Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 89 of 202
Found at i:26670899 original size:69 final size:68
Alignment explanation
Indices: 26670681--26670913 Score: 351
Period size: 69 Copynumber: 3.4 Consensus size: 68
26670671 TGCACTTGTC
* * *
26670681 TTTCTTACAGGGAATATTTTCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACAC
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTC-TGTTCACAC
26670746 ATCA
65 ATCA
* * * *
26670750 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA-TTTCTTGCAGGGAATCTTTCCTGTTCACGC
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCT-CTGTTCACAC
26670814 ATCA
65 ATCA
26670818 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCTGGTTCACAC
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCT-GTTCACAC
26670883 ATCA
65 ATCA
* *
26670887 TTTCTTGCAGGGAATCTCTCCTATTCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCA
26670914 TACATCATTT
Statistics
Matches: 148, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
68 64 0.43
69 84 0.57
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (68 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCTGTTCACACA
TCA
Found at i:26670939 original size:137 final size:137
Alignment explanation
Indices: 26670681--26670927 Score: 406
Period size: 137 Copynumber: 1.8 Consensus size: 137
26670671 TGCACTTGTC
*
26670681 TTTCTTACAGGGAATATTTTCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACAC
1 TTTCTTACAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACAC
* * * *
26670746 ATCATTTCTTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTTTCCTGTTCA
66 ATCATTTCTTGCAGGGAATCTCTCCTATTCACACATCATTTCTGGCAGGGAATCTTTCCTGTTCA
26670811 CGCATCA
131 CGCATCA
* *
26670818 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTC-TGGTTCACA
1 TTTCTTACAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCAT-GTTCACA
*
26670882 CATCATTTCTTGCAGGGAATCTCTCCTATTCATACATCATTTCTGG
65 CATCATTTCTTGCAGGGAATCTCTCCTATTCACACATCATTTCTGG
26670928 TATTATTTCT
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
136 1 0.01
137 100 0.99
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (137 bp):
TTTCTTACAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACAC
ATCATTTCTTGCAGGGAATCTCTCCTATTCACACATCATTTCTGGCAGGGAATCTTTCCTGTTCA
CGCATCA
Found at i:26674791 original size:15 final size:15
Alignment explanation
Indices: 26674771--26674801 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26674761 AGATGTTGTA
26674771 TGTAATTCATCTATT
1 TGTAATTCATCTATT
26674786 TGTAATTCATCTATT
1 TGTAATTCATCTATT
26674801 T
1 T
26674802 CAATAGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (15 bp):
TGTAATTCATCTATT
Found at i:26677544 original size:15 final size:15
Alignment explanation
Indices: 26677524--26677555 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26677514 CATTTCACTA
*
26677524 TTATGTCTTTTCTAT
1 TTATGTCTTTTATAT
26677539 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
26677554 TT
1 TT
26677556 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:26685001 original size:10 final size:9
Alignment explanation
Indices: 26684961--26684998 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
26684951 TCGTAATTAG
26684961 ATAAAATAA
1 ATAAAATAA
*
26684970 TTAAAATAA
1 ATAAAATAA
26684979 ATAGAAATAA
1 ATA-AAATAA
26684989 ATAAAATAA
1 ATAAAATAA
26684998 A
1 A
26684999 ATATTACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
ATAAAATAA
Found at i:26687460 original size:36 final size:36
Alignment explanation
Indices: 26687415--26687493 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
26687405 GCTACAAAAG
*
26687415 AAGTAATATGGCTTTCAAAGTTCCTTACAGATCTAA
1 AAGTCATATGGCTTTCAAAGTTCCTTACAGATCTAA
26687451 AAGTCATATGGCTTTCAAAGTTCCTTACAGATCTAA
1 AAGTCATATGGCTTTCAAAGTTCCTTACAGATCTAA
26687487 AAGTCAT
1 AAGTCAT
26687494 TCCTAGTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (36 bp):
AAGTCATATGGCTTTCAAAGTTCCTTACAGATCTAA
Found at i:26689185 original size:19 final size:19
Alignment explanation
Indices: 26689161--26689197 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26689151 TAATTGGGAC
*
26689161 ATTAATTTAATTTGTTTAA
1 ATTAATTTAATATGTTTAA
26689180 ATTAATTTAATATGTTTA
1 ATTAATTTAATATGTTTA
26689198 TTTTTGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTAATTTAATATGTTTAA
Found at i:26691695 original size:5 final size:5
Alignment explanation
Indices: 26691685--26691710 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
26691675 TGAGCATTCG
26691685 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
26691711 AATTTTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:26692498 original size:31 final size:30
Alignment explanation
Indices: 26692463--26692522 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
26692453 GGAGGTGGGA
*
26692463 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
26692494 TGGGAGGGAGTAAAAATTTTATGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
26692523 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:26692751 original size:9 final size:9
Alignment explanation
Indices: 26692737--26692773 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26692727 TATAGTTTGA
26692737 TATTCGAAT
1 TATTCGAAT
26692746 TATTCGAAT
1 TATTCGAAT
*
26692755 TATTCGAGT
1 TATTCGAAT
26692764 TATTCGAAT
1 TATTCGAAT
26692773 T
1 T
26692774 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26692843 original size:9 final size:9
Alignment explanation
Indices: 26692826--26692856 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26692816 TCGAGTTGAT
26692826 TCGAATAAC
1 TCGAATAAC
*
26692835 TCGATTAAC
1 TCGAATAAC
26692844 TCGAATAAC
1 TCGAATAAC
26692853 TCGA
1 TCGA
26692857 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:26693270 original size:16 final size:14
Alignment explanation
Indices: 26693249--26693288 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 14
26693239 TGTGAGTGAA
26693249 TATAAATATTATATAT
1 TATAAA-ATTATAT-T
26693265 TATAAAA-TATATT
1 TATAAAATTATATT
26693278 TATAAAATTAT
1 TATAAAATTAT
26693289 TTCAATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.35
14 8 0.35
15 1 0.04
16 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATAAAATTATATT
Found at i:26693409 original size:11 final size:11
Alignment explanation
Indices: 26693390--26693437 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
26693380 AAAATATGAA
*
26693390 AATATTATTAT
1 AATAATATTAT
26693401 AATAATATTAAT
1 AATAATATT-AT
* *
26693413 AAAAATATTTT
1 AATAATATTAT
*
26693424 AATAATTTTAT
1 AATAATATTAT
26693435 AAT
1 AAT
26693438 TGAATTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AATAATATTAT
Found at i:26703017 original size:66 final size:66
Alignment explanation
Indices: 26702909--26703038 Score: 224
Period size: 66 Copynumber: 2.0 Consensus size: 66
26702899 TGAAGCACTA
26702909 TTGGCTACTTTCTATAATGTTTTCACTAAACTGCATGAGATTCCGTCACCTTAATCGCAGGATCT
1 TTGGCTACTTTCTATAATGTTTTCACTAAACTGCATGAGATTCCGTCACCTTAATCGCAGGATCT
26702974 C
66 C
* * * *
26702975 TTGGCTACTTTCTATGATGTTTTCACTAAACTGTATGGGATTCCGTCACCTTAATCGTAGGATC
1 TTGGCTACTTTCTATAATGTTTTCACTAAACTGCATGAGATTCCGTCACCTTAATCGCAGGATC
26703039 ATGCCATTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (66 bp):
TTGGCTACTTTCTATAATGTTTTCACTAAACTGCATGAGATTCCGTCACCTTAATCGCAGGATCT
C
Found at i:26706933 original size:67 final size:64
Alignment explanation
Indices: 26706857--26707049 Score: 161
Period size: 67 Copynumber: 3.0 Consensus size: 64
26706847 ATTTTATTAG
*
26706857 ATTTAATATTAAATTTAATTTGATACTTTCTTGATAATATTTTATTAATTTGATATTAAAGTGAT
1 ATTTAATATTAAATTTAATTT-ATACTTTCTTGATAATATTATATTAATTT-ATATTAAAGTGAT
26706922 T
64 T
* * * * * *
26706923 ATCTTAATATTAAATTAAATATT-TACCTTATAGATCAAAATTCTATTAATTTA-A-T--A---A
1 AT-TTAATATTAAATTTAAT-TTATACTTTCTTGAT-AATATTATATTAATTTATATTAAAGTGA
26706980 -T
63 TT
* *
26706981 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAAT-TTATACTT-TCTTGATAA-TATTATATTAATTT-ATATTAAAGTG
26707046 ATT
62 ATT
26707049 A
1 A
26707050 AAGTTTAATT
Statistics
Matches: 97, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
57 17 0.18
58 8 0.08
59 18 0.19
60 1 0.01
61 1 0.01
62 2 0.02
64 2 0.02
65 1 0.01
66 12 0.12
67 31 0.32
68 4 0.04
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (64 bp):
ATTTAATATTAAATTTAATTTATACTTTCTTGATAATATTATATTAATTTATATTAAAGTGATT
Found at i:26718572 original size:18 final size:18
Alignment explanation
Indices: 26718545--26718580 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
26718535 ATATTTGCCT
*
26718545 GTGTGGGCCTACACGCCC
1 GTGTGAGCCTACACGCCC
26718563 GTGTGAGCCTACACGCCC
1 GTGTGAGCCTACACGCCC
26718581 ATGCAACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.39, G:0.31, T:0.17
Consensus pattern (18 bp):
GTGTGAGCCTACACGCCC
Found at i:26718652 original size:92 final size:93
Alignment explanation
Indices: 26718489--26718673 Score: 266
Period size: 92 Copynumber: 2.0 Consensus size: 93
26718479 GGGCGACCCG
* * * **
26718489 TGCAACCTTAGCCATCAAACAGTGGAAATGGGCCCACAAGCCCAAGATATTTGCCTGTGTGGGCC
1 TGCAACCTTAGCCATCAAACAGTGAAAATGGGCCCACAAGCCCAAGAAATTTACCCATGTGGGCC
*
26718554 TACACGCCCGTGTGAGCCTACAC-GCCCA
66 TACACGCCCGTGT-AGCCCACACAGCCCA
* * *
26718582 TGCAA-CTTAGCCATCAAATAGTGAAAATGGGCCCACAAGCCCATGAAATTTACCCATGTGGGCT
1 TGCAACCTTAGCCATCAAACAGTGAAAATGGGCCCACAAGCCCAAGAAATTTACCCATGTGGGCC
26718646 TACACGCCCGTGTAGCCCACACAGCCCA
66 TACACGCCCGTGTAGCCCACACAGCCCA
26718674 AAAATGGCCT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 8 0.10
92 69 0.84
93 5 0.06
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (93 bp):
TGCAACCTTAGCCATCAAACAGTGAAAATGGGCCCACAAGCCCAAGAAATTTACCCATGTGGGCC
TACACGCCCGTGTAGCCCACACAGCCCA
Found at i:26723308 original size:19 final size:20
Alignment explanation
Indices: 26723270--26723310 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
26723260 CCTCCCCTGC
*
26723270 AAATAATATACATTATTATAT
1 AAATAATATA-ATTACTATAT
26723291 AAATAATAT-ATTACTATAT
