Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 101 of 202
Found at i:30803227 original size:52 final size:52
Alignment explanation
Indices: 30803164--30803276 Score: 190
Period size: 52 Copynumber: 2.2 Consensus size: 52
30803154 AACAAGGGAC
* * *
30803164 ACACGATCGTGTCCAAGCCCGTGTCCTCACGTGTGAGTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
*
30803216 ACACGGTCGTGTCCAAGCCTGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
30803268 ACACGGTCG
1 ACACGGTCG
30803277 CGTCACACGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (52 bp):
ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
Found at i:30803299 original size:52 final size:52
Alignment explanation
Indices: 30803164--30803299 Score: 139
Period size: 52 Copynumber: 2.6 Consensus size: 52
30803154 AACAAGGGAC
* * * * * * * *
30803164 ACACGATCGTGTCCAAGCCCGTGTCCTCACGTGTGAGTCACTGAGTAAGGTT
1 ACACGGTCGCGTCCAAGACTGTATCCACACGTGTAACTCACTGAGTAAGGTT
* * * *
30803216 ACACGGTCGTGTCCAAGCCTGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
1 ACACGGTCGCGTCCAAGACTGTATCCACACGTGTAACTCACTGAGTAAGGTT
*
30803268 ACACGGTCGCGTCACACGACTGTAT-CACACGT
1 ACACGGTCGCGTC-CAAGACTGTATCCACACGT
30803300 CCGTCTGCCA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 66 0.89
53 8 0.11
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (52 bp):
ACACGGTCGCGTCCAAGACTGTATCCACACGTGTAACTCACTGAGTAAGGTT
Found at i:30804142 original size:40 final size:40
Alignment explanation
Indices: 30804026--30804261 Score: 219
Period size: 40 Copynumber: 5.9 Consensus size: 40
30804016 GATTCAAGGT
* * * * * * *
30804026 TACCAAAGTATAAACAAGGG-CACATAAGTGCATTCTGGGC
1 TACCGAAGTACAAAC-AGGGACACGTATGTGCAATCAGGGG
* * * * *
30804066 TACCGAAGTACAAATAACGG-CATGTATTTTCAATCAGGGG
1 TACCGAAGTACAAA-CAGGGACACGTATGTGCAATCAGGGG
* * * * *
30804106 TATCAAAGTTCAAGCAGGGGA-ATGTATGTGCAATCAGGGG
1 TACCGAAGTACAAACA-GGGACACGTATGTGCAATCAGGGG
* **
30804146 TACCGAAGTACAAACAAGGACACGTATGCACAATCAGGGG
1 TACCGAAGTACAAACAGGGACACGTATGTGCAATCAGGGG
*
30804186 TACCGAAGTACAAACAGGGACACGTATGCGCAATCAGGGG
1 TACCGAAGTACAAACAGGGACACGTATGTGCAATCAGGGG
30804226 TACCGAAGTACAAACAAGGG-CACGTATGTGCAATCA
1 TACCGAAGTACAAAC-AGGGACACGTATGTGCAATCA
30804262 TCAATATTAT
Statistics
Matches: 160, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
39 4 0.03
40 152 0.95
41 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (40 bp):
TACCGAAGTACAAACAGGGACACGTATGTGCAATCAGGGG
Found at i:30804203 original size:20 final size:20
Alignment explanation
Indices: 30804140--30804241 Score: 68
Period size: 20 Copynumber: 5.1 Consensus size: 20
30804130 TATGTGCAAT
30804140 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
30804160 CA-AGG-ACACGTATGCACAAT
1 CAGGGGTAC-CG-AAGTACAAA
30804180 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* ** *
30804200 CA-GGG-ACACGTATGCGCAAT
1 CAGGGGTAC-CG-AAGTACAAA
30804220 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
30804240 CA
1 CA
30804242 AGGGCACGTA
Statistics
Matches: 58, Mismatches: 16, Indels: 16
0.64 0.18 0.18
Matches are distributed among these distances:
18 4 0.07
19 9 0.16
20 32 0.55
21 9 0.16
22 4 0.07
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:30804260 original size:80 final size:80
Alignment explanation
Indices: 30804066--30804261 Score: 250
Period size: 80 Copynumber: 2.5 Consensus size: 80
30804056 CATTCTGGGC
* * * * * * * * *
30804066 TACCGAAGTACAAATAACGGCATGTATTTTCAATCAGGGGTATCAAAGTTCAAGCAGGGGAATGT
1 TACCGAAGTACAAACAAGGGCACGTATGTACAATCAGGGGTACCAAAGTACAAACAGGGGAACGT
*
30804131 ATGTGCAATCAGGGG
66 ATGCGCAATCAGGGG
* * *
30804146 TACCGAAGTACAAACAAGGACACGTATGCACAATCAGGGGTACCGAAGTACAAACA-GGGACACG
1 TACCGAAGTACAAACAAGGGCACGTATGTACAATCAGGGGTACCAAAGTACAAACAGGGGA-ACG
30804210 TATGCGCAATCAGGGG
65 TATGCGCAATCAGGGG
*
30804226 TACCGAAGTACAAACAAGGGCACGTATGTGCAATCA
1 TACCGAAGTACAAACAAGGGCACGTATGTACAATCA
30804262 TCAATATTAT
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
79 4 0.04
80 95 0.96
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (80 bp):
TACCGAAGTACAAACAAGGGCACGTATGTACAATCAGGGGTACCAAAGTACAAACAGGGGAACGT
ATGCGCAATCAGGGG
Found at i:30806425 original size:3 final size:3
Alignment explanation
Indices: 30806417--30806468 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
30806407 AGTAAAAAAC
*
30806417 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
30806465 TAA T
1 TAA T
30806469 GGTAATATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:30808232 original size:50 final size:50
Alignment explanation
Indices: 30808079--30808232 Score: 134
Period size: 50 Copynumber: 3.1 Consensus size: 50
30808069 TTGGGGAAAC
* *
30808079 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCTCCT-GGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGT
* * * * * * * ** * * * *
30808128 ACGATTCGCTGCTATAGCTTTAATCTTTTTAACTACAAT-GTC-GAGGAAGC
1 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCCTG-GGGAGT
30808178 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGT
30808228 AAGAT
1 AAGAT
30808233 CTGTAATTCT
Statistics
Matches: 72, Mismatches: 28, Indels: 9
0.66 0.26 0.08
Matches are distributed among these distances:
49 29 0.40
50 42 0.58
51 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (50 bp):
AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGT
Found at i:30808722 original size:132 final size:131
Alignment explanation
Indices: 30808550--30808968 Score: 517
Period size: 132 Copynumber: 3.2 Consensus size: 131
30808540 AAATAGGATA
* ** * *
30808550 ACTGGCTTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCCGCCATCTTTAATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAATTACAGGGACGTAAAATCCGCCATCTTTAATCTACTCCA
* * *
30808615 CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAA
66 CTACTACTTAGGGAGGTAAGATCT-AAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
30808680 TT
130 TT
* **
30808682 ACTGGCTTCAATGTACTCCACTGTAATTACAGGGACGTAAAATCCACCATCTTCGATCTACTCCA
1 ACTGGCTTCAATGTACTCCACTGTAATTACAGGGACGTAAAATCCGCCATCTTTAATCTACTCCA
* * *
30808747 CTACTAATTAGGGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTGCTCAGGAAAGTAGAA
66 CTACTACTTAGGGAGGTAAGATCT-AAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
30808812 TT
130 TT
* ** *
30808814 ACTGGCTTCAATGTACTCCACTATAACTT-CAGGG-CGGTAAAATTTGCCA---TTAACCTACTC
1 ACTGGCTTCAATGTACTCCACTGTAA-TTACAGGGAC-GTAAAATCCGCCATCTTTAATCTACTC
* * ** * *
30808874 CACTGCAACCGAGAGAGGTAAGGTCTATAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATA
64 CACTACTACTTAGGGAGGTAAGATCTA-AATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TA
30808938 GAATT
127 GAATT
*
30808943 ACCGGCTTCAATGTACTCCACTGTAA
1 ACTGGCTTCAATGTACTCCACTGTAA
30808969 CCTCAGGGGG
Statistics
Matches: 250, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
128 3 0.01
129 87 0.35
131 1 0.00
132 157 0.63
133 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (131 bp):
ACTGGCTTCAATGTACTCCACTGTAATTACAGGGACGTAAAATCCGCCATCTTTAATCTACTCCA
CTACTACTTAGGGAGGTAAGATCTAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
T
Found at i:30808940 original size:129 final size:128
Alignment explanation
Indices: 30808550--30809027 Score: 498
Period size: 132 Copynumber: 3.7 Consensus size: 128
30808540 AAATAGGATA
* ** * * *
30808550 ACTGGCTTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCCGCCATCTTTAATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACTTCAGGGCGGTAAAATCCGCCA---TTAACCTACTCCA
* ** * * * * *
30808615 CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAA
63 CTGCAACTGA-GGAGGTAAGGTCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
30808680 TT
127 TT
* * *
30808682 ACTGGCTTCAATGTACTCCACTGTAA-TTACAGGGAC-GTAAAATCCACCATCTTCGATCTACTC
1 ACTGGCTTCAATGTACTCCACTGTAACTT-CAGGG-CGGTAAAATCCGCCA--TT-AACCTACTC
* * * * *
30808745 CACTACTAA-TTAGGGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTGCTCAGGAAAGTA
61 CACTGC-AACTGA-GGAGGTAAGGTCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTA
30808809 GAATT
124 GAATT
* **
30808814 ACTGGCTTCAATGTACTCCACTATAACTTCAGGGCGGTAAAATTTGCCATTAACCTACTCCACTG
1 ACTGGCTTCAATGTACTCCACTGTAACTTCAGGGCGGTAAAATCCGCCATTAACCTACTCCACTG
* *
30808879 CAACCGAGAGAGGTAAGGTCTATAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATAGAATT
66 CAACTGAG-GAGGTAAGGTCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATT
* * ** *
30808943 ACCGGCTTCAATGTACTCCACTGTAACCTCAGGG-GGTAAAATCCGTAATCAACCTACTCCACTG
1 ACTGGCTTCAATGTACTCCACTGTAACTTCAGGGCGGTAAAATCCGCCATTAACCTACTCCACTG
*
30809007 CAACTGCAGGAGGCAAGGTCT
66 CAACTG-AGGAGGTAAGGTCT
30809028 GGTATCTTCG
Statistics
Matches: 297, Mismatches: 39, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
128 46 0.15
129 94 0.32
130 2 0.01
131 3 0.01
132 150 0.51
133 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (128 bp):
ACTGGCTTCAATGTACTCCACTGTAACTTCAGGGCGGTAAAATCCGCCATTAACCTACTCCACTG
CAACTGAGGAGGTAAGGTCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
Found at i:30809149 original size:86 final size:88
Alignment explanation
Indices: 30809000--30809159 Score: 222
Period size: 86 Copynumber: 1.8 Consensus size: 88
30808990 ATCAACCTAC
* *
30809000 TCCACTGCAACTGCAGGAGGCAAGGTCTGGTATCTTCGATACGCTTCGCTGTCAATGCAGGAAGG
1 TCCACTGCAACCGCAGGAGGCAAGGTCTGGTATCTTCGATACGCTTCACTGTCAATGCAGGAAGG
30809065 CAAGATCTGGTAACTTAACCTCT
66 CAAGATCTGGTAACTTAACCTCT
* *
30809088 TCCACTGCAACCG-AGGGAGGCAAGG-CTTTGT-T-TTCGAT-CTGCTTCACTGTCGATGCAGGA
1 TCCACTGCAACCGCA-GGAGGCAAGGTC-TGGTATCTTCGATAC-GCTTCACTGTCAATGCAGGA
30809148 AGGCAAGATCTG
63 AGGCAAGATCTG
30809160 CTATCTTCAC
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
85 1 0.02
86 36 0.55
87 3 0.05
88 25 0.38
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (88 bp):
TCCACTGCAACCGCAGGAGGCAAGGTCTGGTATCTTCGATACGCTTCACTGTCAATGCAGGAAGG
CAAGATCTGGTAACTTAACCTCT
Found at i:30812117 original size:25 final size:25
Alignment explanation
Indices: 30812064--30812117 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
30812054 AATAAAATCC
* *
30812064 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
30812089 AAAAGAATGAAAGAAT-ATTGACTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
30812114 AAAA
1 AAAA
30812118 TAAATGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:30816432 original size:2 final size:2
Alignment explanation
Indices: 30816421--30816451 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
30816411 ATTTAAATCA
30816421 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30816452 GGAAAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:30818701 original size:52 final size:52
