Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 13 of 279
Found at i:4180097 original size:36 final size:34
Alignment explanation
Indices: 4180057--4180123 Score: 98
Period size: 36 Copynumber: 1.9 Consensus size: 34
4180047 CTTTTAGTTG
4180057 TTTTATATATTTATATATATTATAAATATTTAATTC
1 TTTTATATATTTATATA-ATTATAAA-ATTTAATTC
* *
4180093 TTTTATATATTTTTATAATTTTAAAATTTAA
1 TTTTATATATTTATATAATTATAAAATTTAA
4180124 AATTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 6 0.21
35 7 0.24
36 16 0.55
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (34 bp):
TTTTATATATTTATATAATTATAAAATTTAATTC
Found at i:4180131 original size:34 final size:36
Alignment explanation
Indices: 4180057--4180132 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
4180047 CTTTTAGTTG
*
4180057 TTTTATATATTTATATATATTATAAATATTTAATTC
1 TTTTATATATTTATATATATTATAAATATTTAAATC
* *
4180093 TTTTATATATTTTTATA-ATTTTAAA-ATTTAAAAT-
1 TTTTATATATTTATATATATTATAAATATTT-AAATC
4180127 TTTTAT
1 TTTTAT
4180133 TGATTATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 10 0.28
35 10 0.28
36 16 0.44
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (36 bp):
TTTTATATATTTATATATATTATAAATATTTAAATC
Found at i:4183778 original size:33 final size:33
Alignment explanation
Indices: 4183741--4183806 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4183731 GATTCTCACC
4183741 AATGTTTGTATTACTCAAGCCGACATTCTTGCT
1 AATGTTTGTATTACTCAAGCCGACATTCTTGCT
4183774 AATGTTTGTATTACTCAAGCCGACATTCTTGCT
1 AATGTTTGTATTACTCAAGCCGACATTCTTGCT
4183807 TCCGTTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (33 bp):
AATGTTTGTATTACTCAAGCCGACATTCTTGCT
Found at i:4188193 original size:9 final size:9
Alignment explanation
Indices: 4188170--4188219 Score: 82
Period size: 9 Copynumber: 5.6 Consensus size: 9
4188160 TATATAGTTT
*
4188170 TAATGGTAA
1 TAATAGTAA
*
4188179 TGATAGTAA
1 TAATAGTAA
4188188 TAATAGTAA
1 TAATAGTAA
4188197 TAATAGTAA
1 TAATAGTAA
4188206 TAATAGTAA
1 TAATAGTAA
4188215 TAATA
1 TAATA
4188220 ATAAATGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (9 bp):
TAATAGTAA
Found at i:4188200 original size:3 final size:3
Alignment explanation
Indices: 4188185--4188223 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
4188175 GTAATGATAG
* * *
4188185 TAA TAA TAG TAA TAA TAG TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4188224 ATGCAACATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4190018 original size:21 final size:21
Alignment explanation
Indices: 4189992--4190035 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4189982 ACTTGCTATT
4189992 GTCATTTTTGTTAGTGTCGGA
1 GTCATTTTTGTTAGTGTCGGA
*
4190013 GTCATTTTTGTTTGTGTCGGA
1 GTCATTTTTGTTAGTGTCGGA
4190034 GT
1 GT
4190036 TGAAAGAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.09, G:0.30, T:0.50
Consensus pattern (21 bp):
GTCATTTTTGTTAGTGTCGGA
Found at i:4192738 original size:104 final size:108
Alignment explanation
Indices: 4192552--4192757 Score: 305
Period size: 104 Copynumber: 1.9 Consensus size: 108
4192542 TGTTTTAATA
* * *
4192552 AAAAAAAACCTTTTTAAAAAATATTGAATAAAAATAGTTCATTTTAATATTAAATTTATGTGTTT
1 AAAAAAAACATTTTTAAAAAATATTGAATAAAAATAGTTCATTTAAATATTAAATTTATATGTTT
4192617 ATTTTAATTATAGAAATAAATTTATAAAGGAAGATTACAATGT
66 ATTTTAATTATAGAAATAAATTTATAAAGGAAGATTACAATGT
* *
4192660 AAAAAAATCATTTTT-AAAAATATTG-A-AAAGA-AGTTCATTTAAATATTAAATTTATATGTTT
1 AAAAAAAACATTTTTAAAAAATATTGAATAAAAATAGTTCATTTAAATATTAAATTTATATGTTT
* *
4192721 ATTTTGATTAT-GAAAATAAATTTATAAAGGGAGATTA
66 ATTTTAATTATAG-AAATAAATTTATAAAGGAAGATTA
4192758 TAATAATCCC
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
103 1 0.01
104 61 0.68
105 4 0.04
106 1 0.01
107 10 0.11
108 13 0.14
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (108 bp):
AAAAAAAACATTTTTAAAAAATATTGAATAAAAATAGTTCATTTAAATATTAAATTTATATGTTT
ATTTTAATTATAGAAATAAATTTATAAAGGAAGATTACAATGT
Found at i:4195415 original size:21 final size:21
Alignment explanation
Indices: 4195370--4195414 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
4195360 TTTATATATC
*
4195370 AAAATTTAAATATTTTTTAAT
1 AAAATTTAAATATTTTTAAAT
4195391 AAAATTT-AATA-TTTTAAACT
1 AAAATTTAAATATTTTTAAA-T
4195411 AAAA
1 AAAA
4195415 AATATTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATTTAAATATTTTTAAAT
Found at i:4195571 original size:27 final size:27
Alignment explanation
Indices: 4195541--4195597 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
4195531 CGTGTGTAGA
*
4195541 TTGTATACTTATATCATTTATAACCAT
1 TTGTACACTTATATCATTTATAACCAT
* * *
4195568 TTGTACACTTTTATTATTTATAACCGT
1 TTGTACACTTATATCATTTATAACCAT
4195595 TTG
1 TTG
4195598 ATTGTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (27 bp):
TTGTACACTTATATCATTTATAACCAT
Found at i:4195634 original size:58 final size:58
Alignment explanation
Indices: 4195572--4195702 Score: 172
Period size: 58 Copynumber: 2.3 Consensus size: 58
4195562 AACCATTTGT
* * * * *
4195572 ACACTTTTATTATTTATAACCGTTTGATTGTAAAAATTTGACCTATCAATAAAAAGGC
1 ACACTTATACTATTTAGAACCCTTTGATTGTAAAAACTTGACCTATCAATAAAAAGGC
* ** * *
4195630 ACACTTATACCATTCGGAACCCTTTGATTGTAAAAGCTTGACCTATCAATAAAGAGGC
1 ACACTTATACTATTTAGAACCCTTTGATTGTAAAAACTTGACCTATCAATAAAAAGGC
4195688 ACACTTATACTATTT
1 ACACTTATACTATTT
4195703 GTAATTGTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (58 bp):
ACACTTATACTATTTAGAACCCTTTGATTGTAAAAACTTGACCTATCAATAAAAAGGC
Found at i:4199721 original size:36 final size:36
Alignment explanation
Indices: 4199673--4199744 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
4199663 GATTATCTTA
4199673 ACTTTTAAAACCTAGCTTGTTTTAGTTTCAAGCAGT
1 ACTTTTAAAACCTAGCTTGTTTTAGTTTCAAGCAGT
*
4199709 ACTTTTAGAACCTAGCTTGTTTTAGTTTCAAGCAGT
1 ACTTTTAAAACCTAGCTTGTTTTAGTTTCAAGCAGT
4199745 CTTAATACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (36 bp):
ACTTTTAAAACCTAGCTTGTTTTAGTTTCAAGCAGT
Found at i:4200642 original size:14 final size:14
Alignment explanation
Indices: 4200623--4200657 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
4200613 ATACAATATT
4200623 AATTTTATTTTAAA
1 AATTTTATTTTAAA
4200637 AATTTTA--TTAAA
1 AATTTTATTTTAAA
4200649 AATTTTATT
1 AATTTTATT
4200658 ATATGTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 12 0.63
14 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTATTTTAAA
Found at i:4208339 original size:27 final size:27
Alignment explanation
Indices: 4208301--4208356 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
4208291 ATATGCACCC
4208301 TTAACTTGCATCTCTCTAATTCTCTCA
1 TTAACTTGCATCTCTCTAATTCTCTCA
4208328 TTAACTTGCATCTCTCTAATTCTCTCA
1 TTAACTTGCATCTCTCTAATTCTCTCA
4208355 TT
1 TT
4208357 TTTTCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.29, G:0.04, T:0.46
Consensus pattern (27 bp):
TTAACTTGCATCTCTCTAATTCTCTCA
Found at i:4211091 original size:16 final size:16
Alignment explanation
Indices: 4211070--4211100 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4211060 AAGACACATT
*
4211070 AAAACAACATAGCAGC
1 AAAACAAAATAGCAGC
4211086 AAAACAAAATAGCAG
1 AAAACAAAATAGCAG
4211101 AGCTTAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.19, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAACAAAATAGCAGC
Found at i:4215258 original size:11 final size:11
Alignment explanation
Indices: 4215242--4215267 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4215232 CCAGGCGATT
4215242 AACACTATAAA
1 AACACTATAAA
4215253 AACACTATAAA
1 AACACTATAAA
4215264 AACA
1 AACA
4215268 AGGAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.15
Consensus pattern (11 bp):
AACACTATAAA
Found at i:4215286 original size:31 final size:31
Alignment explanation
Indices: 4215251--4215315 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
4215241 TAACACTATA
4215251 AAAACACTATAAAAACAAGGAAAAAATAATT
1 AAAACACTATAAAAACAAGGAAAAAATAATT
4215282 AAAACACTATAAAAACAAGGAAAAAATAATT
1 AAAACACTATAAAAACAAGGAAAAAATAATT
4215313 AAA
1 AAA
4215316 TTATAAATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.15
Consensus pattern (31 bp):
AAAACACTATAAAAACAAGGAAAAAATAATT
Found at i:4217072 original size:16 final size:17
Alignment explanation
Indices: 4217051--4217084 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4217041 AGTCCATTAT
*
4217051 TTTTAATATAAT-AAAA
1 TTTTAATACAATGAAAA
4217067 TTTTAATACAATGAAAA
1 TTTTAATACAATGAAAA
4217084 T
1 T
4217085 AAAAAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
TTTTAATACAATGAAAA
Found at i:4221117 original size:16 final size:15
Alignment explanation
Indices: 4221080--4221118 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4221070 TAATTTCTTC
*
4221080 AAAAAATTTCATTTT
1 AAAAAATTTCATTAT
*
4221095 AAAAAATTTTATTAT
1 AAAAAATTTCATTAT
4221110 AAATAAATT
1 AAA-AAATT
4221119 CTATCTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
AAAAAATTTCATTAT
Found at i:4222655 original size:9 final size:9
Alignment explanation
Indices: 4222643--4222766 Score: 76
Period size: 9 Copynumber: 13.6 Consensus size: 9
4222633 CAAAAATATT
4222643 TAAAAATTA
1 TAAAAATTA
4222652 TAAAAATTA
1 TAAAAATTA
*
4222661 TAAAAAATA
1 TAAAAATTA
4222670 TAAAAAATTA
1 T-AAAAATTA
* *
4222680 CAAAAATACAA
1 TAAAAAT--TA
*
4222691 AAAAAATTA
1 TAAAAATTA
*
4222700 GAAAAATTA
1 TAAAAATTA
*
4222709 TTAAATATTA
1 -TAAAAATTA
4222719 -AAAAA-T-
1 TAAAAATTA
4222725 TAAAAA-TA
1 TAAAAATTA
* *
4222733 TCAAAATAGA
1 TAAAAAT-TA
*
4222743 TATAAATTTA
1 TA-AAAATTA
*
4222753 TAAATATTA
1 TAAAAATTA
4222762 TAAAA
1 TAAAA
4222767 TATAAGAATT
Statistics
Matches: 88, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
7 7 0.08
8 9 0.10
9 42 0.48
10 19 0.22
11 11 0.12
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:4222664 original size:18 final size:18
Alignment explanation
Indices: 4222643--4222766 Score: 76
Period size: 19 Copynumber: 6.8 Consensus size: 18
4222633 CAAAAATATT
4222643 TAAAAATTATAAAAATTA
1 TAAAAATTATAAAAATTA
*
4222661 TAAAAAATATAAAAAATTA
1 TAAAAATTAT-AAAAATTA
* * *
4222680 CAAAAATACAAAAAAAATTA
1 TAAAAAT--TATAAAAATTA
* *
4222700 GAAAAATTATTAAATATTA
1 TAAAAATTA-TAAAAATTA
4222719 -AAAAA-T-TAAAAA-TA
1 TAAAAATTATAAAAATTA
* * *
4222733 TCAAAATAGATATAAATTTA
1 TAAAAAT-TATA-AAAATTA
*
4222753 TAAATATTATAAAA
1 TAAAAATTATAAAA
4222767 TATAAGAATT
Statistics
Matches: 80, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
14 2 0.03
15 9 0.11
17 1 0.01
18 20 0.25
19 26 0.32
20 21 0.26
21 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAAATTATAAAAATTA
Found at i:4222835 original size:21 final size:22
Alignment explanation
Indices: 4222801--4222858 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
