Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 55 of 77
Found at i:10896086 original size:58 final size:58
Alignment explanation
Indices: 10896024--10896305 Score: 352
Period size: 58 Copynumber: 4.7 Consensus size: 58
10896014 ATCAAAGTTT
*
10896024 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATGTC
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATGTC
* *
10896082 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATGTC
** * ** *
10896140 CAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAGTTTTCCTTGGAAATCAAA-GTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATG-TC
*
10896199 C-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TGTC
* **
10896257 AAAGTTTCAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCC
1 -CA-----AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
10896306 CTACACAAGA
Statistics
Matches: 192, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
57 3 0.02
58 145 0.76
59 5 0.03
65 39 0.20
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (58 bp):
CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATGTC
Found at i:10896294 original size:33 final size:33
Alignment explanation
Indices: 10896192--10896299 Score: 82
Period size: 33 Copynumber: 3.3 Consensus size: 33
10896182 CTTGGAAATC
* **
10896192 AAAGTTTCAAAAAATATTTTTGAGGAAAAGTTG
1 AAAGTATCAAAAAATATTTTTGAAAAAAAGTTG
* * *
10896225 AAAGTATC----AAT-TTTCCTTAAAAATAAATTTTC
1 AAAGTATCAAAAAATATTT--TTGAAAA-AAA-GTTG
*
10896257 AAAGTTTCAAAAAATATTTTTGAAAAAAAGTTG
1 AAAGTATCAAAAAATATTTTTGAAAAAAAGTTG
10896290 AAAGTATCAA
1 AAAGTATCAA
10896300 TTTTCCCTAC
Statistics
Matches: 55, Mismatches: 11, Indels: 18
0.65 0.13 0.21
Matches are distributed among these distances:
28 3 0.05
29 3 0.05
30 4 0.07
31 3 0.05
32 9 0.16
33 18 0.33
34 3 0.05
35 6 0.11
36 3 0.05
37 3 0.05
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.34
Consensus pattern (33 bp):
AAAGTATCAAAAAATATTTTTGAAAAAAAGTTG
Found at i:10897454 original size:23 final size:24
Alignment explanation
Indices: 10897420--10897467 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
10897410 TGTTAAAAAA
*
10897420 TGGGATTCGAATCCC-AGAAGATC
1 TGGGATTCGAATCCCAACAAGATC
*
10897443 TGGGATTTGAATCCCAACAAGATC
1 TGGGATTCGAATCCCAACAAGATC
10897467 T
1 T
10897468 ATAAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (24 bp):
TGGGATTCGAATCCCAACAAGATC
Found at i:10897604 original size:19 final size:22
Alignment explanation
Indices: 10897582--10897622 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
10897572 GAAAAGGGAG
10897582 CTTCTGTA-AAA-A-AAAAAAA
1 CTTCTGTAGAAACACAAAAAAA
10897601 CTTCTGTAGAAACACAAAAAAA
1 CTTCTGTAGAAACACAAAAAAA
10897623 AATAGCAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 1 0.05
22 7 0.37
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.20
Consensus pattern (22 bp):
CTTCTGTAGAAACACAAAAAAA
Found at i:10898349 original size:18 final size:18
Alignment explanation
Indices: 10898316--10898350 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10898306 TTATTTTATT
*
10898316 AATATTTATGTATGTTAA
1 AATATTTATATATGTTAA
*
10898334 AATATTTATATTTGTTA
1 AATATTTATATATGTTA
10898351 GATTAAATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
AATATTTATATATGTTAA
Found at i:10898638 original size:18 final size:18
Alignment explanation
Indices: 10898611--10898647 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10898601 AAGATTTTTT
10898611 TTAATAATAAA-TAAAAA
1 TTAATAATAAATTAAAAA
10898628 TTAATTAATAAATTAAAAA
1 TTAA-TAATAAATTAAAAA
10898647 T
1 T
10898648 ATAAGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAATAATAAATTAAAAA
Found at i:10899284 original size:194 final size:193
Alignment explanation
Indices: 10898954--10899310 Score: 651
Period size: 194 Copynumber: 1.8 Consensus size: 193
10898944 TAAATTTAGA
*
10898954 CCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAA
1 CCTCCAAAGATGAGATTCTAAAAGTATTCCGAATAGAGATGCTTTAAGAAATCTCTAGGTGAGAA
*
10899019 AAAGTTCTTCTAATGTTACCAACGTATTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTA
66 AAAGTTCTTCTAATGTTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTA
10899084 ATTTATTTTTCTCGAGAATAAATTTTTTTTAACATGACATTTTCTCACGAAAAATAAATTCGAG
131 ATTTATTTTTCTCGAGAAT-AATTTTTTTTAACATGACATTTTCTCACGAAAAATAAATTCGAG
*
10899148 CCTCCAAAGATGAGATTCTAAAAGTATTTCGAATAGAGATGCTTTAAGAAATCTCTAGGTGAGAA
1 CCTCCAAAGATGAGATTCTAAAAGTATTCCGAATAGAGATGCTTTAAGAAATCTCTAGGTGAGAA
* * *
10899213 AGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTG
66 AAAGTTCTTCTAATGTTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTA
10899278 ATTTATTTTTCTCGAGAATAATTTTTTTTAACA
131 ATTTATTTTTCTCGAGAATAATTTTTTTTAACA
10899311 AATAAAAAAT
Statistics
Matches: 157, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
193 14 0.09
194 143 0.91
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (193 bp):
CCTCCAAAGATGAGATTCTAAAAGTATTCCGAATAGAGATGCTTTAAGAAATCTCTAGGTGAGAA
AAAGTTCTTCTAATGTTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTA
ATTTATTTTTCTCGAGAATAATTTTTTTTAACATGACATTTTCTCACGAAAAATAAATTCGAG
Found at i:10899821 original size:16 final size:17
Alignment explanation
Indices: 10899785--10899826 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
10899775 GGTAAAAAAA
*
10899785 AAAACAAAAAACCAATAC
1 AAAAC-AAAAACAAATAC
10899803 AAAACAAAAACAAAT-C
1 AAAACAAAAACAAATAC
10899819 AAAACAAA
1 AAAACAAA
10899827 TCAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.39
17 9 0.39
18 5 0.22
ACGTcount: A:0.76, C:0.19, G:0.00, T:0.05
Consensus pattern (17 bp):
AAAACAAAAACAAATAC
Found at i:10900476 original size:19 final size:20
Alignment explanation
Indices: 10900448--10900487 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10900438 ATTTGCATCA
10900448 TTTTTT-AAAA-AAAAATTT
1 TTTTTTAAAAATAAAAATTT
10900466 TTTTTTCAAAAATAAAAATTT
1 TTTTTT-AAAAATAAAAATTT
10900487 T
1 T
10900488 GACACATGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 4 0.21
21 9 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTTTAAAAATAAAAATTT
Found at i:10904338 original size:6 final size:6
Alignment explanation
Indices: 10904287--10904320 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10904277 AACAAAATTT
*
10904287 AAAAA- AAAAAA AAAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
10904321 TTTTTCACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:10904907 original size:21 final size:22
Alignment explanation
Indices: 10904857--10904907 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
10904847 TTACGATTTT
*
10904857 GTAAGACCTCCAGGCATAATTC
1 GTAAGACCCCCAGGCATAATTC
* *
10904879 TGTAAGACCCCCGGGCATACTTC
1 -GTAAGACCCCCAGGCATAATTC
10904902 -TAAGAC
1 GTAAGAC
10904908 TTTTGGATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.24
23 19 0.76
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (22 bp):
GTAAGACCCCCAGGCATAATTC
Found at i:10905094 original size:43 final size:43
Alignment explanation
Indices: 10905033--10905179 Score: 172
Period size: 43 Copynumber: 3.4 Consensus size: 43
10905023 ACATGACTTC
* * * *
10905033 TAAGACCTCCAAGTATGATTTTTAAAATTTTTGGATGATTCTG
1 TAAGACCTCCGAGCATGATTTTTAAAACTTTAGGATGATTCTG
* * * *
10905076 TAAGAACTCCGAGCATGATTTTTAAGACCTTCAGG-TAATTCTG
1 TAAGACCTCCGAGCATGATTTTTAA-AACTTTAGGATGATTCTG
*
10905119 TAAGACCTCCG-GACATGATTTTTAAAACTTTCGGATGATTCTG
1 TAAGACCTCCGAG-CATGATTTTTAAAACTTTAGGATGATTCTG
*
10905162 TAAGACCTCCGGGCATGA
1 TAAGACCTCCGAGCATGA
10905180 ATTCTAAGAC
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 7 0.08
43 74 0.85
44 6 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (43 bp):
TAAGACCTCCGAGCATGATTTTTAAAACTTTAGGATGATTCTG
Found at i:10905235 original size:21 final size:20
Alignment explanation
Indices: 10905201--10905277 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 20
10905191 TTCAGGCATG
*
10905201 ATTTTTAAAACCTTCGAATA
1 ATTTTTAAGACCTTCGAATA
* *
10905221 ATTTTGTAAGACCTTCGGGTATG
1 ATTTT-TAAGACCTTC--GAATA
*
10905244 ATTTTTAAGACCTTCGGATA
1 ATTTTTAAGACCTTCGAATA
*
10905264 ATTCTGTAAGACCT
1 ATT-TTTAAGACCT
10905278 CCGGGCATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 11 0.23
21 18 0.38
22 10 0.21
23 8 0.17
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (20 bp):
ATTTTTAAGACCTTCGAATA
Found at i:10905245 original size:151 final size:153
Alignment explanation
Indices: 10904917--10905287 Score: 471
Period size: 151 Copynumber: 2.4 Consensus size: 153
10904907 CTTTTGGATG
* * * * * *
10904917 ATTCTGTAAGATCTCC-AGGCATGATTTTTAAGACTTTCAAGTAATTTTGTAAGACCTTCGGGTA
1 ATTCTGTAAGAACTCCGA-GCATGATTTTTAAGACCTTCAGGTAATTCTGTAAGACCTCCGGGCA
* *
10904981 TGATTTTTAAGACCTCCGAGCATGATTCTGTAAGACCTCCGGACATGACTTCTAAGACCTCCAAG
65 TGATTTTTAAAACCTCCGAGCATGATTCTGTAAGACCTCCGGACATGAATTCTAAGACCTCCAAG
* ** * * *
10905046 TATGATTTTTAAAATTTTTGGATG
130 CATGATTTTTAAAACCTTCGAATA
*
10905070 ATTCTGTAAGAACTCCGAGCATGATTTTTAAGACCTTCAGGTAATTCTGTAAGACCTCCGGACAT
1 ATTCTGTAAGAACTCCGAGCATGATTTTTAAGACCTTCAGGTAATTCTGTAAGACCTCCGGGCAT
* * * * *
10905135 GATTTTTAAAACTTTCG-G-ATGATTCTGTAAGACCTCCGGGCATGAATTCTAAGACCTTCAGGC
66 GATTTTTAAAACCTCCGAGCATGATTCTGTAAGACCTCCGGACATGAATTCTAAGACCTCCAAGC
10905198 ATGATTTTTAAAACCTTCGAATA
131 ATGATTTTTAAAACCTTCGAATA
* * * * *
10905221 ATTTTGTAAGACCTTCGGGTATGATTTTTAAGACCTTC-GGATAATTCTGTAAGACCTCCGGGCA
1 ATTCTGTAAGAACTCCGAGCATGATTTTTAAGACCTTCAGG-TAATTCTGTAAGACCTCCGGGCA
10905285 TGA
65 TGA
10905288 CTTCTAAGAC
Statistics
Matches: 190, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
150 2 0.01
151 116 0.61
152 1 0.01
153 70 0.37
154 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (153 bp):
ATTCTGTAAGAACTCCGAGCATGATTTTTAAGACCTTCAGGTAATTCTGTAAGACCTCCGGGCAT
GATTTTTAAAACCTCCGAGCATGATTCTGTAAGACCTCCGGACATGAATTCTAAGACCTCCAAGC
ATGATTTTTAAAACCTTCGAATA
Found at i:10905257 original size:65 final size:65
Alignment explanation
Indices: 10904914--10905258 Score: 224
Period size: 65 Copynumber: 5.3 Consensus size: 65
10904904 AGACTTTTGG
* * * * * *
10904914 ATGATTCTGTAAGATCTCCAGGCATGATTTTTAAGACTTTC-AAGTAATTTTGTAAGACCTTCGG
1 ATGATT-TTTAAGACCTTCAGGCATGATTTTTAAAACCTTCGAA-TGATTTTGTAAGACCTTCGG
