Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 77 of 105
Found at i:13478086 original size:19 final size:18
Alignment explanation
Indices: 13478062--13478112 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
13478052 AACTAATGTA
*
13478062 AAAAAGAAAAACGAAAAAG
1 AAAAAGAAAAAAG-AAAAG
13478081 AAAAAGAAAGAAAGAAAAG
1 AAAAAGAAA-AAAGAAAAG
*
13478100 ATAAAGACAAAAA
1 AAAAAGA-AAAAA
13478113 TCAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAAAAGAAAAG
Found at i:13481898 original size:21 final size:20
Alignment explanation
Indices: 13481874--13481913 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13481864 TTCGTAAATC
*
13481874 TTTCAACTCATCTATCAATGG
1 TTTCAACT-ATATATCAATGG
*
13481895 TTTCAAGTATATATCAATG
1 TTTCAACTATATATCAATG
13481914 TCTTTTCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTCAACTATATATCAATGG
Found at i:13483760 original size:16 final size:16
Alignment explanation
Indices: 13483739--13483773 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
13483729 TTAATATGGT
13483739 AAAATAATATAATTTA
1 AAAATAATATAATTTA
13483755 AAAATAATATAATTTA
1 AAAATAATATAATTTA
13483771 AAA
1 AAA
13483774 TTTTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATAATATAATTTA
Found at i:13483786 original size:18 final size:18
Alignment explanation
Indices: 13483759--13483793 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13483749 AATTTAAAAA
* *
13483759 TAATATAATTTAAAATTT
1 TAATAAAATTAAAAATTT
13483777 TAATAAAATTAAAAATT
1 TAATAAAATTAAAAATT
13483794 ATATTTCATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAAATTAAAAATTT
Found at i:13485796 original size:16 final size:16
Alignment explanation
Indices: 13485775--13485852 Score: 63
Period size: 16 Copynumber: 4.8 Consensus size: 16
13485765 GCCCAATTCA
13485775 ATTTTTATTTTATATT
1 ATTTTTATTTTATATT
13485791 ATTTTTATTTT-TATT
1 ATTTTTATTTTATATT
* *
13485806 -TTTTTCTTTTGTATT
1 ATTTTTATTTTATATT
*
13485821 -TTATGTATTTTATTATTT
1 ATT-TTTATTTTA-TA-TT
*
13485839 ATTATTATTATTAT
1 ATTTTTATT-TTAT
13485853 GTATTAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.18
15 10 0.20
16 17 0.34
17 2 0.04
18 7 0.14
19 5 0.10
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTTTATTTTATATT
Found at i:13485827 original size:9 final size:10
Alignment explanation
Indices: 13485815--13485868 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
13485805 TTTTTTCTTT
13485815 TGTATT-TTA
1 TGTATTATTA
13485824 TGTATT-TTA
1 TGTATTATTA
13485833 T-TATTTATTA
1 TGTA-TTATTA
13485843 T-TATTATTA
1 TGTATTATTA
13485852 TGTATTAATATA
1 TGTATT-AT-TA
13485864 TGTAT
1 TGTAT
13485869 ATCTTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.05
9 19 0.47
10 10 0.25
11 2 0.05
12 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (10 bp):
TGTATTATTA
Found at i:13485881 original size:4 final size:4
Alignment explanation
Indices: 13485872--13485958 Score: 52
Period size: 4 Copynumber: 20.5 Consensus size: 4
13485862 TATGTATATC
* *
13485872 TTTA TTTA TTTA TTTA TTTT TGTTA -ATA TTTA TATGTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA T-T-TA -TTTA TTTA
* * *
13485919 TATA GTTA TATA TTTA -TTA TTATA TTATAA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA TT
13485959 ATTCTTTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
3 5 0.08
4 41 0.63
5 12 0.18
6 6 0.09
7 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:13486083 original size:3 final size:3
Alignment explanation
Indices: 13486070--13486098 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
13486060 TGTTTATCTG
13486070 ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13486099 TATTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13486390 original size:12 final size:12
Alignment explanation
Indices: 13486373--13486402 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13486363 GTTAGCAAAA
13486373 TTTTTTGGAGAT
1 TTTTTTGGAGAT
*
13486385 TTTTTTGGCGAT
1 TTTTTTGGAGAT
13486397 TTTTTT
1 TTTTTT
13486403 TTTGGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.03, G:0.20, T:0.67
Consensus pattern (12 bp):
TTTTTTGGAGAT
Found at i:13486470 original size:19 final size:19
Alignment explanation
Indices: 13486434--13486470 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13486424 CAGATTCCGG
*
13486434 TTGAATTTTCCGACGAAGT
1 TTGAATTTTCCGAAGAAGT
*
13486453 TTGAATTTTTCGAAGAAG
1 TTGAATTTTCCGAAGAAG
13486471 ATTTTGGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (19 bp):
TTGAATTTTCCGAAGAAGT
Found at i:13486966 original size:13 final size:12
Alignment explanation
Indices: 13486946--13486982 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
13486936 TTTTTTTGAA
13486946 ATTTTTTTATTT
1 ATTTTTTTATTT
13486958 ATTTGTTTTATTT
1 ATTT-TTTTATTT
*
13486971 ATTTATTTATTT
1 ATTTTTTTATTT
13486983 TTATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:13486971 original size:17 final size:16
Alignment explanation
Indices: 13486946--13486984 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
13486936 TTTTTTTGAA
13486946 ATTTTTTTATTTATTT
1 ATTTTTTTATTTATTT
*
13486962 GTTTTATTTATTTATTT
1 ATTTT-TTTATTTATTT
13486979 ATTTTT
1 ATTTTT
13486985 ATTAAATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
ATTTTTTTATTTATTT
Found at i:13487051 original size:21 final size:22
Alignment explanation
Indices: 13487016--13487096 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 22
13487006 ATTTTTTATC
*
13487016 TTTATTTTATCTTTATTTTTGT
1 TTTACTTTATCTTTATTTTTGT
13487038 TTTACTTT-TCTTTA-TTTT-T
1 TTTACTTTATCTTTATTTTTGT
**
13487057 TTTATCTTTA--TTTATTTTCACT
1 TTTA-CTTTATCTTTATTTT-TGT
*
13487079 TTTATTTTAT-TTTATTTT
1 TTTACTTTATCTTTATTTT
13487097 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
19 9 0.18
20 11 0.22
21 10 0.20
22 20 0.40
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (22 bp):
TTTACTTTATCTTTATTTTTGT
Found at i:13487065 original size:36 final size:36
Alignment explanation
Indices: 13487010--13487101 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 36
13487000 TTTAATATTT
* *
13487010 TTTATCTTTATTTTATCTTTATTTTTGTTTTACTTTT-C
1 TTTAT-TTT-TTTTATCTTTATTTAT-TTTCACTTTTAC
*
13487048 TTTATTTTTTTTATCTTTATTTATTTTCACTTTTAT
1 TTTATTTTTTTTATCTTTATTTATTTTCACTTTTAC
*
13487084 TTTATTTTATTT-TCTTTA
1 TTTATTTTTTTTATCTTTA
13487102 AATAAAAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
35 15 0.31
36 26 0.53
37 3 0.06
38 5 0.10
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (36 bp):
TTTATTTTTTTTATCTTTATTTATTTTCACTTTTAC
Found at i:13487088 original size:5 final size:5
Alignment explanation
Indices: 13486996--13487096 Score: 75
Period size: 5 Copynumber: 19.6 Consensus size: 5
13486986 TTAAATTAGA
* * *
13486996 TTTAT TTAAT ATT-T TTTAT CTTTAT TTTAT CTTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT -TTTA-T TTTAT TTTA-T
*
13487044 TTT-C TTTAT TTT-T TTTAT CTTTA- TTTAT TTTCACT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTT-A-T TTTAT TTTAT
13487089 TTTAT TTT
1 TTTAT TTT
13487097 CTTTAAATAA
Statistics
Matches: 77, Mismatches: 8, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
4 14 0.18
5 36 0.47
6 22 0.29
7 5 0.06
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:13487183 original size:60 final size:60
Alignment explanation
Indices: 13487112--13487450 Score: 463
Period size: 59 Copynumber: 5.7 Consensus size: 60
13487102 AATAAAAATC
* * * *
13487112 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATGTCCA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCA
*
13487172 AAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC-
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCA
* * * *
13487231 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAAATTTCAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCA
** *
13487290 AAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC-
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCA
* *
13487349 AAAAAATA-TTTTGAGGAAAAGTCGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC--A
* * *
13487410 AAAAAAAAATTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
13487451 CTACACAAGA
Statistics
Matches: 245, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
58 53 0.22
59 96 0.39
60 60 0.24
61 7 0.03
62 29 0.12
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (60 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCA
Found at i:13487332 original size:118 final size:119
Alignment explanation
Indices: 13487110--13487450 Score: 510
Period size: 118 Copynumber: 2.9 Consensus size: 119
13487100 TAAATAAAAA
* * * *
13487110 TCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATGTCCAAAA
1 TCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATCAAAATTTCAAAAA
*
13487175 AAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT
66 AAAAATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT
13487229 TCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAAATTTCAAAAA
1 TCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATCAAAATTTCAAAAA
**
13487293 AAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT
66 AAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT
* * *
13487347 TCAAAAAATA-TTTTGAGGAAAAGTCGAAAGTATCAATTTT-TCTTGAAAATCAAAGTTTCCAAA
1 TCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCT-TTAAAAATCAAAATTT-C-AA
* *
13487410 AAAAAAAAATTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
63 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
13487451 CTACACAAGA
Statistics
Matches: 204, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
116 1 0.00
117 36 0.18
118 75 0.37
119 53 0.26
120 39 0.19
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (119 bp):
TCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATCAAAATTTCAAAAA
AAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT
Found at i:13488763 original size:16 final size:16
Alignment explanation
Indices: 13488739--13488773 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13488729 TAGAGAGCAT
*
13488739 AACAGAATAGAAACCA
1 AACAAAATAGAAACCA
*
13488755 AACAAAATAGAAATCA
1 AACAAAATAGAAACCA
13488771 AAC
1 AAC
13488774 TTCTATTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.17, G:0.09, T:0.09
Consensus pattern (16 bp):
AACAAAATAGAAACCA
Found at i:13490675 original size:238 final size:238
Alignment explanation
Indices: 13490263--13491232 Score: 962
Period size: 238 Copynumber: 4.1 Consensus size: 238
13490253 CAAAAAAAAA
* * * * * ** *
13490263 TCTCATCAAATTAATTTGACGATAAAAGTTTGTCACATTTATA-TTATTGTCATATAACA-T-CA
1 TCTCACCAAATAAATTTGACGGTAAAAATTTGTGACATTTA-AGTTATCATCATATAACACTATA
* * * * *
