Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 98 of 222
Found at i:30927379 original size:29 final size:29
Alignment explanation
Indices: 30927347--30927484 Score: 131
Period size: 29 Copynumber: 4.8 Consensus size: 29
30927337 ACCATTTTAA
30927347 GGTTTATGGATTATGGGTTTAGGGATTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
* ** * * *
30927376 GGTTTATGGTTTAAAGG-CTGGGGTTTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
30927404 GGTTTATGGATTATGGGTTTAGGGATTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
* ** *
30927433 GGTTTAT-GATTTATGGTTTTAAGGTTTTAG
1 GGTTTATGGA-TTATGGGTTT-AGGGATTAT
*
30927463 GGTTTA-GGTTTAT-GGTTTAGGG
1 GGTTTATGGATTATGGGTTTAGGG
30927485 TTTAGATTAA
Statistics
Matches: 86, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
27 3 0.03
28 28 0.33
29 42 0.49
30 13 0.15
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (29 bp):
GGTTTATGGATTATGGGTTTAGGGATTAT
Found at i:30927385 original size:7 final size:7
Alignment explanation
Indices: 30927284--30927488 Score: 103
Period size: 7 Copynumber: 28.7 Consensus size: 7
30927274 TATCACTATA
*
30927284 GTTTAGG
1 GTTTATG
*
30927291 GTTTTTG
1 GTTTATG
*
30927298 GTTTAGG
1 GTTTATG
*
30927305 GTATATG
1 GTTTATG
30927312 GTTTA-G
1 GTTTATG
*
30927318 AGTTTAAG
1 -GTTTATG
30927326 GTTTA-G
1 GTTTATG
**
30927332 GTGTTACCA
1 GT-TTA-TG
* *
30927341 TTTTAAG
1 GTTTATG
30927348 GTTTATG
1 GTTTATG
*
30927355 GATTATGG
1 GTTTAT-G
*
30927363 GTTTAGG
1 GTTTATG
*
30927370 GATTATG
1 GTTTATG
30927377 GTTTATG
1 GTTTATG
*
30927384 GTTTAAAG
1 GTTT-ATG
* **
30927392 G-CTGGG
1 GTTTATG
30927398 GTTTATG
1 GTTTATG
30927405 GTTTATG
1 GTTTATG
*
30927412 GATTATGG
1 GTTTAT-G
*
30927420 GTTTAGG
1 GTTTATG
*
30927427 GATTATG
1 GTTTATG
30927434 GTTTATG
1 GTTTATG
*
30927441 ATTTATG
1 GTTTATG
*
30927448 GTTTTAAG
1 G-TTTATG
*
30927456 GTTTTAGG
1 G-TTTATG
30927464 GTTTA-G
1 GTTTATG
30927470 GTTTATG
1 GTTTATG
*
30927477 GTTTAGG
1 GTTTATG
30927484 GTTTA
1 GTTTA
30927489 GATTAACTAG
Statistics
Matches: 150, Mismatches: 37, Indels: 22
0.72 0.18 0.11
Matches are distributed among these distances:
6 12 0.08
7 107 0.71
8 30 0.20
9 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.47
Consensus pattern (7 bp):
GTTTATG
Found at i:30927487 original size:36 final size:37
Alignment explanation
Indices: 30927397--30927487 Score: 114
Period size: 36 Copynumber: 2.5 Consensus size: 37
30927387 TAAAGGCTGG
* *
30927397 GGTTTATGGTTTATGG-ATTATGGGTTTAGGGATTAT
1 GGTTTATGGTTTATGGTTTTAAGGGTTTAGGGATTAT
* * *
30927433 GGTTTATGATTTATGGTTTTAAGGTTTTAGGGTTTA-
1 GGTTTATGGTTTATGGTTTTAAGGGTTTAGGGATTAT
*
30927469 GGTTTATGGTTTAGGGTTT
1 GGTTTATGGTTTATGGTTT
30927488 AGATTAACTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 32 0.68
37 15 0.32
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.51
Consensus pattern (37 bp):
GGTTTATGGTTTATGGTTTTAAGGGTTTAGGGATTAT
Found at i:30928160 original size:20 final size:20
Alignment explanation
Indices: 30928138--30928200 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
30928128 TTCGTGATTT
30928138 AAAATTTTAAAATGAATTTTA
1 AAAATTTTAAAATG-ATTTTA
**
30928159 AAAGATTTT-AAATTTTTTTA
1 AAA-ATTTTAAAATGATTTTA
*
30928179 AAAATTTTAAAAAGATTTTA
1 AAAATTTTAAAATGATTTTA
30928199 AA
1 AA
30928201 CTTTTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.14
20 18 0.51
21 7 0.20
22 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAATTTTAAAATGATTTTA
Found at i:30928168 original size:10 final size:10
Alignment explanation
Indices: 30928141--30928200 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
30928131 GTGATTTAAA
30928141 ATTTTAAAATG
1 ATTTTAAAA-G
30928152 AATTTTAAAAG
1 -ATTTTAAAAG
**
30928163 ATTTTAAATT
1 ATTTTAAAAG
*
30928173 TTTTTAAAA-
1 ATTTTAAAAG
30928182 ATTTTAAAAAG
1 ATTTT-AAAAG
30928193 ATTTTAAA
1 ATTTTAAA
30928201 CTTTTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 4 0.10
10 22 0.54
11 6 0.15
12 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:30929045 original size:13 final size:13
Alignment explanation
Indices: 30929029--30929058 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30929019 AAAAATTTTA
*
30929029 GCTTTTCAGAAGT
1 GCTTTTCAAAAGT
30929042 GCTTTTCAAAAGT
1 GCTTTTCAAAAGT
30929055 GCTT
1 GCTT
30929059 CTGAAAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (13 bp):
GCTTTTCAAAAGT
Found at i:30929545 original size:13 final size:12
Alignment explanation
Indices: 30929523--30929553 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
30929513 AATGTTAAAC
30929523 ACTTTCAAAAGT
1 ACTTTCAAAAGT
30929535 ACTTCTCAAAAGT
1 ACTT-TCAAAAGT
30929548 ACTTTC
1 ACTTTC
30929554 CCATAGCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (12 bp):
ACTTTCAAAAGT
Found at i:30929587 original size:26 final size:25
Alignment explanation
Indices: 30929523--30929587 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 25
30929513 AATGTTAAAC
* * *
30929523 ACTTTCAAAAGTACTTCTCAAAAGT
1 ACTTTCAAAAGCACTTCTAAAAAGA
* * *
30929548 ACTTTCCCATAGCACTTTTAAAAAGA
1 ACTTT-CAAAAGCACTTCTAAAAAGA
30929574 ACTTTACAAAAGCA
1 ACTTT-CAAAAGCA
30929588 ATGAAGAATT
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (25 bp):
ACTTTCAAAAGCACTTCTAAAAAGA
Found at i:30933032 original size:42 final size:43
Alignment explanation
Indices: 30932819--30933058 Score: 254
Period size: 43 Copynumber: 5.6 Consensus size: 43
30932809 TATCTTCTTT
* * * ** * *
30932819 TAAAGGTTATG-TTTTTAGCGGCGTTTTTGCGAACAGCGTCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* * *
30932861 TAAAGGT-TTG-TTTTATAGTGGCGTTTGTGATAAAAAGCGCCGC
1 TAAAGGTCATGATCTT-TAGCGGCGTTTGTGAT-AAAAGCGCCGC
* * * *
30932904 TAAAGGTCATGACCTTTAGCGGCATTTTTGATAGAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* *
30932947 TAAAGGTCATGATCTTTAGCGGCGTTTGTGATAGAAGTGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* *
30932990 TAAAGGTCATTATCTTTAGC-GCGTTTGTGATAAAAGCACCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* *
30933032 TAAAGGCCATGATATTTAGCGGCGTTT
1 TAAAGGTCATGATCTTTAGCGGCGTTT
30933059 TTCACATAAA
Statistics
Matches: 168, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
41 6 0.04
42 55 0.33
43 90 0.54
44 15 0.09
45 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
Found at i:30933050 original size:85 final size:87
Alignment explanation
Indices: 30932880--30933058 Score: 254
Period size: 85 Copynumber: 2.1 Consensus size: 87
30932870 GTTTTATAGT
* * *
30932880 GGCGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCATTTTTGATAGAAGCGCC
1 GGCGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCATTTGTGATAAAAGCACC
* *
30932945 GCTAAAGGTCATGATCTTTAGC
66 GCTAAAGGCCATGATATTTAGC
* * * * *
30932967 GGCGTTTGTGAT-AGAAGTGCCGCTAAAGGTCATTATCTTTAGC-GCGTTTGTGATAAAAGCACC
1 GGCGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCATTTGTGATAAAAGCACC
30933030 GCTAAAGGCCATGATATTTAGC
66 GCTAAAGGCCATGATATTTAGC
30933052 GGCGTTT
1 GGCGTTT
30933059 TTCACATAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
85 43 0.52
86 27 0.33
87 12 0.15
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (87 bp):
GGCGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCATTTGTGATAAAAGCACC
GCTAAAGGCCATGATATTTAGC
Found at i:30933077 original size:85 final size:86
Alignment explanation
Indices: 30932880--30933078 Score: 220
Period size: 85 Copynumber: 2.3 Consensus size: 86
30932870 GTTTTATAGT
* * * * * *
30932880 GGCGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCATTTTTGATAGAAGCGCC
1 GGCGTTTGTCACAGAAA-CGCCGCTAAAGGTCATGACCTTTAGCGGCATTTGTGATAAAAGCACC
* *
30932945 GCTAAAGGTCATGATCTTTAGC
65 GCTAAAGGCCATGATATTTAGC
* * ** * * *
30932967 GGCGTTTGTGATAGAAGTGCCGCTAAAGGTCATTATCTTTAGC-GCGTTTGTGATAAAAGCACCG
1 GGCGTTTGTCACAGAAACGCCGCTAAAGGTCATGACCTTTAGCGGCATTTGTGATAAAAGCACCG
30933031 CTAAAGGCCATGATATTTAGC
66 CTAAAGGCCATGATATTTAGC
* * *
30933052 GGCGTTTTTCACATAAACGCTGCTAAA
1 GGCGTTTGTCACAGAAACGCCGCTAAA
30933079 TTTAGCGGCA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 56 0.60
86 23 0.24
87 15 0.16
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (86 bp):
GGCGTTTGTCACAGAAACGCCGCTAAAGGTCATGACCTTTAGCGGCATTTGTGATAAAAGCACCG
CTAAAGGCCATGATATTTAGC
Found at i:30933250 original size:20 final size:20
Alignment explanation
Indices: 30933225--30933269 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
30933215 TATTAAGCTA
30933225 AAGTAAATGCAATGGAAAGT
1 AAGTAAATGCAATGGAAAGT
30933245 AAGTAAATGCAATGGAAAGT
1 AAGTAAATGCAATGGAAAGT
30933265 AAGTA
1 AAGTA
30933270 TATGGAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.24, T:0.20
Consensus pattern (20 bp):
AAGTAAATGCAATGGAAAGT
Found at i:30934777 original size:9 final size:9
Alignment explanation
Indices: 30934763--30934938 Score: 89
Period size: 9 Copynumber: 18.8 Consensus size: 9
30934753 CAAGTAACTT
30934763 TTTTTATAA
1 TTTTTATAA
30934772 -TTTT-T-A
1 TTTTTATAA
30934778 TTTTTATAA
1 TTTTTATAA
30934787 TTTATT-TGAA
1 TTT-TTAT-AA
30934797 TTTTT-T-A
1 TTTTTATAA
30934804 TTATTTATAA
1 TT-TTTATAA
*
30934814 GTTTTTTTTTGAA
1 ---TTTTTAT-AA
* *
30934827 TTTTAATATG
1 TTTTTATA-A
30934837 TTTTTAATAA
1 TTTTT-ATAA
*
30934847 TTTATAATAA
1 TTT-TTATAA
30934857 TTTTTATAA
1 TTTTTATAA
*
30934866 TATTTATAA
1 TTTTTATAA
*
30934875 GTTTTCCAT-A
1 -TTTT-TATAA
30934885 TTTTTATAA
1 TTTTTATAA
30934894 TTTTATATAA
1 TTTT-TATAA
*
30934904 ATTTTA-ATA
1 TTTTTATA-A
30934913 TTTTTAATAA
1 TTTTT-ATAA
*
30934923 ATTTTATAA
1 TTTTTATAA
30934932 TTTTTAT
1 TTTTTAT
30934939 GAAAAAAATT
Statistics
Matches: 129, Mismatches: 16, Indels: 44
0.68 0.08 0.23
Matches are distributed among these distances:
6 1 0.01
7 8 0.06
8 11 0.09
9 49 0.38
10 45 0.35
11 7 0.05
12 4 0.03
13 4 0.03
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:30934854 original size:21 final size:22
Alignment explanation
Indices: 30934825--30934874 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
30934815 TTTTTTTTTG
30934825 AATTT-TAAT-ATGTTTT-TAAT
1 AATTTATAATAAT-TTTTATAAT
30934845 AATTTATAATAATTTTTATAAT
1 AATTTATAATAATTTTTATAAT
30934867 -ATTTATAA
1 AATTTATAA
30934875 GTTTTCCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 16 0.59
22 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTTATAATAATTTTTATAAT
Found at i:30934887 original size:28 final size:27
Alignment explanation
