Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 37 of 438
Found at i:9027153 original size:148 final size:140
Alignment explanation
Indices: 9027012--9027285 Score: 314
Period size: 140 Copynumber: 1.9 Consensus size: 140
9027002 GTCTTTTCAT
* ** * * *
9027012 AATATTTAAATAAGAGGACAATATTTATACTAATCCAATTAAAACTCAATTAGTTTACATCTATA
1 AATACTTAAATAAGAGGACAATACCTATACCAATCCAACTAAAACTCAATCAGTTTACA-C----
* * * *
9027077 TATATATATATATATATATTAAACATTAATATCATTATAAGTTCTCATCATATCTGCTCTTTATT
61 -ACATATATAT-T-TATATTAAACATGAATATCATTATAAGTTATCATCATATCTACTCTTTATT
9027142 GATACATAGTCTTTCCCA
123 GATACATAGTCTTTCCCA
* * * * **
9027160 AATCCTTAAATAGGAGGACAATACCTATACCAATCGAGCTAAGGCTCAATCAGTTTACACACATA
1 AATACTTAAATAAGAGGACAATACCTATACCAATCCAACTAAAACTCAATCAGTTTACACACATA
* *
9027225 TATATTTATATTAAACATGAATCTTATTATAAGTTATCATCATATCTACTCTTTATTGATA
66 TATATTTATATTAAACATGAATATCATTATAAGTTATCATCATATCTACTCTTTATTGATA
9027286 TAATATATAG
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
140 50 0.46
141 1 0.01
142 9 0.08
147 1 0.01
148 47 0.44
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (140 bp):
AATACTTAAATAAGAGGACAATACCTATACCAATCCAACTAAAACTCAATCAGTTTACACACATA
TATATTTATATTAAACATGAATATCATTATAAGTTATCATCATATCTACTCTTTATTGATACATA
GTCTTTCCCA
Found at i:9032157 original size:32 final size:32
Alignment explanation
Indices: 9032121--9032187 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
9032111 CGAGTTAGAC
*
9032121 TTTATTTATAAACTTTAAAAAGAAGTTATAAT
1 TTTATTTATAAACTTTAAAAAGAAGTTACAAT
9032153 TTTATTTATAAACTTTAAAAAGAAGTTACAAT
1 TTTATTTATAAACTTTAAAAAGAAGTTACAAT
9032185 TTT
1 TTT
9032188 TGGATTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (32 bp):
TTTATTTATAAACTTTAAAAAGAAGTTACAAT
Found at i:9032543 original size:62 final size:62
Alignment explanation
Indices: 9032467--9032587 Score: 233
Period size: 62 Copynumber: 2.0 Consensus size: 62
9032457 CTGCCAGGGC
9032467 GACATCTCTGCTAGCTCGCATGAGTGTCATGCGACGTGTAACGCTTCGAGCAACTTCGCGCG
1 GACATCTCTGCTAGCTCGCATGAGTGTCATGCGACGTGTAACGCTTCGAGCAACTTCGCGCG
*
9032529 GACATCTCTGCTAGCTCGCATGAGTGTCATGCGACGTGTGACGCTTCGAGCAACTTCGC
1 GACATCTCTGCTAGCTCGCATGAGTGTCATGCGACGTGTAACGCTTCGAGCAACTTCGC
9032588 CCATGCCACC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (62 bp):
GACATCTCTGCTAGCTCGCATGAGTGTCATGCGACGTGTAACGCTTCGAGCAACTTCGCGCG
Found at i:9032778 original size:7 final size:7
Alignment explanation
Indices: 9032768--9032809 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
9032758 TTATAAAAAT
9032768 AAAATTA
1 AAAATTA
9032775 AAAATTA
1 AAAATTA
9032782 AAAATTA
1 AAAATTA
9032789 AAAATTA
1 AAAATTA
9032796 AAAATTA
1 AAAATTA
9032803 AAAATTA
1 AAAATTA
9032810 TTACATGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATTA
Found at i:9032794 original size:21 final size:21
Alignment explanation
Indices: 9032761--9032809 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
9032751 TTTAGTTTTA
9032761 TAAAAA-T-AAAATTAAAAAT
1 TAAAAATTAAAAATTAAAAAT
9032780 TAAAAATTAAAAATTAAAAAT
1 TAAAAATTAAAAATTAAAAAT
9032801 TAAAAATTA
1 TAAAAATTA
9032810 TTACATGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 6 0.21
20 1 0.04
21 21 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATTAAAAATTAAAAAT
Found at i:9037299 original size:38 final size:38
Alignment explanation
Indices: 9037244--9037434 Score: 204
Period size: 38 Copynumber: 5.0 Consensus size: 38
9037234 AGCACTTGAT
* * *
9037244 ATATATCTGGGTGAAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * *
9037282 ACATATCCGGGTTAAGTCCCGCAGGCTTCGTGCGGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * *
9037320 ATATATCCGGGTTAAATCTCGCAGGCTTCGTACTAGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * *
9037358 ATATATTCGGGTTAAATCCCGTAGGCTTAGTGCTGGT-
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * * *
9037395 ATTTGATCTGAGCTTAAAGTCCCGCAGGCTTTGTGCTGGT
1 ATAT-ATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
9037435 GACTGGATTC
Statistics
Matches: 128, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
37 3 0.02
38 100 0.78
39 6 0.05
40 19 0.15
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (38 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:9044843 original size:38 final size:38
Alignment explanation
Indices: 9044792--9044943 Score: 232
Period size: 38 Copynumber: 4.0 Consensus size: 38
9044782 AGCACTTGAT
* *
9044792 ATATATCTGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
9044830 ATATATCCGGGTTAAGTCCCGTAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
9044868 ATATATCCGGGTTAAATCCCGCAGGATTCGTACTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
9044906 ATATATCCGGGTTAAATCCCGTAGGCTTAGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
9044944 TTTGATCTGA
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 104 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (38 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:9051762 original size:98 final size:98
Alignment explanation
Indices: 9051593--9051790 Score: 396
Period size: 98 Copynumber: 2.0 Consensus size: 98
9051583 TGACTATACT
9051593 TTATAATGAAACGTTATGTCCAAACATTTGAGTTTTTTTCCATAAATTTACTTTGAAGATTGTGT
1 TTATAATGAAACGTTATGTCCAAACATTTGAGTTTTTTTCCATAAATTTACTTTGAAGATTGTGT
9051658 TTCTTGGGGTCATGATAATGATGAACAATAAAC
66 TTCTTGGGGTCATGATAATGATGAACAATAAAC
9051691 TTATAATGAAACGTTATGTCCAAACATTTGAGTTTTTTTCCATAAATTTACTTTGAAGATTGTGT
1 TTATAATGAAACGTTATGTCCAAACATTTGAGTTTTTTTCCATAAATTTACTTTGAAGATTGTGT
9051756 TTCTTGGGGTCATGATAATGATGAACAATAAAC
66 TTCTTGGGGTCATGATAATGATGAACAATAAAC
9051789 TT
1 TT
9051791 TTGGGATAGG
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 100 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (98 bp):
TTATAATGAAACGTTATGTCCAAACATTTGAGTTTTTTTCCATAAATTTACTTTGAAGATTGTGT
TTCTTGGGGTCATGATAATGATGAACAATAAAC
Found at i:9052179 original size:30 final size:30
Alignment explanation
Indices: 9052143--9052200 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9052133 AAAGTAGTGG
* * *
9052143 TGAAAAGTTAGGAGCCAAGTACGAAAAACC
1 TGAAAAGTCAGAAGCCAAGGACGAAAAACC
*
9052173 TGAAAAGTCAGAAGTCAAGGACGAAAAA
1 TGAAAAGTCAGAAGCCAAGGACGAAAAA
9052201 TTCAAGAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.50, C:0.14, G:0.24, T:0.12
Consensus pattern (30 bp):
TGAAAAGTCAGAAGCCAAGGACGAAAAACC
Found at i:9055571 original size:2 final size:2
Alignment explanation
Indices: 9055566--9055601 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9055556 GTTGGTTTGG
9055566 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9055602 AACATGTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9058900 original size:42 final size:42
Alignment explanation
Indices: 9058819--9058934 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 42
9058809 TCCAAGACGT
* *
9058819 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATA-CGATGCCACTGTCCCAGACAG
*
9058862 GGTCTTACACGAAATCAAATACGATGCCGA-TGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCC-ACTGTCCCAGACAG
9058904 GGTCTTACACGTAAATCTCAAAT-CGATGCCA
1 GGTCTTACACG-AAA--TCAAATACGATGCCA
9058935 ACGTTTCAGA
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
42 29 0.44
43 24 0.36
44 7 0.11
45 6 0.09
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCACTGTCCCAGACAG
Found at i:9063805 original size:48 final size:47
Alignment explanation
Indices: 9063751--9063983 Score: 277
Period size: 48 Copynumber: 4.9 Consensus size: 47
9063741 TATGAAGTCT
*
9063751 CATATCAGTGCCGATGCCATGTCCCAGACATGGTATTACACTAGCACA
1 CATATCA-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* *
9063799 CGTATCATCGCCGATGCCATGTCCCAGACATGGTATTACACTAGCACA
1 CATATCAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* * * *
9063847 CGTATCATCGCCGATGCCATGTCCCAGACATAGTCTTACATTGGCACA
1 CATATCAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
** ** *
9063895 CATATCAACACCGATGCCATGTCATAGACATGGTCTTACACTGGCACA
1 CATATC-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* * * *
9063943 CATATCAACGTCGATGCCATGTCCCAAACATAGTCTTACAC
1 CATATC-ATGCCGATGCCATGTCCCAGACATGGTCTTACAC
9063984 GGGATCTCAT
Statistics
Matches: 165, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 163 0.99
49 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (47 bp):
CATATCATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
Found at i:9065065 original size:125 final size:125
Alignment explanation
Indices: 9064843--9065088 Score: 438
Period size: 125 Copynumber: 2.0 Consensus size: 125
9064833 ACTCATGGGT
9064843 TTTTAAACATGAATCCTAACTCAAAATAATGATAGAAATAGGTAAATCGAGTTACGGGGACTTCA
1 TTTTAAACATGAATCCTAACTCAAAATAATGATAGAAATAGGTAAATCGAGTTACGGGGACTTCA
* *
9064908 AAAATGAAAAGAACATTAAAAACGGGGCTAGGATGCATTTACTATGGAGCTTGGAAAAAA
66 AAAATGAAAAGAACATTAAAAACGGGGCTAGGATGCACTTACTATAGAGCTTGGAAAAAA
* *
9064968 TTTTAAACATGAATCCTAGCTCAAAATAATGGTAGAAATAGGTAAATCGAGTTACGGGGACTTCA
1 TTTTAAACATGAATCCTAACTCAAAATAATGATAGAAATAGGTAAATCGAGTTACGGGGACTTCA
* *
9065033 AAAATGTAAAGAACATTAAAAACGGGGCTAGGATGTACTTACTATAGAGCTTGGAA
66 AAAATGAAAAGAACATTAAAAACGGGGCTAGGATGCACTTACTATAGAGCTTGGAA
9065089 GCTTGACCCA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 115 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (125 bp):
TTTTAAACATGAATCCTAACTCAAAATAATGATAGAAATAGGTAAATCGAGTTACGGGGACTTCA
AAAATGAAAAGAACATTAAAAACGGGGCTAGGATGCACTTACTATAGAGCTTGGAAAAAA
Found at i:9071361 original size:61 final size:60
Alignment explanation
Indices: 9071259--9071433 Score: 164
Period size: 60 Copynumber: 2.9 Consensus size: 60
9071249 TCAAGCTTTA
* * *
9071259 CTGGGCC-TAAGCCCTATTCAGAAATCAGAGT-TAACTAGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATT-A-CAATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATCAAT
* * *
9071321 CTGGGCCATAGCCC-CTTACAGTATCAGAGTATACTGGGCC-TAGCCCATAACAGTATCAAT
1 CTGGGCCATAGCCCTATTACA--ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
* *
9071381 CTTGGCCATAGCCCTATTACAAGTC-GAGATATATTGGGCCTT-GCCCATATCAA
1 CTGGGCCATAGCCCTATTACAA-TCAGAG-TATACTGGGCCTTAGCCCATATCAA
9071434 CACAGTTGGG
Statistics
Matches: 94, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
59 5 0.05
60 52 0.55
61 23 0.24
62 13 0.14
63 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (60 bp):
CTGGGCCATAGCCCTATTACAATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:9071466 original size:19 final size:20
Alignment explanation
Indices: 9071423--9071468 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
9071413 ATTGGGCCTT
9071423 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* * *
9071443 GCCCATTTCAATATAGTT-G
1 GCCCATATCAACACAGTTGG
9071462 GCCCATA
1 GCCCATA
9071469 ACAAATCAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:9073870 original size:3 final size:3
Alignment explanation
Indices: 9073862--9073948 Score: 147
Period size: 3 Copynumber: 29.0 Consensus size: 3
9073852 ATTCAATACC
9073862 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
* * *
9073910 ATA ATA ATA ATA ATA ATA ATA ATA ACA ACA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9073949 CTTACCATTC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9074630 original size:22 final size:21
Alignment explanation
Indices: 9074605--9074645 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9074595 TCCCCTGTTC
*
9074605 TTCTCTGTTTCGTTTTCTTTGT
1 TTCTCTGTTTC-ATTTCTTTGT
*
9074627 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
9074646 TATTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:9074738 original size:22 final size:23
Alignment explanation
Indices: 9074698--9074750 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
9074688 AACTATTATA
*
9074698 ATATTTATTATTTACACATGTGT
1 ATATTTATTATATACACATGTGT
9074721 ATATTTATTA-ATACACATGTGT
1 ATATTTATTATATACACATGTGT
9074743 -TAATTTAT
1 AT-ATTTAT
9074751 CACCTCACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 1 0.04
22 17 0.61
23 10 0.36
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (23 bp):
ATATTTATTATATACACATGTGT
Found at i:9084378 original size:13 final size:13
Alignment explanation
Indices: 9084360--9084385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9084350 TCGACAGGGA
9084360 CACGCCCGTGTGC
1 CACGCCCGTGTGC
9084373 CACGCCCGTGTGC
1 CACGCCCGTGTGC
9084386 GATTTCTCCA
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:0.08, C:0.46, G:0.31, T:0.15
Consensus pattern (13 bp):
CACGCCCGTGTGC
Found at i:9092150 original size:27 final size:28
Alignment explanation
Indices: 9092120--9092189 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
9092110 ATAGTGAATC
*
9092120 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
9092147 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
9092175 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9092190 GTACAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:9092262 original size:42 final size:42
Alignment explanation
Indices: 9092198--9092304 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
9092188 CTGTACAAAT
* *
9092198 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
9092240 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
*
9092282 TTTATACCCACACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
9092305 GAGACCAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:9095116 original size:14 final size:14
Alignment explanation
Indices: 9095097--9095125 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9095087 ATATTAAAGC
9095097 AATAATTAAGAACA
1 AATAATTAAGAACA
9095111 AATAATTAAGAACA
1 AATAATTAAGAACA
9095125 A
1 A
9095126 GTCAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AATAATTAAGAACA
Found at i:9096667 original size:16 final size:16
Alignment explanation
Indices: 9096646--9096690 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
9096636 AAGCGGGATG
9096646 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
*
9096662 AGAAAATTAATTAATT
1 AGAAAATTATTTAATT
9096678 --AAAATTAATTTAA
1 AGAAAATT-ATTTAA
9096691 CAAATAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 6 0.23
15 5 0.19
16 15 0.58
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
AGAAAATTATTTAATT
Found at i:9099893 original size:68 final size:70
Alignment explanation
Indices: 9099805--9099970 Score: 169
Period size: 68 Copynumber: 2.4 Consensus size: 70
9099795 TTCCAGTCAT
* ** * ** *
9099805 GGAGGAAGGCTTGCGGAAGGTCTTGCTCCCAATGTAT-GGGAAGGCTTACAGGGTCC-TACTT-T
1 GGAGGAAGGCTTACAAAAGGTCTTACTCCCAACATATGGGGAA-GCTTACAGGGGCCTTACTTCT
9099867 -CACAA
65 ACACAA
* * *
9099872 GTGAGGAAGGCTTACAAAAGGTCCTACTCCTAACATATGGGGGAAGCTTATAGGGGCCTTACTTC
1 G-GAGGAAGGCTTACAAAAGGTCTTACTCCCAACATAT-GGGGAAGCTTACAGGGGCCTTACTTC
*
9099937 TACACAT
64 TACACAA
*
9099944 GGGGGAAGGCTTACAAAAGGTCTTACT
1 GGAGGAAGGCTTACAAAAGGTCTTACT
9099971 TTCAATGCAT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
67 1 0.01
68 28 0.35
69 11 0.14
70 10 0.12
71 25 0.31
72 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (70 bp):
GGAGGAAGGCTTACAAAAGGTCTTACTCCCAACATATGGGGAAGCTTACAGGGGCCTTACTTCTA
CACAA
Found at i:9100296 original size:20 final size:22
Alignment explanation
Indices: 9100273--9100314 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
9100263 CTTGCACTTA
9100273 AGTACATTTT-GTT-GCATTTT
1 AGTACATTTTAGTTAGCATTTT
9100293 AGTACATTTTAGTTAGCATTTT
1 AGTACATTTTAGTTAGCATTTT
9100315 TAATATTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 3 0.15
22 7 0.35
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (22 bp):
AGTACATTTTAGTTAGCATTTT
Found at i:9104455 original size:29 final size:28
Alignment explanation
Indices: 9104417--9104517 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 28
9104407 ATCGATTTCA
*
9104417 CACACTTAGTGCCATGTGATTTAAGCTCG
1 CACACTTAGTGCCATAT-ATTTAAGCTCG
* *
9104446 CACACATAGTGCCATATAATTTAAGTTCG
1 CACACTTAGTGCCATAT-ATTTAAGCTCG
*
9104475 CACACTTAGTGCCATATATTTCAAGCTTG
1 CACACTTAGTGCCATATATTT-AAGCTCG
9104504 CACACTTAGTGCCA
1 CACACTTAGTGCCA
9104518 ATCTTGTCAC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
28 4 0.06
29 60 0.94
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (28 bp):
CACACTTAGTGCCATATATTTAAGCTCG
Found at i:9107213 original size:22 final size:23
Alignment explanation
Indices: 9107188--9107233 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9107178 CAACCAATCC
*
9107188 AATTCA-ACATATTTTTAAGATA
1 AATTCATACATATTTATAAGATA
*
9107210 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
9107233 A
1 A
9107234 CGTCATCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:9107239 original size:23 final size:23
Alignment explanation
Indices: 9107195--9107239 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9107185 TCCAATTCAA
* *
9107195 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAGATAAAGTCATG
*
9107218 CATATTTATAAGATAACGTCAT
1 CATATTTATAAGATAAAGTCAT
9107240 CACATACCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CATATTTATAAGATAAAGTCATG
Found at i:9116890 original size:28 final size:27
Alignment explanation
Indices: 9116850--9116906 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
9116840 AATACTTTTG
*
9116850 ATTGTTTTTATTTTTTATTTTATTCAT
1 ATTGTTTTTATTTTATATTTTATTCAT
9116877 ATTGTTTTTTATTTTATATTTTATTCAT
1 ATTG-TTTTTATTTTATATTTTATTCAT
9116905 AT
1 AT
9116907 ATATAATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (27 bp):
ATTGTTTTTATTTTATATTTTATTCAT
Found at i:9118483 original size:17 final size:17
Alignment explanation
Indices: 9118461--9118496 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9118451 ATAACTGAGG
*
9118461 ATTAAACAGGCAAATGA
1 ATTAAACAGGCAAACGA
9118478 ATTAAACAGGCAAACGA
1 ATTAAACAGGCAAACGA
9118495 AT
1 AT
9118497 AATGGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.14, G:0.17, T:0.17
Consensus pattern (17 bp):
ATTAAACAGGCAAACGA
Found at i:9120437 original size:15 final size:16
Alignment explanation
Indices: 9120417--9120446 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9120407 TTTGAATTTT
9120417 TCATTATT-TTTTTGC
1 TCATTATTATTTTTGC
9120432 TCATTATTATTTTTG
1 TCATTATTATTTTTG
9120447 ATTTTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (16 bp):
TCATTATTATTTTTGC
Found at i:9132290 original size:87 final size:87
Alignment explanation
Indices: 9132141--9132404 Score: 429
Period size: 87 Copynumber: 3.0 Consensus size: 87
9132131 GGCTATGGAC
* *
9132141 CTCTTACTTTCTGTCAATGTTAGGTTCTGACTTTGTTTCAAATTTGTCTTTAACTAAATGTTTGA
1 CTCTTACTTTCTGTCAATGTTAGGTTCTGACTTAGTTTCAAAATTGTCTTTAACTAAATGTTTGA
9132206 ACTATGTTTCAATACTTGAGCA
66 ACTATGTTTCAATACTTGAGCA
* * *
9132228 CTCTTACTTTCTGTCAATGTTAGGTTCTGACTTAGTTTCAAAATTGTCTTTCACTAAGTGTTTAA
1 CTCTTACTTTCTGTCAATGTTAGGTTCTGACTTAGTTTCAAAATTGTCTTTAACTAAATGTTTGA
9132293 ACTATGTTTCAATACTTGAGCA
66 ACTATGTTTCAATACTTGAGCA
* * * *
9132315 CTCTTACTTTCCGTCAATGTTAGGTTCTGACTTAGCTTCAAAATTTTCTTTAACTAAATGCTTGA
1 CTCTTACTTTCTGTCAATGTTAGGTTCTGACTTAGTTTCAAAATTGTCTTTAACTAAATGTTTGA
* *
9132380 ACTATGTTTCAGTACTTGAGAA
66 ACTATGTTTCAATACTTGAGCA
9132402 CTC
1 CTC
9132405 CAAAAGATTA
Statistics
Matches: 163, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 163 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.44
Consensus pattern (87 bp):
CTCTTACTTTCTGTCAATGTTAGGTTCTGACTTAGTTTCAAAATTGTCTTTAACTAAATGTTTGA
ACTATGTTTCAATACTTGAGCA
Found at i:9136902 original size:21 final size:21
Alignment explanation
Indices: 9136861--9136903 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
9136851 GCCAAAGCCA
* *
9136861 TTTTTCTTTTACTTCTTTTTT
1 TTTTTCTTTCACTTCTGTTTT
*
9136882 TTTTTCTTTCAC-TCTGGTTT
1 TTTTTCTTTCACTTCTGTTTT
9136902 TT
1 TT
9136904 CTAAGAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTTCTTTCACTTCTGTTTT
Found at i:9139467 original size:20 final size:20
Alignment explanation
Indices: 9139442--9139483 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
9139432 TTCGATCAAT
*
9139442 CCATCAAATAAGATCCCAAC
1 CCATCAAATAAGATCCAAAC
9139462 CCATCAAATAAGATCCAAAC
1 CCATCAAATAAGATCCAAAC
9139482 CC
1 CC
9139484 TAACAGCGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.36, G:0.05, T:0.14
Consensus pattern (20 bp):
CCATCAAATAAGATCCAAAC
Found at i:9140874 original size:9 final size:9
Alignment explanation
Indices: 9140866--9140898 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9140856 TATGTGAATT
*
9140866 AATAAAATT
1 AATAAAATA
9140875 AATAAAATA
1 AATAAAATA
9140884 AAT-AAATA
1 AATAAAATA
9140892 AATAAAA
1 AATAAAA
9140899 ATTCATGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AATAAAATA
Found at i:9143826 original size:21 final size:21
Alignment explanation
