Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 114 of 318
Found at i:36283522 original size:36 final size:36
Alignment explanation
Indices: 36283469--36283566 Score: 126
Period size: 36 Copynumber: 2.7 Consensus size: 36
36283459 TCATTAACAA
* * *
36283469 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATAAATTATTCAGTAACAATCAGTTAT
* * *
36283504 TCGGTAACAATAAATTATTCAATAATAATCAGTTAT
1 TCAGTAACAATAAATTATTCAGTAACAATCAGTTAT
36283540 TCAGTAACAATTAAATTATTCAGTAAC
1 TCAGTAACAA-TAAATTATTCAGTAAC
36283567 GTCGATCTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 3 0.06
36 35 0.67
37 14 0.27
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATAAATTATTCAGTAACAATCAGTTAT
Found at i:36284422 original size:4 final size:4
Alignment explanation
Indices: 36284413--36284443 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
36284403 CCTTTTCTCC
36284413 CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT
36284444 CCCCTGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:36284501 original size:14 final size:13
Alignment explanation
Indices: 36284482--36284511 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
36284472 TGTTTTTCTT
36284482 TTTCATTTCTTTTA
1 TTTCATTTC-TTTA
36284496 TTTCATTTCTTTA
1 TTTCATTTCTTTA
36284509 TTT
1 TTT
36284512 TATTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTCATTTCTTTA
Found at i:36293306 original size:18 final size:19
Alignment explanation
Indices: 36293283--36293332 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
36293273 TTTTTGTTAG
36293283 ATATTTTTTGA-ATTTTAA
1 ATATTTTTTGATATTTTAA
*
36293301 ATATTTTTTAAATATTTTAA
1 ATATTTTTT-GATATTTTAA
*
36293321 ATTATTTGTTGA
1 A-TATTTTTTGA
36293333 CATGGCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 9 0.35
19 1 0.04
20 9 0.35
21 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
ATATTTTTTGATATTTTAA
Found at i:36294785 original size:46 final size:47
Alignment explanation
Indices: 36294733--36294934 Score: 306
Period size: 46 Copynumber: 4.4 Consensus size: 47
36294723 TGTCATAGTG
* * * *
36294733 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATATCACGTTGCCATGGTA
* *
36294779 TCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGTTGCCATAGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATATCACGTTGCCATGGTA
36294825 TCTTTCAACCATGGTCTTATTCA-TTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATATCACGTTGCCATGGTA
*
36294871 TCTTTCAACCATGGTCTTATTCA-TTTCATATCATGTTGCCATGGT-
1 TCTTTCAACCATGGTCTTATTCATTTTCATATCACGTTGCCATGGTA
36294916 TCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTA
36294935 CACATTTCAT
Statistics
Matches: 147, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
45 24 0.16
46 123 0.84
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTATTCATTTTCATATCACGTTGCCATGGTA
Found at i:36297042 original size:12 final size:11
Alignment explanation
Indices: 36297021--36297077 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
36297011 TTTTATATAC
36297021 TAATAAAATAA
1 TAATAAAATAA
36297032 TAAT-AAA-AA
1 TAATAAAATAA
36297041 TAATAAAATATA
1 TAATAAAATA-A
* *
36297053 TTATTAAAATAT
1 -TAATAAAATAA
36297065 TAATAAAATAA
1 TAATAAAATAA
36297076 TA
1 TA
36297078 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 6 0.16
10 6 0.16
11 16 0.42
12 1 0.03
13 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:36297061 original size:33 final size:32
Alignment explanation
Indices: 36297015--36297113 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 32
36297005 TTCTTTTTTT
36297015 ATATACTAATAAAATAATAATAAAAATAATAAA
1 ATATACTAATAAAATAATAAT-AAAATAATAAA
* * * *
36297048 ATATATTATTAAAATATTAATAAAATAAT-AT
1 ATATACTAATAAAATAATAATAAAATAATAAA
* * *
36297079 TTAT-CTAATTAAATAATTATAAAAT-ATCAAA
1 ATATACTAATAAAATAATAATAAAATAAT-AAA
36297110 ATAT
1 ATAT
36297114 CTCTAGCATC
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 2 0.04
30 16 0.31
31 8 0.15
32 8 0.15
33 18 0.35
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (32 bp):
ATATACTAATAAAATAATAATAAAATAATAAA
Found at i:36297063 original size:27 final size:26
Alignment explanation
Indices: 36297033--36297105 Score: 60
Period size: 27 Copynumber: 2.7 Consensus size: 26
36297023 ATAAAATAAT
36297033 AATAAAAATAATAAAATATATTAT-TAA
1 AATAAAAATAATAAAATAT-TTATCT-A
**
36297060 AATATTAATAA-AATAATATTTATCTA
1 AATAAAAATAATAA-AATATTTATCTA
* *
36297086 ATTAAATAATTATAAAATAT
1 AATAAA-AATAATAAAATAT
36297106 CAAAATATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
26 10 0.28
27 24 0.67
28 2 0.06
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAAATAATAAAATATTTATCTA
Found at i:36297997 original size:13 final size:13
Alignment explanation
Indices: 36297979--36298007 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36297969 AGAATTAGAA
36297979 AAACCTTAGAAAG
1 AAACCTTAGAAAG
36297992 AAACCTTAGAAAG
1 AAACCTTAGAAAG
36298005 AAA
1 AAA
36298008 TGTGGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (13 bp):
AAACCTTAGAAAG
Found at i:36300359 original size:28 final size:28
Alignment explanation
Indices: 36300296--36300381 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 28
36300286 TTGTACATGT
* * *
36300296 GCGAACCCTCTGTATGCGTATCCCCTATAG
1 GCGAACCCT-TGTATGC-AAACCCCTATAA
36300326 GCGAACCCTTGTATGCAAACCCCTATAA
1 GCGAACCCTTGTATGCAAACCCCTATAA
* *
36300354 GTGAACCCTTTATATG-AGAACCCCTATA
1 GCGAACCC-TTGTATGCA-AACCCCTATA
36300382 TGTACGAACC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 17 0.35
29 23 0.47
30 9 0.18
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
GCGAACCCTTGTATGCAAACCCCTATAA
Found at i:36300369 original size:29 final size:28
Alignment explanation
Indices: 36300317--36300408 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 28
36300307 GTATGCGTAT
* *
36300317 CCCCTATAGGCGAACCCTTGTATGCA-AA
1 CCCCTATAAGCGAACCCTTATATG-AGAA
*
36300345 CCCCTATAAGTGAACCCTTTATATGAGAA
1 CCCCTATAAGCGAACCC-TTATATGAGAA
*
36300374 CCCCTATATGTACGAACCCTTATGAATGAGAA
1 CCCCTATAAG--CGAACCCTTAT--ATGAGAA
36300406 CCC
1 CCC
36300409 TCATATAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
28 16 0.30
29 17 0.32
30 4 0.08
31 6 0.11
32 10 0.19
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (28 bp):
CCCCTATAAGCGAACCCTTATATGAGAA
Found at i:36300383 original size:14 final size:14
Alignment explanation
Indices: 36300343--36300408 Score: 51
Period size: 16 Copynumber: 4.4 Consensus size: 14
36300333 CTTGTATGCA
* *
36300343 AACCCCTATAAGTG
1 AACCCCTATATGAG
*
36300357 AACCCTTTATATGAG
1 AACCC-CTATATGAG
36300372 AACCCCTATATGTACG
1 AACCCCTATATG-A-G
*
36300388 AACCCTTATGAATGAG
1 AACCCCTAT--ATGAG
36300404 AACCC
1 AACCC
36300409 TCATATAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
14 11 0.26
15 12 0.29
16 15 0.36
17 1 0.02
18 3 0.07
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (14 bp):
AACCCCTATATGAG
Found at i:36301855 original size:17 final size:17
Alignment explanation
Indices: 36301818--36301855 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
36301808 AACACTCGAT
*
36301818 TTTTATTTTTATTATAT
1 TTTTATTTTTATTATAA
36301835 TTTTATTTTTAGTT-TAA
1 TTTTATTTTTA-TTATAA
36301852 TTTT
1 TTTT
36301856 TTGCATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTATAA
Found at i:36303968 original size:29 final size:27
Alignment explanation
Indices: 36303925--36304007 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 27
36303915 AGCCACCCCA
36303925 TTTTTA-T-TTTA-TTTTATTTATTAT
1 TTTTTATTATTTATTTTTATTTATTAT
**
36303949 TTGTTATATTATTTATTTTTATTTTACCAAT
1 TT-TT-TATTATTTATTTTTA-TTTA-TTAT
*
36303980 TTTTTATTTTTTATTTTTATTTATTAT
1 TTTTTATTATTTATTTTTATTTATTAT
36304007 T
1 T
36304008 CTTATACTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
24 2 0.04
25 2 0.04
26 2 0.04
27 4 0.09
28 8 0.17
29 19 0.40
30 6 0.13
31 4 0.09
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (27 bp):
TTTTTATTATTTATTTTTATTTATTAT
Found at i:36303971 original size:6 final size:6
Alignment explanation
Indices: 36303924--36304041 Score: 51
Period size: 6 Copynumber: 18.0 Consensus size: 6
36303914 AAGCCACCCC
*
36303924 ATTTTT A-TTTT A-TTTT ATTTATT ATTTGTTAT ATTATTT ATTTTT ATTTTACCA
1 ATTTTT ATTTTT ATTTTT ATTT-TT A-TT-TT-T ATT-TTT ATTTTT ATTTT---T
* ** **
36303978 ATTTTTT ATTTTTT ATTTTT ATTTATT ATTCTT ATACTT ATATTTT AAATTT
1 A-TTTTT A-TTTTT ATTTTT ATTT-TT ATTTTT ATTTTT AT-TTTT ATTTTT
*
36304030 ATTTTA ATTTTT
1 ATTTTT ATTTTT
36304042 TGCTATTTCT
Statistics
Matches: 88, Mismatches: 13, Indels: 22
0.72 0.11 0.18
Matches are distributed among these distances:
5 10 0.11
6 40 0.45
7 23 0.26
8 7 0.08
9 4 0.05
10 4 0.05
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (6 bp):
ATTTTT
Found at i:36304158 original size:20 final size:22
Alignment explanation
Indices: 36304116--36304159 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
36304106 ATCATTGAGT
*
36304116 TTATTATTATTATTTTCGTTTTA
1 TTATTATTATTATTTTC-ATTTA
36304139 TTATTATT-TTATTTT-ATTTA
1 TTATTATTATTATTTTCATTTA
36304159 T
1 T
36304160 CTTTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
22 7 0.35
23 8 0.40
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TTATTATTATTATTTTCATTTA
