Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 57 of 65
Found at i:11318411 original size:18 final size:18
Alignment explanation
Indices: 11318379--11318424 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11318369 CCCGATCAAC
* *
11318379 GGTCAAC-GTTCGGGTCG
1 GGTCAACGGGTCGGGTCA
11318396 GGTCAACGGGTCGGGTCA
1 GGTCAACGGGTCGGGTCA
*
11318414 GATCAACGGGT
1 GGTCAACGGGT
11318425 TAACGGGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.17, C:0.22, G:0.41, T:0.20
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCA
Found at i:11323604 original size:29 final size:29
Alignment explanation
Indices: 11323583--11323729 Score: 167
Period size: 31 Copynumber: 5.1 Consensus size: 29
11323573 ATTACTAAAC
11323583 TAGCACCTTTTCGAATTAAATTCCCAAAA
1 TAGCACCTTTTCGAATTAAATTCCCAAAA
**
11323612 TAGCA--TTTTTTAATTAAATTCCCAAAA
1 TAGCACCTTTTCGAATTAAATTCCCAAAA
* *
11323639 TAGCACCTTTTTTCTAAATAAATTCCCAAAA
1 TAGCACC--TTTTCGAATTAAATTCCCAAAA
*
11323670 TAGCACCCTTTTTTGAATT-AATTCCCAAAA
1 TAGCA-CC-TTTTCGAATTAAATTCCCAAAA
* *
11323700 TAGCATCATTTCGAATT-AATTCCCAAAA
1 TAGCACCTTTTCGAATTAAATTCCCAAAA
11323728 TA
1 TA
11323730 TCGCCCGGTC
Statistics
Matches: 103, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
27 25 0.24
28 21 0.20
29 6 0.06
30 16 0.16
31 33 0.32
32 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.35
Consensus pattern (29 bp):
TAGCACCTTTTCGAATTAAATTCCCAAAA
Found at i:11323664 original size:31 final size:29
Alignment explanation
Indices: 11323551--11323704 Score: 161
Period size: 29 Copynumber: 5.3 Consensus size: 29
11323541 CATTTTACAG
* * *
11323551 AAATAGCACCCTTTTTAAA-ATAATTACTA
1 AAATAGCACCTTTTTTAAATA-AATTCCCA
* ** *
11323580 AACTAGCACCTTTTCGAATTAAATTCCCA
1 AAATAGCACCTTTTTTAAATAAATTCCCA
*
11323609 AAATAGCA--TTTTTTAATTAAATTCCCA
1 AAATAGCACCTTTTTTAAATAAATTCCCA
11323636 AAATAGCACCTTTTTTCTAAATAAATTCCCA
1 AAATAGCACC-TTTTT-TAAATAAATTCCCA
* *
11323667 AAATAGCACCCTTTTTTGAATTAATTCCCA
1 AAATAGCA-CCTTTTTTAAATAAATTCCCA
11323697 AAATAGCA
1 AAATAGCA
11323705 TCATTTCGAA
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
27 25 0.24
29 27 0.25
30 26 0.25
31 26 0.25
32 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (29 bp):
AAATAGCACCTTTTTTAAATAAATTCCCA
Found at i:11323721 original size:58 final size:57
Alignment explanation
Indices: 11323551--11323729 Score: 193
Period size: 58 Copynumber: 3.1 Consensus size: 57
11323541 CATTTTACAG
* * * * * *
11323551 AAATAGCACCCTTTTTAAAATAATTACTAAACTAGCACCTTTTCGAATTAAATTCCCA
1 AAATAGCACCCTTTTTTAATTAATTCCCAAAATAGCATCTTTTCGAATT-AATTCCCA
* * *
11323609 AAATAGCA---TTTTTTAATTAAATTCCCAAAATAGCACCTTTTTTCTAAATAAATTCCCA
1 AAATAGCACCCTTTTTTAATT-AATTCCCAAAATAGCA--TCTTTTC-GAATTAATTCCCA
*
11323667 AAATAGCACCCTTTTTTGAATTAATTCCCAAAATAGCATCATTTCGAATTAATTCCCA
1 AAATAGCACCCTTTTTT-AATTAATTCCCAAAATAGCATCTTTTCGAATTAATTCCCA
11323725 AAATA
1 AAATA
11323730 TCGCCCGGTC
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
55 8 0.08
56 13 0.13
58 45 0.45
59 8 0.08
61 22 0.22
62 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (57 bp):
AAATAGCACCCTTTTTTAATTAATTCCCAAAATAGCATCTTTTCGAATTAATTCCCA
Found at i:11325354 original size:14 final size:15
Alignment explanation
Indices: 11325327--11325356 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11325317 TTGAATTTCC
11325327 TTAATTTGTGTATCA
1 TTAATTTGTGTATCA
11325342 TTAATTT-TGTATCA
1 TTAATTTGTGTATCA
11325356 T
1 T
11325357 CAGACACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (15 bp):
TTAATTTGTGTATCA
Found at i:11327489 original size:2 final size:2
Alignment explanation
Indices: 11327482--11327519 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11327472 AAACAAAATC
11327482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11327520 TGTCAATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11328477 original size:3 final size:3
Alignment explanation
Indices: 11328469--11328536 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
11328459 TCTCCAAATT
*
11328469 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11328517 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
11328537 GAATATCAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11331483 original size:37 final size:37
Alignment explanation
Indices: 11331426--11331530 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
11331416 CATTTTCGTC
*
11331426 CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
11331463 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
11331500 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
11331531 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:11331906 original size:14 final size:13
Alignment explanation
Indices: 11331887--11331925 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
11331877 TATATAGATA
11331887 TTTTATTCATTTAT
1 TTTTATT-ATTTAT
11331901 TTTTATTATTTAT
1 TTTTATTATTTAT
11331914 GTTATTATTATT
1 -TT-TTATTATT
11331926 ATATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:11331924 original size:18 final size:17
Alignment explanation
Indices: 11331885--11331927 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
11331875 ATTATATAGA
11331885 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
* *
11331901 TTTTATTATTTATGTTAT
1 TATTATTATTCAT-TTAT
11331919 TATTATTAT
1 TATTATTAT
11331928 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:11331938 original size:2 final size:2
Alignment explanation
Indices: 11331925--11331957 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11331915 TTATTATTAT
*
11331925 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11331958 TTCTTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11332347 original size:2 final size:2
Alignment explanation
Indices: 11332340--11332376 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11332330 TACTTTGATG
11332340 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11332377 TTTCCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11332453 original size:9 final size:9
Alignment explanation
Indices: 11332428--11332465 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
11332418 TATTTTTTCC
*
11332428 TTTATCTTA
1 TTTATTTTA
11332437 TTTA-TTTA
1 TTTATTTTA
11332445 TTTATTTTA
1 TTTATTTTA
11332454 TTTATTTTA
1 TTTATTTTA
11332463 TTT
1 TTT
11332466 TTCCCTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11332453 original size:13 final size:13
Alignment explanation
Indices: 11332428--11332493 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
11332418 TATTTTTTCC
*
11332428 TTTATCTTATTTA
1 TTTATTTTATTTA
11332441 TTTA-TTTATTTTA
1 TTTATTTTA-TTTA
11332454 TTTATTTTATTT-
1 TTTATTTTATTTA
**
11332466 TTCCCTTTTACTTTA
1 TT-TATTTTA-TTTA
*
11332481 TTTGTTTTATTTA
1 TTTATTTTATTTA
11332494 CCTTGTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
12 5 0.12
13 24 0.56
14 12 0.28
15 2 0.05
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:11334992 original size:8 final size:8
Alignment explanation
Indices: 11334979--11335017 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
11334969 GAACATTTCA
*
11334979 TGCATTCT
1 TGCATTTT
11334987 TGCA-TTT
1 TGCATTTT
11334994 TGCATTTT
1 TGCATTTT
*
11335002 TGCCTTTT
1 TGCATTTT
11335010 TGCATTTT
1 TGCATTTT
11335018 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:11336138 original size:7 final size:7
Alignment explanation
Indices: 11336126--11336206 Score: 63
Period size: 7 Copynumber: 10.3 Consensus size: 7
11336116 TCCAATCAAG
11336126 AAGAAAA
1 AAGAAAA
11336133 AAGAAAA
1 AAGAAAA
11336140 GAAGCAAAA
1 -AAG-AAAA
*
11336149 AAAAAACA
1 AAGAAA-A
11336157 AAGAAAAACA
1 AAG--AAA-A
11336167 AAGAAAA
1 AAGAAAA
11336174 AAGAGAAA
1 AAGA-AAA
11336182 CAAGAACAA
1 -AAGAA-AA
*
11336191 AGGAAAA
1 AAGAAAA
11336198 AAGAAAA
1 AAGAAAA
11336205 AA
1 AA
11336207 AACAAGAATC
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
7 25 0.40
8 19 0.31
9 10 0.16
10 8 0.13
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:11336163 original size:10 final size:10
Alignment explanation
Indices: 11336150--11336174 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11336140 GAAGCAAAAA
11336150 AAAAACAAAG
1 AAAAACAAAG
11336160 AAAAACAAAG
1 AAAAACAAAG
11336170 AAAAA
1 AAAAA
11336175 AGAGAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAACAAAG
Found at i:11336180 original size:19 final size:22
Alignment explanation
Indices: 11336126--11336201 Score: 61
Period size: 24 Copynumber: 3.5 Consensus size: 22
11336116 TCCAATCAAG
11336126 AAGAAAAAAGA-AAAGAAGCAA
1 AAGAAAAAAGAGAAAGAAGCAA
* *
11336147 AAAAAAAACAAAGAAA-AA-C-A
1 AAGAAAAA-AGAGAAAGAAGCAA
*
11336167 AAGAAAAAAGAGAAACAAGAACAA
1 AAGAAAAAAGAGAAAGAAG--CAA
*
11336191 AGGAAAAAAGA
1 AAGAAAAAAGA
11336202 AAAAAAACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
19 6 0.14
20 10 0.23
21 8 0.19
22 4 0.09
23 4 0.09
24 11 0.26
ACGTcount: A:0.78, C:0.07, G:0.16, T:0.00
Consensus pattern (22 bp):
AAGAAAAAAGAGAAAGAAGCAA
Found at i:11336207 original size:33 final size:32
Alignment explanation
Indices: 11336126--11336208 Score: 82
Period size: 33 Copynumber: 2.6 Consensus size: 32
11336116 TCCAATCAAG
*
11336126 AAGAAAAAAG-AAAAGAAGCAAAAAAAAAACA
1 AAGAAAAAAGAAAAAAAAGCAAAAAAAAAACA
* *
11336157 AAGAAAAACA-AAGAAAAAAG-AGAAACAAGAACA
1 AAGAAAAA-AGAA-AAAAAAGCA-AAAAAAAAACA
11336190 AAGGAAAAAAGAAAAAAAA
1 AA-GAAAAAAGAAAAAAAA
11336209 CAAGAATCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
31 8 0.19
32 3 0.07
33 24 0.56
34 8 0.19
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (32 bp):
AAGAAAAAAGAAAAAAAAGCAAAAAAAAAACA
Found at i:11336235 original size:44 final size:45
Alignment explanation
Indices: 11336126--11336211 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 45
11336116 TCCAATCAAG
* *
11336126 AAGAAAAAAGA-AAAGAAG--CAAA-AAAAAAACAAAGAAAAACA
1 AAGAAAAAAGAGAAACAAGAACAAAGGAAAAAACAAAGAAAAACA
