Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 154 of 171
Found at i:46211305 original size:33 final size:33
Alignment explanation
Indices: 46211266--46211343 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
46211256 GACAGTAAGC
*
46211266 AAAGGTGCAAGCCATCAAAGTGCGAGCTTTGCA
1 AAAGGTGCAAGCCATCAAAGTGCGAGCTCTGCA
* * * **
46211299 AAAGGTGCGAGCCATTAAAGTGCGTGCTCTGTG
1 AAAGGTGCAAGCCATCAAAGTGCGAGCTCTGCA
46211332 AAAGGTGCAAGC
1 AAAGGTGCAAGC
46211344 TCACCAAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAGGTGCAAGCCATCAAAGTGCGAGCTCTGCA
Found at i:46211432 original size:31 final size:30
Alignment explanation
Indices: 46211396--46211472 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 30
46211386 CGAGCATGTC
* *
46211396 AAAGTGTGAGCTTGTTGAAGACAGTAAGTCA
1 AAAGTGTGAGCCTGTTGAAGACAGCAAG-CA
*
46211427 AAAGTGTGAGCCTGTTGAAGACAGCAAGCC
1 AAAGTGTGAGCCTGTTGAAGACAGCAAGCA
46211457 AAAGTTGTGAGCCTGT
1 AAAG-TGTGAGCCTGT
46211473 CAAAGTGCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
30 5 0.12
31 37 0.88
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.23
Consensus pattern (30 bp):
AAAGTGTGAGCCTGTTGAAGACAGCAAGCA
Found at i:46214403 original size:21 final size:22
Alignment explanation
Indices: 46214377--46214417 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
46214367 AAATGACATA
*
46214377 GTTTTGCCTTTTAA-TTTAATG
1 GTTTTGACTTTTAACTTTAATG
46214398 GTTTTGACTTTTAACTTTAA
1 GTTTTGACTTTTAACTTTAA
46214418 AAAAAGGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.56
Consensus pattern (22 bp):
GTTTTGACTTTTAACTTTAATG
Found at i:46215942 original size:7 final size:7
Alignment explanation
Indices: 46215930--46215962 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
46215920 AATCTTCCCC
46215930 ATTTTTT
1 ATTTTTT
46215937 ATTTTTT
1 ATTTTTT
46215944 A-TTTTT
1 ATTTTTT
*
46215950 ATTTTAT
1 ATTTTTT
46215957 ATTTTT
1 ATTTTT
46215963 AAAGCTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
ATTTTTT
Found at i:46215950 original size:13 final size:13
Alignment explanation
Indices: 46215932--46215963 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46215922 TCTTCCCCAT
*
46215932 TTTTTATTTTTTA
1 TTTTTATTTTATA
46215945 TTTTTATTTTATA
1 TTTTTATTTTATA
46215958 TTTTTA
1 TTTTTA
46215964 AAGCTTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTATA
Found at i:46221591 original size:27 final size:28
Alignment explanation
Indices: 46221527--46221589 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
46221517 AGCTCGGACC
* *
46221527 AAATTCAATTTGAATAATAAAAATTTTA
1 AAATTAAATTTGAATAATAAAAATTATA
* *
46221555 AATTTAAATTT-AATTATAAAAATATATA
1 AAATTAAATTTGAATAATAAAAAT-TATA
46221583 AAATTAA
1 AAATTAA
46221590 TTAAATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (28 bp):
AAATTAAATTTGAATAATAAAAATTATA
Found at i:46221945 original size:15 final size:15
Alignment explanation
Indices: 46221925--46221954 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46221915 ACCTTGAATC
46221925 TTAAAATTTAAAAAT
1 TTAAAATTTAAAAAT
46221940 TTAAAATTTAAAAAT
1 TTAAAATTTAAAAAT
46221955 AAAGATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAAATTTAAAAAT
Found at i:46224733 original size:30 final size:30
Alignment explanation
Indices: 46224697--46224863 Score: 156
Period size: 30 Copynumber: 5.6 Consensus size: 30
46224687 GTAATCTCGG
*
46224697 TATAAAGTCAGCTTGGGTGAGCAATTCTAT
1 TATAAAGTCAGCTTGTGTGAGCAATTCTAT
* *
46224727 TATAAAGTTAGCTTGTGTGAGGAATTCTAT
1 TATAAAGTCAGCTTGTGTGAGCAATTCTAT
* * * * * *
46224757 TACAATGTCAGTTTATGTTAGC-ATCCTTAT
1 TATAAAGTCAGCTTGTGTGAGCAATTC-TAT
* *
46224787 TACAAAGTTAGCTTGTGTGAGCAATTCTAT
1 TATAAAGTCAGCTTGTGTGAGCAATTCTAT
* * * * *
46224817 AATAAAATTAACTTGTGTGAGCAATTTTAT
1 TATAAAGTCAGCTTGTGTGAGCAATTCTAT
* *
46224847 TATAATGTCAACTTGTG
1 TATAAAGTCAGCTTGTG
46224864 CCCGTGTCCA
Statistics
Matches: 109, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
29 3 0.03
30 103 0.94
31 3 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (30 bp):
TATAAAGTCAGCTTGTGTGAGCAATTCTAT
Found at i:46232112 original size:20 final size:21
Alignment explanation
Indices: 46232026--46232117 Score: 84
Period size: 20 Copynumber: 4.5 Consensus size: 21
46232016 TTTTCAAAAA
*
46232026 AGTCAACGGTCAAAG-TTAAC
1 AGTCAACGGTCAAAGATCAAC
* *
46232046 AGTCAACGGTCAACGATCAAA
1 AGTCAACGGTCAAAGATCAAC
**
46232067 AG-CAACGGTCAGCGATCAAC
1 AGTCAACGGTCAAAGATCAAC
*
46232087 -GATCAACGGTCAAAG-TCAAT
1 AG-TCAACGGTCAAAGATCAAC
*
46232107 GGTCAACGGTC
1 AGTCAACGGTC
46232118 GGTCAACGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 43 0.72
21 16 0.27
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (21 bp):
AGTCAACGGTCAAAGATCAAC
Found at i:46232127 original size:7 final size:7
Alignment explanation
Indices: 46232027--46232117 Score: 62
Period size: 7 Copynumber: 13.4 Consensus size: 7
46232017 TTTCAAAAAA
46232027 GTCAACG
1 GTCAACG
*
46232034 GTCAA-A
1 GTCAACG
* *
46232040 GTTAACA
1 GTCAACG
46232047 GTCAACG
1 GTCAACG
46232054 GTCAACG
1 GTCAACG
* **
46232061 ATCAAAA
1 GTCAACG
46232068 G-CAACG
1 GTCAACG
*
46232074 GTCAGCG
1 GTCAACG
*
46232081 ATCAACG
1 GTCAACG
*
46232088 ATCAACG
1 GTCAACG
*
46232095 GTCAA-A
1 GTCAACG
*
46232101 GTCAATG
1 GTCAACG
46232108 GTCAACG
1 GTCAACG
46232115 GTC
1 GTC
46232118 GGTCAACGGT
Statistics
Matches: 64, Mismatches: 17, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
6 13 0.20
7 51 0.80
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:46237382 original size:5 final size:5
Alignment explanation
Indices: 46237374--46237410 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
46237364 TAATTAAATT
46237374 ATTTA ATTTA ATTTA ATTTA ATTT- ATATT- ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT-TTA ATTTA ATT
46237411 ATATTGTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:46237394 original size:15 final size:14
Alignment explanation
Indices: 46237371--46237415 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
46237361 AATTAATTAA
46237371 ATTATTTAATTTA-
1 ATTATTTAATTTAT
46237384 ATTTAATTTAATTTAT
1 A-TT-ATTTAATTTAT
46237400 ATTATTTAA-TTAT
1 ATTATTTAATTTAT
46237413 ATT
1 ATT
46237416 GTACATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.28
14 8 0.28
15 12 0.41
16 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATTTAATTTAT
Found at i:46243001 original size:35 final size:34
Alignment explanation
Indices: 46242944--46243018 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
46242934 GCTTTGTTGA
* * * * *
46242944 ATGAGCTCTGGTGAGTTTTAATCTGTCTTGGTATG
1 ATGAACTCAGGTGAGTTCTAATCTG-CTCGGCATG
46242979 ATGAACTCAGGTGAGTTCTAATCTGCTCGGCATG
1 ATGAACTCAGGTGAGTTCTAATCTGCTCGGCATG
46243013 ATGAAC
1 ATGAAC
46243019 CAAGCTCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 13 0.37
35 22 0.63
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (34 bp):
ATGAACTCAGGTGAGTTCTAATCTGCTCGGCATG
Found at i:46246140 original size:1 final size:1
Alignment explanation
Indices: 46246134--46246161 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
46246124 TCTGCATGAT
46246134 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
46246162 CCCCACCAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:46247349 original size:8 final size:8
Alignment explanation
Indices: 46247347--46247390 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
46247337 AAAAATTATA
*
46247347 AAAATATT
1 AAAATAAT
46247355 AAAATAAT
1 AAAATAAT
46247363 AAAATAAT
1 AAAATAAT
46247371 AAAATAAT
1 AAAATAAT
*
46247379 AAAATTAT
1 AAAATAAT
46247387 AAAA
1 AAAA
46247391 AGTTCATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAATAAT
Found at i:46247374 original size:24 final size:25
Alignment explanation
Indices: 46247338--46247390 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
46247328 AAATAATTTA
* *
46247338 AAAATTATAAAAATATTAAAATAAT
1 AAAATAATAAAAATAATAAAATAAT
*
46247363 AAAATAAT-AAAATAATAAAATTAT
1 AAAATAATAAAAATAATAAAATAAT
46247387 AAAA
1 AAAA
46247391 AGTTCATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAATAATAAAAATAATAAAATAAT
Found at i:46249146 original size:17 final size:16
Alignment explanation
Indices: 46249119--46249153 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
46249109 TTCAAGATCC
*
46249119 ATAATTATTTTTTTAA
1 ATAATTATTTTTTAAA
46249135 ATAATATATTTTTTAAA
1 ATAAT-TATTTTTTAAA
46249152 AT
1 AT
46249154 CTGAATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATAATTATTTTTTAAA
Found at i:46253972 original size:18 final size:16
Alignment explanation
Indices: 46253933--46253972 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 16
46253923 TTGTCAAGTG
46253933 TTTTATTTCTTTTATA
1 TTTTATTTCTTTTATA
46253949 TATTTATTTCTTTTTATTA
1 T-TTTATTTC-TTTTA-TA
46253968 TTTTA
1 TTTTA
46253973 CTATATCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.05
17 8 0.38
18 9 0.43
19 3 0.14
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTCTTTTATA
Found at i:46254303 original size:22 final size:24
Alignment explanation
Indices: 46254273--46254317 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
46254263 ATATATAAAA
46254273 ATTTCTC-AAAATAAT-ATTTTTT
1 ATTTCTCAAAAATAATGATTTTTT
*
46254295 ATTTTTCAAAAATAATGATTTTT
1 ATTTCTCAAAAATAATGATTTTT
46254318 CTAATTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTCTCAAAAATAATGATTTTTT
Found at i:46254695 original size:13 final size:13
Alignment explanation
Indices: 46254677--46254722 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
46254667 TCATATTTTA
46254677 AAATAAAGTGTTT
1 AAATAAAGTGTTT
46254690 AAATAAAGTGTTT
1 AAATAAAGTGTTT
* * *
46254703 TAATAATAATATTT
1 AAATAA-AGTGTTT
46254717 AAATAA
1 AAATAA
46254723 TTTAATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (13 bp):
AAATAAAGTGTTT
Found at i:46263815 original size:55 final size:55
Alignment explanation
Indices: 46263753--46263858 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
46263743 GGTTCGCCAA
* * * * **
46263753 GACTATCTTATGTGGAAGTCCTTAAGGATTATTTGATATGTGGTAAGTCCACCAT
1 GACTATCTTATGTGGAAGTCCATAAGGACTATCTAATATGTGAAAAGTCCACCAT
46263808 GACTATCTTATGTGGAAGTCCATAAGGACTATCTAATATGTGAAAAGTCCA
1 GACTATCTTATGTGGAAGTCCATAAGGACTATCTAATATGTGAAAAGTCCA
46263859 TCAGGATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (55 bp):
GACTATCTTATGTGGAAGTCCATAAGGACTATCTAATATGTGAAAAGTCCACCAT
Found at i:46263829 original size:26 final size:26
Alignment explanation
Indices: 46263753--46263841 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
46263743 GGTTCGCCAA
**
46263753 GACTATCTTATGTGGAAGTCCTTAAG
1 GACTATCTTATGTGGAAGTCCACAAG
* * * *
46263779 GATTATTTGATATGTGGTAAGTCCACCAT
1 GACTATCT--TATGTGG-AAGTCCACAAG
*
46263808 GACTATCTTATGTGGAAGTCCATAAG
1 GACTATCTTATGTGGAAGTCCACAAG
46263834 GACTATCT
