Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 84 of 126
Found at i:16811298 original size:44 final size:44
Alignment explanation
Indices: 16811249--16811605 Score: 261
Period size: 42 Copynumber: 8.3 Consensus size: 44
16811239 AAATTTTGAT
*
16811249 CAAAGCTCCTTTAAGTAGAGGCTC-ACGAC-TTTGAGTAAAATAAA
1 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGA--AAAATAAA
16811293 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
** * * * *
16811337 CAAAGCTCCTCTAAACAGAGGCTTAAAGACTTTTGGAAAGT-AA
1 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
** ** ** *
16811380 -ATTGCTCCTCTAAACAGAGGCTCAATAACTTTGGAAAAATAAA
1 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
** *
16811423 CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTT--AAAATAAA
1 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
* ** * * * *
16811465 TAAAGCTCCTCTAAACAAAGGCTCAA-GACTTTTGGAAAGT-GA
1 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
** * * ** * *
16811507 -ATTGCTCTTTTAAACAGAGGCTCAATGACTTTTGAAAAGT-AA
1 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
** * * * *
16811549 -ATTGCTCCTCTAAATAAAAGCTCAACAAC-TTTGAAAAAATAAA
1 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTG-AAAAATAAA
16811592 CAAAGCTCCTCTAA
1 CAAAGCTCCTCTAA
16811606 ACAAAGGCAA
Statistics
Matches: 263, Mismatches: 40, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
41 31 0.12
42 106 0.40
43 10 0.04
44 106 0.40
45 5 0.02
46 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (44 bp):
CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
Found at i:16811401 original size:86 final size:86
Alignment explanation
Indices: 16811297--16811656 Score: 360
Period size: 86 Copynumber: 4.2 Consensus size: 86
16811287 AATAAACAAA
* * *
16811297 GCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTTA
1 GCTCCTCTAAATAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCA
16811362 AAGACTTTTGGAAAGTAAATT
66 AAGACTTTTGGAAAGTAAATT
* * *
16811383 GCTCCTCTAAACAGAGGCTCAATAACTTTGGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCA
1 GCTCCTCTAAATAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCA
* * *
16811448 ATGACTTTT--AAAATAAATAAA
66 AAGACTTTTGGAAAGTAAAT--T
* * * * * * ** * *
16811469 GCTCCTCTAAACAAAGGCTCAA-GACTTTTGGAAAGT-GA-ATTGCTCTTTTAAACAGAGGCTCA
1 GCTCCTCTAAATAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCA
* *
16811531 ATGACTTTTGAAAAGTAAATT
66 AAGACTTTTGGAAAGTAAATT
* * *
16811552 GCTCCTCTAAATAAAAGCTCAACAAC-TTTGAAAAAATAAACAAAGCTCCTCTAAACAAAGG--C
1 GCTCCTCTAAATAGAGGCTCAACAACTTTTG-AAAAATAAACAAAGCTCCTCTAAACAGAGGCTC
*
16811614 AACAGAACTTTTGAGAGAA-TAAATG
65 AA-AG-ACTTTTG-GA-AAGTAAATT
*
16811639 GCTCCTCTGAATAGAGGC
1 GCTCCTCTAAATAGAGGC
16811657 AACAGAACTT
Statistics
Matches: 224, Mismatches: 38, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
83 53 0.24
84 18 0.08
85 20 0.09
86 110 0.49
87 21 0.09
88 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (86 bp):
GCTCCTCTAAATAGAGGCTCAACAACTTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCA
AAGACTTTTGGAAAGTAAATT
Found at i:16811580 original size:42 final size:42
Alignment explanation
Indices: 16811296--16811562 Score: 279
Period size: 42 Copynumber: 6.3 Consensus size: 42
16811286 AAATAAACAA
** * * *
16811296 AGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAACAA
1 AGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGT-AA-AT
* * *
16811340 AGCTCCTCTAAACAGAGGCTTAAAGACTTTTGGAAAGTAAAT
1 AGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGTAAAT
* * * * *
16811382 TGCTCCTCTAAACAGAGGCTCAATAACTTTGGAAAAATAAACAA
1 AGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGT-AA-AT
16811426 AGCTCCTCTAAACAGAGGCTCAATGACTTTT-AAAA-TAAAT
1 AGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGTAAAT
* * *
16811466 AAAGCTCCTCTAAACAAAGGCTCAA-GACTTTTGGAAAGTGAAT
1 --AGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGTAAAT
* * *
16811509 TGCTCTTTTAAACAGAGGCTCAATGACTTTTGAAAAGTAAAT
1 AGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGTAAAT
*
16811551 TGCTCCTCTAAA
1 AGCTCCTCTAAA
16811563 TAAAAGCTCA
Statistics
Matches: 186, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 28 0.15
42 84 0.45
43 12 0.06
44 61 0.33
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (42 bp):
AGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGTAAAT
Found at i:16811606 original size:44 final size:44
Alignment explanation
Indices: 16811249--16811613 Score: 322
Period size: 44 Copynumber: 8.5 Consensus size: 44
16811239 AAATTTTGAT
* **
16811249 CAAAGCTCCTTTAAGTAGAGGCTC-ACGAC-TTTGAGTAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGA--AAAATAAA
**
16811293 CAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAA
* * * *
16811337 CAAAGCTCCTCTAAACAGAGGCTTAAAGACTTTTGGAAAGT-AA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAA
** ** *
16811380 -ATTGCTCCTCTAAACAGAGGCTCAATAACTTTGGAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAA
*
16811423 CAAAGCTCCTCTAAACAGAGGCTCAATGACTTTT--AAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAA
* * * * *
16811465 TAAAGCTCCTCTAAACAAAGGCTCAA-GACTTTTGGAAAGT-GA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAA
** * * * *
16811507 -ATTGCTCTTTTAAACAGAGGCTCAATGACTTTTGAAAAGT-AA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAA
** * * * *
16811549 -ATTGCTCCTCTAAATAAAAGCTCAACAAC-TTTGAAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTG-AAAAATAAA
*
16811592 CAAAGCTCCTCTAAACAAAGGC
1 CAAAGCTCCTCTAAACAGAGGC
16811614 AACAGAACTT
Statistics
Matches: 269, Mismatches: 42, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
41 31 0.12
42 106 0.39
43 10 0.04
44 112 0.42
45 5 0.02
46 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (44 bp):
CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAA
Found at i:16811657 original size:43 final size:42
Alignment explanation
Indices: 16811540--16811814 Score: 293
Period size: 43 Copynumber: 6.4 Consensus size: 42
16811530 AATGACTTTT
* *
16811540 GAAAAGTAAATTGCTCCTCTAAATAAAAGCTCAAC--AACTTTGA
1 GAAAA-TAAATTGCTCCTCTAAAT-AGAG-GCAACAGAACTTTGA
* ** * *
16811583 AAAAATAAACAAAGCTCCTCTAAACAAAGGCAACAGAACTTTTGA
1 GAAAAT-AA-ATTGCTCCTCTAAATAGAGGCAACAGAAC-TTTGA
* * *
16811628 GAGAATAAATGGCTCCTCTGAATAGAGGCAACAGAACTTTGA
1 GAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAACTTTGA
* * * *
16811670 GAAAATAAATGGCTTCTTTAAATAGAGGCAACAGAACTTTGG
1 GAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAACTTTGA
* * *
16811712 GAAAAATAAATTGCTCTTCTAAATAAAGGCAACAGAACTTTGGG
1 G-AAAATAAATTGCTCCTCTAAATAGAGGCAACAGAACTTT-GA
* *
16811756 GAAAATAAATTGCTCCTCTAAATAGAGGTAATAGAACTTTGA
1 GAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAACTTTGA
16811798 GAAAATAAATTGCTCCT
1 GAAAATAAATTGCTCCT
16811815 TGACAATCAT
Statistics
Matches: 198, Mismatches: 27, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
42 66 0.33
43 103 0.52
44 20 0.10
45 9 0.05
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (42 bp):
GAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAACTTTGA
Found at i:16812819 original size:1 final size:1
Alignment explanation
Indices: 16812815--16812866 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
16812805 TTTCATTCCC
* * * * * *
16812815 TTTTTTTCTTTTTTTTTCTTTTTTTTTTGTCTTTTTTTATCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16812867 AAAGCATAGT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.08, G:0.02, T:0.88
Consensus pattern (1 bp):
T
Found at i:16812828 original size:10 final size:10
Alignment explanation
Indices: 16812815--16812864 Score: 64
Period size: 10 Copynumber: 4.7 Consensus size: 10
16812805 TTTCATTCCC
16812815 TTTTTTTCTT
1 TTTTTTTCTT
16812825 TTTTTTTCTTTT
1 TTTTTTTC--TT
16812837 TTTTTTGTCTT
1 TTTTTT-TCTT
*
16812848 TTTTTATCTT
1 TTTTTTTCTT
16812858 TTTTTTT
1 TTTTTTT
16812865 TTAAAGCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 18 0.51
11 7 0.20
12 8 0.23
13 2 0.06
ACGTcount: A:0.02, C:0.08, G:0.02, T:0.88
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:16812841 original size:23 final size:23
Alignment explanation
Indices: 16812815--16812866 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
16812805 TTTCATTCCC
*
16812815 TTTTTTTCTTTTTTTTTCTTTTT
1 TTTTTTTCTTTTTTTATCTTTTT
*
16812838 TTTTTGTCTTTTTTTATCTTTTT
1 TTTTTTTCTTTTTTTATCTTTTT
16812861 TTTTTT
1 TTTTTT
16812867 AAAGCATAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.02, C:0.08, G:0.02, T:0.88
Consensus pattern (23 bp):
TTTTTTTCTTTTTTTATCTTTTT
Found at i:16823566 original size:15 final size:15
Alignment explanation
Indices: 16823548--16823585 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
16823538 CTCAAAATAC
16823548 TTTTTGAAAATTTTA
1 TTTTTGAAAATTTTA
*
16823563 TTTTAG-AAATTTTA
1 TTTTTGAAAATTTTA
16823577 TTTTT-AAAA
1 TTTTTGAAAA
16823586 AAAATTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (15 bp):
TTTTTGAAAATTTTA
Found at i:16823593 original size:71 final size:66
Alignment explanation
Indices: 16823434--16823688 Score: 229
Period size: 62 Copynumber: 3.8 Consensus size: 66
16823424 TCTTGATAAT
* * *
16823434 TTTTATTTTTAAGAAAAATTGGTACTTCCAACTTTTCCCCAAAAATATATTTTTTTTACTTTTGA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAATATATTTTTTTTACTTTTGA
16823499 AA
65 AA
* * *
16823501 TTCTAATTTTGAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACT-TTTTGAAAATTTTA-T
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATA-TATTTT-----TTTTACT
16823564 TTTAGAAA
60 TTT-GAAA
* * *
16823572 TTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTTA------A
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTT-CCTCAAAATATATTTTTTTTACTTTTGA
*
16823631 ACT
65 A-A
* * * *
16823634 TTTTATTTTTAAGAGAAATTGATACTTTCAACTTTCTCTTAAAAAAATATTTTTT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTT-TCCTCAAAATATATTTTTT
16823689 GTGTTCAAAG
Statistics
Matches: 159, Mismatches: 18, Indels: 27
0.78 0.09 0.13
Matches are distributed among these distances:
61 2 0.01
62 48 0.30
63 1 0.01
66 10 0.06
67 40 0.25
70 4 0.03
71 42 0.26
72 12 0.08
