Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 190 of 202
Found at i:58022906 original size:24 final size:23
Alignment explanation
Indices: 58022848--58022906 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
58022838 CATCAAAATT
58022848 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
58022871 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
58022896 TTGTAAATTAT
1 TT-TAAATTAT
58022907 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:58025196 original size:19 final size:20
Alignment explanation
Indices: 58025154--58025197 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
58025144 ATGATGTTAT
58025154 TTATATTTTCAATTATATTAA
1 TTATATTTT-AATTATATTAA
* *
58025175 TTATATTTT-ATTTTATTTA
1 TTATATTTTAATTATATTAA
58025194 TTAT
1 TTAT
58025198 TGATTTAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATTTTAATTATATTAA
Found at i:58026219 original size:23 final size:23
Alignment explanation
Indices: 58026205--58026249 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
58026195 TTTCTTTTCT
58026205 TTTGTTTTATAATTTATTTTTAC
1 TTTGTTTTATAATTTATTTTTAC
*
58026228 TTTGTTTTA-ATTTTAATTTTTA
1 TTTGTTTTATAATTT-ATTTTTA
58026250 ATTTTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTGTTTTATAATTTATTTTTAC
Found at i:58026250 original size:13 final size:13
Alignment explanation
Indices: 58026232--58026256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58026222 TTTTACTTTG
58026232 TTTTAATTTTAAT
1 TTTTAATTTTAAT
58026245 TTTTAATTTTAA
1 TTTTAATTTTAA
58026257 ACTCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:58026530 original size:27 final size:29
Alignment explanation
Indices: 58026458--58026526 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
58026448 GAAGGCCTTA
* * * * *
58026458 AAACACAGAGACATACGATCGTAATACGC
1 AAACACACACACAGACGATAGTAATAAGC
58026487 AAACACACACACAGACGATAGTAATAAGC
1 AAACACACACACAGACGATAGTAATAAGC
58026516 AAACACACACA
1 AAACACACACA
58026527 GACGCAGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.13, T:0.10
Consensus pattern (29 bp):
AAACACACACACAGACGATAGTAATAAGC
Found at i:58030617 original size:30 final size:30
Alignment explanation
Indices: 58030583--58030689 Score: 187
Period size: 30 Copynumber: 3.6 Consensus size: 30
58030573 TGGTGGTTGC
58030583 TCTGGGTGATATGAACTCGAACCGCCTATG
1 TCTGGGTGATATGAACTCGAACCGCCTATG
*
58030613 TCTGGGTGATATGAACTCGAACCGCCTACG
1 TCTGGGTGATATGAACTCGAACCGCCTATG
*
58030643 TCTGGGTGATATGAACTCGAACCGCCCATG
1 TCTGGGTGATATGAACTCGAACCGCCTATG
*
58030673 TCTGAGTGATATGAACT
1 TCTGGGTGATATGAACT
58030690 GCTCTGCGAC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (30 bp):
TCTGGGTGATATGAACTCGAACCGCCTATG
Found at i:58036281 original size:13 final size:14
Alignment explanation
Indices: 58036251--58036281 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
58036241 TTTTTAATAT
58036251 ATATAAATTTTCTA
1 ATATAAATTTTCTA
58036265 ATATAAATTTT-TA
1 ATATAAATTTTCTA
58036278 ATAT
1 ATAT
58036282 TTTTAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATAAATTTTCTA
Found at i:58036435 original size:15 final size:15
Alignment explanation
Indices: 58036395--58036426 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
58036385 GAATATCTTT
58036395 AAAA-ATAATTTTAA
1 AAAATATAATTTTAA
58036409 AAAATATAATTTTAA
1 AAAATATAATTTTAA
58036424 AAA
1 AAA
58036427 TTTATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATATAATTTTAA
Found at i:58036461 original size:26 final size:24
Alignment explanation
Indices: 58036432--58036495 Score: 56
Period size: 30 Copynumber: 2.3 Consensus size: 24
58036422 AAAAATTTAT
58036432 ATTTAAAATTAAAATTAATATATATA
1 ATTTAAAATTAAAA--AATATATATA
58036458 ATTTTTTTTAAAAATTAAAAAATATATATA
1 A-----TTTA-AAATTAAAAAATATATATA
58036488 ATTTAAAA
1 ATTTAAAA
58036496 AAATTATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
24 3 0.09
25 4 0.12
26 1 0.03
30 11 0.34
31 4 0.12
32 9 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTAAAATTAAAAAATATATATA
Found at i:58036495 original size:18 final size:15
Alignment explanation
Indices: 58036472--58036510 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
58036462 TTTTTAAAAA
58036472 TTAAAAAATATATATAAT
1 TTAAAAAA-AT-TAT-AT
58036490 TTAAAAAAATTATAT
1 TTAAAAAAATTATAT
58036505 TTAAAA
1 TTAAAA
58036511 TTAAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
16 3 0.14
17 2 0.10
18 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAAAAAAATTATAT
Found at i:58036548 original size:41 final size:39
Alignment explanation
Indices: 58036468--58036550 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
58036458 ATTTTTTTTA
* *
58036468 AAAATTAAAAAATATATATAATTTAAAAAAATTATATTT
1 AAAATTAAAAAATAAATATAATTTAAAAAAATTACATTT
* * *
58036507 AAAATTAAAATATAAATATAATTTTTAACAAATATACATTT
1 AAAATTAAAAAATAAATATAA-TTTAAAAAAAT-TACATTT
58036548 AAA
1 AAA
58036551 TTATGATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 19 0.51
40 9 0.24
41 9 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (39 bp):
AAAATTAAAAAATAAATATAATTTAAAAAAATTACATTT
Found at i:58036638 original size:23 final size:20
Alignment explanation
Indices: 58036609--58036701 Score: 61
Period size: 22 Copynumber: 4.5 Consensus size: 20
58036599 ATATATTTTA
58036609 AATATTTTATAATATTAAAAAAT
1 AATA-TTTA-AAT-TTAAAAAAT
58036632 AATATTTAAATTT-AAAAAT
1 AATATTTAAATTTAAAAAAT
*
58036651 ACA-A--TAAATTT-AAAATT
1 A-ATATTTAAATTTAAAAAAT
*
58036668 ATATATTTAAAATTTTTAAAAAT
1 A-ATATTT-AAA-TTTAAAAAAT
58036691 AATATTATAAA
1 AATATT-TAAA
58036702 ACATTTAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 17
0.75 0.04 0.22
Matches are distributed among these distances:
17 14 0.24
18 1 0.02
19 8 0.14
20 4 0.07
21 6 0.10
22 15 0.25
23 11 0.19
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATTTAAATTTAAAAAAT
Found at i:58036656 original size:21 final size:23
Alignment explanation
Indices: 58036609--58036656 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
58036599 ATATATTTTA
*
58036609 AATATTTTATAATATTAAAAAAT
1 AATATTTTATAATATTAAAAAAC
58036632 AATA-TTTA-AAT-TTAAAAATAC
1 AATATTTTATAATATTAAAAA-AC
58036653 AATA
1 AATA
58036657 AATTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 8 0.35
22 4 0.17
23 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATTTTATAATATTAAAAAAC
Found at i:58036702 original size:23 final size:23
Alignment explanation
Indices: 58036658--58036711 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
58036648 AATACAATAA
* *
58036658 ATTTAAAATTATATATTTAAAAT
1 ATTTAAAAATATATATTTAAAAC
*
58036681 TTTTAAAAATA-ATATTATAAAAC
1 ATTTAAAAATATATATT-TAAAAC
58036704 ATTTAAAA
1 ATTTAAAA
58036712 TATGCATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTAAAAATATATATTTAAAAC
Found at i:58036708 original size:46 final size:47
Alignment explanation
Indices: 58036658--58036749 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 47
58036648 AATACAATAA
* *
58036658 ATTTAAAATTATATATTTAAAATTTT-TAAAAATAAT-ATTATAAAAC
1 ATTTAAAA-TATACATTTAAAATTTTATAAAAATAATAATAATAAAAC
* * *
58036704 ATTTAAAATATGCATTTCAAATTTTATAAAACTAATAATAATAAAA
1 ATTTAAAATATACATTTAAAATTTTATAAAAATAATAATAATAAAA
58036750 TAAAATAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 14 0.36
46 17 0.44
47 8 0.21
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (47 bp):
ATTTAAAATATACATTTAAAATTTTATAAAAATAATAATAATAAAAC
Found at i:58036842 original size:17 final size:16
Alignment explanation
Indices: 58036808--58036866 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
58036798 AACTTAAAAA
* *
58036808 GAAAAACAAAAAAAAAT
1 GAAAAA-AATAAAGAAT
58036825 GAAAAAGAATAAAGAAT
1 GAAAAA-AATAAAGAAT
* *
58036842 GAGAAAAAGTAACGAAT
1 GA-AAAAAATAAAGAAT
58036859 GAAAAAAA
1 GAAAAAAA
58036867 AATAGCCTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
16 5 0.14
17 26 0.74
18 4 0.11
ACGTcount: A:0.73, C:0.03, G:0.15, T:0.08
Consensus pattern (16 bp):
GAAAAAAATAAAGAAT
Found at i:58039677 original size:3 final size:3
Alignment explanation
Indices: 58039669--58039713 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
58039659 AGGAATATTG
* *
58039669 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAT TAA TAA TAT TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
58039714 CATATTATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:58039718 original size:12 final size:12
Alignment explanation
Indices: 58039672--58039720 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
58039662 AATATTGTAA
*
58039672 TAATAATAATAA
1 TAATAATAATAT
*
58039684 TAAT-ATAATAA
1 TAATAATAATAT
*
58039695 TATTAATAATAT
1 TAATAATAATAT
*
58039707 TAATAATCATAT
1 TAATAATAATAT
58039719 TA
1 TA
58039721 TAGTGATGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:58043065 original size:45 final size:45
Alignment explanation
Indices: 58042821--58043865 Score: 538
Period size: 45 Copynumber: 22.7 Consensus size: 45
58042811 TCGTTTTAAC
* * ** *
58042821 CCACTGCAACTTTAGGG-GTATAAGAATTG-TCGCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGCTATCTTTAATCTGCT
* * * *
58042865 CCACT-CAACTTCAAGGAGATAA-ATTTAG-TAGCTTCAATCTCCT
1 CCACTGCAACTTCAGGGAGATAAGATTT-GCTATCTTTAATCTGCT
* * * *
58042908 TCACTGCAACTTCAGGGAAATAAGATTCGC-ATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
* * * * * * *
58042952 CCATTGCAAATTGAAGGAGATAAAATTTGTAACTTGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---C---TATCTTTAATCTGCT
* * * *
58043003 CCCCTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
* * *
58043048 CCACTGTAACTTCAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-----C-TATCTTTAATCTGCT
* * * *
58043099 CCACTACAACTTCAGGGAGATAAGATTCGCTATCTTTAATATGCC
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
* * *
58043144 CCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
* * *
58043189 CAACTGTAACTTCAGGGAGATAAGATTTGTCACTCATAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---CT-AT--CTTTAATCTGCT
* * ** * *
58043240 CCACTGCAACTTTAAGGAGATAAGATTCACTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
* * * * *
58043285 CCACGGTAACTTTAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-----C-TATCTTTAATCTGCT
* * * *
58043336 CCACTGCAACTTTAGGGAAATAAGATCTGCTCCA-CTGTAA-CT--T
1 CCACTGCAACTTCAGGGAGATAAGATTTGCT--ATCTTTAATCTGCT
* * * ** ** * **
58043379 -TA-GGGAGA--T-A---AGATTTGTAACT-CGTAACTTTAATCTATT
1 CCACTGCA-ACTTCAGGGAGATAAG-ATTTGC-TATCTTTAATCTGCT
* * * * * *
58043418 CCACTGCAACTTCAAGGAAATAAGATTAGC-ATCTTCATTCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
* * * * * *
58043462 CCACTGTAACTTGAGGGAGATAAGATTTGAAACTTGTAGCTTCAATATGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---C---TATCTTTAATCTGCT
* *
58043513 CCACTACAACTTCAGAGGA-ATAAGATTTGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGCTATCTTTAATCTGCT
** *
58043558 CCACTGCAACTTCAGGGAGATAAGATTCACTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
* ** * *
58043603 CCACTGCAACTTTAGGGAGATAAGATTCACTATCTTCAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
* * * ** * * *
58043648 CTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATTTTCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
* * *
58043693 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---C---TATCTTTAATCTGCT
* * * * *
58043744 ACACTGCAACTTTAGGGAAATAAGATTT--T-TGGTTTCAATCTGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAT-CTTT-AATCTGCT
* * * *
