Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 43 of 127
Found at i:8550538 original size:22 final size:22
Alignment explanation
Indices: 8550512--8550555 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8550502 TTCGATACAT
*
8550512 ATAAAATACACAATTCACTAAA
1 ATAAAATACACAATTCAATAAA
*
8550534 ATAAAATACATAATTCAATAAA
1 ATAAAATACACAATTCAATAAA
8550556 TACATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (22 bp):
ATAAAATACACAATTCAATAAA
Found at i:8550565 original size:29 final size:30
Alignment explanation
Indices: 8550532--8550604 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
8550522 CAATTCACTA
*
8550532 AAATAAAATACATAATTCAAT-AAATACAT
1 AAATAAAATACACAATTCAATAAAATACAT
** *
8550561 AAATAACTTACACAATTTAATAAAATACAT
1 AAATAAAATACACAATTCAATAAAATACAT
8550591 AAA-AAAATACACAA
1 AAATAAAATACACAA
8550605 AAATTCAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 26 0.70
30 11 0.30
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (30 bp):
AAATAAAATACACAATTCAATAAAATACAT
Found at i:8553435 original size:43 final size:43
Alignment explanation
Indices: 8553299--8553475 Score: 157
Period size: 44 Copynumber: 4.1 Consensus size: 43
8553289 TCCCCTAAAT
* * ** *
8553299 AAAGGCTTAACAA-TTTCAAAAAATTTAAAAAAGCTCATCTCATT
1 AAAGGTTTAACAACTTT-AAAAAAATT-AAAAAGCTTTTCTCATC
* * *
8553343 AGAGGTTCAACAACTTTGAGAAAAATTAGAAAA-CTTATT-TCATC
1 AAAGGTTTAACAACTTT-AAAAAAATTA-AAAAGCTT-TTCTCATC
* *
8553387 TAAGGTTTAACAACTTTAAAAAAATTTAAAAAG-TTTTCTCCTC
1 AAAGGTTTAACAACTTTAAAAAAA-TTAAAAAGCTTTTCTCATC
* *
8553430 AAAGGTTTAACAACTTT-GAAAAATTAAAAAGCTTTTTTCATC
1 AAAGGTTTAACAACTTTAAAAAAATTAAAAAGCTTTTCTCATC
8553472 AAAG
1 AAAG
8553476 TTTGAAACCA
Statistics
Matches: 108, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
41 8 0.07
42 19 0.18
43 32 0.30
44 34 0.31
45 15 0.14
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.32
Consensus pattern (43 bp):
AAAGGTTTAACAACTTTAAAAAAATTAAAAAGCTTTTCTCATC
Found at i:8553474 original size:42 final size:43
Alignment explanation
Indices: 8553345--8553475 Score: 160
Period size: 43 Copynumber: 3.0 Consensus size: 43
8553335 ATCTCATTAG
* * *
8553345 AGGTTCAACAACTTTGAGAAAAATTAGAAAA-CTTATTTCATCTA
1 AGGTTTAACAACTTT-AGAAAAATTA-AAAAGCTTTTTTCATCAA
* * *
8553389 AGGTTTAACAACTTTAAAAAAATTTAAAAAG-TTTTCTCCTCAA
1 AGGTTTAACAACTTTAGAAAAA-TTAAAAAGCTTTTTTCATCAA
8553432 AGGTTTAACAACTTT-GAAAAATTAAAAAGCTTTTTTCATCAA
1 AGGTTTAACAACTTTAGAAAAATTAAAAAGCTTTTTTCATCAA
8553474 AG
1 AG
8553476 TTTGAAACCA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
41 8 0.11
42 17 0.23
43 33 0.44
44 17 0.23
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (43 bp):
AGGTTTAACAACTTTAGAAAAATTAAAAAGCTTTTTTCATCAA
Found at i:8553535 original size:13 final size:13
Alignment explanation
Indices: 8553508--8553581 Score: 82
Period size: 13 Copynumber: 5.8 Consensus size: 13
8553498 TAATCTTATT
8553508 ATTCAT-CTCATC
1 ATTCATACTCATC
*
8553520 ATTCATACTTATC
1 ATTCATACTCATC
*
8553533 ATTACAT-CTCATT
1 ATT-CATACTCATC
*
8553546 ATTCCTACTCATC
1 ATTCATACTCATC
8553559 ATTC-TAGCTCATC
1 ATTCATA-CTCATC
8553572 ATTCATACTC
1 ATTCATACTC
8553582 TTATTTTTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
12 10 0.19
13 37 0.71
14 5 0.10
ACGTcount: A:0.27, C:0.30, G:0.01, T:0.42
Consensus pattern (13 bp):
ATTCATACTCATC
Found at i:8553541 original size:26 final size:25
Alignment explanation
Indices: 8553502--8553580 Score: 95
Period size: 26 Copynumber: 3.1 Consensus size: 25
8553492 TTTGGTTAAT
*
8553502 CTTATTATTCATCTCATCATTCATA
1 CTTATCATTCATCTCATCATTCATA
* *
8553527 CTTATCATTACATCTCATTATTCCTA
1 CTTATCATT-CATCTCATCATTCATA
* *
8553553 CTCATCATTCTAGCTCATCATTCATA
1 CTTATCATTC-ATCTCATCATTCATA
8553579 CT
1 CT
8553581 CTTATTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
25 9 0.20
26 36 0.80
ACGTcount: A:0.27, C:0.28, G:0.01, T:0.44
Consensus pattern (25 bp):
CTTATCATTCATCTCATCATTCATA
Found at i:8554868 original size:19 final size:20
Alignment explanation
Indices: 8554841--8554879 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8554831 ACCCCATAGC
*
8554841 ATATCAATTTA-CTTTTTTT
1 ATATAAATTTATCTTTTTTT
8554860 ATATAAATTTATCTTTTTTT
1 ATATAAATTTATCTTTTTTT
8554880 TACTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATAAATTTATCTTTTTTT
Found at i:8559083 original size:6 final size:6
Alignment explanation
Indices: 8559074--8559123 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 6
8559064 TCATTTTTCT
*
8559074 TTTTAA TTTTAA TTTTAA -TTTAA -TTCAA -TTTAA -TTTAA TTTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA
8559119 TTTTA
1 TTTTA
8559124 TTATTTTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 18 0.45
6 17 0.43
7 5 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTTAA
Found at i:8559129 original size:15 final size:16
Alignment explanation
Indices: 8559097--8559143 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8559087 TTTAATTTAA
*
8559097 TTCAATTTAATTTAATTT
1 TTCAATTTTA-TT-ATTT
8559115 TT-AATTTTATTATTT
1 TTCAATTTTATTATTT
*
8559130 TTCATTTTTATTAT
1 TTCAATTTTATTAT
8559144 GATTATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 6 0.23
16 12 0.46
17 6 0.23
18 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (16 bp):
TTCAATTTTATTATTT
Found at i:8559143 original size:3 final size:3
Alignment explanation
Indices: 8559121--8559266 Score: 70
Period size: 3 Copynumber: 47.3 Consensus size: 3
8559111 ATTTTTAATT
* * * * * *
8559121 TTA TTA TTT TTCA TTT TTA TTA TGA TTA TGA TTA TTA TGA TTC TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
8559167 TTTA TCTA TTA ATA TATA TT- TT- TTA TTT TTA TCTA TTA TTA TTA TT-
1 -TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
8559213 TT- TTA GTTA TCTA TTA ATA -TA TT- TTA TTA TTTA TTTA TTA TTTA
1 TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA -TTA
*
8559257 TTA TTT TTA T
1 TTA TTA TTA T
8559267 CTTTTTCTTT
Statistics
Matches: 111, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
2 12 0.11
3 69 0.62
4 30 0.27
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8559222 original size:24 final size:24
Alignment explanation
Indices: 8559151--8559264 Score: 115
Period size: 24 Copynumber: 4.6 Consensus size: 24
8559141 TATGATTATG
* *
8559151 ATTATTATGA-TTCTTATTTATCT
1 ATTATTATTATTTTTTATTTATCT
*
8559174 ATTAATATATATTTTTTATTTTTATCT
1 ATTATTAT-TATTTTTTA--TTTATCT
*
8559201 ATTATTATTATTTTTTAGTTATCT
1 ATTATTATTATTTTTTATTTATCT
* *
8559225 ATTAATA-TATTTTATTATTTATTT
1 ATTATTATTATTTT-TTATTTATCT
8559249 ATTATTTATTATTTTT
1 ATTA-TTATTATTTTT
8559265 ATCTTTTTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
23 13 0.17
24 25 0.33
25 8 0.11
26 15 0.20
27 14 0.19
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTATTATTATTTTTTATTTATCT
Found at i:8559243 original size:31 final size:32
Alignment explanation
Indices: 8559200--8559259 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
8559190 TATTTTTATC
8559200 TATTATTATTATTT-TTTAGTTATCTATTAATA
1 TATTATTATTATTTATTTA-TTATCTATTAATA
*
8559232 TATT-TTATTATTTATTTATTATTTATTA
1 TATTATTATTATTTATTTATTATCTATTA
8559260 TTTTTATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (32 bp):
TATTATTATTATTTATTTATTATCTATTAATA
Found at i:8559538 original size:12 final size:12
Alignment explanation
Indices: 8559521--8559546 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8559511 CAGTTTAGAA
8559521 TTTTTAGAATTT
1 TTTTTAGAATTT
8559533 TTTTTAGAATTT
1 TTTTTAGAATTT
8559545 TT
1 TT
8559547 CGGTGGCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTTAGAATTT
Found at i:8560008 original size:12 final size:11
Alignment explanation
Indices: 8559992--8560064 Score: 67
Period size: 12 Copynumber: 6.3 Consensus size: 11
8559982 GATTGATTGA
8559992 TTTATTATTAT
1 TTTATTATTAT
8560003 TATTATTATTAT
1 T-TTATTATTAT
*
8560015 TCCTTAATTTTTAT
1 T--TT-ATTATTAT
* *
8560029 CTTAATTTTTAT
1 -TTTATTATTAT
8560041 TTTATT-TTAT
1 TTTATTATTAT
8560051 TTTATTATTAT
1 TTTATTATTAT
8560062 TTT
1 TTT
8560065 TTAATGATTC
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
10 10 0.19
11 13 0.25
12 19 0.36
13 3 0.06
14 7 0.13
15 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:8560045 original size:5 final size:5
Alignment explanation
Indices: 8560035--8560064 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
8560025 TTATCTTAAT
8560035 TTTTA TTTTA TTTTA TTTTA TTATTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTT
8560065 TTAATGATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:8560162 original size:73 final size:73
Alignment explanation
Indices: 8560081--8560220 Score: 178
Period size: 73 Copynumber: 1.9 Consensus size: 73
8560071 ATTCTCCTTA
* * *
8560081 AAAAT-AAAATTCT-AAAAAATA-TATTTTTAGGAAAAAGTTGAAAGCATCAATTTTTTTTAAAA
1 AAAATAAAAATTCTCAAAAAA-AGTA-TTTT-GAAAAAAGTTGAAAGCATCAATTCTCTTTAAAA
8560143 ATAAAGTTTCT
63 ATAAAGTTTCT