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (66 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTTACTTTTGAA
A
Found at i:16825181 original size:193 final size:192
Alignment explanation
Indices: 16824836--16825217 Score: 678
Period size: 193 Copynumber: 2.0 Consensus size: 192
16824826 TTTATTTATT
16824836 AAAAATTATTCTCGAGAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAGT
1 AAAAATTATTCTCGAGAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAGT
16824901 ACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGAAT
66 ACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGAAT
* *
16824966 ACTTTTAGAATCTCATCTTTGGAGG-CTCGAATTTATTTTTCGTAAGAAA-ATGTCATGTTAA
131 ACTTTTAGAATCTCATCTTTGGAGGTCT-AAATTTACTTTTCGTAAGAAATATGTCATGTTAA
*
16825027 AAAAATTTATTCTCGAGAAAAATAAATTAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCA
1 AAAAA-TTATTCTCGAG-AAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCA
*
16825092 GTACGTTGGTAACATTAAAAGAATTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
64 GTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGA
16825157 ATACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCGTAAGAAATTATGTCATG
129 ATACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCGTAAGAAA-TATGTCATG
16825218 CATGCCATGC
Statistics
Matches: 182, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
191 5 0.03
192 11 0.06
193 156 0.86
194 2 0.01
195 8 0.04
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (192 bp):
AAAAATTATTCTCGAGAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTTCCAGT
ACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGAAT
ACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCGTAAGAAATATGTCATGTTAA
Found at i:16825491 original size:21 final size:20
Alignment explanation
Indices: 16825467--16825515 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
16825457 TTTTTCTTCC
16825467 TATTTTATTAC-TTATATTTTT
1 TATTTTATTACATTA-A-TTTT
*
16825488 TATTATATT-CATTAATTTT
1 TATTTTATTACATTAATTTT
16825507 TA-TTTATTA
1 TATTTTATTA
16825516 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 5 0.21
19 6 0.25
20 2 0.08
21 11 0.46
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTTATTACATTAATTTT
Found at i:16825870 original size:211 final size:209
Alignment explanation
Indices: 16825331--16825898 Score: 801
Period size: 211 Copynumber: 2.7 Consensus size: 209
16825321 GAATTTAATC
* * *
16825331 ATATTGAAAA-TTTTCTATAAATATTCCAATACGCTGGTAATATTTTAAAAAAAATCTTCTCACC
1 ATATTGAAAATTTTTTTATAAATACTCCAATACGCTGGTAGTATTTTAAAAAAAATCTTCTCACC
* * * * * * * *
16825395 TAGAGATTTCTTAAAGCATCTCTACTCGGAATACTTTTAGAATCTCATCATTGGATTAAATTTTT
66 TAGAGATTTCGT-AGGCATCACTACTCGGAATACCTTT-GAATCTCATCATCGGATAAAAATTTC
* * * *
16825460 TTCTTC-C-TATTTTATTACTTATATTTTTTATTATATTCATTAATTTTTATTTATTATTTTAAA
129 CTCTTCTCTTATTTTATTACTTATATTTTTAATTATATTAATCAATTTTTATTTATTATTTTAAA
16825523 AAAGAAAATCTTTACT
194 AAAGAAAATCTTTACT
* * *
16825539 GTATTGAAAATATTTTTATAAATACTCCAATACGCTGGTAGTA-CTTAAAAAAAATCTTCTCACC
1 ATATTGAAAATTTTTTTATAAATACTCCAATACGCTGGTAGTATTTTAAAAAAAATCTTCTCACC
16825603 TAGAGATTTCGTAGGCATCACTACTCGGAATACCTTTGAATTCTCATCATCGGATAAAAATTTCC
66 TAGAGATTTCGTAGGCATCACTACTCGGAATACCTTTGAA-TCTCATCATCGGATAAAAATTTCC
*
16825668 TCTTCTCTTATTTTATTAGTTATA-TTTTAATT-TATTAATCAA-TTTTATTTATTATTTTTTTA
130 TCTTCTCTTATTTTATTACTTATATTTTTAATTATATTAATCAATTTTTATTTATTA---TTTT-
16825730 AAAAAAGAAAATCTTTACT
191 AAAAAAGAAAATCTTTACT
16825749 ATATTGAAAATTTTTTTATAAATACTCCAATACGCTGGTAGTATTTTAAAAAAAATCTTCTCACC
1 ATATTGAAAATTTTTTTATAAATACTCCAATACGCTGGTAGTATTTTAAAAAAAATCTTCTCACC
*
16825814 TAGAGATTTCGTAGGCATCACTACTCGGAATAACCTTTGAATCTCATCGTCGGATAAAAATTTCC
66 TAGAGATTTCGTAGGCATCACTACTCGGAAT-ACCTTTGAATCTCATCATCGGATAAAAATTTCC
* *
16825879 TTTTCT-TTCATTTTTTTACT
130 TCTTCTCTT-ATTTTATTACT
16825899 ACTTTAGTAT
Statistics
Matches: 323, Mismatches: 26, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
206 15 0.05
207 54 0.17
208 48 0.15
209 47 0.15
210 62 0.19
211 88 0.27
212 9 0.03
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.43
Consensus pattern (209 bp):
ATATTGAAAATTTTTTTATAAATACTCCAATACGCTGGTAGTATTTTAAAAAAAATCTTCTCACC
TAGAGATTTCGTAGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTTCCT
CTTCTCTTATTTTATTACTTATATTTTTAATTATATTAATCAATTTTTATTTATTATTTTAAAAA
AGAAAATCTTTACT
Found at i:16826125 original size:12 final size:12
Alignment explanation
Indices: 16826108--16826132 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16826098 TTACCTGAAC
16826108 CGGACCGGTCAA
1 CGGACCGGTCAA
16826120 CGGACCGGTCAA
1 CGGACCGGTCAA
16826132 C
1 C
16826133 TCCTGGTTCG
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:0.24, C:0.36, G:0.32, T:0.08
Consensus pattern (12 bp):
CGGACCGGTCAA
Found at i:16826155 original size:13 final size:15
Alignment explanation
Indices: 16826135--16826177 Score: 65
Period size: 13 Copynumber: 3.1 Consensus size: 15
16826125 CGGTCAACTC
16826135 CTGGTTCGGTTCGG-
1 CTGGTTCGGTTCGGT
16826149 C-GGTTCGGTTCGGT
1 CTGGTTCGGTTCGGT
16826163 CTGGTT-GGTTCGGT
1 CTGGTTCGGTTCGGT
16826177 C
1 C
16826178 CGGCGGTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.44
14 11 0.41
15 4 0.15
ACGTcount: A:0.00, C:0.21, G:0.42, T:0.37
Consensus pattern (15 bp):
CTGGTTCGGTTCGGT
Found at i:16826173 original size:32 final size:32
Alignment explanation
Indices: 16826136--16826227 Score: 148
Period size: 32 Copynumber: 2.9 Consensus size: 32
16826126 GGTCAACTCC
*
16826136 TGGTTCGGTTCGGCGGTTCGGTTCGGTCTGGT
1 TGGTTCGGTCCGGCGGTTCGGTTCGGTCTGGT
* *
16826168 TGGTTCGGTCCGGCGGTTCAGTTCGATCTGGT
1 TGGTTCGGTCCGGCGGTTCGGTTCGGTCTGGT
*
16826200 TGGTTTGGTCCGGCGGTTCGGTTCGGTC
1 TGGTTCGGTCCGGCGGTTCGGTTCGGTC
16826228 CAGTCAGACC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.02, C:0.21, G:0.41, T:0.36
Consensus pattern (32 bp):
TGGTTCGGTCCGGCGGTTCGGTTCGGTCTGGT
Found at i:16827087 original size:23 final size:24
Alignment explanation
Indices: 16827042--16827096 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
16827032 CCCCTTGACT
16827042 TTTGTTTTATTTCTGTTTCTTTTG
1 TTTGTTTTATTTCTGTTTCTTTTG
*
16827066 TTTG-TTTATTTTTTGTTT-TTTTG
1 TTTGTTTTA-TTTCTGTTTCTTTTG
16827089 TTTGTTTT
1 TTTGTTTT
16827097 GTTAAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.04, C:0.04, G:0.13, T:0.80
Consensus pattern (24 bp):
TTTGTTTTATTTCTGTTTCTTTTG
Found at i:16827453 original size:22 final size:21
Alignment explanation
Indices: 16827428--16827525 Score: 76
Period size: 22 Copynumber: 4.6 Consensus size: 21
16827418 AAGAGTAAAA
16827428 AAAAAATAATATAATAAATAAT
1 AAAAAATAATA-AATAAATAAT
* * *
16827450 AAAATAT-ATTAATAGATAACT
1 AAAAAATAATAAATAAATAA-T
16827471 -AAAAATAGATAAATAAATAAAT
1 AAAAAATA-ATAAATAAAT-AAT
* *
16827493 AAAAATTAATAGATAAATAA-
1 AAAAAATAATAAATAAATAAT
*
16827513 AATAATATAATAA
1 AA-AAAATAATAA
16827526 TGAAAATAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
20 15 0.25
21 12 0.20
22 24 0.41
23 8 0.14
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAAATAATAAATAAATAAT
Found at i:16827479 original size:14 final size:14
Alignment explanation
Indices: 16827460--16827514 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
16827450 AAAATATATT
*
16827460 AATAGATAACTAAA
1 AATAGATAAATAAA
16827474 AATAGATAAAT--A
1 AATAGATAAATAAA
* *
16827486 AATAAATAAA-AATT
1 AATAGATAAATAA-A
16827500 AATAGATAAATAAA
1 AATAGATAAATAAA
16827514 A
1 A
16827515 TAATATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
12 10 0.31
14 20 0.62
15 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (14 bp):
AATAGATAAATAAA
Found at i:16827534 original size:26 final size:27
Alignment explanation
Indices: 16827474--16827545 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
16827464 GATAACTAAA
*
16827474 AATAGATAAAT-AAATAAATAAAAATT
1 AATAGATAAATAAAATAAATAAAAATG
*
16827500 AATAGATAAATAAAATAATATAATAATG
1 AATAGATAAATAAAATAA-ATAAAAATG
* *
16827528 AA-A-ATAATTAAATTAAAT
1 AATAGATAAATAAAATAAAT
16827546 TAAATTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 22 0.55
27 7 0.17
28 9 0.22
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (27 bp):
AATAGATAAATAAAATAAATAAAAATG
Found at i:16827553 original size:15 final size:16
Alignment explanation
Indices: 16827533--16827565 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
16827523 TAATGAAAAT
16827533 AATTAAATT-AAATTA
1 AATTAAATTAAAATTA
16827548 AATTAAATTAAAATTA
1 AATTAAATTAAAATTA
16827564 AA
1 AA
16827566 AAAAAATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTAAATTAAAATTA
Found at i:16834098 original size:15 final size:15
Alignment explanation
Indices: 16834062--16834098 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
16834052 TTATCGGGTG
*
16834062 TATTTTAATTATAAT
1 TATTTTTATTATAAT
*
16834077 TCTTTTTATTATAAT
1 TATTTTTATTATAAT
16834092 TATTTTT
1 TATTTTT
16834099 TAATCATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTATTATAAT
Found at i:16834202 original size:14 final size:15
Alignment explanation
Indices: 16834183--16834224 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
16834173 TATAATTTTA
*
16834183 AATTATAATTA-ATT
1 AATTATAATTATAAT
16834197 AATTAT-ATTATAAT
1 AATTATAATTATAAT
16834211 AATTATGAATTATA
1 AATTAT-AATTATA
16834225 TACACTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.17
14 14 0.58
16 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AATTATAATTATAAT
Found at i:16836657 original size:18 final size:19
Alignment explanation
Indices: 16836634--16836671 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16836624 TCTCCCTTCC
16836634 TTTCTTCTA-TCTTCTTTT
1 TTTCTTCTACTCTTCTTTT
* *
16836652 TTTCTTTTACTTTTCTTTT
1 TTTCTTCTACTCTTCTTTT
16836671 T
1 T
16836672 CCTCTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTCTTCTACTCTTCTTTT
Found at i:16839889 original size:2 final size:2
Alignment explanation
Indices: 16839848--16839872 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16839838 ATTAGAAGTA
16839848 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16839873 GATTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16840588 original size:156 final size:156