10904978 GT
64 GT
* * * * * * *
10904980 ATGATTTTTAAGACC-TCCGAGCATGATTCTGTAAGACCTCCGGACATGA-CTTCTAAGACCTCC
1 ATGATTTTTAAGACCTTCAG-GCATGATT-TTTAAAACCTTC-GA-ATGATTTTGTAAGACCTTC
**
10905043 AAGT
62 GGGT
** ** * *
10905047 ATGATTTTTAA-AATTTTTGG-ATGATTCTGTAAGAA-CTCCGAGCATGATTTT-TAAGACCTTC
1 ATGATTTTTAAGACCTTCAGGCATGATT-TTTAA-AACCTTCGA--ATGATTTTGTAAGACCTTC
*
10905108 AGGT
62 GGGT
* * * * * *
10905112 A--ATTCTGTAAGACC-TCCGGACATGATTTTTAAAACTTTCGGATGATTCTGTAAGACCTCCGG
1 ATGATT-TTTAAGACCTTCAGG-CATGATTTTTAAAACCTTCGAATGATTTTGTAAGACCTTCGG
*
10905174 GC
64 GT
* * *
10905176 ATGAATTCTAAGACCTTCAGGCATGATTTTTAAAACCTTCGAATAATTTTGTAAGACCTTCGGGT
1 ATGATTTTTAAGACCTTCAGGCATGATTTTTAAAACCTTCGAATGATTTTGTAAGACCTTCGGGT
10905241 ATGATTTTTAAGACCTTC
1 ATGATTTTTAAGACCTTC
10905259 GGATAATTCT
Statistics
Matches: 216, Mismatches: 45, Indels: 37
0.72 0.15 0.12
Matches are distributed among these distances:
63 10 0.05
64 25 0.12
65 119 0.55
66 32 0.15
67 26 0.12
68 3 0.01
69 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (65 bp):
ATGATTTTTAAGACCTTCAGGCATGATTTTTAAAACCTTCGAATGATTTTGTAAGACCTTCGGGT
Found at i:10905296 original size:43 final size:43
Alignment explanation
Indices: 10904872--10905299 Score: 164
Period size: 43 Copynumber: 9.9 Consensus size: 43
10904862 ACCTCCAGGC
** * * * * *
10904872 ATAATTCTGTAAGACCCCCGGGCAT-ACTTCTAAGACTTTTGG
1 ATAATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCGA
* * * * *
10904914 ATGATTCTGTAAGATCTCCAGGCATGATTTTTAAGACTTTC-A
1 ATAATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCGA
* * *
10904956 AGTAATTTTGTAAGACCTTCGGGTATGATTTTTAAGACCTCCGA
1 A-TAATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCGA
* * * * * *
10905000 GCATGATTCTGTAAGACCTCCGGACATGACTTCTAAGACC-TCCA
1 --ATAATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCGA
* ** ** * * *
10905044 AGTATGATT-TTTAA-AATTTTTGG-ATGATTCTGTAAGAACTCCGA
1 A-TA--ATTCTGTAAGACCTTCGGGCATGATT-TTTAAGACCTTCGA
* * * * * *
10905088 GCATGATT-TTTAAGACCTTCAGG--TAATTCTGTAAGACCTCCGGA
1 --ATAATTCTGTAAGACCTTCGGGCATGATT-TTTAAGACCTTC-GA
* * * * * * *
10905132 CATGATT-TTTAAAACTTTC-GG-ATGATTCTGTAAGACCTCCGGGC
1 -ATAATTCTGTAAGACCTTCGGGCATGATT-TTTAAGACCTTC--GA
* *
10905176 ATGAATTC--TAAGACCTTCAGGCATGATTTTTAAAACCTTCGA
1 AT-AATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCGA
* * *
10905218 ATAATTTTGTAAGACCTTCGGGTATGATTTTTAAGACCTTCGG
1 ATAATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCGA
* * *
10905261 ATAATTCTGTAAGACCTCCGGGCATGACTTCTAAGACCT
1 ATAATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCT
10905300 CTTGATATAA
Statistics
Matches: 298, Mismatches: 66, Indels: 43
0.73 0.16 0.11
Matches are distributed among these distances:
41 4 0.01
42 33 0.11
43 187 0.63
44 32 0.11
45 40 0.13
46 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (43 bp):
ATAATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTTCGA
Found at i:10905297 original size:108 final size:108
Alignment explanation
Indices: 10905088--10905299 Score: 318
Period size: 108 Copynumber: 2.0 Consensus size: 108
10905078 AGAACTCCGA
* * *
10905088 GCATGATTTTTAAGACCTTCAGGTAATTCTGTAAGACCTCCGGACATGATTTTTAAAACTTTCGG
1 GCATGATTTTTAAAACCTTCAGATAATTCTGTAAGACCTCCGGACATGATTTTTAAAACCTTCGG
*
10905153 ATGATTCTGTAAGACCTCCGGGCATGAATTCTAAGACCTTCAG
66 ATAATTCTGTAAGACCTCCGGGCATGAATTCTAAGACCTTCAG
* * ** *
10905196 GCATGATTTTTAAAACCTTC-GAATAATTTTGTAAGACCTTCGGGTATGATTTTTAAGACCTTCG
1 GCATGATTTTTAAAACCTTCAG-ATAATTCTGTAAGACCTCCGGACATGATTTTTAAAACCTTCG
*
10905260 GATAATTCTGTAAGACCTCCGGGCATGACTTCTAAGACCT
65 GATAATTCTGTAAGACCTCCGGGCATGAATTCTAAGACCT
10905300 CTTGATATAA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
107 1 0.01
108 92 0.99
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (108 bp):
GCATGATTTTTAAAACCTTCAGATAATTCTGTAAGACCTCCGGACATGATTTTTAAAACCTTCGG
ATAATTCTGTAAGACCTCCGGGCATGAATTCTAAGACCTTCAG
Found at i:10905300 original size:22 final size:22
Alignment explanation
Indices: 10904966--10905299 Score: 139
Period size: 22 Copynumber: 15.4 Consensus size: 22
10904956 AGTAATTTTG
* *
10904966 TAAGACCTTCGGGTATGATTTT
1 TAAGACCTTCGGGCATGATTTC
* * *
10904988 TAAGACCTCCGAGCATGATTCTG
1 TAAGACCTTCGGGCATGATT-TC
* * *
10905011 TAAGACCTCCGGACATGACTTC
1 TAAGACCTTCGGGCATGATTTC
* ** * *
10905033 TAAGACCTCCAAGTATGATTTT
1 TAAGACCTTCGGGCATGATTTC
** ** *
10905055 TAA-AATTTTTGG-ATGATTCTG
1 TAAGACCTTCGGGCATGATT-TC
* * * *
10905076 TAAGAACTCCGAGCATGATTTT
1 TAAGACCTTCGGGCATGATTTC
* * *
10905098 TAAGACCTTCAGG--TAATTCTG
1 TAAGACCTTCGGGCATGATT-TC
* * *
10905119 TAAGACCTCCGGACATGATTTT
1 TAAGACCTTCGGGCATGATTTC
* * *
10905141 TAAAACTTTC-GG-ATGATTCTG
1 TAAGACCTTCGGGCATGATT-TC
* *
10905162 TAAGACCTCCGGGCATGAATTC
1 TAAGACCTTCGGGCATGATTTC
* *
10905184 TAAGACCTTCAGGCATGATTTT
1 TAAGACCTTCGGGCATGATTTC
* * * *
10905206 TAAAACCTTC--GAATAATTTTG
1 TAAGACCTTCGGGCATGA-TTTC
* *
10905227 TAAGACCTTCGGGTATGATTTT
1 TAAGACCTTCGGGCATGATTTC
* *
10905249 TAAGACCTTC-GG-ATAATTCTG
1 TAAGACCTTCGGGCATGATT-TC
* *
10905270 TAAGACCTCCGGGCATGACTTC
1 TAAGACCTTCGGGCATGATTTC
10905292 TAAGACCT
1 TAAGACCT
10905300 CTTGATATAA
Statistics
Matches: 230, Mismatches: 66, Indels: 32
0.70 0.20 0.10
Matches are distributed among these distances:
20 25 0.11
21 51 0.22
22 113 0.49
23 41 0.18
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCGGGCATGATTTC
Found at i:10905403 original size:22 final size:22
Alignment explanation
Indices: 10905376--10905417 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10905366 TCCAATCAAT
10905376 TTTGTAAGACCTCCGGGCATGA
1 TTTGTAAGACCTCCGGGCATGA
*
10905398 TTTGTAAGACCTTCGGGCAT
1 TTTGTAAGACCTCCGGGCAT
10905418 AAAATCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (22 bp):
TTTGTAAGACCTCCGGGCATGA
Found at i:10905607 original size:49 final size:49
Alignment explanation
Indices: 10905483--10906219 Score: 1029
Period size: 49 Copynumber: 15.0 Consensus size: 49
10905473 AAATTTGAAA
* *
10905483 AAGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
** * * *
10905532 AA-AAAATAATTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTCC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * *
10905580 AAGATAAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * *
10905629 AAGAAGA-AATTTTAAAGTTGTTGAGCCTCTGCTGATAGGAGCTTTTCC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* *
10905677 AAGATGAGAATTTTAAAGTTGTAGAGCCTCTGTTGAGAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * * *
10905726 GAGATGAG-ATTTTAAAGTTGTGGAGCCTCTGTTGAGATGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * * *
10905774 GAGATGAGAATTTTAAAGTTGTTGAGCCTTTGTTGAAAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
10905823 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
*
10905872 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * * *
10905921 AAGATGAGAATTTTAAACTTGTGGACCCTCTGTTGAGAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
*
10905970 AAGATGAGAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * *
10906019 AAGATGAGAATTTTAAACTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
*
10906068 AAGATGAGAATTTTAAAGTTGTTAAGCCTCTGCTGAGAGCAGAGGAGCTTTTTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCT----G-AGAGGAGCTTTTTC
*
10906122 AAGA--A-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * *
10906168 AAGATGAAAATTTTAAAGTTGTGGAGCCTCT-ATAGAGAGGAGCTTTTCTC
1 AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCT-GAGAGGAGCTTTT-TC
10906218 AA
1 AA
10906220 AAAAGAAAAA
Statistics
Matches: 616, Mismatches: 59, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
46 17 0.03
47 1 0.00
48 132 0.21
49 418 0.68
50 3 0.00
51 25 0.04
52 1 0.00
53 1 0.00
54 18 0.03
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (49 bp):
AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
Found at i:10907591 original size:23 final size:23
Alignment explanation
Indices: 10907557--10907627 Score: 106
Period size: 23 Copynumber: 3.0 Consensus size: 23
10907547 TGTTAAAAAA
*
10907557 TGGGATTCGAATCCCAGAAGATC
1 TGGGATTTGAATCCCAGAAGATC
*
10907580 TGGGATTTGAATCCTAGAAGATC
1 TGGGATTTGAATCCCAGAAGATC
*
10907603 TGGGATTTGAATCCCAACAAGATC
1 TGGGATTTGAATCCC-AGAAGATC
10907627 T
1 T
10907628 ATAAATAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 35 0.81
24 8 0.19
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (23 bp):
TGGGATTTGAATCCCAGAAGATC
Found at i:10908507 original size:18 final size:18
Alignment explanation
Indices: 10908474--10908508 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10908464 TTATTTTATT
*
10908474 AATATTTATGTATGTTAA
1 AATATTTATATATGTTAA
*
10908492 AATATTTATATTTGTTA
1 AATATTTATATATGTTA
10908509 GATTAAATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
AATATTTATATATGTTAA
Found at i:10908796 original size:18 final size:18
Alignment explanation
Indices: 10908769--10908805 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10908759 AAGATTTTTT
10908769 TTAATAATAAA-TAAAAA
1 TTAATAATAAATTAAAAA
10908786 TTAATTAATAAATTAAAAA
1 TTAA-TAATAAATTAAAAA
10908805 T
1 T
10908806 ATAAGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAATAATAAATTAAAAA
Found at i:10909015 original size:12 final size:12
Alignment explanation
Indices: 10908993--10909021 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10908983 TAATTAAAAT
10908993 TAAAA-AATTAA
1 TAAAATAATTAA
10909004 TAAAATAATTAA
1 TAAAATAATTAA
10909016 TAAAAT
1 TAAAAT
10909022 TTTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATAATTAA
Found at i:10909458 original size:193 final size:193
Alignment explanation
Indices: 10909110--10909465 Score: 633
Period size: 194 Copynumber: 1.8 Consensus size: 193
10909100 TAAATTTAGA
*
10909110 CCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATGCTTTAAGAAATTTTAGGTGAGAAA
1 CCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATGCTTTAAGAAATTCTAGGTGAGAAA
* *
10909175 AAGTTCTTCTAATGTTACTAACGTACTAGAACATTTTAAGAATTATTTCAATAAAAATGTTTTAA
66 AAGTTCTTCTAATGTTACCAACGTACTAGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTAA
10909240 TTTATTTTTCTCGAGAATAAATTTTTTTTAACATGACATTTTCTCACGAAAAATAAATTCGAG