Alignment explanation
Indices: 30818645--30818761 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
30818635 AACAAGGGAC
* *
30818645 ACACGATCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGCGTAAGGTT
1 ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
*
30818697 ACACGGTCGTGTCCAAGCCTGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
30818749 ACACGGTCGTGTC
1 ACACGGTCGTGTC
30818762 ACACGACTGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.26
Consensus pattern (52 bp):
ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
Found at i:30818780 original size:52 final size:52
Alignment explanation
Indices: 30818645--30818780 Score: 184
Period size: 52 Copynumber: 2.6 Consensus size: 52
30818635 AACAAGGGAC
* * * * *
30818645 ACACGATCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGCGTAAGGTT
1 ACACGGTCGTGTCCAAGACTGTGTCCACACGTGTAACTCACTGAGTAAGGTT
* *
30818697 ACACGGTCGTGTCCAAGCCTGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGACTGTGTCCACACGTGTAACTCACTGAGTAAGGTT
*
30818749 ACACGGTCGTGTCACACGACTGTGT-CACACGT
1 ACACGGTCGTGTC-CAAGACTGTGTCCACACGT
30818781 CCGTCTGCCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
52 68 0.88
53 9 0.12
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.25
Consensus pattern (52 bp):
ACACGGTCGTGTCCAAGACTGTGTCCACACGTGTAACTCACTGAGTAAGGTT
Found at i:30819655 original size:40 final size:40
Alignment explanation
Indices: 30819550--30819745 Score: 202
Period size: 40 Copynumber: 4.9 Consensus size: 40
30819540 CATTCTGGGC
* * *
30819550 TACCGAAGTACAAATAATGG-CATGTATTTCCAATCAGGGG
1 TACCGAAGTACAAATAA-GGACACGTATGTGCAATCAGGGG
* * * * *
30819590 TATCAAAGTTCAAGTAGGGGA-ACGTATGTGCAATCAGGGG
1 TACCGAAGTACAAATA-AGGACACGTATGTGCAATCAGGGG
* *** *
30819630 TACCGAAGTACAAACAAGGACACGTATGCATAATCAAGGG
1 TACCGAAGTACAAATAAGGACACGTATGTGCAATCAGGGG
30819670 TACCGAAGTACAAA-AAGGGACACGTATGCT-CAATCAGGGG
1 TACCGAAGTACAAATAA-GGACACGTATG-TGCAATCAGGGG
*
30819710 TACCGAAGTACAAATAAGGGCACGTATGTGCAATCA
1 TACCGAAGTACAAATAAGGACACGTATGTGCAATCA
30819746 TCAATATTAT
Statistics
Matches: 127, Mismatches: 22, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 6 0.05
40 119 0.94
41 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (40 bp):
TACCGAAGTACAAATAAGGACACGTATGTGCAATCAGGGG
Found at i:30819745 original size:80 final size:80
Alignment explanation
Indices: 30819503--30819745 Score: 231
Period size: 80 Copynumber: 3.0 Consensus size: 80
30819493 TCTATTTGAT
* * * * * * * *
30819503 TCAAGGTTACCAAAGTATAA-ACAAGGGCACATAAGTGCATTCTGGGCTACCGAAGTACAAATAA
1 TCAAGGGTACCAAAGTACAAGA-AAGGGAACGTATGTGCAATCAGGGGTACCGAAGTACAAATAA
* * * *
30819567 TGGCATGTATTTCCAA
65 GGGCACGTATGTACAA
* * * * * *
30819583 TCAGGGGTATCAAAGTTCAAGTAGGGGAACGTATGTGCAATCAGGGGTACCGAAGTACAAACAAG
1 TCAAGGGTACCAAAGTACAAGAAAGGGAACGTATGTGCAATCAGGGGTACCGAAGTACAAATAAG
* * *
30819648 GACACGTATGCATAA
66 GGCACGTATGTACAA
*
30819663 TCAAGGGTACCGAAGTACAA-AAAGGGACACGTATGCT-CAATCAGGGGTACCGAAGTACAAATA
1 TCAAGGGTACCAAAGTACAAGAAAGGGA-ACGTATG-TGCAATCAGGGGTACCGAAGTACAAATA
*
30819726 AGGGCACGTATGTGCAA
64 AGGGCACGTATGTACAA
30819743 TCA
1 TCA
30819746 TCAATATTAT
Statistics
Matches: 128, Mismatches: 32, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
79 5 0.04
80 122 0.95
81 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (80 bp):
TCAAGGGTACCAAAGTACAAGAAAGGGAACGTATGTGCAATCAGGGGTACCGAAGTACAAATAAG
GGCACGTATGTACAA
Found at i:30823186 original size:17 final size:17
Alignment explanation
Indices: 30823164--30823197 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30823154 CACTAACATG
*
30823164 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
30823181 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
30823198 TATACTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:30828549 original size:25 final size:25
Alignment explanation
Indices: 30828521--30828568 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
30828511 AGAAAATCAG
30828521 AAAAA-AAGAAAGGAAAAAAAGAAGT
1 AAAAATAAGAAA-GAAAAAAAGAAGT
* *
30828546 AAAAATGAGTAAGAAAAAAAGAA
1 AAAAATAAGAAAGAAAAAAAGAA
30828569 TGTGAGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (25 bp):
AAAAATAAGAAAGAAAAAAAGAAGT
Found at i:30843745 original size:13 final size:13
Alignment explanation
Indices: 30843727--30843751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30843717 ATTACTCTAT
30843727 AAATATTTAATAA
1 AAATATTTAATAA
30843740 AAATATTTAATA
1 AAATATTTAATA
30843752 GCTCAGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATATTTAATAA
Found at i:30845263 original size:8 final size:8
Alignment explanation
Indices: 30845250--30845279 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
30845240 CAAAATTCTA
30845250 TGCATAAT
1 TGCATAAT
30845258 TGCATAAT
1 TGCATAAT
30845266 TGCATAAT
1 TGCATAAT
*
30845274 TACATA
1 TGCATA
30845280 TCATGTAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (8 bp):
TGCATAAT
Found at i:30846354 original size:114 final size:114
Alignment explanation
Indices: 30846154--30846384 Score: 462
Period size: 114 Copynumber: 2.0 Consensus size: 114
30846144 ATTTAAACAT
30846154 AATTCTTTTTGGAACTAACCATATGGTAAACCATTTCAATAGGAATTACATAATTTAAACATTAC
1 AATTCTTTTTGGAACTAACCATATGGTAAACCATTTCAATAGGAATTACATAATTTAAACATTAC
30846219 CACCCTCTCATGATCACAAGCATATTTTCATTTAGGCATTTACCATTTC
66 CACCCTCTCATGATCACAAGCATATTTTCATTTAGGCATTTACCATTTC
30846268 AATTCTTTTTGGAACTAACCATATGGTAAACCATTTCAATAGGAATTACATAATTTAAACATTAC
1 AATTCTTTTTGGAACTAACCATATGGTAAACCATTTCAATAGGAATTACATAATTTAAACATTAC
30846333 CACCCTCTCATGATCACAAGCATATTTTCATTTAGGCATTTACCATTTC
66 CACCCTCTCATGATCACAAGCATATTTTCATTTAGGCATTTACCATTTC
30846382 AAT
1 AAT
30846385 GCATAACTTA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 117 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.36
Consensus pattern (114 bp):
AATTCTTTTTGGAACTAACCATATGGTAAACCATTTCAATAGGAATTACATAATTTAAACATTAC
CACCCTCTCATGATCACAAGCATATTTTCATTTAGGCATTTACCATTTC
Found at i:30846772 original size:25 final size:26
Alignment explanation
Indices: 30846722--30846785 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
30846712 ATACATGTAT
30846722 GCTCATACGAGCT-ATAAATCGATAA
1 GCTCATACGAGCTGATAAATCGATAA
* * *
30846747 GCTCATACGAGCTGA-GAATTGGTAA
1 GCTCATACGAGCTGATAAATCGATAA
*
30846772 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
30846786 TGGTGTGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
GCTCATACGAGCTGATAAATCGATAA
Found at i:30850388 original size:13 final size:14
Alignment explanation
Indices: 30850370--30850402 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30850360 TCGTATACAC
30850370 TTCATATATC-AGT
1 TTCATATATCTAGT
*
30850383 TTCATATATCTATT
1 TTCATATATCTAGT
30850397 TTCATA
1 TTCATA
30850403 AAAAAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (14 bp):
TTCATATATCTAGT
Found at i:30852798 original size:27 final size:27
Alignment explanation
Indices: 30852768--30852894 Score: 114
Period size: 27 Copynumber: 4.7 Consensus size: 27
30852758 AGGTAGTCCA
* *
30852768 TTCAGAGTTCGTCTCAAAGTCTATTCT
1 TTCAGAGTTCGCCACAAAGTCTATTCT
* ** *
30852795 TTCAAAGTTTTCCACAAA-TACTATTCA
1 TTCAGAGTTCGCCACAAAGT-CTATTCT
30852822 TTCAGAGTTCGCCACAAAGGT-TATTCT
1 TTCAGAGTTCGCCACAAA-GTCTATTCT
* * *
30852849 TTTAGAGTTTGCCACAAAGACTATTCT
1 TTCAGAGTTCGCCACAAAGTCTATTCT
* * *
30852876 TTTAGAGTTTGCCATAAAG
1 TTCAGAGTTCGCCACAAAG
30852895 GCTCACAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.02
27 79 0.96
29 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (27 bp):
TTCAGAGTTCGCCACAAAGTCTATTCT
Found at i:30852825 original size:54 final size:54
Alignment explanation
Indices: 30852766--30852895 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
30852756 AAAGGTAGTC
* * * *
30852766 CATTCAGAGTTCGTCTCAAA-GTCTATTCTTTCAAAGTTTTCCACAAATACTATT
1 CATTCAGAGTTCGCCACAAAGGT-TATTCTTTCAAAGTTTGCCACAAAGACTATT
* *
30852820 CATTCAGAGTTCGCCACAAAGGTTATTCTTTTAGAGTTTGCCACAAAGACTATT
1 CATTCAGAGTTCGCCACAAAGGTTATTCTTTCAAAGTTTGCCACAAAGACTATT
* * * *
30852874 CTTTTAGAGTTTGCCATAAAGG
1 CATTCAGAGTTCGCCACAAAGG
30852896 CTCACAAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 63 0.97
55 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (54 bp):
CATTCAGAGTTCGCCACAAAGGTTATTCTTTCAAAGTTTGCCACAAAGACTATT
Found at i:30854621 original size:33 final size:33
Alignment explanation
Indices: 30854579--30854804 Score: 142
Period size: 33 Copynumber: 6.5 Consensus size: 33
30854569 ATCGATGGAT
* *
30854579 TCAGCACTTAGCAGCCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* * *
30854612 TCAGCACTTAGCAACCCCTTCACATTTAAGATACGGTGGGA
1 TCAGCACTTAGCAACCAC--CA-A--T--GATTCGG-GGAA
*
30854653 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
30854686 TCAGCACTTAGCAACC-CC-----TTGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* *
30854713 TCAGCACTTAGCAACCCCCTTTTATATTCAAGGATACGGTGGAA
1 TCAGCACTTAGCAACCACC----A-A-T----GATTCGG-GGAA
*
30854757 TCAGCACTT-GCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
30854789 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
30854805 CCCTTCGTAT
Statistics
Matches: 151, Mismatches: 16, Indels: 52
0.69 0.07 0.24
Matches are distributed among these distances:
27 23 0.15
28 2 0.01
32 15 0.10
33 46 0.30
34 5 0.03
35 2 0.01
36 1 0.01
37 1 0.01
38 3 0.02
39 3 0.02
40 6 0.04
41 20 0.13
43 11 0.07
44 13 0.09
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGGGGAA
Found at i:30854727 original size:101 final size:103
Alignment explanation
Indices: 30854606--30854806 Score: 336
Period size: 103 Copynumber: 2.0 Consensus size: 103
30854596 CCAGTGATTC
* *
30854606 GGGGAATCAGCACTTAGCAA-CCCC-TTCACATTTAA-GATACGGTGGGATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTCAAGGATACGGTGGAATCAGCACTT-GCAAC
30854668 CACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
65 CACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
* *
30854707 GGGGAATCAGCACTTAGCAACCCCCTTTTATATTCAAGGATACGGTGGAATCAGCACTTGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTCAAGGATACGGTGGAATCAGCACTTGCAACC
30854772 ACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
66 ACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
30854807 CTTCGTATTC
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
101 20 0.22
102 4 0.04
103 49 0.53
104 20 0.22
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTCACATTCAAGGATACGGTGGAATCAGCACTTGCAACC
ACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:30861447 original size:33 final size:33
