Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 91
Found at i:9859646 original size:17 final size:16
Alignment explanation
Indices: 9859561--9859647 Score: 56
Period size: 17 Copynumber: 5.3 Consensus size: 16
9859551 TATATATATA
*
9859561 TATATATATTAAAA--
1 TATAAATATTAAAATT
9859575 TATAAATATTATATAATT
1 TATAAATATTA-A-AATT
*
9859593 ATATAAAT-TAAAAATT
1 -TATAAATATTAAAATT
* *
9859609 T-TCACATATTTAATATT
1 TAT-AAATA-TTAAAATT
9859626 TATAAATATTAAAATT
1 TATAAATATTAAAATT
9859642 GTATAA
1 -TATAA
9859648 TTAATATTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
14 11 0.20
15 5 0.09
16 13 0.23
17 17 0.30
18 3 0.05
19 7 0.12
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (16 bp):
TATAAATATTAAAATT
Found at i:9862109 original size:60 final size:60
Alignment explanation
Indices: 9861923--9862116 Score: 218
Period size: 60 Copynumber: 3.3 Consensus size: 60
9861913 TTTTTACGAT
* * *
9861923 TAATTTCATCCCTAAACTAT-ACCCTTATTCTAAATGA-TCCTTAAACTTTTGAATATTT-
1 TAATTTCATCCATAAACTATGACCCTCATTCTAAATTAGTCCTTAAACTTTTGAAT-TTTC
* * * * **
9861981 TAATTTCAACC-TCAAACTATGACTCACATTATAAATTAGTCCTTAAACTTTTGAACATTC
1 TAATTTCATCCAT-AAACTATGACCCTCATTCTAAATTAGTCCTTAAACTTTTGAATTTTC
*
9862041 TAATTTCATCCATAAACTATGACCCTCATTCTAAATTAGTCAC-CAAACTTTTGAATTTTC
1 TAATTTCATCCATAAACTATGACCCTCATTCTAAATTAGTC-CTTAAACTTTTGAATTTTC
* *
9862101 CAATTTCATCTATAAA
1 TAATTTCATCCATAAA
9862117 TTCATCCAAG
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
57 1 0.01
58 17 0.15
59 14 0.12
60 79 0.70
61 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (60 bp):
TAATTTCATCCATAAACTATGACCCTCATTCTAAATTAGTCCTTAAACTTTTGAATTTTC
Found at i:9863232 original size:20 final size:19
Alignment explanation
Indices: 9863209--9863253 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
9863199 TCAAAGGATT
9863209 GATCCCTTAGAAAAAGAATC
1 GATCCCTT-GAAAAAGAATC
*
9863229 GATCCCCTTGAAAAAGGATC
1 GAT-CCCTTGAAAAAGAATC
9863249 GATCC
1 GATCC
9863254 ATTGGATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 16 0.70
21 5 0.22
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (19 bp):
GATCCCTTGAAAAAGAATC
Found at i:9863315 original size:21 final size:20
Alignment explanation
Indices: 9863291--9863383 Score: 89
Period size: 21 Copynumber: 4.5 Consensus size: 20
9863281 CCCCTTTACG
*
9863291 AAAAGGATCGATCCCTCGAGT
1 AAAAGGATCAATCCCTCGA-T
*
9863312 AAAAGGATCAATCCCTTC-ACC
1 AAAAGGATCAATCCC-TCGA-T
*
9863333 AGAAGGATCAATCCCTCGAT
1 AAAAGGATCAATCCCTCGAT
* *
9863353 AAAAGGATCGATCCCTTCCAT
1 AAAAGGATCAATCCC-TCGAT
*
9863374 TAAAGGATCA
1 AAAAGGATCA
9863384 GTTCATTTCT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 15 0.25
21 42 0.71
22 2 0.03
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (20 bp):
AAAAGGATCAATCCCTCGAT
Found at i:9863368 original size:41 final size:42
Alignment explanation
Indices: 9863274--9863370 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
9863264 AGTATGTTTG
* * * *
9863274 GGATCGACCCCTTTACGAAAAGGATCGATCCCTCGAGTAAAA
1 GGATCGATCCCTTCACCAAAAGGATCAATCCCTCGAGTAAAA
* *
9863316 GGATCAATCCCTTCACCAGAAGGATCAATCCCTCGA-TAAAA
1 GGATCGATCCCTTCACCAAAAGGATCAATCCCTCGAGTAAAA
9863357 GGATCGATCCCTTC
1 GGATCGATCCCTTC
9863371 CATTAAAGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 18 0.38
42 30 0.62
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (42 bp):
GGATCGATCCCTTCACCAAAAGGATCAATCCCTCGAGTAAAA
Found at i:9863383 original size:41 final size:41
Alignment explanation
Indices: 9863292--9863370 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
9863282 CCCTTTACGA
*
9863292 AAAGGATCGATCCCTCGAGTAAAAGGATCAATCCCTTCACC
1 AAAGGATCAATCCCTCGAGTAAAAGGATCAATCCCTTCACC
*
9863333 AGAAGGATCAATCCCTCGA-TAAAAGGATCGATCCCTTC
1 A-AAGGATCAATCCCTCGAGTAAAAGGATCAATCCCTTC
9863371 CATTAAAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 19 0.54
42 16 0.46
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (41 bp):
AAAGGATCAATCCCTCGAGTAAAAGGATCAATCCCTTCACC
Found at i:9866768 original size:20 final size:20
Alignment explanation
Indices: 9866743--9866794 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
9866733 CCCAAGAAAT
9866743 AGGGTATCGATACCATGATA
1 AGGGTATCGATACCATGATA
9866763 AGGGTATCGATACCATGATA
1 AGGGTATCGATACCATGATA
9866783 AGGGTATCGATA
1 AGGGTATCGATA
9866795 ACAGTAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (20 bp):
AGGGTATCGATACCATGATA
Found at i:9866881 original size:75 final size:73
Alignment explanation
Indices: 9866744--9866947 Score: 198
Period size: 75 Copynumber: 2.7 Consensus size: 73
9866734 CCAAGAAATA
* * * * *
9866744 GGGTATCGATACCATGATA-AGGGTATCGATACCATGATAAGGGTATCGATAACAGTAAACATCA
1 GGGTATCGATA-CATGA-AGGGGGTATCGATACCATAATAGGGGTATCGATACCAGGAAACATCA
*
9866808 AATCTAATTT
64 AAGCTAATTT
**
9866818 GGGTATCGATACAT-AGAGGGGGTATC-AGTACCATAACATAGGGGTATCGATACCAGGCTACAT
1 GGGTATCGATACATGA-AGGGGGTATCGA-TACCAT-A-ATAGGGGTATCGATACCAGGAAACAT
*
9866881 CGAAGCTAATTT
62 CAAAGCTAATTT
* * * *
9866893 TGGTATTGATATATGAAGGGGGTATCGATACCCTAATAGGGTAGTATCGATACCA
1 GGGTATCGATACATGAAGGGGGTATCGATACCATAATAGGG--GTATCGATACCA
9866948 TAAGTAGGGG
Statistics
Matches: 108, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
72 3 0.03
73 22 0.20
74 12 0.11
75 69 0.64
76 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (73 bp):
GGGTATCGATACATGAAGGGGGTATCGATACCATAATAGGGGTATCGATACCAGGAAACATCAAA
GCTAATTT
Found at i:9866942 original size:22 final size:21
Alignment explanation
Indices: 9866911--9866964 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
9866901 ATATATGAAG
*
9866911 GGGGTATCGATACCCTAA-TA
1 GGGGTATCGATACCATAAGTA
9866931 GGGTAGTATCGATACCATAAGTA
1 GGG--GTATCGATACCATAAGTA
9866954 GGGGTATCGAT
1 GGGGTATCGAT
9866965 GCCTAAGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
21 8 0.27
22 14 0.47
23 5 0.17
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (21 bp):
GGGGTATCGATACCATAAGTA
Found at i:9867489 original size:79 final size:79
Alignment explanation
Indices: 9867358--9867508 Score: 252
Period size: 79 Copynumber: 1.9 Consensus size: 79
9867348 AAAACAAATG
*
9867358 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGAGTGCCGTAGTTGAAATGTATATGG
1 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGAGTGCCGTAGTTGAAATGCATATGG
9867423 GTACATTGTCAGCA
66 GTACATTGTCAGCA
9867437 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGA-TGCCAG-AGTTGAAATGCATAT
1 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAA-GAGTGCC-GTAGTTGAAATGCATAT
*
9867500 GGGTGCATT
64 GGGTACATT
9867509 ATCAACAGAA
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
79 65 0.96
80 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (79 bp):
TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGAGTGCCGTAGTTGAAATGCATATGG
GTACATTGTCAGCA
Found at i:9867510 original size:45 final size:46
Alignment explanation
Indices: 9867446--9867712 Score: 280
Period size: 45 Copynumber: 6.0 Consensus size: 46
9867436 ATAAAAGAAT
*** * *
9867446 AATGCATATGGGTGCATTATTGGCATGAAATG-ATGCCAGAGTTGA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATGCTAGAGTTGA
* *
9867491 AATGCATATGGGTGCATTATCAACA-GAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATGCTAGAGTTGA
*
9867536 AATGCATATGGGTGTATTATCAACAT-AAAAGTATGCTAGAGTTGA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATGCTAGAGTTGA
* * *
9867581 AATGTATATGGGTACATTATCAACA-GAAAAGTATACTATG-GTTGA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATGCTA-GAGTTGA
* * * * ** * *
9867626 GATGTATATGGGTACATTATCAGCAT-AAAAGTATATTATAGTTAA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATGCTAGAGTTGA
* *
9867671 AATACATATGGGTGCATTATCAACA-GAAAAG-ATGATAGAGTT
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATGCTAGAGTT
9867713 TAATATGAAT
Statistics
Matches: 188, Mismatches: 27, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
44 13 0.07
45 174 0.93
46 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (46 bp):
AATGCATATGGGTGCATTATCAACATGAAAAGTATGCTAGAGTTGA
Found at i:9867599 original size:90 final size:90
Alignment explanation
Indices: 9867446--9867701 Score: 343
Period size: 90 Copynumber: 2.8 Consensus size: 90
9867436 ATAAAAGAAT
** * *
9867446 AATGCATATGGGTGCATTATTGGCATGAAA-TGATGCCAGAGTTGAAATGCATATGGGTGCATTA
1 AATGCATATGGGTGCATTATCAGCATAAAAGT-ATGCTAGAGTTGAAATGCATATGGGTGCATTA
9867510 TCAACAGAAAAGTATACTATAGTTGA
65 TCAACAGAAAAGTATACTATAGTTGA
* * * *
9867536 AATGCATATGGGTGTATTATCAACATAAAAGTATGCTAGAGTTGAAATGTATATGGGTACATTAT
1 AATGCATATGGGTGCATTATCAGCATAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTAT
*
9867601 CAACAGAAAAGTATACTATGGTTGA
66 CAACAGAAAAGTATACTATAGTTGA
* * * ** * * *
9867626 GATGTATATGGGTACATTATCAGCATAAAAGTATATTATAGTTAAAATACATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATCAGCATAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTAT
9867691 CAACAGAAAAG
66 CAACAGAAAAG
9867702 ATGATAGAGT
Statistics
Matches: 144, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
90 143 0.99
91 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (90 bp):
AATGCATATGGGTGCATTATCAGCATAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTAT
CAACAGAAAAGTATACTATAGTTGA
Found at i:9867734 original size:90 final size:90
Alignment explanation
Indices: 9867483--9867744 Score: 298
Period size: 90 Copynumber: 2.9 Consensus size: 90
9867473 AAATGATGCC
* * *
9867483 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGG
1 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTTAAATGAATATGGG
* *
9867548 TGTATTATCAACATAAAAGTATGCT
66 TGCATTATCAACATAAAAGTATACT
* * * * *
9867573 AGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATG-GTTGAGATGTATATGG
1 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTA-GAGTTTAAATGAATATGG
* * *
9867637 GTACATTATCAGCATAAAAGTATATT
65 GTGCATTATCAACATAAAAGTATACT
* * *
9867663 ATAGTTAAAATACATATGGGTGCATTATCAACAGAAAAG-ATGA-TAGAGTTTAATATGAATAAT
1 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTAT-ACTAGAGTTTAA-ATGAAT-AT
* *
9867726 -GATGCATTATAAACATAAA
63 GGGTGCATTATCAACATAAA
9867745 TGGAGGTTAC
Statistics
Matches: 145, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
88 1 0.01
89 8 0.06
90 134 0.92
91 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (90 bp):
AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTTAAATGAATATGGG
TGCATTATCAACATAAAAGTATACT
Found at i:9867734 original size:135 final size:135
Alignment explanation
Indices: 9867486--9867740 Score: 334
Period size: 135 Copynumber: 1.9 Consensus size: 135
9867476 TGATGCCAGA
* * * *
9867486 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGTGT
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTAAAATACATATGGGTGC
* * * * *
9867551 ATTATCAACATAAAAGTATGCTAGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATA
66 ATTATCAACAGAAAAGTATGATAGAGTTGAAATGAATATGGATACATTATAAACAGAAAAGTATA
9867616 CTATG
131 CTATG
* * * * *
9867621 GTTGAGATGTATATGGGTACATTATCAGCATAAAAGTATATTATAGTTAAAATACATATGGGTGC
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTAAAATACATATGGGTGC
* *
9867686 ATTATCAACAGAAAAG-ATGATAGAGTTTAATATGAATAAT-GATGCATTATAAACA
66 ATTATCAACAGAAAAGTATGATAGAGTTGAA-ATGAAT-ATGGATACATTATAAACA
9867741 TAAATGGAGG