58043788 CTACTGCAACTTTAGAGAGATAAGATTTG-TCATCTTTAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCT-ATCTTTAATCTGCT
* *
58043833 CCACTGCAACTTCAAGGAGATAAGACTTGCTAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAT
58043866 GGTAAATTTA
Statistics
Matches: 777, Mismatches: 155, Indels: 137
0.73 0.14 0.13
Matches are distributed among these distances:
35 1 0.00
36 10 0.01
37 6 0.01
39 2 0.00
40 3 0.00
41 4 0.01
42 6 0.01
43 35 0.05
44 122 0.16
45 345 0.44
46 16 0.02
47 6 0.01
48 7 0.01
49 2 0.00
50 2 0.00
51 207 0.27
52 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCT
Found at i:58043081 original size:96 final size:96
Alignment explanation
Indices: 58042892--58043172 Score: 377
Period size: 96 Copynumber: 2.9 Consensus size: 96
58042882 GATAAATTTA
* *
58042892 GTAGCTTCAATCTCCTT-CACTGCAACTTCAGGGAAATAAGATTCGC-ATCTTCAATCTGCTCCA
1 GTAGCTTTAATCT-GTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCA
* * * * * * *
58042955 TTGCAAATTGAAGGAGATAAAATTTGTAACTT
65 CTGTAACTTCAGGGAGATAAGATTTGTAACTC
* * *
58042987 GTAGCTTTAATCTGTTCCCCTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCAC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCAC
58043052 TGTAACTTCAGGGAGATAAGATTTGTAACTC
66 TGTAACTTCAGGGAGATAAGATTTGTAACTC
* * * * *
58043083 GTAGCTTTAATCTGTTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTTAATATGCCCCAC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCAC
*
58043148 TGTAACTTCAGGGAAATAAGATTTG
66 TGTAACTTCAGGGAGATAAGATTTG
58043173 CTATCTTTAA
Statistics
Matches: 163, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
94 2 0.01
95 38 0.23
96 123 0.75
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (96 bp):
GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCAC
TGTAACTTCAGGGAGATAAGATTTGTAACTC
Found at i:58043177 original size:141 final size:141
Alignment explanation
Indices: 58043010--58043313 Score: 464
Period size: 141 Copynumber: 2.2 Consensus size: 141
58043000 GTTCCCCTGC
*
58043010 AACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT
1 AACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCTCAACTGTAACTTCAGGGAGATAAGATT
* * * *
58043075 TGTAACTCGTAGCTTTAATCTGTTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTTAATA
66 TGTAACTCATAGCTTTAATCTGTTCCACTACAACTTCAAGGAGATAAGATTCACTATCTTCAATA
* *
58043140 TGCCCCACTGT
131 TACCCCACGGT
* * *
58043151 AACTTCAGGGAAATAAGATTTGCTATCTTTAATTTGCTCAACTGTAACTTCAGGGAGATAAGATT
1 AACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCTCAACTGTAACTTCAGGGAGATAAGATT
* * * *
58043216 TGTCACTCATAGCTTTAATCTGTTCCACTGCAACTTTAAGGAGATAAGATTCACTATCTTCAATC
66 TGTAACTCATAGCTTTAATCTGTTCCACTACAACTTCAAGGAGATAAGATTCACTATCTTCAATA
*
58043281 TACTCCACGGT
131 TACCCCACGGT
*
58043292 AACTTTAGGGAGATAAGATTTG
1 AACTTTAGGGAAATAAGATTTG
58043314 TAACTCGTAG
Statistics
Matches: 146, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
141 146 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (141 bp):
AACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCTCAACTGTAACTTCAGGGAGATAAGATT
TGTAACTCATAGCTTTAATCTGTTCCACTACAACTTCAAGGAGATAAGATTCACTATCTTCAATA
TACCCCACGGT
Found at i:58043232 original size:96 final size:96
Alignment explanation
Indices: 58043091--58043674 Score: 513
Period size: 96 Copynumber: 6.4 Consensus size: 96
58043081 TCGTAGCTTT
* ** * * **
58043091 AATCTGTTCCACTACAACTTCAGGGAGATAAGATTCG---CT-AT--CTTTAATATGCCCCACTG
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCATAGCTTTAATCTGTTCCACTG
* * *
58043150 TAACTTCAGGGAAATAAGATTTGCTATCTTT
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
* * *
58043181 AATTTGCTCAACTGTAACTTCAGGGAGATAAGATTTGTCACTCATAGCTTTAATCTGTTCCACTG
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCATAGCTTTAATCTGTTCCACTG
* * * *
58043246 CAACTTTAAGGAGATAAGATTCACTATCTTC
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * *
58043277 AATCTACTCCACGGTAACTTTAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTTCCACTG
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCATAGCTTTAATCTGTTCCACTG
*
58043342 CAACTTTAGGGAAAT-A-A---G--------
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * *
58043360 -ATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGTAACTCGTAACTTTAATCTATTCCACTG
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCATAGCTTTAATCTGTTCCACTG
* *
58043424 CAACTTCAAGGAAATAAGATTAGC-ATCTTC
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * ** * * *
58043454 ATTCTACTCCACTGTAACTTGAGGGAGATAAGATTTGAAACTTGTAGCTTCAATATGTTCCACTA
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCATAGCTTTAATCTGTTCCACTG
*
58043519 CAACTTCAGAGG-AATAAGATTTGCTATCTTC
66 CAACTTCAG-GGAAATAAGATTCGCTATCTTC
* * * *
58043550 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TCACT-AT--CTTCAATCTGCTCCACTG
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCATAGCTTTAATCTGTTCCACTG
* * *
58043609 CAACTTTAGGGAGATAAGATTCACTATCTTC
66 CAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * *
58043640 AATATGCTCTACTGCAACTTTAGAGAGATAAGATT
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATT
58043675 CACTATCTTC
Statistics
Matches: 408, Mismatches: 62, Indels: 46
0.79 0.12 0.09
Matches are distributed among these distances:
82 73 0.18
83 1 0.00
84 1 0.00
87 1 0.00
89 2 0.00
90 99 0.24
92 1 0.00
93 5 0.01
94 4 0.01
95 74 0.18
96 147 0.36
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (96 bp):
AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCATAGCTTTAATCTGTTCCACTG
CAACTTCAGGGAAATAAGATTCGCTATCTTC
Found at i:58043237 original size:237 final size:236
Alignment explanation
Indices: 58042909--58043361 Score: 672
Period size: 237 Copynumber: 1.9 Consensus size: 236
58042899 CAATCTCCTT
* * *
58042909 CACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCCATTGCAAATTGAAGGAGATA
1 CACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCAACTGCAAATTCAAGGAGATA
** * * **
58042974 AAATTTGTAACTTGTAGCTTTAATCTGTTCCCCTGCAACTTTAGGGAAATAAGATTTGCTATCTT
66 AAATTTGTAACTCATAGCTTTAATCTGTTCCACTGCAACTTTAAGGAAATAAGATTCACTATCTT
* *
58043039 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTTCCACT
131 CAATCTACTCCACGGTAACTTCAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTTCCACT
*
58043104 ACAACTTCAGGGAGATAAGATTCGCTATCTTTAATATGCCC
196 ACAACTTCAGGGAAATAAGATTCGCTATCTTTAATATGCCC
* * * * * * *
58043145 CACTGTAACTTCAGGGAAATAAGATTTGCTATCTTTAATTTGCTCAACTGTAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTCGC-ATCTTCAATCTGCTCAACTGCAAATTCAAGGAGAT
* * *
58043210 AAGATTTGTCACTCATAGCTTTAATCTGTTCCACTGCAACTTTAAGGAGATAAGATTCACTATCT
65 AAAATTTGTAACTCATAGCTTTAATCTGTTCCACTGCAACTTTAAGGAAATAAGATTCACTATCT
*
58043275 TCAATCTACTCCACGGTAACTTTAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTTCCAC
130 TCAATCTACTCCACGGTAACTTCAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTTCCAC
* *
58043340 TGCAACTTTAGGGAAATAAGAT
195 TACAACTTCAGGGAAATAAGAT
58043362 CTGCTCCACT
Statistics
Matches: 191, Mismatches: 25, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
236 27 0.14
237 164 0.86
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (236 bp):
CACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCAACTGCAAATTCAAGGAGATA
AAATTTGTAACTCATAGCTTTAATCTGTTCCACTGCAACTTTAAGGAAATAAGATTCACTATCTT
CAATCTACTCCACGGTAACTTCAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTTCCACT
ACAACTTCAGGGAAATAAGATTCGCTATCTTTAATATGCCC
Found at i:58043364 original size:31 final size:31
Alignment explanation
Indices: 58043329--58043392 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
58043319 CGTAGCTTTA
*
58043329 ATCTGTTCCACTGCAACTTTAGGGAAATAAG
1 ATCTGCTCCACTGCAACTTTAGGGAAATAAG
* *
58043360 ATCTGCTCCACTGTAACTTTAGGGAGATAAG
1 ATCTGCTCCACTGCAACTTTAGGGAAATAAG
58043391 AT
1 AT
58043393 TTGTAACTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (31 bp):
ATCTGCTCCACTGCAACTTTAGGGAAATAAG
Found at i:58043408 original size:30 final size:31
Alignment explanation
Indices: 58043329--58043410 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
58043319 CGTAGCTTTA
* * *
58043329 ATCTGTTCCACTGCAACTTTAGGGAAATAAG
1 ATCTGCTCAACTGTAACTTTAGGGAAATAAG
* *
58043360 ATCTGCTCCACTGTAACTTTAGGGAGATAAG
1 ATCTGCTCAACTGTAACTTTAGGGAAATAAG
*
58043391 ATTTG-T-AACTCGTAACTTTA
1 ATCTGCTCAACT-GTAACTTTA
58043411 ATCTATTCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 3 0.07
30 10 0.22
31 32 0.71
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (31 bp):
ATCTGCTCAACTGTAACTTTAGGGAAATAAG
Found at i:58043420 original size:82 final size:82
Alignment explanation
Indices: 58043278--58043443 Score: 278
Period size: 82 Copynumber: 2.0 Consensus size: 82
58043268 ACTATCTTCA
* *
58043278 ATCTACTCCACGGTAACTTTAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTTCCACTGC
1 ATCTACTCCACGGTAACTTTAGGGAGATAAGATTTGTAACTCGTAACTTTAATCTATTCCACTGC
* *
58043343 AACTTTAGGGAAATAAG
66 AACTTCAAGGAAATAAG
* *
58043360 ATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGTAACTCGTAACTTTAATCTATTCCACTGC
1 ATCTACTCCACGGTAACTTTAGGGAGATAAGATTTGTAACTCGTAACTTTAATCTATTCCACTGC
58043425 AACTTCAAGGAAATAAG
66 AACTTCAAGGAAATAAG
58043442 AT
1 AT
58043444 TAGCATCTTC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (82 bp):
ATCTACTCCACGGTAACTTTAGGGAGATAAGATTTGTAACTCGTAACTTTAATCTATTCCACTGC
AACTTCAAGGAAATAAG
Found at i:58043535 original size:95 final size:96
Alignment explanation
Indices: 58043360--58043584 Score: 301
Period size: 95 Copynumber: 2.4 Consensus size: 96
58043350 GGGAAATAAG
* * * * * *
58043360 ATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGTAACTCGTAACTTTAATCTATTCCACTGC
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGAAACTCGTAACTTCAATATATTCCACTAC
58043425 AACTTCAAGGAAATAAGATTAGC-ATCTTCA
66 AACTTCAAGGAAATAAGATTAGCTATCTTCA
* * * * *
58043455 TTCTACTCCACTGTAACTTGAGGGAGATAAGATTTGAAACTTGTAGCTTCAATATGTTCCACTAC
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGAAACTCGTAACTTCAATATATTCCACTAC
*
58043520 AACTTCAGAGG-AATAAGATTTGCTATCTTCA
66 AACTTCA-AGGAAATAAGATTAGCTATCTTCA
* *
58043551 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATT
58043585 CACTATCTTC
Statistics
Matches: 113, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
95 73 0.65
96 40 0.35
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (96 bp):
ATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGAAACTCGTAACTTCAATATATTCCACTAC
AACTTCAAGGAAATAAGATTAGCTATCTTCA
Found at i:58044006 original size:51 final size:51
Alignment explanation
Indices: 58043926--58044051 Score: 180
Period size: 51 Copynumber: 2.5 Consensus size: 51
58043916 TTCAATATGC
* * ** * *
58043926 TCCACTGTAACTTCAAGGAGATAAGATTTGTAACTTTTAGCTTTATTCTAT
1 TCCACTGTAACTTCAGGGAGATAAAATTTGTAACTTGCAGCTTTAGTATAT
*
58043977 TCCACCGTAACTTCAGGGAGATAAAATTTGTAACTTGCAGCTTTAGTATAT
1 TCCACTGTAACTTCAGGGAGATAAAATTTGTAACTTGCAGCTTTAGTATAT
*
58044028 TCCACTGCAACTTCAGGGAGATAA
1 TCCACTGTAACTTCAGGGAGATAA
58044052 GACTTGCAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (51 bp):
TCCACTGTAACTTCAGGGAGATAAAATTTGTAACTTGCAGCTTTAGTATAT
Found at i:58044187 original size:196 final size:196
Alignment explanation
Indices: 58043832--58044189 Score: 572
Period size: 196 Copynumber: 1.8 Consensus size: 196
58043822 TTTAATATGC
*
58043832 TCCACTGCAACTTCAAGGAGATAAGACTTGCTATGGTAAATTTAATCCGACCTACTGCAACTTCA
1 TCCACTGCAACTTCAAGGAGATAAGACTTGCAATGGTAAATTTAATCCGACCTACTGCAACTTCA
* * **
