Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 40 of 325
Found at i:11925375 original size:16 final size:17
Alignment explanation
Indices: 11925340--11925374 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11925330 ATTATTAAGA
11925340 ATTTTATTAAAATATAT
1 ATTTTATTAAAATATAT
11925357 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11925375 TAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11925579 original size:44 final size:45
Alignment explanation
Indices: 11925530--11925624 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
11925520 TTACACCTCT
* *
11925530 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
11925574 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
11925619 ATTACA
1 ATTACA
11925625 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:11925624 original size:16 final size:16
Alignment explanation
Indices: 11925605--11925672 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
11925595 GATTTGCTAT
* *
11925605 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
11925621 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
11925637 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
11925653 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11925669 TACA
1 TACA
11925673 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11928096 original size:13 final size:13
Alignment explanation
Indices: 11928078--11928103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11928068 TCTTTTGTCC
11928078 GCCCCAGCTGACA
1 GCCCCAGCTGACA
11928091 GCCCCAGCTGACA
1 GCCCCAGCTGACA
11928104 ATATAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.23, T:0.08
Consensus pattern (13 bp):
GCCCCAGCTGACA
Found at i:11928862 original size:25 final size:25
Alignment explanation
Indices: 11928787--11928864 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
11928777 GTTTTTATAA
*
11928787 ACTTTAAATTAAGAATTCTATTAGA
1 ACTTTAAATTAAGAATTCTATTAGG
*
11928812 ACTTTAAATTAAGAATTCTATCAGG
1 ACTTTAAATTAAGAATTCTATTAGG
* * **
11928837 ACTTCAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAAGAATTCTATTAGG
11928862 ACT
1 ACT
11928865 CTCCCTTTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (25 bp):
ACTTTAAATTAAGAATTCTATTAGG
Found at i:11933550 original size:25 final size:25
Alignment explanation
Indices: 11933475--11933552 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
11933465 GTTTTTATAA
*
11933475 ACTTCAAATTAGGAATTCTATTAGA
1 ACTTCAAATTAGGAATTCTATTAGG
* * *
11933500 ACTTTAAATTAAGAATTCTATCAGG
1 ACTTCAAATTAGGAATTCTATTAGG
**
11933525 ACTTCAAATTAGGAATTAGATTAGG
1 ACTTCAAATTAGGAATTCTATTAGG
11933550 ACT
1 ACT
11933553 CCCGCTTTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (25 bp):
ACTTCAAATTAGGAATTCTATTAGG
Found at i:11937217 original size:20 final size:21
Alignment explanation
Indices: 11937179--11937231 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
11937169 TTAAATTTAT
11937179 TTAAAA-TAAAAA-TATTAAA
1 TTAAAATTAAAAATTATTAAA
11937198 TTAAAATTAAAAATTA-TAAA
1 TTAAAATTAAAAATTATTAAA
11937218 --AAAATTATAAAATT
1 TTAAAATTA-AAAATT
11937232 TAATATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.23
19 12 0.39
20 10 0.32
21 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAAATTAAAAATTATTAAA
Found at i:11937380 original size:31 final size:28
Alignment explanation
Indices: 11937345--11937409 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
11937335 ATATTATACA
11937345 TTATATTGATTAAAAATATAAATAA-AATTAT
1 TTATATT--TTAAAAA-ATAAA-AATAATTAT
*
11937376 TTATAATTTTAAAAAATAAAAATAATTTT
1 TTAT-ATTTTAAAAAATAAAAATAATTAT
11937405 TTATA
1 TTATA
11937410 AAATTCTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
28 3 0.10
29 14 0.45
30 7 0.23
31 4 0.13
32 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (28 bp):
TTATATTTTAAAAAATAAAAATAATTAT
Found at i:11937402 original size:29 final size:30
Alignment explanation
Indices: 11937354--11937410 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
11937344 ATTATATTGA
11937354 TTAAAAATATAAATAAAATTATTTATAATT
1 TTAAAAATATAAATAAAATTATTTATAATT
*
11937384 TTAAAAA-ATAAA-AATAATTTTTTATAA
1 TTAAAAATATAAATAA-AATTATTTATAA
11937411 AATTCTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
TTAAAAATATAAATAAAATTATTTATAATT
Found at i:11937420 original size:31 final size:30
Alignment explanation
Indices: 11937355--11937425 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 30
11937345 TTATATTGAT
*
11937355 TAAAAATATAAATAAAATTATTTATAATTT
1 TAAAAATATAAATAAAATTATTTATAATTC
*
11937385 TAAAAA-ATAAA-AATAATTTTTTATAAAATTC
1 TAAAAATATAAATAA-AATTATTTAT--AATTC
11937416 TAAAATATAT
1 TAAAA-ATAT
11937426 CGTTTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
28 2 0.06
29 14 0.41
30 6 0.18
31 9 0.26
32 1 0.03
33 2 0.06
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAAAATATAAATAAAATTATTTATAATTC
Found at i:11937558 original size:23 final size:22
Alignment explanation
Indices: 11937532--11937580 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
11937522 TATAATTATA
11937532 TATTTTAGAATTTTATAAAAAAT
1 TATTTTA-AATTTTATAAAAAAT
* *
11937555 TATTTTTAAATTTTTTTAAAAAT
1 TA-TTTTAAATTTTATAAAAAAT
11937578 TAT
1 TAT
11937581 ATATATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 1 0.04
23 17 0.74
24 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTTAAATTTTATAAAAAAT
Found at i:11939293 original size:27 final size:27
Alignment explanation
Indices: 11939245--11939403 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
11939235 GCGAGGCTGC
* *
11939245 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
11939272 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
11939298 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
11939325 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
11939352 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
11939379 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
11939404 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:11939338 original size:54 final size:54
Alignment explanation
Indices: 11939263--11939403 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
11939253 GTGACGAAGT
*
11939263 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
11939317 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
11939371 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
11939404 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:11939553 original size:28 final size:28
Alignment explanation
Indices: 11939509--11939584 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
11939499 AAATTAACCC
**
11939509 TAGGGGTATAACGGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCCATACA
11939537 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCCATACA
*
11939565 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
11939585 AACTACTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (28 bp):
TAGGGGTATAATAGTAATTTTCCATACA
Found at i:11941058 original size:26 final size:26
Alignment explanation
Indices: 11941027--11941134 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11941017 TGAAATGCCC
*
11941027 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11941053 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11941079 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11941105 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11941131 ATCA
1 ATCA
11941135 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11943176 original size:14 final size:14
Alignment explanation
Indices: 11943157--11943195 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
11943147 TAGGAATGTC
11943157 ATAAGAAAATTCTG
1 ATAAGAAAATTCTG
11943171 ATAAGAAAATTCTG
1 ATAAGAAAATTCTG
11943185 ATAAGAAAATT
1 ATAAGAAAATT
11943196 TTATTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (14 bp):
ATAAGAAAATTCTG
Found at i:11947851 original size:93 final size:92
Alignment explanation
Indices: 11947682--11947884 Score: 257
Period size: 93 Copynumber: 2.2 Consensus size: 92
11947672 ATGTACCAAT
* * * *
11947682 AAATTAAGCCCCTATTTTATTTTTTTCACTCATTTGGGTACTTAAACTTTCAAAATCAATCAAAA
1 AAATTAAGCCCCTACTTTATTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATCAATCAAAA
* *
11947747 AGGCCCTCAAACCTTTTTTTAAAAAAAAG
66 AGACCCACAAA-C-TTTTTTAAAAAAAAG
** *
11947776 AAATTAAGTTCCTACTTT-TTTTTTGCACTCAATTGAGTACTTGAACTTTCAAAATGC-ATCAAA
1 AAATTAAGCCCCTACTTTATTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAAT-CAATCAAA