1 AAATAATATAATTACTATAT
26723310 A
1 A
26723311 TAAATTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
21 9 0.47
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATATAATTACTATAT
Found at i:26723310 original size:21 final size:20
Alignment explanation
Indices: 26723270--26723315 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
26723260 CCTCCCCTGC
26723270 AAATAATATACATTATTATAT
1 AAATAATATA-ATTATTATAT
26723291 AAATAATAT-ATTACTATATAT
1 AAATAATATAATTA-T-TATAT
26723312 AAAT
1 AAAT
26723316 TGTAACGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 18 0.78
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATATAATTATTATAT
Found at i:26733175 original size:9 final size:9
Alignment explanation
Indices: 26733161--26733219 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
26733151 AAACCTTGTA
26733161 ATATATAAT
1 ATATATAAT
26733170 ATATATGATAT
1 ATATAT-A-AT
26733181 ATATTATAAT
1 ATA-TATAAT
26733191 ATATATAA-
1 ATATATAAT
26733199 A-ATGATAAT
1 ATAT-ATAAT
26733208 AT-TAT-AT
1 ATATATAAT
26733215 ATATA
1 ATATA
26733220 ACTTTAACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
7 6 0.14
8 9 0.21
9 13 0.30
10 6 0.14
11 6 0.14
12 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (9 bp):
ATATATAAT
Found at i:26733376 original size:23 final size:23
Alignment explanation
Indices: 26733340--26733407 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
26733330 TCATATATTA
* *
26733340 TATATATTATTATATATAAATAC
1 TATATGTTACTATATATAAATAC
26733363 TATATGTTACTATATATAAATAC
1 TATATGTTACTATATATAAATAC
26733386 TATATGTTACTATATATAAATA
1 TATATGTTACTATATATAAATA
26733408 ATAAATAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (23 bp):
TATATGTTACTATATATAAATAC
Found at i:26733533 original size:43 final size:43
Alignment explanation
Indices: 26733484--26733569 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
26733474 CCTTATAAAT
*
26733484 TGCTTCAAATAAAGAAACTCTAAATAATTTAGATAAATAGTGA
1 TGCTTCAAATAAAGAAACTCCAAATAATTTAGATAAATAGTGA
*
26733527 TGCTTCAAATAAAGAAACTCCAAATAATTTAGGTAAATAGTGA
1 TGCTTCAAATAAAGAAACTCCAAATAATTTAGATAAATAGTGA
26733570 GGAAATTAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (43 bp):
TGCTTCAAATAAAGAAACTCCAAATAATTTAGATAAATAGTGA
Found at i:26733982 original size:21 final size:22
Alignment explanation
Indices: 26733929--26733980 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
26733919 TTACCATATT
26733929 AACATTTTTAAAAAAATCACTC
1 AACATTTTTAAAAAAATCACTC
26733951 AACATTTTTAAAAAAATCACTC
1 AACATTTTTAAAAAAATCACTC
26733973 AACATTTT
1 AACATTTT
26733981 AATCAGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (22 bp):
AACATTTTTAAAAAAATCACTC
Found at i:26735893 original size:22 final size:22
Alignment explanation
Indices: 26735852--26735894 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26735842 AACAATAGCA
* * *
26735852 ATAAAATAGTAGTAATATAATT
1 ATAAAATAATAGCAAAATAATT
26735874 ATAAAATAATAGCAAAATAAT
1 ATAAAATAATAGCAAAATAAT
26735895 GAGAAAACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
ATAAAATAATAGCAAAATAATT
Found at i:26741743 original size:125 final size:125
Alignment explanation
Indices: 26741513--26741934 Score: 585
Period size: 125 Copynumber: 3.4 Consensus size: 125
26741503 ACGTGGACGT
* * * * *
26741513 GAAGAATTTGTGAAATCACGTCCTCCTGGACGCGCTTTTGCTACAGTTGGTCTTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* *
26741578 TTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGCTCTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGCTATATGA
* ** * *
26741638 GAAGAATTTGTTAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGCAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* * * * *
26741702 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAGCGCTTCAAGCAGGATGCTATTTGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTACCAAGATGCTATATGA
* * *
26741763 GAAGAATTTCTGAAATCGCGCCCTCGTGGACTCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* ** * *
26741828 TTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAATTACTTCTACCAAGATACTTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGCTATATGA
* *
26741888 GAAGAATTTGTGAAATCGCACCTACGTGGACGCGCTTTTGCTACAGT
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
26741935 AACATGTTTG
Statistics
Matches: 255, Mismatches: 40, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
124 38 0.15
125 179 0.70
126 38 0.15
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGCTATATGA
Found at i:26747533 original size:22 final size:21
Alignment explanation
Indices: 26747508--26747579 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 21
26747498 TATGAATTTA
26747508 AGAGAAATTTTGA-AGGAAATTG
1 AGAGAAA--TTGAGAGGAAATTG
26747530 AGAGCAAATTGAGAGGAAATTG
1 AGAG-AAATTGAGAGGAAATTG
26747552 AGAGGAAATTGAGAGGAAATTTG
1 AGA-GAAATTGAGAGGAAA-TTG
26747575 AGAGA
1 AGAGA
26747580 GGATTAGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.09
22 32 0.70
23 10 0.22
ACGTcount: A:0.46, C:0.01, G:0.32, T:0.21
Consensus pattern (21 bp):
AGAGAAATTGAGAGGAAATTG
Found at i:26747540 original size:11 final size:11
Alignment explanation
Indices: 26747517--26747578 Score: 99
Period size: 11 Copynumber: 5.6 Consensus size: 11
26747507 AAGAGAAATT
26747517 TTGA-AGGAAA
1 TTGAGAGGAAA
*
26747527 TTGAGAGCAAA
1 TTGAGAGGAAA
26747538 TTGAGAGGAAA
1 TTGAGAGGAAA
26747549 TTGAGAGGAAA
1 TTGAGAGGAAA
26747560 TTGAGAGGAAA
1 TTGAGAGGAAA
26747571 TTTGAGAG
1 -TTGAGAG
26747579 AGGATTAGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.08
11 37 0.77
12 7 0.15
ACGTcount: A:0.44, C:0.02, G:0.34, T:0.21
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:26750546 original size:98 final size:98
Alignment explanation
Indices: 26750377--26750578 Score: 404
Period size: 98 Copynumber: 2.1 Consensus size: 98
26750367 ATCTATCATG
26750377 TGTTTGCTATAAGTAATATCTGCTTTCAAACAACTCATGATTATAAAGTGGAGGAACTGGGCAAG
1 TGTTTGCTATAAGTAATATCTGCTTTCAAACAACTCATGATTATAAAGTGGAGGAACTGGGCAAG
26750442 ATGCATCCTAGTTATATTTAAGCTTCTTTTCGT
66 ATGCATCCTAGTTATATTTAAGCTTCTTTTCGT
26750475 TGTTTGCTATAAGTAATATCTGCTTTCAAACAACTCATGATTATAAAGTGGAGGAACTGGGCAAG
1 TGTTTGCTATAAGTAATATCTGCTTTCAAACAACTCATGATTATAAAGTGGAGGAACTGGGCAAG
26750540 ATGCATCCTAGTTATATTTAAGCTTCTTTTCGT
66 ATGCATCCTAGTTATATTTAAGCTTCTTTTCGT
26750573 TGTTTG
1 TGTTTG
26750579 ACACTTTTCT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 104 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (98 bp):
TGTTTGCTATAAGTAATATCTGCTTTCAAACAACTCATGATTATAAAGTGGAGGAACTGGGCAAG
ATGCATCCTAGTTATATTTAAGCTTCTTTTCGT
Found at i:26752638 original size:18 final size:19
Alignment explanation
Indices: 26752615--26752655 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
26752605 TTTAAATACA
26752615 TTTATTTTAT-TATATCAT
1 TTTATTTTATCTATATCAT
*
26752633 TTTA-TTTATCTATATCCT
1 TTTATTTTATCTATATCAT
26752651 TTTAT
1 TTTAT
26752656 ATAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTATCTATATCAT
Found at i:26752693 original size:3 final size:3
Alignment explanation
Indices: 26752678--26752785 Score: 99
Period size: 3 Copynumber: 36.0 Consensus size: 3
26752668 TTTAAGATTT
* * ** * * * *
26752678 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
26752726 TCA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA CCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26752774 TTA TTA TTA TTA
1 TTA TTA TTA TTA
26752786 AATTGTTTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.34, C:0.09, G:0.01, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:26757680 original size:16 final size:16
Alignment explanation
Indices: 26757661--26757694 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
26757651 TAAATTAAAT
26757661 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
26757677 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
26757693 TT
1 TT
26757695 CCAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTAATA
Found at i:26757980 original size:30 final size:28
Alignment explanation
Indices: 26757922--26757984 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
26757912 GGTGCAATTG
* *
26757922 TATATATATAAATTTAATTTTAATTCAA
1 TATATAGATAAATTTAATTTTAACTCAA
*
26757950 TATATAGATGAAATTTTAATTTTAGCTCAA
1 TATATAGAT-AAA-TTTAATTTTAACTCAA
26757980 T-TATA
1 TATATA
26757985 CATATACCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 7 0.23
30 15 0.50
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (28 bp):
TATATAGATAAATTTAATTTTAACTCAA
Found at i:26758990 original size:45 final size:44
Alignment explanation
Indices: 26758901--26758993 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
26758891 ATTACAACAT
* *
26758901 CATTCCATTCAACCAAACACAAGAATACTATTGCAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
*
26758945 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGCTCTATTC
26758990 CATT
1 CATT
26758994 ACACATCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:26758996 original size:16 final size:16
Alignment explanation
Indices: 26758975--26759030 Score: 87
Period size: 16 Copynumber: 3.5 Consensus size: 16
26758965 TTGAATTACT
26758975 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
26758991 ATTACA-CATCTATTCA
1 ATTACAGC-TCTATTCC
26759007 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
26759023 ATTACAGC
1 ATTACAGC
26759031 GAACCAAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
15 1 0.03
16 34 0.94
17 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:26759746 original size:7 final size:6
Alignment explanation
Indices: 26759736--26759789 Score: 65
Period size: 6 Copynumber: 8.7 Consensus size: 6
26759726 AAATTTTTAA
*
26759736 AAAAATT AAAAATT AAAAATT AAAAAT -TAAAT AAAAAT AAAAAT AAAAAT
1 AAAAA-T AAAAA-T AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
26759786 AAAA
1 AAAA
26759790 TTATTCTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
5 4 0.09
6 21 0.48
7 19 0.43
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:26763929 original size:2 final size:2