13490325 AA-TG---TGATGAAATTACGATGTCACTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAAT
65 AATTGACATGACGAAATTACAATGTCATTAATAGTTAACTAAAGTATTCAATTTATGACAAAAAT
* * * * * * *
13490386 TTATAATGTCACCTTAAAATTTATCA-AAAAAATTCATCATAGATAAAATTTTAAATTGGTGACA
130 TAATAACGTCACC-TAAAATCTATTAGAAAAAATTCATCACAAATAAAATTTTAAATTAGTGACA
* *
13490450 AAATTATAACATCATCTAAAATAAAAAAAATATCATAAAAAATTT
194 AAATTATAACGTCATCTAAAATAAAAAAAATATCACAAAAAATTT
* *
13490495 TCTCATCAAATAAATTTGACGGTAAAAATTTGTGACATTTAAGTTATCATCATATAACACTATAT
1 TCTCACCAAATAAATTTGACGGTAAAAATTTGTGACATTTAAGTTATCATCATATAACACTATAA
* *
13490560 ATTGACATGAC-AAAGTTGCAATGTCATTAATAATTAACTAAAGTATTCAATTTATGACAAAAAT
66 ATTGACATGACGAAA-TTACAATGTCATTAATAGTTAACTAAAGTATTCAATTTATGACAAAAAT
* *
13490624 TAATAACATCACCTAAAATCTATTAGAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACAA
130 TAATAACGTCACCTAAAATCTATTAGAAAAAATTCATCACAAATAAAATTTTAAATTAGTGACAA
* *
13490689 AATTATAACGTCAAT-TAAAAT--ACAAAATGTCACAAAAAATTT
195 AATTATAACGTC-ATCTAAAATAAAAAAAATATCACAAAAAATTT
* * * * * * *
13490731 T-TCACCAAATAAAATTAACAGTAAAAATTTGTGACATTTATGTTATCATAATATAATACCATAA
1 TCTCACCAAATAAATTTGACGGTAAAAATTTGTGACATTTAAGTTATCATCATATAACACTATAA
* * * * * *
13490795 AATAAAAGGTGACGAAATTATAATTTCATTAATAGTTAACTAAAGCATTTC-ATTTATGACAAAA
66 ATTGACA--TGACGAAATTACAATGTCATTAATAGTTAACTAAAGTA-TTCAATTTATGACAAAA
* *
13490859 ATTGATAACGTCACCTAAAATCTATTAGAAAAAATTCATTACAAATAAAATTTTAAATTAGTGAC
128 ATTAATAACGTCACCTAAAATCTATTAGAAAAAATTCATCACAAATAAAATTTTAAATTAGTGAC
* * * *
13490924 AAAATT-TAAACGTCACCTAAAATAAAAAAAAAATGTAGCAAAAAAATT
193 AAAATTAT-AACGTCATCTAAAATAAAAAAAATAT-CA-CAAAAAATTT
* * * * * *
13490972 TCACACCAATTAAATTTGACGTTAAAAGTTTATGACATTTATA-TTATCATCATATACCACTATA
1 TCTCACCAAATAAATTTGACGGTAAAAATTTGTGACATTTA-AGTTATCATCATATAACACTATA
* * * * * * *
13491036 CATTGACGTGACGAAATTACAATGTTATTAATAGTTAACTAAAATGTTTAATTTATGAAAAAAAT
65 AATTGACATGACGAAATTACAATGTCATTAATAGTTAACTAAAGTATTCAATTTATGACAAAAAT
* * * * ** *
13491101 TAATAATGTTACCTAAAATTTA-T-CAAAAAATTGGTCACAAATAAAATTTTAAATT-GAT-AAA
130 TAATAACGTCACCTAAAATCTATTAGAAAAAATTCATCACAAATAAAATTTTAAATTAG-TGACA
* * * **
13491162 AAATTTATAATGTCACCTAAAATTAAAAAGGT-T-ACAAAAATATTT
194 AAA-TTATAACGTCATCTAAAATAAAAAAAATATCACAAAAA-ATTT
*
13491207 CCT-ACCAAATAAATTTGGA-GGTAAAA
1 TCTCACCAAATAAATTT-GACGGTAAAA
13491233 TTTAGCGAAA
Statistics
Matches: 612, Mismatches: 98, Indels: 54
0.80 0.13 0.07
Matches are distributed among these distances:
231 1 0.00
232 51 0.08
233 1 0.00
234 26 0.04
235 67 0.11
236 21 0.03
237 141 0.23
238 166 0.27
239 12 0.02
240 65 0.11
241 10 0.02
242 51 0.08
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (238 bp):
TCTCACCAAATAAATTTGACGGTAAAAATTTGTGACATTTAAGTTATCATCATATAACACTATAA
ATTGACATGACGAAATTACAATGTCATTAATAGTTAACTAAAGTATTCAATTTATGACAAAAATT
AATAACGTCACCTAAAATCTATTAGAAAAAATTCATCACAAATAAAATTTTAAATTAGTGACAAA
ATTATAACGTCATCTAAAATAAAAAAAATATCACAAAAAATTT
Found at i:13491235 original size:475 final size:475
Alignment explanation
Indices: 13490349--13491219 Score: 1127
Period size: 475 Copynumber: 1.8 Consensus size: 475
13490339 ACGATGTCAC
* * * *
13490349 TAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTTATAATGTCACCTTAAAATTTATCAAA
1 TAATAGTTAACTAAAGTGTTCAATTTATGACAAAAATTGATAACGTCACCTTAAAATCTATCAAA
* * * *
13490414 AAAATTCATCATAGATAAAATTTTAAATTGGTGACAAAATTATAACATCATCTAAAATAAAAAAA
66 AAAATTCATCACAAATAAAATTTTAAATTAGTGACAAAATTATAACATCACCTAAAATAAAAAAA
* * * * * *
13490479 ATATCATAAAAAATTTTCTCATCAAATAAATTTGACGGTAAAAATTTGTGACATTTAAGTTATCA
131 AAATCACAAAAAAATTTCACACCAAATAAATTTGACGGTAAAAATTTATGACATTTAAGTTATCA
* * *
13490544 TCATATAACACTATATATTGACATGACAAAGTTGCAATGTCATTAATAATTAACTAAAGTATTCA
196 TCATATAACACTATACATTGACATGACAAAGTTACAATGTCATTAATAATTAACTAAAATATTCA
* * *
13490609 ATTTATGACAAAAATTAATAACATCACCTAAAATCTATTAGAAAAAATTCATCACAGATAAAATT
261 ATTTATGAAAAAAATTAATAACATCACCTAAAATCTATTACAAAAAATTCATCACAAATAAAATT
* * * *
13490674 TTAAATTAGTGACAAAATTATAACGTCAATTAAAATACAAAATGTCACAAAAAATTTTTCACCAA
326 TTAAATTAGTGAAAAAATTATAACGTCAACTAAAATACAAAAGGTCACAAAAAATTTCTCACCAA
13490739 ATAAAATTAACAGTAAAAATTTGTGACATTTATGTTATCATAATATAATACCATAAAATAAAAGG
391 ATAAAATTAACAGTAAAAATTTGTGACATTTATGTTATCATAATATAATACCATAAAATAAAAGG
13490804 TGACGAAATTATAATTTCAT
456 TGACGAAATTATAATTTCAT
*
13490824 TAATAGTTAACTAAAGCAT-TTC-ATTTATGACAAAAATTGATAACGTCACC-TAAAATCTATTA
1 TAATAGTTAACTAAAG--TGTTCAATTTATGACAAAAATTGATAACGTCACCTTAAAATCTATCA
* *
13490886 GAAAAAATTCATTACAAATAAAATTTTAAATTAGTGACAAAATT-TAAACGTCACCTAAAATAAA
64 -AAAAAATTCATCACAAATAAAATTTTAAATTAGTGACAAAATTAT-AACATCACCTAAAATAAA
* * * *
13490950 AAAAAAATGTAGCAAAAAAATTTCACACCAATTAAATTTGACGTTAAAAGTTTATGACATTTATA
127 AAAAAAAT-CA-CAAAAAAATTTCACACCAAATAAATTTGACGGTAAAAATTTATGACATTTA-A
* * * *
13491015 -TTATCATCATATACCACTATACATTGACGTGACGAAA-TTACAATGTTATTAATAGTTAACTAA
189 GTTATCATCATATAACACTATACATTGACATGAC-AAAGTTACAATGTCATTAATAATTAACTAA
* * ** * * **
13491078 AATGTTTAATTTATGAAAAAAATTAATAATGTTACCTAAAATTTA-T-CAAAAAATTGGTCACAA
253 AATATTCAATTTATGAAAAAAATTAATAACATCACCTAAAATCTATTACAAAAAATTCATCACAA
* * *
13491141 ATAAAATTTTAAATT-GAT-AAAAAATTTATAATGTCACCTAAAATTA-AAAAGGTTACAAAAAT
318 ATAAAATTTTAAATTAG-TGAAAAAA-TTATAACGTCAACTAAAA-TACAAAAGGTCACAAAAA-
13491203 ATTTC-CTACCAAATAAA
379 ATTTCTC-ACCAAATAAA
13491220 TTTGGAGGTA
Statistics
Matches: 337, Mismatches: 46, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
474 17 0.05
475 161 0.48
476 21 0.06
477 134 0.40
478 4 0.01
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (475 bp):
TAATAGTTAACTAAAGTGTTCAATTTATGACAAAAATTGATAACGTCACCTTAAAATCTATCAAA
AAAATTCATCACAAATAAAATTTTAAATTAGTGACAAAATTATAACATCACCTAAAATAAAAAAA
AAATCACAAAAAAATTTCACACCAAATAAATTTGACGGTAAAAATTTATGACATTTAAGTTATCA
TCATATAACACTATACATTGACATGACAAAGTTACAATGTCATTAATAATTAACTAAAATATTCA
ATTTATGAAAAAAATTAATAACATCACCTAAAATCTATTACAAAAAATTCATCACAAATAAAATT
TTAAATTAGTGAAAAAATTATAACGTCAACTAAAATACAAAAGGTCACAAAAAATTTCTCACCAA
ATAAAATTAACAGTAAAAATTTGTGACATTTATGTTATCATAATATAATACCATAAAATAAAAGG
TGACGAAATTATAATTTCAT
Found at i:13493465 original size:50 final size:50
Alignment explanation
Indices: 13493401--13493503 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
13493391 CCATAAGAAA
*
13493401 TAATAATGTGAAAAAGGAAAGATATTCATCACAGCAAAGCATAAGAACTT
1 TAATAATGTGAAAAAGGAAAGAGATTCATCACAGCAAAGCATAAGAACTT
*
13493451 TAATAATGTGAAAAAGGAAAGAGATTCATCACATCAAAGCATAAGAACTT
1 TAATAATGTGAAAAAGGAAAGAGATTCATCACAGCAAAGCATAAGAACTT
13493501 TAA
1 TAA
13493504 CATACCGCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (50 bp):
TAATAATGTGAAAAAGGAAAGAGATTCATCACAGCAAAGCATAAGAACTT
Found at i:13494687 original size:3 final size:3
Alignment explanation
Indices: 13494681--13494708 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13494671 ATAATAGAAT
13494681 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
13494709 AAAACTAAGC
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:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:13497915 original size:24 final size:23
Alignment explanation
Indices: 13497872--13497920 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13497862 AAATATTACT
* * *
13497872 AATAATTGAAATATTTAAAATATA
1 AATAATT-AAAAAATTAAAAAATA
13497896 AATAATTAAAAAATTAAAAAATA
1 AATAATTAAAAAATTAAAAAATA
13497919 AA
1 AA
13497921 GATAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AATAATTAAAAAATTAAAAAATA
Found at i:13499167 original size:189 final size:186
Alignment explanation
Indices: 13498897--13499300 Score: 424
Period size: 189 Copynumber: 2.2 Consensus size: 186
13498887 AAAAAACGTG
* * * *
13498897 ATCTTTGTTAAAAATATAAAAAAATTAAATTTAAGAATTTAACAAAGATAATGTTTTTAAGATAA
1 ATCTTTGTTGAAAATATAAAAAAATTAAATTTAAGAATTTAACAAAGATAACGTTTCTAAAATAA
* * ** * *
13498962 AAATACAATCTTTGTT-ATAA-AT-ATGAAAAAATATATTTTTCAAAATTCAACAAAAAATAACG
66 AAACACAATCTTTGTTAAAAACATAAAAAAAAAATATAATTTTCAAAATTCAA-AAAAAATAACA
* * *
13499024 TTTCTAAGATAGAAAATATAAATTTTTATCGAAAATATATCTTTTCTATGATAAAAACACA
130 TTTCTAAGAT--AAAA-A-AAATTTTTATCGAAAAGATAACTTTTCTAAGATAAAAACACA
* ** * *
13499085 ATCTTTGTTGAAAACATAAAAAAATATATTTTTCAA-AATTTAATAAAGATGACGTTTCTAAAAT
1 ATCTTTGTTGAAAATATAAAAAAAT-TAAATTT-AAGAATTTAACAAAGATAACGTTTCTAAAAT
* * *
13499149 AAAAACACAAAT-TTTGTTAAAAACATAAAAAAAAAATATAATTTTCAGAATTCAATAAAAATGA
64 AAAAACAC-AATCTTTGTTAAAAACATAAAAAAAAAATATAATTTTCAAAATTCAAAAAAAATAA
* * * * * * *
13499213 TATTTCTAAGATAAAAAAATTTTTTGTTGAAAAGCTAACTTTTTTAAGATAAAAACATA
128 CATTTCTAAGATAAAAAAAATTTTTATCGAAAAGATAACTTTTCTAAGATAAAAACACA
*
13499272 AT-TTTGTTGAAAATATGAAAAAAAATAAA
1 ATCTTTGTTGAAAATAT-AAAAAAATTAAA
13499301 AAGTAAAATT
Statistics
Matches: 177, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
186 15 0.08
187 42 0.24
188 24 0.14
189 45 0.25
190 8 0.05
191 19 0.11
192 24 0.14
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (186 bp):
ATCTTTGTTGAAAATATAAAAAAATTAAATTTAAGAATTTAACAAAGATAACGTTTCTAAAATAA
AAACACAATCTTTGTTAAAAACATAAAAAAAAAATATAATTTTCAAAATTCAAAAAAAATAACAT
TTCTAAGATAAAAAAAATTTTTATCGAAAAGATAACTTTTCTAAGATAAAAACACA
Found at i:13499227 original size:76 final size:73
Alignment explanation
Indices: 13499066--13499229 Score: 204
Period size: 76 Copynumber: 2.2 Consensus size: 73
13499056 AAATATATCT
* * * *
13499066 TTTCTATGATAAAAACACAATCTTTGTTGAAAACATAAAAAAATATATTTTTCAAAATTTAATAA
1 TTTCTAAGATAAAAACACAATCTTTGTTAAAAACATAAAAAAATATAATTTTCAAAATTCAATAA
* *
13499131 AGATGACG
66 AAATGACA
* *
13499139 TTTCTAAAATAAAAACACAAAT-TTTGTTAAAAACATAAAAAAAAAATATAATTTTCAGAATTCA
1 TTTCTAAGATAAAAACAC-AATCTTTGTTAAAAACAT---AAAAAAATATAATTTTCAAAATTCA
*
13499203 ATAAAAATGATA
62 ATAAAAATGACA
13499215 TTTCTAAGATAAAAA
1 TTTCTAAGATAAAAA
13499230 AATTTTTTGT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
73 29 0.38
74 3 0.04
76 45 0.58
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (73 bp):
TTTCTAAGATAAAAACACAATCTTTGTTAAAAACATAAAAAAATATAATTTTCAAAATTCAATAA
AAATGACA
Found at i:13499573 original size:24 final size:26
Alignment explanation
Indices: 13499528--13499576 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
13499518 TCATTAAACT
13499528 TATTTTATATAATAAAAAATTAAAAA
1 TATTTTATATAATAAAAAATTAAAAA
*
13499554 TATTTT-TA-AATAAAATATTAAAA
1 TATTTTATATAATAAAAAATTAAAA
13499577 TAAAAATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.64
25 2 0.09
26 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TATTTTATATAATAAAAAATTAAAAA
Found at i:13502108 original size:160 final size:159
Alignment explanation
Indices: 13501837--13502651 Score: 701
Period size: 159 Copynumber: 5.1 Consensus size: 159
13501827 ATTAAATATG
* * * *
13501837 CAATAATTTTCATCTTTT-ATAAAGTCAT-TGCATTTTAATATGCACAAAACACAATCTAGT-CA