Indices: 9143801--9143841 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
9143791 ATCCATTTAA
9143801 TGGTTCAAGTTTTGCTATCAC
1 TGGTTCAAGTTTTGCTATCAC
9143822 TGGTTCAAGTTTTGCTATCA
1 TGGTTCAAGTTTTGCTATCA
9143842 TTACTTCGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (21 bp):
TGGTTCAAGTTTTGCTATCAC
Found at i:9149088 original size:8 final size:9
Alignment explanation
Indices: 9149065--9149091 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9149055 TTAATATAAT
9149065 TTAAAAATA
1 TTAAAAATA
9149074 TTAAAAATA
1 TTAAAAATA
9149083 TTAAAAATA
1 TTAAAAATA
9149092 ACAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:9149704 original size:31 final size:33
Alignment explanation
Indices: 9149637--9149710 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 33
9149627 TATAATTATC
* ** *
9149637 TTAAATTTAAATAATACATATTTTATGATAATTT
1 TTAAATTT-AATAATACATATTTAAAAATAAATT
9149671 TTAAATTTAATAA-A-ATATTTAAAAATAAATT
1 TTAAATTTAATAATACATATTTAAAAATAAATT
9149702 TTAAATTTA
1 TTAAATTTA
9149711 GTTATAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 22 0.61
32 1 0.03
33 5 0.14
34 8 0.22
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (33 bp):
TTAAATTTAATAATACATATTTAAAAATAAATT
Found at i:9149816 original size:26 final size:26
Alignment explanation
Indices: 9149766--9149817 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9149756 AATATTAAAA
*
9149766 TAAACAATATTTATCTTAATAATAAT
1 TAAACAATATTTATATTAATAATAAT
* * *
9149792 TAAATAATATTTATATTTATGATAAT
1 TAAACAATATTTATATTAATAATAAT
9149818 ATTTTTTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
TAAACAATATTTATATTAATAATAAT
Found at i:9149818 original size:18 final size:18
Alignment explanation
Indices: 9149795--9149848 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
9149785 TAATAATTAA
9149795 ATAATATTTATATTTATG
1 ATAATATTTATATTTATG
*
9149813 ATAATATTTTTTATCTATATG
1 ATAATA-TTTATAT-T-TATG
9149834 ATAAT-TTATATATTT
1 ATAATATT-TATATTT
9149849 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 7 0.23
19 9 0.30
20 5 0.17
21 9 0.30
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (18 bp):
ATAATATTTATATTTATG
Found at i:9150142 original size:22 final size:23
Alignment explanation
Indices: 9150084--9150148 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 23
9150074 TTTATATTAG
*
9150084 ATATGTATAAAATAATAAAATATT
1 ATATATATAAAATAATAAAATA-T
* * *
9150108 ATTGTTTAAAAAATAATAAAATA-
1 A-TATATATAAAATAATAAAATAT
9150131 ATATATATAAAATAATAA
1 ATATATATAAAATAATAA
9150149 GTAAGTTATC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 14 0.41
23 1 0.03
24 1 0.03
25 18 0.53
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (23 bp):
ATATATATAAAATAATAAAATAT
Found at i:9150147 original size:25 final size:25
Alignment explanation
Indices: 9150092--9150148 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
9150082 AGATATGTAT
* * *
9150092 AAAATAATAAAATATTATTGTTTAA
1 AAAATAATAAAATAATATTATATAA
9150117 AAAATAATAAAATAATA-TATATAA
1 AAAATAATAAAATAATATTATATAA
9150141 AATAATAA
1 AA-AATAA
9150149 GTAAGTTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAATAATAAAATAATATTATATAA
Found at i:9150289 original size:2 final size:2
Alignment explanation
Indices: 9150284--9150335 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
9150274 TAATATTAAA
* *
9150284 AT AT AT A- AT AT AT A- AT CT AT A- AT CT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9150323 AT AT AT AT GT AT A
1 AT AT AT AT AT AT A
9150336 AGCAAAAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9150848 original size:27 final size:25
Alignment explanation
Indices: 9150797--9150856 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
9150787 ATAATAAAAT
9150797 AAAAGAAAAAGAAATAGGAAAGAAA
1 AAAAGAAAAAGAAATAGGAAAGAAA
* *
9150822 GAAAGAACAAACGAAATA-GAAGGGAAA
1 AAAAGAA-AAA-GAAATAGGAA-AGAAA
9150849 AAAAGAAA
1 AAAAGAAA
9150857 GAAAAGGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 6 0.21
26 7 0.24
27 16 0.55
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (25 bp):
AAAAGAAAAAGAAATAGGAAAGAAA
Found at i:9151556 original size:24 final size:24
Alignment explanation
Indices: 9151529--9151575 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9151519 ATTGAAATGG
9151529 ATTG-ATTTATTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
9151553 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
9151576 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:9157025 original size:38 final size:37
Alignment explanation
Indices: 9156900--9157028 Score: 132
Period size: 38 Copynumber: 3.4 Consensus size: 37
9156890 ATTTGGCACT
**
9156900 CAGTGCCTCATCGAATAATTTGAAGTAATAATTTGACACC
1 CAGTGCCTCATCGAATAATCCGAAGT-A-AA-TTGACACC
* ** * * *
9156940 CAGTGTCTCATCGGCTAAACCAAAGTAAATTGGCACC
1 CAGTGCCTCATCGAATAATCCGAAGTAAATTGACACC
9156977 CAGTGCCTCATCGAATTAATCCGAAGTAAATTGACACC
1 CAGTGCCTCATCGAA-TAATCCGAAGTAAATTGACACC
* *
9157015 TAGTGTCTCATCGA
1 CAGTGCCTCATCGA
9157029 CTCGAAGTAG
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
37 19 0.26
38 33 0.46
39 1 0.01
40 19 0.26
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (37 bp):
CAGTGCCTCATCGAATAATCCGAAGTAAATTGACACC
Found at i:9158408 original size:12 final size:12
Alignment explanation
Indices: 9158399--9158423 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9158389 AGGGCACATT
9158399 GTTTGGCACACG
1 GTTTGGCACACG
9158411 GTTTGGCACACG
1 GTTTGGCACACG
9158423 G
1 G
9158424 GCGTGTGGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GTTTGGCACACG
Found at i:9158880 original size:20 final size:20
Alignment explanation
Indices: 9158857--9158925 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
9158847 AAAAATAATT
9158857 ATAATTTAATAGAAATTATG
1 ATAATTTAATAGAAATTATG
* * *
9158877 ATAATTATACATTAAAAATAATT
1 ATAATT-TA-A-TAGAAATTATG
* *
9158900 ATAGTTTAATAGAAATTGTG
1 ATAATTTAATAGAAATTATG
9158920 ATAATT
1 ATAATT
9158926 ACACATTTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
20 18 0.49
21 3 0.08
22 3 0.08
23 13 0.35
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (20 bp):
ATAATTTAATAGAAATTATG
Found at i:9158908 original size:43 final size:44
Alignment explanation
Indices: 9158820--9158951 Score: 198
Period size: 43 Copynumber: 3.0 Consensus size: 44
9158810 ATTAAAATAA
*
9158820 AATAGAAGTTGTGATAATTATACATTTAAAAATAATTATAATTT
1 AATAGAAATTGTGATAATTATACATTTAAAAATAATTATAATTT
* *
9158864 AATAGAAATTATGATAATTATACA-TTAAAAATAATTATAGTTT
1 AATAGAAATTGTGATAATTATACATTTAAAAATAATTATAATTT
*
9158907 AATAGAAATTGTGATAATTACACATTTAAAAA-AATTCA-AATTT
1 AATAGAAATTGTGATAATTATACATTTAAAAATAATT-ATAATTT
9158950 AA
1 AA
9158952 ATTACAATTA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
43 50 0.62
44 30 0.38
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (44 bp):
AATAGAAATTGTGATAATTATACATTTAAAAATAATTATAATTT
Found at i:9159062 original size:12 final size:12
Alignment explanation
Indices: 9159045--9159070 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9159035 AAAAGTTGTG
9159045 ATAAATATAATT
1 ATAAATATAATT
9159057 ATAAATATAATT
1 ATAAATATAATT
9159069 AT
1 AT
9159071 TAGTTTAAAA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAAATATAATT
Found at i:9159190 original size:11 final size:11
Alignment explanation
Indices: 9159153--9159190 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
9159143 AAGTATCTTG
9159153 ATTATCACTTA
1 ATTATCACTTA
9159164 ATTAT-ACTTATA
1 ATTATCAC-T-TA
9159176 ATTATCACTTA
1 ATTATCACTTA
9159187 ATTA
1 ATTA
9159191 AACGACTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.08
11 12 0.50
12 8 0.33
13 2 0.08
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTATCACTTA
Found at i:9160516 original size:10 final size:10
Alignment explanation
Indices: 9160501--9160528 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9160491 ATTAGGGGAA
9160501 AAAGTAAAAC
1 AAAGTAAAAC
9160511 AAAGTAAAAC
1 AAAGTAAAAC
9160521 AAAGTAAA
1 AAAGTAAA
9160529 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:9162557 original size:46 final size:44
Alignment explanation
Indices: 9162453--9162560 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
9162443 TGTCTTTGAC
** * * *
9162453 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
9162497 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
9162543 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
9162561 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:9168699 original size:46 final size:44
Alignment explanation
Indices: 9168595--9168702 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
9168585 TGTCTTTGAC
** * * *
9168595 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
9168639 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
9168685 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
9168703 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:9176425 original size:43 final size:45
Alignment explanation
Indices: 9176333--9176426 Score: 113
Period size: 44 Copynumber: 2.1 Consensus size: 45
9176323 TTTAAGTCTA
* * * *
9176333 AATTAAAAAAATAATTCTTATTTACTTTAAAATAAAAGTTAAAAG
1 AATTAAAAAAATAATTCTCATTTACTTCAAAATAAAAGATAAAAC
*
9176378 AATTAAAAAAGTAA-TCTCATTTGA-TTCAAAATAAAA-ATAAAAC
1 AATTAAAAAAATAATTCTCATTT-ACTTCAAAATAAAAGATAAAAC
9176421 AATTAA
1 AATTAA
9176427 GTTGAATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 11 0.26
44 18 0.42
45 14 0.33
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (45 bp):
AATTAAAAAAATAATTCTCATTTACTTCAAAATAAAAGATAAAAC
Found at i:9182604 original size:5 final size:5
Alignment explanation
Indices: 9182594--9182618 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9182584 AATAATTAAG
9182594 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
9182619 ATAAAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:9184188 original size:22 final size:23
Alignment explanation
Indices: 9184145--9184188 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9184135 CAATATTCCG
*
9184145 GGTGTATTTGGGTTGGATATTCT
1 GGTGTATTTGGGTTGGAAATTCT
*
9184168 GGTGTGTTTGGG-TGGAAATTC
1 GGTGTATTTGGGTTGGAAATTC
9184189 GTGTATCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.14, C:0.05, G:0.39, T:0.43
Consensus pattern (23 bp):
GGTGTATTTGGGTTGGAAATTCT
Found at i:9189820 original size:5 final size:5