58043897 GAGGTATAGGACTTATTGTTTCAATATGCTCCACTGTAACTTCAAGGAGATAAGATTTGTAACTT
66 GAGCTATAGGACTTATTGTTTCAATATACTCCACTACAACTTCAAGGAGATAAGATTTGTAACTT
* * **
58043962 TTAGCTTTATTCTATTCCACCGTAACTTCAGGGAGATAAAATTTGTAACTTGCAGCTTTAGTATA
131 GTAGCTTTAGTCTATTCCACCACAACTTCAGGGAGATAAAATTTGTAACTTGCAGCTTTAGTATA
58044027 T
196 T
* * *
58044028 TCCACTGCAACTTCAGGGAGATAAGACTTGCAATGGTAGATTTAATCTGACCTACTGCAACTTCA
1 TCCACTGCAACTTCAAGGAGATAAGACTTGCAATGGTAAATTTAATCCGACCTACTGCAACTTCA
* * *
58044093 GAGCTATAGGACTTATTGTTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTAGCTT
66 GAGCTATAGGACTTATTGTTTCAATATACTCCACTACAACTTCAAGGAGATAAGATTTGTAACTT
*
58044158 GTAGCTTTAGTCTATTCCACTACAACTTCAGG
131 GTAGCTTTAGTCTATTCCACCACAACTTCAGG
58044190 AATCTGACCC
Statistics
Matches: 146, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (196 bp):
TCCACTGCAACTTCAAGGAGATAAGACTTGCAATGGTAAATTTAATCCGACCTACTGCAACTTCA
GAGCTATAGGACTTATTGTTTCAATATACTCCACTACAACTTCAAGGAGATAAGATTTGTAACTT
GTAGCTTTAGTCTATTCCACCACAACTTCAGGGAGATAAAATTTGTAACTTGCAGCTTTAGTATA
T
Found at i:58044282 original size:119 final size:119
Alignment explanation
Indices: 58044071--58044308 Score: 370
Period size: 119 Copynumber: 2.0 Consensus size: 119
58044061 TGGTAGATTT
* * *
58044071 AATCTGACCTACTGCAACTTCAGAGCTATAGGACTTATTGTTTCAATCTACTCCACTACAACTTC
1 AATCTGACCCACTGCAACTTCAGAGCTATAGGACTTATCGCTTCAATCTACTCCACTACAACTTC
*
58044136 AGGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCACTACAACTTCAGG
66 AGGGAGATAAGATTTGTAACTTGTAGCTTTAGTCTATTCCACTACAACTTCAGG
* * *
58044190 AATCTGACCCACTGCAACTTCAGA-CGTATAGGACTTGTCGCTTCAATCTGCTCCACTGCAACTT
1 AATCTGACCCACTGCAACTTCAGAGC-TATAGGACTTATCGCTTCAATCTACTCCACTACAACTT
* **
58044254 TAGGGAGATAAGATTTGTAACTTGTAGCTTTAGTCTATTCCACTGTAACTTCAGG
65 CAGGGAGATAAGATTTGTAACTTGTAGCTTTAGTCTATTCCACTACAACTTCAGG
58044309 GAGATAAGAC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
118 1 0.01
119 107 0.99
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (119 bp):
AATCTGACCCACTGCAACTTCAGAGCTATAGGACTTATCGCTTCAATCTACTCCACTACAACTTC
AGGGAGATAAGATTTGTAACTTGTAGCTTTAGTCTATTCCACTACAACTTCAGG
Found at i:58044355 original size:50 final size:51
Alignment explanation
Indices: 58044242--58044357 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 51
58044232 TCAATCTGCT
* * * * * * *
58044242 CCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAGTCTATT
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTGGTAGATTTAATCGATC
* *
58044293 CCACTGTAACTTCAGGGAGATAAGACTTGTTA-TGGTAGATTTAATCCGA-C
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTGGTAGATTTAAT-CGATC
58044343 CCACTGCAACTTCAG
1 CCACTGCAACTTCAG
58044358 AGGTATAGGA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 24 0.44
51 30 0.56
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (51 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGTAACTGGTAGATTTAATCGATC
Found at i:58050943 original size:12 final size:12
Alignment explanation
Indices: 58050914--58050951 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58050904 AGGAATACTG
58050914 TAATAATAATA-
1 TAATAATAATAT
58050925 TATATAATAATAT
1 TA-ATAATAATAT
*
58050938 TAATAATCATAT
1 TAATAATAATAT
58050950 TA
1 TA
58050952 TAGTGAGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:58060782 original size:22 final size:22
Alignment explanation
Indices: 58060754--58060796 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
58060744 TATGGCTCGA
58060754 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
58060776 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
58060797 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:58064706 original size:22 final size:24
Alignment explanation
Indices: 58064680--58064734 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
58064670 TTTATAAATT
58064680 TAATTTAA-AAAATATAAT-ACAA
1 TAATTTAAGAAAATATAATAACAA
* * *
58064702 TAATTTCAAGCATATTTAATAACAA
1 TAATTT-AAGAAAATATAATAACAA
58064727 TAATTTAA
1 TAATTTAA
58064735 TCATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.22
23 2 0.07
24 9 0.33
25 10 0.37
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATTTAAGAAAATATAATAACAA
Found at i:58068995 original size:25 final size:25
Alignment explanation
Indices: 58068944--58068996 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
58068934 ATTTCTCACC
* *
58068944 CAAATTGACATCAACCTAGCCCCAA
1 CAAATTGACATCAACCAAGCCACAA
*
58068969 CAAATTGCACATCAA-CAAGCCATAA
1 CAAATTG-ACATCAACCAAGCCACAA
58068994 CAA
1 CAA
58068997 GGCATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.45, C:0.32, G:0.08, T:0.15
Consensus pattern (25 bp):
CAAATTGACATCAACCAAGCCACAA
Found at i:58074555 original size:50 final size:50
Alignment explanation
Indices: 58074480--58074698 Score: 357
Period size: 50 Copynumber: 4.3 Consensus size: 50
58074470 GCATATGATT
* * *
58074480 ACTTATCACTTTTCACGGATCAGATAAGTGTAGCTGGGCTACCACTTATC
1 ACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGCTACCACTTATC
*
58074530 ACTTATCACTTGTCACTAATCAGATAAGTGTAGCTGAAGCTACCACTTATC
1 ACTTATCACTTGTCACTGATCAGATAAGTGTAGCTG-AGCTACCACTTATC
*
58074581 ACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGGGCTACCACTTATC
1 ACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGCTACCACTTATC
*
58074631 ACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-GAGCTACCACTTATC
*
58074682 ACTTATCACTTATCACT
1 ACTTATCACTTGTCACT
58074699 TGTCACTTGT
Statistics
Matches: 158, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
50 81 0.51
51 77 0.49
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (50 bp):
ACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGCTACCACTTATC
Found at i:58074610 original size:101 final size:101
Alignment explanation
Indices: 58074480--58074698 Score: 393
Period size: 101 Copynumber: 2.2 Consensus size: 101
58074470 GCATATGATT
* *
58074480 ACTTATCACTTTTCACGGATCAGATAAGTGTAGCTGGGCTACCACTTATCACTTATCACTTGTCA
1 ACTTATCACTTATCACTGATCAGATAAGTGTAGCTGGGCTACCACTTATCACTTATCACTTGTCA
*
58074545 CTAATCAGATAAGTGTAGCTGAAGCTACCACTTATC
66 CTAATCAGATAAGTGTAGCTAAAGCTACCACTTATC
*
58074581 ACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGGGCTACCACTTATCACTTATCACTTGTCA
1 ACTTATCACTTATCACTGATCAGATAAGTGTAGCTGGGCTACCACTTATCACTTATCACTTGTCA
*
58074646 CTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
66 CTAATCAGATAAGTGTAGCTAAAGCTACCACTTATC
58074682 ACTTATCACTTATCACT
1 ACTTATCACTTATCACT
58074699 TGTCACTTGT
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 113 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (101 bp):
ACTTATCACTTATCACTGATCAGATAAGTGTAGCTGGGCTACCACTTATCACTTATCACTTGTCA
CTAATCAGATAAGTGTAGCTAAAGCTACCACTTATC
Found at i:58074686 original size:7 final size:7
Alignment explanation
Indices: 58074674--58074717 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
58074664 CTAAAGCTAC
58074674 CACTTAT
1 CACTTAT
58074681 CACTTAT
1 CACTTAT
58074688 CACTTAT
1 CACTTAT
*
58074695 CACTTGT
1 CACTTAT
*
58074702 CACTTGT
1 CACTTAT
*
58074709 CACTGAT
1 CACTTAT
58074716 CA
1 CA
58074718 GATAAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.07, T:0.39
Consensus pattern (7 bp):
CACTTAT
Found at i:58074742 original size:51 final size:51
Alignment explanation
Indices: 58074685--58074800 Score: 178
Period size: 51 Copynumber: 2.3 Consensus size: 51
58074675 ACTTATCACT
* *
58074685 TATCACTTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGTTAAAGC
1 TATCACTTATCACTTGCCACTTGTCACTGATCAGATAAATGTAGCTAAAGC
* * * *
58074736 TGTCACTTATCACTTGCCACTTTTCACTGATTAGATAAGTGTAGCTAAAGC
1 TATCACTTATCACTTGCCACTTGTCACTGATCAGATAAATGTAGCTAAAGC
58074787 TATCACTTATCACT
1 TATCACTTATCACT
58074801 ATCACTGATC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (51 bp):
TATCACTTATCACTTGCCACTTGTCACTGATCAGATAAATGTAGCTAAAGC
Found at i:58074757 original size:65 final size:65
Alignment explanation
Indices: 58074620--58074763 Score: 216
Period size: 65 Copynumber: 2.2 Consensus size: 65
58074610 GTAGCTGGGC
*
58074620 TACCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACT
1 TACCACTTATCACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACT
* * * **
58074685 TATCACTTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGTTAAAGCTGTCACTTATCACT
1 TACCACTTATCACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACT
* *
58074750 TGCCACTTTTCACT
1 TACCACTTATCACT
58074764 GATTAGATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (65 bp):
TACCACTTATCACTTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACT
Found at i:58080363 original size:21 final size:21
Alignment explanation
Indices: 58080335--58080384 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
58080325 TAGAAGCTCG
58080335 AAAGCTGAACAGAAGCTCATA
1 AAAGCTGAACAGAAGCTCATA
* * *
58080356 AGAGCTGAGCAGAAGCTCGTA
1 AAAGCTGAACAGAAGCTCATA
58080377 AAAGCTGA
1 AAAGCTGA
58080385 TCCACCCAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (21 bp):
AAAGCTGAACAGAAGCTCATA
Found at i:58086332 original size:24 final size:24
Alignment explanation
Indices: 58086300--58086347 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
58086290 AAATCTCAAA
58086300 TATCCTGCAACAACTATACTTAAG
1 TATCCTGCAACAACTATACTTAAG
58086324 TATCCTGCAACAACTATACTTAAG
1 TATCCTGCAACAACTATACTTAAG
58086348 ATTCATGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (24 bp):
TATCCTGCAACAACTATACTTAAG
Found at i:58087993 original size:166 final size:165
Alignment explanation
Indices: 58087699--58088052 Score: 415
Period size: 166 Copynumber: 2.1 Consensus size: 165
58087689 GGATACTGCA
* * * **
58087699 AACCATACTCACCAACATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGATCGGTATTTA
1 AACCATACTCACCTAGATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGAGCCATATTTA
* * ** * *
58087764 AGCTAGCAATCAAAAACAATAATAAGACTTTACTTACTAGTAATAATAATGTCATCATAGGTAAA
66 AACTAGCAATAAAAAACAATAATAAGACTCCACTTACTAGTAATAACAATGTCACCATAGGTAAA
** * * **
58087829 AGTTTAAGCTTTAATA-TAAGTATGCGACTACATTT
131 AGCCTAAGCTTTAATACT-AGTATGCAACCACATCG
* * *
58087864 AACCATACTCACCTAGATGAGCATACAATGCAAGCA-TATGAAACATAAATCAAGAAGCCATATT
1 AACCATACTCACCTAGATGAACACACAAAGCAAGCACT-TGAAACATAAATCAAG-AGCCATATT
* * ** * *
58087928 TAAACTAGTAATAAAAAATAATAATACTACTCCACTTACTAGTAATAGCAATGTTACCATAGGTA
64 TAAACTAGCAATAAAAAACAATAATAAGACTCCACTTACTAGTAATAACAATGTCACCATAGGTA
58087993 AAAGCCTAAGCTTTAATACTAGTATGCAACCACATCG
129 AAAGCCTAAGCTTTAATACTAGTATGCAACCACATCG
* *
58088030 AACCATACACACCTAGACGAACA
1 AACCATACTCACCTAGATGAACA
58088053 TGCATTTTTT
Statistics
Matches: 157, Mismatches: 29, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
164 1 0.01
165 47 0.30
166 108 0.69
167 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (165 bp):
AACCATACTCACCTAGATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGAGCCATATTTA
AACTAGCAATAAAAAACAATAATAAGACTCCACTTACTAGTAATAACAATGTCACCATAGGTAAA
AGCCTAAGCTTTAATACTAGTATGCAACCACATCG
Found at i:58090109 original size:7 final size:7
Alignment explanation
Indices: 58090097--58090126 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
58090087 ACTAGTCATC
58090097 ACAATCA
1 ACAATCA
58090104 ACAATCA
1 ACAATCA
58090111 ACAATCA
1 ACAATCA
*
58090118 ACTATCA
1 ACAATCA
58090125 AC
1 AC
58090127 CAATTACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (7 bp):
ACAATCA
Found at i:58092501 original size:24 final size:25
Alignment explanation
Indices: 58092452--58092505 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