4222791 TTTAATTTTA
4222801 TAAAA-TTAAT-AAAACATATT
1 TAAAATTTAATAAAAACATATT
*
4222821 TAAAATTTTATAAAAACATATT
1 TAAAATTTAATAAAAACATATT
* * *
4222843 GAAAATATAAAAAAAA
1 TAAAATTTAATAAAAA
4222859 GTCATAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 5 0.16
21 4 0.13
22 22 0.71
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATTTAATAAAAACATATT
Found at i:4223044 original size:16 final size:15
Alignment explanation
Indices: 4223019--4223058 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
4223009 ATGGTTGAAC
4223019 TAATTTTTTTATGTT
1 TAATTTTTTTATGTT
*
4223034 TAATATTTTTTATTTT
1 TAAT-TTTTTTATGTT
4223050 TAATGTTTT
1 TAAT-TTTT
4223059 ATTTAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (15 bp):
TAATTTTTTTATGTT
Found at i:4223792 original size:17 final size:18
Alignment explanation
Indices: 4223757--4223794 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
4223747 AATATTTTAA
* *
4223757 ATAAGTTTTATTAATTTT
1 ATAAGTTTTAATAAATTT
4223775 ATAA-TTTTAATAAATTT
1 ATAAGTTTTAATAAATTT
4223792 ATA
1 ATA
4223795 TCATTCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
ATAAGTTTTAATAAATTT
Found at i:4231591 original size:11 final size:12
Alignment explanation
Indices: 4231563--4231591 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4231553 GTTATTAATA
4231563 TAATTTAGTTCT
1 TAATTTAGTTCT
4231575 TAATTTAGTTC-
1 TAATTTAGTTCT
4231586 TAATTT
1 TAATTT
4231592 GTTTCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:4231694 original size:19 final size:20
Alignment explanation
Indices: 4231670--4231708 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4231660 TCTCATTTTT
4231670 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTGTGTTTTAA
4231689 TATTTGTTTTTGTGTTTTAA
1 TATTTGTTTTTGTGTTTTAA
4231709 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTGTGTTTTAA
Found at i:4238129 original size:47 final size:47
Alignment explanation
Indices: 4238060--4238154 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
4238050 TGATGACTAA
4238060 TGCAACAGCACTATACAACAGGCGAAAGTAAGTTTTTCATAAAGATT
1 TGCAACAGCACTATACAACAGGCGAAAGTAAGTTTTTCATAAAGATT
*
4238107 TGCAACAGCACTATACAACAGGCGAAAGTACGTTTTTCATAAAGATT
1 TGCAACAGCACTATACAACAGGCGAAAGTAAGTTTTTCATAAAGATT
4238154 T
1 T
4238155 CTTACTTACA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (47 bp):
TGCAACAGCACTATACAACAGGCGAAAGTAAGTTTTTCATAAAGATT
Found at i:4238451 original size:36 final size:36
Alignment explanation
Indices: 4238404--4238476 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
4238394 ATATTAATTG
4238404 TTACTATGATGCATAAATCCTTGAAAAACAAACCTT
1 TTACTATGATGCATAAATCCTTGAAAAACAAACCTT
*
4238440 TTACTATGATGCATAAATCCTTGAAAAATAAACCTT
1 TTACTATGATGCATAAATCCTTGAAAAACAAACCTT
4238476 T
1 T
4238477 CTCAATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (36 bp):
TTACTATGATGCATAAATCCTTGAAAAACAAACCTT
Found at i:4248260 original size:31 final size:30
Alignment explanation
Indices: 4248190--4248301 Score: 88
Period size: 31 Copynumber: 3.8 Consensus size: 30
4248180 ATCTTGACAC
** *
4248190 TTTTTTT-TAATTTAATATTTAAAC-TAT-
1 TTTTTTTCTAATTTGGTACTTAAACTTATA
** *
4248217 TTTTGGTCTAATTTGGTACCTAAACTTGATA
1 TTTTTTTCTAATTTGGTACTTAAACTT-ATA
* * *
4248248 TTTTTTTCTAATTTAGTATTTAAACTTACA
1 TTTTTTTCTAATTTGGTACTTAAACTTATA
*
4248278 -TTTTTTCTTAAGTTGGTACTTAAA
1 TTTTTTTC-TAATTTGGTACTTAAA
4248302 ACTTTTTGGG
Statistics
Matches: 65, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
27 5 0.08
28 13 0.20
29 8 0.12
30 17 0.26
31 22 0.34
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.54
Consensus pattern (30 bp):
TTTTTTTCTAATTTGGTACTTAAACTTATA
Found at i:4252841 original size:18 final size:20
Alignment explanation
Indices: 4252818--4252856 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
4252808 ATCATAATAC
4252818 ATATTTATA-AAAA-TATTA
1 ATATTTATATAAAATTATTA
4252836 ATATTTATATAAAATTATTA
1 ATATTTATATAAAATTATTA
4252856 A
1 A
4252857 ATTATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTATATAAAATTATTA
Found at i:4252893 original size:34 final size:34
Alignment explanation
Indices: 4252829--4252893 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
4252819 TATTTATAAA
* * **
4252829 AATATTAATATTTATATAAAATTATTAAATTATT
1 AATATTAATATTGATATAAAAATACAAAATTATT
*
4252863 AATATTGATATTGATATAAAAATACAAAATT
1 AATATTAATATTGATATAAAAATACAAAATT
4252894 TTATATAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (34 bp):
AATATTAATATTGATATAAAAATACAAAATTATT
Found at i:4254503 original size:98 final size:98
Alignment explanation
Indices: 4254331--4254507 Score: 216
Period size: 98 Copynumber: 1.8 Consensus size: 98
4254321 ACTAAGTAAT
* * * **
4254331 TTAACCTATTTGTTTCGAGATTAAATGTAAAGTGACTTAATTGCTTATTTTTCTTTGACTGAATT
1 TTAACCTATTTGTTTCAAAATTAAATGTAAAGTGACTTAATTGCTTATTTTTCTTTGACAGAAGG
**
4254396 ACTCCTTACTACAATTTTGTCAACATGCCAACA
66 ACTAATTACTACAATTTTGTCAACATGCCAACA
* * *
4254429 TTAATCTATTTGTTTCAAAATTAAATGTAAA-TCGACTTAATTGCTTATTTTT-TATT-TCAGGA
1 TTAACCTATTTGTTTCAAAATTAAATGTAAAGT-GACTTAATTGCTTATTTTTCT-TTGACAGAA
4254491 GGACTAAATTACTACAA
64 GGACT-AATTACTACAA
4254508 AAATTAAATG
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
97 8 0.12
98 58 0.88
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (98 bp):
TTAACCTATTTGTTTCAAAATTAAATGTAAAGTGACTTAATTGCTTATTTTTCTTTGACAGAAGG
ACTAATTACTACAATTTTGTCAACATGCCAACA
Found at i:4254658 original size:13 final size:13
Alignment explanation
Indices: 4254640--4254665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4254630 ATCCCAACTC
4254640 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
4254653 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
4254666 GAAGAATTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:4261003 original size:15 final size:15
Alignment explanation
Indices: 4260964--4261009 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
4260954 TAAAATTTAG
4260964 AAAATACA-AAAACT
1 AAAATACATAAAACT
** *
4260978 AAAATTGATAAAATT
1 AAAATACATAAAACT
4260993 AAAATACAT-AAACT
1 AAAATACATAAAACT
4261007 AAA
1 AAA
4261010 TCCACAAGGG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAATACATAAAACT
Found at i:4262438 original size:26 final size:27
Alignment explanation
Indices: 4262400--4262460 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
4262390 AGGTTAAATG
* * *
4262400 CCAAATTGGAC-AACAAAATTTCAGTA
1 CCAAATTAGACAAAAAAAATTTAAGTA
*
4262426 CTAAATTAGACAAAAAAAATTTAAGTA
1 CCAAATTAGACAAAAAAAATTTAAGTA
4262453 CCAAATTA
1 CCAAATTA
4262461 AAAAAATGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (27 bp):
CCAAATTAGACAAAAAAAATTTAAGTA
Found at i:4265852 original size:15 final size:15
Alignment explanation
Indices: 4265830--4265865 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4265820 AGTAATGTTA
4265830 AAATATATACATAAT
1 AAATATATACATAAT
* *
4265845 ATATATATATATAAT
1 AAATATATACATAAT
4265860 AAATAT
1 AAATAT
4265866 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATATACATAAT
Found at i:4265865 original size:11 final size:11
Alignment explanation
Indices: 4265830--4266063 Score: 68
Period size: 11 Copynumber: 21.5 Consensus size: 11
4265820 AGTAATGTTA
4265830 AAATATATACAT
1 AAATATATA-AT
4265842 -AATATAT-AT
1 AAATATATAAT
4265851 --ATATATAAT
1 AAATATATAAT
4265860 AAATAT-TGAA-
1 AAATATAT-AAT
*
4265870 AAATGTATGTACAT
1 AAA--TATATA-AT
4265884 AACATATATGAA-
1 AA-ATATAT-AAT
4265896 AAATATATACAT
1 AAATATATA-AT
4265908 -AATATAT-AT
1 AAATATATAAT
4265917 --ATATATAAT
1 AAATATATAAT
4265926 AAATAT-TGAA-
1 AAATATAT-AAT
*
4265936 AAATGTATGTACAT
1 AAA--TATATA-AT
4265950 AACATATATGAA-
1 AA-ATATAT-AAT
4265962 AAATATATACAT
1 AAATATATA-AT
4265974 -AATATAT-AT
1 AAATATATAAT
4265983 --ATATATAAT
1 AAATATATAAT
4265992 AAATAT-TGAA-
1 AAATATAT-AAT
*
4266002 AAATGTATGTACAT
1 AAA--TATATA-AT
4266016 AACATATATGAA-
1 AA-ATATAT-AAT
4266028 AAATATATACAT
1 AAATATATA-AT
4266040 -AATATAT-AT
1 AAATATATAAT
4266049 --ATATATAAT
1 AAATATATAAT
4266058 AAATAT
1 AAATAT
4266064 TGAAAAATGT
Statistics
Matches: 177, Mismatches: 3, Indels: 85
0.67 0.01 0.32
Matches are distributed among these distances:
8 24 0.14
9 16 0.09
10 15 0.08
11 71 0.40
12 18 0.10
13 21 0.12
14 9 0.05
15 3 0.02
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.35
Consensus pattern (11 bp):
AAATATATAAT
Found at i:4265901 original size:66 final size:66
Alignment explanation
Indices: 4265829--4266113 Score: 563
Period size: 66 Copynumber: 4.3 Consensus size: 66
4265819 TAGTAATGTT
4265829 AAAATATATACATAATATATATATATATAATAAATATTGAAAAATGTATGTACATAACATATATG
1 AAAATATATACATAATATATATATATATAATAAATATTGAAAAATGTATGTACATAACATATATG
4265894 A
66 A
4265895 AAAATATATACATAATATATATATATATAATAAATATTGAAAAATGTATGTACATAACATATATG
1 AAAATATATACATAATATATATATATATAATAAATATTGAAAAATGTATGTACATAACATATATG
4265960 A
66 A
4265961 AAAATATATACATAATATATATATATATAATAAATATTGAAAAATGTATGTACATAACATATATG
1 AAAATATATACATAATATATATATATATAATAAATATTGAAAAATGTATGTACATAACATATATG
4266026 A
66 A
4266027 AAAATATATACATAATATATATATATATAATAAATATTGAAAAATGTATGTACATAACATATATG
1 AAAATATATACATAATATATATATATATAATAAATATTGAAAAATGTATGTACATAACATATATG
4266092 A
66 A
4266093 AAAATATATACATAATA-ATAT
1 AAAATATATACATAATATATAT
4266114 TTAAAATAAA
Statistics
Matches: 219, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
65 4 0.02
66 215 0.98
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.35
Consensus pattern (66 bp):
AAAATATATACATAATATATATATATATAATAAATATTGAAAAATGTATGTACATAACATATATG
A
Found at i:4265918 original size:15 final size:15
Alignment explanation
Indices: 4265896--4265931 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4265886 CATATATGAA
4265896 AAATATATACATAAT
1 AAATATATACATAAT
* *
4265911 ATATATATATATAAT
1 AAATATATACATAAT
4265926 AAATAT
1 AAATAT
4265932 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATATACATAAT
Found at i:4265984 original size:15 final size:15
Alignment explanation
Indices: 4265962--4265997 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4265952 CATATATGAA
4265962 AAATATATACATAAT
1 AAATATATACATAAT
* *
4265977 ATATATATATATAAT
1 AAATATATACATAAT
4265992 AAATAT
1 AAATAT
4265998 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATATACATAAT
Found at i:4266050 original size:15 final size:15
Alignment explanation
Indices: 4266028--4266063 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4266018 CATATATGAA
4266028 AAATATATACATAAT
1 AAATATATACATAAT
* *
4266043 ATATATATATATAAT
1 AAATATATACATAAT
4266058 AAATAT
1 AAATAT
4266064 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATATACATAAT
Found at i:4266170 original size:21 final size:21
Alignment explanation
Indices: 4266118--4266171 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
4266108 TAATATTTAA
4266118 AATAAAATAATAAGTAATAAT
1 AATAAAATAATAAGTAATAAT
* *
4266139 AGTGAAAATAATAGGT-ATAAT
1 AAT-AAAATAATAAGTAATAAT
4266160 AATAAATATAAT
1 AATAAA-ATAAT
4266172 GATGTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 14 0.50
22 11 0.39
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
AATAAAATAATAAGTAATAAT
Found at i:4266594 original size:23 final size:22
Alignment explanation
Indices: 4266562--4266604 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
4266552 CGTACGTATA
*
4266562 TAATAATGATCTTAGAAATACT
1 TAATAATGATATTAGAAATACT
4266584 TAATATATGATATTAGAAATA
1 TAATA-ATGATATTAGAAATA
4266605 TATACGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (22 bp):
TAATAATGATATTAGAAATACT
Found at i:4266689 original size:18 final size:20
Alignment explanation
Indices: 4266652--4266690 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
4266642 AAATATATAC
4266652 ATAATATATACATATTAAAA
1 ATAATATATACATATTAAAA
*
4266672 ATAATA-ATA-ATGTTAAAA
1 ATAATATATACATATTAAAA
4266690 A
1 A
4266691 CAACTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:4268925 original size:20 final size:21
Alignment explanation
Indices: 4268885--4268928 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
4268875 AATTACAAAT
4268885 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
* *
4268906 AATTTAA-AACTAAAACTAAA
1 AATTTAATAAATAAAAATAAA
4268926 AAT
1 AAT
4268929 AAAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:4268934 original size:20 final size:20
Alignment explanation
Indices: 4268896--4268934 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4268886 ATTTAATAAA
**
4268896 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
*
4268916 TAAAACTAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
4268935 TATAATTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:4272702 original size:69 final size:69
Alignment explanation
Indices: 4272591--4272729 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
4272581 CAAATCTAAA
*
4272591 ACATAGACACAACACATCATTTAGCATCATTAAGGATGGAATAAGTGGGGATTTCAATTCCGCTA
1 ACATAGACACAACACACCATTTAGCATCATTAAGGATGGAATAAGTGGGGATTTCAATTCCGCTA
4272656 TAGT
66 TAGT
4272660 ACATAGACACAACACACCATTTAGCATCATTAAGGATGGAATAAGTGGGGATTTCAATTCCGCTA
1 ACATAGACACAACACACCATTTAGCATCATTAAGGATGGAATAAGTGGGGATTTCAATTCCGCTA
4272725 TAGT
66 TAGT
4272729 A
1 A
4272730 AGGAGAATCC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (69 bp):
ACATAGACACAACACACCATTTAGCATCATTAAGGATGGAATAAGTGGGGATTTCAATTCCGCTA
TAGT
Found at i:4280284 original size:24 final size:24
Alignment explanation
Indices: 4280257--4280302 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4280247 ATTTTTAGAT
*
4280257 AAACTTTAAGATACTTCATAATGA
1 AAACTGTAAGATACTTCATAATGA
*
4280281 AAACTGTAAGATGCTTCATAAT
1 AAACTGTAAGATACTTCATAAT
4280303 AATAGTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (24 bp):
AAACTGTAAGATACTTCATAATGA
Found at i:4280453 original size:17 final size:17
Alignment explanation
Indices: 4280431--4280464 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4280421 ATATAATAAA
* *
4280431 ATATGTTAATATTATAT
1 ATATGTAAATATGATAT
4280448 ATATGTAAATATGATAT
1 ATATGTAAATATGATAT
4280465 GCTATTATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (17 bp):
ATATGTAAATATGATAT
Found at i:4282093 original size:49 final size:49
Alignment explanation
Indices: 4282021--4282118 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
4282011 AAGCTCTCAC
4282021 ATATGGTGTTTAACGCCTGTAGAATTTATGTGCCACCTTATATTTTATG
1 ATATGGTGTTTAACGCCTGTAGAATTTATGTGCCACCTTATATTTTATG
4282070 ATATGGTGTTTAACGCCTGTAGAATTTATGTGCCACCTTATATTTTATG
1 ATATGGTGTTTAACGCCTGTAGAATTTATGTGCCACCTTATATTTTATG
4282119 GAAATAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (49 bp):
ATATGGTGTTTAACGCCTGTAGAATTTATGTGCCACCTTATATTTTATG
Found at i:4283119 original size:21 final size:21
Alignment explanation
Indices: 4283092--4283160 Score: 56
Period size: 22 Copynumber: 3.4 Consensus size: 21
4283082 AGAAAGATCA
4283092 TAAAAATTAAAAAAAATATATT
1 TAAAAATTAAAAAAAAT-TATT
** *
4283114 T-AAAATGTTTAAAATATTATT
1 TAAAAAT-TAAAAAAAATTATT
*
4283135 TAAAAATT--AAAGAATTA-T
1 TAAAAATTAAAAAAAATTATT
4283153 TAAAAATT
1 TAAAAATT
4283161 TCCAAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
18 9 0.22
19 7 0.17
21 11 0.28
22 13 0.32
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TAAAAATTAAAAAAAATTATT
Found at i:4283499 original size:20 final size:19
Alignment explanation
Indices: 4283474--4283511 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4283464 TTTAAAAAAT
4283474 GAAAAATTATTTAAAATTAG
1 GAAAAA-TATTTAAAATTAG
*
4283494 GAAAAATATTTGAAATTA
1 GAAAAATATTTAAAATTA
4283512 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (19 bp):
GAAAAATATTTAAAATTAG
Found at i:4283517 original size:19 final size:19
Alignment explanation
Indices: 4283474--4283518 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4283464 TTTAAAAAAT
*
4283474 GAAAAATTATTTAAAATTA
1 GAAAAAATATTTAAAATTA
* *
4283493 GGAAAAATATTTGAAATTA
1 GAAAAAATATTTAAAATTA
*
4283512 TAAAAAA
1 GAAAAAA
4283519 AATTCAAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (19 bp):
GAAAAAATATTTAAAATTA
Found at i:4283748 original size:30 final size:29
Alignment explanation
Indices: 4283712--4283781 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
4283702 AATTTTAAAT
*
4283712 TAATAAAAAATTATATTTTAGTCCTAAAAA
1 TAATAAAAAATTA-ATTTAAGTCCTAAAAA
* * **
4283742 TAATAAAAATTTAATTTAATTTTTAAAAA
1 TAATAAAAAATTAATTTAAGTCCTAAAAA
*
4283771 TTATAAAAAAT
1 TAATAAAAAAT
4283782 ACAAATTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (29 bp):
TAATAAAAAATTAATTTAAGTCCTAAAAA
Found at i:4284288 original size:23 final size:25
Alignment explanation
Indices: 4284262--4284312 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
4284252 GTTGTTTTGG
*
4284262 TTTTATAATT-TTATTTT-TTAATA
1 TTTTATAATTATAATTTTGTTAATA
4284285 TTTTATAATTATAATTTTGTTAATA
1 TTTTATAATTATAATTTTGTTAATA
4284310 TTT
1 TTT
4284313 AAAATAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 10 0.40
24 6 0.24
25 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTATAATTATAATTTTGTTAATA
Found at i:4284670 original size:16 final size:17
Alignment explanation
Indices: 4284662--4284696 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
4284652 AATTTTATAA
4284662 TTATAAAATATTGAAAAG
1 TTATAAAAT-TTGAAAAG
4284680 TTATAAAATTATGAAAA
1 TTATAAAATT-TGAAAA
4284697 TAAAACAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (17 bp):
TTATAAAATTTGAAAAG
Found at i:4284750 original size:22 final size:21
Alignment explanation
Indices: 4284722--4284770 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
4284712 TTTTTATTAA
4284722 ATAAAATA-AAATTATAAAAACT
1 ATAAAATATAAA-TAT-AAAACT
4284744 ATAAAATATAAATATAAAACT
1 ATAAAATATAAATATAAAACT
4284765 A-AAAAT
1 ATAAAAT
4284771 GTATATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.19
21 7 0.27
22 11 0.42
23 3 0.12
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAAATATAAATATAAAACT
Found at i:4284778 original size:20 final size:21
Alignment explanation
Indices: 4284734--4284778 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
4284724 AAAATAAAAT
4284734 TATA-AAAACTATAAAATATA
1 TATATAAAACTATAAAATATA
* *
4284754 AATATAAAACTA-AAAATGTA
1 TATATAAAACTATAAAATATA
4284774 TATAT
1 TATAT
4284779 GATTTGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
TATATAAAACTATAAAATATA
Found at i:4288189 original size:20 final size:20
Alignment explanation
Indices: 4288160--4288216 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
4288150 CAAAAAAATC
4288160 TAAAATAATTCAAAATAATTT-
1 TAAAA-AATTCAAAAT-ATTTA
*
4288181 TCAAAAATTCAAAATATTTA
1 TAAAAAATTCAAAATATTTA
4288201 TAAAAAATTCTAAAAT
1 TAAAAAATTC-AAAAT
4288217 TTCATAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.12
20 19 0.59
21 9 0.28
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAAATTCAAAATATTTA
Found at i:4288223 original size:20 final size:20
Alignment explanation
Indices: 4288160--4288223 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
4288150 CAAAAAAATC
*
4288160 TAAAATAATTCAAAATAATT-T
1 TAAAA-AATTCAAAAT-ATTCA
* *
4288181 TCAAAAATTCAAAATATTTA
1 TAAAAAATTCAAAATATTCA
4288201 TAAAAAATTCTAAAAT-TTCA
1 TAAAAAATTC-AAAATATTCA
4288221 TAA
1 TAA
4288224 TTTTTTGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.08
20 25 0.68
21 9 0.24
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAAATTCAAAATATTCA
Found at i:4290027 original size:23 final size:22
Alignment explanation
Indices: 4289984--4290027 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
4289974 TAATGAGGAC
* *
4289984 TTTCAAAAAATTTAACCAAAAT
1 TTTCAAAAAATTCAACAAAAAT
*
4290006 TTTCTAAAAAATTCAAGAAAAA
1 TTTC-AAAAAATTCAACAAAAA
4290028 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (22 bp):
TTTCAAAAAATTCAACAAAAAT
Found at i:4291576 original size:146 final size:145
Alignment explanation
Indices: 4291302--4291592 Score: 442
Period size: 146 Copynumber: 2.0 Consensus size: 145
4291292 ATTATTCTCA
4291302 TTTGTTTGAATTTGTTAGTGTGGAGGGATGAATAATCTACTTATGTGCTTGTATTGTTGCTGGAT
1 TTTGTTTGAATTTGTTAGTGTGGAGGGATGAATAATCTACTTATGTGCTTGTATTGTTGCTGGAT
** * * * *
4291367 TTTTAAGTAGAAATTGAGTGTTTTAATACTGAATGATTGAAAATTGTTTTAATTGGAACAGCAGT
66 TTTTAAGTAGAAATCAAGTATTCTAATACTGAATGATTG-AAATTGTTTTAATAGGAAAAGCAGT
4291432 CTTGGGGTTGATAGCT
130 CTTGGGGTTGATAGCT
*
4291448 TTTGTTTGAATTTGTTAGTGTGGAGGGATGAATAATCTACTTCTGTGCTTGTATTGTTGCTGGA-
1 TTTGTTTGAATTTGTTAGTGTGGAGGGATGAATAATCTACTTATGTGCTTGTATTGTTGCTGGAT
* **
4291512 TTTTAAGTCGAAATCAAGTATTCTAATGTTGAATGATTG-AATTGTGTTTAAATAGGCAAAAGCA
66 TTTTAAGTAGAAATCAAGTATTCTAATACTGAATGATTGAAATTGT-TTT-AATAGG-AAAAGCA
4291576 GTCTTGGGGTTGATAGC
128 GTCTTGGGGTTGATAGC
4291593 ATATTTGGAC
Statistics
Matches: 132, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
143 6 0.05
144 3 0.02
145 37 0.28
146 86 0.65
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.41
Consensus pattern (145 bp):
TTTGTTTGAATTTGTTAGTGTGGAGGGATGAATAATCTACTTATGTGCTTGTATTGTTGCTGGAT
TTTTAAGTAGAAATCAAGTATTCTAATACTGAATGATTGAAATTGTTTTAATAGGAAAAGCAGTC
TTGGGGTTGATAGCT
Found at i:4294915 original size:23 final size:24
Alignment explanation
Indices: 4294882--4294933 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
4294872 ATTAAAAAGT
**
4294882 AAATTGATCTTTTTTTTTATTAAA
1 AAATTGATCTTTTTTAGTATTAAA
*
4294906 AAATT-ATCTTTTTTAGTGTTAAA