Alignment explanation
Indices: 9189810--9189834 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9189800 AATAATTAAG
9189810 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
9189835 ATAAAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:9191402 original size:22 final size:23
Alignment explanation
Indices: 9191359--9191402 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9191349 CAATATTCCG
*
9191359 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGAAATTCT
9191382 GGTGTGTTTGGG-TGGAAATTC
1 GGTGTGTTTGGGTTGGAAATTC
9191403 GTGTATCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.11, C:0.05, G:0.41, T:0.43
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGAAATTCT
Found at i:9194138 original size:15 final size:15
Alignment explanation
Indices: 9194118--9194149 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9194108 TACCACCAAC
*
9194118 GAAGTACAGTCCCCT
1 GAAGTACAGCCCCCT
9194133 GAAGTACAGCCCCCT
1 GAAGTACAGCCCCCT
9194148 GA
1 GA
9194150 TCAAGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.34, G:0.22, T:0.16
Consensus pattern (15 bp):
GAAGTACAGCCCCCT
Found at i:9196436 original size:26 final size:26
Alignment explanation
Indices: 9196406--9196488 Score: 157
Period size: 26 Copynumber: 3.2 Consensus size: 26
9196396 AATTATGAGT
9196406 GATATCTTTGATGAGAAAAGTATGTA
1 GATATCTTTGATGAGAAAAGTATGTA
9196432 GATATCTTTGATGAGAAAAGTATGTA
1 GATATCTTTGATGAGAAAAGTATGTA
9196458 GATATCTTTGATGAGAAAAGTATGTA
1 GATATCTTTGATGAGAAAAGTATGTA
*
9196484 CATAT
1 GATAT
9196489 TTATAGTAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.35
Consensus pattern (26 bp):
GATATCTTTGATGAGAAAAGTATGTA
Found at i:9211660 original size:15 final size:15
Alignment explanation
Indices: 9211640--9211669 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9211630 ATACACTAAC
9211640 GAACAACTAGAGCAT
1 GAACAACTAGAGCAT
9211655 GAACAACTAGAGCAT
1 GAACAACTAGAGCAT
9211670 CTACACAAGT
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:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (15 bp):
GAACAACTAGAGCAT
Found at i:9212531 original size:25 final size:26
Alignment explanation
Indices: 9212479--9212531 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
9212469 TTTTCTTTTC
*
9212479 TTTTCTTTTCATTTTTAGAGTAGGTT
1 TTTTCTTTTCATTTTTAGAGTAGATT
9212505 TTTTCTTTTC-TTTTTAG-GTTAGATT
1 TTTTCTTTTCATTTTTAGAG-TAGATT
9212530 TT
1 TT
9212532 AATTTTGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 14 0.56
26 10 0.40
ACGTcount: A:0.13, C:0.08, G:0.13, T:0.66
Consensus pattern (26 bp):
TTTTCTTTTCATTTTTAGAGTAGATT
Found at i:9221920 original size:11 final size:11
Alignment explanation
Indices: 9221906--9221957 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
9221896 ATTTGGTTGT
9221906 TGTTTTGGCAC
1 TGTTTTGGCAC
****
9221917 TGTTTCAATAC
1 TGTTTTGGCAC
* *
9221928 TATTTTGGTAC
1 TGTTTTGGCAC
9221939 TGTTTTGGCAC
1 TGTTTTGGCAC
9221950 TGTTTTGG
1 TGTTTTGG
9221958 GCTCTTCTTC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.50
Consensus pattern (11 bp):
TGTTTTGGCAC
Found at i:9230258 original size:16 final size:16
Alignment explanation
Indices: 9230237--9230268 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9230227 GCTGTAAAAG
9230237 GTATTGGAAGAGCTAA
1 GTATTGGAAGAGCTAA
9230253 GTATTGGAAGAGCTAA
1 GTATTGGAAGAGCTAA
9230269 AGTTGTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
GTATTGGAAGAGCTAA
Found at i:9231183 original size:14 final size:13
Alignment explanation
Indices: 9231163--9231196 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
9231153 CTCTTCCCCT
9231163 TTTTTTTTTGTTC
1 TTTTTTTTTGTTC
*
9231176 TTTCTTTTTTTTTC
1 TTT-TTTTTTGTTC
9231190 TTTTTTT
1 TTTTTTT
9231197 AAAACGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTGTTC
Found at i:9238024 original size:18 final size:19
Alignment explanation
Indices: 9237984--9238024 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
9237974 CAATCTCCTT
9237984 TTGAACAGTAGTCTCTCCC
1 TTGAACAGTAGTCTCTCCC
9238003 -TGAACAGTAG-CTC-CCTC
1 TTGAACAGTAGTCTCTCC-C
9238020 TTGAA
1 TTGAA
9238025 TAATGGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.10
17 4 0.20
18 14 0.70
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (19 bp):
TTGAACAGTAGTCTCTCCC
Found at i:9250857 original size:16 final size:15
Alignment explanation
Indices: 9250828--9250888 Score: 61
Period size: 16 Copynumber: 4.0 Consensus size: 15
9250818 AATACTTAAG
*
9250828 TATATAATAAAATAA
1 TATATAATATAATAA
9250843 TATATTAATATAATAA
1 TATA-TAATATAATAA
*
9250859 TTTAATAATATAATAA
1 TAT-ATAATATAATAA
* *
9250875 AATA-AATAAAATAA
1 TATATAATATAATAA
9250889 AGAAACAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.23
15 5 0.13
16 24 0.62
17 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:9250878 original size:13 final size:13
Alignment explanation
Indices: 9250829--9250889 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
9250819 ATACTTAAGT
9250829 ATATAATAAAATA
1 ATATAATAAAATA
* *
9250842 ATATATTAATAT-
1 ATATAATAAAATA
**
9250854 A-ATAATTTAATA
1 ATATAATAAAATA
9250866 ATATAATAAAATAA
1 ATATAATAAAAT-A
*
9250880 ATAAAATAAA
1 ATATAATAAA
9250890 GAAACAATAG
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
11 6 0.17
12 2 0.06
13 18 0.50
14 10 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAATAAAATA
Found at i:9260180 original size:35 final size:34
Alignment explanation
Indices: 9260134--9260329 Score: 229
Period size: 34 Copynumber: 5.7 Consensus size: 34
9260124 TTTCCTTATT
*
9260134 GAAATACCATACCTACATTTCACAACTCAGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTAT-G
* **
9260169 GAAATGCCATACCTACG-TTCTTAACTCAGTAT-
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
*
9260201 GAATTATACCATACCTACGTTTCACAACTCGGTATG
1 GAA--ATACCATACCTACGTTTCACAACTCAGTATG
*
9260237 GTTAATACCATACCTAC-TTTCACAACTCAGTATG
1 G-AAATACCATACCTACGTTTCACAACTCAGTATG
* *
9260271 GATGATA-CATACCTACGTTTCACAACTCGGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
*
9260305 GATGATACCATACCTACGTTTCACA
1 GA-AATACCATACCTACGTTTCACA
9260330 CTTTGCCACG
Statistics
Matches: 140, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
32 3 0.02
33 9 0.06
34 69 0.49
35 57 0.41
36 1 0.01
37 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.30
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:9260218 original size:69 final size:69
Alignment explanation
Indices: 9260137--9260329 Score: 255
Period size: 69 Copynumber: 2.8 Consensus size: 69
9260127 CCTTATTGAA
* * * **
9260137 ATACCATACCTACATTTCACAACTCAGTATGGGAAATGCCATACCTACGTTCTTAACTCAGTATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGGAAATACCATACCTACGTTCACAACTCAGTATG
*
9260202 AATT
66 AATG
** *
9260206 ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACCTACTTTCACAACTCAGTATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGGAAATACCATACCTACGTTCACAACTCAGTATG
*
9260271 GATG
66 AATG
*
9260275 ATA-CATACCTACGTTTCACAACTCGGTAT-GGATGATACCATACCTACGTTTCACA
1 ATACCATACCTACGTTTCACAACTCGGTATGGGA-AATACCATACCTACG-TTCACA
9260330 CTTTGCCACG
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
67 1 0.01
68 39 0.36
69 68 0.63
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (69 bp):
ATACCATACCTACGTTTCACAACTCGGTATGGGAAATACCATACCTACGTTCACAACTCAGTATG
AATG
Found at i:9260267 original size:103 final size:104
Alignment explanation
Indices: 9260136--9260329 Score: 286
Period size: 103 Copynumber: 1.9 Consensus size: 104
9260126 TCCTTATTGA
* **
9260136 AATACCATACCTACATTTCACAACTCAGTATGGGA-AATGCCATACCTACG-TTCTTAACTCAGT
1 AATACCATACCTACATTTCACAACTCAGTAT-GGATAAT-ACATACCTACGTTTCACAACTCAGT
*
9260199 ATGAATTATACCATACCTACGTTTCACAACTCGGTATGGTT
64 ATGAATGATACCATACCTACGTTTCACAACTCGGTATGGTT
* *
9260240 AATACCATACCTAC-TTTCACAACTCAGTATGGATGATACATACCTACGTTTCACAACTCGGTAT
1 AATACCATACCTACATTTCACAACTCAGTATGGATAATACATACCTACGTTTCACAACTCAGTAT
*
9260304 GGATGATACCATACCTACGTTTCACA
66 GAATGATACCATACCTACGTTTCACA
9260330 CTTTGCCACG
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
102 13 0.16
103 54 0.67
104 14 0.17
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (104 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATAATACATACCTACGTTTCACAACTCAGTAT
GAATGATACCATACCTACGTTTCACAACTCGGTATGGTT
Found at i:9266543 original size:35 final size:34
Alignment explanation
Indices: 9266497--9266728 Score: 270
Period size: 35 Copynumber: 6.7 Consensus size: 34
9266487 TTTCCTTATT
* *
9266497 GAAATACCATACCTACATTTCACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTAT-G
* **
9266532 GAAATGCCATACCTACG-TTCTTAACTCAGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
9266565 GATAATACCATACCTACGTTTCACAACTCAGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* *
9266600 GTTAATACCATACCTAC-TTTCACAACTCGGTATG
1 G-AAATACCATACCTACGTTTCACAACTCAGTATG
* *
9266634 GATGATACCATACTTACGTTTCACAACTCAGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* * * *
9266669 GTTAATACCATACCTACATTTCACAGCTCGGTATG
1 G-AAATACCATACCTACGTTTCACAACTCAGTATG
*
9266704 GATGATACCATACCTACGTTTCACA
1 GA-AATACCATACCTACGTTTCACA
9266729 CTTTGCCACG
Statistics
Matches: 167, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
33 3 0.02
34 55 0.33
35 109 0.65
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:9266679 original size:104 final size:104
Alignment explanation
Indices: 9266499--9266728 Score: 320
Period size: 104 Copynumber: 2.2 Consensus size: 104
9266489 TCCTTATTGA
* **
9266499 AATACCATACCTACATTTCACAACTCGGTATGGGAAATGCCATACCTACGTTCTTAACTCAGTAT
1 AATACCATACCTACATTTCACAACTCGGTATGGGAAATACCATACCTACGTTCACAACTCAGTAT
* *
9266564 GGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
66 GGATAATACCATACCTACATTTCACAACTCAGTATGGAT
* *
9266603 AATACCATACCTAC-TTTCACAACTCGGTAT-GGATGATACCATACTTACGTTTCACAACTCAGT
1 AATACCATACCTACATTTCACAACTCGGTATGGGA-AATACCATACCTACG-TTCACAACTCAGT
* * *
9266666 ATGGTTAATACCATACCTACATTTCACAGCTCGGTATGGAT
64 ATGGATAATACCATACCTACATTTCACAACTCAGTATGGAT
* *
9266707 GATACCATACCTACGTTTCACA
1 AATACCATACCTACATTTCACA
9266729 CTTTGCCACG
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
102 3 0.03
103 28 0.25
104 74 0.66
105 7 0.06
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (104 bp):