*
11947839 AAGACCCACAAACTTTTTTCAAAAAAAG
65 AAGACCCACAAACTTTTTTAAAAAAAAG
* *
11947867 TAATTAAGCCCCTGCTTT
1 AAATTAAGCCCCTACTTT
11947885 TATTAAAAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
91 28 0.30
92 1 0.01
93 49 0.52
94 16 0.17
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.35
Consensus pattern (92 bp):
AAATTAAGCCCCTACTTTATTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATCAATCAAAA
AGACCCACAAACTTTTTTAAAAAAAAG
Found at i:11948035 original size:28 final size:29
Alignment explanation
Indices: 11948003--11948087 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 29
11947993 AAAATCGTAA
* * *
11948003 AAAAATTTAAAAAAAGTGTAAAATTTTAT
1 AAAAATATAAAAAAATTATAAAATTTTAT
* *
11948032 AAAAATCCT-AAAAAATTATAAAA-TATAT
1 AAAAAT-ATAAAAAAATTATAAAATTTTAT
*
11948060 AGAAATATAAAAAAATTATAAAATTTTA
1 AAAAATATAAAAAAATTATAAAATTTTA
11948088 GAAAGTCGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.02
28 23 0.50
29 21 0.46
30 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAAATATAAAAAAATTATAAAATTTTAT
Found at i:11948073 original size:57 final size:58
Alignment explanation
Indices: 11947984--11948129 Score: 152
Period size: 57 Copynumber: 2.5 Consensus size: 58
11947974 TAAAATTAGA
* * * * *
11947984 AAAAATATAAAAATCGTAAAAAAATTTAAAAAAAGTGTAAAATTTTATAAAAATCCTAA-
1 AAAATTATAAAAAT-ATAAAGAAATATAAAAAAAGTATAAAATTTTA-AAAAATCCTAAG
* * * * *
11948043 AAAATTAT-AAAATATATAGAAATATAAAAAAATTATAAAATTTTAGAAAGTCGTAAG
1 AAAATTATAAAAATATAAAGAAATATAAAAAAAGTATAAAATTTTAAAAAATCCTAAG
*
11948100 AAAATTATACAAAATGTAAAGAAATATAAA
1 AAAATTATA-AAAATATAAAGAAATATAAA
11948130 TTTCATAATT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
56 8 0.11
57 34 0.47
58 5 0.07
59 25 0.35
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.27
Consensus pattern (58 bp):
AAAATTATAAAAATATAAAGAAATATAAAAAAAGTATAAAATTTTAAAAAATCCTAAG
Found at i:11948376 original size:18 final size:18
Alignment explanation
Indices: 11948355--11948406 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
11948345 AATTCTAATT
*
11948355 TTTATATTTTTATTAGAA
1 TTTATATTTTTATTAAAA
*
11948373 TTTAATAATTTTT-CTAAAA
1 TTT-AT-ATTTTTATTAAAA
11948392 TTTATTATTTTTATT
1 TTTA-TATTTTTATT
11948407 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
18 10 0.37
19 11 0.41
20 6 0.22
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTATATTTTTATTAAAA
Found at i:11948432 original size:24 final size:25
Alignment explanation
Indices: 11948378--11948433 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
11948368 TAGAATTTAA
11948378 TAATTTTTCTAAAATTTATTATTTT
1 TAATTTTTCTAAAATTTATTATTTT
* *
11948403 T-ATTTTTTTATAATTT-TT-TTTT
1 TAATTTTTCTAAAATTTATTATTTT
11948425 CTAATTTTT
1 -TAATTTTT
11948434 AATAAAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 3 0.11
24 19 0.70
25 1 0.04
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (25 bp):
TAATTTTTCTAAAATTTATTATTTT
Found at i:11972554 original size:21 final size:21
Alignment explanation
Indices: 11972528--11972569 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11972518 TTCCTCGGCT
* * *
11972528 TTGCAAGCTTTGTTGACTAAC
1 TTGCAAGATCTGTCGACTAAC
11972549 TTGCAAGATCTGTCGACTAAC
1 TTGCAAGATCTGTCGACTAAC
11972570 ACAACAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
TTGCAAGATCTGTCGACTAAC
Found at i:11972868 original size:22 final size:22
Alignment explanation
Indices: 11972842--11972888 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
11972832 TTTATTTTAG
11972842 CACCACCGATATCAAAGTATTC
1 CACCACCGATATCAAAGTATTC
*
11972864 CACCACTGATATCAAAGTATTC
1 CACCACCGATATCAAAGTATTC
11972886 CAC
1 CAC
11972889 AAAGTATTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.36, C:0.32, G:0.09, T:0.23
Consensus pattern (22 bp):
CACCACCGATATCAAAGTATTC
Found at i:11972893 original size:12 final size:12
Alignment explanation
Indices: 11972876--11972924 Score: 98
Period size: 12 Copynumber: 4.1 Consensus size: 12
11972866 CCACTGATAT
11972876 CAAAGTATTCCA
1 CAAAGTATTCCA
11972888 CAAAGTATTCCA
1 CAAAGTATTCCA
11972900 CAAAGTATTCCA
1 CAAAGTATTCCA
11972912 CAAAGTATTCCA
1 CAAAGTATTCCA
11972924 C
1 C
11972925 CACTGATATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (12 bp):
CAAAGTATTCCA
Found at i:11973897 original size:12 final size:12
Alignment explanation
Indices: 11973888--11973916 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
11973878 CTCGTGTGTC
11973888 AGGCCGTGTGCT
1 AGGCCGTGTGCT
11973900 AGGCCGTGTGCT
1 AGGCCGTGTGCT
11973912 AGGCC
1 AGGCC
11973917 ATGCCAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.28, G:0.41, T:0.21
Consensus pattern (12 bp):
AGGCCGTGTGCT
Found at i:11974869 original size:23 final size:24
Alignment explanation
Indices: 11974817--11974869 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
11974807 ATGCAATTCA
*
11974817 AATTTAATCCAAAACTTAACACAT
1 AATTCAATCCAAAACTTAACACAT
*
11974841 ATATTCAATCCAAGA-TTAA-ACAT
1 A-ATTCAATCCAAAACTTAACACAT
11974864 GAATTC
1 -AATTC
11974870 CACCAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 8 0.32
24 6 0.24
25 11 0.44
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (24 bp):
AATTCAATCCAAAACTTAACACAT
Found at i:11975052 original size:7 final size:7
Alignment explanation
Indices: 11975040--11975064 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11975030 AAGCTATTTC
11975040 TATATCA
1 TATATCA
11975047 TATATCA
1 TATATCA
11975054 TATATCA
1 TATATCA
11975061 TATA
1 TATA
11975065 ATGCTCACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
TATATCA
Found at i:11987539 original size:19 final size:19
Alignment explanation
Indices: 11987508--11987545 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
11987498 TTGCAATTTA
11987508 AATTTTTATTTTATTTTCT
1 AATTTTTATTTTATTTTCT
11987527 AATTCTTTA-TTTATTTTCT
1 AATT-TTTATTTTATTTTCT
11987546 TCTGACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:11993483 original size:5 final size:5
Alignment explanation
Indices: 11993473--11993499 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11993463 TAAACACCTA
11993473 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
11993500 TATCTCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:12001232 original size:46 final size:46
Alignment explanation
Indices: 12001172--12001445 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
12001162 TTTGACATGA
* * * * * *
12001172 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
12001218 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
12001264 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
12001310 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
12001356 TGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
12001402 TGCCATGGTATCCTTCAACCATGGTTTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
12001446 AGAGCACACT
Statistics
Matches: 208, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 204 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:12020005 original size:24 final size:24
Alignment explanation
Indices: 12019985--12020071 Score: 138
Period size: 24 Copynumber: 3.6 Consensus size: 24
12019975 ATTCAAATTC
12019985 GCACACATAGTGCCATACAAATCT
1 GCACACATAGTGCCATACAAATCT
*
12020009 ACACACATAGTGCCATACAAATCT
1 GCACACATAGTGCCATACAAATCT
* *
12020033 GCACACATAGTGCCATTCAAATCC
1 GCACACATAGTGCCATACAAATCT
*
12020057 GTACACATAGTGCCA
1 GCACACATAGTGCCA
12020072 AAGTCATTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATACAAATCT
Found at i:12020013 original size:48 final size:47
Alignment explanation
Indices: 12019936--12020068 Score: 140
Period size: 48 Copynumber: 2.8 Consensus size: 47
12019926 CATGTTAACC
* * ** * * *
12019936 CGCACACATAGTGTCTTAGTAATCCACACACGTATTGACATTCAAATT
1 CGCACACATAGTGCCATACAAATCCACACACATAGTGACATACAAA-T
* *
12019984 CGCACACATAGTGCCATACAAATCTACACACATAGTGCCATACAAAT
1 CGCACACATAGTGCCATACAAATCCACACACATAGTGACATACAAAT
* **
12020031 CTGCACACATAGTGCCATTCAAATCCGTACACATAGTG
1 C-GCACACATAGTGCCATACAAATCCACACACATAGTG
12020069 CCAAAGTCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 2 0.03
48 69 0.97
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (47 bp):
CGCACACATAGTGCCATACAAATCCACACACATAGTGACATACAAAT
Found at i:12022229 original size:20 final size:20
Alignment explanation
Indices: 12022204--12022246 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12022194 TCGGACTAAA
* *
12022204 TAGGAAACATTTGAAAAGTT
1 TAGGAAAAAGTTGAAAAGTT
*
