Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 42 of 349
Found at i:11774251 original size:15 final size:15
Alignment explanation
Indices: 11774221--11774249 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11774211 ACTATTAGTA
11774221 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
11774236 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
11774250 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:11775136 original size:62 final size:62
Alignment explanation
Indices: 11775066--11775190 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
11775056 ACATGAAAAT
11775066 ACACTTTCAACATATGAAATTACAAAGCTACGTAAAGTAAACAAATAGCTTGAAAAGATGAC
1 ACACTTTCAACATATGAAATTACAAAGCTACGTAAAGTAAACAAATAGCTTGAAAAGATGAC
11775128 ACACTTTCAACATATGAAATTACAAAGCTACGTAAAGTAAACAAATAGCTTGAAAAGATGAC
1 ACACTTTCAACATATGAAATTACAAAGCTACGTAAAGTAAACAAATAGCTTGAAAAGATGAC
11775190 A
1 A
11775191 AACATTTATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (62 bp):
ACACTTTCAACATATGAAATTACAAAGCTACGTAAAGTAAACAAATAGCTTGAAAAGATGAC
Found at i:11780977 original size:20 final size:20
Alignment explanation
Indices: 11780952--11780991 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11780942 AGCAGTACAG
11780952 ATGCAATGAAAGATCCATCA
1 ATGCAATGAAAGATCCATCA
11780972 ATGCAATGAAAGATCCATCA
1 ATGCAATGAAAGATCCATCA
11780992 GCTTGATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (20 bp):
ATGCAATGAAAGATCCATCA
Found at i:11784292 original size:116 final size:115
Alignment explanation
Indices: 11784089--11784308 Score: 323
Period size: 116 Copynumber: 1.9 Consensus size: 115
11784079 CACATTAATC
* *
11784089 AGTTTAGCTTTTAAAATATTGTAGAGGTGGGCCTCACGTACCAGGAGGCCCATTACTGAATATAT
1 AGTTTAGCTTTTAAAATATTGTAGAGGTGGGCCTCACGTACCAAGAGGCCCATTACAGAATATAT
* *
11784154 CACAATCTGACTTGTAAATAACATTTACTAGTAAGATGACCAAATTGTTA
66 CACAATCTGACCTGTAAATAACATCTACTAGTAAGATGACCAAATTGTTA
* * * *
11784204 AGTTTAGTTTTTAATATATTGTAGAGGTGGGGCCTCACGTATCAAGAGGCCCATTGCAGAATATA
1 AGTTTAGCTTTTAAAATATTGTAGAGGT-GGGCCTCACGTACCAAGAGGCCCATTACAGAATATA
* * * *
11784269 TTACAATTTGGCCTGTGAATAACATCTACTAGTAAGATGA
65 TCACAATCTGACCTGTAAATAACATCTACTAGTAAGATGA
11784309 TCTAACAATT
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
115 26 0.28
116 66 0.72
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (115 bp):
AGTTTAGCTTTTAAAATATTGTAGAGGTGGGCCTCACGTACCAAGAGGCCCATTACAGAATATAT
CACAATCTGACCTGTAAATAACATCTACTAGTAAGATGACCAAATTGTTA
Found at i:11787029 original size:6 final size:6
Alignment explanation
Indices: 11787018--11787064 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
11787008 CTAATTTCCC
* *
11787018 TTTTCT TTTTCT TTTTCT TTCTCT TTCTC- TTTTCT TTCTCTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TT-T-TCT TTTT
11787065 TGTTTCAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 4 0.11
6 25 0.69
7 2 0.06
8 5 0.14
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:11787050 original size:17 final size:16
Alignment explanation
Indices: 11787019--11787058 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
11787009 TAATTTCCCT
*
11787019 TTTCTTTTTCTTTTTC
1 TTTCTCTTTCTTTTTC
11787035 TTTCTCTTTCTCTTTTC
1 TTTCTCTTTCT-TTTTC
11787052 TTTCTCT
1 TTTCTCT
11787059 CTTTTTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTCTTTCTTTTTC
Found at i:11787084 original size:32 final size:32
Alignment explanation
Indices: 11787044--11787104 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
11787034 CTTTCTCTTT
11787044 CTCTTTTCTTTCT-CTCTTTTTTGTTTCAACC
1 CTCTTTTCTTTCTGCTCTTTTTTGTTTCAACC
* * *
11787075 CTCTATTTCTTTTTGTTTTTTTTTGTTTCA
1 CTCT-TTTCTTTCTGCTCTTTTTTGTTTCA
11787105 TTTATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 4 0.16
32 8 0.32
33 13 0.52
ACGTcount: A:0.07, C:0.21, G:0.05, T:0.67
Consensus pattern (32 bp):
CTCTTTTCTTTCTGCTCTTTTTTGTTTCAACC
Found at i:11788152 original size:20 final size:19
Alignment explanation
Indices: 11788114--11788161 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
11788104 TAAATTCTAA
*
11788114 AAAGATAAATACAATTAATT
1 AAAGATAAATACAAATAA-T
11788134 AAAGATAAATA-AAGATAAT
1 AAAGATAAATACAA-ATAAT
*
11788153 AAAAATAAA
1 AAAGATAAA
11788162 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (19 bp):
AAAGATAAATACAAATAAT
Found at i:11788186 original size:27 final size:26
Alignment explanation
Indices: 11788156--11788217 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
11788146 AGATAATAAA
11788156 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
11788183 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
11788210 AATAAAAT
1 AATAAAAT
11788218 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:11790470 original size:20 final size:20
Alignment explanation
Indices: 11790445--11790500 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
11790435 AAAAAATTAA
11790445 ACATTGCAATGTATCTATAT
1 ACATTGCAATGTATCTATAT
11790465 ACATTGCAATGTATCTATAT
1 ACATTGCAATGTATCTATAT
11790485 ACATTGCAATGTATCT
1 ACATTGCAATGTATCT
11790501 CTGATTGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
ACATTGCAATGTATCTATAT
Found at i:11792926 original size:19 final size:19
Alignment explanation
Indices: 11792902--11792992 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
11792892 ATAATCTTCA
11792902 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
11792921 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
11792940 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11792957 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11792975 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
11792993 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:11792977 original size:35 final size:37
Alignment explanation
Indices: 11792902--11792999 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
11792892 ATAATCTTCA
11792902 ATGATATGCAATCTTAGATATGATATGCAATCTTAAAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAAAT
*
11792940 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAAAT
11792975 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
11793000 ATTTTGTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 21 0.38
36 19 0.34
37 10 0.18
38 6 0.11
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAAAT
Found at i:11801958 original size:298 final size:298
Alignment explanation
Indices: 11801509--11802233 Score: 1252
Period size: 298 Copynumber: 2.4 Consensus size: 298
11801499 AAATCGAGGA
11801509 ATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCC
1 ATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCC
* *
11801574 AAGATGATTTAGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCG
66 AAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCG
* *
11801639 GATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTAACAAGGAGCATATCA
131 GATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTAACAAGGAGAAGATCA
*
11801704 AAGACATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTC
196 AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTC
*
11801769 TGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGC
261 TGTACTGTCAAAGAACAAATCGAAGAAACAGATTTGGC
* *
11801807 ATCTCCATATTCGACGGAGAGGAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCC
1 ATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCC
** *
11801872 AAGATGATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCAGATCTAACCTTCG
66 AAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCG
* * * *
11801937 GATGTTTTTACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGAAGATCG
131 GATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTAACAAGGAGAAGATCA
11802002 AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTC
196 AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTC
*
11802067 TGTATTGTCAAAGAACAAATCGAAGAAACAGATTTGGC
261 TGTACTGTCAAAGAACAAATCGAAGAAACAGATTTGGC
* *
11802105 ATCTCCATATTCGACAGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAAGTAGATCC
1 ATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCC
* * * *
11802170 AAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACACAGTAGATCTGACCTTC
66 AAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTC
11802234 ATTGAAGCAG
Statistics
Matches: 400, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
298 400 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (298 bp):
ATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCC
AAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCG
GATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTAACAAGGAGAAGATCA
AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTC
TGTACTGTCAAAGAACAAATCGAAGAAACAGATTTGGC
Found at i:11802032 original size:89 final size:89
Alignment explanation
Indices: 11801860--11802068 Score: 223
Period size: 89 Copynumber: 2.4 Consensus size: 89
11801850 TGACCTTCAT
* * * *
