Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 194 of 410
Found at i:59330640 original size:80 final size:80
Alignment explanation
Indices: 59330448--59330666 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
59330438 TCGAATGATG
* * **
59330448 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
59330512 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
59330528 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
*
59330591 TTGTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
59330609 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
59330667 TACGTGATTC
Statistics
Matches: 119, Mismatches: 12, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
79 17 0.14
80 92 0.77
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:59346143 original size:17 final size:17
Alignment explanation
Indices: 59346106--59346145 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
59346096 TAAAGGAGGG
**
59346106 ATTGTTAATAAAACCTT
1 ATTGTTAATAAAACCGA
*
59346123 ATTGTTAATAAAATCGA
1 ATTGTTAATAAAACCGA
59346140 ATTGTT
1 ATTGTT
59346146 TTCCTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (17 bp):
ATTGTTAATAAAACCGA
Found at i:59346779 original size:21 final size:21
Alignment explanation
Indices: 59346735--59346799 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
59346725 GAAAGATGAA
* *
59346735 AAAGTAAAAGGAACAAGAAAAG
1 AAAGTAAAA-GAAAAAGGAAAG
59346757 AAGAG-AAAAGAAAAAGGAAAG
1 AA-AGTAAAAGAAAAAGGAAAG
* *
59346778 AAAGTATAAGCAAAAGGAAAG
1 AAAGTAAAAGAAAAAGGAAAG
59346799 A
1 A
59346800 GAAAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.05
21 27 0.73
22 6 0.16
23 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.25, T:0.05
Consensus pattern (21 bp):
AAAGTAAAAGAAAAAGGAAAG
Found at i:59346868 original size:10 final size:9
Alignment explanation
Indices: 59346830--59346864 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
59346820 AATAAAGTGG
59346830 TTTT-ATAT
1 TTTTAATAT
59346838 ATTTTAATAT
1 -TTTTAATAT
59346848 TTTTAATAT
1 TTTTAATAT
59346857 TTTTAATA
1 TTTTAATA
59346865 ATTTCTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 21 0.84
10 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTAATAT
Found at i:59348524 original size:13 final size:14
Alignment explanation
Indices: 59348489--59348534 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
59348479 AAATACGTGA
*
59348489 AAAATATTA-TTTA
1 AAAATATTATTTTT
59348502 AAAATATTATTTTT
1 AAAATATTATTTTT
*
59348516 AAAAT-TTATTATT
1 AAAATATTATTTTT
59348529 AAAATA
1 AAAATA
59348535 AAATTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 21 0.72
14 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATATTATTTTT
Found at i:59348525 original size:16 final size:16
Alignment explanation
Indices: 59348493--59348532 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
59348483 ACGTGAAAAA
59348493 TATTATTTAAAAATAT
1 TATTATTTAAAAATAT
59348509 TATT-TTT-AAAAT-T
1 TATTATTTAAAAATAT
59348522 TATTA-TTAAAA
1 TATTATTTAAAA
59348533 TAAAATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.32
14 8 0.36
15 3 0.14
16 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATTTAAAAATAT
Found at i:59348592 original size:25 final size:26
Alignment explanation
Indices: 59348564--59348613 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
59348554 ATTTTAATAA
* *
59348564 ATTATATTAATT-ATATTAATAATTT
1 ATTATATGAATTAATATAAATAATTT
*
59348589 ATTATATGACTTAATATAAATAATT
1 ATTATATGAATTAATATAAATAATT
59348614 AAATATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTATATGAATTAATATAAATAATTT
Found at i:59351827 original size:2 final size:2
Alignment explanation
Indices: 59351820--59351845 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59351810 GGACCGTGCC
59351820 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
59351846 TGATAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59362188 original size:2 final size:2
Alignment explanation
Indices: 59362181--59362205 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59362171 CTCATACTTA
59362181 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
59362206 GGGAATAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59366388 original size:7 final size:7
Alignment explanation
Indices: 59366376--59366422 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
59366366 GTTTTAATTA
59366376 TAAACTC
1 TAAACTC
59366383 TAAACTC
1 TAAACTC
*
59366390 TAAACTT
1 TAAACTC
59366397 TAAA-TC
1 TAAACTC
59366403 TAAAACT-
1 T-AAACTC
59366410 TCAAACTC
1 T-AAACTC
59366418 TAAAC
1 TAAAC
59366423 ACTGAACTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 2 0.06
7 30 0.88
8 2 0.06
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAACTC
Found at i:59366415 original size:28 final size:28
Alignment explanation
Indices: 59366316--59366422 Score: 80
Period size: 28 Copynumber: 3.9 Consensus size: 28
59366306 TGAAAACTCG
*
59366316 AATCTAAAACATT-AAA-TCATAAACCTTA
1 AATCTAAAAC-TTCAAACTC-TAAACTTTA
* * ** * *
59366344 AATCTCAAACCTCAAAC-CCCAAGTTTT
1 AATCTAAAACTTCAAACTCTAAACTTTA
59366371 AAT-TATAAAC-TCTAAACTCTAAACTTTA
1 AATCTA-AAACTTC-AAACTCTAAACTTTA
59366399 AATCTAAAACTTCAAACTCTAAAC
1 AATCTAAAACTTCAAACTCTAAAC
59366423 ACTGAACTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
26 3 0.05
27 16 0.27
28 37 0.62
29 4 0.07
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (28 bp):
AATCTAAAACTTCAAACTCTAAACTTTA
Found at i:59366431 original size:35 final size:35
Alignment explanation
Indices: 59366377--59366450 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
59366367 TTTTAATTAT
* *
59366377 AAACTCTAAACTCTAAACTTTAAATCTAAAACTTC
1 AAACTCTAAACACTAAACTTTAAATCTAAAACCTC
* * *
59366412 AAACTCTAAACACTGAACTTTGAATCTTAAACCTC
1 AAACTCTAAACACTAAACTTTAAATCTAAAACCTC
59366447 AAAC
1 AAAC
59366451 CCCAAACTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.28
Consensus pattern (35 bp):
AAACTCTAAACACTAAACTTTAAATCTAAAACCTC
Found at i:59377086 original size:16 final size:17
Alignment explanation
Indices: 59377048--59377080 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59377038 TATATATGTA
59377048 TAATAATTATATAAAAT
1 TAATAATTATATAAAAT
59377065 TAATAATTAT-TAAAAT
1 TAATAATTATATAAAAT
59377081 CTATAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATAATTATATAAAAT
Found at i:59377208 original size:31 final size:29
Alignment explanation
Indices: 59377165--59377224 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
59377155 ACTTGACTTT
* * *
59377165 AAACTAATATAATAAATTAGTATATTACTA
1 AAACTAAAATAATAAAATA-TATATAACTA
59377195 AAACATAAAATAATAAAATATATATAACTA
1 AAAC-TAAAATAATAAAATATATATAACTA
59377225 TTACTAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (29 bp):
AAACTAAAATAATAAAATATATATAACTA
Found at i:59377622 original size:21 final size:19
Alignment explanation
Indices: 59377596--59377674 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 19
59377586 ATTAAAATAA
59377596 ATATAATAATTAGAAATAAAT
1 ATATAA-AATTAGAAA-AAAT
*
59377617 ATATAAAAAATCAGAAAAAAT
1 ATAT--AAAATTAGAAAAAAT
*
59377638 ATATAAAATCTAGAAAACAAC
1 ATATAAAAT-TAGAAAA-AAT
*
59377659 ATA-AAAATTATAAAAA
1 ATATAAAATTAGAAAAA
59377675 TAAAATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.02
19 11 0.22
20 11 0.22
21 17 0.34
22 8 0.16
23 2 0.04
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (19 bp):
ATATAAAATTAGAAAAAAT
Found at i:59377665 original size:20 final size:18
Alignment explanation
Indices: 59377622--59377666 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
59377612 TAAATATATA
*
59377622 AAAAATCAGAAAAAATAT
1 AAAAATCAGAAAAAACAT
59377640 ATAAAATCTAGAAAACAACAT
1 A-AAAATC-AGAAAA-AACAT
59377661 AAAAAT
1 AAAAAT
59377667 TATAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 6 0.26
20 11 0.48
21 5 0.22
ACGTcount: A:0.69, C:0.09, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAAATCAGAAAAAACAT
Found at i:59377899 original size:18 final size:20
Alignment explanation
Indices: 59377863--59377901 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
59377853 AAATTTAAAT
59377863 ACATTTTTCTAATTTTTATA
1 ACATTTTTCTAATTTTTATA
59377883 ACATTTTTC-AA-TTTTATA
1 ACATTTTTCTAATTTTTATA
59377901 A
1 A
59377902 ATTATTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
20 9 0.47
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
ACATTTTTCTAATTTTTATA
Found at i:59378457 original size:18 final size:18
Alignment explanation
Indices: 59378430--59378468 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
59378420 AAAACAAGAA
*
59378430 TACTCGTCGTTTGATTAT
1 TACTCATCGTTTGATTAT
59378448 TACTCATCGTTTGATTAT
1 TACTCATCGTTTGATTAT
59378466 TAC
1 TAC
59378469 CTAAATCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.49
Consensus pattern (18 bp):
TACTCATCGTTTGATTAT
Found at i:59378741 original size:16 final size:18
Alignment explanation
Indices: 59378716--59378759 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
59378706 GGGTAAAAAC
*
59378716 AAAATGATAAT-A-TAAT
1 AAAATAATAATAAGTAAT
59378732 AAAATAATAATAAAGTAAT
1 AAAATAATAAT-AAGTAAT
59378751 AAAATAATA
1 AAAATAATA
59378760 GTAACCGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 10 0.42
18 1 0.04
19 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATAATAATAAGTAAT
Found at i:59380814 original size:94 final size:93
Alignment explanation
Indices: 59380723--59381589 Score: 791
Period size: 94 Copynumber: 9.4 Consensus size: 93
59380713 AGATTTGTTG
* * ** * *
59380723 TTGTAGTTTCATTCTATTCCACAACAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCTA
1 TTGTAGTTTCATTCCA-CCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCATCTTGCTCCA
* * *
59380788 TTGCAACTTTAGAGG-GATAAGATTTGTCA
65 CTGCAACTTTAG-GGAGATAAGATTCGCCA
* * * * * * *
59380817 TAGTAGTTTCATTCCGACCCACTGTAACTTTAAGGATAT-AGAATTTGTAGTTTTATCTTACTCC
1 TTGTAGTTTCATTCC-ACCCACTGCAACTTCAGGGATATAAG-ATTTGTAGCTTCATCTTGCTCC
** * * * *
59380881 ACTGTGATTTTAGGGATATAAGATTCACTA
64 ACTGCAACTTTAGGGAGATAAGATTCGCCA
* ** * * *
59380911 TTGTAGTTTTATTCCAACCTGCTGCAACTTCAGGG--GTAAGATTTGTAGCTCCATCTTACTCCA
1 TTGTAGTTTCATTCC-ACCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCATCTTGCTCCA
*** * * * *
59380974 CTATGACTTCAGGAAGATAAGATTCACCG
65 CTGCAACTTTAGGGAGATAAGATTCGCCA