1 GACTATCT
46263842 AATATGTGAA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
26 22 0.45
27 7 0.14
28 7 0.14
29 13 0.27
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (26 bp):
GACTATCTTATGTGGAAGTCCACAAG
Found at i:46263859 original size:29 final size:26
Alignment explanation
Indices: 46263753--46263877 Score: 81
Period size: 29 Copynumber: 4.6 Consensus size: 26
46263743 GGTTCGCCAA
* *
46263753 GACTATCTTATGTGGAAGTCCTTAAG
1 GACTATCTTATGTGAAAGTCCATAAG
* * * ** *
46263779 GATTATTTGATATGTGGTAAGTCCACCAT
1 GACTATCT--TATGT-GAAAGTCCATAAG
*
46263808 GACTATCTTATGTGGAAGTCCATAAG
1 GACTATCTTATGTGAAAGTCCATAAG
*
46263834 GACTATCTAATATGTGAAAAGTCCATCAG
1 GACTATCT--TATGTG-AAAGTCCATAAG
* *
46263863 GATTATCGT-TGTGAA
1 GACTATCTTATGTGAA
46263878 GAAATTTCAT
Statistics
Matches: 76, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
25 2 0.03
26 27 0.36
27 6 0.08
28 11 0.14
29 30 0.39
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (26 bp):
GACTATCTTATGTGAAAGTCCATAAG
Found at i:46267130 original size:13 final size:13
Alignment explanation
Indices: 46267112--46267136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46267102 TTTAGCTGTC
46267112 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
46267125 AAAAAAGAAAAA
1 AAAAAAGAAAAA
46267137 AAAGATGAAA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:46269667 original size:21 final size:21
Alignment explanation
Indices: 46269621--46269674 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
46269611 CCTATGATAG
*
46269621 TTCTACCGATATAAGTGAGAC
1 TTCTACCGATACAAGTGAGAC
* *
46269642 ATCTACCGATACAAGTCGTG-C
1 TTCTACCGATACAAGT-GAGAC
46269663 TTCTACCGATAC
1 TTCTACCGATAC
46269675 TAAAAACTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTGAGAC
Found at i:46276419 original size:5 final size:5
Alignment explanation
Indices: 46276409--46276434 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46276399 GGTTCGAACT
46276409 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
46276435 AAATATCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:46278884 original size:22 final size:22
Alignment explanation
Indices: 46278855--46278902 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
46278845 CGATCCATTA
46278855 TAAA-TTGGTATTAGAGCTAGG
1 TAAACTTGGTATTAGAGCTAGG
46278876 TAAACTTGGTATTAGAGCTAGG
1 TAAACTTGGTATTAGAGCTAGG
46278898 TAAAC
1 TAAAC
46278903 CCATTTAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (22 bp):
TAAACTTGGTATTAGAGCTAGG
Found at i:46287915 original size:14 final size:14
Alignment explanation
Indices: 46287896--46287922 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46287886 CCATTAAATG
46287896 ATGTTAATGGAATA
1 ATGTTAATGGAATA
46287910 ATGTTAATGGAAT
1 ATGTTAATGGAAT
46287923 TTGGCTTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (14 bp):
ATGTTAATGGAATA
Found at i:46292533 original size:58 final size:56
Alignment explanation
Indices: 46292471--46292630 Score: 184
Period size: 58 Copynumber: 2.8 Consensus size: 56
46292461 ATTTTTCTAA
46292471 TATTATATATTATA-ATTTTTATT-AATTCATATTTTAATAATAATTATATTAAAAATAT
1 TATTA-ATATTATATATTTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATAT
* *
46292529 TATTAA-ATTATATATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATAT
1 TATTAATATTATATA-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATAT
*
46292586 AATTAA-ATTAATTAATATTTTTATTAAATTATATTTAATAATAAT
1 TATTAATATT-A-T-ATATTTTTATTAAATTATATTTAATAATAAT
46292631 CATTAAAATT
Statistics
Matches: 91, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
56 6 0.07
57 17 0.19
58 50 0.55
59 11 0.12
60 7 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.53
Consensus pattern (56 bp):
TATTAATATTATATATTTTTATTAAATTATATTTAATAATAATTATATTAAAATAT
Found at i:46292822 original size:16 final size:16
Alignment explanation
Indices: 46292801--46292856 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
46292791 TGAATTACTG
*
46292801 ATTACAG-TCCTATTTC
1 ATTACAGCT-CTATTCC
46292817 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
46292833 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
46292849 ATTACAGC
1 ATTACAGC
46292857 GAACCAAACG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 35 0.97
17 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:46292975 original size:22 final size:22
Alignment explanation
Indices: 46292947--46292991 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
46292937 AGTGCTCTTA
46292947 TTGGTGCTATTTT-TGTGTTGTT
1 TTGGTGCTATTTTAT-TGTTGTT
46292969 TTGGTGCTATTTTATTGTTGTT
1 TTGGTGCTATTTTATTGTTGTT
46292991 T
1 T
46292992 CATAGCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.07, C:0.04, G:0.24, T:0.64
Consensus pattern (22 bp):
TTGGTGCTATTTTATTGTTGTT
Found at i:46293046 original size:23 final size:23
Alignment explanation
Indices: 46293018--46293061 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
46293008 GTTGTTTTGT
46293018 TGTCGTTTTTAATATTATTTGAC
1 TGTCGTTTTTAATATTATTTGAC
46293041 TGTCGTTTTTAATATTATTTG
1 TGTCGTTTTTAATATTATTTG
46293062 TATATTGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.14, T:0.59
Consensus pattern (23 bp):
TGTCGTTTTTAATATTATTTGAC
Found at i:46294447 original size:2 final size:2
Alignment explanation
Indices: 46294440--46294466 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46294430 TTTACTAACT
46294440 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 T
46294467 TATTTTAGTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46296788 original size:3 final size:3
Alignment explanation
Indices: 46296780--46296810 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
46296770 TTGATATATT
46296780 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
46296811 CTTGCAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:46302552 original size:18 final size:18
Alignment explanation
Indices: 46302517--46302555 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46302507 ATTAAGAATT
**
46302517 TTAATAAATTGTTAAAAA
1 TTAATAAAAAGTTAAAAA
*
46302535 TTAATAAAAAGTTTAAAA
1 TTAATAAAAAGTTAAAAA
46302553 TTA
1 TTA
46302556 CAATAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TTAATAAAAAGTTAAAAA
Found at i:46303559 original size:20 final size:20
Alignment explanation
Indices: 46303534--46303572 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46303524 ATTTCGTATC
46303534 GGACACAAAACGCTTTTGCT
1 GGACACAAAACGCTTTTGCT
* *
46303554 GGACACGAAATGCTTTTGC
1 GGACACAAAACGCTTTTGC
46303573 CGAACACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (20 bp):
GGACACAAAACGCTTTTGCT
Found at i:46305727 original size:16 final size:16
Alignment explanation
Indices: 46305702--46305732 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46305692 ATTAGGATTG
*
46305702 TAATGGAATAAAGTTA
1 TAATGAAATAAAGTTA
46305718 TAATGAAATAAAGTT
1 TAATGAAATAAAGTT
46305733 GATATTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (16 bp):
TAATGAAATAAAGTTA
Found at i:46305982 original size:61 final size:63
Alignment explanation
Indices: 46305908--46306044 Score: 206
Period size: 61 Copynumber: 2.2 Consensus size: 63
46305898 TTATTAAATA
* * * *
46305908 TAATATGATTATTATTAAATACAATTTAAT-AAAAATAATAATAAATAATTTAATTATATT-T
1 TAATATAATTATTATTAAATACAATTTAATAAAAAATAATAATAAACAATTTAATAACATTCT
* *
46305969 TAATATAATTATTATTAAATATAATTTAATAAAAAATAATAATATACAATTTAATAACATTCT
1 TAATATAATTATTATTAAATACAATTTAATAAAAAATAATAATAAACAATTTAATAACATTCT
46306032 TAATATAATTATT
1 TAATATAATTATT
46306045 TTTATATTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 28 0.41
62 26 0.38
63 14 0.21
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (63 bp):
TAATATAATTATTATTAAATACAATTTAATAAAAAATAATAATAAACAATTTAATAACATTCT
Found at i:46305989 original size:16 final size:16
Alignment explanation
Indices: 46305909--46305994 Score: 54
Period size: 16 Copynumber: 5.6 Consensus size: 16
46305899 TATTAAATAT
*
46305909 AATATGATTATTATTA
1 AATATAATTATTATTA
* *
46305925 AATACAA-T-TTAATA
1 AATATAATTATTATTA
* * * *
46305939 AAAATAATAATAAAT-
1 AATATAATTATTATTA
* *
46305954 AATTTAATTA-TATTTT
1 AATATAATTATTA-TTA
46305970 AATATAATTATTATTA
1 AATATAATTATTATTA
46305986 AATATAATT
1 AATATAATT
46305995 TAATAAAAAA
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
14 11 0.22
15 9 0.18
16 29 0.57
17 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (16 bp):
AATATAATTATTATTA
Found at i:46306068 original size:62 final size:62
Alignment explanation
Indices: 46305908--46306058 Score: 189
Period size: 62 Copynumber: 2.5 Consensus size: 62
46305898 TTATTAAATA
* * * * * *
46305908 TAATATGATTATTATTAAATACAATTTAAT-AAAAATAATAATAAATAATTTAATTATATTT
1 TAATATAATTATTATTAAATATAAATTAATAAAAAATAATAATAAACAATTTAATAACATTT
* *
46305969 TAATATAATTATTATTAAATATAATTTAATAAAAAATAATAATATACAATTTAATAACATTCT
1 TAATATAATTATTATTAAATATAAATTAATAAAAAATAATAATAAACAATTTAATAACATT-T
* *
46306032 TAATATAATTATTTTTATAT-TAAATTA
1 TAATATAATTATTATTAAATATAAATTA
46306059 TATTAAAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
61 28 0.35
62 32 0.41
63 19 0.24
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.45
Consensus pattern (62 bp):
TAATATAATTATTATTAAATATAAATTAATAAAAAATAATAATAAACAATTTAATAACATTT
Found at i:46306074 original size:25 final size:24
Alignment explanation
Indices: 46306044--46306155 Score: 98
Period size: 26 Copynumber: 4.2 Consensus size: 24
46306034 ATATAATTAT
*
46306044 TTTTATATTAAATTATATTAAAATA
1 TTTTATATTAAAATAT-TTAAAATA
*
46306069 TTTTATTTTAAATTATATTTTAAAATAAAA
1 TTTTATATTAAA--ATA-TTTAAAAT---A
*
46306099 TATTTATACTAAAATATTTCAAATATA
1 T-TTTATATTAAAATATTT-AAA-ATA
*
46306126 TTTTATATTAAAATATTTCAAATA
1 TTTTATATTAAAATATTTAAAATA
46306150 TTTTAT
1 TTTTAT
46306156 TTGTATATTT
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
24 9 0.12
25 13 0.18
26 16 0.22
27 11 0.15
28 4 0.06
29 6 0.08
30 4 0.06
31 9 0.12
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTATATTAAAATATTTAAAATA
Found at i:46306157 original size:40 final size:40
Alignment explanation
Indices: 46306038--46306157 Score: 118
Period size: 40 Copynumber: 3.0 Consensus size: 40
46306028 TTCTTAATAT
* *
46306038 AATTAT-TTTTATATTAAATTATATTAAAATATTTTATTTTA
1 AATTATATTTTATATTAAA--ATATTTAAATATTTTATTTCA
* * * ***
46306079 AATTATATTTTAAAATAAAATATTTATACTAAAATATTTCA
1 AATTATATTTTATATTAAAATATTTA-AATATTTTATTTCA
46306120 AA-TATATTTTATATTAAAATATTTCAAATATTTTATTT
1 AATTATATTTTATATTAAAATATTT-AAATATTTTATTT
46306158 GTATATTTTT
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
40 34 0.55
41 18 0.29
42 10 0.16
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (40 bp):
AATTATATTTTATATTAAAATATTTAAATATTTTATTTCA
Found at i:46311623 original size:38 final size:38
Alignment explanation