58092442 AATTTTAATA
** *
58092452 ATGTAATTATTTTTTATTTTTTTAT
1 ATGTAATTATTTTTTATTAATCTAT
58092477 ATGTAATTATTTTTTA-TAATCTAT
1 ATGTAATTATTTTTTATTAATCTAT
58092501 ATGTA
1 ATGTA
58092506 TATATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (25 bp):
ATGTAATTATTTTTTATTAATCTAT
Found at i:58096059 original size:108 final size:105
Alignment explanation
Indices: 58095860--58096065 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 105
58095850 AAAATTCAAG
*
58095860 AGGATATTTGGCTATTTGGTTAAACGAGAAATCCAAACCCAACACATTAGGGCATGTTCCTCGAA
1 AGGATATTTGGCTATTTGGTTAAACGAGAAATCCAAACCCAACACATTAGGGCACGTTCCTCGAA
* *
58095925 TTTCCGAACGCGAAACATTGCCTTATTTTGAAATTTTGAA
66 TTTCCAAACGCGAAACATTGCCTTATTTAGAAATTTTGAA
* * *
58095965 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
1 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCCAAACCCAACACATTAGGGCACG-TTCCTC
* *
58096030 GAATTTCCAAACGCTAAATATTGCCTTATTTAGAAA
63 GAATTTCCAAACGCGAAACATTGCCTTATTTAGAAA
58096066 AATCCTCATC
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 27 0.30
107 25 0.28
108 38 0.42
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (105 bp):
AGGATATTTGGCTATTTGGTTAAACGAGAAATCCAAACCCAACACATTAGGGCACGTTCCTCGAA
TTTCCAAACGCGAAACATTGCCTTATTTAGAAATTTTGAA
Found at i:58096751 original size:30 final size:31
Alignment explanation
Indices: 58096702--58096766 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
58096692 ATATATGAAT
* *
58096702 TATAAAATATATGAAAAAATATGTATGTACA
1 TATAAAATATATGAAAAAATAAGTAAGTACA
* *
58096733 TATAAAGTATAT-AAAAAATAAGTAAGTATA
1 TATAAAATATATGAAAAAATAAGTAAGTACA
58096763 TATA
1 TATA
58096767 TATCAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (31 bp):
TATAAAATATATGAAAAAATAAGTAAGTACA
Found at i:58096804 original size:3 final size:3
Alignment explanation
Indices: 58096796--58096831 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
58096786 TAGGTATATG
58096796 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58096832 CAAGGTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:58096896 original size:17 final size:16
Alignment explanation
Indices: 58096875--58096912 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
58096865 AATAGAATAG
58096875 AAATATAATAATACTA
1 AAATATAATAATACTA
58096891 ATAATATAATAATACTA
1 A-AATATAATAATACTA
58096908 AAATA
1 AAATA
58096913 ATGCTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAATAATACTA
Found at i:58101021 original size:9 final size:8
Alignment explanation
Indices: 58100999--58101023 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58100989 ATAAACAACA
58100999 ACAAAAAT
1 ACAAAAAT
58101007 ACAAAAAT
1 ACAAAAAT
58101015 ACAAAAAT
1 ACAAAAAT
58101023 A
1 A
58101024 ATTAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
ACAAAAAT
Found at i:58101079 original size:17 final size:18
Alignment explanation
Indices: 58101052--58101098 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
58101042 ATAAGTAAAT
*
58101052 AAACATGAAAAGAA-AAA
1 AAACATAAAAAGAAGAAA
*
58101069 AAACATAAAAATAAGAAA
1 AAACATAAAAAGAAGAAA
*
58101087 AATAAATAAAAA
1 AA-ACATAAAAA
58101099 TATATGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 12 0.48
18 5 0.20
19 8 0.32
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.11
Consensus pattern (18 bp):
AAACATAAAAAGAAGAAA
Found at i:58101095 original size:19 final size:20
Alignment explanation
Indices: 58101061--58101100 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
58101051 TAAACATGAA
58101061 AAGAAAAAAAACATAAAAAT
1 AAGAAAAAAAACATAAAAAT
*
58101081 AAGAAAAATAA-ATAAAAAT
1 AAGAAAAAAAACATAAAAAT
58101100 A
1 A
58101101 TATGTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (20 bp):
AAGAAAAAAAACATAAAAAT
Found at i:58101125 original size:3 final size:3
Alignment explanation
Indices: 58101119--58101261 Score: 135
Period size: 3 Copynumber: 48.0 Consensus size: 3
58101109 TAATAATGGC
* * * * * * *
58101119 AAT AAT AAT ATT AAT AGT ATT AAT AAT AAG AAA AAA AAT AA- AAT AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** * **
58101166 AAA AAT AGT AAT AAC ATT AAT AAT AAT TCT AAT AAC AAT GTT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
58101214 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
58101262 GAAAGTAACA
Statistics
Matches: 112, Mismatches: 27, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
2 2 0.02
3 110 0.98
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:58103387 original size:29 final size:29
Alignment explanation
Indices: 58103345--58103432 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
58103335 GTGTGGTTTC
* *
58103345 GTGGCCAAACGGGCATGTGCTGCACACGG
1 GTGGCCAAACGGGCATGTGCCGCACACAG
* * *
58103374 GTGGCCACACGGGCGTGTGCCACACACAG
1 GTGGCCAAACGGGCATGTGCCGCACACAG
* *
58103403 GTGGCCAGACGAGCATGTGCCGCACACAG
1 GTGGCCAAACGGGCATGTGCCGCACACAG
58103432 G
1 G
58103433 CGGTTCACAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.22, C:0.31, G:0.36, T:0.11
Consensus pattern (29 bp):
GTGGCCAAACGGGCATGTGCCGCACACAG
Found at i:58110020 original size:25 final size:25
Alignment explanation
Indices: 58109986--58110034 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
58109976 TTCAAATCTC
58109986 AAGTATCCTGCAACAACTATACTTT
1 AAGTATCCTGCAACAACTATACTTT
58110011 AAGTATCCTGCAACAACTATACTT
1 AAGTATCCTGCAACAACTATACTT
58110035 AAGATTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (25 bp):
AAGTATCCTGCAACAACTATACTTT
Found at i:58111701 original size:166 final size:163
Alignment explanation
Indices: 58111383--58111734 Score: 440
Period size: 166 Copynumber: 2.1 Consensus size: 163
58111373 GGATACTGCA
* * * *
58111383 AACCATACTCACCAACATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGATCAGTATTTA
1 AACCATACTCACCTAGATGAACACACAAAGCAAGCACTAGAAACATAAATCAAGACCAGTATTTA
* *
58111448 AGCTAGCAATCAAAAATAATAATAAGACTACTTACTAGTAATAATAATGTCATCATAGGTAAAAG
66 AGCTAGCAATCAAAAATAATAATAAGACTACTTACCAGTAATAATAATGTCACCATAGGTAAAAG
* * * **
58111513 CTTAAGCTTTAATACAAGTATGCGACTACATTT
131 CCTAAGCTTTAATACAAGTATGCAACCACATCG
* * *
58111546 AACCATACTCACCTAGATGAGCATACAATGCAAGCA-TAAGAAACATAAATCAAGAAGCCA-TAT
1 AACCATACTCACCTAGATGAACACACAAAGCAAGCACT-AGAAACATAAATCAAG-A-CCAGTAT
* * ** *
58111609 TTAAGCTAGTAATGAAAAATAATAATACTACTCCACTTACCAGTAAT-ATCAATGTTACCATAGG
63 TTAAGCTAGCAATCAAAAATAATAATAAGACT--ACTTACCAGTAATAAT-AATGTCACCATAGG
*
58111673 TAAAAGCCTAAGCTTTAATACTAGTATGCAACCACATCG
125 TAAAAGCCTAAGCTTTAATACAAGTATGCAACCACATCG
*
58111712 AACCATACTCACCTAGACGAACA
1 AACCATACTCACCTAGATGAACA
58111735 TGCATTTTTT
Statistics
Matches: 161, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
162 1 0.01
163 46 0.29
164 32 0.20
165 4 0.02
166 78 0.48
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.24
Consensus pattern (163 bp):
AACCATACTCACCTAGATGAACACACAAAGCAAGCACTAGAAACATAAATCAAGACCAGTATTTA
AGCTAGCAATCAAAAATAATAATAAGACTACTTACCAGTAATAATAATGTCACCATAGGTAAAAG
CCTAAGCTTTAATACAAGTATGCAACCACATCG
Found at i:58113446 original size:22 final size:22
Alignment explanation
Indices: 58113418--58113542 Score: 178
Period size: 22 Copynumber: 5.7 Consensus size: 22
58113408 TTTATTGTTC
*
58113418 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
58113440 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
58113462 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
58113484 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
58113506 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
58113528 AAACATGAGAGCTTA
1 AAACATGAGAGCTTA
58113543 TTAATTCATT
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 92 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:58120686 original size:46 final size:46
Alignment explanation
Indices: 58120623--58120979 Score: 516
Period size: 46 Copynumber: 7.5 Consensus size: 46
58120613 CACTTTCCAC
* *
58120623 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACT
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACT
58120669 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACT
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACT
58120715 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACT
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACT
*
58120761 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCT
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCA----CT
* **
58120811 ACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACT
1 --TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACT
*
58120859 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTT
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--T
* **
58120907 CCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACT
1 ----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACT
58120957 TTGTCACTTGATCAGATAAGTAT
1 TTGTCACTTGATCAGATAAGTAT
58120980 TCAAATCCGG
Statistics
Matches: 283, Mismatches: 16, Indels: 24
0.88 0.05 0.07
Matches are distributed among these distances:
46 196 0.69
48 3 0.01
50 3 0.01
52 81 0.29
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (46 bp):
TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACT
Found at i:58120750 original size:144 final size:144
Alignment explanation
Indices: 58120562--58120979 Score: 604
Period size: 144 Copynumber: 2.9 Consensus size: 144
58120552 CTTACGTATG
* * * *
58120562 ATCACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCC--ACCTATCACTTTTCACTTTCCAC
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
58120623 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
66 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
*
58120688 GTATAGCCGAAGCT
131 GTATAGCCAAAGCT
58120702 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--T----
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
* * *
58120761 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCTACTTGTCACTTGATC
66 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCA----CT--TTGTCACTTGATC
* *
58120826 AGATAAGTGTAGCTAAAGCT
125 AGATAAGTATAGCCAAAGCT
*
58120846 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
*
58120911 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
66 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
58120976 GTAT
131 GTAT
58120980 TCAAATCCGG
Statistics
Matches: 246, Mismatches: 16, Indels: 28
0.85 0.06 0.10
Matches are distributed among these distances:
138 41 0.17
140 12 0.05
141 5 0.02
142 22 0.09
144 123 0.50
146 3 0.01
150 40 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (144 bp):
ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCAAAGCT
Found at i:58120820 original size:52 final size:52
Alignment explanation
Indices: 58120747--58120979 Score: 276
Period size: 52 Copynumber: 4.7 Consensus size: 52
58120737 TAGCCGAAGC
* *
58120747 TATCACTTATC-ACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCTAC-TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
* *
58120800 TATCACTTTCTACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACT
1 TATCACTTTCTACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
* *
58120852 TATCA----CT--TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTCTACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
* * *
58120898 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACT
1 TATCACTTTCTACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
58120950 TATCA----CT--TTGTCACTTGATCAGATAAGTAT