* * *
8560154 AAAATAAAAATTTTCAAAAAAAGTATTTTGAAAAAAGTTGAAAGTATCAATTCTCTTTAAAATTA
1 AAAATAAAAATTCTCAAAAAAAGTATTTTGAAAAAAGTTGAAAGCATCAATTCTCTTTAAAAATA
8560219 AA
66 AA
8560221 ATGGAAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
73 38 0.66
74 12 0.21
75 8 0.14
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (73 bp):
AAAATAAAAATTCTCAAAAAAAGTATTTTGAAAAAAGTTGAAAGCATCAATTCTCTTTAAAAATA
AAGTTTCT
Found at i:8560261 original size:61 final size:59
Alignment explanation
Indices: 8560169--8560342 Score: 183
Period size: 61 Copynumber: 2.9 Consensus size: 59
8560159 AAAAATTTTC
* *
8560169 AAAAAAAGTATTTTGAAAAAAGTTGAAAGTATCAA-TTCTCTTTAAAATTAAAA-TGGAA
1 AAAAAAAATATTTTGAAAAAAGTTGAAAGTATCAATTTCTC-TTAAAATTAAAATTGCAA
* * * * *
8560227 AAAAAAATATATTTTTGGAAAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAATTTCAG
1 AAAAAAA-ATA-TTTT-GAAAAAAGTTGAAAGTATCAATTTCTCTTAAAATTAAAATTGCAA
* * *
8560289 AAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAACTTT-ACTTAAAAATAAAA
1 AAAAAAAATATTTTGA-AAAAAGTTGAAAGTATCAA-TTTCTCTTAAAATTAAAA
8560343 ATTATCAATA
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
58 7 0.07
59 4 0.04
60 36 0.37
61 37 0.38
62 13 0.13
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (59 bp):
AAAAAAAATATTTTGAAAAAAGTTGAAAGTATCAATTTCTCTTAAAATTAAAATTGCAA
Found at i:8560304 original size:120 final size:119
Alignment explanation
Indices: 8560169--8560393 Score: 287
Period size: 120 Copynumber: 1.9 Consensus size: 119
8560159 AAAAATTTTC
* * * *
8560169 AAAAAAAGTATTTTGA-AAAAAGTTGAAAGTATCAA-TTCT-CTTTAAAATTAAAATGGA-AAAA
1 AAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAACTT-TACTTAAAAATAAAAAT-GACAAAA
* **
8560230 AAAATATATTTTTGGAAAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAATTTCAG
64 AAAACAT-TTTAAGG--AAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAATTTCAG
* *
8560289 AAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAACTTTACTTAAAAATAAAAATTATCAATAA
1 AAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAACTTTACTTAAAAATAAAAATGA-CAAAAA
8560354 AAACATTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTG
65 AAACATTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTG
8560394 TACAAAAGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
120 42 0.46
121 20 0.22
122 20 0.22
123 9 0.10
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (119 bp):
AAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAACTTTACTTAAAAATAAAAATGACAAAAAA
AACATTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAATTTCAG
Found at i:8560342 original size:60 final size:57
Alignment explanation
Indices: 8560149--8560387 Score: 200
Period size: 60 Copynumber: 4.1 Consensus size: 57
8560139 AAAAATAAAG
* *
8560149 TTTC-TAAAATAAAAATTTTC-AAAAAAAGTATTTTGA-AAAAAGTTGAAAGTATCAA
1 TTTCTTAAAATTAAAA-TTTCAAAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAA
*** *
8560204 TTCTCTTTAAAATTAAAATGGAAAAAAAAATATATTTTTG-GAAAAAAGTTGAAAGTATTAA
1 TT-TC-TTAAAATTAAAATTTCAAAAAAAA-ATA-TTTTGAG-AAAAAGTTGAAAGTATCAA
* *
8560265 TTTTTCTTGAAATTAAAATTTCAGAAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAA
1 --TTTCTTAAAATTAAAATTTCA-AAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAA
* * * * * *
8560325 CTTTACTTAAAAATAAAAATTATC-AATAAAAACATTTTAAGGAAAAGTTGAAAGTATTAA
1 -TTT-CTT-AAAATTAAAATT-TCAAAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAA
8560385 TTT
1 TTT
8560388 TTCTTGTACA
Statistics
Matches: 148, Mismatches: 21, Indels: 26
0.76 0.11 0.13
Matches are distributed among these distances:
55 2 0.01
56 2 0.01
57 1 0.01
58 17 0.11
59 8 0.05
60 60 0.41
61 45 0.30
62 11 0.07
63 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (57 bp):
TTTCTTAAAATTAAAATTTCAAAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAA
Found at i:8563524 original size:14 final size:15
Alignment explanation
Indices: 8563505--8563537 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8563495 CAAACTATTT
*
8563505 TATGATTAT-AACTC
1 TATGATAATAAACTC
8563519 TATGATAATAAACTC
1 TATGATAATAAACTC
8563534 TATG
1 TATG
8563538 TAAACGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (15 bp):
TATGATAATAAACTC
Found at i:8571637 original size:21 final size:20
Alignment explanation
Indices: 8571598--8571637 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8571588 ATTAACTAGC
*
8571598 ATTTGCATAGCATGCATTGA
1 ATTTGCATAGCATACATTGA
*
8571618 ATTTCGCATAGCATATATTG
1 ATTT-GCATAGCATACATTG
8571638 CATTCAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ATTTGCATAGCATACATTGA
Found at i:8571961 original size:43 final size:42
Alignment explanation
Indices: 8571888--8571969 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
8571878 CCAAGGAGCA
* *
8571888 ATTTATTTTCTTAAAGTTTTGTTGCCTCTATTTAGAGGAACC
1 ATTTATTTTCTTAAAGTTCTGTTACCTCTATTTAGAGGAACC
*
8571930 ATTTATTTT-TTCAAAAGTTCTGTTACTTCTATTTAGAGGA
1 ATTTATTTTCTT--AAAGTTCTGTTACCTCTATTTAGAGGA
8571970 GCTTTATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 2 0.06
42 9 0.26
43 24 0.69
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (42 bp):
ATTTATTTTCTTAAAGTTCTGTTACCTCTATTTAGAGGAACC
Found at i:8572007 original size:42 final size:42
Alignment explanation
Indices: 8571961--8572088 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 42
8571951 GTTACTTCTA
8571961 TTTAGAGGAGCTTTATTTATTTTAAAAGTCGTTGAGCCTCTG
1 TTTAGAGGAGCTTTATTTATTTTAAAAGTCGTTGAGCCTCTG
* * *
8572003 TTTAGAGGAG--TAATTTATTTTTCAAAAGTCATCGAGCCTCTG
1 TTTAGAGGAGCTTTATTTA-TTTT-AAAAGTCGTTGAGCCTCTG
* * *
8572045 CTTAGAGGAACTTTGTTTATTTTACTCAAAGTCGTTGAGCCTCT
1 TTTAGAGGAGCTTTATTTATTTTA---AAAGTCGTTGAGCCTCT
8572089 ACTTAAAAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
40 6 0.09
41 4 0.06
42 36 0.51
43 4 0.06
44 5 0.07
45 15 0.21
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (42 bp):
TTTAGAGGAGCTTTATTTATTTTAAAAGTCGTTGAGCCTCTG
Found at i:8572303 original size:5 final size:5
Alignment explanation
Indices: 8572289--8572322 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
8572279 CATTTTTCTT
*
8572289 TTTAA TTTTAA TTTAA TTCAA TTTAA TTTAA TTT
1 TTTAA -TTTAA TTTAA TTTAA TTTAA TTTAA TTT
8572323 TTAATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:8572347 original size:3 final size:3
Alignment explanation
Indices: 8572329--8572465 Score: 75
Period size: 3 Copynumber: 43.3 Consensus size: 3
8572319 ATTTTTAATT
* * *
8572329 TTA TTA TTT TTCA TTA TTA TTA TGA TTA TTA TTA TTT TTA TTTA TCTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA
* *
8572377 TTA ATA TTA TTTA TTTA TTTA TCTA TTG TTA TTA TT- TT- TTA GTTA
1 TTA TTA TTA -TTA -TTA -TTA T-TA TTA TTA TTA TTA TTA TTA -TTA
* * *
8572422 TCTA TTA ATA -TA TT- TTA TTA TTTA TCTA TTA TTT TTA TTT TTA T
1 T-TA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA T
8572466 CTTTTTTCTT
Statistics
Matches: 107, Mismatches: 15, Indels: 24
0.73 0.10 0.16
Matches are distributed among these distances:
2 8 0.07
3 65 0.61
4 34 0.32
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8572436 original size:48 final size:49
Alignment explanation
Indices: 8572353--8572463 Score: 165
Period size: 48 Copynumber: 2.3 Consensus size: 49
8572343 TATTATTATG
*
8572353 ATTATTATTA-TTTTTATTTATCTATTAATATTA-TTTATTTATTTATCT
1 ATTATTATTATTTTTTAGTTATCTATTAATATTATTTTA-TTATTTATCT
*
8572401 ATTGTTATTATTTTTTAGTTATCTATTAATA-TATTTTATTATTTATCT
1 ATTATTATTATTTTTTAGTTATCTATTAATATTATTTTATTATTTATCT
*
8572449 ATTATTTTTATTTTT
1 ATTATTATTATTTTT
8572464 ATCTTTTTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
48 34 0.60
49 23 0.40
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (49 bp):
ATTATTATTATTTTTTAGTTATCTATTAATATTATTTTATTATTTATCT
Found at i:8573264 original size:5 final size:5
Alignment explanation
Indices: 8573254--8573286 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
8573244 TTATCTTAAT
8573254 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
8573287 TTAATGATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:8573287 original size:15 final size:15
Alignment explanation
Indices: 8573242--8573287 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
8573232 ATTCCTTAAT
8573242 TTTTATCTTAATTTTTA
1 TTTTAT-TT-ATTTTTA
8573259 TTTTATTT-TATTTTA
1 TTTTATTTAT-TTTTA
8573274 TTTTATTTATTTTT
1 TTTTATTTATTTTT
8573288 TAATGATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 17 0.63
16 3 0.11
17 6 0.22
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:8573380 original size:73 final size:71
Alignment explanation
Indices: 8573303--8573517 Score: 245
Period size: 70 Copynumber: 3.0 Consensus size: 71
8573293 ATTCTCCTTA
* * *
8573303 AAAATAAAATTATAAAAAAAATATTTTTAAGAAAAAGTTGAAAGCATCAATTTTTCTTAAAAATA
1 AAAATAAAATTTTAAAAAAAGTA-TTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAATA
*
8573368 AAGTTTCT
64 AAATTTCT
* * * *
8573376 AAAATAAAAATTTTCAAAAAAAGCATTTT-GGAAAAAGTTGAAAGTATCAATTTTT-TTATAGTA
