATGTCTGGGACGTTGGCAT
1 GATATAGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
35405689 TGTACGAGTT
Statistics
Matches: 114, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
42 1 0.01
43 33 0.29
44 36 0.32
45 34 0.30
46 10 0.09
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (44 bp):
GATATAGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:35423148 original size:27 final size:27
Alignment explanation
Indices: 35423093--35423177 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
35423083 CAACAAGGCT
* *
35423093 ACCAGAACAGATAA-TGTGACAGAGTC
1 ACCAGAACAGATAATTGTGGCAGAGCC
35423119 ACCAGAACAGATAATTGTGGCAGAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
* * *
35423146 ACCAGATCAGATAATTATGGCATAGCC
1 ACCAGAACAGATAATTGTGGCAGAGCC
35423173 ACCAG
1 ACCAG
35423178 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (27 bp):
ACCAGAACAGATAATTGTGGCAGAGCC
Found at i:35424593 original size:24 final size:23
Alignment explanation
Indices: 35424566--35424670 Score: 129
Period size: 24 Copynumber: 4.4 Consensus size: 23
35424556 GCCGGCCAAC
35424566 TCTTGCTCCTTATCAGCTCCTAAA
1 TCTT-CTCCTTATCAGCTCCTAAA
* *
35424590 TCTTATCCTTTATCAACTCCTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
* *
35424614 TCCTCTCCCTTATCAGCCCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
*
35424638 TCTTCTCCCTTATCAGTTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
35424662 TCTTCTCCT
1 TCTTCTCCT
35424671 GACAACCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
23 6 0.09
24 62 0.89
25 2 0.03
ACGTcount: A:0.21, C:0.36, G:0.04, T:0.39
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:35426860 original size:40 final size:39
Alignment explanation
Indices: 35426815--35426944 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
35426805 CGGAATATAA
35426815 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
35426855 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
35426895 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
35426935 CCGGATATAA
1 CCGGATATAA
35426945 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:35426959 original size:40 final size:40
Alignment explanation
Indices: 35426831--35426982 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
35426821 ATAACCATGT
* * *
35426831 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
35426871 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35426911 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35426951 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
35426983 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:35426965 original size:80 final size:80
Alignment explanation
Indices: 35426831--35426980 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
35426821 ATAACCATGT
*
35426831 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
35426895 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
35426911 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
35426974 CCCGGAT
64 CCCGGAT
35426981 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:35434870 original size:40 final size:39
Alignment explanation
Indices: 35434825--35434954 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
35434815 CGGAATATAA
35434825 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
35434865 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
35434905 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
35434945 CCGGATATAA
1 CCGGATATAA
35434955 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:35434969 original size:40 final size:40
Alignment explanation
Indices: 35434841--35434992 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
35434831 ATAACCATGT
* * *
35434841 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
35434881 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35434921 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35434961 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
35434993 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:35434975 original size:80 final size:80
Alignment explanation
Indices: 35434841--35434990 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
35434831 ATAACCATGT
*
35434841 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
35434905 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
35434921 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
35434984 CCCGGAT
64 CCCGGAT
35434991 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:35447414 original size:63 final size:63
Alignment explanation
Indices: 35447306--35447430 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 63
35447296 TAGATCCTGA
* * *
35447306 ATCTGTTTGTGGATCTACTTGCTTGTGATATTCATAATATGGTGATAACTCTAAATTATATAT
1 ATCTATTTATGGATCTACTTGCTTGTGAGATTCATAATATGGTGATAACTCTAAATTATATAT
35447369 ATCTATTTATGGATCTACTTGCTTGTGAGATTCATAATATGGTGATAACTCTAAATTATATA
1 ATCTATTTATGGATCTACTTGCTTGTGAGATTCATAATATGGTGATAACTCTAAATTATATA
35447431 GACTTTTAGA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (63 bp):
ATCTATTTATGGATCTACTTGCTTGTGAGATTCATAATATGGTGATAACTCTAAATTATATAT
Found at i:35453732 original size:27 final size:27
Alignment explanation
Indices: 35453702--35454151 Score: 530
Period size: 27 Copynumber: 16.7 Consensus size: 27
35453692 TTAGTTTACC
35453702 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
35453729 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35453756 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
35453783 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35453810 AAATTACCAAAATACCCC-AGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
35453836 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
35453863 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
35453890 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
35453917 AAATTACCAAAATACCTTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
35453944 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
35453971 AAATTACCAAAATA-CCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
35453997 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
35454024 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
35454051 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* ***
35454078 AAATTACTAAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
35454105 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
35454132 AAATTACCAAAGTACCCCTG
1 AAATTACCAAAATACCCCTG
35454152 ATTTACAGAA
Statistics
Matches: 363, Mismatches: 56, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
26 48 0.13
27 311 0.86
28 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:35453767 original size:54 final size:54
Alignment explanation
Indices: 35453702--35454094 Score: 601
Period size: 54 Copynumber: 7.3 Consensus size: 54
35453692 TTAGTTTACC
*
35453702 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
35453756 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
35453810 AAATTACCAAAATACCCC-AGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
35453863 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
** * *
35453917 AAATTACCAAAATACCTTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
35453971 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * *
35454024 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
35454078 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
35454095 TCGACCTGTA
Statistics
Matches: 308, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
53 96 0.31
54 212 0.69
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:35453872 original size:107 final size:108
Alignment explanation
Indices: 35453695--35454094 Score: 635
Period size: 107 Copynumber: 3.7 Consensus size: 108
35453685 GAATACTTTA
* * *
35453695 GTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
*
35453760 CACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
66 TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
35453803 GTTTACAAAATTACCAAAATACCCC-AGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
35453867 TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
66 TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
** *
35453910 GTTTACAAAATTACCAAAATACCTTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
35453975 TACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCTTG
66 TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
** * * * * *
35454017 GTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTGATTTGTGAAA
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTG-TTTATAAAA
*
35454081 TTACTAAAATACCC
65 TTACCAAAATACCC
35454095 TCGACCTGTA
Statistics
Matches: 271, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
106 2 0.01
107 195 0.72
108 74 0.27
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (108 bp):
GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
Found at i:35454107 original size:161 final size:161
Alignment explanation
Indices: 35453702--35454149 Score: 603
Period size: 161 Copynumber: 2.8 Consensus size: 161
35453692 TTAGTTTACC
* *
35453702 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* * *
35453767 ATACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCAGT
66 ATACCCTC-GGTTTGTAAAATTACTAAAATACCCTTCGTTTATAAAATTACCAAAATACCCCAGT
* *
35453831 TTGTAAAATTACTAAAATACCCTTTGTTTATA
130 TTGTAAAATTACCAAAATACCCTTGGTTTATA
*
35453863 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* * * **
35453928 ATACCTTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCTGGTT
66 ATACCCTCGGTTTGTAAAATTACTAAAATACCCTTCGTTTATAAAATTACCAAAATACCCCAGTT
*
35453993 TGTAAAATTACCAAAATACCCTTGGTTTGTA
131 TGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * * *
35454024 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
*** * * * * *
35454089 ATACCCTCGACCTGTAAAATTATTGAAATACCC-TCGACTTGTAAAATTACCAAAGTACCCC
66 ATACCCTCGGTTTGTAAAATTACTAAAATACCCTTCG-TTTATAAAATTACCAAAATACCCC
35454150 TGATTTACAG
Statistics
Matches: 252, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
160 2 0.01
161 250 0.99
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (161 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
ATACCCTCGGTTTGTAAAATTACTAAAATACCCTTCGTTTATAAAATTACCAAAATACCCCAGTT
TGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:35454225 original size:27 final size:27
Alignment explanation
Indices: 35454190--35454431 Score: 301
Period size: 27 Copynumber: 9.0 Consensus size: 27
35454180 TTTACAAAAT
* *
35454190 TACCTAAATACCCTTGTAGGGTACAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
35454217 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
35454244 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
35454271 TACTGAAATATCCTTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** *
35454298 TACTAAAATA-CCTCTGTAGGGTAGAAT
1 TACCGAAATACCCT-TGTAGGGTAGAAA
35454325 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
35454352 TATCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * * *
35454379 TA-CTAAATACCCCTGTAGGATAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
35454405 TACCGAGATACCCTTGTAGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
35454431 T
1 T
35454432 TACCATTTTA
Statistics
Matches: 191, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
26 29 0.15
27 159 0.83
28 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:35454307 original size:81 final size:80
Alignment explanation
Indices: 35454195--35454431 Score: 352
Period size: 81 Copynumber: 3.0 Consensus size: 80
35454185 AAAATTACCT
* * * * *
35454195 AAATACCCTTGTAGGGTACAAATACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCTTGTAGGGTAGAATTA-CTAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTG
35454260 TAGGGTAGAAATA-CTG
65 TAGGGTAGAAATATC-G
* *
35454276 AAATATCCTTGTAGGGTAGAATTACTAAAATACCTCTGTAGGGTAGAATTACCGAAATACCCTTG
1 AAATACCCTTGTAGGGTAGAATTACT-AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTG
35454341 TAGGGTAGAAATATCG
65 TAGGGTAGAAATATCG
* *
35454357 AAATACCCTTGTAGGGTAGAATTACTAAATACCCCTGTAGGATAGAATTACCGAGATACCCTTGT
1 AAATACCCTTGTAGGGTAGAATTACTAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGT
35454422 AGGGTA-AAAT
66 AGGGTAGAAAT
35454432 TACCATTTTA
Statistics
Matches: 143, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 4 0.03
80 43 0.30
81 95 0.66
82 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (80 bp):
AAATACCCTTGTAGGGTAGAATTACTAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGT
AGGGTAGAAATATCG
Found at i:35454828 original size:27 final size:26
Alignment explanation
Indices: 35454776--35454835 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
35454766 ATATATATAT
*
35454776 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
35454802 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
35454829 ATATCTG
1 ATATCTG
35454836 ATAACTGAGC
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:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:35455010 original size:6 final size:6
Alignment explanation
Indices: 35454995--35455091 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
35454985 ATTATGTTAC
* * * *
35454995 CTGATA CTGATT CTGATT TTGATT TTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
35455044 CTGATT TTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
35455092 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 62 0.86
7 4 0.06
8 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:35455067 original size:37 final size:31
Alignment explanation
Indices: 35454983--35455080 Score: 151
Period size: 31 Copynumber: 3.2 Consensus size: 31
35454973 TTCTAATTTT
* *
35454983 TGATTATGTTACCTGATACTGATTCTGATTT
1 TGATTTTGTTACCTGATACTGATTCTGATTC
35455014 TGATTTTGTTACCTGATACTGATTCTGATTC
1 TGATTTTGTTACCTGATACTGATTCTGATTC
* * *
35455045 TGATTTTGTCACCTAATTCTGATTCTGATTC
1 TGATTTTGTTACCTGATACTGATTCTGATTC
35455076 TGATT
1 TGATT
35455081 CTAGTTCTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (31 bp):
TGATTTTGTTACCTGATACTGATTCTGATTC
Found at i:35456482 original size:39 final size:39
Alignment explanation
Indices: 35456428--35456543 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
35456418 TTCAGTGATG
35456428 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
35456467 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
35456506 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAA
1 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAA
35456544 ATATGTCCGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:35456567 original size:78 final size:78
Alignment explanation
Indices: 35456428--35456589 Score: 184
Period size: 78 Copynumber: 2.1 Consensus size: 78
35456418 TTCAGTGATG
* * * **
35456428 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCAGACTTAGGGTCCGCAGGC
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTTAAAGTCCGCAGGC
*
35456493 TAT-GTGCTGGAAT
66 T-TCGAGCTGGAAT
* * * * *
35456506 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTTAAAGT-CCGCAGG
*
35456570 CTTCGAGCTGGTAT
65 CTTCGAGCTGGAAT
35456584 TATATC
1 TATATC
35456590 GGGGTTAAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 5 0.07
78 65 0.93
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (78 bp):
TATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTTAAAGTCCGCAGGC
TTCGAGCTGGAAT
Found at i:35456571 original size:39 final size:39
Alignment explanation
Indices: 35456428--35456589 Score: 146
Period size: 39 Copynumber: 4.2 Consensus size: 39
35456418 TTCAGTGATG
* ** * *
35456428 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* ** * *
35456467 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* *
35456506 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * * * * *
35456545 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAAGT-CCGCAGGCTACGTGCTGGAAA
35456584 TATATC
1 TATATC
35456590 GGGGTTAAAT
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 5 0.05
39 103 0.95
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:35469701 original size:40 final size:40
Alignment explanation
Indices: 35469646--35469827 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
35469636 TATTCGGATG
**
35469646 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
35469686 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * *
35469726 ATATCCGAG-TGAAGTCCCGAAGTCATTTGTGCTAGTGACT
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTGACT
*
35469766 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
*
35469806 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
35469828 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
39 15 0.12
40 110 0.86
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:35473542 original size:27 final size:27
Alignment explanation
Indices: 35473512--35473906 Score: 468
Period size: 27 Copynumber: 14.7 Consensus size: 27
35473502 TTTAGTTTAC
35473512 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * * *
35473539 AAAATTACTAAAATACTCTTTGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
35473566 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
35473593 AAAATTACCAAAATACCCTTGGCTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
** *
35473620 AAAATTACCAAAATACCTTTCGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
35473647 AAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
35473674 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
35473701 AAAATTACCAAAATTCCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
35473728 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
35473755 AAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
35473782 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
35473809 AAAAGTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
35473836 AAAATTATCAAAATACCTCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
35473863 -AAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
35473889 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
35473907 TCTACCTGTA
Statistics
Matches: 311, Mismatches: 56, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.07
27 288 0.93
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:35473578 original size:54 final size:54
Alignment explanation
Indices: 35473506--35473879 Score: 552
Period size: 54 Copynumber: 6.9 Consensus size: 54
35473496 GAATACTTTA
* * * *
35473506 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACTCTTT
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
*
35473560 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
* * ** * * *
35473614 GCTTACAAAATTACCAAAATACCTTTCGTTTGTAAAATTACTAAAATACCCTTT
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
*
35473668 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATTCCCTTG
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
* * *
35473722 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTT
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
*
35473776 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAAGTACCAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
* * * *
35473830 GTTTGTAAAATTATCAAAATACCTCTAGTTTGT-AAATTACCAAAATACCC
1 GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
35473880 CTAATTTGTG
Statistics
Matches: 287, Mismatches: 33, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
53 16 0.06
54 271 0.94
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (54 bp):
GTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
Found at i:35473699 original size:108 final size:108
Alignment explanation
Indices: 35473506--35473879 Score: 615
Period size: 108 Copynumber: 3.5 Consensus size: 108
35473496 GAATACTTTA
*
35473506 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACTCTTTGTTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
*
35473571 TACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG
66 TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
* ** *
35473614 GCTTACAAAATTACCAAAATACCTTTCGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
*
35473679 TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATTCCCTTG
66 TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
35473722 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
*
35473787 TACCAAAATACCCCTGGTTTGTAAAAGTACCAAAATACCCTTG
66 TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
** * * * *
35473830 GTTTGTAAAATTATCAAAATACCTCTAGTTTGT-AAATTACCAAAATACCC
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
35473880 CTAATTTGTG
Statistics
Matches: 247, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
107 16 0.06
108 231 0.94
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (108 bp):
GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAAT
TACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
Found at i:35473959 original size:27 final size:27
Alignment explanation
Indices: 35473512--35473960 Score: 385
Period size: 27 Copynumber: 16.7 Consensus size: 27
35473502 TTTAGTTTAC
35473512 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GGTTTGT
* * ** *
35473539 AAAATTACTAAAATACTCTTTGTTTAT
1 AAAATTACCAAAATACCCTCGGTTTGT
*
35473566 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTC-GGTTTGT
* * **
35473593 AAAATTACCAAAATACCCTTGGCTTAC
1 AAAATTACCAAAATACCCTCGGTTTGT
*
35473620 AAAATTACCAAAATACCTTTC-GTTTGT
1 AAAATTACCAAAATACC-CTCGGTTTGT
* ** *
35473647 AAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCTCGGTTTGT
35473674 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GGTTTGT
* * **
35473701 AAAATTACCAAAATTCCCTTGGTTTAC
1 AAAATTACCAAAATACCCTCGGTTTGT
35473728 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GGTTTGT
* ** *
35473755 AAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCTCGGTTTGT
35473782 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GGTTTGT
* *
35473809 AAAAGTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTCGGTTTGT
* *
35473836 AAAATTATCAAAATA-CCTCTAGTTTGT
1 AAAATTACCAAAATACCCTC-GGTTTGT
**
35473863 -AAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTC-GGTTTGT