** * * * * * *
59381003 TTGTAGTTTCATTTTGACTCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCTA
1 TTGTAGTTTCA-TTCCACCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCATCTTGCTCCA
* *
59381068 CTACAACTTTAGGGAGATAAGATTCGCAA
65 CTGCAACTTTAGGGAGATAAGATTCGCCA
*
59381097 TTGTAGTTTCATTTCGACCCACTGCAACTTCATGGG-TATAAGATTTGTAGCTTCATCTTGCTCC
1 TTGTAGTTTCA-TTCCACCCACTGCAACTTCA-GGGATATAAGATTTGTAGCTTCATCTTGCTCC
* *
59381161 ACTGTAACTTTAGGGAGATAAGATTTGCCA
64 ACTGCAACTTTAGGGAGATAAGATTCGCCA
* * *
59381191 TTGTAGTTTCATTCCGACCTACTGCAA---C-------T-A-ATTTATAGC-TCTATCTTACTCC
1 TTGTAGTTTCATTCC-ACCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTC-ATCTTGCTCC
* * * * *
59381243 ACTACGACTTTAGAGAGATAAGATTTGTCA
64 ACTGCAACTTTAGGGAGATAAGATTCGCCA
* *
59381273 TTGTAGTTTCATTCCGACCCACTGTAACTTCAAGGG-TATAAGACTTGTAGCTTCATCTTGCTCC
1 TTGTAGTTTCATTCC-ACCCACTGCAACTTC-AGGGATATAAGATTTGTAGCTTCATCTTGCTCC
* * * **
59381337 ATTACATCTTTAGGGAGATAAGATTCGTTA
64 ACTGCAACTTTAGGGAGATAAGATTCGCCA
* ** ** *
59381367 TTGTAGTTTCAATCCATTTCACTAAAACTTCAGGGATATAAGATTTGTAGCTTCATCTTGCTCTA
1 TTGTAGTTTCATTCCA-CCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCATCTTGCTCCA
*
59381432 CTGCATCTTTAGGGAGATAAGATTCGCCA
65 CTGCAACTTTAGGGAGATAAGATTCGCCA
*
59381461 TTGTAGTTTCATTCCAACCCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCATCTTGCTCCA
1 TTGTAGTTTCATTCC-ACCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCATCTTGCTCCA
* * *
59381526 CTGCATCTTTAGGGAGATAAGATTCACTA
65 CTGCAACTTTAGGGAGATAAGATTCGCCA
*
59381555 CTGTAGTTTCATTCCAACCCACTGCAACTTCAGGG
1 TTGTAGTTTCATTCC-ACCCACTGCAACTTCAGGG
59381590 GGACTAGAAT
Statistics
Matches: 635, Mismatches: 112, Indels: 52
0.79 0.14 0.07
Matches are distributed among these distances:
81 2 0.00
82 67 0.11
83 1 0.00
84 1 0.00
85 1 0.00
91 1 0.00
92 68 0.11
93 16 0.03
94 471 0.74
95 7 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (93 bp):
TTGTAGTTTCATTCCACCCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCATCTTGCTCCAC
TGCAACTTTAGGGAGATAAGATTCGCCA
Found at i:59381125 original size:50 final size:48
Alignment explanation
Indices: 59381071--59381219 Score: 132
Period size: 50 Copynumber: 3.1 Consensus size: 48
59381061 TGCTCTACTA
59381071 CAACTTTAGGGAGATAAGATTCGCAATTGTAGTTTCATTTCGACCCACTG
1 CAACTTTAGGGAGATAAGATT-GC-ATTGTAGTTTCATTTCGACCCACTG
* * *
59381121 CAACTTCATGGG-TATAAGA-T---TTGTAGCTTCATCTT-G-CTCCACTG
1 CAACTTTA-GGGAGATAAGATTGCATTGTAGTTTCAT-TTCGAC-CCACTG
* * *
59381165 TAACTTTAGGGAGATAAGATTTGCCATTGTAGTTTCATTCCGACCTACTG
1 CAACTTTAGGGAGATAAGA-TTG-CATTGTAGTTTCATTTCGACCCACTG
59381215 CAACT
1 CAACT
59381220 AATTTATAGC
Statistics
Matches: 77, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
43 4 0.05
44 30 0.39
45 2 0.03
46 1 0.01
49 2 0.03
50 34 0.44
51 4 0.05
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (48 bp):
CAACTTTAGGGAGATAAGATTGCATTGTAGTTTCATTTCGACCCACTG
Found at i:59381182 original size:44 final size:44
Alignment explanation
Indices: 59380935--59381187 Score: 151
Period size: 44 Copynumber: 5.5 Consensus size: 44
59380925 CAACCTGCTG
* * *
59380935 CAACTTCAGGG-G-TAAGATTTGTAGCTCCATCTTACTCCACTA
1 CAACTTTAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTA
** * * * *
59380977 TGACTTCAGGAAGATAAGATTCACCGTTGTAGTTTCATTTTGACT-CACTA
1 CAACTTTAGGGAGATAAGA-T-----TTGTAGCTTCATCTTG-CTCCACTA
* *
59381027 CAACTTTAGGG-GTATAGGATTTGTAGCTTCATCTTGCTCTACTA
1 CAACTTTAGGGAG-ATAAGATTTGTAGCTTCATCTTGCTCCACTA
* *
59381071 CAACTTTAGGGAGATAAGATTCGCAATTGTAGTTTCAT-TTCGAC-CCACTG
1 CAACTTTAGGGAGATAAGA-T-----TTGTAGCTTCATCTT-G-CTCCACTA
* * *
59381121 CAACTTCATGGG-TATAAGATTTGTAGCTTCATCTTGCTCCACTG
1 CAACTTTA-GGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTA
*
59381165 TAACTTTAGGGAGATAAGATTTG
1 CAACTTTAGGGAGATAAGATTTG
59381188 CCATTGTAGT
Statistics
Matches: 162, Mismatches: 25, Indels: 46
0.70 0.11 0.20
Matches are distributed among these distances:
42 8 0.05
43 7 0.04
44 73 0.45
45 5 0.03
49 5 0.03
50 58 0.36
51 6 0.04
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (44 bp):
CAACTTTAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTA
Found at i:59381361 original size:270 final size:270
Alignment explanation
Indices: 59380723--59381489 Score: 821
Period size: 270 Copynumber: 2.8 Consensus size: 270
59380713 AGATTTGTTG
* * *
59380723 TTGTAGTTTCATT-CTATTCCACAACAACTTC-AGGGATATAGGATTTGTAGCTTCATCTTGCTC
1 TTGTAGTTTCATTCCGA-CCCACTACAACTTCAAGGG-TATAGGATTTGTAGCTTCATCTTGCTC
* * * * * * *
59380786 TATTGCAACTTTAGAGG-GATAAGATTTGTCATAGTAGTTTCATTCCGACCCACTGTAACTTTAA
64 TATTACAACTTTAG-GGAGATAAGATTCG-CATTGTAGTTTCATTTCGACCCACTGAAACTTCAG
* * * * * * * *
59380850 GG-ATATAGAATTTGTAGTTTTATCTTACTCCACTGTGATTTTAGGGATATAAGATTCACTATTG
127 GGTATA-AG-ATTTGTAGCTTCATCTTGCTCCACTGTAACTTTAGGGAGATAAGATTCGCCATTG
* * * *
59380914 TAGTTTTATTCCAACCTGCTGCAACTTCAGGGGTAAGATTTGTAGCTCCATCTTACTCCACTATG
190 TAGTTTCATTCCAACCTACTGCAA---C-----TAAGATTTATAGCTCCATCTTACTCCACTACG
*
59380979 ACTTCAGGAAGATAAGATTCACCG
247 ACTTCAGGAAGATAAGATTCACCA
** * * *
59381003 TTGTAGTTTCATTTTGACTCACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCTA
1 TTGTAGTTTCATTCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCTA
* *
59381068 CTACAACTTTAGGGAGATAAGATTCGCAATTGTAGTTTCATTTCGACCCACTGCAACTTCATGGG
66 TTACAACTTTAGGGAGATAAGATTCGC-ATTGTAGTTTCATTTCGACCCACTGAAACTTCA-GGG
*
59381133 TATAAGATTTGTAGCTTCATCTTGCTCCACTGTAACTTTAGGGAGATAAGATTTGCCATTGTAGT
129 TATAAGATTTGTAGCTTCATCTTGCTCCACTGTAACTTTAGGGAGATAAGATTCGCCATTGTAGT
* * *
59381198 TTCATTCCGACCTACTGCAACT-A-ATTTATAGCTCTATCTTACTCCACTACGACTTTA-GAGAG
194 TTCATTCCAACCTACTGCAACTAAGATTTATAGCTCCATCTTACTCCACTACGACTTCAGGA-AG
***
59381260 ATAAGATTTGTCA
258 ATAAGATTCACCA
** * * *
59381273 TTGTAGTTTCATTCCGACCCACTGTAACTTCAAGGGTATAAGACTTGTAGCTTCATCTTGCTCCA
1 TTGTAGTTTCATTCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCTA
* * * * ** *
59381338 TTACATCTTTAGGGAGATAAGATTCGTTATTGTAGTTTCA-ATCCATTTCACTAAAACTTCAGGG
66 TTACAACTTTAGGGAGATAAGATTCG-CATTGTAGTTTCATTTCGA-CCCACTGAAACTTCAGGG
* * *
59381402 ATATAAGATTTGTAGCTTCATCTTGCTCTACTGCATCTTTAGGGAGATAAGATTCGCCATTGTAG
129 -TATAAGATTTGTAGCTTCATCTTGCTCCACTGTAACTTTAGGGAGATAAGATTCGCCATTGTAG
*
59381467 TTTCATTCCAACCCACTGCAACT
193 TTTCATTCCAACCTACTGCAACT
59381490 TCAGGGGTAT
Statistics
Matches: 417, Mismatches: 60, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
269 8 0.02
270 224 0.54
271 1 0.00
272 1 0.00
277 1 0.00
279 3 0.01
280 168 0.40
281 8 0.02
282 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (270 bp):
TTGTAGTTTCATTCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCTA
TTACAACTTTAGGGAGATAAGATTCGCATTGTAGTTTCATTTCGACCCACTGAAACTTCAGGGTA
TAAGATTTGTAGCTTCATCTTGCTCCACTGTAACTTTAGGGAGATAAGATTCGCCATTGTAGTTT
CATTCCAACCTACTGCAACTAAGATTTATAGCTCCATCTTACTCCACTACGACTTCAGGAAGATA
AGATTCACCA
Found at i:59381452 original size:44 final size:44
Alignment explanation
Indices: 59381310--59381549 Score: 148
Period size: 44 Copynumber: 5.2 Consensus size: 44
59381300 CTTCAAGGGT
* * *
59381310 ATAAGACTTGTAGCTTCATCTTGCTCCATTACATCTTTAGGGAG
1 ATAAGATTTGTAGCTTCATCTTGCTCCACTGCATCTTTAGGGAG
* ** * * *
59381354 ATAAGATTCGTTATTGTAGTTTCAATCCATT--T-CACTAAAACTTCAGGGAT
1 ATAAGA-----T-TTGTAGCTTC-AT-C-TTGCTCCACTGCATCTTTAGGGAG
*
59381404 ATAAGATTTGTAGCTTCATCTTGCTCTACTGCATCTTTAGGGAG
1 ATAAGATTTGTAGCTTCATCTTGCTCCACTGCATCTTTAGGGAG
* *** * *
59381448 ATAAGATTCGCCATTGTAGTTTCATTCCAAC-CCACTGCAACTTCAGGG-G
1 ATAAGA-T-----TTGTAGCTTCA-TCTTGCTCCACTGCATCTTTAGGGAG
59381497 TATAAGATTTGTAGCTTCATCTTGCTCCACTGCATCTTTAGGGAG
1 -ATAAGATTTGTAGCTTCATCTTGCTCCACTGCATCTTTAGGGAG
59381542 ATAAGATT
1 ATAAGATT
59381550 CACTACTGTA
Statistics
Matches: 147, Mismatches: 27, Indels: 44
0.67 0.12 0.20
Matches are distributed among these distances:
41 2 0.01
42 1 0.01
43 6 0.04
44 66 0.45
45 3 0.02
49 2 0.01
50 58 0.39
51 6 0.04
52 1 0.01
53 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (44 bp):
ATAAGATTTGTAGCTTCATCTTGCTCCACTGCATCTTTAGGGAG
Found at i:59381486 original size:50 final size:48
Alignment explanation
Indices: 59381431--59381589 Score: 141
Period size: 50 Copynumber: 3.3 Consensus size: 48
59381421 ATCTTGCTCT
* *
59381431 ACTGCATCTTTAGGGAGATAAGATTCGCCATTGTAGTTTCATTCCAACCC
1 ACTGCAACTTCAGGGAGATAAGATT--CCATTGTAGTTTCATTCCAACCC
* ***
59381481 ACTGCAACTTCAGGG-GTATAAGA-T---TTGTAGCTTCA-TCTTGCTCC
1 ACTGCAACTTCAGGGAG-ATAAGATTCCATTGTAGTTTCATTCCAAC-CC
* * *
59381525 ACTGCATCTTTAGGGAGATAAGATTCACTACTGTAGTTTCATTCCAACCC
1 ACTGCAACTTCAGGGAGATAAGATTC-C-ATTGTAGTTTCATTCCAACCC
59381575 ACTGCAACTTCAGGG
1 ACTGCAACTTCAGGG
59381590 GGACTAGAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 20
0.71 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 31 0.37
45 2 0.02
49 2 0.02
50 43 0.51
51 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (48 bp):
ACTGCAACTTCAGGGAGATAAGATTCCATTGTAGTTTCATTCCAACCC
Found at i:59386333 original size:42 final size:41
Alignment explanation
Indices: 59386205--59386418 Score: 177
Period size: 42 Copynumber: 5.1 Consensus size: 41
59386195 CTCGGAGCCT
59386205 GATAATATTCACCAGCTTAAAGCTTGCTAGCCCTTTAAGTCC
1 GATAATATTCACCAGCTTAAAGCTTGCTAG-CCTTTAAGTCC
* * * * *** *
59386247 GAT-ATCATTTCACTAGCATT-ACGCCTGCTAGGCTCGGAGCCC
1 GATAAT-A-TTCACCAGC-TTAAAGCTTGCTAGCCTTTAAGTCC
59386289 GATAATATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGTCC
1 GATAATATTCACCAGCTTAAAGCTTGCTAG-CCTTTAAGTCC
* * * * * *
59386331 GAT-ATCATTTCACCGGCATT-ACGCCTGCTAGGC-TCAGAGCCC
1 GATAAT-A-TTCACCAGC-TTAAAGCTTGCTAGCCTTTA-AGTCC
59386373 GATAATATTCACCAGCTTAAAGCTTGCTAGACCTTTAAGTCC
1 GATAATATTCACCAGCTTAAAGCTTGCTAG-CCTTTAAGTCC
59386415 GATA
1 GATA
59386419 TCATTTCACC
Statistics
Matches: 130, Mismatches: 28, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
40 4 0.03
41 40 0.31
42 42 0.32
43 40 0.31
44 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (41 bp):
GATAATATTCACCAGCTTAAAGCTTGCTAGCCTTTAAGTCC
Found at i:59386486 original size:84 final size:84
Alignment explanation
Indices: 59386140--59386458 Score: 548
Period size: 84 Copynumber: 3.8 Consensus size: 84
59386130 CACCGGCAAT
* * * *
59386140 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTATGCCTGCTAGGCTCGGAGCCT
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCAGAGCCC
59386205 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* ** *
59386224 AAGCTTGCTAGCCCTTTAAGTCCGATATCATTTCACTAGCATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCAGAGCCC
59386289 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
59386308 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCAGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCAGAGCCC
59386373 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* *
59386392 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCAGTACGCCTGCTAGGCTCAAAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCAGAGCCC
59386457 GA
66 GA
59386459 AACTCATCAC
Statistics
Matches: 223, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 223 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCAGAGCCC
GATAATATTCACCAGCTTA
Found at i:59388367 original size:14 final size:15
Alignment explanation
Indices: 59388338--59388367 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59388328 CAAAACTAAG
59388338 ACATGATACTTTCAC
1 ACATGATACTTTCAC
59388353 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
59388367 A
1 A
59388368 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:59390512 original size:16 final size:18
Alignment explanation
Indices: 59390487--59390530 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
59390477 GAGGGTAAAA
*
59390487 AAAATGATAAT-A-TAAT
1 AAAATAATAATAAGTAAT
59390503 AAAATAATAATAAAGTAAT
1 AAAATAATAAT-AAGTAAT
59390522 AAAATAATA
1 AAAATAATA
59390531 GTAATCGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 10 0.42
18 1 0.04
19 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATAATAATAAGTAAT
Found at i:59393327 original size:20 final size:19
Alignment explanation
Indices: 59393290--59393333 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
59393280 ATTTCAACCA
59393290 ATATAATAATAAAAAATAAT
1 ATATAATAATAAAAAAT-AT
* **
59393310 ATATGATAATAATTAATAT
1 ATATAATAATAAAAAATAT
59393329 ATATA
1 ATATA
59393334 CACATAATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATAATAATAAAAAATAT
Found at i:59394950 original size:33 final size:36
Alignment explanation
Indices: 59394913--59394985 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 36
59394903 CTTAGTTATA
* *
59394913 GTCTTTTCA-TTAAA-A-TGCCATAGCCCAACTATG
1 GTCTTTACATTTAAATATTGCCATAGCCCAACAATG
* *
59394946 GTC-TTACATTTAAATATTGCCATGGTCCAACAATG
1 GTCTTTACATTTAAATATTGCCATAGCCCAACAATG
59394981 GTCTT
1 GTCTT
59394986 ATCCGTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
32 4 0.12
33 8 0.25
34 1 0.03
35 18 0.56
36 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (36 bp):
GTCTTTACATTTAAATATTGCCATAGCCCAACAATG
Found at i:59406974 original size:39 final size:39
Alignment explanation
Indices: 59406910--59407105 Score: 173
Period size: 39 Copynumber: 5.0 Consensus size: 39
59406900 TTCAGTGATG
* *
59406910 TATATCCGGACTTATGGTCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
59406949 TATATCCGGACTTAGGGTTCGCAGGCTATTTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * *
59406988 TATATCCAGACTTAAGATCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * * *
59407027 TATGTCCGGGC-TAAAGTCCCGCAGGCTACGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGGAAT
** **
59407066 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AAT
59407105 T
1 T
59407106 GGTTTCAAGT
Statistics
Matches: 129, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
38 15 0.12
39 114 0.88
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:59414238 original size:17 final size:17
Alignment explanation
Indices: 59414216--59414259 Score: 79
Period size: 17 Copynumber: 2.5 Consensus size: 17
59414206 CAAGTTTAAT
59414216 AACTAAAAAAGACTGAA
1 AACTAAAAAAGACTGAA
59414233 AACTAAAAAAGACTGAA
1 AACTAAAAAAGACTGAA
59414250 AACTGAAAAA
1 AACT-AAAAA
59414260 TTAAATGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.11
Consensus pattern (17 bp):
AACTAAAAAAGACTGAA
Found at i:59414282 original size:2 final size:2
Alignment explanation
Indices: 59414275--59414306 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
59414265 TGTAGAACTA
59414275 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59414307 GTAAAGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59417167 original size:141 final size:135
Alignment explanation
Indices: 59416983--59417392 Score: 538
Period size: 141 Copynumber: 3.0 Consensus size: 135
59416973 CAGAGGAACT
* * **
59416983 GCAGAATGTCCAC-TTCAAAGTTAAG-AGACCTCAAGAACTACGAACTAAAGAGCTTGAACCACA
1 GCAGAATGTCCACATT-GAAGTTAAGCA-ACCTCAAGAACTACGAACCAAAGAGCTCAAACCACA
* * *
59417046 GATGTCTTTTGCAGCAGAGCAGCATAAGAAATCTAAAATGGCAACAGAAAGTTCTCAAATGCCAC
64 GATGTCTTTTGCAACAGAACAGCATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCAC
59417111 AACTAAC
129 AACTAAC
59417118 GCAGAATGTCCACATTGAAGTTAAGCAACCTCAACCTCAAGAACTACGAACCAAAGAGCTCAAAC
1 GCAGAATGTCCACATTGAAGTTAAG------CAACCTCAAGAACTACGAACCAAAGAGCTCAAAC
* ** * * * * *
59417183 CGCAGACATCTTTTGCAACAGAACCGCATAAGAAATCAAAAATGGAAATAGGAAGTTCTGAAATG
60 CACAGATGTCTTTTGCAACAGAACAGCATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATG
*
59417248 CCACAACTAAT
125 CCACAACTAAC
* *
59417259 GCAGAATGTCCACATTGAAGTTAAGCAACCTGAAGATCTACGAACCAAAGAGCTCAAACCACAGA
1 GCAGAATGTCCACATTGAAGTTAAGCAACCTCAAGAACTACGAACCAAAGAGCTCAAACCACAGA
* *
59417324 TGTCTTTTGCAAAAGAACCA-CATAAGAAATCAAAAATGGCAACAGAAAGTTCTCACATGCCACA
66 TGTCTTTTGCAACAGAA-CAGCATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCACA
59417388 ACTAA
130 ACTAA
59417393 TGCCAATGGA
Statistics
Matches: 238, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
135 116 0.49
136 3 0.01
141 118 0.50
142 1 0.00
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (135 bp):
GCAGAATGTCCACATTGAAGTTAAGCAACCTCAAGAACTACGAACCAAAGAGCTCAAACCACAGA
TGTCTTTTGCAACAGAACAGCATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCACAA
CTAAC
Found at i:59417360 original size:135 final size:135
Alignment explanation
Indices: 59416982--59417395 Score: 546
Period size: 135 Copynumber: 3.0 Consensus size: 135
59416972 TCAGAGGAAC
* * **
59416982 TGCAGAATGTCCAC-TTCAAAGTTAAG-AGACCTCAAGAACTACGAACTAAAGAGCTTGAACCAC
1 TGCAGAATGTCCACATT-GAAGTTAAGCA-ACCTCAAGAACTACGAACCAAAGAGCTCAAACCAC
* * *
59417045 AGATGTCTTTTGCAGCAG-AGCAGCATAAGAAATCTAAAATGGCAACAGAAAGTTCTCAAATGCC
64 AGATGTCTTTTGCAACAGAACCA-CATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCC
59417109 ACAACTAA
128 ACAACTAA
*
59417117 CGCAGAATGTCCACATTGAAGTTAAGCAACCTCAACCTCAAGAACTACGAACCAAAGAGCTCAAA
1 TGCAGAATGTCCACATTGAAGTTAAG------CAACCTCAAGAACTACGAACCAAAGAGCTCAAA
* ** * * * * *
59417182 CCGCAGACATCTTTTGCAACAGAACCGCATAAGAAATCAAAAATGGAAATAGGAAGTTCTGAAAT
60 CCACAGATGTCTTTTGCAACAGAACCACATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAAT
59417247 GCCACAACTAA
125 GCCACAACTAA
* *
59417258 TGCAGAATGTCCACATTGAAGTTAAGCAACCTGAAGATCTACGAACCAAAGAGCTCAAACCACAG
1 TGCAGAATGTCCACATTGAAGTTAAGCAACCTCAAGAACTACGAACCAAAGAGCTCAAACCACAG
* *
59417323 ATGTCTTTTGCAAAAGAACCACATAAGAAATCAAAAATGGCAACAGAAAGTTCTCACATGCCACA
66 ATGTCTTTTGCAACAGAACCACATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCACA
59417388 ACTAA
131 ACTAA
59417393 TGC
1 TGC
59417396 CAATGGATTC
Statistics
Matches: 241, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
135 121 0.50
136 2 0.01
141 115 0.48
142 3 0.01
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.19
Consensus pattern (135 bp):
TGCAGAATGTCCACATTGAAGTTAAGCAACCTCAAGAACTACGAACCAAAGAGCTCAAACCACAG
ATGTCTTTTGCAACAGAACCACATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCACA
ACTAA
Found at i:59423419 original size:2 final size:2
Alignment explanation
Indices: 59423412--59423437 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59423402 TAAAAGATAC
59423412 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
59423438 CAGCTGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59437767 original size:23 final size:21
Alignment explanation
Indices: 59437735--59437788 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
59437725 GTCTGTGATA
59437735 TGTGAATTTATTCTGTACAGTTTC
1 TGTG-ATTTATT-TGT-CAGTTTC
*
59437759 TGTGATTTAATTTGTCTGTTTC
1 TGTGATTT-ATTTGTCAGTTTC
59437781 TGTG-TTTA
1 TGTGATTTA
59437789 ATTATGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 3 0.11
22 10 0.36
23 7 0.25
24 7 0.25
ACGTcount: A:0.17, C:0.09, G:0.19, T:0.56
Consensus pattern (21 bp):
TGTGATTTATTTGTCAGTTTC
Found at i:59438344 original size:28 final size:29
Alignment explanation
Indices: 59438312--59438369 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
59438302 ATTTTTGATG
59438312 AAATGAGCTATTTG-GG-CTAATTTGTGAA
1 AAATGAGCT-TTTGAGGACTAATTTGTGAA
*
59438340 AAATGAGGTTTTGAAGGACTAATTTGTGAA
1 AAATGAGCTTTTG-AGGACTAATTTGTGAA
59438370 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 4 0.15
28 8 0.31
29 2 0.08
30 12 0.46
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (29 bp):
AAATGAGCTTTTGAGGACTAATTTGTGAA
Found at i:59441478 original size:47 final size:47
Alignment explanation
Indices: 59441423--59441549 Score: 191
Period size: 47 Copynumber: 2.7 Consensus size: 47
59441413 ACAAGATATG
* **
59441423 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGCATA
* *
59441470 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGCAAGCATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGCATA
* *
59441517 TATATATGATAAGGCCGAATGGTCAATGTGATG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATG
59441550 GAAGTGGAAG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGCATA
Found at i:59441574 original size:47 final size:46
Alignment explanation
Indices: 59441426--59441576 Score: 169
Period size: 47 Copynumber: 3.2 Consensus size: 46
59441416 AGATATGTAT
* * *
59441426 ATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCAT-A
* ***
59441473 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGCAAGCATATA
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCATA
* * *
59441519 TATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGCATA
1 -ATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGCATA
59441566 ACTGTGATAAG
1 A-TGTGATAAG
59441577 TCCCGAAGGA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.01
47 85 0.96
48 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (46 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCATA
Found at i:59444594 original size:42 final size:46
Alignment explanation
Indices: 59444534--59444667 Score: 141
Period size: 49 Copynumber: 2.9 Consensus size: 46
59444524 CTTCGTTTAC
* ** *
59444534 TCGATGCCAAAGTTCAACTATGGTCTTACAC-AT-C-T-TCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACAATACATATCACATA
*
59444576 TCGATGTCATAGCCCAACTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC--AAT-ACATATCACATA
*
59444625 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-AAT-ACATATC
59444668 TCACTAATGC
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
42 27 0.35
45 2 0.03
47 1 0.01
48 12 0.16
49 35 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (46 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACAATACATATCACATA
Found at i:59444636 original size:49 final size:48
Alignment explanation
Indices: 59444573--59444667 Score: 163
Period size: 49 Copynumber: 2.0 Consensus size: 48
59444563 ACATCTTCAT
*
59444573 ATATCGATGTCATAGCCCAACTATGGTCTTACACGTAATCACATATCAC
1 ATATCGATGCCATAGCCCAACTATGGTCTTACACG-AATCACATATCAC
*
59444622 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 ATATCGATGCCATAGCCCAACTATGGTCTTACACGAATCACATATC
59444668 TCACTAATGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 11 0.25
49 33 0.75
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (48 bp):
ATATCGATGCCATAGCCCAACTATGGTCTTACACGAATCACATATCAC
Found at i:59444856 original size:63 final size:61
Alignment explanation
Indices: 59444767--59444915 Score: 190
Period size: 63 Copynumber: 2.4 Consensus size: 61
59444757 CTTGTCACTT
* * * *
59444767 GTAGCCGAAGCTACCACTATTCACTGATCAAGTAGCCGGAGATACCATTTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCAGAAGATACCA-CTTTTCACT-ATCAG
* * * * *
59444830 GTAGTCGGAGCTACCATTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCAGAAGATACCACTTTTCACTATCAG
*
59444891 GTAGCCGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
59444916 TGTCATTTGT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
61 26 0.36
62 8 0.11
63 39 0.53
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCAGAAGATACCACTTTTCACTATCAG
Found at i:59444892 original size:30 final size:31
Alignment explanation
Indices: 59444767--59444915 Score: 192
Period size: 31 Copynumber: 4.8 Consensus size: 31
59444757 CTTGTCACTT
* *
59444767 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
59444798 GTAGCCGGAGATACCATTTTTTCACTGATCAG
1 GTAGCCGAAGCTACCA-CTTTTCACTGATCAG
* * *
59444830 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
59444861 GTAGCAGAAGCTACCACTTTTCACT-ATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
59444891 GTAGCCGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
59444916 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
30 28 0.27
31 50 0.48
32 26 0.25
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:59444989 original size:50 final size:51
Alignment explanation
Indices: 59444891--59445019 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
59444881 TCACTATCAG
* * *
59444891 GTAGCCGAAGCTATCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
* *
59444942 GTAGTCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
59444992 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
59445020 TGTCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:59447629 original size:27 final size:27
Alignment explanation
Indices: 59447598--59447716 Score: 96
Period size: 27 Copynumber: 4.4 Consensus size: 27
59447588 GGGCATAATT
* *
59447598 GTCATTTTACGATACAGGGGTATTATG
1 GTCATTTTACCATACAGGGGTATTACG
* ** *
59447625 GTCATTTTACCCTATTGGGGTATTGCG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
59447652 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCATACAGGGGTATTACG
** *
59447679 ACCATTTTACTC-TACAGGGGCATTACG
1 GTCATTTTAC-CATACAGGGGTATTACG
* *
59447706 ATTATTTTACC
1 GTCATTTTACC
59447717 TATTTTGGGG
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 75 0.97
28 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:59448930 original size:51 final size:51
Alignment explanation
Indices: 59448802--59449049 Score: 272
Period size: 51 Copynumber: 4.9 Consensus size: 51
59448792 TATTGTGAGG
* * * * *
59448802 TCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTA-TT-GG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * *
59448851 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * *
59448902 TCACGTGTGTAGTATTAAGTGCAGGCTACTATGCATACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* ** * * * * *
59448953 TTACGTGTGTAGTACTAAGTGCAGATTACTACGTGTACCGGATAA-TTGGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
*
59449003 TGCA--TGTGTAGTACTAAGTGCAGGGTACTATGCGTACCAGATAACTT
1 T-CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTT
59449050 TGGCTACAAG
Statistics
Matches: 167, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
49 73 0.44
50 8 0.05
51 86 0.51
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:59449025 original size:100 final size:100
Alignment explanation
Indices: 59448808--59449049 Score: 274
Period size: 100 Copynumber: 2.4 Consensus size: 100
59448798 GAGGTCACGC
* * * * *
59448808 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTA-TTGGTCGCATGTGTAGTACTAAGTG
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTGATCACATGTGTAGTACTAAGTG
* *
59448872 CAGGCTACTATGCGTACCCGATAACTTCGATCACGT
66 CAGACTACTACGCGTACCCGATAACTTCGATCAC-T
* * * * *
59448908 GTGTAGTATTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAGTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTT-GATCACATGTGTAGTACTAAGT
* * * * *
59448973 GCAGATTACTACGTGTACCGGATAA-TTGGTTGCA-T
65 GCAGACTACTACGCGTACCCGATAACTTCGAT-CACT
*
59449008 GTGTAGTACTAAGTGCAGGGTACTATGCGTACCAGATAACTT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTT
59449050 TGGCTACAAG
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
100 72 0.61
101 6 0.05
102 40 0.34
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTGATCACATGTGTAGTACTAAGTG
CAGACTACTACGCGTACCCGATAACTTCGATCACT
Found at i:59451077 original size:49 final size:51
Alignment explanation
Indices: 59450942--59451089 Score: 237
Period size: 52 Copynumber: 2.9 Consensus size: 51
59450932 TCCTTGTAGT
* *
59450942 CAAAGCTACCTTCTTCACAAAGTGGCCTTCACATAGTACCATACTTGCGAC
1 CAAAGCTATCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGCGAC
*
59450993 CAAAGCTATCTTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGAC
1 CAAAGCTATC-TTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGCGAC
*
59451045 C-AAGCTATC-TCTTCTCAAAGTGGCCTTCACATAGTACCACACTTG
1 CAAAGCTATCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTG
59451090 AGTCACTAGT
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
49 35 0.38
51 17 0.18
52 40 0.43
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (51 bp):
CAAAGCTATCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGCGAC
Found at i:59453583 original size:40 final size:40
Alignment explanation
Indices: 59453514--59453797 Score: 374
Period size: 40 Copynumber: 7.1 Consensus size: 40
59453504 TGAATGATAC
* * * **
59453514 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * * * *
59453554 ACGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG-TTATAT
59453594 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
59453634 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
59453674 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
59453714 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * ** *
59453754 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
59453794 CCGG
1 CCGG
59453798 TTGTATTCCG
Statistics
Matches: 219, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
40 217 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:59455526 original size:8 final size:8
Alignment explanation
Indices: 59455515--59455539 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
59455505 ATTAAACTAG
59455515 AATAATAA
1 AATAATAA
59455523 AATAATAA
1 AATAATAA
59455531 AATAATAA
1 AATAATAA
59455539 A
1 A
59455540 TGATTCTATC
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:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAATAA
Found at i:59458330 original size:19 final size:20
Alignment explanation
Indices: 59458305--59458390 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
59458295 CATCCAAACA
*
59458305 CCAGAAAAGCAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
59458325 -CAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
*
59458344 CCAAAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
*
59458364 CCAAAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
59458384 CCAGAAA
1 CCAGAAA
59458391 TTATTTTTCG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 18 0.29
20 44 0.71
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:59462895 original size:40 final size:39
Alignment explanation
Indices: 59462730--59462913 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
59462720 AAATTGAATG
* * *
59462730 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
59462770 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
59462810 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
59462850 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
59462889 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
59462914 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:59462938 original size:80 final size:81
Alignment explanation
Indices: 59462770--59462958 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
59462760 GCTGGAAATT
* * * *
59462770 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
59462835 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
59462851 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
59462914 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
59462930 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
59462959 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:59470160 original size:40 final size:39
Alignment explanation
Indices: 59469995--59470178 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
59469985 AAATTGATTG
* * *
59469995 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
59470035 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