Indices: 30934845--30934937 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 27
30934835 TGTTTTTAAT
30934845 AATTTATAATAATTTTTATAATATTTATA
1 AATTT-TAAT-ATTTTTATAATATTTATA
* * *
30934874 AGTTTTCCATATTTTTATAATTTTATATA
1 AATTTT-AATATTTTTATAATATT-TATA
30934903 AATTTTAATATTTTTAATAA-ATTTTATA
1 AATTTTAATATTTTT-ATAATA-TTTATA
*
30934931 ATTTTTA
1 AATTTTA
30934938 TGAAAAAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
28 32 0.60
29 21 0.40
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (27 bp):
AATTTTAATATTTTTATAATATTTATA
Found at i:30934936 original size:19 final size:18
Alignment explanation
Indices: 30934837--30934937 Score: 82
Period size: 19 Copynumber: 5.3 Consensus size: 18
30934827 TTTTAATATG
30934837 TTTTTAATAATTTATAATAA
1 TTTTTAATAATTT-T-ATAA
30934857 TTTTT-ATAATATTTATAA
1 TTTTTAATAAT-TTTATAA
** *
30934875 GTTTTCCATATTTTTATAA
1 -TTTTTAATAATTTTATAA
30934894 -TTTTATATAAATTTTA-ATA
1 TTTTTA-AT-AATTTTATA-A
30934913 TTTTTAATAAATTTTATAA
1 TTTTTAAT-AATTTTATAA
30934932 TTTTTA
1 TTTTTA
30934938 TGAAAAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 17
0.76 0.06 0.19
Matches are distributed among these distances:
17 3 0.04
18 7 0.10
19 41 0.60
20 17 0.25
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (18 bp):
TTTTTAATAATTTTATAA
Found at i:30935546 original size:22 final size:22
Alignment explanation
Indices: 30935511--30935566 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
30935501 TTAATTTTAT
*
30935511 TTTTAACTACAAAATAATGAAA
1 TTTTAATTACAAAATAATGAAA
*
30935533 TTTTAATTATAAAATAATGAAA
1 TTTTAATTACAAAATAATGAAA
30935555 TTTTAATTACAA
1 TTTTAATTACAA
30935567 TGGCCATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (22 bp):
TTTTAATTACAAAATAATGAAA
Found at i:30942103 original size:37 final size:37
Alignment explanation
Indices: 30942053--30942124 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
30942043 CAAGCTGAAG
30942053 TGTAACAACCTTGGAACTTGAATCGATTAGGCATCTT
1 TGTAACAACCTTGGAACTTGAATCGATTAGGCATCTT
30942090 TGTAACAACCTTGGAACTTGAATCGATTAGGCATC
1 TGTAACAACCTTGGAACTTGAATCGATTAGGCATC
30942125 ATCGTGACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (37 bp):
TGTAACAACCTTGGAACTTGAATCGATTAGGCATCTT
Found at i:30942657 original size:27 final size:26
Alignment explanation
Indices: 30942622--30942699 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 26
30942612 GGCAGACACT
* *
30942622 AGTTTGCAACTCAACTGGCGAACTCCC
1 AGTTCGCAAC-CAACTGGCGAACACCC
* * *
30942649 AGTTCGCAACGAAACTGGTGAACACCT
1 AGTTCGCAAC-CAACTGGCGAACACCC
*
30942676 AGTTCGTCAAACCAACTAGCGAAC
1 AGTTCG-C-AACCAACTGGCGAAC
30942700 CCAACTTGCA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 27 0.68
28 10 0.25
29 3 0.08
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.19
Consensus pattern (26 bp):
AGTTCGCAACCAACTGGCGAACACCC
Found at i:30947447 original size:85 final size:85
Alignment explanation
Indices: 30947304--30947482 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
30947294 GGCCAGCCAT
30947304 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
30947369 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
30947389 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
30947454 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
30947474 GGGCATGGG
1 GAGCATGGG
30947483 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:30948737 original size:47 final size:47
Alignment explanation
Indices: 30948685--30949475 Score: 1246
Period size: 47 Copynumber: 16.7 Consensus size: 47
30948675 AGTGTATATA
* *
30948685 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAACACGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
30948732 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
30948779 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
30948826 TGTGATAAGGCTGAATGGCCAATATGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
30948873 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
30948920 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
30948967 TGTGATAAGGCCGAATGGCCAATATGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
30949014 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
30949063 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
30949110 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
30949159 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
30949206 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
30949253 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
30949300 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
30949347 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* * *
30949394 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
*
30949441 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
30949476 GAAGTGTATA
Statistics
Matches: 688, Mismatches: 47, Indels: 18
0.91 0.06 0.02
Matches are distributed among these distances:
46 3 0.00
47 597 0.87
49 86 0.12
50 2 0.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:30949374 original size:22 final size:22
Alignment explanation
Indices: 30949347--30949468 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
30949337 CATGTGTATG
30949347 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
30949369 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
30949394 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
30949416 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
30949441 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
30949463 TGTGAT
1 TGTGAT
30949469 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:30951397 original size:27 final size:27
Alignment explanation
Indices: 30951367--30951515 Score: 149
Period size: 27 Copynumber: 5.5 Consensus size: 27
30951357 ATATTGAGTC
* *
30951367 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30951394 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30951421 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30951449 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
30951476 CGCACACTTAGTGC-ATCAT-ATCCATTT
1 CGCACACTTAGTGCTA-CATAAT-CAACT
30951503 CGCACACTTAGTG
1 CGCACACTTAGTG
30951516 TAACATAGTC
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 81 0.77
28 23 0.22
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30951459 original size:55 final size:53
Alignment explanation
Indices: 30951367--30951515 Score: 156
Period size: 55 Copynumber: 2.7 Consensus size: 53
30951357 ATATTGAGTC
* * * *
30951367 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATCAACTCGCACACTTAGTGCCACATAATCAAAT
* ** *
30951421 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TC-AACTCGCACACTTAGTGCCACATAATCAAAT
**
30951476 CGCACACTTAGTGC-ATCATATCCATTTCGCACACTTAGTG
1 CGCACACTTAGTGCTA-CATAT-CAACTCGCACACTTAGTG
30951516 TAACATAGTC
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
53 1 0.01
54 36 0.44
55 44 0.54
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCCACATAATCAAAT
Found at i:30963898 original size:18 final size:18
Alignment explanation
Indices: 30963875--30963913 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
30963865 CAATACTTAA
30963875 CTTAGAATTCACCCATTT
1 CTTAGAATTCACCCATTT
30963893 CTTAGAATTCACCCATTT
1 CTTAGAATTCACCCATTT
30963911 CTT
1 CTT
30963914 CGTTACTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (18 bp):
CTTAGAATTCACCCATTT
Found at i:30964320 original size:28 final size:28
Alignment explanation
Indices: 30964180--30964499 Score: 317
Period size: 28 Copynumber: 11.4 Consensus size: 28
30964170 GTTTGGCACG
*
30964180 AGGCATTCATTTAACAGAGATAGCCACAA
1 AGGC-TTCCTTTAACAGAGATAGCCACAA
* * * *
30964209 AGACATGCTTTTAA-ATGAGGTAGCCACAA
1 AGGC-TTCCTTTAACA-GAGATAGCCACAA
**
30964238 AGGAATCCTTTTAACAGAGATAGCCACAA
1 AGGCTTCC-TTTAACAGAGATAGCCACAA
* * *
30964267 AGACTTCCTTTTAATAGAAATAGCCACAA
1 AGGCTTCC-TTTAACAGAGATAGCCACAA
* *
30964296 AGGCTTCCTTTAATAGAGATCGCCACAA
1 AGGCTTCCTTTAACAGAGATAGCCACAA
*
30964324 AGGCTTCTTTTAACAGAGATCA-CCACAA
1 AGGCTTCCTTTAACAGAGAT-AGCCACAA
* ***
30964352 AGGCTTCCTTTAATAGAGATCTTCACAA
1 AGGCTTCCTTTAACAGAGATAGCCACAA
* *
30964380 AAGCTTCCTTTAACAGAGATCA-CCATAA
1 AGGCTTCCTTTAACAGAGAT-AGCCACAA
* * *
30964408 AGGCTTCCTTTAATAGGGATTGCCACAA
1 AGGCTTCCTTTAACAGAGATAGCCACAA
*
30964436 AGGCTTCCTTTAACAGAGATAGCCACGA
1 AGGCTTCCTTTAACAGAGATAGCCACAA
*
30964464 AGGCATCCTTT--CAGAGATAGCCACAA
1 AGGCTTCCTTTAACAGAGATAGCCACAA
*
30964490 AGGATTCCTT
1 AGGCTTCCTT
30964500 GCAAAAACTA
Statistics
Matches: 241, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
26 22 0.09
28 145 0.60
29 73 0.30
30 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (28 bp):
AGGCTTCCTTTAACAGAGATAGCCACAA
Found at i:30980050 original size:39 final size:39
Alignment explanation
Indices: 30979965--30980053 Score: 103
Period size: 38 Copynumber: 2.3 Consensus size: 39
30979955 GTACTGATTA
*
30979965 CTGATACTGTAATGGGCTAAGGCCTAATGCATGACTGCAC
1 CTGATACTG-AATGGGCTAAGGCCTAATGCATAACTGCAC
* *
30980005 CT-ATACTGAATGGGCTAAGGCCATAACTG-A-AACTGGAT
1 CTGATACTGAATGGGCTAAGGCC-TAA-TGCATAACTGCAC
30980043 CTGATACTGAA
1 CTGATACTGAA
30980054 AAAGGGCTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
38 21 0.49
39 18 0.42
40 4 0.09
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (39 bp):
CTGATACTGAATGGGCTAAGGCCTAATGCATAACTGCAC
Found at i:30982815 original size:39 final size:39
Alignment explanation
Indices: 30982730--30982818 Score: 103
Period size: 38 Copynumber: 2.3 Consensus size: 39
30982720 GTACTGATTA
*
30982730 CTGATACTGTAATGGGCTAAGGCCTAATGCATGACTGCAC
1 CTGATACTG-AATGGGCTAAGGCCTAATGCATAACTGCAC
* *
30982770 CT-ATACTGAATGGGCTAAGGCCATAACTG-A-AACTGGAT
1 CTGATACTGAATGGGCTAAGGCC-TAA-TGCATAACTGCAC
30982808 CTGATACTGAA
1 CTGATACTGAA
30982819 AAAGGGCTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
38 21 0.49
39 18 0.42
40 4 0.09
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (39 bp):
CTGATACTGAATGGGCTAAGGCCTAATGCATAACTGCAC
Found at i:30985712 original size:27 final size:27
Alignment explanation
Indices: 30985674--30985726 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
30985664 TCTTCAGTCC
*
30985674 ACTTGAAAGGTGCACTTTTCCTCAAAA
1 ACTTGAAAGGTGCACTTTTCCACAAAA
30985701 ACTTGAAAGGTGCACTTTTCCACAAA
1 ACTTGAAAGGTGCACTTTTCCACAAA
30985727 CCTCTTATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (27 bp):
