Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 201 of 226
Found at i:63678360 original size:28 final size:28
Alignment explanation
Indices: 63678323--63678376 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
63678313 ATTAATTAAA
*
63678323 CTAATTAAATTAATT-ATCCTAAAATATC
1 CTAATAAAATTAATTAAT-CTAAAATATC
63678351 CTAATAAAATTAATTAATCTAAAATA
1 CTAATAAAATTAATTAATCTAAAATA
63678377 ACTTAATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (28 bp):
CTAATAAAATTAATTAATCTAAAATATC
Found at i:63678383 original size:28 final size:28
Alignment explanation
Indices: 63678323--63678383 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
63678313 ATTAATTAAA
* *
63678323 CTAATTAAATTAATTATCCTAAAATATC
1 CTAATAAAATTAATTATCCTAAAATAAC
63678351 CTAATAAAATTAATTAAT-CTAAAATAAC
1 CTAATAAAATTAATT-ATCCTAAAATAAC
*
63678379 TTAAT
1 CTAAT
63678384 GGAAGTTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (28 bp):
CTAATAAAATTAATTATCCTAAAATAAC
Found at i:63678451 original size:19 final size:19
Alignment explanation
Indices: 63678427--63678468 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
63678417 TTCTCGGCCT
*
63678427 ATTATCGATTAAATCACTA
1 ATTATCAATTAAATCACTA
* *
63678446 ATTATCAATTAAGTCGCTA
1 ATTATCAATTAAATCACTA
63678465 ATTA
1 ATTA
63678469 CCCTCAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (19 bp):
ATTATCAATTAAATCACTA
Found at i:63678910 original size:18 final size:17
Alignment explanation
Indices: 63678883--63678920 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
63678873 GTATTATAAA
63678883 ATAAATTCATTTTAATT
1 ATAAATTCATTTTAATT
63678900 ATAATATTCATTTTAATT
1 ATAA-ATTCATTTTAATT
63678918 ATA
1 ATA
63678921 TAAACATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAAATTCATTTTAATT
Found at i:63681554 original size:17 final size:17
Alignment explanation
Indices: 63681496--63681555 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
63681486 ATCATGTGGT
*
63681496 GGACAGTTTTGCCTAGC
1 GGACAGTATTGCCTAGC
*
63681513 AGACAGT-TTCGCCTAGC
1 GGACAGTATT-GCCTAGC
* * *
63681530 GAATAGTATTGCCTAGT
1 GGACAGTATTGCCTAGC
63681547 GGACAGTAT
1 GGACAGTAT
63681556 CTCCCATGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 2 0.06
17 30 0.88
18 2 0.06
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (17 bp):
GGACAGTATTGCCTAGC
Found at i:63686531 original size:23 final size:24
Alignment explanation
Indices: 63686498--63686547 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
63686488 TGCTAGGCAT
*
63686498 AAAGCCCGATAAACACAC-CGCAC
1 AAAGCCCGATAAACACACTAGCAC
* *
63686521 AAAGCCTGATAAATACACTAGCAC
1 AAAGCCCGATAAACACACTAGCAC
63686545 AAA
1 AAA
63686548 TTCTGCTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.48, C:0.30, G:0.12, T:0.10
Consensus pattern (24 bp):
AAAGCCCGATAAACACACTAGCAC
Found at i:63689668 original size:22 final size:22
Alignment explanation
Indices: 63689637--63689689 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
63689627 ATAGCAAGCT
*
63689637 GGGGTTCACCAGTCTAACGAGTC
1 GGGG-TCACCAGTCTAACAAGTC
* *
63689660 GGGGTCACCAGTCTGACAAGTT
1 GGGGTCACCAGTCTAACAAGTC
63689682 GGGGTCAC
1 GGGGTCAC
63689690 TAGTGCGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.21
Consensus pattern (22 bp):
GGGGTCACCAGTCTAACAAGTC
Found at i:63690455 original size:25 final size:25
Alignment explanation
Indices: 63690409--63690456 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63690399 ATATGTGTTT
*
63690409 TTATGAACAGTGATATGTGAGCTAA
1 TTATGAACAGTGATATGCGAGCTAA
* *
63690434 TTATGAACAGTGTTTTGCGAGCT
1 TTATGAACAGTGATATGCGAGCT
63690457 CCTCATGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.35
Consensus pattern (25 bp):
TTATGAACAGTGATATGCGAGCTAA
Found at i:63691183 original size:18 final size:18
Alignment explanation
Indices: 63691160--63691198 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
63691150 GGGCTTAGGT
*
63691160 TTTATGTTTCTCTTTATG
1 TTTATGTTCCTCTTTATG
63691178 TTTATGTTCCTCTTTATG
1 TTTATGTTCCTCTTTATG
63691196 TTT
1 TTT
63691199 TTTTAATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.10, T:0.67
Consensus pattern (18 bp):
TTTATGTTCCTCTTTATG
Found at i:63696030 original size:9 final size:9
Alignment explanation
Indices: 63696018--63696055 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
63696008 AATAATTTAA
63696018 AAAATTATT
1 AAAATTATT
63696027 AAAATTATT
1 AAAATTATT
*
63696036 AAAAGATATT
1 AAAA-TTATT
63696046 AAAATT-TT
1 AAAATTATT
63696054 AA
1 AA
63696056 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 4 0.15
9 14 0.54
10 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
AAAATTATT
Found at i:63696210 original size:17 final size:16
Alignment explanation
Indices: 63696188--63696238 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
63696178 ATATAACTTC
*
63696188 AAAATTAAAAAGAATGA
1 AAAATTAAAAAAAAT-A
63696205 AAAATTAAATAAAAATA
1 AAAATTAAA-AAAAATA
63696222 AAAA-TAAAAATAAATA
1 AAAATTAAAAA-AAATA
63696238 A
1 A
63696239 TTTTATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
17 14 0.45
18 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AAAATTAAAAAAAATA
Found at i:63696222 original size:6 final size:6
Alignment explanation
Indices: 63696211--63696235 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
63696201 ATGAAAAATT
63696211 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
63696236 TAATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:63705001 original size:15 final size:15
Alignment explanation
Indices: 63704983--63705016 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
63704973 TTTAACCTTC
*
63704983 CTTTTTTTTCTTTTA
1 CTTTTCTTTCTTTTA
*
63704998 CTTTTCTTTCTTTTC
1 CTTTTCTTTCTTTTA
63705013 CTTT
1 CTTT
63705017 ACAATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTTCTTTCTTTTA
Found at i:63705006 original size:20 final size:20
Alignment explanation
Indices: 63704964--63705018 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
63704954 ACATATATCA
* *
63704964 TTTCCTTTCTTTAACCTTCC
1 TTTCTTTTCTTTTACCTTCC
* * *
63704984 TTTTTTTTCTTTTACTTTTC
1 TTTCTTTTCTTTTACCTTCC
*
63705004 TTTCTTTTCCTTTAC
1 TTTCTTTTCTTTTAC
63705019 AATTATTTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTTTTCTTTTACCTTCC
Found at i:63706779 original size:51 final size:51
Alignment explanation
Indices: 63706679--63706780 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 51
63706669 CTGTGACGAT
* * * *
63706679 GGTATATGGCGTAAGACCATAGATGAAGTATGTTATGGCAGTCTAGTATAA
1 GGTATACGGCGTAAGAACATAGATGAAGTATGCTATGGCAGTCCAGTATAA
*
63706730 GGTATACGGTGTAAGAACATAGATGAAAG-ATGCTATGGCAG-CCAGGTATAA
1 GGTATACGGCGTAAGAACATAGATG-AAGTATGCTATGGCAGTCCA-GTATAA
63706781 TGAGTAAGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
50 2 0.05
51 39 0.89
52 3 0.07
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.25
Consensus pattern (51 bp):
GGTATACGGCGTAAGAACATAGATGAAGTATGCTATGGCAGTCCAGTATAA
Found at i:63712198 original size:32 final size:32
Alignment explanation
Indices: 63712162--63712668 Score: 619
Period size: 32 Copynumber: 15.8 Consensus size: 32
63712152 CAATATATAA
* * *
63712162 ATACATATACAAATCAATTCGACAACATAAGC
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
63712194 ATACATATACAATTCAATTTGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
***
63712226 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