Alignment explanation
Indices: 16840322--16840763 Score: 821
Period size: 156 Copynumber: 2.8 Consensus size: 156
16840312 GTTAGTTGTT
* *
16840322 GAAAATTATTCTCCATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
16840387 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
16840452 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
16840478 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
16840543 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGATGCTCCGTCGTCGGATTAATTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
16840608 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
16840634 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* *
16840699 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
16840764 AGAAAAAAAA
Statistics
Matches: 278, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
156 238 0.86
157 40 0.14
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (156 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
CAAGATCAACCAATTAATTAATTATC
Found at i:16840806 original size:1 final size:1
Alignment explanation
Indices: 16840800--16840830 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
16840790 AAAGTCAAAT
16840800 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16840831 CCTGGAGCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16840869 original size:15 final size:16
Alignment explanation
Indices: 16840838--16840892 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 16
16840828 AAACCTGGAG
*
16840838 CGGCTCGGATCGCGGCT
1 CGGCTCGGCT-GCGGCT
*
16840855 CGGCTTGG-TGCGGCT
1 CGGCTCGGCTGCGGCT
16840870 CGGCTCGGCT-CGGCT
1 CGGCTCGGCTGCGGCT
16840885 CGGCTCGG
1 CGGCTCGG
16840893 AGGGGCTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 26 0.74
16 2 0.06
17 7 0.20
ACGTcount: A:0.02, C:0.35, G:0.44, T:0.20
Consensus pattern (16 bp):
CGGCTCGGCTGCGGCT
Found at i:16840873 original size:5 final size:5
Alignment explanation
Indices: 16840850--16840892 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
16840840 GCTCGGATCG
*
16840850 CGGCT CGGCT TGG-T GCGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT -CGGCT CGGCT CGGCT CGGCT CGGCT CGG
16840893 AGGGGCTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.00, C:0.35, G:0.44, T:0.21
Consensus pattern (5 bp):
CGGCT
Found at i:16840899 original size:15 final size:15
Alignment explanation
Indices: 16840838--16840899 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
16840828 AAACCTGGAG
16840838 CGGCTCGGATCGCGGCT
1 CGGCTCGGA--GCGGCT
* *
16840855 CGGCTTGGTGCGGCT
1 CGGCTCGGAGCGGCT
**
16840870 CGGCTCGGCTCGGCT
1 CGGCTCGGAGCGGCT
*
16840885 CGGCTCGGAGGGGCT
1 CGGCTCGGAGCGGCT
16840900 GAAACGCGCG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
15 30 0.81
17 7 0.19
ACGTcount: A:0.03, C:0.32, G:0.45, T:0.19
Consensus pattern (15 bp):
CGGCTCGGAGCGGCT
Found at i:16841194 original size:20 final size:18
Alignment explanation
Indices: 16841171--16841210 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
16841161 TCGCCGGTTT
16841171 CTGGGATTCTCCGCCGGAAA
1 CTGGG-TTCT-CGCCGGAAA
*
16841191 CTGGGTTGTCGCCGGAAA
1 CTGGGTTCTCGCCGGAAA
16841209 CT
1 CT
16841211 TCCAAAGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 3 0.16
20 5 0.26
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.23
Consensus pattern (18 bp):
CTGGGTTCTCGCCGGAAA
Found at i:16841828 original size:3 final size:3
Alignment explanation
Indices: 16841820--16841855 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
16841810 AAAGATATAC
16841820 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16841856 GAATACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16841865 original size:12 final size:10
Alignment explanation
Indices: 16841789--16841865 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 10
16841779 ATCTAATCTG
*
16841789 AATAAAAATA
1 AATAATAATA
16841799 AAT-A-AATA
1 AATAATAATA
16841807 AATAA-AGATA
1 AATAATA-ATA
16841817 TACATAATAAT-
1 -A-ATAATAATA
16841828 AATAATAAT-
1 AATAATAATA
16841837 AATAATAAT-
1 AATAATAATA
16841846 AATAATAATA
1 AATAATAATA
16841856 GAATACATAA
1 -AATA-ATAA
16841866 AATACAAAAG
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.12
9 29 0.49
10 7 0.12
11 5 0.08
12 10 0.17
13 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (10 bp):
AATAATAATA
Found at i:16841869 original size:14 final size:14
Alignment explanation
Indices: 16841820--16841869 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 14
16841810 AAAGATATAC
16841820 ATAATAATAAT--A
1 ATAATAATAATAGA
16841832 ATAATAATAAT--A
1 ATAATAATAATAGA
16841844 ATAATAATAATAGA
1 ATAATAATAATAGA
16841858 ATACATAA-AATA
1 ATA-ATAATAATA
16841870 CAAAAGAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 23 0.66
14 8 0.23
15 4 0.11
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
ATAATAATAATAGA
Found at i:16842059 original size:1 final size:1
Alignment explanation
Indices: 16842055--16842140 Score: 64
Period size: 1 Copynumber: 86.0 Consensus size: 1
16842045 TTATTTTTGA
* * ** ** ** * * *
16842055 TTTTTTTTTGTTTTTATTTTTTTGATTTTTTTGATTTTTTTGATTTTTTTGTTTTTGTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
16842120 TTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
16842141 GGCCGAAGCT
Statistics
Matches: 64, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:16842082 original size:25 final size:24
Alignment explanation
Indices: 16842048--16842140 Score: 109
Period size: 25 Copynumber: 3.7 Consensus size: 24
16842038 AACATTTTTA
16842048 TTTTTGATTTTTTTTTGTTTTTATT
1 TTTTTGATTTTTTTTT-TTTTTATT
16842073 TTTTTGATTTTTTTGATTTTTTTGATT
1 TTTTTGATTTTTTT--TTTTTTT-ATT
*
16842100 TTTTTG-TTTTTGTTTTTTTGTTTTT
1 TTTTTGATTTTT-TTTTTTT-TTATT
16842125 TTTTTG-TTTTTTTTTT
1 TTTTTGATTTTTTTTTT
16842141 GGCCGAAGCT
Statistics
Matches: 62, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
24 5 0.08
25 32 0.52
26 12 0.19
27 13 0.21
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (24 bp):
TTTTTGATTTTTTTTTTTTTTATT
Found at i:16842136 original size:41 final size:42
Alignment explanation
Indices: 16842048--16842127 Score: 126
Period size: 41 Copynumber: 1.9 Consensus size: 42
16842038 AACATTTTTA
16842048 TTTTTGATTTTTTTTTGTTTTTATTTTTTTGATTTTTTTGATT
1 TTTTTGA-TTTTTTTTGTTTTTATTTTTTTGATTTTTTTGATT
* *
16842091 TTTTTGA-TTTTTTTGTTTTTGTTTTTTTGTTTTTTTT
1 TTTTTGATTTTTTTTGTTTTTATTTTTTTGATTTTTTT
16842128 TTGTTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 28 0.80
43 7 0.20
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.84
Consensus pattern (42 bp):
TTTTTGATTTTTTTTGTTTTTATTTTTTTGATTTTTTTGATT
Found at i:16842138 original size:9 final size:9
Alignment explanation
Indices: 16842048--16842126 Score: 93
Period size: 9 Copynumber: 9.6 Consensus size: 9
16842038 AACATTTTTA
16842048 TTTTTGATT
1 TTTTTGATT
16842057 TTTTT--TT
1 TTTTTGATT
16842064 GTTTTT-ATT
1 -TTTTTGATT
16842073 TTTTTGATT
1 TTTTTGATT
16842082 TTTTTGATT
1 TTTTTGATT
16842091 TTTTTGATT
1 TTTTTGATT
16842100 TTTTTG---
1 TTTTTGATT
16842106 TTTTTG-TT
1 TTTTTGATT
16842114 TTTTTG-TT
1 TTTTTGATT
16842122 TTTTT
1 TTTTT
16842127 TTTGTTTTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 11
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.09
7 2 0.03
8 23 0.35
9 34 0.52
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.84
Consensus pattern (9 bp):
TTTTTGATT
Found at i:16842193 original size:41 final size:40
Alignment explanation
Indices: 16842148--16843006 Score: 1004
Period size: 41 Copynumber: 21.0 Consensus size: 40
16842138 TTTGGCCGAA
*
16842148 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAG-CGCAACGAC-TTTGAAAAGTAAATT
*
16842189 GCTCCTCTAAACAGAG-GCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAAC-GACTTTGAAAAGTAAATT
* *
16842229 GCTCCTCTCAACAGAG-GCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTT-GAAAAGTAAATT
*
16842271 GCTCCTCTCAACAGAG-GCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTTGAAAAGTAAATT
*
16842312 GCTCCTCTAAACAGAG-GCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTT-GAAAAGTAAATT
*
16842354 GCTCCTCTCAACAGAG-GCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTTGAAAAGTAAATT
16842395 GCTCCTCTAAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
* *
16842435 GCTCCTCTAAGCAGAG-GTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTTGAAAAGTAAATT
16842476 GCTCCTCTAAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
*
16842516 GCTCCTCTAAACAGAG-GTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTTGAAAAGTAAATT
16842557 GCTCCTCTAAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
*
16842597 GCTCCTCTAAACAGAG-GTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTT-GAAAAGTAAATT
16842639 GCTCCTCTAAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
* *
16842679 GCTCCTCTCAACAGAG-GCAACGAACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTG-AAAAGTAAATT
*
16842720 GCTCCTCTAAACAGAG-GTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTTGAAAAGTAAATT
* * *
16842761 GCTCCTCTCAACAGAG-GTACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTT-GAAAAGTAAATT
*
16842803 GCTCCTCTAAACAGAG-GTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCG--CAACGACTTTGAAAAGTAAATT
*
16842844 GCTCCTCTCAACAGAG-GCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCAACG-ACTTTGAAAAGTAAATT
*
16842884 GCTCCTCTAAACAGAG-GCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGACTTT-GAAAAGTAAATT
16842926 GCTCCTCTAAACAGAG-GCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGCGCA--ACGAC-TTTGAAAAGTAAATT
* *
16842968 GCTCCTCTAAACAGAG-GCAACAAACTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGCGCAAC-GACTTTGAAAAGTAAAT
16843007 ACTCCTAGAC
Statistics
Matches: 757, Mismatches: 34, Indels: 55
0.89 0.04 0.07
Matches are distributed among these distances:
39 23 0.03
40 226 0.30
41 265 0.35
42 236 0.31
43 7 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGCGCAACGACTTTGAAAAGTAAATT
Found at i:16842477 original size:81 final size:80
Alignment explanation
Indices: 16842148--16843006 Score: 1203
Period size: 81 Copynumber: 10.5 Consensus size: 80