1 AAAAT-AAAATTTT-AAAAAAAGTATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATA
*
8573439 AAATTCCT
64 AAATTTCT
* ** * *
8573447 AAAATAAATTTTTTCAAAAAGTATTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAATTAA
1 AAAATAAAATTTTAAAAAAAGTATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAA
8573512 AATTTC
65 AATTTC
8573518 AGAAAAAAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
69 11 0.09
70 31 0.26
71 17 0.14
72 12 0.10
73 29 0.24
74 11 0.09
75 8 0.07
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (71 bp):
AAAATAAAATTTTAAAAAAAGTATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAA
ATTTCT
Found at i:8573492 original size:70 final size:73
Alignment explanation
Indices: 8573303--8573515 Score: 238
Period size: 73 Copynumber: 3.0 Consensus size: 73
8573293 ATTCTCCTTA
* * * *
8573303 AAAAT-AAAATTATAAAAAAAATATTTTTAAGAAAAAGTTGAAAGCATCAATTTTTCTTAAAAAT
1 AAAATAAAAATTTTCAAAAAAGTA-TTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
* *
8573367 AAAGTTTCT
65 AAAATTCCT
* * * *
8573376 AAAATAAAAATTTTCAAAAAAAGCATTTT-GGAAAAAGTTGAAAGTATCAATTTTT-TT-ATAGT
1 AAAATAAAAATTTTC-AAAAAAGTATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
8573438 AAAATTCCT
65 AAAATTCCT
** * * *
8573447 AAAATAAATTTTTTC-AAAAAGTATTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAATTA
1 AAAATAAAAATTTTCAAAAAAGTATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
8573511 AAATT
66 AAATT
8573516 TCAGAAAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
69 11 0.09
70 24 0.20
71 25 0.21
72 11 0.09
73 29 0.25
74 11 0.09
75 7 0.06
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (73 bp):
AAAATAAAAATTTTCAAAAAAGTATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
AAATTCCT
Found at i:8573525 original size:59 final size:59
Alignment explanation
Indices: 8573462--8573635 Score: 217
Period size: 59 Copynumber: 2.9 Consensus size: 59
8573452 AAATTTTTTC
* * * *
8573462 AAAAAGTATTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAATTAAAATTTCAGAAA
1 AAAAA-TATTTTAAGAAAAAGTTGAAAGTATCAAATTTTTTTAAAATAAAAATTTCA-AAG
* *
8573523 AAAAATATTTTGAGAAAAAGTTGAAAGTA-CCAATTTTTTTAAAAATAAAAATTATC-AAG
1 AAAAATATTTTAAGAAAAAGTTGAAAGTATCAAATTTTTTT-AAAATAAAAATT-TCAAAG
* * *
8573582 AAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTTTTTAAATAAAAATTT
1 AAAAATATTTTAAGAAAAAGTTGAAAGTATCAAATTTTTTTAAAATAAAAATTT
8573636 TTGAATGCTT
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
58 1 0.01
59 49 0.49
60 42 0.42
61 7 0.07
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.35
Consensus pattern (59 bp):
AAAAATATTTTAAGAAAAAGTTGAAAGTATCAAATTTTTTTAAAATAAAAATTTCAAAG
Found at i:8581619 original size:61 final size:60
Alignment explanation
Indices: 8581539--8581712 Score: 172
Period size: 61 Copynumber: 2.9 Consensus size: 60
8581529 CACATATTTT
*
8581539 TAAAAAATTACAATAAACAATTATTGTATTTAATTTAAAAAAACATAATAATTAATTATTG
1 TAAAAAATTATAATAAACAATTATTGTATTTAATTT-AAAAAACATAATAATTAATTATTG
* * * ** * * *
8581600 TAAAAAATTATAATTAACAAATATTGCATTT-ATTTTTAAAACATAATATTTTATTATTT
1 TAAAAAATTATAATAAACAATTATTGTATTTAATTTAAAAAACATAATAATTAATTATTG
* ** * * * *
8581659 TAAATAAATTATAATGATTAATTATTATATTTATTTTTAAAAA-ATAATTATTAA
1 TAAA-AAATTATAATAAACAATTATTGTATTTAATTTAAAAAACATAATAATTAA
8581713 GCTTTTTACA
Statistics
Matches: 91, Mismatches: 20, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
59 23 0.25
60 33 0.36
61 35 0.38
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.44
Consensus pattern (60 bp):
TAAAAAATTATAATAAACAATTATTGTATTTAATTTAAAAAACATAATAATTAATTATTG
Found at i:8581693 original size:60 final size:59
Alignment explanation
Indices: 8581578--8581712 Score: 162
Period size: 60 Copynumber: 2.3 Consensus size: 59
8581568 TTAATTTAAA
* *
8581578 AAAACATAATAATTAATTATTGTAAAAAATTATAATTAACAAATATTGCATTTATTTTT
1 AAAACATAATAATTAATTATTGTAAAAAATTATAATGAACAAATATTACATTTATTTTT
* * * ** * *
8581637 AAAACATAATATTTTATTATTTTAAATAAATTATAATGATTAATTATTATATTTATTTTT
1 AAAACATAATAATTAATTATTGTAAA-AAATTATAATGAACAAATATTACATTTATTTTT
* *
8581697 AAAAAATAATTATTAA
1 AAAACATAATAATTAA
8581713 GCTTTTTACA
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
59 23 0.37
60 39 0.63
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (59 bp):
AAAACATAATAATTAATTATTGTAAAAAATTATAATGAACAAATATTACATTTATTTTT
Found at i:8584562 original size:22 final size:22
Alignment explanation
Indices: 8584536--8584612 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
8584526 AGTGTCAATG
8584536 ATATTTTAGTAATATTCTGATA
1 ATATTTTAGTAATATTCTGATA
*
8584558 ATATTTTAG-ATTTATGTCAATGATA
1 ATATTTTAGTA-ATAT-TC--TGATA
* * **
8584583 TTATTCTAGTAATATTCCAATA
1 ATATTTTAGTAATATTCTGATA
8584605 ATATTTTA
1 ATATTTTA
8584613 TATTGATTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
21 1 0.02
22 21 0.50
23 2 0.05
24 2 0.05
25 15 0.36
26 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.49
Consensus pattern (22 bp):
ATATTTTAGTAATATTCTGATA
Found at i:8594687 original size:24 final size:24
Alignment explanation
Indices: 8594641--8594693 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
8594631 GAAAGAATGT
*
8594641 TATGTAAAGATATGATATGATATA
1 TATGTAAAGATATAATATGATATA
*
8594665 TATGTAAAGATTTAA-AT-ATATA
1 TATGTAAAGATATAATATGATATA
*
8594687 TTTGTAA
1 TATGTAA
8594694 TATGTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 11 0.42
23 2 0.08
24 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (24 bp):
TATGTAAAGATATAATATGATATA
Found at i:8595712 original size:3 final size:3
Alignment explanation
Indices: 8595704--8595749 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
8595694 TGATCATTCC
8595704 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8595750 GTGAATAGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8606123 original size:28 final size:25
Alignment explanation
Indices: 8606062--8606124 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 25
8606052 ACTTTTTTTC
*
8606062 AATCTTAATTATAATTTTTATTTTT
1 AATCTTAATTATAATTTTTATTATT
*
8606087 AATCATAATTATAATATATTTTATTATT
1 AATCTTAATTAT-A-AT-TTTTATTATT
*
8606115 AATTTTAATT
1 AATCTTAATT
8606125 TTACTGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 11 0.35
26 1 0.03
27 2 0.06
28 17 0.55
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
AATCTTAATTATAATTTTTATTATT
Found at i:8612798 original size:3 final size:3
Alignment explanation
Indices: 8612790--8612831 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8612780 TATTTGGGTG
8612790 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8612832 TATTATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8619841 original size:188 final size:181
Alignment explanation
Indices: 8619526--8619881 Score: 455
Period size: 188 Copynumber: 1.9 Consensus size: 181
8619516 CAATTTTGTC
* * * *
8619526 TTGTATATCACCGCTTTTAAATTAGTATTAACAATTTGAACATATAATTGGTTCTTTTCATTAAA
1 TTGTATATCACCCCTTTTAAATTAGTATTAACAATTTGAACATATAAATGGTGCTTCTCATTAAA
* * * *
8619591 CCTAAAAATTGCACATGGAATTTCCATTTCATCTTGTTGAGGATATTTTATGTATTGGCCATTGT
66 CCTAAAAATTGCACATGCAATTTCCATTTAATCTTGTTGAGGATATTTTATGTATAGGCCATTGG
* * *
8619656 TTGCT-GCCAGTTGGAAAATTTAATGTTTATGATTTACTCGGCATTTTTTTT
131 CTG-TGGCCAGATGGAAAATTTAATGTTTAAGATTTACTCGGCATTTTTTTT
* * *
8619707 TTGTATATCACCCCTTTTAATTTAGTATTATCAATTTGAACAGTTTAAATGGTGCTTCTCATTAA
1 TTGTATATCACCCCTTTTAAATTAGTATTAACAATTTGAACA-TATAAATGGTGCTTCTCATTAA
* *
8619772 ACCTGAAAATCACGTGTGGA-ATTTCAATTTCCATTTAATCTTGTTGAGGATATTTTATGTATAG
65 ACCT-AAAA--A--T-TGCACA-TGCAATTTCCATTTAATCTTGTTGAGGATATTTTATGTATAG
**
8619836 GCCATTGGCTGTGGCCAGATGGAATTTTTAATGTTTAAGATTTACT
123 GCCATTGGCTGTGGCCAGATGGAAAATTTAATGTTTAAGATTTACT
8619882 ATAATTTTTC
Statistics
Matches: 148, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
181 39 0.26
182 22 0.15
183 4 0.03
185 1 0.01
187 3 0.02
188 79 0.53
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (181 bp):
TTGTATATCACCCCTTTTAAATTAGTATTAACAATTTGAACATATAAATGGTGCTTCTCATTAAA
CCTAAAAATTGCACATGCAATTTCCATTTAATCTTGTTGAGGATATTTTATGTATAGGCCATTGG
CTGTGGCCAGATGGAAAATTTAATGTTTAAGATTTACTCGGCATTTTTTTT
Found at i:8624633 original size:12 final size:12
Alignment explanation
Indices: 8624616--8624644 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8624606 TTAAGACGAT
8624616 CCTAAAAAGTAA
1 CCTAAAAAGTAA
8624628 CCTAAAAAGTAA
1 CCTAAAAAGTAA
8624640 CCTAA
1 CCTAA
8624645 CTGCATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (12 bp):
CCTAAAAAGTAA
Found at i:8628604 original size:19 final size:19
Alignment explanation
Indices: 8628580--8628618 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
8628570 TTCATTTACG
*
8628580 AGAATACAACATAATTTTT
1 AGAATACAACATAAATTTT
* *
8628599 AGAATATAATATAAATTTT
1 AGAATACAACATAAATTTT
8628618 A
1 A
8628619 AAAATTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
AGAATACAACATAAATTTT
