Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 190 of 318
Found at i:59458236 original size:46 final size:44
Alignment explanation
Indices: 59458177--59458291 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
59458167 ACAGGACAGA
* *
59458177 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
59458223 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
59458267 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
59458292 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:59458272 original size:44 final size:45
Alignment explanation
Indices: 59458177--59458310 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
59458167 ACAGGACAGA
* *
59458177 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
59458223 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
59458267 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59458311 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59464369 original size:46 final size:44
Alignment explanation
Indices: 59464310--59464424 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
59464300 ACAGGACAGA
* *
59464310 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
59464356 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
59464400 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
59464425 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:59464405 original size:44 final size:45
Alignment explanation
Indices: 59464310--59464443 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
59464300 ACAGGACAGA
* *
59464310 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
59464356 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
59464400 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59464444 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59470501 original size:46 final size:44
Alignment explanation
Indices: 59470442--59470556 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
59470432 ACAGGACAGA
* *
59470442 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
59470488 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
59470532 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
59470557 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:59470537 original size:44 final size:45
Alignment explanation
Indices: 59470442--59470575 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
59470432 ACAGGACAGA
* *
59470442 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
59470488 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
59470532 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59470576 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59472568 original size:15 final size:15
Alignment explanation
Indices: 59472545--59472574 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59472535 AACATATGTA
*
59472545 CATTGTTTCACATAT
1 CATTATTTCACATAT
59472560 CATTATTTCACATAT
1 CATTATTTCACATAT
59472575 TTCTCATCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (15 bp):
CATTATTTCACATAT
Found at i:59474024 original size:23 final size:22
Alignment explanation
Indices: 59473981--59474024 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
59473971 ATTTTGTTCA
*
59473981 ATTTTAACTTTTATTTAAAAAC
1 ATTTTAACTTTTATATAAAAAC
* *
59474003 ATTTTAATTTGTTATATCAAAA
1 ATTTTAACTT-TTATATAAAAA
59474025 TAAATTATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTTAACTTTTATATAAAAAC
Found at i:59478433 original size:17 final size:18
Alignment explanation
Indices: 59478401--59478463 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 18
59478391 AGATATTAAA
*
59478401 AATATATTTTTTATTTTTT
1 AATA-ATTTTTAATTTTTT
**
59478420 AATAA-TTTTAATTTTAA
1 AATAATTTTTAATTTTTT
59478437 AATAATTTTTATATTTTTT
1 AATAATTTTTA-ATTTTTT
59478456 --TAATTTTT
1 AATAATTTTT
59478464 TGAATTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 22 0.59
18 6 0.16
19 9 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
AATAATTTTTAATTTTTT
Found at i:59478470 original size:37 final size:35
Alignment explanation
Indices: 59478399--59478475 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 35
59478389 AAAGATATTA
59478399 AAAATATATTTTTTATTTTTTAATAATTTTAATTTT
1 AAAATATATTTTTTATTTTTTAATAATTTTAA-TTT
*
59478435 AAAATA-ATTTTTATATTTTTTTAAT-TTTTTGAATTT
1 AAAATATATTTTT-TA-TTTTTTAATAATTTT-AATTT
59478471 AAAAT
1 AAAAT
59478476 GTTAATTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
35 6 0.16
36 20 0.54
37 11 0.30
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (35 bp):
AAAATATATTTTTTATTTTTTAATAATTTTAATTT
Found at i:59483011 original size:16 final size:16
Alignment explanation
Indices: 59482986--59483044 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
59482976 AGTCGTTCTC
59482986 TTTATAATAATTATTT
1 TTTATAATAATTATTT
*
59483002 TTTATGATAA-TATTT
1 TTTATAATAATTATTT
59483017 TATTATAATAATTAAGTTT
1 T-TTATAATAATT-A-TTT
*
59483036 GTTATAATA
1 TTTATAATA
59483045 TTGAGCTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.17
16 17 0.47
17 1 0.03
18 9 0.25
19 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
TTTATAATAATTATTT
Found at i:59497294 original size:9 final size:9
Alignment explanation
Indices: 59497280--59497306 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
59497270 TATTCCCTGT
59497280 AAAATAATA
1 AAAATAATA
59497289 AAAATAATA
1 AAAATAATA
59497298 AAAATAATA
1 AAAATAATA
59497307 GTAAAGGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAATAATA
Found at i:59498402 original size:20 final size:18
Alignment explanation
Indices: 59498377--59498413 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
59498367 ATTGCTAAGT
59498377 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
59498397 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
59498414 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:59501409 original size:46 final size:45
Alignment explanation
Indices: 59501305--59501522 Score: 172
Period size: 46 Copynumber: 4.8 Consensus size: 45
59501295 AGATTTGTGT
* * * * *
59501305 GCCAGTGTAAGACCATGTATGGGACATGGCATC-GGCATTGAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CAGATGAGA
*
59501353 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGA
* * **
59501399 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGA
* ** * ** * * *
59501445 GCCAATGTCTGACATGTCCGGGACATGTGTCGGCTAC-GA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GA
*
59501489 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
59501523 ACGGTTACAT
Statistics
Matches: 136, Mismatches: 30, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 28 0.21
45 2 0.01
46 76 0.56
47 18 0.13
48 11 0.08
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGA
Found at i:59504351 original size:20 final size:18
Alignment explanation
Indices: 59504326--59504362 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
59504316 ATTGCTAAGT
59504326 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
59504346 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
59504363 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:59506984 original size:46 final size:46
Alignment explanation
Indices: 59506917--59507086 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
59506907 TGTAACCCGC
*
59506917 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
59506963 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * ** *
59507013 -C-TCA-CGAACTCAGACTTAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
59507056 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
59507087 TTCAGAATTG
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 56 0.56
47 24 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:59507788 original size:20 final size:20
Alignment explanation
Indices: 59507763--59507803 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
59507753 TAAATTCTAA
* *
59507763 AAAGATAAATACATTTAATT
1 AAAGATAAATAAATATAATT
59507783 AAAGATAAATAAATATAATT
1 AAAGATAAATAAATATAATT
59507803 A
1 A
59507804 GAATCAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAGATAAATAAATATAATT
Found at i:59509605 original size:30 final size:30
Alignment explanation
Indices: 59509571--59509630 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