16842138 TTTGGCCGAA
* * *
16842148 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
1 GCTCCTCTAAACAGAG--GCAACGAC-TTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
*
16842210 GGACTTTGGAAAGTAAATT
63 -GACTTTGAAAAGTAAATT
* * *
16842229 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
16842294 GACTTTGAAAAGTAAATT
63 GACTTTGAAAAGTAAATT
* *
16842312 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
16842377 GACTTTGAAAAGTAAATT
63 GACTTTGAAAAGTAAATT
16842395 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCT-AAGCAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTCAA-CAGAGGTACCACG
16842459 ACTTTGAAAAGTAAATT
64 ACTTTGAAAAGTAAATT
*
16842476 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGA
16842541 CTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATT
*
16842557 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGA
16842622 CTTTGGAAAAGTAAATT
65 CTTT-GAAAAGTAAATT
*
16842639 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGG--CAACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACG-
*
16842702 ACTTTGAAAAAATAAATT
64 ACTTTG-AAAAGTAAATT
*
16842720 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACG
*
16842785 ACTTTGGAAAAATAAATT
64 ACTTT-GAAAAGTAAATT
* *
16842803 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGG--CAACG
1 GCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACG
16842866 AACTTTGAAAAGTAAATT
64 -ACTTTGAAAAGTAAATT
* * *
16842884 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
16842949 GACTTTTGAAAAGTAAATT
63 GAC-TTTGAAAAGTAAATT
* *
16842968 GCTCCTCTAAACAGAGGCAACAAACTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAAC-GACTTTGAAAAGTAAAT
16843007 ACTCCTAGAC
Statistics
Matches: 730, Mismatches: 23, Indels: 49
0.91 0.03 0.06
Matches are distributed among these distances:
79 3 0.00
80 10 0.01
81 291 0.40
82 178 0.24
83 202 0.28
84 46 0.06
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGAC
TTTGAAAAGTAAATT
Found at i:16843012 original size:123 final size:123
Alignment explanation
Indices: 16842148--16843006 Score: 1246
Period size: 123 Copynumber: 7.0 Consensus size: 123
16842138 TTTGGCCGAA
* * *
16842148 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
16842210 GGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
65 -GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
16842271 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
16842336 ACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
66 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
16842395 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTCCTCTAAGCAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
16842458 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
65 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
16842516 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
16842579 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
66 -ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
16842639 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCA--AC
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
16842700 GAACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
65 G-ACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * * *
16842761 GCTCCTCTCAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
16842826 GACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
65 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
16842884 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
16842949 GACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACA-AACTTGGAAAAGTAAAT
65 GAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
16843007 ACTCCTAGAC
Statistics
Matches: 680, Mismatches: 33, Indels: 45
0.90 0.04 0.06
Matches are distributed among these distances:
120 6 0.01
121 73 0.11
122 152 0.22
123 257 0.38
124 141 0.21
125 47 0.07
126 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:16844196 original size:9 final size:8
Alignment explanation
Indices: 16844176--16844200 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16844166 TTCGGATCTC
16844176 TTTTTTCA
1 TTTTTTCA
16844184 TTTTTTCA
1 TTTTTTCA
16844192 TTTTTTCA
1 TTTTTTCA
16844200 T
1 T
16844201 CATCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:16844611 original size:1 final size:1
Alignment explanation
Indices: 16844605--16844633 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
16844595 CCTTTTGTGG
16844605 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16844634 CAAAAATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16848152 original size:156 final size:156
Alignment explanation
Indices: 16847886--16848484 Score: 1126
Period size: 156 Copynumber: 3.8 Consensus size: 156
16847876 GTTAGTTGTT
* *
16847886 GAAAATTATTCTCCATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
16847951 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
16848016 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
16848042 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
16848107 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
16848172 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
16848198 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
16848263 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGATGCTCCGTCGTCGGATTAATTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
16848328 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
16848354 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCCAGAAAATTGAGAAAATTCCCTCACCTCAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAG-CAGAAAATTGAGAAAATTCCCTCACCTCAG
* *
16848419 GAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAA
65 GAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAA
16848484 A
129 A
16848485 AGAAAAAAAA
Statistics
Matches: 434, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
156 342 0.79
157 52 0.12
158 40 0.09
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (156 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
CAAGATCAACCAATTAATTAATTATC
Found at i:16849555 original size:3 final size:3
Alignment explanation
Indices: 16849547--16849585 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
16849537 AAAGATATAC
16849547 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16849586 GAATACATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16849595 original size:12 final size:10
Alignment explanation
Indices: 16849516--16849595 Score: 60
Period size: 9 Copynumber: 7.8 Consensus size: 10
16849506 ATCTAATCTG
*
16849516 AATAAAAATA
1 AATAATAATA
16849526 AATAAATAAATA
1 AAT-AAT-AATA
*
16849538 AAGATATACAT-
1 AATA-ATA-ATA
16849549 AATAATAAT-
1 AATAATAATA
16849558 AATAATAAT-
1 AATAATAATA
16849567 AATAATAAT-
1 AATAATAATA
16849576 AATAATAATA
1 AATAATAATA
16849586 GAATACATAA
1 -AATA-ATAA
16849596 AATACAAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
9 29 0.48
10 6 0.10
11 11 0.18
12 14 0.23
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (10 bp):
AATAATAATA
Found at i:16849887 original size:4 final size:4
Alignment explanation
Indices: 16849878--16849909 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
16849868 TGTCTTTATA
16849878 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
16849910 ATTTACCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:16851032 original size:23 final size:22
Alignment explanation
Indices: 16850984--16851041 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
16850974 TTAGTAATTG
*
16850984 AACATATATTTACAAAATTATAAT
1 AACAT-TATATAC-AAATTATAAT
*
16851008 AATATTCATATACAAATTA-ATAT
1 AACATT-ATATACAAATTATA-AT
16851031 AACATTATATA
1 AACATTATATA
16851042 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 6 0.21
23 14 0.48
24 9 0.31
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (22 bp):
AACATTATATACAAATTATAAT
Found at i:16852438 original size:11 final size:12
Alignment explanation
Indices: 16852390--16852435 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
16852380 CACAACGCCC
16852390 ATCC-AAAATTA
1 ATCCTAAAATTA
16852401 ATCCTAAAATT-
1 ATCCTAAAATTA
* *
16852412 ACCCCAAAATTA
1 ATCCTAAAATTA
16852424 ATCCTAAAATTA
1 ATCCTAAAATTA
16852436 TCCAAGTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 13 0.45
12 16 0.55
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (12 bp):
ATCCTAAAATTA
Found at i:16852447 original size:23 final size:23
Alignment explanation
Indices: 16852392--16852435 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
16852382 CAACGCCCAT
16852392 CCAAAATTAATCCTAAAATTACC
1 CCAAAATTAATCCTAAAATTACC
16852415 CCAAAATTAATCCTAAAATTA
1 CCAAAATTAATCCTAAAATTA
16852436 TCCAAGTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (23 bp):
CCAAAATTAATCCTAAAATTACC
Found at i:16853048 original size:22 final size:24
Alignment explanation
Indices: 16853000--16853061 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 24
16852990 TAAAATATTT
*
16853000 AATAAATAATAAATTACTCAGTAAA
1 AATAAATAATAAA-AACTCAGTAAA
*
16853025 AATAAATAATAAAAAC-CAG-CAA
1 AATAAATAATAAAAACTCAGTAAA
*
16853047 AATAAAAAATAAAAA
1 AATAAATAATAAAAA
16853062 AACTTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.47
23 3 0.09
24 2 0.06
25 13 0.38
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (24 bp):
AATAAATAATAAAAACTCAGTAAA
Found at i:16855127 original size:16 final size:16
Alignment explanation
Indices: 16855108--16855233 Score: 72
Period size: 16 Copynumber: 7.9 Consensus size: 16
16855098 TCTTTTGTAT
16855108 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
16855124 TTTATTATTATTATTA
1 TTTATTATTATTATTA
* *
16855140 TGTATTAATA-TATATA
1 TTTATTATTATTAT-TA
16855156 TTTATT-TT-TGT-TTA
1 TTTATTATTAT-TATTA
* *
16855170 -TTATTA-GATTA-GA
1 TTTATTATTATTATTA
16855183 TTTA-TATGTATATAGTTA
1 TTTATTAT-TAT-TA-TTA
*
16855201 TATATTTATTATTATTA
1 TTTA-TTATTATTATTA
16855218 TATTATTATTATTATT
1 T-TTATTATTATTATT
16855234 TTTTGTTTTG
Statistics
Matches: 84, Mismatches: 10, Indels: 31
0.67 0.08 0.25
Matches are distributed among these distances:
13 9 0.11
14 6 0.07