1 TATCACTTTCTACTTGTCACTTGATCAGATAAGTAT
58120980 TCAAATCCGG
Statistics
Matches: 158, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
46 62 0.39
48 3 0.02
50 1 0.01
52 82 0.52
53 10 0.06
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTCTACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
Found at i:58120884 original size:98 final size:98
Alignment explanation
Indices: 58120562--58120979 Score: 667
Period size: 98 Copynumber: 4.4 Consensus size: 98
58120552 CTTACGTATG
* * * *
58120562 ATCACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCC--ACCTATCACTTTTCACTTTCCAC
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
*
58120623 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCT
66 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
58120656 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--T----
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
* **
58120715 TTGTCACTTGATCAGATAAGTATAGCCGAAGCT
66 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
* *
58120748 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCTAC
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
58120813 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
66 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
58120846 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
58120911 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
66 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
58120944 ATCACTTATCACTTTGTCACTTGATCAGATAAGTAT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTAT
58120980 TCAAATCCGG
Statistics
Matches: 303, Mismatches: 11, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
92 88 0.29
94 13 0.04
95 5 0.02
96 20 0.07
98 177 0.58
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:58125882 original size:12 final size:12
Alignment explanation
Indices: 58125850--58125883 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58125840 TGACGACGAG
*
58125850 GAAGATGACGAT
1 GAAGATGATGAT
*
58125862 GACGATGATGAT
1 GAAGATGATGAT
58125874 GAAGATGATG
1 GAAGATGATG
58125884 CCGAAGGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.35, T:0.21
Consensus pattern (12 bp):
GAAGATGATGAT
Found at i:58138566 original size:17 final size:17
Alignment explanation
Indices: 58138517--58138567 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
58138507 CAAATAATTT
58138517 TTTTTAGATATTTAT-A
1 TTTTTAGATATTTATAA
* * *
58138533 TTTTCA-A-AATCATAA
1 TTTTTAGATATTTATAA
58138548 TTTTTAGATATTTATAA
1 TTTTTAGATATTTATAA
58138565 TTT
1 TTT
58138568 CAAAATAGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
14 4 0.15
15 7 0.27
16 6 0.23
17 9 0.35
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTTTAGATATTTATAA
Found at i:58141562 original size:41 final size:40
Alignment explanation
Indices: 58141512--58141608 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
58141502 ATATATGAAT
* *
58141512 TTGAGCTATTGATTTTTACTAATAAATTTACATATAAATTGA
1 TTGAACTATTGATTTTTACTAA-AAACTTACATATAAATT-A
* **
58141554 -TGAACTATTGATTTTTGCTAAATGCTTACATATAAATTA
1 TTGAACTATTGATTTTTACTAAAAACTTACATATAAATTA
* *
58141593 TTGAATTGTTGATTTT
1 TTGAACTATTGATTTT
58141609 ATGCATAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 27 0.57
41 19 0.40
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.47
Consensus pattern (40 bp):
TTGAACTATTGATTTTTACTAAAAACTTACATATAAATTA
Found at i:58141590 original size:40 final size:42
Alignment explanation
Indices: 58141539--58141618 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 42
58141529 ACTAATAAAT
58141539 TTACATATAAATTGA-TGAACTATTGATTTT-TGC-TAAATGC
1 TTACATATAAATT-ATTGAACTATTGATTTTATGCATAAATGC
* *
58141579 TTACATATAAATTATTGAATTGTTGATTTTATGCATAAAT
1 TTACATATAAATTATTGAACTATTGATTTTATGCATAAAT
58141619 TTAACACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 1 0.03
40 26 0.74
41 3 0.09
42 5 0.14
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (42 bp):
TTACATATAAATTATTGAACTATTGATTTTATGCATAAATGC
Found at i:58141843 original size:30 final size:30
Alignment explanation
Indices: 58141808--58141868 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
58141798 GCATTAAGCT
58141808 TTTGAATTATCAATTAATTACGATAAACTA
1 TTTGAATTATCAATTAATTACGATAAACTA
58141838 TTTGAATTATCAATTAATTACGATAAACTA
1 TTTGAATTATCAATTAATTACGATAAACTA
58141868 T
1 T
58141869 CTCCTCAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (30 bp):
TTTGAATTATCAATTAATTACGATAAACTA
Found at i:58145423 original size:16 final size:16
Alignment explanation
Indices: 58145378--58145413 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
58145368 GGAAGAACAT
*
58145378 GAAAAAAAATAAAAAA
1 GAAAAAAAAGAAAAAA
58145394 GAAAAAAAAGAAAAAA
1 GAAAAAAAAGAAAAAA
58145410 GAAA
1 GAAA
58145414 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (16 bp):
GAAAAAAAAGAAAAAA
Found at i:58149788 original size:108 final size:107
Alignment explanation
Indices: 58149599--58149804 Score: 358
Period size: 108 Copynumber: 1.9 Consensus size: 107
58149589 CCTACACAAA
* * * *
58149599 TATTAGGAAGAGATTAGAGTCAAGTTGATGACTTTTGCTGGGTTATGAATCTAGGTCTCCCTTGC
1 TATTAGGAAGAGATCAGAGTCAAGTTGATGACTTTTGCTGAGTTATGAATCTAGATCTCCCTTAC
*
58149664 TCTCTTGAAGCCATATTTTCATAAGGAAAATATGAAACAAAAG
66 TCTCTTGAAGACATA-TTTCATAAGGAAAATATGAAACAAAAG
58149707 TATTAGGAAGAGATCAGAGTCAAGTTGATGACTTTTGCTGAGTTATGAATCTAGATCTCCCTTAC
1 TATTAGGAAGAGATCAGAGTCAAGTTGATGACTTTTGCTGAGTTATGAATCTAGATCTCCCTTAC
58149772 TCTCTTGAAGACATATTTCATAAGGAAAATATG
66 TCTCTTGAAGACATATTTCATAAGGAAAATATG
58149805 CAAATAGAGC
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
107 18 0.19
108 75 0.81
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (107 bp):
TATTAGGAAGAGATCAGAGTCAAGTTGATGACTTTTGCTGAGTTATGAATCTAGATCTCCCTTAC
TCTCTTGAAGACATATTTCATAAGGAAAATATGAAACAAAAG
Found at i:58154153 original size:61 final size:61
Alignment explanation
Indices: 58154088--58154275 Score: 165
Period size: 61 Copynumber: 3.1 Consensus size: 61
58154078 TTATAGTATT
58154088 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * * *
58154149 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAA-ATT-A-TATTTTA-TAGTAT
1 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTT-AATATTAAGAATTTTATTA-AAT
58154207 C
61 C
* * * * *
58154208 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
58154269 ATATATT
1 ATATATT
58154276 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
58 10 0.11
59 30 0.32
60 8 0.09
61 35 0.37
62 11 0.12
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:58154212 original size:120 final size:120
Alignment explanation
Indices: 58154022--58154310 Score: 454
Period size: 120 Copynumber: 2.4 Consensus size: 120
58154012 AGTATGATGA
* * * *
58154022 TAAATTATATATTTTTATTAAATTATATGTAATAATAAATTATGTTAAATTATATTTTATAGTAT
1 TAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATGTTAAATTATATTTTATAGTAT
* * *
58154087 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
65 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
*
58154143 TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTAT
1 TAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTT-AAATTATATTTTATAGTAT
* *
58154207 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
65 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
*
58154263 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 TAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTTAAA
58154311 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 121 0.79
121 31 0.20
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTTAAATTATATTTTATAGTATC
ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
Found at i:58154272 original size:59 final size:59
Alignment explanation
Indices: 58154089--58154272 Score: 139
Period size: 59 Copynumber: 3.1 Consensus size: 59
58154079 TATAGTATTA
* *
58154089 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * * ** * *
58154148 CATA-TAT--TTTAATTAAAAT-ATAT-TTAATATTAATTATTTCAAATTATATTTTA-TAGTAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTA-TT--AA-GA-ATTTTATTA-AAT
* *
58154207 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
58154268 TATAT
1 TATAT
58154273 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
53 4 0.04
54 6 0.07
55 6 0.07
56 8 0.09
57 2 0.02
58 6 0.07
59 16 0.17
61 11 0.12
62 6 0.07
63 2 0.02
64 9 0.10
65 6 0.07
66 10 0.11
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:58154284 original size:18 final size:17
Alignment explanation
Indices: 58154256--58154290 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58154246 ATTATTAAGA
*
58154256 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58154273 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58154291 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58154505 original size:44 final size:45
Alignment explanation
Indices: 58154455--58154545 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
58154445 TAATCAATTC
*
58154455 CATTCAACCAAACACAAGA-TTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTTACTATTACACCTCTATTCCATTA
*** *
58154499 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTTACTATTACACCTCTATTCCATTA
58154544 CA
1 CA
58154546 CCTTTATTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTTACTATTACACCTCTATTCCATTA
Found at i:58154545 original size:16 final size:16
Alignment explanation
Indices: 58154524--58154577 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
58154514 TTGATTTGCT
58154524 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
58154540 ATTACACCTTTATTCC
1 ATTACACCTCTATTCC
*
58154556 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
58154572 AATACA
1 ATTACA
58154578 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:58158273 original size:14 final size:14
Alignment explanation
Indices: 58158250--58158292 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 14
58158240 AAGTATATAT
58158250 AAAAAGTAAAAAAAC
1 AAAAA-TAAAAAAAC
58158265 AAAAATAAAAAAAAC
1 AAAAAT-AAAAAAAC
58158280 AAAAATAAAAAAA
1 AAAAATAAAAAAA
58158293 ATAAAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.86, C:0.05, G:0.02, T:0.07
Consensus pattern (14 bp):
AAAAATAAAAAAAC
Found at i:58158276 original size:16 final size:15
Alignment explanation
Indices: 58158257--58158298 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
58158247 TATAAAAAGT
58158257 AAAAAAACAAAAATA
1 AAAAAAACAAAAATA
58158272 AAAAAAACAAAAATA
1 AAAAAAACAAAAATA
*
58158287 AAAAAAATAAAA
1 AAAAAAACAAAA
58158299 CATATGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (15 bp):
AAAAAAACAAAAATA
Found at i:58158283 original size:20 final size:20
Alignment explanation
Indices: 58158259--58158300 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
58158249 TAAAAAGTAA
* *
58158259 AAAAACAAAAATAAAAAAAAC
1 AAAAATAAAAA-AAATAAAAC
58158280 AAAAATAAAAAAAATAAAAC
1 AAAAATAAAAAAAATAAAAC
58158300 A
1 A
58158301 TATGTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (20 bp):
AAAAATAAAAAAAATAAAAC
Found at i:58158298 original size:14 final size:13
Alignment explanation
Indices: 58158250--58158298 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
58158240 AAGTATATAT
*
58158250 AAAAAGTAAAAAA
1 AAAAAATAAAAAA
58158263 ACAAAAATAAAAAAA
1 A-AAAAAT-AAAAAA
58158278 ACAAAAATAAAAAA
1 A-AAAAATAAAAAA
58158292 AATAAAA
1 AA-AAAA
58158299 CATATGTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 2 0.06