*
11336167 AAGAAAAAAGAGAAACAAGAACAAAGGAAAAAAGAAA-AAAAACA
1 AAGAAAAAAGAGAAACAAGAACAAAGGAAAAAACAAAGAAAAACA
11336211 A
1 A
11336212 GAATCAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
41 11 0.29
42 6 0.16
44 12 0.32
45 9 0.24
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (45 bp):
AAGAAAAAAGAGAAACAAGAACAAAGGAAAAAACAAAGAAAAACA
Found at i:11336885 original size:22 final size:22
Alignment explanation
Indices: 11336857--11336911 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
11336847 GCTGTCCCAT
11336857 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
11336879 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
11336901 CAAACCTTTGA
1 CAAACCTTTGA
11336912 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:11337350 original size:18 final size:18
Alignment explanation
Indices: 11337327--11337362 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11337317 TCAACATCAA
* *
11337327 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
11337345 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
11337363 GGATTTAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:11337904 original size:36 final size:36
Alignment explanation
Indices: 11337857--11338119 Score: 272
Period size: 36 Copynumber: 7.4 Consensus size: 36
11337847 ATTGAAAACA
* *
11337857 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
11337893 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* * *
11337930 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
11337966 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* * *
11337995 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
11338031 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
11338068 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
11338104 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
11338120 ATCTTTGAAT
Statistics
Matches: 188, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.10
30 2 0.01
35 1 0.01
36 99 0.53
37 65 0.35
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:11338005 original size:102 final size:102
Alignment explanation
Indices: 11337899--11338083 Score: 300
Period size: 102 Copynumber: 1.8 Consensus size: 102
11337889 ATAGTTTCCC
* *
11337899 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTT-GAAATAAATTTTGTCTCTCTTGAGA
1 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGA
11337963 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
65 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
* * *
11338001 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGAC
*
11338066 AGTTTCTCTTGAAACAAA
66 AGTTTCCCTTGAAACAAA
11338084 TTTCGTCTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
101 28 0.37
102 48 0.63
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (102 bp):
TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGGAAATAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
Found at i:11338057 original size:138 final size:138
Alignment explanation
Indices: 11337791--11338182 Score: 509
Period size: 138 Copynumber: 2.8 Consensus size: 138
11337781 ACTCATGATT
* * * * *
11337791 GTTTTTCTTAAAACAAGA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAA
1 GTTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATATTTGAAT
* * * *
11337854 ACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTC
64 ATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTC
11337919 TCTTGAGACA
129 TCTTGAGACA
*
11337929 GTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * ** * * *
11337994 GTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
11338059 TTGAGACA
131 TTGAGACA
* * * *
11338067 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * * *
11338132 ATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACA
11338183 CAAAATCTTC
Statistics
Matches: 219, Mismatches: 33, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
137 5 0.02
138 214 0.98
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (138 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
TTGAGACA
Found at i:11338181 original size:65 final size:65
Alignment explanation
Indices: 11338077--11338251 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 65
11338067 GTTTCTCTTG
* ** * **
11338077 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
11338142 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
11338207 TA
64 TA
* * *
11338209 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
11338252 CATATATCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
65 31 0.33
66 6 0.06
67 31 0.33
68 27 0.28
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:11339017 original size:105 final size:105
Alignment explanation
Indices: 11338855--11339409 Score: 877
Period size: 105 Copynumber: 5.3 Consensus size: 105
11338845 GCCATCCGCG
* * * *
11338855 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
11338920 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
11338963 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
11339028 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
11339068 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
11339133 ACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
11339173 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
11339238 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
11339278 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
11339343 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * *
11339378 ATTTCAACTTCACGATGGAGGATATTAGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
11339410 TGAACAATGC
Statistics
Matches: 424, Mismatches: 23, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
100 35 0.08
101 1 0.00
102 1 0.00
103 2 0.00
104 2 0.00
105 358 0.84
106 3 0.01
108 22 0.05
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:11339733 original size:85 final size:83
Alignment explanation
Indices: 11339569--11339746 Score: 241
Period size: 85 Copynumber: 2.1 Consensus size: 83
11339559 AGGGAGTATA
* * * *
11339569 TGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTC
1 TGTCATCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCAAATCATTTACAGCATAACTC
*
11339634 AAGGCTAGAAGGGTTATC
66 AAGGCAAGAAGGGTTATC
* * *
11339652 TGTCATCAAAGACCTTCGAGTTCGATTACATTCAACT-CAGAGGCAAATCAAATTTACAGCATAG
1 TGTCATCAAAGACCTTCGAGTTCGACTACACTCAACTCCA-AGGCAAATC--ATTTACAGCATAA
11339716 CTCAAGGCAAGAAGGGTTATC
63 CTCAAGGCAAGAAGGGTTATC
*
11339737 TGCCATCAAA
1 TGTCATCAAA
11339747 ATTGTTGAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
82 2 0.02
83 40 0.48
85 41 0.49
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (83 bp):
TGTCATCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCAAATCATTTACAGCATAACTC
AAGGCAAGAAGGGTTATC
Found at i:11340269 original size:37 final size:37
Alignment explanation
Indices: 11340212--11340316 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
11340202 CATTTTCGTC
*
11340212 CTACTAAGATTCAAACTCCTAAAAATAGGATAGAA-TT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATA-AAGTT
* *
11340249 TTGCTAGGATTCAAACTCCTAAAAATAGGATAAAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAGTT
* * *
11340286 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
11340317 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
36 2 0.03
37 57 0.97
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAGTT
Found at i:11340692 original size:14 final size:13
Alignment explanation
Indices: 11340673--11340711 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
11340663 TATATAGATA
11340673 TTTTATTCATTTAT
1 TTTTATT-ATTTAT
11340687 TTTTATTATTTAT
1 TTTTATTATTTAT
11340700 GTTATTATTATT
1 -TT-TTATTATT
11340712 ATATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:11340710 original size:18 final size:17
Alignment explanation
Indices: 11340671--11340713 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
11340661 ATTATATAGA
11340671 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
* *
11340687 TTTTATTATTTATGTTAT
1 TATTATTATTCAT-TTAT
11340705 TATTATTAT
1 TATTATTAT
11340714 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:11340724 original size:2 final size:2
Alignment explanation
Indices: 11340711--11340747 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
11340701 TTATTATTAT
*
11340711 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11340748 TTCTTTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11341235 original size:9 final size:9
Alignment explanation
Indices: 11341210--11341247 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
11341200 ATTTTTTTCC
*
11341210 TTTATCTTA
1 TTTATTTTA
11341219 TTTA-TTTA
1 TTTATTTTA
11341227 TTTATTTTA
1 TTTATTTTA
11341236 TTTATTTTA
1 TTTATTTTA
11341245 TTT
1 TTT
11341248 TTCCCTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11341235 original size:13 final size:13
Alignment explanation
Indices: 11341210--11341275 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
11341200 ATTTTTTTCC
*
11341210 TTTATCTTATTTA
1 TTTATTTTATTTA
11341223 TTTA-TTTATTTTA
1 TTTATTTTA-TTTA
11341236 TTTATTTTATTT-
1 TTTATTTTATTTA
**
11341248 TTCCCTTTTACTTTA
1 TT-TATTTTA-TTTA
*
11341263 TTTGTTTTATTTA
1 TTTATTTTATTTA
11341276 CCTTGTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
12 5 0.12
13 24 0.56
14 12 0.28
15 2 0.05
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:11342412 original size:20 final size:21
Alignment explanation
Indices: 11342377--11342418 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11342367 CAAATAAATT
11342377 TATTTACACCATTTTAAAAAA
1 TATTTACACCATTTTAAAAAA
*
11342398 TATTTACACCATTTAAAAAAA
1 TATTTACACCATTTTAAAAAA
11342419 ATTATAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
TATTTACACCATTTTAAAAAA
Found at i:11347706 original size:27 final size:28
Alignment explanation