1 CAATAATTTTCA-CTTTTCACAAAATCATCT-CATTTCAATATGCACAAAACACTATCTAGTGCA
* * * ** * *
13501899 ATTCTTAATTTTTTTACAATGTTTAAGCTTTCAATTACTACACTATCTACTTTTATCAACAATCA
64 ATACTGAA-TTTCTTACAATGACTAGGCTTTCAATTACTACACTATCTAC-TTCATCAACAATCA
* *
13501964 TAATGCACAACCAAAATCATAAAACAAAATACA
127 TAATACACAACCAAAATCATAAAGCAAAATACA
13501997 CAATAATTTTCACTTTTCACAAAATCAT-TGCATTTCAATATGCACAAAACACTATCTAGTGCAA
1 CAATAATTTTCACTTTTCACAAAATCATCT-CATTTCAATATGCACAAAACACTATCTAGTGCAA
* * * * *
13502061 TATTGAATTTCTTACAAT-ATTTAGGCTTTCAATTGCTACATTATCTACTTTATCAACAATCATA
65 TACTGAATTTCTTACAATGA-CTAGGCTTTCAATTACTACACTATCTACTTCATCAACAATCATA
* * **
13502125 ATATACAACCAAATTCATAAAGCAAAATATG
129 ATACACAACCAAAATCATAAAGCAAAATACA
* * * * *
13502156 CAATAGTTTTCA-TTTT-ACATAAATGTGATCTCATTTCAATATGTACAAAACACTATCAAGTTC
1 CAATAATTTTCACTTTTCACA-AAA--TCATCTCATTTCAATATGCACAAAACACTATCTAGTGC
* * * * *
13502219 AATACTGAACTT-TTACAATGACTAGTCTTTCAATTACTATACTATATACTTCATCAACAATCAC
63 AATACTGAATTTCTTACAATGACTAGGCTTTCAATTACTACACTATCTACTTCATCAACAATCAT
* *
13502283 AACACACAACCAAAATCACAAAGCAAAATACA
128 AATACACAACCAAAATCATAAAGCAAAATACA
* * * * ** * * *
13502315 CAATAGTTTT-A-TCTTTCCCAAATGTGATCTCATCTT-AATAAACATAAAACACTATCCAATGC
1 CAATAATTTTCACT-TTTCACAAA-ATCATCTCAT-TTCAATATGCACAAAACACTATCTAGTGC
* * * *
13502377 AATACTAAATTTCCTACAATGACTAGGTTTTCAATTACTACACTATCTACTTCATCAACAATTAT
63 AATACTGAATTTCTTACAATGACTAGGCTTTCAATTACTACACTATCTACTTCATCAACAATCAT
* ** * * *
13502442 AATATACAACCTGAGTCATAAAGCAATATACT
128 AATACACAACCAAAATCATAAAGCAAAATACA
* * * * ** * * * *
13502474 CAATAATTTTCACCTTTCACAAATTTGATCTCATCTCAATACACATAAAATACTATTTAGTTCAA
1 CAATAATTTTCACTTTTCACAAA-ATCATCTCATTTCAATATGCACAAAACACTATCTAGTGCAA
* * * * *
13502539 TACTAAATTT-TCTACAATGACTAGGCTTT-GATTACT--AC-A-CTACTTCATTAATAATCACA
65 TACTGAATTTCT-TACAATGACTAGGCTTTCAATTACTACACTATCTACTTCATCAACAATCATA
* * * * * *
13502598 ATACACAATCAGAATTACAAAGCAATATACG
129 ATACACAACCAAAATCATAAAGCAAAATACA
* *
13502629 CAATAGTTTTCACCTTTCACAAA
1 CAATAATTTTCACTTTTCACAAA
13502652 TGTAATCTCA
Statistics
Matches: 547, Mismatches: 91, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
155 62 0.11
156 1 0.00
157 5 0.01
158 47 0.09
159 227 0.41
160 197 0.36
161 8 0.01
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (159 bp):
CAATAATTTTCACTTTTCACAAAATCATCTCATTTCAATATGCACAAAACACTATCTAGTGCAAT
ACTGAATTTCTTACAATGACTAGGCTTTCAATTACTACACTATCTACTTCATCAACAATCATAAT
ACACAACCAAAATCATAAAGCAAAATACA
Found at i:13502411 original size:318 final size:317
Alignment explanation
Indices: 13501830--13502663 Score: 861
Period size: 318 Copynumber: 2.6 Consensus size: 317
13501820 TTTGATTATT
* * * *
13501830 AAATATGCAATAATTTTCATCTTTTATAAA-GTCAT-TGCATTTTAATATGCACAAAACACAATC
1 AAATATGCAATAATTTTCAT-TTTCATAAATGTGATCT-CATTTCAATATGCACAAAACACTATC
* * ** * *
13501893 TAG-TCAATTCTTAATTTTTTTACAATGTTTAAGCTTTCAATTACTACACTATCTACTTTTATCA
64 TAGTTCAATAC-TAA-ATTTTTACAATGACT-AGCTTTCAATTACTATACTATCTAC-TTCATCA
* * * * * *
13501957 ACAATCATAATGCACAACCAAAATCATAAAACAAAATACACAATAATTTTCACTTTTCACAAA-A
125 ACAATCACAATACACAACCAAAATCACAAAGCAAAATACACAATAGTTTTCAC-TTTCACAAATG
* ** * * * * * *
13502021 TCAT-TGCAT-TTCAATATGCACAAAACACTATCTAGTGCAATATTGAATTTCTTACAATATTTA
189 TAATCT-CATCTTCAATAAACACAAAACACTATCCAATGCAATACTAAATTTCCTACAATATCTA
* * * *
13502084 GGCTTTCAATTGCTACATTATCTACTTTATCAACAATCATAATATACAACCAAATTCATAAAGCA
253 GGCTTTCAATTACTACACTATCTACTTCATCAACAATCATAATATACAACCAAAGTCATAAAGCA
* * *
13502149 AAATATGCAATAGTTTTCATTTTACATAAATGTGATCTCATTTCAATATGTACAAAACACTATCA
1 AAATATGCAATAATTTTCATTTT-CATAAATGTGATCTCATTTCAATATGCACAAAACACTATCT
* * *
13502214 AGTTCAATACTGAACTTTTACAATGACTAGTCTTTCAATTACTATACTATATACTTCATCAACAA
65 AGTTCAATACTAAATTTTTACAATGACTAG-CTTTCAATTACTATACTATCTACTTCATCAACAA
* * *
13502279 TCACAACACACAACCAAAATCACAAAGCAAAATACACAATAGTTTT-ATCTTTCCCAAATGTGAT
129 TCACAATACACAACCAAAATCACAAAGCAAAATACACAATAGTTTTCA-CTTTCACAAATGTAAT
* *
13502343 CTCATCTT-AATAAACATAAAACACTATCCAATGCAATACTAAATTTCCTACAATGA-CTAGGTT
193 CTCATCTTCAATAAACACAAAACACTATCCAATGCAATACTAAATTTCCTACAAT-ATCTAGGCT
* **
13502406 TTCAATTACTACACTATCTACTTCATCAACAATTATAATATACAACCTGAGTCATAAAGCA
257 TTCAATTACTACACTATCTACTTCATCAACAATCATAATATACAACCAAAGTCATAAAGCA
* * * * * ** * * *
13502467 ATATACT-CAATAATTTTCACCTTTCACAAATTTGATCTCATCTCAATACACATAAAATACTATT
1 AAATA-TGCAATAATTTTCA-TTTTCATAAATGTGATCTCATTTCAATATGCACAAAACACTATC
* * *
13502531 TAGTTCAATACTAAATTTTCTACAATGACTAGGCTTT-GATTAC--TAC-A-CTACTTCATTAAT
64 TAGTTCAATACTAAATTTT-TACAATGACTA-GCTTTCAATTACTATACTATCTACTTCATCAAC
* * * * *
13502591 AATCACAATACACAATCAGAATTACAAAGCAATATACGCAATAGTTTTCACCTTTCACAAATGTA
127 AATCACAATACACAACCAAAATCACAAAGCAAAATACACAATAGTTTTCA-CTTTCACAAATGTA
13502656 ATCTCATC
191 ATCTCATC
13502664 GTAGTATACT
Statistics
Matches: 430, Mismatches: 70, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
314 52 0.12
315 22 0.05
316 3 0.01
317 9 0.02
318 226 0.53
319 79 0.18
320 32 0.07
321 7 0.02
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (317 bp):
AAATATGCAATAATTTTCATTTTCATAAATGTGATCTCATTTCAATATGCACAAAACACTATCTA
GTTCAATACTAAATTTTTACAATGACTAGCTTTCAATTACTATACTATCTACTTCATCAACAATC
ACAATACACAACCAAAATCACAAAGCAAAATACACAATAGTTTTCACTTTCACAAATGTAATCTC
ATCTTCAATAAACACAAAACACTATCCAATGCAATACTAAATTTCCTACAATATCTAGGCTTTCA
ATTACTACACTATCTACTTCATCAACAATCATAATATACAACCAAAGTCATAAAGCA
Found at i:13507394 original size:46 final size:45
Alignment explanation
Indices: 13507339--13507460 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 45
13507329 TCCTCTAAAT
13507339 AAAGGCTCAACGACTTTGAAAAAAATAAACAAAGGCTCT-TATAATC
1 AAAGGCTCAACGACTTTGAAAAAAATAAACAAA-GCT-TATATAATC
* ** * *
13507385 AAAGGCTCAATGA-TTTTTAAAAAATAAATAAAGCTTATCTAATC
1 AAAGGCTCAACGACTTTGAAAAAAATAAACAAAGCTTATATAATC
* * *
13507429 AGATGCTCAACAACTTTGGAAAGATAAATAAA
1 AAAGGCTCAACGACTTT-GAAA-A-AAATAAA
13507461 GCTCCTCTAG
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.02
44 18 0.30
45 19 0.32
46 14 0.23
47 1 0.02
48 7 0.12
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25
Consensus pattern (45 bp):
AAAGGCTCAACGACTTTGAAAAAAATAAACAAAGCTTATATAATC
Found at i:13507608 original size:43 final size:42
Alignment explanation
Indices: 13507528--13507674 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 42
13507518 AGGCATTCAA
* * * *
13507528 AAAAAATTAAATTGCTCCTCCAAACAGAAGCACCACAACTTT
1 AAAAAATTAAATTGCTCCTCTAAATAGAGGCAACACAACTTT
*
13507570 AAAAAAAATTAAA-TGCTCCTCTAAATAGAGGTAACACAACTTT
1 --AAAAAATTAAATTGCTCCTCTAAATAGAGGCAACACAACTTT
** * * *
13507613 GGAAAAGTAAATTGCTCATCTAAATAGAGGCAACTATAACTTT
1 AAAAAATTAAATTGCTCCTCTAAATAGAGGCAAC-ACAACTTT
* *
13507656 GAAAAA-TAAAATGCTCCTC
1 AAAAAATTAAATTGCTCCTC
13507675 GACAATCATG
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 8 0.09
42 31 0.36
43 37 0.43
44 11 0.13
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (42 bp):
AAAAAATTAAATTGCTCCTCTAAATAGAGGCAACACAACTTT
Found at i:13507635 original size:42 final size:41
Alignment explanation
Indices: 13507573--13507671 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 41
13507563 CAACTTTAAA
* *
13507573 AAAAATTAAATGCTCCTCTAAATAGAGGTAAC-ACAACTTTGG
1 AAAAA-TAAATGCTCATCTAAATAGAGGCAACTACAACTTT-G
* *
13507615 AAAAGTAAATTGCTCATCTAAATAGAGGCAACTATAACTTTG
1 AAAAATAAA-TGCTCATCTAAATAGAGGCAACTACAACTTTG
13507657 AAAAATAAAATGCTC
1 AAAAAT-AAATGCTC
13507672 CTCGACAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 4 0.08
42 35 0.71
43 10 0.20
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.26
Consensus pattern (41 bp):
AAAAATAAATGCTCATCTAAATAGAGGCAACTACAACTTTG
Found at i:13507866 original size:23 final size:22
Alignment explanation
Indices: 13507840--13507890 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
13507830 GTTTCATAAG
13507840 GATTCAAATTTGTAAAATCT-CAA
1 GATTCAAATTTGT-AAAT-TGCAA
**
13507863 GATTCGCATTTGTAAATTGCAA
1 GATTCAAATTTGTAAATTGCAA
13507885 GATTCA
1 GATTCA
13507891 CATCTAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 12 0.50
23 11 0.46
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (22 bp):
GATTCAAATTTGTAAATTGCAA
Found at i:13508112 original size:21 final size:22
Alignment explanation
Indices: 13508082--13508135 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
13508072 GGTTTCACAC
*
13508082 CTCAATGATTCTCATTTGA-AA
1 CTCAAAGATTCTCATTTGAGAA
*
13508103 TTCAAAGATTCTCATTTGAGAA
1 CTCAAAGATTCTCATTTGAGAA
*
13508125 CTCAAAAATTC
1 CTCAAAGATTC
13508136 AAAAGATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAGAA
Found at i:13508955 original size:35 final size:35
Alignment explanation
Indices: 13508909--13508980 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
13508899 ATTTGAGAGA
13508909 AAGGTAATCAATGAAGGACGAGTTTGGTGCAAAAC
1 AAGGTAATCAATGAAGGACGAGTTTGGTGCAAAAC
13508944 AAGGTAATCAATGAAGGACGAGTTTGGTGCAAAAC
1 AAGGTAATCAATGAAGGACGAGTTTGGTGCAAAAC
13508979 AA
1 AA
13508981 ATAGGAAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (35 bp):
AAGGTAATCAATGAAGGACGAGTTTGGTGCAAAAC
Found at i:13515482 original size:57 final size:60
Alignment explanation
Indices: 13515348--13515506 Score: 175
Period size: 57 Copynumber: 2.7 Consensus size: 60
13515338 TGCTTTCGTA
* * * * *
13515348 CAAGCAAAATTGATACTTTCAACTTTTCCTTAAAAGGT-TTTTCTTGATAATTTTTATTTT
1 CAAGAAAAATTGATACTTCCAACTTTTCCTCAAAA-ATATTTTCTTGATAATTTTTAATTT
* * * * *
13515408 TAAGGAAAATTGGTACTTCCAACCTTTCCTCAAAAATATTTT-TT-TTAA-TTTTAATTT
1 CAAGAAAAATTGATACTTCCAACTTTTCCTCAAAAATATTTTCTTGATAATTTTTAATTT
*
13515465 CAAGAAAAATTGATACTTCCAACTTTTTCTC-AAAATATTTTC
1 CAAGAAAAATTGATACTTCCAACTTTTCCTCAAAAATATTTTC
13515507 GAAAATTTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
56 10 0.12
57 34 0.41
58 3 0.04
59 3 0.04
60 33 0.40
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (60 bp):
CAAGAAAAATTGATACTTCCAACTTTTCCTCAAAAATATTTTCTTGATAATTTTTAATTT
Found at i:13520446 original size:20 final size:21
Alignment explanation
Indices: 13520421--13520462 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
13520411 ATCTAAATAT
13520421 AACCTTAATCCAAAA-ATTAA
1 AACCTTAATCCAAAATATTAA
13520441 AACCTTAATCCAAAATATTAA
1 AACCTTAATCCAAAATATTAA
13520462 A
1 A
13520463 TCCCTCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (21 bp):
AACCTTAATCCAAAATATTAA
Found at i:13520776 original size:31 final size:31
Alignment explanation
Indices: 13520738--13520797 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
13520728 CTTAATAAAA
13520738 AAAAATTACAACATTAATCCAACCTTAATCC
1 AAAAATTACAACATTAATCCAACCTTAATCC
* *
13520769 AAAAATTAGAACCTTAATCCAACCTTAAT
1 AAAAATTACAACATTAATCCAACCTTAAT