Found at i:8635279 original size:16 final size:16
Alignment explanation
Indices: 8635258--8635289 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8635248 TCTATAAAAA
8635258 ACATAAATGAGTTATT
1 ACATAAATGAGTTATT
8635274 ACATAAATGAGTTATT
1 ACATAAATGAGTTATT
8635290 TTTTTAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
ACATAAATGAGTTATT
Found at i:8639386 original size:32 final size:30
Alignment explanation
Indices: 8639350--8639408 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
8639340 AAAATCTAAA
*
8639350 AATTTTAAAAATTCATAATTTAAAAAAAATTG
1 AATTTT-AAAATTCA-AAATTAAAAAAAATTG
* *
8639382 AATTTTTAAATTTAAAATTAAAAAAAA
1 AATTTTAAAATTCAAAATTAAAAAAAA
8639409 GCAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.50
31 6 0.25
32 6 0.25
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (30 bp):
AATTTTAAAATTCAAAATTAAAAAAAATTG
Found at i:8640714 original size:21 final size:21
Alignment explanation
Indices: 8640675--8640714 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8640665 TTTTTTTAGG
*
8640675 TTTGGGGTTTTAGAGTTTTGA
1 TTTGGGGTTTAAGAGTTTTGA
8640696 TTTGAGGGTTTAAGA-TTTT
1 TTTG-GGGTTTAAGAGTTTT
8640715 AAGGTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (21 bp):
TTTGGGGTTTAAGAGTTTTGA
Found at i:8640747 original size:16 final size:15
Alignment explanation
Indices: 8640728--8640950 Score: 91
Period size: 14 Copynumber: 14.7 Consensus size: 15
8640718 GTTTTCAGTT
8640728 TTTAGGGTTTGAAAGG
1 TTTAGGGTTT-AAAGG
8640744 TTTAGGGTTTAAAGG
1 TTTAGGGTTTAAAGG
*
8640759 ATTTAGGGTTT-TAGTG
1 -TTTAGGGTTTAAAG-G
*
8640775 TTTAAGGTTTAAAGG
1 TTTAGGGTTTAAAGG
* ** *
8640790 GTTAGGGTTTTGA-T
1 TTTAGGGTTTAAAGG
* * *
8640804 TTTACGGTTTAGAGT
1 TTTAGGGTTTAAAGG
* *
8640819 TTTAGGGTTTAGA-T
1 TTTAGGGTTTAAAGG
* **
8640833 TTTAAGGTTT-GGGG
1 TTTAGGGTTTAAAGG
* * *
8640847 TTTAAGGTTTAGA-T
1 TTTAGGGTTTAAAGG
*
8640861 TTTAGGGTTTGAATGG
1 TTTAGGGTTT-AAAGG
* * *
8640877 TTTATGGTTTAGA-T
1 TTTAGGGTTTAAAGG
*
8640891 TTTAGGGTTTGAATGG
1 TTTAGGGTTT-AAAGG
* *
8640907 TTTAGAGTTT-TAGTG
1 TTTAGGGTTTAAAG-G
*
8640922 TTTGGGGGTTTAAAGGG
1 TTT-AGGGTTTAAA-GG
8640939 TTTAGGGCTTTA
1 TTTAGGG-TTTA
8640951 GTGTTTTGAT
Statistics
Matches: 156, Mismatches: 36, Indels: 29
0.71 0.16 0.13
Matches are distributed among these distances:
13 1 0.01
14 49 0.31
15 47 0.30
16 49 0.31
17 9 0.06
18 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (15 bp):
TTTAGGGTTTAAAGG
Found at i:8640797 original size:30 final size:29
Alignment explanation
Indices: 8640744--8640951 Score: 170
Period size: 30 Copynumber: 6.9 Consensus size: 29
8640734 GTTTGAAAGG
8640744 TTTAGGGTTTAAAGGATTTAGGGTTTTAG-T
1 TTTAGGGTTTAAAGG-TTTAGGG-TTTAGAT
* * *
8640774 GTTTAAGGTTTAAAGGGTTAGGGTTTTGAT
1 -TTTAGGGTTTAAAGGTTTAGGGTTTAGAT
* * *
8640804 TTTACGGTTTAGAGTTTTAGGGTTTAGAT
1 TTTAGGGTTTAAAGGTTTAGGGTTTAGAT
* ** *
8640833 TTTAAGGTTT-GGGGTTTAAGGTTTAGAT
1 TTTAGGGTTTAAAGGTTTAGGGTTTAGAT
* *
8640861 TTTAGGGTTTGAATGGTTTATGGTTTAGAT
1 TTTAGGGTTT-AAAGGTTTAGGGTTTAGAT
* *
8640891 TTTAGGGTTTGAATGGTTTAGAGTTTTAG-T
1 TTTAGGGTTT-AAAGGTTTAG-GGTTTAGAT
*
8640921 GTTTGGGGGTTTAAAGGGTTTAGGGCTTTAG
1 -TTT-AGGGTTTAAA-GGTTTAGGG-TTTAG
8640952 TGTTTTGATT
Statistics
Matches: 148, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
28 24 0.16
29 37 0.25
30 43 0.29
31 26 0.18
32 18 0.12
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (29 bp):
TTTAGGGTTTAAAGGTTTAGGGTTTAGAT
Found at i:8640841 original size:14 final size:14
Alignment explanation
Indices: 8640682--8640900 Score: 111
Period size: 14 Copynumber: 14.8 Consensus size: 14
8640672 AGGTTTGGGG
* *
8640682 TTTTAGAGTTTTGA
1 TTTTAGGGTTTAGA
*
8640696 TTTGAGGGTTTAAGA
1 TTTTAGGGTTT-AGA
* *
8640711 TTTTAAGGTTTTCAGT
1 TTTT-AGGGTTT-AGA
*
8640727 TTTTAGGGTTTGAAA
1 TTTTAGGGTTT-AGA
*
8640742 GGTTTAGGGTTTAAAGGA
1 -TTTTAGGGTTT--A-GA
8640760 -TTTAGGGTTTTAG-
1 TTTTAGGG-TTTAGA
* *
8640773 TGTTTAAGGTTTAAA
1 T-TTTAGGGTTTAGA
** *
8640788 GGGTTAGGGTTTTGA
1 -TTTTAGGGTTTAGA
*
8640803 TTTTACGGTTTAGA
1 TTTTAGGGTTTAGA
8640817 GTTTTAGGGTTTAGA
1 -TTTTAGGGTTTAGA
* * *
8640832 TTTTAAGGTTTGGG
1 TTTTAGGGTTTAGA
* *
8640846 GTTTAAGGTTTAGA
1 TTTTAGGGTTTAGA
8640860 TTTTAGGGTTT-GAA
1 TTTTAGGGTTTAG-A
*
8640874 TGGTTTATGGTTTAGA
1 T--TTTAGGGTTTAGA
8640890 TTTTAGGGTTT
1 TTTTAGGGTTT
8640901 GAATGGTTTA
Statistics
Matches: 154, Mismatches: 36, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
13 1 0.01
14 66 0.43
15 41 0.27
16 40 0.26
17 5 0.03
18 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (14 bp):
TTTTAGGGTTTAGA
Found at i:8640842 original size:58 final size:58
Alignment explanation
Indices: 8640760--8640900 Score: 146
Period size: 58 Copynumber: 2.4 Consensus size: 58
8640750 GTTTAAAGGA
* * *
8640760 TTTAGGGTTTTAG-TGTTTAAGGTTTAAAGGG-TTAGGGTTTTGATTTTACGGTTT-AGA-GT
1 TTTAGGG-TTTAGAT-TTTAAGGTTT--AGGGTTTAAGGTTTAGATTTTACGGTTTGA-ATGG
* *
8640819 TTTAGGGTTTAGATTTTAAGGTTTGGGGTTTAAGGTTTAGATTTTAGGGTTTGAATGG
1 TTTAGGGTTTAGATTTTAAGGTTTAGGGTTTAAGGTTTAGATTTTACGGTTTGAATGG
* *
8640877 TTTATGGTTTAGATTTTAGGGTTT
1 TTTAGGGTTTAGATTTTAAGGTTT
8640901 GAATGGTTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
56 3 0.04
57 21 0.30
58 39 0.55
59 8 0.11
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (58 bp):
TTTAGGGTTTAGATTTTAAGGTTTAGGGTTTAAGGTTTAGATTTTACGGTTTGAATGG
Found at i:8640880 original size:23 final size:24
Alignment explanation
Indices: 8640809--8640925 Score: 95
Period size: 21 Copynumber: 4.9 Consensus size: 24
8640799 TTGATTTTAC
8640809 GGTTTAGAGTTTTAGGGTTT-AGAT
1 GGTTTAGAGTTTTAGGGTTTGA-AT
* *
8640833 --TTTA-AGGTTTGGGGTTT-AA-
1 GGTTTAGAGTTTTAGGGTTTGAAT
8640852 GGTTTAGA-TTTTAGGGTTTGAAT
1 GGTTTAGAGTTTTAGGGTTTGAAT
8640875 GGTTTATGGTTTAGATTTTAGGGTTTGAAT
1 GGTTTA--G---AG-TTTTAGGGTTTGAAT
*
8640905 GGTTTAGAGTTTTAGTGTTTG
1 GGTTTAGAGTTTTAGGGTTTG
8640926 GGGGTTTAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
20 1 0.01
21 25 0.33
22 7 0.09
23 6 0.08
24 11 0.14
25 3 0.04
28 2 0.03
30 21 0.28
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.49
Consensus pattern (24 bp):
GGTTTAGAGTTTTAGGGTTTGAAT
Found at i:8640924 original size:24 final size:23
Alignment explanation
Indices: 8640880--8640925 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
8640870 TGAATGGTTT
8640880 ATGGTTTAGATTTTAGGGTTTGA
1 ATGGTTTAGATTTTAGGGTTTGA
*
8640903 ATGGTTTAGAGTTTTAGTGTTTG
1 ATGGTTTAGA-TTTTAGGGTTTG
8640926 GGGGTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (23 bp):
ATGGTTTAGATTTTAGGGTTTGA
Found at i:8640931 original size:23 final size:23
Alignment explanation
Indices: 8640882--8640933 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
8640872 AATGGTTTAT
*
8640882 GGTTTAGATTTTAGGGTTTGAAT
1 GGTTTAGATTTTAGGGTTTGAAG
* *
8640905 GGTTTAGAGTTTTAGTGTTTG-GG
1 GGTTTAGA-TTTTAGGGTTTGAAG
8640928 GGTTTA
1 GGTTTA
8640934 AAGGGTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (23 bp):
GGTTTAGATTTTAGGGTTTGAAG
Found at i:8640941 original size:32 final size:32
Alignment explanation
Indices: 8640895--8640956 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
8640885 TTAGATTTTA
* * *
8640895 GGGTTTGAATGGTTTAGAGTTTTAGTGTTTGG
1 GGGTTTAAAGGGTTTAGAGCTTTAGTGTTTGG
*
8640927 GGGTTTAAAGGGTTTAGGGCTTTAGTGTTT
1 GGGTTTAAAGGGTTTAGAGCTTTAGTGTTT
8640957 TGATTTTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.45
Consensus pattern (32 bp):
GGGTTTAAAGGGTTTAGAGCTTTAGTGTTTGG
Found at i:8640950 original size:8 final size:7
Alignment explanation
Indices: 8640728--8640956 Score: 73
Period size: 7 Copynumber: 30.4 Consensus size: 7
8640718 GTTTTCAGTT
8640728 TTTAGGG
1 TTTAGGG
*
8640735 TTTGAAAGG
1 TTT--AGGG
8640744 TTTAGGG
1 TTTAGGG
*
8640751 TTTAAAGGA
1 TTT--AGGG
8640760 TTTAGGG
1 TTTAGGG
*
8640767 TTTTAGTG
1 -TTTAGGG
*
8640775 TTTAAGG
1 TTTAGGG
8640782 TTTAAAGGG
1 TTT--AGGG
8640791 -TTAGGG
1 TTTAGGG
* **
8640797 TTTTGAT
1 TTTAGGG
*
8640804 TTTACGG
1 TTTAGGG
*
8640811 TTTAGAGT
1 TTTAG-GG
8640819 TTTAGGG
1 TTTAGGG
**
8640826 TTTAGAT
1 TTTAGGG
*
8640833 TTTAAGG
1 TTTAGGG
*
8640840 TTTGGGG
1 TTTAGGG
*
8640847 TTTAAGG
1 TTTAGGG
**
8640854 TTTAGAT
1 TTTAGGG
8640861 TTTAGGG
1 TTTAGGG
*
8640868 TTTGAATGG
1 TTT--AGGG
*
8640877 TTTATGG
1 TTTAGGG
**
8640884 TTTAGAT
1 TTTAGGG
8640891 TTTAGGG
1 TTTAGGG
*
8640898 TTTGAATGG
1 TTT--AGGG
*
8640907 TTTAGAGT
1 TTTAG-GG
*
8640915 TTTAGTG
1 TTTAGGG
*
8640922 TTTGGGGG
1 TTT-AGGG
8640930 TTTAAAGGG
1 TTT--AGGG
8640939 TTTAGGG
1 TTTAGGG
*
8640946 CTTTAGTG
1 -TTTAGGG
8640954 TTT
1 TTT
8640957 TGATTTTAGG
Statistics
Matches: 157, Mismatches: 48, Indels: 34
0.66 0.20 0.14
Matches are distributed among these distances:
6 4 0.03
7 89 0.57
8 31 0.20
9 33 0.21
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:8641366 original size:3 final size:3
Alignment explanation
Indices: 8641340--8641409 Score: 77
Period size: 3 Copynumber: 23.3 Consensus size: 3
8641330 AATCAAATTT