11801860 TGAAGCAGATCCAAGATGATTTGGCAT-CTCTGTATTAGACGATGAGTAGATCGAAGACATAGCA
1 TGAAGCAGATCCAAGATGATTTGGCATCCTCTGCATTAGACAAGGAGAAGATCGAAGACATAGCA
* *
11801924 GATCTAACCTTCGGATGTTTTTAC-A
66 GATCTAACCTTCCGATG--TTTACGC
* *
11801949 TCGAAGTAGATCCAAGATGATTTGGCATCCT-TGCGTT-GACAAGGAGAAGATCGAAGACATAGC
1 T-GAAGCAGATCCAAGATGATTTGGCATCCTCTGCATTAGACAAGGAGAAGATCGAAGACATAGC
* ** *
11802012 AGATTTGGCTTTCACG-TGTTTACGC
65 AGATCTAACCTTC-CGATGTTTACGC
*
11802037 TGAAGCAGATCTAAGATGATTTGGCAT-CTCTG
1 TGAAGCAGATCCAAGATGATTTGGCATCCTCTG
11802069 TATTGTCAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
86 2 0.02
87 31 0.31
88 1 0.01
89 35 0.35
90 30 0.30
91 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (89 bp):
TGAAGCAGATCCAAGATGATTTGGCATCCTCTGCATTAGACAAGGAGAAGATCGAAGACATAGCA
GATCTAACCTTCCGATGTTTACGC
Found at i:11802089 original size:87 final size:86
Alignment explanation
Indices: 11801860--11802104 Score: 230
Period size: 87 Copynumber: 2.8 Consensus size: 86
11801850 TGACCTTCAT
* * *
11801860 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT-GACAAAGA-AAGATCGAAGACATAGCAG
* ** * *
11801925 ATCTAACCTTCGGATGTTTTTACA
64 ATTTGGCCTTC-GACGTGTTTACA
* ** *
11801949 TCGAAGTAGATCCAAGATGATTTGGCATC-CTTGCGTTGACAAGGAGAAGATCGAAGACATAGCA
1 T-GAAGCAGATCCAAGATGATTTGGCATCTC-TGTATTGACAAAGA-AAGATCGAAGACATAGCA
* *
11802013 GATTTGGCTTTC-ACGTGTTTACGC
63 GATTTGGCCTTCGACGTGTTTAC-A
* * *
11802037 TGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGA-A-A-CAGA
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGACAAAGAA-AGATCGAAGACATAGCAGA
11802099 TTTGGC
65 TTTGGC
11802105 ATCTCCATAT
Statistics
Matches: 131, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
84 10 0.08
85 1 0.01
86 2 0.02
87 52 0.40
88 2 0.02
89 34 0.26
90 30 0.23
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (86 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGACAAAGAAAGATCGAAGACATAGCAGAT
TTGGCCTTCGACGTGTTTACA
Found at i:11802207 original size:78 final size:78
Alignment explanation
Indices: 11802097--11802391 Score: 389
Period size: 78 Copynumber: 3.8 Consensus size: 78
11802087 CGAAGAAACA
* * *
11802097 GATTTGGCATCTCCATATTCGACAGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACAGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
*
11802162 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
11802175 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAA-ACACAGTAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACAGGGAGCAGATC-AAAGACATAGCAGATCTGACCTTCATTGA
11802239 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * * *
11802253 GATTTGGCATCTCTGA-ATTAGACGGGGAGCAGATCGAAGACATAACATAT-TGGACCTTCTTTG
1 GATTTGGCATCTCT-ATATTAGACAGGGAGCAGATCAAAGACATAGCAGATCT-GACCTTCATTG
* *
11802316 AAACAAATCCAAGAT
64 AAGCAGATCCAAGAT
* *
11802331 GATTTGGCGTCTCTATATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACAGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCAT
11802392 GTGTTTACGT
Statistics
Matches: 189, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
77 4 0.02
78 181 0.96
79 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACAGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:11802528 original size:89 final size:89
Alignment explanation
Indices: 11802421--11802589 Score: 257
Period size: 89 Copynumber: 1.9 Consensus size: 89
11802411 TCCAAGATGA
* * * *
11802421 CAGATTTGGCATCTCTGTATTAGACGGGGAGTAAATCGGAGATAACAGATTTGGCATCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAAATTTGGCATCTCTGTAT
*
11802486 CAGACGGGGAGCAGATTGAAGAAG
66 CAGACAGGGAGCAGATTGAAGAAG
* * *
11802510 CAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAAATTTGGCATCTCTGTAT
*
11802575 TAGACAGGGAGCAGA
66 CAGACAGGGAGCAGA
11802590 CCAAAGATAG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (89 bp):
CAGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAAATTTGGCATCTCTGTAT
CAGACAGGGAGCAGATTGAAGAAG
Found at i:11802529 original size:44 final size:45
Alignment explanation
Indices: 11802405--11802604 Score: 249
Period size: 45 Copynumber: 4.5 Consensus size: 45
11802395 TTTACGTCGA
* *
11802405 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
11802450 AGTAAATCGGAGATAACAGATTTGGCATCTCTGTATCAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
11802495 AGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGAGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
11802539 AGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
11802584 AGCAGACCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
11802605 ATTGCCTTCC
Statistics
Matches: 131, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 39 0.30
45 92 0.70
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:11803048 original size:17 final size:19
Alignment explanation
Indices: 11802951--11803041 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
11802941 ATAATCTTCA
11802951 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
11802970 ATGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
11802989 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11803006 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11803024 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
11803042 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:11803067 original size:22 final size:22
Alignment explanation
Indices: 11802951--11803064 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
11802941 ATAATCTTCA
11802951 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
11802970 ATGATATGCAAT-TT--TAGAT
1 ATGATATGCAATCTTAGAAGAT
11802989 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
11803006 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
11803024 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
11803046 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
11803065 GATTTAATTT
Statistics
Matches: 84, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
17 13 0.15
18 20 0.24
19 31 0.37
22 8 0.10
23 12 0.14
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:11803352 original size:18 final size:19
Alignment explanation
Indices: 11803329--11803367 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
11803319 CATGTTTCCC
*
11803329 TAATTTTTTTATAT-ATTT
1 TAATTTTTTTAAATAATTT
11803347 TAATTTTTTTAAATAATTT
1 TAATTTTTTTAAATAATTT
11803366 TA
1 TA
11803368 GTATTATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TAATTTTTTTAAATAATTT
Found at i:11804033 original size:19 final size:19
Alignment explanation
Indices: 11804009--11804051 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
11803999 GGTTTCGACA
*
11804009 TGCATCATTTTACGAAATG
1 TGCATCATTTTACGAAAAG
11804028 TGCATCATTTTACGAAAAG
1 TGCATCATTTTACGAAAAG
11804047 TGCAT
1 TGCAT
11804052 TAACATGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
TGCATCATTTTACGAAAAG
Found at i:11807992 original size:15 final size:16
Alignment explanation
Indices: 11807959--11807993 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11807949 TGAAGGAAAC
11807959 AAAATTGAAAAGATGG
1 AAAATTGAAAAGATGG
*
11807975 AAAATTGAAAGGAT-G
1 AAAATTGAAAAGATGG
11807990 AAAA
1 AAAA
11807994 CTAGAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (16 bp):
AAAATTGAAAAGATGG
Found at i:11808780 original size:19 final size:19
Alignment explanation
Indices: 11808747--11808794 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11808737 TAAAAAATTC
11808747 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
11808764 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
11808783 AATAATATAAAT
1 AATAATATAAAT
11808795 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:11811357 original size:25 final size:23
Alignment explanation
Indices: 11811325--11811384 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
11811315 AACGCGCAAT
*
11811325 AAAACAAAGAAGAAAAGGACAAAA
1 AAAACAAAGAACAAAAGGA-AAAA
* * *
11811349 AGCAACAAAAAACAAAATGAAAAA
1 A-AAACAAAGAACAAAAGGAAAAA
11811373 AAAACAAAGAAC
1 AAAACAAAGAAC
11811385 GAATCTTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 9 0.31
24 6 0.21
25 14 0.48
ACGTcount: A:0.75, C:0.12, G:0.12, T:0.02
Consensus pattern (23 bp):
AAAACAAAGAACAAAAGGAAAAA
Found at i:11812298 original size:17 final size:18
Alignment explanation
Indices: 11812271--11812306 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
11812261 TTTGTTATAG
11812271 TTTTTGCTTCTAATTTAA
1 TTTTTGCTTCTAATTTAA
*
11812289 TTTTTG-TTCTAGTTTAA
1 TTTTTGCTTCTAATTTAA
11812306 T
1 T
11812307 CCCTAATCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.64
Consensus pattern (18 bp):
TTTTTGCTTCTAATTTAA
Found at i:11812549 original size:28 final size:26
Alignment explanation
Indices: 11812492--11812686 Score: 87
Period size: 26 Copynumber: 7.5 Consensus size: 26
11812482 GATTATTAAC
* *
11812492 TTTTATATATTATTTATCTTAGATTT
1 TTTTATATATTATTTATCTTAAATTA
