Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 85 of 130
Found at i:16793381 original size:20 final size:20
Alignment explanation
Indices: 16793334--16793385 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
16793324 GAGATAGGCA
*
16793334 AAAAAAAAAAAAGATACAGT
1 AAAAAAAAAAAAGATACAGC
* *
16793354 AAAAAAAAAAGAGAT-TAGC
1 AAAAAAAAAAAAGATACAGC
16793373 AAAATAAAAAAAA
1 AAAA-AAAAAAAA
16793386 ATTTGAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.77, C:0.04, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAAAAAAAAAAGATACAGC
Found at i:16794437 original size:49 final size:46
Alignment explanation
Indices: 16794318--16794445 Score: 148
Period size: 46 Copynumber: 2.7 Consensus size: 46
16794308 CCAAAGATAA
* * * * *
16794318 AAAAGAAAATTTTTTAAATAGACCCAAATGATGAAAAATTTAGAAAT
1 AAAA-AAAATTTTCTAAATAGGCTCAAATGGTGAAAAATTTAAAAAT
16794365 AAAAAAAATTTTCTAAATAGGCTCAAATGGTGAAAAATTTAAAAATT
1 AAAAAAAATTTTCTAAATAGGCTCAAATGGTGAAAAATTTAAAAA-T
* * *
16794412 AAAAAAAATATTTTTAATTTTGGCTCAAATGGTG
1 AAAAAAAAT-TTTCTAA-ATAGGCTCAAATGGTG
16794446 GATGAATTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 36 0.51
47 14 0.20
48 6 0.09
49 14 0.20
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (46 bp):
AAAAAAAATTTTCTAAATAGGCTCAAATGGTGAAAAATTTAAAAAT
Found at i:16800325 original size:169 final size:174
Alignment explanation
Indices: 16800040--16800382 Score: 579
Period size: 169 Copynumber: 2.0 Consensus size: 174
16800030 AGTAATCAAG
* * *
16800040 GGAACTCCTGTTTTGGCTTCTTGCTTTTACTATACTAGTTGAAAAATTATTGTACTTCTTGTCGT
1 GGAACTCCTGTTTTGCCTTCTTGCTTTTACTATACAAGTTGAAAAACTATTGTACTTCTTGTCGT
* *
16800105 GTTCCATGAAAATAACAGATGACAAAAGCATATATATTAATGAAAAGCGTCATATT-CAAA-AAA
66 GTTCCATGAAAATAACAGAAGACAAAAGCATATATATTAATGAAAAGCGTCATATTAAAAACAAA
*
16800168 AA-AAAAAAAGA-AAAAGAAAAGGAAAATACAAAATTGAGCTGC
131 AACAAAAAAAAAGAAAAGAAAAGGAAAATACAAAATTGAGCTGC
16800210 GGAAC-CCTGTTTTGCCTTCTTGCTTTTACTATACAAGTTGAAAAACTATTGTACTTCTTGTCGT
1 GGAACTCCTGTTTTGCCTTCTTGCTTTTACTATACAAGTTGAAAAACTATTGTACTTCTTGTCGT
*
16800274 GTTCCATGAAAATAACAGAAGACAAAAGCATATATATTGATGAAAAGCGTCATATTAAAAACAAA
66 GTTCCATGAAAATAACAGAAGACAAAAGCATATATATTAATGAAAAGCGTCATATTAAAAACAAA
*
16800339 AACAAAAAAAAAGAAAAGAAAAGGAAAATTCAAAATTGAGCTGC
131 AACAAAAAAAAAGAAAAGAAAAGGAAAATACAAAATTGAGCTGC
16800383 CCTAGAACTC
Statistics
Matches: 161, Mismatches: 8, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
169 110 0.68
170 8 0.05
171 5 0.03
172 8 0.05
173 30 0.19
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (174 bp):
GGAACTCCTGTTTTGCCTTCTTGCTTTTACTATACAAGTTGAAAAACTATTGTACTTCTTGTCGT
GTTCCATGAAAATAACAGAAGACAAAAGCATATATATTAATGAAAAGCGTCATATTAAAAACAAA
AACAAAAAAAAAGAAAAGAAAAGGAAAATACAAAATTGAGCTGC
Found at i:16809791 original size:27 final size:24
Alignment explanation
Indices: 16809761--16809859 Score: 81
Period size: 25 Copynumber: 3.8 Consensus size: 24
16809751 TAATTTATAA
16809761 TTTTAAGTTGTATTTATCTTTGTTTAC
1 TTTTAA-TT-TATTTATCTTT-TTTAC
* *
16809788 TTTTTTATTTACTTTATCTTTATTTTC
1 -TTTTAATTTA-TTTATCTTT-TTTAC
*
16809815 TTTTACTTTTATTTATCTTTTTTAC
1 TTTTA-ATTTATTTATCTTTTTTAC
* *
16809840 TTTTATTTTTGTTTATCTTT
1 TTTTA-ATTTATTTATCTTT
16809860 ACTATTTATC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
25 22 0.36
26 15 0.25
27 19 0.31
28 5 0.08
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTAATTTATTTATCTTTTTTAC
Found at i:16809811 original size:15 final size:15
Alignment explanation
Indices: 16809773--16809817 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
16809763 TTAAGTTGTA
*
16809773 TTTATCTTTGTTTAC
1 TTTATCTTTATTTAC
16809788 -TT-T-TTTATTTAC
1 TTTATCTTTATTTAC
*
16809800 TTTATCTTTATTTTC
1 TTTATCTTTATTTAC
16809815 TTT
1 TTT
16809818 TACTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 8 0.32
13 3 0.12
14 3 0.12
15 11 0.44
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATCTTTATTTAC
Found at i:16809823 original size:15 final size:17
Alignment explanation
Indices: 16809790--16809859 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 17
16809780 TTGTTTACTT
*
16809790 TTTTATTTAC-TTTATC
1 TTTTATTTTCTTTTATC
16809806 -TTTATTTTCTTTTA-C
1 TTTTATTTTCTTTTATC
*
16809821 TTTTATTTATCTTTTTTAC
1 TTTTATTT-TCTTTTAT-C
16809840 TTTTATTTT-TGTTTATC
1 TTTTATTTTCT-TTTATC
16809857 TTT
1 TTT
16809860 ACTATTTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
15 9 0.20
16 11 0.24
17 11 0.24
18 5 0.11
19 9 0.20
ACGTcount: A:0.14, C:0.10, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTATTTTCTTTTATC
Found at i:16809839 original size:19 final size:20
Alignment explanation
Indices: 16809795--16809847 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
16809785 TACTTTTTTA
* *
16809795 TTTACTTTATCTTTATTTTCT
1 TTTACTTT-TATTTATCTTCT
16809816 TTTACTTTTATTTATCTT-T
1 TTTACTTTTATTTATCTTCT
16809835 TTTACTTTTATTT
1 TTTACTTTTATTT
16809848 TTGTTTATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.47
20 8 0.27
21 8 0.27
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTACTTTTATTTATCTTCT
Found at i:16809845 original size:68 final size:70
Alignment explanation
Indices: 16809773--16809907 Score: 163
Period size: 68 Copynumber: 2.0 Consensus size: 70
16809763 TTAAGTTGTA
** *
16809773 TTTATCTTTGTTTA-CTTTTTTATTTA-CTTTATCTTTATTTTCT-TTTACTT-TT-ATTTATCT
1 TTTATCTTTGTTTATCTTTACTATTTATCTTTA--TTGATTTT-TGTTTACTTATTGATTTATCT
16809833 TTTTTACT
63 TTTTTACT
* *
16809841 TTTATTTTTGTTTATCTTTACTATTTATCTTTATTGATTTTTGTTTAGTTATTGATTTATCTTTT
1 TTTATCTTTGTTTATCTTTACTATTTATCTTTATTGATTTTTGTTTACTTATTGATTTATCTTTT
16809906 TT
66 TT
16809908 TTAAAAAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
67 1 0.02
68 26 0.46
69 12 0.21
70 18 0.32
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.71
Consensus pattern (70 bp):
TTTATCTTTGTTTATCTTTACTATTTATCTTTATTGATTTTTGTTTACTTATTGATTTATCTTTT
TTACT
Found at i:16810778 original size:14 final size:13
Alignment explanation
Indices: 16810762--16810787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16810752 ATTTAAATTT
16810762 TTTTAAAAAATAA
1 TTTTAAAAAATAA
16810775 TTTTAAAAAATAA
1 TTTTAAAAAATAA
16810788 AAACCCCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:16810860 original size:11 final size:11
Alignment explanation
Indices: 16810844--16810870 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16810834 TTATTATTTA
16810844 TTTTTCTTTTT
1 TTTTTCTTTTT
16810855 TTTTTCTTTTT
1 TTTTTCTTTTT
16810866 TTTTT
1 TTTTT
16810871 GGTTTGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:16818825 original size:15 final size:15
Alignment explanation
Indices: 16818802--16818848 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
16818792 GAAGATTGTC
*
16818802 AATACTTCTTATGTG
1 AATATTTCTTATGTG
16818817 AATATTTCTTATGTG
1 AATATTTCTTATGTG
*
16818832 AATACTTT-TTAGGTG
1 AATA-TTTCTTATGTG
16818847 AA
1 AA
16818849 AGCTACAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 26 0.90
16 3 0.10
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (15 bp):
AATATTTCTTATGTG
Found at i:16820225 original size:32 final size:32
Alignment explanation
Indices: 16820176--16820236 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
16820166 TTTTTTAGAA
*
16820176 CTTGGTTTAGTTCGGTCACCTTCATTTTTTAC
1 CTTGGTTGAGTTCGGTCACCTTCATTTTTTAC
*
16820208 CTTGGTTGAGTGT-GGTCACCTTTATTTTT
1 CTTGGTTGAGT-TCGGTCACCTTCATTTTT
16820237 GACATTGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.51
Consensus pattern (32 bp):
CTTGGTTGAGTTCGGTCACCTTCATTTTTTAC
Found at i:16820296 original size:32 final size:32
Alignment explanation
Indices: 16820260--16820321 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
16820250 TCCAGTTTCC
* *
16820260 TTTATTTTCGACCTTGGCTTAATCCGATCATT
1 TTTATCTTCGAACTTGGCTTAATCCGATCATT
* *
16820292 TTTATCTTCGAACTTGGCTTAGTTCGATCA
1 TTTATCTTCGAACTTGGCTTAATCCGATCA
16820322 CCTTGATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (32 bp):
TTTATCTTCGAACTTGGCTTAATCCGATCATT
Found at i:16820331 original size:32 final size:32
Alignment explanation
Indices: 16820266--16820331 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
16820256 TTCCTTTATT
* ** *
16820266 TTCGACCTTGGCTTAATCCGATCATTTTTATC
1 TTCGAACTTGGCTTAATCCGATCACCTTGATC
* *
16820298 TTCGAACTTGGCTTAGTTCGATCACCTTGATC
1 TTCGAACTTGGCTTAATCCGATCACCTTGATC
16820330 TT
1 TT
16820332 TGATGTCGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.42
Consensus pattern (32 bp):
TTCGAACTTGGCTTAATCCGATCACCTTGATC
Found at i:16821234 original size:16 final size:16
Alignment explanation
Indices: 16821213--16821248 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16821203 TGTTGATAAG
**
16821213 ATTTTTATTCAAATAT
1 ATTTTTATAAAAATAT
16821229 ATTTTTATAAAAATAT
1 ATTTTTATAAAAATAT
16821245 ATTT
1 ATTT
16821249 AAAGAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTTATAAAAATAT
Found at i:16821276 original size:12 final size:11
Alignment explanation
Indices: 16821256--16821314 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 11
16821246 TTTAAAGAAT
*
16821256 AATAGATAATCA
1 AATAAATAAT-A
16821268 AATAAATAAATA
1 AATAAAT-AATA
*
16821280 AACTAAATAGTTA
1 AA-TAAATA-ATA
16821293 AATAAATAA-A
1 AATAAATAATA
16821303 AATAAA-AATA
1 AATAAATAATA
16821313 AA
1 AA
16821315 CTTGAAGTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
9 2 0.05
10 10 0.25
12 16 0.40
13 12 0.30
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (11 bp):
AATAAATAATA
Found at i:16822516 original size:19 final size:19
Alignment explanation
Indices: 16822494--16822530 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16822484 AATTTCAAGT
16822494 TTTGTAAA-GATTCCAAAAG
1 TTTGTAAATGATT-CAAAAG
16822513 TTTGTAAATGATTCAAAA
1 TTTGTAAATGATTCAAAA
16822531 TTCTCAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (19 bp):
