Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 277 of 356
Found at i:90609938 original size:29 final size:28
Alignment explanation
Indices: 90609896--90609958 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
90609886 ATATGTTAGG
*
90609896 ATTTAATTAATTTTTAAAATTTAAAAATA
1 ATTTTATTAA-TTTTAAAATTTAAAAATA
* **
90609925 ATTTTATTGATTTTAATTTTTAAAAATA
1 ATTTTATTAATTTTAAAATTTAAAAATA
90609953 ATTTTA
1 ATTTTA
90609959 ATTTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
ATTTTATTAATTTTAAAATTTAAAAATA
Found at i:90609958 original size:19 final size:19
Alignment explanation
Indices: 90609934--90609986 Score: 99
Period size: 18 Copynumber: 2.8 Consensus size: 19
90609924 AATTTTATTG
90609934 ATTTTAATTTTTAAAAATA
1 ATTTTAATTTTTAAAAATA
90609953 ATTTTAA-TTTTAAAAATA
1 ATTTTAATTTTTAAAAATA
90609971 ATTTTAATTTTTAAAA
1 ATTTTAATTTTTAAAA
90609987 TTTAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 18 0.55
19 15 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATTTTTAAAAATA
Found at i:90610595 original size:55 final size:55
Alignment explanation
Indices: 90610529--90610634 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
90610519 AAGCCGTGGT
* *
90610529 GAGATGGGATATTGAGAGAATATT-TCTTTTTAATGCGTTGATTTGATGTTTTAGC
1 GAGATGAGATATTGAGAGAATATTCT-TTTTTAATGCATTGATTTGATGTTTTAGC
*
90610584 GAGATGAGATATTGAGAGAATATTCTTTTTTACTGCATTGATTTGATGTTT
1 GAGATGAGATATTGAGAGAATATTCTTTTTTAATGCATTGATTTGATGTTT
90610635 GGATAACTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
55 46 0.98
56 1 0.02
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (55 bp):
GAGATGAGATATTGAGAGAATATTCTTTTTTAATGCATTGATTTGATGTTTTAGC
Found at i:90614235 original size:20 final size:19
Alignment explanation
Indices: 90614202--90614241 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
90614192 AATTTAATTT
90614202 TTTTAATTCAAATTTTAAAA
1 TTTTAATTCAAA-TTTAAAA
**
90614222 TTTTAATTTTAATTTAAAA
1 TTTTAATTCAAATTTAAAA
90614241 T
1 T
90614242 AGTATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATTCAAATTTAAAA
Found at i:90620734 original size:34 final size:35
Alignment explanation
Indices: 90620651--90620814 Score: 145
Period size: 35 Copynumber: 4.7 Consensus size: 35
90620641 TCCTCATTGA
* *
90620651 AATACCATACCTACATTTTACAACTC-GCTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAG-TAT-GGAT
** * **
90620686 AATGTCATATCTACGTTTCTTAACTCAGTA-GGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
90620720 AATACCATACCTACGTTTCACAACTCATTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
90620755 AATACCATACCTATGTTTCACAACTTAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * **
90620790 GATACCACACATATATTTCACAACT
1 AATACCATACCTACGTTTCACAACT
90620815 TTGCCATGGA
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
33 3 0.03
34 24 0.23
35 76 0.73
36 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:90620773 original size:69 final size:70
Alignment explanation
Indices: 90620651--90620814 Score: 168
Period size: 69 Copynumber: 2.4 Consensus size: 70
90620641 TCCTCATTGA
* * ** * **
90620651 AATACCATACCTACATTTTACAACTCGCTATGGGAAATGTCATATCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACATTTCACAACTCACTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
90620716 -GGAT
66 TGGAT
* * ** * *
90620720 AATACCATACCTACGTTTCACAACTCATTATGGTTAATACCATACCTATGTTTCACAACTTAGTA
1 AATACCATACCTACATTTCACAACTCACTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
90620785 TGGAT
66 TGGAT
* * * *
90620790 GATACCACACATATATTTCACAACT
1 AATACCATACCTACATTTCACAACT
90620815 TTGCCATGGA
Statistics
Matches: 76, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
69 52 0.68
70 24 0.32
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (70 bp):
AATACCATACCTACATTTCACAACTCACTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:90627170 original size:29 final size:30
Alignment explanation
Indices: 90627137--90627193 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
90627127 TAAAAAATTG
*
90627137 GCCTAATCCTACAAAT-ATTCAAAAAACCA
1 GCCTAATCCTACAAATAATTAAAAAAACCA
**
90627166 GCCTAATCCTTTAAATAATTAAAAAAAC
1 GCCTAATCCTACAAATAATTAAAAAAAC
90627194 TGCATTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.49, C:0.23, G:0.04, T:0.25
Consensus pattern (30 bp):
GCCTAATCCTACAAATAATTAAAAAAACCA
Found at i:90633535 original size:4 final size:4
Alignment explanation
Indices: 90633526--90633574 Score: 66
Period size: 4 Copynumber: 12.2 Consensus size: 4
90633516 ATTTTAAGGT
90633526 ATAA ATAA ATAA A-ACA ATAA ATAA ATAA ATAA ATAA A-ACA ATAA ATAA
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA
90633574 A
1 A
90633575 GGGTTAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.05
4 37 0.90
5 2 0.05
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:90633546 original size:12 final size:12
Alignment explanation
Indices: 90633529--90633574 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
90633519 TTAAGGTATA
90633529 AATAAATAAAAC
1 AATAAATAAAAC
90633541 AATAAATAAATA-
1 AATAAATAAA-AC
90633553 AATAAATAAAAC
1 AATAAATAAAAC
90633565 AATAAATAAA
1 AATAAATAAA
90633575 GGGTTAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAAATAAAAC
Found at i:90633553 original size:24 final size:24
Alignment explanation
Indices: 90633526--90633574 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
90633516 ATTTTAAGGT
90633526 ATAAATAAATAAAACAATAAATAA
1 ATAAATAAATAAAACAATAAATAA
90633550 ATAAATAAATAAAACAATAAATAA
1 ATAAATAAATAAAACAATAAATAA
90633574 A
1 A
90633575 GGGTTAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (24 bp):
ATAAATAAATAAAACAATAAATAA
Found at i:90634523 original size:14 final size:16
Alignment explanation
Indices: 90634497--90634535 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
90634487 TTTCTGTCTC
90634497 TCTGT-TTTC-TTGCT
1 TCTGTGTTTCTTTGCT
90634511 T-T-TGTTTCTTTGCT
1 TCTGTGTTTCTTTGCT
90634525 TCTGTGTTTCT
1 TCTGTGTTTCT
90634536 ACTTTTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
12 1 0.05
13 5 0.24
14 7 0.33
15 1 0.05
16 7 0.33
ACGTcount: A:0.00, C:0.18, G:0.15, T:0.67
Consensus pattern (16 bp):
TCTGTGTTTCTTTGCT
Found at i:90635215 original size:94 final size:94
Alignment explanation
Indices: 90635099--90636075 Score: 981
Period size: 94 Copynumber: 10.4 Consensus size: 94
90635089 TTTTTGTCGT
* * * * * *
90635099 TTCAAT-TCGACCCACTACAACTTCTGGGGTATAAGATTTGTAGCTTC-ACCTTACTCCATTGCA
1 TTCAATCT-GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATC-TACTCCACTACA
* * *
90635162 ACTTTAGGGAGATAATATTTTCTATGGTAGA
64 ACTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * * ** *
90635193 TTCAATCTAACCCACTGTAACTTCAAGGATATAGGATTTGTAGCTTCAATCTACTTTACTATAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAAC
*
90635258 TTCAGGGAGATAAGGTTTGCTATGGTAGA
66 TTCAGGGAGATAAGATTTGCTATGGTAGA
* * * *
90635287 TTCAAT-TCGACCCACTGCAACTTCATGGGTATAGGATTTGCAGCTTAAATCTACTCTACTACAA
1 TTCAATCT-GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAA
* * * *
90635351 CTTTAGGGAGACAAGATTTGCTATGCTAAA
65 CTTCAGGGAGATAAGATTTGCTATGGTAGA
** * * * * * *
90635381 TTCAATCTGACCTGCCG-AAGCTTTAGGGGTATAGGATTTATAGCTTAAATCTCCTCCACTGCAA
1 TTCAATCTGACCCACTGCAA-CTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAA
* *
90635445 CTTCAGAGAGATAAGATTCGCTATGGTAGA
65 CTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * * * * *
90635475 TTCAATCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTC-ACCTTACTCTATTGCAA
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATC-TACTCCACTACAA
* * *
90635539 CTTCAGGGAGATAATATTTGCTATGATAGC
65 CTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * * * * *
90635569 TTCAAT-TCGATCCGCTGCAACTTCAGGGGTATAGGATTTGTAACTTTAATCTTCTCCACCATAA
1 TTCAATCT-GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAA
* * * **
90635633 TTTTAGAGAGATAAGATTCACTATGGTAGA
65 CTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * *
90635663 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGCAGCTTC-ATCTGCTCCACAATAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAAC
* *
90635727 TTTAGGGAGATAAGATATGCTATGGT-GA
66 TTCAGGGAGATAAGATTTGCTATGGTAGA
* * * *
90635755 TTCAAT-TCGACCCACTACAACTTCAGGGGTATAGGATTTTTAGCTTC-ATCTACTACACTGCAA
1 TTCAATCT-GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAA
* * *
90635818 CTTCAGGTAGATAAGATTCGCTATGGTAGT
65 CTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * ** * *
90635848 TTAAATCTGACCCATTGCAACTTTA-GGGTATAAAATCTGTAGCTTCAATCTGCTCCACTACAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAAC
* *
90635912 TTCAGGGAGATAAGATTTACTATGGTGGA
66 TTCAGGGAGATAAGATTTGCTATGGTAGA
* * * * *
90635941 TTTAAT-TCGACCCATTTCAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTGCTCCACTACAA
1 TTCAATCT-GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAA
* * * *
90636005 CTTTAGGGAAATAAGATTCGCTACGGTA-A
65 CTTCAGGGAGATAAGATTTGCTATGGTAGA
*
90636034 CTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGGTTTGT
1 -TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGT
90636076 GGTTTCACTG
Statistics
Matches: 721, Mismatches: 144, Indels: 36
0.80 0.16 0.04
Matches are distributed among these distances:
91 1 0.00
92 96 0.13
93 120 0.17
94 494 0.69
95 10 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (94 bp):
TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTACAAC
TTCAGGGAGATAAGATTTGCTATGGTAGA
Found at i:90637283 original size:44 final size:43
Alignment explanation
Indices: 90637189--90637922 Score: 321
Period size: 44 Copynumber: 16.4 Consensus size: 43
90637179 CCACTCTTCC
* * *
90637189 GCAACTTCAGAGAGATAAGACTTATAGCTTCGATCCAT--TCCACT
1 GCAACTTCAGAGAGATAAG-TTTGTAGCTTCAAT--ATGCTCCACT
*
90637233 GCAACTTCAGAGAGATAAGTCTTGTAGCTTCAATATGCTCCGCT
1 GCAACTTCAGAGAGATAAGT-TTGTAGCTTCAATATGCTCCACT
* * *
90637277 GTAACTTCA-AGGAGATGAGATTTGT-GTCTTCAATCTGCTCCACT
1 GCAACTTCAGA-GAGATAAG-TTTGTAG-CTTCAATATGCTCCACT
* * * * * **
90637321 GCAACCTCAGGGAGATAAAGTGTGTAGCTTTAATCTGCTCTGCT
1 GCAACTTCAGAGAGAT-AAGTTTGTAGCTTCAATATGCTCCACT
* * * ** * ** *
90637365 GCAACTTCAAAAAGATAATATTTGCTATTTTTAACCTACTCCACT
1 GCAACTTCAGAGAGATAA-GTTTG-TAGCTTCAATATGCTCCACT
* * * *
90637410 GCAA-TATCAGGGAGATAAGGTTTGCAGCTTTAATCTGCTCCACT
1 GCAACT-TCAGAGAGATAA-GTTTGTAGCTTCAATATGCTCCACT
* * *
90637454 ACAACTTCA-AGGAGATAAGATTTGTAGCTTATCTTCAATCTGTTCCA-T
1 GCAACTTCAGA-GAGATAAG-TTTGTAG-----CTTCAATATGCTCCACT
* * ** * ** *
90637502 AGCAACTTCAGGGAGATAAAATTTGTTTATTTTTAACCTACTCCACT
1 -GCAACTTCAGAGAGAT-AAGTTTG--TAGCTTCAATATGCTCCACT
* * * * * * *
90637549 GCAACTTCAGGGAAATAAGGGTTATAGCTTTAATCTGCTCTACT