63712258 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
63712290 GTACATATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
63712322 ATACATATACAATTCAATTCG-GAA-ATAGGTTT
1 ATACATATACAATTCAATTCGACAATATAAG--T
*
63712354 ATACCTATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
63712386 ATACATATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
***
63712418 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
63712450 ATACCTATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* * *
63712482 ATACATATACAATGCAATTC-AGAA-ATAGGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
63712512 GCATACCTATACAATTCAATTAGACAATATAAGT
1 --ATACATATACAATTCAATTCGACAATATAAGT
* * *
63712546 ATAAATATAAAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* * ****
63712578 ATACATATACAATTTAATTCGCCAATAGGTTT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
63712610 ATACCTATACAATTCAATTCGGA-TATATAAGT
1 ATACATATACAATTCAATTC-GACAATATAAGT
63712642 ATACATATACAATTCAATTCGACAATA
1 ATACATATACAATTCAATTCGACAATA
63712669 CATAAAATAT
Statistics
Matches: 399, Mismatches: 66, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
30 9 0.02
31 7 0.02
32 368 0.92
33 6 0.02
34 9 0.02
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (32 bp):
ATACATATACAATTCAATTCGACAATATAAGT
Found at i:63720586 original size:32 final size:32
Alignment explanation
Indices: 63719863--63720586 Score: 862
Period size: 32 Copynumber: 22.7 Consensus size: 32
63719853 ATATAAATAA
* * * *
63719863 ATATACAAATCAATTCGACAACATAAGTATAT
1 ATATACAATTCAATTCGGCAATATAAGTATAC
*
63719895 ATATACAATTCAATTTGGCAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* * ***
63719927 ATATACAATTAAATTCGACAATAGGTGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* *
63719959 CTACACAATTCAATTCGGCAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
63719991 ATATACAATTCAATTCGGCAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* ****
63720023 ATATACAATTCAATTCGGTAATAGGTTTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* *
63720055 CTATACAATTCAATTTGGCAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
*
63720087 ATATACAATTCAATTCGACAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* * ***
63720119 ATATACAATTCAAGTCGACAATAGGTGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
*
63720151 CTATACAATTCAATTCGGCAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* * *
63720183 ATATACAATTCAATTC--AAAAATAGGTGCATAC
1 ATATACAATTCAATTCGGCAATATAAGT--ATAC
* * *
63720215 CTATACAATTCAATTAGACAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
*
63720247 ATATACAATTCAATTCGACAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* ***
63720279 ATATACAATTCAATTCGACAATAGGTGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* *
63720311 CTATACAATTCAATTCGGGAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* *
63720343 GTATACAATTCAATTCAGCAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
****
63720375 ATATACAATTCAATTCGGCAATAGGTTTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* ** *
63720407 CTATACAATTCAATTCAACAATACAAG--TAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* ***
63720437 ATATACAATTCAATTCGACAATAGGTGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
*
63720469 CTATACAATTCAATTCGGCAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
***
63720501 ATATACAATTCAATTCGGCAATAGGTGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
*
63720533 CTATACAATTCAATTCGGCAATATAAGTATAC
1 ATATACAATTCAATTCGGCAATATAAGTATAC
* *
63720565 ATTTACAATTCAATTCAGCAAT
1 ATATACAATTCAATTCGGCAAT
63720587 GCATAAAATA
Statistics
Matches: 584, Mismatches: 102, Indels: 12
0.84 0.15 0.02
Matches are distributed among these distances:
30 32 0.05
32 545 0.93
34 7 0.01
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (32 bp):
ATATACAATTCAATTCGGCAATATAAGTATAC
Found at i:63730103 original size:15 final size:17
Alignment explanation
Indices: 63730064--63730107 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
63730054 TTAATAATAT
63730064 AATAA-AATTTTATTTG
1 AATAATAATTTTATTTG
*
63730080 AATAATAATTTT-TTTT
1 AATAATAATTTTATTTG
63730096 AA-AATAATTTTA
1 AATAATAATTTTA
63730108 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 9 0.36
16 10 0.40
17 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
AATAATAATTTTATTTG
Found at i:63730318 original size:17 final size:18
Alignment explanation
Indices: 63730286--63730321 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
63730276 AAAAATACTC
*
63730286 ACTATTATTTTTTTATTA
1 ACTATTATTTTATTATTA
63730304 ACTATT-TTTTATTATTA
1 ACTATTATTTTATTATTA
63730321 A
1 A
63730322 ATTTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (18 bp):
ACTATTATTTTATTATTA
Found at i:63730353 original size:17 final size:18
Alignment explanation
Indices: 63730333--63730370 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
63730323 TTTATATATT
63730333 ATATTA-ATTATTACAAA
1 ATATTATATTATTACAAA
* *
63730350 ATATTATTTTATTATAAA
1 ATATTATATTATTACAAA
63730368 ATA
1 ATA
63730371 AATTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATTACAAA
Found at i:63730566 original size:19 final size:19
Alignment explanation
Indices: 63730522--63730568 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
63730512 GTTCAAACAC
63730522 TAAAAAAT--ATTAATTTT
1 TAAAAAATAAATTAATTTT
*
63730539 TATAAAAATAAATTTATTTT
1 TA-AAAAATAAATTAATTTT
63730559 TAAAAAATAA
1 TAAAAAATAA
63730569 TTTTTTAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 6 0.23
19 8 0.31
20 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAAAATAAATTAATTTT
Found at i:63730570 original size:18 final size:18
Alignment explanation
Indices: 63730522--63730571 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
63730512 GTTCAAACAC
*
63730522 TAAAAAAT-ATTAATTTT
1 TAAAAAATAATTTATTTT
63730539 TATAAAAATAAATTTATTTT
1 TA-AAAAAT-AATTTATTTT
63730559 TAAAAAATAATTT
1 TAAAAAATAATTT
63730572 TTTAGATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.07
18 11 0.38
19 6 0.21
20 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAAATAATTTATTTT
Found at i:63730938 original size:3 final size:3
Alignment explanation
Indices: 63730926--63730996 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
63730916 TTAATAACAC
63730926 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63730973 ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
63730997 TATTTATTTG
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:63743325 original size:92 final size:90
Alignment explanation
Indices: 63743168--63743376 Score: 262
Period size: 92 Copynumber: 2.3 Consensus size: 90
63743158 TTGATTTTAG
* *
63743168 TAAATTCATATAAAAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAAAA-A-TTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
63743233 ATTTAAT-ATTAATTATTTTAAATTGTA
64 ATGTAATAATT-ATTATTTTAAATTATA
*
63743260 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAA-AAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
63743324 TATGTAATAATTATTATTTTAAATTATA
63 TATGTAATAATTATTATTTTAAATTATA
* *
63743352 CAAAATCATA-AAATATAATTTATTA
1 TAAATTCATATAAA-A-AATTTATTA
63743377 GTTATAATTA
Statistics
Matches: 104, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
90 2 0.02
91 31 0.30
92 65 0.62
93 6 0.06