TTTGTAAATGATTCAAAAG
Found at i:16822720 original size:16 final size:16
Alignment explanation
Indices: 16822651--16822776 Score: 101
Period size: 18 Copynumber: 7.4 Consensus size: 16
16822641 GGTTCCAAGT
*
16822651 TTCACAA-AGTTCTAGA
1 TTCACAAGAATTC-AGA
*
16822667 TTCACAAGAATTTCAGG
1 TTCACAAGAA-TTCAGA
* *
16822684 TTTACAAGAATCCAAAGA
1 TTCACAAGAATTC--AGA
16822702 TTCACAAGAATTCAGA
1 TTCACAAGAATTCAGA
*
16822718 TTCACAAGAATTTTTAGA
1 TTCACAAGAA--TTCAGA
* *
16822736 TTCATAAGAATTTAGA
1 TTCACAAGAATTCAGA
*
16822752 TTCACAAGACTTCAAAGA
1 TTCACAAGAATTC--AGA
16822770 TTCACAA
1 TTCACAA
16822777 TACTTTTAGA
Statistics
Matches: 90, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
16 38 0.42
17 12 0.13
18 40 0.44
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (16 bp):
TTCACAAGAATTCAGA
Found at i:16822725 original size:34 final size:34
Alignment explanation
Indices: 16822664--16822776 Score: 136
Period size: 34 Copynumber: 3.3 Consensus size: 34
16822654 ACAAAGTTCT
* * *
16822664 AGATTCACAAGAATTTCAGGTTTACAAGAATCCAA
1 AGATTCACAAGAA-TTCAGATTCACAAGAATTCAA
***
16822699 AGATTCACAAGAATTCAGATTCACAAGAATTTTT
1 AGATTCACAAGAATTCAGATTCACAAGAATTCAA
* * *
16822733 AGATTCATAAGAATTTAGATTCACAAGACTTCAA
1 AGATTCACAAGAATTCAGATTCACAAGAATTCAA
16822767 AGATTCACAA
1 AGATTCACAA
16822777 TACTTTTAGA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
34 52 0.80
35 13 0.20
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.28
Consensus pattern (34 bp):
AGATTCACAAGAATTCAGATTCACAAGAATTCAA
Found at i:16822867 original size:17 final size:17
Alignment explanation
Indices: 16822804--16822882 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
16822794 GAATCTAAAT
*
16822804 TTTGCGAGAATTTCAGG
1 TTTGCAAGAATTTCAGG
* *
16822821 TTTGCAAGAGCTTTCA-A
1 TTTGCAAGA-ATTTCAGG
*
16822838 TTCT-CATGAATTTCAGG
1 TT-TGCAAGAATTTCAGG
* *
16822855 TTTGCAAGAATTTAAAG
1 TTTGCAAGAATTTCAGG
*
16822872 TTCGCAAGAAT
1 TTTGCAAGAAT
16822883 CAAAGGTTCA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
16 6 0.12
17 36 0.75
18 6 0.12
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (17 bp):
TTTGCAAGAATTTCAGG
Found at i:16822891 original size:17 final size:17
Alignment explanation
Indices: 16822852--16822899 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
16822842 CATGAATTTC
* *
16822852 AGGTTTGCAAGAATTTAA
1 AGGTTCGCAAGAA-TCAA
16822870 A-GTTCGCAAGAATCAA
1 AGGTTCGCAAGAATCAA
*
16822886 AGGTTCACAAGAAT
1 AGGTTCGCAAGAAT
16822900 TTTTAGATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 4 0.15
17 21 0.81
18 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (17 bp):
AGGTTCGCAAGAATCAA
Found at i:16823218 original size:46 final size:46
Alignment explanation
Indices: 16823080--16823219 Score: 158
Period size: 46 Copynumber: 3.0 Consensus size: 46
16823070 GAATTCATAT
* *
16823080 ATTCTCATTTGAAAAATTTTA-AGTTTTCACATCCAAAATTTCAAAG
1 ATTCTCATTAGAAAAATTTTAGAGATTT-ACATCCAAAATTTCAAAG
* * ** *
16823126 ATTCACATTAAAAAAATTTTAG-GAATTCCCAGCCAAAATTTCAAAG
1 ATTCTCATTAGAAAAATTTTAGAG-ATTTACATCCAAAATTTCAAAG
* * *
16823172 ATTCTCATTAGAAAACTTTTAGAGATTTACATCCAAGATTTTAAAG
1 ATTCTCATTAGAAAAATTTTAGAGATTTACATCCAAAATTTCAAAG
16823218 AT
1 AT
16823220 CCTTTTTTAA
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
46 73 0.96
47 3 0.04
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (46 bp):
ATTCTCATTAGAAAAATTTTAGAGATTTACATCCAAAATTTCAAAG
Found at i:16827133 original size:21 final size:21
Alignment explanation
Indices: 16827094--16827133 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16827084 AGTAAACATG
*
16827094 ATATATACAAAAAATAATATA
1 ATATATACAAAAAACAATATA
*
16827115 ATATATACAAAAACCAATA
1 ATATATACAAAAAACAATA
16827134 AAAAGGGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (21 bp):
ATATATACAAAAAACAATATA
Found at i:16829213 original size:33 final size:33
Alignment explanation
Indices: 16829153--16829217 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
16829143 ATTTGGTCAC
**
16829153 ATTACATTTTTAGACTTTAATTCAATCCAAGTT
1 ATTACATTTTTAGACTACAATTCAATCCAAGTT
* *
16829186 ATTACATTTTTAGACTACAGTTTAATCCAAGT
1 ATTACATTTTTAGACTACAATTCAATCCAAGT
16829218 CATTTTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (33 bp):
ATTACATTTTTAGACTACAATTCAATCCAAGTT
Found at i:16829495 original size:7 final size:7
Alignment explanation
Indices: 16829483--16829507 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16829473 CATATGCCTA
16829483 ATTTTAT
1 ATTTTAT
16829490 ATTTTAT
1 ATTTTAT
16829497 ATTTTAT
1 ATTTTAT
16829504 ATTT
1 ATTT
16829508 CAATTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTAT
Found at i:16829601 original size:20 final size:19
Alignment explanation
Indices: 16829578--16829624 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
16829568 TTTATTTATC
16829578 TTTATTTTCTTTTACTTTTA
1 TTTATTTTC-TTTACTTTTA
*
16829598 TTTATCTTCTTTACTTTTA
1 TTTATTTTCTTTACTTTTA
16829617 TTTCATTT
1 TTT-ATTT
16829625 ATTTTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTCTTTACTTTTA
Found at i:16829612 original size:19 final size:20
Alignment explanation
Indices: 16829578--16829619 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
16829568 TTTATTTATC
*
16829578 TTTATTTTCTTTTACTTTTA
1 TTTATCTTCTTTTACTTTTA
16829598 TTTATCTTC-TTTACTTTTA
1 TTTATCTTCTTTTACTTTTA
16829617 TTT
1 TTT
16829620 CATTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATCTTCTTTTACTTTTA
Found at i:16830444 original size:47 final size:47
Alignment explanation
Indices: 16830382--16830516 Score: 125
Period size: 52 Copynumber: 2.8 Consensus size: 47
16830372 AAAAAATAAG
*
16830382 ATCTTACTAACATATT-AGAAGG-TTTACTAA-TTTAAAAAAAATAAAAA
1 ATCTTACCAACATATTGA-AAGGTTTTA--AATTTTAAAAAAAATAAAAA
* *
16830429 ATCTTACCAATATATTGAAAGGTTTTAAATTTTTAAAAAAATAAAAATAAAA
1 ATCTTACCAACATATTGAAAGGTTTTAAA-TTTT--AAAAA-AAATA-AAAA
* *
16830481 ACCTTACCAACATATTGAAAAG-TTTAAATTTTAAAA
1 ATCTTACCAACATATTGAAAGGTTTTAAATTTTAAAA
16830517 TGAAAATTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
46 2 0.03
47 18 0.24
48 12 0.16
50 9 0.12
51 10 0.14
52 23 0.31
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (47 bp):
ATCTTACCAACATATTGAAAGGTTTTAAATTTTAAAAAAAATAAAAA
Found at i:16830498 original size:52 final size:51
Alignment explanation
Indices: 16830418--16830516 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 51
16830408 CTAATTTAAA
* * *
16830418 AAAAATAAAAAATCTTACCAATATATTGAAAGGTTTTAAATTTTTAAAAAAAT
1 AAAAATAAAAAACCTTACCAACATATTGAAAAG-TTTAAA-TTTTAAAAAAAT
16830471 AAAAAT-AAAAACCTTACCAACATATTGAAAAGTTTAAATTTTAAAA
1 AAAAATAAAAAACCTTACCAACATATTGAAAAGTTTAAATTTTAAAA
16830517 TGAAAATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 8 0.19
51 6 0.14
52 23 0.53
53 6 0.14
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (51 bp):
AAAAATAAAAAACCTTACCAACATATTGAAAAGTTTAAATTTTAAAAAAAT
Found at i:16830520 original size:21 final size:21
Alignment explanation
Indices: 16830496--16830537 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16830486 ACCAACATAT
16830496 TGAAAAGTTTAAATTTT-AAAA
1 TGAAAA-TTTAAATTTTGAAAA
*
16830517 TGAAAATTTGAATTTTGAAAA
1 TGAAAATTTAAATTTTGAAAA
16830538 ATAAACATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
TGAAAATTTAAATTTTGAAAA
Found at i:16832234 original size:114 final size:113
Alignment explanation
Indices: 16832017--16832239 Score: 286
Period size: 114 Copynumber: 2.0 Consensus size: 113
16832007 TTTGGAGCAG
* *** * *
16832017 TTTTAACCCATTATTTAGCACGTGAAGATAAATAAGGGTTTGTTTGACCAGCTGAAACTTCTATA
1 TTTTAACCCATTATTTAGCACATGAAGATAAATAAGAACTTGTTTGACCAGCTAAAACCTCTATA
** *
16832082 AAAAGTACTGTTGGAGTTGAGTTGTTCTAAAAATCTTTGAAATAACAA
66 AAAAGTACTGTTGGAGTAAAATTGTTCTAAAAATCTTTGAAATAACAA
* * * *
16832130 TTTTAACCTATTATTTAGCACATGAAGATAAGA-AAGAACTTGTTTGAATCGGCTAAAACCTGTA
1 TTTTAACCCATTATTTAGCACATGAAGATAA-ATAAGAACTTGTTTG-ACCAGCTAAAACCTCTA
* *
16832194 TAAGAAGTACTGTTGGAGTAAAATTGTTCTAGAAATCTTTGAAATA
64 TAAAAAGTACTGTTGGAGTAAAATTGTTCTAAAAATCTTTGAAATA
16832240 GCGACGTTAG
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
113 39 0.42
114 54 0.58
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (113 bp):
TTTTAACCCATTATTTAGCACATGAAGATAAATAAGAACTTGTTTGACCAGCTAAAACCTCTATA
AAAAGTACTGTTGGAGTAAAATTGTTCTAAAAATCTTTGAAATAACAA
Found at i:16834499 original size:408 final size:408
Alignment explanation
Indices: 16833744--16834562 Score: 1629
Period size: 408 Copynumber: 2.0 Consensus size: 408
16833734 TAAATTTATA
16833744 TTTCACTAATGCAACTACTAGAAACGCCTTCAATAATTTCGCTAAAAAATTGTAGAGGATTATTA
1 TTTCACTAATGCAACTACTAGAAACGCCTTCAATAATTTCGCTAAAAAATTGTAGAGGATTATTA
16833809 AAGGCGTTTTTGATCAAAAATGCTTTCAATAAATTTTTTTTAATAAATTTATCAAAAATAGAGTA
66 AAGGCGTTTTTGATCAAAAATGCTTTCAATAAATTTTTTTTAATAAATTTATCAAAAATAGAGTA
16833874 TTGTTGTCGGTTAGAACATATGATTGTTAATCATAAAGTTGTAGGTTCGATCTTTTCTTTCAGTA
131 TTGTTGTCGGTTAGAACATATGATTGTTAATCATAAAGTTGTAGGTTCGATCTTTTCTTTCAGTA
16833939 TTTTTTAGGTTTTTTGAGGGATTATTAAAGGCGTTTCTGACCCTAAAAAATTGAAGTCGAATATT
196 TTTTTTAGGTTTTTTGAGGGATTATTAAAGGCGTTTCTGACCCTAAAAAATTGAAGTCGAATATT
16834004 AAAGGCGTTCTAATCCTTTGAAAAATTCAAAAAATACTAAAAGAAAGGATCGAATCTATGACCTT
261 AAAGGCGTTCTAATCCTTTGAAAAATTCAAAAAATACTAAAAGAAAGGATCGAATCTATGACCTT
16834069 ATAATTAACAACAGTAAACTCTAACCATCAATGCTACTCCATTTTTCACAAATTTATTGACAAGG
326 ATAATTAACAACAGTAAACTCTAACCATCAATGCTACTCCATTTTTCACAAATTTATTGACAAGG
16834134 AGATTTATTGAAGGCGTT
391 AGATTTATTGAAGGCGTT
16834152 TTTCACTAATGCAACTACTAGAAACGCCTTCAATAATTTCGCTAAAAAATTGTAGAGGATTATTA
1 TTTCACTAATGCAACTACTAGAAACGCCTTCAATAATTTCGCTAAAAAATTGTAGAGGATTATTA
16834217 AAGGCGTTTTTGATCAAAAATGCTTTCAATAAATTTTTTTTAATAAATTTATCAAAAATAGAGTA
66 AAGGCGTTTTTGATCAAAAATGCTTTCAATAAATTTTTTTTAATAAATTTATCAAAAATAGAGTA
*
16834282 TTGTTGTCGGTTAGAACATATGATTGTTAATCATAAGGTTGTAGGTTCGATCTTTTCTTTCAGTA