AATACCATACCTACATTTCACAACTCGGTATGGGAAATACCATACCTACGTTCACAACTCAGTAT
GGATAATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:9266748 original size:69 final size:69
Alignment explanation
Indices: 9266500--9266728 Score: 341
Period size: 69 Copynumber: 3.3 Consensus size: 69
9266490 CCTTATTGAA
* * ** * * ** *
9266500 ATACCATACCTACATTTCACAACTCGGTATGGGAAATGCCATACCTACGTTCTTAACTCAGTATG
1 ATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACTTTCACAACTCGGTATG
*
9266565 GATA
66 GATG
9266569 ATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACTTTCACAACTCGGTATG
1 ATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACTTTCACAACTCGGTATG
9266634 GATG
66 GATG
* *
9266638 ATACCATACTTACGTTTCACAACTCAGTATGGTTAATACCATACCTACATTTCACAGCTCGGTAT
1 ATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTAC-TTTCACAACTCGGTAT
9266703 GGATG
65 GGATG
9266708 ATACCATACCTACGTTTCACA
1 ATACCATACCTACGTTTCACA
9266729 CTTTGCCACG
Statistics
Matches: 146, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
69 106 0.73
70 40 0.27
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (69 bp):
ATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACTTTCACAACTCGGTATG
GATG
Found at i:9268895 original size:20 final size:20
Alignment explanation
Indices: 9268850--9268896 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
9268840 GCCGGATTCT
* * *
9268850 CCTTGAAGACTGAAGATTTT
1 CCTTCAAGACTAAAGATTTC
*
9268870 CTTTCAAGACTAAAGATTTC
1 CCTTCAAGACTAAAGATTTC
9268890 CCTTCAA
1 CCTTCAA
9268897 TTTCCTTCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
CCTTCAAGACTAAAGATTTC
Found at i:9274155 original size:33 final size:33
Alignment explanation
Indices: 9274118--9274185 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
9274108 ACTGAATTAT
9274118 ACAATGTTTAATTTTATTTGATTTGTGTTATAA
1 ACAATGTTTAATTTTATTTGATTTGTGTTATAA
9274151 ACAATGTTTAATTTTATTTGATTTGTGTTATAA
1 ACAATGTTTAATTTTATTTGATTTGTGTTATAA
9274184 AC
1 AC
9274186 CGTAGTGACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (33 bp):
ACAATGTTTAATTTTATTTGATTTGTGTTATAA
Found at i:9275464 original size:40 final size:41
Alignment explanation
Indices: 9275388--9275498 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 41
9275378 CAATAAACTG
** *
9275388 AAGCTATCTCGGTATCGCACACTTAGTGCCACATATAGCCA
1 AAGCTATCTCGCAATCGCACACTAAGTGCCACATATAGCCA
* * *
9275429 AAGCTAT-TC-CAATTCGCACACTAAGTGCTATATATAGCCG
1 AAGCTATCTCGCAA-TCGCACACTAAGTGCCACATATAGCCA
*
9275469 AAGCTATCTCGGAAT-GCACACTAAGTGCCA
1 AAGCTATCTCGCAATCGCACACTAAGTGCCA
9275499 AACATAGTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.78
41 10 0.17
42 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (41 bp):
AAGCTATCTCGCAATCGCACACTAAGTGCCACATATAGCCA
Found at i:9279182 original size:22 final size:22
Alignment explanation
Indices: 9279157--9279227 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
9279147 GTTGAAAGAT
9279157 ACCATGACAACCTGTGTGTAAG
1 ACCATGACAACCTGTGTGTAAG
* *
9279179 ACCA-GAC--CATG-GTTGAAAG
1 ACCATGACAACCTGTG-TGTAAG
*
9279198 ATACCATGACAACCTATGTGTAAG
1 --ACCATGACAACCTGTGTGTAAG
9279222 ACCATG
1 ACCATG
9279228 GTTGAAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
18 1 0.03
19 8 0.22
21 7 0.19
22 13 0.35
24 7 0.19
25 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (22 bp):
ACCATGACAACCTGTGTGTAAG
Found at i:9279182 original size:38 final size:38
Alignment explanation
Indices: 9279133--9279658 Score: 604
Period size: 38 Copynumber: 12.9 Consensus size: 38
9279123 TGATATGAAA
*
9279133 TGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
9279171 TGTGTAAGACCAGACCATGGTTGAAAGATACCATGACAACCTA
1 TGTGT---A--AGACCATGGTTGAAAGATACCATGGCAACCTG
9279214 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
9279252 TGTGTAA-ACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
9279294 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ---TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * *
9279335 TGTGTAAGACCATGGTTGAAAGATACCACGACAACCTA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
9279373 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
9279416 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ---TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
9279457 TGTGTAAGACCATGGTTGAAAGATACCATGGTAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
**
9279495 TGTGTAAGACCATGGTTGAAAGATATTATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
9279533 CGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
9279576 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTAATATGAG
1 ---TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
9279624 ATATGTAAGACCATGGTTGAAAGATACCATGGCAA
1 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAA
9279659 TGTGACATGA
Statistics
Matches: 435, Mismatches: 21, Indels: 56
0.85 0.04 0.11
Matches are distributed among these distances:
37 28 0.06
38 216 0.50
40 1 0.00
41 5 0.01
42 2 0.00
43 39 0.09
45 7 0.02
46 136 0.31
48 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:9279318 original size:46 final size:43
Alignment explanation
Indices: 9279131--9279749 Score: 562
Period size: 38 Copynumber: 14.8 Consensus size: 43
9279121 TCTGATATGA
* *
9279131 AATGTGTAAGACCATGGTTGAAAGATACCATGACAACCT-GTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATG
*
9279173 --TGTAAG-ACCAGACCATGGTTGAAAGATACCATGACAACC---T-
1 AATGT--GTA--AGACCATGGTTGAAAGATACCATGGCAACCTAATG
9279213 -ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC---TG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATG
9279252 --TGTGTAA-ACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT-A-ATG
9279294 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC---TG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATG
* *
9279335 --TGTGTAAGACCATGGTTGAAAGATACCACGACAACC---T-
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATG
9279372 -ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT-A-ATG
9279416 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC---TG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATG
*
9279457 --TGTGTAAGACCATGGTTGAAAGATACCATGGTAACC---TG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATG
**
9279495 --TGTGTAAGACCATGGTTGAAAGATATTATGGCAACC---TG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATG
*
9279533 --CGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT-A-ATG
*
9279576 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTAATATG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT-A-ATG
* **
9279622 AGATATGTAAGACCATGGTTGAAAGATACCATGGCAATGTGACATG
1 A-ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT-A-ATG
* ** * *
9279668 AAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT-G
* * * *
9279713 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 --AATGTGTAAGACCATGGTTGAAAGATACCATGGCA
9279750 TCACGTCAAA
Statistics
Matches: 507, Mismatches: 33, Indels: 70
0.83 0.05 0.11
Matches are distributed among these distances:
37 28 0.06
38 211 0.42
39 1 0.00
40 4 0.01
41 9 0.02
42 3 0.01
43 33 0.07
44 2 0.00
45 9 0.02
46 206 0.41
47 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (43 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATG
Found at i:9279447 original size:122 final size:122
Alignment explanation
Indices: 9279132--9279705 Score: 697
Period size: 122 Copynumber: 4.7 Consensus size: 122
9279122 CTGATATGAA
* * * ***
9279132 ATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTG-TGTGTAA-G-ACCAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
* * *
9279194 AAAGATACCATGACAACCTATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
66 AAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGACAACCT
*
9279251 GTGTGTAA-ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
*
9279315 AAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCACGACAACCT
66 AAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGACAACCT
9279372 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
**
9279437 AAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGTAACCT
66 AAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGACAACCT
* ** *
9279494 GTGTGTAAGACCATGGTTGAAAGATATTATGGCAACC-----TG---CGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
9279551 AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGA-AACC
66 AAAGATACCATGGCAACC-----TG---TGTGTAAGACCATGGTTGAAAGATACCAT-GACAACC
9279615 TAAT
122 ---T
** * * **
9279619 ATGAGATATGTAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAATAAGACCAT
1 AT--G---TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
9279684 GGTTGAAAGATACCATGGCAAC
61 GGTTGAAAGATACCATGGCAAC
9279706 ATGATAGAAA
Statistics
Matches: 398, Mismatches: 28, Indels: 39
0.86 0.06 0.08
Matches are distributed among these distances:
114 35 0.09
117 2 0.01
118 29 0.07
119 14 0.04
120 1 0.00
121 72 0.18
122 177 0.44
123 1 0.00
125 2 0.01
127 1 0.00
130 30 0.08
135 2 0.01
138 32 0.08
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (122 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
AAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGACAACCT
Found at i:9279540 original size:160 final size:161
Alignment explanation
Indices: 9279132--9279658 Score: 723
Period size: 160 Copynumber: 3.2 Consensus size: 161
9279122 CTGATATGAA
*
9279132 ATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGTGTGTAAGACCAGACCATGGTTGAAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGT---A--AGACCATGGTTGAAA
9279197 GATACCATGACAACCTATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---TG
61 GATACCATGACAACCTATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
9279254 TGTAA-ACCATGGTTGAAAGATACCATGGCAACCTGATATG
126 TGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
9279294 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGAT
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGAT
*
9279359 ACCACGACAACCTATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
64 ACCATGACAACCTATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
9279424 AAGACCATGGTTGAAAGATACCATGGCAACCTG
129 AAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
9279457 -TGTGTAAGACCATGGTTGAAAGATACCATGGTAACCTGTGTGTAAGACCATGGTTGAAAGATAT
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATAC
* * **
9279521 TATGGCAACCTGCGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
66 CATGACAACCTATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
*
9279586 GACCATGGTTGAAAGATACCATGGAAACCTAATATGAG
131 GACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
9279624 ATATGTAAGACCATGGTTGAAAGATACCATGGCAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
9279659 TGTGACATGA
Statistics
Matches: 334, Mismatches: 12, Indels: 30
0.89 0.03 0.08
Matches are distributed among these distances:
159 67 0.20
160 150 0.45
161 1 0.00
163 2 0.01
164 45 0.13
165 1 0.00
167 8 0.02
168 60 0.18
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (161 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATAC
CATGACAACCTATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
GACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:9279649 original size:92 final size:90
Alignment explanation
Indices: 9279535--9279749 Score: 277
Period size: 92 Copynumber: 2.3 Consensus size: 90
9279525 GCAACCTGCG
* * **
9279535 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAA
* *
9279600 GATACCATGGAAACCTAATATGAGATA
66 GATACCATGGAAACATAATA-GA-AAA
**
9279627 TGTAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAATAAGACCATGGTTGAAA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAA
* *
9279692 GATACCATGGCAACATGATAGAAAA
66 GATACCATGGAAACATAATAGAAAA
* * *
9279717 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 T--GTAAGACCATGGTTGAAAGATACCATGGCA
9279750 TCACGTCAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
90 3 0.03
91 2 0.02
92 103 0.95
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (90 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAA
GATACCATGGAAACATAATAGAAAA
Found at i:9283580 original size:42 final size:42
Alignment explanation
Indices: 9283471--9283695 Score: 271
Period size: 42 Copynumber: 5.4 Consensus size: 42
9283461 ATAAAATTTA
* *
9283471 CTAGGC-ATAAAGCCT-AGTATAATACACCAGCACAGAA-CCTG
1 CTAGGCAATAAAGCCTGA-TATAATACACTAGCATA-AAGCCTG
* * ** *
9283512 CTAGGCAAT-AGGCCTGACATAATACACCGGCATAAAGCCTA
1 CTAGGCAATAAAGCCTGATATAATACACTAGCATAAAGCCTG
* *
9283553 TTAGGCAATAAAGCCTGATATAATACACTAACATAAAGCCTG
1 CTAGGCAATAAAGCCTGATATAATACACTAGCATAAAGCCTG
* *
9283595 CTAGGCAATAAAGCCCGATATAATACACTAGCATAAAGCGTG
1 CTAGGCAATAAAGCCTGATATAATACACTAGCATAAAGCCTG
* * *
9283637 CTAGGCAAT-AAGCCCGATATAATACACTATCATAAAGCATG
1 CTAGGCAATAAAGCCTGATATAATACACTAGCATAAAGCCTG
9283678 CTAGGCAATAAAGCCTGA
1 CTAGGCAATAAAGCCTGA
9283696 ATATCACTGA
Statistics
Matches: 160, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.01
41 75 0.47
42 83 0.52
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (42 bp):
CTAGGCAATAAAGCCTGATATAATACACTAGCATAAAGCCTG
Found at i:9283597 original size:83 final size:83
Alignment explanation
Indices: 9283469--9283688 Score: 259
Period size: 83 Copynumber: 2.7 Consensus size: 83
9283459 GCATAAAATT
* * * * *
9283469 TACTAGGC-ATAAAGCCT-AGTATAATACACCAGCACAGAA-CCTGCTAGGCAATAGGCCTGACA
1 TACTAGGCAATAAAGCCTGA-TATAATACACTAACATA-AAGCCTGCTAGGCAATAAGCCCGACA
*
9283531 TAATACACCGGCATAAAGCC
64 TAATACACCAGCATAAAGCC
* *
9283551 TATTAGGCAATAAAGCCTGATATAATACACTAACATAAAGCCTGCTAGGCAATAAAGCCCGATAT
1 TACTAGGCAATAAAGCCTGATATAATACACTAACATAAAGCCTGCTAGGCAAT-AAGCCCGACAT
* *
9283616 AATACACTAGCATAAAGCG
65 AATACACCAGCATAAAGCC
* * * *
9283635 TGCTAGGCAAT-AAGCCCGATATAATACACTATCATAAAGCATGCTAGGCAATAA
1 TACTAGGCAATAAAGCCTGATATAATACACTAACATAAAGCCTGCTAGGCAATAA
9283689 AGCCTGAATA
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
82 11 0.09
83 74 0.62
84 34 0.29
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (83 bp):
TACTAGGCAATAAAGCCTGATATAATACACTAACATAAAGCCTGCTAGGCAATAAGCCCGACATA
ATACACCAGCATAAAGCC
Found at i:9288493 original size:38 final size:39
Alignment explanation
Indices: 9288439--9288809 Score: 428
Period size: 38 Copynumber: 8.9 Consensus size: 39
9288429 CTGATATGAA
*
9288439 ATGTGTAAGACAATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
9288478 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
9288516 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
9288559 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
9288600 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
9288638 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
9288681 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
*
9288729 ATGTGTAAGACCATGGTTGAAAGATACCATGG-AACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
9288767 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
9288810 ATGACAGAAA
Statistics
Matches: 303, Mismatches: 3, Indels: 45
0.86 0.01 0.13
Matches are distributed among these distances:
38 148 0.49
40 4 0.01
41 2 0.01
43 5 0.02
45 30 0.10
46 113 0.37
48 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:9288583 original size:46 final size:46
Alignment explanation
Indices: 9288516--9288853 Score: 424
Period size: 46 Copynumber: 7.7 Consensus size: 46
9288506 TGGCAACCTG
9288516 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
9288562 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
9288600 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
9288638 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
9288684 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
9288730 TGTGTAAGACCATGGTTGAAAGATACCATGG-AACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
9288775 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* ** * *
9288821 TGAGTAAGACCACAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
9288854 TCACGTCAAA
Statistics
Matches: 268, Mismatches: 14, Indels: 20
0.89 0.05 0.07
Matches are distributed among these distances:
38 74 0.28
41 2 0.01
43 2 0.01
45 40 0.15
46 150 0.56
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:9288646 original size:122 final size:122
Alignment explanation
Indices: 9288429--9288853 Score: 593
Period size: 122 Copynumber: 3.4 Consensus size: 122
9288419 AGTGTGCTCT
*
9288429 CTGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
9288494 TGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
9288551 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
9288616 TGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
9288673 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
* *
9288738 ACCATGGTTGAAAGATACCATGG-AACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTG---TG---TG--TAAGACCATGGTTGAAAGATACC
9288802 ATGGCAAC
115 ATGGCAAC
* * * ** * *
9288810 ATGACA-GAAAATGAGTAAGACCACAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
9288854 TCACGTCAAA
Statistics
Matches: 276, Mismatches: 10, Indels: 19
0.90 0.03 0.06
Matches are distributed among these distances:
122 168 0.61
127 1 0.00
129 6 0.02
130 31 0.11
132 2 0.01
135 1 0.00
136 1 0.00
137 66 0.24
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (122 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:9288803 original size:91 final size:92
Alignment explanation
Indices: 9288638--9288853 Score: 292
Period size: 91 Copynumber: 2.4 Consensus size: 92
9288628 TGGCAACCTG
* * **
9288638 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGA
9288703 AAGATACCATGGCAACCTGATATGAGA
66 AAGATACCATGGCAACCTGATATGAGA
*
9288730 TGTGTAAGACCATGGTTGAAAGATACCATGG-AACGTGACATGAAAAGAATAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGA
* * *
9288794 AAGATACCATGGCAACATGACA-GAAAA
66 AAGATACCATGGCAACCTGATATG-AGA
* ** * *
9288821 TGAGTAAGACCACAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
9288854 TCACGTCAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 76 0.70
92 32 0.29
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (92 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGA
AAGATACCATGGCAACCTGATATGAGA
Found at i:9290132 original size:25 final size:25
Alignment explanation
Indices: 9290104--9290151 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9290094 GACCTCAGCA
*
9290104 TGCTCTCTGATTACTAGCACATTAG
1 TGCTATCTGATTACTAGCACATTAG
*
9290129 TGCTATCTGATTATTAGCACATT
1 TGCTATCTGATTACTAGCACATT
9290152 CACCACATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (25 bp):
TGCTATCTGATTACTAGCACATTAG
Found at i:9309046 original size:19 final size:20
Alignment explanation
Indices: 9308992--9309047 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
9308982 CTATTATTTA
9308992 TTTTATTTTATTT-TTATCT
1 TTTTATTTTATTTATTATCT
* * *
9309011 CTATATTTTGAAATTATTAT-T
1 TTTTATTTT--ATTTATTATCT
9309032 TTTTATTTTATTTATT
1 TTTTATTTTATTTATT
9309048 TCCTTTTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
19 13 0.46
21 11 0.39
22 4 0.14
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTATTTTATTTATTATCT
Found at i:9312753 original size:42 final size:42
Alignment explanation
Indices: 9312637--9312858 Score: 290
Period size: 42 Copynumber: 5.3 Consensus size: 42
9312627 ATAAAATTTA
* *
9312637 CTAGGC-ATAAAG-CCTAGTATAATACACCAGCACAGAA-CCTG
1 CTAGGCAATAAAGCCCGA-TATAATACACCAGCATA-AAGCCTG
* * * * **
9312678 CTAGGCAAT-AGGTCTGACATAATACACTGGCATAAAGCCTG
1 CTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCCTG
9312719 CTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCCTG
1 CTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCCTG
**
9312761 CTATTCAATAAAGCCCGATATAATACACCAGCATAAAGCCTG
1 CTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCCTG
* *
9312803 CTAGGCAATGAAGCCCGATATAATACACTAGCATAAAGCCTG
1 CTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCCTG
9312845 CTAGGCAATAAAGC
1 CTAGGCAATAAAGC
9312859 TAGAGTATCA
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.01
41 34 0.22
42 121 0.77
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (42 bp):
CTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCCTG
Found at i:9315072 original size:23 final size:23
Alignment explanation
Indices: 9315014--9315174 Score: 112
Period size: 23 Copynumber: 6.7 Consensus size: 23
9315004 GAGCCATGAT
**
9315014 CGGTAAGCTCCTCCTGAGCTGATGAA
1 CGGTAAGCT-CTAATGAGCTGA--AA
*
9315040 CAGTAAGCTCTAATGAGCTGAAA
1 CGGTAAGCTCTAATGAGCTGAAA
*
9315063 CGGTAAGCTCT-ATCAAGCTG-AA
1 CGGTAAGCTCTAAT-GAGCTGAAA
* *
9315085 CAGTAAGCTC-ATACGAGCTGAAA
1 CGGTAAGCTCTA-ATGAGCTGAAA
* *
9315108 CGGTAAGCTCCACTGAGCTGAAAA
1 CGGTAAGCTCTAATGAGCTG-AAA