13520798 ACAATCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (31 bp):
AAAAATTACAACATTAATCCAACCTTAATCC
Found at i:13520783 original size:20 final size:20
Alignment explanation
Indices: 13520757--13520839 Score: 78
Period size: 20 Copynumber: 4.0 Consensus size: 20
13520747 AACATTAATC
13520757 CAACCTTAATCCAAAAATTA
1 CAACCTTAATCCAAAAATTA
* *
13520777 GAACCTTAATCCAACCTTAA-TA
1 CAACCTTAATCCAA---AAATTA
*
13520799 CAATCTTAATCCAAAAATTA
1 CAACCTTAATCCAAAAATTA
* *
13520819 CAACCTTTATCTAAAATATTA
1 CAACCTTAATCCAAAA-ATTA
13520840 AATCCTTCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
19 2 0.04
20 28 0.56
21 4 0.08
22 14 0.28
23 2 0.04
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (20 bp):
CAACCTTAATCCAAAAATTA
Found at i:13520794 original size:11 final size:11
Alignment explanation
Indices: 13520778--13520812 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
13520768 CAAAAATTAG
13520778 AACCTTAATCC
1 AACCTTAATCC
*
13520789 AACCTTAATAC
1 AACCTTAATCC
*
13520800 AATCTTAATCC
1 AACCTTAATCC
13520811 AA
1 AA
13520813 AAATTACAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (11 bp):
AACCTTAATCC
Found at i:13520810 original size:42 final size:42
Alignment explanation
Indices: 13520746--13520825 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
13520736 AAAAAAATTA
* *
13520746 CAACATTAATCCAACCTTAATCCAAAAATTAGAACCTTAATC
1 CAACATTAATACAACCTTAATCCAAAAATTACAACCTTAATC
* *
13520788 CAACCTTAATACAATCTTAATCCAAAAATTACAACCTT
1 CAACATTAATACAACCTTAATCCAAAAATTACAACCTT
13520826 TATCTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (42 bp):
CAACATTAATACAACCTTAATCCAAAAATTACAACCTTAATC
Found at i:13521792 original size:207 final size:207
Alignment explanation
Indices: 13521517--13521925 Score: 755
Period size: 207 Copynumber: 2.0 Consensus size: 207
13521507 TCTTCAGAGA
13521517 GAGGATAATTTTTTTATTTCCTTTATTTTTCTCTTTTTTGATATTATTAAAAATTTTAAAAATTT
1 GAGGATAATTTTTTTATTTCCTTTATTTTTCTCTTTTTTGATATTATTAAAAATTTTAAAAATTT
13521582 TCAAAAATCATATTTTTTGAACCAAACTAAAAAATTAAAATATGAAAAATAAAATTTTGACTAAA
66 TCAAAAATCATATTTTTTGAACCAAACTAAAAAATTAAAATATGAAAAATAAAATTTTGACTAAA
* **
13521647 ATTTTTATTTTTCCTTGAACCAACCATCCTTTAAAAAGAATTATTTGAAATGAGATTTTTAAAGT
131 ATTTTTATTTTTCCCTGAACCAACCATCCCGTAAAAAGAATTATTTGAAATGAGATTTTTAAAGT
13521712 GCTTGAAATGAG
196 GCTTGAAATGAG
* *
13521724 GAGGATAATTTTTTTATTTCCTTTTTTTTTCTCTTTTTTGATATTATTAAAAATTTTAAAATTTT
1 GAGGATAATTTTTTTATTTCCTTTATTTTTCTCTTTTTTGATATTATTAAAAATTTTAAAAATTT
* *
13521789 TCAAAAGTCATATTTTTTGAATCAAACTAAAAAATTAAAATATGAAAAATAAAATTTTGACTAAA
66 TCAAAAATCATATTTTTTGAACCAAACTAAAAAATTAAAATATGAAAAATAAAATTTTGACTAAA
13521854 ATTTTTATTTTTCCCTGAACCAACCATCCCGTAAAAAGAATTATTTGAAATGAGATTTTTAAAGT
131 ATTTTTATTTTTCCCTGAACCAACCATCCCGTAAAAAGAATTATTTGAAATGAGATTTTTAAAGT
13521919 GCTTGAA
196 GCTTGAA
13521926 TGCAATTCCA
Statistics
Matches: 195, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
207 195 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (207 bp):
GAGGATAATTTTTTTATTTCCTTTATTTTTCTCTTTTTTGATATTATTAAAAATTTTAAAAATTT
TCAAAAATCATATTTTTTGAACCAAACTAAAAAATTAAAATATGAAAAATAAAATTTTGACTAAA
ATTTTTATTTTTCCCTGAACCAACCATCCCGTAAAAAGAATTATTTGAAATGAGATTTTTAAAGT
GCTTGAAATGAG
Found at i:13523810 original size:19 final size:19
Alignment explanation
Indices: 13523788--13523826 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13523778 GATGCGAGAG
* *
13523788 AAAATGAGAGATGAAAAAA
1 AAAAAGAGAGAAGAAAAAA
*
13523807 AAAAAGAGATAAGAAAAAA
1 AAAAAGAGAGAAGAAAAAA
13523826 A
1 A
13523827 TTCTGGAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (19 bp):
AAAAAGAGAGAAGAAAAAA
Found at i:13523814 original size:17 final size:17
Alignment explanation
Indices: 13523794--13523826 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13523784 AGAGAAAATG
13523794 AGAGATGAA-AAAAAAAA
1 AGAGAT-AAGAAAAAAAA
13523811 AGAGATAAGAAAAAAA
1 AGAGATAAGAAAAAAA
13523827 TTCTGGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (17 bp):
AGAGATAAGAAAAAAAA
Found at i:13524565 original size:25 final size:26
Alignment explanation
Indices: 13524537--13524585 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
13524527 CTAAAAAATA
*
13524537 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
13524562 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
13524586 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:13527981 original size:6 final size:6
Alignment explanation
Indices: 13527972--13528009 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
13527962 GTCAAAGTGA
* *
13527972 TGATGG TGATGG AGATGG TGACGG TGATGG TGATGG TG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TG
13528010 CGAATTTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.03, G:0.50, T:0.29
Consensus pattern (6 bp):
TGATGG
Found at i:13528375 original size:18 final size:18
Alignment explanation
Indices: 13528352--13528509 Score: 96
Period size: 18 Copynumber: 8.9 Consensus size: 18
13528342 ATGGTTATTA
*
13528352 TCCACCTCAAATGTATCT
1 TCCACCTCAAATGTATCC
*
13528370 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
* * *
13528391 TCCGCCTTAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
13528410 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
* *
13528427 TCCACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
*
13528445 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
* *
13528460 TCCACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
*
13528478 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
*
13528493 TTCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
13528510 AAGAACGAAA
Statistics
Matches: 104, Mismatches: 25, Indels: 22
0.69 0.17 0.15
Matches are distributed among these distances:
15 24 0.23
17 1 0.01
18 63 0.61
19 1 0.01
21 15 0.14
ACGTcount: A:0.32, C:0.34, G:0.05, T:0.29
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:13528458 original size:15 final size:15
Alignment explanation
Indices: 13528434--13528491 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
13528424 CCCTCCACCA
*
13528434 CAAATGTATCATCCT
1 CAAATATATCATCCT
* *
13528449 CAAATATATCCTCCACCA
1 CAAATATATCAT---CCT
*
13528467 CAAATGTATCATCCT
1 CAAATATATCATCCT
13528482 CAAATATATC
1 CAAATATATC
13528492 CTTCACCTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
15 21 0.64
18 12 0.36
ACGTcount: A:0.38, C:0.29, G:0.03, T:0.29
Consensus pattern (15 bp):
CAAATATATCATCCT
Found at i:13528462 original size:33 final size:33
Alignment explanation
Indices: 13528376--13528510 Score: 171
Period size: 33 Copynumber: 4.0 Consensus size: 33
13528366 ATCTTCCACC
* **
13528376 TCCTCAAATATATCCTCCGCCTTAAATGTATCA
1 TCCTCAAATATATCCTCCACCACAAATGTATCA
* * *
13528409 GTTACCACAAATGTACCCTCCACCACAAATGTATCA
1 --T-CCTCAAATATATCCTCCACCACAAATGTATCA
13528445 TCCTCAAATATATCCTCCACCACAAATGTATCA
1 TCCTCAAATATATCCTCCACCACAAATGTATCA
* *
13528478 TCCTCAAATATATCCTTCACCTCAAATGTATCA
1 TCCTCAAATATATCCTCCACCACAAATGTATCA
13528511 AGAACGAAAG
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
33 60 0.68
34 1 0.01
35 1 0.01
36 26 0.30
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (33 bp):
TCCTCAAATATATCCTCCACCACAAATGTATCA
Found at i:13528899 original size:6 final size:6
Alignment explanation
Indices: 13528888--13528915 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13528878 ATAAGAGTTT
13528888 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
13528916 TATATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:13529860 original size:52 final size:51
Alignment explanation
Indices: 13529774--13529930 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 51
13529764 TATAACCATA
* *
13529774 CAAACTTGACC-ATTAAGAATCCCTCTCTTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTG-CCTATTAAGAATCCCTTTCTT-TTAGAATTCTTCTCTTGTAAGT
*
13529826 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTTTTAGAATTCTTCTCTTGTAAGT
* * *
13529878 CAAACTTACCTATTAAGAATCTCCTTTCTCTT-GAAATTCTTCTTTTGTAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCTTTTAG-AATTCTTCTCTTGTAAGT
13529930 C
1 C
13529931 TTCTTGTCCA
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
51 3 0.03
52 83 0.88
53 8 0.09
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTTTTAGAATTCTTCTCTTGTAAGT
Found at i:13540210 original size:23 final size:23
Alignment explanation
Indices: 13540184--13540233 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
13540174 TTTATACTGA
13540184 TAAAAATATAAAAAAATATTTTT
1 TAAAAATATAAAAAAATATTTTT
* **
13540207 TAAAAATTTAATGAAATATTTTT
1 TAAAAATATAAAAAAATATTTTT
13540230 TAAA
1 TAAA
13540234 TATTTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
TAAAAATATAAAAAAATATTTTT
Found at i:13541491 original size:25 final size:26
Alignment explanation
Indices: 13541461--13541516 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13541451 TATTAATATA
13541461 ATTATG-AAA-ATATTAAAATTTATTT
1 ATTATGAAAATATATTAAAA-TTATTT
*
13541486 ATTATGAAAATATATTGAAATTATTT
1 ATTATGAAAATATATTAAAATTATTT
13541512 ATTAT
1 ATTAT
13541517 TAAATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 6 0.21
26 14 0.50
27 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (26 bp):
ATTATGAAAATATATTAAAATTATTT
Found at i:13541521 original size:25 final size:26
Alignment explanation
Indices: 13541461--13541527 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
13541451 TATTAATATA
*
13541461 ATTATGAAA-ATATTAAAATTTATTT
1 ATTATAAAATATATTAAAATTTATTT
*
13541486 ATTATGAAAATATATTGAAA-TTATTT
1 ATTAT-AAAATATATTAAAATTTATTT
* *
13541512 ATTATTAAATTTATTA
1 ATTATAAAATATATTA
13541528 GTTTTCAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 13 0.37
26 14 0.40
27 8 0.23
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
ATTATAAAATATATTAAAATTTATTT
Found at i:13541574 original size:17 final size:17
Alignment explanation
Indices: 13541554--13541609 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
13541544 ATATTTTAAT
13541554 AATAATATTTAATATAA
1 AATAATATTTAATATAA
*
13541571 AATATTATATTAATAT-A
1 AATAATAT-TTAATATAA
* *
13541588 AA-AATAATTAAAATAA
1 AATAATATTTAATATAA
13541604 AATAAT
1 AATAAT
13541610 TTATTATTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 6 0.19
16 6 0.19
17 13 0.41
18 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATATTTAATATAA
Found at i:13541579 original size:33 final size:33
Alignment explanation
Indices: 13541552--13541615 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
13541542 TTATATTTTA
* * *
13541552 ATAATAATATTTAATATAAAATATTATATTAAT
1 ATAAAAATAATTAAAATAAAATATTATATTAAT
13541585 ATAAAAATAATTAAAATAAAATAATT-TATTA
1 ATAAAAATAATTAAAATAAAAT-ATTATATTA