Found at i:36304159 original size:17 final size:17
Alignment explanation
Indices: 36304119--36304156 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
36304109 ATTGAGTTTA
*
36304119 TTATTATTATTTTCGTT
1 TTATTATTATTTTCATT
36304136 TTATTATTATTTT-ATT
1 TTATTATTATTTTCATT
36304152 TTATT
1 TTATT
36304157 TATCTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TTATTATTATTTTCATT
Found at i:36305183 original size:15 final size:14
Alignment explanation
Indices: 36305152--36305198 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
36305142 TTATTGTGAT
*
36305152 AAAAAAATA-AATA
1 AAAAAAATAGAAGA
36305165 AAAAAAATAGAAGA
1 AAAAAAATAGAAGA
36305179 GAAAAAAATAGAA-A
1 -AAAAAAATAGAAGA
36305193 AAAAAA
1 AAAAAA
36305199 TTGATTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 15 0.48
14 4 0.13
15 12 0.39
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (14 bp):
AAAAAAATAGAAGA
Found at i:36308962 original size:21 final size:20
Alignment explanation
Indices: 36308920--36308962 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
36308910 CATTCGTGCC
* *
36308920 TTTCTTTTTCTTTTTTTTTA
1 TTTCTTTTTCTTTTATTATA
36308940 TTTCTTTATTCTTTTATTATA
1 TTTCTTT-TTCTTTTATTATA
36308961 TT
1 TT
36308963 ATTAACTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTTTTCTTTTATTATA
Found at i:36308986 original size:12 final size:15
Alignment explanation
Indices: 36308954--36309013 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
36308944 TTTATTCTTT
36308954 TATTATATTATTAAC
1 TATTATATTATTAAC
36308969 TATTATATT-TT-AC
1 TATTATATTATTAAC
36308982 TTTATTATATTATTTAA-
1 --TATTATATTA-TTAAC
36308999 TAATTATAATTATTA
1 T-ATTAT-ATTATTA
36309014 TTTCTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 2 0.05
14 2 0.05
15 19 0.50
16 8 0.21
17 6 0.16
18 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATATTATTAAC
Found at i:36310540 original size:42 final size:42
Alignment explanation
Indices: 36310355--36310533 Score: 259
Period size: 42 Copynumber: 4.3 Consensus size: 42
36310345 TGAGAATACA
* * * * * * * *
36310355 TGTAAGACCATATCTAGGATATGTCATCGGTATGATATTACG
1 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
36310397 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
* *
36310439 TGTAAGACCATGTCTGGGACATGGCATCGATGCGAAATTTCA
1 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
*
36310481 TGTAAGACCATGTCTGGGACATAGCATCGATACGAAATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
36310523 TGTAAGACCAT
1 TGTAAGACCAT
36310534 AGCTGGGCTA
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 124 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
Found at i:36311552 original size:24 final size:24
Alignment explanation
Indices: 36311525--36311570 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36311515 ATGGTATAGG
36311525 GATGATGAATTGGTACATTTTGAT
1 GATGATGAATTGGTACATTTTGAT
* *
36311549 GATGATGATTTGGTATATTTTG
1 GATGATGAATTGGTACATTTTG
36311571 TGGCATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (24 bp):
GATGATGAATTGGTACATTTTGAT
Found at i:36313047 original size:23 final size:23
Alignment explanation
Indices: 36312985--36313039 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
36312975 TGTGTTTAAC
* * *
36312985 ATGCTAACCCTACATCTACTAAT
1 ATGCAAACCCTACATGTAGTAAT
*
36313008 ATGCGAACCCTACATGTAGTAAT
1 ATGCAAACCCTACATGTAGTAAT
36313031 ATGCAAACC
1 ATGCAAACC
36313040 TTATATGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.25
Consensus pattern (23 bp):
ATGCAAACCCTACATGTAGTAAT
Found at i:36313148 original size:17 final size:15
Alignment explanation
Indices: 36313104--36313152 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
36313094 TGGTATATGC
* *
36313104 GAACCCTATATGCGT
1 GAACACTATATGTGT
36313119 GAACACTATATGTGT
1 GAACACTATATGTGT
* *
36313134 GAACACTAGATATGT
1 GAACACTATATGTGT
36313149 GAAC
1 GAAC
36313153 CCCAGATGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (15 bp):
GAACACTATATGTGT
Found at i:36313185 original size:15 final size:15
Alignment explanation
Indices: 36313150--36313199 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
36313140 TAGATATGTG
*
36313150 AACCCCAGATGTGCA
1 AACCCTAGATGTGCA
*
36313165 AACCCTAGATGTGCT
1 AACCCTAGATGTGCA
36313180 AACCCTA-ATGCATGCA
1 AACCCTAGATG--TGCA
36313196 AACC
1 AACC
36313200 TTATACGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 3 0.10
15 20 0.67
16 7 0.23
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (15 bp):
AACCCTAGATGTGCA
Found at i:36316835 original size:10 final size:10
Alignment explanation
Indices: 36316791--36316838 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
36316781 AATATAAATA
36316791 ATTTAA-TAT
1 ATTTAATTAT
* *
36316800 ATTTTATAAT
1 ATTTAATTAT
*
36316810 ATTTGTATTAT
1 ATTT-AATTAT
36316821 ATTTAATTAT
1 ATTTAATTAT
36316831 ATTTAATT
1 ATTTAATT
36316839 TGCATTCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 5 0.15
10 19 0.58
11 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
ATTTAATTAT
Found at i:36317371 original size:16 final size:16
Alignment explanation
Indices: 36317352--36317412 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
36317342 AATCATTTCA
36317352 TATAAAAATATTTAAT
1 TATAAAAATATTTAAT
36317368 TATAAAAAATAATGTT-AT
1 TAT-AAAAAT-AT-TTAAT
* *
36317386 GTA-AAAATTACTTAAT
1 -TATAAAAATATTTAAT
36317402 TATAAAAATAT
1 TATAAAAATAT
36317413 ATGATTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
15 4 0.11
16 12 0.34
17 11 0.31
18 4 0.11
19 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (16 bp):
TATAAAAATATTTAAT
Found at i:36317377 original size:17 final size:17
Alignment explanation
Indices: 36317355--36317414 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
36317345 CATTTCATAT
36317355 AAAAATATTTAATTATA
1 AAAAATATTTAATTATA
*
36317372 AAAAATAATGTT-A-TGTA
1 AAAAAT-AT-TTAATTATA
* *
36317389 AAAATTACTTAATTATA
1 AAAAATATTTAATTATA
36317406 AAAATATAT
1 AAAA-ATAT
36317415 GATTTATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 21 0.66
18 5 0.16
19 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAAATATTTAATTATA
Found at i:36325258 original size:73 final size:73
Alignment explanation
Indices: 36325176--36325371 Score: 392
Period size: 73 Copynumber: 2.7 Consensus size: 73
36325166 ACAACTTGAC
36325176 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
36325241 CACTAACA
66 CACTAACA
36325249 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
36325314 CACTAACA
66 CACTAACA
36325322 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAA
36325372 TAATAATAAT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 123 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:36325375 original size:3 final size:3
Alignment explanation
Indices: 36325367--36325395 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36325357 ATCCACTTAA
36325367 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36325396 AACAAGTGAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:36329694 original size:73 final size:73
Alignment explanation
Indices: 36329612--36329807 Score: 392
Period size: 73 Copynumber: 2.7 Consensus size: 73
36329602 ACAACTTGAC
36329612 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
36329677 CACTAACA
66 CACTAACA
36329685 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
36329750 CACTAACA
66 CACTAACA
36329758 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAA
36329808 TAATAATAAT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 123 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:36329811 original size:3 final size:3
Alignment explanation
Indices: 36329803--36329834 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
36329793 ATCCACTTAA
36329803 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36329835 AACATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:36330678 original size:26 final size:26
Alignment explanation
Indices: 36330638--36330691 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
36330628 TTGAGTATAG
*
36330638 TCAGATACAGGTAATGTTCAGTTTGT
1 TCAGATACAGCTAATGTTCAGTTTGT
36330664 TCAGATACAGCTAATGTTCAGTTTGT
1 TCAGATACAGCTAATGTTCAGTTTGT
36330690 TC
1 TC
36330692 TAAGCTTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (26 bp):
TCAGATACAGCTAATGTTCAGTTTGT
Found at i:36334350 original size:58 final size:59
Alignment explanation
Indices: 36334277--36334411 Score: 150
Period size: 58 Copynumber: 2.3 Consensus size: 59
36334267 TTTACATTTT
* * * * *
36334277 GGTACCTGAACTTGGCTTACGATTCAAATT-GTTATCTAATGATTT-TTTT-GTCCAATTA
1 GGTACATGAACTTGGCTTAAGACTCAAATTAG-TACCTAACG-TTTATTTTGGTCCAATTA
* * * *
36334335 GGTACTTGAACTTGGCTTAAGGCTCAATTTAGTGCCTAACGTTTATTTTGGTCCAATTA
1 GGTACATGAACTTGGCTTAAGACTCAAATTAGTACCTAACGTTTATTTTGGTCCAATTA
36334394 GGTACATGAACTTGGCTT
1 GGTACATGAACTTGGCTT
36334412 CTTGGTTCAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 3 0.05
58 35 0.54
59 27 0.42
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.40
Consensus pattern (59 bp):
GGTACATGAACTTGGCTTAAGACTCAAATTAGTACCTAACGTTTATTTTGGTCCAATTA
Found at i:36334455 original size:31 final size:31
Alignment explanation