* ** ****
35473889 GAAATTACTGAAATACCCTCTACCTGT
1 AAAATTACCAAAATACCCTCGGTTTGT
*** **
35473916 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGGTTTGT
*
35473943 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
35473961 CTAATTTATA
Statistics
Matches: 342, Mismatches: 65, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
26 25 0.07
27 315 0.92
28 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGGTTTGT
Found at i:35473989 original size:81 final size:80
Alignment explanation
Indices: 35473783--35473979 Score: 193
Period size: 80 Copynumber: 2.5 Consensus size: 80
35473773 TTTGTTTATA
** * * * * ***
35473783 AAATTACCAAAATACCCCTGGTTTGTAAAAGTACCAAAATACCCT-TGGTTTGTAAAATTATCAA
1 AAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCT-ACCTGTAAAATTATCAA
* *
35473847 AATACCTCTAGTTTGT
65 AATACCTCGAGCTTGT
* * **
35473863 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCTACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCTACCTGTAAAATTATCAAA
35473928 ATACCCTCGA-CTTGT
66 ATA-CCTCGAGCTTGT
*
35473943 AAAATTACCAAAGTACCCCTAATTTAT-AGAATTACCG
1 -AAATTACCAAAATACCCCTAATTTATGA-AATTACCG
35473980 TTTTACCCTC
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
80 60 0.62
81 37 0.38
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTAATTTATGAAATTACCGAAATACCCTCTACCTGTAAAATTATCAAA
ATACCTCGAGCTTGT
Found at i:35474013 original size:27 final size:27
Alignment explanation
Indices: 35473512--35474015 Score: 341
Period size: 27 Copynumber: 18.7 Consensus size: 27
35473502 TTTAGTTTAC
*
35473512 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* * * *
35473539 AAAATTACTAAAATACTCTTTG-TTTAT
1 AAAATTACCAAAATAC-CCTCGATTTGT
*
35473566 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* ** **
35473593 AAAATTACCAAAATACCCTTGGCTTAC
1 AAAATTACCAAAATACCCTCGATTTGT
*
35473620 AAAATTACCAAAATACCTTTCG-TTTGT
1 AAAATTACCAAAATACC-CTCGATTTGT
* * *
35473647 AAAATTACTAAAATACCCTTTG-TTTAT
1 AAAATTACCAAAATACCC-TCGATTTGT
*
35473674 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* * * **
35473701 AAAATTACCAAAATTCCCTTGGTTTAC
1 AAAATTACCAAAATACCCTCGATTTGT
*
35473728 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* * *
35473755 AAAATTACTAAAATACCCTTTG-TTTAT
1 AAAATTACCAAAATACCC-TCGATTTGT
*
35473782 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* * *
35473809 AAAAGTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
35473836 AAAATTATCAAAATA-CCTCTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
*
35473863 -AAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* ** * **
35473889 GAAATTACTGAAATACCCTCTACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*** *
35473916 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * *
35473943 AAAATTACCAAAGTACCC-CTAATTTAT
1 AAAATTACCAAAATACCCTC-GATTTGT
* **** **
35473970 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTGT
35473997 AAAATTACCAAAATACCCT
1 AAAATTACCAAAATACCCT
35474016 TGTAGGTAGA
Statistics
Matches: 376, Mismatches: 78, Indels: 46
0.75 0.16 0.09
Matches are distributed among these distances:
26 26 0.07
27 343 0.91
28 7 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:35474028 original size:27 final size:27
Alignment explanation
Indices: 35473998--35474246 Score: 212
Period size: 27 Copynumber: 9.3 Consensus size: 27
35473988 TCGATTTACA
*
35473998 AAATTACCAAAATACCCTTGTAGGTAG
1 AAATTACCGAAATACCCTTGTAGGTAG
35474025 AAA-TACCGAAATACCCTTGTAGGGTAG
1 AAATTACCGAAATACCCTTGTA-GGTAG
* *
35474052 AAA-TACCGAAATACCCCTGTAAGATAG
1 AAATTACCGAAATACCCTTGT-AGGTAG
* *
35474079 AAA-TACCGAAATACCCCTATAAGGTAG
1 AAATTACCGAAATACCCTTGT-AGGTAG
* **
35474106 -AGTTACTAAAATACCCTTGTAGGGTAG
1 AAATTACCGAAATACCCTTGTA-GGTAG
**
35474133 -AATTATAGAAATACCCTTGTAGGGTAG
1 AAATTACCGAAATACCCTTGTA-GGTAG
*
35474160 AAA-TACCGAAATACCCCTGTAGGGTAG
1 AAATTACCGAAATACCCTTGTA-GGTAG
* *
35474187 -AATTA-CTAAATACCCCTGTAGGATAG
1 AAATTACCGAAATACCCTTGTAGG-TAG
* * *
35474213 -AATTACCGAGATACCTTTGTGGGGTA-
1 AAATTACCGAAATACCCTTGT-AGGTAG
35474239 AAATTACC
1 AAATTACC
35474247 ATTTTACCCC
Statistics
Matches: 189, Mismatches: 23, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
25 2 0.01
26 43 0.23
27 139 0.74
28 5 0.03
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGTAGGTAG
Found at i:35474089 original size:54 final size:54
Alignment explanation
Indices: 35474002--35474227 Score: 240
Period size: 54 Copynumber: 4.2 Consensus size: 54
35473992 TTTACAAAAT
* * *
35474002 TACCAAAATACCCTTGT-AGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
* * * **
35474055 TACCGAAATACCCCTGTAAGATAGAAATACCGAAATACCCCTATAAGGTAGAGT
1 TACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
** * * * ** *
35474109 TACTAAAATACCCTTGTAGGGTAGAATTATAGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
* * * * *
35474163 TACCGAAATACCCCTGTAGGGTAGAATTA-CTAAATACCCCTGTAGGATAGAAT
1 TACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
*
35474216 TACCGAGATACC
1 TACCGAAATACC
35474228 TTTGTGGGGT
Statistics
Matches: 142, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
53 45 0.32
54 97 0.68
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (54 bp):
TACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAA
Found at i:35474129 original size:81 final size:80
Alignment explanation
Indices: 35474002--35474227 Score: 274
Period size: 81 Copynumber: 2.8 Consensus size: 80
35473992 TTTACAAAAT
* * * * * *
35474002 TACCAAAATACCCTTGT-AGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATAC
1 TACCGAAATACCCCTATAAGGTAGAATTA-CTAAATACCCTTGTAGGGTAGAATTACCGAAATAC
35474066 CCCTGTAAGATAGAAA
65 CCCTGTAAGATAGAAA
* **
35474082 TACCGAAATACCCCTATAAGGTAGAGTTACTAAAATACCCTTGTAGGGTAGAATTATAGAAATAC
1 TACCGAAATACCCCTATAAGGTAGAATTACT-AAATACCCTTGTAGGGTAGAATTACCGAAATAC
* * *
35474147 CCTTGTAGGGTAGAAA
65 CCCTGTAAGATAGAAA
* * * * *
35474163 TACCGAAATACCCCTGTAGGGTAGAATTACTAAATACCCCTGTAGGATAGAATTACCGAGATACC
1 TACCGAAATACCCCTATAAGGTAGAATTACTAAATACCCTTGTAGGGTAGAATTACCGAAATACC
35474228 TTTGTGGGGT
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
80 44 0.35
81 80 0.65
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (80 bp):
TACCGAAATACCCCTATAAGGTAGAATTACTAAATACCCTTGTAGGGTAGAATTACCGAAATACC
CCTGTAAGATAGAAA
Found at i:35476320 original size:40 final size:39
Alignment explanation
Indices: 35476263--35476446 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 39
35476253 ATTAAATGAT
* * *
35476263 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * *
35476303 ATCCGGGTTAAGACCCGAAGGCAATTATGC-AGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
* **
35476342 ATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
35476382 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
35476422 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
35476447 CGTGCATGTG
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 88 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:35476382 original size:79 final size:80
Alignment explanation
Indices: 35476262--35476467 Score: 238
Period size: 79 Copynumber: 2.6 Consensus size: 80
35476252 AATTAAATGA
* * ** * *
35476262 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
35476327 TTATGC-AGT-G-AC
66 TTATGCAAGTCGTAC
* * *
35476339 TAAATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
35476404 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
35476421 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
35476468 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
77 1 0.01
79 59 0.55
80 45 0.42
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:35476452 original size:40 final size:39
Alignment explanation
Indices: 35476261--35476467 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
35476251 CAATTAAATG
* * ** *
35476261 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * *
35476301 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGC-AGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
* *
35476340 AAATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
35476380 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
35476420 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
35476460 ATATCCGG
1 ATATCCGG
35476468 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
38 4 0.03
39 30 0.21
40 103 0.73
41 5 0.04
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:35484125 original size:30 final size:30
Alignment explanation
Indices: 35484091--35484151 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35484081 TCCTTAACTC
35484091 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
35484121 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
35484151 A
1 A
35484152 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:35488170 original size:66 final size:64
Alignment explanation
Indices: 35488087--35488238 Score: 180
Period size: 66 Copynumber: 2.3 Consensus size: 64
35488077 CTAGCCAGTT
* * *
35488087 TATCTCGTAGCTCTCTTGTCTACATGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACAT
1 TATCTCGTAGCTCTCTTGTCTACATG-GT-CTACACATAGAACCAC-CATGCGACCTAGCTACAT
35488152 -A
63 CA
* * * *
35488153 TATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCATGCGACCTAGCTACATCA
1 TATCTCGTAGCTCTCTTGTCTACATGGTCTACACATAGAACCACCATGCGACCTAGCTACATCA
35488217 TAATGTCTCGTAGCTCTCTTGT
1 T-A--TCTCGTAGCTCTCTTGT
35488239 ACACATGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
63 18 0.24
64 12 0.16
65 3 0.04
66 25 0.34
67 16 0.22
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (64 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTCTACACATAGAACCACCATGCGACCTAGCTACATCA
Found at i:35488245 original size:67 final size:64
Alignment explanation
Indices: 35488033--35488283 Score: 201
Period size: 67 Copynumber: 3.8 Consensus size: 64
35488023 CATAATTTTG
* * * *
35488033 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCA-CCATGCGACCTAGCTACA-TATATTCTCG
35488094 TA
63 TA
* * * * * *
35488096 GCTCTCTTGTCTACATGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATA-TCCCG
1 GCTCTCTTGTCTACATG-GT-GTACACATAGTACCAC-CATGCGACCTAGCTACATATATTCTCG
35488160 TA
63 TA
*
35488162 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCATGCGACCTAGCTACATCATAATGTCTCG
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCATGCGACCTAGCTACAT-AT-AT-TCTCG
35488227 TA
63 TA
* * * * *
35488229 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGTACCA-CCATGCGACCTAGCTACATA
35488284 CCATCTGTAT
Statistics
Matches: 153, Mismatches: 22, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
62 1 0.01
63 33 0.22
64 15 0.10
65 24 0.16
66 27 0.18
67 35 0.23
68 18 0.12
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCATGCGACCTAGCTACATATATTCTCGTA
Found at i:35488780 original size:29 final size:30
Alignment explanation
Indices: 35488747--35488806 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
35488737 TCCTTAACTC
35488747 AAACTTTGACAAAATTA-AATTTTGCCCCT
1 AAACTTTGACAAAATTACAATTTTGCCCCT
* * * *
35488776 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTGACAAAATTACAATTTTGCCCCT
35488806 A
1 A
35488807 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTGACAAAATTACAATTTTGCCCCT
Found at i:35493162 original size:67 final size:64
Alignment explanation
Indices: 35492949--35493200 Score: 203
Period size: 67 Copynumber: 3.8 Consensus size: 64
35492939 CATAATTTTG
* * * *
35492949 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCA-CCATGCGACCTAGCTACA-TATATTCTCG
35493010 TA
63 TA
* * * * *
35493012 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATA-TCCC
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCAC-CATGCGACCTAGCTACATATATTCTC
35493076 GTA
62 GTA
*
35493079 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCATGCGACCTAGCTACATCATAATGTCTCG
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCATGCGACCTAGCTACAT-AT-AT-TCTCG
35493144 TA
63 TA
* * * * *
35493146 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGTACCA-CCATGCGACCTAGCTACATA
35493201 CCATCTGTAT
Statistics
Matches: 155, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
62 1 0.01
63 36 0.23
64 12 0.08
65 2 0.01
66 22 0.14
67 62 0.40
68 20 0.13
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCATGCGACCTAGCTACATATATTCTCGTA
Found at i:35499622 original size:247 final size:247
Alignment explanation
Indices: 35499160--35499649 Score: 838
Period size: 247 Copynumber: 2.0 Consensus size: 247
35499150 GTTTAGGCCC
*
35499160 TAAATCGGGCTGTTACAGCAACTTCTGCAAAGAAGCCAGAATAGGCAAATTAAACATGCAATCTA
1 TAAATCGGGCTGTTAAAGCAACTTCTGCAAAGAAGCCAGAATAGGCAAATTAAACATGCAATCTA
*
35499225 TAAAATTTCTTATCAACACCCTAACACATGCATCTAATCACTCAGTAAATCATAAAAATTAATCG
66 TAAAATTTCTTATCAACAACCTAACACATGCATCTAATCACTCAGTAAATCATAAAAATTAATCG
*
35499290 AAATAAACTTTTCTATCTCAGATTTGTGGTTTCCAACCACTATTCCATTTAAGCCCTATTTCGAG
131 AAATAAACTTTTCTATCTCAGATTTGTGGTTTCCAACCACTATTACATTTAAGCCCTATTTCGAG
*
35499355 ATGTTACATTTCTCCCCCCTTTAGGGATTTTCGTCCCTGAAAATCTTATCAG
196 ATGTTACATTTCTCCCCCCTTTAGGGATTTTCGTCCCTCAAAATCTTATCAG
* * ** *
35499407 TAAATCGGGCTGTTAAAGCAACTTCTGCCAATAAGCCCTAATAGGTAAATTAAACATGCAATCTA
1 TAAATCGGGCTGTTAAAGCAACTTCTGCAAAGAAGCCAGAATAGGCAAATTAAACATGCAATCTA
* * *
35499472 TAAAATTTCTTATCAATAATCTAACACATGCATCTAATCACTCAGTAAATCATAAAAATTAATTG
66 TAAAATTTCTTATCAACAACCTAACACATGCATCTAATCACTCAGTAAATCATAAAAATTAATCG
**
35499537 AAATAAACTTTTCTATCTCAGATTTGTGGTTTCGCAATTACTATTACATTTAAGCCCTATTTCGA
131 AAATAAACTTTTCTATCTCAGATTTGTGGTTTC-CAACCACTATTACATTTAAGCCCTATTTCGA
35499602 GATGTTACATTTCT-CCCCCTTTAGGGATTTTCGTCCCTCAAAATCTTA
195 GATGTTACATTTCTCCCCCCTTTAGGGATTTTCGTCCCTCAAAATCTTA
35499650 CCGGTAAAAA
Statistics
Matches: 228, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
247 186 0.82
248 42 0.18
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (247 bp):
TAAATCGGGCTGTTAAAGCAACTTCTGCAAAGAAGCCAGAATAGGCAAATTAAACATGCAATCTA
TAAAATTTCTTATCAACAACCTAACACATGCATCTAATCACTCAGTAAATCATAAAAATTAATCG
AAATAAACTTTTCTATCTCAGATTTGTGGTTTCCAACCACTATTACATTTAAGCCCTATTTCGAG
ATGTTACATTTCTCCCCCCTTTAGGGATTTTCGTCCCTCAAAATCTTATCAG
Found at i:35508119 original size:48 final size:47
Alignment explanation
Indices: 35508048--35508171 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 47
35508038 GATCCCGTGA
* *
35508048 AAGACCATGTCTGGAACATGGCATCGGCGTTGATATGTATGCCAATGT
1 AAGACCATGTCTGG-ACATGGCATCGGCGATGATATGTATGCAAATGT
** *
35508096 AAGACCATGTCTAGGACATGGCATTAGTGATGATATGTATGCAAATGT
1 AAGACCATGTCT-GGACATGGCATCGGCGATGATATGTATGCAAATGT
*
35508144 AAGACCATGTCTGGGATATGGCATCGGC
1 AAGACCATGTCT-GGACATGGCATCGGC
35508172 ACCAATATGT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 63 0.97
49 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (47 bp):
AAGACCATGTCTGGACATGGCATCGGCGATGATATGTATGCAAATGT
Found at i:35508180 original size:48 final size:47
Alignment explanation
Indices: 35508048--35508221 Score: 163
Period size: 48 Copynumber: 3.6 Consensus size: 47
35508038 GATCCCGTGA
* *
35508048 AAGACCATGTCTGGAACATGGCATCGGCGTTGATATGTATGCCAATGT
1 AAGACCATGTCTGGGACATGGCATCGGC-ATGATATGTATGCCAATGT
* * *
35508096 AAGACCATGTCTAGGACATGGCATTAGTG-ATGATATGTATGCAAATGT
1 AAGACCATGTCTGGGACATGGCA-TCG-GCATGATATGTATGCCAATGT
* ** * *
35508144 AAGACCATGTCTGGGATATGGCATCGGCACCAATATGTGAT-CCCATAT
1 AAGACCATGTCTGGGACATGGCATCGGCA-TGATATGT-ATGCCAATGT
* * * *
35508192 AAGACCATATCAGGGATATGGCTTCGGCAT
1 AAGACCATGTCTGGGACATGGCATCGGCAT
35508222 CGTTAAGTGA
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 95 0.91
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (47 bp):
AAGACCATGTCTGGGACATGGCATCGGCATGATATGTATGCCAATGT
Found at i:35508232 original size:48 final size:48
Alignment explanation
Indices: 35508143--35508260 Score: 137
Period size: 48 Copynumber: 2.5 Consensus size: 48
35508133 TATGCAAATG
* *
35508143 TAAGACCATGTCTGGGATATGGCATCGGCACCAATATGTGATCCCATA
1 TAAGACCATATCTGGGATATGGCATCGGCACCAATAAGTGATCCCATA
* * * ** ****
35508191 TAAGACCATATCAGGGATATGGCTTCGGCATCGTTAAGTGATTTTGTA
1 TAAGACCATATCTGGGATATGGCATCGGCACCAATAAGTGATCCCATA
35508239 TAAGACCATATCTGGGATATGG
1 TAAGACCATATCTGGGATATGG
35508261 TGTCCATAAG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (48 bp):
TAAGACCATATCTGGGATATGGCATCGGCACCAATAAGTGATCCCATA
Found at i:35525056 original size:45 final size:45
Alignment explanation
Indices: 35524907--35525249 Score: 250
Period size: 45 Copynumber: 7.5 Consensus size: 45
35524897 TGTATGCTAT
* * *
35524907 TGTAAGACCAT-TCTGGACATGGCATCGGCATTGA-TATGTGCGCTAG
1 TGTAAGACCATGT-TGGACATGGCATCGACGTTGATTATGAGC-C-AG
** * ** * *
35524953 TGTTAA-ACCACATTGGACATGGCATCGGCCAT-ATTACGAGAGTCAG
1 TG-TAAGACCATGTTGGACATGGCATCGACGTTGATTA--TGAGCCAG
**
35524999 TGTAAGACCATGTTACACATGGCATCGACGTTGATTATGAGCCAG
1 TGTAAGACCATGTTGGACATGGCATCGACGTTGATTATGAGCCAG
* * **
35525044 TATAAGACCATGTTGGACATGGCATCAGCCACATT-ACGA-GAGCCAG
1 TGTAAGACCATGTTGGACATGGCATC-G--ACGTTGATTATGAGCCAG
** * * * *
35525090 TGTAAGACCATCCTAGACATGACATC-AGTGTTGATTGTGAGCCAG
1 TGTAAGACCATGTTGGACATGGCATCGA-CGTTGATTATGAGCCAG
*
35525135 TGTAAGACCATGTTGGACATGGCATCGACGTTGATTGTGAGCCAG
1 TGTAAGACCATGTTGGACATGGCATCGACGTTGATTATGAGCCAG
* * * ** * *
35525180 TGTAAGACCATGTTGGACATGGCCTCGGCATTGAGAAGAGAGCTAG
1 TGTAAGACCATGTTGGACATGGCATCGACGTTGATTA-TGAGCCAG
35525226 TGTAAGACCATGTTTGGGACATGG
1 TGTAAGACCATG-TT-GGACATGG
35525250 TGTCAATAAT
Statistics
Matches: 236, Mismatches: 44, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 1 0.00
45 109 0.46
46 96 0.41
47 13 0.06
48 14 0.06
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (45 bp):
TGTAAGACCATGTTGGACATGGCATCGACGTTGATTATGAGCCAG
Found at i:35525228 original size:91 final size:90
Alignment explanation
Indices: 35524907--35525249 Score: 293
Period size: 91 Copynumber: 3.8 Consensus size: 90
35524897 TGTATGCTAT
* * * * **
35524907 TGTAAGACCAT-TCTGGACATGGCATCGGCATTGATATGTGCGCTAGTGTTAA-ACCACATTGGA
1 TGTAAGACCATGT-TAGACATGGCATCGGCATTGATAAGTGAGCCAGTG-TAAGACCATGTTGGA
* *
35524970 CATGGCATCGGCCA-TATTACGAGAGTCAG
64 CATGGCATC-GACATTATT--GAGAGCCAG
* * * * *
35524999 TGTAAGACCATGTTACACATGGCATCGACGTTGATTA-TGAGCCAGTATAAGACCATGTTGGACA
1 TGTAAGACCATGTTAGACATGGCATCGGCATTGATAAGTGAGCCAGTGTAAGACCATGTTGGACA
*
35525063 TGGCATCAGCCACATTA-CGAGAGCCAG
66 TGGCATC-G--ACATTATTGAGAGCCAG
** * * ** *
35525090 TGTAAGACCATCCTAGACATGACATCAGTGTTGAT-TGTGAGCCAGTGTAAGACCATGTTGGACA
1 TGTAAGACCATGTTAGACATGGCATCGGCATTGATAAGTGAGCCAGTGTAAGACCATGTTGGACA
* *
35525154 TGGCATCGACGTTGATTGTGAGCCAG
66 TGGCATCGACATT-ATTGAGAGCCAG
* * * * *
35525180 TGTAAGACCATGTTGGACATGGCCTCGGCATTGAGAAGAGAGCTAGTGTAAGACCATGTTTGGGA
1 TGTAAGACCATGTTAGACATGGCATCGGCATTGATAAGTGAGCCAGTGTAAGACCATG-TT-GGA
35525245 CATGG
64 CATGG
35525250 TGTCAATAAT
Statistics
Matches: 201, Mismatches: 39, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
88 4 0.02
89 1 0.00
90 38 0.19
91 114 0.57
92 31 0.15
93 11 0.05
94 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (90 bp):
TGTAAGACCATGTTAGACATGGCATCGGCATTGATAAGTGAGCCAGTGTAAGACCATGTTGGACA
TGGCATCGACATTATTGAGAGCCAG
Found at i:35528014 original size:11 final size:10
Alignment explanation
Indices: 35527997--35528133 Score: 95
Period size: 11 Copynumber: 13.0 Consensus size: 10
35527987 TATACTAAAC
35527997 ATAAATAATA
1 ATAAATAATA
35528007 ACTAAATAATA
1 A-TAAATAATA
35528018 ACTAAATAGA-A
1 A-TAAATA-ATA
35528029 ATAAA-AATA
1 ATAAATAATA
35528038 TATATAATAATA
1 -ATA-AATAATA
*
35528050 ATAAATAAAA
1 ATAAATAATA
35528060 ATAATATTAATA
1 ATAA-A-TAATA
35528072 TATAAATAGATA
1 -ATAAATA-ATA
35528084 ATATAATAATA
1 ATA-AATAATA
*
35528095 GATAATAGAATA
1 -ATAA-ATAATA
* *
35528107 ATAGAT-AGA
1 ATAAATAATA
35528116 AT-AATAA-A
1 ATAAATAATA
35528124 ATAAATAATA
1 ATAAATAATA
35528134 TAGAAATATA
Statistics
Matches: 104, Mismatches: 7, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
8 6 0.06
9 12 0.12
10 20 0.19
11 37 0.36
12 25 0.24
13 4 0.04
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (10 bp):
ATAAATAATA
Found at i:35528015 original size:15 final size:14
Alignment explanation
Indices: 35527947--35528133 Score: 91
Period size: 15 Copynumber: 12.9 Consensus size: 14
35527937 TCTAATTTAT
*
35527947 TAAATTAATAATAA
1 TAAATAAATAATAA
*
35527961 TTAAATTAATAATAA
1 -TAAATAAATAATAA
*
35527976 TAAATTCTAAAT-ATAC
1 TAAA---TAAATAATAA
* *
35527992 TAAACATA-AATAA
1 TAAATAAATAATAA
*
35528005 TAACTAAATAATAA
1 TAAATAAATAATAA
*
35528019 CTAAATAGA-AATAA
1 -TAAATAAATAATAA
35528033 -AAATATATATAATAA
1 TAAATA-A-ATAATAA
*
35528048 T-AATAAATAAAAA
1 TAAATAAATAATAA
*
35528061 TAATATTAATATATAAA
1 TAA-ATAAATA-AT-AA
*
35528078 TAGATAATATAATAA
1 TAAATAA-ATAATAA
* *
35528093 TAGATAATAGAATAA
1 TAAATAA-ATAATAA
*
35528108 TAGATAGAATAAT-A
1 TAAATA-AATAATAA
35528122 -AAATAAATAATA
1 TAAATAAATAATA
35528134 TAGAAATATA
Statistics
Matches: 136, Mismatches: 19, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
12 11 0.08
13 21 0.15
14 18 0.13
15 61 0.45
16 14 0.10
17 11 0.08
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (14 bp):
TAAATAAATAATAA
Found at i:35528017 original size:3 final size:3
Alignment explanation
Indices: 35528000--35528133 Score: 64
Period size: 3 Copynumber: 42.3 Consensus size: 3
35527990 ACTAAACATA
*
35528000 AAT AAT AACT AAAT AAT AACT AAAT AGA- AAT AAA AAT -AT ATAT AAT
1 AAT AAT AA-T -AAT AAT AA-T -AAT A-AT AAT AAT AAT AAT A-AT AAT
* *
35528046 AAT AAT AAAT AAA AAT AAT ATT AAT ATAT AAAT AGAT AAT -AT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT A-AT -AAT A-AT AAT AAT AAT AAT
* *
35528094 AGAT AAT -AG AAT AAT AGAT -AG AAT AAT AA- AAT AAAT AAT A
1 A-AT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT A
35528134 TAGAAATATA
Statistics
Matches: 102, Mismatches: 10, Indels: 38
0.68 0.07 0.25
Matches are distributed among these distances:
2 9 0.09
3 62 0.61
4 26 0.25
5 5 0.05
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:35528176 original size:14 final size:14
Alignment explanation
Indices: 35528157--35528197 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
35528147 TTATAAATCG
35528157 AAATATATTAATAT
1 AAATATATTAATAT
*
35528171 AAATATAATAATAT
1 AAATATATTAATAT
