Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 67 of 121
Found at i:11536580 original size:30 final size:31
Alignment explanation
Indices: 11536526--11536588 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
11536516 ATTGCATATT
* *
11536526 TTGCATGGTTTATATATTATTATTTACATGA
1 TTGCATGATTTATATATTACTATTTACATGA
*
11536557 TTGCATGATTTA-ATATTACTATTTGCATGA
1 TTGCATGATTTATATATTACTATTTACATGA
11536587 TT
1 TT
11536589 ATATATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.51
Consensus pattern (31 bp):
TTGCATGATTTATATATTACTATTTACATGA
Found at i:11536630 original size:41 final size:41
Alignment explanation
Indices: 11536556--11536771 Score: 281
Period size: 41 Copynumber: 5.2 Consensus size: 41
11536546 TATTTACATG
* *
11536556 ATTGCATGATTTAATATTACTATTTGCATGATTATATATTTA
1 ATTGCATGATTT-ATATTATTAATTGCATGATTATATATTTA
* *
11536598 ATTGCATGATTTATATTGTTAATTGCACGATTATATATATTTA
1 ATTGCATGATTTATATTATTAATTGCATGA-T-TATATATTTA
*
11536641 ATTGCATGATTTATATTATTAATTGCTTGATTATATATTTA
1 ATTGCATGATTTATATTATTAATTGCATGATTATATATTTA
* * * * *
11536682 TTTGCAT-ATTTTACATTGTTAATTGCGTGATTAGATATTTA
1 ATTGCATGA-TTTATATTATTAATTGCATGATTATATATTTA
*
11536723 ATTGCATGTTTTATATTATTAATTGCATGATTATATATTTA
1 ATTGCATGATTTATATTATTAATTGCATGATTATATATTTA
*
11536764 ATTACATG
1 ATTGCATG
11536772 TCTATTTGCA
Statistics
Matches: 151, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 99 0.66
42 14 0.09
43 37 0.25
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (41 bp):
ATTGCATGATTTATATTATTAATTGCATGATTATATATTTA
Found at i:11536989 original size:18 final size:18
Alignment explanation
Indices: 11536966--11537027 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
11536956 TGATTATTAA
**
11536966 TATATTTATTTATTTGAT
1 TATATTTATTTACATGAT
*
11536984 TATATTTGA-CTACATGAT
1 TATATTT-ATTTACATGAT
* *
11537002 TATATTTATTTGCATGAA
1 TATATTTATTTACATGAT
11537020 TAT-TTTAT
1 TATATTTAT
11537028 GGTATTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 6 0.17
18 29 0.81
19 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (18 bp):
TATATTTATTTACATGAT
Found at i:11537113 original size:23 final size:23
Alignment explanation
Indices: 11537087--11537144 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
11537077 ATTTCACTAT
11537087 TTATTGCATGATATGATTTTATA
1 TTATTGCATGATATGATTTTATA
11537110 TTATTGCATGATATGATTTTATA
1 TTATTGCATGATATGATTTTATA
11537133 TTATTGCATGAT
1 TTATTGCATGAT
11537145 TTATTACATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (23 bp):
TTATTGCATGATATGATTTTATA
Found at i:11537125 original size:59 final size:59
Alignment explanation
Indices: 11537050--11537180 Score: 171
Period size: 58 Copynumber: 2.2 Consensus size: 59
11537040 TTGCATGATA
* * *
11537050 ATTT-TTGCATTG-TATGATTTTATATTTATTTCACT-ATTTATTGCATGATATGATTTTAT
1 ATTTATTGCA-TGATATGATTTTATA-TTATTGCA-TGATTTATTACATGATATGATTTAAT
*
11537109 A-TTATTGCATGATATGATTTTATATTATTGCATGATTTATTACATGGTATGATTTAAT
1 ATTTATTGCATGATATGATTTTATATTATTGCATGATTTATTACATGATATGATTTAAT
11537167 ATTTATTGCATGAT
1 ATTTATTGCATGAT
11537181 TGCTTGATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
57 1 0.02
58 33 0.52
59 30 0.47
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (59 bp):
ATTTATTGCATGATATGATTTTATATTATTGCATGATTTATTACATGATATGATTTAAT
Found at i:11537145 original size:18 final size:18
Alignment explanation
Indices: 11537099--11537181 Score: 53
Period size: 23 Copynumber: 4.3 Consensus size: 18
11537089 ATTGCATGAT
11537099 ATGATTTTATATTATTGC
1 ATGATTTTATATTATTGC
11537117 ATGATATGATTTTATATTATTGC
1 -----ATGATTTTATATTATTGC
* * *
11537140 ATGA-TTTAT-TACATGGT
1 ATGATTTTATAT-TATTGC
*
11537157 ATGATTTAATATTTATTGC
1 ATGATTTTATA-TTATTGC
11537176 ATGATT
1 ATGATT
11537182 GCTTGATATT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
16 1 0.02
17 12 0.24
18 8 0.16
19 9 0.18
20 1 0.02
23 18 0.37
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (18 bp):
ATGATTTTATATTATTGC
Found at i:11537160 original size:35 final size:36
Alignment explanation
Indices: 11537110--11537181 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
11537100 TGATTTTATA
* *
11537110 TTATTGCATGATATGATTTTATA-TTATTGCATGAT
1 TTATTACATGATATGATTTAATATTTATTGCATGAT
*
11537145 TTATTACATGGTATGATTTAATATTTATTGCATGAT
1 TTATTACATGATATGATTTAATATTTATTGCATGAT
11537181 T
1 T
11537182 GCTTGATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 20 0.61
36 13 0.39
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (36 bp):
TTATTACATGATATGATTTAATATTTATTGCATGAT
Found at i:11548857 original size:42 final size:42
Alignment explanation
Indices: 11548773--11549170 Score: 397
Period size: 42 Copynumber: 9.4 Consensus size: 42
11548763 GAATGATCGT
* * * * *
11548773 ATTTTATTTTTCAAAAGCTT-TAAAGCCTGAATTATAGGGGAGC
1 ATTTTATTTTTC-AAAG-TTCCAAAGCCTCAGTTGTGGGGGAGC
* *
11548816 ATTTTATTTTTCAAAGTTCCAAAGCCTCAGTTGTAGAGGAGC
1 ATTTTATTTTTCAAAGTTCCAAAGCCTCAGTTGTGGGGGAGC
* * * *
11548858 ATTTTATTTTGCAAAGTTTCAAAGCCTAAATTGTGGGGGAGC
1 ATTTTATTTTTCAAAGTTCCAAAGCCTCAGTTGTGGGGGAGC
*
11548900 ATTTTATTTTTCAAAGTTCCAAAGCCTCAGTTATGGGGGAGC
1 ATTTTATTTTTCAAAGTTCCAAAGCCTCAGTTGTGGGGGAGC
* ** *
11548942 ATTTTATTTTCACAAAGTTGTAAAGCCTCAATTGTGGGGGAGC
1 ATTTTATTTT-TCAAAGTTCCAAAGCCTCAGTTGTGGGGGAGC
*
11548985 ATTTTATTTTTCAAAAGTGT-CAAAGCCTCGGTTGTGGGGGAGC
1 ATTTTATTTTTC-AAAGT-TCCAAAGCCTCAGTTGTGGGGGAGC
* * **
11549028 ATTTTATTTTTCAAAAAGTTACAAAGCCTTAGTTGTGGGAAAGC
1 ATTTTATTTTTC--AAAGTTCCAAAGCCTCAGTTGTGGGGGAGC
* ** * * *** *
11549072 ATTTTATTTTCCAAAGTTCCAAAGTTTTAGTGGTGATAGAGT
1 ATTTTATTTTTCAAAGTTCCAAAGCCTCAGTTGTGGGGGAGC
* ** *
11549114 ATTTTATTTTTTCAAAGTTTCAAAGCCTCAGTTGCAGGGGAAC
1 ATTTTA-TTTTTCAAAGTTCCAAAGCCTCAGTTGTGGGGGAGC
11549157 ATTTT-TTTTTCAAA
1 ATTTTATTTTTCAAA
11549171 AAAAAATTTC
Statistics
Matches: 297, Mismatches: 51, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
41 11 0.04
42 134 0.45
43 115 0.39
44 37 0.12
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (42 bp):
ATTTTATTTTTCAAAGTTCCAAAGCCTCAGTTGTGGGGGAGC
Found at i:11549167 original size:85 final size:85
Alignment explanation
Indices: 11548773--11549167 Score: 403
Period size: 85 Copynumber: 4.6 Consensus size: 85
11548763 GAATGATCGT
* *
11548773 ATTTTATTTTTCAAAAGCTTT-AAAGCCTGAATTATAGGGGAGCATTTTATTTTT-CAAAGTTCC
1 ATTTTATTTTTC-AAAG-TTTCAAAGCCTCAATTGTAGGGGAGCATTTTATTTTTCCAAAGTTCC
11548836 AAAGCCTCAGTTGT-AGAGGAGC
64 AAAGCCTCAGTTGTGAG-GGAGC
* * *
11548858 ATTTTATTTTGCAAAGTTTCAAAGCCTAAATTGTGGGGGAGCATTTTATTTTT-CAAAGTTCCAA
1 ATTTTATTTTTCAAAGTTTCAAAGCCTCAATTGTAGGGGAGCATTTTATTTTTCCAAAGTTCCAA
* *
11548922 AGCCTCAGTTATGGGGGAGC
66 AGCCTCAGTTGTGAGGGAGC
* * *
11548942 ATTTTATTTTCACAAAGTTGT-AAAGCCTCAATTGTGGGGGAGCATTTTATTTTTCAAAAGTGT-
1 ATTTTATTTT-TCAAAGTT-TCAAAGCCTCAATTGTAGGGGAGCATTTTATTTTTCCAAAGT-TC
* *
11549005 CAAAGCCTCGGTTGTGGGGGAGC
63 CAAAGCCTCAGTTGTGAGGGAGC
* * * *
11549028 ATTTTATTTTTCAAAAAGTTACAAAGCCTTAGTTGT-GGGAAAGCATTTTA-TTTTCCAAAGTTC
1 ATTTTATTTTTC--AAAGTTTCAAAGCCTCAATTGTAGGG-GAGCATTTTATTTTTCCAAAGTTC
** * * ** *
11549091 CAAAGTTTTAGTGGTGATAGAGT
63 CAAAGCCTCAGTTGTGAGGGAGC
* * *
11549114 ATTTTATTTTTTCAAAGTTTCAAAGCCTCAGTTGCAGGGGAACATTTT-TTTTTC
1 ATTTTA-TTTTTCAAAGTTTCAAAGCCTCAATTGTAGGGGAGCATTTTATTTTTC
11549168 AAAAAAAAAT
Statistics
Matches: 265, Mismatches: 31, Indels: 28
0.82 0.10 0.09
Matches are distributed among these distances:
83 3 0.01
84 71 0.27
85 84 0.32
86 73 0.28
87 34 0.13
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (85 bp):
ATTTTATTTTTCAAAGTTTCAAAGCCTCAATTGTAGGGGAGCATTTTATTTTTCCAAAGTTCCAA
AGCCTCAGTTGTGAGGGAGC
Found at i:11549425 original size:6 final size:6
Alignment explanation
Indices: 11549414--11549467 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
11549404 CAAAAATCTT
* * * *
11549414 ATTTTA ATTTTA ATTTTG ATTTTA ACTTTA ATTTTA GTTTTG ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
11549462 ATTTTA
1 ATTTTA
11549468 TTCTAGTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:11549437 original size:18 final size:17
Alignment explanation
Indices: 11549412--11549469 Score: 80
Period size: 18 Copynumber: 3.3 Consensus size: 17
11549402 CCCAAAAATC
11549412 TTATTTTAATTTTAATT
1 TTATTTTAATTTTAATT
*
11549429 TTGATTTTAACTTTAATT
1 TT-ATTTTAATTTTAATT
*
11549447 TTAGTTTTGATTTTAATT
1 TTA-TTTTAATTTTAATT
11549465 TTATT
1 TTATT
11549470 CTAGTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 5 0.14
18 31 0.86
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (17 bp):
TTATTTTAATTTTAATT
Found at i:11549448 original size:24 final size:24
Alignment explanation
Indices: 11549416--11549467 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
11549406 AAAATCTTAT
11549416 TTTAATTTTAATTTTGATTTTAAC
1 TTTAATTTTAATTTTGATTTTAAC
* *
11549440 TTTAATTTTAGTTTTGATTTTAAT
1 TTTAATTTTAATTTTGATTTTAAC
11549464 TTTA
1 TTTA
11549468 TTCTAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (24 bp):
TTTAATTTTAATTTTGATTTTAAC
Found at i:11549478 original size:24 final size:24
Alignment explanation
Indices: 11549416--11549477 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
11549406 AAAATCTTAT
* *
11549416 TTTAATTTTAATTTTGATTTTAAC
1 TTTAATTCTAGTTTTGATTTTAAC
*
11549440 TTTAATTTTAGTTTTGATTTTAA-
1 TTTAATTCTAGTTTTGATTTTAAC
*
11549463 TTTTATTCTAGTTTT
1 TTTAATTCTAGTTTT
11549478 TTGTTTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 13 0.37
24 22 0.63
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.66
Consensus pattern (24 bp):
TTTAATTCTAGTTTTGATTTTAAC
Found at i:11550076 original size:25 final size:25
Alignment explanation
Indices: 11550047--11550165 Score: 94
Period size: 25 Copynumber: 5.1 Consensus size: 25
11550037 TTGCCTAATA
11550047 TATTTGTTTGCATGATTAATATATT
1 TATTTGTTTGCATGATTAATATATT
* *
11550072 TATTTGTGTG-ATTTATTAATATATT
1 TATTTGTTTGCA-TGATTAATATATT
11550097 TATTTG--T--ATGATT-ATAT-TT
1 TATTTGTTTGCATGATTAATATATT
* * * * *
11550116 AATTTGATTGCATGATCATTA-ATA
1 TATTTGTTTGCATGATTAATATATT
*
11550140 TATTTATTTGCATGATT-ATATATT
1 TATTTGTTTGCATGATTAATATATT
11550164 TA
1 TA
11550166 ATTGCATATT
Statistics
Matches: 73, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
19 7 0.10
20 4 0.05
21 5 0.07
22 1 0.01
23 8 0.11
24 21 0.29
25 27 0.37
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.55
Consensus pattern (25 bp):
TATTTGTTTGCATGATTAATATATT
Found at i:11550162 original size:20 final size:20
Alignment explanation
Indices: 11549999--11550359 Score: 133
Period size: 20 Copynumber: 17.4 Consensus size: 20
11549989 TTTTGCATGA
11549999 ATTTGCATGATTA-ATATTAT
1 ATTTGCATGATTATATATT-T
*
11550019 ATTTGCATG---GTA-ATTT
1 ATTTGCATGATTATATATTT
*
11550035 ATTTGCCT-A--ATATATTT
1 ATTTGCATGATTATATATTT
*
11550052 GTTTGCATGATTAATATATTT
1 ATTTGCATGATT-ATATATTT
* *
11550073 ATTTGTGTGATTTATTAATATATTT
1 A-TT-TG-CA-TGATT-ATATATTT
*
11550098 ATTTGTATGATTATATTTAATTT
1 ATTTGCATGATTATA--T-ATTT
11550121 GA-TTGCATGATCATTAATATATTT
1 -ATTTGCATG---ATT-ATATATTT
11550145 ATTTGCATGATTATATATTT
1 ATTTGCATGATTATATATTT
* * *
11550165 AATTGCAT-ATTTTGCATGGTTT
1 ATTTGCATGATTAT--AT-ATTT
* * * * *
11550187 A--TACATTATTATTTAAATG
1 ATTTGCATGATTATAT-ATTT
11550206 A-TTGCATGATTTATATATTATT
1 ATTTGCATGA-TTATATA-T-TT
11550228 ATTTGCATGATTATATATTT
1 ATTTGCATGATTATATATTT
* *
11550248 AATTGCATGATT-TATTTTGTT
1 ATTTGCATGATTATA-TAT-TT
* *
11550269 AATTGCATGATT-TGTATTGTT
1 ATTTGCATGATTATATA-T-TT
* *
11550290 AATTGCATGATTAGATATTT
1 ATTTGCATGATTATATATTT
* * *
11550310 AATTGCATG-TTTTACATTGTT
1 ATTTGCATGATTATATA-T-TT
*
11550331 AATTGCATGATTATATATTT
1 ATTTGCATGATTATATATTT
*
11550351 AATTGCATG
1 ATTTGCATG
11550360 TCTATTTGCA
Statistics
Matches: 268, Mismatches: 37, Indels: 72
0.71 0.10 0.19
Matches are distributed among these distances:
16 10 0.04
17 13 0.05
18 2 0.01
19 13 0.05
20 76 0.28
21 71 0.26
22 24 0.09
23 23 0.09
24 15 0.06
25 15 0.06
26 3 0.01
27 3 0.01
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTGCATGATTATATATTT
Found at i:11550238 original size:31 final size:31
Alignment explanation
Indices: 11550147--11550239 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
11550137 ATATATTTAT
*
11550147 TTGCATGA-TTATATA-T-TTAATTGCAT-A
1 TTGCATGATTTATATATTATTATTTGCATGA
* * **
11550174 TTTTGCATGGTTTATACATTATTATTTAAATGA