Indices: 46311572--46311654 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
46311562 TATCTATAGA
46311572 ATGATCATCCTCATATATAGTTATACCCCTTTTTTCAC
1 ATGATCATCCTCATATATAGTTATACCCCTTTTTTCAC
*
46311610 ATGATCATTCTCATATATAGTTATACCCCTTTTTTCAC
1 ATGATCATCCTCATATATAGTTATACCCCTTTTTTCAC
46311648 ATGATCA
1 ATGATCA
46311655 CCACAGTCCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.42
Consensus pattern (38 bp):
ATGATCATCCTCATATATAGTTATACCCCTTTTTTCAC
Found at i:46315582 original size:42 final size:41
Alignment explanation
Indices: 46315487--46316054 Score: 495
Period size: 41 Copynumber: 13.8 Consensus size: 41
46315477 AAAGGTAAAA
* * * ***
46315487 CATTAGCGGCGCTTT-TCTTAATGCGCCGCAAAAGGTAAAG-
1 CATTAGCGGCGCTTTCCCTCAA-GCGCCGCTAAAGGTCGGGT
* *
46315527 CATTAGCGGCGCTTTACCCACAAGCGCCGCTAAAGGTGGGGT
1 CATTAGCGGCGCTTT-CCCTCAAGCGCCGCTAAAGGTCGGGT
* ** * * **
46315569 CATTAGCAGCGCTTTATCACAAGCGCCGCTAAAGTTCAAGT
1 CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTCGGGT
* * * *
46315610 CATTAGCGGCGCTTTCTCT-AATACACCGCTAAAGGTAGGGT
1 CATTAGCGGCGCTTTCCCTCAA-GCGCCGCTAAAGGTCGGGT
* * * *
46315651 AATTAGCGGCGCTTTCCCTCAAGCGTCGCTAAAGGCCAGGT
1 CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTCGGGT
* ** ** *
46315692 AATTAGCGGCGCTTTAACTCAAGCGCCGCTAAAGGTATGAT
1 CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTCGGGT
* * * *
46315733 CATTAGCGGCGCTTTCCTTGAAGCGCCACGAAAAGGTCGGGT
1 CATTAGCGGCGCTTTCCCTCAAGCGCCGC-TAAAGGTCGGGT
* * *
46315775 CATTAGCGGCGCTTTCCCTCAAGCACCGCTAAAGGTAGGAT
1 CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTCGGGT
**
46315816 CATTTAGCGGCGCTTTCATTCAAGCGCCGCTAAAAGGTCGGGT
1 CA-TTAGCGGCGCTTTCCCTCAAGCGCCGCT-AAAGGTCGGGT
**
46315859 CATTTAGCGGCGCTTTCATTCAAGCGCCGCTAAAAGGTCGGGT
1 CA-TTAGCGGCGCTTTCCCTCAAGCGCCGCT-AAAGGTCGGGT
* * *
46315902 CATTAGCGGCGCTTTTCCTCAAGTGCCGCTAAAGTTCGGGT
1 CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTCGGGT
*** *
46315943 CATTAGCGGCGCTTTATAT-AAGCGCCGCTAAAGGTCAGGT
1 CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTCGGGT
* * * * *
46315983 TATTAGCGGCGCTTT-TCTAATAAGCGTCGCTAAAGGT-GTG-
1 CATTAGCGGCGCTTTCCCT--CAAGCGCCGCTAAAGGTCGGGT
* *
46316023 AATTAGCGACGCTTTCCCAT-AAGCGCCGCTAA
1 CATTAGCGGCGCTTTCCC-TCAAGCGCCGCTAA
46316055 TTTATTTAAA
Statistics
Matches: 435, Mismatches: 80, Indels: 27
0.80 0.15 0.05
Matches are distributed among these distances:
39 13 0.03
40 62 0.14
41 189 0.43
42 117 0.27
43 54 0.12
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.25
Consensus pattern (41 bp):
CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTCGGGT
Found at i:46317635 original size:6 final size:6
Alignment explanation
Indices: 46317625--46317657 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
46317615 AGCAAGCGGT
*
46317625 GGCACT GGCACC GGCACC GGCACC GGCACC GGC
1 GGCACC GGCACC GGCACC GGCACC GGCACC GGC
46317658 GACTCATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.45, G:0.36, T:0.03
Consensus pattern (6 bp):
GGCACC
Found at i:46320564 original size:18 final size:18
Alignment explanation
Indices: 46320513--46321525 Score: 169
Period size: 18 Copynumber: 58.3 Consensus size: 18
46320503 TATCAGCTTG
46320513 ATTATAATTATTTAATTAT
1 ATTA-AATTATTTAATTAT
* **
46320532 ATTAAACTAAATAATTAT
1 ATTAAATTATTTAATTAT
* *
46320550 ATTAAGTTATTTAATCAT
1 ATTAAATTATTTAATTAT
*
46320568 GTTTAATTATGTATTTAATTAT
1 -ATTAA--AT-TATTTAATTAT
* **
46320590 A--AACACTA-TCGATTA-
1 ATTAA-ATTATTTAATTAT
*
46320605 ATTAAA-TATTTAAGTTAAAAG
1 ATTAAATTATTTAA-TT---AT
* *
46320626 ATTTAATTATTTAATGAT
1 ATTAAATTATTTAATTAT
*
46320644 ATTAAATT-TTATGATTAT
1 ATTAAATTATT-TAATTAT
46320662 ATT-AA--A-TTAA--AT
1 ATTAAATTATTTAATTAT
46320674 ATTAAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* **
46320692 ATTAAACTAAATAATTAT
1 ATTAAATTATTTAATTAT
*
46320710 ATTAAATTATTTAATCAT
1 ATTAAATTATTTAATTAT
*
46320728 GTTTAATTATGTATTTAATTAT
1 -ATTAA--AT-TATTTAATTAT
* **
46320750 A--AACACTA-TCGATTA-
1 ATTAA-ATTATTTAATTAT
* *
46320765 ATTAAA-TATTTAAGGTAAAAG
1 ATTAAATTATTTAA--T--TAT
*
46320786 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
46320804 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
46320822 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
*
46320835 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
46320853 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
46320871 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
*
46320884 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
46320902 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
46320920 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
*
46320933 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* **
46320951 ATTAAAGTAAATAATTAT
1 ATTAAATTATTTAATTAT
**
46320969 ATTAAATTAAATAATTAT
1 ATTAAATTATTTAATTAT
**
46320987 ATTAAATTAAATAATTAT
1 ATTAAATTATTTAATTAT
* **
46321005 ATT-AA-T-TTAAAAGAT
1 ATTAAATTATTTAATTAT
46321020 A-T-AATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* **
46321036 ATTAAACTAAATAATTAT
1 ATTAAATTATTTAATTAT
*
46321054 ATTAAATTATTTAATCAT
1 ATTAAATTATTTAATTAT
*
46321072 GTTTAATTATGTATTTAATTAT
1 -ATTAA--AT-TATTTAATTAT
* **
46321094 A--AACACTA-TCGATTA-
1 ATTAA-ATTATTTAATTAT
*
46321109 ATTAAA-TATTTAAGTTAAAAG
1 ATTAAATTATTTAA-TT---AT
*
46321130 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
46321148 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
46321166 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
* *
46321179 ATTTAATCATTTAATTAT
1 ATTAAATTATTTAATTAT
* * **
46321197 ACTAAAGTAAATAATTAT
1 ATTAAATTATTTAATTAT
46321215 ATTAAATTA---AA-TAT
1 ATTAAATTATTTAATTAT
46321229 -TT-AATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
46321245 ATTAAAGTAAATAAGTAT
1 ATTAAATTATTTAATTAT
* *
46321263 ATT--A--ATTTAA-AAG
1 ATTAAATTATTTAATTAT
46321276 ATGT-AATTATTTAATTAT
1 AT-TAAATTATTTAATTAT
* ** *
46321294 ATTAAACTAAATGATTAT
1 ATTAAATTATTTAATTAT
*
46321312 ATTAAATTATTTAATCAT
1 ATTAAATTATTTAATTAT
*
46321330 GTTTAATTATGTATTTAATTAT
1 -ATTAA--AT-TATTTAATTAT
* **
46321352 A--AACACTA-TCGATTA-
1 ATTAA-ATTATTTAATTAT
*
46321367 ATTAAA-TATTTAAGTTAAAAG
1 ATTAAATTATTTAA-TT---AT
*
46321388 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
46321406 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
46321424 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
* *
46321437 ATTTAATCATTTAATTAT
1 ATTAAATTATTTAATTAT
* * **
46321455 ACTAAAGTAAATAATTAT
1 ATTAAATTATTTAATTAT
46321473 ATTAAATTA---AA-TAT
1 ATTAAATTATTTAATTAT
46321487 -TT-AATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* **
46321503 ATTAAAGTAAATAATTAT
1 ATTAAATTATTTAATTAT
46321521 ATTAA
1 ATTAA
46321526 GTTAAAAGAT
Statistics
Matches: 700, Mismatches: 187, Indels: 215
0.64 0.17 0.20
Matches are distributed among these distances:
12 15 0.02
13 47 0.07
14 16 0.02
15 34 0.05
16 61 0.09
17 40 0.06
18 354 0.51
19 28 0.04
20 5 0.01
21 32 0.05
22 68 0.10
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTAAATTATTTAATTAT
Found at i:46320676 original size:30 final size:30
Alignment explanation
Indices: 46320642--46320713 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
46320632 TTATTTAATG
* *
46320642 ATATTAAATT-TTATGATTATATTAAATTAA
1 ATATTAAATTATT-TAATTATATTAAACTAA
46320672 ATATTAAATTATTTAATTATATTAAACTAA
1 ATATTAAATTATTTAATTATATTAAACTAA
*
46320702 ATAATTATATTA
1 AT-ATTAAATTA
46320714 AATTATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 27 0.73
31 10 0.27
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
ATATTAAATTATTTAATTATATTAAACTAA
Found at i:46320835 original size:49 final size:49
Alignment explanation
Indices: 46320774--46321561 Score: 701
Period size: 49 Copynumber: 15.8 Consensus size: 49
46320764 AATTAAATAT
*
46320774 TTAAGGTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
46320823 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
46320872 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
*
46320921 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
* * ** ** *
46320970 TTAAATTAAATAATTATATTAAATTAAATAATTATATTAATTTAAAAGA-TATAA
1 TTAAGTT-AA-AA-GAT-TT-AATTATTTAATTATATTAAAGTAAATGATTAT-A
* * * * * ** * ** * * *
46321024 TT-ATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGT
1 TTAAGTTAA-AAGATTTAATTATTTAATTATATTAAAGTAAATGATTAT-A
* ** * *
46321074 TTAA-TT--ATGTATTTAATTATAAACACTATCGATT-AA-TTAA--A-TAT-
1 TTAAGTTAAAAG-ATTTAATTATTTA-ATTAT--ATTAAAGTAAATGATTATA
46321118 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
* * *
46321167 TTAAGTTAAAAGATTTAATCATTTAATTATACTAAAGTAAATAATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
* * * *
46321216 TTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
* * *
46321264 TTAATTTAAAAGATGTAATTATTTAATTATATTAAACTAAATGATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
* * * ** *
46321313 TTAAATTATTTAATCATG-TTTAATTATGTATTTA-ATTATAAACACTATCGATTA-A
1 TTAAGTTA---AA--A-GATTTAATTATTTAATTATATTA-AAGTA-AAT-GATTATA
* ** *
46321368 TTAAATATTTAAG-TTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
1 TTAAGT-TAAAAGATT--TA-A-TT-A---TTTAATTATATTAAAGTAAATGATTATA
* * *
46321425 TTAAGTTAAAAGATTTAATCATTTAATTATACTAAAGTAAATAATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
* * *
46321474 TTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
*
46321522 TTAAGTTAAAAGATTTAATTATTTAATGATATTAAAGTAA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAA
46321562 CTAATTATTT
Statistics
Matches: 613, Mismatches: 82, Indels: 88
0.78 0.10 0.11
Matches are distributed among these distances:
43 3 0.00
44 6 0.01
45 9 0.01
46 13 0.02
47 4 0.01
48 99 0.16
49 335 0.55
50 14 0.02
51 10 0.02
52 10 0.02
53 15 0.02
54 45 0.07
55 12 0.02
56 15 0.02
57 10 0.02
58 9 0.01
59 4 0.01
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (49 bp):
TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATA
Found at i:46321026 original size:31 final size:35
Alignment explanation
Indices: 46320837--46321062 Score: 127
Period size: 31 Copynumber: 6.7 Consensus size: 35
46320827 GTTAAAAGAT
** * * *
46320837 TTAATTATTTAATTATATTAAAGTAAATGATTATA
1 TTAATTAAATAATGATATTAAATTAAATAATTATA
**
46320872 TTAAGTT-AA-AA-GAT-TT-AATTATTTAATTATA
1 TTAA-TTAAATAATGATATTAAATTAAATAATTATA
* * * * *
46320903 TTAAAGTAAATGATTATATTAAGTT-AA-AA-GAT-
1 TT-AATTAAATAATGATATTAAATTAAATAATTATA
** * *
46320935 TTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TTAATTAAATAATGATATTAAATTAAATAATTATA
*
46320970 TTAAATTAAATAATTATATTAAATTAAATAATTATA
1 TT-AATTAAATAATGATATTAAATTAAATAATTATA
* **
46321006 TTAATTTAA-AA-GATA-T-AATTATTTAATTATA
1 TTAATTAAATAATGATATTAAATTAAATAATTATA
* *
46321037 TTAAACTAAATAATTATATTAAATTA
1 TT-AATTAAATAATGATATTAAATTA
46321063 TTTAATCATG
Statistics
Matches: 143, Mismatches: 31, Indels: 33