13541616 TTCTTCACGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
ATAAAAATAATTAAAATAAAATATTATATTAAT
Found at i:13541726 original size:17 final size:16
Alignment explanation
Indices: 13541695--13541741 Score: 71
Period size: 17 Copynumber: 3.0 Consensus size: 16
13541685 TCAAAATAAT
13541695 AATATTTAT-TATTAA
1 AATATTTATATATTAA
13541710 AATATTTATACTATTAA
1 AATATTTATA-TATTAA
13541727 AATATTTATAT-TTAA
1 AATATTTATATATTAA
13541742 TATTGAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.43
16 1 0.03
17 16 0.53
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:13541970 original size:42 final size:42
Alignment explanation
Indices: 13541902--13541981 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
13541892 AGAAAATAAC
13541902 ATTATTATATTATTTAAAATTAATTATTAAAATAATAAAAAT
1 ATTATTATATTATTTAAAATTAATTATTAAAATAATAAAAAT
** * *
13541944 ATTATTATA-TATGTTATTATTTATTATTAAGATAATAA
1 ATTATTATATTAT-TTAAAATTAATTATTAAAATAATAA
13541982 TATAATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.09
42 30 0.91
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (42 bp):
ATTATTATATTATTTAAAATTAATTATTAAAATAATAAAAAT
Found at i:13541984 original size:39 final size:39
Alignment explanation
Indices: 13541886--13541993 Score: 101
Period size: 42 Copynumber: 2.7 Consensus size: 39
13541876 TAAAATATTC
* *
13541886 TTATTAAGAAAATAACATTATTATATTATTTAAAATTAA
1 TTATTAAGATAATAATATTATTATATTATTTAAAATTAA
* ** *
13541925 TTATTAAAATAATAAAAATATTATTATA-TATGTTATTATTTA
1 TTATTAAGATAAT---AATATTATTATATTAT-TTAAAATTAA
* *
13541967 TTATTAAGATAATAATATAATAATATT
1 TTATTAAGATAATAATATTATTATATT
13541994 TACTATTGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
39 21 0.38
40 1 0.02
41 3 0.05
42 30 0.55
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (39 bp):
TTATTAAGATAATAATATTATTATATTATTTAAAATTAA
Found at i:13542035 original size:24 final size:24
Alignment explanation
Indices: 13541976--13542037 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
13541966 ATTATTAAGA
*
13541976 TAATAATATAATAATATTTACTAT
1 TAATAATATAAAAATATTTACTAT
*
13542000 TGA-AATATTAAAAATATTTA-TATT
1 TAATAATA-TAAAAATATTTACTA-T
13542024 TAATAATATAAAAA
1 TAATAATATAAAAA
13542038 ATAAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 6 0.19
24 22 0.69
25 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
TAATAATATAAAAATATTTACTAT
Found at i:13545238 original size:16 final size:16
Alignment explanation
Indices: 13545217--13545251 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13545207 TGTGATAACA
13545217 TATCTTTAACAATTAG
1 TATCTTTAACAATTAG
*
13545233 TATCTTTAACAATTGG
1 TATCTTTAACAATTAG
13545249 TAT
1 TAT
13545252 GAGTTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (16 bp):
TATCTTTAACAATTAG
Found at i:13549387 original size:23 final size:20
Alignment explanation
Indices: 13549348--13549393 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
13549338 TTAGAGGATA
13549348 AAAATTATTTTTGTTTATTTG
1 AAAATTATTTTTGTTTA-TTG
*
13549369 AAAATATATTTTTATTTTATTG
1 AAAAT-TATTTTT-GTTTATTG
13549391 AAA
1 AAA
13549394 GGTTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
AAAATTATTTTTGTTTATTG
Found at i:13549406 original size:3 final size:3
Alignment explanation
Indices: 13549398--13549426 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13549388 TTGAAAGGTT
13549398 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13549427 CTATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13549460 original size:15 final size:16
Alignment explanation
Indices: 13549430--13549464 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13549420 TATTATTCTA
13549430 TTTTTATAGAACTTTT
1 TTTTTATAGAACTTTT
*
13549446 TTTTTGTAGAA-TTTT
1 TTTTTATAGAACTTTT
13549461 TTTT
1 TTTT
13549465 CTTCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.69
Consensus pattern (16 bp):
TTTTTATAGAACTTTT
Found at i:13550480 original size:17 final size:17
Alignment explanation
Indices: 13550443--13550493 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
13550433 AGACAACAAA
*
13550443 ATAATAATAATAATATA-
1 ATAATGATAATAATA-AC
13550460 ATAATGATAATAATAAC
1 ATAATGATAATAATAAC
13550477 ATAATG-TAATAATAAC
1 ATAATGATAATAATAAC
13550493 A
1 A
13550494 ACTTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 12 0.38
17 20 0.62
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (17 bp):
ATAATGATAATAATAAC
Found at i:13550491 original size:3 final size:3
Alignment explanation
Indices: 13550442--13550475 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
13550432 CAGACAACAA
*
13550442 AAT AAT AAT AAT AAT -AT AAT AAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13550476 CATAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13550586 original size:26 final size:26
Alignment explanation
Indices: 13550557--13550612 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
13550547 AACGTCAATT
13550557 GGCCCAATTAGGCTCAAACACAAATG
1 GGCCCAATTAGGCTCAAACACAAATG
* * * * *
13550583 GGCCTACTTAGGCTTAGACACCAATG
1 GGCCCAATTAGGCTCAAACACAAATG
13550609 GGCC
1 GGCC
13550613 TACTTGGGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (26 bp):
GGCCCAATTAGGCTCAAACACAAATG
Found at i:13550613 original size:26 final size:26
Alignment explanation
Indices: 13550564--13550633 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
13550554 ATTGGCCCAA
*
13550564 TTAGGCTCAAACACAAATGGGCCTAC
1 TTAGGCTCAGACACAAATGGGCCTAC
* *
13550590 TTAGGCTTAGACACCAATGGGCCTAC
1 TTAGGCTCAGACACAAATGGGCCTAC
* *
13550616 TTGGGCTCAGACATAAAT
1 TTAGGCTCAGACACAAAT
13550634 AGGTGTCACA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (26 bp):
TTAGGCTCAGACACAAATGGGCCTAC
Found at i:13550972 original size:119 final size:117
Alignment explanation
Indices: 13550815--13551359 Score: 400
Period size: 119 Copynumber: 4.6 Consensus size: 117
13550805 CCAAGATTGG
* * * * ** * * *
13550815 GTCGAGGTAAAAAATAAGTGATCAGGATGAAACTACGAATCATAAGAAATGATCTGGACTAAGCT
1 GTCGAGGTGAAAGATAAATGATCAAGACAAAACCACGAATCATAAGAAATGATCTGGACTGAGCC
* * * * *
13550880 AAGATCAAATGACCAGGATGAAACAATGAGTCAAAAATAAA-CGACCAGGATCCA
66 AAGATCAAGTGACCAGGATAAAACAACGAGTC---AATAAAGCGACCAAGATCAA
*
13550934 GTCGAGGTCGAAA-ATAAATGA-CTAAGACAAAACCACGAATCATAAGAAATGATCTGGACTGAC
1 GTCGAGGT-GAAAGATAAATGATC-AAGACAAAACCACGAATCATAAGAAATGATCTGGACTGAG
* * *
13550997 CCAAGATCAAGTGACCGGGATAAAACCACGAGTCAATAAAGCTACCAAGATCAA
64 CCAAGATCAAGTGACCAGGATAAAACAACGAGTCAATAAAGCGACCAAGATCAA
* * * ** * *
13551051 GTCGAGGTTAAAGATAAATTATCGAGACGGAACCACAAATCATAAGAAATGATTTGGACTGAGCC
1 GTCGAGGTGAAAGATAAATGATCAAGACAAAACCACGAATCATAAGAAATGATCTGGACTGAGCC
* * * * **
13551116 AAGATCAAGTGACCAAGATAAAACTACGATTCAAAATAAAGCGATCAAGATTGA
66 AAGATCAAGTGACCAGGATAAAACAACGAGTC--AATAAAGCGACCAAGATCAA
** * * ** * * * *
13551170 GTTAAGGTCG-AAGATAAATGATCAAAACGAATTCATGAATCATAAAAAAATGATTTGAACTGAG
1 GTCGAGGT-GAAAGATAAATGATCAAGACAAAACCACGAATCAT-AAGAAATGATCTGGACTGAG
* * * ** * ** * * *
13551234 CCAAAATCAAGTGATCACGACGAAACTACGAGTCAAAATAAAATGACTAGGA-CTGA
64 CCAAGATCAAGTGACCAGGATAAAACAACGAGTC--AATAAAGCGACCAAGATC-AA
* * * * * * *
13551290 GTCAAGGTTG-AAGATAAATGATTAAAATAGAACCACGAATCATAAAAAATGATCCGGACTGAGC
1 GTCGAGG-TGAAAGATAAATGATCAAGACAAAACCACGAATCATAAGAAATGATCTGGACTGAGC
13551354 CAAGAT
65 CAAGAT
13551360 TAGATGAGTG
Statistics
Matches: 345, Mismatches: 70, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
116 9 0.03
117 89 0.26
118 2 0.01
119 147 0.43
120 97 0.28
121 1 0.00
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.19
Consensus pattern (117 bp):
GTCGAGGTGAAAGATAAATGATCAAGACAAAACCACGAATCATAAGAAATGATCTGGACTGAGCC
AAGATCAAGTGACCAGGATAAAACAACGAGTCAATAAAGCGACCAAGATCAA
Found at i:13562467 original size:22 final size:21
Alignment explanation
Indices: 13562424--13562469 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
13562414 TTAAAGGATA
*
13562424 AAAATTATTTTTGTTTATTTG
1 AAAATTATTTTTATTTATTTG
13562445 AAAATATATTTTTATTGTA-TTG
1 AAAAT-TATTTTTATT-TATTTG
13562467 AAA
1 AAA
13562470 GGTTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 15 0.68
23 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (21 bp):
AAAATTATTTTTATTTATTTG
Found at i:13562480 original size:3 final size:3
Alignment explanation
Indices: 13562472--13562527 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
13562462 TATTGAAAGG
13562472 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13562520 TTA TTA TT
1 TTA TTA TT
13562528 TCTGTTTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13562568 original size:16 final size:15
Alignment explanation
Indices: 13562532--13562567 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
13562522 ATTATTTCTG
13562532 TTTTTTGTAGAACTT
1 TTTTTTGTAGAACTT
13562547 TTTTTTGTAGAA-TT
1 TTTTTTGTAGAACTT
13562561 ATTTTTT
1 -TTTTTT
13562568 TCTTAGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (15 bp):
TTTTTTGTAGAACTT
Found at i:13563545 original size:3 final size:3
Alignment explanation
Indices: 13563532--13563562 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13563522 AACAATGAAA
13563532 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13563563 CAACAACAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13571825 original size:21 final size:21
Alignment explanation
Indices: 13571780--13571819 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13571770 TATAATACTA
13571780 AAAAATATTCATAACATCCAT
1 AAAAATATTCATAACATCCAT
13571801 AAAAATA-TCAATAACATCC
1 AAAAATATTC-ATAACATCC
13571820 TCAAAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAATATTCATAACATCCAT
Found at i:13572636 original size:159 final size:159
Alignment explanation
Indices: 13572272--13572716 Score: 576
Period size: 159 Copynumber: 2.8 Consensus size: 159
13572262 TACCATTCCA
* * * *
13572272 ATATAGTTCAATATCGTTCATCATACAATGTTTAGA-CTTTCAATTACTACACTATTTACTTTAT
1 ATATAGTTCAATACCGTTC-TCCTACAATGTTTAGATCTTTCAATTACTATACTATCTACTTTAT
* *
13572336 CAACAATCACAATATGCAACCAAAATCACAAAACAAAATATGCAATAGTTTTCA-CTTTCACAAA
65 TAACAATCACAATATGCAACCAAAATCACAAAACAAAATATACAATAGTTTTCACCTTTCACAAA
* *
13572400 GTCATTGCTTCTCAATAAGCACAAAACACT
130 ATCATTGCATCTCAATAAGCACAAAACACT
* * *
13572430 ATATAGTTCAATACCGTTCGTCCTACAATGTTTAGGT-TTTTAATTACTATACTATCTACTTCAT
1 ATATAGTTCAATACCGTTC-TCCTACAATGTTTAGATCTTTCAATTACTATACTATCTACTTTAT
* * ** * * *
13572494 TAACAATCACATTATACAACCCCAATCACAAAACAAAATACACAATAGTTTTTACCTTTCATAAA
65 TAACAATCACAATATGCAACCAAAATCACAAAACAAAATATACAATAGTTTTCACCTTTCACAAA
* * *
13572559 ATCATTGCATCTTAATAAGCACAATATACT
130 ATCATTGCATCTCAATAAGCACAAAACACT
* * *
13572589 ATATAGTTCAATACTGAATT-TCTTATAATGTTTA-ATCTTTCAATTACTATACTATCTACTTTA