12022224 TAGGAAAAAGTTGAAAATTT
1 TAGGAAAAAGTTGAAAAGTT
12022244 TAG
1 TAG
12022247 ATTGTAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.21, T:0.30
Consensus pattern (20 bp):
TAGGAAAAAGTTGAAAAGTT
Found at i:12023141 original size:36 final size:36
Alignment explanation
Indices: 12023094--12023175 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
12023084 GTCAGATCAA
*
12023094 CCAAAACACACCAGATGATCACACGAGCCAATGCC-T
1 CCAAAACACACCACATGATCACACGAGCCAAT-CCTT
*
12023130 CCAAAACACACCACATGCTCACACGAGCCAATCCTT
1 CCAAAACACACCACATGATCACACGAGCCAATCCTT
*
12023166 CTAAAACACA
1 CCAAAACACA
12023176 TCAATGCTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
35 2 0.05
36 40 0.95
ACGTcount: A:0.40, C:0.38, G:0.10, T:0.12
Consensus pattern (36 bp):
CCAAAACACACCACATGATCACACGAGCCAATCCTT
Found at i:12025073 original size:42 final size:43
Alignment explanation
Indices: 12025009--12025091 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
12024999 CGTTTCAGAA
12025009 CCACACGAGCAGAGGACATGGGCATGTACCCAGGCCGTGTGAG
1 CCACACGAGCAGAGGACATGGGCATGTACCCAGGCCGTGTGAG
* * **
12025052 CCACACGGGCA-AGGGCATGGGCATGTGTCCAGGCCGTGTG
1 CCACACGAGCAGAGGACATGGGCATGTACCCAGGCCGTGTG
12025092 GCATATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.22, C:0.28, G:0.37, T:0.13
Consensus pattern (43 bp):
CCACACGAGCAGAGGACATGGGCATGTACCCAGGCCGTGTGAG
Found at i:12025085 original size:105 final size:104
Alignment explanation
Indices: 12024853--12025090 Score: 246
Period size: 105 Copynumber: 2.3 Consensus size: 104
12024843 CACAAGGGCA
* * * * *
12024853 AAGGACA-GAGGCGTGTGTCTAAGCCGTGTAACTCACTATTTATGACTTAGGACCACACGAGCAA
1 AAGGACATGA-GCATGTGTCCAGGCCGTGTAACTCACTATTTACGACTTAGAACCACACGAGCAA
* * * * * *
12024917 GCACATGAGCGTGTGCCTAGGCCGTGTGAGTCACATGAGT
65 GCACATGAGCATGTACCCAGGCCGTGTGAGCCACACGAGC
* * * * *
12024957 AAGGACATGATCGTGTGTCCAGGCTGTGTAACTCTCTATTTACG-TTTCAGAACCACACGAGCAG
1 AAGGACATGAGCATGTGTCCAGGCCGTGTAACTCACTATTTACGACTT-AGAACCACACGAGCA-
* * *
12025021 AGGACATGGGCATGTACCCAGGCCGTGTGAGCCACACGGGC
64 AGCACATGAGCATGTACCCAGGCCGTGTGAGCCACACGAGC
* *
12025062 AAGGGCATGGGCATGTGTCCAGGCCGTGT
1 AAGGACATGAGCATGTGTCCAGGCCGTGT
12025091 GGCATATAAA
Statistics
Matches: 109, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
103 2 0.02
104 49 0.45
105 58 0.53
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (104 bp):
AAGGACATGAGCATGTGTCCAGGCCGTGTAACTCACTATTTACGACTTAGAACCACACGAGCAAG
CACATGAGCATGTACCCAGGCCGTGTGAGCCACACGAGC
Found at i:12034518 original size:2 final size:2
Alignment explanation
Indices: 12034511--12034545 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
12034501 CGATAAACCT
*
12034511 TA TA TA TA TA TA TA TA TA T- TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12034546 GAGAGATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12034687 original size:36 final size:36
Alignment explanation
Indices: 12034638--12034720 Score: 130
Period size: 36 Copynumber: 2.3 Consensus size: 36
12034628 GTCAGATCTA
*
12034638 CCAAAACACACCAGATGATCACACGAGCCAATCCCT
1 CCAAAACACACCAGATGATCACACGAACCAATCCCT
* * *
12034674 CTAAAACACACCAGATGCTCACATGAACCAATCCCT
1 CCAAAACACACCAGATGATCACACGAACCAATCCCT
12034710 CCAAAACACAC
1 CCAAAACACAC
12034721 TAATGCTCAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.41, C:0.39, G:0.08, T:0.12
Consensus pattern (36 bp):
CCAAAACACACCAGATGATCACACGAACCAATCCCT
Found at i:12036780 original size:11 final size:11
Alignment explanation
Indices: 12036764--12036794 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
12036754 TAAATTCTAA
12036764 CAATTTCATAC
1 CAATTTCATAC
12036775 CAATTTCATAC
1 CAATTTCATAC
12036786 CAATTTCAT
1 CAATTTCAT
12036795 CTAATTCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (11 bp):
CAATTTCATAC
Found at i:12039089 original size:33 final size:32
Alignment explanation
Indices: 12039052--12039130 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
12039042 TGGCCCTACC
* *
12039052 ATGGTCTTACACTCGTAATTCCATAACCC-AGTT
1 ATGGTCTTACACTAG-AATTCCAT-ACCCTAGCT
* *
12039085 ATGGTCTTATCATTAGGATTCCATACCCTAGCT
1 ATGGTCTTA-CACTAGAATTCCATACCCTAGCT
12039118 ATGGTCTTACACT
1 ATGGTCTTACACT
12039131 TATACATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 7 0.18
33 28 0.72
34 4 0.10
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (32 bp):
ATGGTCTTACACTAGAATTCCATACCCTAGCT
Found at i:12039196 original size:105 final size:102
Alignment explanation
Indices: 12039072--12039267 Score: 241
Period size: 105 Copynumber: 1.9 Consensus size: 102
12039062 ACTCGTAATT
* * * *
12039072 CCATAACCCAGTTATGGTCTTATCATT-AGGATTCCATACCCTAGCTATGGTCTTACACTTATAC
1 CCATAACCCAGTTAAGGTCTTATCATTGA-AATGCCATACCCTAGCTATGATCTTACACTTA-AC
* *
12039136 ATATACTGACGTGGTTCAACCATGGTCTTACGTTCACGATG
64 A-AT-CTGACATGGTCCAACCATGGTCTTACGTTCACGATG
* * * *
12039177 CCATAACCTAGTTAAGGTCTTTTCATTGAAATGCCATAGCCTAGCTATGATCTTACATTTAACAA
1 CCATAACCCAGTTAAGGTCTTATCATTGAAATGCCATACCCTAGCTATGATCTTACACTTAACAA
* *
12039242 TTTGTCATGGTCCAACCATGGTCTTA
66 TCTGACATGGTCCAACCATGGTCTTA
12039268 TCCGTCAAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
102 21 0.27
103 2 0.03
104 3 0.04
105 51 0.65
106 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (102 bp):
CCATAACCCAGTTAAGGTCTTATCATTGAAATGCCATACCCTAGCTATGATCTTACACTTAACAA
TCTGACATGGTCCAACCATGGTCTTACGTTCACGATG
Found at i:12040990 original size:46 final size:46
Alignment explanation
Indices: 12040904--12041071 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 46
12040894 TATGAGAGCC
* * *
12040904 AGTGTAAGATCATGTCTGGGACATGGTATCGGCATTGAGACG-AGTGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GTATCGGCATCGAGACGTA-AGCT
* *
12040952 AGTGTAAGACACGTCTGGGACATGTATCGGCCTCGAGACGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGTATCGGCATCGAGACGTAAGCT
* * *
12040998 AGTGTAAGACATGTCTGGGACATGCATTGGCTAT-GAGATGT--G-T
1 AGTGTAAGACATGTCTGGGACATGTATCGGC-ATCGAGACGTAAGCT
* *
12041041 CAGTGTAAGACCATGTCTAGGACATGCATCG
1 -AGTGTAAGA-CATGTCTGGGACATGTATCG
12041072 ACTATGAGAT
Statistics
Matches: 104, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 10 0.10
45 18 0.17
46 51 0.49
47 15 0.14
48 9 0.09
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGTATCGGCATCGAGACGTAAGCT
Found at i:12041064 original size:45 final size:45
Alignment explanation
Indices: 12040998--12041103 Score: 169
Period size: 45 Copynumber: 2.4 Consensus size: 45
12040988 GACGTAAGCT
* * * *
12040998 AGTGTAAGA-CATGTCTGGGACATGCATTGGCTATGAGATGTGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGACTATGAGATATGTC
12041042 AGTGTAAGACCATGTCTAGGACATGCATCGACTATGAGATATGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGACTATGAGATATGTC
12041087 AGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCT
12041104 GCGCATGGCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 9 0.16
45 48 0.84
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGACTATGAGATATGTC
Found at i:12043280 original size:41 final size:41
Alignment explanation
Indices: 12043234--12043316 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
12043224 ACTCGTTCTG
12043234 ATTGCCCGTCAATCTAAGGATAAAATACTATGCTGAAATTT
1 ATTGCCCGTCAATCTAAGGATAAAATACTATGCTGAAATTT
* *
12043275 ATTGCCCGTTAATCTAAGGATAAAATACTGTGCTGAAATTT
1 ATTGCCCGTCAATCTAAGGATAAAATACTATGCTGAAATTT
12043316 A
1 A
12043317 GTTTAGTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (41 bp):
ATTGCCCGTCAATCTAAGGATAAAATACTATGCTGAAATTT
Found at i:12048619 original size:33 final size:33
Alignment explanation
Indices: 12048544--12048606 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
12048534 ATCGTTTTCT
** *
12048544 TAATGCCATAGTCCAACTATGGTCTTACACAAA
1 TAATGCCATACCCCAACCATGGTCTTACACAAA
* *
12048577 TATTGCCATACCCCTACCATGGTCTTACAC
1 TAATGCCATACCCCAACCATGGTCTTACAC
12048607 TCGTAATGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (33 bp):
TAATGCCATACCCCAACCATGGTCTTACACAAA
Found at i:12048632 original size:33 final size:32
Alignment explanation
Indices: 12048560--12048671 Score: 86
Period size: 33 Copynumber: 3.4 Consensus size: 32
12048550 CATAGTCCAA
* *
12048560 CTATGGTCTTACAC-AAATATTGCCATACCCCTA-
1 CTATGGTCTTACACTAGA-A-TGCCATA-ACCTAG
* *
12048593 CCATGGTCTTACACTCGTAATGCCATAA-CTCAG
1 CTATGGTCTTACACTAG-AATGCCATAACCT-AG
* * *
12048626 TTATGGTCTTATCATTAGGATGCCATAACCTAG
1 CTATGGTCTTA-CACTAGAATGCCATAACCTAG
12048659 CTATGGTCTTACA
1 CTATGGTCTTACA
12048672 TTTATACATA
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