Alignment explanation
Indices: 26763922--26763992 Score: 97
Period size: 2 Copynumber: 35.5 Consensus size: 2
26763912 TACGGTAAAG
* * * * *
26763922 AT AT AT AT AC AT AC AT AC AT AT AT AC AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26763964 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26763993 AGTTGCTTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:26765080 original size:22 final size:22
Alignment explanation
Indices: 26765046--26765101 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
26765036 TCTGGAAATG
* *
26765046 GGTGGAGCCGTGGAGGACCGGA
1 GGTGGATCGGTGGAGGACCGGA
**
26765068 GGTGGATCGGTGGAGGATTGGA
1 GGTGGATCGGTGGAGGACCGGA
*
26765090 GGTGGATTGGTG
1 GGTGGATCGGTG
26765102 CCGGAGGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.16, C:0.09, G:0.55, T:0.20
Consensus pattern (22 bp):
GGTGGATCGGTGGAGGACCGGA
Found at i:26767802 original size:19 final size:19
Alignment explanation
Indices: 26767780--26767817 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26767770 TCAATCACCC
26767780 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
26767799 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
26767818 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:26782091 original size:23 final size:23
Alignment explanation
Indices: 26782065--26782110 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
26782055 TGTACAGAAG
26782065 TACAAATGTAAGAACCACAACCA
1 TACAAATGTAAGAACCACAACCA
*
26782088 TACAAATGTGAGAACCACAACCA
1 TACAAATGTAAGAACCACAACCA
26782111 GCATCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.26, G:0.11, T:0.13
Consensus pattern (23 bp):
TACAAATGTAAGAACCACAACCA
Found at i:26790162 original size:14 final size:14
Alignment explanation
Indices: 26790118--26790165 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
26790108 AGTAAAAAAT
*
26790118 AATATAAATTGTATA
1 AATA-AAATTTTATA
*
26790133 ATATATAATCTTTATA
1 A-ATAAAAT-TTTATA
26790149 AATAAAATTTTATA
1 AATAAAATTTTATA
26790163 AAT
1 AAT
26790166 TGTTGAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 9 0.32
15 10 0.36
16 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (14 bp):
AATAAAATTTTATA
Found at i:26790257 original size:21 final size:21
Alignment explanation
Indices: 26790215--26790272 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
26790205 TTTTATAGAT
*
26790215 AAATTTTGT-TAAAGAAATTATA
1 AAATTTT-TATAAATAAA-TATA
*
26790237 AAATTTTTATTAATAAATATA
1 AAATTTTTATAAATAAATATA
**
26790258 TTATTTTTATAAATA
1 AAATTTTTATAAATA
26790273 TAACATGAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
AAATTTTTATAAATAAATATA
Found at i:26793301 original size:27 final size:27
Alignment explanation
Indices: 26793083--26793289 Score: 288
Period size: 27 Copynumber: 7.7 Consensus size: 27
26793073 AATGGGCCTA
**
26793083 TAAAATTACTAAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* *
26793110 TAAAATGACTGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
*
26793137 TAAAATGACCGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
*
26793164 TAAAATGACCGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* * *
26793191 TAAAATTATCGAAATACCTTTGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* * *
26793218 TAAAATTATCGAAATGCCCCCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* *
26793245 TAAAATTATCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGATGGG
26793272 TAAAATTACCGAAATACC
1 TAAAATTACCGAAATACC
26793290 TCTGAAGGGT
Statistics
Matches: 165, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 165 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGATGGG
Found at i:26795099 original size:309 final size:309
Alignment explanation
Indices: 26794540--26795142 Score: 1089
Period size: 309 Copynumber: 2.0 Consensus size: 309
26794530 TATCTAACGA
*
26794540 TACATTGTTACCTCACGTAATCTTATATGTGCTTATGAGATTGAATTAATTATTTGAATTGGCAT
1 TACATTGTTACCTCACGTAATCTTATATGTGCTTATGAGATTAAATTAATTATTTGAATTGGCAT
26794605 AGAGATATGTACAAGAGATTATTTTAATTTCAAAAGTATGTATGTGCATTAACACATTTGCTTCT
66 AGAGATATGTACAAGAGATTATTTTAATTTCAAAAGTATGTATGTGCATTAACACATTTGCTTCT
* *
26794670 TAAAATTTGTTTAATCAGTTGAATTGACATAGAGATATAGTCAAGAGATAAATAGATTTTTGTAG
131 TAAAATTTGTTTAATCAGTTGAATTGACATAGAGAGATAGTCAAGAGATAAATAAATTTTTGTAG
*
26794735 GTGAGTATGTTCATAAGTTAGCAAATTATCGAGTCGCCATGAATTTATTCGTAACAACATGAACA
196 GTGAGTATGTTCATAAGTTAGCAAATTACCGAGTCGCCATGAATTTATTCGTAACAACATGAACA
*
26794800 TGAGTTTAATAATTCTAAGTTAAGAAATTTAATTGTTTGAATTTATTAG
261 TGAGTTTAATAATTCTAAGTTAAGAAATGTAATTGTTTGAATTTATTAG
*
26794849 TACATTGTTACCTCACGTAATCTTATATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCAT
1 TACATTGTTACCTCACGTAATCTTATATGTGCTTATGAGATTAAATTAATTATTTGAATTGGCAT
* *
26794914 AGAGATATGTACAAGAGATTTTTTTAATTTCATAAGTATGTATGTGCATTAACACATTTGCTTCT
66 AGAGATATGTACAAGAGATTATTTTAATTTCAAAAGTATGTATGTGCATTAACACATTTGCTTCT
* * *
26794979 TAAAATTTGTTTAATCGGTTGAATTGACATAGAGAGATTGTCAAGATATAAATAAATTTTTGTAG
131 TAAAATTTGTTTAATCAGTTGAATTGACATAGAGAGATAGTCAAGAGATAAATAAATTTTTGTAG
* *
26795044 GTGAGTATGTTCATAAGTTAGCAAATTACCGAGTTGCCGTGAATTTATTCGTAACAACATGAACA
196 GTGAGTATGTTCATAAGTTAGCAAATTACCGAGTCGCCATGAATTTATTCGTAACAACATGAACA
26795109 TGAGTTTAATAATTCTAAGTTAAGAAATGTAATT
261 TGAGTTTAATAATTCTAAGTTAAGAAATGTAATT
26795143 AATCTAACAC
Statistics
Matches: 281, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
309 281 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (309 bp):
TACATTGTTACCTCACGTAATCTTATATGTGCTTATGAGATTAAATTAATTATTTGAATTGGCAT
AGAGATATGTACAAGAGATTATTTTAATTTCAAAAGTATGTATGTGCATTAACACATTTGCTTCT
TAAAATTTGTTTAATCAGTTGAATTGACATAGAGAGATAGTCAAGAGATAAATAAATTTTTGTAG
GTGAGTATGTTCATAAGTTAGCAAATTACCGAGTCGCCATGAATTTATTCGTAACAACATGAACA
TGAGTTTAATAATTCTAAGTTAAGAAATGTAATTGTTTGAATTTATTAG
Found at i:26796695 original size:69 final size:69
Alignment explanation
Indices: 26796578--26797125 Score: 376
Period size: 69 Copynumber: 7.9 Consensus size: 69
26796568 AATTTTTTTG
* * * * *
26796578 TCATATTAAGGCTCACGGGTGAAGAG-TAGCAGCCTTTAACACAATTAGCGAGAGAAAAGCTCCC
1 TCATATTAAGGCTCGCGAGCGAAGAGCTA-CAGCCTTCAACACAGTTAGCGAGAGAAAAGCTCCC
26796642 AACTA
65 AACTA
* * * * *
26796647 TCATATTAAGTCTCGCGAGTGAAGAGCCACAGCCTTCAATACAGTTAGCGAGAGTAAAGCTCCCA
1 TCATATTAAGGCTCGCGAGCGAAGAGCTACAGCCTTCAACACAGTTAGCGAGAGAAAAGCTCCCA
26796712 ACTA
66 ACTA
* * * * * * *
26796716 TCATATTAAGGCTCAC-AGGCAAAAAGCCACAGCCTCCAACACATTTAGCGAGAGCAAAA-CCCC
1 TCATATTAAGGCTCGCGA-GCGAAGAGCTACAGCCTTCAACACAGTTAGCGAGAG-AAAAGCTCC
*
26796779 CAACTG
64 CAACTA
* * * * ** * *
26796785 TCACATTAAGGCTTGCGGGCGAAAAGCTGTAGCCTACAACACAGTTAGCGAGAGCAAAGCTCCCA
1 TCATATTAAGGCTCGCGAGCGAAGAGCTACAGCCTTCAACACAGTTAGCGAGAGAAAAGCTCCCA
* *
26796850 GCTG
66 ACTA
* * *
26796854 TCATATTAAGGCTCGCGAGCGAAGAGCTGCAG-CTTCCAACACAGTTAGTGAGAGCAAAGCTCCC
1 TCATATTAAGGCTCGCGAGCGAAGAGCTACAGCCTT-CAACACAGTTAGCGAGAGAAAAGCTCCC
*
26796918 AGCTA
65 AACTA
* * * * * * * * * *
26796923 TCATATTAAAGCTCGTGGGCAAAAAG-T-CGTAGCC-TCTAACATAGTTAGTGAGAGTAAACCTT
1 TCATATTAAGGCTCGCGAGCGAAGAGCTAC--AGCCTTC-AACACAGTTAGCGAGAGAAAAGCTC
*
26796985 CCAACTG
63 CCAACTA
* * * * * *** * * *
26796992 TCTTAATAAGGCTTG-TAGGTGAAGAGCCGGAGCCTCCAACACAATTAGCGAGAGCAAAGCTCCC
1 TCATATTAAGGCTCGCGA-GCGAAGAGCTACAGCCTTCAACACAGTTAGCGAGAGAAAAGCTCCC
*
26797056 ATCTA
65 AACTA
* * * * * ** * *
26797061 TCATGTTAAGGCTCCCAAGCAAAAAGCCGCAGCC-TCTAACACAGTTAGCGAGGGCAAAGCTCCC
1 TCATATTAAGGCTCGCGAGCGAAGAGCTACAGCCTTC-AACACAGTTAGCGAGAGAAAAGCTCCC
26797125 A
65 A
26797126 GATACCAGAT
Statistics
Matches: 379, Mismatches: 84, Indels: 32
0.77 0.17 0.06
Matches are distributed among these distances:
67 1 0.00
68 9 0.02
69 362 0.96
70 7 0.02
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (69 bp):
TCATATTAAGGCTCGCGAGCGAAGAGCTACAGCCTTCAACACAGTTAGCGAGAGAAAAGCTCCCA
ACTA
Found at i:26796829 original size:138 final size:138
Alignment explanation
Indices: 26796576--26797125 Score: 523
Period size: 138 Copynumber: 4.0 Consensus size: 138
26796566 TAAATTTTTT
* * * ** **
26796576 TGTCATATTAAGGCTCACGGGTGAAGAGTAGCAGCCTTTAACACAATTAGCGAGAG-AAAAGCTC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCGCAGCCTCCAACACAATTAGCGAGAGCAAAA-CTC
* ** * * * *
26796640 CCAACTATCATATTAAGTCTCGCGAGTGAAGAGCCACAGCCT-TCAATACAGTTAGCGAGAGTAA
65 CCAACTATCATATTAAGGCTCGCGAGCAAAAAGCCGCAGCCTCT-AACACAGTTAGCGAGAGCAA
26796704 AGCTCCCAAC
129 AGCTCCCAAC
* * * * * * *
26796714 TATCATATTAAGGCTCACAGGCAAAAAGCCACAGCCTCCAACACATTTAGCGAGAGCAAAACCCC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCC
* * * * * * *
26796779 CAACTGTCACATTAAGGCTTGCGGGCGAAAAGCTGTAGCCTAC-AACACAGTTAGCGAGAGCAAA
66 CAACTATCATATTAAGGCTCGCGAGCAAAAAGCCGCAGCCT-CTAACACAGTTAGCGAGAGCAAA
*
26796843 GCTCCCAGC
130 GCTCCCAAC
* * * * *
26796852 TGTCATATTAAGGCTCGC-GAGCGAAGAGCTGCAGCTTCCAACACAGTTAGTGAGAGCAAAGCTC
1 TGTCATATTAAGGCTCGCAG-GCGAAGAGCCGCAGCCTCCAACACAATTAGCGAGAGCAAAACTC
* * * * * * * * *
26796916 CCAGCTATCATATTAAAGCTCGTGGGCAAAAAGTCGTAGCCTCTAACATAGTTAGTGAGAGTAAA
65 CCAACTATCATATTAAGGCTCGCGAGCAAAAAGCCGCAGCCTCTAACACAGTTAGCGAGAGCAAA
* *
26796981 CCTTCCAAC
130 GCTCCCAAC
* * * * * * *
26796990 TGTCTTAATAAGGCTTGTAGGTGAAGAGCCGGAGCCTCCAACACAATTAGCGAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCC
* * * * *
26797055 CATCTATCATGTTAAGGCTCCCAAGCAAAAAGCCGCAGCCTCTAACACAGTTAGCGAGGGCAAAG
66 CAACTATCATATTAAGGCTCGCGAGCAAAAAGCCGCAGCCTCTAACACAGTTAGCGAGAGCAAAG
26797120 CTCCCA
131 CTCCCA
26797126 GATACCAGAT
Statistics
Matches: 330, Mismatches: 76, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
137 2 0.01
138 323 0.98
139 5 0.02
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (138 bp):
TGTCATATTAAGGCTCGCAGGCGAAGAGCCGCAGCCTCCAACACAATTAGCGAGAGCAAAACTCC
CAACTATCATATTAAGGCTCGCGAGCAAAAAGCCGCAGCCTCTAACACAGTTAGCGAGAGCAAAG
CTCCCAAC
Found at i:26796946 original size:207 final size:207
Alignment explanation
Indices: 26796615--26797142 Score: 601
Period size: 207 Copynumber: 2.6 Consensus size: 207
26796605 AGCAGCCTTT
* * * *