1 --TTGCATGATTTATATATTATTATTTGCATGA
11550207 TTGCATGATTTATATATTATTATTTGCATGA
1 TTGCATGATTTATATATTATTATTTGCATGA
11550238 TT
1 TT
11550240 ATATATTTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 7 0.14
30 6 0.12
31 30 0.59
32 7 0.14
33 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (31 bp):
TTGCATGATTTATATATTATTATTTGCATGA
Found at i:11550254 original size:103 final size:103
Alignment explanation
Indices: 11550137--11550359 Score: 247
Period size: 103 Copynumber: 2.2 Consensus size: 103
11550127 ATGATCATTA
* * *
11550137 ATATATTTATTTGCATGA-TTATATAT-TTAATTGCAT-ATTTTGCATGGTTTA-TACATTATTA
1 ATATATTTAATTGCATGATTTAT-TATGTTAATTGCATGA-TTTGCATGGTTAATTACATGATTA
** * * *
11550198 TTTAAATGATTGCATGATTTATATATTATTATTTGCATGATT
64 GATAAATAATTGCATG-TTT-TACATTATTAATTGCATGATT
* * * *
11550240 ATATATTTAATTGCATGATTTATTTTGTTAATTGCATGATTTGTATTGTTAATTGCATGATTAGA
1 ATATATTTAATTGCATGATTTATTATGTTAATTGCATGATTTGCATGGTTAATTACATGATTAGA
** *
11550305 TATTTAATTGCATGTTTTACATTGTTAATTGCATGATT
66 TAAATAATTGCATGTTTTACATTATTAATTGCATGATT
11550343 ATATATTTAATTGCATG
1 ATATATTTAATTGCATG
11550360 TCTATTTGCA
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
103 54 0.53
104 27 0.27
105 20 0.20
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.52
Consensus pattern (103 bp):
ATATATTTAATTGCATGATTTATTATGTTAATTGCATGATTTGCATGGTTAATTACATGATTAGA
TAAATAATTGCATGTTTTACATTATTAATTGCATGATT
Found at i:11550270 original size:21 final size:20
Alignment explanation
Indices: 11550206--11550359 Score: 116
Period size: 21 Copynumber: 7.4 Consensus size: 20
11550196 TATTTAAATG
11550206 ATTGCATGATTTATATATTATTA
1 ATTGCATGATTTAT-T-TT-TTA
* *
11550229 TTTGCATGA-TTATATATTTA
1 ATTGCATGATTTAT-TTTTTA
11550249 ATTGCATGATTTATTTTGTTA
1 ATTGCATGATTTATTTT-TTA
* *
11550270 ATTGCATGATTTGTATTGTTA
1 ATTGCATGATTTAT-TTTTTA
* *
11550291 ATTGCATGA-TTAGATATTTA
1 ATTGCATGATTTA-TTTTTTA
* * *
11550311 ATTGCATGTTTTACATTGTTA
1 ATTGCATGATTTA-TTTTTTA
*
11550332 ATTGCATGA-TTATATATTTA
1 ATTGCATGATTTAT-TTTTTA
11550352 ATTGCATG
1 ATTGCATG
11550360 TCTATTTGCA
Statistics
Matches: 107, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
20 42 0.39
21 49 0.46
22 8 0.07
23 8 0.07
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (20 bp):
ATTGCATGATTTATTTTTTA
Found at i:11550310 original size:62 final size:61
Alignment explanation
Indices: 11550206--11550359 Score: 202
Period size: 62 Copynumber: 2.5 Consensus size: 61
11550196 TATTTAAATG
* * **
11550206 ATTGCATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATGATTTATTTTGTTA
1 ATTGCATGA-TT-TATATT-TTAATTGCATGATTAGATATTTAATTGCATGATTTACATTGTTA
* *
11550270 ATTGCATGATTTGTATTGTTAATTGCATGATTAGATATTTAATTGCATGTTTTACATTGTTA
1 ATTGCATGATTTATATT-TTAATTGCATGATTAGATATTTAATTGCATGATTTACATTGTTA
11550332 ATTGCATGA-TTATATATTTAATTGCATG
1 ATTGCATGATTTATAT-TTTAATTGCATG
11550360 TCTATTTGCA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
61 16 0.20
62 54 0.67
63 2 0.02
64 9 0.11
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (61 bp):
ATTGCATGATTTATATTTTAATTGCATGATTAGATATTTAATTGCATGATTTACATTGTTA
Found at i:11550312 original size:41 final size:43
Alignment explanation
Indices: 11550206--11550359 Score: 178
Period size: 41 Copynumber: 3.7 Consensus size: 43
11550196 TATTTAAATG
*
11550206 ATTGCATGATTTATATATTATTATTTGCATGA-TTATATAT-TTA
1 ATTGCATGATTTATATA-TATTAATTGCATGATTTATAT-TGTTA
* * *
11550249 ATTGCATGATTTAT-TTTGTTAATTGCATGATTTGTATTGTTA
1 ATTGCATGATTTATATATATTAATTGCATGATTTATATTGTTA
* * *
11550291 ATTGCATGA-TTAGATAT-TTAATTGCATGTTTTACATTGTTA
1 ATTGCATGATTTATATATATTAATTGCATGATTTATATTGTTA
11550332 ATTGCATGA-TTATATAT-TTAATTGCATG
1 ATTGCATGATTTATATATATTAATTGCATG
11550360 TCTATTTGCA
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
41 64 0.65
42 20 0.20
43 14 0.14
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (43 bp):
ATTGCATGATTTATATATATTAATTGCATGATTTATATTGTTA
Found at i:11550483 original size:19 final size:19
Alignment explanation
Indices: 11550446--11550489 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11550436 TTCCTTATTA
* *
11550446 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
11550465 TTATTGCATGATATGATAT
1 TTATTGCATGATATGATAT
11550484 TATATT
1 T-TATT
11550490 AATTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:11550695 original size:23 final size:24
Alignment explanation
Indices: 11550644--11550699 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
11550634 ATGATAATTT
* * *
11550644 TTGCATGGTATGATTTTATGTTTA
1 TTGCATGATATAATTTTATGATTA
11550668 TTGCATGATATAATTTTAT-ATTA
1 TTGCATGATATAATTTTATGATTA
11550691 TTGCATGAT
1 TTGCATGAT
11550700 TTATTGCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (24 bp):
TTGCATGATATAATTTTATGATTA
Found at i:11550724 original size:35 final size:36
Alignment explanation
Indices: 11550664--11550736 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 36
11550654 TGATTTTATG
*
11550664 TTTATTGCATGATATAATTTTATA-TTATTGCATGA
1 TTTATTGCATGATATAATTTAATATTTATTGCATGA
* *
11550699 TTTATTGCATGGTATGATTTAATATTTATTGCATGA
1 TTTATTGCATGATATAATTTAATATTTATTGCATGA
11550735 TT
1 TT
11550737 GCTTGACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 21 0.62
36 13 0.38
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (36 bp):
TTTATTGCATGATATAATTTAATATTTATTGCATGA
Found at i:11550727 original size:59 final size:60
Alignment explanation
Indices: 11550622--11550735 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 60
11550612 TTTTATGGTA
* * *
11550622 TTATATTATTGCATGATAATTTTTGCATGGTATGATTTTATGTTTATTGCATGATATAATT
1 TTATATTATTGCATGAT-ATTATTGCATGGTATGATTTAATATTTATTGCATGATATAATT
11550683 TTATATTATTGCATGAT-TTATTGCATGGTATGATTTAATATTTATTGCATGAT
1 TTATATTATTGCATGATATTATTGCATGGTATGATTTAATATTTATTGCATGAT
11550736 TGCTTGACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
59 33 0.66
61 17 0.34
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.52
Consensus pattern (60 bp):
TTATATTATTGCATGATATTATTGCATGGTATGATTTAATATTTATTGCATGATATAATT
Found at i:11551953 original size:14 final size:14
Alignment explanation
Indices: 11551907--11551955 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
11551897 CGATGGGATT
11551907 AAAAAAAGAGGAAA
1 AAAAAAAGAGGAAA
11551921 AAACAAAAGA-GAAA
1 AAA-AAAAGAGGAAA
*
11551935 AAAAAACTGAGGAAA
1 AAAAAA-AGAGGAAA
11551950 AAAAAA
1 AAAAAA
11551956 GACTCAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 3 0.10
14 12 0.39
15 16 0.52
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAAAAGAGGAAA
Found at i:11552896 original size:63 final size:64
Alignment explanation
Indices: 11552797--11552925 Score: 206
Period size: 63 Copynumber: 2.0 Consensus size: 64
11552787 TTTCAAAAGA
11552797 ATAATTAAGATGAAAAGAATTTCCTAAAATGTGATTTTCAACACTTAATTGAGAA-TTTTCAAG
1 ATAATTAAGATGAAAAGAATTTCCTAAAATGTGATTTTCAACACTTAATTGAGAATTTTTCAAG
* * ** *
11552860 ATAATTAAGATGAAAAGAATTTTCTAAGATGTGATTTTTGACACTTGATTGAGAATTTTTCAAG
1 ATAATTAAGATGAAAAGAATTTCCTAAAATGTGATTTTCAACACTTAATTGAGAATTTTTCAAG
11552924 AT
1 AT
11552926 GAAGTTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
63 50 0.83
64 10 0.17
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (64 bp):
ATAATTAAGATGAAAAGAATTTCCTAAAATGTGATTTTCAACACTTAATTGAGAATTTTTCAAG
Found at i:11553106 original size:20 final size:20
Alignment explanation
Indices: 11553078--11553142 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
11553068 TTGATCTCTT
* *
11553078 ATTTGTGAATATTTGAACTC
1 ATTTATGAATCTTTGAACTC
* *
11553098 ATTTATGAACCTTGGAACTC
1 ATTTATGAATCTTTGAACTC
* * *
11553118 AGTTGTGAATCTTTGAAATC
1 ATTTATGAATCTTTGAACTC
11553138 ATTTA
1 ATTTA
11553143 CGAAAACCTT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
ATTTATGAATCTTTGAACTC
Found at i:11553471 original size:43 final size:42
Alignment explanation
Indices: 11553424--11553570 Score: 109
Period size: 43 Copynumber: 3.5 Consensus size: 42
11553414 CAAGAACCCA
11553424 TCAATATGAATCTTGAACCCTTGATGCTAATCTCGAGAACTTT
1 TCAATATGAATCTTGAACCCTTGATGC-AATCTCGAGAACTTT
* ** * * * * *
11553467 TCAATGTGAATCTCAAACCTTTGATACAAACCTTGAGAACCTT
1 TCAATATGAATCTTGAACCCTTGATGC-AATCTCGAGAACTTT
* * * ** *
11553510 TCGATGT-AATCCTGAACCCTCAATGCATATTTCGAGAATCTTT
1 TCAATATGAATCTTGAACCCTTGATGCA-ATCTCGAGAA-CTTT
*
11553553 T-AGTATGAATCTTGAACC
1 TCAATATGAATCTTGAACC
11553571 ATCAATGCGA
Statistics
Matches: 76, Mismatches: 25, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
41 1 0.01
42 21 0.28
43 54 0.71
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (42 bp):
TCAATATGAATCTTGAACCCTTGATGCAATCTCGAGAACTTT
Found at i:11553667 original size:43 final size:42
Alignment explanation
Indices: 11553567--11553669 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
11553557 ATGAATCTTG
* * * *
11553567 AACCATCAATGCGAACCATAAGAATTTTTCAGTGTGAAACCA
1 AACCCTCAATGCGAATCTTAAGAATCTTTCAGTGTGAAACCA
*
11553609 AACCCTCAATGCGAATCTTAAGAATCTTTCAGTGTGAATCCCA
1 AACCCTCAATGCGAATCTTAAGAATCTTTCAGTGTGAA-ACCA
**
11553652 AACCCTTTATGCGAATCT
1 AACCCTCAATGCGAATCT
11553670 CAAGGACCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 34 0.64
43 19 0.36
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (42 bp):
AACCCTCAATGCGAATCTTAAGAATCTTTCAGTGTGAAACCA
Found at i:11553681 original size:43 final size:43
Alignment explanation
Indices: 11553502--11553691 Score: 120
Period size: 43 Copynumber: 4.5 Consensus size: 43
11553492 ACAAACCTTG
** * *
11553502 AGAACCTTTC-GATGT-AATCCTGAACCCTCAATGC-ATATTTCG
1 AGAACCTTTCAG-TGTGAATCCCAAACCCTCAATGCGA-ATCTCA
* * * *** * *
11553544 AGAATCTTTTAGTATGAATCTTGAACCATCAATGCGAACCAT-A
1 AGAACCTTTCAGTGTGAATCCCAAACCCTCAATGCGAATC-TCA
** * *
11553587 AGAATTTTTCAGTGTGAA-ACCAAACCCTCAATGCGAATCTTA
1 AGAACCTTTCAGTGTGAATCCCAAACCCTCAATGCGAATCTCA
* **
11553629 AGAATCTTTCAGTGTGAATCCCAAACCCTTTATGCGAATCTCA
1 AGAACCTTTCAGTGTGAATCCCAAACCCTCAATGCGAATCTCA
* * *
11553672 AGGACCTTTCAATGTAAATC
1 AGAACCTTTCAGTGTGAATC
11553692 TTGAACCTTT
Statistics
Matches: 116, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.01
42 43 0.37
43 70 0.60
44 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (43 bp):
AGAACCTTTCAGTGTGAATCCCAAACCCTCAATGCGAATCTCA
Found at i:11553699 original size:21 final size:20
Alignment explanation
Indices: 11553675--11553716 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11553665 AATCTCAAGG
*
11553675 ACCTTTCAATGTAAATCTTGA
1 ACCTTT-AATGCAAATCTTGA
*
11553696 ACCTTTGATGCAAATCTTGA
1 ACCTTTAATGCAAATCTTGA
11553716 A
1 A
11553717 GACCCTCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ACCTTTAATGCAAATCTTGA
Found at i:11557757 original size:26 final size:25
Alignment explanation
Indices: 11557717--11557765 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
11557707 AATGTGTTTT
* *
11557717 ATTTTTATTATTAATAAGTATCAAA
1 ATTTTTATTAATAATAAATATCAAA
11557742 ATTTTATATTAATAATAAATATCA
1 ATTTT-TATTAATAATAAATATCA
11557766 TAAAAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
ATTTTTATTAATAATAAATATCAAA
Found at i:11559676 original size:16 final size:16
Alignment explanation
Indices: 11559654--11559756 Score: 75
Period size: 16 Copynumber: 6.1 Consensus size: 16
11559644 TTATTAAAGT
11559654 ATATTAAAAATATTTA
1 ATATTAAAAATATTTA
* *
11559670 TTATTAAAATTA-TTA
1 ATATTAAAAATATTTA
*
11559685 ATATTTAAAAATAATTA
1 ATA-TTAAAAATATTTA
*
11559702 TATTTTAACAATAATATTTA
1 -ATATT-A-AA-AATATTTA
11559722 ATATTAAAATATTATGTTA
1 ATATTAAAA-A-TAT-TTA
*
11559741 ATA-TAAAAATACTTA
1 ATATTAAAAATATTTA
11559756 A
1 A
11559757 AATAAAACTA
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
15 9 0.13
16 21 0.30
17 9 0.13
18 12 0.17
19 12 0.17
20 7 0.10
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (16 bp):
ATATTAAAAATATTTA
Found at i:11559681 original size:22 final size:24
Alignment explanation
Indices: 11559620--11559685 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 24
11559610 TTAATATAAC
11559620 TATTAAAATATTAAAAATGATTTAT
1 TATTAAAATATTAAAAAT-ATTTAT
11559645 TATTAAAGTATATTAAAAATATTTAT
1 TATTAAA--ATATTAAAAATATTTAT
11559671 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
11559686 TATTTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
24 1 0.03
25 13 0.34
26 13 0.34
27 11 0.29