35528185 AAATATTATTAAT
1 AAATA-TATTAAT
35528198 TACTTAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATATTAATAT
Found at i:35533901 original size:29 final size:28
Alignment explanation
Indices: 35533867--35533969 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
35533857 TACTCAATCA
*
35533867 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
35533896 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
35533925 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
35533954 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
35533970 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:35541918 original size:29 final size:28
Alignment explanation
Indices: 35541884--35541986 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
35541874 TACTCAATCA
*
35541884 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
35541913 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
35541942 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
35541971 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
35541987 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:35546627 original size:55 final size:54
Alignment explanation
Indices: 35546550--35546667 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
35546540 TCCCTTCTCC
* * *
35546550 CATGCTCGTGTTAATTTAACAGGTTCAACCACGGGTACTTGGCACGGGCGTGTCG
1 CATGCCCGTATTAATTTAACAGGTTCAACCA-GGGTACTAGGCACGGGCGTGTCG
* * * * *
35546605 TATGCCCGTATTAATTTGACAGGTTCAGCCATGGTTCTAGGCACGGGCGTGTCG
1 CATGCCCGTATTAATTTAACAGGTTCAACCAGGGTACTAGGCACGGGCGTGTCG
*
35546659 CATGTCCGT
1 CATGCCCGT
35546668 GTTGTTTTGG
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
54 27 0.51
55 26 0.49
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (54 bp):
CATGCCCGTATTAATTTAACAGGTTCAACCAGGGTACTAGGCACGGGCGTGTCG
Found at i:35550810 original size:13 final size:13
Alignment explanation
Indices: 35550792--35550818 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35550782 GCTCAGCAGG
35550792 GACACGCCCGTGT
1 GACACGCCCGTGT
35550805 GACACGCCCGTGT
1 GACACGCCCGTGT
35550818 G
1 G
35550819 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:35551227 original size:43 final size:43
Alignment explanation
Indices: 35551195--35551373 Score: 175
Period size: 43 Copynumber: 4.2 Consensus size: 43
35551185 CCTACATGTT
* * *
35551195 ATCACATATCGGTGCCAATGTCCCAGACATGGTCTTCCACGAA
1 ATCACATAACGATGCCAATGTCCCAGACATGGTCTTACACGAA
*
35551238 ATCATATAACGATGCCAATGTCCCAGACATGGTCTTACAC-ATA
1 ATCACATAACGATGCCAATGTCCCAGACATGGTCTTACACGA-A
* * * * *
35551281 ATCACA-ATACAATGCCAGTGTCCCCGACATGTTCTTACACGTA
1 ATCACATA-ACGATGCCAATGTCCCAGACATGGTCTTACACGAA
* * * * * *
35551324 AGCACA-ATACAATGCCAATGTCCCAGGCATGTTCTTACATGCA
1 ATCACATA-ACGATGCCAATGTCCCAGACATGGTCTTACACGAA
35551367 ATCACAT
1 ATCACAT
35551374 CTCGATAATA
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.02
43 113 0.98
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
ATCACATAACGATGCCAATGTCCCAGACATGGTCTTACACGAA
Found at i:35554994 original size:20 final size:21
Alignment explanation
Indices: 35554950--35554995 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
35554940 ACTGTTTTGT
35554950 TATGGG-CCAACTATATTGAA
1 TATGGGCCCAACTATATTGAA
* *
35554970 T-TGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTATATTGAA
35554989 TATGGGC
1 TATGGGC
35554996 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (21 bp):
TATGGGCCCAACTATATTGAA
Found at i:35555115 original size:28 final size:27
Alignment explanation
Indices: 35555072--35555129 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
35555062 TAATATACTC
* *
35555072 TAATATTGTAAGGGGCTATGGCCCAGAT
1 TAATATTGAAAGGGGCTAAGGCCCAG-T
*
35555100 TAATATTGAAATGGGCTAAGGCCCAGT
1 TAATATTGAAAGGGGCTAAGGCCCAGT
35555127 TAA
1 TAA
35555130 CTCTGATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (27 bp):
TAATATTGAAAGGGGCTAAGGCCCAGT
Found at i:35564400 original size:20 final size:19
Alignment explanation
Indices: 35564364--35564414 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
35564354 ATGGGCTATT
*
35564364 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
35564383 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
35564403 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
35564415 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:35565884 original size:25 final size:25
Alignment explanation
Indices: 35565855--35565920 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
35565845 TAGTGGCAAG
35565855 GTGACGCCACTTAGGGGACAAGGAA
1 GTGACGCCACTTAGGGGACAAGGAA
35565880 GTGACGCCACTTAGGGGACAAGGAA
1 GTGACGCCACTTAGGGGACAAGGAA
35565905 GTGACGCCA--TAGGGGA
1 GTGACGCCACTTAGGGGA
35565921 AGCAAGGGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 7 0.17
25 34 0.83
ACGTcount: A:0.30, C:0.20, G:0.38, T:0.12
Consensus pattern (25 bp):
GTGACGCCACTTAGGGGACAAGGAA
Found at i:35566736 original size:54 final size:54
Alignment explanation
Indices: 35566627--35566795 Score: 191
Period size: 54 Copynumber: 3.1 Consensus size: 54
35566617 TTAGTTTACC
* *
35566627 AAATTACTGAAATATCCTC-AGTTGTAAAATTACCAAAGTACCCTCGGTTTATA
1 AAATTACTGAAATATCCTCGAGTTGCAAAATTACCAAAGTACCCTCAGTTTATA
** * * *
35566680 AAATTACCCAAATATCCTCGATTTGCAAAATTATCGAAA-TACCCTCAGTTTGTA
1 AAATTACTGAAATATCCTCGAGTTGCAAAATTA-CCAAAGTACCCTCAGTTTATA
* ** * *
35566734 AAATTACTGAAATACCCTCGACATGTAAAATTACCAAAGTACCCTC-GATTTACA
1 AAATTACTGAAATATCCTCGAGTTGCAAAATTACCAAAGTACCCTCAG-TTTATA
35566788 AAATTACT
1 AAATTACT
35566796 ATTTTACCCT
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 22 0.23
54 70 0.73
55 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACTGAAATATCCTCGAGTTGCAAAATTACCAAAGTACCCTCAGTTTATA
Found at i:35566763 original size:81 final size:80
Alignment explanation
Indices: 35566621--35566795 Score: 212
Period size: 81 Copynumber: 2.2 Consensus size: 80
35566611 AATACTTTAG
* * ***
35566621 TTTACCAAATTACTGAAATATCCTCAGTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTA
1 TTTACAAAATTACTGAAATACCCTCAGTTGTAAAATTACCAAAGTACCCTCGACATATAAAATTA
*
35566686 CCCAAA-TATCCTCGA
66 -CCAAAGTACCCTCGA
* * *
35566701 TTTGCAAAATTA-TCGAAATACCCTCAGTTTGTAAAATTACTGAAA-TACCCTCGACATGTAAAA
1 TTTACAAAATTACT-GAAATACCCTCAG-TTGTAAAATTAC-CAAAGTACCCTCGACATATAAAA
35566764 TTACCAAAGTACCCTCGA
63 TTACCAAAGTACCCTCGA
35566782 TTTACAAAATTACT
1 TTTACAAAATTACT
35566796 ATTTTACCCT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
79 1 0.01
80 27 0.34
81 48 0.60
82 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (80 bp):
TTTACAAAATTACTGAAATACCCTCAGTTGTAAAATTACCAAAGTACCCTCGACATATAAAATTA
CCAAAGTACCCTCGA
Found at i:35566803 original size:27 final size:27
Alignment explanation
Indices: 35566773--35567012 Score: 336
Period size: 27 Copynumber: 8.9 Consensus size: 27
35566763 ATTACCAAAG
*
35566773 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
35566800 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
35566827 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
35566854 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * * *
35566881 TACCCTTGAATTATAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
** *
35566908 TACCCTCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACTATTT
* *
35566935 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
35566962 TACCCTCGATTTAGAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
35566989 TACCCTCGATTTAGAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
35567013 AAATACCCCT
Statistics
Matches: 191, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 191 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:35567019 original size:27 final size:27
Alignment explanation
Indices: 35566627--35567101 Score: 173
Period size: 27 Copynumber: 17.6 Consensus size: 27
35566617 TTAGTTTACC
* * *
35566627 AAATTACTGAAATATCCTC-AGTT-GTA
1 AAATTACTAAAATACCCTCGATTTAG-A
* * * *
35566653 AAATTACCAAAGTACCCTCGGTTTATA
1 AAATTACTAAAATACCCTCGATTTAGA
** *
35566680 AAATTACCCAAATATCCTCGATTT-GCA
1 AAATTACTAAAATACCCTCGATTTAG-A
*
35566707 AAATTA-TCGAAATACCCTC-AGTTT-GTA
1 AAATTACT-AAAATACCCTCGA-TTTAG-A
* **
35566734 AAATTACTGAAATACCCTCGACAT-GTA
1 AAATTACTAAAATACCCTCGATTTAG-A
* * *
35566761 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTAGA
*** *
35566788 AAATTACTATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTAGA
* *** *
35566815 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTAGA
*** *
35566842 AAATTACTATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTAGA
* * *** * * *
35566869 GAGTTACTATTTTACCCTTGAATTATA
1 AAATTACTAAAATACCCTCGATTTAGA
*** *
35566896 AAATTACTATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTAGA
* ***** *
35566923 GAATTACCGTTCTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTAGA
* * ***
35566950 GAATTACCATTTTACCCTCGATTTAGA
1 AAATTACTAAAATACCCTCGATTTAGA
* * ***
35566977 GAATTACCATTTTACCCTCGATTTAGA
1 AAATTACTAAAATACCCTCGATTTAGA
**
35567004 AAATTACTAAAATACCC-CTGGCTT-GTA
1 AAATTACTAAAATACCCTC-GATTTAG-A
* * *
35567031 AAATAACTAAAATACCCTTTG-TTTATA
1 AAATTACTAAAATACCC-TCGATTTAGA
* *
35567058 AAATTACCAAAATACCCAT-GGTTT-GAA
1 AAATTACTAAAATACCC-TCGATTTAG-A
35567085 AAATTACTAAAATACCC
1 AAATTACTAAAATACCC
35567102 CTGTAGGGTA
Statistics
Matches: 370, Mismatches: 64, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
26 19 0.05
27 348 0.94
28 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTAGA
Found at i:35567114 original size:27 final size:26
Alignment explanation
Indices: 35567003--35567128 Score: 126
Period size: 27 Copynumber: 4.7 Consensus size: 26
35566993 CTCGATTTAG
*
35567003 AAAATTACTAAAATACCCCTGGCTTGT
1 AAAATTACTAAAATACCCCT-GTTTGT
* * *
35567030 AAAATAACTAAAATACCCTTTGTTTAT
1 AAAATTACTAAAATACCC-CTGTTTGT
* * *
35567057 AAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACTAAAATACCCCT-GTTTGT
**
35567084 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGT-TTGT
*
35567111 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
35567129 TTGTGGGGTA
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.04
27 77 0.95
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAATTACTAAAATACCCCTGTTTGT
Found at i:35567114 original size:54 final size:54
Alignment explanation
Indices: 35567003--35567128 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 54
35566993 CTCGATTTAG
* * * **
35567003 AAAATTACTAAAATACCCCTGGCTTGTAAAATAACTAAAATACCCTTTGTTTAT
1 AAAATTACTAAAATACCCATGGCTTGAAAAATAACTAAAATACCCTCTGTGGAT
* * * *
35567057 AAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCC-CTGTAGGGT
1 AAAATTACTAAAATACCCATGGCTTGAAAAATAACTAAAATACCCTCTGT-GGAT
*
35567111 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
35567129 TTGTGGGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.05
54 57 0.95
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (54 bp):
AAAATTACTAAAATACCCATGGCTTGAAAAATAACTAAAATACCCTCTGTGGAT
Found at i:35567137 original size:27 final size:27
Alignment explanation
Indices: 35567003--35567145 Score: 101