* * * * * * *
8641340 TTA TTA TTG TTG TTG TTA TCA TTA TTA TTA TTA CTA CTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8641388 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
8641410 AAAACAATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:8642168 original size:24 final size:22
Alignment explanation
Indices: 8642141--8642195 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 22
8642131 ACGGGAACTA
8642141 GGGTTTCTAGGTGTGGGATAGCTT
1 GGGTTTCTAGGTGTGGG--AGCTT
*
8642165 GGGTTTTTAGGTGTGGGAGCTT
1 GGGTTTCTAGGTGTGGGAGCTT
8642187 GAGGTTTCT
1 G-GGTTTCT
8642196 GAGCATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 6 0.21
23 6 0.21
24 16 0.57
ACGTcount: A:0.11, C:0.07, G:0.42, T:0.40
Consensus pattern (22 bp):
GGGTTTCTAGGTGTGGGAGCTT
Found at i:8642511 original size:3 final size:3
Alignment explanation
Indices: 8642503--8642537 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
8642493 ATTAAATCAA
*
8642503 TAT TAT TAT TATT TAT TAT TAT TAC TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
8642538 TTTCACTACC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8646842 original size:18 final size:19
Alignment explanation
Indices: 8646808--8646854 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
8646798 GATATTTTAT
8646808 TAATTAAAATAATAAAAATA
1 TAATT-AAATAATAAAAATA
* *
8646828 TATTTAAAT-ATAAAAATT
1 TAATTAAATAATAAAAATA
8646846 TAATTAAAT
1 TAATTAAAT
8646855 TCATGAGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.67
19 4 0.17
20 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATTAAATAATAAAAATA
Found at i:8647428 original size:2 final size:2
Alignment explanation
Indices: 8647421--8647453 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8647411 CCGAGGCATC
8647421 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
8647454 GCTACATTGT
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:8650863 original size:7 final size:6
Alignment explanation
Indices: 8650847--8650881 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
8650837 GAGAAAATGT
*
8650847 TTTTTG TTTTTA TTTTTA TTTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTT
8650882 CTAGAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:8650869 original size:13 final size:13
Alignment explanation
Indices: 8650853--8650881 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8650843 ATGTTTTTTG
8650853 TTTTTATTTTTAT
1 TTTTTATTTTTAT
8650866 TTTTTATTTTTAT
1 TTTTTATTTTTAT
8650879 TTT
1 TTT
8650882 CTAGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:8664057 original size:2 final size:2
Alignment explanation
Indices: 8664050--8664085 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8664040 GCATAACTTT
8664050 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8664086 AAACATGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8664177 original size:2 final size:2
Alignment explanation
Indices: 8664170--8664214 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
8664160 ATACAATTTC
* * * *
8664170 TA TA TA TA TA CA CA TA TA TA AA TA TA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8664212 TA T
1 TA T
8664215 TACTGTCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:8664196 original size:18 final size:18
Alignment explanation
Indices: 8664173--8664214 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8664163 CAATTTCTAT
8664173 ATATATACACATATATAA
1 ATATATACACATATATAA
* *
8664191 ATATATACATATATATAT
1 ATATATACACATATATAA
8664209 ATATAT
1 ATATAT
8664215 TACTGTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATATACACATATATAA
Found at i:8664212 original size:16 final size:16
Alignment explanation
Indices: 8664170--8664213 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
8664160 ATACAATTTC
*
8664170 TATATATATACACATA
1 TATATATATATACATA
*
8664186 TATAAATATATACATA
1 TATATATATATACATA
8664202 TATATATATATA
1 TATATATATATA
8664214 TTACTGTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATATATATACATA
Found at i:8664727 original size:2 final size:2
Alignment explanation
Indices: 8664722--8664749 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8664712 AATCTCTCAA
8664722 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
8664750 CCACAATTAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8666513 original size:3 final size:3
Alignment explanation
Indices: 8666505--8666536 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8666495 TTAGAAATTA
8666505 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8666537 GAAGAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8676640 original size:185 final size:187
Alignment explanation
Indices: 8676326--8676702 Score: 446
Period size: 185 Copynumber: 2.0 Consensus size: 187
8676316 ATTCAAGACA
* * *
8676326 TTTTTGGCTAAAAATGCCTTCAATTACCCAATTCAATATTTTTTTAAGAGATTATTTAAGGTATT
1 TTTTTGGCTAAAAACGCCTTCAATAACCCAATTCAATATTTTGTTAAGAGATTATTTAAGGTATT
* * * * *
8676391 TTTTAGACAAAAATACCATCAATAATCTCCTTATGAATGCATGAAAGGGATTATTCAAGGCGTTT
66 TTTTAGACAAAAACACCATCAATAATCTCCTCATCAATACATGAAAGGAATTATTCAAGGCGTTT
* * *
8676456 AATCATAAAAATG-CTTTGAATGAT-CTCAAAAA-AT-TGAATGGGGATTATTAAAGGTG
131 AATCATAAAAACGTC-TTCAATGATCCTAAAAAATATATG-AT-GGGATTATTAAAGGTG
* * *
8676512 TTTTTGGCTAGAAACGCCTTCAATAATCCC-ATTCAATATTTTGTT-AGCGATTGTTTAAGGTAT
1 TTTTTGGCTAAAAACGCCTTCAATAA-CCCAATTCAATATTTTGTTAAGAGATTATTTAAGGTAT
* ** * * **
8676575 TTTTTAGGCAAAAACGTCTTCAATAATCTCCTCA-CAA-ACACTTAAAGGTAATTATTCTGGGCG
65 TTTTTAGACAAAAACACCATCAATAATCTCCTCATCAATACA-TGAAAGG-AATTATTCAAGGCG
*
8676638 TTTTATCATAAAAACGTCTTCAATGATCCTAAAAAATATATGATGGGATTATTAAAGGTG
128 TTTAATCATAAAAACGTCTTCAATGATCCTAAAAAATATATGATGGGATTATTAAAGGTG
8676698 TTTTT
1 TTTTT
8676703 AATAGAAAAT
Statistics
Matches: 162, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
183 2 0.01
184 8 0.05
185 77 0.48
186 66 0.41
187 7 0.04
188 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.37
Consensus pattern (187 bp):
TTTTTGGCTAAAAACGCCTTCAATAACCCAATTCAATATTTTGTTAAGAGATTATTTAAGGTATT
TTTTAGACAAAAACACCATCAATAATCTCCTCATCAATACATGAAAGGAATTATTCAAGGCGTTT
AATCATAAAAACGTCTTCAATGATCCTAAAAAATATATGATGGGATTATTAAAGGTG
Found at i:8677061 original size:294 final size:294
Alignment explanation
Indices: 8676523--8677254 Score: 1180
Period size: 294 Copynumber: 2.5 Consensus size: 294
8676513 TTTTGGCTAG
* * * *
8676523 AAACGCCTTCAATAATCCCATTCAATATTTTGTTAGCGATTGTTTAAGGTATTTTTTAGGCAAAA
1 AAACACCTTCAATAACCCCATTCAATATTTTGTTAGCGATTATTCAAGGTATTTTTTAGGCAAAA
8676588 ACGTCTTCAATAATCTCCTCACAAACACTTAAAGGTAATTATTCTGGGCGTTTTATCATAAAAAC
66 ACGTCTTCAATAATCTCCTCACAAACACTTAAAGGTAATTATTCTGGGCGTTTTATCATAAAAAC
* * * * *
8676653 GTCTTCAATGATCCTAAAAAATATATGATGGGATTATTAAAGGTGTTTTTAATAGAAAATGTCTC
131 ATCTTGAATGATCCCAAAAAATATATGATGGGATTATTAAAGGTGTTTTAAATAGAAAACGTCTC
* *
8676718 GAATAATCTCTTTTAAAAAATTGAAGGGGATTATTGAAGGTAATTTTGACGAAAAATGCCTTCAA
196 GAATAATCTCCTTTAAAAAATTGAAAGGGATTATTGAAGGTAATTTTGACGAAAAATGCCTTCAA
8676783 TAATTT-AGAAATTATTCAAAGCATTTTTTGCCGA
261 TAATTTAAG-AATTATTCAAAGCATTTTTTGCCGA
8676817 AAACACCTTCAATAACCCCATTCAATATTTTGTTAGCGATTATTCAAGGTATTTTTTAGGCAAAA
1 AAACACCTTCAATAACCCCATTCAATATTTTGTTAGCGATTATTCAAGGTATTTTTTAGGCAAAA
*
8676882 ACGTTTTCAATAATCTCCTCACAAACACTTAAAGGTAATTATTCTGGGCGTTTTATCATAAAAAC
66 ACGTCTTCAATAATCTCCTCACAAACACTTAAAGGTAATTATTCTGGGCGTTTTATCATAAAAAC
8676947 ATCTTGAATGATCCCAAAAAATATATGATGGGATTATTAAAGGTGTTTTAAATAGAAAACGTCTC
131 ATCTTGAATGATCCCAAAAAATATATGATGGGATTATTAAAGGTGTTTTAAATAGAAAACGTCTC
*
8677012 GAATAATCTCCTTTAAAAAATTGAAAGGGATTATTGAAGGTATTTTTGACGAAAAATGCCTTCAA
196 GAATAATCTCCTTTAAAAAATTGAAAGGGATTATTGAAGGTAATTTTGACGAAAAATGCCTTCAA
8677077 TAATTTAAGAATTATTCAAAGCATTTTTTGCCGA
261 TAATTTAAGAATTATTCAAAGCATTTTTTGCCGA
* * * *
8677111 AAACACCTTCAATAACCCCATTCAATATTTTTTTAGTGATTATTCAAGGTATTTTTTTGGGTAAA
1 AAACACCTTCAATAACCCCATTCAATATTTTGTTAGCGATTATTCAAGGTA-TTTTTTAGGCAAA
* * ** * * * * * *
8677176 AACGTCTTCAATAATCTTCTCATAAATGCCTAAAAGTGATTATTCTAGGCATTTTATCA-CAAAA
65 AACGTCTTCAATAATCTCCTCACAAACACTTAAAGGTAATTATTCTGGGCGTTTTATCATAAAAA
*
8677240 CATCTTGAATAATCC
130 CATCTTGAATGATCC
8677255 TCTCTAAAAA
Statistics
Matches: 407, Mismatches: 29, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
294 345 0.85
295 62 0.15
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (294 bp):
AAACACCTTCAATAACCCCATTCAATATTTTGTTAGCGATTATTCAAGGTATTTTTTAGGCAAAA
ACGTCTTCAATAATCTCCTCACAAACACTTAAAGGTAATTATTCTGGGCGTTTTATCATAAAAAC
ATCTTGAATGATCCCAAAAAATATATGATGGGATTATTAAAGGTGTTTTAAATAGAAAACGTCTC
GAATAATCTCCTTTAAAAAATTGAAAGGGATTATTGAAGGTAATTTTGACGAAAAATGCCTTCAA
TAATTTAAGAATTATTCAAAGCATTTTTTGCCGA
Found at i:8684711 original size:13 final size:14
Alignment explanation
Indices: 8684693--8684721 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8684683 TTCAAATTGA
8684693 TAATTT-TTATAAT
1 TAATTTCTTATAAT
8684706 TAATTTCTTATAAT
1 TAATTTCTTATAAT
8684720 TA
1 TA
