Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 40 of 130
Found at i:9704448 original size:39 final size:39
Alignment explanation
Indices: 9704369--9704462 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 39
9704359 GTTGGTTTTT
* * *
9704369 GGGTTT-GGTTAGGG-TTTGGGGTTTGGCTTAAGGTTTA
1 GGGTTTAGGTTAGGGTTTTGAGGTTTAGCTTAAGGTTAA
* * *
9704406 GGGTTTAGGTTAGGGTTTTTAGGTTTAGTTTAGGGTTAA
1 GGGTTTAGGTTAGGGTTTTGAGGTTTAGCTTAAGGTTAA
* *
9704445 GGGTTTAGTTTATGGTTT
1 GGGTTTAGGTTAGGGTTT
9704463 AGGGCTAAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 6 0.13
38 8 0.17
39 33 0.70
ACGTcount: A:0.14, C:0.01, G:0.38, T:0.47
Consensus pattern (39 bp):
GGGTTTAGGTTAGGGTTTTGAGGTTTAGCTTAAGGTTAA
Found at i:9704565 original size:26 final size:26
Alignment explanation
Indices: 9704505--9704567 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
9704495 AGGGTTATGA
*
9704505 TTTA-GGTTTAGGGTTATGATTTAGG
1 TTTAGGGTTTGGGGTTATGATTTAGG
* *
9704530 TTTAGAGTTTGGGGTT-TGGTTTAAGG
1 TTTAGGGTTTGGGGTTATGATTT-AGG
*
9704556 TTTGGGGTTTGG
1 TTTAGGGTTTGG
9704568 TTTTAAGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 9 0.29
26 22 0.71
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (26 bp):
TTTAGGGTTTGGGGTTATGATTTAGG
Found at i:9704574 original size:20 final size:19
Alignment explanation
Indices: 9704536--9704578 Score: 77
Period size: 19 Copynumber: 2.2 Consensus size: 19
9704526 TAGGTTTAGA
9704536 GTTTGGGGTTTGGTTTAAG
1 GTTTGGGGTTTGGTTTAAG
9704555 GTTTGGGGTTTGGTTTTAAG
1 GTTTGGGGTTTGG-TTTAAG
9704575 GTTT
1 GTTT
9704579 AGGATTAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.09, C:0.00, G:0.40, T:0.51
Consensus pattern (19 bp):
GTTTGGGGTTTGGTTTAAG
Found at i:9704587 original size:71 final size:71
Alignment explanation
Indices: 9704505--9704641 Score: 161
Period size: 71 Copynumber: 1.9 Consensus size: 71
9704495 AGGGTTATGA
* * * * * *
9704505 TTTAGGTTTA-GGGTTATGATTTAGG-TTTAGAGTTTGGGGTTTGGTTTAAGGTTTGGGGTTTGG
1 TTTAGGATTAGGGGTTA-GATTTAGGCTTTAG-CTTTGAGGTTAGGATTAAGGTTTGGGGTTTAG
9704568 TTTTAAGG
64 TTTTAAGG
* * *
9704576 TTTAGGATTAGGGGTTAGGTTTAGGCTTTAGCTTTTAGGTTAGGATTAAGGTTTGGTGTTTAGTT
1 TTTAGGATTAGGGGTTAGATTTAGGCTTTAGCTTTGAGGTTAGGATTAAGGTTTGGGGTTTAGTT
9704641 T
66 T
9704642 AGGGCTTCAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
71 44 0.80
72 11 0.20
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.47
Consensus pattern (71 bp):
TTTAGGATTAGGGGTTAGATTTAGGCTTTAGCTTTGAGGTTAGGATTAAGGTTTGGGGTTTAGTT
TTAAGG
Found at i:9707232 original size:26 final size:26
Alignment explanation
Indices: 9707199--9707259 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
9707189 AAACTTTTAA
*
9707199 AAATCCTAAAACCATAAA-CTTAAATG
1 AAATCCTAAAACCA-AAATCCTAAATG
**
9707225 AAATCCTAAAATTAAAATCCTAAATG
1 AAATCCTAAAACCAAAATCCTAAATG
9707251 AAATCCTAA
1 AAATCCTAA
9707260 GGTCTAAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 3 0.10
26 28 0.90
ACGTcount: A:0.54, C:0.18, G:0.03, T:0.25
Consensus pattern (26 bp):
AAATCCTAAAACCAAAATCCTAAATG
Found at i:9707256 original size:12 final size:12
Alignment explanation
Indices: 9707219--9707259 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
9707209 ACCATAAACT
9707219 TAAATGAAATCC
1 TAAATGAAATCC
*
9707231 TAAAATTAAAATCC
1 T-AAA-TGAAATCC
9707245 TAAATGAAATCC
1 TAAATGAAATCC
9707257 TAA
1 TAA
9707260 GGTCTAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 11 0.44
13 6 0.24
14 8 0.32
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.27
Consensus pattern (12 bp):
TAAATGAAATCC
Found at i:9707272 original size:26 final size:25
Alignment explanation
Indices: 9707219--9707327 Score: 87
Period size: 26 Copynumber: 4.2 Consensus size: 25
9707209 ACCATAAACT
** *
9707219 TAAATGAAATCCTAAAATTAAAATCC
1 TAAATGAAATCCTAAGGTT-AAACCC
9707245 TAAATGAAATCCTAAGGTCTAAACCC
1 TAAATGAAATCCTAAGGT-TAAACCC
*
9707271 TAAAT-AAAACGCTAAGGTTAAGACCC
1 TAAATGAAATC-CTAAGGTTAA-ACCC
* * *
9707297 TAAA-AAAACTCCTAAGTTTGAAATCC
1 TAAATGAAA-TCCTAAGGTT-AAACCC
9707323 TAAAT
1 TAAAT
9707328 AAAACCTTGA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
25 7 0.10
26 58 0.84
27 4 0.06
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (25 bp):
TAAATGAAATCCTAAGGTTAAACCC
Found at i:9713303 original size:20 final size:20
Alignment explanation
Indices: 9713274--9713311 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9713264 TTAAATAGGA
9713274 TTATTGAAGGCATTTTTGGC
1 TTATTGAAGGCATTTTTGGC
*
9713294 TTATTTAAGGCATTTTTG
1 TTATTGAAGGCATTTTTG
9713312 ACCAAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (20 bp):
TTATTGAAGGCATTTTTGGC
Found at i:9713756 original size:103 final size:102
Alignment explanation
Indices: 9713578--9713765 Score: 252
Period size: 103 Copynumber: 1.8 Consensus size: 102
9713568 CTACAGGAAA
* * * * * *
9713578 GGATCGAACCTACAACCTTATGTTAATTATCGTATACTCTAATTGACTGAGTTATTCCAATATTT
1 GGATCGAACCTAAAACCTTATGTTAATTACCATATACTCTAACTAACTGAGCTATTCCAATATTT
9713643 TTATTAAGGGATTATTCAAGGCATGAGCCAGAGGGAG
66 TTATTAAGGGATTATTCAAGGCATGAGCCAGAGGGAG
* * * *
9713680 GGATCGAACCTAAAACCTTATAGTTAA-TAGCCATATACTCTAACTAATTGAGCTGTTCTAGTAT
1 GGATCGAACCTAAAACCTTAT-GTTAATTA-CCATATACTCTAACTAACTGAGCTATTCCAATAT
*
9713744 TTTTGTTAAGGGATTATTCAAG
64 TTTTATTAAGGGATTATTCAAG
9713766 ACATTTTTGG
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
102 22 0.30
103 51 0.70
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (102 bp):
GGATCGAACCTAAAACCTTATGTTAATTACCATATACTCTAACTAACTGAGCTATTCCAATATTT
TTATTAAGGGATTATTCAAGGCATGAGCCAGAGGGAG
Found at i:9714412 original size:62 final size:63
Alignment explanation
Indices: 9714339--9714597 Score: 215
Period size: 62 Copynumber: 4.2 Consensus size: 63
9714329 TACTCCAATG
* * * * *
9714339 TTTTTGTTAAGGGATTATTCAAGGTATTTTTGGTCAAAAACGCCTTCAATAAT-TCTATTTAAT
1 TTTTTG-TAAGGGATTATTCAAGGCATTTTTAGCCAAAAACGCCTTCAATAATCCCTATTAAAT
** * * *** * * *
9714402 TTTTTGTAAGGGATTATTCAATACATTTTTGGTCAAAATTACCTTTAATAATCCCCTCTAAAAT
1 TTTTTGTAAGGGATTATTCAAGGCATTTTTAGCCAAAAACGCCTTCAATAAT-CCCTATTAAAT
* * * * * *
9714466 TTTTTGT-ATGGATTATTAAAGGCA-TTTTAGCCAAAAATGCCTTCAATAATCCCTCTCCAAAA
1 TTTTTGTAAGGGATTATTCAAGGCATTTTTAGCCAAAAACGCCTTCAATAATCCCTAT-TAAAT
* * * * *
9714528 TTTTTG-AATGGATTATTGAAGG-GTTTTTAGCCAAAAACGACTTCAATAATCCC-ATTCAAT
1 TTTTTGTAAGGGATTATTCAAGGCATTTTTAGCCAAAAACGCCTTCAATAATCCCTATTAAAT
9714588 TTTTTGTAAG
1 TTTTTGTAAG
9714598 CCAATGATTT
Statistics
Matches: 159, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
60 8 0.05
61 9 0.06
62 110 0.69
63 19 0.12
64 13 0.08
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (63 bp):
TTTTTGTAAGGGATTATTCAAGGCATTTTTAGCCAAAAACGCCTTCAATAATCCCTATTAAAT
Found at i:9716711 original size:22 final size:22
Alignment explanation
Indices: 9716680--9716730 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
9716670 AGAAAAACAC
9716680 AAAAAA-GAGAAGAAGCAAA-AA
1 AAAAAAGGAGAAGAAG-AAAGAA
9716701 AAAAAAGGAGAAGAAGAAAGAA
1 AAAAAAGGAGAAGAAGAAAGAA
9716723 AAGAAAAG
1 AA-AAAAG
9716731 AAATTATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.33
22 13 0.48
23 5 0.19
ACGTcount: A:0.75, C:0.02, G:0.24, T:0.00
Consensus pattern (22 bp):
AAAAAAGGAGAAGAAGAAAGAA
Found at i:9717244 original size:18 final size:19
Alignment explanation
Indices: 9717221--9717257 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
9717211 ACTCAAAGAA
9717221 AAAGGAAAAA-GAAAAAGT
1 AAAGGAAAAAGGAAAAAGT
9717239 AAAGGAAAAAGGAAAAAGT
1 AAAGGAAAAAGGAAAAAGT
9717258 CCCAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.05
Consensus pattern (19 bp):
AAAGGAAAAAGGAAAAAGT
Found at i:9717660 original size:33 final size:33
Alignment explanation
Indices: 9717617--9717930 Score: 165
Period size: 33 Copynumber: 9.6 Consensus size: 33
9717607 AATCTAGGTA
* *
9717617 GCACCCAATGAAAATTTAAGCTTAGTTTAGCTG
1 GCACCTAATGAAAATTTAAGCCTAGTTTAGCTG
* * * * *
9717650 GTACCTAATGAAAGTTTAATCCTAATTTATCT-
1 GCACCTAATGAAAATTTAAGCCTAGTTTAGCTG
*
9717682 ACTA-CTAATGAAAATTTAAGCCTAGTTTAGCTG
1 GC-ACCTAATGAAAATTTAAGCCTAGTTTAGCTG
** * * *
9717715 GCATATAATG-AAATTTAAACCTAGTCTAGTTG
1 GCACCTAATGAAAATTTAAGCCTAGTTTAGCTG
* * * * *
9717747 GCACCCAATGAACATTTAAGCCCAGATTAGTTG
1 GCACCTAATGAAAATTTAAGCCTAGTTTAGCTG
* ** *** *
9717780 GCA-CAAAAAAAAATTTAAGCCTAACCTAGGTG
1 GCACCTAATGAAAATTTAAGCCTAGTTTAGCTG
** * * *
9717812 GCACCTAATGAAGTTTTAAGTCTAGTTTAGTTA
1 GCACCTAATGAAAATTTAAGCCTAGTTTAGCTG
* * ** **
9717845 GCA-CTCATGAAAAGATTT-GGGTTCAGTTTATTTG
1 GCACCTAATG-AAA-ATTTAAGCCT-AGTTTAGCTG
* ** *
9717879 GCACCCAATGAAGTTTTAAGCCCAGTTTAGCTG
1 GCACCTAATGAAAATTTAAGCCTAGTTTAGCTG
*
9717912 GCA-TTCAATGAAAATTTAA
1 GCACCT-AATGAAAATTTAA
9717931 ACCCAATTTA
Statistics
Matches: 202, Mismatches: 68, Indels: 22
0.69 0.23 0.08
Matches are distributed among these distances:
32 79 0.39
33 102 0.50
34 17 0.08
35 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (33 bp):
GCACCTAATGAAAATTTAAGCCTAGTTTAGCTG
Found at i:9717729 original size:32 final size:32
Alignment explanation
Indices: 9717623--9717841 Score: 136
Period size: 32 Copynumber: 6.7 Consensus size: 32
9717613 GGTAGCACCC
* * *
9717623 AATGAAAATTTAAGCTTAGTTTAGCTGGTACCT
1 AATG-AAATTTAAGCCTAGTTTAGCTGGCACAT
* * * *
9717656 AATGAAAGTTTAATCCTAATTTATCT-ACTAC-T
1 AATGAAA-TTTAAGCCTAGTTTAGCTGGC-ACAT
*
9717688 AATGAAAATTTAAGCCTAGTTTAGCTGGCATAT
1 AATG-AAATTTAAGCCTAGTTTAGCTGGCACAT
* * * **
9717721 AATGAAATTTAAACCTAGTCTAGTTGGCACCC
1 AATGAAATTTAAGCCTAGTTTAGCTGGCACAT
* * * *
9717753 AATGAACATTTAAGCCCAGATTAGTTGGCACAA
1 AATGAA-ATTTAAGCCTAGTTTAGCTGGCACAT
** *** * *
9717786 AAAAAAATTTAAGCCTAACCTAGGTGGCACCT
1 AATGAAATTTAAGCCTAGTTTAGCTGGCACAT
* *
9717818 AATGAAGTTTTAAGTCTAGTTTAG
1 AATGAA-ATTTAAGCCTAGTTTAG
9717842 TTAGCACTCA
Statistics
Matches: 140, Mismatches: 39, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
32 75 0.54
33 65 0.46
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
AATGAAATTTAAGCCTAGTTTAGCTGGCACAT
Found at i:9717757 original size:65 final size:65
Alignment explanation
Indices: 9717607--9717841 Score: 197
Period size: 65 Copynumber: 3.6 Consensus size: 65
9717597 GTTTAAGCAC
* * * * * *
9717607 AATCTAGGTAGCACCCAATGAAAATTTAAGCTTAGTTTAGCTGGTACCTAATGAAAGTTTAATCC
1 AATCTAGTTGGCACCCAATGAAAATTTAAGCCTAGTTTAGCTGGCACATAATGAAA-TTTAAACC
9717672 T
65 T
* * * *
9717673 AATTTA-TCT-ACTA-CTAATGAAAATTTAAGCCTAGTTTAGCTGGCATATAATGAAATTTAAAC
1 AATCTAGT-TGGC-ACCCAATGAAAATTTAAGCCTAGTTTAGCTGGCACATAATGAAATTTAAAC
9717735 CT
64 CT
* * * * * * ** *
9717737 AGTCTAGTTGGCACCCAATGAACATTTAAGCCCAGATTAGTTGGCACAAAAAAAAATTTAAGCCT
1 AATCTAGTTGGCACCCAATGAAAATTTAAGCCTAGTTTAGCTGGCACATAATGAAATTTAAACCT
* * * ** *
9717802 AACCTAGGTGGCACCTAATGAAGTTTTAAGTCTAGTTTAG
1 AATCTAGTTGGCACCCAATGAAAATTTAAGCCTAGTTTAG
9717842 TTAGCACTCA
Statistics
Matches: 133, Mismatches: 31, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
64 14 0.11
65 112 0.84
66 7 0.05
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (65 bp):
AATCTAGTTGGCACCCAATGAAAATTTAAGCCTAGTTTAGCTGGCACATAATGAAATTTAAACCT
Found at i:9717996 original size:23 final size:23
Alignment explanation
Indices: 9717970--9718057 Score: 72
Period size: 23 Copynumber: 3.9 Consensus size: 23
9717960 AAAGCTTAGT
**
9717970 TTAGTTGGCATGTAAGCCTAGGA
1 TTAGTTGGCATGTAAGCCTAAAA
* *
9717993 TTAGTTGACACGTAAGCCTAAAA
1 TTAGTTGGCATGTAAGCCTAAAA
* *