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAAATTCATATAAAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATAT
GTAATAATTATTATTTTAAATTATA
Found at i:63743339 original size:24 final size:25
Alignment explanation
Indices: 63743304--63743351 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
63743294 TTATGAAATT
63743304 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
63743328 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
63743352 CAAAATCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:63743505 original size:66 final size:64
Alignment explanation
Indices: 63743430--63743640 Score: 203
Period size: 66 Copynumber: 3.4 Consensus size: 64
63743420 AAATATATTT
63743430 AATATTAATTATTTCAAATTTTCATTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
63743495 G
64 G
* * * * **
63743496 AATATTAATTATTAAGAATTTTA-TTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
63743550 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
63743614 AG
63 AG
*
63743616 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
63743641 AATATATTTT
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (64 bp):
AATATTAATTATTTAAATTTTATTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:63743534 original size:120 final size:119
Alignment explanation
Indices: 63743399--63743680 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 119
63743389 TTAAATTATT
* *
63743399 TTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTACAG
1 TTAAAT-ATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAG
63743461 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
62 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63743519 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAA-TATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
63743584 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
65 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63743639 TT--A-ATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTAAATATATATTTTAATTATAATATATTTAATAATAATTATGTT
63743681 TAAATATGAT
Statistics
Matches: 156, Mismatches: 2, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
116 39 0.25
118 1 0.01
119 6 0.04
120 107 0.69
121 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (119 bp):
TTAAATATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
Found at i:63743552 original size:15 final size:15
Alignment explanation
Indices: 63743517--63743568 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
63743507 TTAAGAATTT
*
63743517 TATTAAATTAT-ATA
1 TATTTAATTATAATA
63743531 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
63743545 TATTTAATAATAAT-
1 TATTTAATTATAATA
63743559 TATGTTAATT
1 TAT-TTAATT
63743569 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:63743646 original size:57 final size:57
Alignment explanation
Indices: 63743465--63743648 Score: 162
Period size: 57 Copynumber: 3.1 Consensus size: 57
63743455 TTACAGTATC
63743465 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
* * * * * * *
63743522 A-AT-TATAT-ATTTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTACAGT
1 ATATAT-TATGA-TTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTT--A-T
*
63743582 ATC
56 -TA
63743585 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
63743642 ATATATT
1 ATATATT
63743649 TTAATTATAA
Statistics
Matches: 95, Mismatches: 16, Indels: 32
0.66 0.11 0.22
Matches are distributed among these distances:
55 2 0.02
56 11 0.12
57 20 0.21
58 6 0.06
59 8 0.08
60 8 0.08
61 8 0.08
62 6 0.06
63 13 0.14
64 11 0.12
65 2 0.02
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (57 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
Found at i:63743668 original size:15 final size:16
Alignment explanation
Indices: 63743640--63743683 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
63743630 AGAATTTTAT
*
63743640 TAATATATTTTAATTA
1 TAATATATTTTAATAA
63743656 TAATATA-TTTAATAA
1 TAATATATTTTAATAA
63743671 TAAT-TATGTTTAA
1 TAATATAT-TTTAA
63743684 ATATGATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TAATATATTTTAATAA
Found at i:63743813 original size:18 final size:17
Alignment explanation
Indices: 63743785--63743819 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
63743775 AATTATAAGA
*
63743785 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
63743802 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
63743820 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:63743817 original size:156 final size:153
Alignment explanation
Indices: 63743621--63743932 Score: 509
Period size: 156 Copynumber: 2.0 Consensus size: 153
63743611 ATAAGAATAT
*
63743621 TAATTATTAAGAATTTTATTAATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 TAATTATTAAGAATTTTATTAATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
** * * *
63743686 ATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATATCAATAAT
66 ATGATTAAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAAT
*
63743751 AATTTACCAAAACAAATTTCTGC
131 AATTTACCAAAACAAATTTATGC
63743774 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATT--A--ATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
63743838 AAATATGATTAAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
62 AAATATGATTAAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
63743903 TAATCATTTACCAAAACAAATTTATGC
127 TAATAATTTACCAAAACAAATTTATGC
63743930 TAA
1 TAA
63743933 GGGTATTCTA
Statistics
Matches: 147, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
152 13 0.09
153 6 0.04
154 1 0.01
156 127 0.86
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (153 bp):
TAATTATTAAGAATTTTATTAATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
ATGATTAAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAAT
AATTTACCAAAACAAATTTATGC
Found at i:63744076 original size:16 final size:16
Alignment explanation
Indices: 63744055--63744090 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
63744045 GATTTGCTAT
63744055 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63744071 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63744087 TACA
1 TACA
63744091 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:63750386 original size:22 final size:23
Alignment explanation
Indices: 63750349--63750396 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
63750339 CGTATTTTCA
63750349 TTTTTAATTTATTGAAAACA-ATT
1 TTTTTAATTTATTG-AAACATATT
*
63750372 TTTTTTATTTA-TGAAACATATT
1 TTTTTAATTTATTGAAACATATT
63750394 TTT
1 TTT
63750397 AATTTCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 8 0.35
23 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTAATTTATTGAAACATATT
Found at i:63751613 original size:6 final size:6
Alignment explanation
Indices: 63751583--63751612 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
63751573 GCAGTATTGC
*
63751583 TGCAGT TGCAGT TGCAGT TGCAGT AGCAGT
1 TGCAGT TGCAGT TGCAGT TGCAGT TGCAGT
63751613 AAAACAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (6 bp):
TGCAGT
Found at i:63755696 original size:87 final size:86
Alignment explanation
Indices: 63755565--63755727 Score: 229
Period size: 87 Copynumber: 1.9 Consensus size: 86
63755555 TTAAATTTAG
*
63755565 TGAATTCATCAAGTCTATCTCAATAAGACCATCCAAACTCTGGGATATGAACTCATTAAGAGTAA
1 TGAATTCATCAAGTCTATCTCAATAAGACCATCCAAAATCTGGGATATGAACTCATTAAGAGTAA
63755630 TAAACTCAACCTCACATGTCGA
66 -AAACTCAACCTCACATGTCGA