0.69 0.15 0.16
Matches are distributed among these distances:
31 45 0.31
32 16 0.11
33 12 0.08
34 13 0.09
35 15 0.10
36 42 0.29
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (35 bp):
TTAATTAAATAATGATATTAAATTAAATAATTATA
Found at i:46321053 original size:258 final size:247
Alignment explanation
Indices: 46320872--46321582 Score: 1070
Period size: 258 Copynumber: 2.8 Consensus size: 247
46320862 AATGATTATA
46320872 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTT
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTT
* *
46320937 AATTATTTAATTATATTAAAGTAAATAATTATATTAAATTAA-A-TAATTATATTAAATTAAATA
66 AATCATTTAATTATACTAAAGTAAATAATTATATTAAATTAATATTAATTATATTAAATTAAATA
46321000 ATTATATTAATTTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATT
131 ATTATATTAATTTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATT
*
46321065 TAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATAT
196 TAATAATGTTTAATTATGTATTTAATTATAAACACTATC-ATTAATTAAATAT
46321118 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTT
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTT
*
46321183 AATCATTTAATTATACTAAAGTAAATAATTATATTAAATTAAATATTTAATTATTTAATTATATT
66 AATCATTTAATTATACTAAAGTAAATAATTATATTAAATT-AATA-TTAATTA--T-ATTAAATT
* *
46321248 AAAGTAAATAAGTATATTAATTTAAAAGATGTAATTATTTAATTATATTAAACTAAATGATTATA
126 AAA-T-AAT---TATATTAATTTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTATA
*
46321313 TTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATAT
186 TTAAATTATTTAATAATGTTTAATTATGTATTTAATTATAAACACTATC-ATTAATTAAATAT
46321376 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTT
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTT
46321441 AATCATTTAATTATACTAAAGTAAATAATTATATTAAATTAAATATTTAATTATTTAATTATATT
66 AATCATTTAATTATACTAAAGTAAATAA-T-TA-T--ATT-AA-A-TTAA-TA-TTAATTATATT
* * * * * *
46321506 AAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATGATATTAAAGTAACTAATTAT-
121 AAATTAAATAATTATATTAATTTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTATA
46321570 TT-AATTATATTAA
186 TTAAATTAT-TTAA
46321583 AGTAACCATA
Statistics
Matches: 430, Mismatches: 13, Indels: 33
0.90 0.03 0.07
Matches are distributed among these distances:
246 103 0.24
247 2 0.00
248 1 0.00
250 6 0.01
252 1 0.00
253 10 0.02
254 1 0.00
255 3 0.01
256 6 0.01
257 6 0.01
258 253 0.59
259 1 0.00
260 2 0.00
261 4 0.01
262 1 0.00
263 12 0.03
264 3 0.01
265 3 0.01
266 12 0.03
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (247 bp):
TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTT
AATCATTTAATTATACTAAAGTAAATAATTATATTAAATTAATATTAATTATATTAAATTAAATA
ATTATATTAATTTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATT
TAATAATGTTTAATTATGTATTTAATTATAAACACTATCATTAATTAAATAT
Found at i:46321070 original size:344 final size:342
Alignment explanation
Indices: 46320637--46321320 Score: 1172
Period size: 344 Copynumber: 2.0 Consensus size: 342
46320627 TTTAATTATT
** * *
46320637 TAATGATATTAAATTTTATGATTATATTAAATTAAATATTAAATTATTTAATTATATTAAACTAA
1 TAATGATATTAAATTAAATAATTATATTAAATTAAAGATTAAATTATTTAATTATATTAAACTAA
46320702 ATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTAAT
66 ATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTAAT
46320767 TAAATATTTAAGGTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAA
131 TAAATATTTAAGGTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAA
* * * *
46320832 AAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTTAATTATTTA
196 AAGATTTAATCATTTAATTATACTAAAGTAAATAATTATATTAAATT-AAAGATTTAATTATTTA
* * * *
46320897 ATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAA
260 ATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATGTAATTATTTAATTATATTAAACTAAA
46320962 TAATTATATTAAATTAAA
325 TAATTATATTAAATTAAA
* *
46320980 TAATTATATTAAATTAAATAATTATATTAATTTAAAAGA-TATAATTATTTAATTATATTAAACT
1 TAATGATATTAAATTAAATAATTATATTAAATT-AAAGATTA-AATTATTTAATTATATTAAACT
46321044 AAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTA
64 AAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTA
*
46321109 ATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTT
129 ATTAAATATTTAAGGTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTT
*
46321174 AAAAGATTTAATCATTTAATTATACTAAAGTAAATAATTATATTAAATTAAATATTTAATTATTT
194 AAAAGATTTAATCATTTAATTATACTAAAGTAAATAATTATATTAAATTAAAGATTTAATTATTT
*
46321239 AATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATGTAATTATTTAATTATATTAAACTAA
259 AATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATGTAATTATTTAATTATATTAAACTAA
*
46321304 ATGATTATATTAAATTA
324 ATAATTATATTAAATTA
46321321 TTTAATCATG
Statistics
Matches: 321, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
343 121 0.38
344 200 0.62
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (342 bp):
TAATGATATTAAATTAAATAATTATATTAAATTAAAGATTAAATTATTTAATTATATTAAACTAA
ATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTAAT
TAAATATTTAAGGTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAA
AAGATTTAATCATTTAATTATACTAAAGTAAATAATTATATTAAATTAAAGATTTAATTATTTAA
TTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATGTAATTATTTAATTATATTAAACTAAAT
AATTATATTAAATTAAA
Found at i:46321239 original size:97 final size:98
Alignment explanation
Indices: 46320980--46321573 Score: 577
Period size: 97 Copynumber: 5.8 Consensus size: 98
46320970 TTAAATTAAA
* * * *
46320980 TAATTATATTAAATTAAATAATTATATTAATTTAAAAGATATAATTATTTAATTATATTAAACTA
1 TAATTATATTAAAGTAAATAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTA
* *
46321045 AATAATTATATTAAATTATTTAATCATG-TTTAATTATG
66 AATAATTATATTAAGTTA---AA--A-GATTTAATTATT
* * * * *
46321083 TATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTAT
1 TAATT-A-TATTAA-AGTA---AATAATT--ATA-TTAAATTAAAAGATTTAATTATTTAATTAT
* *
46321148 ATTAAAGTAAATGATTATATTAAGTTAAAAGATTTAATCATT
57 ATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATT
* *
46321190 TAATTATACTAAAGTAAATAATTATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTA
1 TAATTATATTAAAGTAAATAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTA
* * *
46321254 AATAAGTATATTAATTTAAAAGATGTAATTATT
66 AATAATTATATTAAGTTAAAAGATTTAATTATT
* * * *
46321287 TAATTATATTAAACTAAATGATTATATTAAATTATTTAATCATG-TTTAATTATGTATTTAATTA
1 TAATTATATTAAAGTAAATAATTATATTAAATTA---AA--A-GATTTAATTATTTAATT-A-TA
* * *
46321351 TAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATT
58 TTAA-AGTA---AATAATT--ATA-TTAAGTTAAAAGATTTAATTATT
* * * *
46321399 TAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTTAATCATTTAATTATACTAAAGTA
1 TAATTATATTAAAGTAAATAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTA
* *
46321464 AATAATTATATTAAATT-AAATATTTAATTATT
66 AATAATTATATTAAGTTAAAAGATTTAATTATT
* *
46321496 TAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATGATATTAAAGTA
1 TAATTATATTAAAGTAAATAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTA
*
46321561 ACTAATTAT-TTAA
66 AATAATTATATTAA
46321574 TTATATTAAA
Statistics
Matches: 413, Mismatches: 51, Indels: 61
0.79 0.10 0.12
Matches are distributed among these distances:
96 4 0.01
97 171 0.41
98 12 0.03
99 6 0.01
101 14 0.03
103 18 0.04
104 8 0.02
105 18 0.04
106 10 0.02
107 26 0.06
109 15 0.04
111 6 0.01
112 105 0.25
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (98 bp):
TAATTATATTAAAGTAAATAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTA
AATAATTATATTAAGTTAAAAGATTTAATTATT
Found at i:46321500 original size:30 final size:31
Alignment explanation
Indices: 46321466--46321524 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
46321456 CTAAAGTAAA
* *
46321466 TAATTATATTAAATTAAATATTTA-ATTATT
1 TAATTATATTAAAGTAAATAATTATATTATT
46321496 TAATTATATTAAAGTAAATAATTATATTA
1 TAATTATATTAAAGTAAATAATTATATTA
46321525 AGTTAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
TAATTATATTAAAGTAAATAATTATATTATT
Found at i:46327100 original size:66 final size:66
Alignment explanation
Indices: 46326994--46327150 Score: 208
Period size: 66 Copynumber: 2.4 Consensus size: 66
46326984 CAAATTGCTC
*
46326994 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATC-T
1 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCA-CAT
46327058 AA
65 AA
* * ** *
46327060 AACTTAAAGAGGAGGTTGTAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACATA
1 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
*
46327125 C
66 A
* * *
46327126 AACTTAAAGTGGAGGCAGCAGCGAG
1 AACTTAAAGAGGAGGCTGCAACGAG
46327151 GCAAGCGGAG
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
65 1 0.01
66 77 0.99
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.16
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
A
Found at i:46327153 original size:11 final size:11
Alignment explanation
Indices: 46327137--46327174 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
46327127 ACTTAAAGTG
46327137 GAGGCAGCAGC
1 GAGGCAGCAGC
46327148 GAGGCA--AGC
1 GAGGCAGCAGC
46327157 GGAGGCAGCAGC
1 -GAGGCAGCAGC
46327169 GAGGCA
1 GAGGCA
46327175 AGCGAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.12
10 6 0.25
11 12 0.50
12 3 0.12
ACGTcount: A:0.29, C:0.24, G:0.47, T:0.00
Consensus pattern (11 bp):
GAGGCAGCAGC
Found at i:46327162 original size:21 final size:21
Alignment explanation
Indices: 46327136--46327188 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
46327126 AACTTAAAGT
46327136 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
46327157 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
* *
46327178 GAAGGAAGCAG
1 GGAGGCAGCAG
46327189 AGGCTACAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.47, T:0.00
Consensus pattern (21 bp):
GGAGGCAGCAGCGAGGCAAGC
Found at i:46327537 original size:43 final size:43
Alignment explanation
Indices: 46327489--46327602 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 43
46327479 CCGTTATATT
*
46327489 AGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
1 AGCGGCGCTTCTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
* **
46327532 AGCGGCGCTTTTGGATGAAGCGCCGCTAAAGAACATGGCCTTC
1 AGCGGCGCTTCTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
46327575 AGCGGCGCTTCTGGAGAAAA-CGCCGCTA
1 AGCGGCGCTTCTGGA-AAAAGCGCCGCTA
46327603 TTTTTTGCGG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 62 0.97
44 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.31, T:0.18
Consensus pattern (43 bp):
AGCGGCGCTTCTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
Found at i:46333140 original size:27 final size:27
Alignment explanation
Indices: 46333110--46333187 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
46333100 GGAATGAACT
46333110 AATCATGAAATGGAAGCCTTTGTGACA
1 AATCATGAAATGGAAGCCTTTGTGACA
* * *
46333137 AATCATGAAATGAAAGCCCTTGTGACG
1 AATCATGAAATGGAAGCCTTTGTGACA