Indices: 36334380--36334462 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
36334370 CTAACGTTTA
* *
36334380 TTTTGGTCCAATTAGGTACATGAACTTGGCT
1 TTTTGGTCCAATTTGGTACTTGAACTTGGCT
* * *
36334411 TCTTGGTTCAATTTGGTACTTGGACTTGGCT
1 TTTTGGTCCAATTTGGTACTTGAACTTGGCT
* *
36334442 TTTTTGTCCAATTTAGTACTT
1 TTTTGGTCCAATTTGGTACTT
36334463 AGCTATATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (31 bp):
TTTTGGTCCAATTTGGTACTTGAACTTGGCT
Found at i:36336174 original size:3 final size:3
Alignment explanation
Indices: 36336166--36336197 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
36336156 TTAACCTATC
36336166 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36336198 TATCCTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36350573 original size:21 final size:23
Alignment explanation
Indices: 36350537--36350580 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
36350527 ATCAATAATA
36350537 ATAAATATTCTATAATATAAAAT
1 ATAAATATTCTATAATATAAAAT
*
36350560 ATAAATATT-T-TAATTTAAAAT
1 ATAAATATTCTATAATATAAAAT
36350581 TGCTTATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAAATATTCTATAATATAAAAT
Found at i:36350847 original size:36 final size:33
Alignment explanation
Indices: 36350786--36350853 Score: 91
Period size: 36 Copynumber: 2.0 Consensus size: 33
36350776 TACAATCATG
36350786 ATAAAATTAAATTTTACAAAAATATATTTTTAA
1 ATAAAATTAAATTTTACAAAAATATATTTTTAA
* *
36350819 ATAAATTTAATATTTTAGTCAATAATATATTTTTA
1 ATAAAATTAA-ATTTTA--CAAAAATATATTTTTA
36350854 TTAAAGGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 9 0.30
34 6 0.20
36 15 0.50
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (33 bp):
ATAAAATTAAATTTTACAAAAATATATTTTTAA
Found at i:36352882 original size:23 final size:22
Alignment explanation
Indices: 36352856--36352900 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36352846 ATTTTAATTT
*
36352856 TTTTTAAAATATTTAATTAAATA
1 TTTTTAAAATA-TTAAATAAATA
* *
36352879 TTTTTTATATATTAAATAAATA
1 TTTTTAAAATATTAAATAAATA
36352901 AAACTAGCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTTAAAATATTAAATAAATA
Found at i:36353036 original size:23 final size:22
Alignment explanation
Indices: 36352978--36353036 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
36352968 ATAATTTTGA
36352978 ATTTTAAATAATATTCTTAATAT
1 ATTTT-AATAATATTCTTAATAT
* *
36353001 ATTATTAAAAATATT-TATATTAAT
1 ATT-TTAATAATATTCT-TAAT-AT
36353025 ATTTTAATAATA
1 ATTTTAATAATA
36353037 AATATATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 22 0.73
24 7 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTAATAATATTCTTAATAT
Found at i:36353040 original size:15 final size:15
Alignment explanation
Indices: 36353022--36353078 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 15
36353012 TATTTATATT
36353022 AATATTTTAATAATA
1 AATATTTTAATAATA
*
36353037 AATATATATTACATTTATA
1 AATAT-T-TTA-A-TAATA
36353056 AATA-TTTAATAATA
1 AATATTTTAATAATA
36353070 AATATTTTA
1 AATATTTTA
36353079 TGCATTGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 8 0.23
15 10 0.29
16 4 0.11
17 4 0.11
18 1 0.03
19 8 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:36353072 original size:14 final size:14
Alignment explanation
Indices: 36352996--36353076 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 14
36352986 TAATATTCTT
*
36352996 AATATATTATTAA-A
1 AATAT-TTAATAATA
*
36353010 AATATTT-AT-ATT
1 AATATTTAATAATA
36353022 AATATTTTAATAATAA
1 AATA-TTTAATAAT-A
*
36353038 ATATATATTACATTTATA
1 A-ATAT-TTA-A-TAATA
36353056 AATATTTAATAATA
1 AATATTTAATAATA
36353070 AATATTT
1 AATATTT
36353077 TATGCATTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
11 1 0.02
12 5 0.09
13 5 0.09
14 18 0.34
15 3 0.06
16 5 0.09
17 10 0.19
18 3 0.06
19 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTAATAATA
Found at i:36357100 original size:13 final size:13
Alignment explanation
Indices: 36357084--36357109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36357074 GGATTTTACT
36357084 TGTTTAATATTAA
1 TGTTTAATATTAA
36357097 TGTTTAATATTAA
1 TGTTTAATATTAA
36357110 GGATTAAATT
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TGTTTAATATTAA
Found at i:36358566 original size:17 final size:17
Alignment explanation
Indices: 36358533--36358567 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
36358523 CAGAATGCTA
36358533 ATTTGGTATCGATTTTT
1 ATTTGGTATCGATTTTT
36358550 ATTTGAGTATCGATTTTT
1 ATTTG-GTATCGATTTTT
36358568 TTATAAAATA
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:0.20, C:0.06, G:0.17, T:0.57
Consensus pattern (17 bp):
ATTTGGTATCGATTTTT
Found at i:36360509 original size:41 final size:41
Alignment explanation
Indices: 36360449--36360528 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
36360439 CCTTGAGTCC
* * * *
36360449 AACAAGCTTTGTGCCGGTGATTTATATCAGGTTTTGTGCCT
1 AACAAGCTTCGTGCAGGTGATTTATATCAAGCTTTGTGCCT
*
36360490 AACAGGCTTCGTGCAGGTGATTTATATCAAGCTTTGTGC
1 AACAAGCTTCGTGCAGGTGATTTATATCAAGCTTTGTGC
36360529 TGATGATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
AACAAGCTTCGTGCAGGTGATTTATATCAAGCTTTGTGCCT
Found at i:36360528 original size:25 final size:25
Alignment explanation
Indices: 36360493--36360553 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
36360483 TGTGCCTAAC
* *
36360493 AGGCTTCGTGCAGGTGATTTATATCA
1 AGGCTTTGTGCAGATGATTTATAT-A
*
36360519 A-GCTTTGTGCTGATGATTTATATA
1 AGGCTTTGTGCAGATGATTTATATA
36360543 AGGCTTTGTGC
1 AGGCTTTGTGC
36360554 CTAGAAGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.06
25 28 0.90
26 1 0.03
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.39
Consensus pattern (25 bp):
AGGCTTTGTGCAGATGATTTATATA
Found at i:36360567 original size:66 final size:66
Alignment explanation
Indices: 36360451--36360584 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 66
36360441 TTGAGTCCAA
* * *
36360451 CAAGCTTTGTGCCGGTGATTTATATCAGGTTTTGTGCCTAACAGGCTTCGTG-CAGGTGATTTAT
1 CAAGCTTTGTGCCGATGATTTATATAAGGCTTTGTGCCTAACAGGCTTCGTGTC-GGTGATTTAT
36360515 AT
65 AT
* *
36360517 CAAGCTTTGTGCTGATGATTTATATAAGGCTTTGTGCCTAGA-AGGTTTCGTGTCGGTGATTTAT
1 CAAGCTTTGTGCCGATGATTTATATAAGGCTTTGTGCCTA-ACAGGCTTCGTGTCGGTGATTTAT
36360581 AT
65 AT
36360583 CA
1 CA
36360585 GGCTCTATGC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
66 59 0.97
67 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (66 bp):
CAAGCTTTGTGCCGATGATTTATATAAGGCTTTGTGCCTAACAGGCTTCGTGTCGGTGATTTATA
T
Found at i:36363093 original size:591 final size:592
Alignment explanation
Indices: 36361961--36363148 Score: 1930
Period size: 591 Copynumber: 2.0 Consensus size: 592
36361951 AAAAATTGTA
* *
36361961 AAGAAGATGAAAAACAAATATTAAGAAAAATAGGCAGAGAGGAGAAAATTTTCAGTTTAATTAGA
1 AAGAAGATGAAAAACAAAGATAAAGAAAAATAGGCAGAGAGGAGAAAATTTTCAGTTTAATTAGA
*
36362026 AAAAGAAACTATAGTTCAATTGTGTTTTGGAAAAAGGATCAAATAGTTAAAGTTTTCAAATTTTA
66 AAAAGAAACTATAGTTCAATTGTGTTTAGGAAAAAGGATCAAATAGTTAAAGTTTTCAAATTTTA
* *
36362091 AAGGGGTTGAATGGTAAATTACCAATTTAGCCAAAAAAATGAAAATAAGAAGGGATTGTCATGAC
131 AAGGGGTTGAATGGTAAATTACCAATTTAGCCAAAAAAATGAAAATAAAAAGGGATTGTCATAAC
** * * * **
36362156 TTGAACCAAGGAATCAAAAGGAGAAATGGGAAGGCTTAACCAATTAGGTTGTTTCCCATTCTTGG
196 TTGAACCAAGGAATCAAAAGGAGAAATGCAAAGGCTTAACCAAGTAGGTTGCTCCCCATTCTTAC
*
36362221 TAAGTTTCCACTCCATTTAATATTTGTTTTAAGGGTATTTTTCATTCTAGTTTGTTGAAATTAAA
261 TAAGTTTCCACTCCATTCAATATTTGTTTTAAGGGTATTTTTCATTCTAGTTTGTTGAAATTAAA
* * * *
36362286 AGGAAATGAAATAAAAGAGGTGTAGATAGAAATTAAGACATCTAGGGAGTGTACTAACAACTTAA
326 AAGAAATGAAATAAAAGAAGTGTAGATAGAAATTAAGACATCTAGAGAGTGCACTAACAACTTAA
* *
36362351 CCATCAAATGTAAGTCATTACTTGGTTATTTATTTCATCTAAACCCCTATATTTTGGGGCGTTAC
391 CCATCAAATGTAAGTCATTACTTGGTTATTTATTTCATCTAAACCCCTATATTTTGGGACATTAC
*
36362416 AATTTTAGTTTTAAATTTTAATTATAATTTGATGCATGACGTCTAAAGTTGTTTATTATTTAAAA
456 AATTTTAGTTTTAAATTTTAATTATAATTTGATGCATGACATCTAAAGTTGTTTATTATTTAAAA
* * ** *
36362481 AAATATTATTAATGGCAAGAAAATTGTATTTAA-ACTTAATTTAAAAAATTATACTCACTTTAAA
521 AAATATTATTAACGACAAGAAAATCATATTTAAGACTTAATTTAAAAAATGATACTCACTTTAAA
36362545 TATAAAG
586 TATAAAG
* * *
36362552 AAGATGATGAAAAACAAAGATAAAGAGAAATAGGGAGAGAGGAGAAAATTTTCAGTTTAATTAGA
1 AAGAAGATGAAAAACAAAGATAAAGAAAAATAGGCAGAGAGGAGAAAATTTTCAGTTTAATTAGA
* * *
36362617 AAAAGAAACTATAGTTCAATTGTGTTTAGGAAAAATGATTAAATAGTTAAGGTTTTCAAATTTTA
66 AAAAGAAACTATAGTTCAATTGTGTTTAGGAAAAAGGATCAAATAGTTAAAGTTTTCAAATTTTA
* *
36362682 AAGGGGTTGAATGGTAAATTACCCATTTAGCCAAAAAAATGAAAATAAAAAGGGATTGTCATAAT
131 AAGGGGTTGAATGGTAAATTACCAATTTAGCCAAAAAAATGAAAATAAAAAGGGATTGTCATAAC
* *
36362747 TTGAA-CATAGGAATCTAAGGGAGAAATGCAAAGGCTTAACCAAGTAGGTTGCTCCCCATTCTTA
196 TTGAACCA-AGGAATCAAAAGGAGAAATGCAAAGGCTTAACCAAGTAGGTTGCTCCCCATTCTTA
*
36362811 CTAAGTTTCCACTCCATTCAATATTTGTTTTAAGGGTATTTTTCATTCTAGTTTGTTTAAATTAA
260 CTAAGTTTCCACTCCATTCAATATTTGTTTTAAGGGTATTTTTCATTCTAGTTTGTTGAAATTAA
* * * *
36362876 AAATAAATGAAATAAAAGAAGTGTGGATAGAACTTAAGACCTCTAGAGAGTGCACTAACAACTTA
325 AAAGAAATGAAATAAAAGAAGTGTAGATAGAAATTAAGACATCTAGAGAGTGCACTAACAACTTA
* * *
36362941 ACCATCAAATTTAAGTCATTATTTGGTTATTTATTTCATCTAACCCCCTATATTTTGGGACATTA
390 ACCATCAAATGTAAGTCATTACTTGGTTATTTATTTCATCTAAACCCCTATATTTTGGGACATTA
** *
36363006 CGGTTTTAGTTTTAAATTTTAATTATAATTTGATGCATGACATTTAAAGTTGTTTATTATTTAAA