9718016 TTAGTTAGCATGAAAGTCC--AAA
1 TTAGTTGGCATGTAAG-CCTAAAA
* * *
9718038 TTAGCTAGCATGTAAACCTA
1 TTAGTTGGCATGTAAGCCTA
9718058 GATTAGTGAT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.04
22 16 0.31
23 31 0.61
24 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (23 bp):
TTAGTTGGCATGTAAGCCTAAAA
Found at i:9718279 original size:35 final size:35
Alignment explanation
Indices: 9718240--9718329 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
9718230 TTTGTTCCAA
9718240 TCATCTTTATTT-TCTAACTTGCGGCTTCATCTCAG
1 TCATCTTTATTTCT-TAACTTGCGGCTTCATCTCAG
* * * * * *
9718275 TCATCTTCATTCCTTAACTTGTGGTTTCGTCTTAG
1 TCATCTTTATTTCTTAACTTGCGGCTTCATCTCAG
*
9718310 TCATTTTTATTTCTTAACTT
1 TCATCTTTATTTCTTAACTT
9718330 ATAGCTTTGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 44 0.98
36 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.10, T:0.51
Consensus pattern (35 bp):
TCATCTTTATTTCTTAACTTGCGGCTTCATCTCAG
Found at i:9718349 original size:35 final size:35
Alignment explanation
Indices: 9718310--9718434 Score: 105
Period size: 35 Copynumber: 3.6 Consensus size: 35
9718300 TTCGTCTTAG
**
9718310 TCATTTTTATTTCTTAACTTATAGCTTTGTCCTGA
1 TCATTTTTATTTCTTAACTTATAGCTTCATCCTGA
* * *
9718345 TCATTTTTGTTTTTTAACTTATGGCTTCATCCT-A
1 TCATTTTTATTTCTTAACTTATAGCTTCATCCTGA
* * *
9718379 GTCATCTTTATTTGC-T-ACTT-TAAGGTGTCATCCTAA
1 -TCATTTTTATTT-CTTAACTTAT-AGCT-TCATCCTGA
*
9718415 TCATTTTTATTTCCTAACTT
1 TCATTTTTATTTCTTAACTT
9718435 GTGGCTTTGC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
33 1 0.01
34 8 0.11
35 58 0.81
36 5 0.07
ACGTcount: A:0.20, C:0.18, G:0.09, T:0.53
Consensus pattern (35 bp):
TCATTTTTATTTCTTAACTTATAGCTTCATCCTGA
Found at i:9718888 original size:35 final size:35
Alignment explanation
Indices: 9718655--9718921 Score: 110
Period size: 35 Copynumber: 7.6 Consensus size: 35
9718645 CATCTTGTTT
** *
9718655 ATCTTTATTTTTTGACTT-CTGACTTCATCCTGGTC
1 ATCTTTATTTTTTGACTTGC-GACTTTGTCCTAGTC
* * * ** ** *
9718690 ATATTTATTTCTTGACTTACGA-TTTCACCCCCGCC
1 ATCTTTATTTTTTGACTTGCGACTTT-GTCCTAGTC
* * * * *
9718725 ATCTTTATTTTTTGACTTGTGGCTTTGTCCCAATT
1 ATCTTTATTTTTTGACTTGCGACTTTGTCCTAGTC
* ** ** *
9718760 ATCTTTAATTTTTGACTTATGGTTTTCATTCCT-GTC
1 ATCTTTATTTTTTGACTTGCGACTTT--GTCCTAGTC
** * * * * *
9718796 ATCTTTATTTCCTGATTTGTGCCTTTAT-CTCAATC
1 ATCTTTATTTTTTGACTTGCGACTTTGTCCT-AGTC
*** * *
9718831 ATCTTTTATTCCATGACCTGCGACTTTGTCCTGGTC
1 ATC-TTTATTTTTTGACTTGCGACTTTGTCCTAGTC
* * *
9718867 ATCTTTATTTTTTGACTTGCGATTTTGTCTTAGTT
1 ATCTTTATTTTTTGACTTGCGACTTTGTCCTAGTC
*
9718902 ATCTTTATTTTTTAACTTGC
1 ATCTTTATTTTTTGACTTGC
9718922 AACATAGTTT
Statistics
Matches: 171, Mismatches: 52, Indels: 18
0.71 0.22 0.07
Matches are distributed among these distances:
33 2 0.01
34 3 0.02
35 114 0.67
36 47 0.27
37 5 0.03
ACGTcount: A:0.16, C:0.21, G:0.12, T:0.51
Consensus pattern (35 bp):
ATCTTTATTTTTTGACTTGCGACTTTGTCCTAGTC
Found at i:9719259 original size:35 final size:35
Alignment explanation
Indices: 9719161--9719332 Score: 137
Period size: 35 Copynumber: 4.9 Consensus size: 35
9719151 TTATCCCTTA
* * * *
9719161 ACTTACAGCTTCGTCTCAGTTATTTTTATTTTTTG
1 ACTTACAACTTCGTCCCAATCATTTTTATTTTTTG
*** * ** *
9719196 ACTTGTGATTTTATCCTAATCATTTTTATTTTTTG
1 ACTTACAACTTCGTCCCAATCATTTTTATTTTTTG
* * *
9719231 ACTTACAACTTCGTCCCAATTATCTTTATTTTTTT
1 ACTTACAACTTCGTCCCAATCATTTTTATTTTTTG
* * * **
9719266 ACTTACAACTTCATCCCAGTCATCTTTATTCCTTG
1 ACTTACAACTTCGTCCCAATCATTTTTATTTTTTG
* * * *
9719301 ACTTGCAGCTTTGTTCCAATCATTTTTATTTT
1 ACTTACAACTTCGTCCCAATCATTTTTATTTT
9719333 CTAACTTATG
Statistics
Matches: 101, Mismatches: 36, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
35 101 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (35 bp):
ACTTACAACTTCGTCCCAATCATTTTTATTTTTTG
Found at i:9719294 original size:70 final size:70
Alignment explanation
Indices: 9719142--9719332 Score: 193
Period size: 70 Copynumber: 2.7 Consensus size: 70
9719132 GGTTTTATTT
* * * * *** *
9719142 CAATCATCTTTATCCCTTAACTTACAGCTTCGTCTCAGTTATTTTTATTTTTTGACTTGTGATTT
1 CAATCATCTTTATTCCTTGACTTACAGCTTCGTCCCAATTATTTTTATTTTTTGACTTACAACTT
*
9719207 TATCC
66 CATCC
* * ** * * *
9719212 TAATCATTTTTATTTTTTGACTTACAACTTCGTCCCAATTATCTTTATTTTTTTACTTACAACTT
1 CAATCATCTTTATTCCTTGACTTACAGCTTCGTCCCAATTATTTTTATTTTTTGACTTACAACTT
9719277 CATCC
66 CATCC
* * * * *
9719282 CAGTCATCTTTATTCCTTGACTTGCAGCTTTGTTCCAATCATTTTTATTTT
1 CAATCATCTTTATTCCTTGACTTACAGCTTCGTCCCAATTATTTTTATTTT
9719333 CTAACTTATG
Statistics
Matches: 94, Mismatches: 27, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
70 94 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.51
Consensus pattern (70 bp):
CAATCATCTTTATTCCTTGACTTACAGCTTCGTCCCAATTATTTTTATTTTTTGACTTACAACTT
CATCC
Found at i:9722062 original size:51 final size:52
Alignment explanation
Indices: 9721991--9722103 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 52
9721981 CCTAAAATTA
* * * ** *
9721991 AAACCCTAAATAAAATCCTAAGTTTGAAACCCTAAATAAAAC-TTAAGGTTG
1 AAACCCTAAAAAAAACCCTAAGGTCAAAACCCTAAATAAAACAATAAGGTTG
*
9722042 AAATCCTAAAAAAAACCCTAAGGTCAAAACCCTAAATAAAACAATAAGGTTG
1 AAACCCTAAAAAAAACCCTAAGGTCAAAACCCTAAATAAAACAATAAGGTTG
9722094 AAACCCTAAA
1 AAACCCTAAA
9722104 TTGAAACCTT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 36 0.68
52 17 0.32
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.20
Consensus pattern (52 bp):
AAACCCTAAAAAAAACCCTAAGGTCAAAACCCTAAATAAAACAATAAGGTTG
Found at i:9722109 original size:13 final size:13
Alignment explanation
Indices: 9722091--9722154 Score: 87
Period size: 13 Copynumber: 5.0 Consensus size: 13
9722081 AACAATAAGG
9722091 TTGAAACCCTAAA
1 TTGAAACCCTAAA
*
9722104 TTGAAACCTTAAA
1 TTGAAACCCTAAA
*
9722117 TTAAAACCCTAAA
1 TTGAAACCCTAAA
9722130 -TGAAACCCTAAA
1 TTGAAACCCTAAA
9722142 TT-AAGACCCTAAA
1 TTGAA-ACCCTAAA
9722155 ATCAAAACCC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
12 13 0.29
13 32 0.71
ACGTcount: A:0.48, C:0.22, G:0.06, T:0.23
Consensus pattern (13 bp):
TTGAAACCCTAAA
Found at i:9722123 original size:52 final size:51
Alignment explanation
Indices: 9721991--9722135 Score: 148
Period size: 51 Copynumber: 2.8 Consensus size: 51
9721981 CCTAAAATTA
* * * ** *
9721991 AAACCCTAAATAAAATCCTAAGTTTGAAACCCTAAATAAAACTTAAGGTTG
1 AAACCCTAAAAAAAACCCTAAGATCAAAACCCTAAATAAAACATAAGGTTG
* *
9722042 AAATCCTAAAAAAAACCCTAAGGTCAAAACCCTAAATAAAACAATAAGGTTG
1 AAACCCTAAAAAAAACCCTAAGATCAAAACCCTAAATAAAAC-ATAAGGTTG
** * * *
9722094 AAACCCTAAATTGAAACCTTAA-ATTAAAACCCTAAATGAAAC
1 AAACCCTAAA-AAAAACCCTAAGATCAAAACCCTAAATAAAAC
9722136 CCTAAATTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 36 0.46
52 34 0.44
53 8 0.10
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.21
Consensus pattern (51 bp):
AAACCCTAAAAAAAACCCTAAGATCAAAACCCTAAATAAAACATAAGGTTG
Found at i:9722141 original size:25 final size:26
Alignment explanation
Indices: 9721981--9722165 Score: 151
Period size: 26 Copynumber: 7.1 Consensus size: 26
9721971 TAGATGAAAT
* *
9721981 CCTAAAATTAAAACCCTAAATAAAAT
1 CCTAAGATTAAAACCCTAAATAAAAC
* *
9722007 CCTAAGTTTGAAACCCTAAATAAAA-
1 CCTAAGATTAAAACCCTAAATAAAAC
* * * * *
9722032 CTTAAGGTTGAAATCCTAAAAAAAAC
1 CCTAAGATTAAAACCCTAAATAAAAC
* *
9722058 CCTAAGGTCAAAACCCTAAATAAAAC
1 CCTAAGATTAAAACCCTAAATAAAAC
** * * *
9722084 AATAAGGTTGAAACCCTAAATTGAAAC
1 CCTAAGATTAAAACCCTAAA-TAAAAC
* *
9722111 CTTAA-ATTAAAACCCTAAATGAAAC
1 CCTAAGATTAAAACCCTAAATAAAAC
*
9722136 CCTAA-ATTAAGACCCTAAAATCAAAAC
1 CCTAAGATTAAAACCCT-AAAT-AAAAC
9722163 CCT
1 CCT
9722166 TAGTAAAATC
Statistics
Matches: 131, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
25 41 0.31
26 75 0.57
27 15 0.11
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.22
Consensus pattern (26 bp):
CCTAAGATTAAAACCCTAAATAAAAC
Found at i:9722142 original size:38 final size:39
Alignment explanation
Indices: 9722092--9722165 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
9722082 ACAATAAGGT
* *
9722092 TGAAACCCTAAATTGAA-A-CCTTAAATTAAAACCCTAAA
1 TGAAACCCTAAATT-AAGACCCTAAAATCAAAACCCTAAA
9722130 TGAAACCCTAAATTAAGACCCTAAAATCAAAACCCT
1 TGAAACCCTAAATTAAGACCCTAAAATCAAAACCCT
9722166 TAGTAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 2 0.06
38 15 0.47
39 15 0.47
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (39 bp):
TGAAACCCTAAATTAAGACCCTAAAATCAAAACCCTAAA
Found at i:9722151 original size:77 final size:76
Alignment explanation
Indices: 9721974--9722154 Score: 195
Period size: 77 Copynumber: 2.3 Consensus size: 76
9721964 AAATATTTAG
* * * *
9721974 ATGAAATCCTAAAATTAAAACCCTAAATAAAATCCTAAGTTTGAAACCCTAAATAAAACTTAAGG
1 ATGAAACCCT-AAATTAAAACCCTAAATAAAATCATAAGGTTGAAACCCTAAATAAAACTTAAGA
* *
9722039 TTGAAATCCTAA
65 TTAAAACCCTAA
** * * *
9722051 AAAAAACCCTAAGGTCAAAACCCTAAATAAAA-CAATAAGGTTGAAACCCTAAATTGAAACCTTA
1 ATGAAACCCTAA-ATTAAAACCCTAAATAAAATC-ATAAGGTTGAAACCCTAAA-T-AAAACTTA
9722115 A-ATTAAAACCCTAA
62 AGATTAAAACCCTAA
*
9722129 ATGAAACCCTAAATTAAGACCCTAAA
1 ATGAAACCCTAAATTAAAACCCTAAA
9722155 ATCAAAACCC
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
76 3 0.04
77 52 0.62
78 21 0.25
79 8 0.10
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.22
Consensus pattern (76 bp):
ATGAAACCCTAAATTAAAACCCTAAATAAAATCATAAGGTTGAAACCCTAAATAAAACTTAAGAT
TAAAACCCTAA
Found at i:9723258 original size:59 final size:59
Alignment explanation
Indices: 9723110--9723513 Score: 483
Period size: 59 Copynumber: 6.7 Consensus size: 59
9723100 TCTTGTGCAG
* *
9723110 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTGATTTTCAA
*
9723169 GGAAAAGTGATACTTTCACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTG--A---T-ACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTGATTTTCAA
* * * * * *
9723234 AGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTTTAAA-TTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTTGAAACTTTGATTTTCAA
** ** * *
9723295 GGAAAATTGATACTTTCAACTTTTCCTAAAAAACCCTTTTTTTGAAA-TTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGAAACTTTGATTTTCAA
9723354 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAACTTTGATTTTCAA
* * ** *
9723413 GGAAAATTGTTATTTTCAACTTTTCCTTAAAAATA-TTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTGATTTTCAA
*
9723471 GGAAAATTGATATTTTCAACTTTTCCCCAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTT
9723514 TATTTAAAGA
Statistics
Matches: 301, Mismatches: 30, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
58 71 0.24
59 108 0.36
60 14 0.05
61 42 0.14
62 11 0.04
63 1 0.00
64 1 0.00
65 53 0.18
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTGATTTTCAA
Found at i:9723533 original size:5 final size:5
Alignment explanation
Indices: 9723523--9723607 Score: 74
Period size: 5 Copynumber: 17.6 Consensus size: 5
9723513 TTATTTAAAG
*
9723523 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAA- AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
* *
9723572 AAAA- AAAAGT AAAAC AAAA- ATAA- AAAAT AAAAT AAA
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAA
9723608 GGTAAAAAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.04
4 14 0.21
5 40 0.60
6 6 0.09
7 4 0.06
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:9723558 original size:30 final size:30
Alignment explanation
Indices: 9723522--9723607 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 30
9723512 TTTATTTAAA
*