* *
11812518 TTTTATATAAATTATTTGTTTTAAATTA
1 TTTTATAT--ATTATTTATCTTAAATTA
* * *
11812546 TTTTACATATTATCTATTTTAAATT-
1 TTTTATATATTATTTATCTTAAATTA
* * * * *
11812571 TTCATGTGTAATATTTAAT-TTAAACTA
1 TT-TTATATATTATTT-ATCTTAAATTA
* * *
11812598 TTTTATATGTTATTCATTTTAAATT-
1 TTTTATATATTATTTATCTTAAATTA
* * * *
11812623 TGTTTATATAGTATTCT-TTTTAAACTG
1 T-TTTATATATTATT-TATCTTAAATTA
* * *
11812650 TTTTA-ATA-CATATTATTTTGAATTA
1 TTTTATATATTAT-TTATCTTAAATTA
11812675 TTTTATATATTA
1 TTTTATATATTA
11812687 ATTACTTTAC
Statistics
Matches: 126, Mismatches: 30, Indels: 25
0.70 0.17 0.14
Matches are distributed among these distances:
24 3 0.02
25 21 0.17
26 75 0.60
27 6 0.05
28 21 0.17
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (26 bp):
TTTTATATATTATTTATCTTAAATTA
Found at i:11812835 original size:25 final size:25
Alignment explanation
Indices: 11812794--11812863 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
11812784 AAATTTCTAT
*
11812794 TTTATACGGATTATTTATTTTCAAA-TT
1 TTTATAC--ATTATTTATTTT-AAACTC
* * *
11812821 TTTATATATTGTTTATCTTAAACTC
1 TTTATACATTATTTATTTTAAACTC
11812846 TTTATACATTATTTATTT
1 TTTATACATTATTTATTT
11812864 ATTTTATATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
24 3 0.09
25 26 0.74
27 6 0.17
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTATACATTATTTATTTTAAACTC
Found at i:11812881 original size:18 final size:18
Alignment explanation
Indices: 11812858--11812928 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
11812848 TATACATTAT
*
11812858 TTATTTATTTTATATTTA
1 TTATTTATTTTAAATTTA
* *
11812876 TTATTTATATTAAAGTT-
1 TTATTTATTTTAAATTTA
** *
11812893 TTATTTTATTTTATGTATA
1 TTA-TTTATTTTAAATTTA
*
11812912 CTATTTATTTTAAATTT
1 TTATTTATTTTAAATTT
11812929 CTTTTTACAT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
17 3 0.08
18 34 0.87
19 2 0.05
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (18 bp):
TTATTTATTTTAAATTTA
Found at i:11812917 original size:36 final size:35
Alignment explanation
Indices: 11812857--11812925 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
11812847 TTATACATTA
* *
11812857 TTTATTTATTTTATATTTATTATTTATATTAAAGT
1 TTTATTTATTTTATATATACTATTTATATTAAAGT
* *
11812892 TTTATTTTATTTTATGTATACTATTTATTTTAAA
1 TTTA-TTTATTTTATATATACTATTTATATTAAA
11812926 TTTCTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (35 bp):
TTTATTTATTTTATATATACTATTTATATTAAAGT
Found at i:11812982 original size:20 final size:21
Alignment explanation
Indices: 11812941--11812989 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
11812931 TTTTACATAT
* *
11812941 TATTATTTTAGACTTTTTATA
1 TATTATTTTAGAATTGTTATA
*
11812962 TGTTATTTTA-AATTGTTATA
1 TATTATTTTAGAATTGTTATA
11812982 TATTATTT
1 TATTATTT
11812990 ATTTTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (21 bp):
TATTATTTTAGAATTGTTATA
Found at i:11815096 original size:42 final size:42
Alignment explanation
Indices: 11815037--11815123 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
11815027 ACTCCTAATC
11815037 TAACTAAAATTGCTTATATGTTATTAAAAGGGTGAATGTATT
1 TAACTAAAATTGCTTATATGTTATTAAAAGGGTGAATGTATT
11815079 TAACTAAAATTGCTTATATGTTATTAAAAGGGTGAATGTATT
1 TAACTAAAATTGCTTATATGTTATTAAAAGGGTGAATGTATT
11815121 TAA
1 TAA
11815124 GAGGTTCCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (42 bp):
TAACTAAAATTGCTTATATGTTATTAAAAGGGTGAATGTATT
Found at i:11815596 original size:23 final size:23
Alignment explanation
Indices: 11815550--11815596 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11815540 ATAATTACTT
*
11815550 TCTCTGTCTCTGGACACGCTTTC
1 TCTCTGTCTCTGGACACGCATTC
* * *
11815573 TCTCTGTCTTTTGACACTCATTC
1 TCTCTGTCTCTGGACACGCATTC
11815596 T
1 T
11815597 GTTTTTTCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.32, G:0.13, T:0.45
Consensus pattern (23 bp):
TCTCTGTCTCTGGACACGCATTC
Found at i:11819116 original size:26 final size:26
Alignment explanation
Indices: 11819080--11819189 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
11819070 TGATACAAAT
*
11819080 TGATAATAGGTTAGATAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11819106 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11819132 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
11819158 TGATAATGGGTTAGGCAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11819184 TGATAA
1 TGATAA
11819190 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11820413 original size:21 final size:22
Alignment explanation
Indices: 11820379--11820420 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11820369 TATTAAATTA
* *
11820379 ATAATAATATATAAGTTAAATG
1 ATAATAATAAATAAGTAAAATG
11820401 ATAA-AATAAATAAGTAAAAT
1 ATAATAATAAATAAGTAAAAT
11820421 AAATGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (22 bp):
ATAATAATAAATAAGTAAAATG
Found at i:11820474 original size:20 final size:20
Alignment explanation
Indices: 11820433--11820476 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11820423 ATGAAATAAT
*
11820433 AAAAGAATAAAAAGAAAGAC
1 AAAAGAATAAAAAGAAAAAC
*
11820453 AAAAGAA-ACAAAGAAGAAAC
1 AAAAGAATAAAAAGAA-AAAC
11820473 AAAA
1 AAAA
11820477 CAGAAGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.77, C:0.07, G:0.14, T:0.02
Consensus pattern (20 bp):
AAAAGAATAAAAAGAAAAAC
Found at i:11822871 original size:26 final size:26
Alignment explanation
Indices: 11822834--11822917 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
11822824 TGATACAAAT
* *
11822834 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11822860 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
11822886 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
11822912 TGATAA
1 TGATAA
11822918 GAATTTCATA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11828665 original size:26 final size:26
Alignment explanation
Indices: 11828628--11828711 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
11828618 TGATACAAAT
* *
11828628 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11828654 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11828680 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
11828706 TTATAA
1 TGATAA
11828712 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11838018 original size:22 final size:22
Alignment explanation
Indices: 11837988--11838032 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11837978 TTTAGTTTAA
*
11837988 TTAATATAAA-ATTTCATCCTTT
1 TTAAAATAAATATTTCAT-CTTT
*
11838010 TTAAAATAAATTTTTCATCTTT
1 TTAAAATAAATATTTCATCTTT
11838032 T
1 T
11838033 GACCTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAAAATAAATATTTCATCTTT
Found at i:11839949 original size:34 final size:35
Alignment explanation
Indices: 11839905--11839971 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
11839895 CAGTAAAATA
* * *
11839905 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
*
11839939 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTT
11839972 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
Found at i:11839958 original size:20 final size:20
Alignment explanation
Indices: 11839920--11839958 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11839910 CGTAAAATGA
**
11839920 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
11839940 TTTCTGTAAAATGACTTAC
1 TTTCTGGAAAATGACTTAC
11839959 AGGAAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:11841345 original size:27 final size:27
Alignment explanation
Indices: 11841315--11841384 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
11841305 AATAATCAAT
*
11841315 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
11841342 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
11841370 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
11841385 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:11844274 original size:8 final size:8
Alignment explanation
Indices: 11844257--11844289 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
11844247 CCATTACCAG
11844257 GAACAACA
1 GAACAACA
*
11844265 GAAAAACA
1 GAACAACA
11844273 GAACAACA
1 GAACAACA
11844281 GAACAACA
1 GAACAACA
11844289 G
1 G
11844290 GAACGGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.64, C:0.21, G:0.15, T:0.00
Consensus pattern (8 bp):
GAACAACA
Found at i:11845117 original size:24 final size:24
Alignment explanation
Indices: 11845090--11845162 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
11845080 TGCAATCGAT
*
11845090 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
* *
11845114 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
11845138 AGGGTGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
11845162 A
1 A
11845163 ATGTCTTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.47, T:0.12
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCTGTGGAA
Found at i:11854106 original size:89 final size:89
Alignment explanation
Indices: 11853955--11854135 Score: 317