455 CAATTTTAGTTTTAAATTTTAATTATAATTTGATGCATGACATCTAAAGTTGTTTATTATTTAAA
*
36363071 AAATTATTATTAACGACAAGAAAATCATATTTAAGACTTAATTTAAAAAATGATACTCACTTTAA
520 AAAATATTATTAACGACAAGAAAATCATATTTAAGACTTAATTTAAAAAATGATACTCACTTTAA
36363136 ATATAAAG
585 ATATAAAG
36363144 AAGAA
1 AAGAA
36363149 AAAGACGTAT
Statistics
Matches: 547, Mismatches: 48, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
590 2 0.00
591 504 0.92
592 41 0.07
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (592 bp):
AAGAAGATGAAAAACAAAGATAAAGAAAAATAGGCAGAGAGGAGAAAATTTTCAGTTTAATTAGA
AAAAGAAACTATAGTTCAATTGTGTTTAGGAAAAAGGATCAAATAGTTAAAGTTTTCAAATTTTA
AAGGGGTTGAATGGTAAATTACCAATTTAGCCAAAAAAATGAAAATAAAAAGGGATTGTCATAAC
TTGAACCAAGGAATCAAAAGGAGAAATGCAAAGGCTTAACCAAGTAGGTTGCTCCCCATTCTTAC
TAAGTTTCCACTCCATTCAATATTTGTTTTAAGGGTATTTTTCATTCTAGTTTGTTGAAATTAAA
AAGAAATGAAATAAAAGAAGTGTAGATAGAAATTAAGACATCTAGAGAGTGCACTAACAACTTAA
CCATCAAATGTAAGTCATTACTTGGTTATTTATTTCATCTAAACCCCTATATTTTGGGACATTAC
AATTTTAGTTTTAAATTTTAATTATAATTTGATGCATGACATCTAAAGTTGTTTATTATTTAAAA
AAATATTATTAACGACAAGAAAATCATATTTAAGACTTAATTTAAAAAATGATACTCACTTTAAA
TATAAAG
Found at i:36372253 original size:44 final size:44
Alignment explanation
Indices: 36372190--36372280 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
36372180 ATAGGTCAAA
*
36372190 TAATATTAAAATAAACTACACTAATTA-AAGTTTAAGTGGGAAAC
1 TAATATTAAAATAAACTACACTAATTAGAA-TTTAAGTAGGAAAC
*
36372234 TAATATTAAAATAACCTACACTAATTAGAATTTAAGTAGGAAAC
1 TAATATTAAAATAAACTACACTAATTAGAATTTAAGTAGGAAAC
36372278 TAA
1 TAA
36372281 AAACCAGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAAACTACACTAATTAGAATTTAAGTAGGAAAC
Found at i:36374073 original size:42 final size:42
Alignment explanation
Indices: 36374023--36374149 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
36374013 CTTCATTTTC
** ** *
36374023 TCGATGCCATAGTTCAATTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
36374066 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
36374107 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
36374148 TC
1 TC
36374150 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:36374180 original size:88 final size:89
Alignment explanation
Indices: 36374066--36374233 Score: 214
Period size: 88 Copynumber: 1.9 Consensus size: 89
36374056 CTTCACATAA
* * *
36374066 TGATGCCATAGCCCAGCTATGGTCTTACACA-TATTCATATAT-CGATGCCATAGCCCAGCTATG
1 TGATGCCATAGCCCAGATATGGTCTTACACAGTA-GCATATATCCGATGCCATAGCCCAGATATG
36374129 GTCTTACACGAATCACATATCTCAC
65 GTCTTACACGAATCACATATCTCAC
* * *
36374154 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACCGATGCCATATCCCAGAT
1 TGATGCCATAGCCCAGATATGGTCTTACACAGTAGCATATAT----CCGATGCCATAGCCCAGAT
*
36374219 ATGGTCTTATACGAA
62 ATGGTCTTACACGAA
36374234 AATCACTTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
88 35 0.52
89 2 0.03
93 30 0.45
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (89 bp):
TGATGCCATAGCCCAGATATGGTCTTACACAGTAGCATATATCCGATGCCATAGCCCAGATATGG
TCTTACACGAATCACATATCTCAC
Found at i:36374211 original size:47 final size:46
Alignment explanation
Indices: 36374108--36374233 Score: 171
Period size: 47 Copynumber: 2.7 Consensus size: 46
36374098 ATTCATATAT
* * * * *
36374108 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
36374154 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
36374201 CGATGCCATATCCCAGATATGGTCTTATACGAA
1 CGATGCCATATCCCAGATATGGTCTTATACGAA
36374234 AATCACTTGT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
46 28 0.41
47 41 0.59
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:36374291 original size:31 final size:31
Alignment explanation
Indices: 36374256--36374466 Score: 300
Period size: 31 Copynumber: 6.8 Consensus size: 31
36374246 CTTGTCACTT
*
36374256 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
36374287 GTAGCCGAAGCTACAAATTTTCACTTATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
36374318 GTAGTTGGAA-CTACCACTTTTCACTGATCAG
1 GTAG-CCGAAGCTACCACTTTTCACTGATCAG
**
36374349 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
36374380 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
36374411 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
36374442 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
36374467 TGTCATTTGT
Statistics
Matches: 160, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
30 5 0.03
31 150 0.94
32 5 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:36374546 original size:50 final size:51
Alignment explanation
Indices: 36374442--36374570 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
36374432 CACTGATCAG
* * *
36374442 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
36374493 GTAGTCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
36374543 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
36374571 TGCCATTGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:36382004 original size:46 final size:46
Alignment explanation
Indices: 36381951--36382038 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
36381941 CCAAAATGAG
36381951 AAGGTCGAGTTAAAGGCTAGAGTGGCAGAATTAGAAAGGTTGCACC
1 AAGGTCGAGTTAAAGGCTAGAGTGGCAGAATTAGAAAGGTTGCACC
* *
36381997 AAGGTCGAGTTAAAGGCTAGAGTGGCAGAATTGGAATGGTTG
1 AAGGTCGAGTTAAAGGCTAGAGTGGCAGAATTAGAAAGGTTG
36382039 TTCCATCAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.22
Consensus pattern (46 bp):
AAGGTCGAGTTAAAGGCTAGAGTGGCAGAATTAGAAAGGTTGCACC
Found at i:36393596 original size:40 final size:38
Alignment explanation
Indices: 36393552--36393640 Score: 133
Period size: 40 Copynumber: 2.3 Consensus size: 38
36393542 TTACAACACC
36393552 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCAT
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTAT-CCC-T
* *
36393592 ACTTGGTGTGTAGGGCTGGGTGGGTTGATTTTATCCCT
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCT
*
36393630 ACATGGTGTGT
1 ACTTGGTGTGT
36393641 TGGATTAGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 11 0.24
39 3 0.07
40 32 0.70
ACGTcount: A:0.13, C:0.15, G:0.35, T:0.37
Consensus pattern (38 bp):
ACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCT
Found at i:36398821 original size:555 final size:555
Alignment explanation
Indices: 36397771--36398881 Score: 2078
Period size: 555 Copynumber: 2.0 Consensus size: 555
36397761 ATGAGTTGCA
*
36397771 GGTTAGGCCAACGTGGCTGGGTTGGATTAAAGACAAGCAGTTGGGAGATAAGTCTCTTGAGTTAC
1 GGTTAGGCCAACGTGGCTGGGTTAGATTAAAGACAAGCAGTTGGGAGATAAGTCTCTTGAGTTAC
36397836 AATTCTGTCAAGTTGAGGCTGGAACAACCACTGATTTTAGGATTGGCAGTGATGGGGTGTTGCGT
66 AATTCTGTCAAGTTGAGGCTGGAACAACCACTGATTTTAGGATTGGCAGTGATGGGGTGTTGCGT
36397901 TTCCGAGATAGGATCTGTGTGCCTAATGATGAGGATTTGCGATTGTCGATTCTGAAGGATGCGCA
131 TTCCGAGATAGGATCTGTGTGCCTAATGATGAGGATTTGCGATTGTCGATTCTGAAGGATGCGCA
* *
36397966 TAGTAGTCCTTACACTATGCAATCTGGTGAGAACAAGATCTATAGGGATTTTCGAGAGTTATACT
196 TAGTAGTCCTTACACTATGCAACCTGGTGAGAACAAGATCTATAGGGATCTTCGAGAGTTATACT
*
36398031 GGTAGCCAGGGTTAAAACGTGAGGTGACCGATTTTGTTGCTTGCTGTTTAACTTGTCAGTAGGTT
261 AGTAGCCAGGGTTAAAACGTGAGGTGACCGATTTTGTTGCTTGCTGTTTAACTTGTCAGTAGGTT
* *
36398096 AATGCTGAGCATCAGTTACCTTCGAGTTTACTACAGCCAGTTAAGATTCCAATGTGGAAATGGGA
326 AAGGCTGAGCATCAGTTACCTTCGAGTTTACTACAGCCAGTTAAGATTCCAATGTGGAAATGGAA
*
36398161 GCGAGTAACGATGGACTTCGTTAGTGGGTTGCCTCTAACACCCACTAAGAAAGATTCTGTGTGGG
391 GCGAGTAACGATAGACTTCGTTAGTGGGTTGCCTCTAACACCCACTAAGAAAGATTCTGTGTGGG
* * *
36398226 TCGTTGTAGATCGATTGACCAAGTCTACACATTTCATTCCTGTTAGGACAGACTTTTCTTTACAG
456 TCGTTCTAGATCAATTGACCAAGTCTACACATTTCATTCCTGTTAGAACAGACTTTTCTTTACAG
*
36398291 CAGTTGGCTAAGCTTTACATTTCTAAGATAGTGAG
521 CAGTTGACTAAGCTTTACATTTCTAAGATAGTGAG
* *
36398326 GGTTAGGCCAACGTGGCTGGGTTAGATTAAAGATAAGCAGTTGGGAGATAAGTCTTTTGAGTTAC
1 GGTTAGGCCAACGTGGCTGGGTTAGATTAAAGACAAGCAGTTGGGAGATAAGTCTCTTGAGTTAC
*
36398391 AATTCTGTCAGGTTGAGGCTGGAACAACCACTGATTTTAGGATTGGCAGTGATGGGGTGTTGCGT
66 AATTCTGTCAAGTTGAGGCTGGAACAACCACTGATTTTAGGATTGGCAGTGATGGGGTGTTGCGT
*
36398456 TTCCGAGATAGGATCTGTGTGCCTAATGATGAGGATTTGCGATTGTCGATTCTGAGGGATGCGCA
131 TTCCGAGATAGGATCTGTGTGCCTAATGATGAGGATTTGCGATTGTCGATTCTGAAGGATGCGCA
36398521 TAGTAGTCCTTACACTATGCAACCTGGTGAGAACAAGATCTATAGGGATCTTCGAGAGTTATACT
196 TAGTAGTCCTTACACTATGCAACCTGGTGAGAACAAGATCTATAGGGATCTTCGAGAGTTATACT
*
36398586 AGTAGCCAGGGTTGAAACGTGAGGTGACCGATTTTGTTGCTTGCTGTTTAACTTGTCAGTAGGTT
261 AGTAGCCAGGGTTAAAACGTGAGGTGACCGATTTTGTTGCTTGCTGTTTAACTTGTCAGTAGGTT
36398651 AAGGCTGAGCATCAGTTACCTTCGAGTTTACTACAGCCAGTTAAGATTCCAATGTGGAAATGGAA
326 AAGGCTGAGCATCAGTTACCTTCGAGTTTACTACAGCCAGTTAAGATTCCAATGTGGAAATGGAA
36398716 GCGAGTAACGATAGACTTCGTTAGTGGGTTGCCTCTAACACCCACTAAGAAAGATTCTGTGTGGG
391 GCGAGTAACGATAGACTTCGTTAGTGGGTTGCCTCTAACACCCACTAAGAAAGATTCTGTGTGGG
36398781 TCGTTCTAGATCAATTGACCAAGTCTACACATTTCATTCCTGTTAGAACAGACTTTTCTTTACAG
456 TCGTTCTAGATCAATTGACCAAGTCTACACATTTCATTCCTGTTAGAACAGACTTTTCTTTACAG
36398846 CAGTTGACTAAGCTTTACATTTCTAAGATAGTGAG
521 CAGTTGACTAAGCTTTACATTTCTAAGATAGTGAG
36398881 G
1 G
36398882 CTGCATGGGG
Statistics
Matches: 540, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
555 540 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (555 bp):
GGTTAGGCCAACGTGGCTGGGTTAGATTAAAGACAAGCAGTTGGGAGATAAGTCTCTTGAGTTAC