15 11 0.13
16 29 0.35
17 15 0.18
18 8 0.10
19 3 0.04
20 3 0.04
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.63
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:16855131 original size:3 final size:3
Alignment explanation
Indices: 16855105--16855233 Score: 56
Period size: 3 Copynumber: 41.3 Consensus size: 3
16855095 ATTTCTTTTG
*
16855105 TAT T-T TAT GTAT T-T TAT TATT TAT TAT TAT TAT TAT GTAT TAA TA-
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT
* * * *
16855150 TAT ATATT TAT TTT TGTT TAT TAT TA- GAT TA- GAT T-T ATAT GTAT
1 TAT -TA-T TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT
16855194 ATAGT TAT ATATT TAT TAT TAT TA- TAT TAT TAT TAT TAT T
1 -TA-T TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
16855234 TTTTGTTTTG
Statistics
Matches: 100, Mismatches: 9, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
2 11 0.11
3 58 0.58
4 28 0.28
5 3 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:16855195 original size:39 final size:39
Alignment explanation
Indices: 16855103--16855218 Score: 116
Period size: 39 Copynumber: 2.9 Consensus size: 39
16855093 CTATTTCTTT
16855103 TGTATTT-TATGTAT-TTTATTATTTATTATTATTATTA
1 TGTATTTATATGTATATTTATTATTTATTATTATTATTA
* * *
16855140 TGTATTAATATATATATTTATT-TTTGTTTATTATTAGATTA
1 TGTATTTATATGTATATTTATTATTT-ATTATTATT--ATTA
16855181 -G-ATTTATATGTATATAGTTATATATTTATTATTATTAT
1 TGTATTTATATGTATAT--TTAT-TATTTATTATTATTAT
16855219 ATTATTATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
37 6 0.09
38 9 0.14
39 26 0.41
40 3 0.05
41 8 0.12
42 9 0.14
43 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (39 bp):
TGTATTTATATGTATATTTATTATTTATTATTATTATTA
Found at i:16855215 original size:14 final size:13
Alignment explanation
Indices: 16855198--16855234 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
16855188 ATGTATATAG
16855198 TTATATATTTATTA
1 TTAT-TATTTATTA
16855212 TTATTATATTATTA
1 TTATTAT-TTATTA
16855226 TTATTATTT
1 TTATTATTT
16855235 TTTGTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:16856208 original size:12 final size:12
Alignment explanation
Indices: 16856176--16856223 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
16856166 CTCCAGTTTT
16856176 TTTTTTTCATTTA
1 TTTTTTT-ATTTA
* *
16856189 TTTGTTTATTTG
1 TTTTTTTATTTA
16856201 TTTTTTTATTTTA
1 TTTTTTTA-TTTA
*
16856214 TTTATTTATT
1 TTTTTTTATT
16856224 AGATTAGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:16856213 original size:25 final size:25
Alignment explanation
Indices: 16856176--16856223 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
16856166 CTCCAGTTTT
*
16856176 TTTTTTTCATTTATTTGTTTATTTG
1 TTTTTTTCATTTATTTATTTATTTG
16856201 TTTTTTT-ATTTTATTTATTTATT
1 TTTTTTTCA-TTTATTTATTTATT
16856224 AGATTAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (25 bp):
TTTTTTTCATTTATTTATTTATTTG
Found at i:16856268 original size:29 final size:29
Alignment explanation
Indices: 16856236--16856295 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
16856226 ATTAGGTTTA
16856236 TTTAATAT-TCTTTTTATCTTTATTTTATT
1 TTTAATATGTCTTTTTATCTTTA-TTTATT
* * * *
16856265 TTTATTTTGTTTTTTTATTTTTATTTATT
1 TTTAATATGTCTTTTTATCTTTATTTATT
16856294 TT
1 TT
16856296 CACTTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (29 bp):
TTTAATATGTCTTTTTATCTTTATTTATT
Found at i:16856277 original size:11 final size:11
Alignment explanation
Indices: 16856247--16856328 Score: 55
Period size: 10 Copynumber: 7.4 Consensus size: 11
16856237 TTAATATTCT
*
16856247 TTTTATCTTTA
1 TTTTATTTTTA
16856258 TTTTATTTTTA
1 TTTTATTTTTA
*
16856269 -TTT-TGTTT-
1 TTTTATTTTTA
16856277 TTTTATTTTTA
1 TTTTATTTTTA
*
16856288 -TTTATTTTCA
1 TTTTATTTTTA
*
16856298 CTTTCATTTTTTTA
1 -TTT--TATTTTTA
16856312 TTTTATTATTCTA
1 TTTTATT-TT-TA
16856325 TTTT
1 TTTT
16856329 CTTTAAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
9 7 0.13
10 16 0.29
11 13 0.24
12 4 0.07
13 9 0.16
14 6 0.11
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:16856280 original size:30 final size:30
Alignment explanation
Indices: 16856246--16856318 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
16856236 TTTAATATTC
* **
16856246 TTTTTATCTTTATTTTATTTTTA-TTTTGTT
1 TTTTTAT-TTTATTTTATTTTCACTTTCATT
16856276 TTTTTATTTT-TATTTATTTTCACTTTCATT
1 TTTTTATTTTAT-TTTATTTTCACTTTCATT
16856306 TTTTTATTTTATT
1 TTTTTATTTTATT
16856319 ATTCTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 1 0.03
29 12 0.32
30 23 0.62
31 1 0.03
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (30 bp):
TTTTTATTTTATTTTATTTTCACTTTCATT
Found at i:16856315 original size:6 final size:6
Alignment explanation
Indices: 16856246--16856290 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
16856236 TTTAATATTC
* *
16856246 TTTTTA TCTTTA -TTTTA TTTTTA TTTTGTT TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTT
16856291 ATTTTCACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 4 0.12
6 24 0.73
7 5 0.15
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:16856500 original size:59 final size:58
Alignment explanation
Indices: 16856430--16856639 Score: 262
Period size: 59 Copynumber: 3.6 Consensus size: 58
16856420 AAAAAAAGGG
* *
16856430 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCGAAAAATA
1 TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCCAAAAAATA
** * *
16856489 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAAAAAAAAATA
1 TTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC--CAAAAAATA
* *
16856550 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTTCAAAAAATA
1 TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCCAAAAAATA
* *
16856607 TTTTCGGGGAAAAGTTGAAAGTATTAATTTTCC
1 TTTT-TGGGAAAAGTTGAAAGTATCAATTTTCC
16856640 CTACGCAAGA
Statistics
Matches: 133, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
57 36 0.27
58 1 0.01
59 51 0.38
60 2 0.02
61 43 0.32
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (58 bp):
TTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCCAAAAAATA
Found at i:16856638 original size:118 final size:120
Alignment explanation
Indices: 16856336--16856639 Score: 378
Period size: 120 Copynumber: 2.5 Consensus size: 120
16856326 TTTCTTTAAA
16856336 TAAAAATCAAAATTTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 TAAAAAT-AAAATTTCC---AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--
* * *
16856401 AAAAAAAAAAAAAATTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
60 --AAAAAAAAAAAATTTCAAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
* * **
16856464 TGAAAATCAAAATTTCCGAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GGAA
1 TAAAAAT-AAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
** * *
16856528 ATCAAAGTTTCAAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
65 AAAAAAATTTCAAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
* ** *
16856584 TAAAAAT-AAATTTTCAAAAAATATTTTCGGGGAAAAGTTGAAAGTATTAATTTTCC
1 TAAAAATAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
16856640 CTACGCAAGA
Statistics
Matches: 159, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
118 44 0.28
120 57 0.36
125 42 0.26
128 16 0.10
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.32
Consensus pattern (120 bp):
TAAAAATAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAA
AAAAAATTTCAAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
Found at i:16860825 original size:16 final size:16
Alignment explanation
Indices: 16860774--16860819 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
16860764 TGTTTATGAT
*
16860774 TAATTAATTAATGTTTA
1 TAATTAATT-ATTTTTA
*
16860791 CAA-T-ATTATTTTTA
1 TAATTAATTATTTTTA
16860805 TAATTAATTATTTTT
1 TAATTAATTATTTTT
16860820 TAAATTGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.33
15 4 0.17
16 10 0.42
17 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TAATTAATTATTTTTA
Found at i:16863281 original size:24 final size:23
Alignment explanation
Indices: 16863253--16863308 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
16863243 AGATTTTAGA
*
16863253 TTTTTATTTTATTTTTTTGTATTC
1 TTTTTATTTTATTTATTT-TATTC
*
16863277 TTTTTATCCTTATTTATTTTATTC
1 TTTTTAT-TTTATTTATTTTATTC
*
16863301 TTATTATT
1 TTTTTATT
16863309 ATACTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTATTTTATTTATTTTATTC
Found at i:16865114 original size:15 final size:14
Alignment explanation
Indices: 16865094--16865128 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
16865084 TAAAACCATA
16865094 AAAATTTAAAAATAT
1 AAAATTTAAAAA-AT
16865109 AAAA-TTAAAAAAT
1 AAAATTTAAAAAAT
16865122 AAAATTT
1 AAAATTT
16865129 TAGAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.32
14 9 0.47
15 4 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTTAAAAAAT
Found at i:16868172 original size:5 final size:5
Alignment explanation
Indices: 16868162--16868187 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16868152 ATTTTTTTTC
16868162 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
16868188 GTATTTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:16868211 original size:4 final size:4
Alignment explanation
Indices: 16868192--16868256 Score: 57
Period size: 4 Copynumber: 16.8 Consensus size: 4
16868182 TCTTTTGTAT
* * *
16868192 TTTA TGTA TTTA -TTA TTTA -TTA -TTA TTATA TGTA TATT- TTTA CTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA T-TTA TTTA TTTA
16868238 TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
16868257 TCTATTAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
3 11 0.22
4 35 0.70
5 4 0.08
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:16868279 original size:39 final size:38
Alignment explanation
Indices: 16868189--16868286 Score: 94
Period size: 39 Copynumber: 2.5 Consensus size: 38
16868179 TTTTCTTTTG
*
16868189 TATTTTATGTATTTA-TTATTTATTATTATTATATGTA
1 TATTTTACGTATTTATTTATTTATTATTATTATATGTA
* *
16868226 TATTTTTACTTATTTATTTATTTATTTATT-TTCTAT-TAA
1 TA-TTTTACGTATTTATTTATTTA-TTATTATTATATGT-A
*
16868265 TATTTATAGGTATTTTATTTAT
1 TATTT-TACGTA-TTTATTTAT
16868287 ATAGTTCTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