1 GCAACTTCAGAGAGATAA-GTTTGTAGCTTCAATATGCTCCACT
* * * * *
90637593 GCAACTTTAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACT
1 GCAACTTCAGAGAGATAAG-TTTG-TAGCTTCAATATGCTCCACT
* * * * * * * *
90637638 GTAACTTTAGGGAGATAAAATCTATAACTTCAATCTGCTCCACT
1 GCAACTTCAGAGAGAT-AAGTTTGTAGCTTCAATATGCTCCACT
* * * * ** * *
90637682 GCAACTTTAGGGAAATAAGATTCGCTATTTTCAGTTTGCTCCACT
1 GCAACTTCAGAGAGATAAG-TTTG-TAGCTTCAATATGCTCCACT
* * * ** *
90637727 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACT
1 GCAACTTCAGAGAGATAAG-TTTGTAGCTTCAATATGCTCCACT
* * * * * *
90637771 GCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTTCTCTACT
1 GCAACTTCAGAGAGATAA-GTTTGTAGCTTCAATATGCTCCACT
* * *
90637815 GCAACTTCAGAGAGATAAGATTTGCTATCTTCTATCTGCTCCACT
1 GCAACTTCAGAGAGATAAG-TTTG-TAGCTTCAATATGCTCCACT
* * * * *
90637860 GCAACTTCAGGGAGATAGGATTTGTGGCTTTAATTTGCTCCACT
1 GCAACTTCAGAGAGATAAG-TTTGTAGCTTCAATATGCTCCACT
* *
90637904 GTAACTTCAGGGAGATAAG
1 GCAACTTCAGAGAGATAAG
90637923 ATGAAATTTT
Statistics
Matches: 532, Mismatches: 123, Indels: 70
0.73 0.17 0.10
Matches are distributed among these distances:
42 2 0.00
43 9 0.02
44 313 0.59
45 143 0.27
46 29 0.05
47 1 0.00
48 1 0.00
49 30 0.06
50 2 0.00
51 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
GCAACTTCAGAGAGATAAGTTTGTAGCTTCAATATGCTCCACT
Found at i:90637439 original size:89 final size:86
Alignment explanation
Indices: 90637227--90637924 Score: 394
Period size: 89 Copynumber: 7.8 Consensus size: 86
90637217 TTCGATCCAT
* * * *
90637227 TCCACTGCAACTTCAGAGAGATAAGTCTTGTAGCTTCAATATGCTCCGCTGTAACTTCAAGGAGA
1 TCCACTGCAA-TTCAGGGAGATAAGT-TTGTAGCTTTAATCTGCTCCGCTGCAACTTCAAGGAGA
* * * *
90637292 TGAGATTTGTGTCTTCAATCTGC
64 TAAGATTTGTATCTTCAACCTAC
* * * **
90637315 TCCACTGCAACCTCAGGGAGATAAAGTGTGTAGCTTTAATCTGCTCTGCTGCAACTTCAAAAAGA
1 TCCACTGCAA-TTCAGGGAGAT-AAGTTTGTAGCTTTAATCTGCTCCGCTGCAACTTCAAGGAGA
* * *
90637380 TAATATTTGCTATTTTTAACCTAC
64 TAAGATTTG-TATCTTCAACCTAC
* * *
90637404 TCCACTGCAATATCAGGGAGATAAGGTTTGCAGCTTTAATCTGCTCCACTACAACTTCAAGGAGA
1 TCCACTGCAAT-TCAGGGAGATAA-GTTTGTAGCTTTAATCTGCTCCGCTGCAACTTCAAGGAGA
* **
90637469 TAAGATTTGTAGCTTATCTTCAATCTGT
64 TAAGA-TT-T-G--TATCTTCAACCTAC
* ** * * * *
90637497 TCCA-TAGCAACTTCAGGGAGATAAAATTTGTTTATTTTTAACCTACTCCACTGCAACTTCAGGG
1 TCCACT-GCAA-TTCAGGGAGAT-AAGTTTG--TAGCTTTAATCTGCTCCGCTGCAACTTCAAGG
* ** * * * * *
90637561 AAATAAGGGTTATAGCTTTAATCTGC
61 AGATAAGATTTGTATCTTCAACCTAC
* * * * ** * * * * *
90637587 TCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGTAACTTTAGGGAG
1 TCCACTGCAA-TTCAGGGAGATAAG-TTTG-TAGCTTTAATCTGCTCCGCTGCAACTTCAAGGAG
* * * * * *
90637652 ATAAAATCTATAACTTCAATCTGC
63 ATAAGATTTGTATCTTCAACCTAC
* * * * * * * *
90637676 TCCACTGCAACTTTAGGGAAATAAGATTCGCTA-TTTTCAGTTTGCTCCACTGCAACTTCAGGGA
1 TCCACTGCAA-TTCAGGGAGATAAG-TTTG-TAGCTTT-AATCTGCTCCGCTGCAACTTCAAGGA
* * *
90637740 GATAAGACTTGTAACTTCAACCTGC
62 GATAAGATTTGTATCTTCAACCTAC
* * * **
90637765 CCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTTCTCTACTGCAACTTC-AGAGAG
1 TCCACTGCAA-TTCAGGGAGATAA-GTTTGTAGCTTTAATCTGCTCCGCTGCAACTTCAAG-GAG
* * *
90637829 ATAAGATTTGCTATCTTCTATCTGC
63 ATAAGATTTG-TATCTTCAACCTAC
* * * * * *
90637854 TCCACTGCAACTTCAGGGAGATAGGATTTGTGGCTTTAATTTGCTCCACTGTAACTTCAGGGAGA
1 TCCACTGCAA-TTCAGGGAGATAAG-TTTGTAGCTTTAATCTGCTCCGCTGCAACTTCAAGGAGA
90637919 TAAGAT
64 TAAGAT
90637925 GAAATTTTAT
Statistics
Matches: 483, Mismatches: 105, Indels: 43
0.77 0.17 0.07
Matches are distributed among these distances:
87 1 0.00
88 94 0.19
89 281 0.58
90 36 0.07
91 2 0.00
92 2 0.00
93 32 0.07
94 4 0.01
95 31 0.06
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (86 bp):
TCCACTGCAATTCAGGGAGATAAGTTTGTAGCTTTAATCTGCTCCGCTGCAACTTCAAGGAGATA
AGATTTGTATCTTCAACCTAC
Found at i:90637922 original size:133 final size:133
Alignment explanation
Indices: 90637189--90637921 Score: 550
Period size: 133 Copynumber: 5.5 Consensus size: 133
90637179 CCACTCTTCC
* * * ** *** * *
90637189 GCAACTTCAGAGAGATAAGACTTATAGCTTCGATCCATTCCACTGCAACTTCAGAGAGAT-AAGT
1 GCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAAT
* * * * * * * * * *
90637253 CTTGTAGCTTCAATATGCTCCGCTGTAACTTCAAGGAGATGAGATTTG-TGTCTTCAATCTGCTC
66 -TTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCTATCTGCTC
90637317 CACT
130 CACT
* * ** *** *
90637321 GCAACCTCAGGGAGATAA-AGTGTGTAGCTTTAATCTGCTCTGCTGCAACTTCAAAAAGATAATA
1 GCAACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAA
* ** * * *
90637385 TTTGCTATTTTTAACCTACTCCACTGCAA-TATCAGGGAGATAAGGTTTGC-AGCTT-TAATCTG
65 TTT-ATAGCTTTAATCTACTCCACTGCAACT-TCAGGGAGATAAGATTTGCTATCTTCT-ATCTG
90637447 CTCCACT
127 CTCCACT
* * *
90637454 ACAACTTCAAGGAGATAAGATTTGTAGCTTATCTTCAATCTGTTCCA-TAGCAACTTCAGGGAGA
1 GCAACTTCAGGGAGATAAGATTTGTAGC---T-TT-AATCTGCTCCACT-GCAACTTCAGGGAGA
* ** * * ** * *
90637518 TAAAATTTGTTTATTTTTAACCTACTCCACTGCAACTTCAGGGAAATAAGGGTT-ATAGCTT-TA
60 TAAAA-TT-TATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCT-
*
90637581 ATCTGCTCTACT
122 ATCTGCTCCACT
* * * ** * * *
90637593 GCAACTTTAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGTAACTTTAGGGAGATAAAA
1 GCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAA
* * * * * * * * *
90637658 TCTATAACTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTCGCTATTTTC-AGTTTGCT
65 TTTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCTA-TCTGCT
90637722 CCACT
129 CCACT
* * * * * **
90637727 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTGCAACTTCAGGGAGATAAGGT
1 GCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAAT
* * *
90637792 TTATAGCTTTAATCTTCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCTATCTGCTCC
66 TTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCTATCTGCTCC
90637857 ACT
131 ACT
* * * *
90637860 GCAACTTCAGGGAGATAGGATTTGTGGCTTTAATTTGCTCCACTGTAACTTCAGGGAGATAA
1 GCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
90637922 GATGAAATTT
Statistics
Matches: 472, Mismatches: 106, Indels: 45
0.76 0.17 0.07
Matches are distributed among these distances:
131 1 0.00
132 47 0.10
133 246 0.52
134 37 0.08
135 26 0.06
136 3 0.01
137 4 0.01
138 24 0.05
139 79 0.17
140 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (133 bp):
GCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAAT
TTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCTATCTGCTCC
ACT
Found at i:90644217 original size:23 final size:23
Alignment explanation
Indices: 90644172--90644249 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
90644162 CAAGGATTAA
*
90644172 AATAATAAATAAATAAATGAATG
1 AATAATAAATAAATAAATAAATG
* **
90644195 AATAATATATAAATACGTAAATG
1 AATAATAAATAAATAAATAAATG
* * *
90644218 AACAAATAAATGAATAAAATAAAAGG
1 AA-TAATAAATAAAT-AAAT-AAATG
90644244 AATAAT
1 AATAAT
90644250 GAGTAAATGA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
23 21 0.51
24 9 0.22
25 5 0.12
26 6 0.15
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (23 bp):
AATAATAAATAAATAAATAAATG
Found at i:90644225 original size:27 final size:26
Alignment explanation
Indices: 90644172--90644240 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
90644162 CAAGGATTAA
**
90644172 AATAATAAATAAATAAATGAATGAAT
1 AATAATAAATAAATAAATGAACAAAT
**
90644198 AATATATAAATACGTAAATGAACAAAT
1 AATA-ATAAATAAATAAATGAACAAAT
90644225 AAATGAATAAAATAAA
1 -AAT-AAT-AAATAAA
90644241 AGGAATAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
26 4 0.12
27 18 0.55
28 5 0.15
29 6 0.18
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (26 bp):
AATAATAAATAAATAAATGAACAAAT
Found at i:90647238 original size:2 final size:2
Alignment explanation
Indices: 90647231--90647272 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
90647221 AAGTTGACTT
90647231 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
90647273 CGAGGCATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:90648884 original size:8 final size:8
Alignment explanation
Indices: 90648871--90648897 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
90648861 AACACTTTGA
90648871 ATTTGTTT
1 ATTTGTTT
90648879 ATTTGTTT
1 ATTTGTTT
90648887 ATTTGTTT
1 ATTTGTTT
90648895 ATT
1 ATT
90648898 CTTCAGCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (8 bp):
ATTTGTTT
Found at i:90649970 original size:17 final size:17
Alignment explanation
Indices: 90649948--90650000 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
90649938 GGAAAACATT
90649948 TATTTTAATGGTTTTAG
1 TATTTTAATGGTTTTAG
***
90649965 TATTTTAA--ACATT--
1 TATTTTAATGGTTTTAG
90649978 TATTTTAATGGTTTTAG
1 TATTTTAATGGTTTTAG
90649995 TATTTT
1 TATTTT
90650001 TTATGTACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 8 0.31
15 4 0.15
17 14 0.54
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.60
Consensus pattern (17 bp):
TATTTTAATGGTTTTAG
Found at i:90649975 original size:30 final size:30
Alignment explanation
Indices: 90649941--90650000 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
90649931 ATTTATTGGA
90649941 AAACATTTATTTTAATGGTTTTAGTATTTT
1 AAACATTTATTTTAATGGTTTTAGTATTTT
90649971 AAACATTTATTTTAATGGTTTTAGTATTTT
1 AAACATTTATTTTAATGGTTTTAGTATTTT
90650001 TTATGTACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (30 bp):
AAACATTTATTTTAATGGTTTTAGTATTTT
Found at i:90650055 original size:14 final size:14
Alignment explanation
Indices: 90650018--90650058 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
90650008 CTATATTTTT
90650018 TAAAAAAATT-ATA
1 TAAAAAAATTAATA
*
90650031 T-AATAAA-TAATA
1 TAAAAAAATTAATA
90650043 TAAAAAAATTAATA
1 TAAAAAAATTAATA
90650057 TA
1 TA
90650059 GATAGGTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 1 0.04
12 9 0.39
13 6 0.26
14 7 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAAAATTAATA
Found at i:90652739 original size:22 final size:22
Alignment explanation
Indices: 90652711--90652759 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
90652701 ACAAAATATT
90652711 CTTACTCTATTAGACTTAACGC
1 CTTACTCTATTAGACTTAACGC
* *
90652733 CTTACTCTATTAGATTTAACGT
1 CTTACTCTATTAGACTTAACGC
90652755 CTTAC
1 CTTAC
90652760 AGGTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (22 bp):
CTTACTCTATTAGACTTAACGC
Found at i:90661746 original size:87 final size:85
Alignment explanation
Indices: 90661591--90661764 Score: 215
Period size: 87 Copynumber: 2.0 Consensus size: 85
90661581 TAGTATACTC
* * *
90661591 AATGATAATATATATAATAAATACATGTATTGCATGTTTACAACAGTGAAGTACAAAGGGAACAT
1 AATGATAATATATATAAGAAATACATGTATTGCATGTTTACAACAATGAAGTACAAAGAGAACAT
90661656 ATTGATGGAATAAATGGAGT
66 ATTGATGGAATAAATGGAGT
* * ** * *
90661676 AATGATAATATATATCTAGGAAATACATGTATTGTATGTTTGTAACAATGGAGTACGAAGAGAA-