Indices: 11347665--11347745 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
11347655 CGTTGGGATC
*
11347665 AACATTTTTGCATCTGTATTTGCATCTT
1 AACATTTTTGCATCTGCATTTGCATCTT
*
11347693 AACA-TTTTGTATCTGCATTTGCATCTT
1 AACATTTTTGCATCTGCATTTGCATCTT
** * *
11347720 TGCATCTTTGCATTTTGCATTTGCAT
1 AACATTTTTGCA-TCTGCATTTGCAT
11347746 TTCATTATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 23 0.52
28 9 0.20
29 12 0.27
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (28 bp):
AACATTTTTGCATCTGCATTTGCATCTT
Found at i:11347723 original size:8 final size:8
Alignment explanation
Indices: 11347710--11347739 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
11347700 TGTATCTGCA
11347710 TTTGCATC
1 TTTGCATC
11347718 TTTGCATC
1 TTTGCATC
11347726 TTTGCAT-
1 TTTGCATC
11347733 TTTGCAT
1 TTTGCAT
11347740 TTGCATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (8 bp):
TTTGCATC
Found at i:11347731 original size:16 final size:15
Alignment explanation
Indices: 11347683--11347745 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
11347673 TGCATCTGTA
**
11347683 TTTGCATCTTAACAT
1 TTTGCATCTTTGCAT
*
11347698 TTTGTATC--TGCA-
1 TTTGCATCTTTGCAT
11347710 TTTGCATCTTTGCAT
1 TTTGCATCTTTGCAT
11347725 CTTTGCAT-TTTGCA-
1 -TTTGCATCTTTGCAT
11347739 TTTGCAT
1 TTTGCAT
11347746 TTCATTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
12 7 0.17
13 9 0.22
14 4 0.10
15 13 0.32
16 7 0.17
ACGTcount: A:0.17, C:0.19, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTGCATCTTTGCAT
Found at i:11348936 original size:15 final size:13
Alignment explanation
Indices: 11348900--11349014 Score: 94
Period size: 13 Copynumber: 8.5 Consensus size: 13
11348890 AGATCCAATC
*
11348900 AGAACAAAAAGAGA
1 AGAA-AAAAAGAAA
11348914 A-AAAAAAAGAAA
1 AGAAAAAAAGAAA
11348926 TAGAGAAAAAAGAAA
1 -AGA-AAAAAAGAAA
**
11348941 AG-AAAAAATTAA
1 AGAAAAAAAGAAA
11348953 AGCAAAGAAAA-AAA
1 AG-AAA-AAAAGAAA
11348967 GAGAAAAAAAGAAA
1 -AGAAAAAAAGAAA
11348981 AGAAAAAGAA-ACAA
1 AGAAAAA-AAGA-AA
*
11348995 AGAAAAAAAGTAA
1 AGAAAAAAAGAAA
11349008 AGAAAAA
1 AGAAAAA
11349015 GTTACGAGAA
Statistics
Matches: 85, Mismatches: 5, Indels: 23
0.75 0.04 0.20
Matches are distributed among these distances:
12 18 0.21
13 26 0.31
14 25 0.29
15 16 0.19
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (13 bp):
AGAAAAAAAGAAA
Found at i:11348947 original size:29 final size:28
Alignment explanation
Indices: 11348913--11349003 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 28
11348903 ACAAAAAGAG
11348913 AAAAAAAAAGAAATAGAGAAAAAAGAAAA
1 AAAAAAAAAGAAA-AGAGAAAAAAGAAAA
*
11348942 GAAAAAATTAAAGCAAAGA-AAAAAAGAGAAA
1 -AAAAAA--AAAGAAAAGAGAAAAAAGA-AAA
*
11348973 AAAAGAAAAGAAAA-AGAAACAAAGAAAA
1 AAAAAAAAAGAAAAGAGAAA-AAAGAAAA
11349001 AAA
1 AAA
11349004 GTAAAGAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
27 1 0.02
28 16 0.30
29 5 0.09
30 19 0.36
31 6 0.11
32 6 0.11
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.03
Consensus pattern (28 bp):
AAAAAAAAAGAAAAGAGAAAAAAGAAAA
Found at i:11348948 original size:39 final size:39
Alignment explanation
Indices: 11348914--11349004 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 39
11348904 CAAAAAGAGA
* *
11348914 AAAAAAAAGAAATAGAGAAAAAAGAAAAGAAAAAATTAAAGC
1 AAAAAAAA-AAAGAGA-AAAAAAGAAAAGAAAAAATGAAA-C
*
11348956 AAAGAAAAAAAGAGAAAAAAAGAAAAG-AAAAA-GAAAC
1 AAAAAAAAAAAGAGAAAAAAAGAAAAGAAAAAATGAAAC
*
11348993 AAAGAAAAAAAG
1 AAAAAAAAAAAG
11349005 TAAAGAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
37 13 0.28
38 3 0.07
39 5 0.11
40 12 0.26
41 6 0.13
42 7 0.15
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.03
Consensus pattern (39 bp):
AAAAAAAAAAAGAGAAAAAAAGAAAAGAAAAAATGAAAC
Found at i:11348996 original size:8 final size:8
Alignment explanation
Indices: 11348900--11349004 Score: 54
Period size: 8 Copynumber: 12.2 Consensus size: 8
11348890 AGATCCAATC
11348900 AGAACAAAA
1 AGAA-AAAA
11348909 AGAGAAAAA
1 AGA-AAAAA
11348918 A-AAAGAAA
1 AGAAA-AAA
11348926 TAGAGAAAAA
1 -AGA-AAAAA
11348936 AGAAAAGAA
1 AGAAAA-AA
*
11348945 A-AAATTAA
1 AGAAA-AAA
* *
11348953 AGCAAAGA
1 AGAAAAAA
*
11348961 A-AAAAAG
1 AGAAAAAA
11348968 AGAAAAAA
1 AGAAAAAA
11348976 AGAAAAGAAAA
1 AG--AA-AAAA
*
11348987 AGAAACAA
1 AGAAAAAA
11348995 AGAAAAAA
1 AGAAAAAA
11349003 AG
1 AG
11349005 TAAAGAAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 25
0.68 0.09 0.23
Matches are distributed among these distances:
7 6 0.08
8 34 0.46
9 19 0.26
10 7 0.09
11 8 0.11
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (8 bp):
AGAAAAAA
Found at i:11348996 original size:37 final size:39
Alignment explanation
Indices: 11348905--11349014 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 39
11348895 CAATCAGAAC
* *
11348905 AAAAAGAGAAA-AAA-AAAGAAATAGAGAAAAAAGAAAAG
1 AAAAA-AGAAACAAAGAAAAAAAGAGAGAAAAAAGAAAAG
*
11348943 AAAAAATTAAAGCAAAGAAAAAAAGAGA-AAAAAAGAAAAG
1 AAAAAA-GAAA-CAAAGAAAAAAAGAGAGAAAAAAGAAAAG
*
11348983 -AAAAAGAAACAAAGAAAAAAAGTAAAGAAAAA
1 AAAAAAGAAACAAAGAAAAAAAG-AGAGAAAAA
11349015 GTTACGAGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
37 14 0.23
38 13 0.21
39 10 0.16
40 15 0.25
41 9 0.15
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (39 bp):
AAAAAAGAAACAAAGAAAAAAAGAGAGAAAAAAGAAAAG
Found at i:11349003 original size:55 final size:57
Alignment explanation
Indices: 11348900--11349009 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 57
11348890 AGATCCAATC
*
11348900 AGAACAAAAAGAGAAAAAAAAAGAAATAGAGAAAAAAGAAAAGAAAAAATTAAAGCAA
1 AGAACAAAAAGAG-AAAAAAAAGAAATAGAGAAAAAAGAAAAGAAAAAAGTAAAGCAA
11348958 AGAA-AAAAAGAG-AAAAAAAGAAA-AGA-AAAAGAA-ACAAAGAAAAAAAGTAAAG
1 AGAACAAAAAGAGAAAAAAAAGAAATAGAGAAAA-AAGA-AAAG-AAAAAAGTAAAG
11349010 AAAAAGTTAC
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
53 5 0.10
54 9 0.19
55 22 0.46
57 8 0.17
58 4 0.08
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.04
Consensus pattern (57 bp):
AGAACAAAAAGAGAAAAAAAAGAAATAGAGAAAAAAGAAAAGAAAAAAGTAAAGCAA
Found at i:11350078 original size:32 final size:32
Alignment explanation
Indices: 11350037--11350199 Score: 247
Period size: 32 Copynumber: 5.1 Consensus size: 32
11350027 AAGCAATAGA
*
11350037 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
*
11350069 GGGCATCTTTGGAAATTCAACATCAAATGTT-
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
11350100 GGGCATCTTTGGAGATTCAACATCAAAATGTTG
1 GGGCATCTTTGGAGATTCAACATC-AAATGTTG
* *
11350133 GGGCATCATTGGAGATTCAACATCGAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
* * *
11350165 GGGCATCTTTGGAGATTCAATATCGAATATTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
11350197 GGG
1 GGG
11350200 TATTCAATAA
Statistics
Matches: 121, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
31 23 0.19
32 75 0.62
33 23 0.19
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (32 bp):
GGGCATCTTTGGAGATTCAACATCAAATGTTG
Found at i:11350330 original size:34 final size:33
Alignment explanation
Indices: 11350299--11350423 Score: 171
Period size: 34 Copynumber: 3.7 Consensus size: 33
11350289 TGTTTCTCTT
*
11350299 AAAA-AAAATTGTCTCACTTGAGATAATTTCTC
1 AAAACAAATTTGTCTCACTTGAGATAATTTCTC
*
11350331 AAAACAAATTTTGTCTCACTTGAGACAATTTCTC
1 AAAACAAA-TTTGTCTCACTTGAGATAATTTCTC
* *
11350365 AAAACAAATTTCGTCTCGCTTGAGATAATTTATC
1 AAAACAAATTT-GTCTCACTTGAGATAATTTCTC
*
11350399 AAAACAAATTTTGTCTCCCTTGAGA
1 AAAACAAA-TTTGTCTCACTTGAGA
11350424 CAGTTTCCCT
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
32 4 0.05
33 6 0.07
34 70 0.84
35 3 0.04
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.34
Consensus pattern (33 bp):
AAAACAAATTTGTCTCACTTGAGATAATTTCTC
Found at i:11350387 original size:68 final size:67
Alignment explanation
Indices: 11350309--11350502 Score: 208
Period size: 68 Copynumber: 2.8 Consensus size: 67
11350299 AAAAAAAATT
11350309 GTCTCACTTGAGATAATTTCTCAAAACAAATTTTGTCTCACTTGAGACAATTTCTCAAAACAAAT
1 GTCTCACTTGAGATAATTTCTCAAAACAAATTTTGTCTC-CTTGAGACAATTTCTCAAAACAAAT
11350374 TTC
65 TTC
* * * ** *
11350377 GTCTCGCTTGAGATAATTTATCAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGA
1 GTCTCACTTGAGATAATTTCTCAAAACAAATTTTGTCT-CCTTGAGACAATTT--CTCAAAACAA
*
11350442 ATTTT
63 ATTTC
* * * ** *
11350447 GTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTTCCTTGAGACAATTTC
1 GTCTCACTTGAGATAATTT--CTCAAAACAAATTTTGTC-TCCTTGAGACAATTTC
11350503 CCTTGAAACG
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
68 48 0.46
69 1 0.01
70 28 0.27
72 27 0.26
73 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (67 bp):
GTCTCACTTGAGATAATTTCTCAAAACAAATTTTGTCTCCTTGAGACAATTTCTCAAAACAAATT
TC
Found at i:11350449 original size:36 final size:36
Alignment explanation
Indices: 11350400--11350565 Score: 296
Period size: 36 Copynumber: 4.6 Consensus size: 36
11350390 TAATTTATCA
*
11350400 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
1 AAACGAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
11350436 AAACGAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
1 AAACGAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
* *
11350472 AAACGAATTTTGTCTTCCTTGAGACAATTTCCCTTG
1 AAACGAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
*
11350508 AAACGAATTTTGTCTCCCTTGATACAGTTTCCCTTG
1 AAACGAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
11350544 AAACGAATTTTGTCTCCCTTGA
1 AAACGAATTTTGTCTCCCTTGA
11350566 AACAAATTTT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 124 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (36 bp):
AAACGAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
Found at i:11350494 original size:72 final size:72
Alignment explanation
Indices: 11350332--11350570 Score: 297
Period size: 72 Copynumber: 3.4 Consensus size: 72
11350322 TAATTTCTCA
* * ** * * * * *
11350332 AAACAAATTTTGTCTCACTTGAGACAATTT--CTCAAAACAAATTTCGTCTCGCTTGAGATAATT
1 AAACGAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