*
46333164 AATCATGAAATGGAAGTCTTTGTG
1 AATCATGAAATGGAAGCCTTTGTG
46333188 GTGCACTCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCATGAAATGGAAGCCTTTGTGACA
Found at i:46333675 original size:41 final size:40
Alignment explanation
Indices: 46333564--46333754 Score: 134
Period size: 41 Copynumber: 4.7 Consensus size: 40
46333554 ACTTTTGGAC
* * * * *
46333564 AGAAAGCGCCGCAAAAGGT-AAAGCAATAGCGGTGTTTATAG
1 AGAAAGCGCTGCTAAAGGTCAGAGCATTAGC-GTATTTAT-G
* * * * * *
46333605 GGAAAGCGCCGCTAATGCTCTGA-CTTTAGCAGTATTTATG
1 AGAAAGCGCTGCTAAAGGTCAGAGCATTAGC-GTATTTATG
** *
46333645 AGAAAGCGCTATTAAAGGTCAGAGCATTAGCGATGTTTATG
1 AGAAAGCGCTGCTAAAGGTCAGAGCATTAGCG-TATTTATG
* * * * *
46333686 AGAAAGCGCCGCTAAAGGTTAGAGCATTAACGGCATTCATG
1 AGAAAGCGCTGCTAAAGGTCAGAGCATTAGC-GTATTTATG
* *
46333727 AGAAAGCGTTGCTAAAGGTCAAAGCATT
1 AGAAAGCGCTGCTAAAGGTCAGAGCATT
46333755 GGCGACGTTT
Statistics
Matches: 115, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
40 18 0.16
41 95 0.83
42 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (40 bp):
AGAAAGCGCTGCTAAAGGTCAGAGCATTAGCGTATTTATG
Found at i:46334397 original size:25 final size:25
Alignment explanation
Indices: 46334369--46334433 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
46334359 GATAATTCAC
**
46334369 AAAATCTATTAATGGAAAAAG-ATTT
1 AAAAT-TATTAATAAAAAAAGAATTT
*
46334394 AAAATTTATAAATAAAAAAAGAATTT
1 AAAA-TTATTAATAAAAAAAGAATTT
46334420 -AAATTATTAATAAA
1 AAAATTATTAATAAA
46334434 TAGATTCGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 10 0.29
25 19 0.56
26 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (25 bp):
AAAATTATTAATAAAAAAAGAATTT
Found at i:46334851 original size:21 final size:21
Alignment explanation
Indices: 46334808--46334853 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
46334798 TGAATGTTTC
* *
46334808 AAAATTCAAATTTAAACCGAA
1 AAAATTAAAATTTAAACAGAA
46334829 AAAATTAAAATTTAAA-AGTAA
1 AAAATTAAAATTTAAACAG-AA
46334850 AAAA
1 AAAA
46334854 AGCTCGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAATTAAAATTTAAACAGAA
Found at i:46335185 original size:18 final size:20
Alignment explanation
Indices: 46335133--46335191 Score: 77
Period size: 18 Copynumber: 3.0 Consensus size: 20
46335123 GTAGTCCAGT
46335133 TAGGTTGAAGCCAGCAGCAG
1 TAGGTTGAAGCCAGCAGCAG
*
46335153 TATGTGTTCAAGCCAGCAG-AG
1 TA-G-GTTGAAGCCAGCAGCAG
46335174 -AGGTTGAAGCCAGCAGCA
1 TAGGTTGAAGCCAGCAGCA
46335192 TATTAATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 13 0.38
19 2 0.06
20 3 0.09
21 3 0.09
22 13 0.38
ACGTcount: A:0.31, C:0.20, G:0.32, T:0.17
Consensus pattern (20 bp):
TAGGTTGAAGCCAGCAGCAG
Found at i:46336159 original size:18 final size:19
Alignment explanation
Indices: 46336132--46336167 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46336122 GGTTCTTGGA
46336132 AAATTAATTTTA-GAAAAT
1 AAATTAATTTTATGAAAAT
*
46336150 AAATTGATTTTATGAAAA
1 AAATTAATTTTATGAAAA
46336168 ATTTTGAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (19 bp):
AAATTAATTTTATGAAAAT
Found at i:46337421 original size:34 final size:34
Alignment explanation
Indices: 46337378--46337559 Score: 129
Period size: 34 Copynumber: 5.1 Consensus size: 34
46337368 ATTTAAATAT
46337378 TTATTAAAAACAA-CTCAAATATTTAATTATTTAA
1 TTATTAAAAACAATC-CAAATATTTAATTATTTAA
46337412 TTATTAAAAACAATCCAAATATTTAATTATTTAA
1 TTATTAAAAACAATCCAAATATTTAATTATTTAA
** ** * ***
46337446 TTA--AACATTTAATTATTAAAAAACCCAATTATTTAA
1 TTATTAA-A---AACAATCCAAATATTTAATTATTTAA
*
46337482 TTATTAAAAACAACCCAAATATTTAAATCAAAATATTTAA
1 TTATTAAAAACAATCCAAATATTT-AAT-----TATTTAA
* * *
46337522 TTATTAAAAATAATCC-AATATGTAATAATTTAA
1 TTATTAAAAACAATCCAAATATTTAATTATTTAA
46337555 TTATT
1 TTATT
46337560 TCATTATTTA
Statistics
Matches: 114, Mismatches: 21, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
32 2 0.02
33 12 0.11
34 42 0.37
35 4 0.04
36 21 0.18
37 1 0.01
38 5 0.04
39 6 0.05
40 21 0.18
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.40
Consensus pattern (34 bp):
TTATTAAAAACAATCCAAATATTTAATTATTTAA
Found at i:46337627 original size:51 final size:50
Alignment explanation
Indices: 46337518--46337728 Score: 183
Period size: 56 Copynumber: 4.0 Consensus size: 50
46337508 ATCAAAATAT
* * * * *
46337518 TTAATTATTAAAAATAATCC-AATATGT-AATAATTTAATTATTTCATTAT
1 TTAATTATTAAAAACAACCCAAATATTTAAAT-ATTTAATTATTTAATTAG
* *
46337567 TTAACTATTAAAAACAACCCAAATATTTAGAATATTTAATTCTTTAATTAG
1 TTAATTATTAAAAACAACCCAAATATTTA-AATATTTAATTATTTAATTAG
*
46337618 TTAATTATTAAAAACAACCTAAATATTTATTTCAAAATATTTAATTATTTAATTAG
1 TTAATTATTAAAAACAACC-CAA-A--TATTT--AAATATTTAATTATTTAATTAG
* **
46337674 TTAATTATTTAAAACAACTATAATATTTATTTCAAAATATTTAATTATTTAATTA
1 TTAATTATTAAAAACAAC-CCAA-A--TATTT--AAATATTTAATTATTTAATTA
46337729 TATTTAATTA
Statistics
Matches: 139, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
49 17 0.12
50 6 0.04
51 33 0.24
52 5 0.04
53 1 0.01
55 5 0.04
56 71 0.51
57 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (50 bp):
TTAATTATTAAAAACAACCCAAATATTTAAATATTTAATTATTTAATTAG
Found at i:46337667 original size:18 final size:17
Alignment explanation
Indices: 46337644--46337788 Score: 72
Period size: 18 Copynumber: 8.5 Consensus size: 17
46337634 ACCTAAATAT
46337644 TTATTTCAAAATATTTAA
1 TTATTT-AAAATATTTAA
* *
46337662 TTATTT-AATTAGTTAA
1 TTATTTAAAATATTTAA
* *
46337678 TTATTTAAAACAACTATAATAT
1 TTATTT--AA-AA-TAT-TTAA
46337700 TTATTTCAAAATATTTAA
1 TTATTT-AAAATATTTAA
*
46337718 TTATTTAATTATATTT-A
1 TTATTTAA-AATATTTAA
46337735 --A-TT-AAATATTTAA
1 TTATTTAAAATATTTAA
* * *
46337748 TTATTAAAAACAACTTAA
1 TTATTTAAAA-TATTTAA
*
46337766 ATATTT-AAATATTT-A
1 TTATTTAAAATATTTAA
46337781 TTATTTAA
1 TTATTTAA
46337789 TTATTAAAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
12 6 0.06
13 2 0.02
14 2 0.02
15 8 0.09
16 19 0.20
17 9 0.10
18 29 0.31
19 4 0.04
20 3 0.03
21 4 0.04
22 8 0.09
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.50
Consensus pattern (17 bp):
TTATTTAAAATATTTAA
Found at i:46337668 original size:8 final size:8
Alignment explanation
Indices: 46337655--46337685 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
46337645 TATTTCAAAA
46337655 TATTTAAT
1 TATTTAAT
46337663 TATTTAAT
1 TATTTAAT
*
46337671 TAGTTAAT
1 TATTTAAT
46337679 TATTTAA
1 TATTTAA
46337686 AACAACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (8 bp):
TATTTAAT
Found at i:46337676 original size:56 final size:56
Alignment explanation
Indices: 46337549--46337728 Score: 246
Period size: 56 Copynumber: 3.3 Consensus size: 56
46337539 ATATGTAATA
* * * * *
46337549 ATTTAATTATTTCATTATTTAACTATTAAAAACAACC-CAA-A--TATTT-AGAAT
1 ATTTAATTATTTAATTAGTTAATTATTAAAAACAACCTAAATATTTATTTCAAAAT
*
46337600 ATTTAATTCTTTAATTAGTTAATTATTAAAAACAACCTAAATATTTATTTCAAAAT
1 ATTTAATTATTTAATTAGTTAATTATTAAAAACAACCTAAATATTTATTTCAAAAT
*
46337656 ATTTAATTATTTAATTAGTTAATTATTTAAAACAA-CTATAATATTTATTTCAAAAT
1 ATTTAATTATTTAATTAGTTAATTATTAAAAACAACCTA-AATATTTATTTCAAAAT
46337712 ATTTAATTATTTAATTA
1 ATTTAATTATTTAATTA
46337729 TATTTAATTA
Statistics
Matches: 115, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
51 33 0.29
52 2 0.02
53 1 0.01
55 8 0.07
56 71 0.62
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (56 bp):
ATTTAATTATTTAATTAGTTAATTATTAAAAACAACCTAAATATTTATTTCAAAAT
Found at i:46337770 original size:38 final size:40
Alignment explanation
Indices: 46337728--46337804 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
46337718 TTATTTAATT
46337728 ATATTT-A-ATTAAATATTTAATTATTAAAAACAACTTAA
1 ATATTTAATATTAAATATTTAATTATTAAAAACAACTTAA
* *
46337766 ATATTTAAATATTTATTATTTAATTATTAAAAACAACTT
1 ATATTT-AATATTAAATATTTAATTATTAAAAACAACTT
46337805 TTCTAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 6 0.18
40 1 0.03
41 27 0.79
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (40 bp):
ATATTTAATATTAAATATTTAATTATTAAAAACAACTTAA
Found at i:46337796 original size:30 final size:31
Alignment explanation
Indices: 46337708--46337796 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 31
46337698 ATTTATTTCA
**
46337708 AAATATTTAATTATTTAATTA-TATTTAATT
1 AAATATTTAATTATTTAATTATTAAATAATT
* ** *
46337738 AAATATTTAATTATTAAAAACAACTTAAATATTT
1 AAATATTTAATTATT--TAATTA-TTAAATAATT
46337772 AAATATTT-ATTATTTAATTATTAAA
1 AAATATTTAATTATTTAATTATTAAA
46337797 AACAACTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
30 20 0.43
31 3 0.07
32 3 0.07
33 6 0.13
34 14 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
AAATATTTAATTATTTAATTATTAAATAATT
Found at i:46342506 original size:43 final size:43
Alignment explanation
Indices: 46342459--46342773 Score: 251
Period size: 43 Copynumber: 7.3 Consensus size: 43
46342449 AATATGTTAA
*
46342459 TTTTAGCGGCGTTTGTGAGAAAAGCACCATTAAAGATCATGTT
1 TTTTAGCGGCGTTTGTGAGAAAAGCATCATTAAAGATCATGTT
* * *
46342502 TTTTAGCGGCGTTTGTGAGGAAAGCATCGTTAAAGATCTTGTT
1 TTTTAGCGGCGTTTGTGAGAAAAGCATCATTAAAGATCATGTT
* * * *** **
46342545 CTTTAGTGGCGTTTGTGGGAAAAATGTCATTAAAGATCATACT
1 TTTTAGCGGCGTTTGTGAGAAAAGCATCATTAAAGATCATGTT
* * * * *
46342588 CTTTAGCGGTGTTTATGAGGAAAGCGTCGA-TAAAGATCATGTT
1 TTTTAGCGGCGTTTGTGAGAAAAGCATC-ATTAAAGATCATGTT
* * * ** * *
46342631 ATTTAACGGCGTTTGTGGGAAAAGTGTCGTTAAAAATCATGTT
1 TTTTAGCGGCGTTTGTGAGAAAAGCATCATTAAAGATCATGTT
* * * * ** *
46342674 CTTTACCGGTGTTTGTTG-GAAATA-CGTTTTTAAAAATCATGTT
1 TTTTAGCGGCGTTTG-TGAGAAA-AGCATCATTAAAGATCATGTT
* * *
46342717 TTTTAGTGGCGTTTGTGAGAAAAG-AGCCATTAAAGATCATATT
1 TTTTAGCGGCGTTTGTGAGAAAAGCA-TCATTAAAGATCATGTT
*
46342760 TTTTAACGGCGTTT
1 TTTTAGCGGCGTTT
46342774 TTCCTCATAA
Statistics
Matches: 214, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
42 3 0.01
43 207 0.97
44 4 0.02
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (43 bp):
TTTTAGCGGCGTTTGTGAGAAAAGCATCATTAAAGATCATGTT
Found at i:46342593 original size:86 final size:86
Alignment explanation
Indices: 46342486--46342773 Score: 301
Period size: 86 Copynumber: 3.3 Consensus size: 86
46342476 AGAAAAGCAC
* * * * *
46342486 CATTAAAGATCATGTTTTTTAGCGGCGTTTGTGAGGAAAGCATCGTTAAAGATCTTGTTCTTTAG
1 CATTAAAGATCATATTCTTTAGCGGCGTTTGTGAGGAAAGCGTCGTTAAAGATCATGTTATTTAG
46342551 TGGCGTTTGTGGGAAAAATGT
66 TGGCGTTTGTGGGAAAAATGT
* * * * *
46342572 CATTAAAGATCATACTCTTTAGCGGTGTTTATGAGGAAAGCGTCGATAAAGATCATGTTATTTAA
1 CATTAAAGATCATATTCTTTAGCGGCGTTTGTGAGGAAAGCGTCGTTAAAGATCATGTTATTTAG
* *
46342637 CGGCGTTTGTGGGAAAAGTGT
66 TGGCGTTTGTGGGAAAAATGT
* * * * * * * ** * *
46342658 CGTTAAAAATCATGTTCTTTACCGGTGTTTGT-TGGAAATACGTTTTTAAAAATCATGTTTTTTA
1 CATTAAAGATCATATTCTTTAGCGGCGTTTGTGAGGAAA-GCGTCGTTAAAGATCATGTTATTTA
* *
46342722 GTGGCGTTTGTGAGAAAAGA-GC
65 GTGGCGTTTGTGGGAAAA-ATGT
* *
46342744 CATTAAAGATCATATTTTTTAACGGCGTTT
1 CATTAAAGATCATATTCTTTAGCGGCGTTT
46342774 TTCCTCATAA
Statistics
Matches: 164, Mismatches: 36, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