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
TATTAAAATATTAAAAATATTTAT
Found at i:11559687 original size:22 final size:24
Alignment explanation
Indices: 11559620--11559691 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 24
11559610 TTAATATAAC
*
11559620 TATTAAAATAT-TAAAAATGATTTAT
1 TATTAAAATATAT-TAAAT-ATTTAT
*
11559645 TATTAAAGTATATTAAAAATATTTAT
1 TATTAAAATATATT--AAATATTTAT
11559671 TATTAAAAT-TATT-AATATTTA
1 TATTAAAATATATTAAATATTTA
11559692 AAAATAATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
22 8 0.20
25 14 0.34
26 15 0.37
27 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (24 bp):
TATTAAAATATATTAAATATTTAT
Found at i:11559701 original size:17 final size:17
Alignment explanation
Indices: 11559657--11559716 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
11559647 TTAAAGTATA
* *
11559657 TTAAAAATATTTATTA-
1 TTAAAAATAATTAATAT
*
11559673 TT-AAAATTATTAATAT
1 TTAAAAATAATTAATAT
11559689 TTAAAAATAATT-ATATT
1 TTAAAAATAATTAATA-T
*
11559706 TTAACAATAAT
1 TTAAAAATAAT
11559717 ATTTAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.28
16 7 0.19
17 19 0.53
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAAATAATTAATAT
Found at i:11559702 original size:20 final size:20
Alignment explanation
Indices: 11559677--11559730 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 20
11559667 TTATTATTAA
11559677 AATTATTAATATTTAAAAAT
1 AATTATTAATATTTAAAAAT
*
11559697 AATTA-T-AT-TTTAACAAT
1 AATTATTAATATTTAAAAAT
11559714 AA-TATTTAATA-TTAAAA
1 AATTA-TTAATATTTAAAA
11559731 TATTATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
16 2 0.07
17 10 0.36
18 3 0.11
19 8 0.29
20 5 0.18
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTATTAATATTTAAAAAT
Found at i:11559741 original size:19 final size:18
Alignment explanation
Indices: 11559654--11559751 Score: 73
Period size: 19 Copynumber: 5.6 Consensus size: 18
11559644 TTATTAAAGT
11559654 ATATT-AAA-AATATTTA
1 ATATTAAAATAATATTTA
*
11559670 TTATTAAAAT--TA-TTA
1 ATATTAAAATAATATTTA
* *
11559685 ATATTTAAA-AATAATTA
1 ATATTAAAATAATATTTA
*
11559702 TATTTTAACAATAATATTTA
1 -ATATTAA-AATAATATTTA
*
11559722 ATATTAAAATATTATGTTA
1 ATATTAAAATAATAT-TTA
*
11559741 ATATAAAAATA
1 ATATTAAAATA
11559752 CTTAAAATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
15 10 0.16
16 8 0.12
17 6 0.09
18 12 0.19
19 21 0.33
20 7 0.11
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
ATATTAAAATAATATTTA
Found at i:11559797 original size:15 final size:15
Alignment explanation
Indices: 11559796--11559924 Score: 121
Period size: 15 Copynumber: 9.0 Consensus size: 15
11559786 TTTATTAATA
11559796 TATTAATATATTATT
1 TATTAATATATTATT
*
11559811 TATTATTATATTATT
1 TATTAATATATTATT
* * *
11559826 ATAGTATTA-ATTAAT
1 -TATTAATATATTATT
*
11559841 TAAT-ATAATATTATT
1 TATTAAT-ATATTATT
11559856 TATTAATATATTATT
1 TATTAATATATTATT
11559871 TATTAATATA--A--
1 TATTAATATATTATT
11559882 TA-TAATATA-TATT
1 TATTAATATATTATT
*
11559895 TATTAATATAGTATT
1 TATTAATATATTATT
*
11559910 TATTAATATAATATT
1 TATTAATATATTATT
11559925 ATTTATAAGT
Statistics
Matches: 97, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
10 7 0.07
11 3 0.03
13 4 0.04
14 11 0.11
15 63 0.65
16 9 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATTAATATATTATT
Found at i:11559801 original size:8 final size:8
Alignment explanation
Indices: 11559779--11559919 Score: 80
Period size: 8 Copynumber: 17.5 Consensus size: 8
11559769 TATTATTCTT
11559779 TATATT-A
1 TATATTAA
*
11559786 TTTATTAA
1 TATATTAA
11559794 TATATTAA
1 TATATTAA
11559802 TATATT-A
1 TATATTAA
* *
11559809 TTTATTAT
1 TATATTAA
11559817 TATATTATTA
1 TATATTA--A
11559827 TAGTATTAA
1 TA-TATTAA
11559836 T-TAATTAA
1 TAT-ATTAA
*
11559844 TATAATATTA
1 TAT-AT-TAA
*
11559854 TTTATTAA
1 TATATTAA
11559862 TATATT-A
1 TATATTAA
*
11559869 TTTATTAA
1 TATATTAA
11559877 TATAATATAA
1 TAT-AT-TAA
11559887 TATA-T-A
1 TATATTAA
*
11559893 TTTATTAA
1 TATATTAA
*
11559901 TATAGT-A
1 TATATTAA
*
11559908 TTTATTAA
1 TATATTAA
11559916 TATA
1 TATA
11559920 ATATTATTTA
Statistics
Matches: 102, Mismatches: 18, Indels: 27
0.69 0.12 0.18
Matches are distributed among these distances:
6 4 0.04
7 25 0.25
8 45 0.44
9 11 0.11
10 12 0.12
11 5 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (8 bp):
TATATTAA
Found at i:11559816 original size:42 final size:41
Alignment explanation
Indices: 11559769--11559921 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
11559759 TAAAACTATA
*
11559769 TATTATTCTTTATATTATTTATTAATAT-ATTAATATATTATT
1 TATTATT-TATATATTATTTATTAATATAATTAATATA-TATT
*
11559811 TATTA-TTATATTATTATAGTATTAAT-TAATTAATATA-ATAT
1 TATTATTTATA-TATTAT-TTATTAATATAATTAATATATAT-T
*
11559852 TATTTATTAATATATTATTTATTAATATAATATAATATATATT
1 TA-TTATTTATATATTATTTATTAATATAAT-TAATATATATT
*
11559895 TATTA---ATATAGTATTTATTAATATAAT
1 TATTATTTATATATTATTTATTAATATAAT
11559922 ATTATTTATA
Statistics
Matches: 97, Mismatches: 5, Indels: 21
0.79 0.04 0.17
Matches are distributed among these distances:
39 21 0.22
40 5 0.05
41 18 0.19
42 37 0.38
43 14 0.14
44 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (41 bp):
TATTATTTATATATTATTTATTAATATAATTAATATATATT
Found at i:11562230 original size:21 final size:19
Alignment explanation
Indices: 11562192--11562230 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
11562182 ATTTAATTTA
*
11562192 TAATTTTTTTATTTTATTC
1 TAATTTTTTTAATTTATTC
11562211 TAATTTTATTTAAATTTATT
1 TAATTTT-TTT-AATTTATT
11562231 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 7 0.41
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TAATTTTTTTAATTTATTC
Found at i:11562667 original size:16 final size:16
Alignment explanation
Indices: 11562646--11562686 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
11562636 AAAGATATGA
11562646 TAACAGTGCGGGAATG
1 TAACAGTGCGGGAATG
11562662 TAACAGTGCGGGAATG
1 TAACAGTGCGGGAATG
11562678 TAACAGTGC
1 TAACAGTGC
11562687 AAATCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.20
Consensus pattern (16 bp):
TAACAGTGCGGGAATG
Found at i:11567125 original size:468 final size:465
Alignment explanation
Indices: 11566102--11567854 Score: 1687
Period size: 468 Copynumber: 3.7 Consensus size: 465
11566092 TAAGTTTAAC
* * * *
11566102 GAAAAGTAAGAAAAACCATAAGAAAATATTATTATAATGTAAATAATTGTGCTAGTAA-ACTAAA
1 GAAAAGTAAGAATAACCGTAA-AAAATATTATTATAATGTAAATAATTATGTTAGTAACA-TAAA
* *
11566166 ATTTTAATTAATTATTATTTTTGTAAATATCTAAGAAAAATAGCTAAAAATTAAAAAAACAAATT
64 ATTTTAATTAATTATTATTTTTGTAAATATCTAAG-AAAATAGCTAGAAATTAAAAAAA-AAATA
* * * * * * *
11566231 CGTCATGTAAATAAGTGAGAAGTAATGTAAAATTAATGTCATTTTGATGTAAAATGGGTAAAAAG
127 GGTAATGTAAA-AAGTGAGAAGTAATGTAAAATTAGTAT-AATTTGACGTAAAATGGGTAACAAG
* **
11566296 TGTCATAACACAC-AAAAAAAAGTTATGACAATTTTAAATTTAAT-AAAAGATAAGAACAATTAT
190 TGTCATAACACACTAAAAAAAAGTTATGACAATTTTAAATGTAATGAAAAG-TAAGAACAACCAT
* * *** * *
11566359 AATAAGATATTATTGTAACATAAATAATTATGAAGGGAAACATAAAATTTTAATTAATTATTGTT
254 AAAAAGATATTATTGTAATATAAATAATTAT-ATTAGTAACATAAAATTTTAATTAATTATTATT
* * * * * *
11566424 CTCGTAATTGTATAAGAAAAATAGCTAGAAATTAAAAATTAAATAGTTAATGTAAAAAAGTAAAA
318 TTTGTAAATATATAAGGAAAATAGCTAGAAATTAAAAA--AAATAGGTAATGTAAAAAAGT----
* * * * * * *** *
11566489 AAAAAAAATTGTAAATTTAATATATTTTGGTGTAAAATGGGTAAGAACCATCATAACATATGCTA
377 GAGAGAAA-TGTAAAATTAGTATA-TTTGCTGTAAAAT-GGTAA-AAATGTCATAACACAT-CTA
* * * * *
11566554 AGAAAGAGTTATGACAA--ATGATGTAAC
437 AGAAAAAATTATGACAATTATAATATAAT
* * * *
11566581 GAAAAGTAAAAATAACTGTAAAAAGATATTATTATAATATAAATAATTATGTTGGTAACATAAAA
1 GAAAAGTAAGAATAACCGTAAAAA-ATATTATTATAATGTAAATAATTATGTTAGTAACATAAAA
*
11566646 TTTTAATTAATTATTA-TTTT-TAAATATCTAA-AAAAT-GCTAGAAATTAAAAAAAAAAAAGGT
65 TTTTAATTAATTATTATTTTTGTAAATATCTAAGAAAATAGCTAGAAATTAAAAAAAAAATAGGT
** *
11566707 AATGTAAACAAGTGAGAAGTAACATAAAATTAGTATAATTTGACATAAAATGGGTAACAAG-GAT
130 AATGTAAA-AAGTGAGAAGTAATGTAAAATTAGTATAATTTGACGTAAAATGGGTAACAAGTG-T
* * * ** * *
11566771 CATAACATATTAAGAATGAGTTATGATAATTCTAAATGTAATGAAAAGTAAGAACAACCATAAAA
193 CATAACACACTAAAAAAAAGTTATGACAATTTTAAATGTAATGAAAAGTAAGAACAACCATAAAA
* * * * *
11566836 AGTTATTAATGTAATGTAAATAATTATATTAGCAACGTAAAATTTTAATTAATTACTT-TTTTTG
258 AGATATTATTGTAATATAAATAATTATATTAGTAACATAAAATTTTAATTAATTA-TTATTTTTG
* * * *
11566900 TAAATCTCTAAGGAAAATAGTTAGAAATTAGAAAACAAATAGGTAAAGTAAAAAAGTGAGATGAA
322 TAAATATATAAGGAAAATAGCTAGAAATTA-AAAA-AAATAGGTAATGTAAAAAAGTGAGA-GAA
* * *
11566965 ATGTAAAATTAGTATCATTTGCTGTAAAATAGGTAAAAAGTGTCATAATA-ATCTACGAAAAATT
384 ATGTAAAATTAGTAT-ATTTGCTGTAAAAT-GGTAAAAA-TGTCATAACACATCTAAGAAAAAAT
*
11567029 TATGACAATTCTAATCATAAT
446 TATGACAATTATAAT-ATAAT
* * *
11567050 GGAAAGTAAGAACAACCGTAAAAAATATTATTATAATGTAAATAATTATGTTAATAACATAAAAT
1 GAAAAGTAAGAATAACCGTAAAAAATATTATTATAATGTAAATAATTATGTTAGTAACATAAAAT
* * * *
11567115 TTTAATTAATTATTATTTTTGTAAATATATAAGGAAAATAGTTAGAAATTAAAAAATAAATAGCT
66 TTTAATTAATTATTATTTTTGTAAATATCTAA-GAAAATAGCTAGAAATTAAAAAAAAAATAGGT
* * * * * * * * *
11567180 AACGTAAAAAAGTGAGATGAAATGTAAAA-T-CT-T-ATTTGGCGTAAAA-GGATAAGATGCGTC
130 AATGT-AAAAAGTGAGAAGTAATGTAAAATTAGTATAATTTGACGTAAAATGGGTAACAAGTGTC
* * *
11567240 ATAACACACTAAAAAAAAGTTATGATAATTTTAAACGTAATAAAAAGTAAGAACAACCATAAAAA
194 ATAACACACTAAAAAAAAGTTATGACAATTTTAAATGTAATGAAAAGTAAGAACAACCAT-AAAA
* * *
11567305 AGATATTATTATAATATAAATAATTATATT-GATAACGTAAAATTTTAATAAATTATTATTTTTG
258 AGATATTATTGTAATATAAATAATTATATTAG-TAACATAAAATTTTAATTAATTATTATTTTTG
* * *
11567369 TAAATATTTAA--AAAA-A-CTAGAAATT-AAAAAAATAGG-ATATTTAAAAAAGTGAGGAGTAA
322 TAAATATATAAGGAAAATAGCTAGAAATTAAAAAAAATAGGTA-ATGTAAAAAAGTGA-GAGAAA
* * * * ** ** *
11567428 CGTGAAATTAGTATTGTTTAAC-AAAAAATGAGTAAGAAATGTTGTAACACA-CTGAAAAAAAAA
385 TGTAAAATTAGTA-TATTT-GCTGTAAAATG-GTAA-AAATGTCATAACACATCT-AAGAAAAAA
* *
11567491 TTATGATAATTTTAAATATAAT
445 TTATGACAATTAT-AATATAAT
* * * *
11567513 GAAAAATAAGAATAATCGTAAAATAATATTATTATAATGTAAATAATTATGTTGGTAATATAAAA
1 GAAAAGTAAGAATAACCGTAAAA-AATATTATTATAATGTAAATAATTATGTTAGTAACATAAAA
* * *
11567578 TTTTAATTAATTATTATTTTTTTAAATATTTAAGGAAAATAGCTAGAAATTAAAAAACAAATAGG
65 TTTTAATTAATTATTATTTTTGTAAATATCTAA-GAAAATAGCTAGAAATTAAAAAAAAAATAGG
* *
11567643 TAATGTTAAAAGTGA-AA-TGAATTGTAAAATTAGTATAATTTGACGTAAAATAGGTAACAAGTG
129 TAATGTAAAAAGTGAGAAGT-AA-TGTAAAATTAGTATAATTTGACGTAAAATGGGTAACAAGTG
* * * * * * * *
11567706 TTGA-AATACACTAAAAAAGAGTTATGACAATTATAAATGTAATGGAATGTAAAAACAACTATAA
192 -TCATAACACACTAAAAAAAAGTTATGACAATTTTAAATGTAATGAAAAGTAAGAACAACCATAA
* * * *
11567770 AAA-ATATTTTTGTAATATAAATAATTA-AGTTAATAATATAAAATTTTAATTAATTACTATTTT
256 AAAGATATTATTGTAATATAAATAATTATA-TTAGTAACATAAAATTTTAATTAATTATTATTTT
*
11567833 TGTAAATATATAATGAAAATAG
320 TGTAAATATATAAGGAAAATAG
11567855 TTAAATAAAA
Statistics
Matches: 1058, Mismatches: 169, Indels: 103
0.80 0.13 0.08
Matches are distributed among these distances:
461 2 0.00
462 57 0.05
463 68 0.06
464 107 0.10
465 10 0.01
466 81 0.08
467 25 0.02
468 217 0.21
469 112 0.11
470 11 0.01
471 2 0.00
472 107 0.10
473 144 0.14
474 24 0.02
475 5 0.00
477 11 0.01
478 7 0.01
479 67 0.06
480 1 0.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.32
Consensus pattern (465 bp):
GAAAAGTAAGAATAACCGTAAAAAATATTATTATAATGTAAATAATTATGTTAGTAACATAAAAT
TTTAATTAATTATTATTTTTGTAAATATCTAAGAAAATAGCTAGAAATTAAAAAAAAAATAGGTA
ATGTAAAAAGTGAGAAGTAATGTAAAATTAGTATAATTTGACGTAAAATGGGTAACAAGTGTCAT
AACACACTAAAAAAAAGTTATGACAATTTTAAATGTAATGAAAAGTAAGAACAACCATAAAAAGA
TATTATTGTAATATAAATAATTATATTAGTAACATAAAATTTTAATTAATTATTATTTTTGTAAA
TATATAAGGAAAATAGCTAGAAATTAAAAAAAATAGGTAATGTAAAAAAGTGAGAGAAATGTAAA
ATTAGTATATTTGCTGTAAAATGGTAAAAATGTCATAACACATCTAAGAAAAAATTATGACAATT
ATAATATAAT
Found at i:11567412 original size:17 final size:17
Alignment explanation
Indices: 11567372--11567416 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
11567362 ATTTTTGTAA
11567372 ATATTTAAAAAAACTAG
1 ATATTTAAAAAAACTAG
*
11567389 A-AATTAAAAAAA-TAGG
1 ATATTTAAAAAAACTA-G
11567405 ATATTTAAAAAA
1 ATATTTAAAAAA
11567417 GTGAGGAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.08
16 12 0.50
17 10 0.42
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (17 bp):
ATATTTAAAAAAACTAG
Found at i:11567579 original size:231 final size:233
Alignment explanation
Indices: 11566066--11567854 Score: 1326
Period size: 237 Copynumber: 7.6 Consensus size: 233