* **
11350395 T--ATCA
66 TCCCTTG
* *
11350400 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
1 AAACGAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
11350465 TCCCTTG
66 TCCCTTG
* *
11350472 AAACGAATTTTGTCTTCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGATACAGTT
1 AAACGAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
11350537 TCCCTTG
66 TCCCTTG
*
11350544 AAACGAATTTTGTCTCCCTTGAAACAA
1 AAACGAATTTTGTCTCCCTTGAGACAA
11350571 ATTTTGTCTC
Statistics
Matches: 149, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
68 28 0.19
70 27 0.18
72 94 0.63
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (72 bp):
AAACGAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
TCCCTTG
Found at i:11350562 original size:57 final size:57
Alignment explanation
Indices: 11350400--11350622 Score: 227
Period size: 57 Copynumber: 4.0 Consensus size: 57
11350390 TAATTTATCA
11350400 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTG
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTG
* * * * *
11350457 AGAC--A----GTTTCCCTTGAAACGAATTTTGTCTTCCTTGAGAC-AA---T-T-TCCCTTG
1 AAACAAATTTTGTCTCCCTTGAGAC--A-GTT-TC--CCTTGAAACGAATTTTGTCTCCCTTG
* *
11350508 AAACGAATTTTGTCTCCCTTGATACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTG
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTG
* *
11350565 AAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAATGAATTTTGTCTCCCTTG
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTG
11350622 A
1 A
11350623 GACATTTTCC
Statistics
Matches: 134, Mismatches: 14, Indels: 36
0.73 0.08 0.20
Matches are distributed among these distances:
51 30 0.22
52 3 0.02
53 5 0.04
54 4 0.03
55 5 0.04
56 3 0.02
57 84 0.63
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (57 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTG
Found at i:11350565 original size:93 final size:93
Alignment explanation
Indices: 11350465--11350658 Score: 316
Period size: 93 Copynumber: 2.1 Consensus size: 93
11350455 TGAGACAGTT
* * *
11350465 TCCCTTGAAACGAATTTTGTCTTCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGA
1 TCCCTTGAAACAAATTTTGTCTCCCTTAAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGA
* *
11350530 TACAGTTTCCCTTGAAACGAATTTTGTC
66 GACAGTTTCCCTTGAAACAAATTTTGTC
* *
11350558 TCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAATGAATTTTGTCTCCCTTGA
1 TCCCTTGAAACAAATTTTGTCTCCCTTAAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGA
*
11350623 GACATTTTCCCTTGAAACAAATTTTGTC
66 GACAGTTTCCCTTGAAACAAATTTTGTC
11350651 TCCCTTGA
1 TCCCTTGA
11350659 GACAGTTTCC
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (93 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTAAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGA
GACAGTTTCCCTTGAAACAAATTTTGTC
Found at i:11350598 original size:36 final size:36
Alignment explanation
Indices: 11350558--11350832 Score: 255
Period size: 36 Copynumber: 7.9 Consensus size: 36
11350548 GAATTTTGTC
*
11350558 TCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
** *
11350594 TCCCTTGAAATGAATTTTGTCTCCCTTGAGACATTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
11350630 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
* *
11350666 TCCCTTGAAACGAATTTTGTCTCCATTGAGACAGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
* * * * ** **
11350702 TCCATTGAAACAAAATGTATCTCAATTGAGATGGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
* * * * * *
11350738 T--TTTAAAACCAATTTCGTCTCGCTTGAGATAGTTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG-TT
* *
11350773 TCCCTTGAAAC-AA----GT-T--TTTGAGATAGTT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
*
11350801 TCTCTTGAAACAAAGTTTTGTCTCCCTTGAGA
1 TCCCTTGAAACAAA-TTTTGTCTCCCTTGAGA
11350833 TTCTTAAAAC
Statistics
Matches: 195, Mismatches: 32, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
28 12 0.06
29 11 0.06
31 1 0.01
32 2 0.01
34 23 0.12
35 4 0.02
36 130 0.67
37 12 0.06
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (36 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
Found at i:11350664 original size:129 final size:129
Alignment explanation
Indices: 11350429--11350694 Score: 460
Period size: 129 Copynumber: 2.1 Consensus size: 129
11350419 TGAGACAGTT
* * *
11350429 TCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTTCCTTGA
1 TCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGA
* *
11350494 GACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGATACAGTTTCCCTTGAAACGAATTTTGTC
66 GACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTC
*
11350558 TCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAATGAATTTTGTCTCCCTTGA
1 TCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGA
*
11350623 GACATTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTC
66 GACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTC
*
11350687 TCCATTGA
1 TCCCTTGA
11350695 GACAGTTTCC
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (129 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGA
GACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTC
Found at i:11350672 original size:165 final size:165
Alignment explanation
Indices: 11350400--11350712 Score: 545
Period size: 165 Copynumber: 1.9 Consensus size: 165
11350390 TAATTTATCA
*
11350400 AAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
1 AAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
* * *
11350465 TCCCTTGAAACGAATTTTGTCTTCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCCTTGA
66 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCATTGA
* *
11350530 TACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTG
131 GACAGTTTCCATTGAAACGAATTTTGTCTCCCTTG
* *
11350565 AAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAATGAATTTTGTCTCCCTTGAGACATTT
1 AAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
*
11350630 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACGAATTTTGTCTCCATTGA
66 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCATTGA
11350695 GACAGTTTCCATTGAAAC
131 GACAGTTTCCATTGAAAC
11350713 AAAATGTATC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
165 139 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (165 bp):
AAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACGAATTTTGTCTCCATTGA
GACAGTTTCCATTGAAACGAATTTTGTCTCCCTTG
Found at i:11350811 original size:28 final size:30
Alignment explanation
Indices: 11350761--11350819 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
11350751 TTCGTCTCGC
11350761 TTGAGATAGTTTTCCCTTGAAAC-AAGTTT
1 TTGAGATAGTTTTCCCTTGAAACAAAGTTT
*
11350790 TTGAGATAG-TTTCTCTTGAAACAAAGTTT
1 TTGAGATAGTTTTCCCTTGAAACAAAGTTT
11350819 T
1 T
11350820 GTCTCCCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (30 bp):
TTGAGATAGTTTTCCCTTGAAACAAAGTTT
Found at i:11351468 original size:136 final size:134
Alignment explanation
Indices: 11351216--11351521 Score: 468
Period size: 136 Copynumber: 2.3 Consensus size: 134
11351206 AGATAAACAT
*
11351216 ATCAATATTTCCAGTACAGAGTTCATAATGATAAGAACTCATCCGACAGAGGGAGAAGAAGTTCA
1 ATCAATATTTCCAG-A-AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCA
**
11351281 TAATGAGAAGAGCTTGCTCGACCTATCACTCGATTCACGACATTTTGAATCAATGACACCTCGCT
64 TAATGAGAAGAGCTTGCTCGACCTATCACTCGATTCACGACATTTCAAATCAATGACACCTCGCT
11351346 TGAGGG
129 TGAGGG
** *
11351352 ATTGATATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCA
1 ATCAATATTTCC-A-GAAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCA
* * * * * *
11351417 TAATGAGAAGATCTTGTTCGACCTATCACTCGATTCATGGCATTTCAAATCAGTGACGCCTCGCT
64 TAATGAGAAGAGCTTGCTCGACCTATCACTCGATTCACGACATTTCAAATCAATGACACCTCGCT
11351482 TGAGGG
129 TGAGGG
11351488 ATCAATATTTCCAGAAGAGTTCATAATGAGAAGA
1 ATCAATATTTCCAGAAGAGTTCATAATGAGAAGA
11351522 GCTCGTCTTA
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
134 20 0.13
135 1 0.01
136 130 0.85
137 1 0.01
138 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (134 bp):
ATCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATA
ATGAGAAGAGCTTGCTCGACCTATCACTCGATTCACGACATTTCAAATCAATGACACCTCGCTTG
AGGG
Found at i:11351521 original size:16 final size:16
Alignment explanation
Indices: 11351500--11351556 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
11351490 CAATATTTCC
11351500 AGAAGAGTTCATAATG
1 AGAAGAGTTCATAATG
* *
11351516 AGAAGAGCTCGTCTTAAAGG
1 AGAAGAG-T--TCAT-AATG
11351536 AGAA-AGTTCATAATG
1 AGAAGAGTTCATAATG
11351551 AGAAGA
1 AGAAGA
11351557 ATTTATTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 7 0.22
16 11 0.34
17 1 0.03
18 1 0.03
19 5 0.16
20 7 0.22
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (16 bp):
AGAAGAGTTCATAATG
Found at i:11352775 original size:2 final size:2
Alignment explanation
Indices: 11352701--11352758 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
11352691 TGTACTTAGC
11352701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11352743 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
11352759 TCATTTATGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11353044 original size:19 final size:19
Alignment explanation
Indices: 11353022--11353062 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11353012 ATTAACTTGA
*
11353022 AATAAATTAATCA-ATATTT
1 AATAAATGAATCATA-ATTT
11353041 AATAAATGAATCATAATTT
1 AATAAATGAATCATAATTT
11353060 AAT
1 AAT
11353063 TTGATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
AATAAATGAATCATAATTT
Found at i:11356120 original size:20 final size:20
Alignment explanation
Indices: 11356082--11356120 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11356072 GACCGGCTTG
*
11356082 ACCAGTCCAACCCGGTCTGA
1 ACCAGTCCAACCCGATCTGA
11356102 ACCAGTCCGAA-CCGATCTG
1 ACCAGTCC-AACCCGATCTG
11356121 TCTGACCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.26, C:0.38, G:0.21, T:0.15
Consensus pattern (20 bp):
ACCAGTCCAACCCGATCTGA