Alignment explanation
Indices: 30861401--30861771 Score: 165
Period size: 33 Copynumber: 10.7 Consensus size: 33
30861391 TTATCTGTTA
* *
30861401 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
30861435 TCGGGGAATCAGCACTTAGCAACCCCTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC--CA-A--T--GAT
* * *
30861475 ACGGTGGGATCAGCACTTAGCAACCACCAATAAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
* * * *
30861509 CCAGGGAATCAGCACTTAGCAACCACCAGTAAT
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* * *
30861542 TCAGGGAATCAGCATTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* * *
30861583 ACGGTGGGATCAGCACTTAGCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
* *
30861617 TCGGGGAACCTGCACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* *
30861644 TGGGGGAATCAGCACTTAGCAACCCCCTTTTATATTCAAGGAT
1 TCGGGGAATCAGCACTTAGCAACCACC----A-A-T----GAT
* *
30861687 AT-GGTGGAATCAACACTTAGCAACCACCAATGAG
1 -TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
30861721 TCGGGGAATCAACACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
*
30861748 TGGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
30861772 CCTTTCGTAT
Statistics
Matches: 265, Mismatches: 36, Indels: 79
0.70 0.09 0.21
Matches are distributed among these distances:
27 43 0.16
28 2 0.01
32 4 0.02
33 108 0.41
34 17 0.06
35 2 0.01
36 4 0.02
38 4 0.02
39 6 0.02
40 7 0.03
41 24 0.09
42 19 0.07
43 3 0.01
44 22 0.08
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:30861624 original size:108 final size:107
Alignment explanation
Indices: 30861401--30861777 Score: 472
Period size: 104 Copynumber: 3.6 Consensus size: 107
30861391 TTATCTGTTA
*
30861401 TCGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCC-TTCA
1 TCGG-GGAATCAGCACTTAGCAACCACCAGT-ATTCGGGGAATCAGCACTTAGCAACCCCTTTCA
*
30861465 CATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAAT-AA
64 CATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAG
* * *
30861508 TCCAGGGAATCAGCACTTAGCAACCACCAGTAATTCAGGGAATCAGCATTTAGCAACCCCTTTCA
1 T-CGGGGAATCAGCACTTAGCAACCACCAGT-ATTCGGGGAATCAGCACTTAGCAACCCCTTTCA
30861573 CATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAG
64 CATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAG
* * * * *
30861617 TCGGGGAACCTGCACTTAGCAACC-CC----TTGGGGGAATCAGCACTTAGCAACCCCCTTTTAT
1 TCGGGGAATCAGCACTTAGCAACCACCAGTATTCGGGGAATCAGCACTTAGCAA-CCCCTTTCAC
* * * *
30861677 ATTCAAGGATATGGTGGAATCAACACTTAGCAACCACCAATGAG
65 ATTTAA-GATACGGTGGGATCAGCACTTAGCAACCACCAATGAG
* *
30861721 TCGGGGAATCAACACTTAGCAACC-CC----TTGGGGGAATCAGCACTTAGCAACCCCTTTC
1 TCGGGGAATCAGCACTTAGCAACCACCAGTATTCGGGGAATCAGCACTTAGCAACCCCTTTC
30861778 GTATTAAATG
Statistics
Matches: 243, Mismatches: 22, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
102 20 0.08
103 20 0.08
104 80 0.33
107 54 0.22
108 67 0.28
109 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (107 bp):
TCGGGGAATCAGCACTTAGCAACCACCAGTATTCGGGGAATCAGCACTTAGCAACCCCTTTCACA
TTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAG
Found at i:30861763 original size:27 final size:27
Alignment explanation
Indices: 30861723--30861775 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
30861713 CCAATGAGTC
30861723 GGGGAATCAACACTTAGCAACCCCTTG
1 GGGGAATCAACACTTAGCAACCCCTTG
*
30861750 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
30861776 TCGTATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (27 bp):
GGGGAATCAACACTTAGCAACCCCTTG
Found at i:30864003 original size:14 final size:14
Alignment explanation
Indices: 30863984--30864028 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
30863974 TAAGCAATGT
30863984 TAAAGAAAGAGATA
1 TAAAGAAAGAGATA
30863998 TAAAGAATAGA-ATA
1 TAAAGAA-AGAGATA
*
30864012 -AAGGAAAGAGATA
1 TAAAGAAAGAGATA
30864025 TAAA
1 TAAA
30864029 CAATAGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 3 0.12
13 8 0.31
14 12 0.46
15 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (14 bp):
TAAAGAAAGAGATA
Found at i:30864021 original size:27 final size:27
Alignment explanation
Indices: 30863984--30864045 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
30863974 TAAGCAATGT
*
30863984 TAAA-GAAAGAGATATAAAGAATAGAA
1 TAAAGGAAAGAGATATAAACAATAGAA
30864010 TAAAGGAAAGAGATATAAACAATAGAA
1 TAAAGGAAAGAGATATAAACAATAGAA
30864037 TAAAGGAAA
1 TAAAGGAAA
30864046 AAAGATGCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.65, C:0.02, G:0.19, T:0.15
Consensus pattern (27 bp):
TAAAGGAAAGAGATATAAACAATAGAA
Found at i:30868575 original size:54 final size:54
Alignment explanation
Indices: 30868457--30868578 Score: 127
Period size: 54 Copynumber: 2.3 Consensus size: 54
30868447 ATGTTCTAAG
* ** * *
30868457 TCAGTGAGTTACACGGCCTAGAAAATGGCCTGGCACACAGGCATGTGTGGAAAC
1 TCAGTGAGTTACACAGCCTAGAAAACCGCCTGGCACACAGGCATATGGGGAAAC
* ** * * * * *
30868511 TTAGACAGTTACACAGCCTAGCACACCGCCTGGCACACGGGCATATGGGGCATC
1 TCAGTGAGTTACACAGCCTAGAAAACCGCCTGGCACACAGGCATATGGGGAAAC
30868565 TCAGTGAGTTACAC
1 TCAGTGAGTTACAC
30868579 GGGTGAAGAC
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.19
Consensus pattern (54 bp):
TCAGTGAGTTACACAGCCTAGAAAACCGCCTGGCACACAGGCATATGGGGAAAC
Found at i:30877533 original size:26 final size:26
Alignment explanation
Indices: 30877493--30877552 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
30877483 TCGTCGTGGC
*
30877493 TCCATTCGACTAACCTGTTATGTAAT
1 TCCATTCGACCAACCTGTTATGTAAT
30877519 TCCATTCGACCAACCTGTTATGTAAT
1 TCCATTCGACCAACCTGTTATGTAAT
30877545 TCCATTCG
1 TCCATTCG
30877553 TTGTCCCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (26 bp):
TCCATTCGACCAACCTGTTATGTAAT
Found at i:30886347 original size:26 final size:26
Alignment explanation
Indices: 30886307--30886358 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
30886297 TTATTGATAC
* *
30886307 TCAGCTCGTATGAGCTTACCGTTTAT
1 TCAGCTCGAAGGAGCTTACCGTTTAT
30886333 TCAGCTCGAAGGAGCTTACCGTTTAT
1 TCAGCTCGAAGGAGCTTACCGTTTAT
30886359 AGCTCGTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
TCAGCTCGAAGGAGCTTACCGTTTAT
Found at i:30888726 original size:9 final size:9
Alignment explanation
Indices: 30888712--30888746 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
30888702 GTACTATACG
30888712 AAGTTATGT
1 AAGTTATGT
30888721 AAGTTATGT
1 AAGTTATGT
30888730 AAGTTATGT
1 AAGTTATGT
30888739 AAGTTATG
1 AAGTTATG
30888747 ATCTAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (9 bp):
AAGTTATGT
Found at i:30888806 original size:35 final size:35
Alignment explanation
Indices: 30888767--30888833 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
30888757 TTTTTTTATT
*
30888767 CTTTAAATGTTTATGTAAGTTATGATAATCATAAA
1 CTTTAAATGTTTATGTAAGTTATAATAATCATAAA
*
30888802 CTTTAAATGTTTATGTAAGTTATAATTATCAT
1 CTTTAAATGTTTATGTAAGTTATAATAATCAT
30888834 CTTTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTTATAATAATCATAAA
Found at i:30888838 original size:32 final size:32
Alignment explanation
Indices: 30888766--30888845 Score: 108
Period size: 35 Copynumber: 2.4 Consensus size: 32
30888756 TTTTTTTTAT
*
30888766 TCTTTAAATGTTTATGTAAGTTATGATAATCA
1 TCTTTAAATGTTTATGTAAGTTATAATAATCA
*
30888798 TAAACTTTAAATGTTTATGTAAGTTATAATTATCA
1 T---CTTTAAATGTTTATGTAAGTTATAATAATCA
30888833 TCTTTAAAT-TTTA
1 TCTTTAAATGTTTA
30888846 ACTTTAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
31 4 0.09
32 9 0.21
35 30 0.70
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (32 bp):
TCTTTAAATGTTTATGTAAGTTATAATAATCA
Found at i:30888852 original size:13 final size:13
Alignment explanation
Indices: 30888834--30888860 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30888824 TAATTATCAT
30888834 CTTTAAATTTTAA
1 CTTTAAATTTTAA
30888847 CTTTAAATTTTAA
1 CTTTAAATTTTAA
30888860 C
1 C
30888861 CCTTTAATTA
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:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:30889420 original size:22 final size:23
Alignment explanation
Indices: 30889386--30889431 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
30889376 TATTTTAAAT
30889386 TTTAAAATAAAAA-TAAAAAAAA
1 TTTAAAATAAAAACTAAAAAAAA
* * *
30889408 TTTAGAATCAAAACTAAAATAAA
1 TTTAAAATAAAAACTAAAAAAAA
30889431 T
1 T
30889432 AATAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (23 bp):
TTTAAAATAAAAACTAAAAAAAA
Found at i:30889420 original size:23 final size:22
Alignment explanation
Indices: 30889386--30889431 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
30889376 TATTTTAAAT
30889386 TTTAAAATAAAAATAAAAAAAA
1 TTTAAAATAAAAATAAAAAAAA
* * *
30889408 TTTAGAATCAAAACTAAAATAAA
1 TTTAAAAT-AAAAATAAAAAAAA
30889431 T
1 T
30889432 AATAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (22 bp):
TTTAAAATAAAAATAAAAAAAA
Found at i:30891719 original size:21 final size:21
Alignment explanation
Indices: 30891686--30891726 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30891676 CTTTGATCGT
* *
30891686 AAAACAATTCTTTAAAAATTA
1 AAAAAAATGCTTTAAAAATTA
30891707 AAAAAAATGCTTTAAAAATT
1 AAAAAAATGCTTTAAAAATT
30891727 CAAATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAAAAATGCTTTAAAAATTA
Found at i:30893177 original size:48 final size:48
Alignment explanation
Indices: 30893116--30893240 Score: 178
Period size: 48 Copynumber: 2.6 Consensus size: 48
30893106 TATATTTTTC
* * * *
30893116 TCAAGCAACGAAAAGACTGAGAAATAAAAGGGGCGGGATTTTGGGGTT
1 TCAAGCAAAGAAAAGACTGAGAAAGAAAAGGGACCGGATTTTGGGGTT
* **
30893164 TCAAGTAAAGAAAAGTTTGAGAAAGAAAAGGGACCGGATTTTGGGGTT
1 TCAAGCAAAGAAAAGACTGAGAAAGAAAAGGGACCGGATTTTGGGGTT
*
30893212 TCAAGCAAACAAAAGACTGAGAAAGAAAA
1 TCAAGCAAAGAAAAGACTGAGAAAGAAAA
30893241 TAATTCGTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.44, C:0.10, G:0.29, T:0.18
Consensus pattern (48 bp):
TCAAGCAAAGAAAAGACTGAGAAAGAAAAGGGACCGGATTTTGGGGTT
Found at i:30893381 original size:41 final size:41
Alignment explanation
Indices: 30893314--30893409 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
30893304 AAAAAAAAAT
* * ** * *
30893314 TGTGGCGTTTTTCCCATAAATGCCGCTATTGCTTTACCTGC
1 TGTGGCGTTTTTCTCAAAAACACCGCTATGGCTTTACCTAC
* *
30893355 TGTGGCGTTTTTCTCAAAAACACCGCTATGGCTTTACTTAT
1 TGTGGCGTTTTTCTCAAAAACACCGCTATGGCTTTACCTAC
*
30893396 TGCGGCGTTTTTCT
1 TGTGGCGTTTTTCT
30893410 ATTAGCGCCA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.41
Consensus pattern (41 bp):
TGTGGCGTTTTTCTCAAAAACACCGCTATGGCTTTACCTAC
Found at i:30894207 original size:24 final size:24
Alignment explanation
Indices: 30894163--30894208 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