1 AATGATAATATATA--TAAGAAATACATGTATTGCATGTTTACAACAATGAAGTACAAAGAGAAC
* *
90661740 ATTATTGATGGGATAGATGGAGT
64 A-TATTGATGGAATAAATGGAGT
90661763 AA
1 AA
90661765 GATTTGGCGG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
85 14 0.19
86 1 0.01
87 60 0.80
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (85 bp):
AATGATAATATATATAAGAAATACATGTATTGCATGTTTACAACAATGAAGTACAAAGAGAACAT
ATTGATGGAATAAATGGAGT
Found at i:90662397 original size:27 final size:27
Alignment explanation
Indices: 90662341--90662482 Score: 108
Period size: 27 Copynumber: 5.3 Consensus size: 27
90662331 AGGGTAGACT
*
90662341 GCCAGGACATTAAACATGGGATAGTGC
1 GCCAGGACATTAAACATGGGATAGTCC
* *
90662368 GCCAGGACATTAAACATGTGATGGTCC
1 GCCAGGACATTAAACATGGGATAGTCC
* * * * *
90662395 GCCAAGATAATAAATAAGGGATAGTCC
1 GCCAGGACATTAAACATGGGATAGTCC
* * * *
90662422 -ACTGAGACAATAAACATGTGATAGTCC
1 GCCAG-GACATTAAACATGGGATAGTCC
* * *
90662449 ACC-GAGACACTAAACATGAGATAGTCC
1 GCCAG-GACATTAAACATGGGATAGTCC
*
90662476 ACCAGGA
1 GCCAGGA
90662483 TAGTAGTTAG
Statistics
Matches: 92, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.01
27 89 0.97
28 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.18
Consensus pattern (27 bp):
GCCAGGACATTAAACATGGGATAGTCC
Found at i:90662472 original size:54 final size:54
Alignment explanation
Indices: 90662373--90662477 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
90662363 AGTGCGCCAG
* * * * * *
90662373 GACATTAAACATGTGATGGTCCGCCAAGATAATAAATAAGGGATAGTCCACTGA
1 GACAATAAACATGTGATAGTCCACCAAGACAATAAACAAGAGATAGTCCACTGA
* * *
90662427 GACAATAAACATGTGATAGTCCACCGAGACACTAAACATGAGATAGTCCAC
1 GACAATAAACATGTGATAGTCCACCAAGACAATAAACAAGAGATAGTCCAC
90662478 CAGGATAGTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (54 bp):
GACAATAAACATGTGATAGTCCACCAAGACAATAAACAAGAGATAGTCCACTGA
Found at i:90682173 original size:17 final size:18
Alignment explanation
Indices: 90682147--90682180 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90682137 AGTCGAATTG
90682147 AAATTACG-AAATTAAAT
1 AAATTACGAAAATTAAAT
*
90682164 AAATTTCGAAAATTAAA
1 AAATTACGAAAATTAAA
90682181 GTGGAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATTACGAAAATTAAAT
Found at i:90682925 original size:20 final size:20
Alignment explanation
Indices: 90682902--90682939 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90682892 TTAAATTCTA
*
90682902 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
90682922 AAAGATAATTAAAAATAA
1 AAAGATAAATAAAAATAA
90682940 CTCTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:90683682 original size:96 final size:97
Alignment explanation
Indices: 90683557--90683735 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 97
90683547 AATTAATTAA
* ** * *
90683557 TTTATTATTGCTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGTACCCCA
1 TTTATTATTGCTTAAGAACATATCAAACCTTTTAACGCGAAGAGAGATGACAACCAAGCACCCCA
90683622 -CCTGGGTTACTCAGCCCAATATGCTCCTAATT
66 CCCT-GGTTACTCAGCCCAATATGCTCCTAATT
* * *
90683654 TTTATT-TTTCTTAAGAACATATCAAACCTTTTAACGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTATTGCTTAAGAACATATCAAACCTTTTAACGCGAAGAGAGATGACAACCAAGCACCCCA
90683718 CCCTGGTTACTCAGCCCA
66 CCCTGGTTACTCAGCCCA
90683736 TCACATTCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
96 64 0.88
97 9 0.12
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (97 bp):
TTTATTATTGCTTAAGAACATATCAAACCTTTTAACGCGAAGAGAGATGACAACCAAGCACCCCA
CCCTGGTTACTCAGCCCAATATGCTCCTAATT
Found at i:90684878 original size:4 final size:4
Alignment explanation
Indices: 90684862--90684942 Score: 55
Period size: 4 Copynumber: 19.8 Consensus size: 4
90684852 CACCCAAACA
*
90684862 AAAT AAAGT -AAT AAAT -AAT AAAAT AAAAT AAAAT AAAGT -AAT GAAT
1 AAAT AAA-T AAAT AAAT AAAT -AAAT -AAAT -AAAT AAA-T AAAT AAAT
90684908 AAAT AAAT -AAT AAGAT AAAT AAAT -AAT AAGAT AAA
1 AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AA-AT AAA
90684943 AATAAAGAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
3 11 0.17
4 32 0.48
5 23 0.35
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:90684879 original size:12 final size:11
Alignment explanation
Indices: 90684862--90684958 Score: 62
Period size: 12 Copynumber: 8.6 Consensus size: 11
90684852 CACCCAAACA
90684862 AAATAAAGTAAT
1 AAATAAA-TAAT
*
90684874 AAATAATAAAAT
1 AAATAA-ATAAT
90684886 AAA-ATAA-AAT
1 AAATA-AATAAT
90684896 AAAGT-AATGAAT
1 AAA-TAAAT-AAT
90684908 AAATAAATAAT
1 AAATAAATAAT
90684919 AAGATAAATAA-
1 AA-ATAAATAAT
90684930 ATAATAAGATAA-
1 A-AATAA-ATAAT
*
90684942 AAATAAAGAA-
1 AAATAAATAAT
90684952 AAATAAA
1 AAATAAA
90684959 AATTAGGTTG
Statistics
Matches: 73, Mismatches: 2, Indels: 22
0.75 0.02 0.23
Matches are distributed among these distances:
10 18 0.25
11 18 0.25
12 36 0.49
13 1 0.01
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:90684935 original size:16 final size:15
Alignment explanation
Indices: 90684862--90684942 Score: 78
Period size: 16 Copynumber: 5.2 Consensus size: 15
90684852 CACCCAAACA
90684862 AAATAAAGTAATAAAT
1 AAATAAA-TAATAAAT
90684878 -AAT-AA-AATAAAAT
1 AAATAAATAAT-AAAT
*
90684891 AAAATAAAGTAATGAAT
1 -AAATAAA-TAATAAAT
90684908 AAATAAATAATAAGAT
1 AAATAAATAATAA-AT
90684924 AAATAAATAATAAGAT
1 AAATAAATAATAA-AT
90684940 AAA
1 AAA
90684943 AATAAAGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.05
13 4 0.07
14 2 0.04
15 11 0.20
16 30 0.54
17 3 0.05
18 3 0.05
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:90684947 original size:38 final size:38
Alignment explanation
Indices: 90684863--90684959 Score: 96
Period size: 38 Copynumber: 2.6 Consensus size: 38
90684853 ACCCAAACAA
90684863 AATAAAGT-AATAAATAATAAAATAAAATAAAATAAAGT
1 AATAAA-TAAATAAATAATAAAATAAAATAAAATAAAGT
* *
90684901 AATGAATAAATAAATAATAAGAT-AAAT-AAATAATAAGAT
1 AATAAATAAATAAATAATAAAATAAAATAAAAT-A-AAG-T
*
90684940 AA-AAATAAAGAAA-AATAAAA
1 AATAAATAAATAAATAATAAAA
90684960 ATTAGGTTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
36 4 0.08
37 12 0.24
38 31 0.62
39 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (38 bp):
AATAAATAAATAAATAATAAAATAAAATAAAATAAAGT
Found at i:90684957 original size:16 final size:18
Alignment explanation
Indices: 90684908--90684961 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 18
90684898 AGTAATGAAT
*
90684908 AAATAAATAATAAGAT--
1 AAATAAAGAATAAGATAA
*
90684924 AAATAAATAATAAGATAA
1 AAATAAAGAATAAGATAA
90684942 AAATAAAGAA-AA-ATAA
1 AAATAAAGAATAAGATAA
90684958 AAAT
1 AAAT
90684962 TAGGTTGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 24 0.69
17 2 0.06
18 9 0.26
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (18 bp):
AAATAAAGAATAAGATAA
Found at i:90688094 original size:18 final size:18
Alignment explanation
Indices: 90688071--90688107 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
90688061 TTTGGGAAAA
90688071 GAAAGAGTTTCTTATGTG
1 GAAAGAGTTTCTTATGTG
90688089 GAAAGAGTTTCTTATGTG
1 GAAAGAGTTTCTTATGTG
90688107 G
1 G
90688108 CGAGATTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.30, T:0.38
Consensus pattern (18 bp):
GAAAGAGTTTCTTATGTG
Found at i:90698744 original size:20 final size:21
Alignment explanation
Indices: 90698719--90698760 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
90698709 ATACTTTTTC
*
90698719 AAAGTATTTT-CTTTGGGTTA
1 AAAGTATTTTCCTTTGGATTA
90698739 AAAGTATTTTCCTTTGGATTA
1 AAAGTATTTTCCTTTGGATTA
90698760 A
1 A
90698761 TAAATGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (21 bp):
AAAGTATTTTCCTTTGGATTA
Found at i:90699468 original size:99 final size:99
Alignment explanation
Indices: 90699297--90699486 Score: 362
Period size: 99 Copynumber: 1.9 Consensus size: 99
90699287 ATAACTAAGT
90699297 TAATATATGAAATTTAAATTTCAATAAAATTTGTAAACTTTTAGTTAATTCTTTGTTTCAATTAA
1 TAATATATGAAATTTAAATTTCAATAAAATTTGTAAACTTTTAGTTAATTCTTTGTTTCAATTAA
90699362 TTTTAACTCCAAACTCAAATCTTAATACTTCAGC
66 TTTTAACTCCAAACTCAAATCTTAATACTTCAGC
* *
90699396 TAATATATGGAATTTAAATTTCAATAAAATTTGTAAGCTTTTAGTTAATTCTTTGTTTCAATTAA
1 TAATATATGAAATTTAAATTTCAATAAAATTTGTAAACTTTTAGTTAATTCTTTGTTTCAATTAA
90699461 TTTTAACTCCAAACTCAAATCTTAAT
66 TTTTAACTCCAAACTCAAATCTTAAT
90699487 CATATAAATT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (99 bp):
TAATATATGAAATTTAAATTTCAATAAAATTTGTAAACTTTTAGTTAATTCTTTGTTTCAATTAA
TTTTAACTCCAAACTCAAATCTTAATACTTCAGC
Found at i:90705481 original size:9 final size:9
Alignment explanation
Indices: 90705461--90705493 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
90705451 AACATATAAT
90705461 AAATAA-TA
1 AAATAATTA
90705469 AAATAATTA
1 AAATAATTA
90705478 AAATAATTA
1 AAATAATTA
90705487 ATAATAA
1 A-AATAA
90705494 CATATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.26
9 12 0.52
10 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAATAATTA
Found at i:90708702 original size:14 final size:14
Alignment explanation
Indices: 90708683--90708711 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
90708673 ACAATGCCAA
90708683 TGAGAGAATTTCGT
1 TGAGAGAATTTCGT
90708697 TGAGAGAATTTCGT
1 TGAGAGAATTTCGT
90708711 T
1 T
90708712 AACTCTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (14 bp):
TGAGAGAATTTCGT
Found at i:90709745 original size:109 final size:107
Alignment explanation
Indices: 90709519--90709839 Score: 409
Period size: 109 Copynumber: 3.0 Consensus size: 107
90709509 GATTTTGGGT
* *
90709519 TATTCAATTACTCATCAGGAAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCAT-TTT-CG
1 TATTCAATTTCTCATCAGGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTTAC-
* **
90709582 TTGTTAGGAAAAAAAAGGATTTAGGGTTTTAAGCAATTCAACATC
65 -TGTTA-GAAAAAAAAAGATTTAGGGTTTTGGGCAATTCAACATC
* * * *
90709627 TATTCAATTTCTCATTAGGGAGATTTGATTTTCTTGATTTTTTTCCTTTTTTTTTATCTTCTTTA
1 TATTCAATTTCTCATCAGGGAGATTTGATTTTCTTGATTTTTTTCC--TTTCTTCATCATCTTTA
*
90709692 CTGTTAGAAAAAAAAAGATTTAGGGTTTTGGGTAATTCAACATC
64 CTGTTAGAAAAAAAAAGATTTAGGGTTTTGGGCAATTCAACATC
* * * * *
90709736 TATTTAATTTCTCATCAAGGAGATTTGATTTTCCT-ATTTTTTTCCCTTTCTTCATCGTCTTCAC
1 TATTCAATTTCTCATCAGGGAGATTTGATTTTCTTGATTTTTTT-CCTTTCTTCATCATCTTTAC
*
90709800 TGTTAG--AAAAAATGATTTAGGGTTTTGGGCAATTCAACAT
65 TGTTAGAAAAAAAAAGATTTAGGGTTTTGGGCAATTCAACAT
90709840 TAGCAATGGA
Statistics
Matches: 188, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
105 32 0.17
107 20 0.11
108 51 0.27
109 67 0.36
110 14 0.07
111 3 0.02
112 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (107 bp):
TATTCAATTTCTCATCAGGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTTACT
GTTAGAAAAAAAAAGATTTAGGGTTTTGGGCAATTCAACATC
Found at i:90714832 original size:18 final size:18
Alignment explanation