ACTTGAAAGGTGCACTTTTCCACAAAA
Found at i:30987201 original size:20 final size:21
Alignment explanation
Indices: 30987164--30987204 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
30987154 AACTAGTATT
*
30987164 CTGCATCAGTGAGGGTTGTCC
1 CTGCAACAGTGAGGGTTGTCC
30987185 CTGCAACAGTG-GGGTTGTCC
1 CTGCAACAGTGAGGGTTGTCC
30987205 TAGAAACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.15, C:0.24, G:0.34, T:0.27
Consensus pattern (21 bp):
CTGCAACAGTGAGGGTTGTCC
Found at i:30987212 original size:20 final size:21
Alignment explanation
Indices: 30987170--30987212 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
30987160 TATTCTGCAT
*
30987170 CAGTGAGGGTTGTCCCTGCAA
1 CAGTGAGGGTTGTCCCTGAAA
30987191 CAGTG-GGGTTGT-CCTAGAAA
1 CAGTGAGGGTTGTCCCT-GAAA
30987211 CA
1 CA
30987213 CCATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 12 0.60
21 5 0.25
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (21 bp):
CAGTGAGGGTTGTCCCTGAAA
Found at i:30987650 original size:16 final size:16
Alignment explanation
Indices: 30987619--30987671 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
30987609 AGTCTTGTCA
30987619 CTATAGTTTT-AGAAT
1 CTATAGTTTTCAGAAT
30987634 CTATAGTTTTCAGAAT
1 CTATAGTTTTCAGAAT
* * *
30987650 CTAGAG-TTTCACAGT
1 CTATAGTTTTCAGAAT
30987665 CTATAGT
1 CTATAGT
30987672 ATTCTATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 22 0.69
16 10 0.31
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (16 bp):
CTATAGTTTTCAGAAT
Found at i:30987832 original size:18 final size:19
Alignment explanation
Indices: 30987811--30987850 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
30987801 ATGGCATGGA
30987811 TTTTTCACAAA-ATACATT
1 TTTTTCACAAATATACATT
* *
30987829 TTTTTCTCAAATATGCATT
1 TTTTTCACAAATATACATT
30987848 TTT
1 TTT
30987851 GAAAATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTCACAAATATACATT
Found at i:30994590 original size:119 final size:120
Alignment explanation
Indices: 30994406--30994630 Score: 289
Period size: 119 Copynumber: 1.9 Consensus size: 120
30994396 GCTCCTCGTT
*
30994406 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTAATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
30994471 ATTTAGT-AATTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTCAATTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
30994526 CAAATGCCTTTGGG-CTTAGCCC-GTAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGTAA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* * *
30994587 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTCAATTAGCACAAAGCCTTCGGGACTTAACCCGGA
30994631 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 8 0.09
119 60 0.66
120 23 0.25
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTAATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTCAATTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30994630 original size:40 final size:40
Alignment explanation
Indices: 30994406--30994630 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
30994396 GCTCCTCGTT
* *
30994406 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
* *
30994446 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
* * *
30994486 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
* *
30994526 CAAATGCCTTTGGG-CTTAGCCCGTA-ATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAAT-TCGCA
* * * *
30994565 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AATTCGCA
30994606 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30994631 CATCATTCAA
Statistics
Matches: 160, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 3 0.02
39 28 0.17
40 116 0.73
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
Found at i:31006314 original size:18 final size:19
Alignment explanation
Indices: 31006288--31006324 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
31006278 AATTTTGGAA
31006288 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
31006306 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
31006325 ATGTGATTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:31007255 original size:22 final size:22
Alignment explanation
Indices: 31007196--31007257 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
31007186 TAGTTTAATG
31007196 TGGTGAT-GTTACGGTGGTTGAA
1 TGGTGATGGTT-CGGTGGTTGAA
* * * *
31007218 TAGTGGTGGAGT-GGTGGTTGTA
1 TGGTGATGG-TTCGGTGGTTGAA
31007240 TGGTGATGGTTCGGTGGT
1 TGGTGATGGTTCGGTGGT
31007258 GATTTGGTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
21 1 0.03
22 27 0.90
23 1 0.03
24 1 0.03
ACGTcount: A:0.13, C:0.03, G:0.47, T:0.37
Consensus pattern (22 bp):
TGGTGATGGTTCGGTGGTTGAA
Found at i:31008929 original size:35 final size:35
Alignment explanation
Indices: 31008882--31008978 Score: 113
Period size: 35 Copynumber: 2.8 Consensus size: 35
31008872 TTTATCACAG
* *
31008882 TGGCATGTTTAACATGTGAATTAGAATCAGAATAA
1 TGGCATGCTTAACATGCGAATTAGAATCAGAATAA
* * * *
31008917 TGGCATGCTTAACATACGAATCATAATCAGAATGA
1 TGGCATGCTTAACATGCGAATTAGAATCAGAATAA
* * *
31008952 TAGCATGCTCAACATGCAAATTAGAAT
1 TGGCATGCTTAACATGCGAATTAGAAT
31008979 ATCAATAAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (35 bp):
TGGCATGCTTAACATGCGAATTAGAATCAGAATAA
Found at i:31013073 original size:31 final size:32
Alignment explanation
Indices: 31013017--31013083 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
31013007 TTATTTATAT
*
31013017 AGGTTGGCCGAATGTGTGGGATCA-TTTAACA
1 AGGTTAGCCGAATGTGTGGGATCATTTTAACA
*
31013048 AGGTTAGCCGAAT-T-TGGAGATTCATTTTAGCA
1 AGGTTAGCCGAATGTGTGG-GA-TCATTTTAACA
31013080 AGGT
1 AGGT
31013084 GTATGCATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.10
30 3 0.10
31 15 0.48
32 10 0.32
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (32 bp):
AGGTTAGCCGAATGTGTGGGATCATTTTAACA
Found at i:31015144 original size:40 final size:40
Alignment explanation
Indices: 31015099--31015366 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
31015089 GCAAACACAT
*
31015099 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31015139 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
31015179 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
31015219 TTGCCTTCGGGTCATAGCCCGGATATATTATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31015259 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31015299 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31015339 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
31015367 TCCAATGCTC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:31026677 original size:22 final size:22
Alignment explanation
Indices: 31026646--31026689 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
31026636 TTTTGAACCA
*
31026646 TTACCTTTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
31026668 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
31026690 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:31027524 original size:16 final size:17
Alignment explanation
Indices: 31027498--31027531 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
31027488 TTAGATTGGG
*
31027498 TTGATAAAATTATTTAA
1 TTGATAAAATTAATTAA
31027515 TTGA-AAAATTAATTAA
1 TTGATAAAATTAATTAA
31027531 T
1 T
31027532 ATAAGTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTGATAAAATTAATTAA
Found at i:31029232 original size:37 final size:37
Alignment explanation
Indices: 31029195--31029263 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 37
31029185 ATGCTAATTT
* *
31029195 TTTTA-TGAATTTTTTTAT-ATT-TTGAGTTATTTTA
1 TTTTATTGAATATTTTTATAATTATTGAATTATTTTA
31029229 TTTTATTGAATATTTTTATAATTATTGAATTATTT
1 TTTTATTGAATATTTTTATAATTATTGAATTATTT
31029264 GTTGACGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 5 0.17
35 12 0.40
36 3 0.10
37 10 0.33
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (37 bp):
TTTTATTGAATATTTTTATAATTATTGAATTATTTTA
Found at i:31029630 original size:19 final size:19
Alignment explanation
Indices: 31029609--31029644 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
31029599 TAAAAAAATA
31029609 AAAAATTATT-AATTTTAG
1 AAAAATTATTAAATTTTAG
31029627 AAAAATTATTAAATTTTA
1 AAAAATTATTAAATTTTA
31029645 ATAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAAAATTATTAAATTTTAG
Found at i:31029709 original size:13 final size:13
Alignment explanation
Indices: 31029693--31029718 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31029683 AATTTTTTAT
31029693 AAAAATTGTAAAA
1 AAAAATTGTAAAA
31029706 AAAAATTGTAAAA
1 AAAAATTGTAAAA
31029719 TTTTATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAAATTGTAAAA
Found at i:31029962 original size:10 final size:10
Alignment explanation
Indices: 31029949--31030057 Score: 61
Period size: 10 Copynumber: 11.4 Consensus size: 10
31029939 AAATTTCATA
*
31029949 ATTTTTTTAT
1 ATTTTTATAT
*
31029959 ATTTCTATAT
1 ATTTTTATAT
31029969 A-TTTTATA-
1 ATTTTTATAT
*
31029977 ATTTTT-TACG
1 ATTTTTATA-T
*
31029987 ATTTTTATAA
1 ATTTTTATAT
* *
31029997 AATTTTACA-
1 ATTTTTATAT
31030006 ATTTTT-TAT
1 ATTTTTATAT
* *
31030015 ATTTTTTTACA
1 ATTTTTATA-T
31030026 ATTTTTATAT
1 ATTTTTATAT
* *
31030036 TTTTTTCTA-
1 ATTTTTATAT
31030045 ATTTTTA-AT
1 ATTTTTATAT
31030054 ATTT
1 ATTT
31030058 GAAATTTTTA
Statistics
Matches: 76, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
8 5 0.07
9 30 0.39
10 31 0.41
11 10 0.13
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:31029981 original size:28 final size:28
Alignment explanation
Indices: 31029935--31030041 Score: 99
Period size: 29 Copynumber: 3.8 Consensus size: 28
31029925 CTAACGAATT
*
31029935 TATAAAATTTCATAATTTTTTTATATTTC
1 TATAAAATTTTATAA-TTTTTTATATTTC
* * *
31029964 TAT-ATATTTTATAATTTTTTACGATTTT
1 TATAAAATTTTATAATTTTTTA-TATTTC
* *
31029992 TATAAAATTTTACAATTTTTTATATTTT
1 TATAAAATTTTATAATTTTTTATATTTC
* * *
31030020 TTTACAATTTTTATATTTTTTT
1 TATA-AAATTTTATAATTTTTT
31030042 CTAATTTTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
27 7 0.11
28 24 0.38
29 33 0.52
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (28 bp):
TATAAAATTTTATAATTTTTTATATTTC
Found at i:31029996 original size:57 final size:58
Alignment explanation
Indices: 31029898--31030045 Score: 149
Period size: 57 Copynumber: 2.5 Consensus size: 58
31029888 ATTTTACGAA
* *
31029898 ATATTTCTTTACATTTTATATAATTTTCTAACGAATTTATAAAATTTCATAATTTTTTT