30894153 CCATTCCTGA
*
30894163 TTTTCTTTTTATCATCTCGCTCTC
1 TTTTCTTTTTATCATCACGCTCTC
*
30894187 TTTTCTCTTTTATCGT-ACGCTC
1 TTTTCT-TTTTATCATCACGCTC
30894209 GTATCAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.09, C:0.28, G:0.07, T:0.57
Consensus pattern (24 bp):
TTTTCTTTTTATCATCACGCTCTC
Found at i:30900352 original size:9 final size:9
Alignment explanation
Indices: 30900338--30900368 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30900328 AATTATACAC
*
30900338 AAAAAAAAA
1 AAAAAAAAG
30900347 AAAAAAAAG
1 AAAAAAAAG
30900356 AAAAAAAAG
1 AAAAAAAAG
30900365 AAAA
1 AAAA
30900369 CACAACACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:30905301 original size:20 final size:20
Alignment explanation
Indices: 30905276--30905313 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30905266 TTTATTTTGC
*
30905276 TTTATTATATATATTTTAAA
1 TTTATTATACATATTTTAAA
30905296 TTTATTATACATATTTTA
1 TTTATTATACATATTTTA
30905314 TTACCTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATTATACATATTTTAAA
Found at i:30915635 original size:26 final size:26
Alignment explanation
Indices: 30915587--30915657 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
30915577 ACGGTCATTC
* * *
30915587 TACCCTTCGGGGGTATTTCGATAATT
1 TACCCATCGAGGGTATTTTGATAATT
* *
30915613 TTCCTATCGAGGGTATTTTGATAATT
1 TACCCATCGAGGGTATTTTGATAATT
30915639 TACCCATCGAGGGTATTTT
1 TACCCATCGAGGGTATTTT
30915658 AGTATAGTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (26 bp):
TACCCATCGAGGGTATTTTGATAATT
Found at i:30920190 original size:64 final size:64
Alignment explanation
Indices: 30920089--30920216 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
30920079 TTGACTATAT
30920089 CTCTATGTCAATTCAATCAATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
1 CTCTATGTCAATTCAATCAATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
*
30920153 CTCTATGTCAATTCAATCGATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
1 CTCTATGTCAATTCAATCAATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
30920217 TTATGAAATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (64 bp):
CTCTATGTCAATTCAATCAATTAAACAAATTTTAATAAGCAAATGTGTTAATGCACATACATAC
Found at i:30921340 original size:36 final size:36
Alignment explanation
Indices: 30921270--30921502 Score: 137
Period size: 40 Copynumber: 6.1 Consensus size: 36
30921260 CTAGACAACT
*
30921270 TGATACACCAGCACAAAGCCTGCTAAGCATTAAGCC
1 TGATACACCAGCACAAAGCCTGCTAAGCACTAAGCC
* * * * *
30921306 TGATTCACTAGCATAAAGCTTGCTAGGCACTAAGCC
1 TGATACACCAGCACAAAGCCTGCTAAGCACTAAGCC
* * * ** *
30921342 TAAATACCACC-GACACGAAGCCTGCTAGGTGCTAAACC
1 T-GATA-CACCAG-CACAAAGCCTGCTAAGCACTAAGCC
* *
30921380 TGAATAACACACTAGCACGAAGCCTGCTAGGCACTAAGCC
1 TG-AT-ACAC-C-AGCACAAAGCCTGCTAAGCACTAAGCC
* *
30921420 TGAATAACACAATG-ACATGAAGCCTGCTAGGCACTAAGCC
1 TG-AT-ACACCA-GCACA--AAGCCTGCTAAGCACTAAGCC
* **
30921460 TGAATAACACACCGGCATGAAGCCTGCTAAGCACTAAGCC
1 TG-AT---ACACCAGCACAAAGCCTGCTAAGCACTAAGCC
30921500 TGA
1 TGA
30921503 ATAACACACC
Statistics
Matches: 156, Mismatches: 27, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
36 31 0.20
37 3 0.02
38 31 0.20
39 4 0.03
40 80 0.51
41 2 0.01
42 5 0.03
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (36 bp):
TGATACACCAGCACAAAGCCTGCTAAGCACTAAGCC
Found at i:30921401 original size:40 final size:40
Alignment explanation
Indices: 30921321--30921546 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
30921311 CACTAGCATA
* * *
30921321 AAGCTTGCTAGGCACTAAGCCTAAAT-AC-CACCGACACG
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
** * **
30921359 AAGCCTGCTAGGTGCTAAACCTGAATAACACACTAGCACG
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
** * *
30921399 AAGCCTGCTAGGCACTAAGCCTGAATAACACAATGACATG
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
*
30921439 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCATG
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
*
30921479 AAGCCTGCTAAGCACTAAGCCTGAATAACACACCGGCACG
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
* **
30921519 AAACCTAATAGGCACTAAGCCTGAATAA
1 AAGCCTGCTAGGCACTAAGCCTGAATAA
30921547 TTATAAGGTA
Statistics
Matches: 162, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 21 0.13
39 2 0.01
40 139 0.86
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.16
Consensus pattern (40 bp):
AAGCCTGCTAGGCACTAAGCCTGAATAACACACCGGCACG
Found at i:30921505 original size:120 final size:116
Alignment explanation
Indices: 30921274--30921546 Score: 325
Period size: 120 Copynumber: 2.3 Consensus size: 116
30921264 ACAACTTGAT
* * * * * *
30921274 ACACCAGCACAAAGCCTGCTAAGCATTAAGCCTG-AT-TCACTAGCATAAAGCTTGCTAGGCACT
1 ACACCAGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACAAGCATAAAGCCTGCTAGGCACT
* **
30921337 AAGCCTAAATACCACCGACACGAAGCCTGCTAGGTGCTAAACCTGAATAAC
66 AAGCCTAAATACCACCGACACGAAGCCTGCTAAGCACTAAACCTGAATAAC
* *
30921388 ACACTAGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACAATGACATGAAGCCTGCTAGGCA
1 ACACCAGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACAA-G-CATAAAGCCTGCTAGGCA
* * * *
30921453 CTAAGCCTGAATAACACACCGGCATGAAGCCTGCTAAGCACTAAGCCTGAATAAC
64 CTAAGCCTAAAT-AC-CACCGACACGAAGCCTGCTAAGCACTAAACCTGAATAAC
* * **
30921508 ACACCGGCACGAAACCTAATAGGCACTAAGCCTGAATAA
1 ACACCAGCACGAAGCCTGCTAGGCACTAAGCCTGAATAA
30921547 TTATAAGGTA
Statistics
Matches: 133, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
114 30 0.23
115 2 0.02
116 4 0.03
117 1 0.01
118 27 0.20
119 2 0.02
120 67 0.50
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (116 bp):
ACACCAGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACACAAGCATAAAGCCTGCTAGGCACT
AAGCCTAAATACCACCGACACGAAGCCTGCTAAGCACTAAACCTGAATAAC
Found at i:30923806 original size:25 final size:25
Alignment explanation
Indices: 30923772--30923825 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
30923762 GGTTTAACCC
30923772 TACTAGGTAGGTCAACCAAGATCCA
1 TACTAGGTAGGTCAACCAAGATCCA
30923797 TACTAGGTAGGTCAACCAAGATCCA
1 TACTAGGTAGGTCAACCAAGATCCA
30923822 TACT
1 TACT
30923826 TTTTTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (25 bp):
TACTAGGTAGGTCAACCAAGATCCA
Found at i:30929292 original size:51 final size:50
Alignment explanation
Indices: 30929162--30929293 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 50
30929152 AAAGTGATGG
* *
30929162 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
* * * * *
30929212 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAT-G-ATAGA
30929263 TCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
30929294 GGTGTATCGG
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 2 0.03
50 38 0.54
51 31 0.44
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
Found at i:30929323 original size:51 final size:50
Alignment explanation
Indices: 30929158--30929333 Score: 201
Period size: 51 Copynumber: 3.5 Consensus size: 50
30929148 AGTGAAAGTG
* * *
30929158 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGGT
* * * * *
30929209 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
* * * * *
30929258 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTAGGTGTATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
30929309 AATGGTCACATGTGTAGTACTATGT
1 -ATGGTCACATGTGTAGTACTATGT
30929334 AAAGCCTGCT
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
49 3 0.03
50 37 0.36
51 61 0.60
52 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
Found at i:30929406 original size:45 final size:45
Alignment explanation
Indices: 30929350--30929444 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
30929340 TGCTATGTGA
* * *
30929350 ACCGAACATCATTGATTAGTAAGGTGGTTTCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
*
30929395 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
30929440 ACCGA
1 ACCGA
30929445 GTATCTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
Found at i:30931636 original size:10 final size:10
Alignment explanation
Indices: 30931621--30931667 Score: 60
Period size: 10 Copynumber: 4.5 Consensus size: 10
30931611 GATCATAAGT
30931621 AGAAAAAAAA
1 AGAAAAAAAA
30931631 AGAAAAAAAA
1 AGAAAAAAAA
30931641 AGAAAAAAGAA
1 AGAAAAAA-AA
30931652 A-AAAGAAAAA
1 AGAAA-AAAAA
30931662 ATGAAA
1 A-GAAA
30931668 TGAAAGTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 24 0.73
11 6 0.18
12 3 0.09
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:30931638 original size:7 final size:7
Alignment explanation
Indices: 30931621--30931667 Score: 62
Period size: 7 Copynumber: 6.7 Consensus size: 7
30931611 GATCATAAGT
30931621 AGAAAAA
1 AGAAAAA
30931628 A-AAAGAA
1 AGAAA-AA
30931635 A-AAAAA
1 AGAAAAA
30931641 AGAAAAA
1 AGAAAAA
30931648 AGAAAAA
1 AGAAAAA
30931655 AGAAAAA
1 AGAAAAA
30931662 ATGAAA
1 A-GAAA
30931668 TGAAAGTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.16
7 27 0.73
8 4 0.11
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (7 bp):
AGAAAAA
Found at i:30931638 original size:8 final size:8
Alignment explanation
Indices: 30931625--30931667 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
30931615 ATAAGTAGAA
30931625 AAAAAAAG
1 AAAAAAAG
*
30931633 AAAAAAAA
1 AAAAAAAG
30931641 AGAAAAAAG
1 A-AAAAAAG
30931650 -AAAAAAG
1 AAAAAAAG
*
30931657 AAAAAATG
1 AAAAAAAG
30931665 AAA
1 AAA
30931668 TGAAAGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 7 0.23
8 17 0.57
9 6 0.20
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:30934867 original size:51 final size:50
Alignment explanation
Indices: 30934800--30934931 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 50
30934790 TGATAGGTCG
*
30934800 CATGTGTAATACTATGTGCAGGCTACTATGCATACCGGATAGCT-TCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAG-TAT-GATCA
* * ** * *
30934851 CATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATAGTGATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGT-ATGATCA
*
30934902 CATGTTTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
30934932 TGAACCGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 1 0.01
51 67 0.97
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (50 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTATGATCA
Found at i:30934872 original size:101 final size:102
Alignment explanation
Indices: 30934747--30934931 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 102
30934737 AAAGTGATGG
* *
30934747 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA-CTAGA-A-TGATAGGTCGCATGTGTAA
1 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATC-AGATAGTGAT-GGTCACATGTGTAA