Period size: 89 Copynumber: 2.0 Consensus size: 89
11853945 ATCTGAACTT
* *
11853955 CGAATGTTAGACGGTCAACTCCAAGCTACTATCAATCAAACTAGATATTCACTCAATAACCCTTT
1 CGAATGTTACACGGTCAACTCCAAACTACTATCAATCAAACTAGATATTCACTCAATAACCCTTT
*
11854020 TTTTCGGGCAATTTCAGTTTTCTA
66 TTTTCAGGCAATTTCAGTTTTCTA
* *
11854044 CGAATGTTACACGGTCAACTCCAAACTATTATCGATCAAACTAGATATTCACTCAATAACCCTTT
1 CGAATGTTACACGGTCAACTCCAAACTACTATCAATCAAACTAGATATTCACTCAATAACCCTTT
11854109 TTTTCAGGCAATTTCAGTTTTCTA
66 TTTTCAGGCAATTTCAGTTTTCTA
11854133 CGA
1 CGA
11854136 TTCTAAAACC
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (89 bp):
CGAATGTTACACGGTCAACTCCAAACTACTATCAATCAAACTAGATATTCACTCAATAACCCTTT
TTTTCAGGCAATTTCAGTTTTCTA
Found at i:11859696 original size:45 final size:45
Alignment explanation
Indices: 11859647--11859862 Score: 220
Period size: 45 Copynumber: 4.8 Consensus size: 45
11859637 TTGGATTGAA
* * *
11859647 AAATGAAAAAGACCATGGTTGAAAGATACCATGGCATTATACCCG
1 AAATGAAAAAGACCATAGTTGAAAGATACTATGACATTATACCCG
* * * *
11859692 AAATGAGAAATACCATAGTTGAAAGATACTATGACATTA-AACTG
1 AAATGAAAAAGACCATAGTTGAAAGATACTATGACATTATACCCG
* * * * *
11859736 GAATGAATAAGACCATATTTGAAAGATACTATGAAATTATACCGG
1 AAATGAAAAAGACCATAGTTGAAAGATACTATGACATTATACCCG
* * * * * *
11859781 AAATGTATAAGACCATAGTTGAAAAATACTATGGCATTAAATCCG
1 AAATGAAAAAGACCATAGTTGAAAGATACTATGACATTATACCCG
* * *
11859826 ATA-CAAATAAGACCATAGTTGAAAGATACTATAACAT
1 AAATGAAA-AAGACCATAGTTGAAAGATACTATGACAT
11859863 CACTTTAGAA
Statistics
Matches: 138, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
44 37 0.27
45 101 0.73
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (45 bp):
AAATGAAAAAGACCATAGTTGAAAGATACTATGACATTATACCCG
Found at i:11859799 original size:89 final size:89
Alignment explanation
Indices: 11859648--11859857 Score: 253
Period size: 89 Copynumber: 2.3 Consensus size: 89
11859638 TGGATTGAAA
* * * ** *
11859648 AATGAAAAAGACCATGGTTGAAAGATACCATGGCATTATACCCGAAATGAGAAATACCATAGTTG
1 AATGAATAAGACCATAGTTGAAAGATACTATGAAATTATACCCGAAATGAGAAAGACCATAGTTG
* *
11859713 AAAGATACTATGACATTAAA-CTGG
66 AAAAATACTATGACATTAAATC-CG
* * *
11859737 AATGAATAAGACCATATTTGAAAGATACTATGAAATTATACCGGAAATGTA-TAAGACCATAGTT
1 AATGAATAAGACCATAGTTGAAAGATACTATGAAATTATACCCGAAATG-AGAAAGACCATAGTT
*
11859801 GAAAAATACTATGGCATTAAATCCG
65 GAAAAATACTATGACATTAAATCCG
**
11859826 ATACAAATAAGACCATAGTTGAAAGATACTAT
1 A-ATGAATAAGACCATAGTTGAAAGATACTAT
11859858 AACATCACTT
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
89 74 0.72
90 29 0.28
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (89 bp):
AATGAATAAGACCATAGTTGAAAGATACTATGAAATTATACCCGAAATGAGAAAGACCATAGTTG
AAAAATACTATGACATTAAATCCG
Found at i:11864856 original size:38 final size:35
Alignment explanation
Indices: 11864786--11864860 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 35
11864776 AGTCCAAACC
* * *
11864786 AAGCCCAAAGTATATCACCTAACCTAAAACCCTAA
1 AAGCCCAAACTATATCACCCAACCCAAAACCCTAA
11864821 AAGCCCAATACTATATCAACCCAAGCCCAAAACCCTAA
1 AAGCCCAA-ACTATATC-ACCCAA-CCCAAAACCCTAA
11864859 AA
1 AA
11864861 AACTAACAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 8 0.24
36 7 0.21
37 5 0.15
38 14 0.41
ACGTcount: A:0.47, C:0.33, G:0.05, T:0.15
Consensus pattern (35 bp):
AAGCCCAAACTATATCACCCAACCCAAAACCCTAA
Found at i:11871539 original size:23 final size:21
Alignment explanation
Indices: 11871508--11871551 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
11871498 TTACTTTAGT
11871508 AAGAAATTTACTGAATGTGAGAA
1 AAGAAATTTACT-AAT-TGAGAA
* *
11871531 AAGATATTTGCTAATTGAGAA
1 AAGAAATTTACTAATTGAGAA
11871552 GTTGTGTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (21 bp):
AAGAAATTTACTAATTGAGAA
Found at i:11876031 original size:138 final size:137
Alignment explanation
Indices: 11875826--11876298 Score: 664
Period size: 138 Copynumber: 3.4 Consensus size: 137
11875816 CTACCATAGT
* * * *
11875826 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGTTACAAATCCTATATCCAT-AAAGT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACGAATCCTATATCCCTGAAA-T
* * *
11875890 TGCAATGGATCAGATTGAAGCTACAATATT-TATACCTCTAAAGTTGCAGTGGGTTGGAATGAAA
65 TGCAGTGGATC-GATTGAAGCCACAAT-TTCTATACCTCTAAAGTTGCAGTGGGTTGGAATAAAA
* **
11875954 CTACGATGGC
128 ATATAATGGC
* * *
11875964 GAATCTTATCTCCTTGAAGTTGCAGTGGAACAAGATGAAGCTACGAATCTTATATCCCTGAAATT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACGAATCCTATATCCCTGAAATT
*
11876029 GCAGTGGATCGAATTGAAGCCACAATTTCTATACCCCTAAAGTTGCAGTGGGTTGGAATAAAAAT
66 GCAGTGGATCG-ATTGAAGCCACAATTTCTATACCTCTAAAGTTGCAGTGGGTTGGAATAAAAAT
11876094 ATAATGGC
130 ATAATGGC
* * * *
11876102 GAATCTTATCTCCCT-AGAGTTGCAGTGGAGCAATATGAAGCTACGAATCTTATATTCTTGAAAT
1 GAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAAGATGAAGCTACGAATCCTATATCCCTGAAAT
* *
11876166 TGCAGTGGATCGGATTAAAGCCACAATTTCTATACCTTTAAAGTTGCAGTGGGTTGGAATAAAAA
65 TGCAGTGGATC-GATTGAAGCCACAATTTCTATACCTCTAAAGTTGCAGTGGGTTGGAATAAAAA
*
11876231 TATAATGAC
129 TATAATGGC
* *
11876240 GAATCTTATCTCCCTGGAGTTGCAGTGGAGCAAGATGAAGCTACGAATCCTAAATCCCT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACGAATCCTATATCCCT
11876299 AATATGGTAA
Statistics
Matches: 300, Mismatches: 29, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
137 4 0.01
138 292 0.97
139 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (137 bp):
GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACGAATCCTATATCCCTGAAATT
GCAGTGGATCGATTGAAGCCACAATTTCTATACCTCTAAAGTTGCAGTGGGTTGGAATAAAAATA
TAATGGC
Found at i:11876047 original size:44 final size:44
Alignment explanation
Indices: 11875963--11876186 Score: 125
Period size: 44 Copynumber: 5.0 Consensus size: 44
11875953 ACTACGATGG
* * * * *
11875963 CGAATCTTATCTCCTTGAAGTTGCAGTGGAAC-AAGATGAAGCTA
1 CGAATCTTATATCCCTGAAATTGCAGTGGATCGAA-TTGAAGCTA
*
11876007 CGAATCTTATATCCCTGAAATTGCAGTGGATCGAATTGAAGCCA
1 CGAATCTTATATCCCTGAAATTGCAGTGGATCGAATTGAAGCTA
* * * * ** **
11876051 C-AATTTCTATACCCCT-AAAGTTGCAGTGGGTTGGAATAAAAATATAA
1 CGAATCT-TATATCCCTGAAA-TTGCAGT-GGATCGAAT-TGAAGCT-A
* * *
11876098 TGGCGAATCTTATCTCCCT-AGAGTTGCAGTGGAGC-AATATGAAGCTA
1 ---CGAATCTTATATCCCTGA-AATTGCAGTGGATCGAAT-TGAAGCTA
* * * *
11876145 CGAATCTTATATTCTTGAAATTGCAGTGGATCGGATTAAAGC
1 CGAATCTTATATCCCTGAAATTGCAGTGGATCGAATTGAAGC
11876187 CACAATTTCT
Statistics
Matches: 134, Mismatches: 33, Indels: 26
0.69 0.17 0.13
Matches are distributed among these distances:
43 7 0.05
44 81 0.60
45 12 0.09
46 2 0.01
47 2 0.01
48 7 0.05
49 2 0.01
50 16 0.12
51 5 0.04
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
CGAATCTTATATCCCTGAAATTGCAGTGGATCGAATTGAAGCTA
Found at i:11878067 original size:13 final size:14
Alignment explanation
Indices: 11878039--11878068 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11878029 GCCTACTTTT
11878039 TTTTATTTTGATTA
1 TTTTATTTTGATTA
11878053 TTTTATTTT-ATTA
1 TTTTATTTTGATTA
11878066 TTT
1 TTT
11878069 CAGGCACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTATTTTGATTA
Found at i:11878293 original size:9 final size:9
Alignment explanation
Indices: 11878279--11878304 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11878269 TTAAATTTTG
11878279 ATACTATTA
1 ATACTATTA
11878288 ATACTATTA
1 ATACTATTA
11878297 ATACTATT
1 ATACTATT
11878305 TGTATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (9 bp):
ATACTATTA
Found at i:11878431 original size:22 final size:22
Alignment explanation
Indices: 11878398--11878444 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
11878388 ATTAATTGAA
11878398 TATTTTTCATTATTGTTATT-AT
1 TATTTTTCATTATTG-TATTCAT
11878420 TATTTCTT-ATTATTGTATTCAT
1 TATTT-TTCATTATTGTATTCAT
11878442 TAT
1 TAT
11878445 AGTATTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 17 0.74
23 2 0.09
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (22 bp):
TATTTTTCATTATTGTATTCAT
Found at i:11878723 original size:21 final size:21
Alignment explanation
Indices: 11878697--11878738 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11878687 ACATAGGATT
11878697 TAGGTAATAATCAAATGACGA
1 TAGGTAATAATCAAATGACGA
11878718 TAGGTAATAATCAAATGACGA
1 TAGGTAATAATCAAATGACGA
11878739 GTATTCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.24
Consensus pattern (21 bp):
TAGGTAATAATCAAATGACGA
Found at i:11883030 original size:3 final size:3
Alignment explanation
Indices: 11883024--11883058 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11883014 AATAATACTA
11883024 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11883059 ATTTATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11884358 original size:2 final size:2
Alignment explanation
Indices: 11884351--11884385 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
11884341 TGAACATTTC
* *
11884351 TA TA TA TA TA CA TA TA TA TA TA TA TA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11884386 TTTTCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:11885287 original size:29 final size:29