131 TTGTTGTCGGTTAGAACATATGATTGTTAATCATAAAGTTGTAGGTTCGATCTTTTCTTTCAGTA
16834347 TTTTTTAGGTTTTTTGAGGGATTATTAAAGGCGTTTCTGACCCTAAAAAATTGAAGTCGAATATT
196 TTTTTTAGGTTTTTTGAGGGATTATTAAAGGCGTTTCTGACCCTAAAAAATTGAAGTCGAATATT
16834412 AAAGGCGTTCTAATCCTTTGAAAAATTCAAAAAATACTAAAAGAAAGGATCGAATCTATGACCTT
261 AAAGGCGTTCTAATCCTTTGAAAAATTCAAAAAATACTAAAAGAAAGGATCGAATCTATGACCTT
16834477 ATAATTAACAACAGTAAACTCTAACCATCAATGCTACTCCATTTTTCACAAATTTATTGACAAGG
326 ATAATTAACAACAGTAAACTCTAACCATCAATGCTACTCCATTTTTCACAAATTTATTGACAAGG
16834542 AGATTTATTGAAGGCGTT
391 AGATTTATTGAAGGCGTT
16834560 TTT
1 TTT
16834563 TTATCAAAAA
Statistics
Matches: 410, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
408 410 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (408 bp):
TTTCACTAATGCAACTACTAGAAACGCCTTCAATAATTTCGCTAAAAAATTGTAGAGGATTATTA
AAGGCGTTTTTGATCAAAAATGCTTTCAATAAATTTTTTTTAATAAATTTATCAAAAATAGAGTA
TTGTTGTCGGTTAGAACATATGATTGTTAATCATAAAGTTGTAGGTTCGATCTTTTCTTTCAGTA
TTTTTTAGGTTTTTTGAGGGATTATTAAAGGCGTTTCTGACCCTAAAAAATTGAAGTCGAATATT
AAAGGCGTTCTAATCCTTTGAAAAATTCAAAAAATACTAAAAGAAAGGATCGAATCTATGACCTT
ATAATTAACAACAGTAAACTCTAACCATCAATGCTACTCCATTTTTCACAAATTTATTGACAAGG
AGATTTATTGAAGGCGTT
Found at i:16834740 original size:62 final size:62
Alignment explanation
Indices: 16834635--16834751 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
16834625 TTGTGACAGA
* * *
16834635 AAACGCCTTCAATAATCACTTTTATTTTTTATGAGTAGGTTATTCAATGCGTTTTTGGTCTG
1 AAACGCCTTCAATAATCACTTCTATATTTTATGAGTAGGTTATTCAAGGCGTTTTTGGTCTG
16834697 AAACGCCTTCAATAATCAC-TCTA-ATTTTA-GCAGATAGGATTATTCAAGGCGTTTT
1 AAACGCCTTCAATAATCACTTCTATATTTTATG-AG-TAGG-TTATTCAAGGCGTTTT
16834752 AATAGATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
59 1 0.02
60 7 0.14
61 7 0.14
62 34 0.69
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (62 bp):
AAACGCCTTCAATAATCACTTCTATATTTTATGAGTAGGTTATTCAAGGCGTTTTTGGTCTG
Found at i:16837102 original size:3 final size:3
Alignment explanation
Indices: 16837094--16837130 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
16837084 TTAACTTGTA
*
16837094 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16837131 GAAGAAGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:16837383 original size:3 final size:3
Alignment explanation
Indices: 16837375--16837405 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
16837365 TTGATCTTTT
16837375 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
16837406 GAAAATCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16841820 original size:23 final size:25
Alignment explanation
Indices: 16841777--16841839 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 25
16841767 TTATGTCATA
*
16841777 TTTTAAATTA-TTACATCTA-TTAT
1 TTTTATATTATTTACATCTATTTAT
*
16841800 TTTTATATTATTTATAT-TATTTTAT
1 TTTTATATTATTTACATCTA-TTTAT
*
16841825 TTTTCTTATTATTTA
1 TTTT-ATATTATTTA
16841840 AATATAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 11 0.33
24 5 0.15
25 8 0.24
26 9 0.27
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTATATTATTTACATCTATTTAT
Found at i:16842230 original size:15 final size:15
Alignment explanation
Indices: 16842195--16842229 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16842185 ATTTTAAAAA
*
16842195 ATTTTAAAATGCATC
1 ATTTTAAAATGCAGC
16842210 ATTTTAAAATGCCAGC
1 ATTTTAAAATG-CAGC
16842226 ATTT
1 ATTT
16842230 ATAATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (15 bp):
ATTTTAAAATGCAGC
Found at i:16842321 original size:19 final size:21
Alignment explanation
Indices: 16842297--16842347 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
16842287 GATGAGATAA
*
16842297 AAAAATAAAAA-ATA-ATATT
1 AAAAATAAAAATATATATATG
16842316 AAAAATAAAAATATATATATG
1 AAAAATAAAAATATATATATG
16842337 AATAAATAAAA
1 AA-AAATAAAA
16842348 TATGTAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 11 0.39
20 3 0.11
21 6 0.21
22 8 0.29
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAAATAAAAATATATATATG
Found at i:16842357 original size:22 final size:20
Alignment explanation
Indices: 16842297--16842357 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 20
16842287 GATGAGATAA
*
16842297 AAAAATAAAAA-ATAATATT
1 AAAAATAAAAATATAATATG
16842316 AAAAATAAAAATATATATATG
1 AAAAATAAAAATATA-ATATG
*
16842337 AATAAATAAAATATGTAATAT
1 AA-AAATAAAA-ATATAATAT
16842358 TTATATCACT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 11 0.31
20 3 0.08
21 6 0.17
22 12 0.33
23 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAAATAAAAATATAATATG
Found at i:16843196 original size:31 final size:33
Alignment explanation
Indices: 16843158--16843227 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
16843148 CGCCCTACCC
*
16843158 TATATATATAAT-TA-ATTT-TTAATTTTTTATT
1 TATATATAT-ATGTATATTTGTTAATTTTATATT
*
16843189 TATATATATTTGTATATTTGTTAATTTTATATT
1 TATATATATATGTATATTTGTTAATTTTATATT
16843222 TATATA
1 TATATA
16843228 AAAGATAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 1 0.03
31 11 0.32
32 4 0.12
33 18 0.53
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (33 bp):
TATATATATATGTATATTTGTTAATTTTATATT
Found at i:16848293 original size:10 final size:10
Alignment explanation
Indices: 16848278--16848306 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
16848268 ATTTCACTAA
16848278 TCGTTTCATC
1 TCGTTTCATC
16848288 TCGTTTCATC
1 TCGTTTCATC
16848298 TCGTTTCAT
1 TCGTTTCAT
16848307 TTTGAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.28, G:0.10, T:0.52
Consensus pattern (10 bp):
TCGTTTCATC
Found at i:16852403 original size:154 final size:153
Alignment explanation
Indices: 16852211--16852491 Score: 354
Period size: 154 Copynumber: 1.8 Consensus size: 153
16852201 AAAAATAAAT
* * * *
16852211 GCTAAAAAGAAAAGTTGAATCTACGACCTTATGATTAAT-AGCCATACACT-TTAACCATCTGAG
1 GCTAAAAAGAAAAGTTAAACCTACAACCTTAAGATTAATAAG-CATACACTCTTAACCAT-TGAG
*
16852274 CTACT-TCAATTTTTTTTATATTTTGTCTCTTAAATCTTATAAATAATGAAA-AGAATTATTTAA
64 CTACTCT-AA-TTTTTTTATATTTTATCTCTTAAATCTTATAAATAATGAAAGA-AATTATTTAA
16852337 GGTATTTTTACCTTAAAAAAATTAAAAG
126 GGTATTTTTACCTTAAAAAAATTAAAAG
* * * * * * *
16852365 GCTAAAATGAAATGTTAAACCTACAACCTTAAGGTTAATAAGCATACATTCTTATCTATTGAGTT
1 GCTAAAAAGAAAAGTTAAACCTACAACCTTAAGATTAATAAGCATACACTCTTAACCATTGAGCT
* * *
16852430 ACTCTAATTTTTTTATATTTTATCTTTTAAATTTTATAAGTAATGAAAGAAATTATTTAAGG
66 ACTCTAATTTTTTTATATTTTATCTCTTAAATCTTATAAATAATGAAAGAAATTATTTAAGG
16852492 CGCTTTTAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
153 49 0.45
154 50 0.46
155 9 0.08
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.40
Consensus pattern (153 bp):
GCTAAAAAGAAAAGTTAAACCTACAACCTTAAGATTAATAAGCATACACTCTTAACCATTGAGCT
ACTCTAATTTTTTTATATTTTATCTCTTAAATCTTATAAATAATGAAAGAAATTATTTAAGGTAT
TTTTACCTTAAAAAAATTAAAAG
Found at i:16852697 original size:62 final size:61
Alignment explanation
Indices: 16852505--16852748 Score: 179
Period size: 62 Copynumber: 3.9 Consensus size: 61
16852495 TTTTAATTAA
** * * *
16852505 AAAAAAAGCCTTAAATAATATGGTCTAAAAAAGT-GAAAAGTATTATTTAAGGCATTTTTTTTAC
1 AAAAAAA-CCTTAAATAATATCCTTTAAAAAA-TAAAAAAG-ATTATTTAAGGCA--TTTTTAAC
16852569 C
61 C
* * * *** * ***** **
16852570 AAAAATACCTTAAATAATCTTCTTTAAAAAATATTTAAGATTATTTAAAGCATGAGGGATT
1 AAAAAAACCTTAAATAATATCCTTTAAAAAATAAAAAAGATTATTTAAGGCATTTTTAACC
* *
16852631 AAAAAAACCTTAAATAATATCCTTTAAAAAATTAAAAAATATTATTTAAGGTATTTTTAACC
1 AAAAAAACCTTAAATAATATCCTTTAAAAAA-TAAAAAAGATTATTTAAGGCATTTTTAACC
* *
16852693 AAAAATAA-CTTAAATAAT-CCTCTTTAAAAAAATAAAAGAGATTATTTAAGGCATTT
1 AAAAA-AACCTTAAATAATATC-CTTT-AAAAAATAAAAAAGATTATTTAAGGCATTT
16852749 CTAGTTTTTT
Statistics
Matches: 138, Mismatches: 36, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
61 31 0.22
62 57 0.41
63 21 0.15
64 23 0.17
65 6 0.04
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.34
Consensus pattern (61 bp):
AAAAAAACCTTAAATAATATCCTTTAAAAAATAAAAAAGATTATTTAAGGCATTTTTAACC
Found at i:16853406 original size:2 final size:2
Alignment explanation
Indices: 16853399--16853424 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16853389 TTAGATTTGC
16853399 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16853425 CAGAGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16861286 original size:111 final size:111
Alignment explanation
Indices: 16861092--16861307 Score: 310
Period size: 111 Copynumber: 1.9 Consensus size: 111
16861082 AATCAGGGAA
* * *
16861092 ACAGTTTGTAATCAAGATTAGCATACTCCCACACAAATCAAAGATATCTGTGAAAAGGTAGCAGC
1 ACAGTTTGTAATCAAGATTAGCATACTCCCAAACAAATCAAAGATATCAGTGAAAAGGCAGCAGC
*
16861157 ACCCAAGAATAGTGGTGGATTTACGACTCATTTATCTGACGAGCTT
66 ACCCAAGAATAATGGTGGATTTACGACTCATTTATCTGACGAGCTT
* * * *
16861203 ACAGTTTTTAATCCAGATTTGC-TCACTCCCAAACAAATCAAAGATATCCAG-GAAAAGGCGGCA
1 ACAGTTTGTAATCAAGATTAGCAT-ACTCCCAAACAAATCAAAGATAT-CAGTGAAAAGGCAGCA
* *
16861266 GCACCCAAGAATAATGGTGGATTTACGAGTCATTTATGTGAC
64 GCACCCAAGAATAATGGTGGATTTACGACTCATTTATCTGAC
16861308 AAACTCTAGC
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
110 1 0.01
111 90 0.97
112 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (111 bp):
ACAGTTTGTAATCAAGATTAGCATACTCCCAAACAAATCAAAGATATCAGTGAAAAGGCAGCAGC
ACCCAAGAATAATGGTGGATTTACGACTCATTTATCTGACGAGCTT
Found at i:16864508 original size:13 final size:13
Alignment explanation
Indices: 16864490--16864515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16864480 TAAAATAATT
16864490 TTTTTATTTTTTA
1 TTTTTATTTTTTA
16864503 TTTTTATTTTTTA
1 TTTTTATTTTTTA
16864516 AAAAATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:16864535 original size:28 final size:28
Alignment explanation
Indices: 16864495--16864549 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
16864485 TAATTTTTTT
* *
16864495 ATTTTTTATTTTTATTTTTTAAAAAATA
1 ATTTTTAATTTTTATTTTCTAAAAAATA
*
16864523 ATTTTTAATTTTTGTTTTCTAAAAAAT