1 AAATTGATCTTTTTTAGTATTAAA
4294929 AAATT
1 AAATT
4294934 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
AAATTGATCTTTTTTAGTATTAAA
Found at i:4299978 original size:66 final size:67
Alignment explanation
Indices: 4299908--4300648 Score: 833
Period size: 66 Copynumber: 11.2 Consensus size: 67
4299898 TATAGGAAGA
* *
4299908 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGGC-AATGTTGCTGGTGGAGTAGGAA
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
4299972 GG
66 GG
* * * *
4299974 CAAGGAGGGTTTGGAGGAAAATGTGGTGGAAGTGGTA-ACGCTAATGTTGTTGGTGGAGTAGGAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
4300038 GG
66 GG
* * * *
4300040 CAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGT-GCTAATGTCGTTGGTAGAGTAGGAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
4300104 GG
66 GG
** * * * *
4300106 CAATGG-GGGTTTGGTGGAAAAAATGGTGGAAGTGTTAAT-GTTAATGTTGCTGGTAGAGTAGGA
1 CAA-GGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGA
*
4300169 GCG
65 GGG
* * * *
4300172 TAAGGAGGGTTTGGTGGAAAAGGTAGTGGAAGTGGTAAT-GCTAATATTGCTGGTGGAGTAGGAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
4300236 GG
66 GG
* * * * * *
4300238 CAAGGAGGGTTTGGTGGAAACGATAGTGGAAGTGGTAG-CACTAATGTTGCTGGCGGAGTAGAAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
4300302 GG
66 GG
* * * * *
4300304 CAAGGAGGGTTGGGT-GAGAAAGGTGGTAGAAGTGGTAGT-GTTAATGTTACTGGTGGATTAGGA
1 CAAGGAGGGTTTGGTGGA-AAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGA
4300367 GGG
65 GGG
* * * * * * * *
4300370 AAAAGAGAGTTTGGTGGAAAAAGTGGTGGAACTAGTAG-CGCTAATGTTGGTGGTGGAATAGGAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
4300434 GG
66 GG
* * * * * * * *
4300436 CAATGAAGGTTTGGTGGAAAATGTGGTGGAAGTGGTAG-CACAAATTTTGCTTGTGGAGTAGCAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
4300500 GG
66 GG
* * * * *
4300502 CAAGGAGGGTTTGGTGGAAAATGTGGTGGAAGTGGTAG-CGCAAATTTTGCTAGTGGAGTAAGAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
4300566 GG
66 GG
* * * * *
4300568 CAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGCA-ACGCTAATGTTGCTAGTGGAATAGGAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
4300632 GG
66 GG
* *
4300634 AAATGAGGGTTTGGT
1 CAAGGAGGGTTTGGT
4300649 AGAAGTGGTA
Statistics
Matches: 576, Mismatches: 89, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
65 6 0.01
66 567 0.98
67 3 0.01
ACGTcount: A:0.27, C:0.05, G:0.43, T:0.25
Consensus pattern (67 bp):
CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAG
GG
Found at i:4300050 original size:132 final size:133
Alignment explanation
Indices: 4299912--4300771 Score: 891
Period size: 132 Copynumber: 6.6 Consensus size: 133
4299902 GGAAGACAAG
* *
4299912 GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGGC-AATGTTGCTGGTGGAGTAGGAAGGCA
1 GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAGGGCA
* * *
4299976 AGGAGGGTTTGGAGGAAAATGTGGTGGAAGTGGTAACGCTAATGTTGTTGGTGGAGTAGGAGGGC
66 AGGAGGGTTTGGTGGAAAAAGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAGTAGGAGGGC
4300041 AAT
131 AAT
* * *
4300044 GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGT-GCTAATGTCGTTGGTAGAGTAGGAGGGCA
1 GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAGGGCA
* * * * * *
4300108 ATGG-GGGTTTGGTGGAAAAAATGGTGGAAGTGTTAATGTTAATGTTGCTGGTAGAGTAGGAGCG
66 A-GGAGGGTTTGGTGGAAAAAGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAGTAGGAGGG
* *
4300172 TAAG
130 CAAT
* * *
4300176 GAGGGTTTGGTGGAAAAGGTAGTGGAAGTGGTAAT-GCTAATATTGCTGGTGGAGTAGGAGGGCA
1 GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAGGGCA
* * * * * *
4300240 AGGAGGGTTTGGTGG-AAACGATAGTGGAAGTGGTAGCACTAATGTTGCTGGCGGAGTAGAAGGG
66 AGGAGGGTTTGGTGGAAAAAG-TGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAGTAGGAGGG
*
4300304 CAAG
130 CAAT
* * * * * *
4300308 GAGGGTTGGGT-GAGAAAGGTGGTAGAAGTGGTAGT-GTTAATGTTACTGGTGGATTAGGAGGGA
1 GAGGGTTTGGTGGA-AAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAGGGC
* * * * * * *
4300371 AAAGAGAGTTTGGTGGAAAAAGTGGTGGAACTAGTAGCGCTAATGTTGGTGGTGGAATAGGAGGG
65 AAGGAGGGTTTGGTGGAAAAAGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAGTAGGAGGG
4300436 CAAT
130 CAAT
* * * * * * *
4300440 GAAGGTTTGGTGGAAAATGTGGTGGAAGTGGTAG-CACAAATTTTGCTTGTGGAGTAGCAGGGCA
1 GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAGGGCA
* * * * * *
4300504 AGGAGGGTTTGGTGGAAAATGTGGTGGAAGTGGTAGCGCAAATTTTGCTAGTGGAGTAAGAGGGC
66 AGGAGGGTTTGGTGGAAAAAGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAGTAGGAGGGC
4300569 AAT
131 AAT
* * * * *
4300572 GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGCA-ACGCTAATGTTGCTAGTGGAATAGGAGGGAA
1 GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAGGGCA
* * ** **
4300636 ATGAGGGTTTGGT---AGAAGTGGT---A---GT-A--CTAATGTTATTGGTGGAGTAGGAGAAC
66 AGGAGGGTTTGGTGGAAAAAGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAGTAGGAGGGC
*
4300689 AAA
131 AAT
** * * * *
4300692 GAGGGTTTGGTGGAAAAGGTGGTAAAAGTGGTAG-CGCTAATGTTGTTAGTGGAGTAGAAGGACA
1 GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAGGGCA
* *
4300756 AAGAGGATTTGGTGGA
66 AGGAGGGTTTGGTGGA
4300772 GAAGGTAGTG
Statistics
Matches: 603, Mismatches: 112, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
120 87 0.14
123 2 0.00
126 1 0.00
129 7 0.01
131 9 0.01
132 489 0.81
133 8 0.01
ACGTcount: A:0.28, C:0.05, G:0.42, T:0.25
Consensus pattern (133 bp):
GAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTCGCTAATGTTGCTGGTGGAGTAGGAGGGCA
AGGAGGGTTTGGTGGAAAAAGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAGTAGGAGGGC
AAT
Found at i:4300252 original size:198 final size:198
Alignment explanation
Indices: 4299908--4300790 Score: 943
Period size: 198 Copynumber: 4.5 Consensus size: 198
4299898 TATAGGAAGA
** *
4299908 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGGCAATGTTGCTGGTGGAGTAGGAAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGTTAATGTTGCTGGTGGAGTAGGAGG
* * * *
4299973 GCAAGGAGGGTTTGGAGGAAAATGTGGTGGAAGTGGTAACGCTAATGTTGTTGGTGGAGTAGGAG
66 GCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAATAGGAG
** * * *
4300038 GGCAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTCGTTGGTAGAGTAGGA
131 GGCAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTGTTGGTGGAGTAGAA
4300103 GGG
196 GGG
** * * *
4300106 CAATGG-GGGTTTGGTGGAAAAAATGGTGGAAGTGTTAATGTTAATGTTGCTGGTAGAGTAGGAG
1 CAA-GGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGTTAATGTTGCTGGTGGAGTAGGAG
* * * * * *
4300170 CGTAAGGAGGGTTTGGTGGAAAAGGTAGTGGAAGTGGTAATGCTAATATTGCTGGTGGAGTAGGA
65 GGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAATAGGA
* * * * * *
4300235 GGGCAAGGAGGGTTTGGTGGAAACGATAGTGGAAGTGGTAGCACTAATGTTGCTGGCGGAGTAGA
130 GGGCAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTGTTGGTGGAGTAGA
4300300 AGGG
195 AGGG
* * * *
4300304 CAAGGAGGGTTGGGT-GAGAAAGGTGGTAGAAGTGGTAGTGTTAATGTTACTGGTGGATTAGGAG
1 CAAGGAGGGTTTGGTGGA-AAAGGTGGTGGAAGTGGTAGTGTTAATGTTGCTGGTGGAGTAGGAG
* * * * * * * *
4300368 GGAAAAGAGAGTTTGGTGGAAAAAGTGGTGGAACTAGTAGCGCTAATGTTGGTGGTGGAATAGGA
65 GGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAATAGGA
* * * *
4300433 GGGCAATGAAGGTTTGGTGGAAAATGTGGTGGAAGTGGTAGCACAAATTTTGCTT-GTGGAGTAG
130 GGGCAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTG-TTGGTGGAGTAG
*
4300497 CAGGG
194 AAGGG
* * ** * * *
4300502 CAAGGAGGGTTTGGTGGAAAATGTGGTGGAAGTGGTAGCGCAAATTTTGCTAGTGGAGTAAGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGTTAATGTTGCTGGTGGAGTAGGAGG
* * *
4300567 GCAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGCAACGCTAATGTTGCTAGTGGAATAGGAG
66 GCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAATAGGAG
* * * *
4300632 GGAAATGAGGGTTTGGT-----A-------GAAGTGGTAGTACTAATGTTATTGGTGGAGTAGGA
131 GGCAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTGTTGGTGGAGTAGAA
**
4300685 GAA
196 GGG
* ** * * * * *
4300688 CAAAGAGGGTTTGGTGGAAAAGGTGGTAAAAGTGGTAGCGCTAATGTTGTTAGTGGAGTAGAAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGTTAATGTTGCTGGTGGAGTAGGAGG
* * * * *
4300753 ACAAAGAGGATTTGGTGGAGAAGGTAGT-GACAGTGGTA
66 GCAAGGAGGGTTTGGTGGAAAAGGTGGTGGA-AGTGGTA
4300791 GTATTAATGT
Statistics
Matches: 573, Mismatches: 105, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
185 4 0.01
186 113 0.20
193 1 0.00
197 4 0.01
198 446 0.78
199 5 0.01
ACGTcount: A:0.28, C:0.05, G:0.42, T:0.25
Consensus pattern (198 bp):
CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGTTAATGTTGCTGGTGGAGTAGGAGG
GCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAACGCTAATGTTGCTGGTGGAATAGGAG
GGCAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTGTTGGTGGAGTAGAA
GGG
Found at i:4300813 original size:66 final size:66
Alignment explanation
Indices: 4300651--4300814 Score: 202
Period size: 66 Copynumber: 2.5 Consensus size: 66
4300641 GGTTTGGTAG
* * * *
4300651 AAGTGGTAGTACTAATGTTATTGGTGGAGTAGGAGAACAAAGAGGGTTTGGTGGAAAAGGTGGTA
1 AAGTGGTAGTACTAATGTTGTTGGTGGAGTAGAAGAACAAAGAGGATTTGGTGGAAAAGGTAGTA
4300716 A
66 A
** * * * *
4300717 AAGTGGTAGCGCTAATGTTGTTAGTGGAGTAGAAGGACAAAGAGGATTTGGTGGAGAAGGTAGTG
1 AAGTGGTAGTACTAATGTTGTTGGTGGAGTAGAAGAACAAAGAGGATTTGGTGGAAAAGGTAGTA
4300782 A
66 A
* * * *
4300783 CAGTGGTAGTATTAATGTTGCTGGTAGAGTAG
1 AAGTGGTAGTACTAATGTTGTTGGTGGAGTAG
4300815 TAGGGTAAGG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 81 1.00
ACGTcount: A:0.31, C:0.04, G:0.38, T:0.27
Consensus pattern (66 bp):
AAGTGGTAGTACTAATGTTGTTGGTGGAGTAGAAGAACAAAGAGGATTTGGTGGAAAAGGTAGTA
A
Found at i:4306274 original size:17 final size:17
Alignment explanation
Indices: 4306215--4306274 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
4306205 TAATAAATTT
4306215 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
4306234 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
4306248 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
4306266 AAAATATAA
1 AAAATATAA
4306275 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:4306815 original size:17 final size:18
Alignment explanation
Indices: 4306762--4306887 Score: 166
Period size: 17 Copynumber: 6.9 Consensus size: 18
4306752 AATCATATCT
*
4306762 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
* *
4306781 TCTAATATTGCAATCATA
1 TCTAAGATTGCTATCATA
4306799 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
4306816 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
4306834 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
4306851 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
4306870 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
4306888 TGAAGATTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 32 0.34