8684722 TTTGGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTTCTTATAAT
Found at i:8687434 original size:21 final size:22
Alignment explanation
Indices: 8687409--8687451 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8687399 TCATATATAA
8687409 TTATTA-CTAATATTTTAAATT
1 TTATTATCTAATATTTTAAATT
* *
8687430 TTATTATGTTATATTTTAAATT
1 TTATTATCTAATATTTTAAATT
8687452 ATTTAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTATCTAATATTTTAAATT
Found at i:8688706 original size:19 final size:20
Alignment explanation
Indices: 8688656--8688706 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
8688646 ATAGTAATTT
8688656 TTTAATTAAAATAATAAAAA
1 TTTAATTAAAATAATAAAAA
* *
8688676 TATATTATTAAAAT-TTAAAAA
1 T-T-TAATTAAAATAATAAAAA
8688697 TTTAATTAAA
1 TTTAATTAAA
8688707 TTCATGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 7 0.27
20 2 0.08
21 8 0.31
22 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAATTAAAATAATAAAAA
Found at i:8690212 original size:42 final size:41
Alignment explanation
Indices: 8690148--8690229 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 41
8690138 GTCGAATCAA
*
8690148 ATTCTCTTTCATACAATAATTGAAATTAAAAATTTTATATTG
1 ATTCTCTTTCATACAATAATTGAAA-AAAAAATTTTATATTG
*
8690190 ATTCTCTTTCATACAATTATTGAAAAAAAAATTTTATATT
1 ATTCTCTTTCATACAATAATTGAAAAAAAAATTTTATATT
8690230 CGTAGAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 14 0.37
42 24 0.63
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (41 bp):
ATTCTCTTTCATACAATAATTGAAAAAAAAATTTTATATTG
Found at i:8692543 original size:23 final size:22
Alignment explanation
Indices: 8692507--8692553 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
8692497 TAAAATTAAA
8692507 TATTATATTTTGATTTTGCTATT
1 TATTATATTTTGATTTTG-TATT
8692530 TATTA-ATTTATGATTTTGTATT
1 TATTATATTT-TGATTTTGTATT
8692552 TA
1 TA
8692554 AAATTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (22 bp):
TATTATATTTTGATTTTGTATT
Found at i:8692567 original size:22 final size:23
Alignment explanation
Indices: 8692518--8692568 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
8692508 ATTATATTTT
* *
8692518 GATTTTGCTATTTATTAATTTAT
1 GATTTTGCTATTTATAAATTTAA
8692541 GATTTTG-TATTTA-AAATTTAA
1 GATTTTGCTATTTATAAATTTAA
8692562 GAATTTT
1 G-ATTTT
8692569 TTTGTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
23 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (23 bp):
GATTTTGCTATTTATAAATTTAA
Found at i:8700603 original size:20 final size:20
Alignment explanation
Indices: 8700580--8700619 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8700570 ATTCGAGTGG
8700580 GGCCTTATAAGGAAAGTTCT
1 GGCCTTATAAGGAAAGTTCT
8700600 GGCCTTATAAGGAAAGTTCT
1 GGCCTTATAAGGAAAGTTCT
8700620 TACTTTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
GGCCTTATAAGGAAAGTTCT
Found at i:8710599 original size:2 final size:2
Alignment explanation
Indices: 8710592--8710626 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8710582 CATAGAATTC
8710592 AT AT AT AT 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 AT AT AT AT A
8710627 GGAATCATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8711524 original size:18 final size:18
Alignment explanation
Indices: 8711501--8711537 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8711491 TGAGATGAGA
8711501 TGATGTACAAAAGAAACT
1 TGATGTACAAAAGAAACT
8711519 TGATGTACAAAAGAAACT
1 TGATGTACAAAAGAAACT
8711537 T
1 T
8711538 TTGTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (18 bp):
TGATGTACAAAAGAAACT
Found at i:8711955 original size:232 final size:228
Alignment explanation
Indices: 8711530--8711982 Score: 669
Period size: 232 Copynumber: 2.0 Consensus size: 228
8711520 GATGTACAAA
* **
8711530 AGAAACTTTTGTAAAATTGCTTTGGTATTTATATTTTTTTTTCACATTTTTTTGTAAAATATATT
1 AGAAACTTTTGTAAAATTGCTTTGGTATTTATATATTTTTTTCACATTTTTTCATAAAATATATT
*
8711595 TAAAAACTGAAGATAATATAATGATTATTTATAAAAAATAAAGATATTAAATAATATTTTTAAAA
66 TAAAAACTAAAGATAATATAATGATTATTTATAAAAAATAAAGATATTAAATAATATTTTTAAAA
* * * *
8711660 GTTGTGATAAATTTAAATATTTATGTTAACTACAAATAGATTAGAAAAGTAAATTATTTTT-AAA
131 GTTATGATAAATTTAAATATTCATGTTAACTACAAATAAATTAAAAAAGTAAATTATTTTTAAAA
*
8711724 TTGATTTTAAATTGAGATGAGGTGATATATAAG
196 TTAATTTTAAATTGAGATGAGGTGATATATAAG
* * * *
8711757 AGAAACTTTTTTTAAAATTGTTTTGGTATTTATATATTTTTTTCACATTTCTTTCATGAAATCTA
1 AGAAAC-TTTTGTAAAATTGCTTTGGTATTTATATATTTTTTTCACATTT-TTTCATAAAATATA
*
8711822 TTTAAAAACTAAAGATAATGTAA-GAATTATTTATCAAAAATATTAAAGATATTAAATAATATTT
64 TTTAAAAACTAAAGATAATATAATG-ATTATTTAT-AAAAA-A-TAAAGATATTAAATAATATTT
* * *
8711886 TTAAAAGTTATGATAAATTTAAATATTCATGTTAATTTCAGATAAATTAAAAAAGATAAATTA-T
125 TTAAAAGTTATGATAAATTTAAATATTCATGTTAACTACAAATAAATTAAAAAAG-TAAATTATT
8711950 TTTAAAATTAATTTTAAATTGAGATGAGGTGAT
189 TTTAAAATTAATTTTAAATTGAGATGAGGTGAT
8711983 GTACAGGAGA
Statistics
Matches: 201, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
227 6 0.03
228 41 0.20
229 40 0.20
230 5 0.02
231 1 0.00
232 73 0.36
233 35 0.17
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (228 bp):
AGAAACTTTTGTAAAATTGCTTTGGTATTTATATATTTTTTTCACATTTTTTCATAAAATATATT
TAAAAACTAAAGATAATATAATGATTATTTATAAAAAATAAAGATATTAAATAATATTTTTAAAA
GTTATGATAAATTTAAATATTCATGTTAACTACAAATAAATTAAAAAAGTAAATTATTTTTAAAA
TTAATTTTAAATTGAGATGAGGTGATATATAAG
Found at i:8712080 original size:14 final size:12
Alignment explanation
Indices: 8712053--8712086 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
8712043 TAAATAATTT
8712053 AATAATTTTTTA
1 AATAATTTTTTA
8712065 AATATATTTTTATA
1 AATA-ATTTTT-TA
8712079 AATAATTT
1 AATAATTT
8712087 AAAATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 10 0.50
14 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATAATTTTTTA
Found at i:8712099 original size:32 final size:33
Alignment explanation
Indices: 8712039--8712101 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
8712029 AAATTTTAAA
**
8712039 TTTTTAAATAATTTAATAATTTTTTAAATATAT
1 TTTTTAAATAATTTAATAATTTAATAAATATAT
8712072 TTTTATAAATAATTTAA-AA-TTAATAAATAT
1 TTTT-TAAATAATTTAATAATTTAATAAATAT
8712102 CTTATGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 9 0.33
33 6 0.22
34 12 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TTTTTAAATAATTTAATAATTTAATAAATATAT
Found at i:8725755 original size:2 final size:2
Alignment explanation
Indices: 8725748--8725773 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8725738 TGTGTTTAAG
8725748 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
8725774 CTAAGTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8725936 original size:33 final size:34
Alignment explanation
Indices: 8725811--8725936 Score: 141
Period size: 34 Copynumber: 3.8 Consensus size: 34
8725801 ATATATATCC
* *
8725811 AATAAATTTTAT-TAGTTTTCA-ATATACATTTTT
1 AATAAATTTTATAT-GTTTTTAGATATACATATTT
* * * *
8725844 AATAAATTTTATATGTTTTTGGATATATAAATTC
1 AATAAATTTTATATGTTTTTAGATATACATATTT
* * *
8725878 GATAAAATTTATATATTTTTAGATATACATATTT
1 AATAAATTTTATATGTTTTTAGATATACATATTT
8725912 AATAAATTTTATATGTTTTT-GATAT
1 AATAAATTTTATATGTTTTTAGATAT
8725937 TAAGAGTGTA
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
33 22 0.29
34 53 0.71
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.52
Consensus pattern (34 bp):
AATAAATTTTATATGTTTTTAGATATACATATTT
Found at i:8726494 original size:15 final size:15
Alignment explanation
Indices: 8726470--8726516 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
8726460 GGAAGAGATA
8726470 AAAAGGTAATTTATG
1 AAAAGGTAATTTATG
* *
8726485 AAAAGCTAA--TATA
1 AAAAGGTAATTTATG
*
8726498 AAAAGGTAATTTGTG
1 AAAAGGTAATTTATG
8726513 AAAA
1 AAAA
8726517 CCAAATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
13 11 0.44
15 14 0.56
ACGTcount: A:0.53, C:0.02, G:0.17, T:0.28
Consensus pattern (15 bp):
AAAAGGTAATTTATG
Found at i:8732680 original size:35 final size:36
Alignment explanation
Indices: 8732626--8732729 Score: 122
Period size: 35 Copynumber: 2.9 Consensus size: 36
8732616 TTTTTGGATT
* *
8732626 TAGGCATTAAATTACAATAAAATAATGTTGTTTT-A
1 TAGGGATTAGATTACAATAAAATAATGTTGTTTTGA
* **
8732661 TAGGGATTAGATTATAATAAAATAATAATGTTTTGA
1 TAGGGATTAGATTACAATAAAATAATGTTGTTTTGA
* * *
8732697 -AGGGATCAGATTACAATAAACTAATGTTATTTT
1 TAGGGATTAGATTACAATAAAATAATGTTGTTTT
8732730 TCAAGATTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 56 0.98
36 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.38
Consensus pattern (36 bp):
TAGGGATTAGATTACAATAAAATAATGTTGTTTTGA
Found at i:8734311 original size:18 final size:17
Alignment explanation
Indices: 8734284--8734319 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8734274 ATTCATTTTA
8734284 TATCAAATATATATATTT
1 TATCAAATATAT-TATTT
*
8734302 TATCACATATATTATTT
1 TATCAAATATATTATTT
8734319 T
1 T
8734320 GGATGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
TATCAAATATATTATTT
Found at i:8748309 original size:16 final size:16