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
134 12 0.12
135 88 0.86
136 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (135 bp):
GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTAAAATACATATGGGTGC
ATTATCAACAGAAAAGTATGATAGAGTTGAAATGAATATGGATACATTATAAACAGAAAAGTATA
CTATG
Found at i:9867964 original size:18 final size:19
Alignment explanation
Indices: 9867941--9867977 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9867931 TCTACTAAGG
9867941 TTGACA-CCCAATAACATT
1 TTGACACCCCAATAACATT
*
9867959 TTGACACCCCAGTAACATT
1 TTGACACCCCAATAACATT
9867978 AGGACTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.30, G:0.08, T:0.27
Consensus pattern (19 bp):
TTGACACCCCAATAACATT
Found at i:9875284 original size:94 final size:95
Alignment explanation
Indices: 9875067--9875266 Score: 298
Period size: 94 Copynumber: 2.1 Consensus size: 95
9875057 TACTTATGGG
* *
9875067 GTATCGATACTAAAAGGAAGGTATCGATACCATGGATTCCAAAATGCCAAAATGGTATCGATATT
1 GTATCGATACTATAAGAAAGGTATCGATACCATGGATTCCAAAATGCCAAAATGGTATCGATATT
*
9875132 GAAAGGGAGTATCAGTACCATAGTATAGAA
66 GAAAGGGAGTATCAGTACAATAGTATAGAA
* * *
9875162 GTATCGGTACTATAAGAAAAGTATCGATACCATGGA-TCCAAAATG-TAGAAATGGTATCGATAC
1 GTATCGATACTATAAGAAAGGTATCGATACCATGGATTCCAAAATGCCA-AAATGGTATCGATA-
*
9875225 TT-AAAGGGAGTATCAGTACAATAGTGTAGAA
64 TTGAAAGGGAGTATCAGTACAATAGTATAGAA
9875256 GTATCGATACT
1 GTATCGATACT
9875267 CTGGTATAGG
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
93 1 0.01
94 60 0.63
95 34 0.36
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.26
Consensus pattern (95 bp):
GTATCGATACTATAAGAAAGGTATCGATACCATGGATTCCAAAATGCCAAAATGGTATCGATATT
GAAAGGGAGTATCAGTACAATAGTATAGAA
Found at i:9875569 original size:22 final size:22
Alignment explanation
Indices: 9875539--9875583 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9875529 ACCTCAAATG
*
9875539 TTTAAATTAATGTATGTTT-TAA
1 TTTAAATT-ATATATGTTTATAA
*
9875561 TTTATATTATATATGTTTATAA
1 TTTAAATTATATATGTTTATAA
9875583 T
1 T
9875584 GTGTGTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTAAATTATATATGTTTATAA
Found at i:9876216 original size:81 final size:81
Alignment explanation
Indices: 9875635--9876208 Score: 815
Period size: 81 Copynumber: 7.1 Consensus size: 81
9875625 TTGTTCTAAA
* * *
9875635 TAAAAGATTAATTGCCTAGCTGTGCATTTGATAGAAATATGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
9875700 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
9875716 AAAAAGATTAATTGCATAGTTGTGCATTTGACAGAAATATGTCAATTATGCCAATTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
9875781 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* *
9875797 TAAAAGATTAATTGCCTAGATATGCATTTGACAGAAATGTGTCAGTTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
9875862 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
9875878 TAAAAGATTAATTACCTAGATGTGCATTTGATAGAAATGTGTCAATTATGCCAATTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
9875943 GTTAAATACCTTTGTG
66 GTTAAATACCTTTGAG
* * * * *
9875959 TAAAAGTTTAATTTCCTAGCTGTGCATTTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
9876024 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
9876040 TAAAAGATTAATTGCCTAGATGTCCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
9876105 GTTAAATGCCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * * * * * *
9876121 TTAAAGATTAAATGCCTAGCTATGCACTTGGCAGAAAGGTGTCAATCATGCAAGTTAAATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
* * *
9876186 GGTAAATGCCTTTGGG
66 GTTAAATACCTTTGAG
9876202 TAAAAGA
1 TAAAAGA
9876209 CTAAATGCTT
Statistics
Matches: 446, Mismatches: 47, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 446 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:9877623 original size:7 final size:7
Alignment explanation
Indices: 9877611--9877643 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
9877601 ATAATATAAT
9877611 ATTATTA
1 ATTATTA
9877618 ATTATTA
1 ATTATTA
9877625 ATTATTA
1 ATTATTA
9877632 ATTATTA
1 ATTATTA
9877639 ATTAT
1 ATTAT
9877644 ATTTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTATTA
Found at i:9877731 original size:26 final size:27
Alignment explanation
Indices: 9877693--9877770 Score: 77
Period size: 30 Copynumber: 2.8 Consensus size: 27
9877683 ATTTACAAAA
*
9877693 TATATTATAATTATTTTTATAAAATA-
1 TATATTTTAATTATTTTTATAAAATAT
* * *
9877719 TCTATTTTAATTACTATATTTATATATTAT
1 TATATTTTAATTA-T-T-TTTATAAAATAT
9877749 TATATTTTAATTATTTATTATA
1 TATATTTTAATTATTT-TTATA
9877771 TTTAATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 11 0.26
27 2 0.05
28 7 0.17
29 10 0.24
30 12 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (27 bp):
TATATTTTAATTATTTTTATAAAATAT
Found at i:9877752 original size:16 final size:16
Alignment explanation
Indices: 9877728--9877814 Score: 72
Period size: 16 Copynumber: 5.3 Consensus size: 16
9877718 ATCTATTTTA
*
9877728 ATTACTATATTTATAT
1 ATTATTATATTTATAT
9877744 ATTATTATATTT-TAATT
1 ATTATTATATTTAT-A-T
9877761 ATTTATTATATTTA-AT
1 A-TTATTATATTTATAT
* *
9877777 AATTAATATTAATTA-AT
1 -ATTATTA-TATTTATAT
*
9877794 ATTATTATATTTATTT
1 ATTATTATATTTATAT
9877810 ATTAT
1 ATTAT
9877815 ATTCATTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.10
16 30 0.52
17 11 0.19
18 11 0.19
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATTATATTTATAT
Found at i:9877753 original size:10 final size:10
Alignment explanation
Indices: 9877738--9877808 Score: 51
Period size: 10 Copynumber: 7.2 Consensus size: 10
9877728 ATTACTATAT
9877738 TTATATATTA
1 TTATATATTA
*
9877748 TTATATTTTAA
1 TTATATATT-A
*
9877759 TTATTTATTA
1 TTATATATTA
* *
9877769 -TATTTAATAA
1 TTATAT-ATTA
9877779 TTA-ATATTAA
1 TTATATATT-A
9877789 TTA-ATATTA
1 TTATATATTA
9877798 TTATAT-TTA
1 TTATATATTA
9877807 TT
1 TT
9877809 TATTATATTC
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
9 16 0.32
10 24 0.48
11 10 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTATATATTA
Found at i:9877768 original size:18 final size:18
Alignment explanation
Indices: 9877745--9877817 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
9877735 TATTTATATA
9877745 TTATTATATTTTAATTAT
1 TTATTATATTTTAATTAT
9877763 TTATTATATTTAATAATTAAT
1 TTATTATATTT--TAATT-AT
9877784 ATTAATTAATATTATTATATTTAT
1 -TT-ATT-ATATT-TTA-A-TTAT
9877808 TTATTATATT
1 TTATTATATT
9877818 CATTTAATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
18 11 0.24
20 5 0.11
21 7 0.15
22 5 0.11
23 7 0.15
24 8 0.17
25 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATATTTTAATTAT
Found at i:9877799 original size:13 final size:13
Alignment explanation
Indices: 9877745--9877823 Score: 53
Period size: 13 Copynumber: 6.2 Consensus size: 13
9877735 TATTTATATA
9877745 TTATTATATTTTAA-
1 TTATTATA--TTAAT
9877759 TTATT-TATTATAT
1 TTATTATATTA-AT
*
9877772 TTAATA-ATTAA-
1 TTATTATATTAAT
9877783 -TATTA-ATTAAT
1 TTATTATATTAAT
*
9877794 ATTATTATATTTAT
1 -TTATTATATTAAT
*
9877808 TTATTATATTCAT
1 TTATTATATTAAT
9877821 TTA
1 TTA
9877824 ATTTATATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.17
11 3 0.06
12 2 0.04
13 30 0.56
14 10 0.19
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTATATTAAT
Found at i:9879316 original size:104 final size:104
Alignment explanation
Indices: 9879122--9879999 Score: 580
Period size: 104 Copynumber: 8.4 Consensus size: 104
9879112 AATGAGAAAA
* * * * * *
9879122 AAAAATTTGATTCTAGAGAAACTATCTCAAGTGAGATAAAATATTT-TAT--AGTGAAATGATCT
1 AAAAATTTGTTTCTAGAGAAACAATCTCAAGTGAGATAAATTTTTTGTTTCAAGTGAAATAATCT
* ** *
9879184 TGATGTTTGTGTTTTTAGGGAAACTGTCTCGAGCAAGAT
66 TGAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGTAAGAT
* * * *
9879223 AAAAATTTGTTTCAAGAGAAATAACCTCAAGTGAGATAAATTTTTTGTTTCAAGTGAAGTAATCT
1 AAAAATTTGTTTCTAGAGAAACAATCTCAAGTGAGATAAATTTTTTGTTTCAAGTGAAATAATCT
* * * * *
9879288 TGAAGTTTATGTTTCAAGGGGAACTGTCTCAAGTGAGAC
66 TGAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGTAAGAT
* ** * * * ** *
9879327 AAAAA-ATACTTCTAGAGAAAAAAATCTCAAGTGATATAAGATTTTTTCTTTTTTAGTGAAATGA
1 AAAAATTTGTTTCTAGAG-AAACAATCTCAAGTGAGATAA-ATTTTTT-GTTTCAAGTGAAATAA
** * *
9879391 TCTTGAAGTTTGTGTTTTGAGGGAAAATGTCTCGAGAAAGAT
63 TCTTGAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGTAAGAT
** * * * * * **
9879433 AAAAA---AATTCTAGGGAAATAACCACAAGTGAGATAATTTTTTTGTTTCGAA-TGAAGCAATC
1 AAAAATTTGTTTCTAGAGAAACAATCTCAAGTGAGATAAATTTTTTGTTTC-AAGTGAAATAATC
* * *
9879494 TTAAAGTTTGTGTTTCAAGGGAAATTGTCTCGAATAAGA-
65 TTGAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGTAAGAT
***
9879533 CGGAATTT-TTTCTAGAGAAACAATCTCAAGTGAGATATAATTTTTT-TTTCTTTTTAAGTGAAA
1 AAAAATTTGTTTCTAGAGAAACAATCTCAAGTGAGATA-AATTTTTTGTTTC-----AAGTGAAA
* * * * * *
9879596 TGATCTTGAAGTTTATGTTTCGATGGAAATTGTCTCGAGTGAGAT
60 TAATCTTGAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGTAAGAT
* * * * * ** **
9879641 GAAATTTTGTTT-TAAGTGAAACAACCTCAAGTGAGATAGAA-ATTTTGTTTTGAGTGAAGCAAT
1 AAAAATTTGTTTCT-AGAGAAACAATCTCAAGTGAGATA-AATTTTTTGTTTCAAGTGAAATAAT
** * * * * *
9879704 CTCAAAGTTTTTGTTTCAAGGGAAACTATCTCAAATGAGA-
64 CTTGAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGTAAGAT
* * * * * * ** *
9879744 CAAAATTTATTTTTTGATAAACAATCTCAAGTGAGATAATATTTTTTTTCTTTTTGAGTGAAATG
1 AAAAATTTGTTTCTAGAGAAACAATCTCAAGTGAGATAA-A--TTTTTT-GTTTCAAGTGAAATA
* * * **
9879809 ATCTTGAAGTTTATGTTTCGAGGGAAACTATCTCGAGCGAGAT
62 ATCTTGAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGTAAGAT
* * * * * ** * **
9879852 GAAATTTTGTTTCAAGGGAAACAAACTCAAGTGAGATAAAAATTTTGTTTCGAGTGAAGCAATCT
1 AAAAATTTGTTTCTAGAGAAACAATCTCAAGTGAGATAAATTTTTTGTTTCAAGTGAAATAATCT
** ** * * *
9879917 CAAAGTTTGTGTTTCAAGGGAAACTAACTCAAATGAGAT
66 TGAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGTAAGAT
* *
9879956 -TAAATTTGTTTCTATAGAAACAATCTCAAGTGAGATAAGATTTT
1 AAAAATTTGTTTCTAGAGAAACAATCTCAAGTGAGATAA-ATTTT
9880000 CTCTCTCCAG
Statistics
Matches: 598, Mismatches: 151, Indels: 53
0.75 0.19 0.07
Matches are distributed among these distances:
100 2 0.00
101 82 0.14
102 38 0.06
103 94 0.16
104 160 0.27
105 11 0.02
106 55 0.09
107 87 0.15
108 39 0.07
109 30 0.05
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (104 bp):
AAAAATTTGTTTCTAGAGAAACAATCTCAAGTGAGATAAATTTTTTGTTTCAAGTGAAATAATCT
TGAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGTAAGAT
Found at i:9879674 original size:37 final size:38
Alignment explanation
Indices: 9879633--9879708 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
9879623 AATTGTCTCG
9879633 AGTGAGAT-GAAATTTTGTTTTAAGTGAAACAACCTCA
1 AGTGAGATAGAAATTTTGTTTTAAGTGAAACAACCTCA
* * *
9879670 AGTGAGATAGAAATTTTGTTTTGAGTGAAGCAATCTCA
1 AGTGAGATAGAAATTTTGTTTTAAGTGAAACAACCTCA
9879708 A
1 A
9879709 AGTTTTTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 8 0.23
38 27 0.77
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (38 bp):
AGTGAGATAGAAATTTTGTTTTAAGTGAAACAACCTCA
Found at i:9879759 original size:67 final size:65
Alignment explanation
Indices: 9879645--9879773 Score: 152
Period size: 67 Copynumber: 2.0 Consensus size: 65
9879635 TGAGATGAAA
* * * * *
9879645 TTTTGTTTTAAGTGAAACAACCTCAAGTGAGATAGAAATTTTGTTTTGAGTGAAGCAATCTCAAA
1 TTTTGTTTCAAGGGAAACAACCTCAAATGAGACAGAAATTTTGTTTTGA-T-AAACAATCTCAAA
9879710 GT
64 GT
* * *