Found at i:11356222 original size:29 final size:29
Alignment explanation
Indices: 11356179--11356311 Score: 175
Period size: 29 Copynumber: 4.7 Consensus size: 29
11356169 CCCGACCCGA
**
11356179 TGATATTTTTGGTAATTATTTTGAAACCGG
1 TGATA-TTTTGGTAATTATTTTGAAAAAGG
*
11356209 TGATATTTTGGTAATTAATTT-AAAAAGG
1 TGATATTTTGGTAATTATTTTGAAAAAGG
11356237 TGATATTTTGGTAATTATTTTGAAAAAGG
1 TGATATTTTGGTAATTATTTTGAAAAAGG
**
11356266 TGATATTTTGGTAATTA-TTT-AAAAAAA
1 TGATATTTTGGTAATTATTTTGAAAAAGG
*
11356293 TGATATTTTCGTAA-TATTT
1 TGATATTTTGGTAATTATTT
11356312 AACTTTGACT
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.02
27 20 0.21
28 28 0.30
29 39 0.41
30 5 0.05
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.47
Consensus pattern (29 bp):
TGATATTTTGGTAATTATTTTGAAAAAGG
Found at i:11356268 original size:57 final size:56
Alignment explanation
Indices: 11356178--11356311 Score: 198
Period size: 57 Copynumber: 2.4 Consensus size: 56
11356168 ACCCGACCCG
** *
11356178 ATGATATTTTTGGTAATTATTTTGAAACCGGTGATATTTTGGTAATTAATTTAAAAAG
1 ATGATA-TTTTGGTAATTATTTTGAAAAAGGTGATATTTTGGTAATT-ATTTAAAAAA
*
11356236 GTGATATTTTGGTAATTATTTTGAAAAAGGTGATATTTTGGTAATTATTTAAAAAA
1 ATGATATTTTGGTAATTATTTTGAAAAAGGTGATATTTTGGTAATTATTTAAAAAA
*
11356292 ATGATATTTTCGTAA-TATTT
1 ATGATATTTTGGTAATTATTT
11356312 AACTTTGACT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
55 5 0.07
56 22 0.31
57 38 0.54
58 5 0.07
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.46
Consensus pattern (56 bp):
ATGATATTTTGGTAATTATTTTGAAAAAGGTGATATTTTGGTAATTATTTAAAAAA
Found at i:11364064 original size:27 final size:27
Alignment explanation
Indices: 11364026--11364081 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
11364016 AAATTATATT
11364026 CCTTGAAAATTCGGATTCTTGGAAACA
1 CCTTGAAAATTCGGATTCTTGGAAACA
11364053 CCTTGAAAATTCGGATTCTTGGAAACA
1 CCTTGAAAATTCGGATTCTTGGAAACA
11364080 CC
1 CC
11364082 ACCTTTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (27 bp):
CCTTGAAAATTCGGATTCTTGGAAACA
Found at i:11365334 original size:20 final size:20
Alignment explanation
Indices: 11365290--11365364 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
11365280 GAAGATATTT
* *
11365290 AATTGTTCATCGAAA-ACAC
1 AATTGTTCATCAAAAGATAC
*
11365309 -ATTGTTCAAT-AAGAGATAC
1 AATTGTTC-ATCAAAAGATAC
11365328 AATTGTTCATCAAAAGATAC
1 AATTGTTCATCAAAAGATAC
* * *
11365348 AACTGCTCACCAAAAGA
1 AATTGTTCATCAAAAGA
11365365 CAACTTTTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.20
19 7 0.16
20 29 0.64
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (20 bp):
AATTGTTCATCAAAAGATAC
Found at i:11369257 original size:14 final size:14
Alignment explanation
Indices: 11369238--11369268 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
11369228 TCGACTATAG
11369238 GAGGCTATTTTATT
1 GAGGCTATTTTATT
11369252 GAGGCTATTTTATT
1 GAGGCTATTTTATT
11369266 GAG
1 GAG
11369269 TTTTTCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (14 bp):
GAGGCTATTTTATT
Found at i:11370737 original size:20 final size:20
Alignment explanation
Indices: 11370696--11370737 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11370686 TTCATCAAAT
* *
11370696 TTTAAAACGCATATGATTAA
1 TTTAAAACGCATATAATGAA
*
11370716 TTTAATACGCATATAATGAA
1 TTTAAAACGCATATAATGAA
11370736 TT
1 TT
11370738 AAATTTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
TTTAAAACGCATATAATGAA
Found at i:11371702 original size:43 final size:43
Alignment explanation
Indices: 11371641--11371728 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
11371631 AAATTAAATA
11371641 AAACTTAGTTTTGAAATTAATGAAATTGGAAGGTGTGAGATAG
1 AAACTTAGTTTTGAAATTAATGAAATTGGAAGGTGTGAGATAG
* *
11371684 AAACTTAGTTTTGAAATTAATGGAGTTGGAAGGTGTGAGATAG
1 AAACTTAGTTTTGAAATTAATGAAATTGGAAGGTGTGAGATAG
11371727 AA
1 AA
11371729 CGAGGTGGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (43 bp):
AAACTTAGTTTTGAAATTAATGAAATTGGAAGGTGTGAGATAG
Found at i:11373084 original size:47 final size:45
Alignment explanation
Indices: 11373033--11373124 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 45
11373023 GTTTGATCGT
11373033 TATCGAAGTGGGATGTATCGTGTTCTCTTATTTGTGTGCTAAAAATA
1 TATCGAAGTGGGATGTATCGTGTTCTCTTATTTGTGT--TAAAAATA
*
11373080 TATCGAAGTGGGATGTATCGTGTTCTCTTGTTTGTGTTAAAAATA
1 TATCGAAGTGGGATGTATCGTGTTCTCTTATTTGTGTTAAAAATA
11373125 AAAGTGGTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 8 0.18
47 36 0.82
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (45 bp):
TATCGAAGTGGGATGTATCGTGTTCTCTTATTTGTGTTAAAAATA
Found at i:11373199 original size:14 final size:14
Alignment explanation
Indices: 11373180--11373207 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11373170 ACTTTTTAAC
11373180 GTTCGAATTATTAT
1 GTTCGAATTATTAT
11373194 GTTCGAATTATTAT
1 GTTCGAATTATTAT
11373208 TAAAGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
GTTCGAATTATTAT
Found at i:11375370 original size:20 final size:20
Alignment explanation
Indices: 11375345--11375384 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11375335 ATTCCGCATA
11375345 ACCTAAAATATTATATTATT
1 ACCTAAAATATTATATTATT
11375365 ACCTAAAATATTATATTATT
1 ACCTAAAATATTATATTATT
11375385 TATAACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
ACCTAAAATATTATATTATT
Found at i:11377166 original size:16 final size:16
Alignment explanation
Indices: 11377145--11377186 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
11377135 ATTAAGCGCT
*
11377145 GAATGATTCAAATGTC
1 GAATGATTCAAATGCC
11377161 GAATGATTCAAATGCC
1 GAATGATTCAAATGCC
11377177 GAATGATTCA
1 GAATGATTCA
11377187 GAGGCTCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAATGCC
Found at i:11378536 original size:34 final size:34
Alignment explanation
Indices: 11378493--11378569 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
11378483 AGCATAGGTT
11378493 GAGTTCTTCATCACGAGGCGATTTAAATATTAAG
1 GAGTTCTTCATCACGAGGCGATTTAAATATTAAG
* *
11378527 GAGTTCTTCATCACGAGGCTATTTAAATATTATG
1 GAGTTCTTCATCACGAGGCGATTTAAATATTAAG
11378561 GAGTTCTTC
1 GAGTTCTTC
11378570 TATAATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (34 bp):
GAGTTCTTCATCACGAGGCGATTTAAATATTAAG
Found at i:11380778 original size:16 final size:16
Alignment explanation
Indices: 11380759--11380793 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11380749 ATTTTCACTC
11380759 TTTAAAATTTTATAAA
1 TTTAAAATTTTATAAA
* *
11380775 TTTAATATTTTCTAAA
1 TTTAAAATTTTATAAA
11380791 TTT
1 TTT
11380794 TTAAAAGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAATTTTATAAA
Found at i:11383522 original size:20 final size:20
Alignment explanation
Indices: 11383495--11383542 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
11383485 AGAGGAGAAT
*
11383495 AAAGAAGAGAAAAGAGGAAG
1 AAAGAAGAGAAAAGAGAAAG
* *
11383515 AAATAAGAGAAAAGTGAAAG
1 AAAGAAGAGAAAAGAGAAAG
11383535 AAAGAAGA
1 AAAGAAGA
11383543 AGAGAATCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (20 bp):
AAAGAAGAGAAAAGAGAAAG
Found at i:11383903 original size:21 final size:20
Alignment explanation
Indices: 11383870--11383912 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
11383860 AGTGATGGTG
*
11383870 TTATTATTATTTAATAAAATA
1 TTATAATTATTT-ATAAAATA
* *
11383891 TTATAATTGTTTATTAAATA
1 TTATAATTATTTATAAAATA
11383911 TT
1 TT
11383913 TTAAATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATAATTATTTATAAAATA
Found at i:11388542 original size:3 final size:3
Alignment explanation
Indices: 11388525--11388559 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
11388515 ATATTAAAAA
11388525 TAT TAAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11388560 CAAATTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:11389013 original size:13 final size:15
Alignment explanation
Indices: 11388984--11389012 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11388974 GGCAGAAACG
11388984 ACGGAAAAAAGAAAA
1 ACGGAAAAAAGAAAA
11388999 ACGGAAAAAA-AAAA
1 ACGGAAAAAAGAAAA
11389013 CAGTGGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (15 bp):
ACGGAAAAAAGAAAA
Found at i:11397137 original size:8 final size:8
Alignment explanation
Indices: 11397118--11397186 Score: 58
Period size: 7 Copynumber: 8.8 Consensus size: 8
11397108 TAAAGATAAA
11397118 AAAAAATG
1 AAAAAATG
11397126 -AAAAATG
1 AAAAAATG
11397133 AAAAATATG
1 AAAAA-ATG
11397142 AAAAAATG
1 AAAAAATG
*
11397150 -AAATA-G
1 AAAAAATG
11397156 -AAAAATAG
1 AAAAAAT-G
11397164 AAAAAATGG
1 AAAAAAT-G
11397173 AGAAAAAT-
1 A-AAAAATG
11397181 AAAAAA
1 AAAAAA
11397187 AAAAGAAGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
6 5 0.10
7 16 0.31
8 9 0.17
9 16 0.31
10 6 0.12
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:11397168 original size:22 final size:24
Alignment explanation
Indices: 11397118--11397171 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
11397108 TAAAGATAAA
11397118 AAAAAATGAAAAATGAAAAATATG
1 AAAAAATGAAAAATGAAAAATATG
*
11397142 AAAAAATGAAATA-GAAAAATA-G
1 AAAAAATGAAAAATGAAAAATATG
11397164 AAAAAATG
1 AAAAAATG
11397172 GAGAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 9 0.31
23 8 0.28
24 12 0.41
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (24 bp):
AAAAAATGAAAAATGAAAAATATG
Found at i:11397170 original size:17 final size:17
Alignment explanation
Indices: 11397150--11397222 Score: 53
Period size: 17 Copynumber: 4.2 Consensus size: 17
11397140 TGAAAAAATG
*
11397150 AAATAGAAAAATAGAAA
1 AAATAGAAAAATAAAAA
11397167 AAATGGAGAAAAATAAAAA
1 AAAT--AGAAAAATAAAAA
*
11397186 AAAAAGAAGAAA-AAAAGA
1 AAATAGAA-AAATAAAA-A
*
11397204 AGA-AGAAAAA-AAAACA
1 AAATAGAAAAATAAAA-A
11397220 AAA
1 AAA
11397223 AAAATAAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 10 0.21
17 16 0.34
18 6 0.13
19 15 0.32
ACGTcount: A:0.79, C:0.01, G:0.14, T:0.05
Consensus pattern (17 bp):
AAATAGAAAAATAAAAA
Found at i:11397188 original size:20 final size:19
Alignment explanation