59509561 TACTTTATTA
59509571 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
59509601 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
59509631 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:59518380 original size:12 final size:11
Alignment explanation
Indices: 59518352--59518388 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
59518342 CTTTTGGGCC
*
59518352 TTTGTTTTTTC
1 TTTGTTTTTTA
59518363 TTTGTTTTTTA
1 TTTGTTTTTTA
59518374 TTCTGTTTTTTA
1 TT-TGTTTTTTA
59518386 TTT
1 TTT
59518389 TCAACCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.05, C:0.05, G:0.08, T:0.81
Consensus pattern (11 bp):
TTTGTTTTTTA
Found at i:59519857 original size:57 final size:58
Alignment explanation
Indices: 59519795--59519922 Score: 136
Period size: 57 Copynumber: 2.2 Consensus size: 58
59519785 TACTAGTTCA
* * * *
59519795 GGCTAAATCCTTTTTATGACATATGCTCTAAAGAGCTTGAT-CT-GGATTACCTGTCCG
1 GGCTAAATCCTTTTCATAACATATGCTCGAAAGAGCTT-ATACTAGGATTACCCGTCCG
* * * * *
59519852 GGCTAAAT-CTAATTCATAACATATGCTCGAGAGGGCTTATATTAGGATTACCCGTCTG
1 GGCTAAATCCT-TTTCATAACATATGCTCGAAAGAGCTTATACTAGGATTACCCGTCCG
59519910 GGCTAAATCCTTT
1 GGCTAAATCCTTT
59519923 CTATAATAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
56 4 0.07
57 30 0.53
58 21 0.37
59 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (58 bp):
GGCTAAATCCTTTTCATAACATATGCTCGAAAGAGCTTATACTAGGATTACCCGTCCG
Found at i:59526577 original size:2 final size:2
Alignment explanation
Indices: 59526570--59526610 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
59526560 GAGTTCACGT
* *
59526570 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59526611 TTAATCTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59526893 original size:22 final size:21
Alignment explanation
Indices: 59526868--59526908 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
59526858 GAAGGAATAG
59526868 TTATATAAAATTTTAAATTAAT
1 TTAT-TAAAATTTTAAATTAAT
*
59526890 TTATTTAAATTTTAAATTA
1 TTATTAAAATTTTAAATTA
59526909 GTAATTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATTAAAATTTTAAATTAAT
Found at i:59534500 original size:5 final size:5
Alignment explanation
Indices: 59534492--59534543 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
59534482 TGAAATTTTC
* * *
59534492 TCGAA TCGAG TCGAG T-GAGA TAGAA TTCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGA-A TCGAA T-CGAA TCGAA TCGAA TCGAA TCGAA
59534543 T
1 T
59534544 ATATTTGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 2 0.05
5 33 0.80
6 6 0.15
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:59536363 original size:16 final size:15
Alignment explanation
Indices: 59536338--59536371 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
59536328 TTATATTATT
*
59536338 ATAATAATAAAATAA
1 ATAATAATAAAAGAA
59536353 ATAAGTAATAAAAGAA
1 ATAA-TAATAAAAGAA
59536369 ATA
1 ATA
59536372 GAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (15 bp):
ATAATAATAAAAGAA
Found at i:59538722 original size:15 final size:17
Alignment explanation
Indices: 59538702--59538742 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
59538692 AATAAATCAT
59538702 AAAATAAATAA-A-ATA
1 AAAATAAATAATACATA
59538717 AAAATAAATAATACATA
1 AAAATAAATAATACATA
59538734 AAATATAAA
1 AAA-ATAAA
59538743 GTTTAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 6 0.26
18 5 0.22
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAAATAATACATA
Found at i:59540036 original size:22 final size:21
Alignment explanation
Indices: 59540011--59540053 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
59540001 TGAAAATGGA
* *
59540011 AAATAGATAAATAAATAAAAAG
1 AAATAGA-AAAGAAAAAAAAAG
*
59540033 AAATCGAAAAGAAAAAAAAAG
1 AAATAGAAAAGAAAAAAAAAG
59540054 GGAGAAATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (21 bp):
AAATAGAAAAGAAAAAAAAAG
Found at i:59541209 original size:44 final size:44
Alignment explanation
Indices: 59541161--59541388 Score: 167
Period size: 44 Copynumber: 5.2 Consensus size: 44
59541151 GTATATTCAG
*
59541161 TCTACTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGA
1 TCTACTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGA
* * ** * * *
59541205 TCTACTCTACTGGAACTTCAAGGAGATACGA-A-TTGTGGCTTCGA
1 TCTACTCCAATGCCATTTCAGGGAGA-A-GAGATTTGTAGCTTCGA
* **
59541249 GCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGA
1 TCTACTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGA
* * * ** * * * * * *
59541293 TCTTCTTCACTGGAACTTCAAGGAGATACAAACTATG--GTTTCGA
1 TCTACTCCAATGCCATTTCAGGGAGA-AGAGA-TTTGTAGCTTCGA
* **
59541337 GCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGA
1 TCTACTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGA
59541381 TCTACTCC
1 TCTACTCC
59541389 GCTGAAACTT
Statistics
Matches: 129, Mismatches: 47, Indels: 16
0.67 0.24 0.08
Matches are distributed among these distances:
42 5 0.04
43 5 0.04
44 109 0.84
45 5 0.04
46 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTACTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGA
Found at i:59541450 original size:88 final size:88
Alignment explanation
Indices: 59541165--59541416 Score: 389
Period size: 88 Copynumber: 2.9 Consensus size: 88
59541155 ATTCAGTCTA
* *
59541165 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCTACTGGAACTTCAAGGAG
1 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAG
* *
59541230 ATACGAATTGTGGCTTCGAGCCG
66 ATAAGAATTGTGGTTTCGAGCCG
* *
59541253 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTTCTTCACTGGAACTTCAAGGAG
1 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAG
* *
59541318 ATACA-AACTATGGTTTCGAGCCG
66 ATA-AGAATTGTGGTTTCGAGCCG
* * *
59541341 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAATGAG
1 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAG
59541406 ATAAGAATTGT
66 ATAAGAATTGT
59541417 TGATTTCAAC
Statistics
Matches: 147, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.01
88 146 0.99
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (88 bp):
CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGGAACTTCAAGGAG
ATAAGAATTGTGGTTTCGAGCCG
Found at i:59541750 original size:64 final size:64
Alignment explanation
Indices: 59541671--59541797 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
59541661 CATGTATCTG
*
59541671 TGCTTATGCCAAATAATTAAGATGTTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGA
1 TGCTTATGCCAAATAATTAAGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGA
* *
59541735 TGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TGCTTATGCCAAATAATTAAGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
59541798 TTATGAATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (64 bp):
TGCTTATGCCAAATAATTAAGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGA
Found at i:59546480 original size:19 final size:19
Alignment explanation
Indices: 59546438--59546484 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
59546428 TGTGAAAATC
*
59546438 CAATGCAAATGATGCAATG
1 CAATGCAAATGATGCAAAG
59546457 CAATGCAAATGCATG-AAAG
1 CAATGCAAATG-ATGCAAAG
*
59546476 GAATGCAAA
1 CAATGCAAA
59546485 AGAAAGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (19 bp):
CAATGCAAATGATGCAAAG
Found at i:59548981 original size:16 final size:16
Alignment explanation
Indices: 59548960--59549006 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
59548950 AAAAATTTGC
59548960 AATAAATCATAAAATA
1 AATAAATCATAAAATA
59548976 AATAAA-C-TAAAAATA
1 AATAAATCAT-AAAATA
59548991 AAT-AATACATAAAATA
1 AATAAAT-CATAAAATA
59549007 TAAAGTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.11
15 10 0.37
16 13 0.48
17 1 0.04
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAATCATAAAATA
Found at i:59548990 original size:15 final size:17
Alignment explanation
Indices: 59548970--59549010 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
59548960 AATAAATCAT
59548970 AAAATAAATAA-AC-TA
1 AAAATAAATAATACATA
59548985 AAAATAAATAATACATA
1 AAAATAAATAATACATA
59549002 AAATATAAA
1 AAA-ATAAA
59549011 GTTTAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.48
16 2 0.09
17 5 0.22
18 5 0.22
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAAATAATACATA
Found at i:59552690 original size:29 final size:28
Alignment explanation
Indices: 59552658--59552760 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
59552648 GTGACGAGAT
* *
59552658 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
59552687 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
59552716 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
59552745 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59552761 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:59560487 original size:29 final size:28
Alignment explanation
Indices: 59560455--59560557 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
59560445 GTGACGAGAT
* *
59560455 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
59560484 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
59560513 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
59560542 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59560558 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:59572622 original size:40 final size:39
Alignment explanation
Indices: 59572577--59572706 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
59572567 CGGAATATAA
59572577 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
59572617 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59572657 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
59572697 CCGGATATAA
1 CCGGATATAA
59572707 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:59572721 original size:40 final size:40
Alignment explanation
Indices: 59572593--59572744 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
59572583 ATAACCATGT
* * *
59572593 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
59572633 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
59572673 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
59572713 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
59572745 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:59572727 original size:80 final size:80
Alignment explanation
Indices: 59572593--59572742 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
59572583 ATAACCATGT
*
59572593 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
59572657 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
59572673 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
59572736 CCCGGAT
64 CCCGGAT
59572743 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:59580649 original size:40 final size:39
Alignment explanation
Indices: 59580604--59580733 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
59580594 CGGAATATAA
59580604 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
59580644 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59580684 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
59580724 CCGGATATAA
1 CCGGATATAA
59580734 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:59580748 original size:40 final size:40
Alignment explanation
Indices: 59580620--59580770 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
59580610 ATAACCATGT
* * *
59580620 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
59580660 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
59580700 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
59580740 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
59580771 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:59580754 original size:80 final size:79
Alignment explanation
Indices: 59580620--59580768 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
59580610 ATAACCATGT
* *
59580620 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
59580685 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
59580700 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
59580763 CCGGAT
64 CCGGAT
59580769 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:59583034 original size:43 final size:42
Alignment explanation
Indices: 59582951--59583060 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
59582941 AATTTGAGAT
*
59582951 TTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACATCGACATCGTATTTGA
* * * *
59582993 TTTCGTGTAAGACCCTGTCTGGGATAGT-GACATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACA-TCGACATCG-TATTTGA
* *
59583036 TTACATGTAAGACCATATCTTGGAC
1 TTACATGTAAGACCATGTCTGGGAC
59583061 GTTGGCATTG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 28 0.51
43 27 0.49
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATCGACATCGTATTTGA
Found at i:59589700 original size:24 final size:24
Alignment explanation
Indices: 59589673--59589722 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
59589663 TTACTTTTCT
59589673 ATAGCTATTTGATAAGTTTAACTA
1 ATAGCTATTTGATAAGTTTAACTA
59589697 ATAGCTATTTGATAAGTTTAACTA
1 ATAGCTATTTGATAAGTTTAACTA
59589721 AT
1 AT
59589723 TGCAATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (24 bp):
ATAGCTATTTGATAAGTTTAACTA
Found at i:59589730 original size:24 final size:24
Alignment explanation
Indices: 59589673--59589730 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
59589663 TTACTTTTCT
*
59589673 ATAGCTATTTGATAAGTTTAACTA
1 ATAGCAATTTGATAAGTTTAACTA
*
59589697 ATAGCTATTTGATAAGTTTAACTA
1 ATAGCAATTTGATAAGTTTAACTA
*
59589721 ATTGCAATTT
1 ATAGCAATTT
59589731 ACTTTTCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (24 bp):
ATAGCAATTTGATAAGTTTAACTA
Found at i:59591128 original size:6 final size:6
Alignment explanation
Indices: 59591117--59591142 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
59591107 CAGAAGAAAA
59591117 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
59591143 GCAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:59603529 original size:1 final size:1
Alignment explanation
Indices: 59603523--59603552 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
59603513 ACTCGAAGGC
*
59603523 TTTTTTTTTTTCTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
59603553 AAGTTAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:59607597 original size:27 final size:27
Alignment explanation
Indices: 59607557--59607668 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
59607547 AGGAAGCGTC
*
59607557 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
59607584 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
59607611 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
59607639 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
59607665 CTGG
1 CTGG
59607669 CAGCCATACT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:59607661 original size:54 final size:54
Alignment explanation
Indices: 59607557--59607668 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
59607547 AGGAAGCGTC
*
59607557 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
59607611 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
59607665 CTGG
1 CTGG
59607669 CAGCCATACT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:59614131 original size:27 final size:27
Alignment explanation
Indices: 59614091--59614202 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
59614081 AGGAAGCGTC
*
59614091 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
59614118 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
59614145 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
59614173 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
59614199 CTGG
1 CTGG
59614203 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:59614195 original size:54 final size:54
Alignment explanation
Indices: 59614091--59614202 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
59614081 AGGAAGCGTC
*
59614091 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
59614145 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
59614199 CTGG
1 CTGG
59614203 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:59617522 original size:22 final size:22
Alignment explanation
Indices: 59617497--59617540 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59617487 AACATTATTT
*
59617497 ATTAATTAATTCAATTAGATAA
1 ATTAATTAATTCAATTAAATAA
**
59617519 ATTAATTTTTTCAATTAAATAA
1 ATTAATTAATTCAATTAAATAA
59617541 TTTTCTTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAATTAATTCAATTAAATAA
Found at i:59626267 original size:75 final size:75