85 5 0.03
86 159 0.97
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (86 bp):
CATTAAAGATCATATTCTTTAGCGGCGTTTGTGAGGAAAGCGTCGTTAAAGATCATGTTATTTAG
TGGCGTTTGTGGGAAAAATGT
Found at i:46342707 original size:129 final size:129
Alignment explanation
Indices: 46342460--46342773 Score: 346
Period size: 129 Copynumber: 2.4 Consensus size: 129
46342450 ATATGTTAAT
* *
46342460 TTTAGCGGCGTTTGTGAGAAAAGCA-CCATTAAAGATCATGTTTTTTAGCGGCGTTTGTGAGGAA
1 TTTAGCGGCGTTTATGAGAAAAG-AGCCATTAAAGATCATGTTTTTTAACGGCGTTTGTGAGGAA
* * ** * *
46342524 AGCATCGTTAAAGATCTTGTTCTTTAGTGGCGTTTGTGGGAAAAATGTCATTAAAGATCATACTC
65 AGCATCGTTAAAAATCATGTTCTTTACCGGCGTTTGTGGGAAAAACGTCATTAAAAATCATACTC
* * * * *
46342589 TTTAGCGGTGTTTATGAGGAAAGCGTCGA-TAAAGATCATGTTATTTAACGGCGTTTGTG-GGAA
1 TTTAGCGGCGTTTATGAGAAAAGAG-CCATTAAAGATCATGTTTTTTAACGGCGTTTGTGAGG-A
** * * * ** **
46342652 AAGTGTCGTTAAAAATCATGTTCTTTACCGGTGTTTGTTGGAAATACGTTTTTAAAAATCATGTT
64 AAGCATCGTTAAAAATCATGTTCTTTACCGGCGTTTGTGGGAAAAACGTCATTAAAAATCATACT
*
46342717 T
129 C
* * *
46342718 TTTAGTGGCGTTTGTGAGAAAAGAGCCATTAAAGATCATATTTTTTAACGGCGTTT
1 TTTAGCGGCGTTTATGAGAAAAGAGCCATTAAAGATCATGTTTTTTAACGGCGTTT
46342774 TTCCTCATAA
Statistics
Matches: 150, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
128 4 0.03
129 144 0.96
130 2 0.01
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.36
Consensus pattern (129 bp):
TTTAGCGGCGTTTATGAGAAAAGAGCCATTAAAGATCATGTTTTTTAACGGCGTTTGTGAGGAAA
GCATCGTTAAAAATCATGTTCTTTACCGGCGTTTGTGGGAAAAACGTCATTAAAAATCATACTC
Found at i:46346206 original size:12 final size:12
Alignment explanation
Indices: 46346192--46346302 Score: 84
Period size: 12 Copynumber: 9.5 Consensus size: 12
46346182 CCAAACAATC
*
46346192 AAAATAACAACC
1 AAAATAACAACA
*
46346204 AAAATAACAGCA
1 AAAATAACAACA
*
46346216 AAAACAACAACA
1 AAAATAACAACA
46346228 AAAAT---AACA
1 AAAATAACAACA
*
46346237 AAAATAGCAACA
1 AAAATAACAACA
* * *
46346249 AAAACATCAATA
1 AAAATAACAACA
* *
46346261 AAAATAATAGCA
1 AAAATAACAACA
* * *
46346273 AATATAGCAATA
1 AAAATAACAACA
*
46346285 AAAACAACAACA
1 AAAATAACAACA
46346297 AAAATA
1 AAAATA
46346303 TTAGCAAAAA
Statistics
Matches: 73, Mismatches: 23, Indels: 6
0.72 0.23 0.06
Matches are distributed among these distances:
9 9 0.12
12 64 0.88
ACGTcount: A:0.69, C:0.16, G:0.04, T:0.11
Consensus pattern (12 bp):
AAAATAACAACA
Found at i:46346212 original size:24 final size:24
Alignment explanation
Indices: 46346185--46346439 Score: 71
Period size: 24 Copynumber: 11.2 Consensus size: 24
46346175 ATAACATCCA
46346185 AACAATCAAAATAACAACCAAAAT
1 AACAATCAAAATAACAACCAAAAT
* * *
46346209 AAC-AGCAAAAACAACAACAAAAAT
1 AACAATC-AAAATAACAACCAAAAT
* * *
46346233 AAC-A--AAAATAGCAACAAAAAC
1 AACAATCAAAATAACAACCAAAAT
* * * *
46346254 ATCAATAAAAATAA-TAGCAAATAT
1 AACAATCAAAATAACAACCAAA-AT
* * * *
46346278 AGCAATAAAAACAACAACAAAAAT
1 AACAATCAAAATAACAACCAAAAT
** * * *
46346302 -ATTAGCAAAAACAAC-ACCAAAAC
1 AACAATC-AAAATAACAACCAAAAT
*
46346325 AATAA--AAAATAAC-ACCAAAAT
1 AACAATCAAAATAACAACCAAAAT
* **
46346346 AACAATCAAAACAGTAA--AAAA-
1 AACAATCAAAATAACAACCAAAAT
* * *
46346367 AA-TATCAAAACTAAC-ATCAAAAC
1 AACAATCAAAA-TAACAACCAAAAT
*
46346390 AACAA--AAAATAGCAACCAAAAT
1 AACAATCAAAATAACAACCAAAAT
** *
46346412 AGTAA-AAAAATAAC-ACCAAAAT
1 AACAATCAAAATAACAACCAAAAT
46346434 AACAAT
1 AACAAT
46346440 ATAATTTTTT
Statistics
Matches: 168, Mismatches: 44, Indels: 39
0.67 0.18 0.16
Matches are distributed among these distances:
20 8 0.05
21 40 0.24
22 33 0.20
23 27 0.16
24 56 0.33
25 4 0.02
ACGTcount: A:0.67, C:0.18, G:0.03, T:0.12
Consensus pattern (24 bp):
AACAATCAAAATAACAACCAAAAT
Found at i:46346248 original size:27 final size:27
Alignment explanation
Indices: 46346218--46346273 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
46346208 TAACAGCAAA
*
46346218 AACAACAACAAAAATAACAAA-AATAGC
1 AACAAAAACAAAAATAA-AAATAATAGC
**
46346245 AACAAAAACATCAATAAAAATAATAGC
1 AACAAAAACAAAAATAAAAATAATAGC
46346272 AA
1 AA
46346274 ATATAGCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.70, C:0.16, G:0.04, T:0.11
Consensus pattern (27 bp):
AACAAAAACAAAAATAAAAATAATAGC
Found at i:46346288 original size:36 final size:36
Alignment explanation
Indices: 46346204--46346312 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 36
46346194 AATAACAACC
* *
46346204 AAAATAACAGCAAAAACAACAACAAAAAT-A-A-CA
1 AAAATAGCAACAAAAACAACAACAAAAATAATAGCA
* *
46346237 AAAATAGCAACAAAAACATCAATAAAAATAATAGCA
1 AAAATAGCAACAAAAACAACAACAAAAATAATAGCA
* * *
46346273 AATATAGCAATAAAAACAACAACAAAAATATTAGCA
1 AAAATAGCAACAAAAACAACAACAAAAATAATAGCA
46346309 AAAA
1 AAAA
46346313 CAACACCAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
33 25 0.40
34 1 0.02
35 1 0.02
36 36 0.57
ACGTcount: A:0.69, C:0.15, G:0.05, T:0.12
Consensus pattern (36 bp):
AAAATAGCAACAAAAACAACAACAAAAATAATAGCA
Found at i:46346357 original size:33 final size:32
Alignment explanation
Indices: 46346172--46346412 Score: 114
Period size: 33 Copynumber: 7.2 Consensus size: 32
46346162 AAAACGCATA
* *
46346172 AAAATAACATCCAAACAAT-CAAAATAACAACC
1 AAAATAACATCAAAACAATAAAAAATAAC-ACC
* *
46346204 AAAATAACAGCAAAAACAACAACAAAAATAACA--
1 AAAATAACATC-AAAACAA-TA-AAAAATAACACC
* * * *
46346237 AAAATAGCAACAAAA-ACATCAATAAAAATAATAGC
1 AAAATAACATCAAAACA-AT--A-AAAAATAACACC
* * * ** *
46346272 AAATATAGCAATAAAAACAACAACAAAAATATTAGCA
1 AAA-ATAAC-ATCAAAACAA-TA-AAAAATAACA-CC
* *
46346309 AAAACAACACCAAAACAATAAAAAATAACACC
1 AAAATAACATCAAAACAATAAAAAATAACACC
* * *
46346341 AAAATAACAATCAAAACAGTAAAAAA-AATATC
1 AAAATAAC-ATCAAAACAATAAAAAATAACACC
* *
46346373 AAAACTAACATCAAAACAACAAAAAATAGCAACC
1 AAAA-TAACATCAAAACAATAAAAAATAAC-ACC
46346407 AAAATA
1 AAAATA
46346413 GTAAAAAAAT
Statistics
Matches: 157, Mismatches: 34, Indels: 35
0.69 0.15 0.15
Matches are distributed among these distances:
31 1 0.01
32 46 0.29
33 55 0.35
34 7 0.04
35 12 0.08
36 26 0.17
37 9 0.06
38 1 0.01
ACGTcount: A:0.67, C:0.18, G:0.03, T:0.12
Consensus pattern (32 bp):
AAAATAACATCAAAACAATAAAAAATAACACC
Found at i:46346371 original size:68 final size:65
Alignment explanation
Indices: 46346171--46346412 Score: 177
Period size: 65 Copynumber: 3.6 Consensus size: 65
46346161 AAAAACGCAT
* * ** *
46346171 AAAAATAACATCC-AAACAAT-CAAAATAACAACCAAAATAACAGCAAAAACAACAACAAAAATA
1 AAAACTAACA-CCAAAACAATAAAAAATAAC-ACCAAAATAACAATAAAAACAACAAAAAAAATA
*
46346234 AC
64 TC
* * * * * *
46346236 AAAAATAGCAACAAAA-ACATCAATAAAAATAATAGCAAATATAGCAATAAAAACAACAACAAAA
1 AAAACTAACACCAAAACA-AT--A-AAAAATAACACCAAA-ATAACAATAAAAACAACAA-AAAA
*
46346300 ATATTAGC
60 A-A-TATC
* **
46346308 AAAAAC-AACACCAAAACAATAAAAAATAACACCAAAATAACAATCAAAACAGTAAAAAAAATAT
1 -AAAACTAACACCAAAACAATAAAAAATAACACCAAAATAACAATAAAAACAACAAAAAAAATAT
46346372 C
65 C
* * *
46346373 AAAACTAACATCAAAACAACAAAAAATAGCAACCAAAATA
1 AAAACTAACACCAAAACAATAAAAAATAAC-ACCAAAATA
46346413 GTAAAAAAAT
Statistics
Matches: 140, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
64 7 0.05
65 38 0.27
66 10 0.07
67 5 0.04
68 20 0.14
69 36 0.26
70 5 0.04
71 1 0.01
72 13 0.09
73 5 0.04
ACGTcount: A:0.67, C:0.18, G:0.03, T:0.12
Consensus pattern (65 bp):
AAAACTAACACCAAAACAATAAAAAATAACACCAAAATAACAATAAAAACAACAAAAAAAATATC
Found at i:46346438 original size:44 final size:43
Alignment explanation
Indices: 46346326--46346438 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 43
46346316 CACCAAAACA
*
46346326 ATAAAAAATAACACCAAAATAACAATCAAAACAGTAAAAAAAAT
1 ATAAAAAATAACACCAAAATAACAA-CAAAACAGCAAAAAAAAT
* * * * * **
46346370 ATCAAAACTAACATCAAAACAACAA-AAAATAGCAACCAAAAT
1 ATAAAAAATAACACCAAAATAACAACAAAACAGCAAAAAAAAT
46346412 AGTAAAAAAATAACACCAAAATAACAA
1 A-T-AAAAAATAACACCAAAATAACAA
46346439 TATAATTTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 14 0.25
43 1 0.02
44 40 0.73
ACGTcount: A:0.68, C:0.17, G:0.03, T:0.12
Consensus pattern (43 bp):
ATAAAAAATAACACCAAAATAACAACAAAACAGCAAAAAAAAT
Found at i:46347557 original size:16 final size:17
Alignment explanation
Indices: 46347531--46347562 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46347521 GGTTATAGAA
46347531 TATATAAATATATATTC
1 TATATAAATATATATTC
46347548 TATA-AAATATATATT
1 TATATAAATATATATT
46347563 TCATTAGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATAAATATATATTC
Found at i:46348273 original size:28 final size:27
Alignment explanation
Indices: 46348220--46348274 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
46348210 AATATCAAAT
* *
46348220 TTATATATGAATTTTAATTTGGTGTAA
1 TTATATATAAATTTTAATTTGATGTAA
* *
46348247 TTATGTATAAATTTTGATTTTGATGTAA
1 TTATATATAAATTTT-AATTTGATGTAA
46348275 CGGTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (27 bp):
TTATATATAAATTTTAATTTGATGTAA
Found at i:46352389 original size:15 final size:15
Alignment explanation
Indices: 46352369--46352413 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
46352359 GAAAAAAGAG
46352369 TATATAATCCTTTGA
1 TATATAATCCTTTGA
46352384 TATATAATCCTTTGA
1 TATATAATCCTTTGA
*
46352399 TACATAATCCTTTGA
1 TATATAATCCTTTGA
46352414 GACAACGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (15 bp):
TATATAATCCTTTGA
Found at i:46359145 original size:3 final size:3
Alignment explanation
Indices: 46359137--46359164 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
46359127 AAAACATGTT
46359137 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46359165 CACTTATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46361592 original size:60 final size:60
Alignment explanation
Indices: 46361452--46361594 Score: 148
Period size: 60 Copynumber: 2.4 Consensus size: 60
46361442 AGTTGGAGAA
* *
46361452 AATTTTTTTAGATCTTTTAAAAGTTAGTAAAAAAAATTTTGGGCTTTTAAAAGCTAAAAC
1 AATTTTTTTTGATCTCTTAAAAGTTAGTAAAAAAAATTTTGGGCTTTTAAAAGCTAAAAC
* * ** * * *
46361512 AATAATTTTGTGGGCCCTTAAAAGTT-GATAAAAAAAA-TTT-GGCTTTTAAAAAGTTAAAAG
1 AAT-TTTTTTTGATCTCTTAAAAGTTAG-TAAAAAAAATTTTGGGCTTTT-AAAAGCTAAAAC
46361572 AATTTTTTTTGAATCTCTTAAAA
1 AATTTTTTTTG-ATCTCTTAAAA
46361595 ATTAAAAATA
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
59 13 0.20
60 28 0.43
61 24 0.37
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (60 bp):
AATTTTTTTTGATCTCTTAAAAGTTAGTAAAAAAAATTTTGGGCTTTTAAAAGCTAAAAC
Found at i:46361824 original size:15 final size:15
Alignment explanation
Indices: 46361796--46361837 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
46361786 AATACCCCAC
46361796 AAATAAATTAAATATA
1 AAAT-AATTAAATATA
*
46361812 AAATAATTTAATATA
1 AAATAATTAAATATA
*
46361827 TAATAATTAAA
1 AAATAATTAAA
46361838 ATCATAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATAATTAAATATA
Found at i:46364191 original size:16 final size:16
Alignment explanation
Indices: 46364170--46364211 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