Indices: 11397154--11397199 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
11397144 AAAATGAAAT
* * *
11397154 AGAAAAATAGAAAAAATGG
1 AGAAAAATAAAAAAAAAGA
11397173 AGAAAAATAAAAAAAAAAGA
1 AGAAAAAT-AAAAAAAAAGA
11397193 AGAAAAA
1 AGAAAAA
11397200 AAGAAGAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (19 bp):
AGAAAAATAAAAAAAAAGA
Found at i:11397189 original size:11 final size:11
Alignment explanation
Indices: 11397175--11397231 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
11397165 AAAAATGGAG
*
11397175 AAAAATAAAAA
1 AAAAAGAAAAA
*
11397186 AAAAAGAAGAA
1 AAAAAGAAAAA
11397197 AAAAAGAAGAAGA
1 AAAAAGAA-AA-A
*
11397210 AAAAAAAACAAA
1 AAAAAGAA-AAA
*
11397222 AAAAATAAAA
1 AAAAAGAAAA
11397232 GGGGGGTTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
11 19 0.50
12 9 0.24
13 10 0.26
ACGTcount: A:0.86, C:0.02, G:0.09, T:0.04
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:11397200 original size:14 final size:14
Alignment explanation
Indices: 11397181--11397217 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
11397171 GGAGAAAAAT
11397181 AAAAAAAAAAGAAG
1 AAAAAAAAAAGAAG
*
11397195 AAAAAAAGAAGAAG
1 AAAAAAAAAAGAAG
11397209 AAAAAAAAA
1 AAAAAAAAA
11397218 CAAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAG
Found at i:11398595 original size:55 final size:55
Alignment explanation
Indices: 11398511--11398790 Score: 438
Period size: 55 Copynumber: 5.1 Consensus size: 55
11398501 TGAAGCAAAA
*
11398511 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGTGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* * * *
11398566 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* * *
11398621 GAAGATTG-TGGA-TCTTATACTCTATGAAGAAATAGGGGGCAGACGTGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
11398674 GAAGATTGTTCGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
11398729 GAAGATTGTTCGAGCCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
11398784 GGAGATT
1 GAAGATT
11398791 ATTGTTCGAG
Statistics
Matches: 202, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 44 0.22
54 6 0.03
55 152 0.75
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
Found at i:11398714 original size:108 final size:110
Alignment explanation
Indices: 11398511--11398793 Score: 471
Period size: 108 Copynumber: 2.6 Consensus size: 110
11398501 TGAAGCAAAA
11398511 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGTGATCGTTGAAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGTGATCGTTGAAGATTATT
11398576 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
* * *
11398621 GAAGATTG-TGGA-TCTTATACTCTATGAAGAAATAGGGGGCAGACGTGATCGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGTGATCGTTGAAGATTATT
* * *
11398684 CGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
* * *
11398729 GAAGATTGTTCGAGCCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGGAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGTGATCGTTGAAGATTATT
11398794 GTTCGAGTTC
Statistics
Matches: 159, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
108 99 0.62
109 6 0.04
110 54 0.34
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (110 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGTGATCGTTGAAGATTATT
CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
Found at i:11398839 original size:24 final size:24
Alignment explanation
Indices: 11398812--11398944 Score: 68
Period size: 24 Copynumber: 5.2 Consensus size: 24
11398802 TCTAGTCCCT
11398812 GAAGAAAATTGGGCAGTCTCGTAG
1 GAAGAAAATTGGGCAGTCTCGTAG
** ** * **
11398836 GAAGATTATTGTTCGAGTTCTAGTCCCT
1 GAAGAAAATTGGGC-AG-TCTCGT--AG
11398864 GAAGAAAATTGGGCAGTCTCGTAG
1 GAAGAAAATTGGGCAGTCTCGTAG
** ** * **
11398888 GAAGATTATTGTTCGAGTTCTAGTCCCT
1 GAAGAAAATTGGGC-AG-TCTCGT--AG
11398916 GAAGAAAATTGGGCAGTCTCGTAG
1 GAAGAAAATTGGGCAGTCTCGTAG
11398940 GAAGA
1 GAAGA
11398945 TTATTGTTCG
Statistics
Matches: 73, Mismatches: 28, Indels: 16
0.62 0.24 0.14
Matches are distributed among these distances:
24 25 0.34
25 4 0.05
26 20 0.27
27 4 0.05
28 20 0.27
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (24 bp):
GAAGAAAATTGGGCAGTCTCGTAG
Found at i:11398846 original size:52 final size:52
Alignment explanation
Indices: 11398786--11399078 Score: 532
Period size: 52 Copynumber: 5.6 Consensus size: 52
11398776 CGATCGTTGG
11398786 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
11398838 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
11398890 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
* * * *
11398942 AGATTATTGTTCGAGTACTAGTCCCTGAAGAAAATTGGACAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
11398994 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
* *
11399046 AGATTATCGTTCGAGTTCTACTCCCTGAAGAAA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAA
11399079 TAGAGAGCGA
Statistics
Matches: 231, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 231 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (52 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
Found at i:11399365 original size:3 final size:3
Alignment explanation
Indices: 11399348--11399382 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
11399338 ATATTAAAAA
11399348 TAT TAAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11399383 ATACAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:11401926 original size:55 final size:53
Alignment explanation
Indices: 11401865--11401972 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 53
11401855 AGACTTGAAA
* *
11401865 AATCTTCTGCAAATGGGTTCGCTCTCTTTTTCTTCAGGGAGTATAGAACTCGAAC
1 AATCTTCTGCAAACGGGTTCGCTCTCTATTTCTTCAGGGAG--TAGAACTCGAAC
****
11401920 AATCTTCTTTTTACGGGTTCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAAC
1 AATCTTCTGCAAACGGGTTCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAAC
11401973 GATAATCTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 12 0.26
55 35 0.74
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (53 bp):
AATCTTCTGCAAACGGGTTCGCTCTCTATTTCTTCAGGGAGTAGAACTCGAAC
Found at i:11402017 original size:52 final size:52
Alignment explanation
Indices: 11401948--11402240 Score: 514
Period size: 52 Copynumber: 5.6 Consensus size: 52
11401938 TCGCTCTCTA
* * *
11401948 TTTCTTCAGGGAGTAGAACTCGAACGATAATCTTTCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * *
11402000 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
*
11402052 TTTCTTCAGGGACTAGTACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
*
11402104 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCTAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
11402156 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
11402208 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
11402241 CCAACGATCG
Statistics
Matches: 228, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 228 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (52 bp):
TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
Found at i:11402109 original size:24 final size:24
Alignment explanation
Indices: 11402082--11402214 Score: 59
Period size: 24 Copynumber: 5.2 Consensus size: 24
11402072 CGAACAATAA
11402082 TCTTCCTACGAGACTGCCCAATTT
1 TCTTCCTACGAGACTGCCCAATTT
** * ** **
11402106 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTC--CTACGAG-ACT-GCCCAATTT
*
11402134 TCTTCCTACGAGACTGCCTAATTT
1 TCTTCCTACGAGACTGCCCAATTT
** * ** **
11402158 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTC--CTACGAG-ACT-GCCCAATTT
11402186 TCTTCCTACGAGACTGCCCAATTT
1 TCTTCCTACGAGACTGCCCAATTT
11402210 TCTTC
1 TCTTC
11402215 AGGGACTAGA
Statistics
Matches: 71, Mismatches: 30, Indels: 16
0.61 0.26 0.14
Matches are distributed among these distances:
24 24 0.34
25 6 0.08
26 16 0.23
27 6 0.08
28 19 0.27
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (24 bp):
TCTTCCTACGAGACTGCCCAATTT
Found at i:11402295 original size:55 final size:55
Alignment explanation
Indices: 11402236--11402515 Score: 465
Period size: 55 Copynumber: 5.1 Consensus size: 55
11402226 CTCGAACAAT
* *
11402236 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGGCTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
11402291 AATCTTCAACAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
11402346 AATCTTCAACGATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
11402399 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
11402454 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
11402509 AATCTTC
1 AATCTTC
11402516 TTTTGCTTCA
Statistics
Matches: 207, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 47 0.23
54 4 0.02
55 156 0.75
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (55 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:11402443 original size:108 final size:109
Alignment explanation
Indices: 11402236--11402515 Score: 472
Period size: 108 Copynumber: 2.6 Consensus size: 109
11402226 CTCGAACAAT
* *
11402236 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGGCTCGAACAATCTTCAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA-GATCGAACAATCTTCAAC
11402301 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
65 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
* * *
11402346 AATCTTCAACGATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATC-CACAATCTTCATCA
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCGAACAATCTTCAACA
* *
11402410 ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
66 ATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
11402454 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TCGAACAATCTTC
11402516 TTTTGCTTCA
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
108 101 0.64
109 5 0.03
110 53 0.33
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (109 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGATCGAACAATCTTCAACA
ATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