AATTCTGTCAAGTTGAGGCTGGAACAACCACTGATTTTAGGATTGGCAGTGATGGGGTGTTGCGT
TTCCGAGATAGGATCTGTGTGCCTAATGATGAGGATTTGCGATTGTCGATTCTGAAGGATGCGCA
TAGTAGTCCTTACACTATGCAACCTGGTGAGAACAAGATCTATAGGGATCTTCGAGAGTTATACT
AGTAGCCAGGGTTAAAACGTGAGGTGACCGATTTTGTTGCTTGCTGTTTAACTTGTCAGTAGGTT
AAGGCTGAGCATCAGTTACCTTCGAGTTTACTACAGCCAGTTAAGATTCCAATGTGGAAATGGAA
GCGAGTAACGATAGACTTCGTTAGTGGGTTGCCTCTAACACCCACTAAGAAAGATTCTGTGTGGG
TCGTTCTAGATCAATTGACCAAGTCTACACATTTCATTCCTGTTAGAACAGACTTTTCTTTACAG
CAGTTGACTAAGCTTTACATTTCTAAGATAGTGAG
Found at i:36401293 original size:40 final size:40
Alignment explanation
Indices: 36401249--36401325 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
36401239 TTACAGTACC
*
36401249 ACTTGGTGTCTAGGGCTGGATGGGTCGATTTTATCCCCAT
1 ACTTGGTGTCTAAGGCTGGATGGGTCGATTTTATCCCCAT
* * *
36401289 ACTTGGTGTGTAAGGCTGGGTGGGTTGATTTTATCCC
1 ACTTGGTGTCTAAGGCTGGATGGGTCGATTTTATCCC
36401326 TACATGGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.14, C:0.17, G:0.32, T:0.36
Consensus pattern (40 bp):
ACTTGGTGTCTAAGGCTGGATGGGTCGATTTTATCCCCAT
Found at i:36403478 original size:23 final size:24
Alignment explanation
Indices: 36403442--36403488 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
36403432 ATAAAGAAAC
*
36403442 AAAAGGGAATAGAAACAGAAAAGA
1 AAAAGGGAATAGAAAAAGAAAAGA
*
36403466 AAAAGGGAA-AGAAAAATAAAAGA
1 AAAAGGGAATAGAAAAAGAAAAGA
36403489 GAACTAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.04
Consensus pattern (24 bp):
AAAAGGGAATAGAAAAAGAAAAGA
Found at i:36404644 original size:18 final size:18
Alignment explanation
Indices: 36404621--36404661 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
36404611 AATAAAAAAA
36404621 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
36404639 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
36404657 AGAAA
1 AGAAA
36404662 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:36409153 original size:20 final size:21
Alignment explanation
Indices: 36409128--36409169 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
36409118 AATATGCTGT
*
36409128 AAAATGAAAG-TTTTTGATAG
1 AAAATGAAAGATTATTGATAG
36409148 AAAATGAAAGATTATTGATAG
1 AAAATGAAAGATTATTGATAG
36409169 A
1 A
36409170 TAAACTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (21 bp):
AAAATGAAAGATTATTGATAG
Found at i:36409900 original size:32 final size:32
Alignment explanation
Indices: 36409858--36410040 Score: 147
Period size: 32 Copynumber: 5.7 Consensus size: 32
36409848 AAATGATACA
* *
36409858 ACTTGAAAAGGTTATGTACACTTTGTGTGTAC
1 ACTTGAAAAGGTAAGGTACACTTTGTGTGTAC
* * * *
36409890 ACTTGGAAAGGTTAGGTATACTTTGTGTATAC
1 ACTTGAAAAGGTAAGGTACACTTTGTGTGTAC
*
36409922 -CATATGAAAAGGAAAGGTACACTTTGTGTGTAC
1 AC-T-TGAAAAGGTAAGGTACACTTTGTGTGTAC
* * * * *
36409955 ACTTGGAAAGGTTAGGTATACTTTTTGTATAC
1 ACTTGAAAAGGTAAGGTACACTTTGTGTGTAC
* * *
36409987 -CATATGAAAAGGAAAGGTATACTTTGTGAGTACC
1 AC-T-TGAAAAGGTAAGGTACACTTTGTGTGTA-C
* *
36410021 ACTTGGAAAGG-AATGTACAC
1 ACTTGAAAAGGTAAGGTACAC
36410041 CTCAAGTGTA
Statistics
Matches: 120, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
31 2 0.02
32 60 0.50
33 54 0.45
34 3 0.03
35 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.32
Consensus pattern (32 bp):
ACTTGAAAAGGTAAGGTACACTTTGTGTGTAC
Found at i:36409933 original size:65 final size:65
Alignment explanation
Indices: 36409873--36410031 Score: 282
Period size: 65 Copynumber: 2.4 Consensus size: 65
36409863 AAAAGGTTAT
36409873 GTACACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
1 GTACACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
*
36409938 GTACACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTTTGTATACCATATGAAAAGGAAAG
1 GTACACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
* *
36410003 GTATACTTTGTGAGTACCACTTGGAAAGG
1 GTACACTTTGTGTGTA-CACTTGGAAAGG
36410032 AATGTACACC
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 78 0.87
66 12 0.13
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (65 bp):
GTACACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAG
Found at i:36410021 original size:33 final size:33
Alignment explanation
Indices: 36409903--36410014 Score: 147
Period size: 33 Copynumber: 3.4 Consensus size: 33
36409893 TGGAAAGGTT
36409903 AGGTATACTTTGTGTATACCATATGAAAAGGAA
1 AGGTATACTTTGTGTATACCATATGAAAAGGAA
* * * **
36409936 AGGTACACTTTGTGTGTA-CACT-TGGAAAGGTT
1 AGGTATACTTTGTGTATACCA-TATGAAAAGGAA
*
36409968 AGGTATACTTTTTGTATACCATATGAAAAGGAA
1 AGGTATACTTTGTGTATACCATATGAAAAGGAA
36410001 AGGTATACTTTGTG
1 AGGTATACTTTGTG
36410015 AGTACCACTT
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
32 25 0.39
33 39 0.61
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (33 bp):
AGGTATACTTTGTGTATACCATATGAAAAGGAA
Found at i:36410031 original size:33 final size:33
Alignment explanation
Indices: 36409877--36410033 Score: 146
Period size: 33 Copynumber: 4.8 Consensus size: 33
36409867 GGTTATGTAC
* **
36409877 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGAGTACCACTTGGAAAGGAAAGGTAT
* *
36409909 ACTTTGTGTA-TACCA-TATGAAAAGGAAAGGTAC
1 ACTTTGTG-AGTACCACT-TGGAAAGGAAAGGTAT
* **
36409942 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGAGTACCACTTGGAAAGGAAAGGTAT
* *
36409974 ACTTTTTGTA-TACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTG-AGTACCACT-TGGAAAGGAAAGGTAT
36410007 ACTTTGTGAGTACCACTTGGAAAGGAA
1 ACTTTGTGAGTACCACTTGGAAAGGAA
36410034 TGTACACCTC
Statistics
Matches: 98, Mismatches: 17, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
32 36 0.37
33 61 0.62
34 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.32
Consensus pattern (33 bp):
ACTTTGTGAGTACCACTTGGAAAGGAAAGGTAT
Found at i:36413079 original size:17 final size:17
Alignment explanation
Indices: 36413042--36413078 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
36413032 ATTAAGCTAA
36413042 TTTTAAAGTATTTTATG
1 TTTTAAAGTATTTTATG
*
36413059 TTTTAAATTATTTTAT-
1 TTTTAAAGTATTTTATG
36413075 TTTT
1 TTTT
36413079 TTCTCGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTAAAGTATTTTATG
Found at i:36414869 original size:15 final size:15
Alignment explanation
Indices: 36414849--36414885 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
36414839 CGAGGGTTAG
36414849 ATTATTACTATTACT
1 ATTATTACTATTACT
**
36414864 ATTATTTTTATTACT
1 ATTATTACTATTACT
36414879 ATTATTA
1 ATTATTA
36414886 TTACTATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTACTATTACT
Found at i:36426414 original size:45 final size:45
Alignment explanation
Indices: 36426356--36426445 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
36426346 TTCATCTTAT
* * * *
36426356 TCATTTTGTATTTTGGCAAAATGTGCTATCTTGATTAATTTATTC
1 TCATGTTGTATTTTAGCAAAATGTGCTATCGTGATTAATTCATTC
*
36426401 TCATGTTGTATTTTAGCAAAATTTGCTATCGTGATTAATTCATTC
1 TCATGTTGTATTTTAGCAAAATGTGCTATCGTGATTAATTCATTC
36426446 CGAGCTTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (45 bp):
TCATGTTGTATTTTAGCAAAATGTGCTATCGTGATTAATTCATTC
Found at i:36427168 original size:44 final size:44
Alignment explanation
Indices: 36427015--36427634 Score: 474
Period size: 44 Copynumber: 13.9 Consensus size: 44
36427005 TACCATGGCG
* * * *
36427015 AATCTTATCTCCCTGAAGTTGCAGTGTAGCAGATTGATGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
* * * * ** * * * *
36427059 AACCTTATCTCTCTAAAGTTGTAGTGGAACAGGTTAAAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-GAAGTTACA
* * *
36427104 AATCTTATCACCCTGAAGTTGCAGTGGGGTAGATTGTAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
* * * *
36427148 GATCCTATCTCCCTGAAGTTGCAGTGGAGTAGGTCGAAGTTAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA-CA
* * * *
36427193 AACCTTATC-CCCTGAAGTTGCAATGGAGCAGGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
* *
36427236 AATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGACTGAAAGTTACA
1 AATCTTATCTCCCTGA-AGTTGCAGTGGAGTAGATTG-AAGTTACA
* *
36427281 AA-CTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
** * * * *
36427325 AATCTTATCTATCTGAAGTTGCAGTAGAGTAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
** * * * * *
36427369 AATCTTATCTATCTGAAGTTGCAATAGAGTAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
** * * * *
36427413 AATCTTATCTATCTGAAGTTGCAGTAGAGTAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
* * ** *
36427457 AACCTTATCTCCCTGAAGTTGCAGTGGGGTAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
* * * ** *
36427501 AGTCTTGTCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTATGAGTTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT---G--A--AGTTACA
* * * * * *
36427552 AATCTTATCTCCCTGAAGATACAGTGGAGCAGATCGAAGATGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
* * * *
36427596 AAT-TGAATCTCCCTAAAGTTACAGTGGAGTAGATCGAAG
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
36427635 CACTAATTAC
Statistics
Matches: 473, Mismatches: 87, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
43 12 0.03
44 347 0.73
45 78 0.16
46 2 0.00
47 1 0.00
48 1 0.00
49 1 0.00
51 31 0.07
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
Found at i:36427324 original size:177 final size:176
Alignment explanation
Indices: 36427018--36427542 Score: 518