Indices: 90714809--90714852 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
90714799 CTTGAGAAAA
**
90714809 TTGAGAGAATTTAAAGAG
1 TTGAGAGAATAGAAAGAG
*
90714827 TTGAGAGAATAGAAAGAT
1 TTGAGAGAATAGAAAGAG
90714845 TTGAGAGA
1 TTGAGAGA
90714853 GAAAAAGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
TTGAGAGAATAGAAAGAG
Found at i:90715913 original size:31 final size:30
Alignment explanation
Indices: 90715851--90715925 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 30
90715841 TATTTATATC
* *
90715851 TTTATAATTTTTAAAAGATTAAATTAAAAT
1 TTTATAATTTTTAAAAAATTAAAGTAAAAT
* **
90715881 TTTATCATTTTTATAAAAATTAAAGTGTAAT
1 TTTATAATTTTTA-AAAAATTAAAGTAAAAT
* *
90715912 TTTATTATTATTAA
1 TTTATAATTTTTAA
90715926 TTTAAAAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
30 13 0.35
31 24 0.65
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTATAATTTTTAAAAAATTAAAGTAAAAT
Found at i:90718538 original size:22 final size:23
Alignment explanation
Indices: 90718504--90718551 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
90718494 TATAATACTC
90718504 ATAAAAAAATTTATTG-ATTA-A
1 ATAAAAAAATTTATTGAATTAGA
*
90718525 ATAAATAATATTTATTGAATTAGA
1 ATAAA-AAAATTTATTGAATTAGA
90718549 ATA
1 ATA
90718552 TTACATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 10 0.43
23 4 0.17
24 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (23 bp):
ATAAAAAAATTTATTGAATTAGA
Found at i:90723089 original size:3 final size:3
Alignment explanation
Indices: 90723041--90723073 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
90723031 AAAATGAATG
90723041 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90723074 TGGAAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:90723427 original size:19 final size:18
Alignment explanation
Indices: 90723400--90723451 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
90723390 AATAACAGAG
*
90723400 AATATAAAAAAAGAATAAT
1 AATAAAAAAAAAGAA-AAT
*
90723419 AATAAAAAATAAATAAAAT
1 AATAAAAAA-AAAGAAAAT
*
90723438 AATGAAAAAGAAAG
1 AAT-AAAAAAAAAG
90723452 GGCAAACGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (18 bp):
AATAAAAAAAAAGAAAAT
Found at i:90725666 original size:179 final size:179
Alignment explanation
Indices: 90725362--90725721 Score: 684
Period size: 179 Copynumber: 2.0 Consensus size: 179
90725352 TAATTAGTTG
*
90725362 ATAGAGAAGTTTCCTCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
1 ATAGAGAAGTTTCCCCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
90725427 TCCTTCAGAGTCTGATTTTTCGTTCAGATACTCCATTTGATTGAGGAGAGTATAGTGGTGTCACT
66 TCCTTCAGAGTCTGATTTTTCGTTCAGATACTCCATTTGATTGAGGAGAGTATAGTGGTGTCACT
90725492 TCATGAATAATACCATTTTGTGCACAGTATTCACCAAATGGTTCAACAT
131 TCATGAATAATACCATTTTGTGCACAGTATTCACCAAATGGTTCAACAT
90725541 ATAGAGAAGTTTCCCCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
1 ATAGAGAAGTTTCCCCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
* *
90725606 TCCTTCAGAGTCTGATTTTTTGTTCAGATACTCCATTTGATTGAGGAGAGTATGGTGGTGTCACT
66 TCCTTCAGAGTCTGATTTTTCGTTCAGATACTCCATTTGATTGAGGAGAGTATAGTGGTGTCACT
*
90725671 TCATGAATAATACCATTTTGTGCACAGTATTCATCAAATGGTTCAACAT
131 TCATGAATAATACCATTTTGTGCACAGTATTCACCAAATGGTTCAACAT
90725720 AT
1 AT
90725722 TCACCACCAC
Statistics
Matches: 177, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
179 177 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (179 bp):
ATAGAGAAGTTTCCCCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
TCCTTCAGAGTCTGATTTTTCGTTCAGATACTCCATTTGATTGAGGAGAGTATAGTGGTGTCACT
TCATGAATAATACCATTTTGTGCACAGTATTCACCAAATGGTTCAACAT
Found at i:90727009 original size:13 final size:13
Alignment explanation
Indices: 90726975--90727009 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
90726965 TTAGGCCTAT
90726975 AGCGGCACTTTTA
1 AGCGGCACTTTTA
*
90726988 AACGGCACTTTTA
1 AGCGGCACTTTTA
*
90727001 AGCGCCACT
1 AGCGGCACT
90727010 AAAACTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (13 bp):
AGCGGCACTTTTA
Found at i:90727149 original size:43 final size:43
Alignment explanation
Indices: 90727093--90727182 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
90727083 TTTATTTGTA
*
90727093 AAAAGCGCTGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGGC
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGGC
* * *
90727136 AAAAGCGCCGCTAAAGGTCATGTTTTTTATCGGCGTTTGTGGC
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGGC
90727179 AAAA
1 AAAA
90727183 ATGCCGCTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGGC
Found at i:90727958 original size:133 final size:135
Alignment explanation
Indices: 90727752--90728061 Score: 335
Period size: 135 Copynumber: 2.3 Consensus size: 135
90727742 ACGGGAGATT
* * * ** *
90727752 GCAACCCAACACGATAGGGCACTATTCCCCGAATTACCAAACATCGAACATTTCTTTCGTTTTAA
1 GCAACCCAGCACGATAGGGCACGATT-CCCGAATTGCCAAACATCGAACATCACCTTCGTTTTAA
* * * * * * *
90727817 AGAGTTTC-TAGAAAAAA-GTGAGTGAAATTCC-GAAGGGATCTTCGATTGTTTCGAACAAATGA
65 AGAGTTTCTTAAAAAAAACATGAGTGAAA-ACCTAAAGGAATATTCGATTGTTTCGAACAAACGA
*
90727879 -AAAAGA
129 GAAAACA
* * *
90727885 GCAACCCAGCACGATAGGGCACGATTCTCAAATTGCCAAACATTGAACATCACCTTCGTTTTGAA
1 GCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATCACCTTCGTTTT-AA
* * *
90727950 ATG-TTTTCTTAAAAAAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGACCAAACGA
65 A-GAGTTTCTTAAAAAAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTCGAACAAACGA
*
90728014 GAAATCA
129 GAAAACA
* *
90728021 -CAACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACA
1 GCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACA
90728062 CCGAGTATTG
Statistics
Matches: 146, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
132 29 0.20
133 31 0.21
134 11 0.08
135 71 0.49
136 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (135 bp):
GCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTAAA
GAGTTTCTTAAAAAAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTCGAACAAACGAGA
AAACA
Found at i:90728177 original size:131 final size:131
Alignment explanation
Indices: 90727703--90728358 Score: 480
Period size: 132 Copynumber: 4.9 Consensus size: 131
90727693 TAGAAAACAC
** * * * * * *
90727703 GAGTGAAATTCCGAAGAGATATTCAATTATTTTGAACAAACGGGAGATTGCAACCCAACACGATA
1 GAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
* * * * ** * * * *
90727768 GGGCACTATTCCCCGAATTACCAAACATCGAACATTTCTTTCGTTTTAAAGAGTTTCT-AGAAAA
66 GGGCACGATTCCACGAATTGCCAAA-ATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAG-AGA
*
90727832 AAGT
129 CA-T
** * * * * * * ** * *
90727836 GAGTGAAATTCCGAAGGGATCTTCGATTGTTTCGAACAAATGAAAAAGAGCAACCCAGCACGATA
1 GAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
* * * *
90727901 GGGCACGATTCTCA--AATTGCCAAACATTGAACATCACCTTCGTTTTGAAATG-TTTTCTTAAA
66 GGGCACGATTC-CACGAATTGCCAAA-ATCGAATATCGCCTTCGTTTT-AAA-GAATTT-TT--A
* *
90727963 AAAAACAT
124 AGAGACAT
** * * * ** * *
90727971 GAGTGAAAACCTAAAGGAATATTCGATTGTTTTGACCAAACGAGAAATCACAACCCAGCACGATA
1 GAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
* * * * * * ** *
90728036 GGGCATGATTCC-CGAATTGTCAAACACCGAGTATTGCCTTCGTTTTAGAGGGTTTTT-GGAAGA
66 GGGCACGATTCCACGAATTGCCAAA-ATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAG-AGA
*
90728099 CCT
129 CAT
* * * * *
90728102 GAGTGGAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACATGTTA
1 GAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
* * * * *
90728167 GGGCACGATTCCGCGAATTGCCAAATATCAAATCTCGTCTTCGCTTTAAAGAATTTTTAAGAGAC
66 GGGCACGATTCCACGAATTGCCAAA-ATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAGAGAC
90728232 AT
130 AT
* **
90728234 GGGTGAAATTCTAAAGGGACCTTCGATTACTTTT-AGCAAACGAGAAATTGCAACCCAACACGTT
1 GAGTGAAATTCTAAAGGGATATTCGATTA-TTTTGAGCAAACGAGAAATTGCAACCCAACACGTT
* * *
90728298 AGGGCACAATTCCACGAATTGCCAAGAATCGAATATCGCCTTCGTTTTGAAGAATTCTTAA
65 AGGGCACGATTCCACGAATTGCCAA-AATCGAATATCGCCTTCGTTTTAAAGAATTTTTAA
90728359 TAATTGTGAA
Statistics
Matches: 413, Mismatches: 95, Indels: 31
0.77 0.18 0.06
Matches are distributed among these distances:
131 66 0.16
132 167 0.40
133 78 0.19
134 9 0.02
135 88 0.21
136 4 0.01
137 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (131 bp):
GAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
GGGCACGATTCCACGAATTGCCAAAATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAGAGACA
T
Found at i:90729758 original size:18 final size:18
Alignment explanation
Indices: 90729717--90729761 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
90729707 TACAAAGAAC
*
90729717 ATATGTACATATAGATAT
1 ATATGTATATATAGATAT
*
90729735 ATATGTATATATATATA-
1 ATATGTATATATAGATAT
90729752 ATAATGTATA
1 AT-ATGTATA
90729762 AAAAACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (18 bp):
ATATGTATATATAGATAT
Found at i:90731205 original size:43 final size:43
Alignment explanation
Indices: 90731139--90731301 Score: 191
Period size: 43 Copynumber: 3.8 Consensus size: 43
90731129 GCCCACTACA
* * * * *
90731139 GCCGCTAAAGAATATGACTTTTAGCTGCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAACGGCGCTTTTACCACAAAC
** **
90731182 GCCGCTAAAGAACATGACCTTTAGTGGTACTTTTACCACAAAC
1 GCCGCTAAAGAACATGACCTTTAACGGCGCTTTTACCACAAAC
* * * *
90731225 GCCTCTAAAGGACATGACCTTTAACGGCGCTTTCAGCACAAAC
1 GCCGCTAAAGAACATGACCTTTAACGGCGCTTTTACCACAAAC
* *
90731268 GTCGCTAAAGAACATGTCCTTTAACGGCGCTTTT
1 GCCGCTAAAGAACATGACCTTTAACGGCGCTTTT
90731302 TACTCGTATT
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAACGGCGCTTTTACCACAAAC
Found at i:90731593 original size:21 final size:21
Alignment explanation
Indices: 90731569--90731613 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
90731559 TTTTGCTCTG
*
90731569 CTCTGCTTCCCTCGTTACTGC
1 CTCTGCTTCCCTCGCTACTGC
*
90731590 CTCTGCTTCCCTCGCTATTGC
1 CTCTGCTTCCCTCGCTACTGC
90731611 CTC
1 CTC
90731614 CACTCTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.44, G:0.13, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTACTGC
Found at i:90732016 original size:13 final size:14
Alignment explanation
Indices: 90731990--90732018 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
90731980 ACTAATGACG
90731990 AATTAAACCATTAT
1 AATTAAACCATTAT
90732004 AATTAAA-CATTAT
1 AATTAAACCATTAT
90732017 AA
1 AA
90732019 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:90735410 original size:24 final size:24
Alignment explanation
Indices: 90735378--90735430 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
90735368 AGTGTTTTAT
90735378 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
90735402 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
90735426 AATAT
1 AATAT