1 ATATTTCTATACATTTTATATAATTTTCTAACGAATTTATAAAATTTCACAA-TTTTTT
* * * *
31029957 ATATTTCTATATA-TTT-TATAATTTT-TTACGATTTTTATAAAATTTTACAATTTTTT
1 ATATTTCTATACATTTTATATAATTTTCTAACGA-ATTTATAAAATTTCACAATTTTTT
* * **
31030013 ATATTTTTTTACAATTTTTATATTTTTTTCTAA
1 ATATTTCTATAC-A-TTTTATATAATTTTCTAA
31030046 TTTTTAATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
56 20 0.28
57 25 0.35
58 3 0.04
59 14 0.20
60 7 0.10
61 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (58 bp):
ATATTTCTATACATTTTATATAATTTTCTAACGAATTTATAAAATTTCACAATTTTTT
Found at i:31030048 original size:39 final size:40
Alignment explanation
Indices: 31029960--31030057 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 40
31029950 TTTTTTTATA
* * *
31029960 TTTCTATATATTTTATAATTTTTTACGATTTTTATAAAATT
1 TTTCTA-ATTTTTTATATTTTTTTACAATTTTTATAAAATT
* **
31030001 TTAC-AATTTTTTATATTTTTTTACAATTTTTAT-ATTTT
1 TTTCTAATTTTTTATATTTTTTTACAATTTTTATAAAATT
*
31030039 TTTCTAATTTTTAATATTT
1 TTTCTAATTTTTTATATTT
31030058 GAAATTTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 6 0.12
39 38 0.79
40 1 0.02
41 3 0.06
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (40 bp):
TTTCTAATTTTTTATATTTTTTTACAATTTTTATAAAATT
Found at i:31030055 original size:20 final size:19
Alignment explanation
Indices: 31029970--31030057 Score: 97
Period size: 19 Copynumber: 4.5 Consensus size: 19
31029960 TTTCTATATA
* *
31029970 TTTTATAATTTTTTACGAT
1 TTTTATATTTTTTTACAAT
***
31029989 TTTTATAAAATTTTACAATT
1 TTTTATATTTTTTTACAA-T
31030009 TTTTATATTTTTTTACAAT
1 TTTTATATTTTTTTACAAT
31030028 TTTTATATTTTTTT-CTAAT
1 TTTTATATTTTTTTAC-AAT
31030047 TTTTAATATTT
1 TTTT-ATATTT
31030058 GAAATTTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
18 1 0.02
19 37 0.62
20 22 0.37
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTTATATTTTTTTACAAT
Found at i:31030125 original size:20 final size:20
Alignment explanation
Indices: 31030100--31030139 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
31030090 AATTTTATTG
*
31030100 ATTCTAATTTTTTATAAAAA
1 ATTCTAATTTTTAATAAAAA
31030120 ATTCTAATTTTTAATAAAAA
1 ATTCTAATTTTTAATAAAAA
31030140 CAAGGGCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTCTAATTTTTAATAAAAA
Found at i:31030262 original size:89 final size:87
Alignment explanation
Indices: 31030142--31030344 Score: 241
Period size: 89 Copynumber: 2.3 Consensus size: 87
31030132 AATAAAAACA
* * *
31030142 AGGG-CTTAATTGCTTTTTTTGTAAAAAGTTTGAAGGTCTTGTTGATGCGTTTTGAAAGTTCAAG
1 AGGGACTTAATTGCTTTTTTT-T-AAAAGTTTGAAGGCCTTGTTGATGCATTTTGAAAATTCAAG
31030206 TAAC-CAATGGAGTACAAAAAAAAAG
64 T-ACTCAATGGAGTAC-AAAAAAAAG
* * * *
31030231 TAGGGGA-TTAATTGCTTTTTTTTAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAATTTAAG
1 -A-GGGACTTAATTGCTTTTTTTTAAAAGTTTGAAGGCCTTGTTGATGCATTTTGAAAATTCAAG
* * *
31030295 TGCTCAATTGAGTGCAAAAAAAAG
64 TACTCAATGGAGTACAAAAAAAAG
31030319 AGGGACTTAATTGCTTTTTTTTAAAA
1 AGGGACTTAATTGCTTTTTTTTAAAA
31030345 AAAATTGAGG
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
86 4 0.04
87 20 0.20
88 10 0.10
89 44 0.45
90 2 0.02
91 18 0.18
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (87 bp):
AGGGACTTAATTGCTTTTTTTTAAAAGTTTGAAGGCCTTGTTGATGCATTTTGAAAATTCAAGTA
CTCAATGGAGTACAAAAAAAAG
Found at i:31031752 original size:32 final size:33
Alignment explanation
Indices: 31031670--31031753 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 33
31031660 ATTAAATAAA
31031670 AAATAATATAAATTTTTT-ATAAAAATGTTTTAT
1 AAATAATAT-AATTTTTTCATAAAAATGTTTTAT
** * ** * *
31031703 AAATTGTCTAAAATTTTCATAATACT-TTTTAT
1 AAATAATATAATTTTTTCATAAAAATGTTTTAT
31031735 AAATAATATAATTTTTTCA
1 AAATAATATAATTTTTTCA
31031754 ATAACTTTAG
Statistics
Matches: 38, Mismatches: 12, Indels: 3
0.72 0.23 0.06
Matches are distributed among these distances:
32 26 0.68
33 12 0.32
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (33 bp):
AAATAATATAATTTTTTCATAAAAATGTTTTAT
Found at i:31034934 original size:22 final size:22
Alignment explanation
Indices: 31034878--31034921 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31034868 CTTTTGTTCG
** *
31034878 ATTAAATAAAATTTTATTTTTA
1 ATTAAATTCAATTTTAATTTTA
31034900 ATTAAATTCAATTTTAATTTTA
1 ATTAAATTCAATTTTAATTTTA
31034922 TATAATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTAAATTCAATTTTAATTTTA
Found at i:31036725 original size:22 final size:22
Alignment explanation
Indices: 31036698--31036741 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
31036688 TTAGGTTTAT
31036698 CTGACAAAACAGATAATTGGAC
1 CTGACAAAACAGATAATTGGAC
*
31036720 CTGACAAAACAGATGATTGGAC
1 CTGACAAAACAGATAATTGGAC
31036742 ACTATGTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (22 bp):
CTGACAAAACAGATAATTGGAC
Found at i:31038203 original size:23 final size:22
Alignment explanation
Indices: 31038144--31038203 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
31038134 TGGATCTAAC
31038144 CTAAAAGAAGAAATACAAAAAA
1 CTAAAAGAAGAAATACAAAAAA
* ** * *
31038166 TTAGAATTAAAAAATACGAAAACA
1 CTA-AAAGAAGAAATAC-AAAAAA
31038190 CTAAAAGAAGAAAT
1 CTAAAAGAAGAAAT
31038204 TTAATAGCTA
Statistics
Matches: 27, Mismatches: 9, Indels: 3
0.69 0.23 0.08
Matches are distributed among these distances:
22 2 0.07
23 18 0.67
24 7 0.26
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (22 bp):
CTAAAAGAAGAAATACAAAAAA
Found at i:31045182 original size:16 final size:16
Alignment explanation
Indices: 31045158--31045190 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31045148 CACCAGCGCC
*
31045158 TTTTTTTTTAATTTTA
1 TTTTATTTTAATTTTA
31045174 TTTTATTTTAATTTTA
1 TTTTATTTTAATTTTA
31045190 T
1 T
31045191 GAAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTTAATTTTA
Found at i:31045478 original size:3 final size:3
Alignment explanation
Indices: 31045470--31045496 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31045460 TGTTTAAACT
31045470 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
31045497 TCTCATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:31046007 original size:13 final size:13
Alignment explanation
Indices: 31045989--31046017 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
31045979 CTAAAGTAAC
31045989 AATTAAACCATTT
1 AATTAAACCATTT
31046002 AATTAAACCATTT
1 AATTAAACCATTT
31046015 AAT
1 AAT
31046018 AAATGGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAAACCATTT
Found at i:31048181 original size:19 final size:19
Alignment explanation
Indices: 31048154--31048194 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
31048144 ACAGCCTAGC
*
31048154 CACACGGGCGTGTGCCACA
1 CACACGGGCATGTGCCACA
* *
31048173 CACATGGGCATGTGTCACA
1 CACACGGGCATGTGCCACA
31048192 CAC
1 CAC
31048195 GGGCAACACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.34, G:0.27, T:0.15
Consensus pattern (19 bp):
CACACGGGCATGTGCCACA
Found at i:31050185 original size:33 final size:33
Alignment explanation
Indices: 31050148--31050256 Score: 175
Period size: 33 Copynumber: 3.3 Consensus size: 33
31050138 CAATCCATCT
31050148 ATCACACCAATGCTCATAAGAGCTAAACCAACC
1 ATCACACCAATGCTCATAAGAGCTAAACCAACC
*
31050181 ATCACACCAATGCTTATAAGAG-TCAAACCAACC
1 ATCACACCAATGCTCATAAGAGCT-AAACCAACC
*
31050214 ATCACACCAATGCTCATAAGAGCTAATCCAACC
1 ATCACACCAATGCTCATAAGAGCTAAACCAACC
*
31050247 AGCACACCAA
1 ATCACACCAA
31050257 ATAAAGAGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
32 1 0.01
33 68 0.97
34 1 0.01
ACGTcount: A:0.42, C:0.33, G:0.09, T:0.16
Consensus pattern (33 bp):
ATCACACCAATGCTCATAAGAGCTAAACCAACC
Found at i:31056194 original size:114 final size:114
Alignment explanation
Indices: 31056055--31056287 Score: 403
Period size: 114 Copynumber: 2.0 Consensus size: 114
31056045 CTTTCTGTAC
* * * *
31056055 TATTTTCTACGGTGTAATCGAGATCGAAGTAGTTCTAGCAGTTACTTCAATAACAATTTCAACTT
1 TATTTTCTACGGTGTAATCAAGATCGAAGCAGTTCCAACAGTTACTTCAATAACAATTTCAACTT
31056120 TTCTCACCGTGACGGTAAACCTCGCAATCCTTTAGGAAATACATCAGTG
66 TTCTCACCGTGACGGTAAACCTCGCAATCCTTTAGGAAATACATCAGTG
*
31056169 TATTTTCTACGGTGTAATCAAGATCGAAGCAGTTCCAACTGTTACTTCAATAACAATTTCAACTT
1 TATTTTCTACGGTGTAATCAAGATCGAAGCAGTTCCAACAGTTACTTCAATAACAATTTCAACTT
* *
31056234 TTCTCACCTTGACGGTAAACCTCGCAATCCTTTAGGAAATACATTAGTG
66 TTCTCACCGTGACGGTAAACCTCGCAATCCTTTAGGAAATACATCAGTG
31056283 TATTT
1 TATTT
31056288 AGAACTGTCA
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (114 bp):
TATTTTCTACGGTGTAATCAAGATCGAAGCAGTTCCAACAGTTACTTCAATAACAATTTCAACTT
TTCTCACCGTGACGGTAAACCTCGCAATCCTTTAGGAAATACATCAGTG
Found at i:31057264 original size:24 final size:27
Alignment explanation
Indices: 31057226--31057274 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
31057216 TTATTCCTCA
31057226 ATTACAAATTTTACCA-ATTAGGGTCG
1 ATTACAAATTTTACCAGATTAGGGTCG
*
31057252 ATTA-AAA-TTTACCAGATTTGGGT
1 ATTACAAATTTTACCAGATTAGGGT
31057275 TTTGAGGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTACAAATTTTACCAGATTAGGGTCG
Found at i:31061426 original size:22 final size:22
Alignment explanation
Indices: 31061396--31061451 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 22
31061386 CTGTGGTGTA
31061396 GTGGAAAGGTGGCGACACAGGT
1 GTGGAAAGGTGGCGACACAGGT
*
31061418 GTGGCAAGGAGGTGGCGTCACAGGT
1 GTGG-AA--AGGTGGCGACACAGGT
*
31061443 GTGGTAAGG
1 GTGGAAAGG
31061452 AGGTCAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 7 0.24
23 2 0.07
24 1 0.03
25 19 0.66
ACGTcount: A:0.23, C:0.12, G:0.48, T:0.16
Consensus pattern (22 bp):
GTGGAAAGGTGGCGACACAGGT
Found at i:31061430 original size:25 final size:25
Alignment explanation
Indices: 31061402--31061455 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
31061392 TGTAGTGGAA
31061402 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
* *
31061427 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
31061452 AGGT
1 AGGT
31061456 CAGAGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.13, G:0.48, T:0.17
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAGG
Found at i:31062991 original size:27 final size:26
Alignment explanation
Indices: 31062952--31063090 Score: 172
Period size: 27 Copynumber: 5.2 Consensus size: 26
31062942 AAAGGATGTT
* *
31062952 AAATTATTGAAATACCCTTGATTGGTA
1 AAATTA-TGAAATACCCTCGATGGGTA
*
31062979 AAATTACTAAAATA-CCTCGATGGGTA
1 AAATTA-TGAAATACCCTCGATGGGTA
*
31063005 AAATTATCGAAATACCCTCAATGGGTA