9879712 TTTTGTTTCAAGGGAAACTATCTCAAATGAGACA-AAATTTATTTTTTGATAAACAATCTCAA
1 TTTTGTTTCAAGGGAAACAACCTCAAATGAGACAGAAATTT-TGTTTTGATAAACAATCTCAA
9879774 GTGAGATAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
65 11 0.21
66 7 0.13
67 35 0.66
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (65 bp):
TTTTGTTTCAAGGGAAACAACCTCAAATGAGACAGAAATTTTGTTTTGATAAACAATCTCAAAGT
Found at i:9879919 original size:38 final size:37
Alignment explanation
Indices: 9879822--9879919 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
9879812 TTGAAGTTTA
* * *
9879822 TGTTTCGAGGGAAACTATCTCGAGCGAGATGAAATTT
1 TGTTTCGAGGGAAACAATCTCAAGCGAGATAAAATTT
* * *
9879859 TGTTTCAAGGGAAACAAACTCAAGTGAGATAAAAATTT
1 TGTTTCGAGGGAAACAATCTCAAGCGAGAT-AAAATTT
* *
9879897 TGTTTCGAGTGAAGCAATCTCAA
1 TGTTTCGAGGGAAACAATCTCAA
9879920 AGTTTGTGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
37 25 0.50
38 25 0.50
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (37 bp):
TGTTTCGAGGGAAACAATCTCAAGCGAGATAAAATTT
Found at i:9879984 original size:65 final size:67
Alignment explanation
Indices: 9879859--9879984 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 67
9879849 GATGAAATTT
* *
9879859 TGTTTCAAGGGAAACAAACTCAAGTGAGATAAAAATTTTGTTTCGAGTGAAGCAATCTCAAAGTT
1 TGTTTCAAGGGAAACAAACTCAAATGAGATAAAAATTTTGTTTCGAGTGAAACAATCTCAAAGTT
9879924 TG
66 TG
* * *
9879926 TGTTTCAAGGGAAACTAACTCAAATGAGAT-TAAA-TTTGTTTCTA-TAGAAACAATCTCAA
1 TGTTTCAAGGGAAACAAACTCAAATGAGATAAAAATTTTGTTTCGAGT-GAAACAATCTCAA
9879985 GTGAGATAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
64 1 0.02
65 21 0.40
66 3 0.06
67 28 0.53
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (67 bp):
TGTTTCAAGGGAAACAAACTCAAATGAGATAAAAATTTTGTTTCGAGTGAAACAATCTCAAAGTT
TG
Found at i:9879993 original size:211 final size:211
Alignment explanation
Indices: 9879165--9879999 Score: 973
Period size: 211 Copynumber: 4.0 Consensus size: 211
9879155 AGATAAAATA
* * ** * *
9879165 TTTTATAGTGAAATGATCTTGATGTTTGTGTTTTTAGGGAAACTGTCTCGAGCAAGATAAAAATT
1 TTTTA-AGTGAAATGATCTTGAAGTTTATGTTTCGAGGGAAACTGTCTCGAGCAAGATGAAATTT
* * ** * * **
9879230 TGTTTCAAGAGAAATAACCTCAAGTGAGATAAATTTTTTGTTTCAAGTGAAGTAATCTTGAAGTT
65 TGTTTCAAGGGAAACAACCTCAAGTGAGATAAAAATTTTGTTTCGAGTGAAGCAATCTCAAAGTT
* * * * ** * *
9879295 TATGTTTCAAGGGGAACTGTCTCAAGTGAGACAAAAAATACTTCTAGAGAAAAAAATCTCAAGTG
130 TGTGTTTCAAGGGAAACTATCTCAAATGAGACAAAATTTATTTCTAGAG-AAACAATCTCAAGTG
*
9879360 ATATAAGA--TTTTTTCT
194 AGATAAGATTTTTTTTCT
* * * * * **
9879376 TTTTTAGTGAAATGATCTTGAAGTTTGTGTTTTGAGGGAAAATGTCTCGAGAAAGAT-AAA--AA
1 TTTTAAGTGAAATGATCTTGAAGTTTATGTTTCGAGGGAAACTGTCTCGAGCAAGATGAAATTTT
** * * * *** * *
9879438 AATTCTAGGGAAATAACCACAAGTGAGATAATTTTTTTGTTTCGAATGAAGCAATCTTAAAGTTT
66 GTTTCAAGGGAAACAACCTCAAGTGAGATAAAAATTTTGTTTCGAGTGAAGCAATCTCAAAGTTT
* * * * **
9879503 GTGTTTCAAGGGAAATTGTCTCGAATAAGACGGAATTT-TTTCTAGAGAAACAATCTCAAGTGAG
131 GTGTTTCAAGGGAAACTATCTCAAATGAGACAAAATTTATTTCTAGAGAAACAATCTCAAGTGAG
9879567 ATATA-ATTTTTTTTTCT
196 ATA-AGA-TTTTTTTTCT
* * **
9879584 TTTTAAGTGAAATGATCTTGAAGTTTATGTTTCGATGGAAATTGTCTCGAGTGAGATGAAATTTT
1 TTTTAAGTGAAATGATCTTGAAGTTTATGTTTCGAGGGAAACTGTCTCGAGCAAGATGAAATTTT
* * * *
9879649 GTTTTAAGTGAAACAACCTCAAGTGAGATAGAAATTTTGTTTTGAGTGAAGCAATCTCAAAGTTT
66 GTTTCAAGGGAAACAACCTCAAGTGAGATAAAAATTTTGTTTCGAGTGAAGCAATCTCAAAGTTT
* * * *
9879714 TTGTTTCAAGGGAAACTATCTCAAATGAGACAAAATTTATTTTTTGATAAACAATCTCAAGTGAG
131 GTGTTTCAAGGGAAACTATCTCAAATGAGACAAAATTTATTTCTAGAGAAACAATCTCAAGTGAG
*
9879779 ATAATATTTTTTTTCT
196 ATAAGATTTTTTTTCT
* * *
9879795 TTTTGAGTGAAATGATCTTGAAGTTTATGTTTCGAGGGAAACTATCTCGAGCGAGATGAAATTTT
1 TTTTAAGTGAAATGATCTTGAAGTTTATGTTTCGAGGGAAACTGTCTCGAGCAAGATGAAATTTT
*
9879860 GTTTCAAGGGAAACAAACTCAAGTGAGATAAAAATTTTGTTTCGAGTGAAGCAATCTCAAAGTTT
66 GTTTCAAGGGAAACAACCTCAAGTGAGATAAAAATTTTGTTTCGAGTGAAGCAATCTCAAAGTTT
* ** * *
9879925 GTGTTTCAAGGGAAACTAACTCAAATGAGATTAAATTTGTTTCTATAGAAACAATCTCAAGTGAG
131 GTGTTTCAAGGGAAACTATCTCAAATGAGACAAAATTTATTTCTAGAGAAACAATCTCAAGTGAG
9879990 ATAAGATTTT
196 ATAAGATTTT
9880000 CTCTCTCCAG
Statistics
Matches: 532, Mismatches: 83, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
205 19 0.04
206 9 0.02
207 83 0.16
208 58 0.11
209 6 0.01
210 48 0.09
211 282 0.53
212 27 0.05
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (211 bp):
TTTTAAGTGAAATGATCTTGAAGTTTATGTTTCGAGGGAAACTGTCTCGAGCAAGATGAAATTTT
GTTTCAAGGGAAACAACCTCAAGTGAGATAAAAATTTTGTTTCGAGTGAAGCAATCTCAAAGTTT
GTGTTTCAAGGGAAACTATCTCAAATGAGACAAAATTTATTTCTAGAGAAACAATCTCAAGTGAG
ATAAGATTTTTTTTCT
Found at i:9880140 original size:118 final size:120
Alignment explanation
Indices: 9879975--9880212 Score: 399
Period size: 118 Copynumber: 2.0 Consensus size: 120
9879965 TTCTATAGAA
*
9879975 ACAATCTCAAGTGAGATAAGATTTTCTCTCTCCAGAAAGATGTCAAATATGAAGAAAAACTTACT
1 ACAATCTCAAGTGAGATAAAATTTTCTCTCTCCAGAAAGATGTCAAATATGAAGAAAAACTTACT
*
9880040 CATTATAGTTTTGTTTGGATGATTTACTTCTTCTTTCTTATGACTGAACATTATG
66 CATTATAGTTTTGTTTGGAAGATTTACTTCTTCTTTCTTATGACTGAACATTATG
* * *
9880095 ACAATCTCAAGTGAGATAAAATTTT-T-TCTCCATAAAGATGTCAAATATTAAGAAAAACTTGCT
1 ACAATCTCAAGTGAGATAAAATTTTCTCTCTCCAGAAAGATGTCAAATATGAAGAAAAACTTACT
* *
9880158 CATTCTAGTTTTTTTTGGAAGATTTACTTCTTCTTTCTTATGACTGAACATTATG
66 CATTATAGTTTTGTTTGGAAGATTTACTTCTTCTTTCTTATGACTGAACATTATG
9880213 TCATTTCTTG
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
118 86 0.77
119 1 0.01
120 24 0.22
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (120 bp):
ACAATCTCAAGTGAGATAAAATTTTCTCTCTCCAGAAAGATGTCAAATATGAAGAAAAACTTACT
CATTATAGTTTTGTTTGGAAGATTTACTTCTTCTTTCTTATGACTGAACATTATG
Found at i:9892409 original size:13 final size:15
Alignment explanation
Indices: 9892379--9892411 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9892369 TAAATCTCAG
9892379 ATGACACACAATTGT
1 ATGACACACAATTGT
9892394 ATGACACAC-ATT-T
1 ATGACACACAATTGT
9892407 ATGAC
1 ATGAC
9892412 GCTTATTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 3 0.17
15 9 0.50
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (15 bp):
ATGACACACAATTGT
Found at i:9903948 original size:15 final size:16
Alignment explanation
Indices: 9903916--9903955 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
9903906 TCAGAGGATA
*
9903916 AAAAATGAAATATACC
1 AAAAATTAAATATACC
*
9903932 AAAAATTAAA-ATGCC
1 AAAAATTAAATATACC
9903947 AAAAATTAA
1 AAAAATTAA
9903956 GGACTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAAATTAAATATACC
Found at i:9904128 original size:65 final size:65
Alignment explanation
Indices: 9904024--9904155 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
9904014 AAAAACATAA
9904024 ATTAAAAGTTAGAGTTTTATTTTTACCTAGACTATAATAGCATGATTCATACCTATAGACATGTC
1 ATTAAAAGTTAGAGTTTTATTTTTACCTAGACTATAATAGCATGATTCATACCTATAGACATGTC
9904089 ATTAAAAGTTAGAGTTTTATTTTTACCTAGACTATAATAGCATGATTCATACCTATAGACATGTC
1 ATTAAAAGTTAGAGTTTTATTTTTACCTAGACTATAATAGCATGATTCATACCTATAGACATGTC
9904154 AT
1 AT
9904156 CACGAAGTCG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (65 bp):
ATTAAAAGTTAGAGTTTTATTTTTACCTAGACTATAATAGCATGATTCATACCTATAGACATGTC
Found at i:9911033 original size:17 final size:17
Alignment explanation
Indices: 9911008--9911062 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
9910998 AATTAAGAGT
*
9911008 TAGTCTAATAAATGAAC
1 TAGTTTAATAAATGAAC
*
9911025 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* * *
9911042 TAACTTTATTCAATGAAC
1 T-AGTTTAATAAATGAAC
9911060 TAG
1 TAG
9911063 ATGCATGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:9911056 original size:18 final size:18
Alignment explanation
Indices: 9911013--9911061 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
9911003 AGAGTTAGTC
* *
9911013 TAATAAATGAACT-AGTT
1 TAATTAATGAACTAACTT
9911030 TAATTAATGAACTAACTT
1 TAATTAATGAACTAACTT
9911048 T-ATTCAATGAACTA
1 TAATT-AATGAACTA
9911062 GATGCATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (18 bp):
TAATTAATGAACTAACTT
Found at i:9912417 original size:39 final size:38
Alignment explanation
Indices: 9912371--9912490 Score: 143
Period size: 39 Copynumber: 3.1 Consensus size: 38
9912361 TTAGGAAACA
*
9912371 ATTTTTAGTTTGCAGCTTGATTTTTCATATAGAAACTC-G
1 ATTTTTAGTTT-CAACTTGATTTTTCATATAGAAAC-CAG
* *
9912410 ATTTTTAGGTTTTAACTTGATTTTTCACATAGAAACCAG
1 ATTTTTA-GTTTCAACTTGATTTTTCATATAGAAACCAG
* * * *
9912449 ATTTTTGGTTTCAACATGATTTTTCATATGGAAACCAA
1 ATTTTTAGTTTCAACTTGATTTTTCATATAGAAACCAG
9912487 ATTT
1 ATTT
9912491 AGGATGCAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
38 31 0.44
39 35 0.50
40 4 0.06
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.45
Consensus pattern (38 bp):
ATTTTTAGTTTCAACTTGATTTTTCATATAGAAACCAG
Found at i:9928029 original size:12 final size:12
Alignment explanation
Indices: 9928012--9928036 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9928002 TATTTTGCTT
9928012 GAAGAAAAAGAA
1 GAAGAAAAAGAA
9928024 GAAGAAAAAGAA
1 GAAGAAAAAGAA
9928036 G
1 G
9928037 TGAAAAAATA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAAAAGAA
Found at i:9928054 original size:8 final size:8
Alignment explanation
Indices: 9928040--9928079 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
9928030 AAAGAAGTGA
9928040 AAAAATAAT
1 AAAAA-AAT
*
9928049 AAAATAAT
1 AAAAAAAT
9928057 AAAAAAAAT
1 -AAAAAAAT
9928066 AAAAAAAT
1 AAAAAAAT
9928074 AAAAAA
1 AAAAAA
9928080 TGAATGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 17 0.61
9 11 0.39
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAAAAT
Found at i:9928060 original size:28 final size:28
Alignment explanation
Indices: 9928027--9928101 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
9928017 AAAAGAAGAA
9928027 GAAAAAGAAGTGAAAAAATAATAAAAT-AAT
1 GAAAAA-AA-TGAAAAAATAA-AAAATGAAT
* *
9928057 AAAAAAAATAAAAAAATAAAAAATGAAT
1 GAAAAAAATGAAAAAATAAAAAATGAAT
9928085 GAAAAAAATGAAAAAAT
1 GAAAAAAATGAAAAAAT
9928102 GAGGGTTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 5 0.12
28 28 0.70
29 2 0.05
30 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (28 bp):
GAAAAAAATGAAAAAATAAAAAATGAAT
Found at i:9928062 original size:20 final size:19
Alignment explanation
Indices: 9928039--9928100 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
9928029 AAAAGAAGTG
*
9928039 AAAAAATAATAAAATAATAA
1 AAAAAATAAAAAAATAA-AA
9928059 AAAAAATAAAAAAATAAAA
1 AAAAAATAAAAAAATAAAA
**
9928078 AATGAATGAAAAAAATGAAAA
1 AAAAAAT-AAAAAAAT-AAAA
9928099 AA
1 AA
9928101 TGAGGGTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.19
20 24 0.65
21 6 0.16
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAAAATAAAAAAATAAAA
Found at i:9928066 original size:17 final size:18
Alignment explanation
Indices: 9928039--9928101 Score: 83
Period size: 17 Copynumber: 3.4 Consensus size: 18
9928029 AAAAGAAGTG
*
9928039 AAAAAATAATAAAATAAT
1 AAAAAATAATAAAAAAAT
9928057 AAAAAA-AATAAAAAAAT
1 AAAAAATAATAAAAAAAT
9928074 AAAAAATGAATGAAAAAAAT
1 AAAAAAT-AAT-AAAAAAAT
9928094 GAAAAAAT
1 -AAAAAAT
9928102 GAGGGTTCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 16 0.40
18 6 0.15
19 3 0.08
20 8 0.20
21 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAAATAATAAAAAAAT
Found at i:9929176 original size:55 final size:55
Alignment explanation
Indices: 9929087--9929835 Score: 1015