1 ATTTTTAATTTTTATTTTCTAAAAAAT
16864550 TTATTAAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
ATTTTTAATTTTTATTTTCTAAAAAATA
Found at i:16864556 original size:26 final size:27
Alignment explanation
Indices: 16864502--16864556 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
16864492 TTTATTTTTT
* *
16864502 ATTTTTATTTTTTAAAAAATAATTTTTA
1 ATTTTTATTTTCTAAAAAAT-ATTATTA
*
16864530 ATTTTTGTTTTCTAAAAAAT-TTATTA
1 ATTTTTATTTTCTAAAAAATATTATTA
16864556 A
1 A
16864557 GCCAACGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.25
28 18 0.75
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
ATTTTTATTTTCTAAAAAATATTATTA
Found at i:16868417 original size:12 final size:12
Alignment explanation
Indices: 16868400--16868436 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16868390 TAATATTGAT
*
16868400 AATTTTTTATTA
1 AATTTTATATTA
16868412 AATTTTATATTA
1 AATTTTATATTA
16868424 AA--TTATATTA
1 AATTTTATATTA
16868434 AAT
1 AAT
16868437 AATTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
10 10 0.43
12 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTTTATATTA
Found at i:16869245 original size:20 final size:21
Alignment explanation
Indices: 16869199--16869241 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
16869189 ATCAAGCCTC
*
16869199 AACACACATAAATCAGAAAAG
1 AACACACAAAAATCAGAAAAG
16869220 AGACACACAAAAATACAGAAAA
1 A-ACACACAAAAAT-CAGAAAA
16869242 ACACAGACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 11 0.58
23 7 0.37
ACGTcount: A:0.65, C:0.19, G:0.09, T:0.07
Consensus pattern (21 bp):
AACACACAAAAATCAGAAAAG
Found at i:16869851 original size:4 final size:4
Alignment explanation
Indices: 16869842--16869882 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
16869832 AATTTTTTTG
*
16869842 TATT TATT TAGT TATT ATATT TATT T-TT TATT TATT TATT T
1 TATT TATT TATT TATT -TATT TATT TATT TATT TATT TATT T
16869883 TGTTTGCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 26 0.79
5 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:16871293 original size:8 final size:9
Alignment explanation
Indices: 16871278--16871304 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
16871268 TATTTAACAT
16871278 TAAAAAAAA
1 TAAAAAAAA
16871287 TAAAAAAAA
1 TAAAAAAAA
16871296 TAAAAAAAA
1 TAAAAAAAA
16871305 AGAAAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:16871459 original size:58 final size:57
Alignment explanation
Indices: 16871333--16871718 Score: 510
Period size: 58 Copynumber: 6.7 Consensus size: 57
16871323 TTGTGTAGGA
* * * * **
16871333 AAAATTGATACTTTCAAC-TTTTCTCCAAAATATCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAATTTATTTTTAAGG
16871389 AAAATTGATACTTTCAACTTTTTCTCAAAAACT-TTTTATTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAA-TATTTT-TTGAAAATTTATTTTTAAGG
* * * *
16871447 AAAATTGATACTTTCAAC-TTTTCTCCGAAAATATTTTTTGGAAATTT-TTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTGAAAATTTATT--TTT-AAGG
* *
16871506 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATA--TTTTTTGAAAATTTATTTTTAAGG
* *
16871565 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGTAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAATTTATTTTTAAGG
* *
16871622 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTG-AAAATTTATTTTTAAGG
*
16871680 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
16871719 TTATTTTATT
Statistics
Matches: 290, Mismatches: 27, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
56 20 0.07
57 90 0.31
58 99 0.34
59 58 0.20
60 8 0.03
61 13 0.04
62 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAAATTTATTTTTAAGG
Found at i:16871742 original size:5 final size:5
Alignment explanation
Indices: 16871734--16871839 Score: 60
Period size: 5 Copynumber: 20.6 Consensus size: 5
16871724 TTATTTAAAG
* *
16871734 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAA- AAATAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAA-AT
* *
16871779 AAAAT AAAGA- AAAGT AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAA-
1 AAAAT AAA-AT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAAT
*
16871826 AAATAT TAAAT AAA
1 AAA-AT AAAAT AAA
16871840 CCTAATCTAA
Statistics
Matches: 79, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
3 3 0.04
4 6 0.08
5 44 0.56
6 22 0.28
7 4 0.05
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:16871768 original size:30 final size:29
Alignment explanation
Indices: 16871733--16871818 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 29
16871723 TTTATTTAAA
*
16871733 GAAAATAAAATAATAAAACAAAATAAAAGT
1 GAAAATAAAA-AATAAAAAAAAATAAAAGT
*
16871763 GAAAATAAAAAAATAAAAAATAAAGAAAAGT
1 GAAAAT-AAAAAATAAAAAA-AAATAAAAGT
*
16871794 -AAAA-CAAAAATAAAAATAAAATAAA
1 GAAAATAAAAAATAAAAA-AAAATAAA
16871819 GATAAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
28 17 0.35
29 1 0.02
30 18 0.37
31 13 0.27
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (29 bp):
GAAAATAAAAAATAAAAAAAAATAAAAGT
Found at i:16871768 original size:115 final size:114
Alignment explanation
Indices: 16871412--16871748 Score: 297
Period size: 118 Copynumber: 2.9 Consensus size: 114
16871402 TCAACTTTTT
*
16871412 CTCAAAAA-CTTTTTATTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAAC-TTTTCTCCGA
1 CTCAAAAATC-TTTT-TTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTC-CCAA
* * ** ** * ** * ****
16871475 AAATATTTTTTGGAAATTTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTC
63 AAATATTTTTTGTAAATTTAT-ATTTAAAG-AAAATAAATAATAACAAATAAAA
*
16871529 CTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAA
1 CTC--AAAAATCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAA
* * ** * ** * ****
16871594 AATATTTTTTGTAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC
64 AATATTTTTTGTAAATTTATATTTAAAGAAAATAAATAATAACAAATAAAA
16871645 CTCAAAAATCTTTTTTGAAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAA
1 CTCAAAAATCTTTTTTG-AAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAA
*
16871710 ATATTTTTT-T-TATTT-TATTTAAAGAAAATAAAATAATAA
65 ATATTTTTTGTAAATTTATATTTAAAGAAAAT-AAATAATAA
16871749 AACAAAATAA
Statistics
Matches: 198, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
112 12 0.06
113 8 0.04
114 14 0.07
115 56 0.28
116 26 0.13
117 7 0.04
118 60 0.30
119 14 0.07
120 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.45
Consensus pattern (114 bp):
CTCAAAAATCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAA
TATTTTTTGTAAATTTATATTTAAAGAAAATAAATAATAACAAATAAAA
Found at i:16871780 original size:6 final size:6
Alignment explanation
Indices: 16871734--16871826 Score: 52
Period size: 6 Copynumber: 15.7 Consensus size: 6
16871724 TTATTTAAAG
* *
16871734 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTGA AAATAAA AAAATA AAAA-A
1 AAAATA AAAATA A-AAATA -AAAATA AAAAT-A AAA-ATA AAAATA AAAATA
* * * * *
16871783 TAAAGA AAAGT- AAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
16871827 AATATTAAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 17
0.69 0.14 0.18
Matches are distributed among these distances:
5 17 0.26
6 36 0.55
7 13 0.20
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:16871813 original size:17 final size:16
Alignment explanation
Indices: 16871734--16871826 Score: 64
Period size: 17 Copynumber: 5.6 Consensus size: 16
16871724 TTATTTAAAG
*
16871734 AAAATAAAATAATAAAAC
1 AAAAT-AAA-AATAAAAA
* *
16871752 AAAATAAAAGT-GAAA
1 AAAATAAAAATAAAAA
*
16871767 ATAA-AAAAATAAAAA
1 AAAATAAAAATAAAAA
* *
16871782 ATAAAGAAAAGTAAAACA
1 A-AAATAAAAATAAAA-A
16871800 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAA-A
*
16871817 AAGATAAAAA
1 AAAATAAAAA
16871827 AATATTAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
14 5 0.08
15 9 0.15
16 4 0.07
17 34 0.58
18 7 0.12
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAAAAATAAAAA
Found at i:16872723 original size:27 final size:28
Alignment explanation
Indices: 16872693--16872755 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 28
16872683 ATTTCAGTTG
16872693 AATAAATCAAAGAAA-TAAAAAA-AATCA
1 AATAAATCAAAGAAATTAAAAAATAA-CA
*
16872720 AATAAATCAAATAAATTAAAAAATTAACA
1 AATAAATCAAAGAAATTAAAAAA-TAACA
16872749 AATAAAT
1 AATAAAT
16872756 TAAAATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 14 0.44
28 7 0.22
29 9 0.28
30 2 0.06
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (28 bp):
AATAAATCAAAGAAATTAAAAAATAACA
Found at i:16872735 original size:18 final size:18
Alignment explanation
Indices: 16872693--16872735 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16872683 ATTTCAGTTG
16872693 AATAAATCAAAGAAATAA
1 AATAAATCAAAGAAATAA
* * *
16872711 AAAAAATCAAATAAATCA
1 AATAAATCAAAGAAATAA
16872729 AATAAAT
1 AATAAAT
16872736 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (18 bp):
AATAAATCAAAGAAATAA
Found at i:16872752 original size:20 final size:21
Alignment explanation
Indices: 16872719--16872775 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
16872709 AAAAAAAATC
16872719 AAATAAAT--CAAATAAATTA
1 AAATAAATAACAAATAAATTA
*
16872738 AAA-AATTAACAAATAAATTA
1 AAATAAATAACAAATAAATTA
16872758 AAATTAAATAACAAATAA
1 AAA-TAAATAACAAATAA
16872776 TATATAATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 3 0.09
19 3 0.09
20 14 0.44
22 12 0.38
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAAATAACAAATAAATTA
Found at i:16872926 original size:3 final size:3
Alignment explanation
Indices: 16872920--16872966 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
16872910 CAACAACAAC
*
16872920 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
16872965 AA
1 AA
16872967 ATATAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:16872972 original size:6 final size:6
Alignment explanation
Indices: 16872958--16873004 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