90735431 CATAACATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:90737802 original size:114 final size:114
Alignment explanation
Indices: 90737622--90737832 Score: 275
Period size: 115 Copynumber: 1.9 Consensus size: 114
90737612 GCTAAAAGGG
* * * * *
90737622 TAACCTATTGCGGCGTTTTACCAAAATGCCACTAATAAACCAATAAAACATTGACGTTTTGATTT
1 TAACCTATTGCGGCGCTTTACAAAAATGCCACTAACAAACCAATAAAACATCGACGTTTAGATTT
*
90737687 -AAACAAAATAATCTTTTGTGGCGTTTATACCCTAGCACTGCTAAATCC
66 AAAACAAAATAATCTTTTGCGGCGTTTATACCCTAGCACTGCTAAATCC
* *
90737735 TAACCTATTGCGGCGCTTTACAAAAAATGCCACTAACAAATCCGATAAAACGA-CGCCGTTTAG-
1 TAACCTATTGCGGCGCTTTAC-AAAAATGCCACTAACAAA-CCAATAAAAC-ATCGACGTTTAGA
* * *
90737798 TTTAAAACATAATGATCTTTTGCGGCGTTTTTACC
63 TTTAAAACAAAATAATCTTTTGCGGCGTTTATACC
90737833 TTTTGCGGCG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
113 20 0.24
114 19 0.23
115 43 0.52
116 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (114 bp):
TAACCTATTGCGGCGCTTTACAAAAATGCCACTAACAAACCAATAAAACATCGACGTTTAGATTT
AAAACAAAATAATCTTTTGCGGCGTTTATACCCTAGCACTGCTAAATCC
Found at i:90737920 original size:15 final size:15
Alignment explanation
Indices: 90737889--90737921 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
90737879 GAAATTATTT
90737889 AATAAATAAATTAAA
1 AATAAATAAATTAAA
90737904 AATAATATAAATTAAA
1 AATAA-ATAAATTAAA
90737920 AA
1 AA
90737922 ACAATCAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAAATAAATTAAA
Found at i:90738058 original size:16 final size:16
Alignment explanation
Indices: 90738037--90738090 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
90738027 AGAATTAGAT
90738037 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
90738053 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
90738063 AAAATTTTAAATCTTG
1 AAAATTTGAAATCTTG
90738079 AAAATTTGAAAT
1 AAAATTTGAAAT
90738091 TATTTAATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:90738323 original size:14 final size:15
Alignment explanation
Indices: 90738278--90738326 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
90738268 TTTTAACCTA
*
90738278 TAAACCCATAACCCT
1 TAAACCCCTAACCCT
* *
90738293 T-AACCCCTAAACTT
1 TAAACCCCTAACCCT
90738307 TAAACCCC-AACCCT
1 TAAACCCCTAACCCT
90738321 TAAACC
1 TAAACC
90738327 ATAAACCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCCTAACCCT
Found at i:90738352 original size:8 final size:7
Alignment explanation
Indices: 90738321--90738391 Score: 61
Period size: 7 Copynumber: 9.9 Consensus size: 7
90738311 CCCCAACCCT
90738321 TAAACCA
1 TAAACCA
90738328 TAAACCA
1 TAAACCA
*
90738335 TAATCCA
1 TAAACCA
90738342 TAAACCCA
1 TAAA-CCA
**
90738350 TAATTCA
1 TAAACCA
*
90738357 TAAACCT
1 TAAACCA
**
90738364 TAAAATA
1 TAAACCA
*
90738371 TTAACTCA
1 TAAAC-CA
90738379 TAAACCA
1 TAAACCA
90738386 TAAACC
1 TAAACC
90738392 CTTATCCCCT
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
7 37 0.77
8 11 0.23
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:90738444 original size:15 final size:15
Alignment explanation
Indices: 90738424--90738485 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
90738414 CTTATCCCTT
*
90738424 TAACCCCTAAACCCC
1 TAACCCCTAAACCCA
* *
90738439 TAACCCAT-AACCCT
1 TAACCCCTAAACCCA
* *
90738453 TAAACCCTAAACCTA
1 TAACCCCTAAACCCA
*
90738468 TAATCCCTAAACCCA
1 TAACCCCTAAACCCA
90738483 TAA
1 TAA
90738486 TCTGTAATGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 11 0.29
15 27 0.71
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.19
Consensus pattern (15 bp):
TAACCCCTAAACCCA
Found at i:90738449 original size:22 final size:23
Alignment explanation
Indices: 90738424--90738481 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
90738414 CTTATCCCTT
90738424 TAACCCCTAAACCCCT-AACCCA
1 TAACCCCTAAACCCCTAAACCCA
* *
90738446 TAACCCTTAAA-CCCTAAACCTA
1 TAACCCCTAAACCCCTAAACCCA
*
90738468 TAATCCCTAAACCC
1 TAACCCCTAAACCC
90738482 ATAATCTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 4 0.13
22 24 0.80
23 2 0.07
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (23 bp):
TAACCCCTAAACCCCTAAACCCA
Found at i:90739314 original size:20 final size:20
Alignment explanation
Indices: 90739277--90739317 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
90739267 CCTAACCCTT
*
90739277 AACCCTTAAATCTCAAACCC
1 AACCCTTAAACCTCAAACCC
90739297 AACCCTTAAACCAT-AAACCC
1 AACCCTTAAACC-TCAAACCC
90739317 A
1 A
90739318 TAATCCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCTTAAACCTCAAACCC
Found at i:90739315 original size:7 final size:7
Alignment explanation
Indices: 90739303--90739434 Score: 102
Period size: 7 Copynumber: 18.4 Consensus size: 7
90739293 ACCCAACCCT
90739303 TAAACCA
1 TAAACCA
90739310 TAAACCCA
1 TAAA-CCA
* *
90739318 TAATCCT
1 TAAACCA
90739325 TAAACCCA
1 TAAA-CCA
*
90739333 TAATCCA
1 TAAACCA
*
90739340 TAAACCT
1 TAAACCA
**
90739347 TAAAATA
1 TAAACCA
*
90739354 TTAACTCA
1 TAAAC-CA
*
90739362 TCAACCA
1 TAAACCA
90739369 TAAACCA
1 TAAACCA
90739376 TAAACCA
1 TAAACCA
90739383 TAAACCA
1 TAAACCA
* *
90739390 TATACCT
1 TAAACCA
*
90739397 TAAACTA
1 TAAACCA
*
90739404 TAAACCT
1 TAAACCA
*
90739411 TAAACTA
1 TAAACCA
*
90739418 TAAACCT
1 TAAACCA
*
90739425 TAAACTA
1 TAAACCA
90739432 TAA
1 TAA
90739435 TGATAATTAA
Statistics
Matches: 94, Mismatches: 28, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
7 78 0.83
8 16 0.17
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:90739328 original size:22 final size:22
Alignment explanation
Indices: 90739300--90739423 Score: 101
Period size: 22 Copynumber: 5.7 Consensus size: 22
90739290 CAAACCCAAC
*
90739300 CCTTAAACCATAAACCCATAAT
1 CCTTAAACCATAAACCCATAAA
*
90739322 CCTTAAACCCAT-AATCCATAAA
1 CCTTAAA-CCATAAACCCATAAA
** * * *
90739344 CCTTAAAATATTAACTCATCAA
1 CCTTAAACCATAAACCCATAAA
*
90739366 CCATAAACCATAAA-CCATAAA
1 CCTTAAACCATAAACCCATAAA
* * * *
90739387 CCATATACCTTAAA-CTATAAA
1 CCTTAAACCATAAACCCATAAA
*
90739408 CCTTAAACTATAAACC
1 CCTTAAACCATAAACC
90739424 TTAAACTATA
Statistics
Matches: 79, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
21 35 0.44
22 40 0.51
23 4 0.05
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (22 bp):
CCTTAAACCATAAACCCATAAA
Found at i:90739585 original size:30 final size:28
Alignment explanation
Indices: 90739551--90739617 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
90739541 TTTAAAATTA
90739551 TTTTAAATAATAATATTTTA-AT-TTTTTCAT
1 TTTTAAAT-AT-AT-TTTTATATGTTTTT-AT
90739581 TTTTAACATATATTTTTATATGTTTTTAT
1 TTTTAA-ATATATTTTTATATGTTTTTAT
90739610 TTTTAAAT
1 TTTTAAAT
90739618 TTTTTCTACG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
28 7 0.21
29 12 0.35
30 13 0.38
31 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTAAATATATTTTTATATGTTTTTAT
Found at i:90740240 original size:30 final size:30
Alignment explanation
Indices: 90740199--90740260 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
90740189 AATCAAAATC
*
90740199 AAGTATGTTAAATGATAGGATTAAATCTCG
1 AAGTATGTTAAACGATAGGATTAAATCTCG
*
90740229 AAGTGTGTTAAACGATAGGATTAAATCTCG
1 AAGTATGTTAAACGATAGGATTAAATCTCG
90740259 AA
1 AA
90740261 ACAAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (30 bp):
AAGTATGTTAAACGATAGGATTAAATCTCG
Found at i:90740577 original size:86 final size:85
Alignment explanation
Indices: 90740301--90740693 Score: 329
Period size: 86 Copynumber: 4.6 Consensus size: 85
90740291 AAAAAATCAA
* * * * * *
90740301 AATAAAATATGTTGAACGACAGGAATAAATCCCGAAACAGA--TTATTCAA-TTTAATTA-TAAT
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAA-TACTCAT
* ** *
90740362 TTGGGAGCAAAATAAAAATCG
65 TTGGAAATAAAATAAAAATGG
* * ** * * * * *
90740383 AATAAAATTTGTTAAATGGTAGGAATAAATCCCGAAACATATTTAATTTAA--TT--T-CTCGTT
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAATACTCATT
90740443 TGGCAACTAAATAAAA-AAAAATGG
66 TGG-----AAATAAAATAAAAATGG
* * ** *
90740467 AGTAAAATCTGTTAAACGGTGGGAATAAATTTTGAAACAGATTTTATTGAATTTTAATACTCATT
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAATACTCA-T
90740532 TTGGAAATAAAATAAAAATGG
65 TTGGAAATAAAATAAAAATGG
* * * * * * * *
90740553 AATAAAATCTATTGAACGACGGGAATAAATTCCAAAATAGATTTTATTTAATTTTAATTCTTATT
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAATACTCATT
*
90740618 TGGAAACAAAATAAAAAATGG
66 TGGAAATAAAAT-AAAAATGG
* *
90740639 AATAAAATCTGTTAAACGGCGGGAATAAATCCCGGAACAGATTTTATTCAATTTT
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTT
90740694 TATTATTATT
Statistics
Matches: 249, Mismatches: 46, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
80 7 0.03
82 35 0.14
83 2 0.01
84 54 0.22
85 26 0.10
86 116 0.47
88 1 0.00
89 3 0.01
90 5 0.02
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (85 bp):
AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAATACTCATT
TGGAAATAAAATAAAAATGG
Found at i:90740715 original size:86 final size:86
Alignment explanation
Indices: 90740451--90740722 Score: 302
Period size: 86 Copynumber: 3.2 Consensus size: 86
90740441 TTTGGCAACT
* * **
90740451 AAAT-AAA-AAAAAATGGAGTAAAATCTGTTAAACGGTGGGAATAAATTTTGAAACAGATTTTAT
1 AAATAAAATAAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTAT
* * *
90740514 TGAA-TTTTAATACTCATTTTGG
66 TCAATTTTTATTA-TTA-TTTGG
* * * * *
90740536 AAATAAAAT-AAAAATGGAATAAAATCTATTGAACGACGGGAATAAATTCCAAAATAGATTTTAT
1 AAATAAAATAAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTAT
* * *
90740600 TTAATTTTAATTCTTATTTGG
66 TCAATTTTTATTATTATTTGG
* * *
90740621 AAACAAAATAAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATCCCGGAACAGATTTTAT
1 AAATAAAATAAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTAT
*
90740686 TCAATTTTTATTATTATTCT-C
66 TCAATTTTTATTATTATT-TGG
*
90740707 AAATAAAATACAAAAT
1 AAATAAAATAAAAAAT
90740723 ATTTTTTTTC
Statistics
Matches: 154, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
85 17 0.11
86 131 0.85
87 6 0.04
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (86 bp):
AAATAAAATAAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTAT
TCAATTTTTATTATTATTTGG
Found at i:90745058 original size:35 final size:35
Alignment explanation
Indices: 90745019--90745087 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
90745009 TAAATAATTA
*
90745019 ACTAAATTTA-ATAGTA-TATATTATAAATTGTTTAC
1 ACTAAA-TTACATAGTAGT-TATTATAAATTATTTAC
*
90745054 ACTAAATTACATAGTAGTTATTATTAATTATTTA
1 ACTAAATTACATAGTAGTTATTATAAATTATTTA
90745088 TACGTAGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 3 0.10
35 26 0.87
36 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (35 bp):
ACTAAATTACATAGTAGTTATTATAAATTATTTAC
Found at i:90752180 original size:24 final size:24
Alignment explanation