Period size: 27 Copynumber: 5.3 Consensus size: 27
35566993 CTCGATTTAG
****
35567003 AAAATTACTAAAATACCCCTGGCTTGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * ***
35567030 AAAATAACTAAAATACCCTTTGT-TTAT
1 AAAATTACTAAAATACCC-CTGTAGGGT
* * ** *
35567057 AAAATTACCAAAATACCCATGGT-TTGA
1 AAAATTACTAAAATACCCCT-GTAGGGT
35567084 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
35567111 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
35567138 AAAATTAC
1 AAAATTAC
35567146 CATTTTGCCC
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.03
27 91 0.95
28 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:35567799 original size:28 final size:27
Alignment explanation
Indices: 35567767--35567835 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 27
35567757 GCGTAGATCA
35567767 CGAAATTACCCCTATAGAGCAAAATTAC
1 CGAAATTACCCCTA-AGAGCAAAATTAC
35567795 CGAAATTACCCCTGAAGAGCAAAATTAC
1 CGAAATTACCCCT-AAGAGCAAAATTAC
*
35567823 CGATA-TACCCCTA
1 CGAAATTACCCCTA
35567836 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 1 0.03
27 7 0.18
28 30 0.77
29 1 0.03
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.20
Consensus pattern (27 bp):
CGAAATTACCCCTAAGAGCAAAATTAC
Found at i:35569041 original size:25 final size:25
Alignment explanation
Indices: 35569012--35569077 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
35569002 TAGTGGCAAG
35569012 GTGACGCCACTTAGGGGACAAGGAA
1 GTGACGCCACTTAGGGGACAAGGAA
35569037 GTGACGCCACTTAGGGGACAAGGAA
1 GTGACGCCACTTAGGGGACAAGGAA
35569062 GTGACGCCA--TAGGGGA
1 GTGACGCCACTTAGGGGA
35569078 AGCAAGGGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 7 0.17
25 34 0.83
ACGTcount: A:0.30, C:0.20, G:0.38, T:0.12
Consensus pattern (25 bp):
GTGACGCCACTTAGGGGACAAGGAA
Found at i:35569920 original size:81 final size:80
Alignment explanation
Indices: 35569778--35569950 Score: 206
Period size: 81 Copynumber: 2.1 Consensus size: 80
35569768 AATACTTTAG
* * * ***
35569778 TTTACCAAATTATTGAAATATCCTCAGTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTA
1 TTTACAAAATTATCGAAATACCCTCAGTTGTAAAATTACCAAAGTACCCTCGACATATAAAATTA
*
35569843 CCCAAA-TATCCTCGA
66 -CCAAAGTACCCTCGA
** * *
35569858 TTTGTAAAATTATCGAAATACCCTCAGTTTGTAAAATTACTGAAA-TACCCTCGACATGTAAAAT
1 TTTACAAAATTATCGAAATACCCTCAG-TTGTAAAATTAC-CAAAGTACCCTCGACATATAAAAT
35569922 TACCAAAGTACCCTCGA
64 TACCAAAGTACCCTCGA
35569939 TTTACAAAATTA
1 TTTACAAAATTA
35569951 CTATTTTACC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
80 27 0.35
81 47 0.61
82 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (80 bp):
TTTACAAAATTATCGAAATACCCTCAGTTGTAAAATTACCAAAGTACCCTCGACATATAAAATTA
CCAAAGTACCCTCGA
Found at i:35569952 original size:54 final size:54
Alignment explanation
Indices: 35569778--35570258 Score: 210
Period size: 54 Copynumber: 8.9 Consensus size: 54
35569768 AATACTTTAG
* * * * *
35569778 TTTACCAAATTATTGAAATATCCTC-AGTTGTAAAATTACCAAAGTACCCTCGG
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGA
* ** * *
35569831 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTC-A
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTA-CCAAAGTACCCTCGA
** **
35569884 GTTTGTAAAATTACTGAAATACCCTCGACATGTAAAATTACCAAAGTACCCTCGA
1 -TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGA
** * * * ***
35569939 TTTACAAAATTACT-ATTTTACCCTCGATTTGCAGAATTACTATTTTACCCTCGA
1 TTTACAAAATTACTGA-AATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGA
** ** * * * *** *
35569993 TTTACAAAATTACT-ATTTTACCCTCGATTTACAGAGTTACTATTTTACCCTTGA
1 TTTACAAAATTACTGA-AATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGA
* ** ** * ****
35570047 ATTACAAAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTTCTACCCTCGA
1 TTTACAAAATTACTGA-AATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGA
* * * ** * ***
35570101 TTTATAGAATTAC-CATTTTACCCTCGATTTAG-AGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTGA-AATACCCTCGATTT-GTAAAATTACCAAAGTACCCTCGA
* * * * * *
35570155 TTTAGAAAATTACTAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCCTTTG-
1 TTTACAAAATTACTGAAATACCCTC-GATTTGTAAAATTACCAAAGTACCC-TCGA
* ** * * * *
35570209 TTTATAAAATTACCAAAATACCCAT-GGTTTGAAAAATTACTAAAATACCC
1 TTTACAAAATTACTGAAATACCC-TCGATTTGTAAAATTACCAAAGTACCC
35570259 CTGTAGGGTA
Statistics
Matches: 357, Mismatches: 57, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
53 27 0.08
54 322 0.90
55 8 0.02
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCGA
Found at i:35569961 original size:81 final size:79
Alignment explanation
Indices: 35569799--35570177 Score: 212
Period size: 81 Copynumber: 4.7 Consensus size: 79
35569789 ATTGAAATAT
* * * **
35569799 CCTCAG-TTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACCCAAATATCCTCGATTTGT
1 CCTCAGTTTGTAAAATTACTAAA-TACCCTCGATTTATAAAATTA-CCAAATACCCTCGATTTAC
* **
35569863 AAAATTATCGA-AATAC
64 AAAATTA-CTATTTTAC
** *
35569879 CCTCAGTTTGTAAAATTACTGAAATACCCTCGACATGTAAAATTACCAAAGTACCCTCGATTTAC
1 CCTCAGTTTGTAAAATTACT-AAATACCCTCGATTTATAAAATTACCAAA-TACCCTCGATTTAC
35569944 AAAATTACTATTTTAC
64 AAAATTACTATTTTAC
* * ** * * **
35569960 CCTC-GATTTGCAGAATTACTATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTA
1 CCTCAG-TTTGTAAAATTACTA-AATACCCTCGATTTATAAAATTACCA-AATACCCTCGATTTA
* *
35570024 CAGAGTTACTATTTTAC
63 CAAAATTACTATTTTAC
* * ** ** * * ***
35570041 CCT-TGAATTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTCTACCCTCGATTTA
1 CCTCAG-TTTGTAAAATTACTA-AATACCCTCGATTTATAAAATTACC-AAATACCCTCGATTTA
* * *
35570105 TAGAATTACCATTTTAC
63 CAAAATTACTATTTTAC
* * ** * *
35570122 CCTC-GATTTAG-AGAATTACCATTTTACCCTCGATTTAGAAAATTACTAAAATACCC
1 CCTCAG-TTT-GTAAAATTACTA-AATACCCTCGATTTATAAAATTAC-CAAATACCC
35570178 CTGGTTTGTA
Statistics
Matches: 243, Mismatches: 44, Indels: 23
0.78 0.14 0.07
Matches are distributed among these distances:
80 15 0.06
81 225 0.93
82 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (79 bp):
CCTCAGTTTGTAAAATTACTAAATACCCTCGATTTATAAAATTACCAAATACCCTCGATTTACAA
AATTACTATTTTAC
Found at i:35570006 original size:27 final size:27
Alignment explanation
Indices: 35569930--35570169 Score: 336
Period size: 27 Copynumber: 8.9 Consensus size: 27
35569920 ATTACCAAAG
*
35569930 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
35569957 TACCCTCGATTTGCAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
35569984 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
35570011 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
35570038 TACCCTTGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
** *
35570065 TACCCTCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACTATTT
* *
35570092 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
35570119 TACCCTCGATTTAGAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
35570146 TACCCTCGATTTAGAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
35570170 AAATACCCCT
Statistics
Matches: 191, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 191 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:35570176 original size:27 final size:27
Alignment explanation
Indices: 35569809--35570258 Score: 184
Period size: 27 Copynumber: 16.7 Consensus size: 27
35569799 CCTCAGTTGT
* * * *
35569809 AAAATTACCAAAGTACCCTCGGTTTAT
1 AAAATTACTAAAATACCCTCGATTTAG
** *
35569836 AAAATTACCCAAATATCCTCGATTT-G
1 AAAATTACTAAAATACCCTCGATTTAG
*
35569862 TAAAATTA-TCGAAATACCCTC-AGTTT-G
1 -AAAATTACT-AAAATACCCTCGA-TTTAG
* **
35569889 TAAAATTACTGAAATACCCTCGACAT-G
1 -AAAATTACTAAAATACCCTCGATTTAG
* * *
35569916 TAAAATTACCAAAGTACCCTCGATTTAC
1 -AAAATTACTAAAATACCCTCGATTTAG
***
35569944 AAAATTACTATTTTACCCTCGATTT-G
1 AAAATTACTAAAATACCCTCGATTTAG
* *** *
35569970 CAGAATTACTATTTTACCCTCGATTTAC
1 -AAAATTACTAAAATACCCTCGATTTAG
*** *
35569998 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAG
* * *** * * *
35570025 AGAGTTACTATTTTACCCTTGAATTAC
1 AAAATTACTAAAATACCCTCGATTTAG
*** *
35570052 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAG
* ***** *
35570079 AGAATTACCGTTCTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTCGATTTAG
* * ***
35570106 AGAATTACCATTTTACCCTCGATTTAG
1 AAAATTACTAAAATACCCTCGATTTAG
* * ***
35570133 AGAATTACCATTTTACCCTCGATTTAG
1 AAAATTACTAAAATACCCTCGATTTAG
*
35570160 AAAATTACTAAAATACCC-CTGGTTT-G
1 AAAATTACTAAAATACCCTC-GATTTAG
* *
35570186 TAAAATTACTAAAATACCCTTTG-TTTAT
1 -AAAATTACTAAAATACCC-TCGATTTAG
* *
35570214 AAAATTACCAAAATACCCAT-GGTTT-G
1 AAAATTACTAAAATACCC-TCGATTTAG
35570240 AAAAATTACTAAAATACCC
1 -AAAATTACTAAAATACCC
35570259 CTGTAGGGTA
Statistics
Matches: 356, Mismatches: 52, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.01
27 349 0.98
28 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGATTTAG
Found at i:35570193 original size:81 final size:79
Alignment explanation
Indices: 35569944--35570196 Score: 265
Period size: 81 Copynumber: 3.1 Consensus size: 79
35569934 CTCGATTTAC
35569944 AAAATTACTATTTTACCCTCGATTT-GCAGAATTACTATTTTACCCTCGATTTACAAAATTACTA
1 AAAATTACTATTTTACCCTCGATTTAG-AGAATTACTATTTTACCCTCGATTTACAAAATTACTA
* * *
35570008 TTTTACCCTCGATTT
65 TTATACCCTGGTTTT
* * * * * * *
35570023 ACAGAGTTACTATTTTACCCTTGAATTACAAAATTACTATTTTACCCTCGATTTACAGAATTACC
1 A-A-AATTACTATTTTACCCTCGATTTAGAGAATTACTATTTTACCCTCGATTTACAAAATTACT
* * *
35570088 GTTCTACCCTCGATTTAT
64 ATTATACCCT-GGTTT-T
* * * * *
35570106 AGAATTACCATTTTACCCTCGATTTAGAGAATTACCATTTTACCCTCGATTTAGAAAATTACTAA
1 AAAATTACTATTTTACCCTCGATTTAGAGAATTACTATTTTACCCTCGATTTACAAAATTACTAT
*
35570171 AATACCCCTGGTTTGT
66 TATA-CCCTGGTTT-T
35570187 AAAATTACTA
1 AAAATTACTA
35570197 AAATACCCTT
Statistics
Matches: 137, Mismatches: 31, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 127 0.93
82 6 0.04
83 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.38
Consensus pattern (79 bp):
AAAATTACTATTTTACCCTCGATTTAGAGAATTACTATTTTACCCTCGATTTACAAAATTACTAT
TATACCCTGGTTTT
Found at i:35570204 original size:81 final size:80
Alignment explanation
Indices: 35570119--35570286 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 80
35570109 ATTACCATTT
* ***
35570119 TACCCTCGATTTAGAGAATTACCATTTTACCC-TCGATTT-AGAAAATTACTAAAATACCCCTGG
1 TACCCTCG-TTTAGAAAATTACCAAAATACCCAT-GATTTGA-AAAATTACTAAAATACCCCT-G
**
35570182 T-TTGTAAAATTACTAAAA
62 TAGGGTAAAATTACTAAAA
* * *
35570200 TACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAG
1 TACCC-TCGTTTAGAAAATTACCAAAATACCCATGATTTGAAAAATTACTAAAATACCCCTGTAG
*
35570265 GGTAAAATTACTGAAA
65 GGTAAAATTACTAAAA
35570281 TACCCT
1 TACCCT
35570287 TGTGGGGTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
80 3 0.04
81 66 0.90
82 4 0.05
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (80 bp):
TACCCTCGTTTAGAAAATTACCAAAATACCCATGATTTGAAAAATTACTAAAATACCCCTGTAGG
GTAAAATTACTAAAA
Found at i:35570271 original size:27 final size:26
Alignment explanation
Indices: 35570160--35570285 Score: 144
Period size: 27 Copynumber: 4.7 Consensus size: 26
35570150 CTCGATTTAG
35570160 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCT-GTTTGT
* *
35570187 AAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACTAAAATACCC-CTGTTTGT