9723522 GAAAATAAAATAATAAAACAAAATAAAAGT
1 GAAAATAAAATAATAAAATAAAATAAAAGT
*
9723552 GAAAATAAAAAAAATAAAATAAAA-AAAAGT
1 GAAAAT-AAAATAATAAAATAAAATAAAAGT
*
9723582 -AAAACAAAAATAA-AAAATAAAATAAA
1 GAAAA-TAAAATAATAAAATAAAATAAA
9723608 GGTAAAAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
28 9 0.18
29 13 0.27
30 12 0.24
31 15 0.31
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (30 bp):
GAAAATAAAATAATAAAATAAAATAAAAGT
Found at i:9723620 original size:27 final size:28
Alignment explanation
Indices: 9723528--9723614 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 28
9723518 TAAAGAAAAT
* *
9723528 AAAATAATAAAACAAAATAAAAGTGAAAATA
1 AAAATAA-AAAATAAAA-AAAAGT-AAAACA
*
9723559 AAAAAAATAAAATAAAAAAAAGTAAAACA
1 AAAATAA-AAAATAAAAAAAAGTAAAACA
*
9723588 AAAATAAAAAATAAAATAAAGGTAAAA
1 AAAATAAAAAATAAAA-AAAAGTAAAA
9723615 AGAATACTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
28 9 0.18
29 20 0.40
30 6 0.12
31 15 0.30
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (28 bp):
AAAATAAAAAATAAAAAAAAGTAAAACA
Found at i:9723690 original size:31 final size:30
Alignment explanation
Indices: 9723641--9723702 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 30
9723631 CTAATCTAAT
9723641 AAATAAAAATAAATAAATTAAAAACAAATAAA
1 AAATAAAAATAAATAAATTAAAAA-AAA-AAA
*
9723673 AAATAAAATTAAA-AAATTAAAAAAAAAAA
1 AAATAAAAATAAATAAATTAAAAAAAAAAA
9723702 A
1 A
9723703 CTTGGAGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 4 0.14
30 3 0.10
31 10 0.34
32 12 0.41
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.18
Consensus pattern (30 bp):
AAATAAAAATAAATAAATTAAAAAAAAAAA
Found at i:9724077 original size:19 final size:20
Alignment explanation
Indices: 9724029--9724069 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9724019 CGGTTGAATG
*
9724029 TTCATCGGATTCTGAATTTT
1 TTCATCGGAATCTGAATTTT
9724049 TTCATCGGAATCTGAATTTT
1 TTCATCGGAATCTGAATTTT
9724069 T
1 T
9724070 CGTCGGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (20 bp):
TTCATCGGAATCTGAATTTT
Found at i:9724603 original size:23 final size:22
Alignment explanation
Indices: 9724567--9724649 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 22
9724557 TCAGATAAAC
*
9724567 AAAAAA-T-CAGATAAATGAAA
1 AAAAAATTACAGATAAATCAAA
*
9724587 AAAAAATTAACAGAT-AATTAAA
1 AAAAAATT-ACAGATAAATCAAA
9724609 AATAAAA-TA-AGATAAATCCAAA
1 AA-AAAATTACAGATAAAT-CAAA
9724631 AAAAATATTACAAGATAAA
1 AAAAA-ATTAC-AGATAAA
9724650 AATAATAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
20 10 0.20
21 8 0.16
22 15 0.29
23 11 0.22
25 7 0.14
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (22 bp):
AAAAAATTACAGATAAATCAAA
Found at i:9724637 original size:20 final size:20
Alignment explanation
Indices: 9724567--9724637 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
9724557 TCAGATAAAC
* *
9724567 AAAAAATCAGATAAATGAAA
1 AAAAAATAAGATAAATCAAA
*
9724587 AAAAAATTAACAGAT-AATTAAA
1 AAAAAA-T-A-AGATAAATCAAA
*
9724609 AATAAAATAAGATAAATCCAA
1 AA-AAAATAAGATAAATCAAA
9724630 AAAAAATA
1 AAAAAATA
9724638 TTACAAGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 16 0.38
21 9 0.21
22 9 0.21
23 8 0.19
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (20 bp):
AAAAAATAAGATAAATCAAA
Found at i:9724663 original size:45 final size:42
Alignment explanation
Indices: 9724561--9724663 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 42
9724551 GAATAATCAG
* *
9724561 ATAAACAA-AAAATCAGATAAATGAAAAAAAAATTAACAGATA
1 ATAAA-AATAAAATAAGATAAATCAAAAAAAAATTAACAGATA
9724603 ATTAAAAATAAAATAAGATAAATCCAAAAAAAATATT-ACAAGATA
1 A-TAAAAATAAAATAAGATAAAT-CAAAAAAAA-ATTAAC-AGATA
9724648 A-AAATAATAATAATAA
1 ATAAA-AATAA-AATAA
9724664 TAAATAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
42 3 0.06
43 20 0.38
44 15 0.29
45 14 0.27
ACGTcount: A:0.69, C:0.06, G:0.05, T:0.20
Consensus pattern (42 bp):
ATAAAAATAAAATAAGATAAATCAAAAAAAAATTAACAGATA
Found at i:9724670 original size:22 final size:22
Alignment explanation
Indices: 9724645--9724704 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
9724635 ATATTACAAG
9724645 ATAAA-AATAATAATAATAATAA
1 ATAAATAATAAT-ATAATAATAA
*
9724667 ATAAATTATAATATAATAATAA
1 ATAAATAATAATATAATAATAA
*
9724689 ATATATAACT-ATATAA
1 ATAAATAA-TAATATAA
9724705 ATAAAATGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 27 0.82
23 6 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAATAATAATATAATAATAA
Found at i:9725160 original size:42 final size:42
Alignment explanation
Indices: 9725108--9725297 Score: 204
Period size: 41 Copynumber: 4.4 Consensus size: 42
9725098 CAACTTTAAA
* * * *
9725108 AAAAATAAATTGTTCATTTAAACAAAAGCACCACGACTTTGG
1 AAAAGTAAATTGCTCATTTAAACAGAGGCACCACGACTTTGG
*
9725150 AAAAGTAAATTGCTCCTTTAAACAGAGGCACCACGACTTTGGG
1 AAAAGTAAATTGCTCATTTAAACAGAGGCACCACGACTTT-GG
* * * *
9725193 AAAGTAAATTTAAATTGCTCCTCTAAATAGAGGCACCACGACTTT-G
1 --A--AAA-GTAAATTGCTCATTTAAACAGAGGCACCACGACTTTGG
* * *
9725239 AAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGG
1 AAAAGTAAATTGCTCATTTAAACAGAGGCACCACGACTTTGG
9725281 AAAA-TAAATTGCTCATT
1 AAAAGTAAATTGCTCATT
9725298 GACAATCATG
Statistics
Matches: 130, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
41 46 0.35
42 43 0.33
43 2 0.02
44 1 0.01
45 1 0.01
46 1 0.01
47 3 0.02
48 33 0.25
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (42 bp):
AAAAGTAAATTGCTCATTTAAACAGAGGCACCACGACTTTGG
Found at i:9725260 original size:41 final size:41
Alignment explanation
Indices: 9725033--9725294 Score: 222
Period size: 43 Copynumber: 6.1 Consensus size: 41
9725023 TTTGACCAAA
* * * *
9725033 GCTCCTCTAAATAGAAGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAATAGAGGCACCACGACTTTG-GAAA-ATAAATT
* * * * **
9725076 GCTCCTCT-AATCAGAAGCTCAACAACTTTAAAAAAAATAAATT
1 GCTCCTCTAAAT-AGAGGCACCACGACTTT--GGAAAATAAATT
* * * * * *
9725119 GTTCATTTAAACAAAAGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAA-TAAATT
* *
9725161 GCTCCTTTAAACAGAGGCACCACGACTTTGGGAAAGTAAATTTAAATT
1 GCTCCTCTAAATAGAGGCACCACGACTTT-GG--A--AAA--TAAATT
9725209 GCTCCTCTAAATAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAA-TAAATT
9725250 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAATAAATT
1 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAATAAATT
9725291 GCTC
1 GCTC
9725295 ATTGACAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 26
0.79 0.09 0.11
Matches are distributed among these distances:
41 49 0.26
42 42 0.23
43 50 0.27
44 6 0.03
45 1 0.01
46 1 0.01
47 3 0.02
48 33 0.18
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAATAAATT
Found at i:9735394 original size:59 final size:58
Alignment explanation
Indices: 9735302--9735751 Score: 554
Period size: 59 Copynumber: 7.7 Consensus size: 58
9735292 CTTGTGCAGA
* *
9735302 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAACTTTTATTTTCAAG
1 GAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAACTTTGATTTTCAAG
*
9735361 GAAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTGAAACTTTGATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTGAAACTTTGATTTTCAAG
* * *
9735419 GAAAATTGATACTTTCAACTTTTCCTC-AAACT-TTTTTTTGAAA-TTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAAACTTTGATTTTCAAG
* * *
9735475 GAAAATTGATAGTTTCAACTTTTCCCTAAAAATATTTTTTTGAAACTTTAATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAACTTTGATTTTCAAG
* * * * *
9735534 GAAAAATGATACTTTCAACTTTTCCTAAAAA-ACCCTTTTTTTGAAA-TTTTATTTTTAGG
1 GAAAATTGATACTTTCAACTTTTCCCAAAAATA---TTTTTTTGAAACTTTGATTTTCAAG
*
9735593 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTCAAACTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGAAACTTTGATTTTCAAG
* * * * *
9735652 GAAAATTGATATTTTTAACTTTTCCTTAAAAATA-TTTTTGGAAACTTTGATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAAACTTTGATTTTCAAG
* *
9735710 AAAAATTGATATTTTCAACTTTTCCCCAAAAATATATTTTTT
1 GAAAATTGATACTTTCAACTTTT-CCCAAAAATAT-TTTTTT
9735752 TAATTTTTAT
Statistics
Matches: 339, Mismatches: 35, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
55 1 0.00
56 34 0.10
57 20 0.06
58 128 0.38
59 132 0.39
60 23 0.07
61 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAACTTTGATTTTCAAG
Found at i:9735778 original size:5 final size:5
Alignment explanation
Indices: 9735768--9735852 Score: 56
Period size: 5 Copynumber: 17.6 Consensus size: 5
9735758 TTATTTAAAG
* *
9735768 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT ATAA- AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
* * *
9735817 AAAGA- AAAGT AAAAC AAAA- ATAA- AAAAT AAAAT AAA
1 AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
9735853 GGTAAAAAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
3 3 0.05
4 9 0.14
5 44 0.70
6 3 0.05
7 4 0.06
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:9736813 original size:19 final size:19
Alignment explanation
Indices: 9736758--9736903 Score: 80
Period size: 20 Copynumber: 7.2 Consensus size: 19
9736748 CCAAAAAAAG
9736758 AAAAAAAAGAATA-ATCAAAT
1 AAAAAAAA-AATAGAT-AAAT
9736778 AAACAAAAAAATCAGATAAAT
1 AAA-AAAAAAAT-AGATAAAT
* *
9736799 GAAAAAAAAATAGATAATT
1 AAAAAAAAAATAGATAAAT
* *
9736818 AAAAATTAAATAAGAGATAATT
1 AAAAA--AAA-AATAGATAAAT
**
9736840 AAAAATTAAATAAGATAAAT
1 AAAAAAAAAAT-AGATAAAT
** * *
9736860 CCAAAAAAAATATTACAAGAT
1 AAAAAAAAAATA-GATAA-AT
9736881 AAAAAATAATAATA-ATAAAT
1 AAAAAA-AA-AATAGATAAAT
9736901 AAA
1 AAA
9736904 TTATAATATA
Statistics
Matches: 98, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
19 14 0.14
20 37 0.38
21 24 0.24
22 19 0.19
23 4 0.04
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAAAAAAAATAGATAAAT
Found at i:9736838 original size:22 final size:22
Alignment explanation
Indices: 9736810--9736854 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9736800 AAAAAAAAAT
9736810 AGATAATTAAAAATTAAATAAG
1 AGATAATTAAAAATTAAATAAG
9736832 AGATAATTAAAAATTAAATAAG
1 AGATAATTAAAAATTAAATAAG
9736854 A
1 A
9736855 TAAATCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (22 bp):
AGATAATTAAAAATTAAATAAG
Found at i:9736934 original size:22 final size:22
Alignment explanation
Indices: 9736889--9736936 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9736879 ATAAAAAATA
*
9736889 ATAATAATAAATAAATTATAAT
1 ATAATAATAAATAAATAATAAT
*
9736911 ATAATAATAAATATATAACT-AT
1 ATAATAATAAATAAATAA-TAAT
9736933 ATAA
1 ATAA
9736937 ATAAAATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAATAATAAATAAATAATAAT
Found at i:9738128 original size:50 final size:50
Alignment explanation
Indices: 9738058--9738310 Score: 212
Period size: 50 Copynumber: 5.1 Consensus size: 50
9738048 GGAACTTCTA
* ** * **
9738058 AAAAAATCTTAATAGGAAAAGTGCTCCTATAAACATAGATAAGTGACTTT
1 AAAAAATCTCAATTTGAAAAGTGCTCTTATAAACATAGGCAAGTGACTTT
* *
9738108 AAAAAATCTCAACTTGAAAAG-GCCTCTTATACAGACATAGGCAAGTGGCTTTT
1 AAAAAATCTCAATTTGAAAAGTG-CTCTTATA-A-ACATAGGCAAGTGAC-TTT
* * *** *
9738161 AAGAAA--TC--TTTGAAAAATGCTCTTATAGTTATAAGCAAGTGACTTT
1 AAAAAATCTCAATTTGAAAAGTGCTCTTATAAACATAGGCAAGTGACTTT
* * ** * * *
9738207 AAAAACA-CTCAGTTTGAAAACTATTCCTATATACATAGGCAAATGACTTT
1 AAAAA-ATCTCAATTTGAAAAGTGCTCTTATAAACATAGGCAAGTGACTTT
* *
9738257 AAAAAATCTCTATTTGAAAAGTGCTCTTATAAATATAGGCAAGTGACTTT
1 AAAAAATCTCAATTTGAAAAGTGCTCTTATAAACATAGGCAAGTGACTTT
9738307 AAAA
1 AAAA
9738311 TTTCTTTGAA
Statistics
Matches: 158, Mismatches: 35, Indels: 20
0.74 0.16 0.09