* * * * * *
63755652 TGAATTCATCAAGTCTGTTTCAATAGGACTA-CCAAAATCTTGGGATATGAATTCATTAAGAGTG
1 TGAATTCATCAAGTCTATCTCAATAAGACCATCCAAAATC-TGGGATATGAACTCATTAAGAGTA
*
63755716 AGAACTCAACCT
65 AAAACTCAACCT
63755728 TATGCATGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 17 0.25
87 50 0.75
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (86 bp):
TGAATTCATCAAGTCTATCTCAATAAGACCATCCAAAATCTGGGATATGAACTCATTAAGAGTAA
AAACTCAACCTCACATGTCGA
Found at i:63761546 original size:50 final size:50
Alignment explanation
Indices: 63761492--63761595 Score: 138
Period size: 50 Copynumber: 2.1 Consensus size: 50
63761482 TAAACGGGAG
* * *
63761492 GCTCTTCCGAGCTATATAACT-GGAAGCTCATATGAGCTAAATAACGAGAA
1 GCTCTTCCGAGCTAAAT-ACTGGGAACCTCATACGAGCTAAATAACGAGAA
* * *
63761542 GCTCTTGCGAGCTAAATATTGGGAACCTCATACGAGCTATATAACGAGAA
1 GCTCTTCCGAGCTAAATACTGGGAACCTCATACGAGCTAAATAACGAGAA
63761592 GCTC
1 GCTC
63761596 AAGAGAGCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 2 0.04
50 45 0.96
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (50 bp):
GCTCTTCCGAGCTAAATACTGGGAACCTCATACGAGCTAAATAACGAGAA
Found at i:63761603 original size:25 final size:25
Alignment explanation
Indices: 63761499--63761596 Score: 99
Period size: 25 Copynumber: 3.9 Consensus size: 25
63761489 GAGGCTCTTC
*
63761499 CGAGCTATATAACTG-GAAGCTCATA
1 CGAGCTAAATAAC-GAGAAGCTCATA
* * *
63761524 TGAGCTAAATAACGAGAAGCTCTTG
1 CGAGCTAAATAACGAGAAGCTCATA
** * *
63761549 CGAGCTAAATATTGGGAACCTCATA
1 CGAGCTAAATAACGAGAAGCTCATA
*
63761574 CGAGCTATATAACGAGAAGCTCA
1 CGAGCTAAATAACGAGAAGCTCA
63761597 AGAGAGCCAT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
24 1 0.02
25 55 0.98
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (25 bp):
CGAGCTAAATAACGAGAAGCTCATA
Found at i:63764620 original size:25 final size:24
Alignment explanation
Indices: 63764536--63764833 Score: 170
Period size: 23 Copynumber: 12.7 Consensus size: 24
63764526 AATCTACTCT
*
63764536 ATTTGGACAGC-TCTTATACATCAA
1 ATTTGGACAGCAT-TTATACACCAA
* *
63764560 ATTTGGACAACATTTATATACCAA
1 ATTTGGACAGCATTTATACACCAA
*
63764584 A-TTAGACAGCATTT-TCACACCAAA
1 ATTTGGACAGCATTTAT-ACACC-AA
** *
63764608 ATTTGGACAGCATAAATACAAC-A
1 ATTTGGACAGCATTTATACACCAA
* * *
63764631 ATTTGGGCAGCATATATACAAC-A
1 ATTTGGACAGCATTTATACACCAA
*
63764654 ATTT-GAGCAGCATTTTTACACCAA
1 ATTTGGA-CAGCATTTATACACCAA
* * *
63764678 AATTGGACAGCATATATACAACAA
1 ATTTGGACAGCATTTATACACCAA
** *
63764702 A-TTGGGTAGCATTTA-AGCATCAA
1 ATTTGGACAGCATTTATA-CACCAA
* * * *
63764725 AATTGGACAGCATATATGCAACAA
1 ATTTGGACAGCATTTATACACCAA
* * *
63764749 A-TTGGGCAGCATATATACAACAA
1 ATTTGGACAGCATTTATACACCAA
* *
63764772 A-TTGGACAACATTTA-AGCATCAA
1 ATTTGGACAGCATTTATA-CACCAA
* * * * *
63764795 AATTGGACAGAATATATGCATCAA
1 ATTTGGACAGCATTTATACACCAA
*
63764819 A-TTGGGCAGCATTTA
1 ATTTGGACAGCATTTA
63764834 AGCATCACCT
Statistics
Matches: 218, Mismatches: 42, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
22 4 0.02
23 119 0.55
24 77 0.35
25 17 0.08
26 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (24 bp):
ATTTGGACAGCATTTATACACCAA
Found at i:63764641 original size:23 final size:23
Alignment explanation
Indices: 63764610--63764830 Score: 185
Period size: 23 Copynumber: 9.5 Consensus size: 23
63764600 ACACCAAAAT
* * *
63764610 TTGGACAGCATAAATACAACAAT
1 TTGGGCAGCATATATACAACAAA
*
63764633 TTGGGCAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
* * * *
63764656 TTGAGCAGCATTTTTACACCAAAA
1 TTGGGCAGCATATATACAAC-AAA
*
63764680 TTGGACAGCATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * *
63764703 TTGGGTAGCATTTA-AGCATCAAAA
1 TTGGGCAGCATATATA-CAAC-AAA
* *
63764727 TTGGACAGCATATATGCAACAAA
1 TTGGGCAGCATATATACAACAAA
63764750 TTGGGCAGCATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * * *
63764773 TTGGACAACATTTA-AGCATCAAAA
1 TTGGGCAGCATATATA-CAAC-AAA
* * * *
63764797 TTGGACAGAATATATGCATCAAA
1 TTGGGCAGCATATATACAACAAA
63764820 TTGGGCAGCAT
1 TTGGGCAGCAT
63764831 TTAAGCATCA
Statistics
Matches: 158, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
22 2 0.01
23 104 0.66
24 52 0.33
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (23 bp):
TTGGGCAGCATATATACAACAAA
Found at i:63764696 original size:47 final size:47
Alignment explanation
Indices: 63764624--63764779 Score: 183
Period size: 47 Copynumber: 3.4 Consensus size: 47
63764614 ACAGCATAAA
* * * *
63764624 TACAAC-AATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTT
1 TACAACAAAATTGGACAGCATATATACAACAAATTGGGCAGCATTTT
* *
63764670 TACACCAAAATTGGACAGCATATATACAACAAATTGGGTAGCA-TTT
1 TACAACAAAATTGGACAGCATATATACAACAAATTGGGCAGCATTTT
* * * * *
63764716 AAGCATCAAAATTGGACAGCATATATGCAACAAATTGGGCAGCATATA
1 TA-CAACAAAATTGGACAGCATATATACAACAAATTGGGCAGCATTTT
63764764 TACAAC-AAATTGGACA
1 TACAACAAAATTGGACA
63764780 ACATTTAAGC
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
46 19 0.20
47 72 0.77
48 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (47 bp):
TACAACAAAATTGGACAGCATATATACAACAAATTGGGCAGCATTTT
Found at i:63764707 original size:70 final size:70
Alignment explanation
Indices: 63764574--63764776 Score: 209
Period size: 70 Copynumber: 2.9 Consensus size: 70
63764564 GGACAACATT
* * * * *
63764574 TATATACCA-AATTAGA-CAGCATTTTCACACCAAAATTTGGACAGCATAAATACAACAATTTGG
1 TATATACAACAATTTGAGCAGCATTTTTACACCAAAA-TTGGACAGCATATATACAACAAATTGG
63764637 GCAGCA
65 GCAGCA
63764643 TATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATATATACAACAAATTGGG
1 TATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATATATACAACAAATTGGG
*
63764708 TAGCA
66 CAGCA
* * * * * * * *
63764713 TTTA-AGCATCAAAATTG-GACAGCATATATGCAAC-AAATTGGGCAGCATATATACAACAAATT
1 TATATA-CAAC-AATTTGAG-CAGCATTTTTACACCAAAATTGGACAGCATATATACAACAAATT
63764775 GG
63 GG
63764777 ACAACATTTA
Statistics
Matches: 115, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
69 9 0.08
70 72 0.63
71 34 0.30
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (70 bp):
TATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAGCATATATACAACAAATTGGG
CAGCA
Found at i:63764790 original size:70 final size:70
Alignment explanation
Indices: 63764677--63764830 Score: 254
Period size: 70 Copynumber: 2.2 Consensus size: 70
63764667 TTTTACACCA
* ** * *
63764677 AAATTGGACAGCATATATACAACAAATTGGGTAGCATTTAAGCATCAAAATTGGACAGCATATAT
1 AAATTGGGCAGCATATATACAACAAATTGGACAACATTTAAGCATCAAAATTGGACAGAATATAT
63764742 GCAAC
66 GCAAC
63764747 AAATTGGGCAGCATATATACAACAAATTGGACAACATTTAAGCATCAAAATTGGACAGAATATAT
1 AAATTGGGCAGCATATATACAACAAATTGGACAACATTTAAGCATCAAAATTGGACAGAATATAT
*
63764812 GCATC
66 GCAAC
63764817 AAATTGGGCAGCAT
1 AAATTGGGCAGCAT
63764831 TTAAGCATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.24
Consensus pattern (70 bp):
AAATTGGGCAGCATATATACAACAAATTGGACAACATTTAAGCATCAAAATTGGACAGAATATAT
GCAAC
Found at i:63764798 original size:47 final size:47
Alignment explanation
Indices: 63764724--63764840 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 47
63764714 TTAAGCATCA
* * * * *
63764724 AAATTGGACAGCATATATGCAAC-AAATTGGGCAGCATATATACAAC
1 AAATTGGACAGCATTTAAGCATCAAAATTGGACAGAATATATACAAC
* * *
63764770 AAATTGGACAACATTTAAGCATCAAAATTGGACAGAATATATGCATC
1 AAATTGGACAGCATTTAAGCATCAAAATTGGACAGAATATATACAAC
*
63764817 AAATTGGGCAGCATTTAAGCATCA
1 AAATTGGACAGCATTTAAGCATCA
63764841 CCTATTCGGT
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 19 0.32