Alignment explanation
Indices: 8748284--8748315 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8748274 TCTTAATGAC
*
8748284 ATATCTTTAACAATTG
1 ATATCCTTAACAATTG
8748300 ATATCCTTAACAATTG
1 ATATCCTTAACAATTG
8748316 GCATGAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (16 bp):
ATATCCTTAACAATTG
Found at i:8748989 original size:38 final size:38
Alignment explanation
Indices: 8748938--8749014 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
8748928 TTAAGTTGTG
*
8748938 TTGGATTAGGATGCATAAATTGA-AGGGGAGTTTTGCCA
1 TTGGATTAGGATGCACAAATTGAGA-GGGAGTTTTGCCA
*
8748976 TTGGATTATGATGCACAAATTGAGAGGGAGTTTTGCCA
1 TTGGATTAGGATGCACAAATTGAGAGGGAGTTTTGCCA
8749014 T
1 T
8749015 GCATTGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 35 0.97
39 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.32
Consensus pattern (38 bp):
TTGGATTAGGATGCACAAATTGAGAGGGAGTTTTGCCA
Found at i:8753147 original size:29 final size:29
Alignment explanation
Indices: 8753115--8753175 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
8753105 TAAAAAGGCT
*
8753115 TTTATTCTTTTATTATATTCAAATAAATC
1 TTTAGTCTTTTATTATATTCAAATAAATC
*
8753144 TTTAGTCTTTTATTATATTCAAATAAGTC
1 TTTAGTCTTTTATTATATTCAAATAAATC
8753173 TTT
1 TTT
8753176 TTTTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (29 bp):
TTTAGTCTTTTATTATATTCAAATAAATC
Found at i:8753188 original size:29 final size:28
Alignment explanation
Indices: 8753073--8753180 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 28
8753063 ATTTCACTTT
8753073 TATT-AAATAAGT-TTTTATATTTTTATTA
1 TATTCAAATAAGTCTTTT-T-TTTTTATTA
*
8753101 TA-TCTAAA-AAGGCTTTTATTCTTTTATTA
1 TATTC-AAATAAGTCTTTT-TT-TTTTATTA
* * *
8753130 TATTCAAATAAATCTTTAGTCTTTTATTA
1 TATTCAAATAAGTCTTT-TTTTTTTATTA
8753159 TATTCAAATAAGTCTTTTTTTT
1 TATTCAAATAAGTCTTTTTTTT
8753181 ATTTTTATCC
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
27 1 0.02
28 9 0.14
29 46 0.71
30 9 0.14
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (28 bp):
TATTCAAATAAGTCTTTTTTTTTTATTA
Found at i:8753261 original size:30 final size:30
Alignment explanation
Indices: 8753227--8753300 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
8753217 TTGATTTATA
**
8753227 TTAAAAGTTTATTTATGTACAAATGAAAAG
1 TTAAAAGTTTATTTAAATACAAATGAAAAG
* * *
8753257 TTAAAGGTTTATTTAAATACAAATTAAAAT
1 TTAAAAGTTTATTTAAATACAAATGAAAAG
8753287 TTAAGAA-TTTATTT
1 TTAA-AAGTTTATTT
8753301 TGACTCAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 36 0.97
31 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (30 bp):
TTAAAAGTTTATTTAAATACAAATGAAAAG
Found at i:8753802 original size:20 final size:19
Alignment explanation
Indices: 8753757--8753799 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8753747 ATTTTATATA
*
8753757 TATTTAATAAATTAATTTT
1 TATTTAATAAATAAATTTT
8753776 TATTTAATAATATAAA-TTT
1 TATTTAATAA-ATAAATTTT
8753795 TATTT
1 TATTT
8753800 TAAATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTAATAAATAAATTTT
Found at i:8759959 original size:19 final size:20
Alignment explanation
Indices: 8759916--8759961 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
8759906 AATCAAGAGC
*
8759916 ATAATGCAATCACAAGAGAAA
1 ATAAAGCAATCAC-AGAGAAA
*
8759937 ATAAAGCAATCAC-GAGGAA
1 ATAAAGCAATCACAGAGAAA
8759956 ATAAAG
1 ATAAAG
8759962 GTGGTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
21 12 0.52
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (20 bp):
ATAAAGCAATCACAGAGAAA
Found at i:8766839 original size:258 final size:258
Alignment explanation
Indices: 8766382--8766897 Score: 978
Period size: 258 Copynumber: 2.0 Consensus size: 258
8766372 AAACTATGTT
*
8766382 CCTGTCAAAGTGATTGAAAAAAGAACGATTGAATTGAAATTCACCTCATGACAAAAACTAACTTT
1 CCTGTCAAAGTGATTGAAAAAAAAACGATTGAATTGAAATTCACCTCATGACAAAAACTAACTTT
* *
8766447 ACTTAATGTTTTCATGTTTTTAAGATTAAAAAGAACCTTGTATTTACAAATCTATTATGTAAAAA
66 ACTTAATATTTTCATGTTCTTAAGATTAAAAAGAACCTTGTATTTACAAATCTATTATGTAAAAA
*
8766512 AAGTTTTAAGATTGTACTAGAGTTTGATAAAATTATAATGTCCAAAAATGATATATTCATTGAAA
131 AAGCTTTAAGATTGTACTAGAGTTTGATAAAATTATAATGTCCAAAAATGATATATTCATTGAAA
*
8766577 AATGATATTCCAATGATGGTATGTTTAAACTAAACATTGATGCAATAAATAATTTTCTGCTTA
196 AATGATATTCCAATGATAGTATGTTTAAACTAAACATTGATGCAATAAATAATTTTCTGCTTA
8766640 CCTGTCAAAGTGATTGAAAAAAAAACGATTGAATTGAAATTCACCTCATGACAAAAACTAACTTT
1 CCTGTCAAAGTGATTGAAAAAAAAACGATTGAATTGAAATTCACCTCATGACAAAAACTAACTTT
8766705 ACTTAATATTTTCATGTTCTTAAGATTAAAAAGAACCTTGTATTTACAAATCTATTATGTAAAAA
66 ACTTAATATTTTCATGTTCTTAAGATTAAAAAGAACCTTGTATTTACAAATCTATTATGTAAAAA
*
8766770 AAGCTTTAAGATTGTACTAGAGTTTGATAAAATTATAGTGTCCAAAAATGATATATTCATTGAAA
131 AAGCTTTAAGATTGTACTAGAGTTTGATAAAATTATAATGTCCAAAAATGATATATTCATTGAAA
8766835 AATGATATTCCAATGATAGTATGTTTAAACTAAACATTGATGCAATAAATAATTTTCTGCTTA
196 AATGATATTCCAATGATAGTATGTTTAAACTAAACATTGATGCAATAAATAATTTTCTGCTTA
8766898 TAGTGCTAAA
Statistics
Matches: 252, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
258 252 1.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (258 bp):
CCTGTCAAAGTGATTGAAAAAAAAACGATTGAATTGAAATTCACCTCATGACAAAAACTAACTTT
ACTTAATATTTTCATGTTCTTAAGATTAAAAAGAACCTTGTATTTACAAATCTATTATGTAAAAA
AAGCTTTAAGATTGTACTAGAGTTTGATAAAATTATAATGTCCAAAAATGATATATTCATTGAAA
AATGATATTCCAATGATAGTATGTTTAAACTAAACATTGATGCAATAAATAATTTTCTGCTTA
Found at i:8775080 original size:12 final size:13
Alignment explanation
Indices: 8775053--8775083 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8775043 CTTTCAAACA
8775053 TTTTTATTTAAGT
1 TTTTTATTTAAGT
8775066 TTTTTATTTAA-T
1 TTTTTATTTAAGT
8775078 TTTTTA
1 TTTTTA
8775084 AAATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTTTATTTAAGT
Found at i:8775811 original size:16 final size:17
Alignment explanation
Indices: 8775776--8775813 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
8775766 AATAAAATTT
*
8775776 TTTAACAAAATATTTGA
1 TTTAACAAAATATTTAA
*
8775793 TTTAA-AAAATTTTTAA
1 TTTAACAAAATATTTAA
8775809 TTTAA
1 TTTAA
8775814 TATTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAACAAAATATTTAA
Found at i:8777370 original size:2 final size:2
Alignment explanation
Indices: 8777359--8777393 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8777349 AAACTTTTAA
8777359 AT AT -T 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
8777394 CTAGAGAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8778243 original size:24 final size:24
Alignment explanation
Indices: 8778211--8778259 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
8778201 TTCTTTCCTT
*
8778211 TCTCCTCCATCAATCCAAACATAA
1 TCTCATCCATCAATCCAAACATAA
8778235 TCTCATCCATCAATCCAAACATAA
1 TCTCATCCATCAATCCAAACATAA
8778259 T
1 T
8778260 GAATGGGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.27
Consensus pattern (24 bp):
TCTCATCCATCAATCCAAACATAA
Found at i:8779085 original size:31 final size:29
Alignment explanation
Indices: 8779049--8779109 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
8779039 AAAATTCTTA
*
8779049 ATAGAAAATAGATTCAAAAAAATTTTTTTTT
1 ATAGAAAATAGATT--AAAAAATTTATTTTT
*
8779080 ATAGAAAATAGATTAATAAATTTATTTTT
1 ATAGAAAATAGATTAAAAAATTTATTTTT
8779109 A
1 A
8779110 AAATAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 14 0.50
31 14 0.50
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.43
Consensus pattern (29 bp):
ATAGAAAATAGATTAAAAAATTTATTTTT
Found at i:8779138 original size:32 final size:31
Alignment explanation
Indices: 8779104--8779212 Score: 130
Period size: 31 Copynumber: 3.5 Consensus size: 31
8779094 AATAAATTTA
8779104 TTTTTAAAATAATATTGAAA-TTTTACTTAAT
1 TTTTTAAAATAATATT-AAATTTTTACTTAAT
* * *
8779135 ATTTTAAAATTATATTAAATTTTTATTTAAT
1 TTTTTAAAATAATATTAAATTTTTACTTAAT
* * *
8779166 TTTTTAAACTGATATAAAAATTTTTACTTAAT
1 TTTTTAAAATAATAT-TAAATTTTTACTTAAT
*
8779198 TTTTGAAAATAATAT
1 TTTTTAAAATAATAT
8779213 GCAATTTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 3 0.05
31 36 0.55
32 26 0.40
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTTTAAAATAATATTAAATTTTTACTTAAT
Found at i:8780683 original size:22 final size:22
Alignment explanation
Indices: 8780631--8780677 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
8780621 CCTGAAATTA
8780631 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
8780653 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
8780674 ATAA
1 ATAA
8780678 GTATATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:8782975 original size:33 final size:33
Alignment explanation
Indices: 8782911--8782975 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
8782901 ATTGACCGAA
* * * *
8782911 TTGATGCCATGTGGTTTTATGGTTGTCATCGAT
1 TTGATACCATGAGGTTTTATAGTTATCATCGAT
* *
8782944 TTGATACCATGAGGTTTTATATTTATTATCGA
1 TTGATACCATGAGGTTTTATAGTTATCATCGA
8782976 ACAAGACGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGATACCATGAGGTTTTATAGTTATCATCGAT
Found at i:8783045 original size:2 final size:2