131 TTTATTTTTCTCGAGAATAAATTTTTTTTAACATGACATTTTCTCACGAAAAATAAATTCGAG
10909303 CCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAA
1 CCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATGCTTTAAGAAAT-TCTAGGTGAGAA
* * * *
10909368 AGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTG
65 AAAGTTCTTCTAATGTTACCAACGTACTAGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTA
10909433 ATTTATTTTTCTCGAGAAT-AATTTTTTTTAACA
130 ATTTATTTTTCTCGAGAATAAATTTTTTTTAACA
10909466 AATAAAAAAT
Statistics
Matches: 155, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
193 66 0.43
194 89 0.57
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (193 bp):
CCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATGCTTTAAGAAATTCTAGGTGAGAAA
AAGTTCTTCTAATGTTACCAACGTACTAGAACATTTTAAGAATTATTTCAATAAAAAGGTTTTAA
TTTATTTTTCTCGAGAATAAATTTTTTTTAACATGACATTTTCTCACGAAAAATAAATTCGAG
Found at i:10919041 original size:18 final size:18
Alignment explanation
Indices: 10918993--10919044 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
10918983 ATACTATTTG
10918993 ATAAATTATTATTTTTATTA
1 ATAAATTATTA--TTTATTA
* *
10919013 AT-TATCAATTATTTATTA
1 ATAAAT-TATTATTTATTA
10919031 ATAAATTATTATTT
1 ATAAATTATTATTT
10919045 GACATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 16 0.62
19 4 0.15
20 6 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
ATAAATTATTATTTATTA
Found at i:10919070 original size:14 final size:14
Alignment explanation
Indices: 10919038--10919067 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10919028 TTAATAAATT
10919038 ATTATTTGACATAA
1 ATTATTTGACATAA
10919052 ATTATTTGA-ATAA
1 ATTATTTGACATAA
10919065 ATT
1 ATT
10919068 TATAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (14 bp):
ATTATTTGACATAA
Found at i:10919090 original size:19 final size:20
Alignment explanation
Indices: 10919051--10919091 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10919041 ATTTGACATA
10919051 AATTATTTGAATAAATTTAT
1 AATTATTTGAATAAATTTAT
* *
10919071 AATTATTT-ATTAATTTTAT
1 AATTATTTGAATAAATTTAT
10919090 AA
1 AA
10919092 ATTTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTATTTGAATAAATTTAT
Found at i:10919094 original size:20 final size:21
Alignment explanation
Indices: 10919048--10919094 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
10919038 ATTATTTGAC
10919048 ATAAATTATTTGAATAAATTT
1 ATAAATTATTTGAATAAATTT
* *
10919069 AT-AATTATTT-ATTAATTTT
1 ATAAATTATTTGAATAAATTT
10919088 ATAAATT
1 ATAAATT
10919095 TTAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAAATTATTTGAATAAATTT
Found at i:10921750 original size:24 final size:23
Alignment explanation
Indices: 10921702--10921752 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
10921692 AACCACAAGT
10921702 ATAAAAGTAGTCTGGCTGTTAAA
1 ATAAAAGTAGTCTGGCTGTTAAA
*
10921725 ATAAAAGTACCGTC-GGTTGTTAAA
1 ATAAAAGTA--GTCTGGCTGTTAAA
10921749 ATAA
1 ATAA
10921753 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 9 0.36
24 13 0.52
25 3 0.12
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (23 bp):
ATAAAAGTAGTCTGGCTGTTAAA
Found at i:10925696 original size:19 final size:19
Alignment explanation
Indices: 10925672--10925713 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10925662 GATGCCTTCA
*
10925672 ATTAAGGACTTTATGGAAT
1 ATTAAGGACATTATGGAAT
*
10925691 ATTAAGGACATTATTGAAT
1 ATTAAGGACATTATGGAAT
10925710 ATTA
1 ATTA
10925714 TTGTTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (19 bp):
ATTAAGGACATTATGGAAT
Found at i:10940284 original size:3 final size:3
Alignment explanation
Indices: 10940278--10940303 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10940268 TCTTCTTTTG
10940278 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10940304 TAAAAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10941932 original size:16 final size:16
Alignment explanation
Indices: 10941911--10941962 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
10941901 AATATTAAAT
10941911 TTTTAATTTTTAATAA
1 TTTTAATTTTTAATAA
*
10941927 TTTTAATTATTAA-AA
1 TTTTAATTTTTAATAA
* *
10941942 -ATTAATTTTTAATAT
1 TTTTAATTTTTAATAA
10941957 TTTTAA
1 TTTTAA
10941963 AACATAACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 10 0.34
15 3 0.10
16 16 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTAATTTTTAATAA
Found at i:10943472 original size:18 final size:17
Alignment explanation
Indices: 10943449--10943482 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10943439 TTATTTTTTT
10943449 AATATAAATATGAAATTA
1 AATATAAATAT-AAATTA
*
10943467 AATATATATATAAATT
1 AATATAAATATAAATT
10943483 TATAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AATATAAATATAAATTA
Found at i:10945489 original size:15 final size:18
Alignment explanation
Indices: 10945454--10945491 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
10945444 GATTGCTCTC
10945454 TATTTTTATTACATAAAT
1 TATTTTTATTACATAAAT
10945472 TATTTTTA-TA-AT-AAT
1 TATTTTTATTACATAAAT
10945487 TATTT
1 TATTT
10945492 AGATAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 2 0.10
17 2 0.10
18 8 0.40
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTTATTACATAAAT
Found at i:10947456 original size:51 final size:51
Alignment explanation
Indices: 10947380--10947477 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
10947370 GCAGAGCTGA
*
10947380 AGCTGAGGAATGATGTTAATATTGAGGACTTAAAATTAACAAAAGACATTG
1 AGCTGAAGAATGATGTTAATATTGAGGACTTAAAATTAACAAAAGACATTG
* *
10947431 AGCTGAAGAATGATGTTAATGTTGAGGACTTAAAATTAGCAAAAGAC
1 AGCTGAAGAATGATGTTAATATTGAGGACTTAAAATTAACAAAAGAC
10947478 GGTGAACTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (51 bp):
AGCTGAAGAATGATGTTAATATTGAGGACTTAAAATTAACAAAAGACATTG
Found at i:10947488 original size:51 final size:51
Alignment explanation
Indices: 10947377--10947488 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
10947367 GATGCAGAGC
* *
10947377 TGAAGCTGAGGAATGATGTTAATATTGAGGACTTAAAATTAACAAAAGACAT
1 TGAA-CTGAAGAATGATGTTAATATTGAGGACTTAAAATTAACAAAAGACAG
* * * *
10947429 TGAGCTGAAGAATGATGTTAATGTTGAGGACTTAAAATTAGCAAAAGACGG
1 TGAACTGAAGAATGATGTTAATATTGAGGACTTAAAATTAACAAAAGACAG
10947480 TGAACTGAA
1 TGAACTGAA
10947489 TCCAAAGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 50 0.94
52 3 0.06
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (51 bp):
TGAACTGAAGAATGATGTTAATATTGAGGACTTAAAATTAACAAAAGACAG
Found at i:10954910 original size:30 final size:31
Alignment explanation
Indices: 10954874--10954949 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
10954864 TATTTTATTT
*
10954874 TTAAATAAATTTTTAAATTTG-AATTTCTA-
1 TTAAATAAATTTTTAAATTTGTAATTTATAC
*
10954903 TTCAAATAAATTATT-AATTTGTAATTTATAC
1 TT-AAATAAATTTTTAAATTTGTAATTTATAC
*
10954934 TTAAATACATTTTTAA
1 TTAAATAAATTTTTAA
10954950 TATATATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 8 0.21
30 28 0.72
31 3 0.08
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (31 bp):
TTAAATAAATTTTTAAATTTGTAATTTATAC
Found at i:10955250 original size:37 final size:37
Alignment explanation
Indices: 10955209--10955280 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
10955199 ATAATGCATA
10955209 TTAA-TTTAAAAATATAA-TTTTATAATAT-AAAATAATT
1 TTAATTTTAAAAA-ATAAGTTTT-TAAT-TCAAAATAATT
10955246 TTAATTTTAAAAAATAAGTTTTTAATTCAAAATAA
1 TTAATTTTAAAAAATAAGTTTTTAATTCAAAATAA
10955281 ATAATATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
36 1 0.03
37 19 0.59
38 12 0.38
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (37 bp):
TTAATTTTAAAAAATAAGTTTTTAATTCAAAATAATT
Found at i:10955261 original size:19 final size:19
Alignment explanation
Indices: 10955209--10955272 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
10955199 ATAATGCATA
10955209 TTAA-TTTAAAAATATAATT
1 TTAATTTTAAAAA-ATAATT
** *
10955228 TT-ATAATATAAAATAATT
1 TTAATTTTAAAAAATAATT
10955246 TTAATTTTAAAAAATAAGTTT
1 TTAATTTTAAAAAATAA--TT
10955267 TTAATT
1 TTAATT
10955273 CAAAATAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.26
19 18 0.51
21 8 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAATTTTAAAAAATAATT
Found at i:10955290 original size:21 final size:19
Alignment explanation
Indices: 10955237--10955290 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
10955227 TTTATAATAT
**
10955237 AAAATAATTTTAATTTTAA
1 AAAATAATTTTAATTCAAA
10955256 AAAATAAGTTTTTAATTCAAA
1 AAAATAA--TTTTAATTCAAA
10955277 ATAAATAATATTTA
1 A-AAATAAT-TTTA
10955291 CTAATCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 7 0.24
20 1 0.03
21 15 0.52
22 6 0.21
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATAATTTTAATTCAAA
Found at i:10957827 original size:32 final size:28
Alignment explanation
Indices: 10957781--10957858 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 28
10957771 CAAATAATTT
*
10957781 TTTAAATATTATATTAATAAATAAATTTATAA
1 TTTAAATATCATATTAA-AAAT--ATTTA-AA
*
10957813 TTTAAATATCATATTAAAAATTTTTAAA
1 TTTAAATATCATATTAAAAATATTTAAA
* *
10957841 TTTAAAAATCATACTAAA
1 TTTAAATATCATATTAAA
10957859 TATTTTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 18 0.43
29 4 0.10
31 4 0.10
32 16 0.38
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TTTAAATATCATATTAAAAATATTTAAA
Found at i:10957851 original size:28 final size:29
Alignment explanation
Indices: 10957806--10957877 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
10957796 AATAAATAAA
* *
10957806 TTTATAATTTAAATATCATATTAAAAATT
1 TTTATAATTTAAAAATCATACTAAAAATT
*
10957835 TTTA-AATTTAAAAATCATACTAAATA-T
1 TTTATAATTTAAAAATCATACTAAAAATT
*
10957862 TTTATTAATTCAAAAA
1 TTTA-TAATTTAAAAA
10957878 AATATTCGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.14
28 19 0.51
29 13 0.35
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTATAATTTAAAAATCATACTAAAAATT
Found at i:10959083 original size:2 final size:2
Alignment explanation
Indices: 10959076--10959117 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10959066 ACGCCTTATG
10959076 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10959118 TAGATCTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10962528 original size:3 final size:3
Alignment explanation