Indices: 90752153--90752202 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
90752143 ATTGACAAAG
90752153 ACTTGTTGTTAGGATCCACTCCTC
1 ACTTGTTGTTAGGATCCACTCCTC
90752177 ACTTGTTGTTAGGATCCACTCCTC
1 ACTTGTTGTTAGGATCCACTCCTC
90752201 AC
1 AC
90752203 AATAGGCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (24 bp):
ACTTGTTGTTAGGATCCACTCCTC
Found at i:90754580 original size:33 final size:33
Alignment explanation
Indices: 90754499--90754581 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
90754489 ATTCTGGGCC
* **
90754499 AGGCCGTGTGAACCACACGGTCAAGGCCAAATT
1 AGGCCGTGTGAGCCACACGACCAAGGCCAAATT
* *
90754532 GGGCCTTGTGAGCCACACGACCAAGGCCAAATT
1 AGGCCGTGTGAGCCACACGACCAAGGCCAAATT
90754565 AGGCCGTGTTG-GCCACA
1 AGGCCGTG-TGAGCCACA
90754582 TAGGCGTGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 40 0.95
34 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.16
Consensus pattern (33 bp):
AGGCCGTGTGAGCCACACGACCAAGGCCAAATT
Found at i:90755156 original size:33 final size:34
Alignment explanation
Indices: 90755098--90755167 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
90755088 TCTGCATTGA
90755098 TGCTTACTGTTACTGTAATAGGCTAAGGCCCTAC
1 TGCTTACTGTTACTGTAATAGGCTAAGGCCCTAC
*
90755132 TGCTTACTG-TACTGTGAT-GAGCTAAGGCCCTAC
1 TGCTTACTGTTACTGTAATAG-GCTAAGGCCCTAC
90755165 TGC
1 TGC
90755168 ATGACTATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 1 0.03
33 24 0.71
34 9 0.26
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.31
Consensus pattern (34 bp):
TGCTTACTGTTACTGTAATAGGCTAAGGCCCTAC
Found at i:90755722 original size:33 final size:33
Alignment explanation
Indices: 90755685--90755747 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
90755675 GGTAGGTTCT
*
90755685 AAACACACTAGCATGTGACATCGGTAGATTTTC
1 AAACACACTAGCATGTGACATCGCTAGATTTTC
90755718 AAACACACTAGCATGTGACATCGCTAGATT
1 AAACACACTAGCATGTGACATCGCTAGATT
90755748 CGGCCATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (33 bp):
AAACACACTAGCATGTGACATCGCTAGATTTTC
Found at i:90768576 original size:21 final size:22
Alignment explanation
Indices: 90768546--90768588 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
90768536 TAGGGTCAAC
90768546 TGCCTATATG-AAGGAGGCACA
1 TGCCTATATGAAAGGAGGCACA
*
90768567 TGCCTGTATGAAAGGAGGCACA
1 TGCCTATATGAAAGGAGGCACA
90768589 AGGCCTTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.19
Consensus pattern (22 bp):
TGCCTATATGAAAGGAGGCACA
Found at i:90770862 original size:32 final size:32
Alignment explanation
Indices: 90770826--90770889 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
90770816 TGGTTTATTT
90770826 TGAACATAGAATGTTTTGCTATGATGATTTGA
1 TGAACATAGAATGTTTTGCTATGATGATTTGA
*
90770858 TGAACATAGAATGTTTTTCTATGATGATTTGA
1 TGAACATAGAATGTTTTGCTATGATGATTTGA
90770890 ATTTTATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.42
Consensus pattern (32 bp):
TGAACATAGAATGTTTTGCTATGATGATTTGA
Found at i:90773250 original size:40 final size:40
Alignment explanation
Indices: 90773156--90773300 Score: 159
Period size: 40 Copynumber: 3.6 Consensus size: 40
90773146 TACTCGAATG
* *
90773156 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
*
90773197 ACATCC-AGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGAG-CTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* ** *
90773237 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAATGACC
1 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
90773277 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGAGCTAAGTCCCGAAGGC
90773301 CTTGTGTGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 59 0.66
41 28 0.31
42 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (40 bp):
ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:90778488 original size:37 final size:37
Alignment explanation
Indices: 90778438--90778517 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
90778428 CTTATTACGA
* *
90778438 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
90778475 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
90778512 GGTCTT
1 AGTCTT
90778518 TAGAGTCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:90778711 original size:47 final size:47
Alignment explanation
Indices: 90778648--90778898 Score: 328
Period size: 47 Copynumber: 5.4 Consensus size: 47
90778638 TATCACAATT
* * *
90778648 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCCTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
* * *
90778693 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
* * *
90778740 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
*
90778787 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
** * *
90778834 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCTCAC
*
90778882 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
90778899 TATTCAATTA
Statistics
Matches: 182, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 156 0.86
48 18 0.10
49 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.31
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
Found at i:90778937 original size:141 final size:140
Alignment explanation
Indices: 90778648--90778929 Score: 326
Period size: 141 Copynumber: 2.0 Consensus size: 140
90778638 TATCACAATT
90778648 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATTC
1 ATACACATGTTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATTC
* * *
90778711 ATCACATTGGCCACTCGGCCTTATCACACATACACCTGTTCACTTTCATCACATTGGCCATTCGG
66 ATCACATTGGCCACTCGGCCCTATCACACATACACCTGTTCACTTTCATCACATTAGACATTC-G
* * *
90778776 CCTTATCACAC
130 ACATACCACAC
* * * * ** *
90778787 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTC
1 ATACACATGTTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATTC
* *
90778852 ATCACATTGGCCATTCGGCCCTATTCACACATATACACT-TTCACATTT-ATTCA-ATTAGAC-T
66 ATCACATTGGCCACTCGGCCCTA-TCACACATACAC-CTGTTCAC-TTTCA-TCACATTAGACAT
*
90778913 TC-ACATACCACAT
127 TCGACATACCACAC
90778926 ATAC
1 ATAC
90778930 CATCATGTAC
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
139 17 0.14
140 1 0.01
141 73 0.60
142 22 0.18
143 8 0.07
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (140 bp):
ATACACATGTTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATTC
ATCACATTGGCCACTCGGCCCTATCACACATACACCTGTTCACTTTCATCACATTAGACATTCGA
CATACCACAC
Found at i:90783582 original size:40 final size:40
Alignment explanation
Indices: 90783488--90783632 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
90783478 TACTCGAATG
*
90783488 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
90783529 ATATCCAGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
90783569 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
90783609 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
90783633 CTTATGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:90783652 original size:39 final size:40
Alignment explanation
Indices: 90783488--90783663 Score: 115
Period size: 40 Copynumber: 4.5 Consensus size: 40
90783478 TACTCGAATG
* * ** * * *
90783488 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCAAAGGCACTTATGC-GAGTGACT
* * * * * * * *
90783529 ATATCCAGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCAAAGGCACTTATGCGAGTGACT
* * * *
90783569 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCAAAGGCACTTATGCGAGTGACT
* * **
90783609 ATATCCGGGTTAAGACCCGAAGGC-CTTATGCGAGTGGTT
1 ATATCCGGGCTAAGACCCAAAGGCACTTATGCGAGTGACT
90783648 ATATCC-GGCTAA-ACCC
1 ATATCCGGGCTAAGACCC
90783664 CGAAGATGCT
Statistics
Matches: 112, Mismatches: 23, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
37 4 0.04
38 5 0.04
39 16 0.14
40 60 0.54
41 27 0.24
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCAAAGGCACTTATGCGAGTGACT
Found at i:90786293 original size:79 final size:82
Alignment explanation
Indices: 90786182--90786366 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
90786172 GCTACTCGTT
* * *
90786182 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
90786245 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
90786262 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
90786325 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
90786342 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90786367 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:90786366 original size:40 final size:40
Alignment explanation
Indices: 90786163--90786366 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
90786153 CGAAATTTAA
** *
90786163 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
90786203 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
90786243 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90786282 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
90786322 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
90786362 CCGGA
1 CCGGA
90786367 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:90793623 original size:28 final size:28
Alignment explanation
Indices: 90793587--90793642 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
90793577 GGATTCATGA
*
90793587 AAGAGTTATATATATATGAGGAGTTGTT
1 AAGAATTATATATATATGAGGAGTTGTT
*
90793615 AAGAATTATATATATATGAGGTGTTGTT
1 AAGAATTATATATATATGAGGAGTTGTT
90793643 CTCTGGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (28 bp):
AAGAATTATATATATATGAGGAGTTGTT
Found at i:90800647 original size:40 final size:40
Alignment explanation
Indices: 90800409--90800633 Score: 307
Period size: 40 Copynumber: 5.7 Consensus size: 40
90800399 TTGAATGCTG
* * *
90800409 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
**
90800448 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
90800488 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
90800528 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
90800568 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
90800609 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
90800634 AACGAGGAGC
Statistics
Matches: 172, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
39 19 0.11
40 143 0.83
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:90800651 original size:120 final size:119
Alignment explanation
Indices: 90800409--90800666 Score: 294
Period size: 120 Copynumber: 2.2 Consensus size: 119
90800399 TTGAATGCTG
*
90800409 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
* * ** *
90800474 TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
* * **
90800528 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
* *
90800590 TTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
62 TTTGTGCGAATTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