31 2 0.03
32 3 0.05
33 50 0.79
34 7 0.11
35 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (32 bp):
CTATGGTCTTACACTAGAATGCCATAACCTAG
Found at i:12048723 original size:105 final size:105
Alignment explanation
Indices: 12048592--12048780 Score: 247
Period size: 105 Copynumber: 1.8 Consensus size: 105
12048582 CCATACCCCT
** * * * *
12048592 ACCATGGTCTTACACTCGTAATGCCATAA-CTCAGTTATGGTCTTATCA-TTAGGATGCCATAAC
1 ACCATGGTCTTACACTCACAATGCCATAACCT-AGTTAAGGTCTTATCACTGA-AATACCATAAC
*
12048655 CTAGCTATGGTCTTACATTTATACATATACTGACATGGTTCA
64 CCAGCTATGGTCTTACATTTATACATATACTGACATGGTTCA
* * * *
12048697 ACCATGGTCTTACATTCACGATGCCATAACCTAGTTAAGGTCTTTTCACTGAAATACCATAGCCC
1 ACCATGGTCTTACACTCACAATGCCATAACCTAGTTAAGGTCTTATCACTGAAATACCATAACCC
12048762 AGCTATGGTCTTACATTTA
66 AGCTATGGTCTTACATTTA
12048781 ACACTTTGCC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
105 67 0.94
106 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (105 bp):
ACCATGGTCTTACACTCACAATGCCATAACCTAGTTAAGGTCTTATCACTGAAATACCATAACCC
AGCTATGGTCTTACATTTATACATATACTGACATGGTTCA
Found at i:12059175 original size:26 final size:28
Alignment explanation
Indices: 12059127--12059183 Score: 91
Period size: 26 Copynumber: 2.1 Consensus size: 28
12059117 AATCAAAAAG
12059127 TTAAACAGTTCTTTTTTCTTTACCTT-T
1 TTAAACAGTTCTTTTTTCTTTACCTTCT
*
12059154 TTAAACATTTC-TTTTTCTTTACCTTCT
1 TTAAACAGTTCTTTTTTCTTTACCTTCT
12059181 TTA
1 TTA
12059184 TGATTCAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.60
Consensus pattern (28 bp):
TTAAACAGTTCTTTTTTCTTTACCTTCT
Found at i:12063487 original size:27 final size:27
Alignment explanation
Indices: 12063457--12063514 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
12063447 TTAGTAGAAA
* *
12063457 AGAGAAGTAATGAGATTAGAAAATTTT
1 AGAGAAGTAAAGAGATCAGAAAATTTT
12063484 AGAGAAGTAAAGAGATCAGAAAATTTT
1 AGAGAAGTAAAGAGATCAGAAAATTTT
12063511 AGAG
1 AGAG
12063515 TGGGTTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.50, C:0.02, G:0.24, T:0.24
Consensus pattern (27 bp):
AGAGAAGTAAAGAGATCAGAAAATTTT
Found at i:12066494 original size:27 final size:27
Alignment explanation
Indices: 12066454--12066518 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
12066444 TTTTATTTTA
* *
12066454 TTTTTAAAAATATTCAAA-ATA-TTATAT
1 TTTTTAATATTATT-AAACATACTTAT-T
12066481 TTTTTAATATTATTAAACATACTTATT
1 TTTTTAATATTATTAAACATACTTATT
12066508 TTATTT-ATATT
1 TT-TTTAATATT
12066519 TAGTCATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.09
27 23 0.70
28 7 0.21
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTTTAATATTATTAAACATACTTATT
Found at i:12066570 original size:13 final size:14
Alignment explanation
Indices: 12066554--12066595 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
12066544 TTTTAATTTT
12066554 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
12066567 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
12066582 ATTTTGAATAATAT
1 ATTTT-AATAATAT
12066596 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:12066647 original size:15 final size:15
Alignment explanation
Indices: 12066613--12066683 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
12066603 ATATTATTGA
12066613 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
12066626 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
12066641 AAATATTTATTATAATTAT
1 AAATA--T-TT-TAATAAT
*
12066660 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
12066675 AAATGTTTT
1 AAATATTTT
12066684 GTAATATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 19 0.42
16 1 0.02
17 2 0.04
18 2 0.04
19 11 0.24
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:12066656 original size:19 final size:19
Alignment explanation
Indices: 12066629--12066665 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12066619 TTAATATTAA
*
12066629 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
12066648 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
12066666 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:12067867 original size:22 final size:22
Alignment explanation
Indices: 12067842--12067889 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
12067832 ATTTTTTTTC
12067842 TTTAAAGGGAATAATTT-GATAT
1 TTTAAAGGGAATAATTTAGAT-T
* * *
12067864 TTTACATGGAATTATTTAGATT
1 TTTAAAGGGAATAATTTAGATT
12067886 TTTA
1 TTTA
12067890 TAGAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (22 bp):
TTTAAAGGGAATAATTTAGATT
Found at i:12079368 original size:33 final size:34
Alignment explanation
Indices: 12079326--12079433 Score: 157
Period size: 34 Copynumber: 3.2 Consensus size: 34
12079316 TTTACATTTA
*
12079326 TGATACTATTACCGTAAT-GGCTAAGGCCCACAC
1 TGATACTATTACTGTAATGGGCTAAGGCCCACAC
*
12079359 TGATACTATTACTGTAATGGGCTAAGGCTCACAC
1 TGATACTATTACTGTAATGGGCTAAGGCCCACAC
* *
12079393 CGATACTATTACTGCAATGGGCTAAGG-CCACAC
1 TGATACTATTACTGTAATGGGCTAAGGCCCACAC
*
12079426 TAATACTA
1 TGATACTA
12079434 GACTGTCACT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 28 0.42
34 39 0.58
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (34 bp):
TGATACTATTACTGTAATGGGCTAAGGCCCACAC
Found at i:12085370 original size:186 final size:186
Alignment explanation
Indices: 12085056--12085429 Score: 608
Period size: 186 Copynumber: 2.0 Consensus size: 186
12085046 ATTTATCCCC
*
12085056 TACAAAAGGACTGGCTGGTTCTAATCCAACCAAACCAAAATTGGATTTCAACAATGTCCAATATT
1 TACAAAAGGACAGGCTGGTTCTAATCCAACCAAACCAAAATTGGATTTCAACAATGTCCAATATT
* * *
12085121 GTTTCTAACTTATCTTATTTTTTCCAATAGAGACCATCAGCTTACGGTCTTTTTTAATTTAACCC
66 GTTTCTAACTTATCCTATTTTTTCCAATAAAGACCATCAACTTACGGTCTTTTTTAATTTAACCC
* *
12085186 CTAATGTTCCTAATTTTTCGAGTTTAAAGGAAATCCTGGTATCATAATTTCTGGTG
131 CTAATGTTCCTAATTTTTCGAGTTTAAAGAAAATCCTGGTATAATAATTTCTGGTG
* ** *
12085242 TACAAAAGGACAGGCTGGTTCTAATTCAACTGAACCAAAATTGGATTTCAACATTGTCCAATATT
1 TACAAAAGGACAGGCTGGTTCTAATCCAACCAAACCAAAATTGGATTTCAACAATGTCCAATATT
12085307 GTTTCTAACCTT-TCCTATTTTTTTCCAATAAAGACCATCAAC-TACGGTCTTTTTTAATTTAAC
66 GTTTCTAA-CTTATCCTA-TTTTTTCCAATAAAGACCATCAACTTACGGTCTTTTTTAATTTAAC
* *
12085370 CCCTAATGTTCCTAATTTTTCGAGTTTAAAGAAAATCTTGGTGTAATAATTTCTGGTG
129 CCCTAATGTTCCTAATTTTTCGAGTTTAAAGAAAATCCTGGTATAATAATTTCTGGTG
12085428 TA
1 TA
12085430 TTTACCGCCA
Statistics
Matches: 174, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
186 149 0.86
187 25 0.14
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (186 bp):
TACAAAAGGACAGGCTGGTTCTAATCCAACCAAACCAAAATTGGATTTCAACAATGTCCAATATT
GTTTCTAACTTATCCTATTTTTTCCAATAAAGACCATCAACTTACGGTCTTTTTTAATTTAACCC
CTAATGTTCCTAATTTTTCGAGTTTAAAGAAAATCCTGGTATAATAATTTCTGGTG
Found at i:12088657 original size:67 final size:68
Alignment explanation
Indices: 12088422--12088706 Score: 248
Period size: 67 Copynumber: 4.2 Consensus size: 68
12088412 ATCACTAAGT
* * * * * * * *
12088422 TATGGTTTTACACATCATACCCCATGTTTAAT-TTCCTGGAGGACTCTCTATGTTGTCATAGTC-
1 TATGGTCTTACACATTAAACCTCATGTTTAATGTT-CTAGTGGACTCTTTATGTTGTCATAGCCA
*
12088485 GAGC
65 TAGC
* * * *
12088489 TATGGTCTTTCACATTATACCTTA-GATTTAATG-TCTTGGTGGACTCTTTATGTTG-CTATAGC
1 TATGGTCTTACACATTAAACCTCATG-TTTAATGTTC-TAGTGGACTCTTTATGTTGTC-ATAGC
12088551 CA-AGC
63 CATAGC
* *
12088556 TATGGTCTTACGCATTATAACC-CATGTTTGATGTTCTAGTGGACTCTTTATGTTGTCATAG-CA
1 TATGGTCTTACACATTA-AACCTCATGTTTAATGTTCTAGTGGACTCTTTATGTTGTCATAGCCA
12088619 TAGC
65 TAGC
**** * * *
12088623 TATGGTCTTACACATTAAACCTCATGTTTAATGTTCTAACAAACTCTTTATATTGCCATAG--TT
1 TATGGTCTTACACATTAAACCTCATGTTTAATGTTCTAGTGGACTCTTTATGTTGTCATAGCCAT
12088686 GAGC
66 -AGC
12088690 TATGGTCTTACACATTA
1 TATGGTCTTACACATTA
12088707 CCCCATTACA
Statistics
Matches: 183, Mismatches: 23, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
66 10 0.05
67 166 0.91
68 7 0.04
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (68 bp):
TATGGTCTTACACATTAAACCTCATGTTTAATGTTCTAGTGGACTCTTTATGTTGTCATAGCCAT
AGC
Found at i:12088669 original size:134 final size:134
Alignment explanation
Indices: 12088422--12088706 Score: 308
Period size: 134 Copynumber: 2.1 Consensus size: 134
12088412 ATCACTAAGT
* * * *
12088422 TATGGTTTTACACATCATACCCCATGTTTAATTTCCTGGAGGACTCTCTATGTTGTCATAGTCGA
1 TATGGTCTTACACATTATAACCCATGTTTAATTTCCTAGAGGACTCTCTATGTTGTCATAGTCGA
* * * ***** * *
12088487 GCTATGGTCTTTCACATTATACCTTAGATTTAATGTCTTGGTGGACTCTTTATGTTGCTATAGCC
66 GCTATGGTCTTACACATTAAACCTCAGATTTAATGTCTTAACAAACTCTTTATATTGCCATAGCC
12088552 AAGC
131 AAGC
* * * *
12088556 TATGGTCTTACGCATTATAACCCATGTTTGATGTT-CTAGTGGACTCTTTATGTTGTCATAG-CA