Period size: 55 Copynumber: 13.7 Consensus size: 55
9929077 AGGTTCCCCA
* * * *
9929087 CGATTGTTGAAGATTGTTCAAGTCTCATACTCTCTGAAGGAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
9929142 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGG-AGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
9929196 CGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGCGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* ** * *
9929251 TGATCGTTGAAGATTGTTTAAGTCTCATACTCTCTGAAGAAATAGGGGGCGGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
9929306 CGATCGTTGAAGATTGTTCAAGTCTTATACACTCTGAAGAAATAGGCGGG-AGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGG-GGGCAGACG
* * ** *
9929361 CGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGTGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * * *
9929416 TGATTGCTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGAGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
9929471 CGATCGTTGAATATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
9929526 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGAAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
9929581 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
9929634 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGACGAAATAGGGGGGAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
9929689 TGATTGATGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATGGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
9929742 TGATCATTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGAGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
9929797 CGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
9929836 GACTATGGAG
Statistics
Matches: 610, Mismatches: 77, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
53 91 0.15
54 58 0.10
55 458 0.75
56 3 0.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:9933418 original size:3 final size:3
Alignment explanation
Indices: 9933412--9933523 Score: 62
Period size: 3 Copynumber: 34.7 Consensus size: 3
9933402 GTCCGAATAA
* * * *
9933412 TAT TAT TAT TAC TAT TAAT TGT TAT TAG TAT TAAT TAT TAT TAAT AAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT T-AT TAT
* * * *
9933460 TAT TAT TAAG TAT TAT TAT TGCT TAC TAGT TAT TAAT TAT TAT TGT TAAT
1 TAT TAT T-AT TAT TAT TAT T-AT TAT TA-T TAT T-AT TAT TAT TAT T-AT
* *
9933510 AAT TGT TAT TAT TA
1 TAT TAT TAT TAT TA
9933524 ATCATTATAT
Statistics
Matches: 81, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
3 63 0.78
4 18 0.22
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:9933438 original size:16 final size:16
Alignment explanation
Indices: 9933413--9933531 Score: 77
Period size: 16 Copynumber: 7.5 Consensus size: 16
9933403 TCCGAATAAT
9933413 ATTATTATTACTATTA
1 ATTATTATTACTATTA
* *
9933429 ATTGTTATTAGTATTA
1 ATTATTATTACTATTA
9933445 ATTATTATTA--A-TA
1 ATTATTATTACTATTA
*
9933458 ATTATTATTAAGTATT-
1 ATTATTATT-ACTATTA
*
9933474 ATTATTGCTTACTAGTT-
1 ATTATT-ATTACTA-TTA
* *
9933491 ATTAATTATTATTGTTA
1 ATT-ATTATTACTATTA
* * *
9933508 ATAATTGTTATTATTA
1 ATTATTATTACTATTA
*
9933524 ATCATTAT
1 ATTATTAT
9933532 ATATAAAATA
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
13 11 0.13
14 2 0.02
16 52 0.63
17 14 0.17
18 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (16 bp):
ATTATTATTACTATTA
Found at i:9933478 original size:13 final size:13
Alignment explanation
Indices: 9933419--9933531 Score: 75
Period size: 13 Copynumber: 8.6 Consensus size: 13
9933409 TAATATTATT
* *
9933419 ATTACTATTAATT
1 ATTATTATTAATA
* * *
9933432 GTTATTAGTATTA
1 ATTATTATTAATA
9933445 ATTATTATTAATA
1 ATTATTATTAATA
9933458 ATTATTATTAAGT-
1 ATTATTATTAA-TA
** *
9933471 ATTATTATTGCTT
1 ATTATTATTAATA
* *
9933484 ACTAGTTATTAATT
1 ATTA-TTATTAATA
*
9933498 ATTATTGTTAATA
1 ATTATTATTAATA
* *
9933511 ATTGTTATTATTA
1 ATTATTATTAATA
*
9933524 ATCATTAT
1 ATTATTAT
9933532 ATATAAAATA
Statistics
Matches: 76, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
12 1 0.01
13 64 0.84
14 11 0.14
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (13 bp):
ATTATTATTAATA
Found at i:9946413 original size:30 final size:30
Alignment explanation
Indices: 9946379--9946480 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
9946369 TTTTCATTGG
* *
9946379 AAGTTTTATATTTGTTTGGTTAATCTCTGA
1 AAGTTTGATATTTGTTTGGTTGATCTCTGA
* * *
9946409 AAGTTTTATATCTGTTGGGTTGATCTCT-A
1 AAGTTTGATATTTGTTTGGTTGATCTCTGA
* *
9946438 GAAGTTTGATATTTGTTTGGTTGATCTTTGG
1 -AAGTTTGATATTTGTTTGGTTGATCTCTGA
9946469 AAGTTTGATATT
1 AAGTTTGATATT
9946481 CATTTGCCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.02
30 61 0.98
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.51
Consensus pattern (30 bp):
AAGTTTGATATTTGTTTGGTTGATCTCTGA
Found at i:9948197 original size:31 final size:31
Alignment explanation
Indices: 9948162--9948237 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
9948152 TCCAGGATAC
*
9948162 AGGGCATACGCAAG-AAGAATCTCAGGGCCGT
1 AGGGCATACCCAAGAAAG-ATCTCAGGGCCGT
*
9948193 AGGGCCTACCCAAGAAAGATCTCAGGGCCGT
1 AGGGCATACCCAAGAAAGATCTCAGGGCCGT
* *
9948224 AGAGCCTACCCAAG
1 AGGGCATACCCAAG
9948238 GGTCGCCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 38 0.93
32 3 0.07
ACGTcount: A:0.32, C:0.28, G:0.29, T:0.12
Consensus pattern (31 bp):
AGGGCATACCCAAGAAAGATCTCAGGGCCGT
Found at i:9952254 original size:23 final size:23
Alignment explanation
Indices: 9952228--9952276 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
9952218 TCTAAGCTCA
*
9952228 TTAAGAACTTTAGACCTATAAGT
1 TTAAGAAATTTAGACCTATAAGT
9952251 TTAAGAAATTTAGACCTATAAGT
1 TTAAGAAATTTAGACCTATAAGT
9952274 TTA
1 TTA
9952277 TGTATTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (23 bp):
TTAAGAAATTTAGACCTATAAGT
Found at i:9953957 original size:2 final size:2
Alignment explanation
Indices: 9953950--9953998 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
9953940 GTTATTAATT
9953950 TA TA TA 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
9953992 TA TA TA T
1 TA TA TA T
9953999 TAAATGCGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9960893 original size:20 final size:20
Alignment explanation
Indices: 9960864--9960902 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9960854 ATTCCACCAT
*
9960864 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
9960884 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
9960903 TATGAGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:9962525 original size:21 final size:21
Alignment explanation
Indices: 9962501--9962540 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9962491 TTTTCAAAGG
9962501 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
9962522 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
9962541 GAATAAGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:9962590 original size:19 final size:19
Alignment explanation
Indices: 9962554--9962621 Score: 104
Period size: 19 Copynumber: 3.6 Consensus size: 19
9962544 TAAGTTGAAA
9962554 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
*
9962572 CACCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
9962591 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
9962610 CATCGATGCACT
1 CATCGATGCACT
9962622 TTGATTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
17 5 0.11
18 5 0.11
19 36 0.78
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:9962702 original size:64 final size:63
Alignment explanation
Indices: 9962577--9962729 Score: 182
Period size: 64 Copynumber: 2.4 Consensus size: 63
9962567 CCATGCACCG
** ***
9962577 ATGCACTCTCCATGCATCGATGCACTCTCCATGCATCGATGCACTTTGATTTAATTAAAACATCG
1 ATGCACT-T-CATGCATCGATGCACAATCCATGCATCGATGCACCAGGATTT-ATTAAAACATCG
9962642 A
63 A
* * *
9962643 ATGCATTTGATGCATCGATGCACAATCCATGCATCGATGCACCAGGCTATTT-TTCAAACATCGA
1 ATGCACTTCATGCATCGATGCACAATCCATGCATCGATGCACCAGG--ATTTATTAAAACATCGA
9962707 ATGCACTTCATGCATCGATGCAC
1 ATGCACTTCATGCATCGATGCAC
9962730 TCTTAGTGCA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
64 64 0.85
65 1 0.01
66 10 0.13
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (63 bp):
ATGCACTTCATGCATCGATGCACAATCCATGCATCGATGCACCAGGATTTATTAAAACATCGA
Found at i:9962729 original size:17 final size:19
Alignment explanation
Indices: 9962701--9962749 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
9962691 ATTTTTCAAA
9962701 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
9962719 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
9962738 CACCGATGCACT
1 CATCGATGCACT
9962750 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:9968578 original size:24 final size:22
Alignment explanation
Indices: 9968551--9968630 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 22
9968541 CACTTAACAA
9968551 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
9968575 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
9968595 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
9968619 TGCATCGATGCA
1 TGCATCGATGCA
9968631 CAAGATCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
20 4 0.08
21 12 0.25
22 2 0.04
23 13 0.27
24 17 0.35
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:9972710 original size:90 final size:90
Alignment explanation
Indices: 9972554--9972720 Score: 280
Period size: 90 Copynumber: 1.9 Consensus size: 90
9972544 CCTAACACAC
** *
9972554 CCTTTTATAGCCAAGTTACCCTAATAATATTAGGTTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATAATATTAGGGATTTTATTATTTCAAATTAATTAAATATAT
9972619 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGGAATTTAATAAT
* * *
9972644 CCTTTTATATCCATGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATAT
1 CCTTTTATAGCCAAGTTACCCTAATAATATTAGGGATTTTATTATTTCAAATTAATTAAATATAT
9972709 ATTTAATTAATT
66 ATTTAATTAATT
9972721 AAAATTAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATAATATTAGGGATTTTATTATTTCAAATTAATTAAATATAT
ATTTAATTAATTGGAATTTAATAAT
Found at i:9979594 original size:90 final size:90
Alignment explanation
Indices: 9979441--9979606 Score: 287
Period size: 90 Copynumber: 1.8 Consensus size: 90
9979431 CTAACACACT
*
9979441 CTTTTATAGCCAAGATACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATA
1 CTTTTATAGCCAAGATACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
9979506 TTTAATTAATTGGAATTTAATAATC
66 TTTAATTAATTGGAATTTAATAATC
* * * *
9979531 CTTTTATATCCAAGTTTCCCTAATCATATTAGGGATTTTATTATTTGAAATTAATTAAATCTATA
1 CTTTTATAGCCAAGATACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
9979596 TTTAATTAATT
66 TTTAATTAATT
9979607 AAAATAAAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (90 bp):
CTTTTATAGCCAAGATACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGGAATTTAATAATC
Found at i:9980814 original size:35 final size:35
Alignment explanation
Indices: 9980775--9980872 Score: 90
Period size: 35 Copynumber: 2.8 Consensus size: 35
9980765 GATCGGTCTA
*
9980775 AACCTATATAAGGAATTACCAATTTGACCAAGT-TG
1 AACCTATATAAGGAATTACCAGTTTGA-CAAGTATG
* * * * ***
9980810 AACCTGTCGTAAGAAATTACCAGTTCGATTTGTATG
1 AACCTAT-ATAAGGAATTACCAGTTTGACAAGTATG
*
9980846 AACCTATAAAAGGAATTACCAGTTTGA
1 AACCTATATAAGGAATTACCAGTTTGA
9980873 TTGAACTGAA
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