37 2 0.04
38 15 0.30
39 19 0.38
40 14 0.28
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (38 bp):
TATTTTACGTATTTATTTATTTATTATTATTATATGTA
Found at i:16868317 original size:17 final size:18
Alignment explanation
Indices: 16868278--16868326 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
16868268 TTATAGGTAT
16868278 TTTATTTATATAGTTCTATA
1 TTTA-TTATATA-TTCTATA
*
16868298 TTTATTATATATTGTA-A
1 TTTATTATATATTCTATA
16868315 TTTATTAT-TATT
1 TTTATTATATATT
16868327 TTTTTCTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 4 0.14
19 7 0.25
20 4 0.14
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTATTATATATTCTATA
Found at i:16869401 original size:17 final size:17
Alignment explanation
Indices: 16869381--16869428 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
16869371 ATTTAATATT
16869381 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
16869398 TTTTTACCTTTGTTTTA
1 TTTTTATCTTTATTTTA
*
16869415 -CTTT-TCTTTATTTT
1 TTTTTATCTTTATTTT
16869429 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 8 0.31
16 3 0.12
17 15 0.58
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:16869430 original size:17 final size:17
Alignment explanation
Indices: 16869410--16869452 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
16869400 TTTACCTTTG
*
16869410 TTTTACTTTTCTTTATTT
1 TTTTA-TTTTCTTTACTT
*
16869428 TTTTATTTTTTTTACTT
1 TTTTATTTTCTTTACTT
16869445 TTTT-TTTT
1 TTTTATTTT
16869453 ATTATTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 14 0.61
18 5 0.22
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTATTTTCTTTACTT
Found at i:16869431 original size:18 final size:18
Alignment explanation
Indices: 16869400--16869449 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
16869390 TTATTTTATT
16869400 TTTACCTTTGTTTTACTTTTC
1 TTTA-CTTT-TTTTA-TTTTC
*
16869421 TTTA-TTTTTTTATTTTT
1 TTTACTTTTTTTATTTTC
16869438 TTTACTTTTTTT
1 TTTACTTTTTTT
16869450 TTTATTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 8 0.30
18 12 0.44
19 3 0.11
21 4 0.15
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTACTTTTTTTATTTTC
Found at i:16869440 original size:21 final size:21
Alignment explanation
Indices: 16869416--16869455 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
16869406 TTTGTTTTAC
16869416 TTTT-CTTTATTTTTTTATTTT
1 TTTTACTTT-TTTTTTTATTTT
16869437 TTTTACTTTTTTTTTTATT
1 TTTTACTTTTTTTTTTATT
16869456 ATTCTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTACTTTTTTTTTTATTTT
Found at i:16869440 original size:27 final size:26
Alignment explanation
Indices: 16869379--16869449 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
16869369 TTATTTAATA
*
16869379 TTTTTTTATCTTTATTTTATTTTTACCT
1 TTTTTTTA-CTTT-TTTTATTTTTACAT
* **
16869407 TTGTTTTACTTTTCTTTATTTTTTTAT
1 TTTTTTTACTTTT-TTTATTTTTACAT
16869434 TTTTTTTACTTTTTTT
1 TTTTTTTACTTTTTTT
16869450 TTTATTATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.11
27 26 0.70
28 7 0.19
ACGTcount: A:0.11, C:0.08, G:0.01, T:0.79
Consensus pattern (26 bp):
TTTTTTTACTTTTTTTATTTTTACAT
Found at i:16869447 original size:10 final size:10
Alignment explanation
Indices: 16869398--16869450 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
16869388 CTTTATTTTA
16869398 TTTTTACCTTT
1 TTTTTA-CTTT
*
16869409 GTTTTACTTT
1 TTTTTACTTT
*
16869419 TCTTTA--TT
1 TTTTTACTTT
16869427 TTTTTA-TTT
1 TTTTTACTTT
16869436 TTTTTACTTT
1 TTTTTACTTT
16869446 TTTTT
1 TTTTT
16869451 TTATTATTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.19
9 8 0.22
10 16 0.44
11 5 0.14
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTTACTTT
Found at i:16869575 original size:59 final size:57
Alignment explanation
Indices: 16869486--16869703 Score: 309
Period size: 59 Copynumber: 3.8 Consensus size: 57
16869476 AAATCAAAAG
* *
16869486 TTTC-AAAAAATGTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 TTTCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
16869541 TTTCAAGAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 TTTC-A-AAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
*
16869600 TTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
1 TTTCAAAAAAAGG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAA
*
16869660 TTTTC-AAAAAAGATTTTT-AGGGAAAAGTTGAAAGTATCAATTTT
1 -TTTCAAAAAAAGGTTTTTGA-GGAAAAGTTGAAAGTATCAATTTT
16869704 TCCCTACACA
Statistics
Matches: 150, Mismatches: 4, Indels: 14
0.89 0.02 0.08
Matches are distributed among these distances:
55 4 0.03
57 8 0.05
58 54 0.36
59 70 0.47
60 10 0.07
61 4 0.03
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (57 bp):
TTTCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
Found at i:16871678 original size:21 final size:22
Alignment explanation
Indices: 16871648--16871699 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
16871638 GATATTTTTA
*
16871648 AATA-TTTATA-TTTAAAAAGT
1 AATATTTTATATTTTAAAAAAT
16871668 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
16871690 AATATTTTAT
1 AATATTTTAT
16871700 TAATTTTGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 19 0.66
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:16873665 original size:6 final size:5
Alignment explanation
Indices: 16873635--16873664 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
16873625 AAAAGTCTCA
16873635 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
16873665 AAATGCCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:16874018 original size:20 final size:20
Alignment explanation
Indices: 16873976--16874039 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 20
16873966 TTGATGTATG
16873976 AAAGATGGATGAAAAATGAAAAAA
1 AAAGAT-GA-GAAAAA-G-AAAAA
16874000 AAAGATGAGAAAAAG-AAAA
1 AAAGATGAGAAAAAGAAAAA
*
16874019 AAA-ATGAGAAAATGAAAAA
1 AAAGATGAGAAAAAGAAAAA
16874038 AA
1 AA
16874040 GATATTCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 10 0.26
19 13 0.34
21 1 0.03
22 6 0.16
23 2 0.05
24 6 0.16
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (20 bp):
AAAGATGAGAAAAAGAAAAA
Found at i:16874019 original size:22 final size:24
Alignment explanation
Indices: 16873976--16874022 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 24
16873966 TTGATGTATG
16873976 AAAGATGGATGAAAAATGAAAAAA
1 AAAGATGGATGAAAAATGAAAAAA
16874000 AAAGAT-GA-GAAAAA-GAAAAAA
1 AAAGATGGATGAAAAATGAAAAAA
16874021 AA
1 AA
16874023 TGAGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.39
22 6 0.26
23 2 0.09
24 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (24 bp):
AAAGATGGATGAAAAATGAAAAAA
Found at i:16874020 original size:18 final size:18
Alignment explanation
Indices: 16873996--16874039 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
16873986 GAAAAATGAA
16873996 AAAAAAAGATGAGAAAAAG
1 AAAAAAA-ATGAGAAAAAG
*
16874015 AAAAAAAATGAGAAAATG
1 AAAAAAAATGAGAAAAAG
16874033 AAAAAAA
1 AAAAAAA
16874040 GATATTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (18 bp):
AAAAAAAATGAGAAAAAG
Found at i:16875325 original size:41 final size:41
Alignment explanation
Indices: 16875250--16875542 Score: 487
Period size: 41 Copynumber: 7.1 Consensus size: 41
16875240 ATGATTGTCA
*
16875250 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
16875292 AGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
16875333 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
16875374 AGGAGCAATTTACTTTTCAAAGTCGTGGTGTCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
16875415 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
16875457 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
16875498 GGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
16875539 AGGA
1 AGGA
16875543 CTCTGTTTAG
Statistics
Matches: 234, Mismatches: 16, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
41 183 0.78
42 51 0.22
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:16875478 original size:124 final size:123
Alignment explanation
Indices: 16875250--16875641 Score: 513
Period size: 124 Copynumber: 3.0 Consensus size: 123
16875240 ATGATTGTCA
* *
16875250 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG
*
16875314 TCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
65 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTT-CAAAGTCGTGGTGCCTCTGTTTAG
16875374 AGGAGCAATTTACTTTTCAAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGT
16875439 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
66 CGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
16875498 GGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGACTCTGTTTAGAGGAGCAAT
1 AGGAGCAATTTACTTTT-CAAAGTCGT-G-G----TG--T------CTCTGTTTAGAGGAGCAAT
* *
16875562 TTATTTTT-CAAAGTCGTGGTG-CTCTGTTTAGAGGAGCAATTTATGTTTCTAAAAGTCGTTGAG
51 TTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAT-TTTC--AAAGTCGTGGTG
16875625 CCTCTGTTTAG
113 CCTCTGTTTAG
16875636 AGGAGC
1 AGGAGC
16875642 TTTGGTAAAA
Statistics
Matches: 241, Mismatches: 7, Indels: 26
0.88 0.03 0.09
Matches are distributed among these distances:
123 43 0.18
124 96 0.40
125 5 0.02
126 1 0.00
130 2 0.01
132 1 0.00
135 1 0.00
136 26 0.11
137 13 0.05
138 53 0.22
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (123 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGT
CGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:16875522 original size:165 final size:166
Alignment explanation
Indices: 16875250--16875641 Score: 556
Period size: 165 Copynumber: 2.3 Consensus size: 166
16875240 ATGATTGTCA
16875250 AGGAGCAATTTACTTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG
1 AGGAGCAATTTA-TTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG
16875314 TCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTG-C-CTCTGTTTAGAGG
65 TCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCGCTCTGTTTAGAGG
16875377 AGCAATTTACTTTTCAAAGTCGTGGTGTCTCTGTTTAG
130 AGCAATTTACTTTTCAAAGTCGTGGTG-CTCTGTTTAG
*
16875415 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
* *
16875480 CGTGGTGCCTCTGTTTAGGGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGACT
66 CATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTG-C-C---------G-CT