Alignment explanation
Indices: 11885254--11885313 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
11885244 AAAGTTCACT
11885254 CTACCATTTTCTACTGCTATTGAGGTAAC
1 CTACCATTTTCTACTGCTATTGAGGTAAC
11885283 CTACCATTTTCTACTGCTATTGAGGTAAC
1 CTACCATTTTCTACTGCTATTGAGGTAAC
11885312 CT
1 CT
11885314 GTGTGGCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
CTACCATTTTCTACTGCTATTGAGGTAAC
Found at i:11887515 original size:24 final size:24
Alignment explanation
Indices: 11887482--11887528 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11887472 TATAAAATAC
*
11887482 GCCACAAAGGTATTTACAGGATAT
1 GCCACAAAGGCATTTACAGGATAT
*
11887506 GCCACCAAGGCATTTACAGGATA
1 GCCACAAAGGCATTTACAGGATA
11887529 AATCGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
GCCACAAAGGCATTTACAGGATAT
Found at i:11896379 original size:18 final size:18
Alignment explanation
Indices: 11896356--11896406 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
11896346 CACAGCCTGG
11896356 CCACACGGGCGTGTGTAC
1 CCACACGGGCGTGTGTAC
*
11896374 CCACACGGGCTTGTGTAC
1 CCACACGGGCGTGTGTAC
11896392 CCACACGGGCGTGTG
1 CCACACGGGCGTGTG
11896407 AAATCTCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (18 bp):
CCACACGGGCGTGTGTAC
Found at i:11896948 original size:20 final size:19
Alignment explanation
Indices: 11896899--11896959 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
11896889 TTAATATAAA
*
11896899 TAAATATTATTAAATTATTTT
1 TAAATATT-TTAAA-TATATT
** *
11896920 TGTATATTTTTAATAGTATT
1 TAAATATTTTAAATA-TATT
11896940 TAAATATTTTAAATATATT
1 TAAATATTTTAAATATATT
11896959 T
1 T
11896960 TATTTTATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 7 0.22
20 19 0.59
21 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TAAATATTTTAAATATATT
Found at i:11897152 original size:44 final size:44
Alignment explanation
Indices: 11897101--11897191 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
11897091 AAAACATTTG
11897101 AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
1 AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
11897145 AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
1 AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
11897189 AAA
1 AAA
11897192 AAGAGAAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (44 bp):
AAATAATATAATAAAATTAAAATAATTAAAAGCTAACAACTAAT
Found at i:11899141 original size:42 final size:42
Alignment explanation
Indices: 11899040--11899221 Score: 199
Period size: 42 Copynumber: 4.4 Consensus size: 42
11899030 AAACGGCCAG
* * *
11899040 GGACATGAGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAA
1 GGACATGGGCGTGTGCCCAAGCTGTGTGAGCCACACGGGCAA
* * *
11899082 -GACATGGGCGCGTGCCCAAGCTGTGTGATCCACACAGGCAA
1 GGACATGGGCGTGTGCCCAAGCTGTGTGAGCCACACGGGCAA
* * * * *
11899123 GGACATGGGCATGTGCCC-AGTTCATGTGAGACACACGGGTAA
1 GGACATGGGCGTGTGCCCAAGCT-GTGTGAGCCACACGGGCAA
* * *
11899165 GGACATGGGTGTGTGCCCAGGCTGTGTAAGCCACACGGGTC-A
1 GGACATGGGCGTGTGCCCAAGCTGTGTGAGCCACACGGG-CAA
11899207 GGACATGGGCGTGTG
1 GGACATGGGCGTGTG
11899222 TCCAGGTCGT
Statistics
Matches: 113, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 38 0.34
42 73 0.65
43 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.37, T:0.16
Consensus pattern (42 bp):
GGACATGGGCGTGTGCCCAAGCTGTGTGAGCCACACGGGCAA
Found at i:11899210 original size:84 final size:83
Alignment explanation
Indices: 11899040--11899227 Score: 225
Period size: 84 Copynumber: 2.3 Consensus size: 83
11899030 AAACGGCCAG
* * *
11899040 GGACATGAGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGACATGGGCGCGTGCCCAAGCTG
1 GGACATGGGCGTGTGCCCAGGCCATGTGAGACACACGGGCAAGACATGGGCGCGTGCCCAAGCTG
* *
11899105 TGTGATCCACACAGGCAA
66 TGTAAGCCACACAGGCAA
* ** * * * *
11899123 GGACATGGGCATGTGCCCAGTTCATGTGAGACACACGGGTAAGGACATGGGTGTGTGCCCAGGCT
1 GGACATGGGCGTGTGCCCAGGCCATGTGAGACACACGGGCAA-GACATGGGCGCGTGCCCAAGCT
*
11899188 GTGTAAGCCACACGGGTC-A
65 GTGTAAGCCACACAGG-CAA
*
11899207 GGACATGGGCGTGTGTCCAGG
1 GGACATGGGCGTGTGCCCAGG
11899228 TCGTGTAACT
Statistics
Matches: 87, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
83 35 0.40
84 51 0.59
85 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.37, T:0.16
Consensus pattern (83 bp):
GGACATGGGCGTGTGCCCAGGCCATGTGAGACACACGGGCAAGACATGGGCGCGTGCCCAAGCTG
TGTAAGCCACACAGGCAA
Found at i:11900146 original size:10 final size:10
Alignment explanation
Indices: 11900131--11900185 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
11900121 ACATACATAC
*
11900131 TCTGTTCTGT
1 TCTGTTATGT
*
11900141 TCTGTTTTGT
1 TCTGTTATGT
11900151 T-TGTTATGT
1 TCTGTTATGT
* *
11900160 TCTGCTATAT
1 TCTGTTATGT
*
11900170 TCGGTTATGT
1 TCTGTTATGT
11900180 TCTGTT
1 TCTGTT
11900186 TGAATTGCGT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
9 8 0.22
10 28 0.78
ACGTcount: A:0.07, C:0.13, G:0.20, T:0.60
Consensus pattern (10 bp):
TCTGTTATGT
Found at i:11903547 original size:3 final size:3
Alignment explanation
Indices: 11903539--11903566 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11903529 TACTGATTTT
11903539 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11903567 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:11919783 original size:22 final size:22
Alignment explanation
Indices: 11919753--11919802 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
11919743 GAAAAGTGAA
11919753 ATTTGTAGGAATATTCTGTAAAT
1 ATTT-TAGGAATATTCTGTAAAT
* *
11919776 ATTTTAGGAATATTTTGTAGAT
1 ATTTTAGGAATATTCTGTAAAT
11919798 ATTTT
1 ATTTT
11919803 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (22 bp):
ATTTTAGGAATATTCTGTAAAT
Found at i:11923527 original size:22 final size:22
Alignment explanation
Indices: 11923499--11923543 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11923489 AGGGGGAGTG
11923499 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
11923521 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
11923543 T
1 T
11923544 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:11928324 original size:13 final size:13
Alignment explanation
Indices: 11928306--11928330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11928296 TTAATTTAAG
11928306 AATATTTTTAAAA
1 AATATTTTTAAAA
11928319 AATATTTTTAAA
1 AATATTTTTAAA
11928331 CTAATTCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTTTTAAAA
Found at i:11950095 original size:50 final size:50
Alignment explanation
Indices: 11949997--11950145 Score: 133
Period size: 50 Copynumber: 3.0 Consensus size: 50
11949987 ATATATATAT
** * * * *
11949997 ATACATACCTATGTGGCCGAATTTACAA-GTTCAAT-TGGAACACCACATAA
1 ATACATACCTATAAGACCGAATATACAAGGTTCAATAT--ATCATCACATAA
* * ** * *
11950047 ATACTTACCTATATGACCGGTTATACCAA-GTTCATTATATCATTACATAA
1 ATACATACCTATAAGACCGAATATA-CAAGGTTCAATATATCATCACATAA
*
11950097 GTACATACCTATAAGACCGAATATACAAGGTTCAATATATCATCACATA
1 ATACATACCTATAAGACCGAATATACAAGGTTCAATATATCATCACATA
11950146 TGGCTGATTA
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
49 3 0.04
50 66 0.84
51 9 0.11
52 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (50 bp):
ATACATACCTATAAGACCGAATATACAAGGTTCAATATATCATCACATAA
Found at i:11950167 original size:36 final size:36
Alignment explanation
Indices: 11950116--11950238 Score: 144
Period size: 35 Copynumber: 3.5 Consensus size: 36
11950106 TATAAGACCG
** **
11950116 AATATACAAGGTTCAATATATCATCACATATGGCTG
1 AATATACAAAATTCAATATATCATCACATATGGCCA
* **
11950152 ATTATACAAAATTCAATATATTC-TCACATATAACCA
1 AATATACAAAATTCAATATA-TCATCACATATGGCCA
*
11950188 AATATAC-AAATTCAATATATCATCACATATGGTCA
1 AATATACAAAATTCAATATATCATCACATATGGCCA
11950223 AATATAC-AAATTCAAT
1 AATATACAAAATTCAAT
11950239 TGATGTGCGT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.03
35 38 0.51
36 32 0.43
37 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.32
Consensus pattern (36 bp):
AATATACAAAATTCAATATATCATCACATATGGCCA
Found at i:11960037 original size:39 final size:42
Alignment explanation
Indices: 11959991--11960085 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
11959981 CACCAGCATA
11959991 AAGCCTGCTAGGCAT-AGGTCTGA-A-TCACACACCGGCAC-
1 AAGCCTGCTAGGCATAAGGTCTGATATTCACACACCGGCACT
* * * **
11960029 AAGGCCTGCTAGACCTAAGGTCTGATATTTATTCACCGGCACT
1 AA-GCCTGCTAGGCATAAGGTCTGATATTCACACACCGGCACT
11960072 AAGCCTGCTAGGCA
1 AAGCCTGCTAGGCA
11960086 CAAAGCCCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
38 2 0.04
39 11 0.24
40 8 0.18
41 1 0.02
42 21 0.47
43 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.21
Consensus pattern (42 bp):
AAGCCTGCTAGGCATAAGGTCTGATATTCACACACCGGCACT
Found at i:11960509 original size:11 final size:10
Alignment explanation
Indices: 11960467--11960505 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
11960457 TGAGCACTAC
11960467 TATATTTTAT
1 TATATTTTAT
*
11960477 TATATGTT-T