47 41 0.68
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (47 bp):
AAATTGGACAGCATTTAAGCATCAAAATTGGACAGAATATATACAAC
Found at i:63776702 original size:3 final size:3
Alignment explanation
Indices: 63776694--63776750 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
63776684 TTAGTTAAAG
63776694 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
63776742 TAA TAA TAA
1 TAA TAA TAA
63776751 AATGTTAATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:63778307 original size:2 final size:2
Alignment explanation
Indices: 63778300--63778335 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
63778290 TGATTAGATG
*
63778300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63778336 TGAGAATCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:63779090 original size:20 final size:21
Alignment explanation
Indices: 63779060--63779099 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
63779050 GGTTATTTTG
63779060 AGTTGATAGTT-TAAATTTATA
1 AGTTGATAGTTGT-AATTTATA
63779081 AGTTGA-AGTTGTAATTTAT
1 AGTTGATAGTTGTAATTTAT
63779100 TATAATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (21 bp):
AGTTGATAGTTGTAATTTATA
Found at i:63787900 original size:24 final size:24
Alignment explanation
Indices: 63787850--63787901 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
63787840 TTTCTAGAAA
* *
63787850 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGAATAATAT
* *
63787874 ATTTAGCATTTATTAGAATTATTT
1 ATTTAGCATTTATTAGAATAATAT
63787898 ATTT
1 ATTT
63787902 GACCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGAATAATAT
Found at i:63792060 original size:30 final size:30
Alignment explanation
Indices: 63791999--63792061 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
63791989 ACGGTCTTAG
* * *
63791999 ACACGACCGTGTGTATTAAATTAGTGTGTT
1 ACACGACCGTGTGTATCAAATTAGAGAGTT
*
63792029 ACACGACCGTGTGTCA-CAAGTTAGAGAGTT
1 ACACGACCGTGTGT-ATCAAATTAGAGAGTT
63792059 ACA
1 ACA
63792062 TGGTCTGGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (30 bp):
ACACGACCGTGTGTATCAAATTAGAGAGTT
Found at i:63795192 original size:245 final size:245
Alignment explanation
Indices: 63794736--63795196 Score: 661
Period size: 245 Copynumber: 1.9 Consensus size: 245
63794726 TATCCACTCT
* * *
63794736 ATAATGTATTTGATTGAGTTGGCGTCACAAGTTAACTCGACATCGACTCAAGATTAATGACAATA
1 ATAATGTATTTGATTGAGTTGGCGTCACAAGTTAACTCGACACCGACTCAAGATTAATAACAACA
* * * * *
63794801 CATTGACAAACAATTTAATCTAATTTTTTCATTTTAATAGCATACATATTTCATGTGTTATTATC
66 CAGTGACAAACAACTTAATCCAATTTCTTCATTTTAATAACATACATATTTCATGTGTTATTATC
63794866 AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTATGTTC
131 AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTATGTTC
* * *
63794931 TAAATTTTTGGTTTCCATATGCATACATGTGTGATCGTATTTCTATATTA
196 AAAATTTATAGTTTCCATATGCATACATGTGTGATCGTATTTCTATATTA
* * * * * *
63794981 ATAATGTATTTGATTGAGTTGGTGTCACAAGTTAGCTTGACCCCGATTCAAGATTGATAACAACA
1 ATAATGTATTTGATTGAGTTGGCGTCACAAGTTAACTCGACACCGACTCAAGATTAATAACAACA
* * ** *
63795046 CCGTGATAAACAACTTAATCCAATTTCTTCATTTTAATAATGTACATATTTCATGTGTTATTATT
66 CAGTGACAAACAACTTAATCCAATTTCTTCATTTTAATAACATACATATTTCATGTGTTATTATC
* * * * ** *
63795111 AATTGGTTTCAAACTATAAGTTTCGTTATTTATTGTATGTTATTTTTAAACACGTATTTGTGTTC
131 AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTATGTTC
63795176 AAAATTTATAGTTTCCATATG
196 AAAATTTATAGTTTCCATATG
63795197 TATATACGGA
Statistics
Matches: 187, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
245 187 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (245 bp):
ATAATGTATTTGATTGAGTTGGCGTCACAAGTTAACTCGACACCGACTCAAGATTAATAACAACA
CAGTGACAAACAACTTAATCCAATTTCTTCATTTTAATAACATACATATTTCATGTGTTATTATC
AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTATGTTC
AAAATTTATAGTTTCCATATGCATACATGTGTGATCGTATTTCTATATTA
Found at i:63796981 original size:16 final size:16
Alignment explanation
Indices: 63796956--63796990 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
63796946 AATTTTTTGT
63796956 TTTGAAAATAAATTCA
1 TTTGAAAATAAATTCA
* *
63796972 TTTGATAATAAATTGA
1 TTTGAAAATAAATTCA
63796988 TTT
1 TTT
63796991 TTTTTACAAG
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:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (16 bp):
TTTGAAAATAAATTCA
Found at i:63803422 original size:23 final size:19
Alignment explanation
Indices: 63803399--63803436 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
63803389 CCACTGTCAC
63803399 CCACCGTAATCAATTTTGT
1 CCACCGTAATCAATTTTGT
63803418 CCACCGTAATCAATTTTGT
1 CCACCGTAATCAATTTTGT
63803437 TTTTAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (19 bp):
CCACCGTAATCAATTTTGT
Found at i:63807343 original size:15 final size:16
Alignment explanation
Indices: 63807307--63807347 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
63807297 CCATCCTCAA
63807307 TTCCTTCTT-CT--TC
1 TTCCTTCTTGCTCCTC
63807320 TTCCTTCTTGCTCCTC
1 TTCCTTCTTGCTCCTC
63807336 TT-CTTCTTGCTC
1 TTCCTTCTTGCTC
63807348 TGGATGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.36
14 2 0.08
15 10 0.40
16 4 0.16
ACGTcount: A:0.00, C:0.39, G:0.05, T:0.56
Consensus pattern (16 bp):
TTCCTTCTTGCTCCTC
Found at i:63815488 original size:13 final size:13
Alignment explanation
Indices: 63815472--63815522 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
63815462 TTAACCTACT
63815472 TATTTAAAATATA
1 TATTTAAAATATA
*
63815485 TATTTAAAAAATA
1 TATTTAAAATATA
63815498 TATATTATAAA-ATA
1 TAT-TTA-AAATATA
63815512 TATTTAAAATA
1 TATTTAAAATA
63815523 ATGAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 3 0.09
13 19 0.56
14 9 0.26
15 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTTAAAATATA
Found at i:63815497 original size:15 final size:14
Alignment explanation
Indices: 63815477--63815520 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
63815467 CTACTTATTT
63815477 AAAATATATATTTAA
1 AAAATATATA-TTAA
*
63815492 AAAATATATATTAT
1 AAAATATATATTAA
63815506 AAAATATAT-TTAA
1 AAAATATATATTAA
63815519 AA
1 AA
63815521 TAATGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 10 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATATATATTAA
Found at i:63815536 original size:26 final size:27
Alignment explanation
Indices: 63815482--63815544 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
63815472 TATTTAAAAT
*
63815482 ATATATTTAAAAAATATATATTATAAA
1 ATATATTTAAAAAATATATAATATAAA
63815509 ATATATTTAAAATAATGA-A-AATAT-AA
1 ATATATTTAAAA-AAT-ATATAATATAAA
63815535 ATATATTTAA
1 ATATATTTAA
63815545 CTGACTTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 12 0.36
27 16 0.48
28 4 0.12
29 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
ATATATTTAAAAAATATATAATATAAA
Found at i:63818453 original size:18 final size:18
Alignment explanation
Indices: 63818430--63818466 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
63818420 GCCAGATGCA
*
63818430 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
63818448 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
63818466 T
1 T
63818467 TTCATTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:63818745 original size:21 final size:21
Alignment explanation
Indices: 63818721--63818798 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
63818711 ACAACCAGAA
63818721 CAACCACAACCCCTGTCGGAG
1 CAACCACAACCCCTGTCGGAG
* *
63818742 CAACCATAACCCTTGTCGGAG
1 CAACCACAACCCCTGTCGGAG