26796615 AACACAATTAGCGAGAGAAAAGCTCCCAACTATCATATTAAGTCTCGCGAGTGAAGAGCCACAGC
1 AACACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGCTCGCGAGCGAAGAGCCGCAG-
* * * *
26796680 CTT-CAATACAGTTAGCGAGAGTAAAGCTCCCAACTATCATATTAAGGCTCACAGGCAAAAAGCC
65 CTTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTATCATATTAAAGCTCACAGGCAAAAAGCC
* * *
26796744 ACAGCCTCCAACACATTTAGCGAGAGCAAAACC-CCCAACTGTCACATTAAGGCTTGCGGGCGAA
130 ACAGCCTCCAACACAGTTAGCGAGAG-AAAACCTCCCAACTGTCACAATAAGGCTTGCAGGCGAA
* *
26796808 AAGCTGTAGCCTAC
194 AAGCCGGAGCCTAC
* * * *
26796822 AACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATATTAAGGCTCGCGAGCGAAGAGCTGCAGC
1 AACACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGCTCGCGAGCGAAGAGCCGCAGC
* *** * *
26796887 TTCCAACACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAAGCTCGTGGGCAAAAAGTCG
66 TTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTATCATATTAAAGCTCACAGGCAAAAAGCCA
* * * * * * ** * * *
26796952 TAGCCTCTAACATAGTTAGTGAGAGTAAACCTTCCAACTGTCTTAATAAGGCTTGTAGGTGAAGA
131 CAGCCTCCAACACAGTTAGCGAGAGAAAACCTCCCAACTGTCACAATAAGGCTTGCAGGCGAAAA
*
26797017 GCCGGAGCCTCC
196 GCCGGAGCCTAC
* * * * * *
26797029 AACACAATTAGCGAGAGCAAAGCTCCCATCTATCATGTTAAGGCTCCCAAGCAAAAAGCCGCAGC
1 AACACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGCTCGCGAGCGAAGAGCCGCAGC
* * * * * *
26797094 CTCTAACACAGTTAGCGAGGGCAAAGCTCCCAGATACCAGATTAAAGCT
66 TTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTATCATATTAAAGCT
26797143 AGTAGGTGAA
Statistics
Matches: 268, Mismatches: 51, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
206 8 0.03
207 260 0.97
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (207 bp):
AACACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGCTCGCGAGCGAAGAGCCGCAGC
TTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTATCATATTAAAGCTCACAGGCAAAAAGCCA
CAGCCTCCAACACAGTTAGCGAGAGAAAACCTCCCAACTGTCACAATAAGGCTTGCAGGCGAAAA
GCCGGAGCCTAC
Found at i:26800978 original size:10 final size:10
Alignment explanation
Indices: 26800965--26801006 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
26800955 TTAGAAAATA
26800965 TTTTATAATTT
1 TTTTATAA-TT
* *
26800976 TTTTCTTATT
1 TTTTATAATT
26800986 TTTTAT-ATT
1 TTTTATAATT
26800995 TTTTATAATT
1 TTTTATAATT
26801005 TT
1 TT
26801007 GGATTTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 9 0.33
10 12 0.44
11 6 0.22
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTATAATT
Found at i:26815604 original size:15 final size:16
Alignment explanation
Indices: 26815584--26815617 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
26815574 ATCCTACTCC
26815584 TAAAATGAT-AAAAAT
1 TAAAATGATCAAAAAT
*
26815599 TAAAATGATCCAAAAT
1 TAAAATGATCAAAAAT
26815615 TAA
1 TAA
26815618 TCACAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
TAAAATGATCAAAAAT
Found at i:26828535 original size:22 final size:23
Alignment explanation
Indices: 26828482--26828537 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
26828472 TGATTAACTA
*
26828482 TTTTAATTGTGAAATATAAATTAG
1 TTTTAATT-TGAAATATAAATTAC
* * *
26828506 TTTCAATTTTAAATAT-TATTAC
1 TTTTAATTTGAAATATAAATTAC
26828528 TTTTAATTTG
1 TTTTAATTTG
26828538 GATTAATTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 12 0.46
23 7 0.27
24 7 0.27
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (23 bp):
TTTTAATTTGAAATATAAATTAC
Found at i:26828969 original size:25 final size:27
Alignment explanation
Indices: 26828939--26828991 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
26828929 TATACTTTTA
*
26828939 AAAATAAATA-AAATTTAATAA-AATT
1 AAAATAAATATAAATTTAAAAATAATT
*
26828964 AAAATAAATATATATTTAAAAATAATT
1 AAAATAAATATAAATTTAAAAATAATT
26828991 A
1 A
26828992 TAATTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.42
26 9 0.38
27 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAATAAATATAAATTTAAAAATAATT
Found at i:26828987 original size:18 final size:17
Alignment explanation
Indices: 26828964--26828998 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26828954 TAATAAAATT
26828964 AAAATAAATATATATTTA
1 AAAATAAATATA-ATTTA
*
26828982 AAAATAATTATAATTTA
1 AAAATAAATATAATTTA
26828999 TTTATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATAAATATAATTTA
Found at i:26829177 original size:35 final size:34
Alignment explanation
Indices: 26829115--26829185 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 34
26829105 AGTGAACATT
*
26829115 ATAATTATAATTTAAATTACAAATATTAGTTAAAA
1 ATAATTATAATTTAAATTACAAATATTA-TAAAAA
* *
26829150 ATAATTATAATTTAATTTA-ACATTATTATAAAAA
1 ATAATTATAATTTAAATTACA-AATATTATAAAAA
26829184 AT
1 AT
26829186 TACTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 8 0.25
35 24 0.75
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (34 bp):
ATAATTATAATTTAAATTACAAATATTATAAAAA
Found at i:26832361 original size:25 final size:25
Alignment explanation
Indices: 26832328--26832434 Score: 117
Period size: 25 Copynumber: 4.3 Consensus size: 25
26832318 AGCTTCTTTG
* * * *
26832328 AGCTAAATAACGGTAAGCTCCTCCA
1 AGCTGAATAATGGTAAGCTCATACA
* *
26832353 AGTTGAATAATAGTAAGCTCATACA
1 AGCTGAATAATGGTAAGCTCATACA
*
26832378 AGCTGAATAATGGTAAGCTCATACG
1 AGCTGAATAATGGTAAGCTCATACA
* *
26832403 AGCTGAGTATTGGTAAGCTCATA-A
1 AGCTGAATAATGGTAAGCTCATACA
26832427 GAGCTGAA
1 -AGCTGAA
26832435 ATCGGTAACC
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
25 68 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (25 bp):
AGCTGAATAATGGTAAGCTCATACA
Found at i:26838063 original size:20 final size:19
Alignment explanation
Indices: 26838038--26838082 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
26838028 TGGGACTAAA
* *
26838038 TCAAAAATTTAGAGAATTTT
1 TCAAAAACTTAGA-AAATTT
*
26838058 TCAAAAACTTATAAAATTT
1 TCAAAAACTTAGAAAATTT
26838077 TCAAAA
1 TCAAAA
26838083 CTGCAGGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (19 bp):
TCAAAAACTTAGAAAATTT
Found at i:26839560 original size:25 final size:25
Alignment explanation
Indices: 26839519--26839611 Score: 125
Period size: 25 Copynumber: 3.7 Consensus size: 25
26839509 AACTGTAAAT
*
26839519 GGTAAGCTCCT-CTGAGCTGAATAAC
1 GGTAAGCTCATAC-GAGCTGAATAAC
*
26839544 AGTAAGCTCATACGAGCTGAATAAC
1 GGTAAGCTCATACGAGCTGAATAAC
* *
26839569 GGTAAGCTCATACGAGCTGAGTATC
1 GGTAAGCTCATACGAGCTGAATAAC
*
26839594 GGTAAGCTCATAAGAGCT
1 GGTAAGCTCATACGAGCT
26839612 TAAATCGGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 60 0.98
26 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTGAATAAC
Found at i:26842403 original size:15 final size:16
Alignment explanation
Indices: 26842380--26842409 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26842370 TTCTTTTTTA
26842380 AAAATTTTAAAAAATT
1 AAAATTTTAAAAAATT
26842396 AAAA-TTTAAAAAAT
1 AAAATTTTAAAAAAT
26842410 ATTTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTTTAAAAAATT
Found at i:26842421 original size:37 final size:39
Alignment explanation
Indices: 26842373--26842447 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 39
26842363 ATTTAATTTC
*
26842373 TTTTTTAAAAATTTTAAAA-AATTAAAAT-TTAAAAAATA
1 TTTTTTAAAAA-TTAAAAATAATTAAAATATTAAAAAATA
26842411 TTTTTT-AAAATTAAAAATAATTAAAATGATTAAAAAA
1 TTTTTTAAAAATTAAAAATAATTAAAAT-ATTAAAAAA
26842448 GTATAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
36 6 0.18
37 13 0.39
38 6 0.18
39 8 0.24
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (39 bp):
TTTTTTAAAAATTAAAAATAATTAAAATATTAAAAAATA
Found at i:26842740 original size:59 final size:59
Alignment explanation
Indices: 26842668--26842785 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
26842658 TTTTGTAAAG
*
26842668 TTAGAAAGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTTATTTGCCTCTAATAA
1 TTAGAAAGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTGATTTGCCTCTAATAA
*
26842727 TTAGAAGGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTGATTTGCCTCTAATAA
1 TTAGAAAGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTGATTTGCCTCTAATAA
26842786 ATTAAATACA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (59 bp):
TTAGAAAGTCAAAAATCATTTTATTTTACTTTAATTCTTAATTGATTTGCCTCTAATAA
Found at i:26846338 original size:294 final size:289
Alignment explanation
Indices: 26845799--26846373 Score: 902
Period size: 294 Copynumber: 2.0 Consensus size: 289
26845789 TAAAAACCAG
26845799 GCAGCTGCTCTGCAAGTGAACTACAATAATGAACTATTTCTAGTTGTAGACCCCAATTTGCAGCA
1 GCAGCTGCTCTGCAAGTGAACTACAATAATGAACTATTTCTAGTTGTAGACCCCAATTTGCAGCA
* *
26845864 AAAATGAGGCAATGCTGGTTCATTGAGGGGAAATGTAGTTCAAGGGGACTTAATATTAGGATTTA
66 AAAATGAGGCAATGCGGGATCATTGAGGGGAAATGTAGTTCAAGGGGACTTAATATTAGGATTTA
* * * * ** *
26845929 TTTGTTCTTTCTAGTGGTTTATGGAGAATAACTAGGGTATTTCCATTTTTTTTATAAAATGATAT
131 TTTGATCTTTCTAGTGGTTTATGGAGAATAACCAGGATATATCCATTGATTTTAGAAAATGATAT
* *
26845994 AGTACTTGCTATTTTGTCAATAAAACCGTATGGTTGCAGTTTAGAACCAACTATATCCAGATTTG
196 AGTACTTGCTATTTTGTCAATAAAACCGTATGGTTGCAGTTTAGAACCAACTATATCCAGATCTA
26846059 CAAGAATTGAAATATGTAGCTGTAATGCA
261 CAAGAATTGAAATATGTAGCTGTAATGCA
* * *
26846088 GCAGCTGTTCTGCAAGTGAACTACAATAATGAACTGTTTTTAGTTGTAGACCCCAACTTTGCAGC
1 GCAGCTGCTCTGCAAGTGAACTACAATAATGAACTATTTCTAGTTGTAGACCCCAA-TTTGCAGC
*
26846153 AAAAATGAGGCAATTG-GGGATCATTGAGGGGAAATGTAGTTCAAGGGGGCTTATATATTAGGAT
65 AAAAATGAGGCAA-TGCGGGATCATTGAGGGGAAATGTAGTTCAAGGGGACTTA-ATATTAGGAT
*
26846217 TTGTTTGATCTTTCTAGTGGTTTATGGAGGAGAATAACCAGGATATATCCA-TGATTTTAGAAAA
128 TTATTTGATCTTTCTAGTGGTTTAT---GGAGAATAACCAGGATATATCCATTGATTTTAGAAAA
* *
26846281 TGATATGGTACTTTCTATTTTTGTCAATAAAACCGTATGGTTGCAGTTTAGAACCAACTATATCC
190 TGATATAGTACTTGCTA-TTTTGTCAATAAAACCGTATGGTTGCAGTTTAGAACCAACTATATCC
*
26846346 TGATCTACAAGAATTGAAATATGTAGCT
254 AGATCTACAAGAATTGAAATATGTAGCT
26846374 CTGCACTGTC
Statistics
Matches: 260, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
289 53 0.20
290 55 0.21
291 35 0.13
293 25 0.10
294 92 0.35
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (289 bp):
GCAGCTGCTCTGCAAGTGAACTACAATAATGAACTATTTCTAGTTGTAGACCCCAATTTGCAGCA