59470075 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
59470115 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
59470154 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
59470179 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:59470161 original size:80 final size:80
Alignment explanation
Indices: 59470039--59470187 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
59470029 GAAATTATAA
* * * *
59470039 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
59470104 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
59470119 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
59470183 GTGCG
65 GTGCG
59470188 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:59472047 original size:27 final size:27
Alignment explanation
Indices: 59472009--59472578 Score: 737
Period size: 27 Copynumber: 21.1 Consensus size: 27
59471999 GGTCGTTAAT
* * *
59472009 TGACCGTAATACCCCTATAAGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
*
59472036 TGACCGTAATACCCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
*
59472063 TGACCGTAATACCCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* * * *
59472090 TGATCGTAATGCTCTTGTAGGGT-TAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* *
59472116 TGACTGTAATGCCCCTATAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
59472143 TGACCGTAATGCCCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
** * * *
59472170 TGATTGTAATACCCTTATAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* *
59472197 TGATCGTAATGCCCTTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* *
59472224 TGATCGTAATGCTCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* *
59472251 TGATCGTAATGCCCTTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* * *
59472278 TGATCGTAATGCTCCTGTAAGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* * *
59472305 TGATCGTAATGCTCCTGTAAGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
*
59472332 TGACCGTAATGCCCCTGTAAGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
59472359 TGACCGTAATGCCCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
*
59472386 TGACCGTAATGCCCCTATAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
*
59472413 TGACCGTAATGCCCTTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
*
59472440 TGACCGTAATGCCCCTTTAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* *
59472467 TGACCATAATGCCCCTGTAGGATAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* *
59472494 TGACCGTAATACCCCTGAAGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
** * *
59472521 TGATTGTAATGCCCCTGAAGGGTAAGA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
* * * *
59472548 TAATCGTAATACCCCTGTATGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAA
59472575 TGAC
1 TGAC
59472579 GATTATGCCC
Statistics
Matches: 485, Mismatches: 57, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
26 20 0.04
27 465 0.96
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (27 bp):
TGACCGTAATGCCCCTGTAGGGTAAAA
Found at i:59472758 original size:27 final size:26
Alignment explanation
Indices: 59472714--59472797 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
59472704 ATGGAGGAAG
* *
59472714 TACTGTACTGGTGACTATGTCAC-AT
1 TACTGTACTGGTGGCTATGCCACAAT
59472739 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTG-TACTGGTGGCTATGCCACAAT
* * *
59472767 TACTGATACTGGTGGATTTGCCACATT
1 TACTG-TACTGGTGGCTATGCCACAAT
59472794 TACT
1 TACT
59472798 ATTTCTGGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.02
26 4 0.08
27 42 0.84
28 3 0.06
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACAAT
Found at i:59472992 original size:28 final size:28
Alignment explanation
Indices: 59472969--59473100 Score: 185
Period size: 28 Copynumber: 4.7 Consensus size: 28
59472959 GATACTACAT
* **
59472969 TGGGCTTAGGCCCACACTGTTACTTTAT-
1 TGGGCTTAGGCCCAGACTGTTAC-CGATC
* *
59472997 AGGGCTAAGGCCCAGACTGTTACCGATC
1 TGGGCTTAGGCCCAGACTGTTACCGATC
*
59473025 TGGGCTTAGGGCCAGACTGTTACCGATC
1 TGGGCTTAGGCCCAGACTGTTACCGATC
59473053 TGGGCTTAGGCCCAGACTGTTACCGATC
1 TGGGCTTAGGCCCAGACTGTTACCGATC
*
59473081 TGGGCTTAGGCTCAGACTGT
1 TGGGCTTAGGCCCAGACTGT
59473101 GTTATTCACT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
27 2 0.02
28 91 0.98
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.27
Consensus pattern (28 bp):
TGGGCTTAGGCCCAGACTGTTACCGATC
Found at i:59478363 original size:29 final size:29
Alignment explanation
Indices: 59478331--59478465 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
59478321 ATACCCTCCG
** * *
59478331 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
59478360 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
59478389 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
59478418 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
59478447 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
59478466 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:59478398 original size:58 final size:58
Alignment explanation
Indices: 59478277--59478466 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
59478267 TACTCGATTT
* * * *** *
59478277 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
59478335 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
59478393 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
59478451 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
59478467 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:59478539 original size:18 final size:19
Alignment explanation
Indices: 59478499--59478536 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59478489 TTGCCCGCAC
59478499 ACTTAGTGCCGAAAGCAAA
1 ACTTAGTGCCGAAAGCAAA
59478518 ACTTAGTGCCGAAAGCAAA
1 ACTTAGTGCCGAAAGCAAA
59478537 CTTTCTACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (19 bp):
ACTTAGTGCCGAAAGCAAA
Found at i:59478614 original size:2 final size:2
Alignment explanation
Indices: 59478607--59478637 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59478597 CATTTTCATT
59478607 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59478638 CATCCCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59482648 original size:16 final size:17
Alignment explanation
Indices: 59482627--59482670 Score: 72
Period size: 16 Copynumber: 2.6 Consensus size: 17
59482617 GAGTGTCAAA
59482627 AATGAAAGTTGATT-GT
1 AATGAAAGTTGATTAGT
59482643 AATGAAAGTTGATTAGGT
1 AATGAAAGTTGATTA-GT
59482661 AATGAAAGTT
1 AATGAAAGTT
59482671 TGTGAGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 14 0.54
18 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (17 bp):
AATGAAAGTTGATTAGT
Found at i:59486469 original size:40 final size:40
Alignment explanation
Indices: 59486342--59486471 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
59486332 ATGCTGGAAA
* * * *
59486342 TTATATCCTGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
59486382 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
59486422 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
59486462 TTATATCCGG
1 TTATATCCGG
59486472 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:59488090 original size:26 final size:26
Alignment explanation
Indices: 59488061--59488121 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
59488051 GCAGGTTTCG
*
59488061 TGCCGGTGTATATTTAGCAAGCTTCA
1 TGCCGGTGTATACTTAGCAAGCTTCA
** * *
59488087 TGCCAATGTATACTTAGCAGGCTTCG
1 TGCCGGTGTATACTTAGCAAGCTTCA
*
59488113 TGCTGGTGT
1 TGCCGGTGT
59488122 TTTCAGATGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (26 bp):
TGCCGGTGTATACTTAGCAAGCTTCA
Found at i:59504804 original size:23 final size:24
Alignment explanation
Indices: 59504774--59504821 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
59504764 TCTTTAAGCT
59504774 ACCAAAAC-ATGC-CAATTCATCAA
1 ACCAAAACTAT-CACAATTCATCAA
*
59504797 ACCAAAACTATCACAATTTATCAA
1 ACCAAAACTATCACAATTCATCAA
59504821 A
1 A
59504822 TTCCAAATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.21
Consensus pattern (24 bp):
ACCAAAACTATCACAATTCATCAA
Found at i:59505618 original size:42 final size:42
Alignment explanation
Indices: 59505506--59505672 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 42
59505496 GAAAAGCTCG
* * *
59505506 TACAATGCAAACGTCCCAAAAGTGGTCTTACATGTAATCAAA
1 TACAATGCCAACGTCCCAAAAGTGGTCTTACACGAAATCAAA
* *
59505548 TATCGATGCC-ACTGTCCCAAATAG-GGTCTTACACGAAATCATA
1 TA-CAATGCCAAC-GTCCCAAA-AGTGGTCTTACACGAAATCAAA
* *
59505591 TACAATGCCAACGTCCCAGACGTGGTCTTACACGCAAATCTCAAA
1 TACAATGCCAACGTCCCAAAAGTGGTCTTACACG-AAA--TCAAA
* * * *
59505636 TA-GATGCCAACGT-CCAGACGTAGTCTTACACGAAATC
1 TACAATGCCAACGTCCCAAAAGTGGTCTTACACGAAATC
59505673 TCATATCGGA
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 31 0.29
43 54 0.51
44 12 0.11
45 6 0.06
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAAAAGTGGTCTTACACGAAATCAAA
Found at i:59510845 original size:40 final size:40
Alignment explanation
Indices: 59510801--59510952 Score: 214
Period size: 40 Copynumber: 3.8 Consensus size: 40
59510791 ATATCACGAT
59510801 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
*
59510841 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
** * * * *
59510881 TTGCATGAATGCCTTCGGGTCTTAGTCCGGATATAGCTAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
* * *
59510921 TAGCACAATTGCCTTCGGGTCTTAACCCGGAT
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
59510953 ATAAATTTCA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
Found at i:59510871 original size:80 final size:79
Alignment explanation
Indices: 59510776--59510994 Score: 228
Period size: 80 Copynumber: 2.7 Consensus size: 79
59510766 CCAAGGCCAA
* * * *
59510776 CGGGACTTTACCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 CGGGTCTTAACCCGGATAT-ACAATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
*
59510841 TTGCACGAA-TGCCTT
65 TAGCAC-AATTGCCTT
* * * ** * * *
59510856 CGGGTCTTAGCCCGGATTTAACAACTTGCATGAATGCCTTCGGGTCTTAGTCCGGATATAGCTAC
1 CGGGTCTTAACCCGGATAT-ACAATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
59510921 TAGCACAATTGCCTT
65 TAGCACAATTGCCTT
* *
59510936 CGGGTCTTAACCCGGATATA-AATTT-CAGCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 CGGGTCTTAACCCGGATATACAATTTGCA-CA-AA-TGCCTTCGGGTCTTAGCCCGGATAT
59510995 CATTCAATTT