*
63818763 CAACCATAA-CCCTCGTCGGAG
1 CAACCACAACCCCT-GTCGGAG
63818784 CAACCACAACCCCTG
1 CAACCACAACCCCTG
63818799 CCAGAAGCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.06
21 44 0.86
22 4 0.08
ACGTcount: A:0.29, C:0.41, G:0.17, T:0.13
Consensus pattern (21 bp):
CAACCACAACCCCTGTCGGAG
Found at i:63822355 original size:125 final size:124
Alignment explanation
Indices: 63822057--63822432 Score: 452
Period size: 125 Copynumber: 3.0 Consensus size: 124
63822047 TAAGGCCAAA
* * * * * *
63822057 CAGGAACTATTGTAGAAAAAAAAAGTCCATGTGGGAGCTTTTTCGGTAATTTTGCTGACAATGCA
1 CAGGAACTATTGTAGAAAAAGAGAGTCCACGTGGGAACTTTTTCAGTAATTTTGCTGACAGTGCA
* *
63822122 ACCTGCTTGAAGTGTTTTTGACACTATTTTTT-AGAACCGTCTTCTCAAAATTATTTTT
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTT
* * * *** *
63822180 CAAGAACTATTGTAGCAAAAGAGCGTCCACGTGAGAGTTTTTTTTCAGTAATTTTGCTAACAGTG
1 CAGGAACTATTGTAGAAAAAGAGAGTCCACGTG-G-GAACTTTTTCAGTAATTTTGCTGACAGTG
*
63822245 CATCCTGCTTGAAGCGTTTTTG-CAACTATTTTTTCAGAACCGTATTCTCAAAATTATTTTTT
64 CATCCTGCTTGAAGCGTTTTTGAC-ACTATTTTTTCAGAACCGTCTTCTCAAAATTA-TTTTT
* *
63822307 CAGGAACTATTGTAGAAAAAGAGTGTCCACGTGGGAACTTTTGT-AGTAATTTTGCTGATAGTGC
1 CAGGAACTATTGTAGAAAAAGAGAGTCCACGTGGGAACTTTT-TCAGTAATTTTGCTGACAGTGC
* * * * * * *
63822371 ATCTTACTTGAAGCATTTTTGACATTATCTTTTCAGAATCGTCTCCTCAAAATTAATTTTT
65 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATT-ATTTTT
63822432 C
1 C
63822433 TAAAACTACT
Statistics
Matches: 214, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
123 27 0.13
124 2 0.01
125 126 0.59
126 24 0.11
127 35 0.16
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (124 bp):
CAGGAACTATTGTAGAAAAAGAGAGTCCACGTGGGAACTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTT
Found at i:63822550 original size:34 final size:33
Alignment explanation
Indices: 63822509--63822638 Score: 143
Period size: 34 Copynumber: 3.8 Consensus size: 33
63822499 CACAAATTTA
63822509 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
** *
63822542 TTTCTTAAAAACTCTAAACCTTAATTTAATTAAT
1 TTT-TTAAAAAAACTAAACCCTAATTTAATTAAT
* *** *
63822576 TAATTTAAAACTCCTAAAACCTAATTTAATTAAT
1 T-TTTTAAAAAAACTAAACCCTAATTTAATTAAT
*
63822610 TTTTTAAAAAAACACTAAACCCTGATTTA
1 TTTTT-AAAAAA-ACTAAACCCTAATTTA
63822639 TTTTTAAAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
33 6 0.08
34 58 0.74
35 14 0.18
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.39
Consensus pattern (33 bp):
TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
Found at i:63827666 original size:12 final size:12
Alignment explanation
Indices: 63827649--63827688 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
63827639 TTTCATACCT
63827649 TATATATTTTTA
1 TATATATTTTTA
63827661 TATATATTTTT-
1 TATATATTTTTA
63827672 T-TA-ATTTTTCA
1 TATATATTTTT-A
63827683 TATATA
1 TATATA
63827689 CATACTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 2 0.08
12 13 0.54
13 1 0.04
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATATTTTTA
Found at i:63827735 original size:6 final size:6
Alignment explanation
Indices: 63827724--63827757 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
63827714 CTTACACTTT
63827724 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
63827758 CTTTTACCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:63827799 original size:12 final size:12
Alignment explanation
Indices: 63827778--63827808 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
63827768 TTTTTAAATC
*
63827778 TTATTCATTTCT
1 TTATTTATTTCT
63827790 TTATTTATTTCT
1 TTATTTATTTCT
63827802 TTATTTA
1 TTATTTA
63827809 CATTTTCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:63829684 original size:56 final size:56
Alignment explanation
Indices: 63829598--63829713 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
63829588 GTTATACTAC
63829598 CTAAGAATGTCTCTCATTTGCCTTCAGAATAATAATAAATGAATGGATGATCCTCT
1 CTAAGAATGTCTCTCATTTGCCTTCAGAATAATAATAAATGAATGGATGATCCTCT
*
63829654 CTAAGAATGTCTCTCATTTGCCTTTAGAATAATAATAAATGAATGGATGATCCTCT
1 CTAAGAATGTCTCTCATTTGCCTTCAGAATAATAATAAATGAATGGATGATCCTCT
63829710 CTAA
1 CTAA
63829714 CTTGGTGATG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (56 bp):
CTAAGAATGTCTCTCATTTGCCTTCAGAATAATAATAAATGAATGGATGATCCTCT
Found at i:63833532 original size:20 final size:20
Alignment explanation
Indices: 63833509--63833558 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
63833499 AGTTTACATA
63833509 TTTTTA-AATTTTTTTAATT
1 TTTTTACAATTTTTTTAATT
*
63833528 TTTTTACAATTTTTTTTATT
1 TTTTTACAATTTTTTTAATT
*
63833548 TTTTAACAATT
1 TTTTTACAATT
63833559 CTAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTACAATTTTTTTAATT
Found at i:63833624 original size:17 final size:18
Alignment explanation
Indices: 63833594--63833634 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
63833584 TTTATATCAA
63833594 TTTTAATATTTTTAATATT
1 TTTTAATA-TTTTAATATT
63833613 TTTTAATA-TTTAATATT
1 TTTTAATATTTTAATATT
63833630 TTTTA
1 TTTTA
63833635 TAAAAAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTAATATTTTAATATT
Found at i:63833634 original size:10 final size:9
Alignment explanation
Indices: 63833501--63833632 Score: 65
Period size: 9 Copynumber: 14.3 Consensus size: 9
63833491 TTTTTATAAG
63833501 TTTACATATT
1 TTTA-ATATT
*
63833511 TTTAAATTTT
1 TTT-AATATT
*
63833521 TTTAATTTT
1 TTTAATATT
63833530 TTTACA-ATT
1 TTTA-ATATT
**
63833539 TTTTTTATTT
1 TTTAATA-TT
* *
63833549 TTTAACAAT
1 TTTAATATT
*
63833558 TCTAATATT
1 TTTAATATT
*
63833567 TTTTA-ATT
1 TTTAATATT
* **
63833575 TATAATAAG
1 TTTAATATT
*
63833584 TTTATATCAAT
1 TTTA-AT-ATT
63833595 TTTAATATT
1 TTTAATATT
63833604 TTTAATATTT
1 TTTAATA-TT
63833614 TTTAATA--
1 TTTAATATT
63833621 TTTAATATT
1 TTTAATATT
63833630 TTT
1 TTT
63833633 TATAAAAAAT
Statistics
Matches: 92, Mismatches: 20, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
7 7 0.08
8 6 0.07
9 42 0.46
10 30 0.33
11 7 0.08
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTAATATT
Found at i:63833669 original size:18 final size:17
Alignment explanation
Indices: 63833648--63833683 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
63833638 AAAATCTTAT
63833648 TTTTTATAATTTTTCTGA
1 TTTTTAT-ATTTTTCTGA
*
63833666 TTTTTATATTTTTGTGA
1 TTTTTATATTTTTCTGA
63833683 T
1 T
63833684 ATCATTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (17 bp):
TTTTTATATTTTTCTGA
Found at i:63834019 original size:2 final size:2
Alignment explanation
Indices: 63833987--63834052 Score: 86
Period size: 2 Copynumber: 35.0 Consensus size: 2
63833977 AAAACGTAAC
* *
63833987 TA TA TA -A T- TA TA AA TA AA TA T- TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63834025 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
63834053 CTAGTACTAN
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
1 4 0.07
2 52 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:63834334 original size:2 final size:2
Alignment explanation
Indices: 63834327--63834368 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
63834317 TGAATATGTT
63834327 TA 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 TA
63834369 CTAGCATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:63838000 original size:18 final size:18
Alignment explanation
Indices: 63837960--63837997 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
63837950 ATGATATTGG
*