Matches are distributed among these distances:
46 7 0.04
47 12 0.08
48 2 0.01
49 17 0.11
50 97 0.61
51 3 0.02
52 12 0.08
53 8 0.05
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (50 bp):
AAAAAATCTCAATTTGAAAAGTGCTCTTATAAACATAGGCAAGTGACTTT
Found at i:9739078 original size:19 final size:19
Alignment explanation
Indices: 9739056--9739104 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
9739046 TGTTCTTTCA
*
9739056 TCATTTCATTCTACTCATT
1 TCATTTCATTCTACTAATT
9739075 TCATTTCATTCTACTAATT
1 TCATTTCATTCTACTAATT
*
9739094 TCATTTTATTC
1 TCATTTCATTC
9739105 ATTCATTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.55
Consensus pattern (19 bp):
TCATTTCATTCTACTAATT
Found at i:9739119 original size:24 final size:26
Alignment explanation
Indices: 9739074--9739136 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
9739064 TTCTACTCAT
* *
9739074 TTCATTTCATTCTACTAATTTCATTTTA
1 TTCA-TTCATTCTACT-ATTTCACTTCA
9739102 TTCATTCATTC-ACT-TTTCACTTCA
1 TTCATTCATTCTACTATTTCACTTCA
9739126 TTCATTC-TTCT
1 TTCATTCATTCT
9739137 TTCTCTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 3 0.09
24 15 0.47
26 3 0.09
27 7 0.22
28 4 0.12
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.56
Consensus pattern (26 bp):
TTCATTCATTCTACTATTTCACTTCA
Found at i:9739438 original size:10 final size:10
Alignment explanation
Indices: 9739425--9739460 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
9739415 GATCAAATAA
9739425 AGTCAAAATT
1 AGTCAAAATT
*
9739435 AGTCAAACTT
1 AGTCAAAATT
9739445 AGTCAAAATT
1 AGTCAAAATT
*
9739455 AATCAA
1 AGTCAA
9739461 TGAGGATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (10 bp):
AGTCAAAATT
Found at i:9739440 original size:20 final size:20
Alignment explanation
Indices: 9739405--9739460 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
9739395 AGTCAACTCT
* *
9739405 AGTCAAATTTGATCAAA-TAA
1 AGTCAAAATTAATCAAACT-A
* *
9739425 AGTCAAAATTAGTCAAACTT
1 AGTCAAAATTAATCAAACTA
9739445 AGTCAAAATTAATCAA
1 AGTCAAAATTAATCAA
9739461 TGAGGATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (20 bp):
AGTCAAAATTAATCAAACTA
Found at i:9741580 original size:26 final size:26
Alignment explanation
Indices: 9741550--9741619 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
9741540 CCTTAGATTG
*
9741550 AAACCTTAAAATGAAACTCTAAACCC
1 AAACCTTAAAACGAAACTCTAAACCC
* * * * *
9741576 TAACCCTAAAACCAAACCCTAAATCC
1 AAACCTTAAAACGAAACTCTAAACCC
*
9741602 AAACTTTAAAACGAAACT
1 AAACCTTAAAACGAAACT
9741620 TTAATCCTAA
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.50, C:0.29, G:0.03, T:0.19
Consensus pattern (26 bp):
AAACCTTAAAACGAAACTCTAAACCC
Found at i:9741584 original size:13 final size:13
Alignment explanation
Indices: 9741563--9741605 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
9741553 CCTTAAAATG
* *
9741563 AAACTCTAAACCC
1 AAACCCTAAAACC
*
9741576 TAACCCTAAAACC
1 AAACCCTAAAACC
*
9741589 AAACCCTAAATCC
1 AAACCCTAAAACC
9741602 AAAC
1 AAAC
9741606 TTTAAAACGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (13 bp):
AAACCCTAAAACC
Found at i:9741654 original size:21 final size:22
Alignment explanation
Indices: 9741629--9741681 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
9741619 TTTAATCCTA
9741629 AAACCCTAATCC-AAAAA-CTCT
1 AAACCCTAATCCGAAAAATCT-T
* *
9741650 AAACCCTAAACCGTAAAATCTT
1 AAACCCTAATCCGAAAAATCTT
9741672 AAACCCTAAT
1 AAACCCTAAT
9741682 TTAGAACCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.41
22 14 0.52
23 2 0.07
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (22 bp):
AAACCCTAATCCGAAAAATCTT
Found at i:9741888 original size:17 final size:19
Alignment explanation
Indices: 9741849--9741888 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
9741839 TATTTGTTTT
9741849 TAAAAATTAGTTTTCAAGA
1 TAAAAATTAGTTTTCAAGA
*
9741868 -AAAAATT-GTTTTTAA-A
1 TAAAAATTAGTTTTCAAGA
9741884 TAAAA
1 TAAAA
9741889 TAATATCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 1 0.05
17 11 0.58
18 7 0.37
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (19 bp):
TAAAAATTAGTTTTCAAGA
Found at i:9749916 original size:15 final size:15
Alignment explanation
Indices: 9749896--9749932 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
9749886 CCTTGCCTAC
9749896 ACTGCTGGTTTTTTT
1 ACTGCTGGTTTTTTT
9749911 ACTGCTGGTTTTTTT
1 ACTGCTGGTTTTTTT
9749926 ACTGCTG
1 ACTGCTG
9749933 TCTCTTCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.08, C:0.16, G:0.22, T:0.54
Consensus pattern (15 bp):
ACTGCTGGTTTTTTT
Found at i:9751603 original size:855 final size:856
Alignment explanation
Indices: 9749663--9753965 Score: 7585
Period size: 855 Copynumber: 5.0 Consensus size: 856
9749653 TCTTCTAACA
*
9749663 TATA-ATACTTGCCCTTCATTTCAATGTTTCTTGTGTACTCAAATACCTCTTTTAATTTCTCTTA
1 TATAGATAATTGCCCTTCATTTCAATGTTTCTTGTGTACTCAAATACCTCTTTTAATTTCTCTTA
9749727 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGACAAAAGACATGGATCCAAGATTGACGT
66 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGACAAAAGACATGGATCCAAGATTGACGT
9749792 TCATCTGGATAGGCGATGGCTTTACAAAAATACTAACATATTATTGATAAATGGTCGATAATGCT
131 TCATCTGGATAGGCGATGGCTTTACAAAAATACTAACATATTATTGATAAATGGTCGATAATGCT
* * *
9749857 TTAGTAACATGAGGTTAAGGATATGTGAACCTTGCCTACACTGCTGGTTTTTTTACTGCTGGTTT
196 TGAGTAACATAAGGTTAAGGATATGTGAACCTTGCATACACTGCTGG---TTTT--T-C------
*
9749922 TTTTACTGCTGTCTCTTCCCATACCTCATCGCATCTCGACAACCCTTTTTCCTTTAGACAATCCT
249 ---TACTGCTGTCTCTTCCCTTACCTCAT-GCATCTCGACAACCCTTTTTCCTTTAGACAATCCT
* * * * *
9749987 ACTAATACTTATTTTTATTTCACAAACTGTTTGCCTATATTCTGTTGCATCCCTACAACTGTTTC
310 ACTAATATTTATTTCTATTTCACAAACTGTTTGTCTATATTCCGTTGCATCCCTGCAACTGTTTC
* * * *
9750052 TTTAATTTCTTCATAGGCCTTTCCATCCTATTAAGTCGGTTAGCATTTTCATTCTCTATGATTCT
375 TTTAATTTCTTCATAGGCCCTTCCATCCTATTAATTCGGCTAGCATTTTCATTCTCTATGATCCT
* * * *
9750117 TAAGTGAGCTCATGTATTGTATATACAGAAAACCAACTGAACTTGTTCATTAGGGTGCGTTATCC
440 TAAGTGAGCTCATGTATTGTACATACAAAAAACCAACTGATCTTGTTCCTTAGGGTGCGTTATCC
*
9750182 TCGAACATTTTATTAAATTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTA
505 TCGAACATTTTATTGAATTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTA
9750247 GGTAAGACTTTTAAATATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATCAT
570 GGTAAGACTTTTAAATATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATCAT
*
9750312 TCTTTGTTTCAAGCTGGCATGAAAAACAATGTTCAAACAAAAAATGCATGATATGCAAGTCAAAT
635 TCCTTGTTTCAAGCTGGCATGAAAAACAATGTTCAAACAAAAAATGCATGATATGCAAGTCAAAT
*
9750377 TTTATTATTGTTGAAAATGAACCTAAATCCCCCTTCTATATTCAAGCCGAGTTATTTAAGGATAC
700 TTTATTATTGTTGAAAATGAACTTAAATCCCCCTTCTATATTCAAGCCGAGTTATTTAAGGATAC
* *
9750442 GCTTTTCGGCTCAAAAGTTTGATGAACGTATATTCACAACCATAATCCTTTTTCATAAGCTCATT
765 TCTTTTCGGCTCAAAAGTTTGATGAACGTATATTCACAACCATCATCCTTTTTCATAAGCTCATT
9750507 TAAGCATACTTTTAAGATATATTCATT
830 TAAGCATACTTTTAAGATATATTCATT
*
9750534 TATAGATAATTGCCCTTCATTTCAATGTTTATTGTGTACTCAAATACCTCTTTTAATTTCTCTTA
1 TATAGATAATTGCCCTTCATTTCAATGTTTCTTGTGTACTCAAATACCTCTTTTAATTTCTCTTA
* *
9750599 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGACAAAAGACATGGATCCAAGATCGACAT
66 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGACAAAAGACATGGATCCAAGATTGACGT
* * *
9750664 TCATCTGGATAGGCGATAGCTTTACAAAAATACTAACATATTATTGATAAATGGTCAATGATGCT
131 TCATCTGGATAGGCGATGGCTTTACAAAAATACTAACATATTATTGATAAATGGTCGATAATGCT
* *
9750729 TGAGTAACATAAGGTTAAGGATATGTGAACCTTGCATACACTACTGGTTTTTATACTGCTGTCTC
196 TGAGTAACATAAGGTTAAGGATATGTGAACCTTGCATACACTGCTGGTTTTTCTACTGCTGTCTC
9750794 TTCCCTTACCTCATGCATCTCGACAA-CCTCTTTTCCTTTAGACAATCCTACTAATATTTATTTC
261 TTCCCTTACCTCATGCATCTCGACAACCCT-TTTTCCTTTAGACAATCCTACTAATATTTATTTC
* *
9750858 TATTTCACAAACTATTTGTCTATATTCCGTTGCATCCCTGCAACTGTTTCTTTAATTTTTTCATA
325 TATTTCACAAACTGTTTGTCTATATTCCGTTGCATCCCTGCAACTGTTTCTTTAATTTCTTCATA
9750923 GGCCCTTCCATCCTATTAATTCGGCTAGCATTTTCATTCTCTATGATCCTTAAGTGAGCTCATGT
390 GGCCCTTCCATCCTATTAATTCGGCTAGCATTTTCATTCTCTATGATCCTTAAGTGAGCTCATGT
*
9750988 ATTATACATACAAAAAACCAACTGATCTTGTTCCTTAGGGTGCGTTATCCTCGAACATTTTATTG
455 ATTGTACATACAAAAAACCAACTGATCTTGTTCCTTAGGGTGCGTTATCCTCGAACATTTTATTG
*
9751053 AATTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTAGGTAAAACTTTTAAA
520 AATTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTAGGTAAGACTTTTAAA
*
9751118 TATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAAGTATCATTCCTTGTTTCAAGCT
585 TATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATCATTCCTTGTTTCAAGCT
* *
9751183 GGCATGAAAAGCAATGTTTAAAC-AAAAATGCATGATATGCAAGTCAAATTTTATTATTGTTGAA
650 GGCATGAAAAACAATGTTCAAACAAAAAATGCATGATATGCAAGTCAAATTTTATTATTGTTGAA
*
9751247 AATGAACTTAAATCCCCTTTCTATATTCAAGCCGAGTTATTTAAGGATACTCTTTTCGGCTCAAA
715 AATGAACTTAAATCCCCCTTCTATATTCAAGCCGAGTTATTTAAGGATACTCTTTTCGGCTCAAA
* *
9751312 AGTTTGATGAACGTATATTCACAACCATCATCCTTTTTCGTAAGCTCATTTAAGCATAATTTTAA
780 AGTTTGATGAACGTATATTCACAACCATCATCCTTTTTCATAAGCTCATTTAAGCATACTTTTAA
9751377 GATATATTCATT
845 GATATATTCATT
* *
9751389 TATAGATAATTACCCTTTATTTCAATGTTTCTTGTGTACTCAAATACCTCTTTTAATTTCTCTTA
1 TATAGATAATTGCCCTTCATTTCAATGTTTCTTGTGTACTCAAATACCTCTTTTAATTTCTCTTA
*
9751454 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGATAAAAGACATGGATCCAAGATTGACGT
66 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGACAAAAGACATGGATCCAAGATTGACGT
* *
9751519 TCATCTAGATAGGCGATGGCTTTACAAAAATACTAACATATTATTGATAAATAGTCGATAATGCT
131 TCATCTGGATAGGCGATGGCTTTACAAAAATACTAACATATTATTGATAAATGGTCGATAATGCT
9751584 TGAGTAACATAAGGTTAAGGATATGTGAACCTTGCATACACTGCTGGTTTTTCTACTGCTGTCTC
196 TGAGTAACATAAGGTTAAGGATATGTGAACCTTGCATACACTGCTGGTTTTTCTACTGCTGTCTC
*
9751649 TTCCTTTACCTCATGCATCTCGACAACCCTTTTTCCTTTAGACAATCCTACTAATATTTATTTCT
261 TTCCCTTACCTCATGCATCTCGACAACCCTTTTTCCTTTAGACAATCCTACTAATATTTATTTCT
* *
9751714 ATTTCACAAACTGTTTGTCTATATTTCGTTGCATCCCTACAACTGTTTCTTTAATTTCTTCATAG
326 ATTTCACAAACTGTTTGTCTATATTCCGTTGCATCCCTGCAACTGTTTCTTTAATTTCTTCATAG
*
9751779 GCCCTTCCATCTTATTAATTCGGCTAGCATTTTCATTCTCTATGATCCTTAAGTGAGCTCATGTA
391 GCCCTTCCATCCTATTAATTCGGCTAGCATTTTCATTCTCTATGATCCTTAAGTGAGCTCATGTA
9751844 TTGTACATACAAAAAACCAACTGATCTTGTTCCTTAGGGTGCGTTATCCTCGAACATTTTATT-A
456 TTGTACATACAAAAAACCAACTGATCTTGTTCCTTAGGGTGCGTTATCCTCGAACATTTTATTGA
*
9751908 ATTTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTAGGTAAGACGTTTAAA
521 A-TTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTAGGTAAGACTTTTAAA
*
9751973 TATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATTATTCCTTGTTTCAAGCT
585 TATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATCATTCCTTGTTTCAAGCT
9752038 GGCATGAAAAACAATGTTCAAACAAAAAATGCATGATATGCAAGTCAAATTTTATTATTGTTGAA
650 GGCATGAAAAACAATGTTCAAACAAAAAATGCATGATATGCAAGTCAAATTTTATTATTGTTGAA
* *
9752103 AATGAACTTAAATCCCCCTTCTATTTTCAAGTCGAGTTATTTAAGGATACTCTTTTCGGCTCAAA
715 AATGAACTTAAATCCCCCTTCTATATTCAAGCCGAGTTATTTAAGGATACTCTTTTCGGCTCAAA
9752168 AGTTTGATGAACGTATATTCACAACCATCATCCTTTTTCATAAGCTCATTTAAGCATACTTTTAA
780 AGTTTGATGAACGTATATTCACAACCATCATCCTTTTTCATAAGCTCATTTAAGCATACTTTTAA
9752233 GATATATTCATT
845 GATATATTCATT
* * * *
9752245 TATAGATAATTGCTCTTCATTTCAATGTTTTTTATGTACTTAAATACCTCTTTTAATTTCTCTTA
1 TATAGATAATTGCCCTTCATTTCAATGTTTCTTGTGTACTCAAATACCTCTTTTAATTTCTCTTA
* *
9752310 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAAAGACAAAAGACATGCATCCAAGATTGACGT
66 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGACAAAAGACATGGATCCAAGATTGACGT