16872948 ATAATAATAA
*
16872958 ATAAA- ATAAAT ATAAAT ATAAAAAT GTAAA- ATAAAT ATAAAT ATAAA
1 ATAAAT ATAAAT ATAAAT AT--AAAT ATAAAT ATAAAT ATAAAT ATAAA
16873005 AAAATAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
5 9 0.25
6 22 0.61
8 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (6 bp):
ATAAAT
Found at i:16872995 original size:25 final size:25
Alignment explanation
Indices: 16872959--16873006 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
16872949 TAATAATAAA
16872959 TAAAATAAATATAAATATAAAAATG
1 TAAAATAAATATAAATATAAAAATG
16872984 TAAAATAAATATAAATATAAAAA
1 TAAAATAAATATAAATATAAAAA
16873007 AATAAGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (25 bp):
TAAAATAAATATAAATATAAAAATG
Found at i:16873019 original size:12 final size:11
Alignment explanation
Indices: 16872920--16873028 Score: 80
Period size: 12 Copynumber: 9.5 Consensus size: 11
16872910 CAACAACAAC
*
16872920 AATAATAATAAC
1 AATAA-AATAAA
*
16872932 AATAATAATAAT
1 AATAA-AATAAA
16872944 AATAATAATAATA
1 AATAA-AATAA-A
16872957 AATAAAATAAA
1 AATAAAATAAA
*
16872968 TATAAATATAAA
1 AATAAA-ATAAA
16872980 AATGTAAAATAAA
1 AA--TAAAATAAA
* *
16872993 TAT-AAATATA
1 AATAAAATAAA
*
16873003 AA-AAAATAAG
1 AATAAAATAAA
16873013 AATAAAA-AAA
1 AATAAAATAAA
16873023 AATAAA
1 AATAAA
16873029 CTTACCTATT
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
10 22 0.27
11 11 0.14
12 33 0.41
13 11 0.14
14 4 0.05
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:16873022 original size:15 final size:14
Alignment explanation
Indices: 16872926--16873028 Score: 53
Period size: 16 Copynumber: 6.4 Consensus size: 14
16872916 CAACAATAAT
* *
16872926 AATAACAATAATAAT
1 AATAA-AATAAAAAA
*
16872941 AATAATAATAATAATA
1 AATAA-AATAA-AAAA
16872957 AATAAAATAAATATAA
1 AATAAAATAAA-A-AA
*
16872973 ATATAAAAATGTAAAATA
1 A-AT-AAAA--TAAAAAA
16872991 AATATAAATATAAAAA
1 AATA-AAATA-AAAAA
16873007 AATAAGAATAAAAAAA
1 AATAA-AAT-AAAAAA
16873023 AATAAA
1 AATAAA
16873029 CTTACCTATT
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
14 1 0.01
15 20 0.29
16 30 0.43
17 8 0.11
18 6 0.09
19 1 0.01
20 4 0.06
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.24
Consensus pattern (14 bp):
AATAAAATAAAAAA
Found at i:16873293 original size:41 final size:41
Alignment explanation
Indices: 16873202--16873371 Score: 171
Period size: 41 Copynumber: 4.1 Consensus size: 41
16873192 TTTGATCAAA
* * * * *
16873202 GCTCCTTTAAGCAGAGACTCAACAACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACAACGACTTTG-GAAA-ATAAATG
* * * *
16873245 GCTCCTCTAATCAAAGGCTCAACCACTTTGGAAAATAAATG
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAATAAATG
* * *
16873286 GCTCCTCTAAACAGAGGCACCATGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAA-TAAATG
* * *
16873327 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAATAAATG
16873368 GCTC
1 GCTC
16873372 TTTGACAATC
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
40 5 0.05
41 73 0.66
42 8 0.07
43 25 0.23
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAATAAATG
Found at i:16874393 original size:8 final size:8
Alignment explanation
Indices: 16874380--16874437 Score: 64
Period size: 8 Copynumber: 7.1 Consensus size: 8
16874370 TTTTCATTCA
16874380 CTTTTTTT
1 CTTTTTTT
16874388 CTTTTTTT
1 CTTTTTTT
*
16874396 GTTTTTTT
1 CTTTTTTT
16874404 CATTTTTTT
1 C-TTTTTTT
*
16874413 -ATTTTTT
1 CTTTTTTT
*
16874420 CATTTTTT
1 CTTTTTTT
16874428 CATTTTTTT
1 C-TTTTTTT
16874437 C
1 C
16874438 AAGCATAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
7 6 0.14
8 23 0.53
9 14 0.33
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.81
Consensus pattern (8 bp):
CTTTTTTT
Found at i:16874402 original size:16 final size:16
Alignment explanation
Indices: 16874381--16874438 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
16874371 TTTCATTCAC
16874381 TTTTTTTC-TTTTTTT
1 TTTTTTTCATTTTTTT
16874396 GTTTTTTTCATTTTTTT
1 -TTTTTTTCATTTTTTT
* *
16874413 ATTTTTTCATTTTTTCA
1 TTTTTTTCATTTTTT-T
16874430 TTTTTTTCA
1 TTTTTTTCA
16874439 AGCATAGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
16 22 0.59
17 15 0.41
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTTTCATTTTTTT
Found at i:16874417 original size:24 final size:25
Alignment explanation
Indices: 16874376--16874438 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
16874366 TCATTTTTCA
* **
16874376 TTCACTTTTTTTCTTTTTTTGTTTTT
1 TTCA-TTTTTTTCATTTTTTCATTTT
16874402 TTCATTTTTTT-ATTTTTTCATTTT
1 TTCATTTTTTTCATTTTTTCATTTT
16874426 TTCATTTTTTTCA
1 TTCATTTTTTTCA
16874439 AGCATAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.64
25 8 0.24
26 4 0.12
ACGTcount: A:0.10, C:0.11, G:0.02, T:0.78
Consensus pattern (25 bp):
TTCATTTTTTTCATTTTTTCATTTT
Found at i:16881692 original size:15 final size:16
Alignment explanation
Indices: 16881672--16881702 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16881662 ATTAAGTGTG
16881672 ATGAATG-AAAATGCA
1 ATGAATGAAAAATGCA
16881687 ATGAATGAAAAATGCA
1 ATGAATGAAAAATGCA
16881703 TGTATACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (16 bp):
ATGAATGAAAAATGCA
Found at i:16884913 original size:57 final size:56
Alignment explanation
Indices: 16884848--16885343 Score: 559
Period size: 57 Copynumber: 8.6 Consensus size: 56
16884838 TTTTTTGCAG
* * * * *
16884848 GAAAAATTGATACTTTCAACTTTTCCCTAAAATATTTTTTAGAAATTTTAATCTTGA
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTT-GAAAATTTATTTTTAA
* * * **
16884905 GGAAAATTGATACTTTCAACTTTTCCTC-AAAATATCTTTTGAAACTTTAATTTCGAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGAAAATTT-ATTTTTAA
16884962 G-AAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAA--TATTTTTTGAAAATTTATTTTTAA
* * * * **
16885019 GGAAAATTGATACTTTCAACTTTTTCCCGAAAATATTTTTTGGAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTT-GAAA-ATTTATTTTTAA
* * **
16885078 GAAAAATTGATACTTTCAATTTTTCCTCAAAAAAACCTTTTTCAAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATA--TTTTTTGAAAATTTATTTTTAA
*
16885137 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGTAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTGAAAATTTATTTTTAA
* * **
16885194 GAAAAATTGATACTTTTAACTTTTTCTCAAAAACCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAAATTTATTTTTAA
* * *
16885251 GGAAAGTTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTAAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTGAAAATTTATTTTTAA
16885308 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATAT
1 GAAAAATTGATACTTTCAACTTTT-CCCAAAAATAT
16885344 ATATTTTTAT
Statistics
Matches: 375, Mismatches: 45, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
56 40 0.11
57 196 0.52
58 52 0.14
59 77 0.21
60 5 0.01
61 5 0.01
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (56 bp):
GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAATTTATTTTTAA
Found at i:16885403 original size:22 final size:21
Alignment explanation
Indices: 16885375--16885445 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
16885365 AAAATAAAAT
*
16885375 AATAAAACAAAATAAAAGTGAA
1 AATAAAACAAAATAAAA-AGAA
16885397 AATAAAA-AAAA-AATAAAGAA
1 AATAAAACAAAATAA-AAAGAA
* *
16885417 AAGTAAAACAAAAATAAATATAA
1 AA-TAAAAC-AAAATAAAAAGAA
16885440 AATAAA
1 AATAAA
16885446 TATAAAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
20 7 0.17
21 11 0.27
22 11 0.27
23 10 0.24
24 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (21 bp):
AATAAAACAAAATAAAAAGAA
Found at i:16885411 original size:11 final size:11
Alignment explanation
Indices: 16885365--16885445 Score: 56
Period size: 11 Copynumber: 7.2 Consensus size: 11
16885355 TTATTTAAAG
*
16885365 AAAATAAAATA
1 AAAAAAAAATA
16885376 ATAAAACAAAATA
1 A-AAAA-AAAATA
**
16885389 AAAGTGAAAATA
1 AAA-AAAAAATA
16885401 AAAAAAAAAT-
1 AAAAAAAAATA
* *
16885411 AAAGAAAAGTA
1 AAAAAAAAATA
*
16885422 AAACAAAAATA
1 AAAAAAAAATA
* *
16885433 AATATAAAATA
1 AAAAAAAAATA
16885444 AA
1 AA
16885446 TATAAAAGAA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
10 8 0.15
11 25 0.46
12 14 0.26
13 7 0.13
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:16885423 original size:21 final size:20
Alignment explanation
Indices: 16885370--16885434 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 20
16885360 TAAAGAAAAT
16885370 AAAATAATAAAACAAAATAAAAGTG
1 AAAATAA-AAAA-AAAAT-AAA--G
16885395 AAAATAAAAAAAAAATAAAG
1 AAAATAAAAAAAAAATAAAG
*
16885415 AAAAGTAAAACAAAAATAAA
1 AAAA-TAAAAAAAAAATAAA
16885435 TATAAAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
20 5 0.13
21 14 0.37
22 3 0.08
23 5 0.13
24 4 0.11
25 7 0.18
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.12
Consensus pattern (20 bp):
AAAATAAAAAAAAAATAAAG
Found at i:16885446 original size:11 final size:11
Alignment explanation
Indices: 16885427--16885466 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
16885417 AAGTAAAACA
16885427 AAAATAAATAT
1 AAAATAAATAT
16885438 AAAATAAATAT
1 AAAATAAATAT
*
16885449 AAAA-GAATAT
1 AAAATAAATAT
*
16885459 TAAATAAA
1 AAAATAAA
16885467 CCTAATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (11 bp):
AAAATAAATAT
Found at i:16886357 original size:17 final size:18
Alignment explanation
Indices: 16886324--16886357 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16886314 TTTCAGCCGA
16886324 ATAAATCAAATAAATTAG
1 ATAAATCAAATAAATTAG
16886342 ATAAATCAAA-AAATTA
1 ATAAATCAAATAAATTA
16886358 ACAGATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
ATAAATCAAATAAATTAG
Found at i:16886491 original size:6 final size:6
Alignment explanation
Indices: 16886480--16886583 Score: 79
Period size: 6 Copynumber: 16.5 Consensus size: 6
16886470 AATACCTAAG
* * *
16886480 ATAAAA ATAAAA GA-AAAA TATATATAA ACAATA ATAACA ATAAAA AT-AAA
1 ATAAAA ATAAAA -ATAAAA -ATA-A-AA ATAAAA ATAAAA ATAAAA ATAAAA