30934809 TACTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
64 TACTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
* * *
30934848 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTTTAGTA
1 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAATA
30934913 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
30934932 TGAACCGGTA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAATA
CTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
Found at i:30935409 original size:51 final size:51
Alignment explanation
Indices: 30935348--30935576 Score: 230
Period size: 51 Copynumber: 4.5 Consensus size: 51
30935338 TGTGGCATGG
* * *** *
30935348 ACTATGTGTAGGCCACTATGTGAAAGTGAAAGTGATGGTCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAACCAGAAAGTGATGGTCACATGTGTAGT
* * *
30935399 ACTATGTGTAGGCTACTACGTGTACCAG-AA-TGATAGGTCACATGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAACCAGAAAGTGAT-GGTCACATGTGTAGT
* * * * * **
30935449 ACTATGTGCAGGCTACTATGCGTACCAGATAGCT-TTGATCATGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAACCAGAAAG-TGATGGTCACATGTGTAGT
* * * * *
30935500 ACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAACCAGAAAGTGATGGTCACATGTGTAGT
30935551 ACTATGTGCAGGCTACTATGTGAACC
1 ACTATGTGCAGGCTACTATGTGAACC
30935577 GGTACCATTA
Statistics
Matches: 147, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
49 4 0.03
50 42 0.29
51 99 0.67
52 1 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
ACTATGTGCAGGCTACTATGTGAACCAGAAAGTGATGGTCACATGTGTAGT
Found at i:30935467 original size:101 final size:102
Alignment explanation
Indices: 30935348--30935574 Score: 289
Period size: 101 Copynumber: 2.2 Consensus size: 102
30935338 TGTGGCATGG
* * ** * *
30935348 ACTATGTGTAGGCCACTATGTGAAAGTGAAAG-TGATGGTCACGTGTGTAGTACTATGTGTAGGC
1 ACTATGTGCAGGCTACTATGTGAAACAGAAAGCT-ATGATCACGTGTGTAGTACTATGTGCAGGC
30935412 TACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
65 TACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
* * * * * *
30935449 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTTGATCATGTGTGTAGTACTATGTGCAGGCT
1 ACTATGTGCAGGCTACTATGTGAAACAGAAAGCTATGATCACGTGTGTAGTACTATGTGCAGGCT
* *
30935514 ACTACGTGTATCGGATAGTGATGGTCACATGTGTAGT
66 ACTACGTGTACCAGATAGTGATGGTCACATGTGTAGT
30935551 ACTATGTGCAGGCTACTATGTGAA
1 ACTATGTGCAGGCTACTATGTGAA
30935575 CCGGTACCAT
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
101 64 0.60
102 39 0.36
103 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (102 bp):
ACTATGTGCAGGCTACTATGTGAAACAGAAAGCTATGATCACGTGTGTAGTACTATGTGCAGGCT
ACTACGTGTACCAGATAGTGATGGTCACATGTGTAGT
Found at i:30935572 original size:26 final size:26
Alignment explanation
Indices: 30935492--30935572 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
30935482 TTTGATCATG
30935492 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
30935518 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
30935543 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
30935569 TGTG
1 TGTG
30935573 AACCGGTACC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:30935817 original size:16 final size:16
Alignment explanation
Indices: 30935796--30935827 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30935786 TGATTGAAAG
*
30935796 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
30935812 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
30935828 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:30941634 original size:51 final size:50
Alignment explanation
Indices: 30941493--30941634 Score: 144
Period size: 51 Copynumber: 2.8 Consensus size: 50
30941483 AATGTGATGG
* * * * * *
30941493 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGAATGATAGA
* * * * *
30941543 TCGCATTTGTAGTACTATGTGCAGGCTACTATG-CATACCGG-ATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGA-ACCGGAAT-G-ATAGA
30941594 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
30941635 TATCATTAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
49 2 0.03
50 33 0.45
51 38 0.51
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGAATGATAGA
Found at i:30943411 original size:51 final size:51
Alignment explanation
Indices: 30943284--30943470 Score: 213
Period size: 51 Copynumber: 3.7 Consensus size: 51
30943274 AGTGAAAGTG
* *
30943284 ATGGTCACGTGTGTAGTACTATGTG-TAGGCTACTACGTGTACTGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCT-GGCTACTACGTGTACTGGATAGTA
* *
30943333 ATAGGTCGCATGTGTAGTACTATGTGCTGGCTACTACGTTTACTGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCTGGCTACTACGTGTACTGGATAGTA
* * *
30943384 TTCGGTCACGTGTGTAGTACTATGTGCTGGCTACTACGTGTA-TCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCTGGCTACTACGTGTACT-GGATAGTA
* * *
30943436 ATGGTCATATGTGTAGTACTACGTGCGGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCTGGCTACTA
30943471 TGTGAACCGA
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 2 0.02
50 40 0.34
51 74 0.63
52 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCTGGCTACTACGTGTACTGGATAGTA
Found at i:30943416 original size:101 final size:102
Alignment explanation
Indices: 30943286--30943470 Score: 270
Period size: 101 Copynumber: 1.8 Consensus size: 102
30943276 TGAAAGTGAT
*
30943286 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA-CTGGAATGAT-A-GGTCGCATGTGT
1 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATC-GG-ATGATAATGGTCACATGTGT
* *
30943348 AGTACTATGTGCTGGCTACTACGTTTACTGGATAGTTTC
64 AGTACTACGTGCGGGCTACTACGTTTACTGGATAGTTTC
* *
30943387 GGTCACGTGTGTAGTACTATGTGCT-GGCTACTACGTGTATCGGATGGTAATGGTCATATGTGTA
1 GGTCACGTGTGTAGTACTATGTG-TAGGCTACTACGTGTATCGGATGATAATGGTCACATGTGTA
30943451 GTACTACGTGCGGGCTACTA
65 GTACTACGTGCGGGCTACTA
30943471 TGTGAACCGA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
100 4 0.05
101 40 0.53
102 31 0.41
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.34
Consensus pattern (102 bp):
GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGATAATGGTCACATGTGTAG
TACTACGTGCGGGCTACTACGTTTACTGGATAGTTTC
Found at i:30943532 original size:45 final size:45
Alignment explanation
Indices: 30943476--30943570 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
30943466 TACTATGTGA
* * *
30943476 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
30943521 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
30943566 ACCGA
1 ACCGA
30943571 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:30959207 original size:76 final size:74
Alignment explanation
Indices: 30959042--30959216 Score: 199
Period size: 74 Copynumber: 2.3 Consensus size: 74
30959032 TCGATGATAG
* ** * ** * *
30959042 GTGTGCCCTGCACTAGTC-AATTAAACCAACAATGATTTGCGCCCAACCTAGTTTGGTTAATGAC
1 GTGTGCCCAGCACTAGTCGAA-TAAACCAACAATGAGGTACGCCCAACCTAGTAAGGATAACGAC
30959106 GATATCAAAT
65 GATATCAAAT
* * * *
30959116 GTGTTCCCAACACTAGTCGAATAAACCGACAATGAGGTACGCCCAGCGCTAGTAAGGATAACCGA
1 GTGTGCCCAGCACTAGTCGAATAAACCAACAATGAGGTACGCCCAAC-CTAGTAAGGATAA-CGA
30959181 CGATATCAAAT
64 CGATATCAAAT
*
30959192 GTGTGCCCAGCACTAGTCGGATAAA
1 GTGTGCCCAGCACTAGTCGAATAAA
30959217 ACTGACAAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
74 36 0.43
75 12 0.14
76 35 0.42
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (74 bp):
GTGTGCCCAGCACTAGTCGAATAAACCAACAATGAGGTACGCCCAACCTAGTAAGGATAACGACG
ATATCAAAT
Found at i:30962394 original size:41 final size:41
Alignment explanation
Indices: 30962281--30962407 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 41
30962271 CTTTCGGGGA
* * * * *
30962281 TTTAGCGGCATTTTTGAGGAAGCGCCGCTAAGGCCCGGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
30962322 TTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTTAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
30962363 TTTAGTGGCGTTTTTGAGAAAGTGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
30962404 TTTA
1 TTTA
30962408 AAATAATTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:30963087 original size:14 final size:15
Alignment explanation
Indices: 30963068--30963105 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30963058 GGTTTAAGAG
30963068 GTTTAAGGG-CTATA
1 GTTTAAGGGTCTATA
*
30963082 GTTTAAGGGTTTTATA
1 GTTTAAGGG-TCTATA
30963098 GTTTAAGG
1 GTTTAAGG
30963106 TTTAATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
16 12 0.57
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (15 bp):
GTTTAAGGGTCTATA
Found at i:30965762 original size:32 final size:35
Alignment explanation
Indices: 30965721--30965787 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
30965711 TTGAACTCTA
**
30965721 TTCATATTATGGGT-TTTTT-TTGACAAAAATGCT
1 TTCATATTATGCATCTTTTTGTTGACAAAAATGCT
30965754 TTCA-ATTATGCATCTTTTTGGTTGACAAAAATGC
1 TTCATATTATGCATCTTTTT-GTTGACAAAAATGC
30965788 GTTTTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 7 0.24
33 9 0.31
35 13 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (35 bp):
TTCATATTATGCATCTTTTTGTTGACAAAAATGCT
Found at i:30966174 original size:3 final size:3
Alignment explanation
Indices: 30966166--30966195 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30966156 GGGGATTCCT
30966166 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30966196 ATGATTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30969220 original size:41 final size:41
Alignment explanation
Indices: 30969175--30969305 Score: 244
Period size: 41 Copynumber: 3.2 Consensus size: 41
30969165 AATTCGGCCA
*
30969175 AACATGTAGTAGCAGCATTAAATTCGTCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
30969216 AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
*
30969257 AACATGTAGTGGCAGCATTAAATTCGTCCAGACATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
30969298 AACATGTA
1 AACATGTA
30969306 TGAAAATAGG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (41 bp):
AACATGTAGTGGCAGCATTAAATTCGTCCAGGCATATTTAT
Found at i:30971486 original size:42 final size:43
Alignment explanation
Indices: 30971350--30971506 Score: 244
Period size: 43 Copynumber: 3.7 Consensus size: 43
30971340 TTAAAGCATT
* *
30971350 GCTAAAGGTCTTGATCTATAGCGGCGTTTATGGAAAAAGCGCC
1 GCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* * *
30971393 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGTGCC
1 GCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
* *
30971436 GCTAAAGGTCCTGATCTATGGCGGCGTTTGT-GTAAAAGCGCC
1 GCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
30971478 GCTAAAGGTCCTGATCTATAGCGGCGTTT
1 GCTAAAGGTCCTGATCTATAGCGGCGTTT