Statistics
Matches: 113, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
77 2 0.02
78 4 0.04
79 5 0.04
80 102 0.90
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (79 bp):
CGGGTCTTAACCCGGATATACAATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT
AGCACAATTGCCTT
Found at i:59510953 original size:40 final size:39
Alignment explanation
Indices: 59510786--59510956 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 39
59510776 CGGGACTTTA
* * *
59510786 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCAC-AATGCCTTCGGGTCTTAG
*
59510826 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCAC-AATGCCTTCGGGTCTTAG
* *
59510866 CCCGGATTTAACAACTTGCATGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCA-CAATGCCTTCGGGTCTTAG
* * * * *
59510906 TCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAA-TGCCTTCGGGTCTTAG
59510946 CCCGGATATAA
1 CCCGGATATAA
59510957 ATTTCAGCAT
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 112 0.98
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (39 bp):
CCCGGATATAACAACTTGCACAATGCCTTCGGGTCTTAG
Found at i:59510971 original size:40 final size:40
Alignment explanation
Indices: 59510810--59510994 Score: 159
Period size: 40 Copynumber: 4.6 Consensus size: 40
59510800 TTTGCACAAA
* *
59510810 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTT--GCACGAA-
1 TGCCTTCGGGTCTTAGCCCGGATAT-A-AACTTCAGCA-TAAT
*
59510850 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTT--GCATGAA-
1 TGCCTTCGGGTCTTAGCCCGGATAT-A-AACTTCAGCAT-AAT
* * * *
59510890 TGCCTTCGGGTCTTAGTCCGGATAT-AGCTACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAAACTTC-AGCATAAT
* *
59510930 TGCCTTCGGGTCTTAACCCGGATATAAATTTCAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAAACTTCAGCATAAT
* *
59510970 TGTCTTCGGGGCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
59510995 CATTCAATTT
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
37 3 0.02
39 2 0.02
40 116 0.94
41 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAAACTTCAGCATAAT
Found at i:59516167 original size:46 final size:46
Alignment explanation
Indices: 59516117--59516292 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
59516107 TGGTTGAGCA
59516117 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59516163 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59516208 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
59516256 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59516293 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59516273 original size:93 final size:93
Alignment explanation
Indices: 59516114--59516283 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
59516104 GGATGGTTGA
* *
59516114 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59516179 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59516207 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59516272 TGAGTCCGAGTT
66 TGAGTCCGAGTT
59516284 TGCTTATGGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59519611 original size:43 final size:44
Alignment explanation
Indices: 59519563--59519682 Score: 167
Period size: 43 Copynumber: 2.8 Consensus size: 44
59519553 TGTATACACA
*
59519563 TGTCCCAGACGTGGTCTTACATGTA-ATCACATATCAATGCC-AC
1 TGTCCCAGACGTGGTCTTACATG-AGAACACATATCAATGCCAAC
* *
59519606 TGTCCCAGACAG-GGTCTTACACGAGAACACATATCGATGCCAAC
1 TGTCCCAGAC-GTGGTCTTACATGAGAACACATATCAATGCCAAC
59519650 -GTCCCAGACGTGGTCTTACATGAGAACACATAT
1 TGTCCCAGACGTGGTCTTACATGAGAACACATAT
59519683 AAAAAATCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
42 2 0.03
43 64 0.93
44 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
TGTCCCAGACGTGGTCTTACATGAGAACACATATCAATGCCAAC
Found at i:59529219 original size:13 final size:13
Alignment explanation
Indices: 59529201--59529227 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59529191 GATACTTTCA
59529201 CTTTCTTTAATGG
1 CTTTCTTTAATGG
59529214 CTTTCTTTAATGG
1 CTTTCTTTAATGG
59529227 C
1 C
59529228 ATGTATAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (13 bp):
CTTTCTTTAATGG
Found at i:59532610 original size:43 final size:42
Alignment explanation
Indices: 59532546--59532713 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 42
59532536 GAAAAGCTCG
** * *
59532546 TACAATGCCAACATCCCAGACATGGTCTTACATGTAATCAAATA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATC--ATA
* *
59532590 TA-AATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCATA
* * * *
59532631 TACGATGCTAATGTCCCAGATATGGTCTTACACATAAATC-TCA
1 TACAATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCAT-A
* * * *
59532674 AATCGATGTCAACGTCCCAGACATGGTCTTACACGAAATC
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATC
59532714 TCATATCGGA
Statistics
Matches: 102, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
41 5 0.05
42 26 0.25
43 42 0.41
44 29 0.28
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCATA
Found at i:59535002 original size:79 final size:80
Alignment explanation
Indices: 59534866--59535083 Score: 223
Period size: 79 Copynumber: 2.8 Consensus size: 80
59534856 GAATCACGTA
*** * **
59534866 CCTTCGGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTAT
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-T
*
59534928 AGTAACTCGCACGAATG
64 AGTAACTCGCACGAACG
* *
59534945 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTA
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
*
59535008 TTAACTCGCACGAACG
65 GTAACTCGCACGAACG
** * * *
59535024 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTACGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
59535084 CATCATTCAA
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 62 0.54
80 50 0.43
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAG
TAACTCGCACGAACG
Found at i:59535083 original size:40 final size:39
Alignment explanation
Indices: 59534892--59535083 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 39
59534882 GGATATAACG
* ** *
59534892 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
59534932 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
59534972 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
59535011 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
* *
59535051 ACTTAGCACAAAGCCTACGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
59535084 CATCATTCAA
Statistics
Matches: 125, Mismatches: 20, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 82 0.66
41 10 0.08
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:59539691 original size:40 final size:40
Alignment explanation
Indices: 59539617--59539835 Score: 345
Period size: 40 Copynumber: 5.5 Consensus size: 40
59539607 AACCCAAGTA
* *
59539617 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
59539656 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59539696 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59539736 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
59539776 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59539815 CCTTTGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
59539836 GTCATCCGAA
Statistics
Matches: 168, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 34 0.20
40 133 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59543409 original size:47 final size:45
Alignment explanation
Indices: 59543358--59543545 Score: 164
Period size: 49 Copynumber: 4.0 Consensus size: 45
59543348 TTAGGATTTT
* *
59543358 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATGTG-G-TAAAGCCGAATGGCCA
* *
59543405 ATGTGGTGAATATGAACATGCATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATATGAACATGCATATGTGGTAAAGCCGAATGGCCA
* * *
59543450 ATGTGAAATATATATATGAGATATGCATATGTGGTAAAGCCGAATGG-TA
1 ATGTG--AT-GA-ATATGA-ACATGCATATGTGGTAAAGCCGAATGGCCA
* * *
59543499 ATGTGAAATGTATGTATGAGATATGTATATGTGGTAAAG-CGAATGGC
1 ATGTG--ATG-A-ATATGA-ACATGCATATGTGGTAAAGCCGAATGGC
59543546 TAGTGTGAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
45 19 0.15
46 1 0.01
47 27 0.22
48 8 0.07
49 42 0.34
50 26 0.21
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.29
Consensus pattern (45 bp):
ATGTGATGAATATGAACATGCATATGTGGTAAAGCCGAATGGCCA
Found at i:59543505 original size:49 final size:49
Alignment explanation
Indices: 59543414--59543558 Score: 213
Period size: 49 Copynumber: 3.0 Consensus size: 49
59543404 AATGTGGTGA
*
59543414 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGT-AATGTGAAATATAT
*
59543463 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTAATGTGAAATGTAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTAATGTGAAATATAT
* * *
59543512 GTATGAGATATGTATATGTGGTAAAG-CGAATGGCTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGG-TAATGTGAAATAT
59543559 GTAGGCGATG
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
48 7 0.08
49 54 0.61
50 27 0.31
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (49 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTAATGTGAAATATAT
Found at i:59543815 original size:37 final size:37
Alignment explanation
Indices: 59543707--59543815 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
59543697 GGAAATATAT
*
59543707 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
59543744 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
59543781 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
59543816 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:59545135 original size:40 final size:40
Alignment explanation
Indices: 59545080--59545344 Score: 382
Period size: 40 Copynumber: 6.8 Consensus size: 40
59545070 GAGAATTGAG
59545080 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
59545120 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
59545160 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59545200 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
59545240 AGTGATGTATCCGGGCTATGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
59545280 AGTGATATAT-C-TG-T--GCCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
59545315 GGTGTTATATCCGGGCTAGGT--CGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
59545345 ATCATGCTGG
Statistics
Matches: 203, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
35 27 0.13
36 1 0.00
37 2 0.01
38 11 0.05
39 1 0.00
40 161 0.79