1 AAATTAT-GAAATACCCTCGATGGGTA
*
31063032 AAATTATCGAAATACCCCCGATGGGTA
1 AAATTAT-GAAATACCCTCGATGGGTA
*
31063059 AAATTATTGAAATACCCCCGATGGGTA
1 AAATTA-TGAAATACCCTCGATGGGTA
31063086 AAATT
1 AAATT
31063091 GACTGTTATG
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
25 1 0.01
26 21 0.21
27 78 0.77
28 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (26 bp):
AAATTATGAAATACCCTCGATGGGTA
Found at i:31063032 original size:53 final size:54
Alignment explanation
Indices: 31062952--31063090 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
31062942 AAAGGATGTT
* * *
31062952 AAATTATTGAAATACCCTTGATTGGTAAAATTA-CTAAAATA-CCTCGATGGGTA
1 AAATTATTGAAATACCCTCGATGGGTAAAATTATC-AAAATACCCCCGATGGGTA
* * *
31063005 AAATTATCGAAATACCCTCAATGGGTAAAATTATCGAAATACCCCCGATGGGTA
1 AAATTATTGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCCGATGGGTA
*
31063059 AAATTATTGAAATACCCCCGATGGGTAAAATT
1 AAATTATTGAAATACCCTCGATGGGTAAAATT
31063091 GACTGTTATG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
53 34 0.45
54 41 0.55
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (54 bp):
AAATTATTGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCCGATGGGTA
Found at i:31067516 original size:17 final size:18
Alignment explanation
Indices: 31067484--31067517 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31067474 GATGTGCCCA
*
31067484 AAACTATTTTTTTGCTTG
1 AAACTATTTTTATGCTTG
31067502 AAACTA-TTTTATGCTT
1 AAACTATTTTTATGCTT
31067518 ACTATTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (18 bp):
AAACTATTTTTATGCTTG
Found at i:31076362 original size:27 final size:27
Alignment explanation
Indices: 31076331--31076538 Score: 237
Period size: 27 Copynumber: 7.7 Consensus size: 27
31076321 TCCATCTCCT
**
31076331 AGGGGTATAACAGTCATTTTACCCTAT-
1 AGGGGTATTTCAGTCATTTTACCCT-TC
*
31076358 GGGGGTATTTCAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTC
31076385 AGGGGTATTTCAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTC
* *
31076412 -GAGGGTATTTTAGTCATTTTATCCTTC
1 AG-GGGTATTTCAGTCATTTTACCCTTC
*
31076439 AGGGGTATTTTAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTC
* *
31076466 AAGGGTATTTC-GATCATTTTATCCTTC
1 AGGGGTATTTCAG-TCATTTTACCCTTC
**
31076493 AGGATTATTTC-GATCATTTTACCCTTC
1 AGGGGTATTTCAG-TCATTTTACCCTTC
*
31076520 -GAGGGTATTTCTGTCATTT
1 AG-GGGTATTTCAGTCATTT
31076539 GCCCATGAAT
Statistics
Matches: 159, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.03
27 153 0.96
28 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (27 bp):
AGGGGTATTTCAGTCATTTTACCCTTC
Found at i:31076399 original size:54 final size:54
Alignment explanation
Indices: 31076331--31076538 Score: 278
Period size: 54 Copynumber: 3.9 Consensus size: 54
31076321 TCCATCTCCT
** * *
31076331 AGGGGTATAACAGTCATTTTACCCTAT-GGGGGTATTTCAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCT-TCGAGGGTATTTCAGTCATTTTATCCTTC
*
31076385 AGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTATCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTATCCTTC
* *
31076439 AGGGGTATTTTAGTCATTTTACCCTTCAAGGGTATTTC-GATCATTTTATCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTATCCTTC
** *
31076493 AGGATTATTTC-GATCATTTTACCCTTCGAGGGTATTTCTGTCATTT
1 AGGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCAGTCATTT
31076539 GCCCATGAAT
Statistics
Matches: 138, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
53 3 0.02
54 134 0.97
55 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (54 bp):
AGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTATCCTTC
Found at i:31083355 original size:27 final size:27
Alignment explanation
Indices: 31083334--31083534 Score: 226
Period size: 27 Copynumber: 7.5 Consensus size: 27
31083324 AGGGGTATAA
* *
31083334 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
* * **
31083361 CGGTTATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
*
31083388 CAGTCATTTTATCCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
** *
31083415 TGGTCATTTTA-CCTTTTAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
31083441 CAGTCATTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
** * * *
31083468 TGGTTATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
**
31083495 CAGTCATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
*
31083522 CGGTCA-TTTACCC
1 CAGTCATTTTACCC
31083535 ACGAATCGCA
Statistics
Matches: 145, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 30 0.21
27 115 0.79
ACGTcount: A:0.17, C:0.18, G:0.19, T:0.45
Consensus pattern (27 bp):
CAGTCATTTTACCCTTTGAGGGTATTT
Found at i:31083411 original size:54 final size:54
Alignment explanation
Indices: 31083334--31083534 Score: 271
Period size: 54 Copynumber: 3.8 Consensus size: 54
31083324 AGGGGTATAA
* * *
31083334 CAGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTT
* * **
31083388 CAGTCATTTTATCCTTTGAGGGTATTTTGGTCATTTTA-CCTTTTAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTT
* * **
31083441 CAGTCATTTTACCCTTTGAGGGTATTTTGGTTATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTT
**
31083495 CAGTCATTTTACCCTTCAAGGGTATTTCGGTCA-TTTACCC
1 CAGTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCC
31083535 ACGAATCGCA
Statistics
Matches: 130, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
53 56 0.43
54 74 0.57
ACGTcount: A:0.17, C:0.18, G:0.19, T:0.45
Consensus pattern (54 bp):
CAGTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTT
Found at i:31083517 original size:107 final size:107
Alignment explanation
Indices: 31083334--31083530 Score: 313
Period size: 107 Copynumber: 1.8 Consensus size: 107
31083324 AGGGGTATAA
*
31083334 CAGTCATTTTACCCTATGGGGGTATTTCGGTTATTTTACCCTTCAAGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTTATTTTACCCTTCAAGGGTATTTCAGTCATTTTA
* ** *
31083399 TCCTTTGAGGGTATTTTGGTCATTTTACCTTTTAGGGTATTT
66 CCCTTCAAGGGTATTTCGGTCATTTTACCTTTTAGGGTATTT
* * **
31083441 CAGTCATTTTACCCTTTGAGGGTATTTTGGTTATTTTACCCTTCGGGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTTATTTTACCCTTCAAGGGTATTTCAGTCATTTTA
31083506 CCCTTCAAGGGTATTTCGGTCATTT
66 CCCTTCAAGGGTATTTCGGTCATTT
31083531 ACCCACGAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 81 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (107 bp):
CAGTCATTTTACCCTATGAGGGTATTTCGGTTATTTTACCCTTCAAGGGTATTTCAGTCATTTTA
CCCTTCAAGGGTATTTCGGTCATTTTACCTTTTAGGGTATTT
Found at i:31091087 original size:18 final size:18
Alignment explanation
Indices: 31091064--31091100 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31091054 CTGATTTGCT
31091064 TATGTGTGAAGAGACTGC
1 TATGTGTGAAGAGACTGC
31091082 TATGTGTGAAGAGACTGC
1 TATGTGTGAAGAGACTGC
31091100 T
1 T
31091101 CGTAAACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (18 bp):
TATGTGTGAAGAGACTGC
Found at i:31092718 original size:20 final size:20
Alignment explanation
Indices: 31092693--31092819 Score: 121
Period size: 20 Copynumber: 6.3 Consensus size: 20
31092683 TTGTAAAGGA
*
31092693 TTTGCACTTCGGTGCCCTTG
1 TTTGCACTTCGGTGCCCCTG
31092713 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * **
31092733 TATACACTTTGGTGTTCCTG
1 TTTGCACTTCGGTGCCCCTG
* * *
31092753 TTCGCACTACGGTGCCCCTA
1 TTTGCACTTCGGTGCCCCTG
*
31092773 TTTGCACATT-TGTGCCCCTG
1 TTTGCAC-TTCGGTGCCCCTG
* *
31092793 TCTACACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
31092813 TTATGCA
1 TT-TGCA
31092820 TCTATGATGC
Statistics
Matches: 81, Mismatches: 23, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
19 2 0.02
20 75 0.93
21 4 0.05
ACGTcount: A:0.11, C:0.31, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:31092813 original size:60 final size:60
Alignment explanation
Indices: 31092696--31092814 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
31092686 TAAAGGATTT
* * * * **
31092696 GCACTTCGGTGCCCTTGTTTGCACTTCGGTGCCCCTGTATACACTTTGGTGTTCCTGTTC
1 GCACTACGGTGCCCCTATTTGCACTTCGGTGCCCCTGTATACACTTCGGTGCCCCTGTTC
* *
31092756 GCACTACGGTGCCCCTATTTGCACATT-TGTGCCCCTGTCTACACTTCGGTGCCCCTGTT
1 GCACTACGGTGCCCCTATTTGCAC-TTCGGTGCCCCTGTATACACTTCGGTGCCCCTGTT
31092815 ATGCATCTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 48 0.96
61 2 0.04
ACGTcount: A:0.10, C:0.33, G:0.22, T:0.35
Consensus pattern (60 bp):
GCACTACGGTGCCCCTATTTGCACTTCGGTGCCCCTGTATACACTTCGGTGCCCCTGTTC
Found at i:31095166 original size:50 final size:50
Alignment explanation
Indices: 31095055--31095240 Score: 202
Period size: 50 Copynumber: 3.7 Consensus size: 50
31095045 GAGCATGAGG
* * * *
31095055 TCCCATGTAAGACAATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGA--AC
* * *
31095107 TCCCA--TAAGACCATTTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
* * *
31095155 TCCCATGTAAGACCATATCTTGGATATGGCATTGGCA--GTACATGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGAGAAC
*
31095203 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31095241 TGTTATTATC
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
48 10 0.09
49 38 0.33
50 62 0.54
52 5 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
Found at i:31098128 original size:25 final size:25
Alignment explanation
Indices: 31098074--31098128 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
31098064 TTGCATGAGT
* *
31098074 TTCCCGTTATTTAGCTCACATGATC
1 TTCCCGTTATTTAGCTCACACGAGC
*
31098099 CTCCCGTTATTTAGAC-CACACGAGC
1 TTCCCGTTATTTAG-CTCACACGAGC
31098124 TTCCC
1 TTCCC
31098129 ATTTACAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.33
Consensus pattern (25 bp):
TTCCCGTTATTTAGCTCACACGAGC
Found at i:31100996 original size:14 final size:14
Alignment explanation
Indices: 31100979--31101007 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31100969 AATTTTTATT
31100979 AATGAATTATTAAA
1 AATGAATTATTAAA
31100993 AATGAATTATTAAA
1 AATGAATTATTAAA
31101007 A
1 A
31101008 TATAACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:31109847 original size:25 final size:25
Alignment explanation
Indices: 31109819--31109874 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
31109809 AAGTATTATA
*
31109819 CAGAGAACATAAATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
* * *
31109844 CAGATAGCACCAATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
31109869 CAGAGA
1 CAGAGA
31109875 GCACGCTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (25 bp):
CAGAGAACACAAATGTGCTAATAAT