18 31 0.33
19 32 0.34
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:4306820 original size:35 final size:35
Alignment explanation
Indices: 4306762--4306879 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
4306752 AATCATATCT
*
4306762 TCTAAGATTGTATATCATATCTAATATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
4306799 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
4306834 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
4306870 TCTAAGATTG
1 TCTAAGATTG
4306880 CATATCATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 53 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:4308002 original size:6 final size:6
Alignment explanation
Indices: 4307984--4308015 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4307974 TATACCTTAG
*
4307984 AAGGAA AATGAA AAGGAA AAGGAA AAGGAA AA
1 AAGGAA AAGGAA AAGGAA AAGGAA AAGGAA AA
4308016 AAGGCTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (6 bp):
AAGGAA
Found at i:4309461 original size:90 final size:90
Alignment explanation
Indices: 4309308--4309583 Score: 462
Period size: 90 Copynumber: 3.1 Consensus size: 90
4309298 TAGCAAGAGG
* *
4309308 TGGTGGTAAAGGTGTTGGAGTTGGAGGTAATATAGGAGGACAAGGAGGGTTTGGTGGAAAAGGTG
1 TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGGGTTTGGTGGAAAAGGTG
*
4309373 GTGGAAGTGGCAGCGGTAATATTGC
66 GTGGAAGTGGTAGCGGTAATATTGC
* *
4309398 TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGGATTTGGTCGAAAAGGTG
1 TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGGGTTTGGTGGAAAAGGTG
* **
4309463 ATGGAAGCAGTAGCGGTAATATTGC
66 GTGGAAGTGGTAGCGGTAATATTGC
*
4309488 TGGTGGTAAAAGTGTTGGATTTGGAGGTAACATAGGAGGACAAGGAGGGTTTGGTGGAAAAGGTG
1 TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGGGTTTGGTGGAAAAGGTG
*
4309553 GTGGAAGTGGTAGCAGTAATATTGC
66 GTGGAAGTGGTAGCGGTAATATTGC
4309578 TGGTGG
1 TGGTGG
4309584 AGTAGGAGGG
Statistics
Matches: 171, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 171 1.00
ACGTcount: A:0.28, C:0.05, G:0.42, T:0.25
Consensus pattern (90 bp):
TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGGGTTTGGTGGAAAAGGTG
GTGGAAGTGGTAGCGGTAATATTGC
Found at i:4309623 original size:66 final size:66
Alignment explanation
Indices: 4309520--4310348 Score: 1078
Period size: 66 Copynumber: 12.7 Consensus size: 66
4309510 GGAGGTAACA
* *
4309520 TAGGAGGACAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCAG-TAATATTGCTGGTGG
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGC-GCTAATGTTGCTGGTGG
4309584 AG
65 AG
* *
4309586 TAGGAGGGCAAGGAGGATTTGGAGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
4309651 G
66 G
*
4309652 TAGGA---CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
4309714 G
66 G
* * *
4309715 TAGGAGGGCAAGGGGGGTTTGGTGGAAAAGGTGGTGGAAGTAGTAGCGCTAATGTTGTTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
4309780 G
66 G
* * * *
4309781 TAGGAGGGCAAGGAGGGTTTGATGGAAAAGGTAGTGGAAGTGGTAGCACTAATATTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
4309846 G
66 G
* *
4309847 TAGGAGGGCAAGGAGGGTTTGGTGGTAAAGGTGGTGGAAGTGGAGGTGGCAGTGCTAATGTTGCT
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGT---GGT---AGCGCTAATGTTGCT
*
4309912 GGTGGAT
60 GGTGGAG
* * ** * *
4309919 TTGGAGGGAAAGGAGAATTTGGTGGAAAAGGTGGTGGAACTGGTAGCGCTAATATTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
*
4309984 T
66 G
* * *
4309985 TTGGTGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
4310050 G
66 G
* * * *
4310051 TAGGAGGGAAAGAAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGCTGATGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
4310116 G
66 G
* * *
4310117 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAAGTGGTGGAAGTGGCAACGCTAATGTTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
*
4310182 A
66 G
* * ***
4310183 TAGGAGGGAAAGGAGGG--T--T--------TGGTGGAAGTGGTAGCACTAATGTTATAGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
4310236 G
66 G
* * *** *
4310237 TAAGAGGACAAGGTCAGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTAGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
4310302 G
66 G
*
4310303 TAGGAGGCCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAG
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAG
4310349 AGGTGACTTG
Statistics
Matches: 663, Mismatches: 78, Indels: 44
0.84 0.10 0.06
Matches are distributed among these distances:
54 39 0.06
56 1 0.00
58 1 0.00
62 1 0.00
63 60 0.09
64 1 0.00
65 1 0.00
66 500 0.75
69 6 0.01
72 53 0.08
ACGTcount: A:0.26, C:0.05, G:0.45, T:0.24
Consensus pattern (66 bp):
TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
G
Found at i:4310049 original size:270 final size:264
Alignment explanation
Indices: 4309520--4310348 Score: 1079
Period size: 270 Copynumber: 3.2 Consensus size: 264
4309510 GGAGGTAACA
* *
4309520 TAGGAGGACAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCAGTAATATTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATATTGCTGGTGGA
* *
4309585 GTAGGAGGGCAAGGAGGATTTGGAGGAAAAGGTGGTGGAAGT-GGT---AGCGCTAATGTTGCTG
66 GTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTAGGTGGCAGCGCTAATGTTGCTG
*
4309646 GTGGA-GTA-GGACAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTGCTG
131 GTGGATGGAGGGA-AAGGA--GTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTGCTG
* * *
4309709 GTGGAGTAGGAGGGCAAGGGGGGTTTGGTGGAAAAGGTGGTGGAAGTAGTAGCGCTAATGTTGTT
193 GTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCT
4309774 GGTGGAG
258 GGTGGAG
* *
4309781 TAGGAGGGCAAGGAGGGTTTGATGGAAAAGGTAGTGGAAGTGGTAGCACTAATATTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATATTGCTGGTGGA
* *
4309846 GTAGGAGGGCAAGGAGGGTTTGGTGGTAAAGGTGGTGGAAGTGGAGGTGGCAGTGCTAATGTTGC
66 GTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGT--AGGTGGCAGCGCTAATGTTGC
* * *
4309911 TGGTGGATTTGGAGGGAAAGGAGAATTTGGTGGAAAAGGTGGTGGAACTGGTAGCGCTAATATTG
129 TGGTGGA--TGGAGGGAAAGGAG--TTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTG
* * * *
4309976 CTGGTGGATTTGGTGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTT
190 CTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTT
4310041 GCTGGTGGAG
255 GCTGGTGGAG
* * ** * *
4310051 TAGGAGGGAAAGAAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGCTGATGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATATTGCTGGTGGA
* *
4310116 GTAGGAGGGCAAGGAGGGTTTGGTGGAAAAAGTGGTGG-A--A-GTGGCAACGCTAATGTTGCTG
66 GTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTAGGTGGCAGCGCTAATGTTGCTG
* *
4310177 GTGGAATAGGAGGGAAAGGAG---GGT-------TTGGTGGAAGTGGTAGCACTAATGTT-ATAG
131 GTGG-AT-GGAGGGAAAGGAGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTGCT-G
* * ***
4310231 GTGGAGTAAGAGGACAAGGTCAGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCT
193 GTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCT
*
4310296 AGTGGAG
258 GGTGGAG
*
4310303 TAGGAGGCCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAG
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAG
4310349 AGGTGACTTG
Statistics
Matches: 504, Mismatches: 49, Indels: 39
0.85 0.08 0.07
Matches are distributed among these distances:
251 1 0.00
252 128 0.25
259 3 0.01
261 100 0.20
263 1 0.00
264 39 0.08
265 2 0.00
267 20 0.04
268 1 0.00
269 1 0.00
270 205 0.41
271 3 0.01
ACGTcount: A:0.26, C:0.05, G:0.45, T:0.24
Consensus pattern (264 bp):
TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATATTGCTGGTGGA
GTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTAGGTGGCAGCGCTAATGTTGCTG
GTGGATGGAGGGAAAGGAGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCACTAATGTTGCTGGTG
GAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGT
GGAG
Found at i:4310074 original size:120 final size:120
Alignment explanation
Indices: 4309950--4310329 Score: 429
Period size: 120 Copynumber: 3.1 Consensus size: 120
4309940 GTGGAAAAGG
* * * * *
4309950 TGGTGGAACTGGTAGCGCTAATATTGCTGGTGGATTTGGTGGGCAAGGAGGGTTTGGTGGAAAAG
1 TGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAG
* *
4310015 GTGGTGGAAGTGGTAGTGCTAATGTTGCTGGTGGAGTAGGAGGGAAAGAAGGGTTTGGT
66 GTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGAAAGGAGGG--T--T
* *
4310074 GGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGCTGATGGAGTAGGAGGGCAAGGAGGGTTTGG
1 --------TGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGG
* * * *
4310139 TGGAAAAAGTGGTGGAAGTGGCAACGCTAATGTTGCTGGTGGAATAGGAGGGAAAGGAGGGTT
58 TGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGAAAGGAGGGTT
* * * * ***
4310202 TGGTGGAAGTGGTAGCACTAATGTT-ATAGGTGGAGTAAGAGGACAAGGTCAGTTTGGTGGAAAA
1 TGGTGGAAGTGGTAGCGCTAATGTTGCT-GGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAA
* **
4310266 GGTGGTGGAAGTGGTAGCGCTAATGTTGCTAGTGGAGTAGGAGGCCAAGGAGGGTT
65 GGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGAAAGGAGGGTT
4310322 TGGTGGAA
1 TGGTGGAA
4310330 AAGGTGGTGG
Statistics
Matches: 218, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
119 1 0.00
120 110 0.50
128 1 0.00
130 1 0.00
132 105 0.48
ACGTcount: A:0.25, C:0.06, G:0.44, T:0.24
Consensus pattern (120 bp):
TGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAG
GTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGAAAGGAGGGTT
Found at i:4313884 original size:14 final size:14
Alignment explanation
Indices: 4313858--4313896 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
4313848 TTGTTTCACT
*
4313858 GAAAATGACTTCTA
1 GAAAATGATTTCTA
4313872 -AAATATGATTTCTA
1 GAAA-ATGATTTCTA
4313886 GAAAATGATTT
1 GAAAATGATTT
4313897 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 16 0.73
15 3 0.14
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:4314391 original size:19 final size:19
Alignment explanation
Indices: 4314367--4314403 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4314357 TATTATTAAT
*
4314367 ATATTTATAATTGTAATAA
1 ATATTTATAATTGAAATAA
*
4314386 ATATTTATTATTGAAATA
1 ATATTTATAATTGAAATA
4314404 TTAATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTGAAATAA
Found at i:4314469 original size:16 final size:16
Alignment explanation
Indices: 4314438--4314474 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
4314428 ATGTGAATAA
4314438 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
4314454 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
4314470 TATTA
1 TATTA
4314475 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:4314522 original size:33 final size:30
Alignment explanation
Indices: 4314469--4314537 Score: 102
Period size: 33 Copynumber: 2.2 Consensus size: 30
4314459 TTAAAATTTA