1 TATGGTCTTACACATTATAACCCATGTTTAAT-TTCCTAGAGGACTCTCTATGTTGTCATAGTC-
*
12088619 TAGCTATGGTCTTACACATTAAACCTCATG-TTTAATGT-TCTAACAAACTCTTTATATTGCCAT
64 GAGCTATGGTCTTACACATTAAACCTCA-GATTTAATGTCT-TAACAAACTCTTTATATTGCCAT
***
12088682 AGTTGAGC
127 AGCCAAGC
12088690 TATGGTCTTACACATTA
1 TATGGTCTTACACATTA
12088707 CCCCATTACA
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
133 2 0.02
134 119 0.96
135 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (134 bp):
TATGGTCTTACACATTATAACCCATGTTTAATTTCCTAGAGGACTCTCTATGTTGTCATAGTCGA
GCTATGGTCTTACACATTAAACCTCAGATTTAATGTCTTAACAAACTCTTTATATTGCCATAGCC
AAGC
Found at i:12090869 original size:3 final size:3
Alignment explanation
Indices: 12090863--12090891 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12090853 CATTTATTTT
12090863 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12090892 TTCACACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12091124 original size:24 final size:24
Alignment explanation
Indices: 12091096--12091158 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
12091086 TGTCTTTAAC
12091096 TTAATATAAAATAATAATAATAAT
1 TTAATATAAAATAATAATAATAAT
** *
12091120 TTAATATAAAACCATACTAATAAT
1 TTAATATAAAATAATAATAATAAT
12091144 TAATAATAATAAAAT
1 T--TAAT-ATAAAAT
12091159 CTTAGATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 22 0.69
26 4 0.12
27 6 0.19
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (24 bp):
TTAATATAAAATAATAATAATAAT
Found at i:12096256 original size:76 final size:76
Alignment explanation
Indices: 12096130--12096282 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
12096120 AAAAAATCCC
*
12096130 AACTCAATTTTGACTCAAAAGTGACATGTACTATTAGACTCACTTCCGAGCTCAATTTAGCCTGA
1 AACTCAATTTTGACTCAAAAGTGACATGTACTATTAGACTCACTTCCGAGCTCAATTTAGCCCGA
*
12096195 GAATCGGCTAA
66 GAATCGACTAA
* *
12096206 AACTCAATTTTGACTCAAAAGTGGCATGTACTATTAGACTCACTTCCGAGCTCGATTTAGCCCGA
1 AACTCAATTTTGACTCAAAAGTGACATGTACTATTAGACTCACTTCCGAGCTCAATTTAGCCCGA
12096271 GAATCGACTAA
66 GAATCGACTAA
12096282 A
1 A
12096283 CCTGATAGCT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (76 bp):
AACTCAATTTTGACTCAAAAGTGACATGTACTATTAGACTCACTTCCGAGCTCAATTTAGCCCGA
GAATCGACTAA
Found at i:12098696 original size:3 final size:3
Alignment explanation
Indices: 12098684--12098747 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
12098674 TTAACTTTAT
* **
12098684 ATA A-A ATA ATA ATA ATA ATA ATA ATA AT- TTA AT- ATA A-A ACC ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
12098728 CTA ATA ATTA ATA ATA ATA A
1 ATA ATA A-TA ATA ATA ATA A
12098748 AATCTTAGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
2 7 0.14
3 39 0.80
4 3 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12098720 original size:33 final size:34
Alignment explanation
Indices: 12098682--12098745 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
12098672 CTTTAACTTT
*
12098682 ATATAAAATAATAATAATAA-TAATAATAATTTA
1 ATATAAAACAATAATAATAATTAATAATAATTTA
* *
12098715 ATATAAAACCATACTAATAATTAATAATAAT
1 ATATAAAACAATAATAATAATTAATAATAAT
12098746 AAAATCTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 17 0.63
34 10 0.37
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (34 bp):
ATATAAAACAATAATAATAATTAATAATAATTTA
Found at i:12105924 original size:20 final size:20
Alignment explanation
Indices: 12105888--12105996 Score: 85
Period size: 20 Copynumber: 5.5 Consensus size: 20
12105878 AGATGCATAA
*
12105888 CAGGGGCACCGAAGTGCAAT
1 CAGGAGCACCGAAGTGCAAT
* *
12105908 TAGGAGCA-CGAATGTGCGAT
1 CAGGAGCACCGAA-GTGCAAT
*
12105928 CAGGGGCACCGAAGTGCAAT
1 CAGGAGCACCGAAGTGCAAT
* ** * * *
12105948 CAGGGGCATAGATGTGTATT
1 CAGGAGCACCGAAGTGCAAT
* *
12105968 CAGGTGCACCGAAGTGCAAA
1 CAGGAGCACCGAAGTGCAAT
*
12105988 CAGGGGCAC
1 CAGGAGCAC
12105997 AGATGTACAT
Statistics
Matches: 68, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
19 4 0.06
20 60 0.88
21 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.35, T:0.15
Consensus pattern (20 bp):
CAGGAGCACCGAAGTGCAAT
Found at i:12106009 original size:40 final size:40
Alignment explanation
Indices: 12105888--12106010 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
12105878 AGATGCATAA
* *
12105888 CAGGGGCACCGAAGTGCAATTAGGAGCAC-GAATGTGCGA-T
1 CAGGGGCACCGAAGTGCAATCAGGGGCACAG-ATGTGC-ATT
* *
12105928 CAGGGGCACCGAAGTGCAATCAGGGGCATAGATGTGTATT
1 CAGGGGCACCGAAGTGCAATCAGGGGCACAGATGTGCATT
* * *
12105968 CAGGTGCACCGAAGTGCAAACAGGGGCACAGATGTACATT
1 CAGGGGCACCGAAGTGCAATCAGGGGCACAGATGTGCATT
12106008 CAG
1 CAG
12106011 AGGTATCGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 70 0.97
41 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.16
Consensus pattern (40 bp):
CAGGGGCACCGAAGTGCAATCAGGGGCACAGATGTGCATT
Found at i:12110677 original size:13 final size:13
Alignment explanation
Indices: 12110638--12110677 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
12110628 GAAGTACTCG
12110638 CACACGGGCGTGT
1 CACACGGGCGTGT
*
12110651 CACACAGGCGTGT
1 CACACGGGCGTGT
*
12110664 CACACGGGCATGT
1 CACACGGGCGTGT
12110677 C
1 C
12110678 CCTGCCGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:12111255 original size:17 final size:17
Alignment explanation
Indices: 12111233--12111267 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12111223 TATAGATCGA
12111233 GTTAATGCAACCCTAGG
1 GTTAATGCAACCCTAGG
12111250 GTTAATGCAACCCTAGG
1 GTTAATGCAACCCTAGG
12111267 G
1 G
12111268 AGTTAACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (17 bp):
GTTAATGCAACCCTAGG
Found at i:12122311 original size:13 final size:13
Alignment explanation
Indices: 12122293--12122319 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12122283 GCTTGGCAGG
12122293 GACACGCCCGTGT
1 GACACGCCCGTGT
12122306 GACACGCCCGTGT
1 GACACGCCCGTGT
12122319 G
1 G
12122320 CAATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:12130305 original size:20 final size:20
Alignment explanation
Indices: 12130280--12130323 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
12130270 AATCGTCGGC
12130280 ACATCTTGGCCTCTGTAGGA
1 ACATCTTGGCCTCTGTAGGA
12130300 ACATCTTGGCCTCTGTAGGA
1 ACATCTTGGCCTCTGTAGGA
12130320 ACAT
1 ACAT
12130324 ACTCTCTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (20 bp):
ACATCTTGGCCTCTGTAGGA
Found at i:12132475 original size:46 final size:46
Alignment explanation
Indices: 12132408--12132582 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
12132398 TGTAACCCGC
12132408 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
12132454 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *** *
12132504 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
12132547 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
12132583 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 62 0.59
47 25 0.24
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:12132528 original size:93 final size:93
Alignment explanation
Indices: 12132416--12132586 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
12132406 GCCCATAAGT
*** * *
12132416 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
12132481 CGAGCTCGGATGCCTAGTTACATTTCAC
66 CGAGCTCGGATGCCTAGTTACATTTCAC
*
12132509 GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
12132574 CGAGTTCGGATGC
66 CGAGCTCGGATGC
12132587 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCAC
Found at i:12137069 original size:18 final size:17
Alignment explanation
Indices: 12137032--12137065 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12137022 ATAGCTGAAG
12137032 CCACATGAGAAAAACTA
1 CCACATGAGAAAAACTA
12137049 CCACATGAGAAAAACTA
1 CCACATGAGAAAAACTA
12137066 ACCAACGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.12, T:0.12
Consensus pattern (17 bp):
CCACATGAGAAAAACTA
Found at i:12137406 original size:22 final size:22
Alignment explanation
Indices: 12137381--12137422 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
12137371 AGATGACTCT
12137381 GAACAAGACAGATTGTGAATCA
1 GAACAAGACAGATTGTGAATCA
12137403 GAACAAGACAGATTGTGAAT
1 GAACAAGACAGATTGTGAAT
12137423 TAGACTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (22 bp):
GAACAAGACAGATTGTGAATCA
Found at i:12138663 original size:30 final size:30
Alignment explanation
Indices: 12138616--12138725 Score: 195
Period size: 30 Copynumber: 3.7 Consensus size: 30
12138606 TTTACGAGCC
*
12138616 TAGGGG-AAAAATGTAATTTTGACAAAGTT
1 TAGGGGCAAAATTGTAATTTTGACAAAGTT
12138645 TAGGGGCAAAATTGTAATTTTGACAAAGTT