Alignment explanation
Indices: 59626144--59626294 Score: 284
Period size: 75 Copynumber: 2.0 Consensus size: 75
59626134 TTCCATGCAA
59626144 TGAGTTTTTGCAAAGATCATTTATGAGAGCATAATTATGTTTTACTTTGTTTTTAACATTCATTA
1 TGAGTTTTTGCAAAGATCATTTATGAGAGCATAATTATGTTTTACTTTGTTTTTAACATTCATTA
59626209 AGTATAAGTG
66 AGTATAAGTG
* *
59626219 TGAGTTTTTGCAAAGATCATTTATGATAGCATAATTATGTTTTACTTTGTTTTTAATATTCATTA
1 TGAGTTTTTGCAAAGATCATTTATGAGAGCATAATTATGTTTTACTTTGTTTTTAACATTCATTA
59626284 AGTATAAGTG
66 AGTATAAGTG
59626294 T
1 T
59626295 TAAAAAGGGG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.47
Consensus pattern (75 bp):
TGAGTTTTTGCAAAGATCATTTATGAGAGCATAATTATGTTTTACTTTGTTTTTAACATTCATTA
AGTATAAGTG
Found at i:59628206 original size:38 final size:38
Alignment explanation
Indices: 59628080--59628206 Score: 182
Period size: 38 Copynumber: 3.3 Consensus size: 38
59628070 ACACTAGAAA
* * * *
59628080 TAAGCTTGAATAACATCGGCACTAAGCCTGGTAGGCAC
1 TAAGCCTGAATAACACCAGCACTAAGCCTGCTAGGCAC
* *
59628118 TAAGCCTGAAAAACACCAGTACTAAGCCTGCTAGGCAC
1 TAAGCCTGAATAACACCAGCACTAAGCCTGCTAGGCAC
* *
59628156 TAAGCCTAAATAACACCAGCACTAAACCTGCTAGGCAC
1 TAAGCCTGAATAACACCAGCACTAAGCCTGCTAGGCAC
59628194 TAAGCCTGAATAA
1 TAAGCCTGAATAA
59628207 TAGTACGGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (38 bp):
TAAGCCTGAATAACACCAGCACTAAGCCTGCTAGGCAC
Found at i:59631521 original size:2 final size:2
Alignment explanation
Indices: 59631514--59631544 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59631504 TCTATTACTT
59631514 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 T
59631545 TTATCCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59631669 original size:26 final size:26
Alignment explanation
Indices: 59631640--59631693 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
59631630 TATCTAAAGC
59631640 TCAAATCAGTTGGATTTTTTTTTTAT
1 TCAAATCAGTTGGATTTTTTTTTTAT
59631666 TCAAATCAGTTGGATTTTTTTTTTAT
1 TCAAATCAGTTGGATTTTTTTTTTAT
59631692 TC
1 TC
59631694 TTGAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.57
Consensus pattern (26 bp):
TCAAATCAGTTGGATTTTTTTTTTAT
Found at i:59631721 original size:2 final size:2
Alignment explanation
Indices: 59631716--59631748 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
59631706 ATGTAACCTT
59631716 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59631749 CATCCTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59633377 original size:30 final size:30
Alignment explanation
Indices: 59633343--59633400 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
59633333 ACCGTAGAGA
59633343 TAAGCTATTGTTTCTTTGGTTTCCTGTCGG
1 TAAGCTATTGTTTCTTTGGTTTCCTGTCGG
59633373 TAAGCTATTGTTTCTTTGGTTTCCTGTC
1 TAAGCTATTGTTTCTTTGGTTTCCTGTC
59633401 TTCATACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.10, C:0.17, G:0.21, T:0.52
Consensus pattern (30 bp):
TAAGCTATTGTTTCTTTGGTTTCCTGTCGG
Found at i:59639155 original size:25 final size:25
Alignment explanation
Indices: 59639121--59639195 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
59639111 TTGGAGAGGT
59639121 TTAAAGGGGTAGCTTAGGAAATGAA
1 TTAAAGGGGTAGCTTAGGAAATGAA
59639146 TTAAAGGGGTAGCTTAGGAAATGAA
1 TTAAAGGGGTAGCTTAGGAAATGAA
59639171 TTAAAGGGGTAGCTTAGGAAATGAA
1 TTAAAGGGGTAGCTTAGGAAATGAA
59639196 CATAGTATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.24
Consensus pattern (25 bp):
TTAAAGGGGTAGCTTAGGAAATGAA
Found at i:59653902 original size:43 final size:43
Alignment explanation
Indices: 59653854--59653937 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
59653844 GTCACCTGTA
* *
59653854 TGAATGAAGAAAGCTGCCTACAATTTAGGTATTTCAACTAAGT
1 TGAATGAAAAAAGCTGCCTACAATTCAGGTATTTCAACTAAGT
*
59653897 TGAATGAAAAAAGTTGCCTACAATTCAGGTATTTCAACTAA
1 TGAATGAAAAAAGCTGCCTACAATTCAGGTATTTCAACTAA
59653938 ACCACCTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (43 bp):
TGAATGAAAAAAGCTGCCTACAATTCAGGTATTTCAACTAAGT
Found at i:59656174 original size:2 final size:2
Alignment explanation
Indices: 59656167--59656202 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59656157 TTATTATTTA
59656167 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
59656203 GTAGTAGGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59656736 original size:47 final size:47
Alignment explanation
Indices: 59656653--59656769 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
59656643 GATATTGTTA
* *
59656653 CTGT-TACCGTTACCGTTACTGTTTCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
*
59656700 CTGTGTAGCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
*
59656747 CTGTGTACCGTACTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
59656770 ACTGTTACTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 60 0.94
48 4 0.06
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
Found at i:59656919 original size:18 final size:18
Alignment explanation
Indices: 59656898--59657088 Score: 167
Period size: 18 Copynumber: 10.6 Consensus size: 18
59656888 TAACTGATTA
*
59656898 TTACTGAATAATTTACTG
1 TTACTGAATAATTGACTG
*
59656916 TTACTGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
59656934 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
59656952 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
59656970 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
*
59656988 TTACTGAATAATTGATTG
1 TTACTGAATAATTGACTG
* *
59657006 TCACTAAATGAATT-ACTG
1 TTACTGAAT-AATTGACTG
* *
59657024 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
59657043 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
59657060 TTGCTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
59657078 TTACTGGATAA
1 TTACTGAATAA
59657089 CCGATCAATT
Statistics
Matches: 143, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
17 19 0.13
18 105 0.73
19 19 0.13
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:59657024 original size:72 final size:71
Alignment explanation
Indices: 59656886--59657078 Score: 196
Period size: 72 Copynumber: 2.7 Consensus size: 71
59656876 AAAGGTATAA
* * * * * **
59656886 AATAACTGATTATTACTGAATAATTTA-CTGTTACTGGATAATTGACTGTTACTGGATATTAGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAATTGACTGTCACTAAATATTA-AC
59656950 TGTTACTG
64 TGTTACTG
*
59656958 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTCACTAAATGAATT-AC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGACTGTCACTAAAT--ATTAAC
59657022 TGTTACTG
64 TGTTACTG
* * * *
59657030 AATAACTTAATTGTTACTGAAT-ATCTGAT-TTTGCTGAATAATTGACTGT
1 AATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAATTGACTGT
59657079 TACTGGATAA
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
72 85 0.83
73 15 0.15
74 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (71 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGACTGTCACTAAATATTAACTG
TTACTG
Found at i:59657148 original size:18 final size:18
Alignment explanation
Indices: 59657127--59657168 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
59657117 GGTTATTATT
* *
59657127 GAATAATTGATTGTTACC
1 GAATAATTGACTATTACC
*
59657145 GAATAATTGACTATTACT
1 GAATAATTGACTATTACC
59657163 GAATAA
1 GAATAA
59657169 ATAATTGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (18 bp):
GAATAATTGACTATTACC
Found at i:59657149 original size:36 final size:36
Alignment explanation
Indices: 59657095--59657177 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 36
59657085 ATAACCGATC
* * * ** *
59657095 AATTGATCGATACTGAATAACTGGTTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTGAAT
*
59657131 AATTGATTGTTACCGAATAATTGACTATTACTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTGAAT
* *
59657167 AAATAATTGTT
1 AATTGATTGTT
59657178 CTGAGTGTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTACTGAAT
Found at i:59661735 original size:2 final size:2
Alignment explanation
Indices: 59661723--59661759 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
59661713 GAATTATTAT
59661723 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59661760 ATAGTAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59663410 original size:12 final size:12
Alignment explanation
Indices: 59663393--59663417 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59663383 GCCGACTACT