Period size: 177 Copynumber: 3.0 Consensus size: 176
36427008 CATGGCGAAT
* * * * * * *
36427018 CTTATCTCCCTGAAGTTGCAGTGTAGCAGATTGATGTCACAAACCTTATCTCTCTAAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACAAATCTTATCTCTCTAGAGTTGCAG
* * * * * *
36427083 TGGAACAGGTTAAAAATAACAAA-TCTTATCACCCTGAAGTTGCAGTGGGGTAGATTGTAGTTAC
66 TGGAGCA-GATAAAAGTTACAAACT-TTATCTCCCTGAAGTTGCAGTGGGGTAGATTGAAGTTAC
* * * * *
36427147 AGATCCTATCTCCCTGAAGTTGCAGTGGAGTAGGTCGAAGTTAGCAAAC
129 AGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATCAAAGCTA-CAAAC
* *
36427196 CTTATC-CCCTGAAGTTGCAATGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTAGAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACAAATCTTATCTCTCTAGAGTTGCAG
* * * *
36427260 TGGAGCAGACTGAAAGTTACAAACTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
66 TGGAGCAGA-TAAAAGTTACAAACTTTATCTCCCTGAAGTTGCAGTGGGGTAGATTGAAGTTACA
* ** * * *
36427325 AATCTTATCTATCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAAT
130 GATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATCAAAGCTACAAAC
** * * * * * *
36427372 CTTATCTATCTGAAGTTGCAATAGAGTAGATTAAAGCTATAAATCTTATCTATCT-GAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACAAATCTTATCTCTCTAG-AGTTGCA
* * * * * * **
36427436 GTAGAGTAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGCAGTGGGGTAGATTGAAGCCACT
65 GTGGAGCAGATAAAAGTTACAAACTTTATCTCCCTGAAGTTGCAGTGGGGTAGATTGAAGTTAC-
* ** *
36427501 AG-TCTTGTCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTA
129 AGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATCAAAGCTA
36427543 TGAGTTAAAA
Statistics
Matches: 285, Mismatches: 57, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
176 91 0.32
177 187 0.66
178 7 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (176 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACAAATCTTATCTCTCTAGAGTTGCAG
TGGAGCAGATAAAAGTTACAAACTTTATCTCCCTGAAGTTGCAGTGGGGTAGATTGAAGTTACAG
ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATCAAAGCTACAAAC
Found at i:36427372 original size:133 final size:132
Alignment explanation
Indices: 36427015--36427525 Score: 461
Period size: 133 Copynumber: 3.9 Consensus size: 132
36427005 TACCATGGCG
* * * * *
36427015 AATCTTATCTCCCTGAAGTTGCAGTGTAGCAGATTGATGTCACAAACCTTATCTCTCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAACCTTATCTCTCTGAAGTTG
* * * * * * * *
36427080 TAGTGGAACAGGTTAAAAATAACAAATCTTATCACCCTGAAGTTGCAGTGGGGTAGATTGTAGTT
66 CAGTGGAGCAGGTTAAAGAT-ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTT
36427145 ACA
130 ACA
* * * * *
36427148 GATCCTATCTCCCTGAAGTTGCAGTGGAGTAGGTCGAAGTTAGCAAACCTTATC-CCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAACCTTATCTCTCTGAAGTT
* * *
36427212 GCAATGGAGCAGGTTGAAGTTACAAATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGACTGAAAG
65 GCAGTGGAGCAGGTTAAAGATACAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACTG-AAG
36427276 TTACA
128 TTACA
* *
36427281 AA-CTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAATCTTATCTATCTGAAGTT
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAACCTTATCTCTCTGAAGTT
* * * * * ** * * * * * *
36427345 GCAGTAGAGTAGATTAAAGCTATAAATCTTATCTATCTGAAGTTGCAATAGAGTAGATTAAAGCT
65 GCAGTGGAGCAGGTTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTT
*
36427410 ATA
130 ACA
** * * * * * * *
36427413 AATCTTATCTATCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAACCTTATCTCTCTGAAGTTG
* * * * ** * * *
36427478 CAGTGGGGTAGATTGAAGCCACTAGTCTTGTCTCCCTGAAGTTGCAGT
66 CAGTGGAGCAGGTTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGT
36427526 AGAACAGATT
Statistics
Matches: 305, Mismatches: 66, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
131 1 0.00
132 139 0.46
133 153 0.50
134 12 0.04
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (132 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAACCTTATCTCTCTGAAGTTG
CAGTGGAGCAGGTTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTTA
CA
Found at i:36428135 original size:23 final size:23
Alignment explanation
Indices: 36428108--36428151 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
36428098 GCAGAGAAAT
* *
36428108 AACAGTAGCAAAGTCAAGTCATG
1 AACAGTAACAAAATCAAGTCATG
36428131 AACAGTAACAAAATCAAGTCA
1 AACAGTAACAAAATCAAGTCA
36428152 AGTGTAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (23 bp):
AACAGTAACAAAATCAAGTCATG
Found at i:36429173 original size:15 final size:15
Alignment explanation
Indices: 36429153--36429189 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
36429143 CGAGGGTTAG
36429153 ATTATTACTATTACT
1 ATTATTACTATTACT
**
36429168 ATTATTTTTATTACT
1 ATTATTACTATTACT
36429183 ATTATTA
1 ATTATTA
36429190 TTACTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTACTATTACT
Found at i:36429185 original size:12 final size:12
Alignment explanation
Indices: 36429170--36429199 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36429160 CTATTACTAT
36429170 TATTTTTATTAC
1 TATTTTTATTAC
*
36429182 TATTATTATTAC
1 TATTTTTATTAC
36429194 TATTTT
1 TATTTT
36429200 CGTTATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTTATTAC
Found at i:36429398 original size:44 final size:44
Alignment explanation
Indices: 36429349--36429437 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
36429339 TTATTTATTA
*
36429349 TTTGTATTTGTTATAATTATTATTATTAGTATTATATTTAAAAC
1 TTTGTATTTGTTATAATTATTATTATAAGTATTATATTTAAAAC
36429393 TTTGTATTTGTTATAATTATTATTATAAGTATTATATTTAAAAC
1 TTTGTATTTGTTATAATTATTATTATAAGTATTATATTTAAAAC
36429437 T
1 T
36429438 ACTTTACTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (44 bp):
TTTGTATTTGTTATAATTATTATTATAAGTATTATATTTAAAAC
Found at i:36439769 original size:15 final size:16
Alignment explanation
Indices: 36439749--36439781 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36439739 TAATTTCATG
36439749 TTGAAA-CATATAAAT
1 TTGAAACCATATAAAT
*
36439764 TTGAAACCATATATAT
1 TTGAAACCATATAAAT
36439780 TT
1 TT
36439782 AAAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (16 bp):
TTGAAACCATATAAAT
Found at i:36439967 original size:9 final size:9
Alignment explanation
Indices: 36439953--36439978 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
36439943 CCAATCTATT
36439953 ATTCGAATC
1 ATTCGAATC
36439962 ATTCGAATC
1 ATTCGAATC
36439971 ATTCGAAT
1 ATTCGAAT
36439979 TATAAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (9 bp):
ATTCGAATC
Found at i:36441075 original size:17 final size:17
Alignment explanation
Indices: 36441033--36441068 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
36441023 ATAATATCCT
36441033 GTTAGTTTGGAATTTGG
1 GTTAGTTTGGAATTTGG
36441050 GTTAGTTTGGAATTTGG
1 GTTAGTTTGGAATTTGG
36441067 GT
1 GT
36441069 GTGTTTGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (17 bp):
GTTAGTTTGGAATTTGG
Found at i:36443105 original size:17 final size:17
Alignment explanation
Indices: 36443035--36443121 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 17
36443025 ACAAAAGAAT
36443035 AAAAGAAATGAAAGAATAG
1 AAAAGAAA-GAAAGAA-AG
* **
36443054 AAAAGAAACAAA-ATGTG
1 AAAAGAAAGAAAGA-AAG
* *
36443071 AAACGAAA-ACAGAGAAG
1 AAAAGAAAGAAAGA-AAG
*
36443088 AAAAGAAGGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
36443105 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
36443122 GGAAATTAGG
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
16 2 0.04
17 36 0.68
18 7 0.13
19 8 0.15
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.05
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAAG
Found at i:36443117 original size:13 final size:13
Alignment explanation
Indices: 36443096--36443120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36443086 AGAAAAGAAG
36443096 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
36443109 GAAAGAAAGAAA
1 GAAAGAAAGAAA
36443121 GGGAAATTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:36445644 original size:14 final size:14
Alignment explanation
Indices: 36445627--36445655 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36445617 GAGAAATGAA
36445627 ATTATTTGGAAATG
1 ATTATTTGGAAATG
36445641 ATTATTTGGAAATG
1 ATTATTTGGAAATG
36445655 A
1 A
36445656 ATATAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (14 bp):
ATTATTTGGAAATG
Found at i:36448067 original size:21 final size:21
Alignment explanation
Indices: 36448041--36448083 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
36448031 AAATAATTTT
36448041 ATTTTATTAATCATATGTATA
1 ATTTTATTAATCATATGTATA
*
36448062 ATTTTATTAATCGTATGTATA
1 ATTTTATTAATCATATGTATA
36448083 A
1 A
36448084 AGCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTTTATTAATCATATGTATA
Found at i:36449476 original size:3 final size:3
Alignment explanation
Indices: 36449468--36449507 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
36449458 TATCAATTGT
36449468 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36449508 CGATTACCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36450539 original size:6 final size:6
Alignment explanation
Indices: 36450528--36450555 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
36450518 TAAAGTAGTT
36450528 GGGGGA GGGGGA GGGGGA GGGGGA GGGG
1 GGGGGA GGGGGA GGGGGA GGGGGA GGGG