1 TAGGGGCAAAATTGTAATTTTGACAAAGTT
12138675 TAGGGGCAAAATTGTAATTTTGACAAAGTT
1 TAGGGGCAAAATTGTAATTTTGACAAAGTT
*
12138705 TAGGGGCAAAATTATAATTTT
1 TAGGGGCAAAATTGTAATTTT
12138726 CCAAAATATG
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
29 6 0.08
30 72 0.92
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (30 bp):
TAGGGGCAAAATTGTAATTTTGACAAAGTT
Found at i:12139058 original size:27 final size:27
Alignment explanation
Indices: 12139028--12139081 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
12139018 TGTCATGTGA
* *
12139028 AATTGAATGGAAAATTATTGTTACATG
1 AATTGAATGGAAAATTACTATTACATG
**
12139055 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGAAAATTACTATTACATG
12139082 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGAAAATTACTATTACATG
Found at i:12139408 original size:49 final size:50
Alignment explanation
Indices: 12139330--12139573 Score: 267
Period size: 49 Copynumber: 4.9 Consensus size: 50
12139320 TATTTTGAGG
* *
12139330 TCACGTGTATAGTACGAAGTGCAGGCTACTACGTGTACCAGATAATT-GA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
* * * * * * *
12139379 TCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATTACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAATTAGA
* * * ** *
12139430 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCGGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
* * *
12139480 TCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCGGATAATTTG-
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
* * * *
12139529 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
12139574 CCTTGTCTAC
Statistics
Matches: 164, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 74 0.45
50 51 0.31
51 39 0.24
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
Found at i:12143366 original size:46 final size:48
Alignment explanation
Indices: 12143313--12143432 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 48
12143303 TATGTGTGCT
* *
12143313 AGTGTAAGACATGTCTAGAACATGCATCGG-C-C-ACATATTGA-GAGCC
1 AGTGTAAGACATGTCTGGAACATGCATCGGCCTCGACATA-T-ACCAGCC
* *
12143359 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACATATACCAGTC
1 AGTGTAAGACATGTCTGGAACATGCATCGGCCTCGACATATACCAGCC
12143407 AGTGTAA-ACATGTCTGGAACATGCAT
1 AGTGTAAGACATGTCTGGAACATGCAT
12143433 TAGTATTGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
46 28 0.43
47 20 0.31
48 12 0.18
49 5 0.08
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGAACATGCATCGGCCTCGACATATACCAGCC
Found at i:12143609 original size:48 final size:47
Alignment explanation
Indices: 12143544--12143721 Score: 157
Period size: 48 Copynumber: 3.7 Consensus size: 47
12143534 GTTATGTGTT
* *
12143544 AGTGTAAGACCTATCTGGGACATGGCATTGACACCAATTGATGAGAGC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACACC-ATTGATGAAAGC
* * * * *
12143592 AGTGTAAGACCTGTCTGGGACACGACATTAGCCTCGATAT-ATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATT-GACACCAT-TGATGAAAG-C
* * *
12143641 AGTGTAAGACCTGTCTGGGACATGGCATCG--A-CTTTGATGTACTAGC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGACACCATTGATG-A-AAGC
*
12143687 TAGTGTAAGACCATGTCTGGGACTTGGCATTGACA
1 -AGTGTAAGACC-TGTCTGGGACATGGCATTGACA
12143722 TCCTATCCCA
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 2 0.02
47 13 0.12
48 52 0.50
49 31 0.30
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATTGACACCATTGATGAAAGC
Found at i:12143626 original size:141 final size:145
Alignment explanation
Indices: 12143445--12143721 Score: 347
Period size: 141 Copynumber: 1.9 Consensus size: 145
12143435 GTATTGAGAC
* *
12143445 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGATA-CACAAG-CTAGTGCAAG
1 GAGAGCTAGTGTAAGACATGTCTAGGACACGCATTAGCCTCGAGATATCA-AAGTC-AGTGCAAG
* *
12143508 ACCTGTCTGGGACATGGCATC-AGC-TTG-T-TA-TGTGTTAGTGTAAGACC-TATCTGGGACAT
64 ACCTGTCTGGGACATGGCATCGA-CTTTGATGTACT-AGCTAGTGTAAGACCATATCTGGGACAT
12143567 GGCATTGACACCAATTGAT
127 GGCATTGACACCAATTGAT
* * * * *
12143586 GAGAGC-AGTGTAAGACCTGTCTGGGACACGACATTAGCCTCGATATATGAAAGTCAGTGTAAGA
1 GAGAGCTAGTGTAAGACATGTCTAGGACACG-CATTAGCCTCGAGATATCAAAGTCAGTGCAAGA
* *
12143650 CCTGTCTGGGACATGGCATCGACTTTGATGTACTAGCTAGTGTAAGACCATGTCTGGGACTTGGC
65 CCTGTCTGGGACATGGCATCGACTTTGATGTACTAGCTAGTGTAAGACCATATCTGGGACATGGC
12143715 ATTGACA
130 ATTGACA
12143722 TCCTATCCCA
Statistics
Matches: 116, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
140 21 0.18
141 52 0.45
142 6 0.05
143 1 0.01
144 15 0.13
145 21 0.18
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (145 bp):
GAGAGCTAGTGTAAGACATGTCTAGGACACGCATTAGCCTCGAGATATCAAAGTCAGTGCAAGAC
CTGTCTGGGACATGGCATCGACTTTGATGTACTAGCTAGTGTAAGACCATATCTGGGACATGGCA
TTGACACCAATTGAT
Found at i:12150447 original size:16 final size:16
Alignment explanation
Indices: 12150419--12150452 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12150409 AGATTTGAGG
12150419 GATATTGGGAGTCATT
1 GATATTGGGAGTCATT
12150435 GATA-TGGGAAGTCATT
1 GATATTGGG-AGTCATT
12150451 GA
1 GA
12150453 AATTATCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (16 bp):
GATATTGGGAGTCATT
Found at i:12152785 original size:40 final size:40
Alignment explanation
Indices: 12152730--12152809 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
12152720 GGTTCAAATT
12152730 GAAAAAAAATATTTTCCAGTTGATTTTATTGTTTCGACAC
1 GAAAAAAAATATTTTCCAGTTGATTTTATTGTTTCGACAC
12152770 GAAAAAAAATATTTTCCAGTTGATTTTATTGTTTCGACAC
1 GAAAAAAAATATTTTCCAGTTGATTTTATTGTTTCGACAC
12152810 ACATCCTGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (40 bp):
GAAAAAAAATATTTTCCAGTTGATTTTATTGTTTCGACAC
Found at i:12166529 original size:12 final size:12
Alignment explanation
Indices: 12166512--12166552 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
12166502 ATAGGATTAG
*
12166512 CACGGTTTAGCA
1 CACGGTTTGGCA
12166524 CACGGTTTGGCA
1 CACGGTTTGGCA
12166536 CACGGTTTGGCA
1 CACGGTTTGGCA
12166548 CACGG
1 CACGG
12166553 GCATGTGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.22
Consensus pattern (12 bp):
CACGGTTTGGCA
Found at i:12170955 original size:14 final size:13
Alignment explanation
Indices: 12170931--12170968 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
12170921 TTCCCATATA
12170931 AAAAT-CCAATTC
1 AAAATACCAATTC
12170943 AAACATACCAATTC
1 AAA-ATACCAATTC
*
12170957 AAAATACAAATT
1 AAAATACCAATT
12170969 TTATATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 3 0.13
13 10 0.43
14 10 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATACCAATTC
Found at i:12172727 original size:49 final size:50
Alignment explanation
Indices: 12172664--12172798 Score: 184
Period size: 51 Copynumber: 2.7 Consensus size: 50
12172654 ATCTGGAATG
12172664 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAG-TCT-GGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAGTTCTGGGTACA
* * * * *
12172713 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG-TTCTGGGTACA
*
12172764 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACC
12172799 TCACAATAGA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 4 0.05
49 32 0.43
50 2 0.03
51 36 0.49
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCACAGTTCTGGGTACA
Found at i:12172783 original size:51 final size:49
Alignment explanation
Indices: 12172663--12172791 Score: 179
Period size: 49 Copynumber: 2.6 Consensus size: 49
12172653 TATCTGGAAT
*
12172663 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTGGTAC
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTGGTAC
* * * *
12172712 ACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTTGGGTAC
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG--TCT-GGTAC
12172763 GCATAGTAGCCTGCACTTAGTACTACACA
1 GCATAGTAGCCTGCACTTAGTACTACACA
12172792 TGCGACCTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 4 0.06
49 32 0.46
50 2 0.03
51 32 0.46
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
GCATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTGGTAC
Found at i:12174768 original size:42 final size:43
Alignment explanation
Indices: 12174678--12174779 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
12174668 GTCCAAAACG
* * *
12174678 TGGTCTTACATGCAATCAAATATCGATGCCACTGTCCCAGATA
1 TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACA
* * *
12174721 GGGTCTTACACGAAATCAAATA-CGATGTCGA-TGTTCCAGACA
1 TGGTCTTACACGAAATCAAATATCGATG-CCACTGTCCCAGACA
*
12174763 TGGTCTTACACGTAATC
1 TGGTCTTACACGAAATC
12174780 TCAAATTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.58