AAAATGAGGCAATGCGGGATCATTGAGGGGAAATGTAGTTCAAGGGGACTTAATATTAGGATTTA
TTTGATCTTTCTAGTGGTTTATGGAGAATAACCAGGATATATCCATTGATTTTAGAAAATGATAT
AGTACTTGCTATTTTGTCAATAAAACCGTATGGTTGCAGTTTAGAACCAACTATATCCAGATCTA
CAAGAATTGAAATATGTAGCTGTAATGCA
Found at i:26856663 original size:48 final size:49
Alignment explanation
Indices: 26856568--26856669 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 49
26856558 TGTTGAGGTT
* * **
26856568 ATGAGAGGTCCCACCTAAGACCATGTGTGGGACATGGTGTCGGCACCGAG
1 ATGAGAGGTCCCACCTAAGA-CACGTCTGGGACATGGAATCGGCACCGAG
* *
26856618 ATGAGAGGTCCC-CCGTAAGA-ACGTCTGGGACATGGAATGGGCACCGAT
1 ATGAGAGGTCCCACC-TAAGACACGTCTGGGACATGGAATCGGCACCGAG
26856666 ATGA
1 ATGA
26856670 AAACTCCCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 26 0.58
49 2 0.04
50 17 0.38
ACGTcount: A:0.26, C:0.23, G:0.33, T:0.18
Consensus pattern (49 bp):
ATGAGAGGTCCCACCTAAGACACGTCTGGGACATGGAATCGGCACCGAG
Found at i:26856938 original size:20 final size:20
Alignment explanation
Indices: 26856913--26856951 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26856903 TGAGTTATTT
26856913 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
26856933 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
26856952 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:26862197 original size:45 final size:45
Alignment explanation
Indices: 26862122--26862284 Score: 193
Period size: 45 Copynumber: 3.6 Consensus size: 45
26862112 AGCACATAGG
* * * * * *
26862122 ACCACCCTTATAGTCAATGATACTCAGTGGAATCAGCACATAGCA
1 ACCACCTTTATAATCAATGATACCCGGTGGAATCAGCACACAACA
* * * *
26862167 ACCACCTTCATAATCAAT-AGTACCCGGTGGAATTAGGATACAACA
1 ACCACCTTTATAATCAATGA-TACCCGGTGGAATCAGCACACAACA
* *
26862212 ACCACCTTTATAATTAATGATACCTGGTGGAATCAGCACACAACA
1 ACCACCTTTATAATCAATGATACCCGGTGGAATCAGCACACAACA
*
26862257 ACCACCTTTATAATCAATGGTACCCGGT
1 ACCACCTTTATAATCAATGATACCCGGT
26862285 ACACGTAGTA
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.01
45 95 0.98
46 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (45 bp):
ACCACCTTTATAATCAATGATACCCGGTGGAATCAGCACACAACA
Found at i:26868736 original size:50 final size:49
Alignment explanation
Indices: 26868570--26868860 Score: 181
Period size: 49 Copynumber: 5.8 Consensus size: 49
26868560 GGGAATGAGA
* * **
26868570 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATTATTGAGGTTATGAGATG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACTGA---TATGA-AAC
* * * ** * *
26868626 TCCCATGTAAGACCATGTCTTGGACATGGCGTTGACACCCAGATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAAA-C
** *
26868676 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATATGA-AAC
* * * * * *
26868726 TCCCATGTAAGACCATATCTGGGATATGACATTGGCAGT-ACAGGAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAAAC
* * * * * * * *
26868774 ATCCCATGTAAGACCATATTTAGGATATGGCATTGACAGT-ACAGGAAAC
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAAAC
* * * *
26868823 ATCCCATGTAAGACCATATCTAGGAAATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26868861 TGTTATTTTC
Statistics
Matches: 196, Mismatches: 36, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.02
49 83 0.42
50 74 0.38
51 2 0.01
53 2 0.01
56 32 0.16
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAAAC
Found at i:26868791 original size:49 final size:49
Alignment explanation
Indices: 26868682--26868860 Score: 216
Period size: 49 Copynumber: 3.6 Consensus size: 49
26868672 AAGGTCCCCC
* * * * * *
26868682 GTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC-TCCCAT
1 GTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAGGA-AACATCCCAT
*
26868732 GTAAGACCATATCTGGGATATGACATTGGCAGTACAGGAAACATCCCAT
1 GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
* * *
26868781 GTAAGACCATATTTAGGATATGGCATTGACAGTACAGGAAACATCCCAT
1 GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
* * *
26868830 GTAAGACCATATCTAGGAAATGGCTTTGGCA
1 GTAAGACCATATCTGGGATATGGCATTGGCA
26868861 TGTTATTTTC
Statistics
Matches: 113, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
48 3 0.03
49 82 0.73
50 28 0.25
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (49 bp):
GTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCAT
Found at i:26869088 original size:20 final size:20
Alignment explanation
Indices: 26869063--26869101 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26869053 TGAGTTATTT
26869063 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
26869083 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
26869102 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:26872599 original size:14 final size:14
Alignment explanation
Indices: 26872582--26872611 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26872572 CATTTAGTAT
*
26872582 GTATGATCATTTTA
1 GTATAATCATTTTA
26872596 GTATAATCATTTTA
1 GTATAATCATTTTA
26872610 GT
1 GT
26872612 TTAGTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (14 bp):
GTATAATCATTTTA
Found at i:26875204 original size:21 final size:21
Alignment explanation
Indices: 26875179--26875220 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
26875169 ATGAGTATGT
*
26875179 GATTGGAATGTGATAAGTTGC
1 GATTGGAACGTGATAAGTTGC
26875200 GATTGGAACGTGATAAGTTGC
1 GATTGGAACGTGATAAGTTGC
26875221 TACGTGTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.31
Consensus pattern (21 bp):
GATTGGAACGTGATAAGTTGC
Found at i:26894777 original size:15 final size:16
Alignment explanation
Indices: 26894759--26894788 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26894749 AAAAAGAGAC
26894759 AAAAATG-GAAGAAAG
1 AAAAATGTGAAGAAAG
26894774 AAAAATGTGAAGAAA
1 AAAAATGTGAAGAAA
26894789 CAGTGGCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (16 bp):
AAAAATGTGAAGAAAG
Found at i:26895786 original size:23 final size:21
Alignment explanation
Indices: 26895724--26895788 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
26895714 TTTATTTACC
26895724 TATGTATATGTATATTATT-T
1 TATGTATATGTATATTATTAT
* * * *
26895744 TATATATATATAAATAATTAT
1 TATGTATATGTATATTATTAT
26895765 TATTGGTATATGTATATTATTAT
1 TA-T-GTATATGTATATTATTAT
26895788 T
1 T
26895789 TATATTATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
20 15 0.44
21 3 0.09
22 1 0.03
23 15 0.44
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (21 bp):
TATGTATATGTATATTATTAT
Found at i:26898928 original size:12 final size:12
Alignment explanation
Indices: 26898911--26898937 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26898901 ACAAGCCACT
26898911 AAATGGAACAGA
1 AAATGGAACAGA
26898923 AAATGGAACAGA
1 AAATGGAACAGA
26898935 AAA
1 AAA
26898938 CAAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.22, T:0.07
Consensus pattern (12 bp):
AAATGGAACAGA
Found at i:26923891 original size:19 final size:20
Alignment explanation
Indices: 26923860--26923904 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
26923850 CAATATTTCA
26923860 CTTTTTTCATTTTC-CTACT
1 CTTTTTTCATTTTCTCTACT
*
26923879 CTTTTCTTC-TTTTCTCTTCT
1 CTTTT-TTCATTTTCTCTACT
26923899 CTTTTT
1 CTTTTT
26923905 CATCCTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (20 bp):
CTTTTTTCATTTTCTCTACT
Found at i:26927590 original size:17 final size:18
Alignment explanation
Indices: 26927568--26927601 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
26927558 TAAATTGAGT
26927568 TCATCTTAG-TTAATAAC
1 TCATCTTAGATTAATAAC
26927585 TCATCTTAGATTAATAA
1 TCATCTTAGATTAATAA
26927602 ATGAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (18 bp):
TCATCTTAGATTAATAAC
Found at i:26928945 original size:17 final size:17
Alignment explanation
Indices: 26928923--26928966 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
26928913 ATTAAAAAAA
*
26928923 TAAAAATATATGAGTAT
1 TAAAAATATACGAGTAT
*
26928940 TAAAAAAATACGAGTAT
1 TAAAAATATACGAGTAT
26928957 TAAAAATATA
1 TAAAAATATA
26928967 AAAAAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (17 bp):
TAAAAATATACGAGTAT
Found at i:26929927 original size:18 final size:18
Alignment explanation
Indices: 26929906--26929950 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
26929896 GAGAGACGAG
26929906 AGAAAAAGAAATCGAAAA
1 AGAAAAAGAAATCGAAAA
* * *
26929924 AGAAGAAGACATTGAAAA
1 AGAAAAAGAAATCGAAAA
26929942 AGAAAAAGA
1 AGAAAAAGA
26929951 GAGTGAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.69, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAATCGAAAA
Found at i:26931821 original size:17 final size:18
Alignment explanation
Indices: 26931799--26931832 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
26931789 TAAATTGAGT
26931799 TCATCTTAG-TTAATAAC
1 TCATCTTAGATTAATAAC
26931816 TCATCTTAGATTAATAA
1 TCATCTTAGATTAATAA
26931833 ATGAGTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (18 bp):
TCATCTTAGATTAATAAC
Found at i:26935659 original size:829 final size:826
Alignment explanation
Indices: 26934502--26936937 Score: 3621
Period size: 829 Copynumber: 2.9 Consensus size: 826
26934492 ATGCTTATAC
* * *
26934502 ATGGTTGATTTCATATATATAAGAATAAGTATGCTAACTTGTGAGTTTTGATGATTTTGTATAGG
1 ATGGTTGATTTCATATATATATGAATAAGTATGATAACTTGTGAGTTTTGATGATTTTTTATAGG
*
26934567 CTTATGCCAAGCTTATGGTTTTTGTTGATATTGTACTTATGCTTTATATTTTGCAAATGAAATAG
66 CTTATGCCAAGCTTATGGTTTTTGTTGATATTATACTTATGCTTTATATTTTGCAAATGAAATAG
* * * * *
26934632 TAACTTAAATTTTGGTTTATACAAGCTTACTAAGCACTTGTTCCTTACGTAGTTATTTTCCTTTG
131 TAAGTTAAGTTTTGGTTTATACAAGCTTACTAAGCACTTGTTGCTTACGTAGTT-GTTTCCCTTG
* *
26934697 TTTTATAGATTTTCGAAAGCTCGATTTGGTTGGAAGCTCGTCAGAGACCTATTACACTATCCAGT
195 TTTTATAGATTTTCGAAAGCTCGATTTGGTTGGAAGCTCGTCAAAGACCTATCACACTATCCAGT
* * ** *
26934762 CGTCAATTCGGTAGTTTTTGAGCATTTTAGCCAAGGTTTATAATGGCATGTATTTGGTGCTTTGT
260 AGTCAATTCGGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGGTGTTTTGT
** * *
26934827 AATGGTATTTTGATGAATGTATTGTTGTTGTTTTGGTATGTCTAAGTTTTGAAAGTTATGTTTGT
325 AATGGTATTTTGATGAATGTATTAATGTTGTTTTGGCATGTATAAGTTTTGAAAGTTATGTTTGT
* * * *
26934892 TTGGCACTATTTGATTCCTTGTCAAAATATGTTAATTTGATTACCTTATTATTCATGTTTAGAAG