9752375 TCATCTGGATAGGCGATGGCTTTACAAAAATACTAACATATTATTGATAAATGGTCGATAATGCT
131 TCATCTGGATAGGCGATGGCTTTACAAAAATACTAACATATTATTGATAAATGGTCGATAATGCT
* * * *
9752440 TGAGTAACATAAGGTTAAGGATATGTGAATCTTGCATACACCGTTGGTTTTTCTACTACTGTCTC
196 TGAGTAACATAAGGTTAAGGATATGTGAACCTTGCATACACTGCTGGTTTTTCTACTGCTGTCTC
* *
9752505 TTCTCTTACCTCATGCATCTCGACAACCCTTTTTCTTTTAGACAATCCTACTAATATTTATTTCT
261 TTCCCTTACCTCATGCATCTCGACAACCCTTTTTCCTTTAGACAATCCTACTAATATTTATTTCT
* * *
9752570 ATTTCACAAACTATTTGTCTATATTCCGTTGCATCCTTGCAACTGTTTCTTTAATTCCTTCATAG
326 ATTTCACAAACTGTTTGTCTATATTCCGTTGCATCCCTGCAACTGTTTCTTTAATTTCTTCATAG
* *
9752635 GCCCTTTCATCCTATTAATTCGGCTAGCAATTTCATTC-CTATGATCCTTAAGTGAGCTCATGTA
391 GCCCTTCCATCCTATTAATTCGGCTAGCATTTTCATTCTCTATGATCCTTAAGTGAGCTCATGTA
* *
9752699 TTGTACATACAAAAAACCAATTGATCTTGTTCCTTAGGGTGCGTTATCCTTGAACATTTTATTGA
456 TTGTACATACAAAAAACCAACTGATCTTGTTCCTTAGGGTGCGTTATCCTCGAACATTTTATTGA
9752764 ATTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTAGGTAAGACTTTTAAAT
521 ATTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTAGGTAAGACTTTTAAAT
*
9752829 ATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATCATTCCTTGTTTCAAGCTA
586 ATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATCATTCCTTGTTTCAAGCTG
9752894 GCATGAAAAACAATGTTCAAACAAAAAATGCATGATATGCAAGTCAAATTTTATTATTGTTGAAA
651 GCATGAAAAACAATGTTCAAACAAAAAATGCATGATATGCAAGTCAAATTTTATTATTGTTGAAA
9752959 ATGAACTTAAATCCCCCTTCTATATTCAAGCCGAGTTATTTAAGGATACTCTTTTCGGCTCAAAA
716 ATGAACTTAAATCCCCCTTCTATATTCAAGCCGAGTTATTTAAGGATACTCTTTTCGGCTCAAAA
*
9753024 GTTTGATGAACATATATTCACAACCATCATCCTTTTTCATAAGCTCATTTAAGCATACTTTTAAG
781 GTTTGATGAACGTATATTCACAACCATCATCCTTTTTCATAAGCTCATTTAAGCATACTTTTAAG
9753089 ATATATTCATT
846 ATATATTCATT
*
9753100 TATAGATAATTGCCCTTCATTTCAATGTTTCTTGTATACTCAAATACCTCTTTTAATTTCTCTTA
1 TATAGATAATTGCCCTTCATTTCAATGTTTCTTGTGTACTCAAATACCTCTTTTAATTTCTCTTA
9753165 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGACAAAAGACATGGATCCAAGATT-ATCG
66 TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGACAAAAGACATGGATCCAAGATTGA-CG
*
9753229 TTCATCTGGATAGGAGATGGCTTTACAAAAATACTAACATATTATTGATAAATGGTCGATAATGC
130 TTCATCTGGATAGGCGATGGCTTTACAAAAATACTAACATATTATTGATAAATGGTCGATAATGC
9753294 TTGAGTAACATAAGGTTAAGGATATGTGAACCTTGCATACACTGCTGGTTTTTCTACTGCTGTCT
195 TTGAGTAACATAAGGTTAAGGATATGTGAACCTTGCATACACTGCTGGTTTTTCTACTGCTGTCT
* * * * *
9753359 CTTCCCTTACTTCATGCATCTCAACAACCATTTTTTCTTTAGACAATCCTACTAATATTTATTTT
260 CTTCCCTTACCTCATGCATCTCGACAACCCTTTTTCCTTTAGACAATCCTACTAATATTTATTTC
* *
9753424 TATTTCACAAACTGTTTGTCTATATTTCGTTGCATCCCTGTAACTGTTTCTTTAATTTCTTCATA
325 TATTTCACAAACTGTTTGTCTATATTCCGTTGCATCCCTGCAACTGTTTCTTTAATTTCTTCATA
*
9753489 GGCCCTTCCATCCTATTAATTCGGCTAGCATTTTCATTCTCTATGATCCTTAAGTGAGCTTATGT
390 GGCCCTTCCATCCTATTAATTCGGCTAGCATTTTCATTCTCTATGATCCTTAAGTGAGCTCATGT
*
9753554 ATTGTACATACAAAAAACCAACTGATCTTGTTCCTTAGGGTGCATTATCCTCGAACATTTTATTG
455 ATTGTACATACAAAAAACCAACTGATCTTGTTCCTTAGGGTGCGTTATCCTCGAACATTTTATTG
*
9753619 AATTTTTATTATTGGCCTTAAGAAATAGTTTAAAAAACATTCAATATTTAGGTAAGACTTTTAAA
520 AATTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTAGGTAAGACTTTTAAA
9753684 TATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATCATTCCTTGTTTCAAGCT
585 TATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATCATTCCTTGTTTCAAGCT
*
9753749 GGCATGAAAAATAATGTTCAAAC-AAAAATGCATGATATGCAAGTCAAATTTTATTATTGTTGAA
650 GGCATGAAAAACAATGTTCAAACAAAAAATGCATGATATGCAAGTCAAATTTTATTATTGTTGAA
9753813 AATGAACTTAAATCCCCCTTCTATATTCAAGCCGAGTTATTTAAGGATACTCTTTTCGGCTCAAA
715 AATGAACTTAAATCCCCCTTCTATATTCAAGCCGAGTTATTTAAGGATACTCTTTTCGGCTCAAA
*
9753878 AGTTTGATGAACGTATATTCATAACCATCATCCTTTTTCATAAGCTCATTTAAGCATACTTTTAA
780 AGTTTGATGAACGTATATTCACAACCATCATCCTTTTTCATAAGCTCATTTAAGCATACTTTTAA
9753943 GATATATTCATT
845 GATATATTCATT
9753955 TATAGATAATT
1 TATAGATAATT
9753966 CAAGTCAAAA
Statistics
Matches: 3283, Mismatches: 141, Indels: 32
0.95 0.04 0.01
Matches are distributed among these distances:
854 3 0.00
855 1827 0.56
856 1193 0.36
857 25 0.01
867 1 0.00
869 4 0.00
871 4 0.00
872 226 0.07
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (856 bp):
TATAGATAATTGCCCTTCATTTCAATGTTTCTTGTGTACTCAAATACCTCTTTTAATTTCTCTTA
TTCTTTAGGATCATTAAGATTTGGCACAGTAATAGAGACAAAAGACATGGATCCAAGATTGACGT
TCATCTGGATAGGCGATGGCTTTACAAAAATACTAACATATTATTGATAAATGGTCGATAATGCT
TGAGTAACATAAGGTTAAGGATATGTGAACCTTGCATACACTGCTGGTTTTTCTACTGCTGTCTC
TTCCCTTACCTCATGCATCTCGACAACCCTTTTTCCTTTAGACAATCCTACTAATATTTATTTCT
ATTTCACAAACTGTTTGTCTATATTCCGTTGCATCCCTGCAACTGTTTCTTTAATTTCTTCATAG
GCCCTTCCATCCTATTAATTCGGCTAGCATTTTCATTCTCTATGATCCTTAAGTGAGCTCATGTA
TTGTACATACAAAAAACCAACTGATCTTGTTCCTTAGGGTGCGTTATCCTCGAACATTTTATTGA
ATTTTTATTATTGGCCTTAAGAAATAATTTAAAAAACATTCAATATTTAGGTAAGACTTTTAAAT
ATATCTCATTGCTTTGAAGGTTTAATGAAAGTATACTTACAACTATCATTCCTTGTTTCAAGCTG
GCATGAAAAACAATGTTCAAACAAAAAATGCATGATATGCAAGTCAAATTTTATTATTGTTGAAA
ATGAACTTAAATCCCCCTTCTATATTCAAGCCGAGTTATTTAAGGATACTCTTTTCGGCTCAAAA
GTTTGATGAACGTATATTCACAACCATCATCCTTTTTCATAAGCTCATTTAAGCATACTTTTAAG
ATATATTCATT
Found at i:9759860 original size:2 final size:2
Alignment explanation
Indices: 9759853--9759881 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9759843 TGTGGTGTTG
9759853 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9759882 GTTTACGTCT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9762364 original size:42 final size:43
Alignment explanation
Indices: 9762317--9762401 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
9762307 AAAGCAATAG
* **
9762317 TTTACT-ATTTGCATAAAGGAGTAATAAAAAAAATCATAAAAA
1 TTTACTGATTTACATAAAGGACAAATAAAAAAAATCATAAAAA
* * *
9762359 TTTACTGTTTTACATAAAGGACAAATAAGAAAAGTCATAAAAA
1 TTTACTGATTTACATAAAGGACAAATAAAAAAAATCATAAAAA
9762402 CAAACTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 6 0.17
43 30 0.83
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (43 bp):
TTTACTGATTTACATAAAGGACAAATAAAAAAAATCATAAAAA
Found at i:9771176 original size:16 final size:16
Alignment explanation
Indices: 9771151--9771185 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9771141 ATACATGCTC
*
9771151 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
*
9771167 ATACCGATTGTTAAAG
1 ATACCAATTGTTAAAG
9771183 ATA
1 ATA
9771186 TATTATCGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:9778851 original size:19 final size:19
Alignment explanation
Indices: 9778827--9778863 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9778817 GTAGTTTTTT
*
9778827 AAAAAATATTATAGCTAAA
1 AAAAAATATCATAGCTAAA
9778846 AAAAAATATCATAGCTAA
1 AAAAAATATCATAGCTAA
9778864 TTTGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAAAATATCATAGCTAAA
Found at i:9779712 original size:231 final size:232
Alignment explanation
Indices: 9779085--9779769 Score: 856
Period size: 231 Copynumber: 2.9 Consensus size: 232
9779075 TTTTGATATT
* *
9779085 TTTATATATTTTTTTCACATTTCCTTTGTAAAATATATTTAAAAGCT-AAAATAATACAATAATT
1 TTTATATATTTTTTTCACATTTCATTTGTAAAATATATTTAAAAGCTGAAAATAATATAATAATT
* * *
9779149 ATTTATAAAAAATATTAAAGATATTAAATAATATTTTTTAAAGTTGT-AAAAATTTAAATACTCA
66 ATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAAGTTGTGATAAATTTAAATATTCA
* * * * **
9779213 TGTTAACTGTAGATAAATTAAAAAAAATAAATTAATTTAAAATTGATTTTAAATTGAGATGATAT
131 TGTTAACTATAGATAAATTAAAAAAGATAAATTACTTTAAAATTGGTTTTAAATTGAGATGAGGT
* * * * *
9779278 GATATACAGGAAAAACTTGATGTACAAGAGAAACTTTCTTGAAGTTGTTTTGGTA
196 GATAT---------A--T-A-G-----GAAAAACTTTCTTGAAATTATTCTAGTA
* *
9779333 TTTATATATTTTTTTCACATTTCATTTGTAAAATATATTTAAAAGCTGAACATAATATAAAAATT
1 TTTATATATTTTTTTCACATTTCATTTGTAAAATATATTTAAAAGCTGAAAATAATATAATAATT
* * * *
9779398 ATTTATAAAAAATATTAAAGATACTAACTAATATTTTTAATAGTTGTGCTAAATTTAAATATTCA
66 ATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAAGTTGTGATAAATTTAAATATTCA
* * *
9779463 TGTTAACTAAAGATAAATTAGAAAAGATAAATTACTTTAAAGTTGGTTTTAAATTGAGATGAGGT
131 TGTTAACTATAGATAAATTAAAAAAGATAAATTACTTTAAAATTGGTTTTAAATTGAGATGAGGT
9779528 GATATATAGGAAAAACTTTCTTGAAATTATTCTAGTA
196 GATATATAGGAAAAACTTTCTTGAAATTATTCTAGTA
* * * * * *
9779565 TTTATATA-TTTTTTCATATTTCTTTTGTGAAATATATTTAAAAACTGAAGATAA-AGTAATGAT
1 TTTATATATTTTTTTCACATTTCATTTGTAAAATATATTTAAAAGCTGAAAATAATA-TAATAAT
9779628 TATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAAGTTGTGATAAATTTAAATATTC
65 TATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAAGTTGTGATAAATTTAAATATTC
* *
9779693 ATGTTAATTCTAGATAAATTAAAAAAGATAAATTACTTTAAAATTGGTTTTAAATTGAGATGAGG
130 ATGTTAACTATAGATAAATTAAAAAAGATAAATTACTTTAAAATTGGTTTTAAATTGAGATGAGG
* *
9779758 TAATGTATAGGA
195 TGATATATAGGA
9779770 GAAAGAAATT
Statistics
Matches: 391, Mismatches: 43, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
230 1 0.00
231 177 0.45
232 31 0.08
237 1 0.00
238 1 0.00
239 1 0.00
241 1 0.00
248 46 0.12
249 57 0.15
250 75 0.19
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (232 bp):
TTTATATATTTTTTTCACATTTCATTTGTAAAATATATTTAAAAGCTGAAAATAATATAATAATT
ATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAAGTTGTGATAAATTTAAATATTCA
TGTTAACTATAGATAAATTAAAAAAGATAAATTACTTTAAAATTGGTTTTAAATTGAGATGAGGT
GATATATAGGAAAAACTTTCTTGAAATTATTCTAGTA
Found at i:9780008 original size:2 final size:2
Alignment explanation
Indices: 9779996--9780038 Score: 61
Period size: 2 Copynumber: 21.5 Consensus size: 2
9779986 GTATATTGAA
*
9779996 AT AT A- AT AT AT AT GAT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9780038 A
1 A
9780039 CGATGTCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9782126 original size:24 final size:25
Alignment explanation
Indices: 9782069--9782137 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
9782059 TAAATAATTA
*
9782069 TAAAAAT--AAATAACA-AAAATAC
1 TAAAAATAAAAATAAAATAAAATAC
9782091 TAAAAA-AGAAAATAAAATAAAAT-C
1 TAAAAATA-AAAATAAAATAAAATAC
*
9782115 TAAAAATAAAAAGAAAATGAAAA
1 TAAAAATAAAAATAAAAT-AAAA
9782138 AGAGAACTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 6 0.15
24 23 0.59
25 10 0.26
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (25 bp):
TAAAAATAAAAATAAAATAAAATAC
Found at i:9783549 original size:33 final size:33
Alignment explanation
Indices: 9783466--9783587 Score: 111
Period size: 33 Copynumber: 3.7 Consensus size: 33
9783456 CTATATTAAT
*
9783466 TAGAGGTAATTAAACTTTAAAAAGCTCCTATAAC
1 TAGAGGCAATTAAACTTTAAAAA-CTCCTATAAC
** * **
9783500 T-GAGGTTAGTGCACTTTAAAAACTCCTATAAC
1 TAGAGGCAATTAAACTTTAAAAACTCCTATAAC
* * *
9783532 TAGAGGCAATTAAACTTTTAAAAACTCTTCTGAC
1 TAGAGGCAATTAAAC-TTTAAAAACTCCTATAAC
* * *
9783566 TAAAGGCGATGAAACTTTAAAA
1 TAGAGGCAATTAAACTTTAAAA
9783588 GAACTTCTCT
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
32 11 0.15
33 32 0.45
34 28 0.39
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (33 bp):
TAGAGGCAATTAAACTTTAAAAACTCCTATAAC
Found at i:9783581 original size:34 final size:33
Alignment explanation
Indices: 9783477--9783587 Score: 91
Period size: 34 Copynumber: 3.3 Consensus size: 33
9783467 AGAGGTAATT
* * *
9783477 AAACTTTAAAAAGCTCCTATAACT-GAGGTTAGTG
1 AAACTTTAAAAA-CTCCTATAACTAAAGG-CAATG
* * *
9783511 -CACTTTAAAAACTCCTATAACTAGAGGCAATT
1 AAACTTTAAAAACTCCTATAACTAAAGGCAATG
* * * *
9783543 AAACTTTTAAAAACTCTTCTGACTAAAGGCGATG
1 AAAC-TTTAAAAACTCCTATAACTAAAGGCAATG
9783577 AAACTTTAAAA
1 AAACTTTAAAA
9783588 GAACTTCTCT
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