* * *
35570214 AAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACTAAAATACCCCT-GTTTGT
**
35570241 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGT-TTGT
*
35570268 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
35570286 TTGTGGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.04
27 80 0.95
28 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (26 bp):
AAAATTACTAAAATACCCCTGTTTGT
Found at i:35570271 original size:54 final size:54
Alignment explanation
Indices: 35570160--35570285 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 54
35570150 CTCGATTTAG
* * * **
35570160 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACTAAAATACCCATGGTTTGAAAAATTACTAAAATACCCTCTGTGGAT
* *
35570214 AAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCC-CTGTAGGGT
1 AAAATTACTAAAATACCCATGGTTTGAAAAATTACTAAAATACCCTCTGT-GGAT
*
35570268 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
35570286 TTGTGGGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 3 0.05
54 59 0.95
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (54 bp):
AAAATTACTAAAATACCCATGGTTTGAAAAATTACTAAAATACCCTCTGTGGAT
Found at i:35570294 original size:27 final size:27
Alignment explanation
Indices: 35570160--35570302 Score: 112
Period size: 27 Copynumber: 5.3 Consensus size: 27
35570150 CTCGATTTAG
**
35570160 AAAATTACTAAAATACCCCTGGT-TTGT
1 AAAATTACTAAAATACCCCT-GTAGGGT
* ***
35570187 AAAATTACTAAAATACCCTTTGT-TTAT
1 AAAATTACTAAAATACCC-CTGTAGGGT
* * ** *
35570214 AAAATTACCAAAATACCCATGGT-TTGA
1 AAAATTACTAAAATACCCCT-GTAGGGT
35570241 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
35570268 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
35570295 AAAATTAC
1 AAAATTAC
35570303 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.03
27 95 0.96
28 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:35570956 original size:28 final size:28
Alignment explanation
Indices: 35570924--35570992 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
35570914 GCGTAGATCA
35570924 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
35570952 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
35570980 CGATA-TACCCCTA
1 CGAAATTACCCCTA
35570993 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:35572646 original size:27 final size:27
Alignment explanation
Indices: 35572615--35572676 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
35572605 TACACGGGCT
35572615 GAGACACGATCGTGTGTCTCAACATGA
1 GAGACACGATCGTGTGTCTCAACATGA
* *
35572642 GAGACATGGTCGTGTGTCTCAACATGA
1 GAGACACGATCGTGTGTCTCAACATGA
35572669 GAGACACG
1 GAGACACG
35572677 GCCTGGAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (27 bp):
GAGACACGATCGTGTGTCTCAACATGA
Found at i:35581450 original size:28 final size:28
Alignment explanation
Indices: 35581410--35581475 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
35581400 TGCATCTTCG
* *
35581410 ATATCTCACACACTAAGTGCCATACTAA
1 ATATCTCGCACACCAAGTGCCATACTAA
* *
35581438 ATATCTCGCACACCAAGTGCCATTCTCA
1 ATATCTCGCACACCAAGTGCCATACTAA
*
35581466 ATATTTCGCA
1 ATATCTCGCA
35581476 TATATAGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.27
Consensus pattern (28 bp):
ATATCTCGCACACCAAGTGCCATACTAA
Found at i:35581564 original size:40 final size:40
Alignment explanation
Indices: 35581480--35581555 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
35581470 TTCGCATATA
*
35581480 TAGCCAAAGCTATTTCAAATCGCACACCAAGTGCCACATT
1 TAGCCAAAGCTATTTCAAACCGCACACCAAGTGCCACATT
* *
35581520 TAGCCGAAGCTATTTCAAACCGCACACTAAGTGCCA
1 TAGCCAAAGCTATTTCAAACCGCACACCAAGTGCCA
35581556 TTCTTAGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.21
Consensus pattern (40 bp):
TAGCCAAAGCTATTTCAAACCGCACACCAAGTGCCACATT
Found at i:35584987 original size:9 final size:9
Alignment explanation
Indices: 35584973--35584999 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
35584963 AACATGTACC
35584973 ATACTTTAA
1 ATACTTTAA
35584982 ATACTTTAA
1 ATACTTTAA
35584991 ATACTTTAA
1 ATACTTTAA
35585000 TATTACATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (9 bp):
ATACTTTAA
Found at i:35590954 original size:71 final size:70
Alignment explanation
Indices: 35590866--35591028 Score: 317
Period size: 71 Copynumber: 2.3 Consensus size: 70
35590856 GAGATGTATC
35590866 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTG-
35590931 AGGACA
65 AGGACA
35590937 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35591002 GGACA
66 GGACA
35591007 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35591029 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 28 0.30
71 64 0.70
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
GGACA
Found at i:35594543 original size:268 final size:268
Alignment explanation
Indices: 35594066--35594603 Score: 1076
Period size: 268 Copynumber: 2.0 Consensus size: 268
35594056 GTTGAAACAG
35594066 ATGAATCAAATAAATTGCCTATGGTGATTTCGCACATGTCTGCACAGAAATACTTGAGAAAAGGG
1 ATGAATCAAATAAATTGCCTATGGTGATTTCGCACATGTCTGCACAGAAATACTTGAGAAAAGGG
35594131 TGTGAAGCTTATCTGGCTTATGTAATGAATATTGAGTTGCCTCAACTGAAATTTGAATCAGTACC
66 TGTGAAGCTTATCTGGCTTATGTAATGAATATTGAGTTGCCTCAACTGAAATTTGAATCAGTACC
35594196 GATAGTCTGTGAGTTTCCAGATGTATTTCCTGAGGAATTGCCTGGGTTGCCTCCGAACAGAGAGA
131 GATAGTCTGTGAGTTTCCAGATGTATTTCCTGAGGAATTGCCTGGGTTGCCTCCGAACAGAGAGA
35594261 TAGATTTTGCCATTGATTTGTTGCCGGGCACTGCACCGATCTCGATTGCTCCATATAGAATGGCT
196 TAGATTTTGCCATTGATTTGTTGCCGGGCACTGCACCGATCTCGATTGCTCCATATAGAATGGCT
35594326 CCGACTGA
261 CCGACTGA
35594334 ATGAATCAAATAAATTGCCTATGGTGATTTCGCACATGTCTGCACAGAAATACTTGAGAAAAGGG
1 ATGAATCAAATAAATTGCCTATGGTGATTTCGCACATGTCTGCACAGAAATACTTGAGAAAAGGG
35594399 TGTGAAGCTTATCTGGCTTATGTAATGAATATTGAGTTGCCTCAACTGAAATTTGAATCAGTACC
66 TGTGAAGCTTATCTGGCTTATGTAATGAATATTGAGTTGCCTCAACTGAAATTTGAATCAGTACC
35594464 GATAGTCTGTGAGTTTCCAGATGTATTTCCTGAGGAATTGCCTGGGTTGCCTCCGAACAGAGAGA
131 GATAGTCTGTGAGTTTCCAGATGTATTTCCTGAGGAATTGCCTGGGTTGCCTCCGAACAGAGAGA
35594529 TAGATTTTGCCATTGATTTGTTGCCGGGCACTGCACCGATCTCGATTGCTCCATATAGAATGGCT
196 TAGATTTTGCCATTGATTTGTTGCCGGGCACTGCACCGATCTCGATTGCTCCATATAGAATGGCT
35594594 CCGACTGA
261 CCGACTGA
35594602 AT
1 AT
35594604 TAAAAGAATT
Statistics
Matches: 270, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
268 270 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (268 bp):
ATGAATCAAATAAATTGCCTATGGTGATTTCGCACATGTCTGCACAGAAATACTTGAGAAAAGGG
TGTGAAGCTTATCTGGCTTATGTAATGAATATTGAGTTGCCTCAACTGAAATTTGAATCAGTACC
GATAGTCTGTGAGTTTCCAGATGTATTTCCTGAGGAATTGCCTGGGTTGCCTCCGAACAGAGAGA
TAGATTTTGCCATTGATTTGTTGCCGGGCACTGCACCGATCTCGATTGCTCCATATAGAATGGCT
CCGACTGA
Found at i:35598790 original size:70 final size:71
Alignment explanation
Indices: 35598639--35598801 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
35598629 GAGATGTATC
35598639 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35598704 AGGACA
66 AGGACA
35598710 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
35598774 CGGACA
66 AGGACA
35598780 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35598802 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35601077 original size:15 final size:17
Alignment explanation
Indices: 35601059--35601093 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
35601049 TTCATATTTT
35601059 AAAT-AAAAA-TATGAA
1 AAATAAAAAATTATGAA
35601074 AAATAAAAAATTATGAA
1 AAATAAAAAATTATGAA
35601091 AAA
1 AAA
35601094 AAATAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 5 0.28
17 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
AAATAAAAAATTATGAA
Found at i:35602073 original size:29 final size:27
Alignment explanation
Indices: 35602018--35602171 Score: 84
Period size: 29 Copynumber: 5.5 Consensus size: 27
35602008 TGAATATTAA
* *
35602018 AATTATATATGAATTATAATTTAATATCT
1 AATTATATATAAATTTTAATTTAATA--T
* *
35602047 AATTATATATAAATTTTATTTTTATAT
1 AATTATATATAAATTTTAATTTAATAT
*
35602074 AATTTTATATATAAAATTTTAATTTGAT-T
1 AA--TTATATAT-AAATTTTAATTTAATAT
* * *
35602103 AAATTTTTTA-AAATTATTAATATAAT-T
1 -AATTATATATAAATT-TTAATTTAATAT
*
35602130 -ATTAATATAACAAATTTTATATTT-ATAT
1 AATT-ATAT-ATAAATTTTA-ATTTAATAT
*
35602158 ATTGTATATATAAA
1 AAT-TATATATAAA
35602172 AAATTATATT
Statistics
Matches: 98, Mismatches: 15, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
25 3 0.03
26 7 0.07
27 18 0.18
28 18 0.18
29 36 0.37
30 16 0.16
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
AATTATATATAAATTTTAATTTAATAT
Found at i:35602131 original size:12 final size:12
Alignment explanation
Indices: 35602114--35602139 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35602104 AATTTTTTAA
35602114 AATTATTAATAT
1 AATTATTAATAT
35602126 AATTATTAATAT
1 AATTATTAATAT
35602138 AA
1 AA
35602140 CAAATTTTAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTATTAATAT
Found at i:35618441 original size:40 final size:40
Alignment explanation
Indices: 35618356--35618506 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
35618346 AATTGAATGA
* * *
35618356 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
35618396 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
35618437 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
35618476 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
35618507 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:35618520 original size:40 final size:40
Alignment explanation
Indices: 35618392--35618522 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
35618382 TATGCTGGAA
* * *
35618392 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
35618432 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
35618472 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
35618512 ATTATATCCGG
1 ATTATATCCGG
35618523 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:35626429 original size:40 final size:40
Alignment explanation
Indices: 35626344--35626494 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
35626334 AATTGAATGA
* * *
35626344 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
35626384 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
35626425 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
35626464 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
35626495 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:35626508 original size:40 final size:40
Alignment explanation
Indices: 35626380--35626510 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
35626370 TATGCTGGAA
* * *
35626380 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
35626420 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
35626460 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
35626500 ATTATATCCGG
1 ATTATATCCGG
35626511 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:35637133 original size:71 final size:71
Alignment explanation
Indices: 35637049--35637212 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35637039 CGATTTGTCT
35637049 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35637114 CTTTCA
66 CTTTCA