63837960 TTATTATAAAATATTTTC
1 TTATTATAAAATAATTTC
63837978 TTATTATAAAATAAATTTC
1 TTATTATAAAAT-AATTTC
63837997 T
1 T
63837998 ATTGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTATAAAATAATTTC
Found at i:63839371 original size:18 final size:16
Alignment explanation
Indices: 63839331--63839361 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
63839321 ATATATATAA
63839331 TATATTTATAATTTTG
1 TATATTTATAATTTTG
63839347 TATATTTATAATTTT
1 TATATTTATAATTTT
63839362 CTTGATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TATATTTATAATTTTG
Found at i:63850335 original size:23 final size:24
Alignment explanation
Indices: 63850283--63850343 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
63850273 TGATTAACAT
*
63850283 TGTTCGTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTATA
* **
63850307 TGTTCATGAACATTTTCGTTTA-A
1 TGTTCATGAACATGTTCAATTATA
*
63850330 TGTTCATAAACATG
1 TGTTCATGAACATG
63850344 CTCGATTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (24 bp):
TGTTCATGAACATGTTCAATTATA
Found at i:63850352 original size:23 final size:23
Alignment explanation
Indices: 63850291--63850352 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
63850281 ATTGTTCGTG
* *
63850291 AACATGTTCAATTATATGTTCATG
1 AACATGTTCGATTA-ATGTTCATA
* *
63850315 AACATTTTCGTTTAATGTTCATA
1 AACATGTTCGATTAATGTTCATA
*
63850338 AACATGCTCGATTAA
1 AACATGTTCGATTAA
63850353 GTTAAATGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 20 0.65
24 11 0.35
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (23 bp):
AACATGTTCGATTAATGTTCATA
Found at i:63852528 original size:6 final size:6
Alignment explanation
Indices: 63852464--63852548 Score: 64
Period size: 6 Copynumber: 13.3 Consensus size: 6
63852454 ACAAATAAAT
* * * *
63852464 AAAAGA AATAGA AATAGA AAAAGGA ACAAAGCA AAACGA AATAGGA AAGAA-A
1 AAAAGA AAAAGA AAAAGA AAAA-GA A-AAAG-A AAAAGA AA-AAGA AA-AAGA
*
63852516 GAAAGA AAAAGA AAAAGA AAAAGA AGAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AA
63852549 GCAAGGCCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
5 2 0.03
6 39 0.60
7 19 0.29
8 5 0.08
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:63858205 original size:18 final size:17
Alignment explanation
Indices: 63858182--63858217 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
63858172 CAAACCCAAC
*
63858182 TCTCTCAATTCTTTCTAA
1 TCTCTCAACTCTTT-TAA
63858200 TCTCTCAACTCTTTTAA
1 TCTCTCAACTCTTTTAA
63858217 T
1 T
63858218 TTTGTCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (17 bp):
TCTCTCAACTCTTTTAA
Found at i:63859230 original size:18 final size:18
Alignment explanation
Indices: 63859189--63859231 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
63859179 TTTTTATCAA
*
63859189 ATATGTAGTTTATATAAT
1 ATATGTTGTTTATATAAT
* * *
63859207 AAATGTTGTTTATTTATT
1 ATATGTTGTTTATATAAT
63859225 ATATGTT
1 ATATGTT
63859232 TGAATTAACA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (18 bp):
ATATGTTGTTTATATAAT
Found at i:63860454 original size:24 final size:24
Alignment explanation
Indices: 63860392--63860454 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
63860382 AGGAATGCGA
* **
63860392 TGGAGACAAAGATGAAGTCGAGGG
1 TGGAGACAAAGATGAAGACGACAG
** *
63860416 TGGAGATGAATATGAAGACGACAG
1 TGGAGACAAAGATGAAGACGACAG
63860440 TGGAGACAAAGATGA
1 TGGAGACAAAGATGA
63860455 GCATGAGAGT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.41, C:0.08, G:0.37, T:0.14
Consensus pattern (24 bp):
TGGAGACAAAGATGAAGACGACAG
Found at i:63861138 original size:14 final size:14
Alignment explanation
Indices: 63861119--63861148 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
63861109 ATTTCAAATT
63861119 TCGAGTTAAACGAA
1 TCGAGTTAAACGAA
*
63861133 TCGAGTTAATCGAA
1 TCGAGTTAAACGAA
63861147 TC
1 TC
63861149 AATTTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (14 bp):
TCGAGTTAAACGAA
Found at i:63861211 original size:9 final size:9
Alignment explanation
Indices: 63861199--63861238 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
63861189 ATTTTTAAAA
63861199 TCGAATAAT
1 TCGAATAAT
63861208 TCGAATAAT
1 TCGAATAAT
*
63861217 TAGAATAAT
1 TCGAATAAT
63861226 TCGAATAAT
1 TCGAATAAT
63861235 TCGA
1 TCGA
63861239 CTATAAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (9 bp):
TCGAATAAT
Found at i:63861272 original size:21 final size:20
Alignment explanation
Indices: 63861248--63861289 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
63861238 ACTATAAACC
*
63861248 ATAT-TTTTTTATTTTTAAA
1 ATATATTTTTTATTATTAAA
63861267 ATATATTTTTTATTATTAAA
1 ATATATTTTTTATTATTAAA
63861287 ATA
1 ATA
63861290 CACTACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATATTTTTTATTATTAAA
Found at i:63861385 original size:14 final size:14
Alignment explanation
Indices: 63861366--63861401 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
63861356 TTTTTTCCCA
63861366 ATCCACCTCCACCG
1 ATCCACCTCCACCG
63861380 ATCCACCTCCACCG
1 ATCCACCTCCACCG
63861394 ATCCACCT
1 ATCCACCT
63861402 TCAGTCCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.56, G:0.06, T:0.17
Consensus pattern (14 bp):
ATCCACCTCCACCG
Found at i:63861533 original size:19 final size:18
Alignment explanation
Indices: 63861513--63861551 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
63861503 TTTTATTCCT
63861513 TTCCTCACACTGTATTTC
1 TTCCTCACACTGTATTTC
63861531 TT--T-ACACTGTATTTC
1 TTCCTCACACTGTATTTC
63861546 TTCCTC
1 TTCCTC
63861552 CTTACACTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 6
0.75 0.00 0.25
Matches are distributed among these distances:
15 14 0.78
16 1 0.06
17 1 0.06
18 2 0.11
ACGTcount: A:0.15, C:0.31, G:0.05, T:0.49
Consensus pattern (18 bp):
TTCCTCACACTGTATTTC
Found at i:63861537 original size:15 final size:15
Alignment explanation
Indices: 63861519--63861547 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
63861509 TCCTTTCCTC
63861519 ACACTGTATTTCTTT
1 ACACTGTATTTCTTT
63861534 ACACTGTATTTCTT
1 ACACTGTATTTCTT
63861548 CCTCCTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (15 bp):
ACACTGTATTTCTTT
Found at i:63866908 original size:342 final size:342
Alignment explanation
Indices: 63866283--63866972 Score: 1380
Period size: 342 Copynumber: 2.0 Consensus size: 342
63866273 AACGGTATAG
63866283 CATGAAAGTGCCAGTCGACTTCAAAGTGGCTAACTCTAAACCGACAATCTGTGTTGGTGAGTGTT
1 CATGAAAGTGCCAGTCGACTTCAAAGTGGCTAACTCTAAACCGACAATCTGTGTTGGTGAGTGTT
63866348 GGAAGTCGATAGAAGGGTACAGGTGGTGTGTACGAGCTACATTTATCTATAGGTCCATATAATGG
66 GGAAGTCGATAGAAGGGTACAGGTGGTGTGTACGAGCTACATTTATCTATAGGTCCATATAATGG
63866413 GAGATACAGAAATATGTTACACCTTATACATGCACTTCTGCACGTATAACGTAAGACCACCGTAA
131 GAGATACAGAAATATGTTACACCTTATACATGCACTTCTGCACGTATAACGTAAGACCACCGTAA
63866478 GCTTGATTCAAAAACTATATGCAATAGCATCCTGCCAATGGTTAAAAACATGTCTATCATTCTTG
196 GCTTGATTCAAAAACTATATGCAATAGCATCCTGCCAATGGTTAAAAACATGTCTATCATTCTTG
63866543 TATCGGTGCTAATTACTAAAATGGAAGAACGATTCTAGTATAGAGTTTCATACCAGAAGGCATGA
261 TATCGGTGCTAATTACTAAAATGGAAGAACGATTCTAGTATAGAGTTTCATACCAGAAGGCATGA
63866608 GTGGCTAAATAGATGGT
326 GTGGCTAAATAGATGGT
63866625 CATGAAAGTGCCAGTCGACTTCAAAGTGGCTAACTCTAAACCGACAATCTGTGTTGGTGAGTGTT
1 CATGAAAGTGCCAGTCGACTTCAAAGTGGCTAACTCTAAACCGACAATCTGTGTTGGTGAGTGTT
63866690 GGAAGTCGATAGAAGGGTACAGGTGGTGTGTACGAGCTACATTTATCTATAGGTCCATATAATGG
66 GGAAGTCGATAGAAGGGTACAGGTGGTGTGTACGAGCTACATTTATCTATAGGTCCATATAATGG