Indices: 10962520--10962552 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10962510 TGAGAGAGGC
*
10962520 AGA AGA AGA AGA AGA AGA AGA AGA AGA TGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
10962553 TAGAGACAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:10963366 original size:3 final size:3
Alignment explanation
Indices: 10963358--10963393 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10963348 ATTAGCATAT
10963358 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10963394 CATAAAAGGA
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):
TAA
Found at i:10964642 original size:30 final size:29
Alignment explanation
Indices: 10964567--10964681 Score: 124
Period size: 30 Copynumber: 3.8 Consensus size: 29
10964557 TGATTTATGT
10964567 ATATTAAAAGTTTATTTAGG-TATAAATTAAA
1 ATATTAAAA-TTTATTT-GGATATAAATT-AA
* *
10964598 ATTTTAAAAATTTATTTGGATACAAATTAA
1 ATATT-AAAATTTATTTGGATATAAATTAA
*
10964628 ATATTAAGAATTTATTTGAATATAAATTAA
1 ATATTAA-AATTTATTTGGATATAAATTAA
* * *
10964658 AAATTAAAAATTATTTGAATATAA
1 ATATTAAAATTTATTTGGATATAA
10964682 TAAAAATTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
29 18 0.24
30 34 0.46
31 18 0.24
32 4 0.05
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (29 bp):
ATATTAAAATTTATTTGGATATAAATTAA
Found at i:10964680 original size:29 final size:30
Alignment explanation
Indices: 10964587--10964718 Score: 128
Period size: 30 Copynumber: 4.4 Consensus size: 30
10964577 TTTATTTAGG
* * *
10964587 TATAAATTAAAATTTTAAAAATTTATTTGGA
1 TATAAATTAAAA-ATTAAAAACTTATTTGAA
* * * *
10964618 TACAAATTAAATATTAAGAATTTATTTGAA
1 TATAAATTAAAAATTAAAAACTTATTTGAA
10964648 TATAAATTAAAAATTAAAAA-TTATTTGAA
1 TATAAATTAAAAATTAAAAACTTATTTGAA
* *
10964677 TAT-AA-TAAAAATTTAAAAACTTATCTAAA
1 TATAAATTAAAAA-TTAAAAACTTATTTGAA
10964706 TA-AAATTATAAAA
1 TATAAATTA-AAAA
10964719 GCTTATAGAC
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.07
28 9 0.10
29 23 0.27
30 34 0.40
31 14 0.16
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (30 bp):
TATAAATTAAAAATTAAAAACTTATTTGAA
Found at i:10969455 original size:32 final size:31
Alignment explanation
Indices: 10969419--10969496 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 31
10969409 ATATATTTTA
*
10969419 TTATATTTTATATAAAA-ATTAAATATTATAAT
1 TTATATTTTATATAAAACATAAAATA-TAT-AT
*
10969451 TTATATTAATATATAAAACATAAAATATATAT
1 TTATATT-TTATATAAAACATAAAATATATAT
*
10969483 TTTTATTTTCATAT
1 TTATATTTT-ATAT
10969497 GTAATTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 1 0.03
32 19 0.49
33 12 0.31
34 7 0.18
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (31 bp):
TTATATTTTATATAAAACATAAAATATATAT
Found at i:10984415 original size:23 final size:24
Alignment explanation
Indices: 10984381--10984431 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
10984371 TATTAATCAT
*
10984381 TTTTAATTAAAAATTTGA-C-AAA
1 TTTTAATTAAAAATATGATCAAAA
*
10984403 TTTTATTTAAAAAATATGATCAAAA
1 TTTTAATT-AAAAATATGATCAAAA
10984428 TTTT
1 TTTT
10984432 TCTGAACTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.29
23 9 0.38
24 1 0.04
25 7 0.29
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTTAATTAAAAATATGATCAAAA
Found at i:10986915 original size:13 final size:13
Alignment explanation
Indices: 10986897--10986923 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10986887 AAATAGCTGC
10986897 ATGATACAAGAGA
1 ATGATACAAGAGA
10986910 ATGATACAAGAGA
1 ATGATACAAGAGA
10986923 A
1 A
10986924 GGGTTAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.15
Consensus pattern (13 bp):
ATGATACAAGAGA
Found at i:10995163 original size:15 final size:15
Alignment explanation
Indices: 10995145--10995413 Score: 100
Period size: 15 Copynumber: 17.2 Consensus size: 15
10995135 TTTGTTAATA
10995145 TATTATAATATTATT
1 TATTATAATATTATT
*
10995160 TA-T-TAATAATATT
1 TATTATAATATTATT
10995173 TA-T-TAAT-TTATT
1 TATTATAATATTATT
10995185 ATATTAATAGTATATTATT
1 -TATT-ATA--ATATTATT
10995204 TATTAATAATGTATTATT
1 TATT-ATAA--TATTATT
10995222 TATTCAT-ATATTA-T
1 TATT-ATAATATTATT
* *
10995236 TATAATAGATATTACT
1 TATTATA-ATATTATT
* *
10995252 TA-AATTAATAATATT
1 TATTA-TAATATTATT
10995267 TATTAATATATGATT-TAT
1 TATT-ATA-AT-ATTAT-T
*
10995285 TAATATAATATTATT
1 TATTATAATATTATT
*
10995300 TACTAATATTAATATTAATA
1 TA-T--TA-TAATATT-ATT
10995320 TATTAGT-ATA-TATT
1 TATTA-TAATATTATT
* *
10995334 TGTTTATAATAATATT
1 T-ATTATAATATTATT
10995350 TATTA-ATATATTATT
1 TATTATA-ATATTATT
10995365 TATTCATATTATATTATT
1 TATT-ATA--ATATTATT
10995383 TA-T-TAATA-TATT
1 TATTATAATATTATT
* *
10995395 ATAATATAAAATTATT
1 -TATTATAATATTATT
10995411 TAT
1 TAT
10995414 AAGTAAAATT
Statistics
Matches: 201, Mismatches: 18, Indels: 70
0.70 0.06 0.24
Matches are distributed among these distances:
12 8 0.04
13 25 0.12
14 12 0.06
15 58 0.29
16 26 0.13
17 13 0.06
18 42 0.21
19 13 0.06
20 4 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTATAATATTATT
Found at i:10995204 original size:23 final size:21
Alignment explanation
Indices: 10995112--10995395 Score: 106
Period size: 20 Copynumber: 13.8 Consensus size: 21
10995102 TTAAAATAAA
*
10995112 ATTATTTATTATACTTTATATT
1 ATTATTTATTATA-TTAATATT
* *
10995134 ATT-TGTTAATATATT-ATAAT
1 ATTAT-TTATTATATTAATATT
10995154 ATTATTTATTA-A-TAATATTT
1 ATTATTTATTATATTAATA-TT
10995174 ATTAATTTATTATATTAATAGTAT
1 ATT-ATTTATTATATTAATA-T-T
*
10995198 ATTATTTATTA-A-TAAT-GT
1 ATTATTTATTATATTAATATT
*
10995216 ATTATTTATTCATA-TATTATT
1 ATTATTTATT-ATATTAATATT
** *
10995237 ATAATAGATATTA-CTTAA-ATT
1 AT--TATTTATTATATTAATATT
* *
10995258 AATA-ATATT-TATTAATA-T
1 ATTATTTATTATATTAATATT
* *
10995276 ATGATTTATTA-A-T-ATAAT
1 ATTATTTATTATATTAATATT
*
10995294 ATTATTTACTAATATTAATATT
1 ATTATTTA-TTATATTAATATT
* **
10995316 AATATATTAGTATATATTTGT-TT
1 ATTAT-TTA-T-TATATTAATATT
* *
10995339 ATAATAATATT-TATTAATA-T
1 ATTAT-TTATTATATTAATATT
10995359 ATTATTTATTCATATT-ATATT
1 ATTATTTATT-ATATTAATATT
*
10995380 ATT-TATTAATATATTA
1 ATTAT-TTATTATATTA
10995396 TAATATAAAA
Statistics
Matches: 198, Mismatches: 33, Indels: 63
0.67 0.11 0.21
Matches are distributed among these distances:
17 3 0.02
18 33 0.17
19 19 0.10
20 40 0.20
21 37 0.19
22 24 0.12
23 32 0.16
24 10 0.05
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTATTTATTATATTAATATT
Found at i:10995209 original size:18 final size:17
Alignment explanation
Indices: 10995112--10995393 Score: 154
Period size: 18 Copynumber: 17.0 Consensus size: 17
10995102 TTAAAATAAA
*
10995112 ATTATTTATTATACTTTAT
1 ATTATTTATTA-A-TATAT
*
10995131 ATTATTTGTTAATATATT
1 ATTATTTATTAATATA-T
* *
10995149 ATAATATTATTTAT-TAAT
1 ATTAT-TTATTAATAT-AT
*
10995167 AATATTTATTAAT-T-T
1 ATTATTTATTAATATAT
10995182 ATTA--TATTAATAGTAT
1 ATTATTTATTAATA-TAT
*
10995198 ATTATTTATTAATAATGT
1 ATTATTTATTAAT-ATAT
*
10995216 ATTATTTATT--CATAT
1 ATTATTTATTAATATAT
*
10995231 ATTA-TTA-TAATAGAT
1 ATTATTTATTAATATAT
*
10995246 ATTACTTA--AAT-TAAT
1 ATTATTTATTAATAT-AT
*
10995261 AATATTTATT-A-ATAT
1 ATTATTTATTAATATAT
*
10995276 ATGATTTATTAATATAAT
1 ATTATTTATTAATAT-AT
*
10995294 ATTATTTACTAATATTAAT
1 ATTATTTATTAATA-T-AT
* *
10995313 ATTAATATATTAGTATAT
1 ATT-ATTTATTAATATAT
*
10995331 ATT-TGT-TT-ATA-AT
1 ATTATTTATTAATATAT
*
10995344 AATATTTATT-A-ATAT
1 ATTATTTATTAATATAT
*
10995359 ATTATTTATTCATATTAT
1 ATTATTTATTAATA-TAT
10995377 ATTATTTATTAATATAT
1 ATTATTTATTAATATAT
10995394 TATAATATAA
Statistics
Matches: 206, Mismatches: 30, Indels: 56
0.71 0.10 0.19
Matches are distributed among these distances:
13 12 0.06
14 8 0.04
15 56 0.27
16 14 0.07
17 17 0.08
18 65 0.32
19 26 0.13
20 8 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTATTTATTAATATAT
Found at i:10995409 original size:33 final size:32
Alignment explanation
Indices: 10995346--10995413 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
10995336 TTTATAATAA
* * *
10995346 TATTTATTAATATATTATTTATTCATATTATAT
1 TATTTATTAATATATTATATATTAAAATTAT-T
10995379 TATTTATTAATATATTATA-ATATAAAATTATT
1 TATTTATTAATATATTATATAT-TAAAATTATT
10995411 TAT
1 TAT
10995414 AAGTAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 6 0.19
33 25 0.81
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (32 bp):
TATTTATTAATATATTATATATTAAAATTATT
Found at i:10998474 original size:35 final size:35
Alignment explanation
Indices: 10998427--10998500 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
10998417 GACGTTTTAT
* *
10998427 AAAAAATGTCACTAATTTAGCGACGTTTATATAAA
1 AAAAAATATCACTAATTTAGCGACATTTATATAAA
* * * *
10998462 AAAAAATATCACTATTTTAGTGGCATTTGTATAAA
1 AAAAAATATCACTAATTTAGCGACATTTATATAAA
10998497 AAAA
1 AAAA
10998501 TGCCGTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.32
Consensus pattern (35 bp):
AAAAAATATCACTAATTTAGCGACATTTATATAAA
Found at i:11002946 original size:64 final size:63
Alignment explanation
Indices: 11002858--11002978 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 63
11002848 AAATTGAATA
*
11002858 GGATTATTGAAGCCATTTTAAGCCAAAACTACCTTT-AATAATCCATTAAAAAAATTTTGAAAAG
1 GGATTATTGAAGCCATTTTAAGCCAAAAATA-CTTTCAATAATCCA-TAAAAAAATTTTGAAAAG
* * *
11002922 GGATTATTGAATG-CGTTTTCAGCCAAAAATACTTTCAATAATCCATATAAAAATTTT
1 GGATTATTGAA-GCCATTTTAAGCCAAAAATACTTTCAATAATCCATAAAAAAATTTT
11002979 TTGTATAGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
63 15 0.29
64 35 0.69
65 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (63 bp):
GGATTATTGAAGCCATTTTAAGCCAAAAATACTTTCAATAATCCATAAAAAAATTTTGAAAAG
Found at i:11003347 original size:64 final size:63
Alignment explanation
Indices: 11003209--11003347 Score: 154
Period size: 64 Copynumber: 2.2 Consensus size: 63
11003199 AAACTATTGG
* * * * * * *
11003209 CTTACAAAAAAATTGAATGGGATTATTTAAGGCATTTTTTTGGCCAGAAATGCTTTGAATAATCT
1 CTTAC-AAAAAATTGAATAGGATTATTCAAGG-ATATTTTTGGCAAAAAATACCTTGAATAATCT
*
11003274 CTTATAAAAAATTGAATAGGATTATTCAAGG-TATTTTTGGCAAAAAAATACCTTGAATAATCT
1 CTTACAAAAAATTGAATAGGATTATTCAAGGATATTTTTGGC-AAAAAATACCTTGAATAATCT
*
11003337 GTTAACAAAAA
1 CTT-ACAAAAA
11003348 TATCATAGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
62 9 0.15
63 19 0.31
64 30 0.48
65 4 0.06
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (63 bp):