1 ATATAGTTCAATACCG--TTCTCCTACAATGTTTAGATCTTTCAATTACTATACTATCTACTTTA
* * *
13572652 TTAACAATCACAATATGCTACAAAAATCACAAAGCAAAATATACAATAGTTTTCACCTTTCACAA
64 TTAACAATCACAATATGCAACCAAAATCACAAAACAAAATATACAATAGTTTTCACCTTTCACAA
13572717 CATTAATCTT
Statistics
Matches: 244, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
158 102 0.42
159 140 0.57
161 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (159 bp):
ATATAGTTCAATACCGTTCTCCTACAATGTTTAGATCTTTCAATTACTATACTATCTACTTTATT
AACAATCACAATATGCAACCAAAATCACAAAACAAAATATACAATAGTTTTCACCTTTCACAAAA
TCATTGCATCTCAATAAGCACAAAACACT
Found at i:13572842 original size:160 final size:157
Alignment explanation
Indices: 13572308--13572877 Score: 470
Period size: 159 Copynumber: 3.6 Consensus size: 157
13572298 AATGTTTAGA
* ** * * *
13572308 CTTTCAATTACTACACTATTTACTTTATCAACAATCACAATATGCAACCAAAATCACAAAACAAA
1 CTTTCAATTACTATACTATCAACTTCATTAACAATCACAATATACAACCAAAATCAC-AAACAAA
* * * * * *
13572373 ATATGCAATAGTTTTCA-CTTTCACAAAGTCATTGCTTCTCAATAAGCACAAAACACTATATAGT
65 ATA-ACAATAGTTTTCACCTTTCACAAAATAATTGCATCTAAATAAGCACAAAATACTATATAGT
* * ** *
13572437 TCAATACCG--TTCGTCCTACAATGTTTAGG
129 TCAATACAGAATT--TCTTACAATGACTAAG
* * * * **
13572466 TTTTTAATTACTATACTATCTACTTCATTAACAATCACATTATACAACCCCAATCACAAAACAAA
1 CTTTCAATTACTATACTATCAACTTCATTAACAATCACAATATACAACCAAAATCAC-AAACAAA
* * * * *
13572531 ATACACAATAGTTTTTACCTTTCATAAAATCATTGCATCTTAATAAGCACAATATACTATATAGT
65 ATA-ACAATAGTTTTCACCTTTCACAAAATAATTGCATCTAAATAAGCACAAAATACTATATAGT
* * ** *
13572596 TCAATACTGAATTTCTTATAATGTTTAAT
129 TCAATACAGAATTTCTTACAATGACTAAG
* * * * *
13572625 CTTTCAATTACTATACTATCTACTTTATTAACAATCACAATATGCTACAAAAATCACAAAGCAAA
1 CTTTCAATTACTATACTATCAACTTCATTAACAATCACAATATACAACCAAAATCACAAA-CAAA
* * * * * *
13572690 ATATACAATAGTTTTCACCTTTCACAACATTAATCT-TATCTAAATACGCACAAAATATTGTTTA
65 ATA-ACAATAGTTTTCACCTTTCACAA-AATAAT-TGCATCTAAATAAGCACAAAATACTATATA
*
13572754 GTTCAATACAGAATTT-TCTACAATGACTAGG
127 GTTCAATACAGAATTTCT-TACAATGACTAAG
* ** ** *
13572785 CTTTCAATTA-T-TACATAATCAACTTCATTAACAATAACAATACCCAACCGGAATCACATCACA
1 CTTTCAATTACTATAC-T-ATCAACTTCATTAACAATCACAATATACAACCAAAATCACA-AACA
* * *
13572848 ACATCAGCAATAGTTTTCACTTTTCACAAA
63 AAAT-AACAATAGTTTTCACCTTTCACAAA
13572878 GTTTTTATAT
Statistics
Matches: 337, Mismatches: 64, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
158 75 0.22
159 141 0.42
160 116 0.34
161 5 0.01
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (157 bp):
CTTTCAATTACTATACTATCAACTTCATTAACAATCACAATATACAACCAAAATCACAAACAAAA
TAACAATAGTTTTCACCTTTCACAAAATAATTGCATCTAAATAAGCACAAAATACTATATAGTTC
AATACAGAATTTCTTACAATGACTAAG
Found at i:13575395 original size:28 final size:27
Alignment explanation
Indices: 13575336--13575395 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
13575326 AAGGAGGCAG
*
13575336 CAAAAAAATGGAGGCATGGGTCGATGA
1 CAAAAAAATGGAGGCATGGCTCGATGA
*
13575363 CAAAAAAATGGAGGCATAGGCT-GATTA
1 CAAAAAAATGGAGGCAT-GGCTCGATGA
13575390 CAAAAA
1 CAAAAA
13575396 GAGAAAGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.47, C:0.12, G:0.27, T:0.15
Consensus pattern (27 bp):
CAAAAAAATGGAGGCATGGCTCGATGA
Found at i:13577974 original size:22 final size:21
Alignment explanation
Indices: 13577949--13578141 Score: 82
Period size: 22 Copynumber: 8.8 Consensus size: 21
13577939 TCGATTGATA
*
13577949 ATTAAGTTATCATTGATTTGTT
1 ATTAAGTTATCA-TGATTTATT
* *
13577971 ATTAGGTTATCACTAATTTATT
1 ATTAAGTTATCA-TGATTTATT
* *
13577993 ATTAAATTATTCATGATTTACT
1 ATTAAGTTA-TCATGATTTATT
* * *
13578015 ATAAAGTTATGAATGATTTACT
1 ATTAAGTTAT-CATGATTTATT
* * *
13578037 ATTAAATTATTAATGA-TTACT
1 ATTAAGTTA-TCATGATTTATT
* * * *
13578058 ACTAAATTATTAATAATTTATT
1 ATTAAGTTA-TCATGATTTATT
* * * * *
13578080 ATAAAGTTGTAACTAATTTAAT
1 ATTAAGTTATCA-TGATTTATT
* *
13578102 ATGAAATTATCAATGATTTATT
1 ATTAAGTTATC-ATGATTTATT
* *
13578124 ATAAAATTATCAATGATT
1 ATTAAGTTATC-ATGATT
13578142 AGTTAATTTA
Statistics
Matches: 137, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
21 23 0.17
22 109 0.80
23 5 0.04
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (21 bp):
ATTAAGTTATCATGATTTATT
Found at i:13578058 original size:21 final size:22
Alignment explanation
Indices: 13577986--13578141 Score: 131
Period size: 22 Copynumber: 7.1 Consensus size: 22
13577976 GTTATCACTA
* *
13577986 ATTTATTATTAAATTATTCATG
1 ATTTACTATTAAATTATTAATG
*
13578008 ATTTACTA-TAAAGTTATGAATG
1 ATTTACTATTAAA-TTATTAATG
13578030 ATTTACTATTAAATTATTAATG
1 ATTTACTATTAAATTATTAATG
* *
13578052 A-TTACTACTAAATTATTAATA
1 ATTTACTATTAAATTATTAATG
* * *
13578073 ATTTATTA-TAAAGTT-GTAACTA
1 ATTTACTATTAAA-TTATTAA-TG
* * *
13578095 ATTTAATATGAAATTATCAATG
1 ATTTACTATTAAATTATTAATG
* * *
13578117 ATTTATTATAAAATTATCAATG
1 ATTTACTATTAAATTATTAATG
13578139 ATT
1 ATT
13578142 AGTTAATTTA
Statistics
Matches: 112, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
21 30 0.27
22 73 0.65
23 9 0.08
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.46
Consensus pattern (22 bp):
ATTTACTATTAAATTATTAATG
Found at i:13578083 original size:65 final size:65
Alignment explanation
Indices: 13577995--13578119 Score: 162
Period size: 65 Copynumber: 1.9 Consensus size: 65
13577985 AATTTATTAT
* * * * * *
13577995 TAAATTATTCATGATTTACTATAAAGTTATGAA-TGATTTACTATTAAATTATTAATGATTACTA
1 TAAATTATTAATAATTTACTATAAAGTTAT-AACTAATTTAATATGAAATTATCAATGATTACTA
13578059 C
65 C
* *
13578060 TAAATTATTAATAATTTATTATAAAGTTGTAACTAATTTAATATGAAATTATCAATGATT
1 TAAATTATTAATAATTTACTATAAAGTTATAACTAATTTAATATGAAATTATCAATGATT
13578120 TATTATAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 2 0.04
65 49 0.96
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (65 bp):
TAAATTATTAATAATTTACTATAAAGTTATAACTAATTTAATATGAAATTATCAATGATTACTAC
Found at i:13578388 original size:22 final size:21
Alignment explanation
Indices: 13578321--13578388 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
13578311 TCAGCTATTA
*
13578321 ACTATTAAATTATCATTGAATT
1 ACTACTAAATTATCATT-AATT
* * *
13578343 ACTACTAAATTATTTATGATTT
1 ACTACTAAATTA-TCATTAATT
*
13578365 ACTACTAATTTATCAATTAATT
1 ACTACTAAATTATC-ATTAATT
13578387 AC
1 AC
13578389 AATATATAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 1 0.03
22 32 0.89
23 3 0.08
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.46
Consensus pattern (21 bp):
ACTACTAAATTATCATTAATT
Found at i:13578692 original size:22 final size:21
Alignment explanation
Indices: 13578667--13578815 Score: 127
Period size: 22 Copynumber: 6.8 Consensus size: 21
13578657 TATCACTACA
*
13578667 TTATTAATGATTTATTACTAAG
1 TTATTAATGATTTACTA-TAAG
* *
13578689 TTATAAATTATTTACTATTAAG
1 TTATTAATGATTTACTA-TAAG
* * *
13578711 TTATTGATAATTTACTATTAAA
1 TTATTAATGATTTACTA-TAAG
*
13578733 TTATTAATGATTTATTATAAAG
1 TTATTAATGATTTACTAT-AAG
* *
13578755 TTATTACTGATTTACTATAAAA
1 TTATTAATGATTTACTAT-AAG
*
13578777 TTATTGATGATTTACTATGAAG
1 TTATTAATGATTTACTAT-AAG
* * *
13578799 CTATTAATAATTAACTA
1 TTATTAATGATTTACTA
13578816 ATTTACAATT
Statistics
Matches: 103, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
21 1 0.01
22 102 0.99
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (21 bp):
TTATTAATGATTTACTATAAG
Found at i:13578715 original size:44 final size:44
Alignment explanation
Indices: 13578667--13578957 Score: 142
Period size: 44 Copynumber: 6.5 Consensus size: 44
13578657 TATCACTACA
* * * *
13578667 TTATTAATGATTTATTACTAAGTTATAAATTATTTACTATTAAG
1 TTATTAATGATTTACTACTAAATTATAAATGATTTACTATAAAG
* * * * *
13578711 TTATTGATAATTTACTATTAAATTATTAATGATTTATTATAAAG
1 TTATTAATGATTTACTACTAAATTATAAATGATTTACTATAAAG
* ** *
13578755 TTATTACTGATTTACTA-TAAAATTATTGATGATTTACTATGAAGCTAT
1 TTATTAATGATTTACTACT-AAATTATAAATGATTTACTAT-AA---AG
* * * * * *
13578803 TAATAATTAACTAATTTACAATTAAATTATTATTGATTTA-TA-ACAAA
1 T--T-ATTAA-TGATTTACTACTAAATTATAAATGATTTACTATA-AAG
* * * * * * * * *
13578850 TTCTTACTTATTTACAATTAAGTTATCAAT-ACTTTACTATTATG
1 TTATTAATGATTTACTACTAAATTATAAATGA-TTTACTATAAAG
* * * *
13578894 TTATTAGTAATTTACTACTAAATTATCAATAATTTACTATTAAA-
1 TTATTAATGATTTACTACTAAATTATAAATGATTTACTA-TAAAG
*
13578938 TTATTAATAATTTACTACTA
1 TTATTAATGATTTACTACTA
13578958 TACTATTATG
Statistics
Matches: 192, Mismatches: 39, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
42 1 0.01
43 24 0.12
44 124 0.65
45 6 0.03
47 2 0.01
48 2 0.01
49 1 0.01
50 2 0.01
51 6 0.03
52 23 0.12
53 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (44 bp):
TTATTAATGATTTACTACTAAATTATAAATGATTTACTATAAAG
Found at i:13578736 original size:66 final size:66
Alignment explanation
Indices: 13578666--13578794 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
13578656 TTATCACTAC
* * *
13578666 ATTATTAATGATTTATTACT-AAGTTATAAATTATTTACTATTAAGTTATTGATAATTTACTATT
1 ATTATTAATGATTTATTA-TAAAGTTATAAATGATTTACTATAAAATTATTGATAATTTACTATT
13578730 AA
65 AA
* * *
13578732 ATTATTAATGATTTATTATAAAGTTATTACTGATTTACTATAAAATTATTGATGATTTACTAT
1 ATTATTAATGATTTATTATAAAGTTATAAATGATTTACTATAAAATTATTGATAATTTACTAT
13578795 GAAGCTATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.02
66 55 0.98
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (66 bp):
ATTATTAATGATTTATTATAAAGTTATAAATGATTTACTATAAAATTATTGATAATTTACTATTA
A
Found at i:13578953 original size:22 final size:22
Alignment explanation
Indices: 13578799--13578954 Score: 127
Period size: 22 Copynumber: 7.1 Consensus size: 22
13578789 TACTATGAAG
*
13578799 CTATT-AATAATTAACTAATTTA
1 CTATTAAATTATTAA-TAATTTA
* * *
13578821 CAATTAAATTATTATTGATTTA
1 CTATTAAATTATTAATAATTTA
** * * *
13578843 -TAACAAATTCTTACTTATTTA
1 CTATTAAATTATTAATAATTTA
* * * *
13578864 CAATTAAGTTATCAATACTTTA
1 CTATTAAATTATTAATAATTTA
** *
13578886 CTATTATGTTATTAGTAATTTA
1 CTATTAAATTATTAATAATTTA
* *
13578908 CTACTAAATTATCAATAATTTA
1 CTATTAAATTATTAATAATTTA
13578930 CTATTAAATTATTAATAATTTA
1 CTATTAAATTATTAATAATTTA
13578952 CTA
1 CTA
13578955 CTATACTATT
Statistics
Matches: 101, Mismatches: 31, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
21 15 0.15
22 79 0.78
23 7 0.07
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.47
Consensus pattern (22 bp):
CTATTAAATTATTAATAATTTA
Found at i:13578965 original size:66 final size:66
Alignment explanation
Indices: 13578859--13578987 Score: 152
Period size: 66 Copynumber: 2.0 Consensus size: 66
13578849 ATTCTTACTT
* * * **
13578859 ATTTACAATTAAGTTATCAATACTTTACTATTATGTTATTA-GTAATTTACTACTAAATTATCAA
1 ATTTACAATTAAATTATCAATAATTTACTACTATACTATTATG-AATTTACTACTAAATTATCAA
13578923 TA
65 TA
* * * * *
13578925 ATTTACTATTAAATTATTAATAATTTACTACTATACTATTATGCATTTGCTACTATATTATCA
1 ATTTACAATTAAATTATCAATAATTTACTACTATACTATTATGAATTTACTACTAAATTATCA