Found at i:31109877 original size:25 final size:25
Alignment explanation
Indices: 31109830--31109878 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
31109820 AGAGAACATA
*
31109830 AATGTGCTAATAATCAGATAGCACC
1 AATGTGCTAATAATCAGAGAGCACC
31109855 AATGTGCTAATAATCAGAGAGCAC
1 AATGTGCTAATAATCAGAGAGCAC
31109879 GCTAAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22
Consensus pattern (25 bp):
AATGTGCTAATAATCAGAGAGCACC
Found at i:31110899 original size:50 final size:50
Alignment explanation
Indices: 31110783--31111118 Score: 286
Period size: 50 Copynumber: 6.6 Consensus size: 50
31110773 CACAATAACA
* * * * * * *
31110783 TGCCAAAGCCATGTCCCAGACATTGTCTTA-ATGGGA-TGTTTCCTGT-AC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACT-TCTCATATCAG
* * * *
31110831 TGCTAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCAG
* * ** * *
31110881 TGCCCATGCTATGTCCCAAACATGGTCTTACGGGGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCAG
** *
31110931 TGCCAACACCATGTCCCAAACATGGTCTTACATGAGACTTCTCA-ACTCAG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATA-TCAG
* * * *
31110981 TGCCAATGCCATGT-CCAAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAA-ACATGGTCTTACATGGGACTTCTCATATCAG
* * * *
31111031 TGCCAATGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATAA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCAT-A--TC---AG
* *
31111087 TGCCAATGCCATGTCCCAGACATAGTCTTACA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACA
31111119 CTGGCTCACA
Statistics
Matches: 233, Mismatches: 42, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
48 24 0.10
49 15 0.06
50 159 0.68
51 3 0.01
53 2 0.01
56 30 0.13
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCAG
Found at i:31111101 original size:56 final size:50
Alignment explanation
Indices: 31110782--31111164 Score: 254
Period size: 50 Copynumber: 7.6 Consensus size: 50
31110772 TCACAATAAC
* * * ** * * *
31110782 ATGCCAAAGCCATGTCCCAGACATTGTCTTA-ATGGGATGTTTCCTGT-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * * * * * ** *
31110830 CTGCTAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * * * ** * * *
31110880 GTGCCCATGCTATGTCCCAAACATGGTCTTACGGGGGACTTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* ** * * *
31110930 GTGCCAACACCATGTCCCAAACATGGTCTTACATGAGACTTCTCAACTCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * *
31110980 GTGCCAATGCCATGTCCAAGACATGGTCTTACATGAGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * * *
31111030 GTGCCAATGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTC---ATCTC---A
* * *
31111086 ATGCCAATGCCATGTCCCAGACATAGTCTTACACTG-G--CTCACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACA-TGAGACCTCTCATCTCA
* * * *
31111134 ATGTCGATGCCAAGTCCCAGATATGGTCTTA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTA
31111165 TACGAGATCG
Statistics
Matches: 272, Mismatches: 54, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
48 51 0.19
49 11 0.04
50 165 0.61
51 4 0.01
53 4 0.01
54 4 0.01
56 31 0.11
57 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
Found at i:31115257 original size:50 final size:49
Alignment explanation
Indices: 31115203--31115320 Score: 123
Period size: 49 Copynumber: 2.4 Consensus size: 49
31115193 GTCCCCCGTC
* * *
31115203 AGACCATGTCTGGGACATGGGATGGGCACCG-ATATGATAAC-TCCCATGTA
1 AGACCATGTCTGGGACATGGCATGGGCA--GTACAGGA-AACATCCCATGTA
* * * *
31115253 AGACCATTTCTGGGATATGGCATTGGCAGTACAGGAAACATCCTATGTA
1 AGACCATGTCTGGGACATGGCATGGGCAGTACAGGAAACATCCCATGTA
*
31115302 AGACCATGTATGGGACATG
1 AGACCATGTCTGGGACATG
31115321 CCTTTGGCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
48 4 0.07
49 28 0.50
50 24 0.43
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
AGACCATGTCTGGGACATGGCATGGGCAGTACAGGAAACATCCCATGTA
Found at i:31115557 original size:20 final size:20
Alignment explanation
Indices: 31115532--31115570 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31115522 TGAGTTATTT
31115532 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
31115552 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
31115571 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:31118971 original size:50 final size:50
Alignment explanation
Indices: 31118917--31119061 Score: 193
Period size: 50 Copynumber: 2.9 Consensus size: 50
31118907 TATTGAGATT
*
31118917 ATGAGAGGTCCCACATAAGACCATGTTTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
* * *
31118967 ATGAGAGGTCCCTCGTAAGACCATGTTTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
** * * *
31119017 ATGAGAACTCCCATGTAAGACCAT-TTATGGGATATGACATTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTT-TGGGACATGGCATTGGCA
31119062 GTACAGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
49 2 0.02
50 81 0.98
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
Found at i:31119089 original size:49 final size:49
Alignment explanation
Indices: 31119025--31119159 Score: 198
Period size: 49 Copynumber: 2.8 Consensus size: 49
31119015 ATATGAGAAC
* * * *
31119025 TCCCATGTAAGACCATTTATGGGATATGACATTGGCAGTACAGAAAACA
1 TCCCATGTAAAACCATATCTGGGATATGGCATTGGCAGTACAGAAAACA
* *
31119074 TCCCATGTAAAACCATATCTAGGATATGGCATTGGTAGTACAGAAAACA
1 TCCCATGTAAAACCATATCTGGGATATGGCATTGGCAGTACAGAAAACA
* *
31119123 TCCCATGTAAAACCATGTCTGGGATATGGCTTTGGCA
1 TCCCATGTAAAACCATATCTGGGATATGGCATTGGCA
31119160 TGTTATTATC
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (49 bp):
TCCCATGTAAAACCATATCTGGGATATGGCATTGGCAGTACAGAAAACA
Found at i:31119374 original size:20 final size:20
Alignment explanation
Indices: 31119349--31119388 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
31119339 ATGAGTTATT
31119349 CAAGTAAG-GAAGTAAGTAAA
1 CAAGTAAGAG-AGTAAGTAAA
31119369 CAAGTAAGAGAGTAAGTAAA
1 CAAGTAAGAGAGTAAGTAAA
31119389 GAATAAGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.25, T:0.15
Consensus pattern (20 bp):
CAAGTAAGAGAGTAAGTAAA
Found at i:31126731 original size:50 final size:51
Alignment explanation
Indices: 31126605--31126733 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 51
31126595 GGATGAGATT
* * * **
31126605 CCATGGAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCC
* * *
31126656 CCA--TAAGACAATGTTTGGGACATGGCATGGGCACCGATATGAGAACT-C
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCC
* *
31126704 CCATGTAAGACCATATCTGGGATATGGCAT
1 CCATGTAAGACCATGTCTGGGACATGGCAT
31126734 TGGAAATACA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
48 4 0.06
49 36 0.56
50 21 0.33
51 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (51 bp):
CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCC
Found at i:31127015 original size:20 final size:20
Alignment explanation
Indices: 31126990--31127028 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31126980 TGAGTTATTT
31126990 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
31127010 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
31127029 GAAGAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:31130015 original size:54 final size:54
Alignment explanation
Indices: 31129952--31130128 Score: 248
Period size: 54 Copynumber: 3.3 Consensus size: 54
31129942 ACATTAAAAT
* * * * * *
31129952 TTTAATCCAGCAAC-TAAGTGAACTAAGTTGAACTTAATTAACGAAGATTAGTAA
1 TTTATTCCAGCAACTTAA-TTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
31130006 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
1 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
* * *
31130060 TTTATTCCGGCAACTTAATTAACTAAGATGAACCCAATTAACTAAGATGAGTAA
1 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
*
31130114 TTTATTCCAGTAACT
1 TTTATTCCAGCAACT
31130129 AAATACTTAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
54 108 0.97
55 3 0.03
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (54 bp):
TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACCAAGATGAGTAA
Found at i:31130044 original size:19 final size:19
Alignment explanation
Indices: 31130017--31130109 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
31130007 TTATTCCAGC
*
31130017 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
*
31130036 AACTCAATTAACCAAGATG
1 AACTCAATTAACTAAGATG
* * * **
31130055 -AGT-AATTTATTCCG--G
1 AACTCAATTAACTAAGATG
*
31130070 CAACTTAATTAACTAAGATG
1 -AACTCAATTAACTAAGATG
*
31130090 AACCCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
31130109 A
1 A
31130110 GTAATTTATT
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
15 1 0.02
17 8 0.15
18 9 0.17
19 35 0.65
20 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:31135050 original size:25 final size:25
Alignment explanation
Indices: 31134937--31135044 Score: 153
Period size: 25 Copynumber: 4.3 Consensus size: 25
31134927 TTCAACTCTT
* *
31134937 ATGAGCTTCCCAATACTCAGCTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
*
31134962 ATGAGCTTCCCATTATTCAGGTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
* *
31134987 ATGAGCTTTCCATTATTCAGCTGAC
1 ATGAGCTTCCCATTATTCAGCTCAC
* *
31135012 ATGAGCTTCCCGTTATTCAACTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
31135037 ATGAGCTT
1 ATGAGCTT
31135045 TTCGTTTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCATTATTCAGCTCAC
Found at i:31143632 original size:41 final size:41
Alignment explanation
Indices: 31143575--31143655 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
31143565 TTAGTTTAAA
31143575 ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTTT
1 ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTTT
31143616 ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTT
1 ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTT
31143656 CTTCACCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.48
Consensus pattern (41 bp):
ATCTTAGTTTTTAATCACCCTCTTTAAACAAAATATTTTTT
Found at i:31151559 original size:17 final size:18
Alignment explanation
Indices: 31151537--31151574 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
31151527 TTTGGGCCAA
*
31151537 GTGGG-CCACACGGGTGT
1 GTGGGCCCACACGGGCGT
*
31151554 GTGGGCCCACATGGGCGT
1 GTGGGCCCACACGGGCGT
31151572 GTG
1 GTG
31151575 AGCTTTCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (18 bp):
GTGGGCCCACACGGGCGT
Found at i:31159984 original size:22 final size:21
Alignment explanation
Indices: 31159937--31159984 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