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:59549550 original size:47 final size:45
Alignment explanation
Indices: 59549499--59549688 Score: 164
Period size: 50 Copynumber: 4.0 Consensus size: 45
59549489 TTAGGATTTT
* *
59549499 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATGTG-G-TAAAGCCGAATGGCCA
* *
59549546 ATGTGGTGAATATGAACATGCATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATATGAACATGCATATGTGGTAAAGCCGAATGGCCA
* * * **
59549591 ATGTGAAATATATATATGAGATATGCATATATGGTAAAGCCGAATGGTTA
1 ATGTG--AT-GA-ATATGA-ACATGCATATGTGGTAAAGCCGAATGGCCA
* * *
59549641 ATGTGAAATGTATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 ATGTG--ATG-A-ATATGA-ACATGCATATGTGGTAAAGCCGAATGGC
59549689 TAGTGTGAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
45 19 0.15
46 1 0.01
47 27 0.22
48 1 0.01
49 6 0.05
50 69 0.56
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (45 bp):
ATGTGATGAATATGAACATGCATATGTGGTAAAGCCGAATGGCCA
Found at i:59549629 original size:50 final size:50
Alignment explanation
Indices: 59549555--59549701 Score: 208
Period size: 50 Copynumber: 3.0 Consensus size: 50
59549545 AATGTGGTGA
*
59549555 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* * *
59549604 ATATGAGATATGCATATATGGTAAAGCCGAATGGTTAATGTGAAATGTAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* * *
59549654 GTATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
59549702 GTAGGCAATG
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
49 6 0.07
50 80 0.93
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:59549958 original size:37 final size:37
Alignment explanation
Indices: 59549854--59549958 Score: 183
Period size: 37 Copynumber: 2.8 Consensus size: 37
59549844 AATATATTCC
*
59549854 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
59549891 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
59549928 GGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
59549959 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:59557995 original size:29 final size:29
Alignment explanation
Indices: 59557956--59558030 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
59557946 GGTTGAGAGA
* *
59557956 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
59557985 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
59558014 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
59558031 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:59562070 original size:34 final size:34
Alignment explanation
Indices: 59562027--59562096 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
59562017 TTTGATTCAC
59562027 TTTATCTATCTCCATCTCTTGCAATTTTAATTCT
1 TTTATCTATCTCCATCTCTTGCAATTTTAATTCT
*
59562061 TTTATCTATCTCTATCTCTTGCAATTTTAATTCT
1 TTTATCTATCTCCATCTCTTGCAATTTTAATTCT
59562095 TT
1 TT
59562097 GTTTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.21, G:0.03, T:0.56
Consensus pattern (34 bp):
TTTATCTATCTCCATCTCTTGCAATTTTAATTCT
Found at i:59564878 original size:30 final size:30
Alignment explanation
Indices: 59564844--59564900 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
59564834 CGAGCCTAGA
59564844 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
* * * *
59564874 GGCAAAATTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
59564901 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGG
Found at i:59565679 original size:68 final size:68
Alignment explanation
Indices: 59565606--59565753 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 68
59565596 CATCATGTGT
* * * *
59565606 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
59565669 TGTAG
64 TGTAG
* * * *
59565674 ACAAGAGAGCT--ATGGCATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
59565737 GTAG
65 GTAG
59565741 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
59565754 GAGATAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
64 24 0.36
65 3 0.04
66 6 0.09
67 23 0.34
68 11 0.16
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:59565710 original size:64 final size:64
Alignment explanation
Indices: 59565630--59565812 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
59565620 AGACATTATG
* * *
59565630 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATG-GCATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAG-ATAA
* * * * *
59565694 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59565759 AA
63 AA
* * *
59565761 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAG
59565813 TCGAACTATA
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 25 0.26
66 21 0.22
67 31 0.32
68 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59571623 original size:13 final size:14
Alignment explanation
Indices: 59571607--59571642 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
59571597 CAATATCATA
59571607 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
59571620 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
59571633 TCTC-ATTTCA
1 TCTCAATTTCA
59571643 TTCCAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:59571765 original size:23 final size:23
Alignment explanation
Indices: 59571739--59571796 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
59571729 GTGGATTCCT
*
59571739 CCCAAACATACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
59571762 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
59571785 CCCAAACACACC
1 CCCAAACACACC
59571797 CGGAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.47, C:0.41, G:0.03, T:0.09
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:59572318 original size:15 final size:15
Alignment explanation
Indices: 59572298--59572344 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
59572288 TAATATATAT
59572298 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
59572313 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
59572328 TTCAATCAATATAAA
1 TTCAATCAATATAAA
59572343 TT
1 TT
59572345 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:59573428 original size:13 final size:13
Alignment explanation
Indices: 59573410--59573441 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
59573400 TTTTATTTCA
59573410 TTTATTTCTTTAT
1 TTTATTTCTTTAT
59573423 TTTATTTCTTTAT
1 TTTATTTCTTTAT
59573436 TTTATT
1 TTTATT
59573442 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:59580018 original size:93 final size:93
Alignment explanation
Indices: 59579905--59580213 Score: 503
Period size: 93 Copynumber: 3.3 Consensus size: 93
59579895 CGCCCATAAG
* * * *
59579905 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
59579970 ACGAGTTCGGACGCGTAGTTACATCTCA
66 ACGAGTTCGGATGCGTAGTTACATCTCA
* *
59579998 CGAACTTGGACTCAACTCAACGAGCTTAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
59580063 ACAAGTTCGGATGAC-TAGTTACATCTCA
66 ACGAGTTCGGATG-CGTAGTTACATCTCA
*
59580091 CGAACTCGGACTCAACTCAACGAACTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
59580156 ACGAGTTCGGATGTGTAGTTACATCTCA
66 ACGAGTTCGGATGCGTAGTTACATCTCA
*
59580184 CGAACTCGGACTCAACTCAACGAGTTCAGA
1 CGAACTCGGACTCAACTCAACGAGCTCAGA
59580214 TGCCCAAATA
Statistics
Matches: 199, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
93 198 0.99
94 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCGTAGTTACATCTCA
Found at i:59580020 original size:47 final size:45
Alignment explanation
Indices: 59579905--59580210 Score: 200
Period size: 46 Copynumber: 6.6 Consensus size: 45
59579895 CGCCCATAAG
* * *
59579905 CGAACTCGGACTCAACTCAACGAGCTCGG-GC--GTTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGAGCTAGTT-ACAT-C-TCA
*
59579950 GTGAACTCGGACTCAACTCAACGAGTTCGGACGCGTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGA-GC-TAGTTACATCTCA
* * * *
59579998 CGAACTTGGACTCAACTCAACGAGCTT-AGA-C-A-TTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAG-TTCGGAGCTAGTT-ACAT-C-TCA
* * *
59580043 GTGAACTCAGACTCAACTCAACAAGTTCGGATGACTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGA-G-CTAGTTACATCTCA
** * * *
59580091 CGAACTCGGACTCAACTCAACGAACTCAGA-C-A-TTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGAGCTAGTT-ACAT-C-TCA
* * *
59580136 GTGAACTCAGACTCAACTCAACGAGTTCGGATGTGTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGA-G-CTAGTTACATCTCA
59580184 CGAACTCGGACTCAACTCAACGAGTTC
1 CGAACTCGGACTCAACTCAACGAGTTC
59580211 AGATGCCCAA
Statistics
Matches: 201, Mismatches: 34, Indels: 49
0.71 0.12 0.17
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 3 0.01
45 7 0.03
46 74 0.37
47 73 0.36
48 10 0.05
49 4 0.02
50 11 0.05
51 7 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGAGCTAGTTACATCTCA
Found at i:59581695 original size:17 final size:17
Alignment explanation
Indices: 59581673--59581715 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
59581663 GGGGCTAAAA
59581673 TCGGGCCCAATGGGCTT
1 TCGGGCCCAATGGGCTT
59581690 TCGGGCCCAATGGGCTT
1 TCGGGCCCAATGGGCTT
59581707 TCGGGCCCA
1 TCGGGCCCA
59581716 GTTGGGTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.12, C:0.33, G:0.35, T:0.21
Consensus pattern (17 bp):
TCGGGCCCAATGGGCTT
Found at i:59581997 original size:25 final size:25
Alignment explanation
Indices: 59581969--59582019 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
59581959 CCCTTATAAT
* * *
59581969 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
59581994 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
59582019 G
1 G
59582020 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:59582075 original size:10 final size:10
Alignment explanation
Indices: 59582060--59582098 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
59582050 TACTTTTGTA
59582060 CATGATATGC
1 CATGATATGC
59582070 CATGATATGC
1 CATGATATGC
59582080 ACATGATATGC
1 -CATGATATGC
59582091 CATGATAT
1 CATGATAT
59582099 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:59582084 original size:21 final size:21
Alignment explanation
Indices: 59582059--59582098 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
59582049 CTACTTTTGT
59582059 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
59582080 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
59582099 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:59582202 original size:24 final size:25
Alignment explanation
Indices: 59582143--59582202 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