43 21 0.42
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACA
Found at i:12182038 original size:26 final size:27
Alignment explanation
Indices: 12181984--12182038 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
12181974 ATTTGGTAAG
* * *
12181984 GTATGGCATAAAAAGCCTTCTGGTCTA
1 GTATGACAAAAAAAGCCTGCTGGTCTA
*
12182011 GTATGACAAAAAAAGCCTGC-GGTTTA
1 GTATGACAAAAAAAGCCTGCTGGTCTA
12182037 GT
1 GT
12182039 GGATAATGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (27 bp):
GTATGACAAAAAAAGCCTGCTGGTCTA
Found at i:12184205 original size:39 final size:39
Alignment explanation
Indices: 12184149--12184266 Score: 202
Period size: 39 Copynumber: 3.0 Consensus size: 39
12184139 GAAGACACTA
* *
12184149 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTG
1 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTGCTG
12184188 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTGCTG
12184227 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTC-TGCTG
1 GAAATGTATCCGAGCTAAAGTCCCGCAGGC-TTCGTGCTG
12184266 G
1 G
12184267 TAATATAATT
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
39 73 0.96
40 3 0.04
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:12187521 original size:27 final size:27
Alignment explanation
Indices: 12187491--12187552 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
12187481 GGAGGAAGTG
12187491 TACTGTTACTGGTGGCTTTGCCACATA
1 TACTGTTACTGGTGGCTTTGCCACATA
*
12187518 TACTATTACTGGTGGCTTTGCCACATA
1 TACTGTTACTGGTGGCTTTGCCACATA
12187545 TACTGTTA
1 TACTGTTA
12187553 TTGCCAGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACATA
Found at i:12187562 original size:27 final size:27
Alignment explanation
Indices: 12187505--12187581 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
12187495 GTTACTGGTG
* * ***
12187505 GCTTTGCCACATATACTATTACTGGTG
1 GCTTTGCCACATATACTGTTATTGCCA
12187532 GCTTTGCCACATATACTGTTATTGCCA
1 GCTTTGCCACATATACTGTTATTGCCA
*
12187559 GCTTTG-C-TATGATACTGTTATTG
1 GCTTTGCCACAT-ATACTGTTATTG
12187582 GAAGCCTTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
25 2 0.05
26 13 0.30
27 28 0.65
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (27 bp):
GCTTTGCCACATATACTGTTATTGCCA
Found at i:12187598 original size:26 final size:26
Alignment explanation
Indices: 12187544--12187598 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
12187534 TTTGCCACAT
* * *
12187544 ATACTGTTATTGCCAGCTTTGCTATG
1 ATACTGTTATTGCAAGCCTTGCTACG
* *
12187570 ATACTGTTATTGGAAGCCTTGCTGCG
1 ATACTGTTATTGCAAGCCTTGCTACG
12187596 ATA
1 ATA
12187599 TTGGTGTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (26 bp):
ATACTGTTATTGCAAGCCTTGCTACG
Found at i:12189132 original size:19 final size:20
Alignment explanation
Indices: 12189100--12189142 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
12189090 ATGGAGTTGG
*
12189100 TAAT-TACATGTGTA-AAAA
1 TAATATACATATGTATAAAA
12189118 TAATATACATATGTATAAAA
1 TAATATACATATGTATAAAA
12189138 TAATA
1 TAATA
12189143 AATTATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (20 bp):
TAATATACATATGTATAAAA
Found at i:12189282 original size:22 final size:22
Alignment explanation
Indices: 12189227--12189272 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
12189217 AAATAAAAAG
12189227 AATAAAAATAGAAACAAAGTTA
1 AATAAAAATAGAAACAAAGTTA
12189249 AATAAAAATAGAAACAAAGTTA
1 AATAAAAATAGAAACAAAGTTA
12189271 AA
1 AA
12189273 ACGAAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (22 bp):
AATAAAAATAGAAACAAAGTTA
Found at i:12189311 original size:17 final size:16
Alignment explanation
Indices: 12189287--12189318 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12189277 AATAGAGAAG
12189287 AAAAAGAAAGAAAAGA
1 AAAAAGAAAGAAAAGA
12189303 AAAAGAGAAAGAAAAG
1 AAAA-AGAAAGAAAAG
12189319 GAGAAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAAGA
Found at i:12189326 original size:26 final size:25
Alignment explanation
Indices: 12189270--12189326 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
12189260 AAACAAAGTT
* *
12189270 AAAACGAAATAGAGAAGAAAAAGAA
1 AAAAAGAAAAAGAGAAGAAAAAGAA
* *
12189295 AGAAAAGAAAAAGAGAAAGAAAAGGAG
1 A-AAAAGAAAAAGAG-AAGAAAAAGAA
12189322 AAAAA
1 AAAAA
12189327 CTAGGGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 15 0.58
27 10 0.38
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (25 bp):
AAAAAGAAAAAGAGAAGAAAAAGAA
Found at i:12194338 original size:49 final size:49
Alignment explanation
Indices: 12194217--12194344 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
12194207 GAAATGTGTC
* *
12194217 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATAGCCACGGATA-GTGAGAGCT
* * * *
12194267 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGG-T-GATGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCAT-AGCCACGGATAG-TGAGAGCT
12194316 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
12194345 TGGCAACTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 34 0.49
50 29 0.42
51 5 0.07
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATAGCCACGGATAGTGAGAGCT
Found at i:12197304 original size:16 final size:16
Alignment explanation
Indices: 12197283--12197316 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12197273 TGAAGTCTAG
*
12197283 GTGGATTTTTCCTTAA
1 GTGGATTTGTCCTTAA
12197299 GTGGATTTGTCCTTAA
1 GTGGATTTGTCCTTAA
12197315 GT
1 GT
12197317 ATTGTCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (16 bp):
GTGGATTTGTCCTTAA
Found at i:12200728 original size:55 final size:53
Alignment explanation
Indices: 12200638--12200763 Score: 128
Period size: 55 Copynumber: 2.3 Consensus size: 53
12200628 GACATGGCCG
* * * *
12200638 TGGGTGAACCTGCCAAAACAACACGGGCATTCGACACGCCCGTGCCTCGA-AACCA
1 TGGGTGAACCTGTC-AAACAACACAGGCATGCGACACACCCGTGCC-C-ACAACCA
* * * *
12200693 TGGGTGAACCTGTCAAACTAGCACAGGTATGCGACACACCCGTGCCCATCATCCG
1 TGGGTGAACCTGTCAAAC-AACACAGGCATGCGACACACCCGTGCCCA-CAACCA
12200748 TGGGTGAACCTGTCAA
1 TGGGTGAACCTGTCAA
12200764 GTTAACACGG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 1 0.02
54 5 0.08
55 54 0.90
ACGTcount: A:0.27, C:0.32, G:0.25, T:0.17
Consensus pattern (53 bp):
TGGGTGAACCTGTCAAACAACACAGGCATGCGACACACCCGTGCCCACAACCA
Found at i:12210102 original size:70 final size:72
Alignment explanation
Indices: 12209988--12210138 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
12209978 GGGGAATCAT
* *
12209988 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
12210052 GATATCG
66 GATATCG
***
12210059 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
12210123 GATATCG
66 GATATCG
12210130 CACTTAGCA
1 CACTTAGCA
12210139 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:12210169 original size:103 final size:103
Alignment explanation
Indices: 12210058--12210279 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
12210048 AATGGATATC
12210058 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
12210122 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACC-ATAAACCGGGGAATCA
12210161 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
12210226 GGATCACGCACATAGCACCACCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
**
12210264 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
12210280 TTTATATACA
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
103 45 0.40
104 66 0.59
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:12210641 original size:29 final size:29
Alignment explanation
Indices: 12210608--12210671 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
12210598 TAATCCACCA
12210608 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
12210637 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
12210667 CCCAA
1 CCCAA
12210672 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:12210645 original size:30 final size:30
Alignment explanation
Indices: 12210615--12210671 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12210605 CCACCCAACT
12210615 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
12210644 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
12210672 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:12210703 original size:26 final size:27
Alignment explanation
Indices: 12210652--12210714 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
12210642 ACTTTTGCAT
*
12210652 AATTACACTTTTGTCCCCAAGCTCGGA
1 AATTAAACTTTTGTCCCCAAGCTCGGA
12210679 AATTAAACTTTTGT-CCCAAGCTCGGA
1 AATTAAACTTTTGTCCCCAAGCTCGGA
12210705 AATTAAACTT
1 AATTAAACTT