30971507 ATTTCTAAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 37 0.35
43 69 0.65
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
GCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAAAGCGCC
Found at i:30971523 original size:86 final size:86
Alignment explanation
Indices: 30971350--30971506 Score: 235
Period size: 85 Copynumber: 1.8 Consensus size: 86
30971340 TTAAAGCATT
* *
30971350 GCTAAAGGTCTTGATCTATAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
1 GCTAAAGGTCCTGATCTATAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* **
30971415 GGCGTTTGTGGGAAAAGTGCC
66 GGCGTTTGTGCGAAAAACGCC
* * *
30971436 GCTAAAGGTCCTGATCTATGGCGGCGTTTGT-GTAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GCTAAAGGTCCTGATCTATAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
30971500 GGCGTTT
66 GGCGTTT
30971507 ATTTCTAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 38 0.58
86 28 0.42
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (86 bp):
GCTAAAGGTCCTGATCTATAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
GGCGTTTGTGCGAAAAACGCC
Found at i:30976233 original size:25 final size:25
Alignment explanation
Indices: 30976195--30976288 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
30976185 CATTTACATA
*
30976195 TATGCTCATACGAGCTGTGAATCGG
1 TATGCTCACACGAGCTGTGAATCGG
* *
30976220 TATGCTCACTCGAGCTGT-AGATCAG
1 TATGCTCACACGAGCTGTGA-ATCGG
* * * * *
30976245 TATGCTCTCACAAGCTATAAATCGA
1 TATGCTCACACGAGCTGTGAATCGG
*
30976270 TATGCTTACACGAGCTGTG
1 TATGCTCACACGAGCTGTG
30976289 GGTCATAATG
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTGAATCGG
Found at i:30977961 original size:27 final size:27
Alignment explanation
Indices: 30977878--30978053 Score: 146
Period size: 27 Copynumber: 6.4 Consensus size: 27
30977868 ACGCCAGAAT
*
30977878 ATGGAAGCCTTTGTGGCAATCTATGAA
1 ATGGAAGCCTTTATGGCAATCTATGAA
* *
30977905 ATGGAAG-CTTTCATGATG-TATCTATAAA
1 ATGGAAGCCTTT-ATG--GCAATCTATGAA
30977933 ATGGAAGCCTTTATGGCAATCTATGAA
1 ATGGAAGCCTTTATGGCAATCTATGAA
* ** * *
30977960 ATAGAAGCCTTCGTGACATATCTATAAA
1 ATGGAAGCCTTTATGGCA-ATCTATGAA
* *
30977988 ATAGAAGCCTTTGTGAG-AATCTATGAA
1 ATGGAAGCCTTTATG-GCAATCTATGAA
*
30978015 ATGGAAGTCTTTGA-GGCAATCTATGGAA
1 ATGGAAGCCTTT-ATGGCAATCTAT-GAA
30978043 A-GGAATGCCTT
1 ATGGAA-GCCTT
30978054 CGTGGCACAT
Statistics
Matches: 121, Mismatches: 17, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
26 6 0.05
27 61 0.50
28 49 0.40
29 5 0.04
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (27 bp):
ATGGAAGCCTTTATGGCAATCTATGAA
Found at i:30977967 original size:55 final size:55
Alignment explanation
Indices: 30977878--30978026 Score: 210
Period size: 55 Copynumber: 2.7 Consensus size: 55
30977868 ACGCCAGAAT
**
30977878 ATGGAAGCCTTTGTGGCAATCTATGAAATGGAAGCTTTCATGATGTATCTATAAA
1 ATGGAAGCCTTTGTGGCAATCTATGAAATGGAAGCTTTCATGACATATCTATAAA
* * * *
30977933 ATGGAAGCCTTTATGGCAATCTATGAAATAGAAGCCTTCGTGACATATCTATAAA
1 ATGGAAGCCTTTGTGGCAATCTATGAAATGGAAGCTTTCATGACATATCTATAAA
*
30977988 ATAGAAGCCTTTGTGAG-AATCTATGAAATGGAAGTCTTT
1 ATGGAAGCCTTTGTG-GCAATCTATGAAATGGAAG-CTTT
30978027 GAGGCAATCT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
55 78 0.95
56 4 0.05
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (55 bp):
ATGGAAGCCTTTGTGGCAATCTATGAAATGGAAGCTTTCATGACATATCTATAAA
Found at i:30978071 original size:26 final size:24
Alignment explanation
Indices: 30978041--30978114 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 24
30978031 CAATCTATGG
30978041 AAAGGAATGCCTTCGTGGCACATTCT
1 AAAGGAATGCCTT-GTGGCACA-TCT
*
30978067 AAAGGAAGGGCCTTGTGGCAAACATCT
1 AAAGGAA-TGCCTTGTGGC--ACATCT
*
30978094 AAAGGAAATGCTTTTGTGGCA
1 AAAGG-AATGC-CTTGTGGCA
30978115 AACCCTGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
26 13 0.32
27 15 0.38
28 12 0.30
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (24 bp):
AAAGGAATGCCTTGTGGCACATCT
Found at i:30978272 original size:27 final size:27
Alignment explanation
Indices: 30978222--30978292 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
30978212 AGGTATGGTA
* ** *
30978222 AACATTGAAGGAATAGTATGTATGGCG
1 AACACTGAAGGAATAGTACATATGGAG
*
30978249 AACACTGAAGGAATATTACATATGGAG
1 AACACTGAAGGAATAGTACATATGGAG
** *
30978276 AACTTTAAAGGAATAGT
1 AACACTGAAGGAATAGT
30978293 GCGTATGGCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.25
Consensus pattern (27 bp):
AACACTGAAGGAATAGTACATATGGAG
Found at i:30980197 original size:20 final size:20
Alignment explanation
Indices: 30980172--30980210 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30980162 TACTTTCTTC
30980172 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
30980192 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
30980211 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:30980537 original size:50 final size:50
Alignment explanation
Indices: 30980413--30980598 Score: 209
Period size: 50 Copynumber: 3.7 Consensus size: 50
30980403 GATAATAACA
* * * *
30980413 TGCCAAAGCCATGTCCCAGACATGGCCTTACATGAGATGTT-TCCTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * * *
30980462 TACCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** *
30980512 TGCCCATGCCATGTCCCAGACATGGTCTTAC-TGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGGAGTTCTCATATCGG
30980562 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
30980599 TCTCATTCCC
Statistics
Matches: 115, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
48 4 0.03
49 36 0.31
50 74 0.64
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:30988184 original size:50 final size:50
Alignment explanation
Indices: 30988119--30988307 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
30988109 TCCTGTACTA
* * * **
30988119 CCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* ** *
30988169 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* **
30988219 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
* *
30988275 CCAATGCCATGTCCCTGACATGGTCTTAGATGG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGG
30988308 TATCTCATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 80 0.70
53 2 0.02
56 32 0.28
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:30988834 original size:46 final size:46
Alignment explanation
Indices: 30988771--30988868 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 46
30988761 AAAAGAAATA
* *
30988771 AAAACACTAAAAATTTTAATTTTATCTAGTTTTTATAAATATTACTT
1 AAAA-ACTAAAAATTTTAATTTTATCTAATTTTTATAAATATGACTT
*
30988818 AAAAACTAAAATTTTTAATTTTATCTAATTTTTATAAATATGACTT
1 AAAAACTAAAAATTTTAATTTTATCTAATTTTTATAAATATGACTT
30988864 AAAAA
1 AAAAA
30988869 AACTATGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 44 0.92
47 4 0.08
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (46 bp):
AAAAACTAAAAATTTTAATTTTATCTAATTTTTATAAATATGACTT
Found at i:30991459 original size:43 final size:43
Alignment explanation
Indices: 30991412--30991662 Score: 360
Period size: 43 Copynumber: 5.9 Consensus size: 43
30991402 GTTTGTAATC
* *
30991412 AAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* * *
30991455 AAAGCGCCGCTTAAGGTCTTGATCTATAGTGACGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
*
30991498 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGG
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* ** * *
30991541 AAAGCGCCGCTAAAGATCCCGAGCTATAGCGGCGTTTGT-GTA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* *
30991583 GAAGCGCCGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* *
30991626 AAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTT
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
30991663 ATTTCTAAAA
Statistics
Matches: 183, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 34 0.19
43 149 0.81
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
Found at i:30991630 original size:128 final size:128
Alignment explanation
Indices: 30991412--30991662 Score: 380
Period size: 128 Copynumber: 2.0 Consensus size: 128
30991402 GTTTGTAATC
* * ** * *
30991412 AAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTTAAGGTCTTGA
1 AAAGCGCCGCTAAAGATCCCGAGCTATAGCGGCGTTTGTGAG-AAAGCGCCGCTAAAGGTCTTGA
* * *
30991477 TCTATAGTGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGG
65 TCTATAGAGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTTGTGGGG
30991541 AAAGCGCCGCTAAAGATCCCGAGCTATAGCGGCGTTTGTGTAG-AAGCGCCGCTAAAGGTCTTGA
1 AAAGCGCCGCTAAAGATCCCGAGCTATAGCGGCGTTTGTG-AGAAAGCGCCGCTAAAGGTCTTGA
30991605 TCTATAGCAG-CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTT
65 TCTATAG-AGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTT
30991663 ATTTCTAAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
128 73 0.66
129 36 0.32
130 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (128 bp):
AAAGCGCCGCTAAAGATCCCGAGCTATAGCGGCGTTTGTGAGAAAGCGCCGCTAAAGGTCTTGAT
CTATAGAGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTTGTGGGG
Found at i:30991653 original size:85 final size:86
Alignment explanation
Indices: 30991412--30991662 Score: 360
Period size: 85 Copynumber: 2.9 Consensus size: 86
30991402 GTTTGTAATC
* * * *
30991412 AAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTTAAGGTCTTGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
* *
30991477 TCTATAGTGACGTTTGTGGGA
66 TCTATAGCGGCGTTTGTGGGA
* * **
30991498 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATCCCGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
* *
30991563 GCTATAGCGGCGTTTGT-GTA
66 TCTATAGCGGCGTTTGTGGGA
* *
30991583 GAAGCGCCGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
*
30991648 TCTATAGCAGCGTTT
66 TCTATAGCGGCGTTT
30991663 ATTTCTAAAA
Statistics
Matches: 146, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 74 0.51
86 72 0.49
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
TCTATAGCGGCGTTTGTGGGA
Found at i:30999655 original size:22 final size:22
Alignment explanation
Indices: 30999603--30999666 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
30999593 TATTTGGGAA
* *
30999603 TTGGTACGAAACGGTAAGGGAT
1 TTGGTACGAAATGGTAATGGAT
* **
30999625 GTGAAACGAAATGGTAATGGAT
1 TTGGTACGAAATGGTAATGGAT
*
30999647 TTGGTACGAAATGGAAATGG
1 TTGGTACGAAATGGTAATGG
30999667 TTCAAAAAGG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.23
Consensus pattern (22 bp):
TTGGTACGAAATGGTAATGGAT
Found at i:31000756 original size:10 final size:10
Alignment explanation
Indices: 31000741--31000782 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
31000731 TTTGCAAGTT
31000741 TTGAGCTAAA
1 TTGAGCTAAA
* *
31000751 TTGAGCTGAT