11566056 CAAGCACAAT
* * * * * * * *
11566066 ACACTAAGAAAGAGTTATAATAATTCTAAGTTTAACGAAAAGTAAGAAAAACCATAAGAAA-ATA
1 ACACTAAAAAAAAGTTATGATAATTCTAAATATAATGAAAAGTAAGAACAACCGTAA-AAAGATA
* * *
11566130 TTATTATAATGTAAATAATTGTGCTAGTAA-ACTAAAATTTTAATTAATTATTATTTTTGTAAAT
65 TTATTATAATGTAAATAATTATGTTGGTAACA-TAAAATTTTAATTAATTATTATTTTTGTAAAT
* ** * * * * *
11566194 ATCTAAGAAAAATAGCTAAAAATTAAAAAAACAAATTCGTCATGTAAATAAGTGAGAAGTAATGT
129 ATCTAAG-AAAATAGCTAGAAATT--AAAAA-AAATAGGTAATGTAAAAAAGTGAGATGAAACGT
* * * ** *
11566259 AAAATTAATGTCATTTTGATGTAAAATGGGTAAAAAGTGTCATAAC
190 AAAATTAGTATTA-TTTGACATAAAATGAGTAAAAA-TGTCATAAC
* * * *** *
11566305 ACAC-AAAAAAAAGTTATGACAATTTTAAATTTAAT-AAAAGATAAGAACAATTATAATAAGATA
1 ACACTAAAAAAAAGTTATGATAATTCTAAATATAATGAAAAG-TAAGAACAACCGTAAAAAGATA
* ** ** * * * * *
11566368 TTATTGTAACATAAATAATTATGAAGGGAAACATAAAATTTTAATTAATTATTGTTCTCGTAATT
65 TTATTATAATGTAAATAATTATG-TTGGTAACATAAAATTTTAATTAATTATTATTTTTGTAAAT
* * * * * **
11566433 GTATAAGAAAAATAGCTAGAAATTAAAAATTAAATAGTTAATGTAAAAAAGTAAAAAAAAAAAAT
129 ATCTAAG-AAAATAGCTAGAAATTAAAAA--AAATAGGTAATGTAAAAAAGT---GAGATGAAA-
* * * *** * ***
11566498 TGTAAATTTAATA-TATTTTGGTGTAAAATGGGTAAGAACCATCATAAC
187 CGTAAAATTAGTATTA-TTTGACATAAAATGAGTAA-AAATGTCATAAC
* * * * * * * * * * *
11566546 ATATGCTAAGAAAGAGTTATGACAA--AT-GATGTAACGAAAAGTAAAAATAACTGTAAAAAGAT
1 ACA--CTAAAAAAAAGTTATGATAATTCTAAATATAATGAAAAGTAAGAACAACCGTAAAAAGAT
*
11566608 ATTATTATAATATAAATAATTATGTTGGTAACATAAAATTTTAATTAATTATTA-TTTT-TAAAT
64 ATTATTATAATGTAAATAATTATGTTGGTAACATAAAATTTTAATTAATTATTATTTTTGTAAAT
* * * * *
11566671 ATCTAA-AAAAT-GCTAGAAATTAAAAAAAAAAAAGGTAATGTAAACAAGTGAGAAGTAACATAA
129 ATCTAAGAAAATAGCTAGAAATT--AAAAAAAATAGGTAATGTAAAAAAGTGAGATGAAACGTAA
* * * *
11566734 AATTAGTATAATTTGACATAAAATGGGTAACAAGGATCATAAC
192 AATTAGTATTATTTGACATAAAATGAGTAAAAATG-TCATAAC
* * * ** * * *
11566777 ATATTAAGAATGAGTTATGATAATTCTAAATGTAATGAAAAGTAAGAACAACCATAAAAAGTTAT
1 ACACTAAAAAAAAGTTATGATAATTCTAAATATAATGAAAAGTAAGAACAACCGTAAAAAGATAT
* * * * * * *
11566842 TAATGTAATGTAAATAATTATATTAGCAACGTAAAATTTTAATTAATTACTT-TTTTTGTAAATC
66 TATTATAATGTAAATAATTATGTTGGTAACATAAAATTTTAATTAATTA-TTATTTTTGTAAATA
* * *
11566906 TCTAAGGAAAATAGTTAGAAATTAGAAAACAAATAGGTAAAGTAAAAAAGTGAGATGAAATGTAA
130 TCTAA-GAAAATAGCTAGAAATTA-AAAA-AAATAGGTAATGTAAAAAAGTGAGATGAAACGTAA
* * *
11566971 AATTAGTATCATTTG-CTGTAAAAT-AGGTAAAAAGTGTCATAAT
192 AATTAGTATTATTTGAC-ATAAAATGA-GTAAAAA-TGTCATAAC
** * * *
11567014 A-ATCTACGAAAAATTTATGACAATTCT-AATCATAATGGAAAGTAAGAACAACCGTAAAAA-AT
1 ACA-CTAAAAAAAAGTTATGATAATTCTAAAT-ATAATGAAAAGTAAGAACAACCGTAAAAAGAT
**
11567076 ATTATTATAATGTAAATAATTATGTTAATAACATAAAATTTTAATTAATTATTATTTTTGTAAAT
64 ATTATTATAATGTAAATAATTATGTTGGTAACATAAAATTTTAATTAATTATTATTTTTGTAAAT
* * * * *
11567141 ATATAAGGAAAATAGTTAGAAATTAAAAAATAAATAGCTAACGTAAAAAAGTGAGATGAAATGT-
129 ATCTAA-GAAAATAGCTAGAAATT-AAAAA-AAATAGGTAATGTAAAAAAGTGAGATGAAACGTA
* * * * *
11567205 AAA--A-TCTTATTTGGCGTAAAAGGA-T-AAGATGCGTCATAAC
191 AAATTAGTATTATTTGACATAAAATGAGTAAAAAT--GTCATAAC
* ** * *
11567245 ACACTAAAAAAAAGTTATGATAATTTTAAACGTAATAAAAAGTAAGAACAACCATAAAAAAGATA
1 ACACTAAAAAAAAGTTATGATAATTCTAAATATAATGAAAAGTAAGAACAACCGT-AAAAAGATA
* * * * *
11567310 TTATTATAATATAAATAATTATATTGATAACGTAAAATTTTAATAAATTATTATTTTTGTAAATA
65 TTATTATAATGTAAATAATTATGTTGGTAACATAAAATTTTAATTAATTATTATTTTTGTAAATA
* * * *
11567375 TTTAA-AAAA-A-CTAGAAATT-AAAAAAATAGG-ATATTTAAAAAAGTGAGGA-GTAACGTGAA
130 TCTAAGAAAATAGCTAGAAATTAAAAAAAATAGGTA-ATGTAAAAAAGTGA-GATGAAACGTAAA
* * * **
11567434 ATTAGTATTGTTTAACAAAAAATGAGTAAGAAATGTTGTAAC
193 ATTAGTATTATTTGACATAAAATGAGTAA-AAATGTCATAAC
* * * * *
11567476 ACACTGAAAAAAAAATTATGATAATTTTAAATATAATGAAAAATAAGAATAATCGTAAAATA-AT
1 ACACT-AAAAAAAAGTTATGATAATTCTAAATATAATGAAAAGTAAGAACAACCGTAAAA-AGAT
* *
11567540 ATTATTATAATGTAAATAATTATGTTGGTAATATAAAATTTTAATTAATTATTATTTTTTTAAAT
64 ATTATTATAATGTAAATAATTATGTTGGTAACATAAAATTTTAATTAATTATTATTTTTGTAAAT
* * * **
11567605 ATTTAAGGAAAATAGCTAGAAATTAAAAAACAAATAGGTAATGT-TAAAAGTGAAATGAATTGTA
129 ATCTAA-GAAAATAGCTAGAAATT-AAAAA-AAATAGGTAATGTAAAAAAGTGAGATGAAACGTA
* * * * *
11567669 AAATTAGTATAATTTGACGTAAAAT-AGGTAACAAGTGTTGA-AAT
191 AAATTAGTATTATTTGACATAAAATGA-GTAA-AAATG-TCATAAC
* * * * * * * **
11567713 ACACTAAAAAAGAGTTATGACAATTATAAATGTAATGGAATGTAAAAACAACTATAAAAA-ATAT
1 ACACTAAAAAAAAGTTATGATAATTCTAAATATAATGAAAAGTAAGAACAACCGTAAAAAGATAT
* * * * ** * *
11567777 TTTTGTAATATAAATAATTAAGTTAATAATATAAAATTTTAATTAATTACTATTTTTGTAAATAT
66 TATTATAATGTAAATAATTATGTTGGTAACATAAAATTTTAATTAATTATTATTTTTGTAAATAT
*
11567842 ATAATGAAAATAG
131 CTAA-GAAAATAG
11567855 TTAAATAAAA
Statistics
Matches: 1253, Mismatches: 231, Indels: 136
0.77 0.14 0.08
Matches are distributed among these distances:
225 1 0.00
226 23 0.02
227 9 0.01
229 27 0.02
230 18 0.01
231 170 0.14
232 143 0.11
233 83 0.07
234 11 0.01
235 116 0.09
236 176 0.14
237 183 0.15
238 94 0.08
239 59 0.05
240 27 0.02
241 77 0.06
242 19 0.02
243 1 0.00
244 16 0.01
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.32
Consensus pattern (233 bp):
ACACTAAAAAAAAGTTATGATAATTCTAAATATAATGAAAAGTAAGAACAACCGTAAAAAGATAT
TATTATAATGTAAATAATTATGTTGGTAACATAAAATTTTAATTAATTATTATTTTTGTAAATAT
CTAAGAAAATAGCTAGAAATTAAAAAAAATAGGTAATGTAAAAAAGTGAGATGAAACGTAAAATT
AGTATTATTTGACATAAAATGAGTAAAAATGTCATAAC
Found at i:11567804 original size:699 final size:698
Alignment explanation
Indices: 11566080--11567857 Score: 1897
Period size: 699 Copynumber: 2.5 Consensus size: 698
11566070 TAAGAAAGAG
* * * * * *
11566080 TTATAATAATTCTAAGTTTAACGAAAAGTAAGAAAAACCATAAGAAAATATTATTATAATGTAAA
1 TTATGATAATTCTAAATATAATGAAAAATAAGAACAACCATAA-AAAATATTATTATAATGTAAA
* * *
11566145 TAATTGTGCTAGTAAACTAAAATTTTAATTAATTATTATTTTTGTAAATATCTAAGAAAAATAGC
65 TAATTATGTTAGTAAA-TAAAATTTTAATTAATTATTATTTTTGTAAATATCTAAGGAAAATAGC
* ** * * * *
11566210 TAAAAATTAAAAAAACAAATTCGTCATGTAAATAAGTGAGAA-GTAATGTAAAATTAATGTCATT
129 TAGAAATT-AAAAAACAAATAGGTAATGTAAA-AAGTGA-AATG-AATGTAAAATTAGTAT-AAT
* * * * * *
11566274 TTGATGTAAAATGGGTAAAAAGTGTCATAACACACAAAAAAAAGTTATGACAATTTTAAATTTAA
189 TTGACGTAAAATAGGTAAAAAGTGTCATAATACACTAAAAAAAGTTATGACAATTATAAATATAA
* * * * * *
11566339 T-AAAAGATAAGAACAATTATAATAAGATATTATTGTAACATAAATAATT-A-TGAAGGGAAACA
254 TGGAAAG-TAAGAACAACTATAA-AAAATATTATTGTAATATAAATAATTAAGTTAA---TAACA
* * * * * * * *
11566401 TAAAATTTTAATTAATTATTGTTCTCGTAATTGTATAAGAAAAATAGCTAGAAATTAAAAATTAA
314 TAAAATTTTAATTAATTATTATTTTTGTAAATATATAAGGAAAATAGTTAGAAATTAAAAAATAA
* * * * *
11566466 ATAGTTAATGTAAAAAAGTAAAAAAAAAAAATTGTAAATTTAATATATTTTGGTGTAAAATGGGT
379 ATAGCTAACGTAAAAAAGT--AAAAAAAAAATTGTAAATATAATATATTTTGGCGTAAAATGGAT
* * * * * * *
11566531 AAGAACCATCATAACATATGCTAAGAAAGAGTTATGACAAATGATGTAACGAAAAGTAAAAATAA
442 AAGAACCATCATAACACA-GCTAAAAAAAAGTTATGACAAATAACGTAACAAAAAGTAAAAACAA
** * * *
11566596 CTGTAAAAAGATATTATTATAATATAAATAATTATGTTGGTAACATAAAATTTTAATTAATTATT
506 CCATAAAAAGATATTATTATAATATAAATAATTATATTGATAACATAAAATTTTAATAAATTATT
* *
11566661 ATTTTTAAATATCTAAAAAATGCTAGAAATTAAAAAAAAAAAAGGTAATGTAAACAAGTGAGAAG
571 ATTTTTAAATATCTAAAAAATACTAGAAATT--AAAAAAAAAAGGTAATGTAAAAAAGTGAGAAG
* * * * * * * ** *
11566726 TAACATAAAATTAGTATAATTTGACATAAAATGGGTAACAAGGATCATAACATATTAAGAATGAG
634 TAACATAAAATTAGTATAATTTAACAAAAAATGAGTAAAAAGGATCATAACACATGAAAAAAAAA
* * * * *
11566791 TTATGATAATTCTAAATGTAATGAAAAGTAAGAACAACCATAAAAAGTTATTAATGTAATGTAAA
1 TTATGATAATTCTAAATATAATGAAAAATAAGAACAACCATAAAAA-ATATTATTATAATGTAAA
* * * *
11566856 TAATTATATTAGCAACGTAAAATTTTAATTAATTACTT-TTTTTGTAAATCTCTAAGGAAAATAG
65 TAATTATGTTAGTAA-ATAAAATTTTAATTAATTA-TTATTTTTGTAAATATCTAAGGAAAATAG
* * * * *
11566920 TTAGAAATTAGAAAACAAATAGGTAAAGTAAAAAAGTGAGATGAAATGTAAAATTAGTATCATTT
128 CTAGAAATTAAAAAACAAATAGGTAATGT-AAAAAGTGAAATG-AATGTAAAATTAGTATAATTT
* * *
11566985 G-CTGTAAAATAGGTAAAAAGTGTCATAATA-ATCTACGAAAAATTTATGACAATTCT-AATCAT
191 GAC-GTAAAATAGGTAAAAAGTGTCATAATACA-CTA-AAAAAAGTTATGACAATTATAAAT-AT
** * * *
11567047 AATGGAAAGTAAGAACAACCGTAAAAAATATTATTATAATGTAAATAATTATGTTAATAACATAA
252 AATGGAAAGTAAGAACAACTATAAAAAATATTATTGTAATATAAATAATTAAGTTAATAACATAA
11567112 AATTTTAATTAATTATTATTTTTGTAAATATATAAGGAAAATAGTTAGAAATTAAAAAATAAATA
317 AATTTTAATTAATTATTATTTTTGTAAATATATAAGGAAAATAGTTAGAAATTAAAAAATAAATA
* * ** * *
11567177 GCTAACGTAAAAAAGT-GAGATGAAA-TGTAAA-AT-CT-TA-TTTGGCGTAAAA-GGATAAGAT
382 GCTAACGTAAAAAAGTAAAAAAAAAATTGTAAATATAATATATTTTGGCGTAAAATGGATAAGAA
* * * * * *
11567235 GCGTCATAACACA-CTAAAAAAAAGTTATGATAATTTTAAACGTAATAAAAAGTAAGAACAACCA
447 CCATCATAACACAGCTAAAAAAAAGTTATGACAA--AT-AACGTAACAAAAAGTAAAAACAACCA
*
11567299 TAAAAAAGATATTATTATAATATAAATAATTATATTGATAACGTAAAATTTTAATAAATTATTAT
509 T-AAAAAGATATTATTATAATATAAATAATTATATTGATAACATAAAATTTTAATAAATTATTA-
* * * *
11567364 TTTTGTAAATATTTAAAAAA-ACTAGAAATT-AAAAAAATAGG-ATATTTAAAAAAGTGAGGAGT
572 TTTT-TAAATATCTAAAAAATACTAGAAATTAAAAAAAAAAGGTA-ATGTAAAAAAGTGAGAAGT
* * ** * **
11567426 AACGTGAAATTAGTATTGTTTAACAAAAAATGAGTAAGAAATG-TTGTAACACACTGAAAAAAAA
635 AACATAAAATTAGTATAATTTAACAAAAAATGAGTAA-AAAGGATCATAACACA-TGAAAAAAAA
11567490 A
698 A
* * * *
11567491 TTATGATAATTTTAAATATAATGAAAAATAAGAATAATCGTAAAATAATATTATTATAATGTAAA
1 TTATGATAATTCTAAATATAATGAAAAATAAGAACAACCATAAAA-AATATTATTATAATGTAAA
* * *
11567556 TAATTATGTTGGTAATATAAAATTTTAATTAATTATTATTTTTTTAAATATTTAAGGAAAATAGC
65 TAATTATGTTAGTAA-ATAAAATTTTAATTAATTATTATTTTTGTAAATATCTAAGGAAAATAGC
*
11567621 TAGAAATTAAAAAACAAATAGGTAATGTTAAAAGTGAAATGAATTGTAAAATTAGTATAATTTGA
129 TAGAAATTAAAAAACAAATAGGTAATGTAAAAAGTGAAATGAA-TGTAAAATTAGTATAATTTGA
* * *
11567686 CGTAAAATAGGTAACAAGTGTTGA-AATACACTAAAAAAGAGTTATGACAATTATAAATGTAATG
193 CGTAAAATAGGTAAAAAGTG-TCATAATACACTAAAAAA-AGTTATGACAATTATAAATATAATG
* * * *
11567750 GAATGTAAAAACAACTATAAAAAATATTTTTGTAATATAAATAATTAAGTTAATAATATAAAATT
256 GAAAGTAAGAACAACTATAAAAAATATTATTGTAATATAAATAATTAAGTTAATAACATAAAATT
* *
11567815 TTAATTAATTACTATTTTTGTAAATATATAATGAAAATAGTTA
321 TTAATTAATTATTATTTTTGTAAATATATAAGGAAAATAGTTA
11567858 AATAAAAAAA
Statistics
Matches: 890, Mismatches: 148, Indels: 70
0.80 0.13 0.06
Matches are distributed among these distances:
697 17 0.02
698 7 0.01
699 253 0.28
700 179 0.20
701 61 0.07
702 14 0.02
703 15 0.02
704 6 0.01
705 5 0.01
708 79 0.09
709 57 0.06
710 72 0.08
711 123 0.14
712 2 0.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (698 bp):
TTATGATAATTCTAAATATAATGAAAAATAAGAACAACCATAAAAAATATTATTATAATGTAAAT
AATTATGTTAGTAAATAAAATTTTAATTAATTATTATTTTTGTAAATATCTAAGGAAAATAGCTA
GAAATTAAAAAACAAATAGGTAATGTAAAAAGTGAAATGAATGTAAAATTAGTATAATTTGACGT
AAAATAGGTAAAAAGTGTCATAATACACTAAAAAAAGTTATGACAATTATAAATATAATGGAAAG
TAAGAACAACTATAAAAAATATTATTGTAATATAAATAATTAAGTTAATAACATAAAATTTTAAT
TAATTATTATTTTTGTAAATATATAAGGAAAATAGTTAGAAATTAAAAAATAAATAGCTAACGTA
AAAAAGTAAAAAAAAAATTGTAAATATAATATATTTTGGCGTAAAATGGATAAGAACCATCATAA
CACAGCTAAAAAAAAGTTATGACAAATAACGTAACAAAAAGTAAAAACAACCATAAAAAGATATT
ATTATAATATAAATAATTATATTGATAACATAAAATTTTAATAAATTATTATTTTTAAATATCTA
AAAAATACTAGAAATTAAAAAAAAAAGGTAATGTAAAAAAGTGAGAAGTAACATAAAATTAGTAT
AATTTAACAAAAAATGAGTAAAAAGGATCATAACACATGAAAAAAAAA
Found at i:11568957 original size:103 final size:102
Alignment explanation
Indices: 11568648--11568961 Score: 372
Period size: 100 Copynumber: 3.1 Consensus size: 102
11568638 GAGAATTTCA
* *
11568648 TAATGAATTTTTG--AAAAAAATAATAATAAAATTTTCAATCCTACTAAACTATTGGAGGATTTA
1 TAATGAATTTTTGTAAAAAAAATAATAATAAAATTTTCAATCTTACTAAACTATTAGAGGATTTA
*
11568711 AATCTTGAATTAAGTCTTACCAAACTATTGGAGGACT
66 AATCTTGAATTAAGTCTTACTAAACTATTGGAGGACT
* * * * * *
11568748 TAATGTATTTTT-TAAAAATAATAATAAT-AAATTTTTAATCTTACCAAACTATTTGAGAATTTA
1 TAATGAATTTTTGTAAAAAAAATAATAATAAAATTTTCAATCTTACTAAACTATTAGAGGATTTA
* *
11568811 AATCTTGAATTAAGTCTTA-TCAAGA-TATTGGAGAACC
66 AATCTTGAATTAAGTCTTACT-AA-ACTATTGGAGGACT
* *
11568848 TAATGAATTTTTTGTAAAAAAAAAAATAATAAAATTTTCAATCTTACTAAATTATTAGAGGATTT
1 TAATGAA-TTTTTGTAAAAAAAATAATAATAAAATTTTCAATCTTACTAAACTATTAGAGGATTT
* * * **
11568913 AAATATCGAATT-AGATTTTACTAAACTATTGGAGGGTT
65 AAATCTTGAATTAAG-TCTTACTAAACTATTGGAGGACT
*
11568951 TGATGAATTTT
1 TAATGAATTTT
11568962 CTTAAACTAA
Statistics
Matches: 178, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
100 78 0.44
101 19 0.11
102 21 0.12
103 59 0.33
104 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (102 bp):