59663393 GTTACTGTTACC
1 GTTACTGTTACC
59663405 GTTACTGTTACC
1 GTTACTGTTACC
59663417 G
1 G
59663418 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:59663528 original size:47 final size:47
Alignment explanation
Indices: 59663474--59663564 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
59663464 TATTGTTTCG
* **
59663474 GATTTGTTCCGATGAGGTACTCTGTGTAGCGTACTGTTACTGTTCCA
1 GATTTGTTCCGATGAGGTACTCTGTGTACCGTACTACTACTGTTCCA
59663521 GATTTGTTCCGATGAGGTACTCTGTGTACCGTACTACTACTGTT
1 GATTTGTTCCGATGAGGTACTCTGTGTACCGTACTACTACTGTT
59663565 ACTGTTACTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (47 bp):
GATTTGTTCCGATGAGGTACTCTGTGTACCGTACTACTACTGTTCCA
Found at i:59663954 original size:18 final size:18
Alignment explanation
Indices: 59663681--59663958 Score: 175
Period size: 18 Copynumber: 15.1 Consensus size: 18
59663671 AAAGGTATAA
* *
59663681 AATAACTGATTATTACTG
1 AATAATTGATTGTTACTG
* * *
59663699 AATAATTTACTGTTACCG
1 AATAATTGATTGTTACTG
* *
59663717 GATAATTGACTGTTACTG
1 AATAATTGATTGTTACTG
* * *
59663735 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
**
59663753 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* *
59663771 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
*
59663789 AATGAATT-ACTGTTACTG
1 AAT-AATTGATTGTTACTG
*
59663807 AATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
*
59663826 AATATTTGATT-TTACTG
1 AATAATTGATTGTTACTG
*
59663843 AATAATTGACTGTTACTAG
1 AATAATTGATTGTTACT-G
* * * *
59663862 ATAACCAATCAATCGGTCGATACTG
1 ------AAT-AATTGATTGTTACTG
* * * *
59663887 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
59663905 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
*
59663923 AATAATTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
59663941 AATAAATAATTGTT-CTG
1 AATAATTGATTGTTACTG
59663958 A
1 A
59663959 GTGTTAATGA
Statistics
Matches: 200, Mismatches: 48, Indels: 25
0.73 0.18 0.09
Matches are distributed among these distances:
17 21 0.10
18 146 0.73
19 20 0.10
25 4 0.02
26 9 0.05
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:59667030 original size:43 final size:42
Alignment explanation
Indices: 59666959--59667123 Score: 131
Period size: 43 Copynumber: 3.9 Consensus size: 42
59666949 CGAAAAACTC
* * * *
59666959 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAA
*
59667001 ATATCGATGCC-ACTGTCCTAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACAGGGTCTTACACGAAATCAA
* * * *
59667044 ATACGATGCTAACATCCCAAAC-GTGGTCTTACACATAAATCATA
1 ATACGATGCCAACGTCCCAGACAG-GGTCTTACAC-GAAATCA-A
* * *
59667088 AGT-CGATGCCAATGTACCAGA-TGTGGTCTTACACGA
1 A-TACGATGCCAACGTCCCAGACAG-GGTCTTACACGA
59667124 CAACACATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 43 0.43
44 27 0.27
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAA
Found at i:59670536 original size:40 final size:40
Alignment explanation
Indices: 59670454--59670703 Score: 251
Period size: 40 Copynumber: 6.3 Consensus size: 40
59670444 ACCCAAGTAT
* * ** *
59670454 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGAATATAGTCACTCGCACAAATGC
* * * *
59670492 CTTCGGGTCTTAGCCCGAATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGAATATAGTCACTCGCACAAATGC
* * *
59670532 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCAAAAATGC
1 CTTCGGGACTTAGCCCGAATATAGTC-ACTCGCACAAATGC
* * *
59670572 CTTCGGGACTTAGCTCGAA-ATTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGAATA-TAGTCACTCGCACAAATGC
*
59670612 CTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCC-GAATATAGTCACTCGCACAAATGC
* * *
59670652 CTTCGGGACTTAGCCCGGAAT-TAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCC-GAATATAGTCACTCGCACAAATGC
59670692 CTTCGGGACTTA
1 CTTCGGGACTTA
59670704 ACCCCGTTAG
Statistics
Matches: 180, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
38 11 0.06
39 16 0.09
40 150 0.83
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGAATATAGTCACTCGCACAAATGC
Found at i:59670611 original size:80 final size:79
Alignment explanation
Indices: 59670454--59670703 Score: 290
Period size: 80 Copynumber: 3.2 Consensus size: 79
59670444 ACCCAAGTAT
* * * * * * *
59670454 CTTCGGGATTTAG-CCGGATATAACCACTCGC-ACAAGGCCTTCGGGTCTTAGCCCGAATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCCGAAT-TAGT
*
59670517 CACTAGCATAAATGC
65 CACTAGCACAAATGC
* *
59670532 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCTCGAAATTAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCCG-AATTAGT
* * *
59670597 AACTCGCACCAATGC
65 CACTAGCACAAATGC
* * *
59670612 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAA
1 CTTCGGGACTTAGCCCGGATA-TAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCC-GAATTAG
*
59670676 TCACTAGCACAAATGT
64 TCACTAGCACAAATGC
59670692 CTTCGGGACTTA
1 CTTCGGGACTTA
59670704 ACCCCGTTAG
Statistics
Matches: 145, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
78 11 0.08
79 17 0.12
80 113 0.78
81 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCCGAATTAGTC
ACTAGCACAAATGC
Found at i:59670703 original size:120 final size:119
Alignment explanation
Indices: 59670479--59670703 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 119
59670469 GGATATAACC
* * * * *
59670479 ACTCGCACAAGGCCTTCGGGTCTTAGCCCGAATATGGTCACTAGCATAAATGCCTTCGGGTCTTA
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTTA
*
59670544 GCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCTCGAAATTAGTA
66 GCCCGGATATAGCAACTAGCAAAAATGCCTTCGGGACTTAGCTCGAAATTAGTA
* *
59670598 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCA-CAAGGCCTTCGGGACTTAGCCC-GAATATAGTAACTAGCACAAATGCCTTCGGGACT
* * *
59670662 TAGCCCGGA-ATTAATC-ACTAGCACAAATGTCTTCGGGACTTA
64 TAGCCCGGATA-T-AGCAACTAGCAAAAATGCCTTCGGGACTTA
59670704 ACCCCGTTAG
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
119 8 0.09
120 77 0.85
121 6 0.07
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (119 bp):
ACTCGCACAAGGCCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTTA
GCCCGGATATAGCAACTAGCAAAAATGCCTTCGGGACTTAGCTCGAAATTAGTA
Found at i:59678628 original size:40 final size:40
Alignment explanation
Indices: 59678569--59678792 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
59678559 CGGATATAAC
* * *
59678569 CACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* * *
59678608 CACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAG-
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
*
59678647 CAACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 C-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
*
59678688 AACTCG--CAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
59678726 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
59678766 CACTAGCACAAATGTCTTCGGGACTTA
1 CACTCGCACAAATGCCTTCGGGACTTA
59678793 ACCCCGTTAG
Statistics
Matches: 166, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
38 37 0.22
39 8 0.05
40 119 0.72
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:59678701 original size:78 final size:79
Alignment explanation
Indices: 59678545--59678792 Score: 274
Period size: 78 Copynumber: 3.2 Consensus size: 79
59678535 ACCCAAGTAT
* * * * * *
59678545 CTTCGGGAT-TTAG-CCGGATATAACCACTCGC-ACAAGGCCTTCGGGTCTTAGCCCGG-ATATG
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAAT-TA
*
59678606 GTCACTAGCATAAATGC
64 GTAACTAGCA-AAATGC
59678623 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAATTAGT
*
59678688 AACTCGC-AAATGC
66 AACTAGCAAAATGC
* * * *
59678701 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAA
1 CTTCGGGTCTTAGCCCGGATA-TAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAATTAG
* *
59678765 TCACTAGCACAAATGT
65 TAACTAGCA-AAATGC
*
59678781 CTTCGGGACTTA
1 CTTCGGGTCTTA
59678793 ACCCCGTTAG
Statistics
Matches: 148, Mismatches: 15, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
77 2 0.01
78 81 0.55
79 16 0.11
80 47 0.32
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTAGCAAAATGC
Found at i:59678779 original size:118 final size:119
Alignment explanation
Indices: 59678570--59678792 Score: 292
Period size: 118 Copynumber: 1.9 Consensus size: 119
59678560 GGATATAACC
* * * * *
59678570 ACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGTCTTA
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTA
*
59678635 GCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
66 GCCCGGATATAGCAACTAGCAAAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
59678689 ACTCGCA-AATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTT
* * *
59678752 AGCCCGGA-ATTAATC-ACTAGCACAAATGTCTTCGGGACTTA
65 AGCCCGGATA-T-AGCAACTAGCAAAAATGCCTTCGGGACTTA
59678793 ACCCCGTTAG
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
117 2 0.02
118 79 0.88
119 9 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (119 bp):
ACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTA
GCCCGGATATAGCAACTAGCAAAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:59678804 original size:78 final size:79
Alignment explanation
Indices: 59678570--59678792 Score: 292
Period size: 78 Copynumber: 2.8 Consensus size: 79
59678560 GGATATAACC
* * * * *
59678570 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGTCACTAGCATAAATGCCTTCGGGTCT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCACAAATGCCTTCGGGACT
*
59678633 TAGCCCGGATATAGCA
65 TAGCCCGGAT-TAGTA
* * *
59678649 ACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACT--CGCAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTT
59678712 AGCCCGGAATTAGTA
66 AGCCCGG-ATTAGTA
* *
59678727 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACAAATGTCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTT
59678792 A
66 A
59678793 ACCCCGTTAG
Statistics
Matches: 125, Mismatches: 14, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
78 68 0.54
79 9 0.07
80 46 0.37
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTT
AGCCCGGATTAGTA
Found at i:59688515 original size:40 final size:40
Alignment explanation
Indices: 59688390--59688530 Score: 101
Period size: 40 Copynumber: 3.5 Consensus size: 40
59688380 TCGAATGATG
* * * * *
59688390 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGC-GAGCT-ACTAAA
* * * *
59688430 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCTAAA
1 TCCGGGCTAAG-TCCCAAAGGCATTTGTGCGAGCTACTAAA
* *
59688470 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGCTACTA-AA
* *
59688511 -CCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCAAAGGC
59688531 TTTCGAGCGA
Statistics
Matches: 81, Mismatches: 15, Indels: 10
0.76 0.14 0.09
Matches are distributed among these distances:
39 1 0.01
40 69 0.85
41 11 0.14
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGCTACTAAA
Found at i:59699861 original size:43 final size:42
Alignment explanation
Indices: 59699743--59699897 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 42
59699733 CTCGTACAAA
* * *
59699743 GCCAACGTTCCAGACGTGGTCTTACATGT-AATCAAATATCAAT
1 GCCAACGTCCCAGATGTGGTCTTACA-GTAAATCAAATA-CGAT
* *
59699786 GCC-ACTGTCCCAGATAG-GGGCTTAC-TTGAAATCAAATACGAT
1 GCCAAC-GTCCCAGAT-GTGGTCTTACAGT-AAATCAAATACGAT
*
59699828 GCCAATGTCCCAGATGTGGTCTTACAGATAAATCATAAGT-CGAT
1 GCCAACGTCCCAGATGTGGTCTTACAG-TAAATCA-AA-TACGAT
*
59699872 GCCAACATCCCAGATGTGGTCTTACA
1 GCCAACGTCCCAGATGTGGTCTTACA
59699898 TAACAACACA
Statistics
Matches: 92, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
41 2 0.02
42 24 0.26
43 33 0.36
44 32 0.35
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
GCCAACGTCCCAGATGTGGTCTTACAGTAAATCAAATACGAT
Found at i:59702326 original size:40 final size:39
Alignment explanation
Indices: 59702161--59702344 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
59702151 AAATTGAATG
* * *
59702161 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
59702201 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
59702241 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
59702281 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
59702320 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
59702345 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:59702369 original size:80 final size:81
Alignment explanation
Indices: 59702201--59702389 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
59702191 GCTGGAAATT
* * * *
59702201 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
59702266 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
59702282 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
59702345 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
59702361 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
59702390 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:59710446 original size:40 final size:39
Alignment explanation
Indices: 59710281--59710464 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
59710271 AAATTGAATG
* * *
59710281 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
59710321 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
59710361 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
59710401 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
59710440 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
59710465 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:59710489 original size:80 final size:81
Alignment explanation
Indices: 59710321--59710509 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
59710311 GCTGGAAATT
* * * *
59710321 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
59710386 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
59710402 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
59710465 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
59710481 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
59710510 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:59715932 original size:14 final size:15
Alignment explanation
Indices: 59715915--59715951 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
59715905 TTTCTTGCAA
59715915 TATTAATTTTATT-T
1 TATTAATTTTATTAT
*
59715929 TATT-TTTTTATTAT
1 TATTAATTTTATTAT
59715943 TATTAATTT
1 TATTAATTT
59715952 ACTTTTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 7 0.37
14 9 0.47
15 3 0.16
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTAATTTTATTAT
Found at i:59722085 original size:40 final size:40
Alignment explanation
Indices: 59721977--59722146 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
59721967 CGGGATTTAA
* * * * *
59721977 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
59722017 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
59722057 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
59722097 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
59722137 CCGGATATAT
1 CCGGATATAT
59722147 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:59724429 original size:14 final size:13
Alignment explanation
Indices: 59724400--59724441 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
59724390 CATTGAATCC
*
59724400 TTTTATCTTTTTT
1 TTTTATTTTTTTT
59724413 TTTTATTTTTTTAT
1 TTTTATTTTTTT-T
59724427 TTTTATTTTTATTT
1 TTTTATTTTT-TTT
59724441 T
1 T
59724442 CATTTCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 13 0.50
15 2 0.08
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTTTTT
Found at i:59724430 original size:20 final size:21
Alignment explanation
Indices: 59724400--59724441 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
59724390 CATTGAATCC
*
59724400 TTTTATCTTTTTTTTTTATTT
1 TTTTATCTTTTATTTTTATTT
59724421 TTTTAT-TTTTATTTTTATTT
1 TTTTATCTTTTATTTTTATTT
59724441 T
1 T
59724442 CATTTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTATCTTTTATTTTTATTT
Found at i:59731285 original size:2 final size:2
Alignment explanation
Indices: 59731278--59731317 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
59731268 TTAGTTTACT
59731278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59731318 ACAACTCAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59737897 original size:23 final size:23
Alignment explanation
Indices: 59737867--59737911 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
59737857 AAGAGTTAGT
**
59737867 GAATTTTTCCTTGGAACTCAAGG
1 GAATTTTTCCTTAAAACTCAAGG
59737890 GAATTTTTCCTTAAAACTCAAG
1 GAATTTTTCCTTAAAACTCAAG
59737912 CTCAATTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (23 bp):
GAATTTTTCCTTAAAACTCAAGG
Found at i:59738050 original size:21 final size:23