14 16 0.50
15 14 0.44
ACGTcount: A:0.86, C:0.04, G:0.02, T:0.08
Consensus pattern (13 bp):
AAAAAATAAAAAA
Found at i:58160121 original size:39 final size:41
Alignment explanation
Indices: 58160033--58160118 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 41
58160023 ACCTACTATA
*
58160033 TTTGATCTACTTCACGCCAATACATGAAGATAAGATCTGTTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGATAAGA--T-TTTGC
*
58160077 TTTGATCTACTTCACGCCCATACATGAAGATAAGA-TTTGC
1 TTTGATCTACTTCACGCCAATACATGAAGATAAGATTTTGC
58160117 TT
1 TT
58160119 GATTCGATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 6 0.15
44 34 0.85
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (41 bp):
TTTGATCTACTTCACGCCAATACATGAAGATAAGATTTTGC
Found at i:58160157 original size:45 final size:44
Alignment explanation
Indices: 58160058--58160829 Score: 493
Period size: 45 Copynumber: 17.3 Consensus size: 44
58160048 GCCAATACAT
* * * ***
58160058 GAAGATAAGATCTGTTTTCTTTGATCTACTTCACGC-CCA-TACAT
1 GAAGACAAGATCTG-CTTCTTCGATCTACTTCAC-CACCAGTATGG
* * * *
58160102 GAAGATAAGATTTGCTTGATTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTT-CTTCGATCTACTTCACCACCAGTATGG
* ** * ***
58160147 GAAGACAAGATCTGCCATT-TTCGTTCTACTTCA-TGCCAATACAT
1 GAAGACAAGATCTG-C-TTCTTCGATCTACTTCACCACCAGTATGG
* * *
58160191 GAAGACAAGATTTGCTTTCTTCAATCT-GTTCCACCACCAGTATGG
1 GAAGACAAGATCTGC-TTCTTCGATCTACTT-CACCACCAGTATGG
* * * * * * * * *
58160236 GGAGATAAGATCTGCTACCTACGATCCACTTCGCTACCAATATAG
1 GAAGACAAGATCTGCT-TCTTCGATCTACTTCACCACCAGTATGG
* * * * *
58160281 GAAGATAGGATTTACTTTCTTCGATCTACTTTACCACCAGTATGG
1 GAAGACAAGATCTGC-TTCTTCGATCTACTTCACCACCAGTATGG
* * *
58160326 GAAGACAAGATCTGTTATCTTTGATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGCT-TCTTCGATCTACTTCACCACCAGTATGG
* * * * * * * * * *
58160371 GGAGATAAGATCTGTTATCTACGATCCACTCCGCTACCAATATAG
1 GAAGACAAGATCTGCT-TCTTCGATCTACTTCACCACCAGTATGG
*
58160416 GAAGACATGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGC-TTCTTCGATCTACTTCACCACCAGTATGG
* * * * ***
58160461 GAAGACAAAATCTGCTATCTTTGATGTACTTCA-CACCAATACAT
1 GAAGACAAGATCTGCT-TCTTCGATCTACTTCACCACCAGTATGG
* *
58160505 GAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGC-TTCTTCGATCTACTTCACCACCAGTATGG
* * * * * ***
58160550 GGAGACAAGATCTGGTATCTTTGATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCT-TCTTCGATCTACTTCACCACCAGTATGG
* * *
58160594 GAGGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTG-CTTCTTCGATCTACTTCACCACCAGTATGG
* * * * ***
58160639 GGAGACAAGATCTGGTATCTTCGATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCT-TCTTCGATCTACTTCACCACCAGTATGG
* * *
58160683 GAAGACAAGATTTGTTTTCTTCGATCTAC-TCTACCACTAGTATGG
1 GAAGACAAGATCTG-CTTCTTCGATCTACTTC-ACCACCAGTATGG
* * * * * ***
58160728 GGAGACAAAATCTGGTATCTTCGATCTACTTCA-CGCCAATACAT
1 GAAGACAAGATCTGCT-TCTTCGATCTACTTCACCACCAGTATGG
* *
58160772 GAAGACAAGATCTGCTTTCTTAGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGC-TTCTTCGATCTACTTCACCACCAGTATGG
58160817 GAAGACAAGATCT
1 GAAGACAAGATCT
58160830 TTTGTATTCA
Statistics
Matches: 545, Mismatches: 156, Indels: 53
0.72 0.21 0.07
Matches are distributed among these distances:
43 10 0.02
44 188 0.34
45 338 0.62
46 7 0.01
47 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTCTTCGATCTACTTCACCACCAGTATGG
Found at i:58160175 original size:89 final size:89
Alignment explanation
Indices: 58160080--58160339 Score: 288
Period size: 89 Copynumber: 2.9 Consensus size: 89
58160070 TGTTTTCTTT
* ** *
58160080 GATCTACTTCACGCCCATACATGAAGATAAGATTTGCTTGATTCGATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGATAAGATTTGCTTTCTTCGATCTACTTCACCACCAGTAT
** *
58160145 GGGAAGACAAGATCTGCCATTTTC
66 GGGAAGACAAGATCTGCCACCTAC
* * * * *
58160169 GTTCTACTTCATGCCAATACATGAAGACAAGATTTGCTTTCTTCAATCT-GTTCCACCACCAGTA
1 GATCTACTTCACGCCAATACATGAAGATAAGATTTGCTTTCTTCGATCTACTT-CACCACCAGTA
* * *
58160233 TGGGGAGATAAGATCTGCTACCTAC
65 TGGGAAGACAAGATCTGCCACCTAC
* * * * * * * *
58160258 GATCCACTTCGCTACCAATATAGGAAGATAGGATTTACTTTCTTCGATCTACTTTACCACCAGTA
1 GATCTACTTCAC-GCCAATACATGAAGATAAGATTTGCTTTCTTCGATCTACTTCACCACCAGTA
58160323 TGGGAAGACAAGATCTG
65 TGGGAAGACAAGATCTG
58160340 TTATCTTTGA
Statistics
Matches: 138, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
88 2 0.01
89 79 0.57
90 55 0.40
91 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (89 bp):
GATCTACTTCACGCCAATACATGAAGATAAGATTTGCTTTCTTCGATCTACTTCACCACCAGTAT
GGGAAGACAAGATCTGCCACCTAC
Found at i:58160532 original size:89 final size:89
Alignment explanation
Indices: 58160326--58160829 Score: 704
Period size: 89 Copynumber: 5.7 Consensus size: 89
58160316 ACCAGTATGG
* * *
58160326 GAAGACAAGATCTG-TTATCTTTGATCTACTCCACCACCAGTATGGGGAGATAAGATCTGTTATC
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATC
* * * * * * *
58160390 TACGATCCACTCCGCTACCAATATAG
65 TTCGATCTACTTCAC-GCCAATACAT
* * * * *
58160416 GAAGACATGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAAATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
* * *
58160481 TTGATGTACTTCACACCAATACAT
66 TCGATCTACTTCACGCCAATACAT
*
58160505 GAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
*
58160570 TTGATCTACTTCACGCCAATACAT
66 TCGATCTACTTCACGCCAATACAT
* *
58160594 GAGGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
58160659 TCGATCTACTTCACGCCAATACAT
66 TCGATCTACTTCACGCCAATACAT
* * * * *
58160683 GAAGACAAGATTTGTTTTCTTCGATCTACTCTACCACTAGTATGGGGAGACAAAATCTGGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
58160748 TCGATCTACTTCACGCCAATACAT
66 TCGATCTACTTCACGCCAATACAT
* * * *
58160772 GAAGACAAGATCTGCTTTCTTAGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCT
58160830 TTTGTATTCA
Statistics
Matches: 372, Mismatches: 41, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
89 307 0.83
90 63 0.17
91 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (89 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
TCGATCTACTTCACGCCAATACAT
Found at i:58162146 original size:52 final size:48
Alignment explanation
Indices: 58162066--58162210 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 48
58162056 AGCCTCTCCA
* *
58162066 TTTTTTTTT-ACTC-AAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTT
1 TTTTTTTTTGACTCAAAGGC-CCCTTTGTAGGGTTTCACCTTGGTC-C-CT
58162115 TTTGTTTTTTGACTCAAAGAGCCCCTTTGTAGGGTTTCACCTTGG-CCCT
1 TTT-TTTTTTGACTCAAAG-GCCCCTTTGTAGGGTTTCACCTTGGTCCCT
*
58162164 TTTTTTTTTGACTCAAA-GCGCCCTTTGTAGGCTTTCACCTTGGTCCC
1 TTTTTTTTTGACTCAAAGGC-CCCTTTGTAGGGTTTCACCTTGGTCCC
58162211 ACCTTTTTTA
Statistics
Matches: 87, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
46 2 0.02
47 22 0.25
48 17 0.20
49 7 0.08
50 7 0.08
51 5 0.06
52 25 0.29
53 2 0.02
ACGTcount: A:0.12, C:0.26, G:0.18, T:0.44
Consensus pattern (48 bp):
TTTTTTTTTGACTCAAAGGCCCCTTTGTAGGGTTTCACCTTGGTCCCT
Found at i:58162190 original size:47 final size:50
Alignment explanation
Indices: 58162066--58162208 Score: 186
Period size: 47 Copynumber: 2.9 Consensus size: 50
58162056 AGCCTCTCCA
* * * *
58162066 TTTTTTTTT-ACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTT
1 TTTTTTTTTGACTCAAAGCGCCCTTTGTAGGGTTTCACCTTGGTCTCTCT
*
58162115 TTTGTTTTTTGACTCAAAGAGCCCCTTTGTAGGGTTTCACCTTGG-C-C-CT
1 TTT-TTTTTTGACTCAAAGCG-CCCTTTGTAGGGTTTCACCTTGGTCTCTCT
*
58162164 TTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTTGACTCAAAGCGCCCTTTGTAGGGTTTCACCTTGGTC
58162209 CCACCTTTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
47 22 0.27
48 17 0.20
49 7 0.08
50 7 0.08
51 8 0.10
52 22 0.27
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (50 bp):
TTTTTTTTTGACTCAAAGCGCCCTTTGTAGGGTTTCACCTTGGTCTCTCT
Found at i:58162218 original size:47 final size:48
Alignment explanation
Indices: 58162119--58162219 Score: 134
Period size: 47 Copynumber: 2.1 Consensus size: 48
58162109 CTCTTTTTTG
* ***
58162119 TTTTTTGACTCAAAGAGCCCCTTTGTAGGGTTTCACCTTGGCCCTTTT
1 TTTTTTGACTCAAAGAGCCCCTTTGTAGGCTTTCACCTTGGCCCTACC
*
58162167 TTTTTTGACTCAAAGCG-CCCTTTGTAGGCTTTCACCTTGGTCCC-ACC
1 TTTTTTGACTCAAAGAGCCCCTTTGTAGGCTTTCACCTTGG-CCCTACC
58162214 TTTTTT
1 TTTTTT
58162220 AAGCAGAGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
47 28 0.60
48 19 0.40
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.43
Consensus pattern (48 bp):
TTTTTTGACTCAAAGAGCCCCTTTGTAGGCTTTCACCTTGGCCCTACC
Found at i:58162218 original size:48 final size:48
Alignment explanation
Indices: 58162119--58162219 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 48
58162109 CTCTTTTTTG
* ***
58162119 TTTTTTGACTCAAAGAGCCCCTTTGTAGGGTTTCACCTTGGCCCTTTT
1 TTTTTTGACTCAAAGAGCCCCTTTGTAGGCTTTCACCTTGGCCCACCT
*
58162167 TTTTTTGACTCAAAGCG-CCCTTTGTAGGCTTTCACCTTGGTCCCACCT
1 TTTTTTGACTCAAAGAGCCCCTTTGTAGGCTTTCACCTTGG-CCCACCT
58162215 TTTTT
1 TTTTT
58162220 AAGCAGAGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 22 0.47
48 25 0.53
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.43
Consensus pattern (48 bp):
TTTTTTGACTCAAAGAGCCCCTTTGTAGGCTTTCACCTTGGCCCACCT
Found at i:58167182 original size:9 final size:9
Alignment explanation
Indices: 58167168--58167227 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
58167158 TATCAATAAA
58167168 ATATAAAAT
1 ATATAAAAT
58167177 ATATAAAAGT
1 ATATAAAA-T
*
58167187 -TA-AAAAG
1 ATATAAAAT
*
58167194 ATA-AAAAA
1 ATATAAAAT
*
58167202 ATAAAAAAT
1 ATATAAAAT
*
58167211 ATATAAAAA
1 ATATAAAAT
58167220 ATATAAAA
1 ATATAAAA
58167228 CGTATGTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 13 0.30
9 29 0.67
10 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (9 bp):
ATATAAAAT
Found at i:58169105 original size:90 final size:88
Alignment explanation
Indices: 58168926--58169458 Score: 391
Period size: 89 Copynumber: 6.0 Consensus size: 88
58168916 CATGAAGACA
* * * * * * **
58168926 AGATCTGCTTTCTTCGATCT-GTTCCACCACCAGTATGGGGAGATAAGATCTGCTACCTACGATC
1 AGATCT-CTTTCTTCGATCTACTT-CACCACCAGTATAGGAAGACAAGATCTGTTATCTTTGATC
* ** * *
58168990 CACTTCGTTACCAATATAGGAAGAT
64 TACTTCGCCACCAGTATGGGAAGAT
* *
58169015 AGGATTTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATC
1 A-GATCT-CTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGTTATCTTTGATC
* * * *
58169080 TACTCCACGACCAGTATGGGGAGAT
64 TACTTCGCCACCAGTATGGGAAGAT
* * * * * * *
58169105 AAGATCTGTTATCTAT-GATCCACTCCGCTACCAATATAGGAAGACAGGATCTGCTT-TCTTTGA
1 -AGATCTCTT-TCT-TCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTG-TTATCTTTGA
*
58169168 TCTGCTTCGCCACCAGTATGGGAAGAT
62 TCTACTTCGCCACCAGTATGGGAAGAT
* * * * * *
58169195 AGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCT
1 AGATCT-CTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGTTATCTTTGATCT
*
58169259 GCTTCGCCACCAGTATGGGAAGGCA-
65 ACTTCGCCACCAGTATGGGAA-G-AT
* * ** * * * *
58169284 AGATCTGCTATCTTTGATCTACTTCA-TGCCAGTACATGAAGACAAGATCTATT-TTTTTCGATC
1 AGATCT-CTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGTTATCTTT-GATC
*
58169347 TGCTTCGCCACCAGTATGGGAAGGCA-
64 TACTTCGCCACCAGTATGGGAA-G-AT
* * * * * * * *
58169373 AGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
1 AGATCT-CTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGTTATCTTTGATCT
*
58169437 GCTTCGCCACCAGTATGGGAAG
65 ACTTCGCCACCAGTATGGGAAG
58169459 GCAAGATCTG
Statistics
Matches: 383, Mismatches: 48, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
87 2 0.01
88 56 0.15
89 180 0.47
90 139 0.36
91 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (88 bp):
AGATCTCTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGTTATCTTTGATCTA
CTTCGCCACCAGTATGGGAAGAT
Found at i:58169169 original size:45 final size:45
Alignment explanation
Indices: 58168919--58169486 Score: 441
Period size: 45 Copynumber: 12.7 Consensus size: 45
58168909 GCCAATACAT
* * *
58168919 GAAGACAAGATCTGCTTTCTTCGATCT-GTTCCACCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTT-CGCCACCAGTATGG
* * ** ** * ** * *
58168964 GGAGATAAGATCTGCTACCTACGATCCACTTCGTTACCAATATAG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGG
* * * * * *
58169009 GAAGATAGGATTTACTTTCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGG
* * *
58169054 GAAGACAAGATCTG-TTATCTTTGATCTACTCCACGACCAGTATGG
1 GAAGACAAGATCTGCTT-TCTTTGATCTACTTCGCCACCAGTATGG
* * * * * * * *
58169099 GGAGATAAGATCTG-TTATCTATGATCCACTCCGCTACCAATATAG
1 GAAGACAAGATCTGCTT-TCTTTGATCTACTTCGCCACCAGTATGG
* *
58169144 GAAGACAGGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGG
* * * * ***
58169189 GAAGA-TAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGG
* *
58169232 GAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGG
* * *** ***
58169277 GAAGGCAAGATCTGCTATCTTTGATCTACTTC-ATGCCAGTACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGG
* * *
58169321 GAAGACAAGATCT-ATTTTTTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTT-GATCTACTTCGCCACCAGTATGG
* * * * ***
58169366 GAAGGCAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGG
** * *
58169410 GAAGACAAGATCTATTTTCTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGG
* * *
58169455 GAAGGCAAGATCTGCTATCTTTAATCTACTTC
1 GAAGACAAGATCTGCTTTCTTTGATCTACTTC
58169487 ACGCTAGTAC
Statistics
Matches: 397, Mismatches: 117, Indels: 18
0.75 0.22 0.03
Matches are distributed among these distances:
43 17 0.04
44 106 0.27
45 265 0.67
46 9 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
GAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGG
Found at i:58169326 original size:89 final size:89
Alignment explanation
Indices: 58169026--58169780 Score: 694
Period size: 89 Copynumber: 8.5 Consensus size: 89
58169016 GGATTTACTT
* * *** * * * * * *
58169026 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTCCACGAC
1 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCAC
* ** *
58169091 CAGTATGGGGAGATAAGATCTGTTA
65 CAGTATGGGAAGGCAAGATCTGCTA
* * * * * * * * * * *
58169116 TCTATGATCCACTCCGCTACCAATATAGGAAGACAGGATCTGCTTTCTTTGATCTGCTTCGCCAC
1 TCTTTGATCTACTTCAC-GCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCAC
58169181 CAGTATGGGAA-G-ATAGATCTGCTA
65 CAGTATGGGAAGGCA-AGATCTGCTA
*
58169205 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACC
58169270 AGTATGGGAAGGCAAGATCTGCTA
66 AGTATGGGAAGGCAAGATCTGCTA
* * *
58169294 TCTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTATTTTTTTCGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACC
58169359 AGTATGGGAAGGCAAGATCTGCTA
66 AGTATGGGAAGGCAAGATCTGCTA
*
58169383 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACC
58169448 AGTATGGGAAGGCAAGATCTGCTA
66 AGTATGGGAAGGCAAGATCTGCTA
* * * *** * * *
58169472 TCTTTAATCTACTTCACGCTAGTACATGAAGACAATATCTGAAATCTACAATCT-ATT--CCACT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCAC-
* * * *
58169534 GCTGCCCA-GGGAA---ATAGAAT-TACTG
65 -CAG--TATGGGAAGGCA-AG-ATCTGCTA
* ** * * ** * * * ***
58169559 GCTTCAATGTAC-TCTACTGCAACCACGAGGAGGTA-AA-ATCAGCCATCTTCGATCTGCTTCGC
1 TCTTTGATCTACTTC-AC-GCCAGTAC-ATGAAG-ACAAGATCTGTTTTCTTCGATCTGCTTCGC
**
58169621 TGTCCATGTA--GGAAGGCAAGATCTGCTA
62 -CACCA-GTATGGGAAGGCAAGATCTGCTA
* * *
58169649 TATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTACTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACC
* *
58169714 AGTATGGGAAGACAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGCTA
58169738 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTT
58169781 NNNNNNNNNN
Statistics
Matches: 548, Mismatches: 89, Indels: 57
0.79 0.13 0.08
Matches are distributed among these distances:
86 7 0.01
87 20 0.04
88 90 0.16
89 348 0.64
90 77 0.14
91 5 0.01
92 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACC
AGTATGGGAAGGCAAGATCTGCTA
Found at i:58169687 original size:44 final size:44
Alignment explanation
Indices: 58169632--58169778 Score: 177
Period size: 44 Copynumber: 3.3 Consensus size: 44
58169622 GTCCATGTAG
* *
58169632 GAAGGCAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
** * * * * ***
58169676 GAAGACAAGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
*
58169721 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
58169765 GAAGACAAGATCTG
1 GAAGACAAGATCTG
58169779 TTNNNNNNNN
Statistics
Matches: 82, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
44 47 0.57
45 35 0.43
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:58178167 original size:25 final size:25
Alignment explanation
Indices: 58178136--58178187 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
58178126 CTAATTTCTC
* *
58178136 CTTTCTTTCTTC-CCCTTTTTCTTTT
1 CTTTCTTT-TTCTCCCTGTTTCGTTT
58178161 CTTTCTTTTTCTCCCTGTTTCGTTT
1 CTTTCTTTTTCTCCCTGTTTCGTTT
58178186 CT
1 CT
58178188 ATTATGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.00, C:0.31, G:0.04, T:0.65
Consensus pattern (25 bp):
CTTTCTTTTTCTCCCTGTTTCGTTT
Found at i:58178208 original size:16 final size:16
Alignment explanation
Indices: 58178176--58178205 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58178166 TTTTTCTCCC
58178176 TGTTTCGTTTCTATTA
1 TGTTTCGTTTCTATTA
58178192 TGTTTC-TTTCTATT
1 TGTTTCGTTTCTATT
58178206 TATTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.13, G:0.10, T:0.67
Consensus pattern (16 bp):
TGTTTCGTTTCTATTA
Found at i:58178209 original size:4 final size:4
Alignment explanation
Indices: 58178202--58178238 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
58178192 TGTTTCTTTC
*
58178202 TATT TATT TATT TATT TATT TATT ATATT TAAT TATT
1 TATT TATT TATT TATT TATT TATT -TATT TATT TATT
58178239 ATAAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:58178232 original size:13 final size:13
Alignment explanation
Indices: 58178202--58178241 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
58178192 TGTTTCTTTC
58178202 TATTTATTTATT-
1 TATTTATTTATTA
58178214 TATTTATTTATTA
1 TATTTATTTATTA
*
58178227 TATTTAATTATTA
1 TATTTATTTATTA
58178240 TA
1 TA
58178242 AAATATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTATTTATTA
Found at i:58180799 original size:21 final size:21
Alignment explanation
Indices: 58180766--58180818 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
58180756 GAAGCCAAGG
* *
58180766 TTGCCACATTGATGTGTTGTA
1 TTGCAACACTGATGTGTTGTA
* *
58180787 TTGCGACACTGATGTGTTGTG
1 TTGCAACACTGATGTGTTGTA
58180808 TTGCAACACTG
1 TTGCAACACTG
58180819 GTGCTTCCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (21 bp):
TTGCAACACTGATGTGTTGTA
Found at i:58181323 original size:16 final size:16
Alignment explanation
Indices: 58181296--58181338 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
58181286 TTAGTTTAGG
*
58181296 CTTTCAATTTTTCCTTT
1 CTTTC-ATTTTTCCTCT
*
58181313 CTTTCATTTTTTCTCT
1 CTTTCATTTTTCCTCT
*
58181329 CTTTTATTTT
1 CTTTCATTTT
58181339 AGTCTAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (16 bp):
CTTTCATTTTTCCTCT
Found at i:58183728 original size:3 final size:3
Alignment explanation
Indices: 58183686--58183770 Score: 93
Period size: 3 Copynumber: 28.0 Consensus size: 3
58183676 TTTAGCAATT
* * *
58183686 TTA TTA TT- TTA TTCA TTA TT- TTA ATG TTA TTA TCA TTTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
58183731 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
58183771 GTTTTATTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
2 4 0.06
3 58 0.84
4 7 0.10
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:58183960 original size:2 final size:2
Alignment explanation
Indices: 58183948--58183988 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
58183938 TAACCGTATG
* *
58183948 TA TA CA TA TA TA TA TA TA TA TA TT TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58183989 CATTTGCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:58185775 original size:65 final size:65
Alignment explanation
Indices: 58185690--58185824 Score: 202
Period size: 65 Copynumber: 2.1 Consensus size: 65
58185680 ACATAATAGA
* *
58185690 AAAATGATGAAATTATATGTTCTAATAATATTATA-TTTTTGAAATCTTGACGAAGACTTTG-TT
1 AAAATGATGAAATTATATGTTCTAACAATATTATACTTTTAG-AATCTTGACGAAGAC-TTGCTT
58185753 TT
64 TT
* *
58185755 AAAATGATGAAGTTCTATGTTCTAACAATATTATACTTTTAGAATCTTGACGAAGACTTGCTTTT
1 AAAATGATGAAATTATATGTTCTAACAATATTATACTTTTAGAATCTTGACGAAGACTTGCTTTT
58185820 AAAAT
1 AAAAT
58185825 TCTCCATGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
64 3 0.05
65 56 0.88
66 5 0.08
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (65 bp):
AAAATGATGAAATTATATGTTCTAACAATATTATACTTTTAGAATCTTGACGAAGACTTGCTTTT
Found at i:58187679 original size:16 final size:17
Alignment explanation
Indices: 58187654--58187686 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
58187644 ATAATTTCAC
*
58187654 TTTTATAAA-TTTAAAA
1 TTTTAAAAATTTTAAAA
58187670 TTTTAAAAATTTTAAAA
1 TTTTAAAAATTTTAAAA
58187687 GGCTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTAAAAATTTTAAAA
Found at i:58190651 original size:17 final size:17
Alignment explanation
Indices: 58190616--58190652 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
58190606 TCAAAGTAAG
*
58190616 AAACAAACCAATTGGGA
1 AAACAAACCAATTAGGA
*
58190633 AAACAAACCAATTATGA
1 AAACAAACCAATTAGGA
58190650 AAA
1 AAA
58190653 ATATTTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.14
Consensus pattern (17 bp):
AAACAAACCAATTAGGA
Found at i:58197176 original size:20 final size:20
Alignment explanation
Indices: 58197148--58197186 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58197138 ATATGGAAAT
58197148 AATAATTA-TAAAATATAAAC
1 AATAATTATTAAAAT-TAAAC
*
58197168 AATATTTATTAAAATTAAA
1 AATAATTATTAAAATTAAA
58197187 TAAAAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAATTATTAAAATTAAAC
Found at i:58197647 original size:19 final size:20
Alignment explanation
Indices: 58197620--58197658 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
58197610 AGATGTATTG
*
58197620 TATATTTATAAAAT-TTTAA
1 TATAATTATAAAATATTTAA
*
58197639 TATAATTATATAATATTTAA
1 TATAATTATAAAATATTTAA
58197659 AATATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTATAAAATATTTAA
Found at i:58198732 original size:27 final size:27
Alignment explanation
Indices: 58198690--58198750 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
58198680 AATAATACCG
*
58198690 TTATTATACCTATCAAAGATGTTAGAT
1 TTATTATACCTATCAAAAATGTTAGAT
*
58198717 TTATTATACCTGTCAAAAATGTTAGAT
1 TTATTATACCTATCAAAAATGTTAGAT
58198744 TTATTAT
1 TTATTAT
58198751 GTAGGAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (27 bp):
TTATTATACCTATCAAAAATGTTAGAT
Found at i:58201419 original size:193 final size:194
Alignment explanation
Indices: 58201090--58201645 Score: 803
Period size: 193 Copynumber: 2.8 Consensus size: 194
58201080 ATTGAGAGCC
***
58201090 AAAAACTAGGCTCATAATCCAGCAAAGTTAGTATTATAGGTAAATTAGCAACGGATAACAACTTG
1 AAAAACTAGGCTCATAATCCAGCAAAGTTAGTATTATAGGGCTATTAGCAACGGATAACAACTTG
*
58201155 TACTTGCCAATGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTTGAC
66 TACTTGCCAATGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTCGAC
* * * *
58201220 TTTGCTGAATTACGAGCCTAGTTTTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAG-AT
131 TTTGCTGAATTATGAGCCTAGTTTTCCTTTCATTGGCATACAATCAGTAGTTGATGAAGAGAAA
* * *
58201283 AAAAACTAGGCTCATAGTCCAGCAAAGTTTGTATTGTAGGGCTATTAGCAACGGATAACAACTTG
1 AAAAACTAGGCTCATAATCCAGCAAAGTTAGTATTATAGGGCTATTAGCAACGGATAACAACTTG
58201348 TACTTGCCAATGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTCGAC
66 TACTTGCCAATGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTCGAC
*
58201413 TTTGCTGAATTATGAGCCTAGTTTTCCTTTCATTGGCATATAATCAGTAGTTGATGAAGAGAAAA
131 TTTGCTGAATTATGAGCCTAGTTTTCCTTTCATTGGCATACAATCAGTAGTTGATGAAGAG---A
58201478 AA
193 AA
* * ** * * *
58201480 AAAGAACTAGGTTCATAATCCAGCAAAAGTGAACATTATAGGGCTATTAACAATGGATAATAACT
1 AAA-AACTAGGCTCATAATCCAGC-AAAGTTAGTATTATAGGGCTATTAGCAACGGATAACAACT
* * *
58201545 TGTATTTGCAAATGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAA-TTGAATGTC
64 TGTACTTGCCAATGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGAT-AATGTC
* * *
58201609 GACTTTGCTAAATTATGAGTCTAACTTTT-CTTTCATT
128 GACTTTGCTGAATTATGAGCCT-AGTTTTCCTTTCATT
58201646 TACAAGTAAC
Statistics
Matches: 327, Mismatches: 28, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
193 180 0.55
197 4 0.01
198 19 0.06
199 119 0.36
200 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (194 bp):
AAAAACTAGGCTCATAATCCAGCAAAGTTAGTATTATAGGGCTATTAGCAACGGATAACAACTTG
TACTTGCCAATGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTCGAC
TTTGCTGAATTATGAGCCTAGTTTTCCTTTCATTGGCATACAATCAGTAGTTGATGAAGAGAAA
Found at i:58208988 original size:17 final size:17
Alignment explanation
Indices: 58208953--58208989 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
58208943 TCAAAGTAAG
*
58208953 AAACAAACCAATTGGGA
1 AAACAAACCAATTAGGA
*
58208970 AAACAAACCAATTATGA
1 AAACAAACCAATTAGGA
58208987 AAA
1 AAA
58208990 ATATTTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.14
Consensus pattern (17 bp):
AAACAAACCAATTAGGA
Found at i:58219693 original size:19 final size:20
Alignment explanation
Indices: 58219666--58219704 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
58219656 AGATGTATTG
*
58219666 TATATTTATAAAAT-TTTAA
1 TATAATTATAAAATATTTAA
*
58219685 TATAATTATATAATATTTAA
1 TATAATTATAAAATATTTAA
58219705 AATATAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTATAAAATATTTAA
Found at i:58219696 original size:21 final size:22
Alignment explanation
Indices: 58219672--58219726 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
58219662 ATTGTATATT
*
58219672 TATAAAATTT-TAATATAATTA
1 TATAAAATTTAAAATATAATTA
*
58219693 TATAATATTTAAAATATAATT-
1 TATAAAATTTAAAATATAATTA
58219714 TCAT-AAATTTAAA
1 T-ATAAAATTTAAA
58219727 TTTTTCGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TATAAAATTTAAAATATAATTA
Found at i:58219711 original size:22 final size:21
Alignment explanation
Indices: 58219683--58219726 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
58219673 ATAAAATTTT
58219683 AATATAATTAT-ATAATATTTAA
1 AATATAATT-TCATAA-ATTTAA
58219705 AATATAATTTCATAAATTTAA
1 AATATAATTTCATAAATTTAA
58219726 A
1 A
58219727 TTTTTCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATAATTTCATAAATTTAA
Found at i:58220168 original size:29 final size:29
Alignment explanation
Indices: 58220109--58220172 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
58220099 AAATATACAT
**
58220109 TTTAGTCACTATATATTTTATATTTGGAA
1 TTTAGTCACTATATATTTTATATTTAAAA
* *
58220138 TTTAGTCACTCTAT-TTTTATTTTTAAAAA
1 TTTAGTCACTATATATTTTATATTT-AAAA
58220167 TTTAGT
1 TTTAGT
58220173 TATACTTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (29 bp):
TTTAGTCACTATATATTTTATATTTAAAA
Found at i:58223018 original size:14 final size:14
Alignment explanation
Indices: 58222999--58223025 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58222989 AATGCATATG
58222999 TATATATTTACAAA
1 TATATATTTACAAA
58223013 TATATATTTACAA
1 TATATATTTACAA
58223026 CATAAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATATTTACAAA
Found at i:58223199 original size:3 final size:3
Alignment explanation
Indices: 58223187--58223288 Score: 115
Period size: 3 Copynumber: 35.7 Consensus size: 3
58223177 CATGCATGTT
58223187 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
58223234 ATA ACA ATA ATA ATA AT- AGA ATA GT- ATA A-C ATA AT- TTA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58223278 ATA ATA ATA AT
1 ATA ATA ATA AT
58223289 GAAATAGTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
2 6 0.07
3 76 0.93
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:58225387 original size:181 final size:181
Alignment explanation
Indices: 58225122--58225587 Score: 803
Period size: 181 Copynumber: 2.6 Consensus size: 181
58225112 ACATACTATC
* * *
58225122 TTTGATCTACTTCACG-CTGATACATGAAGACAATATCTAC--TTTCTTTCGATCTGCTTCGCCA
1 TTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTTTCTTTCGATCTGCTTCGCCA
*
58225184 CCAGTATGGGAAGGCGAGATCTGTATATTCGATCTACTTCACGCTAGTACATGAAGACAAGATCT
65 CCAGTATGGGAAGGCGAGATCTGTATATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCT
58225249 GTATTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATA
130 GTATTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATA
* * *
58225301 TTTGATCTACTTCACGCCAGTACATGAAGACGAGATCTGCTTTTTCTTTCGATCTACTTTGCCAC
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCTTTCGATCTGCTTCGCCAC
*
58225366 CAGTATGGGAATGCGAGATCTGTATATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
66 CAGTATGGGAAGGCGAGATCTGTATATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
*
58225431 TATTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATC
131 TATTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATA
*
58225482 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCAC
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCTTTCGATCTGCTTCGCCAC
*
58225547 CAGTATGGGAAGGCGAGATCTGTATATTCGATCCACTTCAC
66 CAGTATGGGAAGGCGAGATCTGTATATTCGATCTACTTCAC
58225588 TACCAATATA
Statistics
Matches: 269, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
179 33 0.12
180 2 0.01
181 234 0.87
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (181 bp):
TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCTTTCGATCTGCTTCGCCAC
CAGTATGGGAAGGCGAGATCTGTATATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
TATTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATA
Found at i:58225560 original size:92 final size:90
Alignment explanation
Indices: 58225125--58225614 Score: 709
Period size: 89 Copynumber: 5.4 Consensus size: 90
58225115 TACTATCTTT
* * * *
58225125 GATCTACTTCACG-CTGATACATGAAGACAATATCTAC-TTTCTTTCGATCTGCTTCGCCACCAG
1 GATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTTCCTTCGATCTGCTTCGCCACCAG
58225188 TATGGGAAGGCGAGATCTGTATATTC
65 TATGGGAAGGCGAGATCTGTATATTC
* *
58225214 GATCTACTTCACGCTAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCACCAGT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCCTTCGATCTGCTTCGCCACCAGT
*
58225278 ATGGGAAGGCGAGATCTGTTATATTT
66 ATGGGAAGGCGAGATCTG-TATATTC
* * * *
58225304 GATCTACTTCACGCCAGTACATGAAGACGAGATCTGCTTTTTCTTTCGATCTACTTTGCCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTTCCTTCGATCTGCTTCGCCACCAG
*
58225369 TATGGGAATGCGAGATCTGTATATTC
65 TATGGGAAGGCGAGATCTGTATATTC
*
58225395 GATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCACCAGT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCCTTCGATCTGCTTCGCCACCAGT
* *
58225459 ATGGGAAGGCGAGATCTGTTATCTTT
66 ATGGGAAGGCGAGATCTG-TATATTC
58225485 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTTCCTTCGATCTGCTTCGCCACCAG
58225550 TATGGGAAGGCGAGATCTGTATATTC
65 TATGGGAAGGCGAGATCTGTATATTC
* * * * * *
58225576 GATCCACTTCACTACCAATATAGGAAGACAAGACCTGCT
1 GATCTACTTCAC-GCCAGTACATGAAGACAAGATCTGCT
58225615 GATTTTCAAC
Statistics
Matches: 360, Mismatches: 32, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
89 114 0.32
90 82 0.23
91 58 0.16
92 106 0.29
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (90 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCCTTCGATCTGCTTCGCCACCAGT
ATGGGAAGGCGAGATCTGTATATTC
Found at i:58226930 original size:51 final size:48
Alignment explanation
Indices: 58226875--58226979 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 48
58226865 TCTAAGGCGT
* * * *
58226875 CCTTTGCAAGTTTTCACCATAGCCTCTCCTTTTTTTTTTTACTCAAGGCTC
1 CCTTTGCAAGGTTTCACCAT-G-CTCT-CTTTTTTTTTTGACTCAAAGCGC
* * * *
58226926 CCTTTGTAGGGTTTCACCCTGGTCTCTTTTTTTTTTGACTCAAAGCGC
1 CCTTTGCAAGGTTTCACCATGCTCTCTTTTTTTTTTGACTCAAAGCGC
58226974 CCTTTG
1 CCTTTG
58226980 TAGGCTTTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 26 0.57
49 3 0.07
50 1 0.02
51 16 0.35
ACGTcount: A:0.13, C:0.28, G:0.14, T:0.45
Consensus pattern (48 bp):
CCTTTGCAAGGTTTCACCATGCTCTCTTTTTTTTTTGACTCAAAGCGC
Found at i:58226977 original size:48 final size:48
Alignment explanation
Indices: 58226903--58226997 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
58226893 ATAGCCTCTC
* * * *
58226903 CTTTTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCT
1 CTTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCT
*
58226951 CTTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 CTTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
58226998 CCACCTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (48 bp):
CTTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCT
Found at i:58227007 original size:48 final size:48
Alignment explanation
Indices: 58226907--58227008 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
58226897 CCTCTCCTTT
* * * * * ***
58226907 TTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTT
1 TTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
*
58226955 TTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
58227003 TTTTTT
1 TTTTTT
58227009 AAGCAGAGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.12, C:0.26, G:0.16, T:0.46
Consensus pattern (48 bp):
TTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
Found at i:58231727 original size:34 final size:33
Alignment explanation
Indices: 58231637--58231735 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 33
58231627 AAAATAAAGG
*
58231637 AAAAAAATGCATATG-TATATATTTACAAAATAGAA
1 AAAAAAATGTATATGTTATATATTTACAAAAT---A
* *
58231672 AAAAAAATGTATAAGTCTATATATTTACAACATA
1 AAAAAAATGTATATGT-TATATATTTACAAAATA
* *
58231706 AAAGAAATGTATATG-TATATATTTATAAAA
1 AAAAAAATGTATATGTTATATATTTACAAAA
58231736 CATATAATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
32 13 0.24
34 14 0.25
35 13 0.24
37 15 0.27
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (33 bp):
AAAAAAATGTATATGTTATATATTTACAAAATA
Found at i:58231738 original size:34 final size:33
Alignment explanation
Indices: 58231637--58231739 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 33
58231627 AAAATAAAGG
* * * *
58231637 AAAAAAATGCATATGTATATATTTACAAAATAGAA
1 AAAAAAATGTATATGTATATATTTA-TAAA-ACAT
* * *
58231672 AAAAAAATGTATAAGTCTATATATT-TACAACAT
1 AAAAAAATGTATATGTATATAT-TTATAAAACAT
58231705 AAAAGAAATGTATATGTATATATTTATAAAACAT
1 AAAA-AAATGTATATGTATATATTTATAAAACAT
58231739 A
1 A
58231740 TAATATATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
33 8 0.15
34 26 0.47
35 19 0.35
36 2 0.04
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (33 bp):
AAAAAAATGTATATGTATATATTTATAAAACAT
Done.