35637120 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35637185 CTTTCA
66 CTTTCA
35637191 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35637213 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35637250 original size:71 final size:70
Alignment explanation
Indices: 35637049--35637246 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
35637039 CGATTTGTCT
* * * *
35637049 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35637114 CTTTCA
65 CTTTCA
* * * *
35637120 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35637185 CTTTCA
65 CTTTCA
* *
35637191 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35637247 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35638551 original size:27 final size:28
Alignment explanation
Indices: 35638521--35638619 Score: 92
Period size: 27 Copynumber: 3.5 Consensus size: 28
35638511 ATAGTGAATC
*
35638521 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
35638548 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * * * *
35638576 TGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-AA-ATCAAACT
35638606 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35638620 CAATCTTGTC
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
27 21 0.38
28 17 0.30
29 1 0.02
30 17 0.30
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:35646627 original size:27 final size:28
Alignment explanation
Indices: 35646597--35646695 Score: 101
Period size: 27 Copynumber: 3.5 Consensus size: 28
35646587 ATAGTGAATC
*
35646597 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
35646624 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * * *
35646652 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-AA-ATCAAACT
35646682 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35646696 CAATCTTGTC
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 21 0.36
28 18 0.31
29 1 0.02
30 18 0.31
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:35652209 original size:46 final size:44
Alignment explanation
Indices: 35652139--35652262 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 44
35652129 ATCTCGAGGC
*
35652139 CGATGCATGTCCC-GAACATTTCTTACACTAGCTCTCGTCTCAATGT-
1 CGATGCATGTCCCAG-ACATGTCTTACACTAGCTCTCG--T-AATGTG
* *
35652185 CGATGCATCTCCCAGACATGTCTTACACTGGCTCTCGTAATGTGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATGT-G
*
35652230 CCGATGCATGTCCCAAACATGTCTTACACTAGC
1 -CGATGCATGTCCCAGACATGTCTTACACTAGC
35652263 ACACATATCA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
43 5 0.07
44 1 0.01
46 61 0.90
47 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.29
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATGTG
Found at i:35654914 original size:18 final size:18
Alignment explanation
Indices: 35654891--35654926 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35654881 TTCCTGGGTG
*
35654891 GTAGTCGATTATCAACTC
1 GTAGTCCATTATCAACTC
*
35654909 GTAGTCCTTTATCAACTC
1 GTAGTCCATTATCAACTC
35654927 CAACAATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (18 bp):
GTAGTCCATTATCAACTC
Found at i:35659791 original size:48 final size:48
Alignment explanation
Indices: 35659720--35659889 Score: 148
Period size: 48 Copynumber: 3.6 Consensus size: 48
35659710 AACCTGACGC
* * * *
35659720 CATGTCCCAGATAAGTTTTACACTAGCTTGTATATCTCGAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCGAAGCCGATG
* ** * *
35659768 CATGTCCCAGACATGTCTTACACTTGC-TCT-CGTCT-TAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCGAA-GCCGATG
* * * * * * * *
35659814 AATGTCCTAGGCATATCTTACACTGGCTTCCATCTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCGAAGCCGATG
*
35659862 CATGTCCTAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
35659890 CTCGTAATGT
Statistics
Matches: 94, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
45 2 0.02
46 31 0.33
47 4 0.04
48 56 0.60
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCGAAGCCGATG
Found at i:35659913 original size:94 final size:94
Alignment explanation
Indices: 35659754--35659928 Score: 237
Period size: 94 Copynumber: 1.9 Consensus size: 94
35659744 AGCTTGTATA
* ** *
35659754 TCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTTGCTCTCGTCTTAATGCCAATGAATGT
1 TCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATAATGACAATGAATGT
*
35659819 CCTAGGCATATCTTACACTGGCTTCCATC
66 CCTAGACATATCTTACACTGGCTTCCATC
* * *
35659848 TCTCGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTAAT-GTGGACAAT-ATAT
1 TCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATAAT-GACAATGA-AT
*
35659911 GTCCTAGACATGTCTTAC
64 GTCCTAGACATATCTTAC
35659929 TATAGCACAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
93 2 0.03
94 68 0.97
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.31
Consensus pattern (94 bp):
TCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATAATGACAATGAATGT
CCTAGACATATCTTACACTGGCTTCCATC
Found at i:35662529 original size:2 final size:2
Alignment explanation
Indices: 35662522--35662558 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
35662512 ATATAGCCGA
35662522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35662559 GATCATCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35662853 original size:47 final size:47
Alignment explanation
Indices: 35662802--35662959 Score: 298
Period size: 47 Copynumber: 3.4 Consensus size: 47
35662792 AAAATTTTCT
*
35662802 TTAACTAAGTAACTTATCCGGAAATATTAAGAACAAATTAAACATGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAACAAATTAAACAAGC
*
35662849 TTAACTAAGTAACTTATCCAGAAATATTAAGAACAAATTAAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAACAAATTAAACAAGC
35662896 TTAACTAAGTAACTTATCCGGAAATATTAAGAACAAATTAAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAACAAATTAAACAAGC
35662943 TTAACTAAGTAACTTAT
1 TTAACTAAGTAACTTAT
35662960 AATTTGAGCA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAACAAATTAAACAAGC
Found at i:35664869 original size:28 final size:29
Alignment explanation
Indices: 35664829--35664900 Score: 112
Period size: 28 Copynumber: 2.5 Consensus size: 29
35664819 AAAATTGTAC
*
35664829 AGCACTAAGTGTGCGAGCTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-TTGAATACATAT
35664857 AGCACTAAGTGTGCGAGTTGAATACATAT
1 AGCACTAAGTGTGCGAGTTGAATACATAT
35664886 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35664901 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.07
28 19 0.46
29 19 0.46
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTGAATACATAT
Found at i:35672807 original size:28 final size:29
Alignment explanation
Indices: 35672767--35672838 Score: 112
Period size: 28 Copynumber: 2.5 Consensus size: 29
35672757 AAAATTGTAC
*
35672767 AGCACTAAGTGTGCGAGCTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-TTGAATACATAT
35672795 AGCACTAAGTGTGCGAGTTGAATACATAT
1 AGCACTAAGTGTGCGAGTTGAATACATAT
35672824 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35672839 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.07
28 19 0.46
29 19 0.46
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTGAATACATAT
Found at i:35677216 original size:40 final size:38
Alignment explanation
Indices: 35676983--35677235 Score: 289
Period size: 40 Copynumber: 6.4 Consensus size: 38
35676973 GATGATAACG
* *
35676983 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAAT-CC
* *
35677023 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAA-TCC
35677063 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAA-TCC
*
35677103 GGGCTAAGT-CCGAAGGCATTTGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTA-ATCC
*
35677142 GGGCTAAGT--CGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTA-ATCC
*
35677180 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTA-ATCC
* *
35677220 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
35677236 TACTTGGTTT
Statistics
Matches: 195, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
38 34 0.17
39 54 0.28
40 105 0.54
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (38 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATCC
Found at i:35677221 original size:117 final size:119
Alignment explanation
Indices: 35676983--35677209 Score: 320
Period size: 117 Copynumber: 1.9 Consensus size: 119
35676973 GATGATAACG
* * *
35676983 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACTGGGCTAAGTCCCGAAGGTATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATACCGGGCTAAGT-CCGAAGGCATTTGTG
* * *
35677048 CTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
65 CAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAATTCC
*
35677103 GGGCTAAGT-CCGAAGGCATTTGTGCAAGTTACT-ATATCCGGGCTAAGT-CGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATA-CCGGGCTAAGTCCGAAGGCATTTGTG
35677165 CGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
65 C-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
35677210 AGCTATATCC
Statistics
Matches: 97, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
116 2 0.02
117 49 0.51
118 5 0.05
119 32 0.33
120 9 0.09
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATACCGGGCTAAGTCCGAAGGCATTTGTGC
AACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAATTCC
Found at i:35677233 original size:117 final size:119
Alignment explanation
Indices: 35676983--35677235 Score: 306
Period size: 117 Copynumber: 2.1 Consensus size: 119
35676973 GATGATAACG
* * * *
35676983 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACTGGGCTAAGTCCCGAAGGTATTTGTG
1 GGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTAATACCGGGCTAAGT-CCGAAGGCATTTGTG
* * *
35677048 CTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
65 CAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAATTCC
* *
35677103 GGGCTAAGT-CCGAAGGCATTTGTGCAAGTTACT-ATATCCGGGCTAAGT-CGAAGGCATTTGTG
1 GGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTAATA-CCGGGCTAAGTCCGAAGGCATTTGTG
35677165 CGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT-ATATCC
65 C-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTAAT-TCC
*
35677220 -GGTTAAATCCCGAAGG
1 GGGCTAAATCCCGAAGG
35677236 TACTTGGTTT
Statistics
Matches: 118, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
116 12 0.10
117 60 0.51
118 5 0.04
119 32 0.27
120 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
GGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTAATACCGGGCTAAGTCCGAAGGCATTTGTGC
AACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAATTCC
Found at i:35686884 original size:40 final size:39
Alignment explanation
Indices: 35686758--35686902 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 39
35686748 TGCTGGAAAT
* * * * *
35686758 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * * *
35686797 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-G
* *
35686838 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * *
35686877 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
35686903 CTTGGTGCGG
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.99
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Done.