4314469 TTATTAAAATAAAATTGAAATATTAAATAAT
1 TTATTAAAATAAAATTGAAATATT-AATAAT
4314500 TTATTAAAATAATAAATTGAAATATTAATAAT
1 TTATTAAAAT-A-AAATTGAAATATTAATAAT
*
4314532 GTATTA
1 TTATTA
4314538 TATGGCCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 10 0.29
32 12 0.34
33 13 0.37
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (30 bp):
TTATTAAAATAAAATTGAAATATTAATAAT
Found at i:4326284 original size:27 final size:27
Alignment explanation
Indices: 4326254--4326431 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4326244 ATATTGAGTC
* * * *
4326254 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4326281 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4326308 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4326336 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4326363 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4326390 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4326417 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4326432 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4326393 original size:82 final size:81
Alignment explanation
Indices: 4326275--4326430 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4326265 TGCTATATAA
* *
4326275 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4326340 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4326357 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4326421 CACTTAGTGC
65 CACTTAGTGC
4326431 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4328188 original size:20 final size:20
Alignment explanation
Indices: 4328163--4328209 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
4328153 CACATGGCCT
*
4328163 GGCCACACGGCCATGTTCCA
1 GGCCACACGGCCATGTCCCA
*
4328183 GGCCACACGGTCATGTCCCA
1 GGCCACACGGCCATGTCCCA
4328203 GGCCACA
1 GGCCACA
4328210 TGGGCGTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.40, G:0.26, T:0.13
Consensus pattern (20 bp):
GGCCACACGGCCATGTCCCA
Found at i:4328794 original size:16 final size:17
Alignment explanation
Indices: 4328773--4328807 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4328763 CATTTAATTT
*
4328773 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
4328789 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
4328806 AA
1 AA
4328808 CCCACCTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:4332841 original size:3 final size:3
Alignment explanation
Indices: 4332821--4332856 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
4332811 TTGTTGGTGC
* *
4332821 AGG AGG AGT AGG AAG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
4332857 TGGTGGTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.61, T:0.03
Consensus pattern (3 bp):
AGG
Found at i:4332861 original size:3 final size:3
Alignment explanation
Indices: 4332855--4332892 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
4332845 AGGAGGAGGA
* *
4332855 GGT GGT GGT GGT GGT AGT GGT GAT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
4332893 GAGTGGTAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.63, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:4334090 original size:54 final size:54
Alignment explanation
Indices: 4333910--4334071 Score: 261
Period size: 54 Copynumber: 3.0 Consensus size: 54
4333900 CTGGTAGGGT
* * * *
4333910 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGACGCCAGTGGTAAAGA
1 AAAAGGACAAGGTAGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
* * *
4333964 AAAAGGACAAGGTAGAGGAGATGGTAGTGGTATTATAGATGCAAGTGATAGAGA
1 AAAAGGACAAGGTAGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
4334018 AAAAGGACAAGGTAGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTAGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
4334072 TGAAGGAAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.41, C:0.06, G:0.36, T:0.18
Consensus pattern (54 bp):
AAAAGGACAAGGTAGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
Found at i:4334253 original size:54 final size:53
Alignment explanation
Indices: 4334150--4334253 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 53
4334140 CTGGTGAGGT
*
4334150 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATAAAGATGCCAGTGGTAGAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATAAAGATGCAAGTGGTAGAG
* *
4334203 AAAAGAGACAAGGTGGAGGAGATGGTAGTGGTAATATAGATGCAATTGGTA
1 AAAAG-GACAAGGTGGAGGAGATGGTAGTGGTAATAAAGATGCAAGTGGTA
4334254 AAGATGAAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.11
54 42 0.89
ACGTcount: A:0.38, C:0.05, G:0.38, T:0.19
Consensus pattern (53 bp):
AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATAAAGATGCAAGTGGTAGAG
Found at i:4334434 original size:54 final size:54
Alignment explanation
Indices: 4334360--4335061 Score: 1368
Period size: 54 Copynumber: 13.0 Consensus size: 54
4334350 CTGGTGGGGT
4334360 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334414 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334468 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334522 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334576 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334630 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334684 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334738 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334792 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334846 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334900 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334954 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
* * * *
4335008 AAAAGGACAAGGTGGAGGAGATGGTAATGGTAATACAAATGTAAGAGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4335062 TGAAGCTAAA
Statistics
Matches: 644, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 644 1.00
ACGTcount: A:0.41, C:0.05, G:0.37, T:0.17
Consensus pattern (54 bp):
AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
Found at i:4334444 original size:210 final size:210
Alignment explanation
Indices: 4334082--4334467 Score: 657
Period size: 210 Copynumber: 1.8 Consensus size: 210
4334072 TGAAGGAAAA
* *
4334082 TTTGGAGGACAGAGAAAGGTCGATGGAAATAGTGGTGGAAGTGATAGCTCTAGTTATTCTGGTGA
1 TTTGGAGGACAGAGAAAGGTCGATGGAAATAGTGGTGGAAGTGACAGCTCTAGTGATTCTGGTGA
* *
4334147 GGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATAAAGATGCCAGTGGTAGAGAAAAGAGAC
66 GGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATAAAGATGCAAGTGGTAAAGAAAAGAGAC
* *
4334212 AAGGTGGAGGAGATGGTAGTGGTAATATAGATGCAATTGGTAAAGATGAAGCTAAAGCTAAAGCT
131 AAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGATGAAGCTAAAGCTAAAGCT
4334277 GAAGCTGGAGTAAAT
196 GAAGCTGGAGTAAAT
* * * *
4334292 TTTGGAGGACAGGGAAATGTCGATGGAAATATTGGTGGAAGTGACAGCTCTAGTGATTCTGGTGG
1 TTTGGAGGACAGAGAAAGGTCGATGGAAATAGTGGTGGAAGTGACAGCTCTAGTGATTCTGGTGA
*
4334357 GGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAA-AGGA
66 GGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATAAAGATGCAAGTGGTAAAGAAAAGA-GA
4334421 CAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
130 CAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
4334468 AAAAGGACAA
Statistics
Matches: 164, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
209 1 0.01
210 163 0.99
ACGTcount: A:0.35, C:0.07, G:0.36, T:0.22
Consensus pattern (210 bp):
TTTGGAGGACAGAGAAAGGTCGATGGAAATAGTGGTGGAAGTGACAGCTCTAGTGATTCTGGTGA
GGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATAAAGATGCAAGTGGTAAAGAAAAGAGAC
AAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGATGAAGCTAAAGCTAAAGCT
GAAGCTGGAGTAAAT
Found at i:4335219 original size:210 final size:210
Alignment explanation
Indices: 4334954--4335637 Score: 1113
Period size: 210 Copynumber: 3.3 Consensus size: 210
4334944 GTGGTAAAGA
4334954 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACAAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACAAG
* * *
4335019 GTGGAGGAGATGGTAATGGTAATACAAATGTAAGAGGTAAAGATGAAGCTAAAGATAAAGCTGAA
66 GTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTGAA
* * *
4335084 GTTGAAGGAAAATTTGGAGGGCAGGGAAAGGTTGATGAAAATAATGGTGGAAATAACAGCTCTAA
131 GTTGAAGGAAAATTTGGAGGGCAGGGAAAGGTTGATGGAAATAGTGGTGGAAATGACAGCTCTAA
4335149 TGATTCCGGTGGGGT
196 TGATTCCGGTGGGGT
* * *
4335164 AAAAGGACAAGGTGGAAGAGATGGTAGTGGTGATACAGATGCAAGTGGTAAAGAAAAAAGACAAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACAAG
* *
4335229 GTCGAGGAGATAGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTGAA
66 GTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTGAA
*
4335294 GTTGAAGGAAAATTTGG-GGGACAGGGAAAGGTTGATGGAAATAGTGGTGGAAGTGAC-GACTCT
131 GTTGAAGGAAAATTTGGAGGG-CAGGGAAAGGTTGATGGAAATAGTGGTGGAAATGACAG-CTCT
*
4335357 AATGATTCCGGTAGGGT
194 AATGATTCCGGTGGGGT
* *
4335374 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTGATACAGATGTAAGTGGTAAAGAAAAAGGACAAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACAAG
* * * *
4335439 ATGGAGGATATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGATGGA
66 GTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTGAA
* * * *
4335504 GTTGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAACTGATAGCTCTAA
131 GTTGAAGGAAAATTTGGAGGGCAGGGAAAGGTTGATGGAAATAGTGGTGGAAATGACAGCTCTAA
4335569 TGATTCCGGTGGGGT
196 TGATTCCGGTGGGGT
4335584 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACA-AGTGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGA-TGCAAGTGGTAAAGA
4335638 TGAAGCTAAA
Statistics
Matches: 440, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
209 5 0.01
210 432 0.98
211 3 0.01
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (210 bp):
AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACAAG
GTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTGAA
GTTGAAGGAAAATTTGGAGGGCAGGGAAAGGTTGATGGAAATAGTGGTGGAAATGACAGCTCTAA
TGATTCCGGTGGGGT
Found at i:4335228 original size:54 final size:54
Alignment explanation
Indices: 4335164--4335271 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
4335154 CCGGTGGGGT
* * * * *
4335164 AAAAGGACAAGGTGGAAGAGATGGTAGTGGTGATACAGATGCAAGTGGTAAAGA
1 AAAAAGACAAGGTCGAAGAGATAGTAGTGGTAATACAAATGCAAGTGGTAAAGA
*
4335218 AAAAAGACAAGGTCGAGGAGATAGTAGTGGTAATACAAATGCAAGTGGTAAAGA
1 AAAAAGACAAGGTCGAAGAGATAGTAGTGGTAATACAAATGCAAGTGGTAAAGA
4335272 TGAAGCTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.44, C:0.06, G:0.33, T:0.17
Consensus pattern (54 bp):
AAAAAGACAAGGTCGAAGAGATAGTAGTGGTAATACAAATGCAAGTGGTAAAGA
Found at i:4335494 original size:54 final size:54
Alignment explanation
Indices: 4335374--4335481 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