31159927 AATAATATAG
*
31159937 TTTTAATAAATGCAGAAAAATC
1 TTTTAATAAATGAAGAAAAA-C
31159959 TTTTAATAAATGGAAAGAAAAA-
1 TTTTAATAAAT-G-AAGAAAAAC
31159981 TTTT
1 TTTT
31159985 GAACTGCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 15 0.65
23 1 0.04
24 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.35
Consensus pattern (21 bp):
TTTTAATAAATGAAGAAAAAC
Found at i:31166517 original size:40 final size:40
Alignment explanation
Indices: 31166465--31166818 Score: 582
Period size: 40 Copynumber: 8.8 Consensus size: 40
31166455 ATAACCACAA
* * * *
31166465 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
31166505 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
31166545 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31166585 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
31166627 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31166667 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
31166709 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
31166749 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31166789 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
31166819 GTATTCAAAT
Statistics
Matches: 297, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
40 218 0.73
42 79 0.27
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:31166656 original size:122 final size:122
Alignment explanation
Indices: 31166465--31166818 Score: 615
Period size: 122 Copynumber: 2.9 Consensus size: 122
31166455 ATAACCACAA
* * * *
31166465 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAG-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
*
31166529 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATA-TCAACTC
66 CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTC
31166585 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA-GTCAACTCGCACAAATGCCTTCGGGTCTTAG
31166650 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
65 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATA-GTCAACTC
*
31166709 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA-TCAACTTGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
31166773 CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
66 CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
31166819 GTATTCAAAT
Statistics
Matches: 224, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
120 30 0.13
121 1 0.00
122 153 0.68
124 40 0.18
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (122 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTC
Found at i:31166660 original size:82 final size:80
Alignment explanation
Indices: 31166465--31166818 Score: 582
Period size: 82 Copynumber: 4.4 Consensus size: 80
31166455 ATAACCACAA
* * * * *
31166465 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
31166530 CGGATATATCAACTT
66 CGGATATATCAACTC
*
31166545 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
31166610 CGGATATATGTCAACTC
66 CGGATATA--TCAACTC
*
31166627 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
31166692 CGGATATATGTCAACTC
66 CGGATATA--TCAACTC
*
31166709 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
31166774 CGGATATATCAACTT
66 CGGATATATCAACTC
31166789 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
31166819 GTATTCAAAT
Statistics
Matches: 264, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
80 105 0.40
82 159 0.60
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTC
Found at i:31175095 original size:40 final size:40
Alignment explanation
Indices: 31175043--31175396 Score: 582
Period size: 40 Copynumber: 8.8 Consensus size: 40
31175033 ATAACCACAA
* * * *
31175043 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
31175083 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
31175123 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31175163 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
31175205 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31175245 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
31175287 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
31175327 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31175367 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
31175397 GTATTCAAAT
Statistics
Matches: 297, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
40 218 0.73
42 79 0.27
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:31175234 original size:122 final size:122
Alignment explanation
Indices: 31175043--31175396 Score: 615
Period size: 122 Copynumber: 2.9 Consensus size: 122
31175033 ATAACCACAA
* * * *
31175043 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAG-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
*
31175107 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATA-TCAACTC
66 CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTC
31175163 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA-GTCAACTCGCACAAATGCCTTCGGGTCTTAG
31175228 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
65 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATA-GTCAACTC
*
31175287 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA-TCAACTTGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
31175351 CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
66 CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
31175397 GTATTCAAAT
Statistics
Matches: 224, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
120 30 0.13
121 1 0.00
122 153 0.68
124 40 0.18
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (122 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTC
Found at i:31175238 original size:82 final size:80
Alignment explanation
Indices: 31175043--31175396 Score: 582
Period size: 82 Copynumber: 4.4 Consensus size: 80
31175033 ATAACCACAA
* * * * *
31175043 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
31175108 CGGATATATCAACTT
66 CGGATATATCAACTC
*
31175123 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
31175188 CGGATATATGTCAACTC
66 CGGATATA--TCAACTC
*
31175205 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
31175270 CGGATATATGTCAACTC
66 CGGATATA--TCAACTC
*
31175287 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
31175352 CGGATATATCAACTT
66 CGGATATATCAACTC
31175367 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
31175397 GTATTCAAAT
Statistics
Matches: 264, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
80 105 0.40
82 159 0.60
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTC
Found at i:31177901 original size:23 final size:23
Alignment explanation
Indices: 31177871--31177945 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
31177861 TCAGGCAAGT
*
31177871 TATTCTGTGGACCCTTTGTGCCA
1 TATTCTGTGGAGCCTTTGTGCCA
*
31177894 TATTCTGTGGAGCCTTTGTGTCA
1 TATTCTGTGGAGCCTTTGTGCCA
* *
31177917 TATACTGTGGAGCCTTTGTGGCA
1 TATTCTGTGGAGCCTTTGTGCCA
31177940 TATTCT
1 TATTCT
31177946 ATAATGCCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (23 bp):
TATTCTGTGGAGCCTTTGTGCCA
Found at i:31184797 original size:20 final size:20
Alignment explanation
Indices: 31184772--31184849 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
31184762 TTGTACGGGA
*
31184772 TTGCACTTCGGTGCCTCTAT
1 TTGCACTTCAGTGCCTCTAT
* * *
31184792 TTGCACTTTAATGCCTCTAA
1 TTGCACTTCAGTGCCTCTAT
*
31184812 TTGCACATT-TGTGCCTCT-T
1 TTGCAC-TTCAGTGCCTCTAT
31184831 TCTGCACTTCAGTGCCTCT
1 T-TGCACTTCAGTGCCTCT
31184850 GTTACACATT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.06
20 42 0.89
21 2 0.04
ACGTcount: A:0.14, C:0.29, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTAT
Found at i:31191970 original size:24 final size:24
Alignment explanation
Indices: 31191942--31192040 Score: 135
Period size: 24 Copynumber: 4.1 Consensus size: 24
31191932 AGGCATCCTC
* * *
31191942 GAATACGCCACGAAGGCACTTGCA
1 GAATATGCCACAAAGGCACTTACA
31191966 GAATATGCCACAAAGGCACTTACA
1 GAATATGCCACAAAGGCACTTACA
* ** *
31191990 AAATATGCCACAAACACACTTATA
1 GAATATGCCACAAAGGCACTTACA
31192014 GAATATGCCACAAAGGCACTTACA
1 GAATATGCCACAAAGGCACTTACA
31192038 GAA
1 GAA
31192041 CACGTGTTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.16
Consensus pattern (24 bp):
GAATATGCCACAAAGGCACTTACA
Found at i:31194943 original size:34 final size:33
Alignment explanation
Indices: 31194873--31194936 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
31194863 AATAACTGTT
* **
31194873 CAGT-TCAGTTGGGCCTTAGCCTATTTTAGTAC
1 CAGTATCAGTTGGGCCTTAGCCCATTACAGTAC
31194905 CAGTATCAGTGTGGGCCTTAGCCCATTACAGT
1 CAGTATCAGT-TGGGCCTTAGCCCATTACAGT
31194937 GGCAGTAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 4 0.15
33 5 0.19
34 18 0.67
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (33 bp):
CAGTATCAGTTGGGCCTTAGCCCATTACAGTAC
Found at i:31195015 original size:22 final size:23
Alignment explanation
Indices: 31194974--31195016 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
31194964 AAAATCCTAC
*
31194974 CCATCCAGCCTCTACACTCCACT
1 CCATCCAGCCTCAACACTCCACT
31194997 CCATCCAGCCT-AACACTCCA
1 CCATCCAGCCTCAACACTCCA
31195017 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.19
Consensus pattern (23 bp):
CCATCCAGCCTCAACACTCCACT
Found at i:31195253 original size:27 final size:27
Alignment explanation
Indices: 31195222--31195396 Score: 190
Period size: 27 Copynumber: 6.5 Consensus size: 27
31195212 AAGCATACAT
* **
31195222 TCATTTTATAATATAGACGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
* **
31195249 TCATTTTACAACATAGGGGCATAACCG
1 TCATTTTATAACATAGGGGCATAATAG
*
31195276 TCATTTTATAATATAGGGGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
* * *
31195303 TCATTTTACAACATAGGGGTATAACCA-
1 TCATTTTATAACATAGGGGCATAA-TAG
31195330 TCATTTTATAACATAGGGGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
** * * *
31195357 TCATTTTACCACGTAAGGGCATAACAG
1 TCATTTTATAACATAGGGGCATAATAG
*
31195384 TTATTTTATAACA
1 TCATTTTATAACA
31195397 ATTTGGGGGT
Statistics
Matches: 120, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 118 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
TCATTTTATAACATAGGGGCATAATAG
Found at i:31195286 original size:54 final size:54
Alignment explanation
Indices: 31195222--31195394 Score: 256
Period size: 54 Copynumber: 3.2 Consensus size: 54
31195212 AAGCATACAT