90800648 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
90800667 TACGTGATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
119 36 0.30
120 73 0.61
121 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
TGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:90810837 original size:32 final size:32
Alignment explanation
Indices: 90810765--90810828 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
90810755 TTATAGTATG
90810765 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
1 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
90810797 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
1 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
90810829 CTCAAGGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (32 bp):
AAATAGGTGGATTTGCATGTCAAAATTCCCAC
Found at i:90813077 original size:45 final size:45
Alignment explanation
Indices: 90813013--90813184 Score: 274
Period size: 45 Copynumber: 3.8 Consensus size: 45
90813003 ATTATCGTAC
*
90813013 GACACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
90813058 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
90813103 CATACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
90813148 GATACTATTCGGG-CTTTCGATCCTAGCAGGCTATAAT
1 GACACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAAT
90813185 TCCAGTGAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 4 0.03
45 115 0.97
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (45 bp):
GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:90818267 original size:32 final size:32
Alignment explanation
Indices: 90818195--90818258 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
90818185 TTATAGTATG
90818195 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
1 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
90818227 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
1 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
90818259 CTCAAGGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (32 bp):
AAATAGGTGGATTTGCATGTCAAAATTCCCAC
Found at i:90820556 original size:45 final size:45
Alignment explanation
Indices: 90820492--90820671 Score: 202
Period size: 45 Copynumber: 4.0 Consensus size: 45
90820482 ATTATCGTAC
* * *
90820492 GACACTATTTGGGCCTTTGAGCCAAGCAGGCTATAATACCGGTGA
1 GACACTATTTAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
90820537 GACACTATTCT-GGCCTTTGAGCCTTGTAGGCTATAATGCCGGTGA
1 GACACTATT-TAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * * *
90820582 GATACTATTTAGGCCTTTGTGCCTAGCAGGCTACAATGCCAGTGA
1 GACACTATTTAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * * * *
90820627 GATACTA-TTCGGGCTTTCGAGCCTAGCGGGCTATAATGCCAGTGA
1 GACACTATTTAGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
90820672 AAGGATATCG
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
44 9 0.08
45 107 0.91
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
GACACTATTTAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:90820649 original size:90 final size:90
Alignment explanation
Indices: 90820495--90820671 Score: 230
Period size: 90 Copynumber: 2.0 Consensus size: 90
90820485 ATCGTACGAC
* * *
90820495 ACTATTTGGGCCTTTGAGCCAAGCAGGCTATAATACCGGTGAGACACTATTCTGGCCTTTGAGCC
1 ACTATTTAGGCCTTTGAGCCAAGCAGGCTACAATACCAGTGAGACACTATTCTGGCCTTTGAGCC
* * *
90820560 TTGTAGGCTATAATGCCGGTGAGAT
66 TAGCAGGCTATAATGCCAGTGAGAT
* * * * *
90820585 ACTATTTAGGCCTTTGTGCCTAGCAGGCTACAATGCCAGTGAGATACTATTC-GGGCTTTCGAGC
1 ACTATTTAGGCCTTTGAGCCAAGCAGGCTACAATACCAGTGAGACACTATTCTGGCCTTT-GAGC
*
90820649 CTAGCGGGCTATAATGCCAGTGA
65 CTAGCAGGCTATAATGCCAGTGA
90820672 AAGGATATCG
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 6 0.08
90 68 0.92
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (90 bp):
ACTATTTAGGCCTTTGAGCCAAGCAGGCTACAATACCAGTGAGACACTATTCTGGCCTTTGAGCC
TAGCAGGCTATAATGCCAGTGAGAT
Found at i:90829429 original size:18 final size:18
Alignment explanation
Indices: 90829408--90829450 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
90829398 ATTTTATGCG
*
90829408 ATTAAGTCCTTTTTCATA
1 ATTAAGCCCTTTTTCATA
90829426 ATTAAGCCCTTTTTCATA
1 ATTAAGCCCTTTTTCATA
90829444 ATTAAGC
1 ATTAAGC
90829451 ACAAAAACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (18 bp):
ATTAAGCCCTTTTTCATA
Found at i:90834643 original size:77 final size:77
Alignment explanation
Indices: 90834516--90834663 Score: 224
Period size: 77 Copynumber: 1.9 Consensus size: 77
90834506 TTCAGAAAAG
* *
90834516 GTCGGGACCAAACCGAACACATTCAAAAATTTCAAAACTTAGCAAAAATTTTCAATTCTGTTGTG
1 GTCGGAACCAAACCAAACACATTCAAAAATTTCAAAACTTAGCAAAAATTTTCAATTCTGTTGTG
90834581 GTCACATGGGCA
66 GTCACATGGGCA
* * * * * *
90834593 GTCGGAACCAAACCAAACACATTTAGAATTTTTAGAACTTAGCAAAAATTTTCAATTCTTTTGTG
1 GTCGGAACCAAACCAAACACATTCAAAAATTTCAAAACTTAGCAAAAATTTTCAATTCTGTTGTG
90834658 GTCACA
66 GTCACA
90834664 CATCCATGTG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (77 bp):
GTCGGAACCAAACCAAACACATTCAAAAATTTCAAAACTTAGCAAAAATTTTCAATTCTGTTGTG
GTCACATGGGCA
Found at i:90860651 original size:22 final size:22
Alignment explanation
Indices: 90860626--90860670 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
90860616 TGAAGGGTTA
90860626 AATTTATTGAATTATTAGAATT
1 AATTTATTGAATTATTAGAATT
90860648 AATTTATTGAATTATTAGAATT
1 AATTTATTGAATTATTAGAATT
90860670 A
1 A
90860671 GAATCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
AATTTATTGAATTATTAGAATT
Found at i:90861341 original size:17 final size:17
Alignment explanation
Indices: 90861319--90861352 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90861309 ATCCACTAAT
*
90861319 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
90861336 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
90861353 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:90865980 original size:17 final size:17
Alignment explanation
Indices: 90865958--90865991 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90865948 ATCCACTAAT
*
90865958 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
90865975 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
90865992 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:90867067 original size:30 final size:30
Alignment explanation
Indices: 90867031--90867090 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
90867021 TGTATGGAAA
90867031 GACAAAATTATAATAATTATATTAATCATT
1 GACAAAATTATAATAATTATATTAATCATT
90867061 GACAAAATTATAATAATTATATTAATCATT
1 GACAAAATTATAATAATTATATTAATCATT
90867091 CATTTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (30 bp):
GACAAAATTATAATAATTATATTAATCATT
Found at i:90868325 original size:32 final size:32
Alignment explanation
Indices: 90868289--90868355 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
90868279 CTCTATGTAA
90868289 TATATATATATATAGAACAATGTAATTAAGGT
1 TATATATATATATAGAACAATGTAATTAAGGT
90868321 TATATATATATATAGAACAATGTAATTAAGGT
1 TATATATATATATAGAACAATGTAATTAAGGT
90868353 TAT
1 TAT
90868356 CCCAACTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (32 bp):
TATATATATATATAGAACAATGTAATTAAGGT
Found at i:90868768 original size:38 final size:38
Alignment explanation
Indices: 90868726--90868804 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
90868716 TTGTCAATAA
*
90868726 TGATTGATTAAGAATGAATTTTCTTTTTATGTTGTGTT
1 TGATTGATTAAGAATGAATTTTCTTTTCATGTTGTGTT
90868764 TGATTGATTAAGAATGAATTTTCTTTTCATGTTGTGTT
1 TGATTGATTAAGAATGAATTTTCTTTTCATGTTGTGTT
90868802 TGA
1 TGA
90868805 GTTATATCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.53
Consensus pattern (38 bp):
TGATTGATTAAGAATGAATTTTCTTTTCATGTTGTGTT
Found at i:90870024 original size:26 final size:26
Alignment explanation
Indices: 90869994--90870043 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
90869984 AACAATTATT
*
90869994 TTATAATTGTATGAGAAAATATTTCG
1 TTATAATTGTATAAGAAAATATTTCG
*
90870020 TTATAATTTTATAAGAAAATATTT
1 TTATAATTGTATAAGAAAATATTT
90870044 AGTACACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (26 bp):
TTATAATTGTATAAGAAAATATTTCG
Found at i:90874879 original size:24 final size:21
Alignment explanation
Indices: 90874855--90874901 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
90874845 GGATACAAAT
* *
90874855 ATAATTTTCAATTACTCTAATA
1 ATAAATTTCAA-TACTCCAATA
*
90874877 ATAAATTTGAATACTCCAATA
1 ATAAATTTCAATACTCCAATA
90874898 ATAA
1 ATAA
90874902 CACTCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAAATTTCAATACTCCAATA
Found at i:90875074 original size:24 final size:25
Alignment explanation
Indices: 90875025--90875074 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
90875015 ATTATTGATC
90875025 TACATATTTGTTTTCCTTTTTTTTT
1 TACATATTTGTTTTCCTTTTTTTTT
90875050 TACATATTTGTTTTCCTTTTTTTTT
1 TACATATTTGTTTTCCTTTTTTTTT
90875075 CTTTTTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.72
Consensus pattern (25 bp):
TACATATTTGTTTTCCTTTTTTTTT
Found at i:90887385 original size:51 final size:50
Alignment explanation
Indices: 90887273--90887461 Score: 195
Period size: 50 Copynumber: 3.8 Consensus size: 50
90887263 TGAATACACA
* * * * * *
90887273 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAG-T-AGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGA-TGATAAGATCA-CG
* **
90887323 TGTGTAGTACTAACTGCAGGCTACTATGCGTACTCA-ATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-TCAGATGA-TAAGATCACG
* * * *
90887374 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATAAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGATAAGATCACG
*
90887424 TGTGTAGTACTAAGTGCAGGCTACTATGCATATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
90887462 AGCTTCGGCT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 76 0.66
51 37 0.32
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGATAAGATCACG
Found at i:90887468 original size:101 final size:100
Alignment explanation
Indices: 90887273--90887455 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 100
90887263 TGAATACACA
* *
90887273 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTAGCATGTGTAGTACTAACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGATAAGTAG-ATGTGTAGTACTAACT
*
90887338 GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
65 GCAGGCTACTATGCATACTCAATGACTTCGATCACG
*
90887374 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATAAGGTCATG-TGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGATAA-GT-A-GATGTGTAGTACTAA
*
90887437 GTGCAGGCTACTATGCATA
63 CTGCAGGCTACTATGCATA
90887456 TCAGATAGCT
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
100 5 0.07
101 67 0.91
102 1 0.01