12210715 CATCTCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 22 0.63
27 13 0.37
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (27 bp):
AATTAAACTTTTGTCCCCAAGCTCGGA
Found at i:12217770 original size:26 final size:26
Alignment explanation
Indices: 12217740--12217790 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
12217730 ACCAATGAAC
*
12217740 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
12217766 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
12217791 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:12217830 original size:103 final size:103
Alignment explanation
Indices: 12217646--12217867 Score: 367
Period size: 103 Copynumber: 2.2 Consensus size: 103
12217636 AATGGATATC
12217646 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
12217711 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACC-ATAAACCGGGGAATCA
12217750 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
12217814 GGATCA-CGCACATAGCACCACCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCATAAACCGGGGAATCA
**
12217852 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
12217868 TTTATATACA
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
102 28 0.25
103 66 0.59
104 18 0.16
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:12218229 original size:29 final size:29
Alignment explanation
Indices: 12218196--12218259 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
12218186 TAATCCACCA
12218196 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
12218225 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
12218255 CCCAA
1 CCCAA
12218260 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:12218233 original size:30 final size:30
Alignment explanation
Indices: 12218203--12218259 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12218193 CCACCCAACT
12218203 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
12218232 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
12218260 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:12221072 original size:20 final size:19
Alignment explanation
Indices: 12221049--12221097 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
12221039 CTTATTATAA
* *
12221049 CATAACATATTGTATCATAT
1 CATAACATATTGTAACA-AG
* *
12221069 CATACCATTTTGTAACAAG
1 CATAACATATTGTAACAAG
12221088 CATAACATAT
1 CATAACATAT
12221098 CATAGCATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (19 bp):
CATAACATATTGTAACAAG
Found at i:12226565 original size:30 final size:30
Alignment explanation
Indices: 12226531--12226591 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12226521 TCCTTAACTC
12226531 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
12226561 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
12226591 A
1 A
12226592 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:12227664 original size:23 final size:24
Alignment explanation
Indices: 12227587--12227665 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
12227577 AGACTCACCG
* * *
12227587 CAGCTCGTATGAGATTACCGATATAT
1 CAGCTCGTAAGAGCTTACCG-T-TTT
* * *
12227613 CATCTCGTAAGAGTTTACTGTTTT
1 CAGCTCGTAAGAGCTTACCGTTTT
*
12227637 CAGCTCGTCAGAGCTTACCG-TTT
1 CAGCTCGTAAGAGCTTACCGTTTT
12227660 CAGCTC
1 CAGCTC
12227666 AATAGAGCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 9 0.20
24 18 0.41
25 1 0.02
26 16 0.36
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACCGTTTT
Found at i:12229638 original size:20 final size:20
Alignment explanation
Indices: 12229613--12229658 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
12229603 ATAACCGATT
12229613 ATATATATATGTACATGAAC
1 ATATATATATGTACATGAAC
* *
12229633 ATATATATATGTTCATGTAC
1 ATATATATATGTACATGAAC
12229653 ATATAT
1 ATATAT
12229659 TTGTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (20 bp):
ATATATATATGTACATGAAC
Found at i:12229656 original size:18 final size:19
Alignment explanation
Indices: 12229615--12229663 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
12229605 AACCGATTAT
*
12229615 ATATATATGTACATGAACA
1 ATATATATGTTCATGAACA
*
12229634 TATATATATGTTCATGTAC-
1 -ATATATATGTTCATGAACA
*
12229653 ATATATTTGTT
1 ATATATATGTT
12229664 TTTATCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
20 16 0.62
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (19 bp):
ATATATATGTTCATGAACA
Found at i:12229962 original size:56 final size:55
Alignment explanation
Indices: 12229902--12230053 Score: 223
Period size: 56 Copynumber: 2.7 Consensus size: 55
12229892 CAGACAGGGT
* * *
12229902 CTTACTTACACACATATATCAGAATCACATATCGAAGCCAACGTATGAAACGTGGA
1 CTTACTTGCACACATATATC-GAATCACATATCGATGCCAACGTATGAAACATGGA
* *
12229958 CTTACTCGCACACATATATCGATATCACATATCGATGCCAATGTATGAAACATGGA
1 CTTACTTGCACACATATATCGA-ATCACATATCGATGCCAACGTATGAAACATGGA
*
12230014 CTCACTTGCACACATATATCGGAATCACATATCGATGCCA
1 CTTACTTGCACACATATATC-GAATCACATATCGATGCCA
12230054 CATATACTTC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
55 2 0.02
56 83 0.95
57 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (55 bp):
CTTACTTGCACACATATATCGAATCACATATCGATGCCAACGTATGAAACATGGA
Found at i:12231692 original size:20 final size:19
Alignment explanation
Indices: 12231650--12231723 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
12231640 TGTTACACGG
*
12231650 ATGAATTACT-GTTATATGA
1 ATGAATTACTATTTATA-GA
*
12231669 ATGAAATACTATTTATAGA
1 ATGAATTACTATTTATAGA
* *
12231688 GATGAGTTACTA-TTATCGA
1 -ATGAATTACTATTTATAGA
*
12231707 ATGAATTACTGTTTATA
1 ATGAATTACTATTTATA
12231724 TGATTGAGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 9 0.20
19 21 0.48
20 14 0.32
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.41
Consensus pattern (19 bp):
ATGAATTACTATTTATAGA
Found at i:12231722 original size:38 final size:39
Alignment explanation
Indices: 12231649--12231723 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
12231639 GTGTTACACG
* *
12231649 GATGAATTACTGTTATATGAATGAAATACTATTTATAGA
1 GATGAATTACTATTATACGAATGAAATACTATTTATAGA
* * *
12231688 GATGAGTTACTATTAT-CGAATGAATTACTGTTTATA
1 GATGAATTACTATTATACGAATGAAATACTATTTATA
12231724 TGATTGAGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 17 0.55
39 14 0.45
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (39 bp):
GATGAATTACTATTATACGAATGAAATACTATTTATAGA
Found at i:12234189 original size:26 final size:25
Alignment explanation
Indices: 12234152--12234225 Score: 79
Period size: 23 Copynumber: 3.2 Consensus size: 25
12234142 TGAATGTCTG
12234152 TAAAT-AT-TATGAATAAAATAATAA
1 TAAATGATATATG-ATAAAATAATAA
12234176 TAAATGATATATGATAAAAT-A-AA
1 TAAATGATATATGATAAAATAATAA
* *
12234199 TAATTGATA-AT-ATAAAATAATAG
1 TAAATGATATATGATAAAATAATAA
12234222 TAAA
1 TAAA
12234226 ATTAATTACA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
21 7 0.16
22 3 0.07
23 14 0.33
24 6 0.14
25 9 0.21
26 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (25 bp):
TAAATGATATATGATAAAATAATAA
Found at i:12234208 original size:16 final size:17
Alignment explanation
Indices: 12234187--12234219 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12234177 AAATGATATA
12234187 TGATAAAAT-AAATAAT
1 TGATAAAATAAAATAAT
*
12234203 TGATAATATAAAATAAT
1 TGATAAAATAAAATAAT
12234220 AGTAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TGATAAAATAAAATAAT
Found at i:12236641 original size:12 final size:12
Alignment explanation
Indices: 12236624--12236648 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12236614 AGATGTGTGT
12236624 TGAGAATGTGCC
1 TGAGAATGTGCC
12236636 TGAGAATGTGCC
1 TGAGAATGTGCC
12236648 T
1 T
12236649 TAGACTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (12 bp):
TGAGAATGTGCC
Found at i:12238838 original size:11 final size:11
Alignment explanation
Indices: 12238822--12238848 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12238812 CAAAATGCTC
12238822 AAATTAGGCTA
1 AAATTAGGCTA
12238833 AAATTAGGCTA
1 AAATTAGGCTA
12238844 AAATT
1 AAATT
12238849 TGTTAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (11 bp):
AAATTAGGCTA
Found at i:12239320 original size:18 final size:18
Alignment explanation
Indices: 12239293--12239335 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
12239283 AATTTTCATT
*
12239293 TAAAATATTTAAAAATAA
1 TAAAAAATTTAAAAATAA
* * *
12239311 TAAAAAATTTTAAACTTA
1 TAAAAAATTTAAAAATAA
12239329 TAAAAAA
1 TAAAAAA
12239336 ATAGAATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAAATTTAAAAATAA
Done.