1 TATATTTTAT
11960486 TATATTTTTAT
1 TATA-TTTTAT
11960497 TATATTTTA
1 TATATTTTA
11960506 ATTAATTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 5 0.20
10 15 0.60
11 5 0.20
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (10 bp):
TATATTTTAT
Found at i:11962704 original size:84 final size:84
Alignment explanation
Indices: 11962575--11962771 Score: 227
Period size: 84 Copynumber: 2.3 Consensus size: 84
11962565 TTGTGTTTAC
* * * * * * ** *
11962575 TTTCCATTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTTTGTTCAGTTC-TATTGAGC
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTGAACCCATATGAGTTTTTGTTCAACTCTTA-CGAGC
*
11962639 TTCTGTTTAACCCTTATAGG
65 TTCTGTTCAACCCTTATAGG
* *
11962659 TTTCCGTTCAGCTC-TATTGAGCTTCTGTTGAACCCTTATGGGTTTTTGTTCAACTCTTACGAGC
1 TTTCCGTTCAGCTCTTA-TGAGCTTCTGTTGAACCCATATGAGTTTTTGTTCAACTCTTACGAGC
*
11962723 TTCTGTTCAACCCTTATTGG
65 TTCTGTTCAACCCTTATAGG
* *
11962743 TTTCTGTTTAGCTCTTATGAGCTTCTGTT
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTT
11962772 CACCTTTCGG
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
83 1 0.01
84 90 0.95
85 4 0.04
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (84 bp):
TTTCCGTTCAGCTCTTATGAGCTTCTGTTGAACCCATATGAGTTTTTGTTCAACTCTTACGAGCT
TCTGTTCAACCCTTATAGG
Found at i:11962717 original size:21 final size:21
Alignment explanation
Indices: 11962639--11962773 Score: 83
Period size: 21 Copynumber: 6.4 Consensus size: 21
11962629 TCTATTGAGC
* *
11962639 TTCTGTTTAACCCTTATAGGT
1 TTCTGTTCAACCCTTATGGGT
* * * * *
11962660 TTCCGTTCAGCTC-TATTGAGC
1 TTCTGTTCAACCCTTA-TGGGT
*
11962681 TTCTGTTGAACCCTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
* * * * *
11962702 TTTTGTTCAACTCTTACGAGC
1 TTCTGTTCAACCCTTATGGGT
*
11962723 TTCTGTTCAACCCTTATTGGT
1 TTCTGTTCAACCCTTATGGGT
* * * * *
11962744 TTCTGTTTAGCTCTTATGAGC
1 TTCTGTTCAACCCTTATGGGT
11962765 TTCTGTTCA
1 TTCTGTTCA
11962774 CCTTTCGGGC
Statistics
Matches: 80, Mismatches: 32, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
20 2 0.03
21 76 0.95
22 2 0.03
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTGTTCAACCCTTATGGGT
Found at i:11962772 original size:42 final size:42
Alignment explanation
Indices: 11962584--11962773 Score: 188
Period size: 42 Copynumber: 4.5 Consensus size: 42
11962574 CTTTCCATTT
* * * * * *
11962584 AGCTCTCACGAGCTTCTGTTTAACTCATA-TGAGTTTTTGTTC
1 AGCTCTTATGAGCTTCTGTTCAACCCTTATTG-GTTTCTGTTC
* * * *
11962626 AGTTC-TATTGAGCTTCTGTTTAACCCTTATAGGTTTCCGTTC
1 AGCTCTTA-TGAGCTTCTGTTCAACCCTTATTGGTTTCTGTTC
* * *
11962668 AGCTC-TATTGAGCTTCTGTTGAACCCTTATGGGTTTTTGTTC
1 AGCTCTTA-TGAGCTTCTGTTCAACCCTTATTGGTTTCTGTTC
* * *
11962710 AACTCTTACGAGCTTCTGTTCAACCCTTATTGGTTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTCAACCCTTATTGGTTTCTGTTC
11962752 AGCTCTTATGAGCTTCTGTTCA
1 AGCTCTTATGAGCTTCTGTTCA
11962774 CCTTTCGGGC
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 120 0.97
43 3 0.02
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCTGTTCAACCCTTATTGGTTTCTGTTC
Found at i:11965291 original size:33 final size:33
Alignment explanation
Indices: 11965254--11965501 Score: 187
Period size: 33 Copynumber: 7.6 Consensus size: 33
11965244 TACCCAAATG
* ** *
11965254 GTACAACTTGAAAAGGTTATGTACACTTTTTGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * *
11965287 GTA-CACTAGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * * *
11965319 ATACCA-TATGAAAAGGAAATGTATACTCTGTGA
1 GTACCACT-TGAAAAGGAAATGTACACTTTGTGT
* * * *
11965352 ATACCACTTGAAAAGGAAAGGTACACTATATGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
** * *
11965385 GTA-CACTTGAAAAGGTTATGTGCACTTTGAGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * ** *
11965417 GTACAAATTGAAAAGGGTATGTACACTTCGTGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * * * *
11965450 GTACCACTTGAAAAGGGAATGTGCACCTCGAGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* *
11965483 GTACAACTAGAAAAGGAAA
1 GTACCACTTGAAAAGGAAA
11965502 AGTCCATCGA
Statistics
Matches: 171, Mismatches: 40, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
32 50 0.29
33 120 0.70
34 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (33 bp):
GTACCACTTGAAAAGGAAATGTACACTTTGTGT
Found at i:11965412 original size:98 final size:98
Alignment explanation
Indices: 11965254--11965501 Score: 216
Period size: 98 Copynumber: 2.5 Consensus size: 98
11965244 TACCCAAATG
* ** * * * * *
11965254 GTACAACTTGAAAAGGTTATGTACACTTTTTGTGTACACTAGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGAAAGGTACACTATATGTGTACACTAGAAAAGGAAAGGTACACTTTGAGT
* *
11965319 ATAC-CATATGAAAAGGAAATGTATAC-TC-TGT
66 ATACAAAT-TGAAAAGGAAATGTACACTTCGTGT
* ** * *
11965350 GAATACCACTTGAAAAGGAAAGGTACACTATATGTGTACACTTGAAAAGGTTATGTGCACTTTGA
1 G--TACCACTTGAAAAGGAAAGGTACACTATATGTGTACACTAGAAAAGGAAAGGTACACTTTGA
* **
11965415 GTGTACAAATTGAAAAGGGTATGTACACTTCGTGT
64 GTATACAAATTGAAAAGGAAATGTACACTTCGTGT
* * * **
11965450 GTACCACTTGAAAAGGGAATGTGCACCTCGA-GTGTACAACTAGAAAAGGAAA
1 GTACCACTTGAAAAGGAAAGGTACA-CTATATGTGTAC-ACTAGAAAAGGAAA
11965502 AGTCCATCGA
Statistics
Matches: 119, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
96 1 0.01
98 96 0.81
99 18 0.15
100 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (98 bp):
GTACCACTTGAAAAGGAAAGGTACACTATATGTGTACACTAGAAAAGGAAAGGTACACTTTGAGT
ATACAAATTGAAAAGGAAATGTACACTTCGTGT
Found at i:11969051 original size:17 final size:20
Alignment explanation
Indices: 11969031--11969072 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11969021 TATACATATT
11969031 TTGTA-AAGA-TGA-AATGC
1 TTGTACAAGAGTGAGAATGC
11969048 TTGTACAAGAGTGATGAATGC
1 TTGTACAAGAGTGA-GAATGC
11969069 TTGT
1 TTGT
11969073 TGTAATCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 3 0.14
21 9 0.43
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (20 bp):
TTGTACAAGAGTGAGAATGC
Found at i:11973093 original size:31 final size:31
Alignment explanation
Indices: 11973058--11973137 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
11973048 AACTACACCA
* * * *
11973058 TTAGTCACTAAATTATTGGTAAGTTTTCATT
1 TTAGTCACTAAACTATTCGAAAGTCTTCATT
*
11973089 TTAGTCACTGAACTATTCGAAAGTCTTCATT
1 TTAGTCACTAAACTATTCGAAAGTCTTCATT
* * *
11973120 TAAGTCATTGAACTATTC
1 TTAGTCACTAAACTATTC
11973138 AAAAAATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (31 bp):
TTAGTCACTAAACTATTCGAAAGTCTTCATT
Found at i:11973152 original size:31 final size:30
Alignment explanation
Indices: 11973081--11973164 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
11973071 TATTGGTAAG
* * *
11973081 TTTTCATTTTAGTCACTGAACTATTCGAAAG
1 TTTT-ATTTAAGTCACTGAACTATTCAAAAA
* *
11973112 TCTTCATTTAAGTCATTGAACTATTCAAAAAA
1 T-TTTATTTAAGTCACTGAACTATTC-AAAAA
11973144 TTTTATTTAAGTCACTGAACT
1 TTTTATTTAAGTCACTGAACT
11973165 GTTAAGTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 38 0.86
32 6 0.14
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (30 bp):
TTTTATTTAAGTCACTGAACTATTCAAAAA
Found at i:11977399 original size:49 final size:48
Alignment explanation
Indices: 11977301--11977434 Score: 187
Period size: 49 Copynumber: 2.8 Consensus size: 48
11977291 ATCTCAATCG
* * * *
11977301 AAGTACCTATACCATGGCTCGAAACCAAATTAAGGTAACTTATCCCTA
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCTA
* * *
11977349 AAGTAACTATACCATGGCCCTGTAGCCAAATCAAGGTAACTCATCTCTA
1 AAGTACCTATACCATGGCCC-GAAGCCAAATCAAGGTAACTCATCCCTA
*
11977398 AAATACCTATACCATGGCCCGAAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTA
11977435 TAATTCACAC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
48 34 0.45
49 41 0.55
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.22
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCTA
Found at i:11978293 original size:42 final size:42
Alignment explanation
Indices: 11978241--11978324 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
11978231 GCAAGTGTCA
*
11978241 AACCCTAAAACTCAATCAAAGGCTTTCTTGTTCATCAATATT
1 AACCCTAAAACTCAATCAAAGGCTTTCTTCTTCATCAATATT
* *
11978283 AACCTTAAAACTCAATCAAAGGCTTTTTTCTTCATCAATATT
1 AACCCTAAAACTCAATCAAAGGCTTTCTTCTTCATCAATATT
11978325 CGGCCAAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (42 bp):
AACCCTAAAACTCAATCAAAGGCTTTCTTCTTCATCAATATT
Found at i:11979855 original size:40 final size:40
Alignment explanation
Indices: 11979747--11979887 Score: 144
Period size: 40 Copynumber: 3.5 Consensus size: 40
11979737 ACTTCGAGTT
* * *
11979747 GATGAGACACTGGGTGTCACATTATTACTTCGAATTAATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCG-ATTTATCC
* * *
11979788 GATGAGGAAAACTGGGTGTC-AA-T-TTACTTCGGTTTAGCC
1 GATGA-G-ACACTGGGTGTCAAATTATTACTTCGATTTATCC
* *
11979827 GATGAGACATTGGGTGTCAAATTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGATTTATCC
* *
11979867 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
11979888 CTGGTGTGTT
Statistics
Matches: 81, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