Alignment explanation
Indices: 59738008--59738051 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
59737998 ATATATTGTA
* *
59738008 TTTTATTTTTTTGTTTAGTCTTT
1 TTTTATTTTCTTGTTTACTCTTT
59738031 TTTTATTTTCTT-TTT-CTCTTT
1 TTTTATTTTCTTGTTTACTCTTT
59738052 GTCGCACCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTTATTTTCTTGTTTACTCTTT
Found at i:59739464 original size:22 final size:22
Alignment explanation
Indices: 59739420--59739464 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
59739410 GTACTGGCAG
* *
59739420 TTTATCCACAAATTACTGATAA
1 TTTATCCACAAATGAATGATAA
*
59739442 TTTATCCACAAATGAATGGTAA
1 TTTATCCACAAATGAATGATAA
59739464 T
1 T
59739465 CTAACTGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (22 bp):
TTTATCCACAAATGAATGATAA
Found at i:59741323 original size:15 final size:15
Alignment explanation
Indices: 59741303--59741332 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
59741293 CCTATCTAAA
59741303 GTTATAGTGATCTAG
1 GTTATAGTGATCTAG
59741318 GTTATAGTGATCTAG
1 GTTATAGTGATCTAG
59741333 TGAAGAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (15 bp):
GTTATAGTGATCTAG
Found at i:59742466 original size:17 final size:18
Alignment explanation
Indices: 59742428--59742468 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
59742418 ATCCATATTC
*
59742428 ATTTTAGATTTTTTAATG
1 ATTTTAGATTTTTTAATA
*
59742446 ATTTTATATTTTTT-ATA
1 ATTTTAGATTTTTTAATA
59742463 ATTTTA
1 ATTTTA
59742469 AAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
ATTTTAGATTTTTTAATA
Found at i:59744429 original size:18 final size:18
Alignment explanation
Indices: 59744403--59744449 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
59744393 TTATTTTATC
* *
59744403 AATTTTTAAATTTTGTAA
1 AATTATTAAATTTTATAA
*
59744421 AATTATTAAAATTTATAA
1 AATTATTAAATTTTATAA
*
59744439 AAATATTAAAT
1 AATTATTAAAT
59744450 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
AATTATTAAATTTTATAA
Found at i:59744466 original size:20 final size:21
Alignment explanation
Indices: 59744429--59744480 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
59744419 AAAATTATTA
59744429 AAATTTATAAAAATATTAAAT
1 AAATTTATAAAAATATTAAAT
59744450 AAATTT-T-AAAATAATT-AAT
1 AAATTTATAAAAAT-ATTAAAT
*
59744469 -AATTAATAAAAA
1 AAATTTATAAAAA
59744481 CCATTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 4 0.15
19 9 0.33
20 8 0.30
21 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTATAAAAATATTAAAT
Found at i:59752506 original size:42 final size:42
Alignment explanation
Indices: 59752460--59752539 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
59752450 TGTTGAAAGC
59752460 AAGTATAATTATGATGATTTAAATGTTCAATATTAATTTGGT
1 AAGTATAATTATGATGATTTAAATGTTCAATATTAATTTGGT
59752502 AAGTATAATTATGATGATTTAAATGTTCAATATTAATT
1 AAGTATAATTATGATGATTTAAATGTTCAATATTAATT
59752540 CGGCATGGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (42 bp):
AAGTATAATTATGATGATTTAAATGTTCAATATTAATTTGGT
Found at i:59752850 original size:68 final size:65
Alignment explanation
Indices: 59752734--59753052 Score: 265
Period size: 67 Copynumber: 4.8 Consensus size: 65
59752724 TACAGATGGT
* * * *
59752734 ATGTAGCTAGGTCACATGTGTAATA-CGTGATGTATACCATGT-GTACAAGAGAGCTACGAGACA
1 ATGTAGCTAGGTCGCATGTGTGATACCATGATGTACACCATGTAG-ACAAGAGAGCTACGAG--A
59752797 TTATG
63 -TA-G
* * *
59752802 AGGTAGCTAGGTCGCATGGGTGATACTATG-TGTACACCATGTAGACAAGAGAGCTACGAGATAG
1 ATGTAGCTAGGTCGCATGTGTGATACCATGATGTACACCATGTAGACAAGAGAGCTACGAGATAG
* * * * * * *
59752866 ATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCGTGTAAACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGTGTGATACCA--TGATGTACACCATGTAGACAAGAGAGCTACGAGAT
59752931 AG
64 AG
* * * * * * *
59752933 ATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCGTGTAAACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGTGTGATACCA--TGATGTACACCATGTAGACAAGAGAGCTACGAGAT
59752998 A-
64 AG
* * * *
59752999 AAGTGGCTAGGTCACATCG-GTGATACTATG-TGTACACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCAT-GTGTGATACCATGATGTACACCATGTAG-ACAAGAGAGC
59753053 CAAAATTATG
Statistics
Matches: 216, Mismatches: 28, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
63 19 0.09
64 25 0.12
65 2 0.01
66 22 0.10
67 97 0.45
68 48 0.22
69 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.24
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGTGTGATACCATGATGTACACCATGTAGACAAGAGAGCTACGAGATAG
Found at i:59752924 original size:67 final size:67
Alignment explanation
Indices: 59752835--59752998 Score: 310
Period size: 67 Copynumber: 2.4 Consensus size: 67
59752825 TACTATGTGT
* *
59752835 ACACCATGTAGACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAA
1 ACACCGTGTAAACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAA
59752900 GG
66 GG
59752902 ACACCGTGTAAACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAA
1 ACACCGTGTAAACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAA
59752967 GG
66 GG
59752969 ACACCGTGTAAACAAGAGAGCTACGAGATA
1 ACACCGTGTAAACAAGAGAGCTACGAGATA
59752999 AAGTGGCTAG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 95 1.00
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (67 bp):
ACACCGTGTAAACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAA
GG
Found at i:59754974 original size:2 final size:2
Alignment explanation
Indices: 59754967--59754999 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
59754957 GAGACTAGTC
59754967 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59755000 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59756287 original size:67 final size:65
Alignment explanation
Indices: 59756135--59756263 Score: 172
Period size: 67 Copynumber: 2.0 Consensus size: 65
59756125 CTAGCCAGTT
* * * *
59756135 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACA
1 TATCCCGTAGCTCTCTTGTCTACATGGTG--CTACACATAGAACCACGCATGCGACCTAGCTACA
59756200 TA
64 TA
* *
59756202 TATCCCGTAGCTCTCTTGTCTACATGGTG-TACACATAGTATCAC-CATGCGACCTAGCTACAT
1 TATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACGCATGCGACCTAGCTACAT
59756264 CATAATGTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 18 0.32
64 10 0.18
67 28 0.50
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.31
Consensus pattern (65 bp):
TATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACGCATGCGACCTAGCTACATA
Found at i:59757032 original size:30 final size:30
Alignment explanation
Indices: 59756998--59757058 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59756988 TCCTTAACTC
59756998 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
59757028 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
59757058 A
1 A
59757059 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:59762332 original size:29 final size:30
Alignment explanation
Indices: 59762275--59762331 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
59762265 CTTTTGAAAA
*
59762275 TATTTACAAAAAGAGGCATCAAATTTTTAT
1 TATTTACAAAAAGAGGCACCAAATTTTTAT
59762305 TATTTACAAAAAGA-GCAACCAAATTTT
1 TATTTACAAAAAGAGGC-ACCAAATTTT
59762332 AAAAATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCACCAAATTTTTAT
Found at i:59765399 original size:40 final size:40
Alignment explanation
Indices: 59765340--59765508 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
59765330 CGGGACTTTA
* * *
59765340 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
59765380 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
59765420 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
59765460 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
59765500 CCCGGATAT
1 CCCGGATAT
59765509 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:59773431 original size:40 final size:40
Alignment explanation
Indices: 59773372--59773540 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
59773362 CGGGACTTTA
* * *
59773372 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
59773412 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
59773452 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
59773492 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
59773532 CCCGGATAT
1 CCCGGATAT
59773541 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:59778422 original size:22 final size:22