*
16886530 ATAAAA ATAAAA ATGTAAA ATAAAA ATAAAA ATAATAAGA ATAAAA A-AAAA
1 ATAAAA ATAAAA AT-AAAA ATAAAA ATAAAA AT-A-AA-A ATAAAA ATAAAA
16886581 ATA
1 ATA
16886584 GACTTACCTA
Statistics
Matches: 80, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
5 10 0.12
6 48 0.60
7 11 0.14
8 6 0.08
9 5 0.06
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:16886550 original size:19 final size:18
Alignment explanation
Indices: 16886512--16886582 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 18
16886502 TATAAACAAT
*
16886512 AATAACAATAAAAA-TAA
1 AATAAAAATAAAAATTAA
16886529 AATAAAAATAAAAATGTAA
1 AATAAAAATAAAAAT-TAA
16886548 AATAAAAATAAAAATAATAA
1 AATAAAAATAAAAAT--TAA
16886568 GAATAAAAA-AAAAAT
1 -AATAAAAATAAAAAT
16886583 AGACTTACCT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.27
19 18 0.38
20 9 0.19
21 8 0.17
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.18
Consensus pattern (18 bp):
AATAAAAATAAAAATTAA
Found at i:16886552 original size:39 final size:39
Alignment explanation
Indices: 16886480--16886583 Score: 106
Period size: 39 Copynumber: 2.7 Consensus size: 39
16886470 AATACCTAAG
* * * *
16886480 ATAAAAATAAAAGAAAAATATATATAAACAATAATAACA
1 ATAAAAATAAAATAAAAATAAAAATAAACAATAAAAACA
* *
16886519 ATAAAAATAAAATAAAAATAAAAATGTAA-AATAAAAATA
1 ATAAAAATAAAATAAAAATAAAAAT-AAACAATAAAAACA
16886558 A-AAATAATAAGAATAAAAA-AAAAATA
1 ATAAA-AATAA-AATAAAAATAAAAATA
16886584 GACTTACCTA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
38 3 0.05
39 42 0.76
40 10 0.18
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (39 bp):
ATAAAAATAAAATAAAAATAAAAATAAACAATAAAAACA
Found at i:16889822 original size:33 final size:33
Alignment explanation
Indices: 16889785--16889853 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
16889775 CAATCTGTGA
16889785 AGACTATTTGAGTAAAAGAAGTAAGTTGCTAGT
1 AGACTATTTGAGTAAAAGAAGTAAGTTGCTAGT
16889818 AGACTATTTGAGTAAAAGAAGTAAGTTGCTAGT
1 AGACTATTTGAGTAAAAGAAGTAAGTTGCTAGT
16889851 AGA
1 AGA
16889854 TATGAAATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.29
Consensus pattern (33 bp):
AGACTATTTGAGTAAAAGAAGTAAGTTGCTAGT
Found at i:16890533 original size:10 final size:9
Alignment explanation
Indices: 16890494--16890533 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
16890484 AATGAGAAAT
16890494 AAAAAAGAA
1 AAAAAAGAA
*
16890503 AAAAAATAA
1 AAAAAAGAA
*
16890512 AAAAAAGTA
1 AAAAAAGAA
16890521 AAAAAAGAGA
1 AAAAAAGA-A
16890531 AAA
1 AAA
16890534 TGAAGACTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 22 0.85
10 4 0.15
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:16891329 original size:79 final size:79
Alignment explanation
Indices: 16891119--16891316 Score: 299
Period size: 79 Copynumber: 2.5 Consensus size: 79
16891109 ATCAACATAA
* * *
16891119 CTTGTGAATTGTGATCAAATGATGGAAATAATGTGGATCAATGGATGAAATTTGTTCTAAAATTA
1 CTTGTGAGTTGTGATCAAATGATGGAAATAATGTGGATCAATGGACGAAATTTGTTCTAAAATTG
16891184 CTAGTGTGTAGAAG
66 CTAGTGTGTAGAAG
* * * *
16891198 CCTATGAGTTGTGATCAAATGATGAAAATAATGGGGATCAATGGACGAAATTTGTTCTAAAATTG
1 CTTGTGAGTTGTGATCAAATGATGGAAATAATGTGGATCAATGGACGAAATTTGTTCTAAAATTG
16891263 CTAGTGCTG-AGAAG
66 CTAGTG-TGTAGAAG
* *
16891277 CTTGTGAGTTATGATCAAGTGATGGAAATAATGTGGATCA
1 CTTGTGAGTTGTGATCAAATGATGGAAATAATGTGGATCA
16891317 GTTGACAGAA
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
79 103 0.98
80 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (79 bp):
CTTGTGAGTTGTGATCAAATGATGGAAATAATGTGGATCAATGGACGAAATTTGTTCTAAAATTG
CTAGTGTGTAGAAG
Found at i:16892096 original size:44 final size:44
Alignment explanation
Indices: 16892035--16892723 Score: 598
Period size: 44 Copynumber: 15.8 Consensus size: 44
16892025 GTCGAAGAGT
** *
16892035 TTTATTTTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGAAGCCTTA
1 TTTA-TTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
* ** * *
16892080 TTTATTTTTTCAAAGTTGTTGAACCTCTGCTTAGAGGAGCCTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
* * *
16892124 TTTATTTTTTCAAAGTTGTTGAGCTTTTACTTAGAGAAGCTTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
** * * *
16892168 TTTATTTTTT-AAAGTCATTGAGTCTCTATTTAGATAAGCCTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
* * *
16892211 TTTATTTTTTCAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
* * * * *
16892255 TTTATTTTTT-AAAGTTATTAAGCTTTTATTTAGA-AGAGCCTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGA-AGCTTTA
** * *
16892298 TTTA-TTTTTCAAAGTCATTGAGCCTCTGTTTAAAGAAGCTTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
** * * * * *
16892341 TTTATTTTTTCAAAACTATTTAGCATCTATTTAGAGGAGCCTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
** * * **
16892385 TTTATTTTTT-AAAGTCATTGAACCTTTGCTTAGA-AGAGCTTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGA-AGCTTTA
* * * * *
16892428 TTTA-TTTTTCAAAGTTGTTTAGCTTTTATTTAGAGGAGCATTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
* * *
16892471 TTTATTTTTT-AAAGTCGTTAAACCTCTATTTAGATG-AGCTTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGA-GAAGCTTTA
** *
16892514 TTTATTTTTTCAAAGTCATTGAGCCTTTACTTATA-AGAA-CTTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTA-TT-TAGAGAAGCTTTA
* * * *
16892558 TTTATTTTTTTCAAAGTTGTTGAGCTTCTGTTTAGGGAAGCCTTA
1 TTTA-TTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
* * *
16892603 TTTA-CTTTTCAAAGTTGTTGAGTCTCTATTTAGAGAAACTTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
* * *
16892646 TTTATTTTTTTCAAAGTCG-TGAGCCTTTATTTAGATG-AGTTTTA
1 TTTA-TTTTTTCAAAGTTGTTGAGCCTCTATTTAGA-GAAGCTTTA
* * *
16892690 TTTA-TTTTTCAAAAGTTATGGAGCTTCTATTTAG
1 TTTATTTTTTC-AAAGTTGTTGAGCCTCTATTTAG
16892724 GCCAAAAATC
Statistics
Matches: 521, Mismatches: 101, Indels: 45
0.78 0.15 0.07
Matches are distributed among these distances:
42 16 0.03
43 221 0.42
44 234 0.45
45 48 0.09
46 2 0.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.48
Consensus pattern (44 bp):
TTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTA
Found at i:16892215 original size:87 final size:86
Alignment explanation
Indices: 16892035--16892723 Score: 615
Period size: 87 Copynumber: 7.9 Consensus size: 86
16892025 GTCGAAGAGT
* * * *
16892035 TTTATTTTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGAAGCCTTATTTATTTTTTCAAAGTTGTT
1 TTTA-TTTTTTCAAAGTCGTTGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTT-AAAGTTATT
* ** *
16892100 GAACCTCTGCTTAGAGGAGCCTTA
64 G-AGCTCTATTTAGAGAAGCCTTA
* * * *
16892124 TTTATTTTTTCAAAGTTGTTGAGCTTTTACTTAGAGAAGCTTTATTTATTTTTTAAAGTCATTGA
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTTAAAGTTATTGA
*
16892189 GTCTCTATTTAGATAAGCCTTA
66 G-CTCTATTTAGAGAAGCCTTA
* *
16892211 TTTATTTTTTCAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTATTTATTTTTTAAAGTTATTAA
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTTAAAGTTATTGA
*
16892276 GCTTTTATTTAGA-AGAGCCTTA
66 GC-TCTATTTAGAGA-AGCCTTA
* ** * ** *
16892298 TTTA-TTTTTCAAAGTCATTGAGCCTCTGTTTAAAGAAGCTTTATTTATTTTTTCAAAACTATTT
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTT-AAAGTTATTG
*
16892362 AGCATCTATTTAGAGGAGCCTTA
65 AGC-TCTATTTAGAGAAGCCTTA
* * * * * * *
16892385 TTTATTTTTT-AAAGTCATTGAACCTTTGCTTAGA-AGAGCTTTATTTATTTTTCAAAGTTGTTT
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTACTTAGAGA-AGCTTTATTTATTTTTTAAAGTTATTG
* * *
16892448 AGCTTTTATTTAGAGGAGCATTA
65 AGC-TCTATTTAGAGAAGCCTTA
* * * *
16892471 TTTATTTTTT-AAAGTCGTTAAACCTCTATTTAGATG-AGCTTTATTTATTTTTTCAAAGTCATT
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTACTTAGA-GAAGCTTTATTTATTTTTT-AAAGTTATT
* *
16892534 GAGCCTTTACTTATA-AGAA-CTTTA
64 GAG-CTCTA-TT-TAGAGAAGCCTTA
* * ** * * * * *
16892558 TTTATTTTTTTCAAAGTTGTTGAGCTTCTGTTTAGGGAAGCCTTATTTACTTTTCAAAGTTGTTG
1 TTTA-TTTTTTCAAAGTCGTTGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTTAAAGTTATTG
* *
16892623 AGTCTCTATTTAGAGAAACTTTA
65 AG-CTCTATTTAGAGAAGCCTTA
* * * *
16892646 TTTATTTTTTTCAAAGTCG-TGAGCCTTTATTTAGATG-AGTTTTATTTATTTTTCAAAAGTTAT
1 TTTA-TTTTTTCAAAGTCGTTGAGCCTCTACTTAGA-GAAGCTTTATTTATTTTT-TAAAGTTAT
*
16892709 GGAGCTTCTATTTAG
63 TGAGC-TCTATTTAG
16892724 GCCAAAAATC
Statistics
Matches: 504, Mismatches: 75, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
86 122 0.24
87 223 0.44
88 121 0.24
89 38 0.08
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.48
Consensus pattern (86 bp):
TTTATTTTTTCAAAGTCGTTGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTTAAAGTTATTGA
GCTCTATTTAGAGAAGCCTTA
Found at i:16892705 original size:43 final size:42
Alignment explanation
Indices: 16892028--16892702 Score: 378
Period size: 43 Copynumber: 15.6 Consensus size: 42
16892018 CATGATTGTC
* * * **
16892028 GAAGAGTTTTA-TT-TTTTTCAAAGTTGTTGAGCCTCTGCTTA
1 GAAGAGCTTTATTTATTTTTCAAAGTCG-TGAGCCTTTATTTA
* * * * **
16892069 G-AGAAGCCTTATTTATTTTTTCAAAGTTGTTGAACCTCTGCTTA
1 GAAG-AGCTTTATTTA-TTTTTCAAAGTCG-TGAGCCTTTATTTA
* * * * *
16892113 GAGGAGCCTTATTTATTTTTTCAAAGTTGTTGAGCTTTTACTTA
1 GAAGAGCTTTATTTA-TTTTTCAAAGTCG-TGAGCCTTTATTTA
* * * *
16892157 G-AGAAGCTTTATTTATTTTTTAAAGTCATTGAGTCTCTATTTA
1 GAAG-AGCTTTATTTATTTTTCAAAGTC-GTGAGCCTTTATTTA
* * *
16892200 GATA-AGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTACTTA
1 GA-AGAGCTTTATTTA-TTTTTCAAAGTCG-TGAGCCTTTATTTA
* * ** * *
16892244 GAGGAGCTTTATTTATTTTTTAAAGTTATTAAGCTTTTATTTA
1 GAAGAGCTTTATTTATTTTTCAAAG-TCGTGAGCCTTTATTTA
* * * *
16892287 GAAGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTA
1 GAAGAGCTTTATTTATTTTTCAAAGTC-GTGAGCCTTTATTTA
* ** * * *
16892330 -AAGAAGCTTTATTTATTTTTTCAAAACTATTTAGCATCTATTTA
1 GAAG-AGCTTTATTTA-TTTTTC-AAAGTCGTGAGCCTTTATTTA
* * * * * **
16892374 GAGGAGCCTTATTTATTTTTTAAAGTCATTGAACCTTTGCTTA
1 GAAGAGCTTTATTTATTTTTCAAAGTC-GTGAGCCTTTATTTA
* * *
16892417 GAAGAGCTTTATTTATTTTTCAAAGTTGTTTAGCTTTTATTTA