CTTACAAAAAATTGAATAGGATTATTCAAGGATATTTTTGGCAAAAAATACCTTGAATAATCT
Found at i:11003348 original size:63 final size:63
Alignment explanation
Indices: 11003215--11003336 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 63
11003205 TTGGCTTACA
* * * * * * *
11003215 AAAAAATTGAATGGGATTATTTAAGGCATTTTTTTGGCCAGAAATGCTTTGAATAATCTCTTAT
1 AAAAAATTGAATAGGATTATTCAAGG-ATATTTTTGGCAAAAAATACCTTGAATAATCTCTTAT
11003279 AAAAAATTGAATAGGATTATTCAAGG-TATTTTTGGCAAAAAAATACCTTGAATAATCT
1 AAAAAATTGAATAGGATTATTCAAGGATATTTTTGGC-AAAAAATACCTTGAATAATCT
11003337 GTTAACAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 9 0.18
63 17 0.34
64 24 0.48
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (63 bp):
AAAAAATTGAATAGGATTATTCAAGGATATTTTTGGCAAAAAATACCTTGAATAATCTCTTAT
Found at i:11003613 original size:209 final size:208
Alignment explanation
Indices: 11003227--11003666 Score: 518
Period size: 209 Copynumber: 2.1 Consensus size: 208
11003217 AAAATTGAAT
* * * ** *
11003227 GGGATTATTTAAGGCATTTTTTTGGCCAGAAATGCTTTGAATAATCTCTTATAAAAAATTGAATA
1 GGGATTATTAAAGG--TATTTTTAGCCAGAAACACCTTGAATAATCTCTTATAAAAAATTGAATA
* *
11003292 GGATTATTCAAGGTATTTTTGGCAAAAAAATACCTTGAATAATCTGTTAACAAAAATATCATAGC
64 GGATTATTCAAGGCATTTTTGGCAAAAAAATACCTTGAATAATCTGTTAACAAAAACATCATAGC
* * * *
11003357 AACTCAGTTGGTTAGAAAATATGACTATTAATCATAAGGTCGTAGGTTCGATCAT-TCTCTCTAG
129 AACTCAGTCGATTAGAAAATATGACTATTAATCATAAGGTCGTAGGTTCAATC-TCTCCCTCTAG
* *
11003421 TATTTTGAGGGTTTTTGAA
193 CA---TGAGGGTTTTTCAA
*
11003440 GGGATTATTAAATGTATTTTTAGCCAGAAACACCTTGAATAATC-CTT-TACAAAAATTGAATAG
1 GGGATTATTAAAGGTATTTTTAGCCAGAAACACCTTGAATAATCTCTTATA-AAAAATTGAATAG
* * *
11003503 GATTATTCAAGGCATTTTTGGC-CAAAAATGCCTTGAATAATCTGTTAATAAAAACA-C-TGGAG
65 GATTATTCAAGGCATTTTTGGCAAAAAAATACCTTGAATAATCTGTTAACAAAAACATCAT--AG
* ** *
11003565 CAACTTAGTCGATTAGAGCATACTG-CTATTAA-CTATAAGGTTGTAGGTTCAATCTCTCCCTCT
128 CAACTCAGTCGATTAGAAAATA-TGACTATTAATC-ATAAGGTCGTAGGTTCAATCTCTCCCTCT
11003628 AGCATGAGGGTTTTTCAA
191 AGCATGAGGGTTTTTCAA
*
11003646 GGGATTATTGAAGGTATTTTT
1 GGGATTATTAAAGGTATTTTT
11003667 GAGAGAGATA
Statistics
Matches: 197, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
206 32 0.16
207 1 0.01
208 3 0.02
209 85 0.43
210 39 0.20
211 25 0.13
213 12 0.06
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (208 bp):
GGGATTATTAAAGGTATTTTTAGCCAGAAACACCTTGAATAATCTCTTATAAAAAATTGAATAGG
ATTATTCAAGGCATTTTTGGCAAAAAAATACCTTGAATAATCTGTTAACAAAAACATCATAGCAA
CTCAGTCGATTAGAAAATATGACTATTAATCATAAGGTCGTAGGTTCAATCTCTCCCTCTAGCAT
GAGGGTTTTTCAA
Found at i:11009916 original size:18 final size:18
Alignment explanation
Indices: 11009856--11009930 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 18
11009846 TTATTAGTTT
* * *
11009856 TATTATCATAGTACAGTA
1 TATTATTATATTATAGTA
* *
11009874 TGTTATTTTATTATAGTA
1 TATTATTATATTATAGTA
*
11009892 TAGTATTATATTATACGT-
1 TATTATTATATTATA-GTA
*
11009910 TATTA-T-TATTATAGTT
1 TATTATTATATTATAGTA
11009926 TATTA
1 TATTA
11009931 GTATTATAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
15 2 0.04
16 12 0.26
17 1 0.02
18 29 0.63
19 2 0.04
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (18 bp):
TATTATTATATTATAGTA
Found at i:11009917 original size:3 final size:3
Alignment explanation
Indices: 11009909--11010008 Score: 102
Period size: 3 Copynumber: 34.7 Consensus size: 3
11009899 ATATTATACG
* * *
11009909 TTA TTA TTA TTA -TA GT- TTA TTA GTA TTA TAA CTT- TTA TT- TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
11009950 TTT TTA TTT TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11009998 TTA TTA TTA TT
1 TTA TTA TTA TT
11010009 TTCTTTCTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
2 9 0.11
3 72 0.88
4 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11009919 original size:16 final size:15
Alignment explanation
Indices: 11009880--11009938 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
11009870 AGTATGTTAT
*
11009880 TTTATTATAGTATAG
1 TTTATTATATTATAG
11009895 --TATTATATTATACG
1 TTTATTATATTATA-G
11009909 -TTATTATTATTATAG
1 TTTATTA-TATTATAG
11009924 TTTATTAGTATTATA
1 TTTATTA-TATTATA
11009939 ACTTTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 6 0.16
16 20 0.53
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (15 bp):
TTTATTATATTATAG
Found at i:11010398 original size:20 final size:20
Alignment explanation
Indices: 11010355--11010398 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11010345 GCTTCTGCGT
* *
11010355 TTAGATTTAAGTTTTTGAGT
1 TTAGATTTAAGTTTTAGAGA
11010375 TTAGATTTAAGTTTCTAG-GA
1 TTAGATTTAAGTTT-TAGAGA
11010395 TTAG
1 TTAG
11010399 GGCTAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.50
Consensus pattern (20 bp):
TTAGATTTAAGTTTTAGAGA
Found at i:11010479 original size:21 final size:22
Alignment explanation
Indices: 11010437--11010479 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11010427 AATATGAAAA
*
11010437 TTCTGGGAAATTTTTGGGTTTT
1 TTCTGGGAAATTCTTGGGTTTT
11010459 TTCTGGGAAA-TCTT-GGTTTT
1 TTCTGGGAAATTCTTGGGTTTT
11010479 T
1 T
11010480 AGACAATCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.14, C:0.07, G:0.26, T:0.53
Consensus pattern (22 bp):
TTCTGGGAAATTCTTGGGTTTT
Found at i:11010882 original size:4 final size:4
Alignment explanation
Indices: 11010869--11010902 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
11010859 TTTTACTGGT
11010869 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
11010903 TCCTTAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11015909 original size:17 final size:18
Alignment explanation
Indices: 11015882--11015915 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11015872 GTTCACTTTT
*
11015882 GACCATATTTCTTTTTAA
1 GACCATATTTCTCTTTAA
11015900 GACC-TATTTCTCTTTA
1 GACCATATTTCTCTTTA
11015916 CAAAATGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.50
Consensus pattern (18 bp):
GACCATATTTCTCTTTAA
Found at i:11016985 original size:55 final size:55
Alignment explanation
Indices: 11016894--11016999 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
11016884 TCGACTCCAT
* * * * *
11016894 ACTCATGGTTTCGTCTCAATCATCTAATTTCAGCTTAGTCCAGATTATTTTCTAG
1 ACTCATGATTTCGTCCCAATCATCCAATCTCAGCTTAGTCCAGATCATTTTCTAG
* * * *
11016949 ACTCATGATTTTGTCCCAGTCATCCAATCTCGGCTTAGTCTAGATCATTTT
1 ACTCATGATTTCGTCCCAATCATCCAATCTCAGCTTAGTCCAGATCATTTT
11017000 TCTAATTCAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.41
Consensus pattern (55 bp):
ACTCATGATTTCGTCCCAATCATCCAATCTCAGCTTAGTCCAGATCATTTTCTAG
Found at i:11017586 original size:3 final size:3
Alignment explanation
Indices: 11017578--11017655 Score: 65
Period size: 3 Copynumber: 27.0 Consensus size: 3
11017568 TATAGTATAG
* * * *
11017578 ATT ATT ATT A-T AGT A-T AGT ATT A-T ATT ATAT GTT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
**
11017621 ACA ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11017656 TATTTCTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
2 8 0.13
3 53 0.84
4 2 0.03
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:11017587 original size:18 final size:18
Alignment explanation
Indices: 11017566--11017607 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
11017556 ATGCTATTTG
11017566 ATTATAGTATAG-ATTATT
1 ATTATAGTATAGTATTA-T
11017584 ATTATAGTATAGTATTAT
1 ATTATAGTATAGTATTAT
11017602 ATTATA
1 ATTATA
11017608 TGTTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (18 bp):
ATTATAGTATAGTATTAT
Found at i:11019938 original size:17 final size:15
Alignment explanation
Indices: 11019904--11019933 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11019894 GAAGTTTGCA
11019904 AATTTAAAAAAAATT
1 AATTTAAAAAAAATT
*
11019919 AATTTAATAAAAATT
1 AATTTAAAAAAAATT
11019934 TTAATGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTTAAAAAAAATT
Found at i:11020042 original size:18 final size:18
Alignment explanation
Indices: 11019994--11020044 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
11019984 AATAATATAT
* * *
11019994 AAAATATTATTTATAATT
1 AAAATTTTATTAATAATA
*
11020012 TAAA-TTTATTTAATAATA
1 AAAATTTTA-TTAATAATA
11020030 AAAATTTTATTAATA
1 AAAATTTTATTAATA
11020045 TTATTATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAATTTTATTAATAATA
Found at i:11020061 original size:12 final size:12
Alignment explanation
Indices: 11020028--11020103 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
11020018 TATTTAATAA
*
11020028 TAAAAATTTTAT
1 TAAAAATATTAT
* *
11020040 TAATATTATTAT
1 TAAAAATATTAT
*
11020052 TAAAAATATTTTT
1 TAAAAATA-TTAT
11020065 CTAAAAATATTA-
1 -TAAAAATATTAT
*
11020077 TCAAAAT-TTAT
1 TAAAAATATTAT
11020088 T--AAAT-TTAT
1 TAAAAATATTAT
11020097 TAAAAAT
1 TAAAAAT
11020104 TTTACACACG
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
9 9 0.18
10 3 0.06
11 11 0.22
12 15 0.29
13 5 0.10
14 8 0.16
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
TAAAAATATTAT
Found at i:11035106 original size:18 final size:17
Alignment explanation
Indices: 11035074--11035107 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11035064 AGCAAAGAAA
11035074 TCTCCTCTCTCTCTTTT
1 TCTCCTCTCTCTCTTTT
*
11035091 TCTCCGTCTCTTTCTTT
1 TCTCC-TCTCTCTCTTT
11035108 GTGTTCTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.00, C:0.38, G:0.03, T:0.59
Consensus pattern (17 bp):
TCTCCTCTCTCTCTTTT
Found at i:11035362 original size:2 final size:2
Alignment explanation
Indices: 11035355--11035381 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11035345 TAGAAATTGA
11035355 AT 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 AT A
11035382 GTATTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11038024 original size:14 final size:14
Alignment explanation
Indices: 11038005--11038046 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
11037995 ATCATATTTG
11038005 ATAATTAAAAATAA
1 ATAATTAAAAATAA
*
11038019 ATAATTATAAAT-A
1 ATAATTAAAAATAA
*
11038032 ATATATTCAAAATAA
1 ATA-ATTAAAAATAA
11038047 TTTAATAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 18 0.78
15 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTAAAAATAA
Found at i:11040792 original size:3 final size:3
Alignment explanation