390 TTGGTACTATTTGATGCCTTGTCAAAATATGTTATTTTGATTACCTTATTATTCATGTTTATAAG
26934957 GCTTTGTTTTATGGTATGTTTTGCATGGTTTGAAAATGATTATAAGTGGTATGTTTTAGTAACTA
455 GCTTTGTTTTATGGTATGTTTTGCATGGTTTGAAAATGATTATAAGTGGTATGTTTTAGTAACTA
*
26935022 GTTGGAATAGGTTATCATGTTTGAAATGGTACAATATTGACATGTTTTGATAGTTGTTGCTTTGG
520 GTTGGAATAGGTTATCATGTGTGAAATGGTACAATATTGACATGTTTTGATAGTTGTTG-TTTGG
** * * *
26935087 AATAATGTGGTGCCACTGAACGGCATATTGGTTATTTGAGATAGGATCTTGAAATGACATTTTGA
584 AATAATGTGGTGCCTTTGAATGGCATATTGGTTAGTTGAAATAGGATCTTGAAATGACATTTTGA
26935152 TGTGTATATAGGTGATGTTTAGGTCCCTTTGAAGTGTGCATGAATGGGTTGAAAAGTTATGCATG
649 TGTGTATATAGGTGATGTTTAGGTCCCTTTGAAGTGTGCATGAATGGGTTGAAAAGTTATGCATG
*
26935217 GAATGGTTTTAGGATGGCTTGATTTTAGGTAATTTTGGGTGCACACGGCCTGAGACACGGGTATG
714 GAATGGTTTTAGGATGGCTTGATTTTAGGTAATTTTGGGTGCACAAGGCCTGAGACACGGGTATG
* * *
26935282 TGAGGCACACGGC-ATGGCGACATGGCCGTGTGACATATGGGGATTTCTT
779 TGACGCACACGGCTAAGGC-ACACGGCCGTGTGACATATGGGGATTT-TT
26935331 ATGGTTGATTTCATATATATATGAATAAGTATGATAACTTGTGAGTTTTGATGATTTTTTATAGG
1 ATGGTTGATTTCATATATATATGAATAAGTATGATAACTTGTGAGTTTTGATGATTTTTTATAGG
26935396 CTTATGCCAAGCTTATGGTTTTTGTTGATATTATACTTATGCTTTATATTTTGCAAATGAAATAG
66 CTTATGCCAAGCTTATGGTTTTTGTTGATATTATACTTATGCTTTATATTTTGCAAATGAAATAG
* * * *
26935461 TAAGTGAAGTTTTCGTTTATACAAGCTTACTAAGTACTTGTTGCTTACGTTGTTGTTATCCCATT
131 TAAGTTAAGTTTTGGTTTATACAAGCTTACTAAGCACTTGTTGCTTACGTAGTTGTT-TCCC-TT
* * *
26935526 -TTTTATAGATTTTCGAAAGCTCAATTTGGTTGGAAGCTTGTCAAAGACCTATCACACTATCTAG
194 GTTTTATAGATTTTCGAAAGCTCGATTTGGTTGGAAGCTCGTCAAAGACCTATCACACTATCCAG
* *
26935590 TAGTCAATTCAGTAGCTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGGT-TTTAT
259 TAGTCAATTCGGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGGTGTTT-T
*
26935654 GTAATGGTATTTTGATGAATGTATTAATGTTGTTTTGGCATGTATAAGTTTTGAAAGTTAT-ATT
323 GTAATGGTATTTTGATGAATGTATTAATGTTGTTTTGGCATGTATAAGTTTTGAAAGTTATGTTT
* *
26935718 GATTTGGTACTATTTGATGCCTTGTCAAAATGTGTTATTTTGATTACATTATTATT-ACTGTTTA
388 G-TTTGGTACTATTTGATGCCTTGTCAAAATATGTTATTTTGATTACCTTATTATTCA-TGTTTA
* *
26935782 TAAGGCTTTGTTTTATGGTATGTTTTGCATGGTTTGAAAATGATTATAAGTTGTATGTCTTAGTA
451 TAAGGCTTTGTTTTATGGTATGTTTTGCATGGTTTGAAAATGATTATAAGTGGTATGTTTTAGTA
*
26935847 ACTAGTTGGAATAGGTTATCATATGTGAAATGGTACAATATTGACATGTTTTGATAGTTGTTGTT
516 ACTAGTTGGAATAGGTTATCATGTGTGAAATGGTACAATATTGACATGTTTTGATAGTTGTTGTT
* *
26935912 TCGGAATAATGTGGTGCCTTTGAGTGGCATATTGGTTAGTTCAAATAGGATCTTGAAATGACATT
581 T-GGAATAATGTGGTGCCTTTGAATGGCATATTGGTTAGTTGAAATAGGATCTTGAAATGACATT
* * *
26935977 TTGATGTGTATTTAGGTGATGTTTAGGTCCCTTTGAGGTGTGCATGAATGGGTTG---AG-CATG
645 TTGATGTGTATATAGGTGATGTTTAGGTCCCTTTGAAGTGTGCATGAATGGGTTGAAAAGTTATG
*
26936038 CATGGAATGGTTTTTA-GATGGCTTGATTTTAGGTAA-TTT--GTGCACAAGGCCTGAGACACGA
710 CATGGAATGG-TTTTAGGATGGCTTGATTTTAGGTAATTTTGGGTGCACAAGGCCTGAGACACGG
* * ** * *
26936099 GTGTGTGACTCATTCGTCTAAGGCACACGGCCGTGTGACATCTGGGGATTTTT
774 GTATGTGACGCACACGGCTAAGGCACACGGCCGTGTGACATATGGGGATTTTT
* *
26936152 ATGGTTGATTTCATATATATATATATATATATGAATAAGTACACTAACTTGTGAGTTTTGATGAT
1 ATGGTTGATTTCATATATATAT-GA-ATA-A-G--T-A-T-GA-TAACTTGTGAGTTTTGATGAT
* * * *
26936217 TTTATT-TACGCTTATGCCAAGCTTATGCTTTTTGTTGATATTATTCTTATGTTTTATATTTTGC
56 TTT-TTATAGGCTTATGCCAAGCTTATGGTTTTTGTTGATATTATACTTATGCTTTATATTTTGC
* * *
26936281 AAATGAAATAGTAGGTTAAGTTTTGGTTTATACGAGCTTACTAAGCACTCGTTGCTTACGTAGTT
120 AAATGAAATAGTAAGTTAAGTTTTGGTTTATACAAGCTTACTAAGCACTTGTTGCTTACGTAGTT
* * * *
26936346 GTTTTCCCTTGTTTTATAGCTTTTTGGAAA-CTCGATTTGGTTGAAAGCTCGTCGAAGACCTATC
185 G-TTTCCCTTGTTTTATAG-ATTTTCGAAAGCTCGATTTGGTTGGAAGCTCGTCAAAGACCTATC
* * *
26936410 ACACTATCCAATAGTCAATTCGGTAGTTTTTGAGCATTTTGGCCAAGGCTTATAATGGCATGTGT
248 ACACTATCCAGTAGTCAATTCGGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTAT
*
26936475 AGGGTGTTTTGTAATGGTATTTTGATGAATGTATTAAAT-TTGTTTTGGCATGTATACGTTTTGA
313 AGGGTGTTTTGTAATGGTATTTTGATGAATGTATT-AATGTTGTTTTGGCATGTATAAGTTTTGA
* * *
26936539 AAGTTATGTTGGTTTAGTACCATTTGATGCCTTGTCAAAATATGTTATTTTGATTACCTTATTAT
377 AAGTTATGTTTGTTTGGTACTATTTGATGCCTTGTCAAAATATGTTATTTTGATTACCTTATTAT
* *
26936604 GCATGTTTATAAGGATTTGTTTTATGGTATGTTTTGCATGGTTTGAAAATGATTATAAGTGGTAT
442 TCATGTTTATAAGGCTTTGTTTTATGGTATGTTTTGCATGGTTTGAAAATGATTATAAGTGGTAT
26936669 GTTTTAGTAACTAGTTGGAATAGGTTATCATGTGTGAAATGGTACAATATTGACATGTTTTGATA
507 GTTTTAGTAACTAGTTGGAATAGGTTATCATGTGTGAAATGGTACAATATTGACATGTTTTGATA
* *
26936734 GTTTTTGTTTTGGAATAACT-TGGTGCCTTTGAATGGCATATTCGTTAGTTGAAATAGGATCTTG
572 GTTGTTG-TTTGGAATAA-TGTGGTGCCTTTGAATGGCATATTGGTTAGTTGAAATAGGATCTTG
* * ** * *
26936798 AACTGAAATTTTGATGTGTATATAGGTGATGTTTTTGTCCCTTTAAAGTGTGCGTGAATGGGTTG
635 AAATGACATTTTGATGTGTATATAGGTGATGTTTAGGTCCCTTTGAAGTGTGCATGAATGGGTTG
** * * *
26936863 AAAAGTTATTAATGGAATGGTTTT-GTGATGGCTTGCTTTTAGGTAATTTTGGGTTCACATGGCC
700 AAAAGTTATGCATGGAATGGTTTTAG-GATGGCTTGATTTTAGGTAATTTTGGGTGCACAAGGCC
*
26936927 TAAGACACGGG
764 TGAGACACGGG
26936938 CGTGTGACTC
Statistics
Matches: 1452, Mismatches: 118, Indels: 65
0.89 0.07 0.04
Matches are distributed among these distances:
821 24 0.02
822 58 0.04
823 7 0.00
824 4 0.00
825 34 0.02
826 7 0.00
827 1 0.00
828 12 0.01
829 634 0.44
830 5 0.00
831 583 0.40
832 25 0.02
834 6 0.00
835 30 0.02
836 3 0.00
838 19 0.01
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (826 bp):
ATGGTTGATTTCATATATATATGAATAAGTATGATAACTTGTGAGTTTTGATGATTTTTTATAGG
CTTATGCCAAGCTTATGGTTTTTGTTGATATTATACTTATGCTTTATATTTTGCAAATGAAATAG
TAAGTTAAGTTTTGGTTTATACAAGCTTACTAAGCACTTGTTGCTTACGTAGTTGTTTCCCTTGT
TTTATAGATTTTCGAAAGCTCGATTTGGTTGGAAGCTCGTCAAAGACCTATCACACTATCCAGTA
GTCAATTCGGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGGTGTTTTGTA
ATGGTATTTTGATGAATGTATTAATGTTGTTTTGGCATGTATAAGTTTTGAAAGTTATGTTTGTT
TGGTACTATTTGATGCCTTGTCAAAATATGTTATTTTGATTACCTTATTATTCATGTTTATAAGG
CTTTGTTTTATGGTATGTTTTGCATGGTTTGAAAATGATTATAAGTGGTATGTTTTAGTAACTAG
TTGGAATAGGTTATCATGTGTGAAATGGTACAATATTGACATGTTTTGATAGTTGTTGTTTGGAA
TAATGTGGTGCCTTTGAATGGCATATTGGTTAGTTGAAATAGGATCTTGAAATGACATTTTGATG
TGTATATAGGTGATGTTTAGGTCCCTTTGAAGTGTGCATGAATGGGTTGAAAAGTTATGCATGGA
ATGGTTTTAGGATGGCTTGATTTTAGGTAATTTTGGGTGCACAAGGCCTGAGACACGGGTATGTG
ACGCACACGGCTAAGGCACACGGCCGTGTGACATATGGGGATTTTT
Found at i:26947289 original size:20 final size:19
Alignment explanation
Indices: 26947259--26947310 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
26947249 TATCAATTCA
26947259 AATATTAAAAAAAATTAAAT
1 AATATT-AAAAAAATTAAAT
* *
26947279 AATAATTAAAAAATTTATAT
1 AAT-ATTAAAAAAATTAAAT
*
26947299 CATATTAAAAAA
1 AATATTAAAAAA
26947311 TCGATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.32
20 16 0.57
21 3 0.11
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATTAAAAAAATTAAAT
Found at i:26947291 original size:19 final size:18
Alignment explanation
Indices: 26947267--26947311 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
26947257 CAAATATTAA
26947267 AAAAAATTAAATAATAATT
1 AAAAAATTAAATAAT-ATT
* *
26947286 AAAAAATTTATATCATATT
1 AAAAAA-TTAAATAATATT
26947305 AAAAAAT
1 AAAAAAT
26947312 CGATATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAAATTAAATAATATT
Found at i:26949375 original size:27 final size:26
Alignment explanation
Indices: 26949335--26949385 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
26949325 TCATATTGGT
*
26949335 AAATAGAATGTGTAAGAAAATGTGATG
1 AAATAGAATATGTAAGAAAA-GTGATG
* *
26949362 AAATAGTATATGTATGAAAAGTGA
1 AAATAGAATATGTAAGAAAAGTGA
26949386 AAGAGAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (26 bp):
AAATAGAATATGTAAGAAAAGTGATG
Found at i:26955962 original size:14 final size:14
Alignment explanation
Indices: 26955943--26955969 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26955933 ATTACCACAG
26955943 GTGGATTGGTATTT
1 GTGGATTGGTATTT
26955957 GTGGATTGGTATT
1 GTGGATTGGTATT
26955970 CATTGTTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (14 bp):
GTGGATTGGTATTT
Found at i:26967767 original size:178 final size:178
Alignment explanation
Indices: 26967468--26967825 Score: 608
Period size: 178 Copynumber: 2.0 Consensus size: 178
26967458 TTGCTATAAA
*
26967468 CATCATTTCTTGATTCACCACACATTTTTAGCTATAAAATAGAAACATTTTATAATCAACATCAA
1 CATCATTTCTTGATTCACCACACATTTTCAGCTATAAAATAGAAACATTTTATAATCAACATCAA
* * * * *
26967533 AATCCTGACTCAACTCGAATTAACTTGGCATGTACCTCTAAACTTAATTCTGAACTTGATTTTAG
66 AATCCCGACTCAACTCGAATCAACTTGGCATATACCTCTAAACTCAATTCTGAACTTCATTTTAG
* *
26967598 TCCAAGAATCGGCTAAACCAATAGCTCTGACACCATTAACTGTAACAC
131 TCCAAGAATCAGCTAAACCAATAGCTCTGACACCATTAAATGTAACAC
* *
26967646 CATCATTTCTTGATTCACCACACATTTTCAGCTATACAATAGAAACATTTTATAATCAACATCCA
1 CATCATTTCTTGATTCACCACACATTTTCAGCTATAAAATAGAAACATTTTATAATCAACATCAA
*
26967711 AATCCCGACTCAACTCGAATCAACTTGGCATATACCTCTAGACTCAATTCTGAACTTCATTTTAG
66 AATCCCGACTCAACTCGAATCAACTTGGCATATACCTCTAAACTCAATTCTGAACTTCATTTTAG
*
26967776 TCCAAGAATTAGCTAAACCAATAGCTCTGACACCATTAAATGTAACAC
131 TCCAAGAATCAGCTAAACCAATAGCTCTGACACCATTAAATGTAACAC
26967824 CA
1 CA
26967826 CATACCCGAC
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
178 168 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (178 bp):
CATCATTTCTTGATTCACCACACATTTTCAGCTATAAAATAGAAACATTTTATAATCAACATCAA
AATCCCGACTCAACTCGAATCAACTTGGCATATACCTCTAAACTCAATTCTGAACTTCATTTTAG
TCCAAGAATCAGCTAAACCAATAGCTCTGACACCATTAAATGTAACAC
Found at i:26968394 original size:21 final size:20
Alignment explanation
Indices: 26968353--26968397 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
26968343 CCTTATCAAT
* *
26968353 CATAACTTAAACAACTAATG
1 CATAACTTAAAAAAATAATG
*
26968373 CATAACATTAAAAAAATTATG
1 CATAAC-TTAAAAAAATAATG
26968394 CATA
1 CATA
26968398 CATACCTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (20 bp):
CATAACTTAAAAAAATAATG
Found at i:26978616 original size:27 final size:27
Alignment explanation
Indices: 26978586--26978664 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
26978576 CTCAATCTTT
26978586 GACTAACGAACCCCAGTTCGCCAA-ACA
1 GACTAACGAACCCCAGTTCG-CAACACA
* * *
26978613 GACTAACAAAACCCCAGGTCGCAACTCA