1 GAAGAGCTTTATTTATTTTTCAAAGTCG-TGAGCCTTTATTTA
* * * * * *
16892460 GAGGAGCATTATTTATTTTTTAAAGTCGTTAAACCTCTATTTA
1 GAAGAGCTTTATTTATTTTTCAAAGTCG-TGAGCCTTTATTTA
* * *
16892503 GATGAGCTTTATTTATTTTTTCAAAGTCATTGAGCCTTTACTTA
1 GAAGAGCTTTATTTA-TTTTTCAAAGTC-GTGAGCCTTTATTTA
* * * *
16892547 TAAGAACTTTATTTATTTTTTTCAAAGTTGTTGAG-CTTCTGTTTA
1 GAAGAGCTTTATTTA--TTTTTCAAAGTCG-TGAGCCTT-TATTTA
* * * * * *
16892592 G-GGAAGCCTTATTTACTTTTCAAAGTTGTTGAGTCTCTATTTA
1 GAAG-AGCTTTATTTATTTTTCAAAGTCG-TGAGCCTTTATTTA
*
16892635 G-AGAAACTTTATTTATTTTTTTCAAAGTCGTGAGCCTTTATTTA
1 GAAG-AGCTTTATTTA--TTTTTCAAAGTCGTGAGCCTTTATTTA
* *
16892679 GATGAGTTTTATTTATTTTTCAAA
1 GAAGAGCTTTATTTATTTTTCAAA
16892703 AGTTATGGAG
Statistics
Matches: 498, Mismatches: 106, Indels: 59
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.00
41 6 0.01
42 19 0.04
43 222 0.45
44 200 0.40
45 49 0.10
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (42 bp):
GAAGAGCTTTATTTATTTTTCAAAGTCGTGAGCCTTTATTTA
Found at i:16893320 original size:20 final size:20
Alignment explanation
Indices: 16893283--16893320 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16893273 CACAATCCAA
*
16893283 CCATTTTTTTTTTGTTTTTT
1 CCATTTTTTTTATGTTTTTT
16893303 CCATTTTTTATTAT-TTTT
1 CCATTTTTT-TTATGTTTT
16893321 ATTAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (20 bp):
CCATTTTTTTTATGTTTTTT
Found at i:16897889 original size:25 final size:25
Alignment explanation
Indices: 16897826--16897889 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
16897816 ATTCTACTCG
* *
16897826 AAATTAATAAAAT-AATATTTTTTAA
1 AAATTAA-AAAATAAATATATATTAA
* *
16897851 ATA-TAAATATATAAATATATATTAA
1 AAATTAAA-AAATAAATATATATTAA
16897876 AAATTAAAAAATAA
1 AAATTAAAAAATAA
16897890 TTAAAACAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
23 1 0.03
24 6 0.20
25 19 0.63
26 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATTAAAAAATAAATATATATTAA
Found at i:16899431 original size:17 final size:17
Alignment explanation
Indices: 16899382--16899433 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
16899372 TAAATCAATC
16899382 AATATATAATTAATAATTT
1 AATATATAA--AATAATTT
**
16899401 AATATATACTATAATTAT
1 AATATATAAAATAATT-T
16899419 AAT-TATAAAATAATT
1 AATATATAAAATAATT
16899434 GATTTTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 16 0.57
18 4 0.14
19 8 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATATAAAATAATTT
Found at i:16899642 original size:27 final size:29
Alignment explanation
Indices: 16899611--16899693 Score: 73
Period size: 32 Copynumber: 2.8 Consensus size: 29
16899601 ATTTATATTT
*
16899611 TATTAA-A-TATGATTTCTTTTGATAAAA
1 TATTAATAGTATGATTTCATTTGATAAAA
*
16899638 TATTAATACGTGTTTGATTTCATTTGATAAAA
1 TATTAATA---GTATGATTTCATTTGATAAAA
16899670 TATTAAT-GTACGTGGATTTCATTT
1 TATTAATAGTA--T-GATTTCATTT
16899694 AATTTAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
27 6 0.13
28 3 0.07
30 1 0.02
31 10 0.22
32 25 0.56
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (29 bp):
TATTAATAGTATGATTTCATTTGATAAAA
Found at i:16899691 original size:31 final size:30
Alignment explanation
Indices: 16899620--16899693 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 30
16899610 TTATTAAATA
*
16899620 TGATTTCTTTTGATAAAATATTAATACGTG
1 TGATTTCATTTGATAAAATATTAATACGTG
16899650 TTTGATTTCATTTGATAAAATATTAATGTACGTG
1 --TGATTTCATTTGATAAAATATTAA--TACGTG
16899684 -GATTTCATTT
1 TGATTTCATTT
16899694 AATTTAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
31 10 0.26
32 23 0.59
34 6 0.15
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.49
Consensus pattern (30 bp):
TGATTTCATTTGATAAAATATTAATACGTG
Found at i:16900183 original size:22 final size:24
Alignment explanation
Indices: 16900121--16900184 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 24
16900111 GCTTGAAGGT
* *
16900121 TATTCTCTTTTTATACTTATATTTTG
1 TATT-TCTTTTTTTA-TTATATTTAG
**
16900147 TATTTCTTTAATTATTATA-TTAG
1 TATTTCTTTTTTTATTATATTTAG
16900170 T-TTTCTTTTTTTATT
1 TATTTCTTTTTTTATT
16900185 TTTTTTTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 12 0.38
23 4 0.12
24 5 0.16
25 7 0.22
26 4 0.12
ACGTcount: A:0.20, C:0.08, G:0.03, T:0.69
Consensus pattern (24 bp):
TATTTCTTTTTTTATTATATTTAG
Found at i:16901370 original size:16 final size:16
Alignment explanation
Indices: 16901338--16901387 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
16901328 CATAGCTTAT
*
16901338 ATTATCATTTA-AAAAA
1 ATTAT-ATTTATATAAA
16901354 ATTATATTTATATAAA
1 ATTATATTTATATAAA
*
16901370 ATT-TATTGATATATAA
1 ATTATATTTATATA-AA
16901386 AT
1 AT
16901388 ATTTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 14 0.47
16 16 0.53
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTATATTTATATAAA
Found at i:16902627 original size:22 final size:22
Alignment explanation
Indices: 16902599--16902643 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16902589 ATCTGGCACT
16902599 ACTAGAAACGACCTTTTAAACA
1 ACTAGAAACGACCTTTTAAACA
16902621 ACTAGAAACGACCTTTTAAACA
1 ACTAGAAACGACCTTTTAAACA
16902643 A
1 A
16902644 TGTGGGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.22, G:0.09, T:0.22
Consensus pattern (22 bp):
ACTAGAAACGACCTTTTAAACA
Found at i:16902895 original size:3 final size:3
Alignment explanation
Indices: 16902887--16902933 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
16902877 AAAATGTTAC
16902887 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16902934 CAAAATTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16908323 original size:19 final size:19
Alignment explanation
Indices: 16908296--16908333 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16908286 TAGGCATATT
16908296 CAAAGATTCATGCATTAAA
1 CAAAGATTCATGCATTAAA
*
16908315 CAAATATTCATGCATTAAA
1 CAAAGATTCATGCATTAAA
16908334 ACTATTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (19 bp):
CAAAGATTCATGCATTAAA
Found at i:16910196 original size:21 final size:20
Alignment explanation
Indices: 16910170--16910212 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
16910160 TGCCAAACCA
16910170 TGTTTTTACAAAACCATGTGC
1 TGTTTTT-CAAAACCATGTGC
* *
16910191 TG-TTTTCGAAACCATGTTC
1 TGTTTTTCAAAACCATGTGC
16910210 TGT
1 TGT
16910213 GCAAACCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
19 13 0.68
20 4 0.21
21 2 0.11
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (20 bp):
TGTTTTTCAAAACCATGTGC
Found at i:16910220 original size:16 final size:16
Alignment explanation
Indices: 16910199--16910256 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
16910189 GCTGTTTTCG
16910199 AAACCATGTTCTGTGC
1 AAACCATGTTCTGTGC
* *
16910215 AAACCATGTGCTGTTC
1 AAACCATGTTCTGTGC
16910231 GAAACCATG-TCTGTTGC
1 -AAACCATGTTCTG-TGC
16910248 AAACCATGT
1 AAACCATGT
16910257 GCCTTGCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 25 0.71
17 10 0.29
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (16 bp):
AAACCATGTTCTGTGC
Found at i:16910237 original size:33 final size:34
Alignment explanation
Indices: 16910180--16910258 Score: 126
Period size: 33 Copynumber: 2.3 Consensus size: 34
16910170 TGTTTTTACA
16910180 AAACCATGTGCTGTTTTCGAAACCATGTTCTG-TGC
1 AAACCATGTGCTG-TTTCGAAACCATG-TCTGTTGC
16910215 AAACCATGTGCTG-TTCGAAACCATGTCTGTTGC
1 AAACCATGTGCTGTTTCGAAACCATGTCTGTTGC
16910248 AAACCATGTGC
1 AAACCATGTGC
16910259 CTTGCAAAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
32 4 0.09
33 26 0.60
35 13 0.30
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (34 bp):
AAACCATGTGCTGTTTCGAAACCATGTCTGTTGC
Found at i:16910263 original size:16 final size:17
Alignment explanation
Indices: 16910199--16910272 Score: 66
Period size: 16 Copynumber: 4.5 Consensus size: 17
16910189 GCTGTTTTCG
*
16910199 AAACCATGTTCTGTGC-
1 AAACCATGTCCTGTGCA
* * *
16910215 AAACCATGTGCTGTTCG
1 AAACCATGTCCTGTGCA
16910232 AAACCATGT-CTGTTGC-
1 AAACCATGTCCTG-TGCA
16910248 AAACCATGTGCCT-TGCA
1 AAACCATGT-CCTGTGCA
16910265 AAACCATG
1 AAACCATG
16910273 GAGGGGTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
16 29 0.58
17 19 0.38
18 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (17 bp):
AAACCATGTCCTGTGCA
Found at i:16910269 original size:33 final size:33
Alignment explanation
Indices: 16910180--16910272 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 33
16910170 TGTTTTTACA
* *
16910180 AAACCATGTGCTGTTTTCGAAACCATGTTCTGTGC
1 AAACCATGTGCTG--TGCAAAACCATGTTCTGTGC
* *
16910215 AAACCATGTGCTGTTCGAAACCATG-TCTGTTGC
1 AAACCATGTGCTGTGCAAAACCATGTTCTG-TGC
16910248 AAACCATGTGCCT-TGCAAAACCATG
1 AAACCATGTG-CTGTGCAAAACCATG
16910273 GAGGGGTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
32 4 0.07
33 35 0.65
34 2 0.04
35 13 0.24
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (33 bp):
AAACCATGTGCTGTGCAAAACCATGTTCTGTGC
Found at i:16911605 original size:20 final size:20
Alignment explanation
Indices: 16911568--16911605 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16911558 TATACTAATA
*
16911568 AAAAATAAAATAACAAAATT
1 AAAAATAAAAGAACAAAATT
*
16911588 AAAAATAAAAGAATAAAA
1 AAAAATAAAAGAACAAAA
16911606 GAACATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (20 bp):
AAAAATAAAAGAACAAAATT
Found at i:16911645 original size:19 final size:19
Alignment explanation
Indices: 16911621--16911664 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
16911611 TGTATTTACA
16911621 AATAAATAGAATAGA-ATAG
1 AATAAATA-AATAGACATAG
*
16911640 AATAAATAAATATACATAG
1 AATAAATAAATAGACATAG
16911659 AATAAA
1 AATAAA
16911665 AAAGGCAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAATAAATAGACATAG
Found at i:16922881 original size:3 final size:3
Alignment explanation
Indices: 16922873--16922912 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16922863 AATTGGATTT
16922873 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