Alignment explanation
Indices: 59778394--59778437 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
59778384 GATTTGATGG
*
59778394 ATATTCTTCGAACAAATGTCCT
1 ATATTCTTCAAACAAATGTCCT
59778416 ATATTCTTCAAACAAATGTCCT
1 ATATTCTTCAAACAAATGTCCT
59778438 TCCGCACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (22 bp):
ATATTCTTCAAACAAATGTCCT
Found at i:59781075 original size:8 final size:8
Alignment explanation
Indices: 59781064--59781088 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
59781054 ATATAGACTA
59781064 AATAAAAT
1 AATAAAAT
59781072 AATAAAAT
1 AATAAAAT
59781080 AATAAAAT
1 AATAAAAT
59781088 A
1 A
59781089 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:59783251 original size:22 final size:22
Alignment explanation
Indices: 59783223--59783267 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
59783213 AAGGTGATAG
59783223 AATAAAGTTTTAATTGATAAAA
1 AATAAAGTTTTAATTGATAAAA
59783245 AATAAAGTTTTAATTGATAAAA
1 AATAAAGTTTTAATTGATAAAA
59783267 A
1 A
59783268 TCATCTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
AATAAAGTTTTAATTGATAAAA
Found at i:59797520 original size:19 final size:20
Alignment explanation
Indices: 59797498--59797538 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
59797488 TTGAAATTTA
* *
59797498 TTTAGTATT-TTTTATAAAT
1 TTTAATATTGTTTTAAAAAT
59797517 TTTAATATTGTTTTAAAAAT
1 TTTAATATTGTTTTAAAAAT
59797537 TT
1 TT
59797539 ATAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAATATTGTTTTAAAAAT
Found at i:59797539 original size:19 final size:19
Alignment explanation
Indices: 59797497--59797539 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
59797487 TTTGAAATTT
*
59797497 ATTTAGTATTTTTTATAAA
1 ATTTAATATTTTTTATAAA
*
59797516 TTTTAATATTGTTTTA-AAA
1 ATTTAATATT-TTTTATAAA
59797535 ATTTA
1 ATTTA
59797540 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTTTTATAAA
Found at i:59800584 original size:3 final size:3
Alignment explanation
Indices: 59800576--59800609 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
59800566 CACCGTTCTC
59800576 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
59800610 TTAACTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:59802462 original size:16 final size:16
Alignment explanation
Indices: 59802433--59802480 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
59802423 GTAATGCACC
*
59802433 ATTTGGAGAACTCTT-
1 ATTTGGCGAACTCTTG
*
59802448 AGTTTGGCGAGCTCTGTG
1 A-TTTGGCGAACTCT-TG
59802466 ATTTGGCGAACTCTT
1 ATTTGGCGAACTCTT
59802481 CTGTTAAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 1 0.04
16 12 0.44
17 13 0.48
18 1 0.04
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.38
Consensus pattern (16 bp):
ATTTGGCGAACTCTTG
Found at i:59803030 original size:21 final size:21
Alignment explanation
Indices: 59803005--59803046 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59802995 TTTTGCATGC
*
59803005 ATGATCAGATTTGATCAATTA
1 ATGATCAGATATGATCAATTA
* *
59803026 ATGATCTGATATGATTAATTA
1 ATGATCAGATATGATCAATTA
59803047 TCTTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (21 bp):
ATGATCAGATATGATCAATTA
Found at i:59807638 original size:22 final size:22
Alignment explanation
Indices: 59807583--59807639 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
59807573 GTCTAGGTTG
* * *
59807583 GGTGTCGTGACATCCCATGGCT
1 GGTGTCATGACATCACATGACT
*
59807605 AGTGTCGA-GACATCACATGACT
1 GGTGTC-ATGACATCACATGACT
59807627 GGTGTCATGACAT
1 GGTGTCATGACAT
59807640 TGGTGGTAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (22 bp):
GGTGTCATGACATCACATGACT
Found at i:59811738 original size:46 final size:45
Alignment explanation
Indices: 59811688--59811863 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
59811678 TGGTTGAGCA
*
59811688 TCCGAACTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
59811734 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
59811779 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
59811827 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59811864 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:59811844 original size:93 final size:93
Alignment explanation
Indices: 59811685--59811856 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
59811675 GGATGGTTGA
* * *
59811685 GCATCCGAACTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59811750 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
59811778 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59811843 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59811857 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59823434 original size:30 final size:30
Alignment explanation
Indices: 59823388--59823450 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
59823378 ACTTATTTTA
*
59823388 TTGTAAATTTTGTTATTATTTTAAAGACAT
1 TTGTAAATTATGTTATTATTTTAAAGACAT
* * *
59823418 TTGTTAATTATGTTATTATTTTAGAGGCAT
1 TTGTAAATTATGTTATTATTTTAAAGACAT
59823448 TTG
1 TTG
59823451 CTTGTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (30 bp):
TTGTAAATTATGTTATTATTTTAAAGACAT
Found at i:59834110 original size:40 final size:40
Alignment explanation
Indices: 59834053--59834238 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
59834043 TCGAATGATG
* * * *
59834053 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
59834093 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
59834133 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
59834173 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
59834214 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
59834239 AATGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59835751 original size:45 final size:45
Alignment explanation
Indices: 59835596--59835854 Score: 257
Period size: 45 Copynumber: 5.9 Consensus size: 45
59835586 TATATGAACA
* ** * * *
59835596 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTC--ATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
* *
59835639 ATGCC-ACTGTCCCAGACAG-GGTCTTACACG--AA-TCA-ATA-CA
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACATATATCG
* * * * * *
59835679 ATGTCGATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
*
59835724 ATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
*
59835769 ATGCCAACGTCCCAGACGTGGTCTTACACCAAAACACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
* * * *
59835814 ATGCCAACGTCCTAGATGGGGTCTTACACGAAAAAACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATAT
59835855 CAGAATCCTA
Statistics
Matches: 184, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
40 28 0.15
41 5 0.03
42 3 0.02
43 26 0.14
44 4 0.02
45 118 0.64
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
Found at i:59840748 original size:36 final size:36
Alignment explanation
Indices: 59840701--59840775 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
59840691 ACATCGTTGC
59840701 AACATCGACACATGAAATACATTGTGGATCCTTTCT
1 AACATCGACACATGAAATACATTGTGGATCCTTTCT
59840737 AACATCGACACATGAAATACATTGTGGATCCTTTCT
1 AACATCGACACATGAAATACATTGTGGATCCTTTCT
59840773 AAC
1 AAC
59840776 TTTGATGGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (36 bp):
AACATCGACACATGAAATACATTGTGGATCCTTTCT
Found at i:59841208 original size:36 final size:36
Alignment explanation
Indices: 59841161--59841233 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
59841151 TATAAGCAAA
*
59841161 TTCAACCAACGGTATTTCTCCCAACTGCCTTCGAAT
1 TTCAACCAACGGTATTTCTCCCAACTACCTTCGAAT
59841197 TTCAACCAACGGTATTTCTCCCAACTACCTTCGAAT
1 TTCAACCAACGGTATTTCTCCCAACTACCTTCGAAT
59841233 T
1 T
59841234 CTAAAACACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.32
Consensus pattern (36 bp):
TTCAACCAACGGTATTTCTCCCAACTACCTTCGAAT
Found at i:59847321 original size:28 final size:28
Alignment explanation
Indices: 59847290--59847362 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
59847280 TCCGTCAAGG
*
59847290 CTATCTTATATGTGGAAGACCATTGGGA
1 CTATCTTATATGTGGAAGACCATTGGAA
* **
59847318 CTATCTTATATGTGAAAGTTCATTGGAA
1 CTATCTTATATGTGGAAGACCATTGGAA
* *
59847346 CTATATTATAAGTGGAA
1 CTATCTTATATGTGGAA
59847363 ATCTGTCAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (28 bp):
CTATCTTATATGTGGAAGACCATTGGAA
Done.