TAATGAATTTTTGTAAAAAAAATAATAATAAAATTTTCAATCTTACTAAACTATTAGAGGATTTA
AATCTTGAATTAAGTCTTACTAAACTATTGGAGGACT
Found at i:11570176 original size:20 final size:21
Alignment explanation
Indices: 11570124--11570176 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
11570114 CTTCTTATTG
11570124 CATTCATGCA-TACATGCATT
1 CATTCATGCATTACATGCATT
* *
11570144 AATTCATGGATTA-ATGCATT
1 CATTCATGCATTACATGCATT
11570164 CATTCATGCATTA
1 CATTCATGCATTA
11570177 TTCCATTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (21 bp):
CATTCATGCATTACATGCATT
Found at i:11570183 original size:20 final size:20
Alignment explanation
Indices: 11570125--11570183 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
11570115 TTCTTATTGC
*
11570125 ATTCATGCA-TACATGCATTA
1 ATTCATGCATTA-ATCCATTA
* * *
11570145 ATTCATGGATTAATGCATTC
1 ATTCATGCATTAATCCATTA
*
11570165 ATTCATGCATTATTCCATT
1 ATTCATGCATTAATCCATT
11570184 TCACTTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 31 0.94
21 2 0.06
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (20 bp):
ATTCATGCATTAATCCATTA
Found at i:11571891 original size:13 final size:13
Alignment explanation
Indices: 11571873--11571897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11571863 ATGTGGAAAC
11571873 ATGAAAAAAAAAA
1 ATGAAAAAAAAAA
11571886 ATGAAAAAAAAA
1 ATGAAAAAAAAA
11571898 TAAAAATTGA
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
ATGAAAAAAAAAA
Found at i:11571902 original size:17 final size:17
Alignment explanation
Indices: 11571876--11571912 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
11571866 TGGAAACATG
11571876 AAAAAAAAAAA-TGAAA
1 AAAAAAAAAAATTGAAA
11571892 AAAAAATAAAAATTGAAA
1 AAAAAA-AAAAATTGAAA
11571910 AAA
1 AAA
11571913 TGAAAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 8 0.42
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAAAAAAAAATTGAAA
Found at i:11571966 original size:18 final size:19
Alignment explanation
Indices: 11571940--11571975 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11571930 AGAAGTGGAA
11571940 AAGAAAAATG-TCCTTGAG
1 AAGAAAAATGATCCTTGAG
*
11571958 AAGAGAAATGATCCTTGA
1 AAGAAAAATGATCCTTGA
11571976 ACACATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
AAGAAAAATGATCCTTGAG
Found at i:11573029 original size:14 final size:14
Alignment explanation
Indices: 11573007--11573037 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11572997 TAAACCATTG
*
11573007 TTTTGAATATTGCA
1 TTTTAAATATTGCA
11573021 TTTTAAATATTGCA
1 TTTTAAATATTGCA
11573035 TTT
1 TTT
11573038 GTATCATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (14 bp):
TTTTAAATATTGCA
Found at i:11573118 original size:14 final size:14
Alignment explanation
Indices: 11573095--11573126 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11573085 TTAAACCATT
*
11573095 ATTTTGAATATTGC
1 ATTTTAAATATTGC
11573109 ATTTTAAATATTGC
1 ATTTTAAATATTGC
11573123 ATTT
1 ATTT
11573127 GCATCAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (14 bp):
ATTTTAAATATTGC
Found at i:11573118 original size:89 final size:88
Alignment explanation
Indices: 11572967--11573200 Score: 315
Period size: 89 Copynumber: 2.6 Consensus size: 88
11572957 AGTTGATTGG
* *
11572967 ACCATGCATATGCATTATTCGGTGAATATTTAAACCATTGTTTTGAATATTGCATTTTAAATATT
1 ACCATGCATCTGCATTATTTGGTGAATATTTAAACCATT-TTTTGAATATTGCATTTTAAATATT
* * *
11573032 GCATTTGTATCATTGTTTGTTTGT
65 GCATTTGCATCAATGTTTGCTTGT
**
11573056 ACCATTTATCTGCATTATTTGGTGAATATTTAAACCATTATTTTGAATATTGCATTTTAAATATT
1 ACCATGCATCTGCATTATTTGGTGAATATTTAAACCATT-TTTTGAATATTGCATTTTAAATATT
11573121 GCATTTGCATCAATGTTTGCTTGT
65 GCATTTGCATCAATGTTTGCTTGT
* ** * * * * *
11573145 ACCATGCATTTGTGTTATTTGGTGAATATCTAAATCATTGTTTAAACATTGCATTT
1 ACCATGCATCTGCATTATTTGGTGAATATTTAAACCATTTTTTGAATATTGCATTT
11573201 GCATCATGGT
Statistics
Matches: 127, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 14 0.11
89 113 0.89
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (88 bp):
ACCATGCATCTGCATTATTTGGTGAATATTTAAACCATTTTTTGAATATTGCATTTTAAATATTG
CATTTGCATCAATGTTTGCTTGT
Found at i:11573653 original size:45 final size:45
Alignment explanation
Indices: 11573597--11574147 Score: 295
Period size: 46 Copynumber: 12.2 Consensus size: 45
11573587 AGTTTTAAAA
*
11573597 AAGAACCTTTGAAACTTTGGATGTGAATCTCAAAATTTTTTGAAT
1 AAGAATCTTTGAAACTTTGGATGTGAATCTCAAAATTTTTTGAAT
** * * *
11573642 AAGAAAATTTGAAATTTTGGATGTGAATCCCAAAATTTTTTAAAT
1 AAGAATCTTTGAAACTTTGGATGTGAATCTCAAAATTTTTTGAAT
* * * *
11573687 GAGAATATTTGAAA-TGTTGGATGTGAAACCCATAAATTTTTTGAAT
1 AAGAATCTTTGAAACT-TTGGATGTGAATCTCA-AAATTTTTTGAAT
* * * *
11573733 GAGAATCTCTAAAACTTTGGATGTGAATCTCTAAAATATTTTGAA-
1 AAGAATCTTTGAAACTTTGGATGTGAATCTC-AAAATTTTTTGAAT
* * * *
11573778 AGTGAATCTTTGAAACTTTGAATGTGAATTTC-TAATTTTTTGAAT
1 A-AGAATCTTTGAAACTTTGGATGTGAATCTCAAAATTTTTTGAAT
* * * * *
11573823 AA-AAGTCTTTGAAACTTTGGATGTAAATCTTTAAAAATTTTTAAAG
1 AAGAA-TCTTTGAAACTTTGGATGTGAATC-TCAAAATTTTTTGAAT
** * *
11573869 GTGAATCTTTGAAATTTTGGAT-TGGAATCCCTAAAA--TTTTGAAT
1 AAGAATCTTTGAAACTTTGGATGT-GAATCTC-AAAATTTTTTGAAT
** * * * * ** *
11573913 GTGAATCTTTAAAATTTTGGATGTCAAACCTTGAAATTTTTTGGAT
1 AAGAATCTTTGAAACTTTGGATGT-GAATCTCAAAATTTTTTGAAT
* * * * * *
11573959 GAA-AATCTTTGAAATTTTGGTTATGAAATGTTAAAGTTTTTT-AAT
1 -AAGAATCTTTGAAACTTTGGATGTG-AATCTCAAAATTTTTTGAAT
** * * ** * * * *
11574004 GTGAATTTTTGAAATTTTTTATCTGAATTTCTAAATTTTTCGAAT
1 AAGAATCTTTGAAACTTTGGATGTGAATCTCAAAATTTTTTGAAT
* * ** * ** *
11574049 AAAAAT-TTTTAATTTTTGAATGTGAATC-CTTTAATTTTTCGAAT
1 AAGAATCTTTGAAACTTTGGATGTGAATCTC-AAAATTTTTTGAAT
* *
11574093 GAA-AATCTTT--AACTTTTGGGTGTGAATATCTAAAA-TTTTTGAAT
1 -AAGAATCTTTGAAAC-TTTGGATGTGAATCTC-AAAATTTTTTGAAT
*
11574137 AAGAATATTTG
1 AAGAATCTTTG
11574148 GAACCTTGAA
Statistics
Matches: 390, Mismatches: 90, Indels: 52
0.73 0.17 0.10
Matches are distributed among these distances:
43 6 0.02
44 130 0.33
45 108 0.28
46 142 0.36
47 4 0.01
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (45 bp):
AAGAATCTTTGAAACTTTGGATGTGAATCTCAAAATTTTTTGAAT
Found at i:11573782 original size:24 final size:23
Alignment explanation
Indices: 11573719--11573936 Score: 94
Period size: 22 Copynumber: 9.7 Consensus size: 23
11573709 GTGAAACCCA
* *
11573719 TAAATTTTTTGAATGAGAATCTC
1 TAAATATTTTGAATGTGAATCTC
* *
11573742 TAAA-ACTTTGGATGTGAATCTC
1 TAAATATTTTGAATGTGAATCTC
* *
11573764 TAAAATATTTTGAAAGTGAATCTT
1 T-AAATATTTTGAATGTGAATCTC
* * *
11573788 TGAA-ACTTTGAATGTGAATTTC
1 TAAATATTTTGAATGTGAATCTC
* ** *
11573810 T-AATTTTTTGAAT-AAAAGTCTT
1 TAAATATTTTGAATGTGAA-TCTC
* * * * *
11573832 TGAA-ACTTTGGATGTAAATCTT
1 TAAATATTTTGAATGTGAATCTC
* * * *
11573854 TAAAAATTTTTAAAGGTGAATCTT
1 TAAATA-TTTTGAATGTGAATCTC
* * *
11573878 TGAA-ATTTTGGAT-TGGAATCCC
1 TAAATATTTTGAATGT-GAATCTC
*
11573900 TAAA-ATTTTGAATGTGAATCTT
1 TAAATATTTTGAATGTGAATCTC
*
11573922 TAAA-ATTTTGGATGT
1 TAAATATTTTGAATGT
11573937 CAAACCTTGA
Statistics
Matches: 145, Mismatches: 40, Indels: 21
0.70 0.19 0.10
Matches are distributed among these distances:
21 5 0.03
22 93 0.64
23 17 0.12
24 30 0.21
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (23 bp):
TAAATATTTTGAATGTGAATCTC
Found at i:11573949 original size:22 final size:22
Alignment explanation
Indices: 11573872--11573978 Score: 65
Period size: 22 Copynumber: 4.8 Consensus size: 22
11573862 TTTAAAGGTG
* *
11573872 AATCTTTGAAATTTTGGATTG-G
1 AATCCTTGAAATTTTGGA-TGAA
* * * **
11573894 AATCCCTAAAATTTTGAATGTG
1 AATCCTTGAAATTTTGGATGAA
* * *
11573916 AATCTTTAAAATTTTGGATGTCA
1 AATCCTTGAAATTTTGGATG-AA
11573939 AA-CCTTGAAATTTTTTGGATGAA
1 AATCCTTGAAA--TTTTGGATGAA
*
11573962 AATCTTTGAAATTTTGG
1 AATCCTTGAAATTTTGG
11573979 TTATGAAATG
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
21 2 0.03
22 44 0.66
23 5 0.07
24 16 0.24
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (22 bp):
AATCCTTGAAATTTTGGATGAA
Found at i:11573950 original size:44 final size:44
Alignment explanation
Indices: 11573869--11573952 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
11573859 ATTTTTAAAG
* * *
11573869 GTGAATCTTTGAAATTTTGGATTGGAATCCCTAAAATTTTGAAT
1 GTGAATCTTTAAAATTTTGGATTGCAAACCCTAAAATTTTGAAT
* *
11573913 GTGAATCTTTAAAATTTTGGA-TGTCAAACCTTGAAATTTT
1 GTGAATCTTTAAAATTTTGGATTG-CAAACCCTAAAATTTT
11573953 TTGGATGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (44 bp):
GTGAATCTTTAAAATTTTGGATTGCAAACCCTAAAATTTTGAAT
Found at i:11573954 original size:90 final size:89
Alignment explanation
Indices: 11573544--11573978 Score: 317
Period size: 90 Copynumber: 4.8 Consensus size: 89
11573534 AATTTTTATT
* * * * * ** *
11573544 TTTTTCGAATGAGAATCATTAAAA-TTTTGATGTGAAGCCAT-AAA-GTTTTAAAAAAGAACCTT
1 TTTTT-GAATGAGAATCTTTAAAACTTTGGATGT-AAACCTTAAAATTTTTTAAATGAGAATCTT
* * *
11573606 TGAAACTTTGGATGTGAATCTCAAAA
64 TGAAATTTTGGATGTGAATCCCTAAA
* ** * * * * *
11573632 TTTTTTGAATAAGAAAATTTGAAATTTTGGATGTGAATCC-CAAAATTTTTTAAATGAGAATATT
1 -TTTTTGAATGAGAATCTTTAAAACTTTGGATGT-AAACCTTAAAATTTTTTAAATGAGAATCTT
* *
11573696 TGAAATGTTGGATGTGAAACCCATAAA
64 TGAAATTTTGGATGTGAATCCC-TAAA
* * * * *
11573723 TTTTTTGAATGAGAATCTCTAAAACTTTGGATGTGAATCTCTAAAATATTTTGAAA-GTGAATCT
1 -TTTTTGAATGAGAATCTTTAAAACTTTGGATGTAAACCT-TAAAAT-TTTTTAAATGAGAATCT
* * ** *
11573787 TTGAAACTTTGAATGTGAATTTCTAAT
63 TTGAAATTTTGGATGTGAATCCCTAAA
* * * * * *
11573814 TTTTTGAAT-AAAAGTCTTTGAAACTTTGGATGTAAATCTTTAAAAATTTTTAAAGGTGAATCTT
1 TTTTTGAATGAGAA-TCTTTAAAACTTTGGATGTAAA-CCTTAAAATTTTTTAAATGAGAATCTT
11573878 TGAAATTTTGGAT-TGGAATCCCTAAA
64 TGAAATTTTGGATGT-GAATCCCTAAA
* * * * ** *
11573904 ATTTTGAATGTGAATCTTTAAAATTTTGGATGTCAAACCTTGAAATTTTTTGGATGAAAATCTTT
1 TTTTTGAATGAGAATCTTTAAAACTTTGGATGT-AAACCTTAAAATTTTTTAAATGAGAATCTTT
11573969 GAAATTTTGG
65 GAAATTTTGG
11573979 TTATGAAATG
Statistics
Matches: 269, Mismatches: 64, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
88 13 0.05
89 32 0.12
90 149 0.55
91 40 0.15
92 28 0.10
93 7 0.03
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (89 bp):
TTTTTGAATGAGAATCTTTAAAACTTTGGATGTAAACCTTAAAATTTTTTAAATGAGAATCTTTG
AAATTTTGGATGTGAATCCCTAAA
Found at i:11573958 original size:24 final size:24
Alignment explanation
Indices: 11573927--11573976 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11573917 ATCTTTAAAA
*
11573927 TTTTGGATGTCAAA-CCTTGAAATT
1 TTTTGGATG-AAAATCCTTGAAATT
*
11573951 TTTTGGATGAAAATCTTTGAAATT
1 TTTTGGATGAAAATCCTTGAAATT
11573975 TT
1 TT
11573977 GGTTATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (24 bp):
TTTTGGATGAAAATCCTTGAAATT
Found at i:11574039 original size:21 final size:22
Alignment explanation
Indices: 11573990--11574043 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
11573980 TATGAAATGT
* *
11573990 TAAAGTTTTTTAATGTGAATTTT
1 TAAA-TTTTTTAATCTGAATTTC
11574013 TGAAATTTTTT-ATCTGAATTTC
1 T-AAATTTTTTAATCTGAATTTC
11574035 TAAATTTTT
1 TAAATTTTT
11574044 CGAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.29
22 10 0.36
23 7 0.25
24 3 0.11
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (22 bp):
TAAATTTTTTAATCTGAATTTC
Found at i:11574099 original size:23 final size:22
Alignment explanation
Indices: 11574037--11574109 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
11574027 TGAATTTCTA
* *
11574037 AATTTTTCGAATAAAAATTTTT
1 AATTTTTCGAATGAAAATCTTT
**
11574059 AATTTTT-GAATGTGAATCCTTT
1 AATTTTTCGAATGAAAAT-CTTT
11574081 AATTTTTCGAATGAAAATCTTT
1 AATTTTTCGAATGAAAATCTTT
*
11574103 AACTTTT
1 AATTTTT
11574110 GGGTGTGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 7 0.17
22 27 0.64
23 8 0.19
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (22 bp):
AATTTTTCGAATGAAAATCTTT
Found at i:11574813 original size:59 final size:58
Alignment explanation
Indices: 11574618--11574890 Score: 277
Period size: 60 Copynumber: 4.6 Consensus size: 58
11574608 TTTTGTGCAG
* ** * * **
11574618 GAAAAATAGATACTTTCAACTTTTTCC-CAAAAATATTCTTTTGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAACCTTTTTTTGAAAATTTAATTTTAA
*
11574676 G-AAAATTGATACTTTCAACTTTTCCTCAAAACCCTTTTTTATCTTTTGAAAAATTT-ATTCTTA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACC----TT-T-TTTTG-AAAATTTAATT-TTA
11574739 A
58 A
* *
11574740 GGAAAATTGATACTTTCAACTTTTCCCTCAAAACCCTTTTTTTGGAAAATTTAATTTT-A
1 GAAAAATTGATACTTTCAACTTTT-CCTCAAAAACCTTTTTTT-GAAAATTTAATTTTAA