59582133 AGAGGAAGTG
59582143 CTAAAAGGGCTTTGCCCCAGTTTAT
1 CTAAAAGGGCTTTGCCCCAGTTTAT
*
59582168 CGAAAAGGGCTTTGCCCCAG-TTAT
1 CTAAAAGGGCTTTGCCCCAGTTTAT
59582192 -TAAAAGAGGCT
1 CTAAAAG-GGCT
59582203 AGGCCCAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 5 0.16
24 8 0.25
25 19 0.59
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (25 bp):
CTAAAAGGGCTTTGCCCCAGTTTAT
Found at i:59590244 original size:39 final size:40
Alignment explanation
Indices: 59590127--59590309 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
59590117 GCTACTCGTT
*
59590127 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
59590167 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
59590207 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
59590246 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
59590287 CAAAAGACTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
59590310 AGATATCATT
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 63 0.52
41 22 0.18
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:59590271 original size:79 final size:81
Alignment explanation
Indices: 59590127--59590315 Score: 224
Period size: 79 Copynumber: 2.4 Consensus size: 81
59590117 GCTACTCGTT
* *
59590127 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
59590192 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* * **
59590207 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAGCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
59590269 GGATATAGTCACTTAGCA
64 GGATATAGTAACTTAGCA
* * *
59590287 CAAAAGACTTCGGGACTTAGCCCAGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
59590316 CATTCGAATA
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
78 4 0.04
79 47 0.52
80 28 0.31
81 11 0.12
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:59592827 original size:25 final size:25
Alignment explanation
Indices: 59592799--59592849 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
59592789 CCCTTATAAT
* * *
59592799 GTGAAAATGACCTTTTTATCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
59592824 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
59592849 G
1 G
59592850 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:59592904 original size:10 final size:10
Alignment explanation
Indices: 59592889--59592927 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
59592879 CTGCTTTGTA
59592889 CATGATATGC
1 CATGATATGC
59592899 CATGATATGC
1 CATGATATGC
59592909 ACATGATATGC
1 -CATGATATGC
59592920 CATGATAT
1 CATGATAT
59592928 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:59592914 original size:21 final size:21
Alignment explanation
Indices: 59592888--59592927 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
59592878 ACTGCTTTGT
59592888 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
59592909 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
59592928 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:59594621 original size:8 final size:8
Alignment explanation
Indices: 59594608--59594668 Score: 76
Period size: 8 Copynumber: 8.0 Consensus size: 8
59594598 TTATGTTTAA
59594608 TATATTAT
1 TATATTAT
59594616 TATATTAT
1 TATATTAT
59594624 TATATTAT
1 TATATTAT
*
59594632 TATA-TAA
1 TATATTAT
59594639 TATATT-T
1 TATATTAT
59594646 TATATTA-
1 TATATTAT
59594653 TAT-TATAT
1 TATAT-TAT
59594661 TATATTAT
1 TATATTAT
59594669 ATAAACTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
6 1 0.02
7 17 0.37
8 27 0.59
9 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATATTAT
Found at i:59594623 original size:5 final size:5
Alignment explanation
Indices: 59594613--59594670 Score: 66
Period size: 5 Copynumber: 11.6 Consensus size: 5
59594603 TTTAATATAT
* *
59594613 TATTA TATTA T-TATA TTATTA TATAA TA-TA TTTTA TATTA TATTA TATTA
1 TATTA TATTA TAT-TA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA
59594663 TATTA TAT
1 TATTA TAT
59594671 AAACTAAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 3 0.07
5 38 0.84
6 3 0.07
7 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:59594637 original size:10 final size:10
Alignment explanation
Indices: 59594607--59594671 Score: 50
Period size: 10 Copynumber: 6.5 Consensus size: 10
59594597 TTTATGTTTA
59594607 ATATATTA-T
1 ATATATTATT
59594616 -TATATTATT
1 ATATATTATT
59594625 ATATTATTATAT
1 ATA-TATTAT-T
59594637 AATATATT-TT
1 -ATATATTATT
59594647 ATAT-TATATT
1 ATATAT-TATT
59594657 ATAT-TATATT
1 ATATAT-TATT
59594667 ATATA
1 ATATA
59594672 AACTAAAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
8 8 0.17
9 6 0.12
10 19 0.40
11 7 0.15
12 5 0.10
13 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATATATTATT
Found at i:59594671 original size:22 final size:22
Alignment explanation
Indices: 59594608--59594671 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
59594598 TTATGTTTAA
59594608 TATATTATTATATTATTATATTAT
1 TATA-TATTATATTA-TATATTAT
* *
59594632 TATATAATATATTTTATATTA-
1 TATATATTATATTATATATTAT
59594653 TATTATATTATATTATATA
1 TA-TATATTATATTATATA
59594672 AACTAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.06
22 21 0.60
23 8 0.23
24 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATATATTATATTATATATTAT
Found at i:59595013 original size:15 final size:15
Alignment explanation
Indices: 59594993--59595049 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
59594983 CGATGAATTT
59594993 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
59595008 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
59595023 ATTGAATTTATATTG
1 ATTGAATTTATATTG
59595038 ATTGAA-TTATAT
1 ATTGAATTTATAT
59595050 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:59595452 original size:23 final size:23
Alignment explanation
Indices: 59595422--59595508 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
59595412 GCTTTATCGA
* *
59595422 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
59595445 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
59595466 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
59595488 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
59595509 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:59601726 original size:46 final size:46
Alignment explanation
Indices: 59601659--59601926 Score: 201
Period size: 46 Copynumber: 5.8 Consensus size: 46
59601649 TGTAACCCGC
*
59601659 CCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
59601705 CCATAAGTGAGCTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
59601755 -C-TCA-CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * * * **
59601798 CCATAAGTGAACTCAGACTCAACTCAACAAGTTTGGATGCCTAGTT-ATAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * ** *
59601848 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
59601891 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
59601927 ATGCCTAGTT
Statistics
Matches: 168, Mismatches: 36, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
42 4 0.02
43 5 0.03
44 4 0.02
45 4 0.02
46 84 0.50
47 48 0.29
48 5 0.03
49 4 0.02
50 5 0.03
51 5 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:59601775 original size:93 final size:93
Alignment explanation
Indices: 59601667--59601974 Score: 526
Period size: 93 Copynumber: 3.3 Consensus size: 93
59601657 GCCCATAAGA
* * *
59601667 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAGCTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59601732 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
59601760 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* * *
59601825 CAAGTTTGGATGCCTAGTTATATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59601853 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59601918 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59601946 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
59601975 TGCCCAAATA
Statistics
Matches: 199, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 199 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59601781 original size:47 final size:47
Alignment explanation
Indices: 59601716--59601978 Score: 258
Period size: 47 Copynumber: 5.6 Consensus size: 47
59601706 CATAAGTGAG
59601716 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
1 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
* * * * *
59601763 CTCAGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCATAAGTGAA
1 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-CGAA
* * * *
59601809 CTCAGACTCAACTCAACAAGTTTGGATGCCTAGTTATATCTCACGAA
1 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
* * * * *
59601856 CTCGGACTCAACTCAACGAGCTC-GA--AC-A-TTCGCATCCATAAGTGAA
1 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-CGAA
59601902 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
1 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
59601949 CTCGGACTCAACTCAACGAGTTCGGATGCC
1 CTCGGACTCAACTCAACGAGTTCGGATGCC
59601979 CAAATATCCT
Statistics
Matches: 172, Mismatches: 26, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.02
43 7 0.04
44 4 0.02
45 4 0.02
46 53 0.31
47 81 0.47
48 4 0.02
49 4 0.02
50 7 0.04
51 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (47 bp):
CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
Found at i:59604699 original size:93 final size:93
Alignment explanation
Indices: 59604592--59604762 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
59604582 GCCCCTAAGT
* *
59604592 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
59604657 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
59604685 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
59604750 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59604763 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:59604759 original size:46 final size:46
Alignment explanation
Indices: 59604587--59604759 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
59604577 AACCCGCCCC
* * *
59604587 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
59604633 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* *
59604681 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
59604726 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59604760 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Done.