Indices: 11040784--11040817 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
11040774 GGGACAAAAA
* *
11040784 ATT ATT ATT ATT ATT ATT ATT ATA ATT ATG ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
11040818 ATAAAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:11040850 original size:23 final size:23
Alignment explanation
Indices: 11040799--11040887 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
11040789 TATTATTATT
*
11040799 ATTATTATAATTATGATTAATAAAA
1 ATTATTATAATTATAATT-A-AAAA
* *
11040824 ATTATTATAATAATTATTAAAAA
1 ATTATTATAATTATAATTAAAAA
11040847 ATTATTATAATTATAATTAAAAA
1 ATTATTATAATTATAATTAAAAA
* *
11040870 TTTTATTAAAATTA-AATT
1 -ATTATTATAATTATAATT
11040888 TTAAATTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
23 29 0.51
24 12 0.21
25 16 0.28
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
ATTATTATAATTATAATTAAAAA
Found at i:11043017 original size:7 final size:7
Alignment explanation
Indices: 11042990--11043020 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11042980 TCATATACGA
*
11042990 TTATTTA
1 TTATTTT
11042997 TTATTTT
1 TTATTTT
11043004 TTATTTT
1 TTATTTT
11043011 TTATTTT
1 TTATTTT
11043018 TTA
1 TTA
11043021 AACCAATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (7 bp):
TTATTTT
Found at i:11045146 original size:2 final size:2
Alignment explanation
Indices: 11045139--11045166 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11045129 AAAGCAAGAA
11045139 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11045167 GTTTGTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11049012 original size:59 final size:59
Alignment explanation
Indices: 11048935--11049050 Score: 214
Period size: 59 Copynumber: 2.0 Consensus size: 59
11048925 ATTAAGTGCC
* *
11048935 ATAGTTGCATCTGTGGTTAGTATGTATGCTCCACTATGAAGTTTGAGCGTTTTCTTTCA
1 ATAGTTACATCTGGGGTTAGTATGTATGCTCCACTATGAAGTTTGAGCGTTTTCTTTCA
11048994 ATAGTTACATCTGGGGTTAGTATGTATGCTCCACTATGAAGTTTGAGCGTTTTCTTT
1 ATAGTTACATCTGGGGTTAGTATGTATGCTCCACTATGAAGTTTGAGCGTTTTCTTT
11049051 TAGCATGGAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (59 bp):
ATAGTTACATCTGGGGTTAGTATGTATGCTCCACTATGAAGTTTGAGCGTTTTCTTTCA
Found at i:11051035 original size:2 final size:2
Alignment explanation
Indices: 11051028--11051060 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11051018 TTTTGCAGGT
11051028 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11051061 CAATATGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11052728 original size:22 final size:22
Alignment explanation
Indices: 11052703--11052747 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11052693 TATATAAAGT
* * *
11052703 TTTTTATTGAAATTTGTTAAAA
1 TTTTTATTAAAAATTATTAAAA
11052725 TTTTTATTAAAAATTATTAAAA
1 TTTTTATTAAAAATTATTAAAA
11052747 T
1 T
11052748 AAAAGAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTTTATTAAAAATTATTAAAA
Found at i:11053764 original size:16 final size:16
Alignment explanation
Indices: 11053740--11053774 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11053730 AAATATAATG
* *
11053740 TTATCTTTATTTTCTA
1 TTATATTTATTTTATA
11053756 TTATATTTATTTTATA
1 TTATATTTATTTTATA
11053772 TTA
1 TTA
11053775 AATATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATATTTATTTTATA
Found at i:11054183 original size:15 final size:15
Alignment explanation
Indices: 11054163--11054199 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
11054153 ATGTTCAATT
11054163 TGAATATTATTATAC
1 TGAATATTATTATAC
11054178 TGAATATTATTATAC
1 TGAATATTATTATAC
11054193 TG-ATATT
1 TGAATATT
11054200 TCATGGAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (15 bp):
TGAATATTATTATAC
Found at i:11055254 original size:27 final size:27
Alignment explanation
Indices: 11055217--11055283 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
11055207 AATTATAATA
*
11055217 AAATATTTAATTTAA-AACTTAAACTT-T
1 AAATTTTTAATTTAAGAA-TTAAA-TTAT
*
11055244 AAATTTTTAATGTAAGAATTAAATTAT
1 AAATTTTTAATTTAAGAATTAAATTAT
11055271 AAATTTATTAATT
1 AAATTT-TTAATT
11055284 AATGTGGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 25 0.74
28 7 0.21
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (27 bp):
AAATTTTTAATTTAAGAATTAAATTAT
Found at i:11059264 original size:20 final size:21
Alignment explanation
Indices: 11059241--11059287 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
11059231 TGTGAGTTTG
11059241 ATTTAATTTATA-TTAAATTT
1 ATTTAATTTATATTTAAATTT
*
11059261 ATTTAA-TTATATTTTAATTT
1 ATTTAATTTATATTTAAATTT
11059281 A-TTAATT
1 ATTTAATT
11059288 AATTATGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTAATTTATATTTAAATTT
Found at i:11059397 original size:16 final size:16
Alignment explanation
Indices: 11059376--11059409 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11059366 ATGAACCAAG
*
11059376 TACATCAGCTGTTACT
1 TACATCAGCTATTACT
11059392 TACATCAGCTATTACT
1 TACATCAGCTATTACT
11059408 TA
1 TA
11059410 AGATTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (16 bp):
TACATCAGCTATTACT
Found at i:11060982 original size:25 final size:25
Alignment explanation
Indices: 11060940--11060995 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
11060930 AAATATATTT
**
11060940 TAATAT-TAATATTAATATAAATTA
1 TAATATATAATATTAATATAAAACA
* *
11060964 TAATATATAATTTTTATATAAAACA
1 TAATATATAATATTAATATAAAACA
11060989 TAATATA
1 TAATATA
11060996 AATGTACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATATATAATATTAATATAAAACA
Found at i:11062636 original size:352 final size:354
Alignment explanation
Indices: 11062117--11062817 Score: 930
Period size: 354 Copynumber: 2.0 Consensus size: 354
11062107 GAACAGTGTA
* * *
11062117 GGCAGTTGTGGCGGCGACAATGGAGGATTTTCCGGCGATCATGGTAAAAAAGAATGAACTCAAAG
1 GGCAGTTGTGGCGGCGACAATGGAGGATTTGCCGGCGATCACGGTAAAAAAGAAAGAACTC-AAG
* * *
11062182 AGGAAAAAAAATCAATGCTTTGAAACGGGGGCAATACTGGCAATTGAACCAGTTGGATAAAAGCC
65 AGGAAAAAAAATCAACGCTTTGAAACGAGGGCAATACTGGCAATTAAACCAGTTGGATAAAAGCC
* * * * * * *
11062247 GGTCAATTATTCGGTCGGAAACATATAATTAAACCGCTTGGCGGTAA-AAA-TAAGAAATGTCTG
130 GATCAATTATACGGTCGGAAAAATAAAATTAAACCGCTTGGCGGTAAGAAAGGAACAAATGTCGG
*
11062310 TATCAATTCCCTAAGGGTTTTGTGGTTGTTTTATGCAGGATTAGGAGGAACTAATAACGCCCCTG
195 TATAAATTCCCTAAGGGTTTTGTGGTTGTTTTATGCAGGATTAGGAGGAACTAATAACGCCCCTG
* * * * * *
11062375 AGAAAACCCAGAACCTTGGTGAAGAAGCTATG-GCGGCCGTTATTG-GGGAAACAAAGTGTGACG
260 ACAAAACCCAGAACCTTGGTGAAGAAGC-AAGAACGGCCGCTATTGAGGG-AACAAAGAGCGACG
* *
11062438 GCAGTGAAGTCAGCAACGCTGGTGGACATGGC
323 GAAGTGAAGTCAGCAACGCCGGTGGACATGGC
* *
11062470 GGCAGTTGTGGCGGCGACGATGGAGGATTTGCCGGCTATCACGGTAAAAAAAGAAAGAACTC-AG
1 GGCAGTTGTGGCGGCGACAATGGAGGATTTGCCGGCGATCACGGT-AAAAAAGAAAGAACTCAAG
** * * ** *
11062534 A-GAAAAAATTTTTCAACGCTTTGAAA-TAGGGCCATACTGGCAATTAAACTGGTTGGATTAAAG
65 AGGAAAAAA--AATCAACGCTTTGAAACGAGGGCAATACTGGCAATTAAACCAGTTGGATAAAAG
* * *
11062597 CCGATCAATTGTACGGTGGGAAAAATAAAATTAAACCGCTTGGCGGTAAGAAAGGATCAAATGTC
128 CCGATCAATTATACGGTCGGAAAAATAAAATTAAACCGCTTGGCGGTAAGAAAGGAACAAATGTC
** *
11062662 GGTATAAATTTGCTAAGGGTTTTGTGGTTGTTTTATGCAGGATTAGGAGGGACTAATAACGCCCC
193 GGTATAAATTCCCTAAGGGTTTTGTGGTTGTTTTATGCAGGATTAGGAGGAACTAATAACGCCCC
* * * *
11062727 TGACAACACCCAGAACCTTGGTGAGGAAGCAAGAATGGCTGCTATTGAGGGAACAAAGAGCGACG
258 TGACAAAACCCAGAACCTTGGTGAAGAAGCAAGAACGGCCGCTATTGAGGGAACAAAGAGCGACG
11062792 GAAGTGAAGTCAGCAACGCCGGTGGA
323 GAAGTGAAGTCAGCAACGCCGGTGGA
11062818 TACGGCAGCA
Statistics
Matches: 300, Mismatches: 41, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
351 7 0.02
352 76 0.25
353 59 0.20
354 155 0.52
355 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.22
Consensus pattern (354 bp):
GGCAGTTGTGGCGGCGACAATGGAGGATTTGCCGGCGATCACGGTAAAAAAGAAAGAACTCAAGA
GGAAAAAAAATCAACGCTTTGAAACGAGGGCAATACTGGCAATTAAACCAGTTGGATAAAAGCCG
ATCAATTATACGGTCGGAAAAATAAAATTAAACCGCTTGGCGGTAAGAAAGGAACAAATGTCGGT
ATAAATTCCCTAAGGGTTTTGTGGTTGTTTTATGCAGGATTAGGAGGAACTAATAACGCCCCTGA
CAAAACCCAGAACCTTGGTGAAGAAGCAAGAACGGCCGCTATTGAGGGAACAAAGAGCGACGGAA
GTGAAGTCAGCAACGCCGGTGGACATGGC
Found at i:11065498 original size:25 final size:24
Alignment explanation
Indices: 11065470--11065536 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 24
11065460 ATTTTTTAAA
11065470 AATATCCTAAAATTAATTTTTTTTT
1 AATAT-CTAAAATTAATTTTTTTTT
*
11065495 AATATCTAAAATT--TTTATTTTT
1 AATATCTAAAATTAATTTTTTTTT
*
11065517 -ATATTTTAAAA-TAATTTTTT
1 AATA-TCTAAAATTAATTTTTT
11065537 AATAATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 4 0.11
22 14 0.39
23 5 0.14
24 8 0.22
25 5 0.14
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
AATATCTAAAATTAATTTTTTTTT
Found at i:11065526 original size:22 final size:20
Alignment explanation
Indices: 11065484--11065540 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
11065474 TCCTAAAATT
11065484 AATTTTTTTTTAATATCTAA
1 AATTTTTTTTTAATATCTAA
* *
11065504 AATTTTTATTTTTATATTTTAA
1 AATTTTT-TTTTAATA-TCTAA
**
11065526 AATAATTTTTTAATA
1 AATTTTTTTTTAATA
11065541 ATTTTTTGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 7 0.23
21 14 0.47
22 9 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTTTTTTTTAATATCTAA
Found at i:11066032 original size:22 final size:21
Alignment explanation
Indices: 11066000--11066042 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
11065990 AAGATTATGA
11066000 TATGATACGATAAGATAAAAT
1 TATGATACGATAAGATAAAAT
* *
11066021 TATGAATACGATTAGATTAAAT
1 TATG-ATACGATAAGATAAAAT
11066043 AATATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
TATGATACGATAAGATAAAAT
Found at i:11070619 original size:60 final size:60
Alignment explanation
Indices: 11070546--11070664 Score: 238
Period size: 60 Copynumber: 2.0 Consensus size: 60
11070536 ATTTTTTTTT
11070546 AAAAAAATTTCTTTTTTCTTTCTTTAAGATAATTTTTTTAATTTCAAATTATTGTAATTA
1 AAAAAAATTTCTTTTTTCTTTCTTTAAGATAATTTTTTTAATTTCAAATTATTGTAATTA
11070606 AAAAAAATTTCTTTTTTCTTTCTTTAAGATAATTTTTTTAATTTCAAATTATTGTAATT
1 AAAAAAATTTCTTTTTTCTTTCTTTAAGATAATTTTTTTAATTTCAAATTATTGTAATT
11070665 GTTAGTGAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (60 bp):
AAAAAAATTTCTTTTTTCTTTCTTTAAGATAATTTTTTTAATTTCAAATTATTGTAATTA