* *
11574799 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTC--AAAAACCTTTTTTTGAAAATTTAATTTTAA
*
11574859 GGAAAATTGATACTTTCAACTTTT-CTCAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA
11574891 ATATTTTTCT
Statistics
Matches: 186, Mismatches: 13, Indels: 33
0.80 0.06 0.14
Matches are distributed among these distances:
56 6 0.03
57 27 0.15
58 5 0.03
59 40 0.22
60 49 0.26
61 7 0.04
62 2 0.01
63 8 0.04
64 9 0.05
65 22 0.12
66 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTAATTTTAA
Found at i:11574891 original size:59 final size:58
Alignment explanation
Indices: 11574620--11574928 Score: 277
Period size: 59 Copynumber: 5.2 Consensus size: 58
11574610 TTGTGCAGGA
* * * * **
11574620 AAAATAGATACTTTCAACTTTT-TCCCAAAAATATTCTTTTGAAACTTTAATTTCGA-G
1 AAAATTGATACTTTCAACTTTTCT-CAAAAAATATTTTTTTGAAAATTTAATTTTAAGG
** *
11574677 AAAATTGATACTTTCAACTTTTCCTCAAAACCCTTTTTTATCTTTTGAAAAATTT-ATTCTTAAG
1 AAAATTGATACTTTCAACTTTT-CTCAAAA---AATATT-T-TTTTG-AAAATTTAATT-TTAAG
11574741 G
58 G
** * *
11574742 AAAATTGATACTTTCAACTTTTCCCTCAAAACCCT-TTTTTTGGAAAATTTAATTTT-AGA
1 AAAATTGATACTTTCAACTTTT--CTCAAAA-AATATTTTTTTGAAAATTTAATTTTAAGG
* *
11574801 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTT-CTCAAAAAATA-TTTTTTTGAAAATTTAATTTTAAGG
* * **
11574861 AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTCTCGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTT-TTGAAAATTTAATTTTAAGG
11574920 AAAATTGAT
1 AAAATTGAT
11574929 GAAAAATTGA
Statistics
Matches: 211, Mismatches: 25, Indels: 30
0.79 0.09 0.11
Matches are distributed among these distances:
57 21 0.10
58 17 0.08
59 78 0.37
60 33 0.16
61 10 0.05
62 1 0.00
63 10 0.05
64 10 0.05
65 23 0.11
66 8 0.04
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTTGAAAATTTAATTTTAAGG
Found at i:11574924 original size:119 final size:121
Alignment explanation
Indices: 11574620--11574928 Score: 364
Period size: 119 Copynumber: 2.5 Consensus size: 121
11574610 TTGTGCAGGA
* *
11574620 AAAATAGATACTTTCAACTTTT-TCCCAAAAATATTCTTTTGAAACTTTAATTTCGA-GAAAATT
1 AAAATTGATACTTTCAACTTTTCT-CAAAAAATATT-TTTTGAAACTTTAATTTCGAGGAAAATT
*****
11574683 GATACTTTCAACTTTTCCTCAAAACCCTTTTTTATCTTTTGAAAAATTTATTCTTAAGG
64 GATACTTTCAACTTTTCCTCAAAA-CAAAACTTATCTTTTGAAAAATTTATTCTTAAGG
** * * *
11574742 AAAATTGATACTTTCAACTTTTCCCTCAAAACCCT-TTTTTTGGAAAATTTAATTT-TAGAAAAA
1 AAAATTGATACTTTCAACTTTT--CTCAAAA-AATATTTTTT-GAAACTTTAATTTCGAGGAAAA
*
11574805 TTGATACTTTCAACTTTTCCTCAAAA-AAAACTT-T-TTTTG-AAAATTTATTTTTAAGG
62 TTGATACTTTCAACTTTTCCTCAAAACAAAACTTATCTTTTGAAAAATTTATTCTTAAGG
11574861 AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTCTCGAAACTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTT-T-GAAACTTTAATTTCGAGGAAAATT
11574926 GAT
64 GAT
11574929 GAAAAATTGA
Statistics
Matches: 159, Mismatches: 19, Indels: 21
0.80 0.10 0.11
Matches are distributed among these distances:
116 1 0.01
117 12 0.08
118 13 0.08
119 49 0.31
120 5 0.03
121 1 0.01
122 23 0.14
123 5 0.03
124 48 0.30
125 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (121 bp):
AAAATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTGAAACTTTAATTTCGAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAACAAAACTTATCTTTTGAAAAATTTATTCTTAAGG
Found at i:11575053 original size:5 final size:5
Alignment explanation
Indices: 11575045--11575187 Score: 62
Period size: 5 Copynumber: 27.6 Consensus size: 5
11575035 TTATTTAAAG
* *
11575045 AAAAT AAAAT -AAA- AAAAT AAAA- AAAGT GAAAAT AAAAAT AAGGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AA-AAT
* * *
11575089 AAAGT AAAAT AAAAAT AAAAAT AAAAT AAAAAT AAAAAT AAAAG AATAT
1 AAAAT AAAAT -AAAAT -AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT
* * * * * *
11575138 TAAAC AAAACT AATAT AATAT AATAT AATAT AATAAT AATAAT -AAAT
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AAAAT
11575185 AAA
1 AAA
11575188 TAATGAAAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
4 12 0.11
5 55 0.50
6 43 0.39
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:11575066 original size:6 final size:6
Alignment explanation
Indices: 11575045--11575131 Score: 76
Period size: 6 Copynumber: 14.5 Consensus size: 6
11575035 TTATTTAAAG
* *
11575045 AAAAT- AAAATA AAAA-A ATAAA-A AAAGTG AAAATA AAAATA AGGAAA-A
1 AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA A--AAATA
11575092 GTAAAATA AAAATA AAAAT- AAAATA AAAATA AAAATA AAA
1 --AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
11575132 GAATATTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
5 14 0.20
6 46 0.67
7 4 0.06
8 4 0.06
9 1 0.01
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:11575102 original size:44 final size:43
Alignment explanation
Indices: 11575044--11575129 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 43
11575034 TTTATTTAAA
*
11575044 GAAAATAAAATAAAAA-AATAAA-AAAAGTGAAAATAAAAATAAG
1 GAAAATAAAATAAAAATAA-AAATAAAA-TAAAAATAAAAATAAG
11575087 GAAAAGTAAAATAAAAATAAAAATAAAATAAAAATAAAAATAA
1 GAAAA-TAAAATAAAAATAAAAATAAAATAAAAATAAAAATAA
11575130 AAGAATATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
43 5 0.13
44 28 0.72
45 6 0.15
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (43 bp):
GAAAATAAAATAAAAATAAAAATAAAATAAAAATAAAAATAAG
Found at i:11575113 original size:17 final size:17
Alignment explanation
Indices: 11575045--11575131 Score: 90
Period size: 17 Copynumber: 4.9 Consensus size: 17
11575035 TTATTTAAAG
11575045 AAAAT-AAAATAAAA-A
1 AAAATAAAAATAAAATA
11575060 AATAA-AAAAAGTGAAAATA
1 AA-AATAAAAA-T-AAAATA
11575079 AAAATAAGGAAAAGTAAAATA
1 AAAAT-A--AAAA-TAAAATA
11575100 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
11575117 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
11575132 GAATATTAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.03
16 6 0.10
17 23 0.37
18 10 0.16
19 3 0.05
20 2 0.03
21 11 0.17
22 6 0.10
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:11575482 original size:26 final size:25
Alignment explanation
Indices: 11575453--11575502 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
11575443 TTAGTAGAAG
11575453 CCTTCTTCCCTCTCTCTCTCTCTCTT
1 CCTTCTTCCCTCTCTCT-TCTCTCTT
* **
11575479 CCTTTTTTTCTCTCTCTTCTCTCT
1 CCTTCTTCCCTCTCTCTTCTCTCT
11575503 AGAAACCCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (25 bp):
CCTTCTTCCCTCTCTCTTCTCTCTT
Found at i:11576066 original size:23 final size:23
Alignment explanation
Indices: 11576023--11576067 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
11576013 CCAAAAAAAG
*
11576023 AAAAAAAATGTTAATAGATAATTT
1 AAAAAAAA-GTTAATAAATAATTT
11576047 AAAAAAAA-TTAGATAAATAAT
1 AAAAAAAAGTTA-ATAAATAAT
11576068 AATATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 8 0.42
24 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (23 bp):
AAAAAAAAGTTAATAAATAATTT
Found at i:11576076 original size:39 final size:41
Alignment explanation
Indices: 11576033--11576125 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
11576023 AAAAAAAATG
** *
11576033 TTAATAGATAATTTAAAA-AAA-ATTAGATAAATAATAATA
1 TTAATAGATAACCTAAAATAAATAATAGATAAATAATAATA
*
11576072 TTAATAGATAACCTAAAATAAATAATAGATAAATTATAATA
1 TTAATAGATAACCTAAAATAAATAATAGATAAATAATAATA
11576113 TATAATCAGATAA
1 T-TAAT-AGATAA
11576126 ATATATATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
39 16 0.35
40 3 0.07
41 17 0.37
42 4 0.09
43 6 0.13
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (41 bp):
TTAATAGATAACCTAAAATAAATAATAGATAAATAATAATA
Found at i:11576112 original size:21 final size:21
Alignment explanation
Indices: 11576034--11576138 Score: 85
Period size: 21 Copynumber: 5.1 Consensus size: 21
11576024 AAAAAAATGT
11576034 TAATAGAT-AATT-TAA-AAA
1 TAATAGATAAATTATAATAAA
* * *
11576052 AAATTAGATAAATAATAAT-AT
1 TAA-TAGATAAATTATAATAAA
** *
11576073 TAATAGATAACCTAAAATAAA
1 TAATAGATAAATTATAATAAA
*
11576094 TAATAGATAAATTATAATATA
1 TAATAGATAAATTATAATAAA
11576115 TAATCAGATAAA-TATATATAAA
1 TAAT-AGATAAATTATA-ATAAA
11576137 TA
1 TA
11576139 TTAACAGAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.03
19 5 0.08
20 14 0.21
21 32 0.48
22 13 0.20
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (21 bp):
TAATAGATAAATTATAATAAA
Found at i:11576164 original size:15 final size:13
Alignment explanation
Indices: 11576144--11576177 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11576134 AAATATTAAC
11576144 AGAAAAGAAAGAAAA
1 AGAAAAG-AA-AAAA
11576159 AGAAAAGAAAAAA
1 AGAAAAGAAAAAA
11576172 AGAAAA
1 AGAAAA
11576178 AAATAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 2 0.11
15 7 0.37
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAAAA
Found at i:11576246 original size:15 final size:15
Alignment explanation
Indices: 11576226--11576298 Score: 69
Period size: 15 Copynumber: 4.7 Consensus size: 15
11576216 AATGAATAGT
11576226 AATAATAAATAAATA
1 AATAATAAATAAATA
*
11576241 AATAATAAATACATA
1 AATAATAAATAAATA
*
11576256 AGATAA-AAATAAAAGA
1 A-ATAATAAAT-AAATA
*
11576272 AATATATATATAAATAA
1 AATA-ATAAATAAAT-A
11576289 AATAA-AAATA
1 AATAATAAATA
11576299 TAAAATACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
15 26 0.55
16 13 0.28
17 8 0.17
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:11576312 original size:17 final size:19
Alignment explanation
Indices: 11576262--11576314 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
11576252 CATAAGATAA
*
11576262 AAATAAAAGAAATATATATAT
1 AAATAAAATAAA-A-ATATAT
11576283 AAATAAAATAAAAATATA-
1 AAATAAAATAAAAATATAT
11576301 AAATACAAA-AAAAA
1 AAATA-AAATAAAAA
11576315 AATGGGCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.33
19 8 0.27
20 1 0.03
21 11 0.37
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
AAATAAAATAAAAATATAT
Found at i:11576314 original size:19 final size:19
Alignment explanation
Indices: 11576262--11576315 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
11576252 CATAAGATAA
*
11576262 AAATAAAAGAAATATATATAT
1 AAATAAAA-AAA-AAATATAT
*
11576283 AAATAAAATAAAAATATA-
1 AAATAAAAAAAAAATATAT
11576301 AAATACAAAAAAAAA
1 AAATA-AAAAAAAAA
11576316 ATGGGCTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 14 0.48
20 2 0.07
21 8 0.28
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATAAAAAAAAAATATAT
Found at i:11576563 original size:45 final size:44
Alignment explanation
Indices: 11576487--11576624 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 44
11576477 AAGATTTGAT
* * * *
11576487 CAAAACTCCTATAAGCAGAGGCTCAATGACTTTGAAAAACATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAA-ATAAA
* * *
11576532 CAATGCTCCTCTAATCAGACGCTCAACGACTTTG--AAAATGAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAA
* * *
11576574 TAAAGCTCCTCTAATCAGAGGCAT-AACAACTTTG-AAAAGTAAA
1 CAAAGCTCCTCTAATCAGAGGC-TCAACGACTTTGAAAAAATAAA
*
11576617 TAAAGCTC
1 CAAAGCTC
11576625 ATTTAAACAG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
42 32 0.41
43 18 0.23
45 28 0.36
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (44 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAA
Found at i:11576781 original size:44 final size:44
Alignment explanation
Indices: 11576676--11576808 Score: 182
Period size: 44 Copynumber: 3.1 Consensus size: 44
11576666 TTTGATCAAA
* * * *
11576676 GCTCCTCTAAGCAGAGGCTCAATGACTTTGAG-AAACATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTAGAAAAAATAAATG
*
11576719 GCTCCTCTAATTAGAGGCTCAACGACTTTTAGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTAGAAAAAATAAATG
* *
11576763 GCTCCTCTAATCAAAGGCTCAACGAC-TTTA-AAAAAATAAATT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTTAGAAAAAATAAATG
11576805 GCTC
1 GCTC
11576809 ATTGACAATC
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 15 0.19
43 32 0.40
44 34 0.42
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (44 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTTAGAAAAAATAAATG
Found at i:11577818 original size:8 final size:8
Alignment explanation
Indices: 11577807--11577842 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
11577797 TCACTTTTTT
11577807 TTTTTTCA
1 TTTTTTCA
11577815 TTTTTTCA
1 TTTTTTCA
11577823 -TTTTT--
1 TTTTTTCA
11577828 TTTTTTCA
1 TTTTTTCA
11577836 TTTTTTC
1 TTTTTTC
11577843 TTCAAGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