103 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGATAAGTAGATGTGTAGTACTAACTG
CAGGCTACTATGCATACTCAATGACTTCGATCACG
Found at i:90893132 original size:14 final size:14
Alignment explanation
Indices: 90893115--90893142 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90893105 AAGGTTTGGC
90893115 CGAAAAGGCAAGTT
1 CGAAAAGGCAAGTT
90893129 CGAAAAGGCAAGTT
1 CGAAAAGGCAAGTT
90893143 GAGTCTGCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (14 bp):
CGAAAAGGCAAGTT
Found at i:90894828 original size:50 final size:48
Alignment explanation
Indices: 90894753--90894927 Score: 215
Period size: 50 Copynumber: 3.5 Consensus size: 48
90894743 TGAATACACG
*
90894753 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAA-TCGCA
* * * *
90894803 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGACATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG-TTA-ATCGCA
** * *
90894853 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACGGGATTATTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAATCGCA
*
90894902 TGTGTAATACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
90894928 TGCATATCAG
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
49 31 0.29
50 75 0.69
51 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAATCGCA
Found at i:90894938 original size:99 final size:100
Alignment explanation
Indices: 90894749--90894939 Score: 285
Period size: 100 Copynumber: 1.9 Consensus size: 100
90894739 ATTGTGAATA
* * *
90894749 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAGTCGCATGTGTAATACT
**
90894814 AAGTGCAGGCTACTACGTGTATCAGATGATGACAT
66 AAGTGCAGGCTACTACGCATATCAGATGATGACAT
** * *
90894849 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACGGGATTATTGA-TCGCATGTGTAATACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAGTCGCATGTGTAATACT
*
90894913 AAGTGCAGGCTACTATGCATATCAGAT
66 AAGTGCAGGCTACTACGCATATCAGAT
90894940 AGCTTCGGCT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 39 0.48
100 42 0.52
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (100 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAGTCGCATGTGTAATACT
AAGTGCAGGCTACTACGCATATCAGATGATGACAT
Found at i:90898019 original size:27 final size:26
Alignment explanation
Indices: 90897969--90898021 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
90897959 TTAGGACATC
*
90897969 CTTTAAATATGTCTAGCTTGAGACAA
1 CTTTAAATATGTCTAGCTTAAGACAA
* *
90897995 CTTTCAAATATGTCTTGTTTAAGACAA
1 CTTT-AAATATGTCTAGCTTAAGACAA
90898022 ATTAAATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (26 bp):
CTTTAAATATGTCTAGCTTAAGACAA
Found at i:90899479 original size:8 final size:8
Alignment explanation
Indices: 90899466--90899503 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
90899456 AATTATGAAT
90899466 AAAAAATA
1 AAAAAATA
90899474 AAAAAAT-
1 AAAAAATA
90899481 AAAAAATA
1 AAAAAATA
90899489 AAGAAAATA
1 AA-AAAATA
90899498 AAAAAA
1 AAAAAA
90899504 AGAAGAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
8 13 0.46
9 8 0.29
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:90899484 original size:6 final size:7
Alignment explanation
Indices: 90899463--90899502 Score: 53
Period size: 7 Copynumber: 5.3 Consensus size: 7
90899453 AGGAATTATG
90899463 AATAAAA
1 AATAAAA
90899470 AATAAAAA
1 AAT-AAAA
90899478 AATAAAA
1 AATAAAA
90899485 AATAAAGAA
1 AAT-AA-AA
90899494 AATAAAA
1 AATAAAA
90899501 AA
1 AA
90899503 AAGAAGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 14 0.47
8 11 0.37
9 5 0.17
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AATAAAA
Found at i:90899485 original size:16 final size:16
Alignment explanation
Indices: 90899463--90899502 Score: 73
Period size: 15 Copynumber: 2.6 Consensus size: 16
90899453 AGGAATTATG
90899463 AATAAAAAATAAA-AA
1 AATAAAAAATAAAGAA
90899478 AATAAAAAATAAAGAA
1 AATAAAAAATAAAGAA
90899494 AATAAAAAA
1 AATAAAAAA
90899503 AAGAAGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (16 bp):
AATAAAAAATAAAGAA
Found at i:90904795 original size:27 final size:27
Alignment explanation
Indices: 90904734--90904796 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
90904724 TGAGTTTAAA
*
90904734 TTAGGACATCCTTTAAATATGTCTAGC
1 TTAGGACAACCTTTAAATATGTCTAGC
* * *
90904761 TT-GAGACAACTTTTAAATATGTCTTGT
1 TTAG-GACAACCTTTAAATATGTCTAGC
90904788 TTAGGACAA
1 TTAGGACAA
90904797 ATTAAATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 1 0.03
27 28 0.93
28 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (27 bp):
TTAGGACAACCTTTAAATATGTCTAGC
Found at i:90913873 original size:20 final size:21
Alignment explanation
Indices: 90913834--90913873 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90913824 GTCATAATAG
90913834 CCACACGGGCATGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
*
90913855 CCACATGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
90913874 GTTTCAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.23
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:90920183 original size:48 final size:45
Alignment explanation
Indices: 90920070--90920251 Score: 197
Period size: 46 Copynumber: 3.9 Consensus size: 45
90920060 TATATGTGCT
* *
90920070 AGTGTAAGACATGTTTGGGACATGCATCGGCCACA-CTATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCAGATAT-A-AGCC
*
90920116 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTC-AGATA--TAAGCC
* * * * *
90920164 AGTGTAAGACATGTTTGGGACATGTATCGGCATTAAGACTA-GAGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGC-CTCAGA-TATAAGCC
*
90920210 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCACGATATA
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCA-GATATA
90920252 CAAGCTAGTT
Statistics
Matches: 114, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
45 4 0.04
46 66 0.58
47 1 0.01
48 38 0.33
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCTCAGATATAAGCC
Found at i:90920266 original size:94 final size:94
Alignment explanation
Indices: 90920067--90920266 Score: 253
Period size: 94 Copynumber: 2.1 Consensus size: 94
90920057 TGATATATGT
** *
90920067 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACACTATGAGAGCCAGTGTAAGACATGTTT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACATGTCT
**
90920132 GGGACATGCATCAGCCTCGAGATATTTAA
66 GGGACATGCATCAGCCTCGAGATATACAA
* * * *
90920161 GCCAGTGTAAGACATGTTTGGGACATGTATCGG-CATTAAGACT-AGAGCTAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCA-CAAGA-TGAGAGCCAGTGTAAGACATGT
*
90920224 CTGGGACATGCATCGGCCTC-ACGATATACAA
64 CTGGGACATGCATCAGCCTCGA-GATATACAA
*
90920255 GCTAGTTTAAGA
1 GCTAGTGTAAGA
90920267 GCTGTCTAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
93 3 0.03
94 87 0.96
95 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCTCGAGATATACAA
Found at i:90924120 original size:69 final size:68
Alignment explanation
Indices: 90924038--90924264 Score: 323
Period size: 69 Copynumber: 3.3 Consensus size: 68
90924028 TGTGATGGAA
* * *
90924038 GGCTGA-TTGTAGTCTTTAAAATGTGTTAATCTACATTCGATTTAAATCTTTAATGTGCTACTGT
1 GGCTGATTTGTAGTCTTTAAAATGTGTTAATTTACATTCGATTTAAAT-TTTAATGTGTTGCTGT
90924102 AAAG
65 AAAG
*
90924106 GGCTGATTTGTAGTCCTTAAAATGTGTTAATTTACATTCGATTTAAATATTTAATGTGTTGCTGT
1 GGCTGATTTGTAGTCTTTAAAATGTGTTAATTTACATTCGATTTAAAT-TTTAATGTGTTGCTGT
90924171 AAAG
65 AAAG
* * * *
90924175 GGCTGATTTGTATTCTTTAAAATGTGTTCATTTACATTCGATTTAAGTTCTTAATGTGTTGTTGT
1 GGCTGATTTGTAGTCTTTAAAATGTGTTAATTTACATTCGATTTAAATT-TTAATGTGTTGCTGT
*
90924240 ATAG
65 AAAG
*
90924244 GGCTGATTTGTTGTC-TTAAAA
1 GGCTGATTTGTAGTCTTTAAAA
90924265 CTTTGTTCAT
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
68 13 0.09
69 131 0.91
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (68 bp):
GGCTGATTTGTAGTCTTTAAAATGTGTTAATTTACATTCGATTTAAATTTTAATGTGTTGCTGTA
AAG
Found at i:90924289 original size:69 final size:68
Alignment explanation
Indices: 90924038--90924300 Score: 293
Period size: 69 Copynumber: 3.8 Consensus size: 68
90924028 TGTGATGGAA
* * * * *
90924038 GGCTGA-TTGTAGTCTTTAAAATGTGTTAATCTACATTCGATTTAAA-TCTTTAATGTGCTACTG
1 GGCTGATTTGTTGTC-TTAAAATGTGTTCATTTACATTCGATTTAAATTC-TTAATGTGTTGCTG
90924101 TAAAG
64 TAAAG
* *
90924106 GGCTGATTTGTAGTCCTTAAAATGTGTTAATTTACATTCGATTTAAATAT-TTAATGTGTTGCTG
1 GGCTGATTTGTTGT-CTTAAAATGTGTTCATTTACATTCGATTTAAAT-TCTTAATGTGTTGCTG
90924170 TAAAG
64 TAAAG
* *
90924175 GGCTGATTTGTAT-TCTTTAAAATGTGTTCATTTACATTCGATTTAAGTTCTTAATGTGTTGTTG
1 GGCTGATTTGT-TGTC-TTAAAATGTGTTCATTTACATTCGATTTAAATTCTTAATGTGTTGCTG
*
90924239 TATAG
64 TAAAG
* ** *
90924244 GGCTGATTTGTTGTCTTAAAACTTTGTTCATTTATGTTC-ATTTTAAATGCTTAATGT
1 GGCTGATTTGTTGTCTTAAAA-TGTGTTCATTTACATTCGA-TTTAAATTCTTAATGT
90924301 ACTTTCCAAA
Statistics
Matches: 172, Mismatches: 13, Indels: 19
0.84 0.06 0.09
Matches are distributed among these distances:
68 16 0.09
69 154 0.90
70 1 0.01
71 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (68 bp):
GGCTGATTTGTTGTCTTAAAATGTGTTCATTTACATTCGATTTAAATTCTTAATGTGTTGCTGTA
AAG
Found at i:90924298 original size:138 final size:137
Alignment explanation
Indices: 90924038--90924300 Score: 334
Period size: 138 Copynumber: 1.9 Consensus size: 137
90924028 TGTGATGGAA
90924038 GGCTGATTGTAGTCTTTAAAATGTGTTAATCTACATTCGATTTAAATCTTTAATGTGCTACTGTA
1 GGCTGATTGTAGTCTTTAAAATGTGTTAATCTACATTCGATTTAAATCTTTAATGTGCTACTGTA
*
90924103 AAGGGCTGATTTGTAGTCCTTAAAATGTGTTAATTTACATTCGATTTAAATATTTAATGTGTTGC
66 AAGGGCTGATTTGTAGTCCTTAAAATGTGTTAATTTACATTCGATTTAAATACTTAATGTGTTGC
90924168 TGTAAAG
131 TGTAAAG
* * * * * **
90924175 GGCTGATTTGTATTCTTTAAAATGTGTTCATTTACATTCGATTTAAGT-TCTTAATGTGTTGTTG
1 GGCTGA-TTGTAGTCTTTAAAATGTGTTAATCTACATTCGATTTAAATCT-TTAATGTGCTACTG
* * * * ** *
90924239 TATAGGGCTGATTTGTTGT-CTTAAAACTTTGTTCATTTATGTTC-ATTTTAAATGCTTAATGT
64 TAAAGGGCTGATTTGTAGTCCTTAAAA-TGTGTTAATTTACATTCGA-TTTAAATACTTAATGT
90924301 ACTTTCCAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
137 15 0.14
138 92 0.86
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (137 bp):
GGCTGATTGTAGTCTTTAAAATGTGTTAATCTACATTCGATTTAAATCTTTAATGTGCTACTGTA
AAGGGCTGATTTGTAGTCCTTAAAATGTGTTAATTTACATTCGATTTAAATACTTAATGTGTTGC
TGTAAAG
Found at i:90925209 original size:20 final size:20
Alignment explanation
Indices: 90925154--90925210 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
90925144 ATTGTATGAT
* *
90925154 TGCACATACGTGCCCCTATT
1 TGCACTTACGTGCCCCTATA
* * *
90925174 TGTACTTAGGTACCCCTGA-A
1 TGCACTTACGTGCCCCT-ATA
90925194 TGCACTTACGTGCCCCT
1 TGCACTTACGTGCCCCT
90925211 TATTAATACT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.19, C:0.33, G:0.18, T:0.30
Consensus pattern (20 bp):
TGCACTTACGTGCCCCTATA
Done.