*
16875545 CTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCTCTGTTTAG
119 CTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCTCTGTTTAG
* * * *
16875593 AGGAGCAATTTATGTTTCTAAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTATTTTTC-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
16875642 TTTGGTAAAA
Statistics
Matches: 203, Mismatches: 8, Indels: 18
0.89 0.03 0.08
Matches are distributed among these distances:
164 5 0.02
165 104 0.51
168 1 0.00
178 27 0.13
179 66 0.33
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (166 bp):
AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
CATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCGCTCTGTTTAGAGGA
GCAATTTACTTTTCAAAGTCGTGGTGCTCTGTTTAG
Found at i:16875548 original size:14 final size:14
Alignment explanation
Indices: 16875529--16875556 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16875519 GTCGTGGTGC
16875529 CTCTGTTTAGAGGA
1 CTCTGTTTAGAGGA
16875543 CTCTGTTTAGAGGA
1 CTCTGTTTAGAGGA
16875557 GCAATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (14 bp):
CTCTGTTTAGAGGA
Found at i:16875574 original size:55 final size:54
Alignment explanation
Indices: 16875488--16875596 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 54
16875478 GTCGTGGTGC
*
16875488 CTCTGTTTAGGGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 CTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTG-CTCTGTTTAGAGGA
*
16875543 CTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCTCTGTTTAGAGGA
1 CTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTGCTCTGTTTAGAGGA
16875597 GCAATTTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 14 0.27
55 38 0.73
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.38
Consensus pattern (54 bp):
CTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTGCTCTGTTTAGAGGA
Found at i:16875598 original size:40 final size:43
Alignment explanation
Indices: 16875543--16875641 Score: 150
Period size: 40 Copynumber: 2.4 Consensus size: 43
16875533 GTTTAGAGGA
* *
16875543 CTCTGTTTAGAGGAGCAATTTAT-TTT-TCAAAGTCGTGGTG-
1 CTCTGTTTAGAGGAGCAATTTATGTTTCTAAAAGTCGTGGAGC
*
16875583 CTCTGTTTAGAGGAGCAATTTATGTTTCTAAAAGTCGTTGAGC
1 CTCTGTTTAGAGGAGCAATTTATGTTTCTAAAAGTCGTGGAGC
16875626 CTCTGTTTAGAGGAGC
1 CTCTGTTTAGAGGAGC
16875642 TTTGGTAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 23 0.43
41 3 0.06
42 11 0.21
43 16 0.30
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.37
Consensus pattern (43 bp):
CTCTGTTTAGAGGAGCAATTTATGTTTCTAAAAGTCGTGGAGC
Found at i:16875659 original size:1 final size:1
Alignment explanation
Indices: 16875648--16875728 Score: 72
Period size: 1 Copynumber: 81.0 Consensus size: 1
16875638 GAGCTTTGGT
* * * * * * * * *
16875648 AAAAAACAAAAAACAAAAAAAAAAAAAAAAAAAAACAAAAAACACAAAAAAAAACACAAGAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
16875713 AAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAA
16875729 TGACAATGTT
Statistics
Matches: 60, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:16875687 original size:29 final size:31
Alignment explanation
Indices: 16875648--16875728 Score: 114
Period size: 29 Copynumber: 2.7 Consensus size: 31
16875638 GAGCTTTGGT
16875648 AAAAAACAAAAAACAAAAAAAAAA-A-AAAA
1 AAAAAACAAAAAACAAAAAAAAAACACAAAA
*
16875677 AAAAAACAAAAAACACAAAAAAAAACACAAGA
1 AAAAAACAAAAAACA-AAAAAAAAACACAAAA
*
16875709 AACAAA-AAAAAACAAAAAAA
1 AAAAAACAAAAAACAAAAAAA
16875729 TGACAATGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
29 15 0.32
30 15 0.32
31 9 0.19
32 8 0.17
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (31 bp):
AAAAAACAAAAAACAAAAAAAAAACACAAAA
Found at i:16875721 original size:19 final size:18
Alignment explanation
Indices: 16875648--16875728 Score: 108
Period size: 19 Copynumber: 4.3 Consensus size: 18
16875638 GAGCTTTGGT
*
16875648 AAAAAACAAAAAACAAAAA
1 AAAAAACAAAAAA-AAACA
*
16875667 AAAAAAAAAAAAAAAACA
1 AAAAAACAAAAAAAAACA
16875685 AAAAACACAAAAAAAAACA
1 AAAAA-ACAAAAAAAAACA
*
16875704 CAAGAAACAAAAAAAAACA
1 -AAAAAACAAAAAAAAACA
16875723 AAAAAA
1 AAAAAA
16875729 TGACAATGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.25
19 37 0.67
20 4 0.07
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAAAAAACA
Found at i:16875734 original size:11 final size:10
Alignment explanation
Indices: 16875648--16875728 Score: 98
Period size: 10 Copynumber: 8.4 Consensus size: 10
16875638 GAGCTTTGGT
16875648 AAAAAACAAA
1 AAAAAACAAA
16875658 AAACAAA-AAA
1 AAA-AAACAAA
16875668 AAAAAA-AAA
1 AAAAAACAAA
16875677 AAAAAAC-AA
1 AAAAAACAAA
*
16875686 AAAACACAAA
1 AAAAAACAAA
*
16875696 AAAAAAC-AC
1 AAAAAACAAA
*
16875705 AAGAAACAAA
1 AAAAAACAAA
16875715 AAAAAACAAA
1 AAAAAACAAA
16875725 AAAA
1 AAAA
16875729 TGACAATGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
9 27 0.44
10 31 0.51
11 3 0.05
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:16875984 original size:4 final size:4
Alignment explanation
Indices: 16875931--16876000 Score: 58
Period size: 4 Copynumber: 17.8 Consensus size: 4
16875921 TCTTTTGTAT
* * *
16875931 TTTA TGTA TTT- TATTA TTTA -TTA -TTA TTATA TGTA TATT- TTTA CTTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TT-TA TTTA T-TTA TTTA TTTA
16875978 TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
16876001 TCTATTAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
3 9 0.17
4 40 0.74
5 5 0.09
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:16876043 original size:21 final size:19
Alignment explanation
Indices: 16876022--16876067 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
16876012 TTATAGGTAT
16876022 TTTATTTATATAGTTCTATA
1 TTTATTTATATA-TTCTATA
*
16876042 TTTA-TTATATATTGTA-A
1 TTTATTTATATATTCTATA
16876059 TTTATTTAT
1 TTTATTTAT
16876068 TTTTTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 7 0.29
20 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTATTTATATATTCTATA
Found at i:16876061 original size:17 final size:19
Alignment explanation
Indices: 16876022--16876064 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
16876012 TTATAGGTAT
16876022 TTTATTTATATAGTTCTATA
1 TTTA-TTATATAGTTCTATA
*
16876042 TTTATTATATA-TTGTA-A
1 TTTATTATATAGTTCTATA
16876059 TTTATT
1 TTTATT
16876065 TATTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 7 0.32
20 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTATTATATAGTTCTATA
Found at i:16877062 original size:23 final size:23
Alignment explanation
Indices: 16877036--16877083 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
16877026 CCAGGTTTTT
16877036 TTTTTCATTTA-TTTGTTTATTTA
1 TTTTT-ATTTATTTTGTTTATTTA
* *
16877059 TTTTTTTTTATTTTTTTTATTTA
1 TTTTTATTTATTTTGTTTATTTA
16877082 TT
1 TT
16877084 AGATTAGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTTATTTATTTTGTTTATTTA
Found at i:16877072 original size:5 final size:5
Alignment explanation
Indices: 16877051--16877189 Score: 62
Period size: 5 Copynumber: 27.2 Consensus size: 5
16877041 CATTTATTTG
* *
16877051 TTTA- TTTAT TTTTT TTTAT TTT-T TTTA- TTTAT TAGATTAGG TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T---TTA-T TTTAT
* *
16877097 TTAATAT TTT-T TTTAT CTTTAT TTTATT TTTAT CTTTGT TTTACT TTT-C
1 TT--TAT TTTAT TTTAT -TTTAT TTTA-T TTTAT -TTTAT TTTA-T TTTAT
*
16877146 TTTA- TTT-T TTTATT TTTAT TTT-T TTCACT TTTAT TTT-T TTTAT T
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT T
16877190 ATTCTATTTT
Statistics
Matches: 105, Mismatches: 9, Indels: 41
0.68 0.06 0.26
Matches are distributed among these distances:
4 32 0.30
5 34 0.32
6 30 0.29
7 5 0.05
8 3 0.03
9 1 0.01
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:16877081 original size:27 final size:27
Alignment explanation
Indices: 16877032--16877186 Score: 75
Period size: 27 Copynumber: 5.3 Consensus size: 27
16877022 CGTTCCAGGT
* *
16877032 TTTTTTTTTCA-TTTATTTGTTTATTTA
1 TTTTTTTTT-ATTTTTTTTATTTATTTA
*
16877059 TTTTTTTTTATTTTTTTTATTTATTAGA
1 TTTTTTTTTATTTTTTTTATTTATT-TA
16877087 TTAGGTTTATTTAATATTTTTTTTATCTTTATTTTA
1 TT---TTT-TTT--TATTTTTTTTA--TTTA-TTTA
* *
16877123 TTTTTATCTTTGTTTTACTTTTCTTTATTT-
1 TTTTT-T-TTTATTTT--TTTTATTTATTTA
* *
16877153 TTTTATTTTTATTTTTTTCA-CT-TTTA
1 TTTT-TTTTTATTTTTTTTATTTATTTA
16877179 TTTTTTTT
1 TTTTTTTT
16877187 ATTATTCTAT
Statistics
Matches: 102, Mismatches: 10, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
25 7 0.07
26 6 0.06
27 24 0.24
28 3 0.03
29 7 0.07
30 5 0.05
31 7 0.07
32 12 0.12
33 5 0.05
34 17 0.17
36 7 0.07
37 2 0.02
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (27 bp):
TTTTTTTTTATTTTTTTTATTTATTTA
Found at i:16877128 original size:17 final size:15
Alignment explanation
Indices: 16877051--16877204 Score: 89
Period size: 15 Copynumber: 9.9 Consensus size: 15
16877041 CATTTATTTG
*
16877051 TTTATTTATTTT-TT
1 TTTATTTTTTTTATT
16877065 TTTATTTTTTTTATT
1 TTTATTTTTTTTATT
***
16877080 TATTAGATTAGGTTTATT
1 T-TT--ATTTTTTTTATT
* *
16877098 TAATATTTTTTTTATC
1 T-TTATTTTTTTTATT
*
16877114 TTTATTTTATTTTTATC
1 TTTA-TTT-TTTTTATT
* * *
16877131 TTTGTTTTACTTT-TC
1 TTTATTTT-TTTTATT
16877146 TTTA-TTTTTTTATT
1 TTTATTTTTTTTATT
* *
16877160 TTTATTTTTTTCACT
1 TTTATTTTTTTTATT
16877175 TTTATTTTTTTTATT
1 TTTATTTTTTTTATT
*
16877190 ATTCTATTTTCTTTA
1 -TT-TATTTTTTTTA
16877205 AATAAAAATC
Statistics
Matches: 109, Mismatches: 20, Indels: 19
0.74 0.14 0.13
Matches are distributed among these distances:
13 3 0.03
14 19 0.17
15 32 0.29
16 22 0.20
17 21 0.19
18 12 0.11
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTTATT
Found at i:16877183 original size:6 final size:6
Alignment explanation
Indices: 16877106--16877168 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
16877096 TTTAATATTT
* * * * *
16877106 TTTTTA TCTTTA -TTTTA TTTTTA TCTTT- GTTTTA CTTTTC TTTATT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA
16877152 TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTT
16877169 TTCACTTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 9 0.20
6 34 0.76
7 2 0.04
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:16877192 original size:33 final size:34