32 13 0.21
33 23 0.37
34 27 0.43
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (33 bp):
AAACTTTAAAAACTCCTATAACTAAAGGCAATG
Found at i:9784346 original size:33 final size:34
Alignment explanation
Indices: 9784273--9784382 Score: 86
Period size: 33 Copynumber: 3.3 Consensus size: 34
9784263 GGTTCTTAAA
* * **
9784273 TTTAAAAACTC-CTCTAA-CAGGAGGCTATGTTAC
1 TTTAAAAACTCTCTCTAACCA-AAGGATATGAAAC
* *
9784306 TTGAAAAACTCT-TCTAACCAGA-GATAATGAAAC
1 TTTAAAAACTCTCTCTAACCAAAGGAT-ATGAAAC
* * *
9784339 TTTAAAAA-TTTCTCTAACCAAAGGCTATGATAC
1 TTTAAAAACTCTCTCTAACCAAAGGATATGAAAC
9784372 TTTAAAAACTC
1 TTTAAAAACTC
9784383 ATCCAACTAG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
32 4 0.07
33 52 0.85
34 5 0.08
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (34 bp):
TTTAAAAACTCTCTCTAACCAAAGGATATGAAAC
Found at i:9784541 original size:33 final size:33
Alignment explanation
Indices: 9784431--9784856 Score: 282
Period size: 33 Copynumber: 13.0 Consensus size: 33
9784421 AACTAGACGT
*
9784431 AATGAGATTTGAGAA-ATT-TCTCTAACCAAAGGC
1 AATGAGATTTGA-AAGATTCT-TCTAACCAGAGGC
* *
9784464 AATG-GCATTTGAAAGATTCCTT-TAACTATG-GGT
1 AATGAG-ATTTGAAAGATT-CTTCTAACCA-GAGGC
* * * *
9784497 GAT-AGGCTTTGAAAGATTCTTGTAACCAAAGGC
1 AATGA-GATTTGAAAGATTCTTCTAACCAGAGGC
* ** * *
9784530 AATGAGATTTGAAAGATTCTTGTAAATAAAGGT
1 AATGAGATTTGAAAGATTCTTCTAACCAGAGGC
* *
9784563 AGTGAGATTTGAAAGATTCTTCTAACGAGAGGC
1 AATGAGATTTGAAAGATTCTTCTAACCAGAGGC
* ** * * *
9784596 CACAAGATTTTG-AATATTCCTCTAAACAGAGGC
1 AATGAGA-TTTGAAAGATTCTTCTAACCAGAGGC
* * *
9784629 AATAAGATTTGAGAGATTCCTCTAACCAGAGGC
1 AATGAGATTTGAAAGATTCTTCTAACCAGAGGC
* * * * *
9784662 AATGAGATCTGGAATATTCTTTTAGCCAGAGGC
1 AATGAGATTTGAAAGATTCTTCTAACCAGAGGC
* * * *
9784695 AATAAGATTTGAAAGATTCTTCTAATCAAAGGT
1 AATGAGATTTGAAAGATTCTTCTAACCAGAGGC
* ** *
9784728 GATG-GTATTTGAAAGATTCCTT-TAAATAGAGGT
1 AATGAG-ATTTGAAAGATT-CTTCTAACCAGAGGC
* *
9784761 AATAAGATTTGAAAAATTCTTCTAACCAGAGGC
1 AATGAGATTTGAAAGATTCTTCTAACCAGAGGC
* * * *
9784794 CATGAGATTTGATAGATTCCTCTAA--AGAGGT
1 AATGAGATTTGAAAGATTCTTCTAACCAGAGGC
* *
9784825 AATGAGATTTAAAAAATTCCTT-TAACCAGAGG
1 AATGAGATTTGAAAGATT-CTTCTAACCAGAGG
9784857 TGATGGAATT
Statistics
Matches: 303, Mismatches: 71, Indels: 38
0.74 0.17 0.09
Matches are distributed among these distances:
31 22 0.07
32 16 0.05
33 253 0.83
34 11 0.04
35 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (33 bp):
AATGAGATTTGAAAGATTCTTCTAACCAGAGGC
Found at i:9784574 original size:66 final size:65
Alignment explanation
Indices: 9784411--9784852 Score: 326
Period size: 66 Copynumber: 6.7 Consensus size: 65
9784401 CAATTTTAAG
* * *
9784411 AGATTCCTTTAACTAGACGTAATGAGATTTGAGAA-ATT-TCTCTAACCAAAGGCAATG-GCATT
1 AGATT-CTTTAAATAGAGGTAATAAGATTTGA-AAGATTCT-TCTAACCAAAGGCAATGAG-ATT
9784473 TGAA
62 TGAA
* * * * *
9784477 AGATTCCTTTAACTATG-GGTGATAGGCTTTGAAAGATTCTTGTAACCAAAGGCAATGAGATTTG
1 AGATT-CTTTAAATA-GAGGTAATAAGATTTGAAAGATTCTTCTAACCAAAGGCAATGAGATTTG
9784541 AA
64 AA
* * * * * * **
9784543 AGATTCTTGTAAATAAAGGTAGTGAGATTTGAAAGATTCTTCTAACGAGAGGCCACAAGATTTTG
1 AGATTCTT-TAAATAGAGGTAATAAGATTTGAAAGATTCTTCTAACCAAAGGCAATGAGA-TTTG
9784608 -A
64 AA
* * * * * * * * *
9784609 ATATTCCTCTAAACAGAGGCAATAAGATTTGAGAGATTCCTCTAACCAGAGGCAATGAGATCTGG
1 AGATT-CTTTAAATAGAGGTAATAAGATTTGAAAGATTCTTCTAACCAAAGGCAATGAGATTTGA
9784674 A
65 A
* *** * * **
9784675 ATATTCTTTTAGCCAGAGGCAATAAGATTTGAAAGATTCTTCTAATCAAAGGTGATG-GTATTTG
1 AGATTC-TTTAAATAGAGGTAATAAGATTTGAAAGATTCTTCTAACCAAAGGCAATGAG-ATTTG
9784739 AA
64 AA
* * *
9784741 AGATTCCTTTAAATAGAGGTAATAAGATTTGAAAAATTCTTCTAACCAGAGGCCATGAGATTTGA
1 AGATT-CTTTAAATAGAGGTAATAAGATTTGAAAGATTCTTCTAACCAAAGGCAATGAGATTTGA
*
9784806 T
65 A
* * * *
9784807 AGATTCCTCT-AA-AGAGGTAATGAGATTTAAAAAATTCCTT-TAACCA
1 AGATT-CTTTAAATAGAGGTAATAAGATTTGAAAGATT-CTTCTAACCA
9784853 GAGGTGATGG
Statistics
Matches: 304, Mismatches: 58, Indels: 30
0.78 0.15 0.08
Matches are distributed among these distances:
64 28 0.09
65 15 0.05
66 250 0.82
67 11 0.04
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (65 bp):
AGATTCTTTAAATAGAGGTAATAAGATTTGAAAGATTCTTCTAACCAAAGGCAATGAGATTTGAA
Found at i:9793237 original size:18 final size:19
Alignment explanation
Indices: 9793203--9793238 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9793193 ATTTTCAATT
*
9793203 TTTATATCATAATTTTTAG
1 TTTATATAATAATTTTTAG
9793222 TTTATATAAT-ATTTTTA
1 TTTATATAATAATTTTTA
9793239 TAAAGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTATATAATAATTTTTAG
Found at i:9804343 original size:6 final size:6
Alignment explanation
Indices: 9804320--9804393 Score: 58
Period size: 6 Copynumber: 12.2 Consensus size: 6
9804310 AAGGCCCAAA
* * * ** * *
9804320 AATTTT AATTTC GATTTT AGTTTT AATTTT GGTTTT AATTTT AGTCTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
**
9804368 AATTTT AATTTT GGTTTTT AATTTT A
1 AATTTT AATTTT -AATTTT AATTTT A
9804394 GTCGTATTAT
Statistics
Matches: 49, Mismatches: 18, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
6 45 0.92
7 4 0.08
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:9804385 original size:12 final size:12
Alignment explanation
Indices: 9804333--9804379 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
9804323 TTTAATTTCG
9804333 ATTTTAGTTTTA
1 ATTTTAGTTTTA
*
9804345 ATTTTGGTTTTA
1 ATTTTAGTTTTA
*
9804357 ATTTTAGTCTTA
1 ATTTTAGTTTTA
*
9804369 ATTTTAATTTT
1 ATTTTAGTTTT
9804380 GGTTTTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (12 bp):
ATTTTAGTTTTA
Found at i:9804385 original size:24 final size:24
Alignment explanation
Indices: 9804320--9804385 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
9804310 AAGGCCCAAA
* *
9804320 AATTTTAATTTCGATTTTAGTTTT
1 AATTTTAATTTTGATTTTAGTCTT
** *
9804344 AATTTTGGTTTTAATTTTAGTCTT
1 AATTTTAATTTTGATTTTAGTCTT
*
9804368 AATTTTAATTTTGGTTTT
1 AATTTTAATTTTGATTTT
9804386 TAATTTTAGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.64
Consensus pattern (24 bp):
AATTTTAATTTTGATTTTAGTCTT
Found at i:9807714 original size:15 final size:14
Alignment explanation
Indices: 9807688--9807717 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
9807678 ACTTATATAT
9807688 ATATTTTTATTTTA
1 ATATTTTTATTTTA
9807702 ATATTTATTATTTTA
1 ATATTT-TTATTTTA
9807717 A
1 A
9807718 ATGGTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATATTTTTATTTTA
Found at i:9807963 original size:15 final size:16
Alignment explanation
Indices: 9807935--9807965 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9807925 GCATGATAAT
9807935 TATTATTATTGCATGA
1 TATTATTATTGCATGA
9807951 TATTATT-TTGCATGA
1 TATTATTATTGCATGA
9807966 CAATTTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (16 bp):
TATTATTATTGCATGA
Found at i:9814086 original size:22 final size:22
Alignment explanation
Indices: 9814026--9814155 Score: 91
Period size: 22 Copynumber: 5.8 Consensus size: 22
9814016 CTTTTGAAAC
*
9814026 TTTGGATGTGAATCTCTAAAAT
1 TTTGGATGTGAATCTTTAAAAT
* *
9814048 TTATCGAATGTAAATCTTTAAAAT
1 TT-T-GGATGTGAATCTTTAAAAT
* *
9814072 TTTGGATGTGGATCTTTAAATT
1 TTTGGATGTGAATCTTTAAAAT
** ** *
9814094 TTTCAAATGAAAATCTTT-AACT
1 TTT-GGATGTGAATCTTTAAAAT
* *
9814116 TTTGGGTGTGAATCTCTAAAATT
1 TTTGGATGTGAATCTTTAAAA-T
* *
9814139 TTTGAATGTAAATCTTT
1 TTTGGATGTGAATCTTT
9814156 CAATTCTGGA
Statistics
Matches: 79, Mismatches: 24, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
21 8 0.10
22 28 0.35
23 25 0.32
24 18 0.23
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (22 bp):
TTTGGATGTGAATCTTTAAAAT
Found at i:9814108 original size:45 final size:45
Alignment explanation
Indices: 9814026--9814169 Score: 177
Period size: 44 Copynumber: 3.2 Consensus size: 45
9814016 CTTTTGAAAC
*
9814026 TTTGGATGTGAATCTCTAAAATTTATCGAATGTAAATCTTTAAAAT
1 TTTGGATGTGAATCTCTAAAATTTTTCGAATGTAAATCTTT-AAAT
* * * * *
9814072 TTTGGATGTGGATCT-TTAAATTTTTCAAATGAAAATCTTTAACT
1 TTTGGATGTGAATCTCTAAAATTTTTCGAATGTAAATCTTTAAAT
* *
9814116 TTTGGGTGTGAATCTCTAAAATTTTT-GAATGTAAATCTTTCAAT
1 TTTGGATGTGAATCTCTAAAATTTTTCGAATGTAAATCTTTAAAT
*
9814160 TCTGGA-GTGA
1 TTTGGATGTGA
9814170 GCCTTGAAAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
43 4 0.05
44 34 0.41
45 30 0.37
46 14 0.17
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (45 bp):
TTTGGATGTGAATCTCTAAAATTTTTCGAATGTAAATCTTTAAAT
Found at i:9814152 original size:23 final size:22
Alignment explanation
Indices: 9814026--9814154 Score: 73
Period size: 23 Copynumber: 5.7 Consensus size: 22
9814016 CTTTTGAAAC
* *
9814026 TTTGGATGTGAATCTCTAAAATT
1 TTTGAATGTAAATCT-TAAAATT
*
9814049 TATCGAATGTAAATCTTTAAAA-T
1 T-TTGAATGTAAATC-TTAAAATT
* ** *
9814072 TTTGGATGTGGATCTTTAAATT
1 TTTGAATGTAAATCTTAAAATT
* * * *
9814094 TTTCAAATGAAAATCTT-TAACT
1 TTT-GAATGTAAATCTTAAAATT
** *
9814116 TTTGGGTGTGAATCTCTAAAATT
1 TTTGAATGTAAATCT-TAAAATT
9814139 TTTGAATGTAAATCTT
1 TTTGAATGTAAATCTT
9814155 TCAATTCTGG
Statistics
Matches: 75, Mismatches: 25, Indels: 13
0.66 0.22 0.12
Matches are distributed among these distances:
21 12 0.16
22 21 0.28
23 26 0.35
24 15 0.20
25 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.44
Consensus pattern (22 bp):
TTTGAATGTAAATCTTAAAATT
Found at i:9814153 original size:44 final size:45
Alignment explanation
Indices: 9813931--9814155 Score: 171
Period size: 44 Copynumber: 5.1 Consensus size: 45
9813921 AAATTTGATT
* * * *
9813931 TTTAAAATTTTGGATATGAAACCCTAAAATTTTTTGAATG---GTC
1 TTTAAAATTTTGGATGTGAATCTCTAAAA-TTTTTGAATGTAAATC
* * * * *
9813974 TTTAAAATTTTGGAT-TCAAGC-CAAAAAGTTTTTGAA--AAAGAAC
1 TTTAAAATTTTGGATGTGAATCTCTAAAA-TTTTTGAATGTAA-ATC
* * *
9814017 TTTTGAAACTTTGGATGTGAATCTCTAAAATTTATCGAATGTAAATC
1 -TTTAAAATTTTGGATGTGAATCTCTAAAATTT-TTGAATGTAAATC
* * * *
9814064 TTTAAAATTTTGGATGTGGATCT-TTAAATTTTTCAAATGAAAATC
1 TTTAAAATTTTGGATGTGAATCTCTAAAATTTTT-GAATGTAAATC
* *
9814109 TTT-AACTTTTGGGTGTGAATCTCTAAAATTTTTGAATGTAAATC
1 TTTAAAATTTTGGATGTGAATCTCTAAAATTTTTGAATGTAAATC
9814153 TTT
1 TTT
9814156 CAATTCTGGA
Statistics
Matches: 143, Mismatches: 27, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
41 13 0.09
42 4 0.03
43 16 0.11
44 42 0.29
45 35 0.24
46 29 0.20
47 2 0.01
48 2 0.01
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (45 bp):
TTTAAAATTTTGGATGTGAATCTCTAAAATTTTTGAATGTAAATC
Found at i:9814304 original size:17 final size:17
Alignment explanation
Indices: 9814282--9814314 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9814272 TACAATGACA
*
9814282 AAAATTCTTATGAATCC
1 AAAATTCTTACGAATCC
9814299 AAAATTCTTACGAATC
1 AAAATTCTTACGAATC
9814315 TTTGAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAATTCTTACGAATCC
Found at i:9814339 original size:18 final size:18
Alignment explanation
Indices: 9814311--9814371 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
9814301 AATTCTTACG
9814311 AATCTTTGAAATTTTTGCA
1 AATC-TTGAAATTTTTGCA
9814330 AATCTTGAAATTTTTGCA
1 AATCTTGAAATTTTTGCA
9814348 AAT-TTGAAAATTTCTTGCA
1 AATCTTG-AAATTT-TTGCA
9814367 AATCT
1 AATCT
9814372 AAAAATTCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.08
18 23 0.59
19 12 0.31
20 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (18 bp):
AATCTTGAAATTTTTGCA
Found at i:9814341 original size:37 final size:37
Alignment explanation
Indices: 9814299--9814380 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
9814289 TTATGAATCC
* *