**
31195222 TCATTTTATAATATAGACGCATAATAGTCATTTTACAACATAGGGGCATAACCG
1 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
* *
31195276 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGTATAACCA
1 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
* * * * *
31195330 TCATTTTATAACATAGGGGCATAATAGTCATTTTACCACGTAAGGGCATAACAG
1 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
*
31195384 TTATTTTATAA
1 TCATTTTATAA
31195395 CAATTTGGGG
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (54 bp):
TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
Found at i:31195514 original size:20 final size:21
Alignment explanation
Indices: 31195489--31195562 Score: 60
Period size: 23 Copynumber: 3.4 Consensus size: 21
31195479 TAGTATAGTT
31195489 GGGCCCA-AGGCCCATAATAC
1 GGGCCCATAGGCCCATAATAC
* *
31195509 GGGCCCATGTGGGCCTATAATAC
1 GGGCCCA--TAGGCCCATAATAC
* *
31195532 GGGCCCATGTGGGCCCATAATGC
1 GGGCCCA--TAGGCCCATAATAC
*
31195555 GAGCCCAT
1 GGGCCCAT
31195563 GTGAGCCCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.15
21 1 0.02
23 38 0.83
ACGTcount: A:0.23, C:0.31, G:0.30, T:0.16
Consensus pattern (21 bp):
GGGCCCATAGGCCCATAATAC
Found at i:31195528 original size:23 final size:23
Alignment explanation
Indices: 31195497--31195571 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
31195487 TTGGGCCCAA
31195497 GGCCCATAATACGGGCCCATGTG
1 GGCCCATAATACGGGCCCATGTG
*
31195520 GGCCTATAATACGGGCCCATGTG
1 GGCCCATAATACGGGCCCATGTG
* *
31195543 GGCCCATAATGCGAGCCCATGTG
1 GGCCCATAATACGGGCCCATGTG
*
31195566 AGCCCA
1 GGCCCA
31195572 CATAGCCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (23 bp):
GGCCCATAATACGGGCCCATGTG
Found at i:31196502 original size:26 final size:26
Alignment explanation
Indices: 31196450--31196502 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
31196440 CACCAATATC
* * *
31196450 GCAGCATAGCTGCCAGTAGTAATAAT
1 GCAGCAGAGCTGCAAGTAGTAAGAAT
* *
31196476 GCAGCAGAGCTGCAAGTGGTCAGAAT
1 GCAGCAGAGCTGCAAGTAGTAAGAAT
31196502 G
1 G
31196503 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (26 bp):
GCAGCAGAGCTGCAAGTAGTAAGAAT
Found at i:31197034 original size:27 final size:27
Alignment explanation
Indices: 31196994--31197358 Score: 353
Period size: 27 Copynumber: 13.6 Consensus size: 27
31196984 CCACCAGGGC
*
31196994 ATTACGGTCATTTTACCCTACAGGGTT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
31197021 ACTACGGTCATTTTACCCTGCAGAGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
31197048 ATTACGGTCATTTTACCCTAAAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
31197075 A-TATGGTAATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
31197101 ATTACAGTCATTTTTCCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
31197128 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * **
31197155 ATTACGATCATTTTACCCTATAGCGCCT
1 ATTACGGTCATTTTACCCTACAG-GGGT
* *
31197183 -TTACGGTCATTTTATCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* **
31197209 ATTACAGTCATTTTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
31197236 ATTTCGAT-ATTCTACCCTAC-GGGGTT
1 ATTACGGTCATTTTACCCTACAGGGG-T
* ** *
31197262 ATTTCGGTCATTTTACCCTATGGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
31197289 ATTTCAGTCATTTTACCC-ATCAAGGGT
1 ATTACGGTCATTTTACCCTA-CAGGGGT
** * *
31197316 ATTTTGGTCATTTTACCCTTCAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
31197343 ATTTCGGTCATTTTAC
1 ATTACGGTCATTTTAC
31197359 ACATCGAGGG
Statistics
Matches: 280, Mismatches: 50, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
25 4 0.01
26 44 0.16
27 226 0.81
28 6 0.02
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:31197140 original size:134 final size:133
Alignment explanation
Indices: 31196990--31197281 Score: 340
Period size: 134 Copynumber: 2.2 Consensus size: 133
31196980 TTACCCACCA
* * *
31196990 GGGCATTACGGTCATTTTACCCTAC-AGGGTTACTACGGTCATTTTACCCTGCAGAG-GTATTAC
1 GGGCATTACGGTCATTTTACCCTACAAGGG-TACTACGATCATTTTACCCTACAGAGCCT-TTAC
** * *
31197053 GGTCATTTTACCCTAAAGGGGTA-TATGGTAATTTTACCCTACAGGGGTATTAC-AGTCATTTTT
64 GGTCATTTTACCCTAAAGGGGTATTACAGTAATTTTACCCTACAGGGGTATTACGA-T-ATTCTA
31197116 CCCTACAG
127 CCCTAC-G
* * *
31197124 GGGCATTACGGTCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTATAGCGCCTTTACGG
1 GGGCATTACGGTCATTTTACCCTACAAGGGTACTACGATCATTTTACCCTACAGAGCCTTTACGG
* * * ** *
31197189 TCATTTTATCCTATAGGGGTATTACAGTCATTTTACCCTATGGGGGTATTTCGATATTCTACCCT
66 TCATTTTACCCTAAAGGGGTATTACAGTAATTTTACCCTACAGGGGTATTACGATATTCTACCCT
31197254 ACG
131 ACG
* *
31197257 GGGTTATTTCGGTCATTTTACCCTA
1 GGG-CATTACGGTCATTTTACCCTA
31197282 TGGGGGCATT
Statistics
Matches: 135, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
133 4 0.03
134 100 0.74
135 30 0.22
136 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (133 bp):
GGGCATTACGGTCATTTTACCCTACAAGGGTACTACGATCATTTTACCCTACAGAGCCTTTACGG
TCATTTTACCCTAAAGGGGTATTACAGTAATTTTACCCTACAGGGGTATTACGATATTCTACCCT
ACG
Found at i:31197274 original size:161 final size:159
Alignment explanation
Indices: 31196974--31197334 Score: 415
Period size: 161 Copynumber: 2.3 Consensus size: 159
31196964 GGGCAAAAAT
* * *
31196974 AGTCA-TTTACCCACCAGGGCATTACGGTCATTTTACCCTACAGGGTTACTACGGTCATTTTACC
1 AGTCATTTTACCCACAAGGGTATTACGGTCATTTTACCCTACAGGCTTA-TACGGTCATTTTACC
* * * *
31197038 CTGCAGAGGTATTACGGTCATTTTACCCTAAAGGGGTATATGGTAATTTTACCCTACAGGGGTAT
65 CTACAGAGGTATTACAGTCATTTTACCCTAAAGGGGTATATGATAATTCTACCCTACAGGGGTAT
*
31197103 TACAGTCATTTTTCCCTACAGGGGCATTAC
130 TACAGTCATTTTACCCTACAGGGGCATTAC
* * *
31197133 GGTCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTATAGCGCCTT-TACGGTCATTTTA
1 AGTCATTTTACCC-ACAAGGGTATTACGGTCATTTTACCCTACAG-G-CTTATACGGTCATTTTA
* * * ** *
31197197 TCCTATAGGGGTATTACAGTCATTTTACCCTATGGGGGTATTTCGAT-ATTCTACCCTAC-GGGG
63 CCCTACAGAGGTATTACAGTCATTTTACCCTAAAGGGGTATAT-GATAATTCTACCCTACAGGGG
* * ** *
31197260 TTATTTCGGTCATTTTACCCTATGGGGGCATTTC
127 -TATTACAGTCATTTTACCCTACAGGGGCATTAC
**
31197294 AGTCATTTTACCCATCAAGGGTATTTTGGTCATTTTACCCT
1 AGTCATTTTACCCA-CAAGGGTATTACGGTCATTTTACCCT
31197335 TCAAGGGTAT
Statistics
Matches: 169, Mismatches: 26, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
159 4 0.02
160 12 0.07
161 148 0.88
162 3 0.02
163 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (159 bp):
AGTCATTTTACCCACAAGGGTATTACGGTCATTTTACCCTACAGGCTTATACGGTCATTTTACCC
TACAGAGGTATTACAGTCATTTTACCCTAAAGGGGTATATGATAATTCTACCCTACAGGGGTATT
ACAGTCATTTTACCCTACAGGGGCATTAC
Found at i:31205165 original size:28 final size:28
Alignment explanation
Indices: 31205133--31205195 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
31205123 ACAGTAACAT
* *
31205133 ACAGTGTAGGCCTTAGCCCAATACAGAA
1 ACAGTATAGGCCTAAGCCCAATACAGAA
* * *
31205161 ACAGTATGGGCCTAAGCCCGATACAGTA
1 ACAGTATAGGCCTAAGCCCAATACAGAA
*
31205189 TCAGTAT
1 ACAGTAT
31205196 GGTGCAAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (28 bp):
ACAGTATAGGCCTAAGCCCAATACAGAA
Found at i:31205196 original size:28 final size:28
Alignment explanation
Indices: 31205141--31205197 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
31205131 ATACAGTGTA
*
31205141 GGCCTTAGCCCAATACAGAAACAGTATG
1 GGCCTAAGCCCAATACAGAAACAGTATG
* * *
31205169 GGCCTAAGCCCGATACAGTATCAGTATG
1 GGCCTAAGCCCAATACAGAAACAGTATG
31205197 G
1 G
31205198 TGCAAGTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (28 bp):
GGCCTAAGCCCAATACAGAAACAGTATG
Found at i:31205402 original size:22 final size:22
Alignment explanation
Indices: 31205350--31205412 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
31205340 CTAGTAGTGA
31205350 GAATGGCTAAGAGCCATAAACAG
1 GAATGGCTAA-AGCCATAAACAG
* *
31205373 G-ATAGCTATAAGCTATAAAC-G
1 GAATGGCTA-AAGCCATAAACAG
31205394 GAATGGCTACAAGCCATAA
1 GAATGGCTA-AAGCCATAA
31205413 GTACAGTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (22 bp):
GAATGGCTAAAGCCATAAACAG
Found at i:31205474 original size:32 final size:31
Alignment explanation
Indices: 31205404--31205669 Score: 151
Period size: 32 Copynumber: 8.4 Consensus size: 31
31205394 GAATGGCTAC
* * *
31205404 AAGCCATAAGTACAGTAATGTGATTGGCACA
1 AAGCCATCAGTACAGTAATATGATCGGCACA
*
31205435 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTA-CAGTAATATGATCGGCACA
* * * * * * *
31205467 CATCCATCAGTAACGGTAACATGATTGGTACG
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
* * **
31205499 AAGCCATCAGTGACGGTGATATGATCAACACA
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
* * *
31205531 CAGCCATCAGTAACAGTAA-ATGATTGGCATA
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
* * *
31205562 CAA-CCA-CTGGTAATAGTAATATGATCGGTACA
1 -AAGCCATC-AGT-ACAGTAATATGATCGGCACA
* * * *** *
31205594 AAGCCATCAGTAACGGTACTATAATTAACATA
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
* **
31205626 AAGCCATCAGTAACAGTACTATGATCAACACA
1 AAGCCATCAGT-ACAGTAATATGATCGGCACA
31205658 AAGCCATCAGTA
1 AAGCCATCAGTA
31205670 GCATCGTGGC
Statistics
Matches: 178, Mismatches: 50, Indels: 14
0.74 0.21 0.06
Matches are distributed among these distances:
30 1 0.01
31 34 0.19
32 141 0.79
33 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (31 bp):
AAGCCATCAGTACAGTAATATGATCGGCACA
Found at i:31205531 original size:64 final size:63
Alignment explanation
Indices: 31205405--31205669 Score: 198
Period size: 64 Copynumber: 4.2 Consensus size: 63
31205395 AATGGCTACA
* * **
31205405 AGCCATAAGT-ACAGTAATGTGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
1 AGCCATCAGTAACAGTAA-ATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCAACACAC
* * * * *
31205468 ATCCATCAGTAACGGTAACATGATTGGTACGAAGCCATCAGT-GACGGTGATATGATCAACACAC
1 AGCCATCAGTAACAGTAA-ATGATTGGCACAAAGCCATCAGTAG-CAGTGATATGATCAACACAC
* * ** * *** *
31205532 AGCCATCAGTAACAGTAAATGATTGGCATACAA-CCA-CTGGTAATAGTAATATGATCGGTACAA
1 AGCCATCAGTAACAGTAAATGATTGGCACA-AAGCCATC-AGTAGCAGTGATATGATCAACACAC
* * * ** * * *
31205595 AGCCATCAGTAACGGTACTATAATTAACATAAAGCCATCAGTAACAGT-ACTATGATCAACACAA
1 AGCCATCAGTAACAGTA-AATGATTGGCACAAAGCCATCAGTAGCAGTGA-TATGATCAACACAC
31205659 AGCCATCAGTA
1 AGCCATCAGTA
31205670 GCATCGTGGC
Statistics
Matches: 159, Mismatches: 34, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
62 1 0.01
63 55 0.35
64 102 0.64
65 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (63 bp):
AGCCATCAGTAACAGTAAATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCAACACAC
Done.