46364160 GTTATGAGTA
*
46364170 TGTTAATTGTGCGAAC
1 TGTTAATTGTGCAAAC
* *
46364186 TGTTAACTGGGCAAAC
1 TGTTAATTGTGCAAAC
46364202 TG-TAATTGTG
1 TGTTAATTGTG
46364212 TGAATTGTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (16 bp):
TGTTAATTGTGCAAAC
Found at i:46367781 original size:91 final size:90
Alignment explanation
Indices: 46367623--46367827 Score: 254
Period size: 91 Copynumber: 2.3 Consensus size: 90
46367613 TAATAATCTA
* ** *
46367623 AAAACACTGGTGATTTATCCACAATTTTTACTAGCAACTTTTATCTGCAAATAAGTTGTACATTC
1 AAAACACTGGTGGTTTATCCACAATTTACACTAACAACTTTTATCTGCAAATAAGTTGTACATTC
*
46367688 ACAACTATTAGCAGCGTATTAACCT
66 ACAACTATTAGCAGCATATTAACCT
* * *
46367713 ATAAACACTGGTGGTTTACCCACAATTTACACTAACAACTTTTATCTGTAAACCT-ATTGTGTA-
1 A-AAACACTGGTGGTTTATCCACAATTTACACTAACAACTTTTATCTGCAAA--TAAGT-TGTAC
46367776 A-TCACAACTATTAGCAGCATATTAACCT
62 ATTCACAACTATTAGCAGCATATTAACCT
* * *
46367804 ACAATACTGGTGGCTTATCCACAA
1 AAAACACTGGTGGTTTATCCACAA
46367828 ACTAGGGTGT
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
90 20 0.20
91 71 0.72
92 3 0.03
93 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (90 bp):
AAAACACTGGTGGTTTATCCACAATTTACACTAACAACTTTTATCTGCAAATAAGTTGTACATTC
ACAACTATTAGCAGCATATTAACCT
Found at i:46369271 original size:91 final size:93
Alignment explanation
Indices: 46369099--46369283 Score: 286
Period size: 91 Copynumber: 2.0 Consensus size: 93
46369089 TTTGGATTTC
* *
46369099 CTCCTTTTAATTGGTGCCATGAATTGGCCTTTAAGTGTATGTACCAAAACTTATCAGCATTTGAA
1 CTCCTTTTAATTGGTGCCATGAATTGGCCTTTAAG-G-ATGCACCAAAACTGATCAGCATTTGAA
*
46369164 GAGTCTTCCTTTGATCTTTTGAAGAGTCAT
64 GAGTCTTCCCTTGATCTTTTGAAGAGTCAT
*
46369194 CTCCTTTTAATTGGTGTCATGAATTGGCCTTTAA-G-TGCACCAAAA-TCGATCAGCATTTGAAG
1 CTCCTTTTAATTGGTGCCATGAATTGGCCTTTAAGGATGCACCAAAACT-GATCAGCATTTGAAG
46369256 AGTCTTCCCTTGATCTTTTGAAGAGTCA
65 AGTCTTCCCTTGATCTTTTGAAGAGTCA
46369284 CCTGATCAGG
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
90 1 0.01
91 50 0.59
93 1 0.01
95 33 0.39
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (93 bp):
CTCCTTTTAATTGGTGCCATGAATTGGCCTTTAAGGATGCACCAAAACTGATCAGCATTTGAAGA
GTCTTCCCTTGATCTTTTGAAGAGTCAT
Found at i:46369662 original size:51 final size:50
Alignment explanation
Indices: 46369523--46369715 Score: 199
Period size: 50 Copynumber: 3.8 Consensus size: 50
46369513 ACTTGATTTA
* * * * * *
46369523 ATGATTCAAACTTTAATTAACATGAGAATTACATAATGCATGACA-TAACTT
1 ATGATGCAAAC-TTAACTAACATGAGAGTTACATAATGCAGGTCATTATC-T
*
46369574 ATGATGCAAGCTTAACTAACATGAGAGTTACATAATGCAGGTCATTATCT
1 ATGATGCAAACTTAACTAACATGAGAGTTACATAATGCAGGTCATTATCT
* * * ** *
46369624 ATTATGCAAACTTAACTAATAATTAGAGTTACATAATGCTTGTCATTATTT
1 ATGATGCAAACTTAACTAA-CATGAGAGTTACATAATGCAGGTCATTATCT
* * * *
46369675 ATGATGCATACTTAAATAGCATGAAAGTTACATAATGCAGG
1 ATGATGCAAACTTAACTAACATGAGAGTTACATAATGCAGG
46369716 ATTTTATTAA
Statistics
Matches: 117, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
50 64 0.55
51 53 0.45
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (50 bp):
ATGATGCAAACTTAACTAACATGAGAGTTACATAATGCAGGTCATTATCT
Found at i:46371094 original size:17 final size:17
Alignment explanation
Indices: 46371054--46371129 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
46371044 CAATGGGATA
46371054 TAAATTTAGTTTTAAA-T
1 TAAATTTA-TTTTAAATT
* *
46371071 TAGATTTATTTTGAATT
1 TAAATTTATTTTAAATT
*** *
46371088 TAAATTTGCATAAAATT
1 TAAATTTATTTTAAATT
*
46371105 TAAATTTATTATAAATT
1 TAAATTTATTTTAAATT
46371122 TAAATTTA
1 TAAATTTA
46371130 AAATTAAATT
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
16 6 0.13
17 39 0.87
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:46373101 original size:30 final size:29
Alignment explanation
Indices: 46373067--46373151 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 29
46373057 ATAGGTCCTT
*
46373067 AAACTATTCAAAAATTATATTTTAA-CCCTA
1 AAACT-TTCAAAAATTACATTTTAAGCCC-A
* *
46373097 AAACTTTCTAAAAATGACATTTTAAGCCCC
1 AAACTTTC-AAAAATTACATTTTAAGCCCA
46373127 AAACTTCTCAAAAATTACCATTTTA
1 AAACTT-TCAAAAATTA-CATTTTA
46373152 CCCATGAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 3 0.06
30 32 0.68
31 12 0.26
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (29 bp):
AAACTTTCAAAAATTACATTTTAAGCCCA
Found at i:46373179 original size:29 final size:28
Alignment explanation
Indices: 46373137--46373237 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 28
46373127 AAACTTCTCA
46373137 AAAATTACCATTTTACCCATGAATTTTCC
1 AAAATTACCATTTTACCC-TGAATTTTCC
* *
46373166 AAAATT-CCATTTTTGATCCTG-ATTTCACC
1 AAAATTACCA-TTTT-ACCCTGAATTT-TCC
46373195 AAAAATTACCATTTTACCCTCGAACTTTT-C
1 -AAAATTACCATTTTACCCT-GAA-TTTTCC
46373225 AAAATT-CCATTTT
1 AAAATTACCATTTT
46373238 TTACCTCGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
28 14 0.23
29 24 0.40
30 15 0.25
31 4 0.07
32 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.40
Consensus pattern (28 bp):
AAAATTACCATTTTACCCTGAATTTTCC
Found at i:46373198 original size:59 final size:59
Alignment explanation
Indices: 46373135--46373258 Score: 191
Period size: 59 Copynumber: 2.1 Consensus size: 59
46373125 CCAAACTTCT
46373135 CAAAAATTACCATTTTACCCAT-GAA-TTTTCCAAAATTCCATTTTTGATCCT-GATTTCAC
1 CAAAAATTACCATTTTACCC-TCGAACTTTT-CAAAATTCCATTTTTGA-CCTCGATTTCAC
*
46373194 CAAAAATTACCATTTTACCCTCGAACTTTTCAAAATTCCATTTTTTACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCTCGAACTTTTCAAAATTCCATTTTTGACCTCGATTTCAC
46373253 CAAAAA
1 CAAAAA
46373259 ATGCATTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
58 4 0.07
59 53 0.87
60 4 0.07
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCTCGAACTTTTCAAAATTCCATTTTTGACCTCGATTTCAC
Found at i:46373256 original size:29 final size:30
Alignment explanation
Indices: 46373164--46373257 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 30
46373154 CATGAATTTT
* *
46373164 CCAAAATTCCATTTTTGATCCT-GATTTCA
1 CCAAAATTCCATTTTTTACCCTCGATTTCA
46373193 CCAAAAATTACCA--TTTTACCCTCGAACTTT--
1 CC-AAAATT-CCATTTTTTACCCTCG-A-TTTCA
*
46373223 TCAAAATTCCATTTTTTA-CCTCGATTTCA
1 CCAAAATTCCATTTTTTACCCTCGATTTCA
46373252 CCAAAA
1 CCAAAA
46373258 AATGCATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
27 3 0.06
28 4 0.08
29 25 0.48
30 13 0.25
31 4 0.08
32 3 0.06
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (30 bp):
CCAAAATTCCATTTTTTACCCTCGATTTCA
Found at i:46373287 original size:28 final size:28
Alignment explanation
Indices: 46373255--46373325 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
46373245 GATTTCACCA
46373255 AAAAATGCATTTTTTCCCCAAACTTTCC-
1 AAAAATGCATTTTTTCCCCAAA-TTTCCT
* *
46373283 AAAAATCCATTTTTAACCCCAAATTTCCT
1 AAAAATGCATTTTT-TCCCCAAATTTCCT
*
46373312 AAAATTGC-TTTTTT
1 AAAAATGCATTTTTT
46373326 GTCCTCGAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 23 0.64
29 13 0.36
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (28 bp):
AAAAATGCATTTTTTCCCCAAATTTCCT
Found at i:46373294 original size:58 final size:59
Alignment explanation
Indices: 46373135--46373296 Score: 179
Period size: 59 Copynumber: 2.8 Consensus size: 59
46373125 CCAAACTTCT
* * *
46373135 CAAAAATTACCATTTTACCCAT-GAATTTTCCAAAATTCCATTTTTGATCCTGATTTCAC
1 CAAAAAATACCATTTTACCC-TCAAACTTTCCAAAATTCCATTTTTGATCCTGATTTCAC
* * * *
46373194 CAAAAATTACCATTTTACCCTCGAACTTTTCAAAATTCCATTTTTTA-CCTCGATTTCAC
1 CAAAAAATACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTGATCCT-GATTTCAC
* * *
46373253 CAAAAAAT-GCATTTTTTCCC-CAAACTTTCCAAAAATCCATTTTT
1 CAAAAAATACCA-TTTTACCCTCAAACTTTCCAAAATTCCATTTTT
46373297 AACCCCAAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
58 27 0.30
59 64 0.70
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (59 bp):
CAAAAAATACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTGATCCTGATTTCAC
Found at i:46376001 original size:6 final size:6
Alignment explanation
Indices: 46375992--46376096 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
46375982 GATTTATTTC
* * **
46375992 TAAATT TAAACCT TAAATT TAAATT TAAATT CATTTT TAAATT TAAATT
1 TAAATT TAAA-TT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
** * * *
46376041 T-GTTT TAAATT TAAATT T-AGTT TAAATT TGAAA-- TAATTT TAAACT
1 TAAATT TAAATT TAAATT TAAATT TAAATT T-AAATT TAAATT TAAATT
46376086 TAAACTT TAAA
1 TAAA-TT TAAA
46376097 ATTGAATATA
Statistics
Matches: 74, Mismatches: 18, Indels: 13
0.70 0.17 0.12
Matches are distributed among these distances:
4 2 0.03
5 8 0.11
6 51 0.69
7 13 0.18
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:46376081 original size:17 final size:17
Alignment explanation
Indices: 46375987--46376089 Score: 91
Period size: 17 Copynumber: 5.8 Consensus size: 17
46375977 TTTTAGATTT
46375987 ATTTCTAAATTTAAACCTTA
1 ATTT-TAAATTTAAA--TTA
*
46376007 AATTTAAATTTAAATTCA
1 ATTTTAAATTTAAATT-A
* *
46376025 TTTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTA
* *
46376042 GTTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTA
*
46376059 AGTTTAAATTTGAAA-TA
1 ATTTTAAATTT-AAATTA
*
46376076 ATTTTAAACTTAAA
1 ATTTTAAATTTAAA
46376090 CTTTAAAATT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
16 3 0.04
17 37 0.52
18 18 0.25
19 10 0.14
20 3 0.04
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTTAAATTTAAATTA
Found at i:46378026 original size:29 final size:30
Alignment explanation
Indices: 46377983--46378063 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 30
46377973 GGAGGTCCCT
* *
46377983 AAACTGTCCAAAAATTATATTTTGA-GCTTG
1 AAACT-TCCAAAAATTACATTTTGACCCTTG
*
46378013 AAACTTCCAAAAATTACATTTTTACCCTTG
1 AAACTTCCAAAAATTACATTTTGACCCTTG
*
46378043 -AACTTCCAAAAATTCCATTTT
1 AAACTTCCAAAAATTACATTTT
46378064 TAACCCCCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 37 0.80
30 9 0.20
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTGACCCTTG
Found at i:46378043 original size:30 final size:30
Alignment explanation
Indices: 46378012--46378124 Score: 115
Period size: 29 Copynumber: 3.8 Consensus size: 30
46378002 TTTTGAGCTT
**
46378012 GAAACTTCCAAAAATTACATTTTTACCCTT
1 GAAACTTCCAAAAATTACATTTTTACCCCC
*
46378042 G-AACTTCCAAAAATTCCATTTTTAACCCCC
1 GAAACTTCCAAAAATTACATTTTT-ACCCCC
* * **
46378072 AAAACTTTCAAAAATTACCCTTTTACCCCC
1 GAAACTTCCAAAAATTACATTTTTACCCCC
*
46378102 G-AA-TATCCAAAAATTCCATTTTT
1 GAAACT-TCCAAAAATTACATTTTT
46378125 TATCTCGATT
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
28 1 0.01
29 37 0.55
30 11 0.16
31 18 0.27
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (30 bp):
GAAACTTCCAAAAATTACATTTTTACCCCC
Found at i:46378201 original size:28 final size:29
Alignment explanation
Indices: 46378141--46378201 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
46378131 GATTTTTCTA
* *
46378141 AAAATTACCGTTTTACCCCTCGAGAGTCT
1 AAAATTACCATTTTACCCCTCGAGAGTCC
*