Found at i:11072413 original size:21 final size:22
Alignment explanation
Indices: 11072387--11072432 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
11072377 CAACGGAATA
11072387 TTATTAAAATA-TTTTATAATT
1 TTATTAAAATACTTTTATAATT
* *
11072408 TTATTAATATACTTTTTATATTT
1 TTATTAAAATAC-TTTTATAATT
11072431 TT
1 TT
11072433 TACTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
23 11 0.52
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTAAAATACTTTTATAATT
Found at i:11075895 original size:30 final size:30
Alignment explanation
Indices: 11075861--11075917 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
11075851 TGGAATATGC
11075861 AAATACTCAATGTTTCATAGTATATAAGTA
1 AAATACTCAATGTTTCATAGTATATAAGTA
*
11075891 AAATACTTAATGTTTCATAGTATATAA
1 AAATACTCAATGTTTCATAGTATATAA
11075918 TTTAAGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (30 bp):
AAATACTCAATGTTTCATAGTATATAAGTA
Found at i:11079542 original size:8 final size:8
Alignment explanation
Indices: 11079529--11079578 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
11079519 TAGTTACATA
11079529 TATATATG
1 TATATATG
11079537 TATATATG
1 TATATATG
*
11079545 TACATATG
1 TATATATG
* *
11079553 CATGTATG
1 TATATATG
* *
11079561 TATGTATA
1 TATATATG
11079569 TATATATG
1 TATATATG
11079577 TA
1 TA
11079579 CGTATGGTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (8 bp):
TATATATG
Found at i:11079577 original size:20 final size:20
Alignment explanation
Indices: 11079526--11079584 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
11079516 AGTTAGTTAC
*
11079526 ATATATATATGTATATATGT
1 ATATATATATGTATGTATGT
* **
11079546 ACATATGCATGTATGTATGT
1 ATATATATATGTATGTATGT
*
11079566 ATATATATATGTACGTATG
1 ATATATATATGTATGTATG
11079585 GTATTATCTG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (20 bp):
ATATATATATGTATGTATGT
Found at i:11080206 original size:21 final size:21
Alignment explanation
Indices: 11080182--11080228 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11080172 TAGCTTGCTT
*
11080182 TTTATTTTATTTTATTT-TTAA
1 TTTAATTTATTTT-TTTGTTAA
11080203 TTTAATTTATTTTTTTGTTAA
1 TTTAATTTATTTTTTTGTTAA
*
11080224 ATTAA
1 TTTAA
11080229 ACAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTAATTTATTTTTTTGTTAA
Found at i:11080217 original size:17 final size:16
Alignment explanation
Indices: 11080180--11080216 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11080170 CCTAGCTTGC
* *
11080180 TTTTTATTTTATTTTA
1 TTTTTAATTTAATTTA
11080196 TTTTTAATTTAATTTA
1 TTTTTAATTTAATTTA
11080212 TTTTT
1 TTTTT
11080217 TTGTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTAATTTAATTTA
Found at i:11089226 original size:13 final size:13
Alignment explanation
Indices: 11089208--11089232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11089198 ATATTATATG
11089208 TTATATATTAAAA
1 TTATATATTAAAA
11089221 TTATATATTAAA
1 TTATATATTAAA
11089233 GGATAGGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTATATATTAAAA
Found at i:11089286 original size:26 final size:26
Alignment explanation
Indices: 11089257--11089307 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
11089247 TTAAAAAAAC
*
11089257 TAATAACTTGGGTTGGTGATAATTTA
1 TAATAACTTGGATTGGTGATAATTTA
** *
11089283 TAATAGTTTGGATTTGTGATAATTT
1 TAATAACTTGGATTGGTGATAATTT
11089308 GTGAAGTACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (26 bp):
TAATAACTTGGATTGGTGATAATTTA
Found at i:11089612 original size:16 final size:16
Alignment explanation
Indices: 11089580--11089613 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11089570 GTATAAAATA
* *
11089580 TTTTTAATTTTATATT
1 TTTTTAATTATAGATT
11089596 TTTTTAATTATAGATT
1 TTTTTAATTATAGATT
11089612 TT
1 TT
11089614 AATATATCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTAATTATAGATT
Found at i:11090778 original size:1 final size:1
Alignment explanation
Indices: 11090772--11090804 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
11090762 GTTTCCCTCT
11090772 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11090805 GACAAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11095105 original size:60 final size:59
Alignment explanation
Indices: 11095023--11095170 Score: 188
Period size: 60 Copynumber: 2.5 Consensus size: 59
11095013 AAACATTTTG
* *
11095023 AAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTATTCCTTAAAAATAACTTTTAAA
1 AAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTATTCCTCAAAAAT-ACTTTTAAA
* * * * * ***
11095083 AAATTTTTAATTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTG
1 AAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTATTCCTCAAAAATACTTTTAAA
*
11095142 AAATTTTCATTTTTAAGGAAAATTGATAC
1 AAATTTTTATTTTTAAGGAAAATTGATAC
11095171 AAAAAATTAA
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
59 31 0.41
60 44 0.59
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (59 bp):
AAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTATTCCTCAAAAATACTTTTAAA
Found at i:11095214 original size:72 final size:70
Alignment explanation
Indices: 11095101--11095234 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 70
11095091 AATTTCAAGG
* * ** * * *
11095101 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAATTTTCATTTTTAAGGAAAATT
1 AAAATTAATACTTTCAACTTTTTCTAAAAAATACCTATTTGAAAATTT--TTTTCAAGGAAAATT
11095166 GATACAA
64 GATACAA
11095173 AAAATTAATACTTTCAAC-TTTTCTAAAAAATACCCTATTTGAAAATTTTTTTCAAGGAAAAT
1 AAAATTAATACTTTCAACTTTTTCTAAAAAATA-CCTATTTGAAAATTTTTTTCAAGGAAAAT
11095235 GAATACTTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 13 0.24
71 13 0.24
72 28 0.52
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (70 bp):
AAAATTAATACTTTCAACTTTTTCTAAAAAATACCTATTTGAAAATTTTTTTCAAGGAAAATTGA
TACAA
Found at i:11095348 original size:62 final size:63
Alignment explanation
Indices: 11095172--11095382 Score: 250
Period size: 61 Copynumber: 3.5 Consensus size: 63
11095162 AATTGATACA
* * * *
11095172 AAAAATTAATACTTTCAAC-TTTT-CTAAAAAATACC-CTATTTGAAAA--TT-TTTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTCCTCAAAAATACCTTTTTTTGAAAATTTTATTTTTCAAG
* *
11095229 GAAAA-TGAATACTTTCAA-TTTTTTCTCAAAAATACCTTTTTTTGAAAATTTTA-TTTTCAAG
1 AAAAATTG-ATACTTTCAACTTTTTCCTCAAAAATACCTTTTTTTGAAAATTTTATTTTTCAAG
* *
11095290 AAAAATTGATACTTTCAACTTTTTCCTCGAAAATACCTTTTTTTG-AATTTTTATTTTTCAA-
1 AAAAATTGATACTTTCAACTTTTTCCTCAAAAATACCTTTTTTTGAAAATTTTATTTTTCAAG
11095351 AAAAATTGATACTTT-AACTTTTTCCT-AAAAAT
1 AAAAATTGATACTTTCAACTTTTTCCTCAAAAAT
11095383 GTTTCTTGTG
Statistics
Matches: 134, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
56 1 0.01
57 18 0.13
58 11 0.08
59 14 0.10
60 11 0.08
61 46 0.34
62 33 0.25
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (63 bp):
AAAAATTGATACTTTCAACTTTTTCCTCAAAAATACCTTTTTTTGAAAATTTTATTTTTCAAG
Found at i:11095413 original size:60 final size:60
Alignment explanation
Indices: 11095171--11095406 Score: 179
Period size: 61 Copynumber: 4.0 Consensus size: 60
11095161 AAATTGATAC
* * * * *
11095171 AAAAAATTAATACTTTCAAC-TTTT-CTAAAAAATACCCTATTT-GAA-A-ATTTTTTTCA
1 AAAAAATTGATACTTTCAACTTTTTCCT-CAAAATACCTTTTTTGGAATATATATTTTTCA
* * * * *
11095227 AGGAAAA-TGAATACTTTCAA-TTTTTTCTCAAAAATACCTTTTTTTGAAAAT-TTTATTTTCA
1 A-AAAAATTG-ATACTTTCAACTTTTTCCTC-AAAATACCTTTTTTGGAATATATAT-TTTTCA
* * *
11095288 AGAAAAATTGATACTTTCAACTTTTTCCTCGAAAATACCTTTTTTTGAATTTTTATTTTTCA
1 A-AAAAATTGATACTTTCAACTTTTTCCTC-AAAATACCTTTTTTGGAATATATATTTTTCA
**
11095350 AAAAAATTGATACTTT-AACTTTTTCCT-AAAA-ATGTTTCTTGTGGAATATATATTTTT
1 AAAAAATTGATACTTTCAACTTTTTCCTCAAAATACCTTT-TT-TGGAATATATATTTTT
11095407 TTAAAAATTT
Statistics
Matches: 150, Mismatches: 16, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
56 2 0.01
57 22 0.15
58 20 0.13
59 16 0.11
60 15 0.10
61 37 0.25
62 36 0.24
63 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (60 bp):
AAAAAATTGATACTTTCAACTTTTTCCTCAAAATACCTTTTTTGGAATATATATTTTTCA
Found at i:11097028 original size:85 final size:85
Alignment explanation
Indices: 11096919--11097480 Score: 611
Period size: 85 Copynumber: 6.6 Consensus size: 85
11096909 TGACCTAAGA
* ** * *
11096919 AGGATCTGGCATAAGCCGAAATCCAAAACAAAATGACTTGGATGGAACCAAAGTCTGAAATAATT
1 AGGATCTAGCATAAGCTAAAATCCAAAACAAAATGACTTGGATGGAACCGAAGTCTAAAATAATT
* *
11096984 AACTTGGACTGAATCAAAGG
66 AACTTGGATTGAATCGAAGG
* * *
11097004 AGGATCTAGCATAGGCTAAAATCCAAAACAAAATAACTTGGATGGAACCGTAGTCTAAAATAATT
1 AGGATCTAGCATAAGCTAAAATCCAAAACAAAATGACTTGGATGGAACCGAAGTCTAAAATAATT
*
11097069 AACTTGGATTTAATCGAAGG
66 AACTTGGATTGAATCGAAGG
* * * ** * *
11097089 AGGATCTAACATATG-TCAAAATTCAAAACAAAATGA-TCTGGATGGAGTCGAAGTCTGAAATGA
1 AGGATCTAGCATAAGCT-AAAATCCAAAACAAAATGACT-TGGATGGAACCGAAGTCTAAAATAA
11097152 TTAACTTGGATTGAATCGAAGG
64 TTAACTTGGATTGAATCGAAGG
* * * * * * *
11097174 AGGATCTAGCATAAGTTGAAATCCAAAACAAAAATAACCTGGATGCAATCGAAGTCTAAAATAAG
1 AGGATCTAGCATAAGCTAAAATCCAAAAC-AAAATGACTTGGATGGAACCGAAGTCTAAAATAAT
*
11097239 TAACTTAGATTGAATCGAAGG
65 TAACTTGGATTGAATCGAAGG
*
11097260 AGGATCTAGCATAAGCTAAAATCCAAAATAAAAATGA-TAT-GATGGAACCGAAGTCTAAAATAA
1 AGGATCTAGCATAAGCTAAAATCCAAAA-CAAAATGACT-TGGATGGAACCGAAGTCTAAAATAA
* * *
11097323 GTAACTTGGATTGAACCGAAGAA
64 TTAACTTGGATTGAATCGAAG-G
* * * * *
11097346 AGGATCTGGCATAAGCTAAAATTCAAAACAAAATGACATGGATGAAACCCAAGT-T----TGAAT
1 AGGATCTAGCATAAGCTAAAATCCAAAACAAAATGACTTGGATGGAACCGAAGTCTAAAAT-AAT
* * * *
11097406 TCACTTAGACTGAACCGAAGG
65 TAACTTGGATTGAATCGAAGG
* * * *
11097427 AAGATCTAGCATAAGCTAAAATCCAAAACAAAATGACCTAGATGGAACCAAAGT
1 AGGATCTAGCATAAGCTAAAATCCAAAACAAAATGACTTGGATGGAACCGAAGT
11097481 TTGACTTTAC
Statistics
Matches: 405, Mismatches: 61, Indels: 26
0.82 0.12 0.05
Matches are distributed among these distances:
81 48 0.12
82 19 0.05
84 2 0.00
85 217 0.54
86 119 0.29
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (85 bp):
AGGATCTAGCATAAGCTAAAATCCAAAACAAAATGACTTGGATGGAACCGAAGTCTAAAATAATT
AACTTGGATTGAATCGAAGG
Found at i:11097330 original size:171 final size:170
Alignment explanation
Indices: 11096919--11097480 Score: 631
Period size: 171 Copynumber: 3.3 Consensus size: 170
11096909 TGACCTAAGA
* **
11096919 AGGATCTGGCATAAGCCGAAATCCAAAACAAAATGACT-TGGATGGAACCAAAGTCTGAAATAAT