Alignment explanation
Indices: 16877107--16877192 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 34
16877097 TTAATATTTT
* * *
16877107 TTTTATCTTTATTTTATTTTTATCTTTGTTTTAC
1 TTTTATTTTTTTTTTATTTTTATCTTTGTTTCAC
*
16877141 TTTTCTTTATTTTTTTATTTTTAT-TTT-TTTCAC
1 TTTTATTT-TTTTTTTATTTTTATCTTTGTTTCAC
16877174 TTTTATTTTTTTTATTATT
1 TTTTATTTTTTTT-TTATT
16877193 CTATTTTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
32 5 0.11
33 17 0.38
34 9 0.20
35 14 0.31
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (34 bp):
TTTTATTTTTTTTTTATTTTTATCTTTGTTTCAC
Found at i:16877373 original size:59 final size:58
Alignment explanation
Indices: 16877207--16877380 Score: 219
Period size: 58 Copynumber: 3.0 Consensus size: 58
16877197 TTTCTTTAAA
* * *
16877207 TAAAAATCAAAAGTTTCAAAAA-ATGTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCAAAATTTTAAAAAAGAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
16877265 TAAAAAT--AAATTTCAAAAAAAGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCAAAATTT-TAAAAAA-GATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
*
16877323 TGAAAATCAAAATTTTGAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAATCAAAATTTT-AAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
16877381 CCTACACAAG
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
56 5 0.05
57 5 0.05
58 43 0.44
59 33 0.34
60 12 0.12
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (58 bp):
TAAAAATCAAAATTTTAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:16879030 original size:27 final size:28
Alignment explanation
Indices: 16878980--16879044 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
16878970 AGAATTTTAA
* *
16878980 AAAAATTTAATTTTAATATATTTATTAT
1 AAAAATTAAATTTTAATATATTTAATAT
* * * *
16879008 TAAAATTAAATTTT-TTATTTTTAATGT
1 AAAAATTAAATTTTAATATATTTAATAT
16879035 AAAAATTAAA
1 AAAAATTAAA
16879045 AAATAATAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
AAAAATTAAATTTTAATATATTTAATAT
Found at i:16879061 original size:17 final size:17
Alignment explanation
Indices: 16879041--16879126 Score: 52
Period size: 17 Copynumber: 5.1 Consensus size: 17
16879031 ATGTAAAAAT
* *
16879041 TAAAAAATAATAAATAA
1 TAAATAATAAAAAATAA
*
16879058 TAAATAATTTTAAAAGATAA
1 TAAATAA---TAAAAAATAA
**
16879078 -AAA-AAT-AAAAATTT
1 TAAATAATAAAAAATAA
* *
16879092 TAGATATTAAAAAATAA
1 TAAATAATAAAAAATAA
*
16879109 TAAATAATAATAAATAA
1 TAAATAATAAAAAATAA
16879126 T
1 T
16879127 TTTAAAAGAT
Statistics
Matches: 50, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
14 5 0.10
15 3 0.06
16 2 0.04
17 27 0.54
18 2 0.04
19 3 0.06
20 8 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAATAATAAAAAATAA
Found at i:16879130 original size:61 final size:61
Alignment explanation
Indices: 16879039--16879174 Score: 235
Period size: 62 Copynumber: 2.3 Consensus size: 61
16879029 TAATGTAAAA
16879039 ATTAAAAAATAAT--AAATAATAAATAATTTTAAAAGAT-AAAAAAATAAAAATTTTAGAT
1 ATTAAAAAATAATAAAAATAATAAATAATTTTAAAAGATAAAAAAAATAAAAATTTTAGAT
16879097 ATTAAAAAATAATAAATAATAATAAATAATTTTAAAAGATAAAAAAAATAAAAATTTTAGAT
1 ATTAAAAAATAATAAA-AATAATAAATAATTTTAAAAGATAAAAAAAATAAAAATTTTAGAT
16879159 ATTAAAAAAT-ATAAAA
1 ATTAAAAAATAATAAAA
16879175 TTTTGAAACA
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
58 13 0.18
60 2 0.03
61 28 0.38
62 31 0.42
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (61 bp):
ATTAAAAAATAATAAAAATAATAAATAATTTTAAAAGATAAAAAAAATAAAAATTTTAGAT
Found at i:16879433 original size:19 final size:19
Alignment explanation
Indices: 16879409--16879450 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
16879399 TCATTAAAAG
16879409 AATTCATTGAAAAATTCAA
1 AATTCATTGAAAAATTCAA
*
16879428 AATTCATTGAAAAATTTAA
1 AATTCATTGAAAAATTCAA
16879447 AATT
1 AATT
16879451 TTCTAGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (19 bp):
AATTCATTGAAAAATTCAA
Found at i:16882276 original size:3 final size:3
Alignment explanation
Indices: 16882268--16882305 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
16882258 AAAATTATTC
16882268 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 TA
16882306 GCATTTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16882581 original size:5 final size:5
Alignment explanation
Indices: 16882565--16882605 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
16882555 ATGAGGACAC
*
16882565 TTATT TTGTT TTATT TTATT TTA-- TTATT TTATT ATTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT -TTATT TT
16882606 TCTTTTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
3 3 0.10
5 23 0.74
6 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:16882869 original size:16 final size:17
Alignment explanation
Indices: 16882845--16882883 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
16882835 AAAATGCTGA
16882845 AAAACAAAAAAC-TAGCT
1 AAAA-AAAAAACTTAGCT
*
16882862 AAAAAAAAAACTTTGCT
1 AAAAAAAAAACTTAGCT
16882879 AAAAA
1 AAAAA
16882884 GCCAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.67, C:0.13, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAAAAAAAACTTAGCT
Found at i:16883227 original size:14 final size:13
Alignment explanation
Indices: 16883208--16883237 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
16883198 AATTCTAAGG
16883208 AGAGAGAAAGAAGA
1 AGAGAGAAAG-AGA
16883222 AGAGAGAAAGAGA
1 AGAGAGAAAGAGA
16883235 AGA
1 AGA
16883238 AAGGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
AGAGAGAAAGAGA
Found at i:16883722 original size:57 final size:57
Alignment explanation
Indices: 16883659--16883771 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
16883649 AAACATAAAC
16883659 TTATCAAAATTTTAATAAACAAGAATAAAGAAAAATATACAATAATTGATAAAAAAT
1 TTATCAAAATTTTAATAAACAAGAATAAAGAAAAATATACAATAATTGATAAAAAAT
*
16883716 TTATCAAAATTTTAATGAACAAGAATAAAGAAAAATATACAATAATTGATAAAAAA
1 TTATCAAAATTTTAATAAACAAGAATAAAGAAAAATATACAATAATTGATAAAAAA
16883772 ATTAATTAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.27
Consensus pattern (57 bp):
TTATCAAAATTTTAATAAACAAGAATAAAGAAAAATATACAATAATTGATAAAAAAT
Found at i:16886594 original size:24 final size:25
Alignment explanation
Indices: 16886558--16886605 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
16886548 TATTTCTAAA
*
16886558 ATTTTCTAGTTTTTT-TAATTTTAT
1 ATTTTATAGTTTTTTATAATTTTAT
* *
16886582 ATTTTATATTTTTTTATGATTTTA
1 ATTTTATAGTTTTTTATAATTTTA
16886606 AGGCAAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (25 bp):
ATTTTATAGTTTTTTATAATTTTAT
Found at i:16887615 original size:19 final size:18
Alignment explanation
Indices: 16887582--16887637 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 18
16887572 CAACATGTTT
16887582 AATATACATAATAATATA
1 AATATACATAATAATATA
16887600 AATATACATAAATAATATA
1 AATATACAT-AATAATATA
16887619 AATATACATGAATAGATAT
1 AATATACAT-AATA-ATAT
16887638 GATTAACACG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 9 0.26
19 22 0.63
20 4 0.11
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (18 bp):
AATATACATAATAATATA
Found at i:16888813 original size:25 final size:25
Alignment explanation
Indices: 16888785--16888835 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16888775 ACTCTAGTTA
16888785 TTGTGTTTTGATTATTTGTTGGATT
1 TTGTGTTTTGATTATTTGTTGGATT
16888810 TTGTGTTTTGATTATTTGTTGGATT
1 TTGTGTTTTGATTATTTGTTGGATT
16888835 T
1 T
16888836 GGATTAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.65
Consensus pattern (25 bp):
TTGTGTTTTGATTATTTGTTGGATT
Found at i:16888829 original size:13 final size:14
Alignment explanation
Indices: 16888782--16888829 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
16888772 TTGACTCTAG
16888782 TTATTGTGTTTTGA
1 TTATTGTGTTTTGA
*
16888796 TTATT-TG-TTGGA
1 TTATTGTGTTTTGA
16888808 TT-TTGTGTTTTGA
1 TTATTGTGTTTTGA
16888821 TTATT-TGTT
1 TTATTGTGTT
16888830 GGATTTGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 2 0.07
12 8 0.28
13 12 0.41
14 7 0.24
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.67
Consensus pattern (14 bp):
TTATTGTGTTTTGA
Found at i:16889624 original size:14 final size:14
Alignment explanation
Indices: 16889607--16889643 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16889597 TCCTACTTCA
16889607 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
*
16889621 TTTTTCCTTTTTTT
1 TTTTTCTTTTTTTT
*
16889635 CTTTTCTTT
1 TTTTTCTTT
16889644 GTTGGCAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTCTTTTTTTT
Found at i:16889630 original size:15 final size:15
Alignment explanation
Indices: 16889607--16889639 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
16889597 TCCTACTTCA
16889607 TTTTTCTTTTTTT-T
1 TTTTTCTTTTTTTCT
16889621 TTTTTCCTTTTTTTCT
1 TTTTT-CTTTTTTTCT
16889637 TTT
1 TTT
16889640 CTTTGTTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 8 0.47
16 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:16893079 original size:16 final size:16
Alignment explanation
Indices: 16893058--16893109 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
16893048 AAATACCAAT
16893058 TAAAAATAATTAATTA
1 TAAAAATAATTAATTA
**
16893074 TAAAAATAA-T-ATGG
1 TAAAAATAATTAATTA
*
16893088 CAAAAATTAATTAATTA
1 TAAAAA-TAATTAATTA
16893105 TAAAA
1 TAAAA
16893110 GACATATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
16 10 0.37
17 6 0.22
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (16 bp):
TAAAAATAATTAATTA
Found at i:16893520 original size:20 final size:20
Alignment explanation
Indices: 16893497--16893539 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
16893487 ATGTATTGAG
16893497 AAATAATATGAATTTAATAA
1 AAATAATATGAATTTAATAA
16893517 AAATAATATGAATTTAATAA
1 AAATAATATGAATTTAATAA
16893537 AAA
1 AAA
16893540 CAACATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATAATATGAATTTAATAA
Found at i:16896578 original size:2 final size:2
Alignment explanation
Indices: 16896571--16896609 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
16896561 ATGATCTGGA
* * *
16896571 AT AT AT AT AT AT AT AT AC AC AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16896610 ATTTGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Done.