36450556 AATACGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.86, T:0.00
Consensus pattern (6 bp):
GGGGGA
Found at i:36450824 original size:26 final size:25
Alignment explanation
Indices: 36450775--36450830 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
36450765 TTTGTTATTA
* * * *
36450775 AATTTTAATTAAATTATTATTAAAT
1 AATTTTAATAAAAATAATAATAAAT
36450800 ATATTTTAATAAAAATAATAATAAAT
1 A-ATTTTAATAAAAATAATAATAAAT
36450826 AATTT
1 AATTT
36450831 AATCATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTTTAATAAAAATAATAATAAAT
Found at i:36450911 original size:39 final size:40
Alignment explanation
Indices: 36450850--36450940 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 40
36450840 TTAACACGAT
* * **
36450850 TATTATT-AAATACAATTTAATAATATTTTTAATATA-AA
1 TATTATTAAAATACAATTTAATAAAAATCATAATATATAA
*
36450888 TATTATTAAAATATGAA-TTAATAAAAATCATAATATATAA
1 TATTATTAAAATA-CAATTTAATAAAAATCATAATATATAA
*
36450928 TATTATAAAAATA
1 TATTATTAAAATA
36450941 ATATATAACC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
38 7 0.16
39 21 0.48
40 16 0.36
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (40 bp):
TATTATTAAAATACAATTTAATAAAAATCATAATATATAA
Found at i:36454191 original size:22 final size:22
Alignment explanation
Indices: 36454165--36454208 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
36454155 AGAAAAATGA
36454165 ACAATACATATTAAGAATCTTT
1 ACAATACATATTAAGAATCTTT
36454187 ACAATACATATTAAGAATCTTT
1 ACAATACATATTAAGAATCTTT
36454209 GCAAAGCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (22 bp):
ACAATACATATTAAGAATCTTT
Found at i:36458095 original size:13 final size:13
Alignment explanation
Indices: 36458077--36458104 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36458067 CTACTTGTTA
36458077 TGCTTGGAAATTT
1 TGCTTGGAAATTT
36458090 TGCTTGGAAATTT
1 TGCTTGGAAATTT
36458103 TG
1 TG
36458105 GATTCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGCTTGGAAATTT
Found at i:36458916 original size:5 final size:5
Alignment explanation
Indices: 36458908--36458933 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36458898 TTTTCAAAGC
36458908 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
36458934 CTTAGTATGA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:36459082 original size:22 final size:19
Alignment explanation
Indices: 36459037--36459106 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 19
36459027 CTTTAGAAAT
36459037 TTTTTAAAAAT-TTTAAT-AA
1 TTTTTAAAAATATTT--TGAA
36459056 TTTTTAAAAATAAATTTTGGAA
1 TTTTTAAAAAT--ATTTT-GAA
*
36459078 TTTTTATAAATATTTTGAA
1 TTTTTAAAAATATTTTGAA
36459097 -TTTTAAAAAT
1 TTTTTAAAAAT
36459107 TATTATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
18 9 0.20
19 14 0.32
20 6 0.14
22 15 0.34
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
TTTTTAAAAATATTTTGAA
Found at i:36459088 original size:18 final size:19
Alignment explanation
Indices: 36459065--36459100 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36459055 ATTTTTAAAA
36459065 ATAAAT-TTTGGAATTTTT
1 ATAAATATTTGGAATTTTT
*
36459083 ATAAATATTTTGAATTTT
1 ATAAATATTTGGAATTTT
36459101 AAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
ATAAATATTTGGAATTTTT
Found at i:36459106 original size:18 final size:21
Alignment explanation
Indices: 36459054--36459106 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
36459044 AAATTTTAAT
36459054 AATTTTTAAAAATAAATTTTGG
1 AATTTTTAAAAAT-AATTTTGG
*
36459076 AATTTTTATAAAT-ATTTT-G
1 AATTTTTAAAAATAATTTTGG
36459095 AA-TTTTAAAAAT
1 AATTTTTAAAAAT
36459107 TATTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.31
19 3 0.10
20 5 0.17
22 12 0.41
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (21 bp):
AATTTTTAAAAATAATTTTGG
Found at i:36460295 original size:3 final size:3
Alignment explanation
Indices: 36460287--36460323 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
36460277 TGACTCAAAT
36460287 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36460324 CCACATGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:36467043 original size:21 final size:21
Alignment explanation
Indices: 36467005--36467045 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36466995 AAACCTGAAG
**
36467005 GCTAAACAAAAGTACATAAGT
1 GCTAAACAAAAACACATAAGT
*
36467026 GCTAAACAAAAACCCATAAG
1 GCTAAACAAAAACACATAAG
36467046 GGTTGAATGG
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:0.54, C:0.20, G:0.12, T:0.15
Consensus pattern (21 bp):
GCTAAACAAAAACACATAAGT
Found at i:36467085 original size:21 final size:21
Alignment explanation
Indices: 36467059--36467183 Score: 83
Period size: 21 Copynumber: 6.0 Consensus size: 21
36467049 TGAATGGTAG
*
36467059 CTCATAAGAGCTAAACGGAAA
1 CTCATAAGAGCTAAACTGAAA
* * *
36467080 CCCATAA-AGGTTAAACTGAAG
1 CTCATAAGA-GCTAAACTGAAA
* *
36467101 CTCAAAAGAGCTGAACTGAAA
1 CTCATAAGAGCTAAACTGAAA
* * * * *
36467122 CCCCTTAGGGTTAAACTGAAA
1 CTCATAAGAGCTAAACTGAAA
* * *
36467143 CTCATATGAG-TTAACTGAAG
1 CTCATAAGAGCTAAACTGAAA
* *
36467163 CTCATGAGAGCTAAACGGAAA
1 CTCATAAGAGCTAAACTGAAA
36467184 GTAAAAACGA
Statistics
Matches: 73, Mismatches: 28, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
20 17 0.23
21 55 0.75
22 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (21 bp):
CTCATAAGAGCTAAACTGAAA
Found at i:36467103 original size:42 final size:42
Alignment explanation
Indices: 36467019--36467148 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
36467009 AACAAAAGTA
* * * *
36467019 CATAAGTGCTAAACAAAAACCCATAAGGGTTGAA-TGGTAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACT-GAAGCT
* *
36467061 CATAAGAGCTAAACGGAAACCCATAAAGGTTAAACTGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACTGAAGCT
* * * * * *
36467103 CAAAAGAGCTGAACTGAAACCCCTTAGGGTTAAACTGAAACT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACTGAAGCT
36467145 CATA
1 CATA
36467149 TGAGTTAACT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 72 0.99
43 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (42 bp):
CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACTGAAGCT
Found at i:36468790 original size:22 final size:22
Alignment explanation
Indices: 36468739--36468801 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
36468729 ACTCTAGTGA
* **
36468739 TATTGAGATACC-AAGGATGGG
1 TATTGCGATACCGAAGCTTGGG
**
36468760 TATCACGATACCGAAGCTTGGG
1 TATTGCGATACCGAAGCTTGGG
* *
36468782 TATTGCGATATCGCAGCTTG
1 TATTGCGATACCGAAGCTTG
36468802 AAGGGTGAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (22 bp):
TATTGCGATACCGAAGCTTGGG
Found at i:36470173 original size:25 final size:25
Alignment explanation
Indices: 36470145--36470245 Score: 130
Period size: 25 Copynumber: 4.0 Consensus size: 25
36470135 CCACAGCTTA
* *
36470145 TATGAGCTTCCTGATTTACAGGTCG
1 TATGAGCTTCCTAATTTACAGCTCG
*
36470170 TATGAGCTTCCTAATTTACAGCTCA
1 TATGAGCTTCCTAATTTACAGCTCG
* *
36470195 TATGAGCTTCCTAATTTGCAGCTCT
1 TATGAGCTTCCTAATTTACAGCTCG
** *
36470220 TATGAGCTTCCCGATTCACAGCTCG
1 TATGAGCTTCCTAATTTACAGCTCG
36470245 T
1 T
36470246 GAGAGCAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (25 bp):
TATGAGCTTCCTAATTTACAGCTCG
Found at i:36470241 original size:50 final size:50
Alignment explanation
Indices: 36470136--36470243 Score: 144
Period size: 50 Copynumber: 2.2 Consensus size: 50
36470126 GCAGACACAC
* * * *
36470136 CACAGCTTATATGAGCTTCCTGATTTACAGGTCGTATGAGCTTCCTAATT
1 CACAGCTCATATGAGCTTCCTAATTTACAGCTCGTATGAGCTTCCCAATT
* * * *
36470186 TACAGCTCATATGAGCTTCCTAATTTGCAGCTCTTATGAGCTTCCCGATT
1 CACAGCTCATATGAGCTTCCTAATTTACAGCTCGTATGAGCTTCCCAATT
36470236 CACAGCTC
1 CACAGCTC
36470244 GTGAGAGCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (50 bp):
CACAGCTCATATGAGCTTCCTAATTTACAGCTCGTATGAGCTTCCCAATT
Found at i:36471884 original size:17 final size:17
Alignment explanation
Indices: 36471862--36471895 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36471852 TCCATCAATT
36471862 GAATGAGCATTTTCTTA
1 GAATGAGCATTTTCTTA
36471879 GAATGAGCATTTTCTTA
1 GAATGAGCATTTTCTTA
36471896 AGCCTTTTAC
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:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (17 bp):
GAATGAGCATTTTCTTA
Found at i:36479663 original size:32 final size:32
Alignment explanation
Indices: 36479621--36479709 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 32
36479611 CACATCACAG
*
36479621 TATCAATTGGGCCTAGCCCATTTCAGAATCAA
1 TATCAATTGGGCCTAGCCCATTTCAGAACCAA
* *
36479653 TATCAGTTGGGCCTAGCCC-TTATCAGAACCAT
1 TATCAATTGGGCCTAGCCCATT-TCAGAACCAA
* *
36479685 TATTAATTGGGCCTGGCCCATTTCA
1 TATCAATTGGGCCTAGCCCATTTCA
36479710 ATATCCAACC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.04
32 45 0.92
33 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (32 bp):
TATCAATTGGGCCTAGCCCATTTCAGAACCAA
Found at i:36487662 original size:29 final size:29
Alignment explanation
Indices: 36487603--36487662 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
36487593 TTTTTGCAAT
* *
36487603 TTTTTAAAAAATTTAAATACTTTTTTTTA
1 TTTTTAAAAAATTGAAATACTTTTTTATA
36487632 TTTTTATAAAAATTGAAA-A-TTTTTATATA
1 TTTTTA-AAAAATTGAAATACTTTTT-TATA
36487661 TT
1 TT