1 GACTAAC-GAACCCCAGTTCGCAACACA
* *
26978641 -ACTAGCGAACCCTCAGTTCACAAC
1 GACTAACGAACCC-CAGTTCGCAAC
26978665 TTACTTAGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 5 0.12
27 24 0.57
28 13 0.31
ACGTcount: A:0.37, C:0.37, G:0.14, T:0.13
Consensus pattern (27 bp):
GACTAACGAACCCCAGTTCGCAACACA
Found at i:26978817 original size:16 final size:16
Alignment explanation
Indices: 26978796--26978840 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
26978786 CTGATACACT
26978796 TTTGGCGAACTCCCCC
1 TTTGGCGAACTCCCCC
*
26978812 TTTGGCGAACTCCCCT
1 TTTGGCGAACTCCCCC
26978828 TTTGGCGAACTCC
1 TTTGGCGAACTCC
26978841 TCAGTTCGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.13, C:0.38, G:0.20, T:0.29
Consensus pattern (16 bp):
TTTGGCGAACTCCCCC
Found at i:26979233 original size:4 final size:4
Alignment explanation
Indices: 26979224--26979251 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
26979214 TTAACTTATG
26979224 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
26979252 TGAAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:26985524 original size:20 final size:21
Alignment explanation
Indices: 26985489--26985532 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
26985479 TTAAACACAT
26985489 AATTTAATCTATTTTTAAATA
1 AATTTAATCTATTTTTAAATA
*
26985510 AATTTAATTTA-TTTTAAATA
1 AATTTAATCTATTTTTAAATA
26985530 AAT
1 AAT
26985533 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTAATCTATTTTTAAATA
Found at i:27010449 original size:21 final size:23
Alignment explanation
Indices: 27010402--27010450 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
27010392 TAAATTGACT
**
27010402 TTTAATTTTTTATCATAATTATT
1 TTTAATTTTTTATCATAATTACA
*
27010425 TTTAA-TTTTTCT-ATAATTACA
1 TTTAATTTTTTATCATAATTACA
27010446 TTTAA
1 TTTAA
27010451 AATTAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 12 0.52
22 6 0.26
23 5 0.22
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTAATTTTTTATCATAATTACA
Found at i:27016403 original size:3 final size:3
Alignment explanation
Indices: 27016395--27016421 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27016385 TCTATTTCTC
27016395 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
27016422 TATTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27016905 original size:10 final size:10
Alignment explanation
Indices: 27016890--27016936 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
27016880 AAGAAATATT
27016890 TTAAAAAATC
1 TTAAAAAATC
27016900 TTAAAAAAT-
1 TTAAAAAATC
27016909 TTAAAAAATC
1 TTAAAAAATC
* *
27016919 ATAAATAAATA
1 TTAAA-AAATC
27016930 TTAAAAA
1 TTAAAAA
27016937 TTATGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 9 0.28
10 15 0.47
11 8 0.25
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (10 bp):
TTAAAAAATC
Found at i:27016915 original size:20 final size:20
Alignment explanation
Indices: 27016889--27016936 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
27016879 CAAGAAATAT
*
27016889 TTTAAAAAATCTTAAA-AAA
1 TTTAAAAAATCATAAATAAA
27016908 TTTAAAAAATCATAAATAAA
1 TTTAAAAAATCATAAATAAA
27016928 TATTAAAAA
1 T-TTAAAAA
27016937 TTATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.58
20 4 0.15
21 7 0.27
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
TTTAAAAAATCATAAATAAA
Found at i:27016934 original size:11 final size:10
Alignment explanation
Indices: 27016890--27016947 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
27016880 AAGAAATATT
*
27016890 TTAAAAAATC
1 TTAAAAAATA
27016900 TTAAAAAAT-
1 TTAAAAAATA
27016909 TTAAAAAATCA
1 TTAAAAAAT-A
27016920 -TAAATAAATA
1 TTAAA-AAATA
*
27016930 TTAAAAATTA
1 TTAAAAAATA
*
27016940 TGAAAAAA
1 TTAAAAAA
27016948 ACTCTTCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 9 0.22
10 24 0.59
11 8 0.20
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:27017757 original size:117 final size:117
Alignment explanation
Indices: 27017567--27017800 Score: 459
Period size: 117 Copynumber: 2.0 Consensus size: 117
27017557 ATTAATCTTT
27017567 TATATACGGGTTAGCTTCTTTGCTTACTAGTTGCTTCAATTATCTTCTAATTCTTGTTACATGTA
1 TATATACGGGTTAGCTTCTTTGCTTACTAGTTGCTTCAATTATCTTCTAATTCTTGTTACATGTA
27017632 TTTTGAAATTAAAAAAAACTATTAAATGTAAAAATGTTATTTTTTAATAAAA
66 TTTTGAAATTAAAAAAAACTATTAAATGTAAAAATGTTATTTTTTAATAAAA
*
27017684 TATATACGGGTTAGCTTCTTTGCTTACTAGTTGCTTCAATTATCTTCTAATTCTTGTTACGTGTA
1 TATATACGGGTTAGCTTCTTTGCTTACTAGTTGCTTCAATTATCTTCTAATTCTTGTTACATGTA
27017749 TTTTGAAATTAAAAAAAACTATTAAATGTAAAAATGTTATTTTTTAATAAAA
66 TTTTGAAATTAAAAAAAACTATTAAATGTAAAAATGTTATTTTTTAATAAAA
27017801 GTTATTTTAA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (117 bp):
TATATACGGGTTAGCTTCTTTGCTTACTAGTTGCTTCAATTATCTTCTAATTCTTGTTACATGTA
TTTTGAAATTAAAAAAAACTATTAAATGTAAAAATGTTATTTTTTAATAAAA
Found at i:27018128 original size:22 final size:21
Alignment explanation
Indices: 27018082--27018138 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
27018072 GGGTGAGAAG
27018082 TAAAAG-TTT-AGGGGGAAAA
1 TAAAAGTTTTGAGGGGGAAAA
*
27018101 TAAAAAGTTTTGAGGGAGTAAAA
1 T-AAAAGTTTTGAGGG-GGAAAA
27018124 TAAAAGTTTTGAGGG
1 TAAAAGTTTTGAGGG
27018139 TTTTGGGAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 1 0.03
20 5 0.15
21 3 0.09
22 18 0.55
23 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (21 bp):
TAAAAGTTTTGAGGGGGAAAA
Found at i:27023100 original size:16 final size:15
Alignment explanation
Indices: 27023064--27023102 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27023054 TAAAGAGAGC
*
27023064 TAATGTTCATGTATG
1 TAATGTGCATGTATG
27023079 TAAATGTGCATGTATGG
1 T-AATGTGCATGTAT-G
27023096 TAATGTG
1 TAATGTG
27023103 ATAAGCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (15 bp):
TAATGTGCATGTATG
Found at i:27030236 original size:22 final size:22
Alignment explanation
Indices: 27030210--27030254 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27030200 AACAAATAAC
27030210 TTAGGTATATGCTCATAACCAA
1 TTAGGTATATGCTCATAACCAA
27030232 TTAGGTATATGCTCATAACCAA
1 TTAGGTATATGCTCATAACCAA
27030254 T
1 T
27030255 CACTTGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (22 bp):
TTAGGTATATGCTCATAACCAA
Found at i:27034287 original size:20 final size:20
Alignment explanation
Indices: 27034262--27034299 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27034252 CCTATGATTG
*
27034262 ATTAAATCACTAATTATCTA
1 ATTAAATAACTAATTATCTA
*
27034282 ATTAAATAATTAATTATC
1 ATTAAATAACTAATTATC
27034300 CTAAATTGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAAATAACTAATTATCTA
Found at i:27034674 original size:21 final size:21
Alignment explanation
Indices: 27034640--27034680 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27034630 AATGCTAATT
*
27034640 AATAAAGTTAATGAAAATATA
1 AATAAAGCTAATGAAAATATA
* *
27034661 AATAAAGCTCATGAACATAT
1 AATAAAGCTAATGAAAATAT
27034681 TGAATTGCGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (21 bp):
AATAAAGCTAATGAAAATATA
Found at i:27035863 original size:17 final size:16
Alignment explanation
Indices: 27035829--27035867 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
27035819 AACATCAATT
*
27035829 AATCTAATTAACCTAAA
1 AATC-AATTAAACTAAA
27035846 AATCAATTAAACTAAA
1 AATCAATTAAACTAAA
27035862 AATCAA
1 AATCAA
27035868 CCAATTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (16 bp):
AATCAATTAAACTAAA
Found at i:27045590 original size:22 final size:22
Alignment explanation
Indices: 27045565--27045896 Score: 402
Period size: 22 Copynumber: 15.2 Consensus size: 22
27045555 AGCAATTATC
**
27045565 CAACATTCAGACAGCATTTAAT
1 CAACATTTGGACAGCATTTAAT
* * *
27045587 CAACAATTGGATAGCATTAAAT
1 CAACATTTGGACAGCATTTAAT
*
27045609 CAACATTTGGACAACATTTAAT
1 CAACATTTGGACAGCATTTAAT
* *
27045631 CAACAATTGGACAGCATTCAAT
1 CAACATTTGGACAGCATTTAAT
*
27045653 CAATATTTGGACAGCATTTAAT
1 CAACATTTGGACAGCATTTAAT
* * *
27045675 CAACATCTGGACAACATTAAAT
1 CAACATTTGGACAGCATTTAAT
27045697 CAACATTTGGACAGCATTTAAT
1 CAACATTTGGACAGCATTTAAT
* * *
27045719 CAACAATTGGACATCATTCAAT
1 CAACATTTGGACAGCATTTAAT
*
27045741 CAATATTTGGACAGCATTTAAT
1 CAACATTTGGACAGCATTTAAT
*
27045763 CAACAATTGGACAGC----AAT
1 CAACATTTGGACAGCATTTAAT
* *
27045781 CAATATTTGGACAACATTTAAT
1 CAACATTTGGACAGCATTTAAT
* *
27045803 CAACAATTGGACAGCATTAAAT
1 CAACATTTGGACAGCATTTAAT
*
27045825 CAACATTTGGACAACATTTTAAT
1 CAACATTTGGACAGCA-TTTAAT
* *
27045848 CAACAATTGGACAGCATTCAAT
1 CAACATTTGGACAGCATTTAAT
*
27045870 CAATATTTGGACAGCATTTAAT
1 CAACATTTGGACAGCATTTAAT
27045892 CAACA
1 CAACA
27045897 ATTTTTACTT
Statistics
Matches: 257, Mismatches: 48, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
18 15 0.06
22 223 0.87
23 19 0.07
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (22 bp):
CAACATTTGGACAGCATTTAAT
Found at i:27045613 original size:44 final size:44
Alignment explanation
Indices: 27045565--27045899 Score: 482
Period size: 44 Copynumber: 7.7 Consensus size: 44
27045555 AGCAATTATC
** *
27045565 CAACATTCAGACAGCATTTAATCAACAATTGGATAGCATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
27045609 CAACATTTGGACAACATTTAATCAACAATTGGACAGCATTCAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
27045653 CAATATTTGGACAGCATTTAATCAAC-ATCTGGACAACATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAAT-TGGACAGCATTAAAT
* *
27045697 CAACATTTGGACAGCATTTAATCAACAATTGGACATCATTCAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
*
27045741 CAATATTTGGACAGCATTTAATCAACAATTGGACAGC----AAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
27045781 CAATATTTGGACAACATTTAATCAACAATTGGACAGCATTAAAT
1 CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
* *
27045825 CAACATTTGGACAACATTTTAATCAACAATTGGACAGCATTCAAT
1 CAACATTTGGACAGCA-TTTAATCAACAATTGGACAGCATTAAAT
*
27045870 CAATATTTGGACAGCATTTAATCAACAATT
1 CAACATTTGGACAGCATTTAATCAACAATT
27045900 TTTACTTCAA
Statistics
Matches: 265, Mismatches: 19, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
40 39 0.15
43 2 0.01
44 181 0.68
45 43 0.16
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (44 bp):