37 10 0.12
38 3 0.04
39 10 0.12
40 39 0.48
41 6 0.07
42 2 0.02
43 11 0.14
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGATTTATCC
Found at i:11982349 original size:34 final size:34
Alignment explanation
Indices: 11982306--11982378 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
11982296 AAAACGAAGG
*
11982306 TGACATGTTGGTAAGTGTGGTAAATGAGAAAATT
1 TGACATGTTGGTAAGTGTGGTAAATAAGAAAATT
11982340 TGACATGTTGGTAAGTGTGGTAAATAAGAAAATT
1 TGACATGTTGGTAAGTGTGGTAAATAAGAAAATT
11982374 TGACA
1 TGACA
11982379 GGTATGTGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (34 bp):
TGACATGTTGGTAAGTGTGGTAAATAAGAAAATT
Found at i:11984147 original size:43 final size:43
Alignment explanation
Indices: 11984098--11984235 Score: 140
Period size: 43 Copynumber: 3.2 Consensus size: 43
11984088 ATCTCGGACG
* *
11984098 CGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACA
1 CGGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACA
* * *
11984141 GGGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAGACA
1 CGGTCTTACACGTAATTCA-ATATCGATGCCTATGTCCCAGACA
* * * *
11984183 TGGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACA
1 CGGTCTTACACGT-AAT-TCAATATCGATGCCTATGTCCCAGACA
11984226 CGGTCTTACA
1 CGGTCTTACA
11984236 TGATGTCTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 34 0.44
43 39 0.51
44 2 0.03
45 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (43 bp):
CGGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACA
Found at i:11993186 original size:13 final size:13
Alignment explanation
Indices: 11993170--11993195 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11993160 AGATTTAAAT
11993170 ATTAAATTTATTA
1 ATTAAATTTATTA
11993183 ATTAAATTTATTA
1 ATTAAATTTATTA
11993196 GAAAAAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAAATTTATTA
Found at i:11996170 original size:23 final size:23
Alignment explanation
Indices: 11996142--11996185 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11996132 ATTGTTGAGC
* *
11996142 TTGATATATCTCTTCACTTTTGT
1 TTGATATAACTCTTCAATTTTGT
11996165 TTGATATAACTCTTCAATTTT
1 TTGATATAACTCTTCAATTTT
11996186 TAAATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.55
Consensus pattern (23 bp):
TTGATATAACTCTTCAATTTTGT
Found at i:11999094 original size:15 final size:16
Alignment explanation
Indices: 11999071--11999104 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11999061 ATTGAAAATA
11999071 TTAAATTTT-AATGAT
1 TTAAATTTTCAATGAT
*
11999086 TTAATTTTTCAATGAT
1 TTAAATTTTCAATGAT
11999102 TTA
1 TTA
11999105 TCAAGGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (16 bp):
TTAAATTTTCAATGAT
Found at i:11999656 original size:25 final size:24
Alignment explanation
Indices: 11999628--11999694 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 24
11999618 ACAGTTTTAA
11999628 TTAATAATAATTTTAAATAATATT
1 TTAATAATAATTTTAAATAATATT
*
11999652 CTTAAT-A-AATATTAAA-AATATT
1 -TTAATAATAATTTTAAATAATATT
*
11999674 TATATTAAT-ATTTT-AATAATA
1 T-TAATAATAATTTTAAATAATA
11999695 CAATTTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
21 1 0.03
22 11 0.31
23 17 0.49
24 1 0.03
25 5 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAATAATAATTTTAAATAATATT
Found at i:11999657 original size:22 final size:22
Alignment explanation
Indices: 11999632--11999673 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11999622 TTTTAATTAA
*
11999632 TAAT-AATTTTAAATAATATTCT
1 TAATAAATATTAAA-AATATTCT
11999654 TAATAAATATTAAAAATATT
1 TAATAAATATTAAAAATATT
11999674 TATATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAAATATTAAAAATATTCT
Found at i:12004537 original size:16 final size:16
Alignment explanation
Indices: 12004518--12004553 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12004508 AAATTAAAAA
* *
12004518 AAAAACAAAATAAATC
1 AAAAACAAAAAAAACC
12004534 AAAAACAAAAAAAACC
1 AAAAACAAAAAAAACC
12004550 AAAA
1 AAAA
12004554 TAGAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACAAAAAAAACC
Found at i:12012402 original size:19 final size:19
Alignment explanation
Indices: 12012319--12012385 Score: 116
Period size: 19 Copynumber: 3.5 Consensus size: 19
12012309 AGGGAAATCT
12012319 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
12012338 AATGCAAATGATGCAATGT
1 AATGCAAATGATGCAATGC
*
12012357 AATGTAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
12012376 AATGCAAATG
1 AATGCAAATG
12012386 CATGGGATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:12016214 original size:10 final size:10
Alignment explanation
Indices: 12016199--12016233 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
12016189 CCTTATTATA
12016199 ATATATATGT
1 ATATATATGT
12016209 ATATATATGT
1 ATATATATGT
12016219 ATATGATAATGT
1 ATAT-AT-ATGT
12016231 ATA
1 ATA
12016234 AAAAGAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.61
11 2 0.09
12 7 0.30
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (10 bp):
ATATATATGT
Found at i:12017337 original size:12 final size:12
Alignment explanation
Indices: 12017302--12017340 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
12017292 TATTTTTCGT
12017302 TCTTTTTCTTTGC
1 TCTTTTT-TTTGC
*
12017315 TGCTGTTTTTTGC
1 T-CTTTTTTTTGC
12017328 TCTTTTTTTTGC
1 TCTTTTTTTTGC
12017340 T
1 T
12017341 TGTCCTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 11 0.48
13 7 0.30
14 5 0.22
ACGTcount: A:0.00, C:0.18, G:0.13, T:0.69
Consensus pattern (12 bp):
TCTTTTTTTTGC
Found at i:12018803 original size:17 final size:18
Alignment explanation
Indices: 12018781--12018814 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12018771 AATTGGGCCT
12018781 TGTGGG-CCACATGGGTG
1 TGTGGGCCCACATGGGTG
12018798 TGTGGGCCCACATGGGT
1 TGTGGGCCCACATGGGT
12018815 AAACCACACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.12, C:0.21, G:0.44, T:0.24
Consensus pattern (18 bp):
TGTGGGCCCACATGGGTG
Found at i:12023678 original size:3 final size:3
Alignment explanation
Indices: 12023670--12023718 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
12023660 TGTTAAAGGT
12023670 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12023718 A
1 A
12023719 AGGTAAATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12024908 original size:22 final size:22
Alignment explanation
Indices: 12024880--12024923 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
12024870 TTAATTTGTA
12024880 GATACCCTTTAATCTTACCAGT
1 GATACCCTTTAATCTTACCAGT
12024902 GATACCCTTTAATCTTACCAGT
1 GATACCCTTTAATCTTACCAGT
12024924 TGGTGTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (22 bp):
GATACCCTTTAATCTTACCAGT
Found at i:12027217 original size:25 final size:25
Alignment explanation
Indices: 12027189--12027283 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
12027179 CTCTTTTAAT
*
12027189 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGGTA
* *
12027214 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
12027239 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
12027264 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
12027284 GCACTTCTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:12027444 original size:25 final size:25
Alignment explanation
Indices: 12027416--12027473 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
12027406 ATAATTAAAC
12027416 CCTAGGGGTACAATGGTCATTTTTA
1 CCTAGGGGTACAATGGTCATTTTTA
12027441 CCTAGGGGTACAATGGTCATTTTTA
1 CCTAGGGGTACAATGGTCATTTTTA
12027466 CCTAGGGG
1 CCTAGGGG
12027474 CAAAACAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (25 bp):
CCTAGGGGTACAATGGTCATTTTTA
Found at i:12027484 original size:25 final size:25
Alignment explanation
Indices: 12027431--12027488 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
12027421 GGGTACAATG
* * **
12027431 GTCATTTTTACCTAGGGGTACAATG
1 GTCATTTTTACCTAGGGGCAAAACA
12027456 GTCATTTTTACCTAGGGGCAAAACA
1 GTCATTTTTACCTAGGGGCAAAACA
12027481 GTCATTTT
1 GTCATTTT
12027489 CATATTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (25 bp):
GTCATTTTTACCTAGGGGCAAAACA
Found at i:12033884 original size:26 final size:24
Alignment explanation
Indices: 12033854--12033902 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
12033844 AATAAAAAAT
*
12033854 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
12033880 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
12033903 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:12034557 original size:41 final size:43
Alignment explanation
Indices: 12034512--12034625 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
12034502 TGTGTTATGG
* * * *
12034512 TGTAAGACCACGCCTAGGACATTGGCATC-A-ATTTGATTTCT
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
*
12034553 TGTAAGACC-CGATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCACG-TCTGGGACATTGGCATCGATATTTGATTACA
* *
12034596 TGTAACACCACGTCTGGGACATTGGTATCG