* * *
9315132 CAGTAAGCTCTTACGAGCTGATATA
1 CGGTAAGCTCTAATGAGCTGA-A-A
*
9315157 TCGGTAAGCTCTTATGAG
1 -CGGTAAGCTCTAATGAG
9315175 TTGTGGTGAG
Statistics
Matches: 108, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
22 18 0.17
23 36 0.33
24 20 0.19
25 11 0.10
26 23 0.21
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23
Consensus pattern (23 bp):
CGGTAAGCTCTAATGAGCTGAAA
Found at i:9315090 original size:45 final size:45
Alignment explanation
Indices: 9315036--9315168 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
9315026 CCTGAGCTGA
*
9315036 TGAACAGTAAGCTCTAATGAGCTGAAACGGTAAGCTCTA-TCAAGC
1 TGAACAGTAAGCTCTAACGAGCTGAAACGGTAAGCTCTACT-AAGC
* *
9315081 TGAACAGTAAGCTC-ATACGAGCTGAAACGGTAAGCTCCACTGAGC
1 TGAACAGTAAGCTCTA-ACGAGCTGAAACGGTAAGCTCTACTAAGC
*
9315126 TGAAAACAGTAAGCTCTTACGAGCTGATATATCGGTAAGCTCT
1 TG--AACAGTAAGCTCTAACGAGCTGA-A-A-CGGTAAGCTCT
9315169 TATGAGTTGT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
44 1 0.01
45 40 0.53
46 1 0.01
47 21 0.28
48 1 0.01
49 1 0.01
50 10 0.13
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (45 bp):
TGAACAGTAAGCTCTAACGAGCTGAAACGGTAAGCTCTACTAAGC
Found at i:9315093 original size:22 final size:23
Alignment explanation
Indices: 9315029--9315152 Score: 114
Period size: 23 Copynumber: 5.3 Consensus size: 23
9315019 AGCTCCTCCT
9315029 GAGCTGATGAACAGTAAGCTCTAAT-
1 GAGCTGA--AACAGTAAGCTCT-ATC
*
9315054 GAGCTGAAACGGTAAGCTCTATC
1 GAGCTGAAACAGTAAGCTCTATC
*
9315077 AAGCTG-AACAGTAAGCTC-ATAC
1 GAGCTGAAACAGTAAGCTCTAT-C
* *
9315099 GAGCTGAAACGGTAAGCTCCA-C
1 GAGCTGAAACAGTAAGCTCTATC
9315121 TGAGCTGAAAACAGTAAGCTCT-TAC
1 -GAGCTG-AAACAGTAAGCTCTAT-C
9315146 GAGCTGA
1 GAGCTGA
9315153 TATATCGGTA
Statistics
Matches: 84, Mismatches: 7, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
21 2 0.02
22 20 0.24
23 35 0.42
24 19 0.23
25 8 0.10
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTATC
Found at i:9317771 original size:19 final size:19
Alignment explanation
Indices: 9317749--9317788 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9317739 TCTGTACACA
*
9317749 AATTCTATTTCATAACATT
1 AATTCTATTTCAAAACATT
*
9317768 AATTCTATTTTAAAACATT
1 AATTCTATTTCAAAACATT
9317787 AA
1 AA
9317789 ACGGTCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCTATTTCAAAACATT
Found at i:9331978 original size:17 final size:17
Alignment explanation
Indices: 9331956--9331999 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
9331946 TTCTAAGAAG
9331956 TATTTTTAAAATAAAAA
1 TATTTTTAAAATAAAAA
*
9331973 TATTTTTAAGATAAAAA
1 TATTTTTAAAATAAAAA
9331990 TATTTTTAAA
1 TATTTTTAAA
9332000 CAAGTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TATTTTTAAAATAAAAA
Found at i:9337394 original size:11 final size:11
Alignment explanation
Indices: 9337378--9337408 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9337368 ATCGTAGACC
9337378 ATAAAAATATA
1 ATAAAAATATA
9337389 ATAAAAATATA
1 ATAAAAATATA
*
9337400 ATAGAAATA
1 ATAAAAATA
9337409 AATTTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
ATAAAAATATA
Found at i:9342726 original size:30 final size:30
Alignment explanation
Indices: 9342692--9342751 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
9342682 AAGACACACT
9342692 AAAATGAATTTAAACAAATGGTTATTCATA
1 AAAATGAATTTAAACAAATGGTTATTCATA
9342722 AAAATGAATTTAAACAAATGGTTATTCATA
1 AAAATGAATTTAAACAAATGGTTATTCATA
9342752 TTCATTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (30 bp):
AAAATGAATTTAAACAAATGGTTATTCATA
Found at i:9342796 original size:11 final size:10
Alignment explanation
Indices: 9342780--9342830 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
9342770 TTAAATATTA
9342780 TAAAAAATAT
1 TAAAAAATAT
9342790 GTAAAAAATAT
1 -TAAAAAATAT
**
9342801 TAAAATTTATT
1 TAAAAAATA-T
*
9342812 TAAAAAAT-C
1 TAAAAAATAT
9342821 TAAAAAATAT
1 TAAAAAATAT
9342831 GTCGAATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
9 8 0.25
10 7 0.22
11 17 0.53
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:9344451 original size:17 final size:18
Alignment explanation
Indices: 9344419--9344452 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9344409 AATGTAAAAA
9344419 TAAATTTAATTTAATTTG
1 TAAATTTAATTTAATTTG
*
9344437 TAAATTTTA-TTAATTT
1 TAAATTTAATTTAATTT
9344453 ATATCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TAAATTTAATTTAATTTG
Found at i:9353710 original size:19 final size:20
Alignment explanation
Indices: 9353673--9353710 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
9353663 TCTCTAATAT
* *
9353673 AAAATGTATTTTAATATTTG
1 AAAATGTATTTGAAAATTTG
9353693 AAAAT-TATTTGAAAATTT
1 AAAATGTATTTGAAAATTT
9353711 TGCTAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
AAAATGTATTTGAAAATTTG
Found at i:9366115 original size:5 final size:5
Alignment explanation
Indices: 9366105--9366132 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9366095 TACCTGATAT
9366105 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
9366133 CGCAGATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:9376320 original size:15 final size:15
Alignment explanation
Indices: 9376300--9376353 Score: 64
Period size: 12 Copynumber: 3.9 Consensus size: 15
9376290 TAAAAAGAAG
9376300 TAATAAATAAATAGA
1 TAATAAATAAATAGA
9376315 TAAT-AATAAA-A-A
1 TAATAAATAAATAGA
9376327 TAA-AAAT-AATAGA
1 TAATAAATAAATAGA
9376340 TAATAAAATAAATA
1 TAAT-AAATAAATA
9376354 AATGCTCGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.06
12 8 0.24
13 5 0.15
14 6 0.18
15 8 0.24
16 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (15 bp):
TAATAAATAAATAGA
Found at i:9376337 original size:25 final size:26
Alignment explanation
Indices: 9376304--9376355 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 26
9376294 AAGAAGTAAT
9376304 AAATAAATAGATAATAATAA-AAATAA
1 AAATAAATAGATAATAA-AATAAATAA
9376330 AAAT-AATAGATAATAAAATAAATAA
1 AAATAAATAGATAATAAAATAAATAA
9376355 A
1 A
9376356 TGCTCGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 2 0.08
25 19 0.76
26 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (26 bp):
AAATAAATAGATAATAAAATAAATAA
Found at i:9376342 original size:22 final size:21
Alignment explanation
Indices: 9376308--9376351 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
9376298 AGTAATAAAT
9376308 AAATAGATAATAATAAAAATAA
1 AAATAGATAATAAT-AAAATAA
9376330 AAATA-ATAGATAATAAAATAA
1 AAATAGATA-ATAATAAAATAA
9376351 A
1 A
9376352 TAAATGCTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAGATAATAATAAAATAA
Found at i:9378149 original size:96 final size:96
Alignment explanation
Indices: 9377985--9378631 Score: 763
Period size: 96 Copynumber: 6.9 Consensus size: 96
9377975 TTATAGTTTT
* * * *
9377985 AATCTGCTCCATTGCAACTTTAGGGAGATAAGGTTTGTAATTTGTAGCTTTAATCTGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * *
9378050 TAACTTCAGGGAAATAAGATTCGTTATCTTC
66 CAACTTTAAGGAAATAAGATTCGCTATCTTC
* * *
9378081 AATCTGCTTCGCTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * *
9378146 TAACTTAAAGGAAATAAGATTCGTTATTTTC
66 CAACTTTAAGGAAATAAGATTCGCTATCTTC
* * * *
9378177 AATCAGCTCCACTGTAATTTCAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* **
9378242 TAACTTTAAGGAAATAAGATTCTTTATCTTC
66 CAACTTTAAGGAAATAAGATTCGCTATCTTC
* *
9378273 AAT-TAGCTCCACTGCAATTTCAGAGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACT
1 AATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACT
* * *
9378337 GCAACTTTAGGGAAATAAGATTCACTATTTTC
65 GCAACTTTAAGGAAATAAGATTCGCTATCTTC
* * * *
9378369 AATCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGTAACTTGTAGCTTTAATTTATTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
*
9378434 CAACTTCAAGGAAATAAGATTCGCTATCTTC
66 CAACTTTAAGGAAATAAGATTCGCTATCTTC
* * * *
9378465 AATCTGCTCCATTGTAACTTC-TGG-G---AGA----TAACTTGTAGATTTAATCTG-TCCTACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCC-ACT
*
9378520 GCAACTTTAGGGAAATAAGATTCGCTATCTTC
65 GCAACTTTAAGGAAATAAGATTCGCTATCTTC
* * * * *
9378552 AATCTACTCCACTGTAACTTGAGGGAGATAAAATTTG-----TG--GCTTTAATCTGCTCCACTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
*
9378610 CAACTTTAAGGAGATAAGATTC
66 CAACTTTAAGGAAATAAGATTC
9378632 ACCACGGTGA
Statistics
Matches: 485, Mismatches: 53, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
86 3 0.01
87 68 0.14
88 2 0.00
89 35 0.07
90 3 0.01
91 5 0.01
92 2 0.00
94 1 0.00
95 1 0.00
96 364 0.75
97 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (96 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
CAACTTTAAGGAAATAAGATTCGCTATCTTC
Found at i:9378208 original size:45 final size:45
Alignment explanation
Indices: 9378036--9378631 Score: 279
Period size: 45 Copynumber: 12.8 Consensus size: 45
9378026 TTGTAGCTTT
* *
9378036 AATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCGTTATCTTC
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTATTTTC
* * * * * *
9378081 AATCTGCTTCGCTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGC
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTATTT-T--C
* * *
9378129 TTTAATCTGTTCCACTGTAACTTAAAGGAAATAAGATTCGTTATTTTC
1 ---AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTATTTTC
* * * * * *
9378177 AATCAGCTCCACTGTAATTTCAGGGAGATAAGATTTGTAACTTGTAACTTT
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTA--T-T---TTC
* * * * *
9378228 AATCTGTTCCACTGTAACTTTAAGGAAATAAGATTCTTTATCTTC
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTATTTTC
* * * * * * *
9378273 AAT-TAGCTCCACTGCAATTTCAGAGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCT-GCTCCACTGTAACTTCAGGGAAATAAGATTCGTTA--T-T---TTC
* * * **
9378324 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCACTATTTTC
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTATTTTC
* * * * * * *
9378369 AATCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTA--T-T---TTC
* ** * * * *
9378420 AATTTATTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTATTTTC
* * * * *
9378465 AATCTGCTCCATTGTAACTTCTGGGAGATAA-CTT-G-TAGATTT-
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTA-TTTTC
* * * *
9378507 AATCTG-TCCTACTGCAACTTTAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCC-ACTGTAACTTCAGGGAAATAAGATTCGTTATTTTC
* * * * * ***
9378552 AATCTACTCCACTGTAACTTGAGGGAGATAAAATTTGTGGCTTT-
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTATTTTC
* * * *
9378596 AATCTGCTCCACTGCAACTTTAAGGAGATAAGATTC
1 AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTC
9378632 ACCACGGTGA
Statistics
Matches: 403, Mismatches: 115, Indels: 67
0.69 0.20 0.11
Matches are distributed among these distances:
41 3 0.01
42 24 0.06
43 5 0.01
44 36 0.09
45 188 0.47
46 4 0.01
47 3 0.01
48 5 0.01
49 3 0.01
50 1 0.00
51 130 0.32
52 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (45 bp):
AATCTGCTCCACTGTAACTTCAGGGAAATAAGATTCGTTATTTTC
Found at i:9378452 original size:51 final size:51
Alignment explanation
Indices: 9377982--9378454 Score: 302
Period size: 51 Copynumber: 9.7 Consensus size: 51
9377972 GATTTATAGT
* * * * * * *
9377982 TTTAATCTGCTCCATTGCAACTTTAGGGAGATAAGGTTTGTAATTTGTAGC
1 TTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTAACTTGTAGC
* * * *
9378033 TTTAATCTGTTCCACTGTAACTTCAGGGAAATAAGA--T-T--CGT-TATC
1 TTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTAACTTGTAGC
* * * * *
9378078 TTCAATCTGCTT-CGCTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGC
1 TTTAATCTG-TTCCACTGCAACTTCAAGGAAATAAGATTTGTAACTTGTAGC
* * * *
9378129 TTTAATCTGTTCCACTGTAACTTAAAGGAAATAAGATTCGTTA--T-T---
1 TTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTAACTTGTAGC
* * * * * * * *
9378174 TTCAATCAGCTCCACTGTAATTTCAGGGAGATAAGATTTGTAACTTGTAAC
1 TTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTAACTTGTAGC
* * *
9378225 TTTAATCTGTTCCACTGTAACTTTAAGGAAATAAGA--T-T--CTT-TATC
1 TTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTAACTTGTAGC
* * * *
9378270 TTCAAT-TAGCTCCACTGCAATTTC-AGAGAGATAAGATTTGTAACTTGTAGC
1 TTTAATCT-GTTCCACTGCAACTTCAAG-GAAATAAGATTTGTAACTTGTAGC
* * *
9378321 TTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGA--T-TCACTAT-T---
1 TTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTAACT-TGTAGC
* * * *
9378366 TTCAATCTGCTCCACTGCAACTT-TAGAGAGATAAGATTTGTAACTTGTAGC
1 TTTAATCTGTTCCACTGCAACTTCAAG-GAAATAAGATTTGTAACTTGTAGC
* *
9378417 TTTAATTTATTCCACTGCAACTTCAAGGAAATAAGATT
1 TTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATT
9378455 CGCTATCTTC
Statistics
Matches: 321, Mismatches: 67, Indels: 68
0.70 0.15 0.15
Matches are distributed among these distances:
44 4 0.01
45 123 0.38
46 6 0.02
47 5 0.02
48 16 0.05
49 5 0.02
50 6 0.02
51 152 0.47
52 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (51 bp):
TTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTAACTTGTAGC
Found at i:9378552 original size:87 final size:86
Alignment explanation
Indices: 9378406--9378631 Score: 299
Period size: 87 Copynumber: 2.6 Consensus size: 86
9378396 ATAAGATTTG
* * * *
9378406 TAACTTGTAGCTTTAATTTATTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAATCTG
1 TAACTTGTAGCTTTAATCT-GTCCACTGCAACTTTAAGGAAATAAGATTCGCTATCTTCAATCTA
* *
9378471 CTCCATTGTAACTTCTGGGAGA
65 CTCCACTGTAACTTCAGGGAGA
* *
9378493 TAACTTGTAGATTTAATCTGTCCTACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAATCTA
1 TAACTTGTAGCTTTAATCTGTCC-ACTGCAACTTTAAGGAAATAAGATTCGCTATCTTCAATCTA
*
9378558 CTCCACTGTAACTTGAGGGAGA
65 CTCCACTGTAACTTCAGGGAGA
* * *
9378580 TAAAATTTGTGGCTTTAATCTGCTCCACTGCAACTTTAAGGAGATAAGATTC
1 T--AACTTGTAGCTTTAATCTG-TCCACTGCAACTTTAAGGAAATAAGATTC
9378632 ACCACGGTGA
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
86 3 0.02
87 75 0.62
89 40 0.33
90 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (86 bp):
TAACTTGTAGCTTTAATCTGTCCACTGCAACTTTAAGGAAATAAGATTCGCTATCTTCAATCTAC
TCCACTGTAACTTCAGGGAGA
Found at i:9382513 original size:19 final size:21
Alignment explanation
Indices: 9382489--9382533 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
9382479 TTATAGAATT
9382489 TAATGCAT-ATG-ATGAAATG
1 TAATGCATGATGTATGAAATG
9382508 TAATGC-TGATGTATGAAATG
1 TAATGCATGATGTATGAAATG
9382528 -AATGCA
1 TAATGCA
9382534 AAAAGAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 14 0.61
20 8 0.35
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (21 bp):
TAATGCATGATGTATGAAATG
Found at i:9383344 original size:21 final size:21
Alignment explanation
Indices: 9383320--9383363 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9383310 TTTCTACTTC
9383320 CAACTATTCTATCTTTTTCCT
1 CAACTATTCTATCTTTTTCCT
9383341 CAACTATTCTATCTTTTTCCT
1 CAACTATTCTATCTTTTTCCT
9383362 CA
1 CA
9383364 GTTCTGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (21 bp):
CAACTATTCTATCTTTTTCCT
Found at i:9385443 original size:391 final size:391
Alignment explanation
Indices: 9384708--9385486 Score: 1288
Period size: 391 Copynumber: 2.0 Consensus size: 391
9384698 CTTTATCAAG
* * * *
9384708 GAATTCTTTTTCCATAGCAAGCTTTCTATTTAGCACTAAATGTGAATCAACACCCTTTTCTATAA
1 GAATTCATTTTCCATAGCAAACTTTCTATTTAGCACTAAACGTGAATCAACACCCTTTCCTATAA
* * *
9384773 TGAAAATGCAATGCAATCACAACCAAAACAAAACGAAACAAGTCAATATTTTTCATACAAATCTA
66 TGAAAATACAATGCAATCACAACCAAAACAAAACGAAACAAGTCAATATATTTCATAAAAATCTA
*
9384838 GAATTCAAAGCAAGAAATAAGAAATAAATAGAGCAACTATTCGGGTGACTACTAGGGGTTTAGTA
131 GAATTCAAAGCAAGAAATAAGAAATAAATAGAGCAACTATTCGGGTGACCACTAGGGGTTTAGTA
* *
9384903 TGGCTCTACCTAGGATAAGTTCTTAGGGCTCATTATATGTGGTTCGGTTCTAAAGTAAGGGTACC
196 TGGCTCTACCTAGGATAAGTTATTAGGGCTCATTATATGTGGTTCGGTTCTAAAGTAAAGGTACC
* * *
9384968 TGAACCGGCAGATTTCTCGATCCTCACCGATTATAGGCTCATACGGTACCGAGTTTAGCTCAGAG
261 TGAACCAGCAGATTCCTCGATCCTCACCAATTATAGGCTCATACGGTACCGAGTTTAGCTCAGAG
* *
9385033 GAATACATTTCCCTATGGCTATACGGAGATGAAAATCTCACGAAAACATAGGTATAAATGTACTT
326 GAATACATTTCCCTATGGCTATACAGAGATGAAAATCTCACGAAAACATAGGTACAAATGTACTT
9385098 T
391 T
* *
9385099 GAATTCATTTTCCATGGCAAACTTTCTATTTAGCACTGAACGTGAATCAACACCCTTTCCTATAA
1 GAATTCATTTTCCATAGCAAACTTTCTATTTAGCACTAAACGTGAATCAACACCCTTTCCTATAA
* * *
9385164 TGAAAATACAATGCAATCACAACCAAAACAAAATGAAGCAAGTCAGTATATTTCATAAAAATCTA
66 TGAAAATACAATGCAATCACAACCAAAACAAAACGAAACAAGTCAATATATTTCATAAAAATCTA
* * * *
9385229 GAATTCAAAGCAAGAAATAAGAAATAAATAGAGCACCTATTCTGGTGACCACTAGGGGTTTGGTG
131 GAATTCAAAGCAAGAAATAAGAAATAAATAGAGCAACTATTCGGGTGACCACTAGGGGTTTAGTA
* *
9385294 TGGCTCTACTTAGGATAGGTTATTAGGGCTCATTATATGTGGTTCGGTTCTAAAGTAAAGGTACC
196 TGGCTCTACCTAGGATAAGTTATTAGGGCTCATTATATGTGGTTCGGTTCTAAAGTAAAGGTACC
*
9385359 TGAACCAGCAGATTCCTCGATCCTCACCAATTATAGGCTCATACGGTACCGAGTTTAGCTCAGGG
261 TGAACCAGCAGATTCCTCGATCCTCACCAATTATAGGCTCATACGGTACCGAGTTTAGCTCAGAG
* * *
9385424 GAATACATTTCCTTATGGCTATACAGAGATGAAAATCTCACGAAGACATAGGTACAGATGTAC
326 GAATACATTTCCCTATGGCTATACAGAGATGAAAATCTCACGAAAACATAGGTACAAATGTAC
9385487 CCTGAAAGAG
Statistics
Matches: 358, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
391 358 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (391 bp):
GAATTCATTTTCCATAGCAAACTTTCTATTTAGCACTAAACGTGAATCAACACCCTTTCCTATAA
TGAAAATACAATGCAATCACAACCAAAACAAAACGAAACAAGTCAATATATTTCATAAAAATCTA
GAATTCAAAGCAAGAAATAAGAAATAAATAGAGCAACTATTCGGGTGACCACTAGGGGTTTAGTA
TGGCTCTACCTAGGATAAGTTATTAGGGCTCATTATATGTGGTTCGGTTCTAAAGTAAAGGTACC
TGAACCAGCAGATTCCTCGATCCTCACCAATTATAGGCTCATACGGTACCGAGTTTAGCTCAGAG
GAATACATTTCCCTATGGCTATACAGAGATGAAAATCTCACGAAAACATAGGTACAAATGTACTT
T
Found at i:9386818 original size:4 final size:4
Alignment explanation
Indices: 9386811--9386881 Score: 58
Period size: 4 Copynumber: 17.8 Consensus size: 4
9386801 AAAAAGGAGT
* * *
9386811 AATA AATA AATA ACTA AATA AATA AATA GAT- AAT- AATGAA AATA AAAA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT--A AATA AATA
*
9386859 AATA GAT- AATAA AATA AATA AAT
1 AATA AATA AAT-A AATA AATA AAT
9386882 GCCTGATGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
3 7 0.13
4 41 0.76
5 3 0.06
6 3 0.06
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:9386836 original size:20 final size:19
Alignment explanation
Indices: 9386811--9386881 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
9386801 AAAAAGGAGT
9386811 AATAAATAAATAACTAA-ATA
1 AATAAATAAATAA-TAATA-A
*
9386831 AATAAATAGATAATAATGAA
1 AATAAATAAATAATAAT-AA
*
9386851 AATAAAAAAATAGATAATAA
1 AATAAATAAATA-ATAATAA
9386871 AATAAATAAAT
1 AATAAATAAAT
9386882 GCCTGATGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 3 0.07
20 35 0.80
21 6 0.14
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.24
Consensus pattern (19 bp):
AATAAATAAATAATAATAA
Found at i:9386838 original size:24 final size:23
Alignment explanation
Indices: 9386811--9386881 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
9386801 AAAAAGGAGT
9386811 AATAAATAAATAACTAAATAAATA
1 AATAAATAAATAA-TAAATAAATA
* *
9386835 AATAGAT-AATAAT-GA-AAATA
1 AATAAATAAATAATAAATAAATA
* *
9386855 AAAAAATAGATAATAAAATAAATA
1 AATAAATAAATAAT-AAATAAATA
9386879 AAT
1 AAT
9386882 GCCTGATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
20 10 0.28
21 6 0.17
22 1 0.03
23 6 0.17
24 13 0.36
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.24
Consensus pattern (23 bp):
AATAAATAAATAATAAATAAATA
Found at i:9394444 original size:2 final size:2
Alignment explanation
Indices: 9394432--9394473 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
9394422 TAAGTGAAAT
*
9394432 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9394474 ATGAAATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9395720 original size:39 final size:39
Alignment explanation
Indices: 9395676--9395803 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
9395666 TATGAGATTG
*
9395676 AAAATATCCGGACATGAGGTCCGTAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
9395715 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * ** *
9395754 AATATATCCGGACTTGAGGTTCGCAGGCTACGTGTTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
9395793 AAAATATCCGG
1 AAAATATCCGG
9395804 GTTAAAGACC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:9395817 original size:78 final size:76
Alignment explanation
Indices: 9395675--9395829 Score: 177
Period size: 78 Copynumber: 2.0 Consensus size: 76
9395665 GTATGAGATT
* * * *
9395675 GAAAATATCCGGACATGAGGTCCGTAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
9395740 GGCTATATGCTA
66 GGCT-TACGCTA
* * * * **
9395752 GAAATATATCCGGACTTGAGGTTCGCAGGCTACGTGTTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
9395816 CAGGCTTACGCTA
64 CAGGCTTACGCTA
9395829 G
1 G
9395830 TAATGTATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 12 0.18
78 53 0.82
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Done.