1 TTGAGCTAAA
*
31000761 TTGAGCT-CA
1 TTGAGCTAAA
31000770 TTGAGCTAAA
1 TTGAGCTAAA
31000780 TTG
1 TTG
31000783 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:31002437 original size:19 final size:20
Alignment explanation
Indices: 31002388--31002459 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 20
31002378 TTTTTCATCC
**
31002388 TTTTCTTTTCTTGCTTTC--
1 TTTTCTTTTCTTTTTTTCAA
* *
31002406 TTTTCATTCTCTTTTTTTGAA
1 TTTTC-TTTTCTTTTTTTCAA
*
31002427 TTTTC-TTTCTTTTTTTCAT
1 TTTTCTTTTCTTTTTTTCAA
31002446 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
31002460 GTATTTTCGC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 5 0.12
19 25 0.58
20 8 0.19
21 5 0.12
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTTTCAA
Found at i:31004660 original size:17 final size:18
Alignment explanation
Indices: 31004638--31004674 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
31004628 AGACCGTATA
31004638 CAATTTT-ATTTTTTTTT
1 CAATTTTAATTTTTTTTT
31004655 CAATTTTAAATTTTTTTTT
1 CAATTTT-AATTTTTTTTT
31004674 C
1 C
31004675 GAACTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (18 bp):
CAATTTTAATTTTTTTTT
Found at i:31005043 original size:22 final size:22
Alignment explanation
Indices: 31004993--31005052 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
31004983 TGGGAATTGT
* *
31004993 TACGAAACGGTAAGGGATTTGA
1 TACGAAATGGTAATGGATTTGA
* * *
31005015 AATGAAATGGTAATGGATTTGG
1 TACGAAATGGTAATGGATTTGA
*
31005037 TACGAAATGGAAATGG
1 TACGAAATGGTAATGG
31005053 TTGAAAAAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.25
Consensus pattern (22 bp):
TACGAAATGGTAATGGATTTGA
Found at i:31014801 original size:217 final size:217
Alignment explanation
Indices: 31014426--31014856 Score: 817
Period size: 217 Copynumber: 2.0 Consensus size: 217
31014416 TTGATGTTTG
*
31014426 ATGATAGGAAATGAATGGTTGTTGTTAGGTAAACAACTTTTGTAAAGGAATTTTTCATGAAATTA
1 ATGATAGGAAATGAATGGTTGTTGTTAGATAAACAACTTTTGTAAAGGAATTTTTCATGAAATTA
**
31014491 TCAATTAGGGATAACTTTGAAAAATAAAAAATTTTACATGGTGAAATTGTGAAATAAATGAAATA
66 TCAATTAGGGATAAAATTGAAAAATAAAAAATTTTACATGGTGAAATTGTGAAATAAATGAAATA
*
31014556 TAGGGCTTGTTAGGGACTAGATTGATACTCGGCTATGATAGGTTGTGGTGGAATTTCTTCCTTTT
131 TAGGGCTTGCTAGGGACTAGATTGATACTCGGCTATGATAGGTTGTGGTGGAATTTCTTCCTTTT
31014621 CCATTTTTATGAGATAACGGCT
196 CCATTTTTATGAGATAACGGCT
31014643 ATGATAGGAAATGAATGGTTGTTGTTAGATAAACAACTTTTGTAAAGGAATTTTTCATGAAATTA
1 ATGATAGGAAATGAATGGTTGTTGTTAGATAAACAACTTTTGTAAAGGAATTTTTCATGAAATTA
31014708 TCAATTAGGGATAAAATTGAAAAATAAAAAATTTTACATGGTGAAATTGTGAAATAAATGAAATA
66 TCAATTAGGGATAAAATTGAAAAATAAAAAATTTTACATGGTGAAATTGTGAAATAAATGAAATA
*
31014773 TAGGGCTTGCTAGGGACTAGATTGATACTCGGCTATGATGGGTTGTGGTGGAATTTCTTCCTTTT
131 TAGGGCTTGCTAGGGACTAGATTGATACTCGGCTATGATAGGTTGTGGTGGAATTTCTTCCTTTT
31014838 CCATTTTTATGAGATAACG
196 CCATTTTTATGAGATAACG
31014857 ACTAAATTAC
Statistics
Matches: 209, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
217 209 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (217 bp):
ATGATAGGAAATGAATGGTTGTTGTTAGATAAACAACTTTTGTAAAGGAATTTTTCATGAAATTA
TCAATTAGGGATAAAATTGAAAAATAAAAAATTTTACATGGTGAAATTGTGAAATAAATGAAATA
TAGGGCTTGCTAGGGACTAGATTGATACTCGGCTATGATAGGTTGTGGTGGAATTTCTTCCTTTT
CCATTTTTATGAGATAACGGCT
Found at i:31015311 original size:25 final size:25
Alignment explanation
Indices: 31015230--31015309 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
31015220 GCCATTAGGG
31015230 TTACCGAT-TTCAGCTCGAATGAGC
1 TTACCGATATTCAGCTCGAATGAGC
*
31015254 TTACCGATACTT-AGCTCGCATGAGC
1 TTACCGATA-TTCAGCTCGAATGAGC
* * *
31015279 TTACCGTTATTCAGCTCGGAGGAGC
1 TTACCGATATTCAGCTCGAATGAGC
31015304 TTACCG
1 TTACCG
31015310 TTTATAGCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 10 0.20
25 37 0.76
26 2 0.04
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (25 bp):
TTACCGATATTCAGCTCGAATGAGC
Found at i:31015327 original size:24 final size:24
Alignment explanation
Indices: 31015241--31015327 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 24
31015231 TACCGATTTC
*
31015241 AGCTCG-AATGAGCTTACCGATACTT
1 AGCTCGCAA-GAGCTTACCGTTA-TT
*
31015266 AGCTCGCATGAGCTTACCGTTATT
1 AGCTCGCAAGAGCTTACCGTTATT
* *
31015290 CAGCTCGGAGGAGCTTACCGTT-TAT
1 -AGCTCGCAAGAGCTTACCGTTAT-T
*
31015315 AGCTCGTAAGAGC
1 AGCTCGCAAGAGC
31015328 ATACTGATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
24 14 0.26
25 38 0.72
26 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (24 bp):
AGCTCGCAAGAGCTTACCGTTATT
Found at i:31018655 original size:54 final size:54
Alignment explanation
Indices: 31018573--31018683 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 54
31018563 CCATTGATAT
* * *
31018573 GTGTGCATGAATTTAGTGTCTAGTAAGAATTTACTTGTTGAGTCCACTGGATTC
1 GTGTGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCACTAGATTC
* *
31018627 GTGTGCATGAATTTAGTTTCTAGTAAGAATTTACCTATTGAGTCCATTAGATTC
1 GTGTGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCACTAGATTC
31018681 GTG
1 GTG
31018684 ACAAAGGTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (54 bp):
GTGTGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCACTAGATTC
Found at i:31021481 original size:42 final size:42
Alignment explanation
Indices: 31021422--31021508 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
31021412 AAAGCAGCTT
*
31021422 TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAAGATA
1 TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAACATA
* *
31021464 TAGATCGTTAGAAATCATATGCGAATCTTAAACATAAACATA
1 TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAACATA
31021506 TAG
1 TAG
31021509 TGAAGAATCG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (42 bp):
TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAACATA
Found at i:31022957 original size:25 final size:25
Alignment explanation
Indices: 31022903--31023017 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
31022893 GGTTATCGAT
* **
31022903 TTCAGCTCGAACGAGCTTACCAATA
1 TTCAGCTCGAAAGAGCTTACCGTTA
* * *
31022928 CTCAGCTCGCATGAGCTTACCGTTA
1 TTCAGCTCGAAAGAGCTTACCGTTA
* *
31022953 TTCAGGTCGAAGGAGCTTACCGTTA
1 TTCAGCTCGAAAGAGCTTACCGTTA
*
31022978 TTCAACTC-AGAAGAGCTTACCGTT-
1 TTCAGCTCGA-AAGAGCTTACCGTTA
*
31023002 TACAGCTC-ATAAGAGC
1 TTCAGCTCGA-AAGAGC
31023018 ATACTGATTC
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
24 14 0.19
25 60 0.81
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (25 bp):
TTCAGCTCGAAAGAGCTTACCGTTA
Found at i:31032388 original size:41 final size:41
Alignment explanation
Indices: 31032330--31032451 Score: 136
Period size: 41 Copynumber: 3.0 Consensus size: 41
31032320 AGTACATCCA
* * *
31032330 GGGTACCGAAGTGCAAACAAGGGCATGTATGTGCAATTCAG
1 GGGTATCGAAGTACAAACAAGGGCAAGTATGTGCAATTCAG
* ** *
31032371 GGGTATCGAAGTACAAACACGGGCAAACATGTGCATTTCAG
1 GGGTATCGAAGTACAAACAAGGGCAAGTATGTGCAATTCAG
* * * * *
31032412 GCGTATTGAAGTACAAATAGGGGCACGTATGTGCAATTCA
1 GGGTATCGAAGTACAAACAAGGGCAAGTATGTGCAATTCA
31032452 TCTTTATTAT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (41 bp):
GGGTATCGAAGTACAAACAAGGGCAAGTATGTGCAATTCAG
Found at i:31040500 original size:47 final size:47
Alignment explanation
Indices: 31040424--31040517 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
31040414 GCTACTATAG
31040424 CCATACGGATATCATTATTCAAGCCATCTTCAAATCTAATACACATT
1 CCATACGGATATCATTATTCAAGCCATCTTCAAATCTAATACACATT
31040471 CCATACGGATATCATTATTCAA-CCTATCTTCAAATCTAATACACATT
1 CCATACGGATATCATTATTCAAGCC-ATCTTCAAATCTAATACACATT
31040518 TTTGCCTCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 2 0.04
47 44 0.96
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (47 bp):
CCATACGGATATCATTATTCAAGCCATCTTCAAATCTAATACACATT
Found at i:31042415 original size:22 final size:22
Alignment explanation
Indices: 31042390--31042435 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
31042380 ACTCAAATGG
*
31042390 TCTAATTACCATCTACGTCCTT
1 TCTAATTACCATCTACGTCATT
31042412 TCTAATTACCATCTACGTCATT
1 TCTAATTACCATCTACGTCATT
31042434 TC
1 TC
31042436 ACTTTAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.30, G:0.04, T:0.41
Consensus pattern (22 bp):
TCTAATTACCATCTACGTCATT
Found at i:31048803 original size:20 final size:20
Alignment explanation
Indices: 31048780--31048817 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31048770 TAGTGTGAAA
31048780 AGAGACA-TCGAAGTGCAAAC
1 AGAGACACT-GAAGTGCAAAC
*
31048800 AGAGGCACTGAAGTGCAA
1 AGAGACACTGAAGTGCAA
31048818 TCCCATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.18, G:0.29, T:0.11
Consensus pattern (20 bp):
AGAGACACTGAAGTGCAAAC
Found at i:31053799 original size:18 final size:18
Alignment explanation
Indices: 31053778--31053815 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31053768 ATAGAAAGTA
*
31053778 AAAAAAAGAGCGAAAAAG
1 AAAAAAAGAACGAAAAAG
*
31053796 AAAAAAAGAATGAAAAAG
1 AAAAAAAGAACGAAAAAG
31053814 AA
1 AA
31053816 TATGAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAAAAGAACGAAAAAG
Found at i:31078114 original size:27 final size:28
Alignment explanation
Indices: 31078084--31078137 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
31078074 ATCGTGTTAA
*
31078084 TTAATC-ATTCGAAAGCTTTCAAAACAT
1 TTAATCTATGCGAAAGCTTTCAAAACAT
* *
31078111 TTAATCTATGCGGAAGCTTTTAAAACA
1 TTAATCTATGCGAAAGCTTTCAAAACA
31078138 AATTACGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (28 bp):
TTAATCTATGCGAAAGCTTTCAAAACAT
Found at i:31083717 original size:50 final size:50
Alignment explanation
Indices: 31083603--31083886 Score: 288
Period size: 50 Copynumber: 5.7 Consensus size: 50
31083593 TGCGAAAGCT
* * * * *
31083603 ATGTCCCAGACATAGTCTTACATGGGATG-TTTCTTGTA-CTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATCTAGGTGCCAATGCC
* * * * * * *
31083652 ATATCCTAGATATGGTCTTACATTGGAGTTCTCATATAGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTAGGTGCCAATGCC
** * *
31083702 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCA-GTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCT-AGGTGCCAATGCC
* * *
31083752 ATGTCCCAAACATGGTCTTACATGGGA-CGTCTTATCTCGGTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGC-TCTCATCTAGGTGCCAATGCC
* * * *
31083802 ATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTAGGTGCCAATGCC
* *
31083852 ATGTCCCAGACATGGTCTTACATGAGACCTCTCAT
1 ATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT
31083887 AATCTCAATG
Statistics
Matches: 196, Mismatches: 33, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 29 0.15
50 164 0.84
51 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTAGGTGCCAATGCC
Found at i:31083794 original size:100 final size:100
Alignment explanation
Indices: 31083663--31083875 Score: 320
Period size: 100 Copynumber: 2.1 Consensus size: 100
31083653 TATCCTAGAT
* * *
31083663 ATGGTCTTACATTGGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGG
1 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGG
31083728 ACCTCTCATCTCAGTGCCAACGCCATGTCCCAAAC
66 ACCTCTCATCTCAGTGCCAACGCCATGTCCCAAAC
* * * * *
31083763 ATGGTCTTACATGGGACG-TCTTATCTCGGTGCCAATGCCATGTCCTAGACATGGTCTTACATGG
1 ATGGTCTTACATGGGA-GTTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGG
* *
31083827 GACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
65 GACCTCTCATCTCAGTGCCAACGCCATGTCCCAAAC
31083863 ATGGTCTTACATG
1 ATGGTCTTACATG
31083876 AGACCTCTCA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 101 0.99
101 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (100 bp):
ATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGG
ACCTCTCATCTCAGTGCCAACGCCATGTCCCAAAC
Found at i:31090115 original size:50 final size:50
Alignment explanation
Indices: 31090041--31090278 Score: 244
Period size: 50 Copynumber: 4.6 Consensus size: 50
31090031 TCTTGTACTT
* * * **
31090041 CCAATGCCATATCCAAGATATGGTCTTACATGGGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* ** * *
31090091 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * * *
31090141 CGAACGCCATGTCCCAGACATGGTCTTA-ATGGGACCCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATAGGTG
* ** *
31090191 CCAACGCCATGTCCTGGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTG
31090247 CCAATGCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
31090279 AGATCTCATC
Statistics
Matches: 156, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 4 0.03
50 113 0.72
51 6 0.04
53 1 0.01
56 32 0.21
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
Found at i:31098274 original size:25 final size:24
Alignment explanation
Indices: 31098240--31098325 Score: 109
Period size: 25 Copynumber: 3.5 Consensus size: 24
31098230 CCACAACTCA
*
31098240 TGAGAGCATATCAATTTATATCTCG
1 TGAGAGCATA-CAATTTATAGCTCG
*
31098265 TGAGAGCATACAGATTTATAGCTCA
1 TGAGAGCATACA-ATTTATAGCTCG
*
31098290 TGAGAGCATACGGATTTATAGCTCG
1 TGAGAGCATAC-AATTTATAGCTCG
*
31098315 CGAGAGCATAC
1 TGAGAGCATAC
31098326 CGATCTACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
24 2 0.04
25 52 0.96
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (24 bp):
TGAGAGCATACAATTTATAGCTCG
Found at i:31098346 original size:25 final size:25
Alignment explanation
Indices: 31098318--31098375 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
31098308 TAGCTCGCGA
*
31098318 GAGCATACCGA-TCTACAACTCAA-AT
1 GAGCATACCAATTC-ACAACT-AATAT
31098343 GAGCATACCAATTCACAACTAATAT
1 GAGCATACCAATTCACAACTAATAT
31098368 GAGCATAC
1 GAGCATAC
31098376 ATGTACATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 2 0.07
25 26 0.87
26 2 0.07
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (25 bp):
GAGCATACCAATTCACAACTAATAT
Found at i:31098347 original size:50 final size:50
Alignment explanation
Indices: 31098232--31098350 Score: 125
Period size: 50 Copynumber: 2.4 Consensus size: 50
31098222 CGGATACTCC
* * * * *
31098232 ACAACTCATGAGAGCATATC-AATTTATATCTCGTGAGAGCATACAGATTT
1 ACAACTCATAAGAGCATA-CGGATTTATAGCTCGCGAGAGCATACAGATCT
* * * *
31098282 ATAGCTCATGAGAGCATACGGATTTATAGCTCGCGAGAGCATACCGATCT
1 ACAACTCATAAGAGCATACGGATTTATAGCTCGCGAGAGCATACAGATCT
31098332 ACAACTCA-AATGAGCATAC
1 ACAACTCATAA-GAGCATAC
31098351 CAATTCACAA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.04
50 55 0.96
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (50 bp):
ACAACTCATAAGAGCATACGGATTTATAGCTCGCGAGAGCATACAGATCT
Found at i:31108500 original size:20 final size:19
Alignment explanation
Indices: 31108430--31108500 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 19
31108420 AAACCTAACA
*
31108430 GGTATCGATAGTTTTTAAAT
1 GGTATCGATA-ATTTTAAAT
* *
31108450 GAGTATCAATAATTTTAGAAA
1 G-GTATCGATAATTTTA-AAT
** *
31108471 AATATTGATAATTCTTAAAT
1 GGTATCGATAATT-TTAAAT
31108491 GGTATCGATA
1 GGTATCGATA
31108501 CCAAATTGCG
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
20 24 0.65
21 13 0.35
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (19 bp):
GGTATCGATAATTTTAAAT
Found at i:31110713 original size:22 final size:22
Alignment explanation
Indices: 31110688--31111008 Score: 354
Period size: 22 Copynumber: 14.6 Consensus size: 22
31110678 CCAACATTCA
* *
31110688 GACAACATTTAATTAACATTTG
1 GACAACATTTAATCAACAATTG
*
31110710 GACAACATTTAGTCAACAATTG
1 GACAACATTTAATCAACAATTG
* * * *
31110732 AACAACAATCAATCAACATTTG
1 GACAACATTTAATCAACAATTG
* * *
31110754 GATAGCATTTAATCAATAATTG
1 GACAACATTTAATCAACAATTG
** *
31110776 GACAGTATTAAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* **
31110798 GACAACATTAAATCAACTTTTG
1 GACAACATTTAATCAACAATTG
* *
31110820 GACGACATTTAATAAACAATTG
1 GACAACATTTAATCAACAATTG
* * *
31110842 GACAGCATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTG
*
31110864 GACAATATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * * *
31110886 GACAGCATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTG
31110908 GACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* *
31110930 GACAACATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTG
*
31110952 AACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * *
31110974 GACAACATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTG
31110996 GACAACATTTAAT
1 GACAACATTTAAT
31111009 AAAAAAAATT
Statistics
Matches: 243, Mismatches: 56, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 243 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (22 bp):
GACAACATTTAATCAACAATTG
Found at i:31110750 original size:44 final size:44
Alignment explanation
Indices: 31110679--31111008 Score: 390
Period size: 44 Copynumber: 7.5 Consensus size: 44
31110669 AGCAATTATC
** * * * *
31110679 CAACATTCAGACAACATTTAATTAACATTTGGACAACATTTAGT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
* * * * * * * *
31110723 CAACAATTGAACAACAATCAATCAACATTTGGATAGCATTTAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
* * ** *
31110767 CAATAATTGGACAGTATTAAATCAACAATTGGACAACATTAAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
* * * *
31110811 CAACTTTTGGACGACATTTAATAAACAATTGGACAGCATTAAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
* * *
31110855 CAACATTTGGACAATATTTAATCAACAATTGGACAGCATTCAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
*
31110899 CAATATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
* *
31110943 CAACATTTGAACAACATTTAATCAACAATTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
*
31110987 CAATATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
31111009 AAAAAAAATT
Statistics
Matches: 243, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 243 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (44 bp):
CAACATTTGGACAACATTTAATCAACAATTGGACAACATTAAAT
Found at i:31110924 original size:11 final size:11
Alignment explanation
Indices: 31110910--31111008 Score: 62
Period size: 11 Copynumber: 9.0 Consensus size: 11
31110900 AATATTTGGA
31110910 CAACATTTAAT
1 CAACATTTAAT
**
31110921 CAACAATTGGA-
1 CAAC-ATTTAAT
*
31110932 CAACATTAAAT
1 CAACATTTAAT
31110943 CAACATTTGAA-
1 CAACATTT-AAT
31110954 CAACATTTAAT
1 CAACATTTAAT
**
31110965 CAACAATTGGA-
1 CAAC-ATTTAAT
*
31110976 CAACATTCAAT
1 CAACATTTAAT
* *
31110987 CAATATTTGGA-
1 CAACATTT-AAT
31110998 CAACATTTAAT
1 CAACATTTAAT
31111009 AAAAAAAATT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
10 11 0.17
11 44 0.67
12 11 0.17
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.29
Consensus pattern (11 bp):
CAACATTTAAT
Found at i:31111986 original size:44 final size:43
Alignment explanation
Indices: 31111838--31111994 Score: 219
Period size: 43 Copynumber: 3.7 Consensus size: 43
31111828 AAACAACGAT
* * *
31111838 GCCATTGTCCCAGACAGGGTCTTACATGT-AATCATATATGAC
1 GCCAATGTCCCAGACATGGTCTTACACGTAAATCATATATGAC
*
31111880 GCTAATGTCCCAGACATGGTCTTACACGTAAATCATATATGAC
1 GCCAATGTCCCAGACATGGTCTTACACGTAAATCATATATGAC
* *
31111923 GCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCGAG
1 GCCAATGTCCCAGACATGGTCTTACACGTAAATCAT-ATAT-GAC
*
31111967 GCCAACGTCCCAGACATGGTCTTACACG
1 GCCAATGTCCCAGACATGGTCTTACACG
31111995 GTGCCACATT
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 26 0.25
43 49 0.47
44 29 0.28
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAAATCATATATGAC
Found at i:31118345 original size:27 final size:27
Alignment explanation
Indices: 31118310--31118491 Score: 194
Period size: 27 Copynumber: 6.8 Consensus size: 27
31118300 TGTGATTCAT
* *
31118310 GGTAAAATGACTGAAATACCCTTGATG
1 GGTAAAATGACTGAAATACCCTCGAAG
31118337 GGTAAAATGA-TAGAAATACCC-CTG-AG
1 GGTAAAATGACT-GAAATACCCTC-GAAG
* *
31118363 GGTAAAATGACTGAAATACCCCCAAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
31118390 GGTAAAATGATTGAAATACCTTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
31118417 GGTAAAATGA-TCAAAATACCCTCGAAA
1 GGTAAAATGACT-GAAATACCCTCGAAG
* *
31118444 GGTAAAATGACCGAAATACCC-CCATAG
1 GGTAAAATGACTGAAATACCCTCGA-AG
*
31118471 GGTAAAATGACTGATATACCC
1 GGTAAAATGACTGAAATACCC
31118492 CTAGAAATTG
Statistics
Matches: 131, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
26 24 0.18
27 107 0.82
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCTCGAAG
Found at i:31118692 original size:26 final size:26
Alignment explanation
Indices: 31118661--31118732 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 26
31118651 ACAAAGACTG
* *
31118661 TTACTGGCAGCTCTGCTGCGTTACTA
1 TTACTGGCAGCTTTGCTGCGTCACTA
*
31118687 TTACTGGCAGCTTTGCTGTGTCACTA
1 TTACTGGCAGCTTTGCTGCGTCACTA
*
31118713 TTATTGGCAGCTTTGCTGCG
1 TTACTGGCAGCTTTGCTGCG
31118733 ATATTGGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.14, C:0.24, G:0.25, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGTCACTA
Found at i:31118883 original size:28 final size:28
Alignment explanation
Indices: 31118842--31118925 Score: 105
Period size: 30 Copynumber: 2.9 Consensus size: 28
31118832 CATTGTACTG
* *
31118842 ATTACTATATTGGGCTAAGGCCCACTCT
1 ATTACTGTATTGGGCTAAGGCCCACACT
* *
31118870 GTTACTGTATTGGGCTAAGACCCACACACT
1 ATTACTGTATTGGGCTAAG-GCC-CACACT
*
31118900 ATTACTGTAATGGGCTAAGGCCCACA
1 ATTACTGTATTGGGCTAAGGCCCACA
31118926 TTGCACTGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 21 0.45
29 4 0.09
30 22 0.47
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACACT
Done.