35 24 0.50
36 24 0.50
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (35 bp):
AACCTATATAAGGAATTACCAGTTTGACAAGTATG
Found at i:10013886 original size:134 final size:135
Alignment explanation
Indices: 10013670--10014480 Score: 761
Period size: 134 Copynumber: 6.1 Consensus size: 135
10013660 CATTCTAGTT
** *
10013670 TTCTTCAGGGAAGATTAAATCGAGTCAGACTTGTTCCACTATTACTCAGGGAAGATCAAATC-TA
1 TTCTTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTA
* * * * *
10013734 GAAAAAGATAT-ATTTGTTCCACTACTTCTTGAGGAAAAATCAGATCT-GGAAACGTTGATTCAT
66 -AAAGAGA-ATGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGAACGTTGATTCAT
*
10013797 TCCACTG
129 TCCACTA
10013804 TTCTTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTA
1 TTCTTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTA
** * * *
10013869 AAAGAGAATGATATGTTCTGCTTCTTCTTGAGGGAAAATCAGATATGGGG-ACGTCGACTCATTC
66 AAAGAGAATGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGAACGTTGATTCATTC
* *
10013933 TATTA
131 CACTA
* * * * * *
10013938 TTCTTGAGGGAAAATTAAATC-ATGGTAGACTTCTTCCACTGTTACTCAAGGAAGATTAAATCTT
1 TTCTTCAGGGAAGATTAAATCGA-GGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTT
* * * *
10014002 GAATGAAAAATGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGGGG-ACGTTGATTCAT
65 AAAAG-AGAATGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGAACGTTGATTCAT
*
10014066 TCCACTG
129 TCCACTA
* * * * * * **
10014073 TTCCTCAAGGAAAATTGAATCGAGGCACACTTGTTCCACTGTTACTCAATGAAGATCAAATCTTG
1 TTCTTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTT-
* * * * * * * *
10014138 AAAA-A-AAGGGATCTGCTCCACTCCTTCATGAGGGAAAATCATATATGGGGAA-ATTGATTCAT
65 AAAAGAGAA-TGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGAACGTTGATTCAT
10014200 TCCACTA
129 TCCACTA
* * * * * *
10014207 TTCTTTAGGGAATATTGAATTGAGGAAGACTTGTT---C----A---AGGGAAAATTAAATCTTA
1 TTCTTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTA
* * * * ** *
10014262 AAAGAAAAGGATATGTTCCATTTCTTCTTAAGGGAAAATCAGATCTGGGGATGGTT-ATTCATTT
66 AAAGAGAATGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGAACGTTGATTCATTC
*
10014326 TACTA
131 CACTA
* * * * * *
10014331 TTCTTCAGGGAAGATTGAATTGAGGTAGACTTGTTCAACTGTTACTCAGGAAAGATCAAATCTTG
1 TTCTTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTA
* * *
10014396 AAAGAG-ATGGATATATT-CACCTAT-TTCTTAAGGGAAAATCAGATCTAGGG-ACGTTGATTCA
66 AAAGAGAAT-GATATGTTCCA-CT-TCTTCTTGAGGGAAAATCAGATCTGGGGAACGTTGATTCA
*
10014457 TTCCACCA
128 TTCCACTA
*
10014465 TTTTTCAGGGAAGATT
1 TTCTTCAGGGAAGATT
10014481 GAATTGAGTT
Statistics
Matches: 557, Mismatches: 94, Indels: 52
0.79 0.13 0.07
Matches are distributed among these distances:
123 4 0.01
124 92 0.17
125 4 0.01
127 2 0.00
131 2 0.00
133 11 0.02
134 323 0.58
135 116 0.21
136 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (135 bp):
TTCTTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTA
AAAGAGAATGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGAACGTTGATTCATTC
CACTA
Found at i:10014134 original size:269 final size:267
Alignment explanation
Indices: 10013656--10014459 Score: 770
Period size: 269 Copynumber: 3.0 Consensus size: 267
10013646 GAGAAACATG
* * * *
10013656 GACTCATTCTAGTT-TTCTTCAGGGAAGATTAAATC-GAGTCAGACTTGTTCCACTATTACTCAG
1 GACTCATTCTA-TTATTCTTCAGGGAAAATTAAATCAG-GT-AGACTTCTTCCACTGTTACTCAA
* * * * *
10013719 GGAAGATCAAATCTAGAA-AAAGATAT-ATTTGTTCCACTACTTCTTGAGGAAAAATCAGATCTG
63 GGAAGATTAAATCTTGAAGAAA-A-ATGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTG
** *
10013782 GAAACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTAAATCGAGGAAGACTTGTTCCACTGTT
126 GGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTT
* **
10013847 ACTCAGGGAAGATCAAATCTTAAAAGAGAATGATATGTTCTGCTTCTTCTTGAGGGAAAATCAGA
191 ACTCAAGGAAGATCAAATCTTAAAAGAGAATGATATGTTCAACTTCTTCTTGAGGGAAAATCAGA
*
10013912 TATGGGGACGTC
256 TATGGGGACGTT
*
10013924 GACTCATTCTATTATTCTTGAGGGAAAATTAAATCATGGTAGACTTCTTCCACTGTTACTCAAGG
1 GACTCATTCTATTATTCTTCAGGGAAAATTAAATCA-GGTAGACTTCTTCCACTGTTACTCAAGG
*
10013989 AAGATTAAATCTTGAATGAAAAATGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGGGG
65 AAGATTAAATCTTGAA-GAAAAATGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGG
* * * * *
10014054 ACGTTGATTCATTCCACTGTTCCTCAAGGAAAATTGAATCGAGGCACACTTGTTCCACTGTTACT
129 ACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACT
* * * * * * * *
10014119 CAATGAAGATCAAATCTTGAAAA-A-AAGGGATCTGCTCCACTCCTTCATGAGGGAAAATCATAT
194 CAAGGAAGATCAAATCTT-AAAAGAGAA-TGATATGTTCAACTTCTTCTTGAGGGAAAATCAGAT
**
10014182 ATGGGGAAATT
257 ATGGGGACGTT
* * * * * * * *
10014193 GATTCATTCCACTATTCTTTAGGGAATATTGAATTGAGGAAGA---C-T----TG-T--TCAAGG
1 GACTCATTCTATTATTCTTCAGGGAAAATT-AAATCAGGTAGACTTCTTCCACTGTTACTCAA-G
* * * * *
10014247 GAAAATTAAATCTT-AAAAGAAAAGGATATGTTCCATTTCTTCTTAAGGGAAAATCAGATCTGGG
64 GAAGATTAAATCTTGAAGA-AAAATGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGG
* ** * * * *
10014311 GATGGTT-ATTCATTTTACTATTCTTCAGGGAAGATTGAATTGAGGTAGACTTGTTCAACTGTTA
128 GA-CGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTA
* * * *
10014375 CTC-AGGAAAGATCAAATCTTGAAAGAG-ATGGATATATTCACCTAT-TTCTTAAGGGAAAATCA
192 CTCAAGG-AAGATCAAATCTTAAAAGAGAAT-GATATGTTCAACT-TCTTCTTGAGGGAAAATCA
* *
10014437 GATCTAGGGACGTT
254 GATATGGGGACGTT
*
10014451 GATTCATTC
1 GACTCATTC
10014460 CACCATTTTT
Statistics
Matches: 446, Mismatches: 73, Indels: 44
0.79 0.13 0.08
Matches are distributed among these distances:
257 6 0.01
258 155 0.35
259 17 0.04
260 1 0.00
261 2 0.00
265 1 0.00
266 1 0.00
267 2 0.00
268 70 0.16
269 179 0.40
270 12 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (267 bp):
GACTCATTCTATTATTCTTCAGGGAAAATTAAATCAGGTAGACTTCTTCCACTGTTACTCAAGGA
AGATTAAATCTTGAAGAAAAATGATATGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGAC
GTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCA
AGGAAGATCAAATCTTAAAAGAGAATGATATGTTCAACTTCTTCTTGAGGGAAAATCAGATATGG
GGACGTT
Found at i:10014432 original size:258 final size:260
Alignment explanation
Indices: 10013748--10014488 Score: 764
Period size: 258 Copynumber: 2.8 Consensus size: 260
10013738 AAGATATATT
* * **
10013748 TGTTCCACTACTTCTTGAGGAAAAATCAGATCTGGAAACGTTGATTCATTCCACTGTTCTTCAGG
1 TGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGTTCTTCAGG
* *
10013813 GAAGATTAAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTAAAAGAGAAT
66 GAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCA-GGAAGATCAAATCTTGAAAGAG-AT
* * * * *
10013878 -GATATGTTCTGCTTCTTCTTGAGGGAAAATCAGATATGGGGACGTCGACTCATTCTATTATTCT
129 GGATATGTTC-CCTT-TTCTTGAGGGAAAATCAGATATGGGGACGTTGATTCATTCCACTATTCT
* * * * * * *
10013942 TGAGGGAAAATT-AAATCATGGTAGACTTCTTCCACTGTTACTCAAGGAAGATTAAATCTTGAAT
192 TTAGGGAAAATTGAATTGA-GGAAGA--TCTT---CTGTTA-TCAAGGAAAATTAAATCTTAAAA
*
10014006 GAAAAATGATA
250 GAAAAAGGATA
* * *
10014017 TGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGTTCCTCAAG
1 TGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGTTCTTCAGG
* * * * * * *
10014082 GAAAATTGAATCGAGGCACACTTGTTCCACTGTTACTCAATGAAGATCAAATCTTGAAAAAAAGG
66 GAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTC-AGGAAGATCAAATCTTGAAAGAGATG
* * * * * **
10014147 GATCTGCTCCACTCCTTCATGAGGGAAAATCATATATGGGGAAATTGATTCATTCCACTATTCTT
130 GATATGTTCC-CT-TTTCTTGAGGGAAAATCAGATATGGGGACGTTGATTCATTCCACTATTCTT
*
10014212 TAGGGAATATTGAATTGAGGAAGA-C-T-TG-T-TCAAGGGAAAATTAAATCTTAAAAG-AAAAG
193 TAGGGAAAATTGAATTGAGGAAGATCTTCTGTTATCAA-GGAAAATTAAATCTTAAAAGAAAAAG
10014271 GATA
257 GATA
* * * ** *
10014275 TGTTCCATTTCTTCTTAAGGGAAAATCAGATCTGGGGATGGTT-ATTCATTTTACTATTCTTCAG
1 TGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGA-CGTTGATTCATTCCACTGTTCTTCAG
* * *
10014339 GGAAGATTGAATTGAGGTAGACTTGTTCAACTGTTACTCAGGAAAGATCAAATCTTGAAAGAGAT
65 GGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCAGG-AAGATCAAATCTTGAAAGAGAT
* * * * *
10014404 GGATATATTCACCTATTTCTTAAGGGAAAATCAGATCTAGGGACGTTGATTCATTCCACCATT-T
129 GGATATGTTC-CCT-TTTCTTGAGGGAAAATCAGATATGGGGACGTTGATTCATTCCACTATTCT
*
10014468 TTCAGGGAAGATTGAATTGAG
192 TT-AGGGAAAATTGAATTGAG
10014489 TTTGATTCAT
Statistics
Matches: 393, Mismatches: 69, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
257 5 0.01
258 181 0.46
259 21 0.05
260 1 0.00
261 2 0.01
265 1 0.00
266 1 0.00
268 1 0.00
269 175 0.45
270 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (260 bp):
TGTTCCACTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGTTCTTCAGG
GAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCAGGAAGATCAAATCTTGAAAGAGATGG
ATATGTTCCCTTTTCTTGAGGGAAAATCAGATATGGGGACGTTGATTCATTCCACTATTCTTTAG
GGAAAATTGAATTGAGGAAGATCTTCTGTTATCAAGGAAAATTAAATCTTAAAAGAAAAAGGATA
Found at i:10015636 original size:11 final size:11
Alignment explanation
Indices: 10015616--10015667 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
10015606 CCCTTTTCTA
10015616 TTTTTT-TCTT
1 TTTTTTCTCTT
10015626 TTTTTTCTCTT
1 TTTTTTCTCTT
* *
10015637 TCTTTTCTTTT
1 TTTTTTCTCTT
10015648 CTTTTTTCT-TT
1 -TTTTTTCTCTT
10015659 TCTTTTTCT
1 T-TTTTTCT
10015668 TATTTTCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 7 0.19
11 22 0.61
12 7 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:10015643 original size:5 final size:5
Alignment explanation
Indices: 10015608--10015664 Score: 64
Period size: 5 Copynumber: 11.0 Consensus size: 5
10015598 CTTAAACCCC
10015608 CTTTT CTATTT -TTTT CTTTT -TTTT CTCTTT CTTTT CTTTT CTTTTTT
1 CTTTT CT-TTT CTTTT CTTTT CTTTT CT-TTT CTTTT CTTTT C--TTTT
10015655 CTTTT CTTTT
1 CTTTT CTTTT
10015665 TCTTATTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
4 7 0.15
5 26 0.57
6 8 0.17
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (5 bp):
CTTTT
Found at i:10015754 original size:23 final size:23
Alignment explanation
Indices: 10015715--10015771 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
10015705 TTTCATTTTC
*
10015715 TTTCTTTCTTTGTTTTTTTCCTT
1 TTTCTTTCTTTCTTTTTTTCCTT
* *
10015738 TTTCTTTGTTTCTTTTTTTCTTT
1 TTTCTTTCTTTCTTTTTTTCCTT
*
10015761 TTTCATTCTTT
1 TTTCTTTCTTT
10015772 AGACGAAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.79
Consensus pattern (23 bp):
TTTCTTTCTTTCTTTTTTTCCTT
Found at i:10015769 original size:27 final size:27
Alignment explanation
Indices: 10015694--10015771 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 27
10015684 TATTTTGATT
10015694 TTTGTTTTTTTTTTCATTTTCTTTCTTTC
1 TTTGTTTTTTTTTTCA--TTCTTTCTTTC
*
10015723 TTTGTTTTTTTCCTTT--TTCTTTGTTTC
1 TTTGTTTTTTT--TTTCATTCTTTCTTTC
10015750 TTT-TTTTCTTTTTTCATTCTTT
1 TTTGTTTT-TTTTTTCATTCTTT
10015772 AGACGAAGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
25 3 0.07
26 4 0.09
27 22 0.51
29 11 0.26
31 3 0.07
ACGTcount: A:0.03, C:0.14, G:0.04, T:0.79
Consensus pattern (27 bp):
TTTGTTTTTTTTTTCATTCTTTCTTTC
Found at i:10022715 original size:17 final size:16
Alignment explanation
Indices: 10022689--10022723 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
10022679 GCGAAAAGTA
*
10022689 AATGAAATGTAGATGC
1 AATGAAATGTAAATGC
10022705 AATGTAAATGTAAATGC
1 AATG-AAATGTAAATGC
10022722 AA
1 AA
10022724 GATGTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (16 bp):
AATGAAATGTAAATGC