1 TGTAAGACCACGTCTGGGACATTGGCATCG
12034626 TACGAGATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
40 2 0.03
41 23 0.38
42 1 0.02
43 33 0.54
44 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:12050546 original size:23 final size:23
Alignment explanation
Indices: 12050528--12050581 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
12050518 GGTATACACG
12050528 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* **
12050551 TACATAATAATAATA-ATGGTAA
1 TACATAATAAAAATATATACTAA
12050573 TAC-TAATAA
1 TACATAATAA
12050582 TACTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:12050562 original size:3 final size:3
Alignment explanation
Indices: 12050531--12050601 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
12050521 ATACACGTAC
* * * * *
12050531 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
12050578 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
12050602 CAAGGATATT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:12051240 original size:17 final size:17
Alignment explanation
Indices: 12051186--12051242 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
12051176 AAAAATATAT
* **
12051186 TTTTTTATTTTTTTCTA
1 TTTTTTATGTTTTAATA
*
12051203 TTTTTTATG-CTTAATA
1 TTTTTTATGTTTTAATA
* *
12051219 GTTTTTATGTTTTGATA
1 TTTTTTATGTTTTAATA
12051236 TTTTTTA
1 TTTTTTA
12051243 GTATTTTTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.72
Consensus pattern (17 bp):
TTTTTTATGTTTTAATA
Found at i:12055386 original size:20 final size:20
Alignment explanation
Indices: 12055352--12055391 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12055342 CTATTCAGAC
* *
12055352 AATATTATTTAAATAGTTAT
1 AATATTATATAAATAATTAT
*
12055372 AATATTATATGAATAATTAT
1 AATATTATATAAATAATTAT
12055392 TTGTCTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
AATATTATATAAATAATTAT
Found at i:12056822 original size:34 final size:34
Alignment explanation
Indices: 12056775--12056845 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
12056765 ACAAATATAT
12056775 GATTAAAAACAATACTATCATATATTAGTTATCA
1 GATTAAAAACAATACTATCATATATTAGTTATCA
*
12056809 GATTAAAACCAATACTATCATATATTAGTTATCA
1 GATTAAAAACAATACTATCATATATTAGTTATCA
12056843 GAT
1 GAT
12056846 CAATTGTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (34 bp):
GATTAAAAACAATACTATCATATATTAGTTATCA
Found at i:12063050 original size:8 final size:8
Alignment explanation
Indices: 12063030--12063066 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
12063020 CTAAATTTAT
12063030 ATTTTTCA
1 ATTTTTCA
12063038 A-TTTTCA
1 ATTTTTCA
12063045 ATTTTTCA
1 ATTTTTCA
12063053 ATTTTTCA
1 ATTTTTCA
12063061 ATTTTT
1 ATTTTT
12063067 TAAATTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (8 bp):
ATTTTTCA
Found at i:12063080 original size:23 final size:24
Alignment explanation
Indices: 12063054--12063105 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
12063044 AATTTTTCAA
* *
12063054 TTTTTCAATTTTTTAA-ATTAAAC
1 TTTTTCAATTTCTAAACATTAAAC
*
12063077 TTTTTCAATTTCTAAACATTAAGC
1 TTTTTCAATTTCTAAACATTAAAC
12063101 TTTTT
1 TTTTT
12063106 TTAGCTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTTCAATTTCTAAACATTAAAC
Found at i:12063136 original size:16 final size:16
Alignment explanation
Indices: 12063115--12063147 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12063105 TTTAGCTATT
12063115 TTTTTGAAATTTT-AAA
1 TTTTTG-AATTTTGAAA
12063131 TTTTTGAATTTTGAAA
1 TTTTTGAATTTTGAAA
12063147 T
1 T
12063148 AAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (16 bp):
TTTTTGAATTTTGAAA
Found at i:12063298 original size:11 final size:11
Alignment explanation
Indices: 12063282--12063307 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12063272 TTTATATATA
12063282 TATTTTTAAAT
1 TATTTTTAAAT
12063293 TATTTTTAAAT
1 TATTTTTAAAT
12063304 TATT
1 TATT
12063308 ATTTTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTTAAAT
Found at i:12071905 original size:176 final size:176
Alignment explanation
Indices: 12071611--12071966 Score: 676
Period size: 176 Copynumber: 2.0 Consensus size: 176
12071601 CTCTTCACTT
*
12071611 TATAACTCTTTTGGCTTAATTTTTTTCGAAAAAATGAGCTCCACAAAATTTGACTAAATTGAAGG
1 TATAACTCTTTTGGCTTAATTTTTTTCGAAAAAATGAGATCCACAAAATTTGACTAAATTGAAGG
12071676 TTTAAACATGTAATTATATCATATTAGGGAAGATTAGGATTGAAATTAAGGTTTAGAAATAAAAT
66 TTTAAACATGTAATTATATCATATTAGGGAAGATTAGGATTGAAATTAAGGTTTAGAAATAAAAT
12071741 TTGAGTGGTGAAATCATATTTTCGACAAAACTAGTTAAGTTTTCGG
131 TTGAGTGGTGAAATCATATTTTCGACAAAACTAGTTAAGTTTTCGG
*
12071787 TATAACTCTTTTGGCTTAATTTTTTTCGAAGAAATGAGATCCACAAAATTTGACTAAATTGAAGG
1 TATAACTCTTTTGGCTTAATTTTTTTCGAAAAAATGAGATCCACAAAATTTGACTAAATTGAAGG
*
12071852 TTTAAACATGTAATTATATCATATTAGGGAATATTAGGATTGAAATTAAGGTTTAGAAATAAAAT
66 TTTAAACATGTAATTATATCATATTAGGGAAGATTAGGATTGAAATTAAGGTTTAGAAATAAAAT
*
12071917 TTGAGTGGTGAAATCGTATTTTCGACAAAACTAGTTAAGTTTTCGG
131 TTGAGTGGTGAAATCATATTTTCGACAAAACTAGTTAAGTTTTCGG
12071963 TATA
1 TATA
12071967 GAGATCTAGA
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 176 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (176 bp):
TATAACTCTTTTGGCTTAATTTTTTTCGAAAAAATGAGATCCACAAAATTTGACTAAATTGAAGG
TTTAAACATGTAATTATATCATATTAGGGAAGATTAGGATTGAAATTAAGGTTTAGAAATAAAAT
TTGAGTGGTGAAATCATATTTTCGACAAAACTAGTTAAGTTTTCGG
Found at i:12074304 original size:40 final size:39
Alignment explanation
Indices: 12074259--12074390 Score: 124
Period size: 40 Copynumber: 3.4 Consensus size: 39
12074249 AGTTTGGCAT
* * *
12074259 CTAGTGCCTCGTCGGATAATTCGAAGTAATAGATTAACAC
1 CTAGTGCCTCATCGGATAATCCAAAGTAATA-ATTAACAC
* * * *
12074299 CTAGTGTCTCATCGGCTAAACCAAAGT-A-AATTAGCAC
1 CTAGTGCCTCATCGGATAATCCAAAGTAATAATTAACAC
* * *
12074336 CTAGTGCCTCATCGAATTAATCCAAAGTAGTAAATTGACAC
1 CTAGTGCCTCATCGGA-TAATCCAAAGTAAT-AATTAACAC
*
12074377 CTAGTGTCTCATCG
1 CTAGTGCCTCATCG
12074391 CCTCGAAGTC
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 20 0.27
38 11 0.15
39 1 0.01
40 21 0.29
41 20 0.27
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (39 bp):
CTAGTGCCTCATCGGATAATCCAAAGTAATAATTAACAC
Found at i:12084210 original size:13 final size:13
Alignment explanation
Indices: 12084192--12084218 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12084182 GCTATCTCCA
12084192 TGATGCTGCTAGT
1 TGATGCTGCTAGT
12084205 TGATGCTGCTAGT
1 TGATGCTGCTAGT
12084218 T
1 T
12084219 CTTACAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (13 bp):
TGATGCTGCTAGT
Found at i:12091838 original size:31 final size:31
Alignment explanation
Indices: 12091753--12091841 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
12091743 CAGCACAACG
*
12091753 GGTCACGCC-TAGGAAAGAGGC-GACACCCAAT
1 GGTCACGCCTTAGG-CAGAGGCAG-CACCCAAT
* * *
12091784 GGTCACGCCTTAGGCACAAGCAGCACCCACT
1 GGTCACGCCTTAGGCAGAGGCAGCACCCAAT
* *
12091815 GGTCACGCCTTTGGTAGAGGCAGCACC
1 GGTCACGCCTTAGGCAGAGGCAGCACC
12091842 ATCAGTCATG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 43 0.90
32 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.13
Consensus pattern (31 bp):
GGTCACGCCTTAGGCAGAGGCAGCACCCAAT
Found at i:12092286 original size:31 final size:31
Alignment explanation
Indices: 12092248--12092309 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
12092238 TAGTAGTGCT
* *
12092248 GCCAAAGTGATAGGCGGCACCACTTTGTCCA
1 GCCAAAGTGATAGGCGACACCACTTAGTCCA
*
12092279 GCCAAAGTGATAGGCGACACTACTTAGTCCA
1 GCCAAAGTGATAGGCGACACCACTTAGTCCA
12092310 TTCTGGTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.19
Consensus pattern (31 bp):
GCCAAAGTGATAGGCGACACCACTTAGTCCA
Found at i:12094840 original size:21 final size:21
Alignment explanation
Indices: 12094771--12094841 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
12094761 AAATTTAGAA
* *
12094771 AATTA-TGGTTGATTTTGATT
1 AATTATTGATTGACTTTGATT
* * * * *
12094791 CATTATTGACTGGCATTGGTT
1 AATTATTGATTGACTTTGATT
* *
12094812 GATGATTGATTGACTTTGATT
1 AATTATTGATTGACTTTGATT
12094833 AATTATTGA
1 AATTATTGA
12094842 CGGATGTTGA
Statistics
Matches: 35, Mismatches: 15, Indels: 1
0.69 0.29 0.02
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.48
Consensus pattern (21 bp):
AATTATTGATTGACTTTGATT
Found at i:12094896 original size:12 final size:11
Alignment explanation
Indices: 12094869--12094895 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12094859 TTAATTTTAG
12094869 TTTTTAAAATA
1 TTTTTAAAATA
12094880 TTTTTAAAATA
1 TTTTTAAAATA
12094891 TTTTT
1 TTTTT
12094896 TTTCTAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:12095090 original size:22 final size:20
Alignment explanation
Indices: 12095050--12095091 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
12095040 TTTCTTTTGG
*
12095050 ATTTTTTTGAATTTTTAGAA
1 ATTTTATTGAATTTTTAGAA
12095070 ATTTTATTGATATATTTTAGAA
1 ATTTTATTGA-AT-TTTTAGAA
12095092 GTTCCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (20 bp):
ATTTTATTGAATTTTTAGAA
Done.