36487663 ATTTGACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.19
29 12 0.44
30 10 0.37
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTTTAAAAAATTGAAATACTTTTTTATA
Found at i:36487733 original size:18 final size:18
Alignment explanation
Indices: 36487698--36487732 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36487688 ACATATTTCA
36487698 AAATTTTATAAAATTTTT
1 AAATTTTATAAAATTTTT
*
36487716 AAATTTT-TTAAATTTTT
1 AAATTTTATAAAATTTTT
36487733 TTTGAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AAATTTTATAAAATTTTT
Found at i:36487734 original size:10 final size:9
Alignment explanation
Indices: 36487698--36487733 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
36487688 ACATATTTCA
*
36487698 AAATTTTAT
1 AAATTTTTT
*
36487707 AAAATTTTT
1 AAATTTTTT
36487716 AAATTTTTT
1 AAATTTTTT
36487725 AAATTTTTT
1 AAATTTTTT
36487734 TTGAATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
AAATTTTTT
Found at i:36490802 original size:46 final size:46
Alignment explanation
Indices: 36490752--36490956 Score: 277
Period size: 46 Copynumber: 4.5 Consensus size: 46
36490742 TATTCATTTC
*
36490752 TATCTTTCAACCATGGTCTTCTTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* *
36490798 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTGGCCATCG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* *
36490844 TATCTTTCAACCATGGTCTTATTCATTTTCTATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
* ** * **
36490890 TATCTTTCAACCATAGTCTTATTTGTTT-CTCGTCATATTGCCATAA
1 TATCTTTCAACCATGGTCTTATTCATTTCCT-GTCATGTTGCCATGG
* *
36490936 TATATTTCAACTATGGTCTTA
1 TATCTTTCAACCATGGTCTTA
36490957 CATATCTTAA
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 2 0.01
46 139 0.99
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
Found at i:36490989 original size:45 final size:45
Alignment explanation
Indices: 36490940--36491051 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
36490930 CCATAATATA
* * *
36490940 TTTCAACTATGGTCTTACAT-ATCTTAATCGTGATGCCATAACGTC
1 TTTCAGCTATGGTCTTAC-TCATCTAAATCGCGATGCCATAACGTC
**
36490985 TTTCAGCTATGGTCTTACTCATCTAAATCGCGATGCCATTGCGTC
1 TTTCAGCTATGGTCTTACTCATCTAAATCGCGATGCCATAACGTC
36491030 TTTCAGCTATGGTCTTACTCAT
1 TTTCAGCTATGGTCTTACTCAT
36491052 TTCTGGTATG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (45 bp):
TTTCAGCTATGGTCTTACTCATCTAAATCGCGATGCCATAACGTC
Found at i:36491118 original size:33 final size:33
Alignment explanation
Indices: 36491063--36491218 Score: 120
Period size: 33 Copynumber: 4.7 Consensus size: 33
36491053 TCTGGTATGA
* * * *
36491063 TGCCATAGTCCAACTATAGTCTTACACATGTAT
1 TGCCATAGCCCAGCCATGGTCTTACACATGTAT
* * *
36491096 TGCCATGGCGCAGCCATGGTCTTACAC-TCGTAG
1 TGCCATAGCCCAGCCATGGTCTTACACAT-GTAT
* ** *
36491129 TGCCATATCCCAGATATGGTCTTATCATCA-GGA-
1 TGCCATAGCCCAGCCATGGTCTTA-CA-CATGTAT
* * * *
36491162 TCCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCCAGCCATGGTCTTACACATGTAT
*
36491195 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
36491219 TCCGTCAATT
Statistics
Matches: 94, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
31 2 0.02
32 4 0.04
33 83 0.88
34 4 0.04
35 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACATGTAT
Found at i:36492820 original size:11 final size:11
Alignment explanation
Indices: 36492804--36492828 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36492794 CTTTCTTTAT
36492804 ATACTAATAAA
1 ATACTAATAAA
36492815 ATACTAATAAA
1 ATACTAATAAA
36492826 ATA
1 ATA
36492829 ATAACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATACTAATAAA
Found at i:36498306 original size:29 final size:30
Alignment explanation
Indices: 36498261--36498330 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
36498251 TTATATTATC
36498261 TAAATATATTTTA-TTTTGTGATTGAA-AAAT
1 TAAA-ATATTTTATTTTTGTGATT-AAGAAAT
*
36498291 TAAAATATTTTATTTTTGTGGTTAAGAAAT
1 TAAAATATTTTATTTTTGTGATTAAGAAAT
*
36498321 TCAAATATTT
1 TAAAATATTT
36498331 GAATTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.50
Consensus pattern (30 bp):
TAAAATATTTTATTTTTGTGATTAAGAAAT
Found at i:36498402 original size:13 final size:13
Alignment explanation
Indices: 36498384--36498408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36498374 TAACTTTATT
36498384 TTTAAATATTTTG
1 TTTAAATATTTTG
36498397 TTTAAATATTTT
1 TTTAAATATTTT
36498409 TCTACTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTAAATATTTTG
Found at i:36501706 original size:2 final size:2
Alignment explanation
Indices: 36501699--36501727 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36501689 TACTATGAGT
36501699 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
36501728 TCATTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:36505165 original size:17 final size:18
Alignment explanation
Indices: 36505139--36505182 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
36505129 CAATTCTTGT
*
36505139 TTTCTGTTTTCTTATT-G
1 TTTCTTTTTTCTTATTGG
*
36505156 TTTCTTTTTTCTTTTTGG
1 TTTCTTTTTTCTTATTGG
36505174 TTT-TTTTTT
1 TTTCTTTTTT
36505183 TTGGGGGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.02, C:0.09, G:0.09, T:0.80
Consensus pattern (18 bp):
TTTCTTTTTTCTTATTGG
Found at i:36508937 original size:3 final size:3
Alignment explanation
Indices: 36508929--36508962 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
36508919 AGTCTTTGCT
36508929 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36508963 TCATTGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:36511342 original size:20 final size:20
Alignment explanation
Indices: 36511304--36511342 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
36511294 TTAAGATAAC
36511304 TTTTATTTAAAAATCACATT
1 TTTTATTTAAAAATCACATT
*
36511324 TTTTAATTTCAAAAT-ACAT
1 TTTT-ATTTAAAAATCACAT
36511343 AGTGACGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTATTTAAAAATCACATT
Found at i:36513892 original size:22 final size:22
Alignment explanation
Indices: 36513867--36513956 Score: 92
Period size: 22 Copynumber: 4.1 Consensus size: 22
36513857 GAAACAGAAA
*
36513867 CAGAGCATATCAAGTACTGATG
1 CAGAGCATATCAAGTACAGATG
*
36513889 CAGAGCATAT-TAGATACAGATG
1 CAGAGCATATCAAG-TACAGATG
* * *
36513911 CAGAACATATCAAATACAAATG
1 CAGAGCATATCAAGTACAGATG
* * *
36513933 CGGAGTATATCAGGTACAGATG
1 CAGAGCATATCAAGTACAGATG
36513955 CA
1 CA
36513957 AAATCCTACC
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
21 2 0.04
22 50 0.94
23 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (22 bp):
CAGAGCATATCAAGTACAGATG
Found at i:36513923 original size:44 final size:44
Alignment explanation
Indices: 36513853--36513956 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 44
36513843 AGATTTCAGG
* ** * * **
36513853 ATCAGAAACAGAAACAGAGCATATCAAGTACTGATGCAGAGCAT
1 ATCAGATACAGATGCAGAACATATCAAATACAAATGCAGAGCAT
* * *
36513897 ATTAGATACAGATGCAGAACATATCAAATACAAATGCGGAGTAT
1 ATCAGATACAGATGCAGAACATATCAAATACAAATGCAGAGCAT
*
36513941 ATCAGGTACAGATGCA
1 ATCAGATACAGATGCA
36513957 AAATCCTACC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.19
Consensus pattern (44 bp):
ATCAGATACAGATGCAGAACATATCAAATACAAATGCAGAGCAT
Found at i:36514610 original size:42 final size:42
Alignment explanation
Indices: 36514530--36514630 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
36514520 ACGGCCTGAC
* * ** *
36514530 ACACGGCCTGGCACAAGGTCGTGCGACTTAAGTTAGTGAGTT
1 ACACGGCCTGGCACAAGGCCGTGCAACTTAAGCCAGTGACTT
* * *
36514572 ACACGTCCTGGCACATGGCCGTGTAACTTAAGCCAGTGACTT
1 ACACGGCCTGGCACAAGGCCGTGCAACTTAAGCCAGTGACTT
* *
36514614 ACAAGGGCTGTGCACAA
1 ACACGGCCTG-GCACAA
36514631 AGTTGTGTGT
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
42 41 0.89
43 5 0.11
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (42 bp):
ACACGGCCTGGCACAAGGCCGTGCAACTTAAGCCAGTGACTT
Found at i:36515190 original size:22 final size:22
Alignment explanation
Indices: 36515165--36515206 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36515155 TACCAGGAAG
36515165 AAAAGAAAAGAA-AAGAAAAAAC
1 AAAAG-AAAGAAGAAGAAAAAAC
*
36515187 AAAAGAACGAAGAAGAAAAA
1 AAAAGAAAGAAGAAGAAAAA
36515207 GAATGATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.79, C:0.05, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAGAAAGAAGAAGAAAAAAC
Found at i:36527378 original size:29 final size:31
Alignment explanation
Indices: 36527337--36527396 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
36527327 AATTTACCGA
* *
36527337 TAGATAAACTAAATCTAAAAACATTAAAATT
1 TAGATAAACTAAAACCAAAAACATTAAAATT
**
36527368 TAGA-AAA-TAAAACCAAAAGTATTAAAATT
1 TAGATAAACTAAAACCAAAAACATTAAAATT
36527397 ATAATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 18 0.72
30 3 0.12
31 4 0.16
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (31 bp):
TAGATAAACTAAAACCAAAAACATTAAAATT
Found at i:36532154 original size:10 final size:10
Alignment explanation
Indices: 36532141--36532176 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
36532131 ACATAAATAC
36532141 AGATAATTAA
1 AGATAATTAA
36532151 AGATAATTAA
1 AGATAATTAA
*
36532161 ATATAATTAA
1 AGATAATTAA
36532171 AGATAA
1 AGATAA
36532177 AAGCTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (10 bp):
AGATAATTAA
Done.