46378170 AAAATTACCATTTTA-CCCTCGAGTGTCC
1 AAAATTACCATTTTACCCCTCGAGAGTCC
46378198 AAAA
1 AAAA
46378202 AGCATCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTCGAGAGTCC
Found at i:46378202 original size:29 final size:29
Alignment explanation
Indices: 46378080--46378202 Score: 90
Period size: 29 Copynumber: 4.2 Consensus size: 29
46378070 CCAAAACTTT
* * * *
46378080 CAAAAATTACCCTTTTACCCCCGAATATC
1 CAAAAATTACCATTTTACCCTCGAGTGTC
* * *
46378109 CAAAAATT-CCATTTTTTA-TCTCGATTTTTC
1 CAAAAATTACCA--TTTTACCCTCGA-GTGTC
* * *
46378139 TAAAAATTACCGTTTTACCCCTCGAGAGT-
1 CAAAAATTACCATTTTA-CCCTCGAGTGTC
*
46378168 CTAAAATTACCATTTTACCCTCGAGTGTC
1 CAAAAATTACCATTTTACCCTCGAGTGTC
46378197 CAAAAA
1 CAAAAA
46378203 GCATCATTTT
Statistics
Matches: 71, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
28 12 0.17
29 36 0.51
30 16 0.23
31 7 0.10
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCTCGAGTGTC
Found at i:46390999 original size:7 final size:7
Alignment explanation
Indices: 46390984--46391014 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
46390974 CTTTAACCTC
46390984 CTCTAGG
1 CTCTAGG
*
46390991 CTTTAGG
1 CTCTAGG
46390998 CTCTAGG
1 CTCTAGG
46391005 CTCTAGG
1 CTCTAGG
46391012 CTC
1 CTC
46391015 GAACATGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.29, G:0.26, T:0.32
Consensus pattern (7 bp):
CTCTAGG
Found at i:46391502 original size:22 final size:21
Alignment explanation
Indices: 46391467--46391511 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
46391457 GTGAGATACG
*
46391467 AAAAAAAATTAAAAAAATAAA
1 AAAAAAAATAAAAAAAATAAA
**
46391488 AAAAAACAATAAAAATTATAAA
1 AAAAAA-AATAAAAAAAATAAA
46391510 AA
1 AA
46391512 TTATTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (21 bp):
AAAAAAAATAAAAAAAATAAA
Found at i:46391534 original size:27 final size:28
Alignment explanation
Indices: 46391499--46391570 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
46391489 AAAAACAATA
*
46391499 AAAATTATAAAAATTA-TTAAATTTTAAT
1 AAAA-TATAAAAAATATTTAAATTTTAAT
*
46391527 AAAATATAAAAAATATTTAAATTTTATT
1 AAAATATAAAAAATATTTAAATTTTAAT
*
46391555 AAAAAATAGAAAAATA
1 AAAATATA-AAAAATA
46391571 GTAAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 10 0.26
28 22 0.56
29 7 0.18
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAATATAAAAAATATTTAAATTTTAAT
Found at i:46391597 original size:51 final size:51
Alignment explanation
Indices: 46391530--46391628 Score: 132
Period size: 51 Copynumber: 1.9 Consensus size: 51
46391520 TTTTAATAAA
*
46391530 ATATAAAAAATATTT-AAATTTTATTAAAAA-ATAGAAAAATAGTAAAAAAAT
1 ATATAAAAAATATTTAAAATTTTA-TAAAAACATAAAAAAATA-TAAAAAAAT
46391581 ATATAAAAAA-ATTTTAAAATTTTATAAAAATCATAAAAAAATATAAAA
1 ATATAAAAAATA-TTTAAAATTTTATAAAAA-CATAAAAAAATATAAAA
46391629 TGCATAAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
50 1 0.02
51 19 0.44
52 13 0.30
53 10 0.23
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (51 bp):
ATATAAAAAATATTTAAAATTTTATAAAAACATAAAAAAATATAAAAAAAT
Found at i:46391818 original size:9 final size:9
Alignment explanation
Indices: 46391804--46392027 Score: 113
Period size: 9 Copynumber: 23.9 Consensus size: 9
46391794 TTTTGGTATG
46391804 ATAATTTTT
1 ATAATTTTT
46391813 ATAATTTTT
1 ATAATTTTT
46391822 -TACATTTTT
1 ATA-ATTTTT
46391831 ATAATTTTCT
1 ATAATTTT-T
*
46391841 -TACAATTTT
1 ATA-ATTTTT
*
46391850 ATAAAATTTT
1 AT-AATTTTT
46391860 ATAATTTTT
1 ATAATTTTT
* **
46391869 CTATATTACT
1 ATA-ATTTTT
46391879 ATATATTTTAT
1 ATA-ATTTT-T
*
46391890 AAAATTTTTTT
1 ATAA--TTTTT
*
46391901 ACAATTTTT
1 ATAATTTTT
46391910 ATAAATTTTT
1 AT-AATTTTT
* *
46391920 ACACTTTTT
1 ATAATTTTT
46391929 -TACATTTTT
1 ATA-ATTTTT
46391938 -TACTATTTTT
1 ATA--ATTTTT
*
46391948 GTAATTTTT
1 ATAATTTTT
*
46391957 ATTATTTTT
1 ATAATTTTT
* *
46391966 ATTAAAATTTA
1 A-T-AATTTTT
46391977 ATAATTTTT
1 ATAATTTTT
*
46391986 ATAACTTTT
1 ATAATTTTT
46391995 ATATATTTTT
1 ATA-ATTTTT
46392005 AT--TTTTT
1 ATAATTTTT
46392012 AT-ATTTATT
1 ATAATTT-TT
46392021 -TAATTTT
1 ATAATTTT
46392028 AATTTTTTTA
Statistics
Matches: 170, Mismatches: 25, Indels: 41
0.72 0.11 0.17
Matches are distributed among these distances:
7 7 0.04
8 8 0.05
9 86 0.51
10 50 0.29
11 15 0.09
12 4 0.02
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:46391928 original size:29 final size:29
Alignment explanation
Indices: 46391809--46391965 Score: 55
Period size: 28 Copynumber: 5.4 Consensus size: 29
46391799 GTATGATAAT
*
46391809 TTTTATAATTTTTTAC-ATTTTTATAATT
1 TTTTATAATTTTTTACAATTTTTATAAAT
* * *
46391837 TTCTTACAATTTTATA-AAATTTTAT-AAT
1 TT-TTATAATTTTTTACAATTTTTATAAAT
* *
46391865 TTTTCT-A--TATTACTATATATTTTATAAAATTT
1 TTTTATAATTTTTTAC-A-AT-TTTTAT-AAA--T
* * *
46391897 TTTTACAATTTTTATA-AATTTTTA-CACT
1 TTTTATAATTTTT-TACAATTTTTATAAAT
* *
46391925 TTTT-TACATTTTTTACTATTTTTGT-AAT
1 TTTTATA-ATTTTTTACAATTTTTATAAAT
*
46391953 TTTTATTATTTTT
1 TTTTATAATTTTT
46391966 ATTAAAATTT
Statistics
Matches: 92, Mismatches: 19, Indels: 36
0.63 0.13 0.24
Matches are distributed among these distances:
24 3 0.03
26 2 0.02
27 6 0.07
28 41 0.45
29 19 0.21
30 3 0.03
32 10 0.11
33 3 0.03
34 1 0.01
35 2 0.02
36 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTTATAATTTTTTACAATTTTTATAAAT
Found at i:46391976 original size:19 final size:19
Alignment explanation
Indices: 46391954--46392007 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
46391944 TTTTGTAATT
46391954 TTTATTATTTTTATTAAAA
1 TTTATTATTTTTATTAAAA
* **
46391973 TTTAATAATTTTTA-TAACT
1 TTT-ATTATTTTTATTAAAA
46391992 TTTATATATTTTTATT
1 TTTAT-TATTTTTATT
46392008 TTTTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 2 0.07
19 16 0.57
20 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATTATTTTTATTAAAA
Found at i:46392370 original size:31 final size:32
Alignment explanation
Indices: 46392335--46392397 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
46392325 TATGAAACAA
*
46392335 TATATTCAAGATTT-TATTTT-TCAAGAATTTT
1 TATATACAA-ATTTCTATTTTGTCAAGAATTTT
* *
46392366 TATATACAATTTTCTATTTTGTCAAGAGTTTT
1 TATATACAAATTTCTATTTTGTCAAGAATTTT
46392398 GTCTCTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 3 0.11
31 14 0.52
32 10 0.37
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (32 bp):
TATATACAAATTTCTATTTTGTCAAGAATTTT
Found at i:46396224 original size:29 final size:31
Alignment explanation
Indices: 46396183--46396241 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
46396173 ATGAATTTAC
46396183 CACTAAACTTTGAATTTT-ACTAAATTTTGT
1 CACTAAACTTTGAATTTTAACTAAATTTTGT
* * *
46396213 CACTAATC-TTGATTTTTAATTAAATTTTG
1 CACTAAACTTTGAATTTTAACTAAATTTTG
46396242 CCAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (31 bp):
CACTAAACTTTGAATTTTAACTAAATTTTGT
Found at i:46396289 original size:15 final size:16
Alignment explanation
Indices: 46396269--46396298 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46396259 TGATGATTTG
46396269 AAAATA-AATTTTAAA
1 AAAATACAATTTTAAA
46396284 AAAATACAATTTTAA
1 AAAATACAATTTTAA
46396299 GTATTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATACAATTTTAAA
Found at i:46397695 original size:37 final size:38
Alignment explanation
Indices: 46397595--46397697 Score: 91
Period size: 37 Copynumber: 2.7 Consensus size: 38
46397585 GACCTTGAGT
* **
46397595 CGATGAGACACTGGGTGTCATTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTC---ACTTTACTTCGGATAGAGC
** * ** *
46397636 CGATGAGGTACTGGATACCACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
46397673 CGATGAGACACTGGGTGTCACTTTA
1 CGATGAGACACTGGGTGTCACTTTA
46397698 TTGCTTCGAA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 20 0.42
38 14 0.29
41 14 0.29
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
Found at i:46409960 original size:30 final size:31
Alignment explanation
Indices: 46409904--46409961 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
46409894 TTTCATTATT
*
46409904 ATATTGCTATTATTTTGTTGTTATTGTTTAG
1 ATATTGCTATAATTTTGTTGTTATTGTTTAG
46409935 ATATTG-TATAATTCTTGTT-TTATTGTT
1 ATATTGCTATAATT-TTGTTGTTATTGTT
46409962 AATTTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.21, C:0.03, G:0.14, T:0.62
Consensus pattern (31 bp):
ATATTGCTATAATTTTGTTGTTATTGTTTAG
Found at i:46410820 original size:27 final size:26
Alignment explanation
Indices: 46410801--46410852 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
46410791 AAATATTTAT
46410801 TTTATAAATTATAACATAAACATTCA
1 TTTATAAATTATAACATAAACATTCA
* * *
46410827 TTTGTAAATTATAACAAAAAAATTCA
1 TTTATAAATTATAACATAAACATTCA
46410853 AACTAACTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (26 bp):
TTTATAAATTATAACATAAACATTCA
Found at i:46417030 original size:104 final size:104
Alignment explanation
Indices: 46416850--46417040 Score: 294
Period size: 104 Copynumber: 1.8 Consensus size: 104
46416840 TTTTTTCTCC
* *
46416850 TAAGAATATATTGGCCCTTTTGATGCGAAATGGAATGACAACCCAAGCACCCCATCCCGATTACT
1 TAAGAATATATTGGCCCTTTTGATGCGAAATAGAATGACAACCCAAGCACCCCATCCAGATTACT
46416915 CAGCCAAACACACTTCC-AATTTATTATCATCTTTTTACT
66 CAGCCAAACACAC-TCCTAATTTATTATCATCTTTTTACT
* ** * *
46416954 TAAGAATGTATTGGCCCTTTTGATGCGAAATAGAATGACAACCCAAGCATTCCATCCAGGTTATT
1 TAAGAATATATTGGCCCTTTTGATGCGAAATAGAATGACAACCCAAGCACCCCATCCAGATTACT
*
46417019 CAGCCCAACACACTCCTAATTT
66 CAGCCAAACACACTCCTAATTT
46417041 GTTTTTCTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 3 0.04
104 75 0.96
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (104 bp):
TAAGAATATATTGGCCCTTTTGATGCGAAATAGAATGACAACCCAAGCACCCCATCCAGATTACT
CAGCCAAACACACTCCTAATTTATTATCATCTTTTTACT
Found at i:46419627 original size:21 final size:20
Alignment explanation
Indices: 46419589--46419631 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
46419579 TATTCGTTTA
46419589 TTTTATTGTTGTTGTGTTGT
1 TTTTATTGTTGTTGTGTTGT
* *
46419609 TTTTATTTTTTGTTTTGTTGT
1 TTTTA-TTGTTGTTGTGTTGT
46419630 TT
1 TT
46419632 AAAATGGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.05, C:0.00, G:0.19, T:0.77
Consensus pattern (20 bp):
TTTTATTGTTGTTGTGTTGT
Found at i:46421805 original size:2 final size:2
Alignment explanation
Indices: 46421798--46421839 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
46421788 ATCATACTAA
46421798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46421837 AT A
1 AT A
46421840 AAAGTATGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46422130 original size:17 final size:17
Alignment explanation
Indices: 46422102--46422141 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46422092 GACACAACAT
46422102 GAATAT-AATATGGAAA
1 GAATATAAATATGGAAA
* *
46422118 GAATATAAATATGGTAT
1 GAATATAAATATGGAAA
46422135 GAATATA
1 GAATATA
46422142 TAAGGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (17 bp):
GAATATAAATATGGAAA
Done.