Found at i:11403815 original size:11 final size:11
Alignment explanation
Indices: 11403799--11403882 Score: 62
Period size: 11 Copynumber: 7.4 Consensus size: 11
11403789 CCCCCTTTTA
*
11403799 TTTTTTTTGTT
1 TTTTTTTTCTT
11403810 TTTTTTCTTCTT
1 TTTTTT-TTCTT
*
11403822 CTTTTTTTCTT
1 TTTTTTTTCTT
11403833 CTTTTTTTT-TT
1 -TTTTTTTTCTT
* **
11403844 TATTTTTTCCA
1 TTTTTTTTCTT
* *
11403855 TTTTTTCTATT
1 TTTTTTTTCTT
11403866 TTTCTTTTTCATT
1 TTT-TTTTTC-TT
11403879 TTTT
1 TTTT
11403883 CATTTTTTTC
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
10 7 0.13
11 22 0.40
12 21 0.38
13 5 0.09
ACGTcount: A:0.05, C:0.12, G:0.01, T:0.82
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:11403826 original size:14 final size:13
Alignment explanation
Indices: 11403808--11403851 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
11403798 ATTTTTTTTG
11403808 TTTTTTTTCTTCT
1 TTTTTTTTCTTCT
11403821 TCTTTTTTTCTTCT
1 T-TTTTTTTCTTCT
*
11403835 TTTTTTTT-TTAT
1 TTTTTTTTCTTCT
11403847 TTTTT
1 TTTTT
11403852 CCATTTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 8 0.28
13 8 0.28
14 13 0.45
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTCTTCT
Found at i:11403859 original size:31 final size:30
Alignment explanation
Indices: 11403824--11403915 Score: 105
Period size: 31 Copynumber: 2.9 Consensus size: 30
11403814 TTCTTCTTCT
* *
11403824 TTTTTTCT-TCTTTTTTTTTTTATTTTTTCCA
1 TTTTTTCTAT-TTTTCTTTTTCATTTTTT-CA
11403855 TTTTTTCTATTTTTCTTTTTCATTTTTTCA
1 TTTTTTCTATTTTTCTTTTTCATTTTTTCA
*
11403885 TTTTTTTCATTTTTTTCATTTTTCATTTTTT
1 -TTTTTTC-TATTTTTC-TTTTTCATTTTTT
11403916 TTTATCTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
30 2 0.04
31 31 0.57
32 8 0.15
33 13 0.24
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (30 bp):
TTTTTTCTATTTTTCTTTTTCATTTTTTCA
Found at i:11403868 original size:39 final size:38
Alignment explanation
Indices: 11403820--11403918 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 38
11403810 TTTTTTCTTC
* *
11403820 TTCTTTTTTTCTTCTTTTTTTTTTTATTTTTTCCATTTT
1 TTCTATTTTTCTT-TTTTTTTTTTCATTTTTTCCATTTT
* *
11403859 TTCTATTTTTCTTTTTCATTTTTTCATTTTTTTCATTTT
1 TTCTATTTTTCTTTTT-TTTTTTTCATTTTTTCCATTTT
*
11403898 TT-TCATTTTTCATTTTTTTTT
1 TTCT-ATTTTTCTTTTTTTTTT
11403919 ATCTTTAAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
38 8 0.15
39 44 0.85
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (38 bp):
TTCTATTTTTCTTTTTTTTTTTTCATTTTTTCCATTTT
Found at i:11403915 original size:8 final size:8
Alignment explanation
Indices: 11403838--11403915 Score: 83
Period size: 8 Copynumber: 9.8 Consensus size: 8
11403828 TTCTTCTTTT
*
11403838 TTTTTTTA
1 TTTTTTCA
11403846 TTTTTTCCA
1 TTTTTT-CA
11403855 TTTTTTC-
1 TTTTTTCA
11403862 TATTTTTC-
1 T-TTTTTCA
11403870 -TTTTTCA
1 TTTTTTCA
11403877 TTTTTTCA
1 TTTTTTCA
11403885 TTTTTTTCA
1 -TTTTTTCA
11403894 TTTTTTTCA
1 -TTTTTTCA
11403903 -TTTTTCA
1 TTTTTTCA
11403910 TTTTTT
1 TTTTTT
11403916 TTTATCTTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
6 6 0.10
7 8 0.13
8 25 0.40
9 24 0.38
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:11403916 original size:9 final size:9
Alignment explanation
Indices: 11403837--11403916 Score: 77
Period size: 9 Copynumber: 9.8 Consensus size: 9
11403827 TTTCTTCTTT
*
11403837 TTTTTTTTA
1 TTTTTTTCA
*
11403846 TTTTTTCCA
1 TTTTTTTCA
11403855 -TTTTTTC-
1 TTTTTTTCA
*
11403862 TATTTTTC-
1 TTTTTTTCA
11403870 --TTTTTCA
1 TTTTTTTCA
11403877 -TTTTTTCA
1 TTTTTTTCA
11403885 TTTTTTTCA
1 TTTTTTTCA
11403894 TTTTTTTCA
1 TTTTTTTCA
11403903 --TTTTTCA
1 TTTTTTTCA
11403910 TTTTTTT
1 TTTTTTT
11403917 TTATCTTTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.10
7 7 0.11
8 19 0.31
9 29 0.48
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:11405053 original size:3 final size:3
Alignment explanation
Indices: 11405039--11405070 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
11405029 GTACCAAGGC
11405039 CTT CTAT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT C
11405071 AATACTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:11415981 original size:19 final size:19
Alignment explanation
Indices: 11415953--11416002 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
11415943 AAAATGTTTC
* *
11415953 ATGAATAGTATTATATTGT
1 ATGAACAGTATGATATTGT
*
11415972 ATGAACAGTACCGATATTGT
1 ATGAACAGTA-TGATATTGT
*
11415992 GTGAACAGTAT
1 ATGAACAGTAT
11416003 CGACACTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (19 bp):
ATGAACAGTATGATATTGT
Found at i:11418594 original size:19 final size:20
Alignment explanation
Indices: 11418552--11418643 Score: 55
Period size: 21 Copynumber: 4.4 Consensus size: 20
11418542 ATTTTCACAT
* *
11418552 ATTTTTCAATAATTGGTATC
1 ATTTTTCAACAATTGATATC
11418572 -TTTTT-AACAATTGATATC
1 ATTTTTCAACAATTGATATC
* *
11418590 ATTTTATTTTATTAACAAATGATATC
1 -----ATTTT-TCAACAATTGATATC
*
11418616 ATTTTATTAACAATTGATAT-
1 ATTTT-TCAACAATTGATATC
11418636 ATTTTTCA
1 ATTTTTCA
11418644 TTAAATATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
18 11 0.19
19 7 0.12
20 5 0.08
21 19 0.32
24 4 0.07
25 1 0.02
26 12 0.20
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTTTCAACAATTGATATC
Found at i:11418641 original size:21 final size:21
Alignment explanation
Indices: 11418595--11418640 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
11418585 ATATCATTTT
11418595 ATTTTATTAACAAATGATATC
1 ATTTTATTAACAAATGATATC
*
11418616 ATTTTATTAACAATTGATAT-
1 ATTTTATTAACAAATGATATC
11418636 ATTTT
1 ATTTT
11418641 TCATTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (21 bp):
ATTTTATTAACAAATGATATC
Found at i:11424291 original size:16 final size:16
Alignment explanation
Indices: 11424265--11424302 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
11424255 TCTACTAAAG
11424265 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
11424282 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
11424298 CATGT
1 CATGT
11424303 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:11434232 original size:12 final size:11
Alignment explanation
Indices: 11434217--11434288 Score: 67
Period size: 12 Copynumber: 6.4 Consensus size: 11
11434207 AAAAATAATG
11434217 AAAAAATGAAA
1 AAAAAATGAAA
*
11434228 TAAAAAAGGAGAA
1 -AAAAAATGA-AA
11434241 AAAAAATGAAA
1 AAAAAATGAAA
*
11434252 AAGAAA--AAA
1 AAAAAATGAAA
*
11434261 GAAAAATGAATGA
1 AAAAAATGAA--A
11434274 AAAAAATGAAA
1 AAAAAATGAAA
11434285 AAAA
1 AAAA
11434289 GAAGGGTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
9 7 0.14
11 14 0.29
12 16 0.33
13 12 0.24
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (11 bp):
AAAAAATGAAA
Found at i:11434266 original size:33 final size:33
Alignment explanation
Indices: 11434206--11434288 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
11434196 TTTTGCTTGA
** * *
11434206 AAAAAATAATGAAAAAATGAAATAAAAAAGGA-G
1 AAAAAA-AATGAAAAAAAAAAAGAAAAAAGAATG
*
11434239 AAAAAAAATGAAAAAGAAAAAAGAAAAATGAATG
1 AAAAAAAATGAAAAA-AAAAAAGAAAAAAGAATG
11434273 -AAAAAAATGAAAAAAA
1 AAAAAAAATGAAAAAAA
11434289 GAAGGGTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
32 11 0.26
33 31 0.72
34 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (33 bp):
AAAAAAAATGAAAAAAAAAAAGAAAAAAGAATG
Found at i:11435376 original size:55 final size:55
Alignment explanation
Indices: 11435291--11435967 Score: 1030
Period size: 55 Copynumber: 12.3 Consensus size: 55
11435281 AGATTTCCCA
* *
11435291 ACGATTATTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
11435346 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
11435401 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
11435456 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
11435511 ACGACTGTTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
11435566 ACGATTGATGAGGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
11435621 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
11435676 ACGACTGTTGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
11435731 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
11435786 ACGACTGTTGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGAGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
11435841 ACGATTGATGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGTGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
11435896 AAGATTTGTTGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAGCAGAC
1 ACGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
11435952 ACGATTGATGAAGATT
1 ACGATTGTTGAAGATT
11435968 CTTCAAGTTC
Statistics
Matches: 568, Mismatches: 53, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
55 518 0.91
56 50 0.09
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:11436050 original size:51 final size:52
Alignment explanation
Indices: 11435979--11436114 Score: 163
Period size: 51 Copynumber: 2.6 Consensus size: 52
11435969 TTCAAGTTCC
11435979 TACTCCCTAAGAAAGAGGGAGCGAACCCGTT-GACAG-AA-GATCGAGTTCTA
1 TACTCCCTAAGAAAGAGGGAGCGAACCCGTTCG-CAGAAATGATCGAGTTCTA
* * * *
11436029 TACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCGCAGAAAATTGTTCGAGTTCTA
1 TACT-CCCTAAGAAAGAGGGAGCGAACCCGTTCGCAG-AAA-TGATCGAGTTCTA
11436084 TACTCCCTAA-AAATGAGGGAGCGAACCCGTT
1 TACTCCCTAAGAAA-GAGGGAGCGAACCCGTT
11436115 TTCCGAATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
50 4 0.06
51 27 0.38
52 1 0.01
53 5 0.07
54 20 0.28
55 15 0.21
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (52 bp):
TACTCCCTAAGAAAGAGGGAGCGAACCCGTTCGCAGAAATGATCGAGTTCTA
Found at i:11440930 original size:2 final size:2
Alignment explanation
Indices: 11440923--11440985 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
11440913 CAAGTTAAAG
11440923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11440965 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