Alignment explanation
Indices: 8783038--8783068 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8783028 AAACCAGTTA
8783038 AT AT 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 AT AT A
8783069 AAAAGAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8785335 original size:45 final size:45
Alignment explanation
Indices: 8785284--8785370 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
8785274 AGAAAGATTA
* *
8785284 TTCAAGGGAGTAAATGGAAATATTTTGTTTGTAAATCAATATAGT
1 TTCAAGGGAGGAAATCGAAATATTTTGTTTGTAAATCAATATAGT
8785329 TTCAAGGGAGGAAATCGAAATATTTTGTTTGTAAATCAATAT
1 TTCAAGGGAGGAAATCGAAATATTTTGTTTGTAAATCAATAT
8785371 GGTTATTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.37
Consensus pattern (45 bp):
TTCAAGGGAGGAAATCGAAATATTTTGTTTGTAAATCAATATAGT
Found at i:8789328 original size:22 final size:22
Alignment explanation
Indices: 8789302--8789345 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8789292 TGTATATTTA
*
8789302 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
8789324 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
8789346 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:8793248 original size:22 final size:22
Alignment explanation
Indices: 8793222--8793265 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8793212 TGTATATTTA
*
8793222 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
8793244 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
8793266 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:8795511 original size:3 final size:3
Alignment explanation
Indices: 8795503--8795527 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8795493 GAAATTGATG
8795503 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
8795528 AGAGAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:8796490 original size:31 final size:31
Alignment explanation
Indices: 8796423--8796490 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
8796413 TGATTTTAAA
* **
8796423 AAATTAATAATTAAATTAATTAATTTTTATT
1 AAATAAATAATTAAATTAATTAAAATTTATT
* *
8796454 TAATAAATAATTAAATTCATTTAAAATTT-TT
1 AAATAAATAATTAAATT-AATTAAAATTTATT
8796485 AAATAA
1 AAATAA
8796491 TTCTTTATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
AAATAAATAATTAAATTAATTAAAATTTATT
Found at i:8796972 original size:12 final size:12
Alignment explanation
Indices: 8796928--8796969 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
8796918 ATTTTGAAAT
8796928 TAAAAATTATTA
1 TAAAAATTATTA
**
8796940 TAATTATTATTA
1 TAAAAATTATTA
8796952 -AAAAATT-TTA
1 TAAAAATTATTA
8796962 TAAAAATT
1 TAAAAATT
8796970 TTTTTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 3 0.12
11 12 0.48
12 10 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAAATTATTA
Found at i:8797447 original size:13 final size:13
Alignment explanation
Indices: 8797429--8797459 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8797419 ATAAATTTTG
8797429 ATAAATTTTTTAA
1 ATAAATTTTTTAA
*
8797442 ATAAATTTTTTTA
1 ATAAATTTTTTAA
8797455 ATAAA
1 ATAAA
8797460 AATTTTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAAATTTTTTAA
Found at i:8797453 original size:14 final size:15
Alignment explanation
Indices: 8797429--8797465 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
8797419 ATAAATTTTG
8797429 ATAAA-TTTTTTAA-
1 ATAAATTTTTTTAAT
8797442 ATAAATTTTTTTAAT
1 ATAAATTTTTTTAAT
*
8797457 AAAAATTTT
1 ATAAATTTT
8797466 GACAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATAAATTTTTTTAAT
Found at i:8797568 original size:22 final size:23
Alignment explanation
Indices: 8797542--8797586 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
8797532 TTTTTAGATA
8797542 TTATTTATTT-TCA-TATTAAATT
1 TTATTTATTTATCAGT-TTAAATT
8797564 TTATTTATTTATCAGTTTAAATT
1 TTATTTATTTATCAGTTTAAATT
8797587 AAAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 10 0.48
24 1 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATTTATTTATCAGTTTAAATT
Found at i:8798743 original size:15 final size:16
Alignment explanation
Indices: 8798701--8798745 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8798691 AAAAACTTTC
8798701 AAAAAA-TTAA-ATTA
1 AAAAAATTTAATATTA
*
8798715 AAAAAATTAAAATATT-
1 AAAAAATT-TAATATTA
8798731 AAAAAATTTAATATT
1 AAAAAATTTAATATT
8798746 TCTTAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.23
15 7 0.27
16 10 0.38
17 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAATTTAATATTA
Found at i:8802349 original size:2 final size:2
Alignment explanation
Indices: 8802342--8802380 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8802332 TCATTCCCTT
8802342 TA TA TA 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 TA TA TA T
8802381 TTGGGAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8803414 original size:24 final size:24
Alignment explanation
Indices: 8803387--8803433 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
8803377 TAATCTATCC
*
8803387 TCTTTGTCATTTGTAACTTCAATT
1 TCTTGGTCATTTGTAACTTCAATT
*
8803411 TCTTGGTCATTTTTAACTTCAAT
1 TCTTGGTCATTTGTAACTTCAAT
8803434 CTGAAGTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (24 bp):
TCTTGGTCATTTGTAACTTCAATT
Found at i:8809890 original size:187 final size:188
Alignment explanation
Indices: 8809575--8809951 Score: 594
Period size: 187 Copynumber: 2.0 Consensus size: 188
8809565 ATTAGAATAT
* * * * *
8809575 TTCTCAAGGATCGAACCATATCCAGCAAGGTTAAATTTTTTCATTTGGTAACACTCTTTGGTTAT
1 TTCTCAAGGATCGAACCACATCCAACAAGGCTAAATTTCTTCATTTGGTAACACTATTTGGTTAT
* * *
8809640 GAAGTTTAAAATGAAATTTACCATGAGTGAATCTCATTCTTTTTTAGATAACCTAAGAATTCTTA
66 GAAGTTTAAAATGAAATTCACCATGAGTGAATCTCATTCTCTTTTAAATAACCTAAGAATTCTTA
*
8809705 GCTTAAGTGTTCTCCATCTTGATTGGATCATAGTGTTAA-ATACCTTTTTTAGTTTGC
131 GCTTAAGTGTTCTCCATCTTGATTGGATCATAGTGTTAATATACCTTTTCTAGTTTGC
* **
8809762 TTCTCAAGGATCGAACCACGTCCAACAAGGCTAGGTTTCTTCATTTGGTAACACTATTTGGTTAT
1 TTCTCAAGGATCGAACCACATCCAACAAGGCTAAATTTCTTCATTTGGTAACACTATTTGGTTAT
* * * *
8809827 GAAGTTTAAAATGGAGTTCACCATGAGTGAATCTCATTCTCTTTTAAATAACTTGAGAATTCTTA
66 GAAGTTTAAAATGAAATTCACCATGAGTGAATCTCATTCTCTTTTAAATAACCTAAGAATTCTTA
*
8809892 GCTTAAGTGTTCTTCATCTTGATTGGATCATAGTGTTAATATACCTTTTCTAGTTTGC
131 GCTTAAGTGTTCTCCATCTTGATTGGATCATAGTGTTAATATACCTTTTCTAGTTTGC
8809950 TT
1 TT
8809952 TCCAATCTCA
Statistics
Matches: 172, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
187 153 0.89
188 19 0.11
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (188 bp):
TTCTCAAGGATCGAACCACATCCAACAAGGCTAAATTTCTTCATTTGGTAACACTATTTGGTTAT
GAAGTTTAAAATGAAATTCACCATGAGTGAATCTCATTCTCTTTTAAATAACCTAAGAATTCTTA
GCTTAAGTGTTCTCCATCTTGATTGGATCATAGTGTTAATATACCTTTTCTAGTTTGC
Found at i:8811521 original size:22 final size:21
Alignment explanation
Indices: 8811470--8811521 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
8811460 AGTTTTATTG
8811470 CATGCATAACATATATCATTAT
1 CATGCAT-ACATATATCATTAT
**
8811492 CAAACATACATATAAATCA-TAT
1 CATGCATACATAT--ATCATTAT
8811514 CATGCATA
1 CATGCATA
8811522 TTATATAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 6 0.25
22 14 0.58
23 4 0.17
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (21 bp):
CATGCATACATATATCATTAT
Found at i:8813679 original size:30 final size:30
Alignment explanation
Indices: 8813636--8813697 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
8813626 TTGATGCTTT
* *
8813636 AATTGGATGAAAATAAATGTTTAAGAGTTC
1 AATTGGATAAAAATAAATATTTAAGAGTTC
* * *
8813666 AATTGGGTAAAAATAAATATTTATGGGTTC
1 AATTGGATAAAAATAAATATTTAAGAGTTC
8813696 AA
1 AA
8813698 CTAATCTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (30 bp):
AATTGGATAAAAATAAATATTTAAGAGTTC
Found at i:8816487 original size:21 final size:21
Alignment explanation
Indices: 8816460--8816535 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
8816450 AACTTAACTG
8816460 AATTCATACTCTTTCTCTAAA
1 AATTCATACTCTTTCTCTAAA
* *
8816481 TATTCATACTTTCTTTTTCTAAA
1 AATTCATAC--TCTTTCTCTAAA
* *
8816504 AATTTATTA-TCTCTCTCTAAA
1 AATTCA-TACTCTTTCTCTAAA
8816525 AATTCATACTC
1 AATTCATACTC
8816536 GCTACCTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 2 0.05
21 25 0.57
23 15 0.34
24 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTCATACTCTTTCTCTAAA
Found at i:8818137 original size:11 final size:11
Alignment explanation
Indices: 8818123--8818149 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8818113 AATTTTCAAA
8818123 AAAAAAAAAAG
1 AAAAAAAAAAG
8818134 AAAAAAAAAAG
1 AAAAAAAAAAG
8818145 AAAAA
1 AAAAA
8818150 GCCCTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:8819059 original size:20 final size:21
Alignment explanation
Indices: 8819034--8819072 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8819024 ATTTTATTAA
*
8819034 TAAAAATTAAAT-ATTTAATT
1 TAAAAAATAAATCATTTAATT
8819054 TAAAAAATAAATCATTTAA
1 TAAAAAATAAATCATTTAA
8819073 AAAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAATAAATCATTTAATT
Done.