4335364 CCGGTAGGGT
* * * *
4335374 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTGATACAGATGTAAGTGGTAAAGA
1 AAAAGGACAAGATGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGA
*
4335428 AAAAGGACAAGATGGAGGATATGGTAGTGGTAATACAAATGCAAGTGGTAAAGA
1 AAAAGGACAAGATGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGA
4335482 TGAAGCTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.42, C:0.05, G:0.35, T:0.19
Consensus pattern (54 bp):
AAAAGGACAAGATGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGA
Found at i:4335649 original size:6 final size:6
Alignment explanation
Indices: 4335640--4335836 Score: 119
Period size: 6 Copynumber: 32.8 Consensus size: 6
4335630 GGTAAAGATG
* * * ** * *
4335640 AAGCTA AAGCTG AAGCTC AAGCTC AAGCTA AAGCTA AAAATG AAGTTA
1 AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA
* * * * * * * *
4335688 AAGCTG AAGATG AAGCTC AAGCTA AAGTTA AAGATG AAGCTA AAGCTG
1 AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA
* * * * * *
4335736 AATCTG AAGCTA AAGCTA AATCTA AAG-AA GAAGCTA AAGTTG AAGCTA
1 AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA -AAGCTA AAGCTA AAGCTA
* * ** * *
4335784 AAGCTA AAGCTG AAGCTAA AAG-TG AAGCCG AAGATG AAGCTA AAGCTA
1 AAGCTA AAGCTA AAGCT-A AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA
4335832 AAGCT
1 AAGCT
4335837 GAAGGAAAGG
Statistics
Matches: 147, Mismatches: 40, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
5 4 0.03
6 139 0.95
7 4 0.03
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (6 bp):
AAGCTA
Found at i:4335653 original size:12 final size:12
Alignment explanation
Indices: 4335632--4335913 Score: 146
Period size: 12 Copynumber: 23.5 Consensus size: 12
4335622 GTGCAAGTGG
*
4335632 TAAAGATGAAGC
1 TAAAGCTGAAGC
4335644 TAAAGCTGAAGC
1 TAAAGCTGAAGC
* *
4335656 TCAAGCTCAAGC
1 TAAAGCTGAAGC
* **
4335668 TAAAGCTAAAAA
1 TAAAGCTGAAGC
* * *
4335680 TGAAGTTAAAGC
1 TAAAGCTGAAGC
* *
4335692 TGAAGATGAAGC
1 TAAAGCTGAAGC
* * *
4335704 TCAAGCTAAAGT
1 TAAAGCTGAAGC
*
4335716 TAAAGATGAAGC
1 TAAAGCTGAAGC
*
4335728 TAAAGCTGAATC
1 TAAAGCTGAAGC
* *
4335740 TGAAGCTAAAGC
1 TAAAGCTGAAGC
* *
4335752 TAAATCTAAAG-
1 TAAAGCTGAAGC
* * *
4335763 AAGAAGCTAAAGT
1 TA-AAGCTGAAGC
* *
4335776 TGAAGCTAAAGC
1 TAAAGCTGAAGC
4335788 TAAAGCTGAAGC
1 TAAAGCTGAAGC
4335800 TAAAAG-TGAAGC
1 T-AAAGCTGAAGC
** *
4335812 CGAAGATGAAGC
1 TAAAGCTGAAGC
*
4335824 TAAAGCTAAAGC
1 TAAAGCTGAAGC
*
4335836 TGAAG--GAAAGGC
1 TAAAGCTG-AA-GC
*
4335848 TGAAGCTGAAGC
1 TAAAGCTGAAGC
4335860 TGAAA-CTGAAGC
1 T-AAAGCTGAAGC
*
4335872 AAAAGCTGAAGC
1 TAAAGCTGAAGC
4335884 -AAAGGCTGAAGC
1 TAAA-GCTGAAGC
*
4335896 -AAACACTGAAGC
1 TAAA-GCTGAAGC
*
4335908 AAAAGC
1 TAAAGC
4335914 AAAAGCTGAA
Statistics
Matches: 210, Mismatches: 48, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
11 12 0.06
12 186 0.89
13 11 0.05
14 1 0.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.16
Consensus pattern (12 bp):
TAAAGCTGAAGC
Found at i:4335696 original size:42 final size:42
Alignment explanation
Indices: 4335632--4335883 Score: 238
Period size: 42 Copynumber: 6.0 Consensus size: 42
4335622 GTGCAAGTGG
* * *
4335632 TAAAGATGAAGCTAAAGCTGAAGCTCAAGCTCAAGCTAAAGC
1 TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* * * *
4335674 TAAAAATGAAGTTAAAGCTGAAGATGAAGCTCAAGCTAAAGT
1 TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* * *
4335716 TAAAGATGAAGCTAAAGCTGAATCTGAAGCTAAAGCTAAATC
1 TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* * *
4335758 TAAAGAA-GAAGCTAAAGTTGAAGCTAAAGCTAAAGCTGAAGC
1 TAAA-AATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* ** * * *
4335800 TAAAAGTGAAGCCGAAGATGAAGCTAAAGCTAAAGCTGAAG-
1 TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* ** * * * *
4335841 GAAAGGCTGAAGCTGAAGCTGAAACTGAAGCAAAAGCTGAAGC
1 TAAA-AATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
4335884 AAAGGCTGAA
Statistics
Matches: 176, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
41 4 0.02
42 171 0.97
43 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (42 bp):
TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
Found at i:4335811 original size:18 final size:18
Alignment explanation
Indices: 4335640--4335923 Score: 157
Period size: 18 Copynumber: 15.8 Consensus size: 18
4335630 GGTAAAGATG
*
4335640 AAGCTAAAGCTGAAGCTC
1 AAGCTAAAGCTGAAGCTA
* *
4335658 AAGCTCAAGCTAAAGCTA
1 AAGCTAAAGCTGAAGCTA
** * * * *
4335676 AAAATGAAGTTAAAGCTG
1 AAGCTAAAGCTGAAGCTA
* * *
4335694 AAGATGAAGCTCAAGCTA
1 AAGCTAAAGCTGAAGCTA
* *
4335712 AAGTTAAAGATGAAGCTA
1 AAGCTAAAGCTGAAGCTA
* *
4335730 AAGCTGAATCTGAAGCTA
1 AAGCTAAAGCTGAAGCTA
* * *
4335748 AAGCTAAATCTAAAG-AA
1 AAGCTAAAGCTGAAGCTA
*
4335765 GAAGCTAAAGTTGAAGCTA
1 -AAGCTAAAGCTGAAGCTA
4335784 AAGCTAAAGCTGAAGCTAA
1 AAGCTAAAGCTGAAGCT-A
* * * *
4335803 AAG-TGAAGCCGAAGATG
1 AAGCTAAAGCTGAAGCTA
* *
4335820 AAGCTAAAGCTAAAGCTG
1 AAGCTAAAGCTGAAGCTA
* *
4335838 AAG-GAAAGGCTGAAGCTG
1 AAGCTAAA-GCTGAAGCTA
*
4335856 AAGCTGAAA-CTGAAGCAA
1 AAGCT-AAAGCTGAAGCTA
* * *
4335874 AAGCTGAAGC-AAAGGCTG
1 AAGCTAAAGCTGAA-GCTA
* *
4335892 AAGC-AAACACTGAAGCAA
1 AAGCTAAA-GCTGAAGCTA
*
4335910 AAGCAAAAGCTGAA
1 AAGCTAAAGCTGAA
4335924 ATAGGAGGAC
Statistics
Matches: 203, Mismatches: 51, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
17 13 0.06
18 177 0.87
19 10 0.05
20 3 0.01
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (18 bp):
AAGCTAAAGCTGAAGCTA
Found at i:4335888 original size:42 final size:43
Alignment explanation
Indices: 4335638--4335923 Score: 235
Period size: 42 Copynumber: 6.8 Consensus size: 43
4335628 GTGGTAAAGA
* * * **
4335638 TGAAGCTAAAGCTGAAGCTCAAGCTCAAGCTAAAGCTAAA-AA
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * * * * * *
4335680 TGAAGTTAAAGCTGAAGATGAAGCTCAAGCTAAAGTTAAA-GA
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * * * *
4335722 TGAAGCTAAAGCTGAATCTGAAGCTAAAGCTAAATCTAAA-GA
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * *
4335764 AGAAGCTAAAGTTGAAGCTAAAGCTAAAGCTGAAGCTAAAAG-
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
** * *
4335806 TGAAGCCGAAGATGAAGCTAAAGCTAAAGCTGAAG-GAAAGGC
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * * *
4335848 TGAAGCTGAAGCTGAAACTGAAGCAAAAGCTGAAGC-AAAGGC
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * *
4335890 TGAAGC-AAACACTGAAGCAAAAGCAAAAGCTGAA
1 TGAAGCTAAA-GCTGAAGCTAAAGCTAAAGCTGAA
4335924 ATAGGAGGAC
Statistics
Matches: 207, Mismatches: 33, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
41 6 0.03
42 200 0.97
43 1 0.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.16
Consensus pattern (43 bp):
TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
Found at i:4335893 original size:30 final size:31
Alignment explanation
Indices: 4335640--4335881 Score: 86
Period size: 30 Copynumber: 8.3 Consensus size: 31
4335630 GGTAAAGATG
** *
4335640 AAGCT-AAAGCTGAAGCTCAAGCTCAAGCTA
1 AAGCTGAAAGCTGAAGCAAAAGCTGAAGCTA
** ** * *
4335670 AAGCT-AAAAATGAAGTTAAAGCTGAAGATG
1 AAGCTGAAAGCTGAAGCAAAAGCTGAAGCTA
* * ** *
4335700 AAGCT-CAAGCTAAAGTTAAAGATGAAGCTA
1 AAGCTGAAAGCTGAAGCAAAAGCTGAAGCTA
* * * *
4335730 AAGCTG-AATCTGAAGCTAAAGCTAAATCTA
1 AAGCTGAAAGCTGAAGCAAAAGCTGAAGCTA
* *
4335760 AA---G-AA---GAAGCTAAAGTTGAAGCTA
1 AAGCTGAAAGCTGAAGCAAAAGCTGAAGCTA
**
4335784 AAGCT-AAAGCTGAAGCTAAAAG-TGAAGCCG
1 AAGCTGAAAGCTGAAGC-AAAAGCTGAAGCTA
* * * *
4335814 AAGATG-AAGCTAAAGCTAAAGCTGAAG-GA
1 AAGCTGAAAGCTGAAGCAAAAGCTGAAGCTA
* *
4335843 AAGGCTG-AAGCTGAAGCTGAAA-CTGAAGCAA
1 AA-GCTGAAAGCTGAAGC-AAAAGCTGAAGCTA
4335874 AAGCTGAA
1 AAGCTGAA
4335882 GCAAAGGCTG
Statistics
Matches: 162, Mismatches: 35, Indels: 29
0.72 0.15 0.13
Matches are distributed among these distances:
24 18 0.11
27 5 0.03
29 6 0.04
30 122 0.75
31 11 0.07
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (31 bp):
AAGCTGAAAGCTGAAGCAAAAGCTGAAGCTA
Found at i:4335919 original size:24 final size:24
Alignment explanation
Indices: 4335868--4335919 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4335858 GCTGAAACTG
* **
4335868 AAGCAAAAGCTGAAGCAAAGGCTG
1 AAGCAAAAGCTGAAGCAAAAGCAA
4335892 AAGCAAACA-CTGAAGCAAAAGCAA
1 AAGCAAA-AGCTGAAGCAAAAGCAA
4335916 AAGC
1 AAGC
4335920 TGAAATAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.52, C:0.19, G:0.23, T:0.06
Consensus pattern (24 bp):
AAGCAAAAGCTGAAGCAAAAGCAA
Found at i:4335983 original size:6 final size:6
Alignment explanation
Indices: 4335965--4336090 Score: 94
Period size: 6 Copynumber: 21.0 Consensus size: 6
4335955 GTGGTGGTGG
* * * *
4335965 TGAAGC CGAAGC TGAAGC TAAAGC TAAAGC TGAAG- -GAAAGGC TAAAGC
1 TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TG-AA-GC TGAAGC
** * ** *
4336013 TGAAGC TGAAGC CAAAGC TGAAGC GGAAGC AAAAGC CGAAGC TGAAGC
1 TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC
** * *
4336061 TGAAGC AAAAGC CGAAGC TGAAGC CGAAGC
1 TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC
4336091 AAACACCGAA
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
4 1 0.01
5 2 0.02
6 89 0.95
7 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.30, T:0.10
Consensus pattern (6 bp):
TGAAGC
Found at i:4335994 original size:18 final size:18
Alignment explanation
Indices: 4335973--4336090 Score: 105
Period size: 18 Copynumber: 6.6 Consensus size: 18
4335963 GGTGAAGCCG
*
4335973 AAGCTGAAGCTAAAGCTA
1 AAGCTGAAGCTGAAGCTA
4335991 AAGCTGAAG--GAAAGGCTA
1 AAGCTGAAGCTG-AA-GCTA
*
4336009 AAGCTGAAGCTGAAGCCA
1 AAGCTGAAGCTGAAGCTA
* *
4336027 AAGCTGAAGCGGAAGCAA
1 AAGCTGAAGCTGAAGCTA
* *
4336045 AAGCCGAAGCTGAAGCTG
1 AAGCTGAAGCTGAAGCTA
** * *
4336063 AAGCAAAAGCCGAAGCTG
1 AAGCTGAAGCTGAAGCTA
*
4336081 AAGCCGAAGC
1 AAGCTGAAGC
4336091 AAACACCGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.02
18 78 0.94
19 2 0.02
20 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.30, T:0.09
Consensus pattern (18 bp):
AAGCTGAAGCTGAAGCTA
Found at i:4336078 original size:36 final size:36
Alignment explanation
Indices: 4335967--4336148 Score: 128
Period size: 36 Copynumber: 5.2 Consensus size: 36
4335957 GGTGGTGGTG
* * *
4335967 AAGCCGAAGCTGAAGCTAAAGCTAAAGCTGAAGGAA
1 AAGCCGAAGCTGAAGCTGAAGCAAAAGCTGAAGCAA
* ** *
4336003 AGGCTAAAGCTGAAGCTGAAGCCAAAGCTGAAGC--
1 AAGCCGAAGCTGAAGCTGAAGCAAAAGCTGAAGCAA
** * **
4336037 --G--GAAGCAAAAGCCGAAGCTGAAGCTGAAGCAA
1 AAGCCGAAGCTGAAGCTGAAGCAAAAGCTGAAGCAA
* *
4336069 AAGCCGAAGCTGAAGCCGAAGCAAACA-CCGAAGCAA
1 AAGCCGAAGCTGAAGCTGAAGCAAA-AGCTGAAGCAA
* * * *
4336105 AAGCCAAAGC-AAAGGCTGAAGCAAAGGCCGAAGCAA
1 AAGCCGAAGCTGAA-GCTGAAGCAAAAGCTGAAGCAA
4336141 AAGCCGAA
1 AAGCCGAA
4336149 ATAGGAGGAG
Statistics