13578988 TTGATTTGCT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
66 51 0.98
67 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.47
Consensus pattern (66 bp):
ATTTACAATTAAATTATCAATAATTTACTACTATACTATTATGAATTTACTACTAAATTATCAAT
A
Found at i:13579036 original size:22 final size:22
Alignment explanation
Indices: 13578903--13579045 Score: 101
Period size: 22 Copynumber: 6.5 Consensus size: 22
13578893 GTTATTAGTA
*
13578903 ATTTACTACTAAATTATCAATA
1 ATTTACTACTAAATTATCAATG
* * *
13578925 ATTTACTATTAAATTATTAATA
1 ATTTACTACTAAATTATCAATG
* * *
13578947 ATTTACTACTATACTAT-TATG
1 ATTTACTACTAAATTATCAATG
* * *
13578968 CATTTGCTACTATATTATCATTG
1 -ATTTACTACTAAATTATCAATG
* * * * *
13578991 ATTTGCTACTGAGTT-TTAGTG
1 ATTTACTACTAAATTATCAATG
* *
13579012 ATTAACTACTAAATTATCATTG
1 ATTTACTACTAAATTATCAATG
*
13579034 ATTTATTACTAA
1 ATTTACTACTAA
13579046 GTTGTTTATT
Statistics
Matches: 94, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
21 17 0.18
22 75 0.80
23 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATG
Found at i:13579125 original size:22 final size:22
Alignment explanation
Indices: 13579101--13579419 Score: 156
Period size: 22 Copynumber: 14.5 Consensus size: 22
13579091 ACTAAAACAA
* *
13579101 ATTTACTATTAAGTTATTACTA
1 ATTTACTATTAAGTTATTATTG
* *
13579123 ATTTACTACT-AGTT-TTCTTTG
1 ATTTACTATTAAGTTATT-ATTG
* * * *
13579144 ATTTATTACTAAATTATCGA-TG
1 ATTTACTATTAAGTTAT-TATTG
* *
13579166 ATTAACTATTAAGTTATTATTT
1 ATTTACTATTAAGTTATTATTG
** *
13579188 ATTTTTTATTAAGTTGTTATTG
1 ATTTACTATTAAGTTATTATTG
* * *
13579210 ATTTACTACTATGCTATTA-TG
1 ATTTACTATTAAGTTATTATTG
* *
13579231 CATTTACAATTATA-TTATAATTG
1 -ATTTACTATTA-AGTTATTATTG
*
13579254 TTTTACTATTAAGTTATTA-TG
1 ATTTACTATTAAGTTATTATTG
*
13579275 TATTTACTATTATA-TTGTTATTG
1 -ATTTACTATTA-AGTTATTATTG
* *
13579298 ATTTACTACTAAATTATTATT-
1 ATTTACTATTAAGTTATTATTG
* * * *
13579319 AGTATACTATTAAGTTATCACTA
1 A-TTTACTATTAAGTTATTATTG
* * * * *
13579342 ATTTACTAAACTAACTTGTCACT-
1 ATTTACT--ATTAAGTTATTATTG
* *
13579365 ATTTAACTATTAATTTATTAATG
1 ATTT-ACTATTAAGTTATTATTG
*
13579388 A-TTACTATTAAGTTA-TATCG
1 ATTTACTATTAAGTTATTATTG
*
13579408 ATTTACTTTTAA
1 ATTTACTATTAA
13579420 TTTTCAATTA
Statistics
Matches: 222, Mismatches: 55, Indels: 41
0.70 0.17 0.13
Matches are distributed among these distances:
20 6 0.03
21 42 0.19
22 148 0.67
23 12 0.05
24 14 0.06
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (22 bp):
ATTTACTATTAAGTTATTATTG
Found at i:13579469 original size:11 final size:11
Alignment explanation
Indices: 13579455--13579492 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
13579445 TATAAATTAT
13579455 TTATTACTAAA
1 TTATTACTAAA
* *
13579466 TTATTATTAAT
1 TTATTACTAAA
13579477 TTATTACTAAA
1 TTATTACTAAA
13579488 TTATT
1 TTATT
13579493 TATGATTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (11 bp):
TTATTACTAAA
Found at i:13579469 original size:22 final size:22
Alignment explanation
Indices: 13579437--13579491 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
13579427 TTATTAATTC
*
13579437 TACTAAGTTATAAATT-ATTTAT
1 TACTAAATTAT-AATTAATTTAT
*
13579459 TACTAAATTATTATTAATTTAT
1 TACTAAATTATAATTAATTTAT
13579481 TACTAAATTAT
1 TACTAAATTAT
13579492 TTATGATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (22 bp):
TACTAAATTATAATTAATTTAT
Found at i:13579816 original size:11 final size:11
Alignment explanation
Indices: 13579800--13579862 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
13579790 TGAATCTTAT
13579800 TTATTATTAAG
1 TTATTATTAAG
*
13579811 TTATTATTAAT
1 TTATTATTAAG
* * *
13579822 TTACTAATAAA
1 TTATTATTAAG
13579833 TTATTATT--G
1 TTATTATTAAG
*
13579842 TTTTTATTAAG
1 TTATTATTAAG
*
13579853 TTATTTTTAA
1 TTATTATTAA
13579863 TTTACTACTA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
9 7 0.17
11 33 0.82
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:13580009 original size:22 final size:22
Alignment explanation
Indices: 13579984--13580156 Score: 97
Period size: 22 Copynumber: 7.9 Consensus size: 22
13579974 TACGATTATC
13579984 TTATCAATTATTTACTACTAAA
1 TTATCAATTATTTACTACTAAA
* * * *
13580006 TTATTATTTATTTATTATTAAA
1 TTATCAATTATTTACTACTAAA
* *
13580028 TTAT-TATTAATTTACTATTAAA
1 TTATCAATT-ATTTACTACTAAA
* * *
13580050 TTATCCATAATTTACTA-TACAG
1 TTATCAATTATTTACTACTA-AA
*
13580072 TTATC-ATTGATTTAGTA-TAAAA
1 TTATCAATT-ATTTACTACT-AAA
* **
13580094 TTAT-TATTGATTTTGT-CTAAA
1 TTATCAATT-ATTTACTACTAAA
* * * *
13580115 TTATCACTAATTTACAACAAAA
1 TTATCAATTATTTACTACTAAA
*
13580137 TTATCAATAATTTACTACTA
1 TTATCAATTATTTACTACTA
13580157 TAAAAATCAT
Statistics
Matches: 118, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
21 17 0.14
22 98 0.83
23 3 0.03
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (22 bp):
TTATCAATTATTTACTACTAAA
Found at i:13580022 original size:11 final size:11
Alignment explanation
Indices: 13580006--13580053 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
13579996 TACTACTAAA
*
13580006 TTATTATTTAT
1 TTATTATTAAT
*
13580017 TTATTATTAAA
1 TTATTATTAAT
13580028 TTATTATTAAT
1 TTATTATTAAT
* *
13580039 TTACTATTAAA
1 TTATTATTAAT
13580050 TTAT
1 TTAT
13580054 CCATAATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTATTATTAAT
Found at i:13580054 original size:66 final size:66
Alignment explanation
Indices: 13579927--13580140 Score: 164
Period size: 66 Copynumber: 3.3 Consensus size: 66
13579917 ACTATTTGTT
** * * * * * ** * **
13579927 ATTTACTACTATGTTATTATGTATTTCCTATTATATTATCACTAACATACGATTATCTTATCAAT
1 ATTTACTACTAAATTATTATTTATTTACTATTAAATTATTATTAATTTACTATTAAATTATCAAT
*
13579992 T
66 A
* *
13579993 ATTTACTACTAAATTATTATTTATTTATTATTAAATTATTATTAATTTACTATTAAATTATCCAT
1 ATTTACTACTAAATTATTATTTATTTACTATTAAATTATTATTAATTTACTATTAAATTATCAAT
13580058 A
66 A
* * * * * * *
13580059 ATTTACTA-TACAGTTATCATTGATTTAGTATAAAATTATTATTGATTT--TGTCTAAATTATCA
1 ATTTACTACTA-AATTATTATTTATTTACTATTAAATTATTATTAATTTACTAT-TAAATTATCA
*
13580121 CTA
64 ATA
* *
13580124 ATTTACAACAAAATTAT
1 ATTTACTACTAAATTAT
13580141 CAATAATTTA
Statistics
Matches: 118, Mismatches: 27, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
64 2 0.02
65 25 0.21
66 91 0.77
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.49
Consensus pattern (66 bp):
ATTTACTACTAAATTATTATTTATTTACTATTAAATTATTATTAATTTACTATTAAATTATCAAT
A
Found at i:13582778 original size:17 final size:17
Alignment explanation
Indices: 13582758--13582803 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
13582748 TGTATTCTCC
13582758 TTACATGTATACCCTCT
1 TTACATGTATACCCTCT
* *
13582775 TTACATGTATGCCTTCT
1 TTACATGTATACCCTCT
13582792 TTACATGTATAC
1 TTACATGTATAC
13582804 TCTTATCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.43
Consensus pattern (17 bp):
TTACATGTATACCCTCT
Found at i:13582851 original size:21 final size:21
Alignment explanation
Indices: 13582805--13582851 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
13582795 CATGTATACT
* *
13582805 CTTATCAACAAAAAGAAACTC
1 CTTATCAACAAAAAAAAAATC
*
13582826 TTTATCTAA-AAAAAAAAAATC
1 CTTATC-AACAAAAAAAAAATC
13582847 CTTAT
1 CTTAT
13582852 ATACCCTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (21 bp):
CTTATCAACAAAAAAAAAATC
Found at i:13591484 original size:153 final size:153
Alignment explanation
Indices: 13591305--13591616 Score: 455
Period size: 153 Copynumber: 2.0 Consensus size: 153
13591295 TTTTTAATTA
** *
13591305 ATTTAAATTTAAATAACTAACAAATAAAAACTATATATTTAATGGTAAATAATCTTTATTAAATA
1 ATTTAAATTTAAATAACTAACAAATAAAAACTATATATTTAATGACAAATAATATTTATTAAATA
** * *
13591370 AATAAATAAATGCTAAAAATTGAAAGGTAAATTTGTTATTT-TTTAAATTTATAAGAGTATTTAA
66 AATAAAT-AATGCTAAAAATTGAAAAATAAATTTGTTATTTCTTAAAATTTATAAAAGTATTTAA
*
13591434 GTTATTCATTTTTAACATTTTTGG
130 GTCATTCATTTTTAACATTTTTGG
* * *
13591458 ATTTAAATTTAAATAATTAACTAATAAAAGCTATATATTTAATGACAAATAATATTTATTAAATA
1 ATTTAAATTTAAATAACTAACAAATAAAAACTATATATTTAATGACAAATAATATTTATTAAATA
* * * *
13591523 AATAAATAATGTTAGAAATTTAAAAATAAATTTGTTATTTCTTAAAATTTATAAAAGTATTTATG
66 AATAAATAATGCTAAAAATTGAAAAATAAATTTGTTATTTCTTAAAATTTATAAAAGTATTTAAG
*
13591588 TCATTCATTTTTAATATTTTTGG
131 TCATTCATTTTTAACATTTTTGG
13591611 AGTTTA
1 A-TTTA
13591617 TACTTTTATA
Statistics
Matches: 141, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
152 28 0.20
153 109 0.77
154 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (153 bp):
ATTTAAATTTAAATAACTAACAAATAAAAACTATATATTTAATGACAAATAATATTTATTAAATA
AATAAATAATGCTAAAAATTGAAAAATAAATTTGTTATTTCTTAAAATTTATAAAAGTATTTAAG
TCATTCATTTTTAACATTTTTGG
Found at i:13606693 original size:21 final size:22
Alignment explanation
Indices: 13606667--13606723 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 22
13606657 TTGAGTTGGG
*
13606667 TTTTTTTTCTTTTT-TAGTAGA
1 TTTTTTTTTTTTTTGTAGTAGA
13606688 TTTTTTTTTTTTTTTTGTAGTAGA
1 --TTTTTTTTTTTTTTGTAGTAGA
13606712 TTTTTTTTTTTT
1 TTTTTTTTTTTT
13606724 GGGTTGTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 12 0.38
23 13 0.41
24 7 0.22
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.79
Consensus pattern (22 bp):
TTTTTTTTTTTTTTGTAGTAGA
Found at i:13606698 original size:24 final size:24
Alignment explanation
Indices: 13606667--13606723 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
13606657 TTGAGTTGGG
*
13606667 TTTTTTTTCTTTTT-TAGTAGATT
1 TTTTTTTTTTTTTTGTAGTAGATT
13606690 TTTTTTTTTTTTTTGTAGTAGATT
1 TTTTTTTTTTTTTTGTAGTAGATT
13606714 TTTTTTTTTT
1 TTTTTTTTTT
13606724 GGGTTGTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.79
Consensus pattern (24 bp):
TTTTTTTTTTTTTTGTAGTAGATT
Found at i:13616433 original size:19 final size:18
Alignment explanation
Indices: 13616393--13616435 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
13616383 ACAAATTTAA
*
13616393 TTAATTTTAAAATTATTT
1 TTAATTTTAAAATTATTG
13616411 TTAATTATT-AAATTATATG
1 TTAATT-TTAAAATTAT-TG
13616430 TTAATT
1 TTAATT
13616436 CACTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTAATTTTAAAATTATTG
Found at i:13627074 original size:13 final size:15
Alignment explanation
Indices: 13627043--13627074 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13627033 AAACACCATC
13627043 AAAATCAAAAGATTG
1 AAAATCAAAAGATTG
13627058 AAAA-CAAAAGA-TG
1 AAAATCAAAAGATTG
13627071 AAAA
1 AAAA
13627075 ATTCAGGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 7 0.41
15 4 0.24
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAATCAAAAGATTG
Found at i:13631422 original size:24 final size:24
Alignment explanation
Indices: 13631378--13631423 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13631368 CAATATAAAA
*
13631378 ATATAAATTATTTTTTATAAATTT