6 5 0.20
7 5 0.20
8 15 0.60
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCA
Found at i:11577818 original size:13 final size:13
Alignment explanation
Indices: 11577815--11577841 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11577805 TTTTTTTTCA
11577815 TTTTTTCATTTTT
1 TTTTTTCATTTTT
11577828 TTTTTTCATTTTT
1 TTTTTTCATTTTT
11577841 T
1 T
11577842 CTTCAAGCAT
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:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTCATTTTT
Found at i:11577828 original size:21 final size:21
Alignment explanation
Indices: 11577802--11577842 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11577792 TTCATTCACT
11577802 TTTTTTTTTTTCATTTTTTCA
1 TTTTTTTTTTTCATTTTTTCA
11577823 TTTTTTTTTTTCATTTTTTC
1 TTTTTTTTTTTCATTTTTTC
11577843 TTCAAGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTTTCATTTTTTCA
Found at i:11579607 original size:106 final size:107
Alignment explanation
Indices: 11579468--11579684 Score: 337
Period size: 107 Copynumber: 2.0 Consensus size: 107
11579458 TGCAATTAAA
** * * *
11579468 ATTTAACCTTACTGTTACAGGGTAGTATTGCTCTTTC-GAAAAATCAAAATTGCCCTAATTCCAT
1 ATTTAACCTTACTGTTACAGGACAATATTGCTCTTCCAGAAAAATCAAAATTGCCCCAATTCCAT
*
11579532 GCCCTAAGGCATTGACAGCTCTATTAAAGTACATTCTCCAAC
66 GCCCTAAGGCATTGACAGCTCCATTAAAGTACATTCTCCAAC
* * *
11579574 ATTTAATCTTACTGTTACAGGACAATATTGCTCTTCCAGAGAAATCAAAATTGCCCCAATTTCAT
1 ATTTAACCTTACTGTTACAGGACAATATTGCTCTTCCAGAAAAATCAAAATTGCCCCAATTCCAT
*
11579639 GTCCTAAGGCATTGACAGCTCCATTAAAGTACATTCTCCAAC
66 GCCCTAAGGCATTGACAGCTCCATTAAAGTACATTCTCCAAC
11579681 ATTT
1 ATTT
11579685 TTCTCTATGC
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
106 32 0.32
107 68 0.68
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (107 bp):
ATTTAACCTTACTGTTACAGGACAATATTGCTCTTCCAGAAAAATCAAAATTGCCCCAATTCCAT
GCCCTAAGGCATTGACAGCTCCATTAAAGTACATTCTCCAAC
Found at i:11588605 original size:26 final size:26
Alignment explanation
Indices: 11588525--11588605 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
11588515 AAAAAATTTA
11588525 TTTTTAAGAAAATTGATACTTTCAAC
1 TTTTTAAGAAAATTGATACTTTCAAC
* * ** *
11588551 TTTTCAAAAAAATT--T--TTAAAATT
1 TTTTTAAGAAAATTGATACTTTCAA-C
11588574 TATTTTAAGAAAATTGATACTTTCAAC
1 T-TTTTAAGAAAATTGATACTTTCAAC
11588601 TTTTT
1 TTTTT
11588606 CTGAAAATAT
Statistics
Matches: 39, Mismatches: 10, Indels: 12
0.64 0.16 0.20
Matches are distributed among these distances:
22 4 0.10
23 1 0.03
24 12 0.31
26 17 0.44
27 1 0.03
28 4 0.10
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (26 bp):
TTTTTAAGAAAATTGATACTTTCAAC
Found at i:11588630 original size:50 final size:47
Alignment explanation
Indices: 11588488--11588604 Score: 145
Period size: 50 Copynumber: 2.5 Consensus size: 47
11588478 TAATTTCGAG
*
11588488 GAAAATTGATACTTTCAACTTTTCCTCAAAAAA--TTTA--T-TTTTAA
1 GAAAATTGATACTTTCAACTTTT-C-AAAAAAATTTTTATTTATTTTAA
11588532 GAAAATTGATACTTTCAACTTTTCAAAAAAATTTTTAAAATTTATTTTAA
1 GAAAATTGATACTTTCAACTTTTCAAAAAAATTTTT---ATTTATTTTAA
11588582 GAAAATTGATACTTTCAACTTTT
1 GAAAATTGATACTTTCAACTTTT
11588605 TCTGAAAATA
Statistics
Matches: 64, Mismatches: 1, Indels: 10
0.85 0.01 0.13
Matches are distributed among these distances:
42 6 0.09
43 1 0.02
44 26 0.41
47 1 0.02
49 1 0.02
50 29 0.45
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (47 bp):
GAAAATTGATACTTTCAACTTTTCAAAAAAATTTTTATTTATTTTAA
Found at i:11588646 original size:5 final size:5
Alignment explanation
Indices: 11588638--11588730 Score: 93
Period size: 5 Copynumber: 17.8 Consensus size: 5
11588628 TTATTTAAAG
11588638 AAAAT AAAAT --AAT AAAAT AAAAT AAAAGT GAAAAT AAAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT -AAAAT AAAAT
*
11588683 AAAGT AAAAT AAAAAT AAAAAT AAAAT AAAGAT AAAAAT AAAAT AAAA
1 AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA-AT -AAAAT AAAAT AAAA
11588731 AAATTTTAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 42 0.55
6 22 0.29
7 7 0.09
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:11588671 original size:17 final size:17
Alignment explanation
Indices: 11588638--11588730 Score: 88
Period size: 17 Copynumber: 5.5 Consensus size: 17
11588628 TTATTTAAAG
11588638 AAAATAAAA-TAATAAAAT
1 AAAATAAAAGT-A-AAAAT
*
11588656 AAAATAAAAGTGAAAAT
1 AAAATAAAAGTAAAAAT
*
11588673 AAAA-ATAAA--AAAAGT
1 AAAATA-AAAGTAAAAAT
*
11588688 AAAATAAAAATAAAAAT
1 AAAATAAAAGTAAAAAT
11588705 AAAAT-AAAGATAAAAAT
1 AAAATAAAAG-TAAAAAT
11588722 AAAATAAAA
1 AAAATAAAA
11588731 AAATTTTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.17
16 5 0.08
17 34 0.54
18 12 0.19
19 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAATAAAAGTAAAAAT
Found at i:11588679 original size:6 final size:6
Alignment explanation
Indices: 11588638--11588731 Score: 88
Period size: 6 Copynumber: 15.7 Consensus size: 6
11588628 TTATTTAAAG
* * *
11588638 AAAAT- AAAATA ATAAA-A TAAAATA AAAGTG AAAATA AAAATA AAAAAA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AAAATA
*
11588686 GTAAAATA AAAATA AAAAT- AAAATA AAGATA AAAAT- AAAATA AAAA
1 --AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
11588732 AATTTTAAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
5 15 0.21
6 48 0.66
7 5 0.07
8 5 0.07
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:11588695 original size:37 final size:36
Alignment explanation
Indices: 11588638--11588731 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 36
11588628 TTATTTAAAG
* *
11588638 AAAATAAAATAATAAAAT-AAAATAAAAGTGAAAATA
1 AAAATAAAAAAATAAAATAAAAATAAAAAT-AAAATA
11588674 AAAATAAAAAAAGTAAAATAAAAATAAAAATAAAATA
1 AAAATAAAAAAA-TAAAATAAAAATAAAAATAAAATA
*
11588711 AAGAT--AAAAATAAAATAAAAA
1 AAAATAAAAAAATAAAATAAAAA
11588732 AATTTTAAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
34 11 0.21
35 5 0.09
36 11 0.21
37 16 0.30
38 10 0.19
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (36 bp):
AAAATAAAAAAATAAAATAAAAATAAAAATAAAATA
Found at i:11588776 original size:17 final size:17
Alignment explanation
Indices: 11588756--11588796 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
11588746 CTAATCTAAT
11588756 AATAATAATA-ATAAATA
1 AATAA-AATAGATAAATA
11588773 AATAAAATAGATAAATA
1 AATAAAATAGATAAATA
11588790 AATAAAA
1 AATAAAA
11588797 AAATGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AATAAAATAGATAAATA
Found at i:11588806 original size:9 final size:8
Alignment explanation
Indices: 11588633--11588807 Score: 50
Period size: 9 Copynumber: 19.9 Consensus size: 8
11588623 GGATTTTATT
11588633 TAAAGAAAA
1 TAAA-AAAA
*
11588642 TAAAATAA
1 TAAAAAAA
11588650 TAAAATAAAA
1 T-AAA-AAAA
11588660 TAAAAGTGAAA
1 TAAAA---AAA
*
11588671 -ATAAAAA
1 TAAAAAAA
11588678 TAAAAAAA
1 TAAAAAAA
11588686 GTAAAATAAA
1 -TAAAA-AAA
11588696 -AATAAAAA
1 TAA-AAAAA
11588704 TAAAATAAA
1 TAAAA-AAA
* *
11588713 GATAAAAA
1 TAAAAAAA
11588721 TAAAATAAA
1 TAAAA-AAA
***
11588730 -AAAATTT
1 TAAAAAAA
11588737 TAAACAAAA
1 TAAA-AAAA
*
11588746 CTAATCTAATAA
1 -TAA---AAAAA
*
11588758 TAATAATAA
1 TAA-AAAAA
*
11588767 TAAATAAA
1 TAAAAAAA
*
11588775 TAAAATAGA
1 TAAAA-AAA
*
11588784 TAAATAAA
1 TAAAAAAA
11588792 TAAAAAAA
1 TAAAAAAA
11588800 TGAAAAAA
1 T-AAAAAA
11588808 CAACCTGGGA
Statistics
Matches: 124, Mismatches: 22, Indels: 40
0.67 0.12 0.22
Matches are distributed among these distances:
7 3 0.02
8 48 0.39
9 50 0.40
10 13 0.10
11 6 0.05
12 3 0.02
13 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (8 bp):
TAAAAAAA
Found at i:11589706 original size:21 final size:22
Alignment explanation
Indices: 11589644--11589735 Score: 73
Period size: 21 Copynumber: 4.2 Consensus size: 22
11589634 TTTAAAAAAT
*
11589644 AATAATCAGATAAATAATAAT-
1 AATAATCAGATAAATTATAATA
* ** *
11589665 ATTAA-CAGATAACCTAAAATA
1 AATAATCAGATAAATTATAATA
11589686 AATAAT-AGATAAATTATAATA
1 AATAATCAGATAAATTATAATA
* *
11589707 TATAATCAAATAAATATATATATA
1 AATAATCAGATAAAT-TATA-ATA
*
11589731 TATAA
1 AATAA
11589736 ATATTAACAG
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
20 11 0.20
21 25 0.45
22 7 0.13
23 4 0.07
24 8 0.15
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (22 bp):
AATAATCAGATAAATTATAATA
Found at i:11589724 original size:16 final size:16
Alignment explanation
Indices: 11589681--11589739 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
11589671 AGATAACCTA
11589681 AAATAAATA-ATAGAT
1 AAATAAATATATAGAT
11589696 AAATTATAATATATA-AT
1 AAA-TA-AATATATAGAT
*
11589713 CAAATAAATATATATAT
1 -AAATAAATATATAGAT
*
11589730 ATATAAATAT
1 AAATAAATAT
11589740 TAACAGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 3 0.08
16 19 0.50
17 10 0.26
18 6 0.16
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATAAATATATAGAT
Found at i:11589761 original size:10 final size:9
Alignment explanation
Indices: 11589746--11589776 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11589736 ATATTAACAG
11589746 AAAAGAAAGA
1 AAAAGAAA-A
11589756 AAAAGAAAA
1 AAAAGAAAA
11589765 AAAAGAAAA
1 AAAAGAAAA
11589774 AAA
1 AAA
11589777 TAGTAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:11589764 original size:15 final size:15
Alignment explanation
Indices: 11589744--11589774 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11589734 AAATATTAAC
*
11589744 AGAAAAGAAAGAAAA
1 AGAAAAAAAAGAAAA
11589759 AGAAAAAAAAGAAAA
1 AGAAAAAAAAGAAAA
11589774 A
1 A
11589775 AATAGTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAGAAAA
Found at i:11589873 original size:8 final size:8
Alignment explanation
Indices: 11589839--11589908 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
11589829 TACATAAGAT
11589839 AAAAATAA
1 AAAAATAA
*
11589847 AAGAAATAT
1 AA-AAATAA
* *
11589856 ATATATAA
1 AAAAATAA
11589864 AAAAATAAA
1 AAAAAT-AA
*
11589873 AAAAATAC
1 AAAAATAA
11589881 AAAAAT-A
1 AAAAATAA
* **
11589888 TAAAATGC
1 AAAAATAA
11589896 AAAAATAA
1 AAAAATAA
11589904 AAAAA
1 AAAAA
11589909 AAATGGGCTT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
7 5 0.11
8 27 0.59
9 14 0.30
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (8 bp):
AAAAATAA
Found at i:11589889 original size:31 final size:31
Alignment explanation
Indices: 11589837--11589910 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 31
11589827 AATACATAAG
* * *
11589837 ATAAAAATAAA-AGAAATATATATATAAAAAA
1 ATAAAAAAAAACAAAAATATA-AAATAAAAAA
**
11589868 ATAAAAAAAATACAAAAATATAAAATGCAAAA
1 ATAAAAAAAA-ACAAAAATATAAAATAAAAAA
11589900 ATAAAAAAAAA
1 ATAAAAAAAAA
11589911 ATGGGCTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 10 0.28
32 18 0.50
33 8 0.22
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (31 bp):
ATAAAAAAAAACAAAAATATAAAATAAAAAA
Found at i:11589892 original size:25 final size:25
Alignment explanation
Indices: 11589837--11589892 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11589827 AATACATAAG
* * * *
11589837 ATAAAAATAAAAGAAATATATATAT
1 ATAAAAATAAAAAAAATACAAAAAT
*
11589862 AAAAAAATAAAAAAAATACAAAAAT
1 ATAAAAATAAAAAAAATACAAAAAT
11589887 ATAAAA
1 ATAAAA
11589893 TGCAAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (25 bp):
ATAAAAATAAAAAAAATACAAAAAT
Found at i:11589907 original size:15 final size:15
Alignment explanation
Indices: 11589872--11589907 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11589862 AAAAAAATAA
11589872 AAAAAATACAAAAAT
1 AAAAAATACAAAAAT
* *
11589887 ATAAAATGCAAAAAT
1 AAAAAATACAAAAAT
11589902 AAAAAA
1 AAAAAA
11589908 AAAATGGGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAAAATACAAAAAT
Found at i:11590148 original size:17 final size:17
Alignment explanation
Indices: 11590128--11590178 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
11590118 CATCTTAGTG
11590128 AATCTAAAAGTCTTGCA
1 AATCTAAAAGTCTTGCA
** *
11590145 AATCTTTGAAGTTTTGCA
1 AATC-TAAAAGTCTTGCA
*
11590163 AATCTAAAATTCTTGC
1 AATCTAAAAGTCTTGC
11590179 GAATTAAAGT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (17 bp):
AATCTAAAAGTCTTGCA
Found at i:11590234 original size:34 final size:34
Alignment explanation
Indices: 11590196--11590277 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
11590186 AGTCCATTCT
* * *
11590196 TGCGAATCTGAAAACCTTATGAATCTGGAATCTA
1 TGCGAAACTGAAAACCTTACGAATCTAGAATCTA
* * * *
11590230 TGCGAAACTTAAAATCTTGCGAATCTAGAATCTC