Found at i:10046268 original size:7 final size:7
Alignment explanation
Indices: 10046253--10046282 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
10046243 TAATTTATTT
*
10046253 AAATTTA
1 AAATATA
10046260 AAATATA
1 AAATATA
10046267 AAATATA
1 AAATATA
10046274 AAATATA
1 AAATATA
10046281 AA
1 AA
10046283 CAATTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATATA
Found at i:10064695 original size:23 final size:23
Alignment explanation
Indices: 10064669--10064714 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
10064659 GCAATTAATT
10064669 TTTAC-CTTAGCA-ATTTTTACTTG
1 TTTACTCTTA-CATATTTTT-CTTG
10064692 TTTACTCTTACATATTTTTCTTG
1 TTTACTCTTACATATTTTTCTTG
10064715 CCACGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (23 bp):
TTTACTCTTACATATTTTTCTTG
Found at i:10066174 original size:21 final size:20
Alignment explanation
Indices: 10066137--10066175 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10066127 TACCGAAGTC
*
10066137 ATAAAAAATCAATTAACAAA
1 ATAAAAAATCAAGTAACAAA
*
10066157 ATAAAACATTCAAGTAACA
1 ATAAAA-AATCAAGTAACA
10066176 TATCCAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.13, G:0.03, T:0.21
Consensus pattern (20 bp):
ATAAAAAATCAAGTAACAAA
Found at i:10067445 original size:23 final size:23
Alignment explanation
Indices: 10067419--10067469 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
10067409 AGTTTGAGAC
*
10067419 AAAAAAGATGTTTGA-AAGATATT
1 AAAAAAGATGTTTAATAAGA-ATT
* *
10067442 AAAAATGATTTTTAATAAGAATT
1 AAAAAAGATGTTTAATAAGAATT
10067465 AAAAA
1 AAAAA
10067470 CAAATTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (23 bp):
AAAAAAGATGTTTAATAAGAATT
Found at i:10068019 original size:50 final size:50
Alignment explanation
Indices: 10067947--10068041 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
10067937 TTTCCTAAAG
* * *
10067947 GGATCGATCCTTTTTGCGAAGGGGTCGATCATTTTTCTGGAAAATAAAAA
1 GGATCGATCCTTTTTGCAAAGGGATCGATCATTTTTCTAGAAAATAAAAA
*
10067997 GGATCGATCCTTTTAT-CAAAGGGATTGATCATTTTTCTAGAAAAT
1 GGATCGATCCTTTT-TGCAAAGGGATCGATCATTTTTCTAGAAAAT
10068042 TGTATTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 39 0.98
51 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (50 bp):
GGATCGATCCTTTTTGCAAAGGGATCGATCATTTTTCTAGAAAATAAAAA
Found at i:10084824 original size:104 final size:104
Alignment explanation
Indices: 10084677--10084885 Score: 400
Period size: 104 Copynumber: 2.0 Consensus size: 104
10084667 AAATGGGGTG
*
10084677 TTACACATATCATTATCGAATAATATTTAATTGATTATATAAATAATTTTATTATAATTTTTTCA
1 TTACACATATCATTATCGAATAATATTTAATTGATGATATAAATAATTTTATTATAATTTTTTCA
10084742 AACATTTTTTATTATAAATTATAACAATATATATATATA
66 AACATTTTTTATTATAAATTATAACAATATATATATATA
*
10084781 TTACACATATCATTATCGAATAATGTTTAATTGATGATATAAATAATTTTATTATAATTTTTTCA
1 TTACACATATCATTATCGAATAATATTTAATTGATGATATAAATAATTTTATTATAATTTTTTCA
10084846 AACATTTTTTATTATAAATTATAACAATATATATATATA
66 AACATTTTTTATTATAAATTATAACAATATATATATATA
10084885 T
1 T
10084886 ATATATATAT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (104 bp):
TTACACATATCATTATCGAATAATATTTAATTGATGATATAAATAATTTTATTATAATTTTTTCA
AACATTTTTTATTATAAATTATAACAATATATATATATA
Found at i:10084879 original size:2 final size:2
Alignment explanation
Indices: 10084872--10084907 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10084862 AATTATAACA
10084872 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10084908 CATGATAGGA
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):
AT
Found at i:10085416 original size:15 final size:15
Alignment explanation
Indices: 10085379--10085408 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10085369 TTGAGACCTT
*
10085379 ACCCGCCCCGTATCC
1 ACCCGCCCCGCATCC
10085394 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
10085409 GCCTGCCCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.63, G:0.13, T:0.10
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:10094537 original size:57 final size:57
Alignment explanation
Indices: 10094473--10094590 Score: 184
Period size: 57 Copynumber: 2.1 Consensus size: 57
10094463 ACGACACACG
*
10094473 AATGTGTGTCATTTTCATTTATGACT-GGGGCTTCAATAACACGCAATGTAAGTCACA
1 AATGTGTGTCATCTTCATTTATGA-TGGGGGCTTCAATAACACGCAATGTAAGTCACA
* * *
10094530 AATGTGTGTCATCTTCATTTATGATGGGGGCTTCAATGACGCGCAATGTAAGTCATA
1 AATGTGTGTCATCTTCATTTATGATGGGGGCTTCAATAACACGCAATGTAAGTCACA
10094587 AATG
1 AATG
10094591 CGCATCATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
56 1 0.02
57 55 0.98
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (57 bp):
AATGTGTGTCATCTTCATTTATGATGGGGGCTTCAATAACACGCAATGTAAGTCACA
Found at i:10094598 original size:13 final size:13
Alignment explanation
Indices: 10094582--10094615 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10094572 GCAATGTAAG
10094582 TCATAAATGCGCA
1 TCATAAATGCGCA
*
10094595 TCATAAATGTGCA
1 TCATAAATGCGCA
10094608 TCATAAAT
1 TCATAAAT
10094616 TTATGACGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (13 bp):
TCATAAATGCGCA
Found at i:10095631 original size:18 final size:19
Alignment explanation
Indices: 10095608--10095655 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
10095598 TGACGAATCC
10095608 TTATAAAATA-TAATTATT
1 TTATAAAATAGTAATTATT
10095626 TTATAAAATTAAGTAATTATT
1 TTATAAAA-T-AGTAATTATT
10095647 TT-TAAAATA
1 TTATAAAATA
10095656 ACAAAATTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.33
19 2 0.07
20 6 0.22
21 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTATAAAATAGTAATTATT
Found at i:10097661 original size:15 final size:16
Alignment explanation
Indices: 10097624--10097665 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
10097614 AATTAAGTAG
10097624 TTTTT-AAATATATAT
1 TTTTTGAAATATATAT
* *
10097639 TTTATGAAATGTA-AT
1 TTTTTGAAATATATAT
10097654 TTTTTGAAATAT
1 TTTTTGAAATAT
10097666 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (16 bp):
TTTTTGAAATATATAT
Found at i:10098308 original size:16 final size:16
Alignment explanation
Indices: 10098283--10098316 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10098273 GGTATTACCC
10098283 GACCTATTTTCAACCT
1 GACCTATTTTCAACCT
* *
10098299 GACCTGTTTTTAACCT
1 GACCTATTTTCAACCT
10098315 GA
1 GA
10098317 TATGTAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (16 bp):
GACCTATTTTCAACCT
Found at i:10098656 original size:23 final size:24
Alignment explanation
Indices: 10098612--10098665 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
10098602 CAATGATTAA
* *
10098612 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATTAATAAAGTTTAATAT
10098636 ATGTAAATT-ATAAAGTTTAATAT
1 ATGTAAATTAATAAAGTTTAATAT
10098659 ATGTAAA
1 ATGTAAA
10098666 GAAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.44
Consensus pattern (24 bp):
ATGTAAATTAATAAAGTTTAATAT
Found at i:10102175 original size:114 final size:115
Alignment explanation
Indices: 10101930--10102208 Score: 481
Period size: 114 Copynumber: 2.4 Consensus size: 115
10101920 TTTGAACACA
* *
10101930 AAGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTATTAACTTTTTGCACACGAAGTGCC
1 AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTGCACACGAAGTGCC
*
10101995 CAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACATACG
65 CAATACAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACATACG
* *
10102046 AAGTGCCCAAAACGGAAATTCATACACTTATTATGAATTTCTTAACTTTTGCACACGAAGTGCCC
1 AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCCC
*
10102111 AATACAGAAATTCATACAC-TAGTATGAATTTCTTAACTTTTTACATATG
66 AATACAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACATACG
10102160 AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTC-TAACTTTT
1 AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTT
10102209 TGCAGACTTA
Statistics
Matches: 155, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
113 8 0.05
114 68 0.44
115 37 0.24
116 42 0.27
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (115 bp):
AAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCCC
AATACAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTACATACG
Found at i:10102243 original size:57 final size:58
Alignment explanation
Indices: 10101915--10102212 Score: 467
Period size: 58 Copynumber: 5.2 Consensus size: 58
10101905 ACCATATCTC
* * * *
10101915 AACTTTTTGAACACAAAGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTATT
1 AACTTTTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTT
10101973 AACTTTTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTT
1 AACTTTTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTT
* * * *
10102031 AACTTTTTACATACGAAGTGCCCAAAACGGAAATTCATACACTTATTATGAATTTCTT
1 AACTTTTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTT
*
10102089 AAC-TTTTGCACACGAAGTGCCCAATACAGAAATTCATACAC-TAGTATGAATTTCTT
1 AACTTTTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTT
* * *
10102145 AACTTTTTACATATGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTC-T
1 AACTTTTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTT
10102202 AACTTTTTGCA
1 AACTTTTTGCA
10102213 GACTTAGTGC
Statistics
Matches: 220, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
56 17 0.08
57 79 0.36
58 124 0.56
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (58 bp):
AACTTTTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTT
Found at i:10102596 original size:22 final size:19
Alignment explanation
Indices: 10102546--10102613 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 19
10102536 TGGCTCTTCA
10102546 GTATCGATACCCCTA-TCATG
1 GTATCGATA-CCCTACT-ATG
10102566 GTATCGATACTACCATACTATG
1 GTATCGATAC--CC-TACTATG
10102588 GTA-CTGATACCCTACTATG
1 GTATC-GATACCCTACTATG
10102607 GTATCGA
1 GTATCGA
10102614 CACCATTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
19 13 0.31
20 12 0.29
21 3 0.07
22 13 0.31
23 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (19 bp):
GTATCGATACCCTACTATG
Found at i:10108879 original size:173 final size:173
Alignment explanation
Indices: 10108584--10108928 Score: 591
Period size: 173 Copynumber: 2.0 Consensus size: 173
10108574 CAAATGTTTG
* * *
10108584 CACACAAAGTGCCCAATATAGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGC
1 CACACAAAGTGCCCAATACAGAAATTCATACACTTAGTATGAATTTATTAACTTTTTGCACACGA
**
10108649 GGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCC
66 AATGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCC
*
10108714 AATACGGAAATTCATACACTTAGTATGAATTTTTTAACTTTTA
131 AATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTA
* * *
10108757 CACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTATTAACTTTTTGCGCACGA
1 CACACAAAGTGCCCAATACAGAAATTCATACACTTAGTATGAATTTATTAACTTTTTGCACACGA
*
10108822 AATGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCC
66 AATGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCC
*
10108887 AATACGGAAATTTATACACTTAGTATGAATTTCTTAACTTTT
131 AATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTT
10108929 TGCAAACTTA
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
173 161 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (173 bp):
CACACAAAGTGCCCAATACAGAAATTCATACACTTAGTATGAATTTATTAACTTTTTGCACACGA
AATGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCC
AATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTA
Found at i:10108963 original size:58 final size:58
Alignment explanation
Indices: 10108580--10108932 Score: 591
Period size: 58 Copynumber: 6.1 Consensus size: 58
10108570 ATCTCAAATG
* **
10108580 TTTGCACACAAAGTGCCCAATATAGAAATTCATACACTTAGTATGAATTTCTTAACTT
1 TTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTT
** *
10108638 TTTGCACACGCGGTGCCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACTT
1 TTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTT
*
10108696 TTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTTTTAAC-T
1 TTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTT
* *
10108753 TTTACACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTATTAACTT
1 TTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTT
* *
10108811 TTTGCGCACGAAATGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTT
1 TTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTT
*
10108869 TTTGCACACGAAGTGCCCAATACGGAAATTTATACACTTAGTATGAATTTCTTAACTT
1 TTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTT
10108927 TTTGCA
1 TTTGCA
10108933 AACTTAGTGC
Statistics
Matches: 275, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
57 55 0.20
58 220 0.80
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (58 bp):
TTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACTT
Found at i:10109345 original size:20 final size:20
Alignment explanation
Indices: 10109322--10109359 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10109312 TCGATACCTT
*
10109322 CCCTTTGGTATCGATACTCC
1 CCCTTAGGTATCGATACTCC
*
10109342 CCCTTAGGTATCGGTACT
1 CCCTTAGGTATCGATACT
10109360 GATTGAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.34
Consensus pattern (20 bp):
CCCTTAGGTATCGATACTCC
Found at i:10111327 original size:28 final size:29
Alignment explanation
Indices: 10111296--10111368 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
10111286 CATCCCTATA
10111296 TAAT-TTATATTAATAAACTAT-TTATAAT
1 TAATATTATATTAATAAA-TATATTATAAT
*
10111324 TAATATTA-ATATAAT-TATATATTATAAT
1 TAATATTATAT-TAATAAATATATTATAAT
10111352 TAATATTAATATTAATA
1 TAATATT-ATATTAATA
10111369 TTAACTTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 3 0.08
28 21 0.55
29 12 0.32
30 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TAATATTATATTAATAAATATATTATAAT
Found at i:10111333 original size:6 final size:6
Alignment explanation
Indices: 10111322--10111385 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
10111312 ACTATTTATA
10111322 ATTAAT ATTAAT A-T-A- ATTATAT ATT-AT AATTAAT ATTAAT ATTAAT
1 ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT
*
10111368 ATTAA- CTT-AT ATTAAT AT
1 ATTAAT ATTAAT ATTAAT AT
10111386 AAAATATAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
3 1 0.02
4 3 0.06
5 7 0.15
6 32 0.67
7 5 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTAAT
Found at i:10111347 original size:16 final size:16
Alignment explanation
Indices: 10111318--10111441 Score: 59
Period size: 16 Copynumber: 7.8 Consensus size: 16
10111308 ATAAACTATT
10111318 TATAATTA-ATATTAA
1 TATAATTATATATTAA
10111333 TATAATTATATATT-A
1 TATAATTATATATTAA
10111348 TAATTAA-TATTAATATTAA
1 T-A-TAATTA-T-ATATTAA
*
10111367 TATTAACT-TATATTAA
1 TA-TAATTATATATTAA
*
10111383 TATAA-AATATAGTCT-A
1 TATAATTATATA-T-TAA
*
10111399 TAAAAATTA-ATATTAA
1 T-ATAATTATATATTAA
* *
10111415 TATAAACTATAT-TTTA
1 TAT-AATTATATATTAA
10111431 TA-AATTATATA
1 TATAATTATATA
10111442 GAGTAGTTTA
Statistics
Matches: 86, Mismatches: 7, Indels: 32
0.69 0.06 0.26
Matches are distributed among these distances:
14 7 0.08
15 19 0.22
16 32 0.37
17 14 0.16
18 11 0.13
19 3 0.03
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (16 bp):
TATAATTATATATTAA
Found at i:10111381 original size:28 final size:28
Alignment explanation
Indices: 10111294--10111433 Score: 95
Period size: 24 Copynumber: 5.2 Consensus size: 28
10111284 TTCATCCCTA
* *
10111294 TATAATTTATATTAATA-AA--CTAT-T
1 TATAATTAATATTAATATAATTATATAT
10111318 TATAATTAATATTAATATAATTATATAT
1 TATAATTAATATTAATATAATTATATAT
10111346 TATAATTAATATT-A-AT-ATTA-ATAT
1 TATAATTAATATTAATATAATTATATAT
* *
10111370 TA-ACTT-ATATTAATATAA-AATATAGT
1 TATAATTAATATTAATATAATTATATA-T
* *
10111396 CTATAAAAATTAATATTAATATAAACTATATTT
1 -TAT---AATTAATATTAATAT-AATTATATAT
10111429 TATAA
1 TATAA
10111434 ATTATATAGA
Statistics
Matches: 92, Mismatches: 7, Indels: 29
0.72 0.05 0.23
Matches are distributed among these distances:
22 5 0.05
23 4 0.04
24 25 0.27
25 10 0.11
26 3 0.03
27 6 0.07
28 14 0.15
29 2 0.02
31 3 0.03
32 13 0.14
33 3 0.03
34 4 0.04
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (28 bp):
TATAATTAATATTAATATAATTATATAT
Found at i:10111536 original size:65 final size:63
Alignment explanation
Indices: 10111375--10111549 Score: 174
Period size: 65 Copynumber: 2.7 Consensus size: 63
10111365 AATATTAACT
* ** *
10111375 TATATTAATATAAAATATAGTCTATAAAAATTAATATTAATATAAACTATATTTTATAAATTATA
1 TATATTAATATAAAATATAGT-TA-AATAATTAATATTAATAT--ACTATAGCTTATAAACTATA
10111440 TA
62 TA
* * *
10111442 GAGTAGTT--TATAAACTATAGTTAATATAATTAATATTAATATAGTATAGCTTATAAACTATAT
1 TA-TA-TTAATATAAAATATAGTTAA-ATAATTAATATTAATATACTATAGCTTATAAACTATAT
10111505 A
63 A
* *
10111506 CTATATTAATATAAATTATAGTTAAGATAATTAACATTAATATA
1 -TATATTAATATAAAATATAGTTAA-ATAATTAATATTAATATA
10111550 AACTATATAG
Statistics
Matches: 91, Mismatches: 11, Indels: 14
0.78 0.09 0.12
Matches are distributed among these distances:
63 2 0.02
64 20 0.22
65 34 0.37
66 18 0.20
67 13 0.14
68 2 0.02
69 2 0.02
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (63 bp):
TATATTAATATAAAATATAGTTAAATAATTAATATTAATATACTATAGCTTATAAACTATATA
Found at i:10111564 original size:22 final size:22
Alignment explanation
Indices: 10111539--10111641 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
10111529 AAGATAATTA
10111539 ACATTAATATAAACTATATAGT
1 ACATTAATATAAACTATATAGT
10111561 ACATTAATATAAAC--TATAGT
1 ACATTAATATAAACTATATAGT
** * * *
10111581 TTATAAATTATATACTATA-GGT
1 ACATTAA-TATAAACTATATAGT
* *
10111603 -TATAAAGTATAAACTATATAGT
1 ACATTAA-TATAAACTATATAGT
*
10111625 ACACTAATATAAACTAT
1 ACATTAATATAAACTAT
10111642 TGTTTATAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
20 10 0.15
21 22 0.34
22 28 0.43
23 5 0.08
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (22 bp):
ACATTAATATAAACTATATAGT
Found at i:10111597 original size:21 final size:21
Alignment explanation
Indices: 10111568--10111620 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
10111558 AGTACATTAA
* *
10111568 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
*
10111589 TATATACTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
10111610 TATAAACTATA
1 TATAAACTATA
10111621 TAGTACACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:10111656 original size:21 final size:20
Alignment explanation
Indices: 10111566--10111656 Score: 76
Period size: 21 Copynumber: 4.3 Consensus size: 20
10111556 ATAGTACATT
10111566 AATATAAACTATAGTTTATA
1 AATATAAACTATAGTTTATA
* *
10111586 AATTATATACTATAGGTTATA
1 AA-TATAAACTATAGTTTATA
* *
10111607 AAGTATAAACTATA-TAGTACA
1 AA-TATAAACTATAGT-TTATA
*
10111628 CTAATATAAACTATTGTTTATA
1 --AATATAAACTATAGTTTATA
10111650 AACTATA
1 AA-TATA
10111657 GGTTACATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
20 4 0.07
21 35 0.64
22 13 0.24
23 3 0.05
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (20 bp):
AATATAAACTATAGTTTATA
Found at i:10111736 original size:17 final size:17
Alignment explanation
Indices: 10111710--10111742 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10111700 ATACATAAAC
10111710 TATAGGTTATATATATA
1 TATAGGTTATATATATA
*
10111727 TATAGTTTATATATAT
1 TATAGGTTATATATAT
10111743 TGTACATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TATAGGTTATATATATA
Found at i:10111772 original size:59 final size:61
Alignment explanation
Indices: 10111663--10111785 Score: 144
Period size: 59 Copynumber: 2.0 Consensus size: 61
10111653 TATAGGTTAC
* * *
10111663 ATATATAGTTTATATAACATATAAATAGATTGTATATATACATAAACTATAGGTTATATAT
1 ATATATAGTTTATATAACATATAAATAGATTGTATACATACATAAACTATAAGTTACATAT
* * * **
10111724 ATATATAGTTTATATATA-TTGTACATAG-TT-TATACATACATGTACTATAAGTTACATAT
1 ATATATAGTTTATATA-ACATATAAATAGATTGTATACATACATAAACTATAAGTTACATAT
10111783 ATA
1 ATA
10111786 GTTTACATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 27 0.51
60 2 0.04
61 23 0.43
62 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (61 bp):
ATATATAGTTTATATAACATATAAATAGATTGTATACATACATAAACTATAAGTTACATAT
Found at i:10111986 original size:15 final size:15
Alignment explanation
Indices: 10111968--10112005 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
10111958 TTTATTACTT
*
10111968 TATATAGTTTATATA
1 TATATACTTTATATA
10111983 TATATACTTTATATA
1 TATATACTTTATATA
10111998 TACTATAC
1 TA-TATAC
10112006 ATAGTTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (15 bp):
TATATACTTTATATA
Found at i:10112004 original size:24 final size:26
Alignment explanation
Indices: 10111944--10112004 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 26
10111934 TTAGGATTTC
* *
10111944 TATAAACTATATATTTTATTACTTTA
1 TATATACTATATATTATATTACTTTA
*
10111970 TATAGT-TTATATA-TATA-TACTTTA
1 TATA-TACTATATATTATATTACTTTA
10111994 TATATACTATA
1 TATATACTATA
10112005 CATAGTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 1 0.03
24 15 0.52
25 3 0.10
26 10 0.34
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (26 bp):
TATATACTATATATTATATTACTTTA
Found at i:10112143 original size:16 final size:16
Alignment explanation
Indices: 10112124--10112154 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10112114 CATGTATATA
10112124 ATTTATATAAACTATT
1 ATTTATATAAACTATT
10112140 ATTTATATAAACTAT
1 ATTTATATAAACTAT
10112155 ATAAGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTATATAAACTATT
Found at i:10112237 original size:14 final size:14
Alignment explanation
Indices: 10112220--10112246 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10112210 GGATTCATGA
10112220 TTTAGGGTTTAAGT
1 TTTAGGGTTTAAGT
10112234 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
10112247 GTTTCTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTAAGT
Found at i:10112314 original size:2 final size:2
Alignment explanation
Indices: 10112307--10112699 Score: 181
Period size: 2 Copynumber: 201.0 Consensus size: 2
10112297 TTCTATAAAC
*
10112307 TA TA TA TA TA TA TA TA TA T- TA GT- TA TA T- TA GT- TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
* *
10112347 TA TA TA TA TA TA TA T- TA TA T- TA -A TA TA AA T- TA TA -A TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
10112384 TA TA AA T- TA TA TA GTT TA TA TA GTT TA T- TCA TA TT TA GTT TA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA T-A TA TA TA -TA TA
* * * * * *
10112426 CA TA CA TA CA CA CA TA AA 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
10112468 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
10112509 TA TA TA TA -A T- TA -A TA TA AA T- TA TA GTT TA TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* * * * *
10112549 CTT TT TA TA GTT TA TA CA TA TA TA GTT TA TA TA TA TA GT- TCA TA