1 ATATAAATTATTATTTATAAATTT
13631402 ATATATAATTATTATTT-TAAAT
1 ATATA-AATTATTATTTATAAAT
13631424 CATATCGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATATAAATTATTATTTATAAATTT
Found at i:13631462 original size:17 final size:18
Alignment explanation
Indices: 13631442--13631475 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13631432 ATATTCACAT
13631442 TTATATCTTAT-TTTTTA
1 TTATATCTTATATTTTTA
*
13631459 TTATATTTTATATTTTT
1 TTATATCTTATATTTTT
13631476 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATATCTTATATTTTTA
Found at i:13633987 original size:23 final size:25
Alignment explanation
Indices: 13633953--13633998 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
13633943 TTATACTGAA
*
13633953 TAAATTTTATTAA-AAT-TAATATT
1 TAAATTTAATTAATAATATAATATT
13633976 TAAATTTAATTAATAATATAATA
1 TAAATTTAATTAATAATATAATA
13633999 AATTTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAATTTAATTAATAATATAATATT
Found at i:13635137 original size:5 final size:5
Alignment explanation
Indices: 13635127--13635151 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13635117 TAATATGATG
13635127 GATAA GATAA GATAA GATAA GATAA
1 GATAA GATAA GATAA GATAA GATAA
13635152 TAATTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
GATAA
Found at i:13636106 original size:28 final size:29
Alignment explanation
Indices: 13636031--13636107 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 29
13636021 TTTAATAATA
*
13636031 ATAATTTT-ATCTAAAAATAAAAAAAAAGT
1 ATAATTTTAATC-ATAAATAAAAAAAAAGT
* *
13636060 ATAATATTTTCAATAATAAA-AAAAAGAAAGT
1 AT-A-ATTTT-AATCATAAATAAAAAAAAAGT
13636091 ATAATTTTAATCATAAA
1 ATAATTTTAATCATAAA
13636108 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
28 8 0.20
29 7 0.17
30 2 0.05
31 17 0.43
32 4 0.10
33 2 0.05
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (29 bp):
ATAATTTTAATCATAAATAAAAAAAAAGT
Found at i:13637258 original size:27 final size:26
Alignment explanation
Indices: 13637201--13637251 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
13637191 TTTTGATCTC
* *
13637201 ATTTAAATAATTATCCAAAATATTCA
1 ATTTAAATAATTATCAAAAAAATTCA
*
13637227 ATTTAAATAATTTATTAAAAAAATT
1 ATTTAAATAA-TTATCAAAAAAATT
13637252 TATTTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTTAAATAATTATCAAAAAAATTCA
Found at i:13637690 original size:24 final size:23
Alignment explanation
Indices: 13637649--13637708 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
13637639 AATTAAAATA
* *
13637649 ATTATAAAATTTACTGTAATTATG
1 ATTAAAAAAATTA-TGTAATTATG
*
13637673 ATTAAAAGAAATTATGTAATTATT
1 ATTAAAA-AAATTATGTAATTATG
13637697 ATTAAAAAAATT
1 ATTAAAAAAATT
13637709 TAATAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.16
24 22 0.69
25 5 0.16
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.42
Consensus pattern (23 bp):
ATTAAAAAAATTATGTAATTATG
Found at i:13642262 original size:20 final size:19
Alignment explanation
Indices: 13642224--13642261 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13642214 TGTAACATTA
13642224 CTGATTTTTTTTTTTTTTT
1 CTGATTTTTTTTTTTTTTT
13642243 CTGATTTTTTTTTTTTTTT
1 CTGATTTTTTTTTTTTTTT
13642262 TATTTTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.84
Consensus pattern (19 bp):
CTGATTTTTTTTTTTTTTT
Found at i:13646708 original size:127 final size:127
Alignment explanation
Indices: 13646472--13646730 Score: 385
Period size: 127 Copynumber: 2.0 Consensus size: 127
13646462 TAGCATAAAC
* * *
13646472 ATGAAAAATTACCATTCTAAGTTGTAAAATCAAATTAAAATTAAAAGCTATGCATACAAGCAATA
1 ATGAAAAATTACCATTCTAACTTGTAAAATCAAATTAAAACTAAAAGCTAAGCATACAAGCAATA
* *
13646537 ACAATATAAATAGCAGATTAAGAGAATAAAAACTCAAAACAAATAAGA-ATTAAACAACAGAA
66 ACAACATAAATAGCAGATTAAGAGAATAAAAACTAAAAACAAATAA-ACATTAAACAACAGAA
*
13646599 ATGAAAAATTACCATTCTAACTTGTAAAATCAAATTAAAACTAAATGCTAAGCATACAAGCAATA
1 ATGAAAAATTACCATTCTAACTTGTAAAATCAAATTAAAACTAAAAGCTAAGCATACAAGCAATA
*** ** * *
13646664 ATTGCATAAATAGCAGATTAAGAGAATGGAAACTAAAAATAAATAAACATTAAACAATAGAA
66 ACAACATAAATAGCAGATTAAGAGAATAAAAACTAAAAACAAATAAACATTAAACAACAGAA
13646726 ATGAA
1 ATGAA
13646731 TGATTAACAA
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
126 1 0.01
127 117 0.99
ACGTcount: A:0.56, C:0.12, G:0.10, T:0.23
Consensus pattern (127 bp):
ATGAAAAATTACCATTCTAACTTGTAAAATCAAATTAAAACTAAAAGCTAAGCATACAAGCAATA
ACAACATAAATAGCAGATTAAGAGAATAAAAACTAAAAACAAATAAACATTAAACAACAGAA
Found at i:13648487 original size:14 final size:14
Alignment explanation
Indices: 13648465--13648506 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
13648455 TTTCAGGAGA
*
13648465 CACTGATTTAAAAG
1 CACTAATTTAAAAG
13648479 CACTAATTTAAAAG
1 CACTAATTTAAAAG
13648493 CACTAATTTAAAAG
1 CACTAATTTAAAAG
13648507 GTATTTCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (14 bp):
CACTAATTTAAAAG
Found at i:13649382 original size:67 final size:67
Alignment explanation
Indices: 13649274--13649408 Score: 234
Period size: 67 Copynumber: 2.0 Consensus size: 67
13649264 ATACTTCACA
* *
13649274 ATTTCAATTATAAACAATTTCTTAATATTTCAGACTGGGTTAACTCTTTCCCCTTCCAGAATTTG
1 ATTTCAATTACAAACAATTTCTTAATATTTCAGACTGGGTTAACTCTATCCCCTTCCAGAATTTG
13649339 TG
66 TG
* *
13649341 ATTTCAATTACAAACAATTTCTTAGTTTTTCAGACTGGGTTAACTCTATCCCCTTCCAGAATTTG
1 ATTTCAATTACAAACAATTTCTTAATATTTCAGACTGGGTTAACTCTATCCCCTTCCAGAATTTG
13649406 TG
66 TG
13649408 A
1 A
13649409 ATCTTTAATG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (67 bp):
ATTTCAATTACAAACAATTTCTTAATATTTCAGACTGGGTTAACTCTATCCCCTTCCAGAATTTG
TG
Found at i:13652326 original size:19 final size:19
Alignment explanation
Indices: 13652304--13652342 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13652294 ATAAGGTCCA
13652304 TGACTTAACATAAAGTAAC
1 TGACTTAACATAAAGTAAC
* *
13652323 TGACTTGACTTAAAGTAAC
1 TGACTTAACATAAAGTAAC
13652342 T
1 T
13652343 TCAATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (19 bp):
TGACTTAACATAAAGTAAC
Found at i:13656042 original size:50 final size:51
Alignment explanation
Indices: 13655926--13656047 Score: 113
Period size: 50 Copynumber: 2.4 Consensus size: 51
13655916 AAACATTCTG
* * * * * * *
13655926 ACTTTTTGGTGAAATCTCAAAATTTATTAAATAAATTTTAGGATTATCTCA
1 ACTTTTTGATGAAATCTTAAAAATTATTAAACAAATTATAAGATCATCTCA
* * * *
13655977 ACTCTTT-AGTAAAATCTTAAAAATT-TTAAACAAGTTATAAGATCATCTTA
1 ACTTTTTGA-TGAAATCTTAAAAATTATTAAACAAATTATAAGATCATCTCA
*
13656027 ACTTTTTGATGAAATCCTAAA
1 ACTTTTTGATGAAATCTTAAA
13656048 TAAAAATAAT
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
50 35 0.64
51 20 0.36
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (51 bp):
ACTTTTTGATGAAATCTTAAAAATTATTAAACAAATTATAAGATCATCTCA
Found at i:13656283 original size:16 final size:15
Alignment explanation
Indices: 13656256--13656294 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
13656246 CGAACTCTTT
*
13656256 AATTTTTTTTTTTAA
1 AATTTATTTTTTTAA
13656271 AATTATATTTTTTTAA
1 AATT-TATTTTTTTAA
13656287 AATTTATT
1 AATTTATT
13656295 CAAAACATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTTATTTTTTTAA
Found at i:13656608 original size:3 final size:3
Alignment explanation
Indices: 13656600--13656660 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
13656590 CCTTAAATAG
13656600 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13656648 TTA -TA TTA TTA TT
1 TTA TTA TTA TTA TT
13656661 TTGCATGTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13656698 original size:18 final size:18
Alignment explanation
Indices: 13656669--13656715 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
13656659 TTTTGCATGT
* *
13656669 TATTTT-TTTTAGGTCTG
1 TATTTTATTTTAGATCTA
13656686 TATTTTATTTTAGATCTA
1 TATTTTATTTTAGATCTA
*
13656704 TTTTTTATTTTA
1 TATTTTATTTTA
13656716 TTTATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (18 bp):
TATTTTATTTTAGATCTA
Found at i:13656782 original size:26 final size:25
Alignment explanation
Indices: 13656753--13656829 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
13656743 TAGTAATAAT
*
13656753 ATAAAATAACAATAATATCATAAAAA
1 ATAAAATAAAAATAATATCA-AAAAA
* *
13656779 ATAACATAAAAAT-ATACACAAAATAA
1 ATAAAATAAAAATAATA-TCAAAA-AA
13656805 ATAAAATAAAAATTAA-ATCAAAAAA
1 ATAAAATAAAAA-TAATATCAAAAAA
13656830 TAGAAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
25 8 0.19
26 31 0.74
27 2 0.05
28 1 0.02
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (25 bp):
ATAAAATAAAAATAATATCAAAAAA
Found at i:13656786 original size:12 final size:12
Alignment explanation
Indices: 13656766--13656831 Score: 55
Period size: 12 Copynumber: 5.3 Consensus size: 12
13656756 AAATAACAAT
*
13656766 AATATCATAAAA
1 AATAACATAAAA
13656778 AATAACATAAAA
1 AATAACATAAAA
13656790 ATATACACA-AAATA
1 A-ATA-ACATAAA-A
*
13656804 AATAAAATAAAA
1 AATAACATAAAA
*
13656816 ATTAA-ATCAAAA
1 AATAACAT-AAAA
13656828 AATA
1 AATA
13656832 GAAAAGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
11 2 0.04
12 26 0.58
13 12 0.27
14 5 0.11
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAACATAAAA
Found at i:13656822 original size:20 final size:20
Alignment explanation
Indices: 13656799--13656836 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13656789 AATATACACA
13656799 AAATAAATAAAATA-AAAATT
1 AAATAAA-AAAATAGAAAATT
*
13656819 AAATCAAAAAATAGAAAA
1 AAATAAAAAAATAGAAAA
13656837 GAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
AAATAAAAAAATAGAAAATT
Found at i:13658094 original size:40 final size:39
Alignment explanation
Indices: 13658010--13658304 Score: 220
Period size: 40 Copynumber: 7.4 Consensus size: 39
13658000 AAGGTAACAA
* ** * *
13658010 AACTTTAAATTTAGAAGATTCCTCT-AACTAGAGGCAACG
1 AACTTTAAATTTAAAAGGCTCCTCTGACCTA-AGGCAATG
* **
13658049 AAACTTTAAATGTTAAAAGGCTCCTCTGACCGAAGATAATG
1 -AACTTTAAAT-TTAAAAGGCTCCTCTGACCTAAGGCAATG
* * * * * * *
13658090 AACTTTAAATGTTAAAAAGCTTCTTTCACCAAAAGCAACG
1 AACTTTAAAT-TTAAAAGGCTCCTCTGACCTAAGGCAATG
* * * * * * *
13658130 AATTTTAAATTCAAAAGGCTCTTTTAACCAAAGGCAATA
1 AACTTTAAATTTAAAAGGCTCCTCTGACCTAAGGCAATG
*
13658169 AACTTTAAATATTAAAAGGCTCCTTTGA-CTAGAGGCAATG
1 AACTTTAAAT-TTAAAAGGCTCCTCTGACCTA-AGGCAATG
* *
13658209 AACTTTAAATTTAAAAAGCTCTTCTGA-CTAGAGGCAATG
1 AACTTTAAATTTAAAAGGCTCCTCTGACCTA-AGGCAATG
* *
13658248 AAACTTTAAATTCAAAAGGCTCATCTGA-CTAGAGGCAATG
1 -AACTTTAAATTTAAAAGGCTCCTCTGACCTA-AGGCAATG
*
13658288 AAACTTTAAATTCAAAA
1 -AACTTTAAATTTAAAA
13658305 TATTTTGCTT
Statistics
Matches: 212, Mismatches: 38, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
39 58 0.27
40 134 0.63
41 17 0.08
42 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (39 bp):
AACTTTAAATTTAAAAGGCTCCTCTGACCTAAGGCAATG
Done.