9814299 AAAATTCTTACGAATCTTTG-AAATTT-TTGCAAATCTT
1 AAAATTCTTAC-AA-ATTTGAAAATTTCTTGCAAATCTA
* * *
9814336 GAAATTTTTGCAAATTTGAAAATTTCTTGCAAATCTA
1 AAAATTCTTACAAATTTGAAAATTTCTTGCAAATCTA
9814373 AAAATTCT
1 AAAATTCT
9814381 AGCGAAACTG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
35 4 0.11
36 8 0.22
37 24 0.67
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (37 bp):
AAAATTCTTACAAATTTGAAAATTTCTTGCAAATCTA
Found at i:9814376 original size:19 final size:18
Alignment explanation
Indices: 9814319--9814378 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
9814309 CGAATCTTTG
**
9814319 AAATTTTTGCAAATCTTG
1 AAATTTTTGCAAATCTAA
* *
9814337 AAATTTTTGCAAATTTGA
1 AAATTTTTGCAAATCTAA
9814355 AAATTTCTTGCAAATCTAA
1 AAATTT-TTGCAAATCTAA
9814374 AAATT
1 AAATT
9814379 CTAGCGAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
18 21 0.58
19 15 0.42
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (18 bp):
AAATTTTTGCAAATCTAA
Found at i:9814408 original size:17 final size:17
Alignment explanation
Indices: 9814384--9814424 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
9814374 AAATTCTAGC
9814384 GAAACTGAAATTCTTAT
1 GAAACTGAAATTCTTAT
* *
9814401 GAACCTG-AATTCTTGT
1 GAAACTGAAATTCTTAT
9814417 GAAACTGA
1 GAAACTGA
9814425 GTTTTTGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (17 bp):
GAAACTGAAATTCTTAT
Found at i:9814994 original size:42 final size:43
Alignment explanation
Indices: 9814908--9815017 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 43
9814898 GTTCTTAACA
9814908 TTGTTTAGCCTCTATATAGAGGAGCTAATTTCTTAATTTAAAG
1 TTGTTTAGCCTCTATATAGAGGAGCTAATTTCTTAATTTAAAG
* *
9814951 TTGTTTAGCCTCTGTATAGAGGAG-TCATTTCTTAATTTAAAG
1 TTGTTTAGCCTCTATATAGAGGAGCTAATTTCTTAATTTAAAG
* * * *
9814993 TTGTTGAGCTTTTATTTAGAGGAGC
1 TTGTTTAGCCTCTATATAGAGGAGC
9815018 CCATTTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 36 0.61
43 23 0.39
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (43 bp):
TTGTTTAGCCTCTATATAGAGGAGCTAATTTCTTAATTTAAAG
Found at i:9815278 original size:6 final size:6
Alignment explanation
Indices: 9815255--9815326 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
9815245 AAAGCCCAAA
* * **
9815255 AATTTT AATTTC AATTTT AGTTTT AATTTT GGTTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
** *
9815303 GGTTTTT AATTTT AGTTTT -ATTTT
1 -AATTTT AATTTT AATTTT AATTTT
9815327 TTTAGTAAAA
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
5 4 0.08
6 43 0.84
7 4 0.08
ACGTcount: A:0.24, C:0.01, G:0.08, T:0.67
Consensus pattern (6 bp):
AATTTT
Found at i:9815290 original size:18 final size:18
Alignment explanation
Indices: 9815255--9815321 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
9815245 AAAGCCCAAA
***
9815255 AATTTTAATTTCAATTTT
1 AATTTTAATTTTGGTTTT
*
9815273 AGTTTTAATTTTGGTTTT
1 AATTTTAATTTTGGTTTT
9815291 AATTTTAATTTTGGTTTTT
1 AATTTTAATTTTGG-TTTT
*
9815310 AATTTTAGTTTT
1 AATTTTAATTTT
9815322 ATTTTTTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
18 27 0.64
19 15 0.36
ACGTcount: A:0.24, C:0.01, G:0.09, T:0.66
Consensus pattern (18 bp):
AATTTTAATTTTGGTTTT
Found at i:9816315 original size:14 final size:13
Alignment explanation
Indices: 9816298--9816329 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
9816288 TTCTTTTTTT
9816298 TTTTTTTGCTTTGA
1 TTTTTTTG-TTTGA
9816312 TTTTTTTGTTTGA
1 TTTTTTTGTTTGA
9816325 TTTTT
1 TTTTT
9816330 ATTTTCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.06, C:0.03, G:0.12, T:0.78
Consensus pattern (13 bp):
TTTTTTTGTTTGA
Found at i:9816341 original size:14 final size:13
Alignment explanation
Indices: 9816311--9816403 Score: 57
Period size: 13 Copynumber: 6.8 Consensus size: 13
9816301 TTTTGCTTTG
*
9816311 ATTTTT-TTGTTTG
1 ATTTTTATT-TTTT
9816324 ATTTTTATTTTCTT
1 ATTTTTATTTT-TT
9816338 A-TTTTATTTTTT
1 ATTTTTATTTTTT
*
9816350 -TGTTTTGTTTTTT
1 AT-TTTTATTTTTT
*
9816363 ATATATTATTTTTAT
1 AT-TTTTATTTTT-T
* *
9816378 ATTTATATTTTAAT
1 ATTTTTATTTT-TT
9816392 ATTTATTATTTT
1 ATTT-TTATTTT
9816404 AAATGGTTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
12 2 0.03
13 27 0.43
14 25 0.40
15 9 0.14
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:9816342 original size:13 final size:12
Alignment explanation
Indices: 9816326--9816388 Score: 54
Period size: 14 Copynumber: 4.8 Consensus size: 12
9816316 TTTGTTTGAT
9816326 TTTTATTTTCTTA
1 TTTTATTTT-TTA
*
9816339 TTTTATTTTTTTG
1 TTTTA-TTTTTTA
*
9816352 TTTTGTTTTTTA
1 TTTTATTTTTTA
9816364 TATATTATTTTTATA
1 T-T-TTATTTTT-TA
9816379 TTTATATTTT
1 TTT-TATTTT
9816389 AATATTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
12 7 0.17
13 13 0.32
14 18 0.44
15 3 0.07
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:9816372 original size:32 final size:32
Alignment explanation
Indices: 9816311--9816374 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
9816301 TTTTGCTTTG
* *
9816311 ATTTTTTTGTTTGATTTTTATTTTCTTATTTT
1 ATTTTTTTGTTTGATTTTTATTATATTATTTT
*
9816343 ATTTTTTTGTTTTGTTTTTTA-TATATTATTTT
1 ATTTTTTTG-TTTGATTTTTATTATATTATTTT
9816375 TATATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (32 bp):
ATTTTTTTGTTTGATTTTTATTATATTATTTT
Found at i:9816374 original size:46 final size:45
Alignment explanation
Indices: 9816286--9816377 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 45
9816276 TTTCACAGGG
* *
9816286 TTTTCTTTTTTTTTTTTTTGCTTTGATTTTTTTGTTTGATTTTTA
1 TTTTCTTTTTTATTTTTTTGCTTTGATTTTTTTATTTGATTTTTA
*
9816331 TTTTCTTATTTTATTTTTTTGTTTTG-TTTTTTATATATT-ATTTTTA
1 TTTTCTT-TTTTATTTTTTTGCTTTGATTTTTT-TAT-TTGATTTTTA
9816377 T
1 T
9816378 ATTTATATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 13 0.32
46 26 0.63
47 2 0.05
ACGTcount: A:0.11, C:0.03, G:0.07, T:0.79
Consensus pattern (45 bp):
TTTTCTTTTTTATTTTTTTGCTTTGATTTTTTTATTTGATTTTTA
Found at i:9816375 original size:15 final size:15
Alignment explanation
Indices: 9816357--9816403 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
9816347 TTTTGTTTTG
*
9816357 TTTTT-TATATATTA
1 TTTTTATATTTATTA
9816371 TTTTTATATTTA-TA
1 TTTTTATATTTATTA
*
9816385 TTTTAATATTTATTA
1 TTTTTATATTTATTA
9816400 TTTT
1 TTTT
9816404 AAATGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTATATTTATTA
Found at i:9816387 original size:46 final size:46
Alignment explanation
Indices: 9816293--9816389 Score: 110
Period size: 46 Copynumber: 2.1 Consensus size: 46
9816283 GGGTTTTCTT
* * *
9816293 TTTTTTTTTTTTGCTTTGATTTTTTTGTTTGATTTTTATTTTCTTA
1 TTTTATTTTTTTGCTTTGATTTTTTTATTTGATTTTTATTTTCATA
*
9816339 TTTTATTTTTTTGTTTTG-TTTTTTATATATT-ATTTTTATATTT-ATA
1 TTTTATTTTTTTGCTTTGATTTTTT-TAT-TTGATTTTTAT-TTTCATA
9816385 TTTTA
1 TTTTA
9816390 ATATTTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
45 6 0.14
46 33 0.75
47 5 0.11
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.77
Consensus pattern (46 bp):
TTTTATTTTTTTGCTTTGATTTTTTTATTTGATTTTTATTTTCATA
Found at i:9820362 original size:9 final size:8
Alignment explanation
Indices: 9820328--9820373 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
9820318 GGTTTTTCTT
9820328 TTTTTTCC
1 TTTTTTCC
9820336 -TTTTT-C
1 TTTTTTCC
*
9820342 TCTTTTCC
1 TTTTTTCC
9820350 TTTTTTGCC
1 TTTTTT-CC
9820359 TTTTTTTCC
1 -TTTTTTCC
9820368 TTTTTT
1 TTTTTT
9820374 TTTTTTAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
6 1 0.03
7 9 0.28
8 12 0.38
9 4 0.12
10 6 0.19
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTTTCC
Found at i:9820374 original size:9 final size:9
Alignment explanation
Indices: 9820320--9820374 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
9820310 ATTGTTTTGG
*
9820320 TTTTTCTTT
1 TTTTTCCTT
9820329 TTTTTCC--
1 TTTTTCCTT
9820336 TTTTT-C-T
1 TTTTTCCTT
*
9820343 CTTTTCCTT
1 TTTTTCCTT
*
9820352 TTTTGCCTT
1 TTTTTCCTT
9820361 TTTTTCCTT
1 TTTTTCCTT
9820370 TTTTT
1 TTTTT
9820375 TTTTTAGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 1 0.03
7 9 0.24
8 1 0.03
9 27 0.71
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:9820376 original size:23 final size:21
Alignment explanation
Indices: 9820326--9820378 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
9820316 TTGGTTTTTC
9820326 TTTTTTTTCCTTTTTCTCTTT
1 TTTTTTTTCCTTTTTCTCTTT
* *
9820347 TCCTTTTTTGCCTTTTTTTCCTTT
1 T--TTTTTTTCCTTTTTCT-CTTT
9820371 TTTTTTTT
1 TTTTTTTT
9820379 TAGTTTCCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.04
22 6 0.23
23 14 0.54
24 5 0.19
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTTTCCTTTTTCTCTTT
Found at i:9825814 original size:24 final size:25
Alignment explanation
Indices: 9825774--9825820 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
9825764 TTTTACTAAA
*
9825774 AAAAAAATCTATGAAAA-TAAGACT
1 AAAAAAATCTAAGAAAATTAAGACT
9825798 AAAAAAATC-AAGAAAAATTAAGA
1 AAAAAAATCTAAG-AAAATTAAGA
9825821 AAACTTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 13 0.65
25 5 0.25
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.17
Consensus pattern (25 bp):
AAAAAAATCTAAGAAAATTAAGACT
Found at i:9827792 original size:21 final size:21
Alignment explanation
Indices: 9827749--9827793 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9827739 TTTGGAATCT
* *
9827749 AAGAAAATGTAAAATGTAGAA
1 AAGAAAATGCAAAAAGTAGAA
*
9827770 AAGAAAATGCAAATAAGTAAAA
1 AAGAAAATGCAAA-AAGTAGAA
9827792 AA
1 AA
9827794 ACAAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.67, C:0.02, G:0.16, T:0.16
Consensus pattern (21 bp):
AAGAAAATGCAAAAAGTAGAA
Found at i:9835779 original size:13 final size:12
Alignment explanation
Indices: 9835738--9835784 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 12
9835728 TTAGAGAAGT
*
9835738 AGAAAGAAAAAG
1 AGAAAAAAAAAG
* *
9835750 -GAAGAGAAAAG
1 AGAAAAAAAAAG
9835761 AGAAAAAAAAAG
1 AGAAAAAAAAAG
9835773 TAGAAAAAAAAA
1 -AGAAAAAAAAA
9835785 TGAGTATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 8 0.29
12 9 0.32
13 11 0.39
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:9840138 original size:5 final size:5
Alignment explanation
Indices: 9840123--9840280 Score: 106
Period size: 5 Copynumber: 31.8 Consensus size: 5
9840113 CTTTTCATTC
*
9840123 TTTTG -TTTG TTTTG TTTT- TATTTG TTTGGG TTTT- TTTT- TTGTT-
1 TTTTG TTTTG TTTTG TTTTG T-TTTG TTT-TG TTTTG TTTTG TT-TTG
*
9840166 TTTTG TTTT- TTGTT- TTTTG TTTT- TTTATT TTTTG TTTT- TTGTT-
1 TTTTG TTTTG TT-TTG TTTTG TTTTG TTT-TG TTTTG TTTTG TT-TTG
9840209 TTTAT- TTTTG TTTTTG TTTTG TTTTG TTTTG TTTTGG TTTTGG TTTTGG
1 TTT-TG TTTTG -TTTTG TTTTG TTTTG TTTTG TTTT-G TTTT-G TTTT-G
*
9840258 TTTTG TTTT- TTTTT TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTT
9840281 TTTCTTTGTT
Statistics
Matches: 133, Mismatches: 4, Indels: 32
0.79 0.02 0.19
Matches are distributed among these distances:
4 28 0.21
5 75 0.56
6 30 0.23
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.82
Consensus pattern (5 bp):
TTTTG
Found at i:9840157 original size:1 final size:1
Alignment explanation
Indices: 9840153--9840283 Score: 73
Period size: 1 Copynumber: 131.0 Consensus size: 1
9840143 TTTGTTTGGG
* * * * * * * *
9840153 TTTTTTTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTTATTTTTTGTTTTTTGTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * ** ** ** * *
9840218 GTTTTTGTTTTGTTTTGTTTTGTTTTGGTTTTGGTTTTGGTTTTGTTTTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9840283 T
1 T
9840284 CTTTGTTTAG