11440986 CAGAGAGAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11442424 original size:95 final size:95
Alignment explanation
Indices: 11442261--11442438 Score: 250
Period size: 95 Copynumber: 1.9 Consensus size: 95
11442251 TTAAGAGTAG
** *
11442261 GTTATACACTTCTTACAAAAAAGAAGTTGATAAACTACTACTGTTTAGCAGCGAAAAAACTATGG
1 GTTATACACTTCTTACAAAAAAGAAGTCAATAAACTACTACTGTTTAGAAGCGAAAAAACTATGG
** *
11442326 TGACTGAGAGTCGTAGCATTCATCCTTTTA
66 TGACCAACAGTCGTAGCATTCATCCTTTTA
* * * *
11442356 GTTATACACTTCTTACAAAAAAGGAGTCAATAAACTACTAGTTTTTA-AATGCGTAAAAACTATG
1 GTTATACACTTCTTACAAAAAAGAAGTCAATAAACTACTACTGTTTAGAA-GCGAAAAAACTATG
11442420 GTGACCAACAGTCGTAGCA
65 GTGACCAACAGTCGTAGCA
11442439 GTAATCTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 1 0.01
95 71 0.99
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (95 bp):
GTTATACACTTCTTACAAAAAAGAAGTCAATAAACTACTACTGTTTAGAAGCGAAAAAACTATGG
TGACCAACAGTCGTAGCATTCATCCTTTTA
Found at i:11444421 original size:35 final size:35
Alignment explanation
Indices: 11444382--11444451 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
11444372 ACAAAAGTCC
* *
11444382 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
11444417 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
11444452 CAAAATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.31
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
Found at i:11445025 original size:35 final size:35
Alignment explanation
Indices: 11444953--11445026 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
11444943 CAATATTATT
**
11444953 TTGAAGTATTTTAGAATTTGGGGTTTAGAATGTAA
1 TTGAAGTATTTTAGAATTTGGGGTTTAGAATAAAA
* *
11444988 TTGAATTATTTTGGAATTTGGGGTTTAGAATAAAA
1 TTGAAGTATTTTAGAATTTGGGGTTTAGAATAAAA
11445023 TTGA
1 TTGA
11445027 GGACTGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.43
Consensus pattern (35 bp):
TTGAAGTATTTTAGAATTTGGGGTTTAGAATAAAA
Found at i:11448364 original size:21 final size:21
Alignment explanation
Indices: 11448338--11448385 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
11448328 CCATCTTAAC
11448338 GTTTTGAAGTCAAAAAAGGAA
1 GTTTTGAAGTCAAAAAAGGAA
11448359 GTTTTGAAGTCAAAAAAGGAA
1 GTTTTGAAGTCAAAAAAGGAA
11448380 GTTTTG
1 GTTTTG
11448386 GTCAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.29
Consensus pattern (21 bp):
GTTTTGAAGTCAAAAAAGGAA
Found at i:11452003 original size:39 final size:39
Alignment explanation
Indices: 11451949--11452078 Score: 181
Period size: 39 Copynumber: 3.3 Consensus size: 39
11451939 AAGGACATGA
* * *
11451949 GGTAATGATTTACCCT-ATGCACAAAGCAGAGGAACCTAC
1 GGTAAGGACTTACCCTGA-GCACAAAGCAGAGGAACCTGC
11451988 GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAACCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAACCTGC
* * *
11452027 GGTAAGAACTTACCCTGAGCACAAAGCTGAGGAGCCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAACCTGC
*
11452066 AGTAAGGACTTAC
1 GGTAAGGACTTAC
11452079 AAGTCATAGA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 81 0.99
40 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (39 bp):
GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAACCTGC
Found at i:11457749 original size:2 final size:2
Alignment explanation
Indices: 11457737--11457777 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
11457727 TATGTTTAAA
11457737 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11457778 GGTATTGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11466971 original size:34 final size:34
Alignment explanation
Indices: 11466895--11467030 Score: 159
Period size: 34 Copynumber: 3.9 Consensus size: 34
11466885 GGGCAAGTCA
11466895 ATCTTAAGCCTTCACCAAAGAAG-AGTGAAGCAAACC
1 ATCTTAAGCCTTCACCAAAG-AGTAGTGAAGC--ACC
**
11466931 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCACC
* *
11466965 ATCTTAAGCCTTCA-TAGAGGAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACCA-AAGAGTAGTGAAGCACC
** *
11466999 ATCTTAAGCCTTCACTGAAGAATAGTGAAGCA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCA
11467031 AATCCATCCA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
34 59 0.67
35 3 0.03
36 26 0.30
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (34 bp):
ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCACC
Found at i:11467025 original size:68 final size:69
Alignment explanation
Indices: 11466895--11467030 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 69
11466885 GGGCAAGTCA
* *
11466895 ATCTTAAGCCTTCACCAAAGAAGAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAGTAGTGAA
1 ATCTTAAGCCTTCACCAAAGAAGAGTGAAGC-AACCATCTTAAGCCTTCACCGAAGAATAGTGAA
11466960 GCACC
65 GCACC
* * * *
11466965 ATCTTAAGCCTTCA-TAGAGGAGTAGTGAAGC-ACCATCTTAAGCCTTCACTGAAGAATAGTGAA
1 ATCTTAAGCCTTCACCAAAGAAG-AGTGAAGCAACCATCTTAAGCCTTCACCGAAGAATAGTGAA
11467028 GCA
65 GCA
11467031 AATCCATCCA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
68 32 0.54
69 5 0.08
70 22 0.37
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (69 bp):
ATCTTAAGCCTTCACCAAAGAAGAGTGAAGCAACCATCTTAAGCCTTCACCGAAGAATAGTGAAG
CACC
Found at i:11467558 original size:216 final size:216
Alignment explanation
Indices: 11467034--11468120 Score: 1739
Period size: 218 Copynumber: 5.0 Consensus size: 216
11467024 TGAAGCAAAT
* * *
11467034 CCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAGAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
11467099 AGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAATTTTCACAATTTATAAGTCCTACG
66 AGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* *
11467164 GGCCATCAGTAAGTCTTTTGAGCATGATGTTTAAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
131 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
11467229 CAAGATGATAAGT-CTTCGGG
196 CAAGATGATAAGTCCTTCGGG
* * *
11467249 CCATCCATAAAACCTTCGGGTGGGATATTTTCACATGAATTTGAGAATGAAATAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
* * * *
11467314 AGAAGATGAAATTTTTGAAAATAAAGAATGCGATTTTAAAAATTTCACAATTTATAAGTCATTCG
66 AGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* * *
11467379 GGCCATCAGTAAGTCTTTCGAGAATG-TGGCTTAAAATTCTTCGGGTCATCTGTAAGCCTTTAGA
131 GGCCATCAGTAAGTCTTTCGAGCATGAT-GATTAAAATCCTTCGGGTCATCTGTAAGCCTTTAGA
11467443 GCAAGATGATAAGTCCTTCGGG
195 GCAAGATGATAAGTCCTTCGGG
* * *
11467465 CCATCCATAAAACCTTCGGGTGGGATATTTTCACATGAATTTGAGAATGAAAGAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
* * *
11467530 AGAAGATGAAATTTTTGAAAACAAAGAATGCGGTTTTCAAAATTTCACAATTTATAAGTCATTCG
66 AGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* *
11467595 GGCCATCAGTAAGTCTTTCGAGCATGAGGCTTAAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
131 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
11467660 CAAGATGATAAGTCCTTCGGG
196 CAAGATGATAAGTCCTTCGGG
* *
11467681 CCATCCATAAAACCTTTGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAAAGATGTTT
1 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATG-A-AAAAATGATGTTT
* *
11467746 TAAGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCCT
64 TAAGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTT
* *
11467811 CGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAAATCCTTCAGGTCATCTGTAAGCCTTTAG
129 CGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAATCCTTCGGGTCATCTGTAAGCCTTTAG
* *
11467876 AGCAAGATGATAAGTCTTTCAGG
194 AGCAAGATGATAAGTCCTTCGGG
11467899 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAGAAAAATGATGTTT
1 CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATG-A-AAAAATGATGTTT
* * * *
11467964 TAAGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAATTTTCATAATTTATAAGTCCCT
64 TAAGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTT
* * *
11468029 CGGGCCATCAATAAGTCTTTCGAGCATGATGATT-AAATCCTTCAGGTTATCTGTAAGCCTTTAG
129 CGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAATCCTTCGGGTCATCTGTAAGCCTTTAG
*
11468093 AGCAAGATGATAAGTCCTTCAGG
194 AGCAAGATGATAAGTCCTTCGGG
11468116 CCATC
1 CCATC
11468121 AGTAAGTCTT
Statistics
Matches: 823, Mismatches: 44, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
214 1 0.00
215 191 0.23
216 261 0.32
217 57 0.07
218 313 0.38
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (216 bp):
CCATCCATAAAACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
AGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
CAAGATGATAAGTCCTTCGGG
Found at i:11468126 original size:41 final size:42
Alignment explanation
Indices: 11468031--11468154 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 42
11468021 AAGTCCCTCG
*
11468031 GGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCA
1 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCA
** * * * * *
11468073 GGTTATCTGTAAGCCTTTAGAGCAAGATGA-TAAGTCCTTCA
1 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCA
11468114 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC
1 GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC
11468155 GGGTAATTTG
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 34 0.52
42 32 0.48
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (42 bp):
GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCA
Found at i:11468145 original size:83 final size:83
Alignment explanation
Indices: 11468019--11468172 Score: 254
Period size: 83 Copynumber: 1.9 Consensus size: 83
11468009 TTCATAATTT
* *
11468019 ATAAGTCCCTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTTATCTGTA
1 ATAAGTCCCTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTGTA
11468084 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
* * * *
11468102 ATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTA
1 ATAAGTCCCTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTGTA
11468167 AGCCTT
66 AGCCTT
11468173 CACCAAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 65 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (83 bp):
ATAAGTCCCTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATCTGTA
AGCCTTTAGAGCAAGATG
Done.