1 AGGATCTAGCATAAGCTAAAATCCAAAACAAAATGACTATGGATGGAACCAAAGTCTGAAATAAT
* * * *
11096983 TAACTTGGACTGAATCAAAGGAGGATCTAGCATAGGCTAAAATCCAAAACAAAATAACTTGGATG
66 TAACTTGGATTGAATCGAAGGAGGATCTAGCATAAGCTAAAATCCAAAACAAAATAACATGGATG
* * * *
11097048 GAACCGTAGTCTAAAATAATTAACTTGGATTTAATCGAAGG
131 AAACCGAAGTCTAAAATAA-TAACTTAGATTGAATCGAAGG
* * * * ** * *
11097089 AGGATCTAACATATG-TCAAAATTCAAAACAAAATGA-TCTGGATGGAGTCGAAGTCTGAAATGA
1 AGGATCTAGCATAAGCT-AAAATCCAAAACAAAATGACTATGGATGGAACCAAAGTCTGAAATAA
* * *
11097152 TTAACTTGGATTGAATCGAAGGAGGATCTAGCATAAGTTGAAATCCAAAACAAAAATAACCTGGA
65 TTAACTTGGATTGAATCGAAGGAGGATCTAGCATAAGCTAAAATCCAAAAC-AAAATAACATGGA
* *
11097217 TGCAATCGAAGTCTAAAATAAGTAACTTAGATTGAATCGAAGG
129 TGAAACCGAAGTCTAAAATAA-TAACTTAGATTGAATCGAAGG
* * *
11097260 AGGATCTAGCATAAGCTAAAATCCAAAATAAAAATGA-TAT-GATGGAACCGAAGTCTAAAATAA
1 AGGATCTAGCATAAGCTAAAATCCAAAA-CAAAATGACTATGGATGGAACCAAAGTCTGAAATAA
* * * * * *
11097323 GTAACTTGGATTGAACCGAAGAAAGGATCTGGCATAAGCTAAAATTCAAAACAAAATGACATGGA
65 TTAACTTGGATTGAATCGAAG-GAGGATCTAGCATAAGCTAAAATCCAAAACAAAATAACATGGA
* ** * * *
11097388 TGAAACCCAAGT-TTGAAT--TCACTTAGACTGAACCGAAGG
129 TGAAACCGAAGTCTAAAATAATAACTTAGATTGAATCGAAGG
*
11097427 AAGATCTAGCATAAGCTAAAATCCAAAACAAAATGACCTA--GATGGAACCAAAGT
1 AGGATCTAGCATAAGCTAAAATCCAAAACAAAATGA-CTATGGATGGAACCAAAGT
11097481 TTGACTTTAC
Statistics
Matches: 333, Mismatches: 51, Indels: 19
0.83 0.13 0.05
Matches are distributed among these distances:
166 7 0.02
167 58 0.17
168 2 0.01
169 1 0.00
170 100 0.30
171 130 0.39
172 35 0.11
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (170 bp):
AGGATCTAGCATAAGCTAAAATCCAAAACAAAATGACTATGGATGGAACCAAAGTCTGAAATAAT
TAACTTGGATTGAATCGAAGGAGGATCTAGCATAAGCTAAAATCCAAAACAAAATAACATGGATG
AAACCGAAGTCTAAAATAATAACTTAGATTGAATCGAAGG
Found at i:11097711 original size:34 final size:34
Alignment explanation
Indices: 11097659--11097775 Score: 101
Period size: 34 Copynumber: 3.5 Consensus size: 34
11097649 GCAGGATTCA
* * *
11097659 AAAATTTGTAAAAATTTCATATTAGCAAGAATTG
1 AAAATTTGTAAGATTTTCAAATTAGCAAGAATTG
* * * *
11097693 AAAATTTGTAAGATTTTCAGATTTGCAAAAATTT
1 AAAATTTGTAAGATTTTCAAATTAGCAAGAATTG
** * * *
11097727 TGAATTTGCAAGA-TTTCAAATTCGTAAGAATTG
1 AAAATTTGTAAGATTTTCAAATTAGCAAGAATTG
* *
11097760 GATATTTGTAAGATTT
1 AAAATTTGTAAGATTT
11097776 AAATTGCAAT
Statistics
Matches: 64, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
33 24 0.38
34 40 0.62
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (34 bp):
AAAATTTGTAAGATTTTCAAATTAGCAAGAATTG
Found at i:11097893 original size:17 final size:17
Alignment explanation
Indices: 11097832--11097894 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
11097822 CACTAGAATT
*
11097832 AAGATTTGCAAGAATTG
1 AAGATTTGCAAGAAATG
* * *
11097849 AAAATTTGTAAGAACT-
1 AAGATTTGCAAGAAATG
* **
11097865 TAGATTCACAAGAAATG
1 AAGATTTGCAAGAAATG
11097882 AAGATTTGCAAGA
1 AAGATTTGCAAGA
11097895 TTTTTCGGTT
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
16 10 0.30
17 23 0.70
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (17 bp):
AAGATTTGCAAGAAATG
Found at i:11099214 original size:14 final size:14
Alignment explanation
Indices: 11099182--11099215 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11099172 TCTTTTTAAT
*
11099182 TTTTTTCATTTTTA
1 TTTTTTCATTTTCA
*
11099196 ATTTTTCATTTTCA
1 TTTTTTCATTTTCA
11099210 TTTTTT
1 TTTTTT
11099216 TTTTTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTCATTTTCA
Found at i:11103284 original size:59 final size:58
Alignment explanation
Indices: 11103173--11103582 Score: 423
Period size: 59 Copynumber: 6.9 Consensus size: 58
11103163 TCTTTAAGCA
* * * *
11103173 TTTTGAAATTATTATTTT-AAGAAAAATTGATACTTTTAATTTTTCCTCAAAAATGCTT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAATTTTT-CTTAAAAATACTT
* * * *
11103231 TTTTAAAATTTTTATTTTCAAGAAAAATTAATACTTTAAACTTTTTCTTAAAAATATTT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTCTTAAAAATACTT
* * * * * * *
11103290 TTTTAAAAAATTTTATTTTCAAGGAAAGTTGATACTTTCAACTTTTCCTCAAAAATATTT
1 TTTT-GAAATTTTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTCTTAAAAATACTT
* ** ** *
11103350 TTTTGATATTTAAATTTGAAAGAAAAATTGATTCTTTCAA-TTTTCTTCAAAAATATCTT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCTT-AAAAATA-CTT
* * *
11103409 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTTAATTTTT-TCTCAAAATCATTT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCT-TAAAAAT-ACTT
* * * *
11103468 TTTTGAAAATTTTATTTT-AAAAAAAATTGATATTTTCAACTTTTCCTTAAAAATAACTTT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTCTTAAAAAT-AC-TT
*
11103528 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCATTAAAAAT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTC-TTAAAAAT
11103583 GTTTCTTGTG
Statistics
Matches: 291, Mismatches: 48, Indels: 23
0.80 0.13 0.06
Matches are distributed among these distances:
57 5 0.02
58 41 0.14
59 130 0.45
60 88 0.30
61 27 0.09
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (58 bp):
TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCTTAAAAATACTT
Found at i:11103325 original size:119 final size:117
Alignment explanation
Indices: 11103173--11103583 Score: 449
Period size: 119 Copynumber: 3.5 Consensus size: 117
11103163 TCTTTAAGCA
*
11103173 TTTTG-AAATTATTATTTT-AAGAAAAATTGATACTTTTAATTTTTCCTCAAAAATGCTTTTTTA
1 TTTTGAAAATT-TTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATGCTTTTTTA
* *
11103236 AAATTTTTATTTTCAAGAAAAATTAATACTTTAAACTTTTTCTTAAAAATATTT
65 AAATTTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTT
* * * * ** *
11103290 TTTTAAAAAATTTTATTTTCAAGGAAAGTTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG
1 TTTT-GAAAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATGCTTTTTTA
* ** * *
11103355 ATATTTAAATTTGAAAGAAAAATTGATTCTTTCAA--TTTTCTTCAAAAATATCTT
65 AAATTTTTATTT-TAAGAAAAATTGATACTTTCAACTTTTTCTT-AAAAATAT-TT
* * *
11103409 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTTAATTTTTTCTC-AAAAT-CATTTTTTT
1 TTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATGC--TTTTTT
* * *
11103472 GAAAA-TTTTATTTTAAAAAAAATTGATATTTTCAACTTTTCCTTAAAAATAACTTT
64 -AAAATTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAAT-A-TTT
* * * *
11103528 TTTTGAAATTTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCATTAAAAATG
1 TTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATG
11103584 TTTCTTGTGA
Statistics
Matches: 242, Mismatches: 37, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
117 34 0.14
118 71 0.29
119 131 0.54
120 6 0.02
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (117 bp):
TTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATGCTTTTTTAA
AATTTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTT
Found at i:11103412 original size:178 final size:177
Alignment explanation
Indices: 11103191--11103571 Score: 516
Period size: 178 Copynumber: 2.1 Consensus size: 177
11103181 TTATTATTTT
*
11103191 AAGAAAAATTGATACTTTTAATTTTTCCTCAAAAATGCTTTTTTAAAATTTTTATTTTCAAGAAA
1 AAGAAAAATTGATACTTTCAA-TTTTCCTCAAAAATGCTTTTTTAAAATTTTTATTTTCAAGAAA
** *
11103256 AATTAATACTTTAAACTTTTTCTTAAAAAT-ATTTTTTTAAAAAATTTTATTTTCAAGGAAAGTT
65 AATTAATACTTTAAACTTTTTC-TAAAAATCATTTTTTT-AAAAATTTTATTTT-AAAAAAAATT
*
11103320 GATACTTTCAACTTTTCCTCAAAAAT-A-TTTTTTTGATATTTAAATTTGA
127 GATACTTTCAACTTTTCCTCAAAAATAACTTTTTTTGAAATTTAAATTTGA
* * * *
11103369 AAGAAAAATTGATTCTTTCAATTTTCTTCAAAAATATCTTTTTTGAAATTTTTATTTTCAAGAAA
1 AAGAAAAATTGATACTTTCAATTTTCCTCAAAAAT-GCTTTTTTAAAATTTTTATTTTCAAGAAA
* * * * *
11103434 AATTGATACTTTTAATTTTTTCTCAAAATCATTTTTTTGAAAATTTTATTTTAAAAAAAATTGAT
65 AATTAATACTTTAAACTTTTTCTAAAAATCATTTTTTTAAAAATTTTATTTTAAAAAAAATTGAT
* * ** **
11103499 ATTTTCAACTTTTCCTTAAAAATAACTTTTTTTGAAATTTTTATTTTT
130 ACTTTCAACTTTTCCTCAAAAATAACTTTTTTTGAAATTTAAATTTGA
11103547 AAGAAAAATTGATACTTTCAATTTT
1 AAGAAAAATTGATACTTTCAATTTT
11103572 TCATTAAAAA
Statistics
Matches: 178, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
176 31 0.17
177 33 0.19
178 114 0.64
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (177 bp):
AAGAAAAATTGATACTTTCAATTTTCCTCAAAAATGCTTTTTTAAAATTTTTATTTTCAAGAAAA
ATTAATACTTTAAACTTTTTCTAAAAATCATTTTTTTAAAAATTTTATTTTAAAAAAAATTGATA
CTTTCAACTTTTCCTCAAAAATAACTTTTTTTGAAATTTAAATTTGA
Found at i:11104037 original size:29 final size:29
Alignment explanation
Indices: 11103982--11104037 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
11103972 AAAATTCTAG
* * * *
11103982 TCAAGAATCTTGCACCTTAAAATTTTCAA
1 TCAAGAATCCTACACCTGAAAACTTTCAA
*
11104011 TCAAGAATCCTACACCTGAAACCTTTC
1 TCAAGAATCCTACACCTGAAAACTTTC
11104038 TCTTTGATCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (29 bp):
TCAAGAATCCTACACCTGAAAACTTTCAA
Found at i:11110958 original size:2 final size:2
Alignment explanation
Indices: 11110951--11110987 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
11110941 TCTACCCTAA
* *
11110951 AT AT AT AT AT AT AT AT AT AT AA AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11110988 ATACACATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:11125497 original size:18 final size:19
Alignment explanation
Indices: 11125458--11125514 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
11125448 TTTCTTTTTG
* * *
11125458 TTTTATTTTATTATT-ATT
1 TTTTATATTATTTTTGATA
*
11125476 TTTTATATT-TTTTTGGTA
1 TTTTATATTATTTTTGATA
11125494 TTTTATATTATTTTTGATA
1 TTTTATATTATTTTTGATA
11125513 TT
1 TT
11125515 ATTTTTGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.12
18 18 0.56
19 10 0.31
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTATATTATTTTTGATA
Found at i:11125503 original size:30 final size:30
Alignment explanation
Indices: 11125461--11125532 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
11125451 CTTTTTGTTT
*
11125461 TATTTTATTATTATTTTTTATATT-TTTTTGG
1 TATTTTA-TATTATTTTTGATATTATTTTT-G
11125492 TATTTTATATTATTTTTGATATTATTTTTG
1 TATTTTATATTATTTTTGATATTATTTTTG
11125522 TATTTTATATT
1 TATTTTATATT
11125533 TTGTATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 27 0.69
31 12 0.31
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (30 bp):
TATTTTATATTATTTTTGATATTATTTTTG
Done.