1 -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA T-A TA
* * *
10112593 TA AA CA TA -A TT TA TA TA TA TA -A CT- TA TA -A TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
10112630 TA GTT TA TA -A TA TA AA TA TA GTT TA TA TA TA AA CT- TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
*
10112671 TA TA TA TA TA TA TA TA TG TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10112700 ATTTTTTTCA
Statistics
Matches: 295, Mismatches: 53, Indels: 86
0.68 0.12 0.20
Matches are distributed among these distances:
1 26 0.09
2 254 0.86
3 15 0.05
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10112761 original size:21 final size:21
Alignment explanation
Indices: 10112737--10112776 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10112727 AATTTACTAT
* *
10112737 ATTTTTCATTATTTCATTTTC
1 ATTTTGCATTATTTAATTTTC
*
10112758 ATTTTGCATTTTTTAATTT
1 ATTTTGCATTATTTAATTT
10112777 CTTTCACTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.68
Consensus pattern (21 bp):
ATTTTGCATTATTTAATTTTC
Found at i:10115527 original size:17 final size:17
Alignment explanation
Indices: 10115505--10115538 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10115495 AAAAATGAAT
10115505 AATATACTAA-ATATTAA
1 AATATAC-AATATATTAA
10115522 AATATACAATATATTAA
1 AATATACAATATATTAA
10115539 TATTTTACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATACAATATATTAA
Found at i:10116228 original size:20 final size:19
Alignment explanation
Indices: 10116199--10116253 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
10116189 AAATGATTTA
10116199 TTTATTTATATTATTAAAAT
1 TTTATTTATATTATT-AAAT
*
10116219 TTTATCTATATTTATTAAAT
1 TTTATTTATA-TTATTAAAT
*
10116239 TTTGTTTATATTATT
1 TTTATTTATATTATT
10116254 TTAACTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 21 0.68
21 5 0.16
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTATTTATATTATTAAAT
Found at i:10116257 original size:21 final size:21
Alignment explanation
Indices: 10116199--10116262 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
10116189 AAATGATTTA
*
10116199 TTTATTTATATTA-TTAAAAT
1 TTTATTTATATTATTTTAAAT
* *
10116219 TTTATCTATATT-TATTAAAT
1 TTTATTTATATTATTTTAAAT
* *
10116239 TTTGTTTATATTATTTTAACT
1 TTTATTTATATTATTTTAAAT
10116260 TTT
1 TTT
10116263 CAATTTGTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
20 26 0.74
21 9 0.26
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTATTTATATTATTTTAAAT
Found at i:10118100 original size:30 final size:31
Alignment explanation
Indices: 10118065--10118125 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
10118055 GACAGCAAGG
10118065 CTAAACA-TTTAATACCTTGTCAGTCTAGGT
1 CTAAACATTTTAATACCTTGTCAGTCTAGGT
* *
10118095 CTAAACATTTTATTGCCTTGTCAGTCTAGGT
1 CTAAACATTTTAATACCTTGTCAGTCTAGGT
10118126 GTATCTTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (31 bp):
CTAAACATTTTAATACCTTGTCAGTCTAGGT
Found at i:10118885 original size:17 final size:17
Alignment explanation
Indices: 10118851--10118895 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
10118841 AAACAAAAAC
*
10118851 AATAAAAAATAATTATAA
1 AATAAAAAA-AATAATAA
**
10118869 TTTAAAAAAAATAATAA
1 AATAAAAAAAATAATAA
10118886 AATAAAAAAA
1 AATAAAAAAA
10118896 GAAGGTCAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAAAAAAATAATAA
Found at i:10118957 original size:21 final size:21
Alignment explanation
Indices: 10118933--10118977 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
10118923 TGGTTGGTTT
*
10118933 TAAAA-AAAATACAAATGAGAA
1 TAAAATAAAAAACAAATGA-AA
*
10118954 TAAAATAAAAAATAAATGAAA
1 TAAAATAAAAAACAAATGAAA
10118975 TAA
1 TAA
10118978 TCAAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (21 bp):
TAAAATAAAAAACAAATGAAA
Found at i:10120524 original size:36 final size:35
Alignment explanation
Indices: 10120432--10120545 Score: 97
Period size: 36 Copynumber: 3.2 Consensus size: 35
10120422 ACTGTTCATC
* *
10120432 AACTATCTCACATGCTTTCTTTCTACGCTGAGCATA
1 AACTATCTCAC-TGGTTTCTTTCTACGCAGAGCATA
* * * *
10120468 AACAATCTAAATTGGGTTCTTTCTACGCCAG-GCATA
1 AACTATCT-CACTGGTTTCTTTCTACG-CAGAGCATA
* *
10120504 AACTATCTGCACTGGTTTCTTTCTTCGGC-GAGTATA
1 AACTATCT-CACTGGTTTCTTTCTAC-GCAGAGCATA
10120540 AACTAT
1 AACTAT
10120546 ATCCATTGGT
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
35 1 0.02
36 56 0.92
37 4 0.07
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (35 bp):
AACTATCTCACTGGTTTCTTTCTACGCAGAGCATA
Found at i:10130391 original size:63 final size:63
Alignment explanation
Indices: 10130292--10130431 Score: 192
Period size: 63 Copynumber: 2.2 Consensus size: 63
10130282 ATACTTATGA
* * * *
10130292 AAATATCATGATATCCTAGATTGTGTATAATGAATCTAGTATGTTATAAAT-TATCATAATTAT
1 AAATATCATGATATCCTAAATTGTGTATAATAAATCTAGAATGTTATAAATGTA-CATAATAAT
* *
10130355 AAATATCATGATATCTTAAATTGTGTATAATAAATCTAGAATGTTATAAATGTACATCATAAT
1 AAATATCATGATATCCTAAATTGTGTATAATAAATCTAGAATGTTATAAATGTACATAATAAT
* *
10130418 AAGTATGATGATAT
1 AAATATCATGATAT
10130432 GAAATAAGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 66 0.97
64 2 0.03
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.39
Consensus pattern (63 bp):
AAATATCATGATATCCTAAATTGTGTATAATAAATCTAGAATGTTATAAATGTACATAATAAT
Found at i:10135374 original size:26 final size:26
Alignment explanation
Indices: 10135345--10135396 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10135335 AAATTGATAT
*
10135345 ATTTCATATATAATA-ATTTCTTTTAA
1 ATTT-ATATATAATATATATCTTTTAA
*
10135371 ATTTATTTATAATATATATCTTTTAA
1 ATTTATATATAATATATATCTTTTAA
10135397 TTTTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTTATATATAATATATATCTTTTAA
Found at i:10135382 original size:25 final size:25
Alignment explanation
Indices: 10135353--10135405 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
10135343 ATATTTCATA
*
10135353 TATAATA-ATTTCTTTTAAATTTATT
1 TATAATATATATCTTTT-AATTTATT
*
10135378 TATAATATATATCTTTTAATTTTTT
1 TATAATATATATCTTTTAATTTATT
10135403 TAT
1 TAT
10135406 TTGAATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
TATAATATATATCTTTTAATTTATT
Found at i:10135544 original size:15 final size:15
Alignment explanation
Indices: 10135526--10135561 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
10135516 TAATATATTT
10135526 TTTATTAATAAAATA
1 TTTATTAATAAAATA
10135541 TTTA-TAA-AAAATA
1 TTTATTAATAAAATA
10135554 -TTATTAAT
1 TTTATTAAT
10135562 TAATTATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 3 0.16
15 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTATTAATAAAATA
Found at i:10142736 original size:29 final size:29
Alignment explanation
Indices: 10142703--10142900 Score: 156
Period size: 29 Copynumber: 7.0 Consensus size: 29
10142693 TATCACCTTT
*
10142703 TTTTAAAAAAAATTACAAAAATAGCACCA
1 TTTTAAAAATAATTACAAAAATAGCACCA
**
10142732 TTTTAAAAATAATTAGC-AAAATATTACCA
1 TTTTAAAAATAATTA-CAAAAATAGCACCA
* * * *
10142761 TTTT-AAAATATTTACTAAAATATCACAA
1 TTTTAAAAATAATTACAAAAATAGCACCA
** * *
10142789 TTTTTTCAAA-AATTACGAAAATAGCA--T
1 -TTTTAAAAATAATTACAAAAATAGCACCA
10142816 TTTTAAAAA-AATTACAAAAATAGCACCA
1 TTTTAAAAATAATTACAAAAATAGCACCA
** * * *
10142844 TTTTCGAAATAATTACCAGAATATCACCA
1 TTTTAAAAATAATTACAAAAATAGCACCA
* * * *
10142873 GTTTCAAAATAATTACCAAAATACCACC
1 TTTTAAAAATAATTACAAAAATAGCACC
10142901 CGGTCAACGG
Statistics
Matches: 138, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
26 22 0.16
27 1 0.01
28 26 0.19
29 85 0.62
30 4 0.03
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (29 bp):
TTTTAAAAATAATTACAAAAATAGCACCA
Found at i:10142882 original size:55 final size:52
Alignment explanation
Indices: 10142710--10142900 Score: 134
Period size: 57 Copynumber: 3.4 Consensus size: 52
10142700 TTTTTTTAAA
* *
10142710 AAAAATTACAAAAATAGCACCATTTTAAAAATAATTAGCAAAATATTACCATTTT
1 AAAAATTACAAAAATAGCACCATTTT-CAAATAATTA-CAGAATA-TACCATTTT
* * * * *
10142765 AAAATATTTACTAAAATATCACAATTTTTTCAAA-AATTAC-GAAAATAGCATTTTT
1 AAAA-A-TTACAAAAATAGCACCA--TTTTCAAATAATTACAGAATATACCA-TTTT
*
10142820 AAAAAAATTACAAAAATAGCACCATTTTCGAAATAATTACCAGAATATCACCAGTTTCA
1 --AAAAATTACAAAAATAGCACCATTTTC-AAATAATTA-CAGAATAT-ACCA-TTT-T
* *
10142879 AAATAATTACCAAAATACCACC
1 AAA-AATTACAAAAATAGCACC
10142901 CGGTCAACGG
Statistics
Matches: 106, Mismatches: 16, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
53 5 0.05
54 7 0.07
55 30 0.28
56 4 0.04
57 31 0.29
58 25 0.24
59 4 0.04
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (52 bp):
AAAAATTACAAAAATAGCACCATTTTCAAATAATTACAGAATATACCATTTT
Found at i:10142887 original size:84 final size:85
Alignment explanation
Indices: 10142709--10142895 Score: 195
Period size: 84 Copynumber: 2.2 Consensus size: 85
10142699 CTTTTTTTAA
** *
10142709 AAAAAATTACAAAAATAGCACCATTTTAAAAATAATTAGCAAAATATTACCATTTTAAAATATTT
1 AAAAAATTACAAAAATAGCA-CATTTTAAAAATAATTAGCAAAATAGCACCATTTTAAAATAATT
* *
10142774 ACTAAAATATCACAATTTTTTC
65 ACCAAAATATCACAA-TGTTTC
* * *
10142796 -AAAAATTACGAAAATAGCA-TTTTTAAAAA-AATTA-CAAAAATAGCACCATTTTCGAAATAAT
1 AAAAAATTACAAAAATAGCACATTTTAAAAATAATTAGC-AAAATAGCACCATTTT-AAAATAAT
* *
10142857 TACCAGAATATCACCA-GTTTC
64 TACCAAAATATCACAATGTTTC
*
10142878 AAAATAATTACCAAAATA
1 AAAA-AATTACAAAAATA
10142896 CCACCCGGTC
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
82 5 0.06
83 22 0.26
84 40 0.47
86 18 0.21
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.30
Consensus pattern (85 bp):
AAAAAATTACAAAAATAGCACATTTTAAAAATAATTAGCAAAATAGCACCATTTTAAAATAATTA
CCAAAATATCACAATGTTTC
Found at i:10142931 original size:17 final size:17
Alignment explanation
Indices: 10142909--10142959 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
10142899 CCCGGTCAAC
* *
10142909 GGTCAATGGTTGGGTCA
1 GGTCAACGGTCGGGTCA
10142926 GGTCAACGGTCGGGTC-
1 GGTCAACGGTCGGGTCA
*
10142942 GAGTTAACGGTCGGGTCA
1 G-GTCAACGGTCGGGTCA
10142960 ACGATCGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 1 0.03
17 28 0.97
ACGTcount: A:0.18, C:0.18, G:0.41, T:0.24
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCA
Found at i:10150036 original size:29 final size:29
Alignment explanation
Indices: 10149962--10150036 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
10149952 AAAACTTCAA
* *
10149962 AAAATAGCACCATTTTAAAAATAATTAGC
1 AAAATATCACCATTTTTAAAATAATTAGC
*
10149991 AAAATATCACCATTTTTAAAATATTTA-C
1 AAAATATCACCATTTTTAAAATAATTAGC
10150019 TAAAATATCACCATTTTT
1 -AAAATATCACCATTTTT
10150037 CAAGAATTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 1 0.02
29 41 0.98
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATATCACCATTTTTAAAATAATTAGC
Found at i:10150052 original size:28 final size:29
Alignment explanation
Indices: 10149962--10150053 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
10149952 AAAACTTCAA
* * *
10149962 AAAATAGCACCATTTTAAAAATAATTA-G
1 AAAATATCACCATTTTTAAAATATTTACG
*
10149990 CAAAATATCACCATTTTTAAAATATTTACT
1 -AAAATATCACCATTTTTAAAATATTTACG
*
10150020 AAAATATCACCATTTTTCAAGA-ATTT-CG
1 AAAATATCACCATTTTT-AAAATATTTACG
10150048 AAAATA
1 AAAATA
10150054 GCATTTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 7 0.13
29 45 0.82
30 3 0.05
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATATCACCATTTTTAAAATATTTACG
Done.