Statistics
Matches: 94, Mismatches: 36, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 94 1.00
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.84
Consensus pattern (1 bp):
T
Found at i:9840169 original size:7 final size:7
Alignment explanation
Indices: 9840153--9840282 Score: 112
Period size: 7 Copynumber: 18.6 Consensus size: 7
9840143 TTTGTTTGGG
9840153 TTTT-TT
1 TTTTGTT
9840159 TTTTGTT
1 TTTTGTT
9840166 TTTTGTT
1 TTTTGTT
9840173 TTTTGTT
1 TTTTGTT
9840180 TTTTGTTT
1 TTTTG-TT
*
9840188 TTTTATT
1 TTTTGTT
9840195 TTTTGTT
1 TTTTGTT
9840202 TTTTG-T
1 TTTTGTT
*
9840208 TTTT-AT
1 TTTTGTT
9840214 TTTTG-T
1 TTTTGTT
9840220 TTTTGTT
1 TTTTGTT
9840227 TTGTT-TT
1 TT-TTGTT
9840234 GTTTTGTT
1 -TTTTGTT
9840242 TTGGTT-TT
1 TT--TTGTT
*
9840250 GGTTTTG-G
1 --TTTTGTT
9840258 TTTTGTT
1 TTTTGTT
*
9840265 TTTTTTT
1 TTTTGTT
9840272 TTTTGTT
1 TTTTGTT
9840279 TTTT
1 TTTT
9840283 TCTTTGTTTA
Statistics
Matches: 104, Mismatches: 6, Indels: 27
0.76 0.04 0.20
Matches are distributed among these distances:
6 25 0.24
7 59 0.57
8 16 0.15
9 2 0.02
10 2 0.02
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.84
Consensus pattern (7 bp):
TTTTGTT
Found at i:9840703 original size:35 final size:35
Alignment explanation
Indices: 9840624--9840695 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
9840614 ACTATAAGTT
*
9840624 AAAAAATAAAAATGATCGAGATGAAGCCATAATTC
1 AAAAAATAAAAATGATCGAGATGAAGCCACAATTC
* *
9840659 AAAAAATAAAAATGATTGGGACT-AAGCCACAATTC
1 AAAAAATAAAAATGATCGAGA-TGAAGCCACAATTC
9840694 AA
1 AA
9840696 GGAATAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.19
Consensus pattern (35 bp):
AAAAAATAAAAATGATCGAGATGAAGCCACAATTC
Found at i:9841171 original size:23 final size:23
Alignment explanation
Indices: 9841143--9841198 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
9841133 CTTAGGTGTT
* *
9841143 AACTAATCTGGGCTTAAAGTGCC
1 AACTAATCTAGGCTTAAAATGCC
9841166 AACTAATCTAGGCTTAAAATGCC
1 AACTAATCTAGGCTTAAAATGCC
*
9841189 AGCTAATCTA
1 AACTAATCTA
9841199 AGTTTGAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (23 bp):
AACTAATCTAGGCTTAAAATGCC
Found at i:9841762 original size:32 final size:32
Alignment explanation
Indices: 9841718--9841779 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
9841708 AGATGTAAGC
* *
9841718 GATGCAATTGCAAATGTCTTTTTAATGATGTA
1 GATGCAAATGCAAATGTCTTTCTAATGATGTA
*
9841750 GATGCAAATGCAAATGTCTTTCTCATGATG
1 GATGCAAATGCAAATGTCTTTCTAATGATG
9841780 CATATGTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (32 bp):
GATGCAAATGCAAATGTCTTTCTAATGATGTA
Found at i:9847304 original size:16 final size:17
Alignment explanation
Indices: 9847268--9847305 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
9847258 TTTATCTAAT
* *
9847268 TTTTTTCCTTTTTCTTT
1 TTTTTTCCTTTTTATTG
9847285 TTTTTTCC-TTTTATTG
1 TTTTTTCCTTTTTATTG
9847301 TTTTT
1 TTTTT
9847306 CTACCTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTCCTTTTTATTG
Found at i:9847304 original size:17 final size:17
Alignment explanation
Indices: 9847267--9847305 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
9847257 TTTTATCTAA
*
9847267 TTTTTTTCCTTTTTCTT
1 TTTTTTTCCTTTTTCTG
9847284 TTTTTTTCCTTTTAT-TG
1 TTTTTTTCCTTTT-TCTG
9847301 TTTTT
1 TTTTT
9847306 CTACCTGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTCCTTTTTCTG
Found at i:9847810 original size:21 final size:20
Alignment explanation
Indices: 9847762--9847810 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
9847752 TATATGTTTC
*
9847762 TTTTTTTTGTTTTTGATAGT
1 TTTTTTTTGTTTTTGATACT
* *
9847782 TTTGTTTTTGGTTTTTGCTTCT
1 TTT-TTTTT-GTTTTTGATACT
9847804 TTTTTTT
1 TTTTTTT
9847811 AGAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 9 0.38
22 12 0.50
ACGTcount: A:0.04, C:0.04, G:0.14, T:0.78
Consensus pattern (20 bp):
TTTTTTTTGTTTTTGATACT
Found at i:9847924 original size:13 final size:13
Alignment explanation
Indices: 9847893--9847931 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9847883 TTCAAGAAAA
*
9847893 TTTTTTTCTTCTT
1 TTTTTTTCTTTTT
*
9847906 CTTTTTTCTTTTT
1 TTTTTTTCTTTTT
*
9847919 TTTTTTGCTTTTT
1 TTTTTTTCTTTTT
9847932 ATTCGATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:9850087 original size:21 final size:20
Alignment explanation
Indices: 9850044--9850097 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
9850034 TCCTTTCTTA
9850044 TTTAA-TTTTAATTCCAATC
1 TTTAATTTTTAATTCCAATC
* * *
9850063 TTTAATTTTTTAATTCTAGTT
1 TTTAA-TTTTTAATTCCAATC
*
9850084 TTTAATCTTTAATT
1 TTTAATTTTTAATT
9850098 TTTAGAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 8 0.28
21 16 0.55
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAATTTTTAATTCCAATC
Found at i:9850099 original size:14 final size:14
Alignment explanation
Indices: 9850059--9850101 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9850049 TTTTAATTCC
9850059 AATCTTTAATTTTTT
1 AATCTTTAA-TTTTT
* *
9850074 AAT-TCTAGTTTTT
1 AATCTTTAATTTTT
9850087 AATCTTTAATTTTT
1 AATCTTTAATTTTT
9850101 A
1 A
9850102 GAAAATTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 8 0.35
14 12 0.52
15 3 0.13
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (14 bp):
AATCTTTAATTTTT
Found at i:9857792 original size:64 final size:64
Alignment explanation
Indices: 9857696--9857824 Score: 231
Period size: 64 Copynumber: 2.0 Consensus size: 64
9857686 TTTTTAGATC
9857696 TTTGAAAGCCCTTCTTTTTTCCTTCCCCACCATTAAAGGCAGACCCAGATATCTTTCTAGATTA
1 TTTGAAAGCCCTTCTTTTTTCCTTCCCCACCATTAAAGGCAGACCCAGATATCTTTCTAGATTA
* * *
9857760 TTTGAAAGCCCTTCTTTTTTCCTTCCCTACCATTGAAGGCAGACCCGGATATCTTTCTAGATTA
1 TTTGAAAGCCCTTCTTTTTTCCTTCCCCACCATTAAAGGCAGACCCAGATATCTTTCTAGATTA
9857824 T
1 T
9857825 CTGTTTCTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.37
Consensus pattern (64 bp):
TTTGAAAGCCCTTCTTTTTTCCTTCCCCACCATTAAAGGCAGACCCAGATATCTTTCTAGATTA
Found at i:9859793 original size:3 final size:3
Alignment explanation
Indices: 9859787--9859841 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
9859777 TACAATCATC
* *
9859787 ATT ATT ACT ATT -CT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9859834 ATT ATT AT
1 ATT ATT AT
9859842 GCATTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 46 0.98
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9862635 original size:27 final size:27
Alignment explanation
Indices: 9862605--9862665 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
9862595 CCTTTGTTCC
9862605 ATTTTTTCCCTT-TTTTGTGTGTTTTTT
1 ATTTTTTCCCTTGTTTTGT-TGTTTTTT
***
9862632 ATTTTTTTGTTTGTTTTGTTGTTTTTT
1 ATTTTTTCCCTTGTTTTGTTGTTTTTT
*
9862659 TTTTTTT
1 ATTTTTT
9862666 TTTGTTTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.03, C:0.05, G:0.11, T:0.80
Consensus pattern (27 bp):
ATTTTTTCCCTTGTTTTGTTGTTTTTT
Found at i:9862648 original size:17 final size:16
Alignment explanation
Indices: 9862615--9862673 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 16
9862605 ATTTTTTCCC
9862615 TTTTTTGTGTGTTTTTTA
1 TTTTTT-TGT-TTTTTTA
*
9862633 TTTTTTTGTTTGTTT-
1 TTTTTTTGTTTTTTTA
* *
9862648 TGTTGTT-TTTTTTT-
1 TTTTTTTGTTTTTTTA
9862662 TTTTTTTGTTTT
1 TTTTTTTGTTTT
9862674 GCAACATAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 11 0.32
15 9 0.26
16 5 0.15
17 3 0.09
18 6 0.18
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.85
Consensus pattern (16 bp):
TTTTTTTGTTTTTTTA
Found at i:9862648 original size:29 final size:26
Alignment explanation
Indices: 9862616--9862673 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
9862606 TTTTTTCCCT
9862616 TTTTTGTGTGTTTTTTATTTTTTTGTTTG
1 TTTTTGT-TGTTTTTT-TTTTTTT-TTTG
9862645 -TTTTGTTGTTTTTTTTTTTTTTTTG
1 TTTTTGTTGTTTTTTTTTTTTTTTTG
9862670 TTTT
1 TTTT
9862674 GCAACATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.14
26 10 0.36
27 8 0.29
28 6 0.21
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (26 bp):
TTTTTGTTGTTTTTTTTTTTTTTTTG
Found at i:9862656 original size:25 final size:24
Alignment explanation
Indices: 9862624--9862674 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
9862614 CTTTTTTGTG
9862624 TGTTTTTTATTTTTTTGTTTGTTT
1 TGTTTTTTATTTTTTTGTTTGTTT
* *
9862648 TGTTGTTTTTTTTTTTTTTTTGTTT
1 TGTT-TTTTATTTTTTTGTTTGTTT
9862673 TG
1 TG
9862675 CAACATAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (24 bp):
TGTTTTTTATTTTTTTGTTTGTTT
Found at i:9862668 original size:20 final size:20
Alignment explanation
Indices: 9862615--9862673 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
9862605 ATTTTTTCCC
* *
9862615 TTTTTTGTGTGTTTT-TTAT
1 TTTTTTGTTTGTTTTGTTGT
9862634 TTTTTTGTTTGTTTTGTTGT
1 TTTTTTGTTTGTTTTGTTGT
9862654 TTTTTT-TTT-TTTT-TTGT
1 TTTTTTGTTTGTTTTGTTGT
9862671 TTT
1 TTT
9862674 GCAACATAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.19
18 4 0.11
19 17 0.46
20 9 0.24
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.85
Consensus pattern (20 bp):
TTTTTTGTTTGTTTTGTTGT
Found at i:9862751 original size:35 final size:37
Alignment explanation
Indices: 9862711--9862797 Score: 108
Period size: 35 Copynumber: 2.4 Consensus size: 37
9862701 CTACAAGTTG
*
9862711 AAAAAATAAAGATGACTAG-GAAAATACTGCAAGTC-
1 AAAAAATAAAGATGACTAGAGAAAATACCGCAAGTCA
* * *
9862746 AAAAAATAAAGATGA-TCGAGATAATACCGTAAGTCA
1 AAAAAATAAAGATGACTAGAGAAAATACCGCAAGTCA
*
9862782 AAAAAATAAAAATGAC
1 AAAAAATAAAGATGAC
9862798 CGGGATAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
34 2 0.05
35 28 0.64
36 14 0.32
ACGTcount: A:0.57, C:0.10, G:0.15, T:0.17
Consensus pattern (37 bp):
AAAAAATAAAGATGACTAGAGAAAATACCGCAAGTCA
Found at i:9862805 original size:36 final size:36
Alignment explanation
Indices: 9862711--9862832 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
9862701 CTACAAGTTG
* ** * *
9862711 AAAAAATAAAGATGACTAGGAAAATACTGCAAGTC-
1 AAAAAATAAAAATGACCGGGATAATACTGTAAGTCA
* * * *
9862746 AAAAAATAAAGATGATCGAGATAATACCGTAAGTCA
1 AAAAAATAAAAATGACCGGGATAATACTGTAAGTCA
* * * *
9862782 AAAAAATAAAAATGACCGGGATAACATTATAGGTCA
1 AAAAAATAAAAATGACCGGGATAATACTGTAAGTCA
9862818 AAAAAATAAAAATGA
1 AAAAAATAAAAATGA
9862833 TGAGGACAAC
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
35 28 0.39
36 43 0.61
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.18
Consensus pattern (36 bp):
AAAAAATAAAAATGACCGGGATAATACTGTAAGTCA
Found at i:9862949 original size:36 final size:36
Alignment explanation
Indices: 9862742--9862949 Score: 94
Period size: 36 Copynumber: 5.9 Consensus size: 36
9862732 AAATACTGCA
* *
9862742 AGTC-AAAAAATAAAGATGATCGAGATAATA-C-CG
1 AGTCAAAAAAATAAAGATGATCGAGACAACATCACG
* * * * * *
9862775 TAAGTCAAAAAAATAAAAATGACCGGGATAACATTA-T
1 --AGTCAAAAAAATAAAGATGATCGAGACAACATCACG
* * *
9862812 AGGTCAAAAAAATAAAAATGAT-GAGGACAACACCAATG
1 A-GTCAAAAAAATAAAGATGATCGA-GACAACATC-ACG
* * * *
9862850 -GTCGAAAAAATAAATATGA-CCA-A-AACATACCACA
1 AGTCAAAAAAATAAAGATGATCGAGACAACAT--CACG
* * * * * *
9862884 AGTC-AGACAATAAAGATAACCAAGGCAACATCACG
1 AGTCAAAAAAATAAAGATGATCGAGACAACATCACG
9862919 AGTCAAAAAAATAAAGATGATCGAGACAACA
1 AGTCAAAAAAATAAAGATGATCGAGACAACA
9862950 CCAATAATTG
Statistics
Matches: 127, Mismatches: 31, Indels: 29
0.68 0.17 0.16
Matches are distributed among these distances:
33 4 0.03
34 13 0.10
35 19 0.15
36 85 0.67
37 6 0.05
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (36 bp):
AGTCAAAAAAATAAAGATGATCGAGACAACATCACG
Done.