16922913 ATTGTCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16925990 original size:35 final size:34
Alignment explanation
Indices: 16925951--16926186 Score: 132
Period size: 35 Copynumber: 6.6 Consensus size: 34
16925941 GGATGAATTA
*
16925951 CAAGTCAAAAAATAAGAATGATTGGACTTGAATCG
1 CAAGTCAAAAAATAAGAATGATTGGAC-TAAATCG
* ** * *
16925986 CAAGTTAGGAAATAAGGATGATTGGGACTAAATTG
1 CAAGTCAAAAAATAAGAATGATT-GGACTAAATCG
* * *
16926021 CAAAT-AAAAAATAAGAATGGTAGAGACTAAATCG
1 CAAGTCAAAAAATAAGAATGATTG-GACTAAATCG
* * * * * *
16926055 CAAGTCAAAAAATAAGGATAACTGGGATTGAACCG
1 CAAGTCAAAAAATAAGAATGA-TTGGACTAAATCG
* * * * * *
16926090 TAAGTTAGAAAAAATAAAAAAAAATGATTGAGACTGAACCA
1 CAAG-T-CAAAAAAT----AAGAATGATTG-GACTAAATCG
* *
16926131 TAAGACAAAAAATAAGAATGACTTGGACTAAATCG
1 CAAGTCAAAAAATAAGAATGA-TTGGACTAAATCG
* *
16926166 TAAGTCAAAAAATAAGGATGA
1 CAAGTCAAAAAATAAGAATGA
16926187 CCAGAATTAA
Statistics
Matches: 152, Mismatches: 37, Indels: 24
0.71 0.17 0.11
Matches are distributed among these distances:
33 1 0.01
34 25 0.16
35 83 0.55
36 10 0.07
37 7 0.05
39 7 0.05
40 2 0.01
41 17 0.11
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (34 bp):
CAAGTCAAAAAATAAGAATGATTGGACTAAATCG
Found at i:16926054 original size:69 final size:69
Alignment explanation
Indices: 16925924--16926082 Score: 169
Period size: 69 Copynumber: 2.3 Consensus size: 69
16925914 ATCGTGATCG
* * * *
16925924 AGAAATAAGGATGACTAGGATGAATTACAAGTCAAAAAATAAGAATGATTGGACTTGAATCGCAA
1 AGAAATAAGGATGACTAGGATAAATTACAAATCAAAAAATAAGAATGATAGGACTTAAATCGCAA
*
16925989 GTTA
66 GTCA
* * * * *
16925993 GGAAATAAGGATGATTGGGACTAAATTGCAAAT-AAAAAATAAGAATGGTAGAGAC-TAAATCGC
1 AGAAATAAGGATGACTAGGA-TAAATTACAAATCAAAAAATAAGAATGATAG-GACTTAAATCGC
16926056 AAGTCA
64 AAGTCA
* * *
16926062 AAAAATAAGGATAACTGGGAT
1 AGAAATAAGGATGACTAGGAT
16926083 TGAACCGTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
68 1 0.01
69 61 0.82
70 12 0.16
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (69 bp):
AGAAATAAGGATGACTAGGATAAATTACAAATCAAAAAATAAGAATGATAGGACTTAAATCGCAA
GTCA
Found at i:16926187 original size:35 final size:35
Alignment explanation
Indices: 16926131--16926255 Score: 108
Period size: 35 Copynumber: 3.5 Consensus size: 35
16926121 GACTGAACCA
* * *
16926131 TAAGACAAAAAATAAGAATGACTTGGACTAAATCG
1 TAAGTCAAAAAATAAGGATGACTAGGACTAAATCG
* * *
16926166 TAAGTCAAAAAATAAGGATGACCAGAATTAAA-CTG
1 TAAGTCAAAAAATAAGGATGACTAGGACTAAATC-G
* * * * **
16926201 TAAGTCAAGATATAAAGATGACTGGGACTAAATTA
1 TAAGTCAAAAAATAAGGATGACTAGGACTAAATCG
*
16926236 TAAGGTAAAAAAATAAGGAT
1 TAA-GTCAAAAAATAAGGAT
16926256 TATCGAGATT
Statistics
Matches: 68, Mismatches: 19, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
34 1 0.01
35 55 0.81
36 12 0.18
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (35 bp):
TAAGTCAAAAAATAAGGATGACTAGGACTAAATCG
Found at i:16926331 original size:35 final size:35
Alignment explanation
Indices: 16926274--16926354 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
16926264 TTGAATTGTG
* * *
16926274 AGTCAGGAAATAAGGACAATCAAAATTGACTCGCA
1 AGTCAAGAAATAAGGACAATCAAAATTAAATCGCA
** * *
16926309 AGTCAAGAAATAAGGATGATCAAGATTAAATTGCA
1 AGTCAAGAAATAAGGACAATCAAAATTAAATCGCA
16926344 AGTCAAGAAAT
1 AGTCAAGAAAT
16926355 CAAGTTAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (35 bp):
AGTCAAGAAATAAGGACAATCAAAATTAAATCGCA
Found at i:16926476 original size:35 final size:36
Alignment explanation
Indices: 16926437--16926521 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 36
16926427 AGTTGAAAGG
*
16926437 GATTGAATCGTAAGTTGA-AAAATAAAGATGATAGA
1 GATTGAATCGTAAGTTCATAAAATAAAGATGATAGA
* * *
16926472 GATTGAATCGTAAG-TCATAAAATAAATATGATTGG
1 GATTGAATCGTAAGTTCATAAAATAAAGATGATAGA
* *
16926507 GACTAAATCGTAAGT
1 GATTGAATCGTAAGT
16926522 CAAGAAGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.05
35 40 0.95
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (36 bp):
GATTGAATCGTAAGTTCATAAAATAAAGATGATAGA
Found at i:16926646 original size:35 final size:36
Alignment explanation
Indices: 16926587--16926673 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 36
16926577 CATAAAATAG
** *
16926587 CAAAAAATAAAGATGA-TTAGGACTAAATCGCAAGT
1 CAAAAAATAAAGATGACCGAGGACTAAATCACAAGT
* * *
16926622 CGAAAAATAAAGATGACCGA-GACTAAATTATAAGT
1 CAAAAAATAAAGATGACCGAGGACTAAATCACAAGT
*
16926657 CAAAAAATAAAAATGAC
1 CAAAAAATAAAGATGAC
16926674 AAGATGCTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 42 0.98
36 1 0.02
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.18
Consensus pattern (36 bp):
CAAAAAATAAAGATGACCGAGGACTAAATCACAAGT
Found at i:16944227 original size:51 final size:52
Alignment explanation
Indices: 16944129--16944230 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 52
16944119 ATAATCATGC
*
16944129 AAACTCACTTATTAAGAATCTTTTTCCTCTTAGAATTCTTCTTTTGCAAGTT
1 AAACTCACCTATTAAGAATCTTTTTCCTCTTAGAATTCTTCTTTTGCAAGTT
*
16944181 AAACTTACCTATTAAGAATCTTTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 AAACTCACCTATTAAGAATCTTTTTCCTCTTAGAATTCTTCTTTTGCAAGT
16944231 CTTTTTATCC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 25 0.52
52 23 0.48
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (52 bp):
AAACTCACCTATTAAGAATCTTTTTCCTCTTAGAATTCTTCTTTTGCAAGTT
Found at i:16948282 original size:22 final size:23
Alignment explanation
Indices: 16948234--16948282 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
16948224 AACTTACATA
* *
16948234 AAATTTTTTAAATAAAATTTATG
1 AAATTTTTTAAATAAAAATAATG
*
16948257 AAATTTTTT-AATAAAAATAATT
1 AAATTTTTTAAATAAAAATAATG
16948279 AAAT
1 AAAT
16948283 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATTTTTTAAATAAAAATAATG
Found at i:16948549 original size:11 final size:12
Alignment explanation
Indices: 16948523--16948547 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16948513 TATTGATTTT
16948523 AATTTTTATTAA
1 AATTTTTATTAA
16948535 AATTTTTATTAA
1 AATTTTTATTAA
16948547 A
1 A
16948548 TTATTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTTTTATTAA
Found at i:16949423 original size:24 final size:24
Alignment explanation
Indices: 16949396--16949443 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16949386 ACTTTTACTA
*
16949396 TTATATTTTGCCTATTTTTTCTTT
1 TTATATTTTGCCTATCTTTTCTTT
* **
16949420 TTATTTTTTTTCTATCTTTTCTTT
1 TTATATTTTGCCTATCTTTTCTTT
16949444 CTCTTTTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.75
Consensus pattern (24 bp):
TTATATTTTGCCTATCTTTTCTTT
Found at i:16951224 original size:44 final size:44
Alignment explanation
Indices: 16951173--16951363 Score: 142
Period size: 44 Copynumber: 4.3 Consensus size: 44
16951163 CAGATGAAGA
*
16951173 AATTTTTGAAATTTTGGTTGTGAAATATTAAGTTTTTAAATGTG
1 AATTTTTGAAATTTTGGTTGTGAAATATTAAGTTTTTAAATGAG
* * * * * *
16951217 AATTTTTGGAATTTT-CTATG-CAAATTTCTAA-TTTTTCAAAAGAA
1 AATTTTTGAAATTTTGGT-TGTGAAATAT-TAAGTTTTT-AAATGAG
* * * * ***
16951261 AATTTTT-AACTTTTGGATGTGAAACCTATAAACTTTTCGGATGAG
1 AATTTTTGAAATTTTGGTTGTGAAA--TATTAAGTTTTTAAATGAG
* *
16951306 AATATTTGAAA-TTTGGTTGTGAAATATTAAAGTTTTT-AATGTG
1 AATTTTTGAAATTTTGGTTGTGAAATATT-AAGTTTTTAAATGAG
16951349 AATTTTTGAAATTTT
1 AATTTTTGAAATTTT
16951364 CAATATGAAT
Statistics
Matches: 108, Mismatches: 28, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
43 35 0.32
44 42 0.39
45 23 0.21
46 8 0.07
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.47
Consensus pattern (44 bp):
AATTTTTGAAATTTTGGTTGTGAAATATTAAGTTTTTAAATGAG
Found at i:16951363 original size:22 final size:22
Alignment explanation
Indices: 16951333--16951391 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
16951323 TGTGAAATAT
* * *
16951333 TAAAGTTTTTAATGTGAATTTT
1 TAAAATTTTTAATGTGAATCTC
* * *
16951355 TGAAATTTTCAATATGAATCTC
1 TAAAATTTTTAATGTGAATCTC
16951377 TAAAATTTTTGAATG
1 TAAAATTTTT-AATG
16951392 AAAATCTTTG
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (22 bp):
TAAAATTTTTAATGTGAATCTC
Found at i:16951468 original size:21 final size:23
Alignment explanation
Indices: 16951444--16951490 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
16951434 TGAAACCATT
16951444 AATTTTTT-ATATG-AAAT-TTTA
1 AATTTTTTGA-ATGTAAATATTTA
16951465 AATTTTTTGAATGTAAATATTTA
1 AATTTTTTGAATGTAAATATTTA
16951488 AAT
1 AAT
16951491 ATTGTCTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 11 0.48
22 5 0.22
23 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (23 bp):
AATTTTTTGAATGTAAATATTTA
Found at i:16951650 original size:17 final size:17
Alignment explanation
Indices: 16951610--16951656 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
16951600 AATCTTTGAT
* *
16951610 TTCTTGCAAACCTGAAA
1 TTCTTGCGAATCTGAAA
16951627 TTCTTGCGAATCTGAAA
1 TTCTTGCGAATCTGAAA
16951644 GTT-TTGCGAATCT
1 -TTCTTGCGAATCT
16951657 TTCAATTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (17 bp):
TTCTTGCGAATCTGAAA
Found at i:16951892 original size:17 final size:17
Alignment explanation
Indices: 16951866--16951913 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
16951856 CAAAACTTGA
16951866 AATC-TTGTGAATCTGG
1 AATCTTTGTGAATCTGG
**
16951882 AATCTTTGTGAATAGGG
1 AATCTTTGTGAATCTGG
* *
16951899 AACCTTTGAGAATCT
1 AATCTTTGTGAATCT
16951914 TGAGACATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (17 bp):
AATCTTTGTGAATCTGG
Found at i:16953917 original size:18 final size:17
Alignment explanation
Indices: 16953868--16953915 Score: 78
Period size: 18 Copynumber: 2.8 Consensus size: 17
16953858 ATTTTTTTCT
*
16953868 TTTTTATGAATTTAAAA
1 TTTTTGTGAATTTAAAA
16953885 TTTTTGTGGAATTTAAAA
1 TTTTTGT-GAATTTAAAA
16953903 TTTTTGTGAATTT
1 TTTTTGTGAATTT
16953916 TATCAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 12 0.41
18 17 0.59
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (17 bp):
TTTTTGTGAATTTAAAA
Done.