Matches: 115, Mismatches: 22, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
30 23 0.20
32 1 0.01
34 1 0.01
35 2 0.02
36 87 0.76
37 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.28, T:0.07
Consensus pattern (36 bp):
AAGCCGAAGCTGAAGCTGAAGCAAAAGCTGAAGCAA
Found at i:4336091 original size:24 final size:24
Alignment explanation
Indices: 4336021--4336148 Score: 143
Period size: 24 Copynumber: 5.3 Consensus size: 24
4336011 GCTGAAGCTG
* *
4336021 AAGCCAAAGCTGAAGCGGAAGCAA
1 AAGCCGAAGCTGAAGCCGAAGCAA
*
4336045 AAGCCGAAGCTGAAGCTGAAGCAA
1 AAGCCGAAGCTGAAGCCGAAGCAA
4336069 AAGCCGAAGCTGAAGCCGAAGCAA
1 AAGCCGAAGCTGAAGCCGAAGCAA
** *
4336093 ACA-CCGAAGCAAAAGCCAAAGCAA
1 A-AGCCGAAGCTGAAGCCGAAGCAA
* * *
4336117 AGGCTGAAGC-AAAGGCCGAAGCAA
1 AAGCCGAAGCTGAA-GCCGAAGCAA
4336141 AAGCCGAA
1 AAGCCGAA
4336149 ATAGGAGGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
23 3 0.03
24 86 0.96
25 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.27, T:0.04
Consensus pattern (24 bp):
AAGCCGAAGCTGAAGCCGAAGCAA
Found at i:4336146 original size:12 final size:12
Alignment explanation
Indices: 4336033--4336148 Score: 126
Period size: 12 Copynumber: 9.7 Consensus size: 12
4336023 GCCAAAGCTG
*
4336033 AAGCGGAAGCAA
1 AAGCCGAAGCAA
**
4336045 AAGCCGAAGCTG
1 AAGCCGAAGCAA
*
4336057 AAGCTGAAGCAA
1 AAGCCGAAGCAA
**
4336069 AAGCCGAAGCTG
1 AAGCCGAAGCAA
4336081 AAGCCGAAGCAA
1 AAGCCGAAGCAA
4336093 ACA-CCGAAGCAA
1 A-AGCCGAAGCAA
*
4336105 AAGCCAAAGCAA
1 AAGCCGAAGCAA
* *
4336117 AGGCTGAAGCAA
1 AAGCCGAAGCAA
*
4336129 AGGCCGAAGCAA
1 AAGCCGAAGCAA
4336141 AAGCCGAA
1 AAGCCGAA
4336149 ATAGGAGGAG
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
11 1 0.01
12 83 0.98
13 1 0.01
ACGTcount: A:0.46, C:0.23, G:0.28, T:0.03
Consensus pattern (12 bp):
AAGCCGAAGCAA
Found at i:4339061 original size:3 final size:3
Alignment explanation
Indices: 4339053--4339125 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
4339043 AAGAAAGTAC
4339053 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
4339101 ATA ATA ATA ATG ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4339126 ATGAAATAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4339166 original size:13 final size:13
Alignment explanation
Indices: 4339150--4339186 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4339140 AAAATGACCG
4339150 AAAAAAATAAAAT
1 AAAAAAATAAAAT
*
4339163 AAAAAAACAAAAT
1 AAAAAAATAAAAT
*
4339176 AAAAATATAAA
1 AAAAAAATAAA
4339187 CAAAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:4339192 original size:18 final size:18
Alignment explanation
Indices: 4339150--4339196 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
4339140 AAAATGACCG
4339150 AAAAAAAT-AAAATAAAA
1 AAAAAAATAAAAATAAAA
*
4339167 AAACAAAATAAAAATATAA
1 AAA-AAAATAAAAATAAAA
*
4339186 ACAAAAATAAA
1 AAAAAAATAAA
4339197 GAAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 3 0.12
18 13 0.50
19 10 0.38
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAAAAATAAAAATAAAA
Found at i:4339203 original size:18 final size:17
Alignment explanation
Indices: 4339152--4339203 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
4339142 AATGACCGAA
*
4339152 AAAAATAAAATAA-AAAA
1 AAAAATAAAA-AATAAAC
4339169 ACAAAATAAAAATATAAAC
1 A-AAAATAAAAA-ATAAAC
4339188 AAAAATAAAGAAATAA
1 AAAAATAAA-AAATAA
4339204 TAACAGCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.07
18 22 0.73
19 6 0.20
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (17 bp):
AAAAATAAAAAATAAAC
Found at i:4343973 original size:21 final size:22
Alignment explanation
Indices: 4343947--4343993 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4343937 CTCTGCTCAA
*
4343947 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
4343968 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
4343990 ACTC
1 ACTC
4343994 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:4347175 original size:15 final size:15
Alignment explanation
Indices: 4347155--4347184 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4347145 GGAGAAACTC
4347155 CTGCCAAATAGGGTA
1 CTGCCAAATAGGGTA
4347170 CTGCCAAATAGGGTA
1 CTGCCAAATAGGGTA
4347185 TATAATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (15 bp):
CTGCCAAATAGGGTA
Found at i:4348260 original size:3 final size:3
Alignment explanation
Indices: 4348252--4348276 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4348242 AGATATTTAC
4348252 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
4348277 CATCTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4352525 original size:30 final size:30
Alignment explanation
Indices: 4352491--4352550 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4352481 ATTTAATACG
4352491 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
4352521 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
4352551 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:4352638 original size:12 final size:12
Alignment explanation
Indices: 4352621--4352646 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4352611 CCTTCTATGG
4352621 CAACATCAAATT
1 CAACATCAAATT
4352633 CAACATCAAATT
1 CAACATCAAATT
4352645 CA
1 CA
4352647 CACTCTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (12 bp):
CAACATCAAATT
Found at i:4356459 original size:24 final size:24
Alignment explanation
Indices: 4356427--4356474 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4356417 ACTGTTAGGT
*
4356427 AGAATTCCCTTTAGAATGCACAAA
1 AGAATTCCCTTTAGAATACACAAA
4356451 AGAATTCCCTTTAGAATACACAAA
1 AGAATTCCCTTTAGAATACACAAA
4356475 CCTTCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (24 bp):
AGAATTCCCTTTAGAATACACAAA
Found at i:4361119 original size:19 final size:19
Alignment explanation
Indices: 4361095--4361172 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
4361085 AATCATATCT
4361095 TCTAAGATTACATATCTTA
1 TCTAAGATTACATATCTTA
**
4361114 TCTAAGA-TATGTAATCTTA
1 TCTAAGATTACAT-ATCTTA
*
4361133 --TAA-AATA-ATATCTTA
1 TCTAAGATTACATATCTTA
*
4361148 --TAAGATTACATATCATA
1 TCTAAGATTACATATCTTA
4361165 TCTAAGAT
1 TCTAAGAT
4361173 CTCTAAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.19
16 5 0.10
17 12 0.25
18 3 0.06
19 19 0.40
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCTTA
Found at i:4361135 original size:51 final size:51
Alignment explanation
Indices: 4361072--4361204 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
4361062 CAATCAAATC
* * *
4361072 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
4361123 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
4361174 TCTAAGATTATAAAATCATATCTTTTAAGAT
1 TCTAAGATTATAAAATCATATCTTATAAGAT
4361205 CATGTTTCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:4366318 original size:19 final size:19
Alignment explanation
Indices: 4366294--4366371 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
4366284 AATCATATCT
4366294 TCTAAGATTACATATCTTA
1 TCTAAGATTACATATCTTA
**
4366313 TCTAAGA-TATGTAATCTTA
1 TCTAAGATTACAT-ATCTTA
*
4366332 --TAA-AATA-ATATCTTA
1 TCTAAGATTACATATCTTA
*
4366347 --TAAGATTACATATCATA
1 TCTAAGATTACATATCTTA
4366364 TCTAAGAT
1 TCTAAGAT
4366372 CTCTAAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.19
16 5 0.10
17 12 0.25
18 3 0.06
19 19 0.40
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCTTA
Found at i:4366334 original size:51 final size:51
Alignment explanation
Indices: 4366271--4366403 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
4366261 CAATCAAATC
* * *
4366271 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
4366322 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
4366373 TCTAAGATTATAAAATCATATCTTTTAAGAT
1 TCTAAGATTATAAAATCATATCTTATAAGAT
4366404 CATGTTTCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:4367002 original size:50 final size:50
Alignment explanation
Indices: 4366942--4367039 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
4366932 TAAATTGAGT
*
4366942 AAATAGGAGTTAATAATTATTCTTGGTCGTGAGAATGACTTTATACTAGG
1 AAATAGGAGTTAATAATTATTCTTGGTCGTGAGAATGACATTATACTAGG
4366992 AAATAGGAGTTAATAATTATTCTTGGTCGTGAGAATGACATTATACTA
1 AAATAGGAGTTAATAATTATTCTTGGTCGTGAGAATGACATTATACTA
4367040 TGTATTAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (50 bp):
AAATAGGAGTTAATAATTATTCTTGGTCGTGAGAATGACATTATACTAGG
Found at i:4369964 original size:30 final size:30
Alignment explanation
Indices: 4369930--4370123 Score: 135
Period size: 30 Copynumber: 6.5 Consensus size: 30
4369920 GCTACCACTT
*
4369930 CCACCACCACCACCAGCAAAATGCATGTGA
1 CCACCACCACCACCACCAAAATGCATGTGA
*
4369960 CCACCACCACCACCACCAAACTGCATGTGA
1 CCACCACCACCACCACCAAAATGCATGTGA
** * ** * * *
4369990 CCACCACCACTTCCTCCACCATGCCTTTTA
1 CCACCACCACCACCACCAAAATGCATGTGA
* * * * ** *
4370020 GCC-CCACCATCAACA-C-TACTGCTACCACT-T
1 -CCACCACCACCACCACCAAAATGC-A--TGTGA
* * *
4370050 CCACCACCACCACTAGCAAAACGCATGTGA
1 CCACCACCACCACCACCAAAATGCATGTGA
*
4370080 CCACCACCACCGCCACCAAAATGCATGTGA
1 CCACCACCACCACCACCAAAATGCATGTGA
4370110 CCACCACCACCACC
1 CCACCACCACCACC
4370124 TCCACTATAC
Statistics
Matches: 119, Mismatches: 37, Indels: 16
0.69 0.22 0.09
Matches are distributed among these distances:
28 3 0.03
29 4 0.03
30 104 0.87
31 5 0.04
32 3 0.03
ACGTcount: A:0.31, C:0.46, G:0.09, T:0.13
Consensus pattern (30 bp):
CCACCACCACCACCACCAAAATGCATGTGA
Found at i:4370043 original size:120 final size:120
Alignment explanation
Indices: 4369856--4370178 Score: 511
Period size: 120 Copynumber: 2.7 Consensus size: 120
4369846 CCGCCACTAG
* * *
4369856 CAAAATGCATATGACCACCACCACCGCCTCCACCATGCCCTTTAGCCCCACCATCAACAGTATTG
1 CAAAATGCATGTGACCACCACCACCACCTCCACCATGCCCTTTAGCCCCACCATCAACACTATTG
*
4369921 CTACCACTTCCACCACCACCACCAGCAAAATGCATGTGACCACCACCACCACCAC
66 CTACCACTTCCACCACCACCACCAGCAAAACGCATGTGACCACCACCACCACCAC
* ** * *
4369976 CAAACTGCATGTGACCACCACCACTTCCTCCACCATGCCTTTTAGCCCCACCATCAACACTACTG
1 CAAAATGCATGTGACCACCACCACCACCTCCACCATGCCCTTTAGCCCCACCATCAACACTATTG
* *
4370041 CTACCACTTCCACCACCACCACTAGCAAAACGCATGTGACCACCACCACCGCCAC
66 CTACCACTTCCACCACCACCACCAGCAAAACGCATGTGACCACCACCACCACCAC
* * *
4370096 CAAAATGCATGTGACCACCACCACCACCTCCACTATACCCTTCAGCCCCACCATCAACACTATTG
1 CAAAATGCATGTGACCACCACCACCACCTCCACCATGCCCTTTAGCCCCACCATCAACACTATTG
*
4370161 CTACCACTTACACCACCA
66 CTACCACTTCCACCACCA
4370179 TTTCCACTAG
Statistics
Matches: 184, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 184 1.00
ACGTcount: A:0.30, C:0.45, G:0.08, T:0.16
Consensus pattern (120 bp):
CAAAATGCATGTGACCACCACCACCACCTCCACCATGCCCTTTAGCCCCACCATCAACACTATTG
CTACCACTTCCACCACCACCACCAGCAAAACGCATGTGACCACCACCACCACCAC
Done.