1 TGCGAAACTGAAAACCTTACGAATCTAGAATCTA
*
11590264 TGTGAAACATGAAA
1 TGCGAAAC-TGAAA
11590278 TCTTTGTAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (34 bp):
TGCGAAACTGAAAACCTTACGAATCTAGAATCTA
Found at i:11590279 original size:34 final size:34
Alignment explanation
Indices: 11590216--11590281 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
11590206 AAAACCTTAT
* *
11590216 GAATCTGGAATCTATGCGAAACTTAAAATCTTGC
1 GAATCTAGAATCTATGCGAAACATAAAATCTTGC
* * *
11590250 GAATCTAGAATCTCTGTGAAACATGAAATCTT
1 GAATCTAGAATCTATGCGAAACATAAAATCTT
11590282 TGTAAATCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (34 bp):
GAATCTAGAATCTATGCGAAACATAAAATCTTGC
Found at i:11590848 original size:24 final size:23
Alignment explanation
Indices: 11590812--11590857 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11590802 TCTTAGAGCT
11590812 TAATTAATGCAAAACAAAATCACA
1 TAATTAATGC-AAACAAAATCACA
*
11590836 TAATTGAAT-CAAATAAAATCAC
1 TAATT-AATGCAAACAAAATCAC
11590858 CAAAATCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 6 0.30
25 3 0.15
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.24
Consensus pattern (23 bp):
TAATTAATGCAAACAAAATCACA
Found at i:11591446 original size:65 final size:62
Alignment explanation
Indices: 11591344--11591498 Score: 170
Period size: 65 Copynumber: 2.5 Consensus size: 62
11591334 TATTAAATTA
*
11591344 AATCTTATCAAACTATTGAAGGAATTAATGAA-TTTTT-TAAAAATAATAATAATAAAATTTCT
1 AATCCTATCAAACTATTGAAGGAATTAATGAATTTTTTGTAAAAA-AATAA-AATAAAATTTCT
* * * *
11591406 AATTCTATCAAACTATTGATAGAGGACTTAATGAATTTTTTGTAAAAAAATAAAATAAATTTTTT
1 AATCCTATCAAACTATTG--A-AGGAATTAATGAATTTTTTGTAAAAAAATAAAATAAAATTTCT
* * * *
11591471 AATCCTATTAAATTATTGGAGGATTTAA
1 AATCCTATCAAACTATTGAAGGAATTAA
11591499 ATATTGAATT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
62 24 0.31
64 1 0.01
65 37 0.47
66 10 0.13
67 6 0.08
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (62 bp):
AATCCTATCAAACTATTGAAGGAATTAATGAATTTTTTGTAAAAAAATAAAATAAAATTTCT
Found at i:11592987 original size:19 final size:18
Alignment explanation
Indices: 11592943--11592987 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11592933 TTGTTTGATC
11592943 ATTTTCATTACTTTTTAA
1 ATTTTCATTACTTTTTAA
* * *
11592961 AATTTCATTATTTTTTTA
1 ATTTTCATTACTTTTTAA
11592979 ATTTCTCAT
1 ATTT-TCAT
11592988 AAAATATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTCATTACTTTTTAA
Found at i:11594220 original size:7 final size:7
Alignment explanation
Indices: 11594208--11594257 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
11594198 ATGAAAATTT
11594208 AATTTAA
1 AATTTAA
11594215 AATTT-A
1 AATTTAA
11594221 AATTT-A
1 AATTTAA
*
11594227 ATTTTAA
1 AATTTAA
11594234 AATTTAA
1 AATTTAA
11594241 TAATTT-A
1 -AATTTAA
11594248 AATTTAA
1 AATTTAA
11594255 AAT
1 AAT
11594258 AATCTGAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 16 0.42
7 17 0.45
8 5 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
AATTTAA
Found at i:11594225 original size:6 final size:6
Alignment explanation
Indices: 11594202--11594255 Score: 56
Period size: 6 Copynumber: 8.5 Consensus size: 6
11594192 AACCATATGA
*
11594202 AAATTT -AATTT AAAATTT AAATTT AATTTT AAAATTT AATAATTT AAATTT
1 AAATTT AAATTT -AAATTT AAATTT AAATTT -AAATTT -A-AATTT AAATTT
11594253 AAA
1 AAA
11594256 ATAATCTGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 5 0.12
6 19 0.45
7 13 0.31
8 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:11594226 original size:13 final size:13
Alignment explanation
Indices: 11594201--11594257 Score: 73
Period size: 13 Copynumber: 4.4 Consensus size: 13
11594191 AAACCATATG
11594201 AAAATTT-AATTT
1 AAAATTTAAATTT
11594213 AAAATTTAAATTT
1 AAAATTTAAATTT
*
11594226 -AATTTTAAAATTT
1 AAAATTT-AAATTT
11594239 AATAATTTAAATTT
1 AA-AATTTAAATTT
11594253 AAAAT
1 AAAAT
11594258 AATCTGAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 12 0.31
13 14 0.36
14 9 0.23
15 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAAATTTAAATTT
Found at i:11604868 original size:23 final size:23
Alignment explanation
Indices: 11604837--11604887 Score: 50
Period size: 22 Copynumber: 2.2 Consensus size: 23
11604827 TTATTAATTG
** *
11604837 AAAAATACATAAAATTAAAAAAAA
1 AAAAATACA-AAAAACAACAAAAA
*
11604861 AAA-TTACAAAAAACAACAAAAA
1 AAAAATACAAAAAACAACAAAAA
11604883 AAAAA
1 AAAAA
11604888 GGGATTCCGT
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
22 14 0.67
23 4 0.19
24 3 0.14
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (23 bp):
AAAAATACAAAAAACAACAAAAA
Found at i:11604872 original size:22 final size:23
Alignment explanation
Indices: 11604837--11604886 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
11604827 TTATTAATTG
**
11604837 AAAAATACATAAAATTAA-AAAA
1 AAAAATACATAAAAACAACAAAA
11604859 AAAAATTACA-AAAAACAACAAAA
1 AAAAA-TACATAAAAACAACAAAA
11604882 AAAAA
1 AAAAA
11604887 AGGGATTCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (23 bp):
AAAAATACATAAAAACAACAAAA
Found at i:11609214 original size:12 final size:12
Alignment explanation
Indices: 11609197--11609227 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11609187 GGTTGTGGAG
11609197 GTGGCTGGTCTA
1 GTGGCTGGTCTA
*
11609209 GTGGCTGGTCTG
1 GTGGCTGGTCTA
11609221 GTGGCTG
1 GTGGCTG
11609228 TTTACAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.48, T:0.32
Consensus pattern (12 bp):
GTGGCTGGTCTA
Found at i:11609372 original size:17 final size:17
Alignment explanation
Indices: 11609350--11609398 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
11609340 TCTATCTCTT
11609350 TTTTTTTAA-TTAAT-A
1 TTTTTTTAATTTAATAA
11609365 TATTTTTTAATTTAATAA
1 T-TTTTTTAATTTAATAA
*
11609383 TTTTTTAATATTTAAT
1 TTTTTTTA-ATTTAAT
11609399 TTGGTTGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 1 0.03
16 8 0.28
17 11 0.38
18 9 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTTAATTTAATAA
Found at i:11609398 original size:18 final size:17
Alignment explanation
Indices: 11609351--11609391 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
11609341 CTATCTCTTT
11609351 TTTTTTAA-TTAATATA
1 TTTTTTAATTTAATATA
11609367 TTTTTTAATTTAATA-A
1 TTTTTTAATTTAATATA
11609383 TTTTTTAAT
1 TTTTTTAAT
11609392 ATTTAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTAATTTAATATA
Found at i:11609442 original size:14 final size:14
Alignment explanation
Indices: 11609425--11609465 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
11609415 TTTAATTGAT
*
11609425 AAATATTAAAATAA
1 AAATAATAAAATAA
11609439 AAATAATAAAATAA
1 AAATAATAAAATAA
*
11609453 AATAAAATAAAAT
1 AA-ATAATAAAAT
11609466 GAAATGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAAAATAA
Found at i:11609471 original size:5 final size:5
Alignment explanation
Indices: 11609431--11609470 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
11609421 TGATAAATAT
* *
11609431 TAAAA TAAAA -ATAA TAAAA TAAAA TAAAA TAAAA TGAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
11609471 GTAAATATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
4 3 0.10
5 28 0.90
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:11610169 original size:104 final size:104
Alignment explanation
Indices: 11609980--11610637 Score: 605
Period size: 104 Copynumber: 6.3 Consensus size: 104
11609970 TAAGGATATC
* * * * ** *
11609980 GAGATTAAACCACAAGTCAGAG-AATAA-CAACGATCGAGATTAAATC-GGTACTTAAAAGTAAA
1 GAGATTAAACCGCAAGTCAGAGAAATAATGAA-GATCGAGATTAAACCACG-AAGTAGAAGTAAA
* ** * *
11610042 GAGATCGGGATTAAACCGCGAGTCAAGAAAATAAAAAGACT
64 GAGACCAAGATTGAACTGCGAGTCAAGAAAATAAAAAGACT
* * * * *
11610083 GAGATTAAACTGCAAGCCAGAGAAATAATGAGGATCCAGATTAAACGACGAAGTAGAAGTAAA-A
1 GAGATTAAACCGCAAGTCAGAGAAATAATGAAGATCGAGATTAAACCACGAAGTAGAAGTAAAGA
* *
11610147 GGACCAAGATTGAACTACGAGTCAAGAAAATAAAGAA-ATT
66 -GACCAAGATTGAACTGCGAGTCAAGAAAATAAA-AAGACT
* * * * ** *
11610187 GGGATTAAACCGCAAGTCAGAGAAAGAATGAGGATCGGGATTAAACCGTG-AGTAGAAGTAAAAA
1 GAGATTAAACCGCAAGTCAGAGAAATAATGAAGATCGAGATTAAACCACGAAGTAGAAGTAAAGA
* *** *
11610251 GACAAAGATTGAACCATGAGTCAAGAAAATAAAAAGACC
66 GACCAAGATTGAACTGCGAGTCAAGAAAATAAAAAGACT
* * * *
11610290 AAGATTAAACCTCAAGTCAGAGAAAAATAATGAAGATTGAGATTAAACCACGATGTAGAAGTAAA
1 GAGATTAAACCGCAAGTCAGAG--AAATAATGAAGATCGAGATTAAACCACGAAGTAGAAGTAAA
* ** *
11610355 GAAACCGGGATTGAATTGCGAGTCAAGAAAAATAAAGAGAGACT
64 GAGACCAAGATTGAACTGCGAGTCAAG-AAAATAAA-A-AGACT
* * * *
11610399 GAGATTAAACCGTAAGTCAGAGAAAGAATAAAGATCGAGATTAAACCACGATA-TAGATGTAAAG
1 GAGATTAAACCGCAAGTCAGAGAAATAATGAAGATCGAGATTAAACCACGA-AGTAGAAGTAAAG
** * *
11610463 AGATTAAGATTGAATTGCGAGTCAAGAAAATAAAGAGACCT
65 AGACCAAGATTGAACTGCGAGTCAAGAAAATAAAAAGA-CT
** * *
11610504 G-GATTAAACCATAAGTCAGAGAAATAATGAAGATC-AGGATTAAACCGCGATGTAGAAGTAAAG
1 GAGATTAAACCGCAAGTCAGAGAAATAATGAAGATCGA-GATTAAACCACGAAGTAGAAGTAAAG
*** * * *
11610567 AGACGGGGATTGAACTGCGAGTCAAAAAAATAAAGAGACA
65 AGACCAAGATTGAACTGCGAGTCAAGAAAATAAAAAGACT
* * *
11610607 GGGATTAAACCACAAGTAAGAGAAATAATGA
1 GAGATTAAACCGCAAGTCAGAGAAATAATGA
11610638 CCAAGATTGA
Statistics
Matches: 455, Mismatches: 82, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
102 2 0.00
103 85 0.19
104 213 0.47
105 29 0.06
106 37 0.08
107 65 0.14
108 1 0.00
109 23 0.05
ACGTcount: A:0.48, C:0.12, G:0.23, T:0.17
Consensus pattern (104 bp):
GAGATTAAACCGCAAGTCAGAGAAATAATGAAGATCGAGATTAAACCACGAAGTAGAAGTAAAGA
GACCAAGATTGAACTGCGAGTCAAGAAAATAAAAAGACT
Found at i:11610271 original size:32 final size:34
Alignment explanation
Indices: 11610225--11610300 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 34
11610215 TGAGGATCGG
* *
11610225 GATTAAACCGTGAGT-AG-AAGTAAAAAGACAAA
1 GATTAAACCATGAGTAAGAAAATAAAAAGACAAA
* *
11610257 GATTGAACCATGAGTCAAGAAAATAAAAAGACCAA
1 GATTAAACCATGAGT-AAGAAAATAAAAAGACAAA
11610292 GATTAAACC
1 GATTAAACC
11610301 TCAAGTCAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 13 0.36
34 2 0.06
35 21 0.58
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.16
Consensus pattern (34 bp):
GATTAAACCATGAGTAAGAAAATAAAAAGACAAA
Found at i:11610546 original size:316 final size:314
Alignment explanation
Indices: 11610035--11610631 Score: 754
Period size: 316 Copynumber: 1.9 Consensus size: 314
11610025 CGGTACTTAA
* * *
11610035 AAGTAAAGAGATCGGGATTAAACCGCGAGTCAAGAAAATAAAAAGACTGAGATTAAACTGCAAGC
1 AAGTAAAGAAACCGGGATTAAACCGCGAGTCAAGAAAATAAAAAGACTGAGATTAAACCGCAAGC
* * * *
11610100 CAGAGAAATAATGAGGATCCAGATTAAACGACGAAGTAGAAGTAAAAGGACCAAGATTGAACTAC
66 CAGAGAAAGAATAAAGATCCAGATTAAACCACGAAGTAGAAGTAAAAGGACCAAGATTGAACTAC
* * * *
11610165 GAGTCAAGAAAATAAAGAAATTGGGATTAAACCGCAAGTCAGAGAAAGAATGAGGATCGGGATTA
131 GAGTCAAGAAAATAAAGAAACTGGGATTAAACCACAAGTCAGAGAAAGAATGAAGATCAGGATTA
* * *
11610230 AACCGTGA-GTAGAAGTAAAAAGACAAAGATTGAACCATGAGTCAAGAAAATAAAAAGACCA-AG
196 AACCGCGATGTAGAAGTAAAAAGACAAAGATTGAACCACGAGTCAAAAAAATAAAAAGA-CAGAG
* *
11610293 ATTAAACCTCAAGTCAGAGAAAAATAATGAAGATTGAGATTAAACCACGATGTAG
260 ATTAAACCACAAGTAAGAGAAAAATAATGAAGATTGAGATTAAACCACGATGTAG
* ** *
11610348 AAGTAAAGAAACCGGGATTGAATTGCGAGTCAAGAAAAATAAAGAGAGACTGAGATTAAACCGTA
1 AAGTAAAGAAACCGGGATTAAACCGCGAGTCAAG-AAAATAAA-A-AGACTGAGATTAAACCGCA
* * * **
11610413 AGTCAGAGAAAGAATAAAGATCGAGATTAAACCACGATA-TAGATGT-AAAGAGATTAAGATTGA
63 AGCCAGAGAAAGAATAAAGATCCAGATTAAACCACGA-AGTAGAAGTAAAAG-GACCAAGATTGA
* * * * *
11610476 ATTGCGAGTCAAGAAAATAAAGAGACCT-GGATTAAACCATAAGTCAGAGAAATAATGAAGATCA
126 ACTACGAGTCAAGAAAATAAAGA-AACTGGGATTAAACCACAAGTCAGAGAAAGAATGAAGATCA
* *** ** *
11610540 GGATTAAACCGCGATGTAGAAGTAAAGAGACGGGGATTGAACTGCGAGTCAAAAAAATAAAGAGA
190 GGATTAAACCGCGATGTAGAAGTAAAAAGACAAAGATTGAACCACGAGTCAAAAAAATAAAAAGA
*
11610605 CAGGGATTAAACCACAAGTAAGAGAAA
255 CAGAGATTAAACCACAAGTAAGAGAAA
11610632 TAATGACCAA
Statistics
Matches: 238, Mismatches: 38, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
313 29 0.12
314 8 0.03
315 5 0.02
316 131 0.55
317 65 0.27
ACGTcount: A:0.48, C:0.12, G:0.23, T:0.17
Consensus pattern (314 bp):
AAGTAAAGAAACCGGGATTAAACCGCGAGTCAAGAAAATAAAAAGACTGAGATTAAACCGCAAGC
CAGAGAAAGAATAAAGATCCAGATTAAACCACGAAGTAGAAGTAAAAGGACCAAGATTGAACTAC
GAGTCAAGAAAATAAAGAAACTGGGATTAAACCACAAGTCAGAGAAAGAATGAAGATCAGGATTA
AACCGCGATGTAGAAGTAAAAAGACAAAGATTGAACCACGAGTCAAAAAAATAAAAAGACAGAGA
TTAAACCACAAGTAAGAGAAAAATAATGAAGATTGAGATTAAACCACGATGTAG
Done.