CAACATTTGGACAGCATTTAATCAACAATTGGACAGCATTAAAT
Found at i:27046647 original size:43 final size:42
Alignment explanation
Indices: 27046581--27046739 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
27046571 AGCTCGTACA
* * * *
27046581 ATGCCAACGTCCCAAAC-GTGGTCTTTCATGTAATCAAACAACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTAATCAAA-AACG
* * *
27046624 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAAAACG
* * * * *
27046666 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCTCAAATCA
1 ATGCCAATGTCCCAGACAGGGTCTTACACGT-AATC-AAAAACG
* *
27046710 AGGCCAACGTCCCAGAC-GTGGTCTTACACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACG
27046740 ACATCACATT
Statistics
Matches: 93, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 31 0.33
43 34 0.37
44 28 0.30
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAAAACG
Found at i:27049150 original size:19 final size:18
Alignment explanation
Indices: 27049123--27049161 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
27049113 AATCATGTAC
27049123 AAAAGATGAAAAACATAAA
1 AAAAGATGAAAAACA-AAA
*
27049142 AAAATATGAAAAACAAAA
1 AAAAGATGAAAAACAAAA
27049160 AA
1 AA
27049162 GAAAGTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (18 bp):
AAAAGATGAAAAACAAAA
Found at i:27049562 original size:15 final size:15
Alignment explanation
Indices: 27049542--27049571 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27049532 ATTTAAGATC
27049542 CTTTAATAGAAATTG
1 CTTTAATAGAAATTG
27049557 CTTTAATAGAAATTG
1 CTTTAATAGAAATTG
27049572 TGAATAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (15 bp):
CTTTAATAGAAATTG
Found at i:27050629 original size:80 final size:80
Alignment explanation
Indices: 27050494--27050658 Score: 244
Period size: 80 Copynumber: 2.1 Consensus size: 80
27050484 TAGAAGTGCG
* * *
27050494 TGCAAGTAAAATGCTTGGCTCCTTATAAAATAGAGTAATGATACTTTTAACCCTCTGATAATTAA
1 TGCAATTAAAATGCTTGGCCCCTTATAAAATAGAGTAATGATACTTTTAACCCTCTAATAATTAA
27050559 TAATTTAATTTAATT
66 TAATTTAATTTAATT
* *
27050574 TGCAATTAAAAGTGCTT-GCCCCTTATAAAATAGAGTAATGGTACTTTTAATCCTCTAATAATTA
1 TGCAATTAAAA-TGCTTGGCCCCTTATAAAATAGAGTAATGATACTTTTAACCCTCTAATAATTA
* *
27050638 ATAATTTGATTTTATT
65 ATAATTTAATTTAATT
27050654 T-CAAT
1 TGCAAT
27050659 CTAACTCTTA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 4 0.05
80 68 0.88
81 5 0.06
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (80 bp):
TGCAATTAAAATGCTTGGCCCCTTATAAAATAGAGTAATGATACTTTTAACCCTCTAATAATTAA
TAATTTAATTTAATT
Found at i:27052692 original size:13 final size:12
Alignment explanation
Indices: 27052670--27052699 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
27052660 AAATCAATTT
27052670 TAAATTTTTATA
1 TAAATTTTTATA
27052682 TAAATTTTT-TA
1 TAAATTTTTATA
27052693 TAAATTT
1 TAAATTT
27052700 ATTACATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATTTTTATA
Found at i:27052845 original size:44 final size:45
Alignment explanation
Indices: 27052796--27052885 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
27052786 ATTTAATCAG
*
27052796 GGAAATAGGTCA-TTTTTAGGAGAGAGAAACAAAAAGCACGTCCA
1 GGAAATAGATCATTTTTTAGGAGAGAGAAACAAAAAGCACGTCCA
27052840 GGAAATAGATCATTTTTTAGGAGAGAGAAACAAAAAGCACGTCCA
1 GGAAATAGATCATTTTTTAGGAGAGAGAAACAAAAAGCACGTCCA
27052885 G
1 G
27052886 CTTTTTGTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 11 0.25
45 33 0.75
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.19
Consensus pattern (45 bp):
GGAAATAGATCATTTTTTAGGAGAGAGAAACAAAAAGCACGTCCA
Found at i:27057169 original size:25 final size:25
Alignment explanation
Indices: 27057135--27057188 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
27057125 TATGACCTCC
27057135 TCGAAATTATCCTTCAACTAGCTCA
1 TCGAAATTATCCTTCAACTAGCTCA
*
27057160 TCGAAATTATCCTTCAACTAGTTCA
1 TCGAAATTATCCTTCAACTAGCTCA
27057185 TCGA
1 TCGA
27057189 TATCCGACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (25 bp):
TCGAAATTATCCTTCAACTAGCTCA
Found at i:27057810 original size:19 final size:19
Alignment explanation
Indices: 27057788--27057833 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27057778 GTTGAGAGGC
* *
27057788 TTGAGAGGGTTTGAGAAAG
1 TTGAGAGAGTTTAAGAAAG
*
27057807 TTGAGAGAGTTTAAGAGAG
1 TTGAGAGAGTTTAAGAAAG
*
27057826 CTGAGAGA
1 TTGAGAGA
27057834 ATGATGTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (19 bp):
TTGAGAGAGTTTAAGAAAG
Found at i:27057832 original size:9 final size:9
Alignment explanation
Indices: 27057771--27057833 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
27057761 ACAATCAAAA
27057771 TGAGAGAGT
1 TGAGAGAGT
27057780 TGAGAG-GCT
1 TGAGAGAG-T
*
27057789 TGAGAGGGTT
1 TGAGAGAG-T
*
27057799 TGAGAAAGT
1 TGAGAGAGT
27057808 TGAGAGAGTT
1 TGAGAGAG-T
* *
27057818 TAAGAGAGC
1 TGAGAGAGT
27057827 TGAGAGA
1 TGAGAGA
27057834 ATGATGTGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
8 1 0.02
9 27 0.61
10 16 0.36
ACGTcount: A:0.33, C:0.03, G:0.41, T:0.22
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:27058143 original size:28 final size:29
Alignment explanation
Indices: 27058087--27058145 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
27058077 ACCTATTTCT
* * *
27058087 CTAATTAATTTTAAAATCGGCCTAAAGGC
1 CTAATTAATTTAAAAAACAGCCTAAAGGC
*
27058116 CTAATTAA-TTAAAAAACAGCCTATAGGC
1 CTAATTAATTTAAAAAACAGCCTAAAGGC
27058144 CT
1 CT
27058146 TATTTTGCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (29 bp):
CTAATTAATTTAAAAAACAGCCTAAAGGC
Found at i:27058540 original size:22 final size:22
Alignment explanation
Indices: 27058513--27058565 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
27058503 TTCAGTGCCA
27058513 GTTTTTAAAATTAGGGTTCTTT-
1 GTTTTTAAAATTAGGGTT-TTTG
**
27058535 GTTTTTAAGGTTAGGGTTTTTG
1 GTTTTTAAAATTAGGGTTTTTG
*
27058557 GTATTTAAA
1 GTTTTTAAA
27058566 GTATGGTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.53
Consensus pattern (22 bp):
GTTTTTAAAATTAGGGTTTTTG
Found at i:27060442 original size:56 final size:56
Alignment explanation
Indices: 27060352--27060459 Score: 198
Period size: 56 Copynumber: 1.9 Consensus size: 56
27060342 ATCATCAGAG
*
27060352 GATGGGTTGGAGTTTGCAAAACTACTACACAGAAGGTCGGGCCACGCGAGTTAGAT
1 GATGGGTTGGAGTTTGCAAAACTACTACACAGAAGGTCAGGCCACGCGAGTTAGAT
*
27060408 GATGGGTTGGAGTTTGCAAAACTACTACATAGAAGGTCAGGCCACGCGAGTT
1 GATGGGTTGGAGTTTGCAAAACTACTACACAGAAGGTCAGGCCACGCGAGTT
27060460 CTTCGTTGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (56 bp):
GATGGGTTGGAGTTTGCAAAACTACTACACAGAAGGTCAGGCCACGCGAGTTAGAT
Found at i:27062946 original size:21 final size:25
Alignment explanation
Indices: 27062922--27062976 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 25
27062912 AAAATATATA
27062922 TAAAATAATACAT-TAT-G-AAA-T
1 TAAAATAATACATATATGGAAAACT
27062943 T-AAATAATA-ATATATGGAAAACT
1 TAAAATAATACATATATGGAAAACT
27062966 TAAAATAATAC
1 TAAAATAATAC
27062977 TACATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 2 0.07
22 3 0.11
23 2 0.07
24 8 0.29
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (25 bp):
TAAAATAATACATATATGGAAAACT
Found at i:27063032 original size:3 final size:3
Alignment explanation
Indices: 27063026--27063062 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
27063016 TTGATAAAAA
* *
27063026 AAT AAT ACT AAT AAT AAT AAT AGT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27063063 TTAAACTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27067943 original size:27 final size:26
Alignment explanation
Indices: 27067901--27067952 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27067891 ATCTTTTAAA
27067901 ATTTTAAATAAAAATAAAATAAATTTT
1 ATTTTAAATAAAAAT-AAATAAATTTT
** *
27067928 ATTTTAAATATTAATAATTAAATTT
1 ATTTTAAATAAAAATAAATAAATTT
27067953 ATTATTATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTTAAATAAAAATAAATAAATTTT
Found at i:27068645 original size:14 final size:15
Alignment explanation
Indices: 27068621--27068671 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
27068611 TTATCTCGAA
27068621 TTATATTTTAATTAT
1 TTATATTTTAATTAT
*
27068636 TTAT-TTTTAA-AAT
1 TTATATTTTAATTAT
*
27068649 ATTATATTTTAGTTAT
1 -TTATATTTTAATTAT
27068665 TTATATT
1 TTATATT
27068672 ATTATCTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 16 0.53
16 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:27068684 original size:20 final size:20
Alignment explanation
Indices: 27068647--27068684 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27068637 TATTTTTAAA
*
27068647 ATATTATATTTTAGTTATTT
1 ATATTATATCTTAGTTATTT
27068667 ATATTATTATCTTA-TTAT
1 ATATTA-TATCTTAGTTAT
27068685 AAAATGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
ATATTATATCTTAGTTATTT
Found at i:27068821 original size:18 final size:16
Alignment explanation
Indices: 27068789--27068832 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
27068779 ATAAGATGAT
27068789 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
27068805 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
27068819 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
27068833 ACCCTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:27068913 original size:15 final size:15
Alignment explanation
Indices: 27068871--27068918 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
27068861 ATGTCCTCTG
*
27068871 TTTTTTAGTTTTCTT
1 TTTTTTAGTATTCTT
* * *
27068886 TTTTGT-CTCTTCTT
1 TTTTTTAGTATTCTT
27068900 TTTTTTAGTATTCTT
1 TTTTTTAGTATTCTT
27068915 TTTT
1 TTTT
27068919 ATTTGACTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTTTTAGTATTCTT
Found at i:27069117 original size:14 final size:14
Alignment explanation
Indices: 27069085--27069117 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
27069075 TTTTCTTCGC
27069085 AAAAAAGAAACCCT
1 AAAAAAGAAACCCT
*
27069099 TAAAAAG-AACCCT
1 AAAAAAGAAACCCT
27069112 AAAAAA
1 AAAAAA
27069118 TCTAATCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.67, C:0.18, G:0.06, T:0.09
Consensus pattern (14 bp):
AAAAAAGAAACCCT
Done.