63866755 GAGATACAGAAATATGTTACACCTTATACATGCACTTCTGCACGTATAACGTAAGACCACCGTAA
131 GAGATACAGAAATATGTTACACCTTATACATGCACTTCTGCACGTATAACGTAAGACCACCGTAA
63866820 GCTTGATTCAAAAACTATATGCAATAGCATCCTGCCAATGGTTAAAAACATGTCTATCATTCTTG
196 GCTTGATTCAAAAACTATATGCAATAGCATCCTGCCAATGGTTAAAAACATGTCTATCATTCTTG
63866885 TATCGGTGCTAATTACTAAAATGGAAGAACGATTCTAGTATAGAGTTTCATACCAGAAGGCATGA
261 TATCGGTGCTAATTACTAAAATGGAAGAACGATTCTAGTATAGAGTTTCATACCAGAAGGCATGA
63866950 GTGGCTAAATAGATGGT
326 GTGGCTAAATAGATGGT
63866967 CATGAA
1 CATGAA
63866973 TCAAGTGTAC
Statistics
Matches: 348, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
342 348 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (342 bp):
CATGAAAGTGCCAGTCGACTTCAAAGTGGCTAACTCTAAACCGACAATCTGTGTTGGTGAGTGTT
GGAAGTCGATAGAAGGGTACAGGTGGTGTGTACGAGCTACATTTATCTATAGGTCCATATAATGG
GAGATACAGAAATATGTTACACCTTATACATGCACTTCTGCACGTATAACGTAAGACCACCGTAA
GCTTGATTCAAAAACTATATGCAATAGCATCCTGCCAATGGTTAAAAACATGTCTATCATTCTTG
TATCGGTGCTAATTACTAAAATGGAAGAACGATTCTAGTATAGAGTTTCATACCAGAAGGCATGA
GTGGCTAAATAGATGGT
Found at i:63868847 original size:16 final size:17
Alignment explanation
Indices: 63868826--63868864 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
63868816 TGTAATTAAC
63868826 TTTTTATATA-TAATAT
1 TTTTTATATATTAATAT
63868842 TTTTTATATATTAATAT
1 TTTTTATATATTAATAT
63868859 TATTTT
1 T-TTTT
63868865 CAACAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.48
17 7 0.33
18 4 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTATATATTAATAT
Found at i:63869533 original size:5 final size:5
Alignment explanation
Indices: 63869513--63869558 Score: 78
Period size: 5 Copynumber: 9.6 Consensus size: 5
63869503 ATGAAAATTT
63869513 TAATA T-ATA T-ATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
63869559 ACAAAAGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 8 0.20
5 32 0.80
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:63870431 original size:16 final size:17
Alignment explanation
Indices: 63870410--63870447 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
63870400 ATATAAAAAA
*
63870410 TTATAAAAAAA-TGTTT
1 TTATAAAAAAATTATTT
63870426 TTATAAAAAAATTATTT
1 TTATAAAAAAATTATTT
63870443 TTATA
1 TTATA
63870448 TTTTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATAAAAAAATTATTT
Found at i:63870436 original size:17 final size:17
Alignment explanation
Indices: 63870410--63870447 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
63870400 ATATAAAAAA
*
63870410 TTAT-AAAAAAATGTTT
1 TTATAAAAAAAATATTT
*
63870426 TTATAAAAAAATTATTT
1 TTATAAAAAAAATATTT
63870443 TTATA
1 TTATA
63870448 TTTTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATAAAAAAAATATTT
Found at i:63870511 original size:52 final size:53
Alignment explanation
Indices: 63870405--63870565 Score: 199
Period size: 53 Copynumber: 3.1 Consensus size: 53
63870395 AGTTTATATA
* * ** *
63870405 AAAAATTATAAAAAAATGTTTTTATAAAAAAAT-TATTTTTATA--TTTTATA-AT
1 AAAAATTA-AAAAAAA--TTTGTATAAAAAAATAAAAATTTATAGTTTTTTTACAT
63870457 AAAAA-TAAAAAAAATTCTGTAT-AAAAAATAAAAATTTATAGTTTTTTTACAT
1 AAAAATTAAAAAAAATT-TGTATAAAAAAATAAAAATTTATAGTTTTTTTACAT
63870509 AAAAATTAAAAAAAATTTGTATAAAAAAATAAAAATTTATAGTTTTTTTACAT
1 AAAAATTAAAAAAAATTTGTATAAAAAAATAAAAATTTATAGTTTTTTTACAT
63870562 AAAA
1 AAAA
63870566 TATTTTTTAT
Statistics
Matches: 97, Mismatches: 5, Indels: 13
0.84 0.04 0.11
Matches are distributed among these distances:
48 9 0.09
49 11 0.11
50 7 0.07
51 8 0.08
52 17 0.18
53 45 0.46
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (53 bp):
AAAAATTAAAAAAAATTTGTATAAAAAAATAAAAATTTATAGTTTTTTTACAT
Found at i:63870513 original size:30 final size:30
Alignment explanation
Indices: 63870477--63870565 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
63870467 AAAATTCTGT
63870477 ATAAAAAATAAAAATTTATAGTTTTTTTAC
1 ATAAAAAATAAAAATTTATAGTTTTTTTAC
* * * *
63870507 ATAAAAATTAAAAA---A-A--ATTTGTAT
1 ATAAAAAATAAAAATTTATAGTTTTTTTAC
63870531 A-AAAAAATAAAAATTTATAGTTTTTTTAC
1 ATAAAAAATAAAAATTTATAGTTTTTTTAC
63870560 ATAAAA
1 ATAAAA
63870566 TATTTTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
23 11 0.25
24 6 0.14
26 2 0.05
27 2 0.05
29 6 0.14
30 17 0.39
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.38
Consensus pattern (30 bp):
ATAAAAAATAAAAATTTATAGTTTTTTTAC
Found at i:63870752 original size:2 final size:2
Alignment explanation
Indices: 63870745--63870773 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
63870735 TTTGAACCAA
63870745 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 A
63870774 CACCAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:63873232 original size:123 final size:123
Alignment explanation
Indices: 63873080--63873361 Score: 397
Period size: 124 Copynumber: 2.3 Consensus size: 123
63873070 TAATGATTTA
* *
63873080 GGCTTTAGCGGCGTTTTT-GAAGATGCGCCGCTAATGATTTGGGCTTTAGCGGCGTTTTTGAAG-
1 GGCTTTAGCGGCGTTTTTAGAA-A-GCGCCGCTAATGATCTGGGCATTAGCGGCGTTTTTGAAGA
* * * *
63873143 AAGCGACGCTAATGCTCTGGGCTTTAGCGGCATTTTTTAGAAAGCGCCGCTAATTCTCTG
64 AAGCGACGCTAATGCTCTGGCCTTTAACGACATTTTTTAGAAAGCGCCGATAATTCTCTG
* *
63873203 GGCTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTCTGGGCATTAGCGGCGTTTTTGAAGAA
1 GGCTTTAGCGGCG-TTTTTAGAAAGCGCCGCTAATGATCTGGGCATTAGCGGCGTTTTTGAAGAA
* ** * *
63873268 AGTGTTGCTATTGCTCTGGCCTTTAACGACATTTTTTAGAAAGGGCCGATAATTCTCTG
65 AGCGACGCTAATGCTCTGGCCTTTAACGACATTTTTTAGAAAGCGCCGATAATTCTCTG
*
63873327 GGCTTTAGCGGCGTTTTTAGAAAGCACCGCTAATG
1 GGCTTTAGCGGCGTTTTTAGAAAGCGCCGCTAATG
63873362 CTCAGGGGCT
Statistics
Matches: 141, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
123 68 0.48
124 70 0.50
125 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (123 bp):
GGCTTTAGCGGCGTTTTTAGAAAGCGCCGCTAATGATCTGGGCATTAGCGGCGTTTTTGAAGAAA
GCGACGCTAATGCTCTGGCCTTTAACGACATTTTTTAGAAAGCGCCGATAATTCTCTG
Found at i:63873362 original size:123 final size:122
Alignment explanation
Indices: 63873080--63873364 Score: 401
Period size: 123 Copynumber: 2.3 Consensus size: 122
63873070 TAATGATTTA
* * *
63873080 GGCTTTAGCGGCGTTTTT-GAAGATGCGCCGCTAATGATTTGGGCTTTAGCGGCGTTTTTGAAGA
1 GGCTTTAGCGGCGTTTTTAGAA-A-GCGCCGCTAATGCTCTGGGCATTAGCGGCGTTTTTGAAGA
* * * *
63873144 AGCGACGCTAATGCTCTGGGCTTTAGCGGCATTTTTTAGAAAGCGCCGCTAATTCTCTG
64 AGCGACGCTAATGCTCTGGCCTTTAACGACATTTTTTAGAAAGCGCCGATAATTCTCTG
*
63873203 GGCTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTCTGGGCATTAGCGGCGTTTTTGAAGAA
1 GGCTTTAGCGGCG-TTTTTAGAAAGCGCCGCTAATGCTCTGGGCATTAGCGGCGTTTTTGAAG-A
* ** * *
63873268 AGTGTTGCTATTGCTCTGGCCTTTAACGACATTTTTTAGAAAGGGCCGATAATTCTCTG
64 AGCGACGCTAATGCTCTGGCCTTTAACGACATTTTTTAGAAAGCGCCGATAATTCTCTG
*
63873327 GGCTTTAGCGGCGTTTTTAGAAAGCACCGCTAATGCTC
1 GGCTTTAGCGGCGTTTTTAGAAAGCGCCGCTAATGCTC
63873365 AGGGGCTTTA
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
123 71 0.49
124 70 0.49
125 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (122 bp):
GGCTTTAGCGGCGTTTTTAGAAAGCGCCGCTAATGCTCTGGGCATTAGCGGCGTTTTTGAAGAAG
CGACGCTAATGCTCTGGCCTTTAACGACATTTTTTAGAAAGCGCCGATAATTCTCTG
Found at i:63873371 original size:41 final size:40
Alignment explanation
Indices: 63873019--63873374 Score: 322
Period size: 41 Copynumber: 8.7 Consensus size: 40
63873009 TATTTTTCAA
* ** * *
63873019 AAAGTGCCGCTAATGCTGGGGGATTTAGTGGCGTTTTT-G
1 AAAGCGCCGCTAATGCTCTGGGCTTTAGCGGCGTTTTTAG
* * * *
63873058 AAGAAGCGTCGCTAATGATTTAGGCTTTAGCGGCGTTTTT-G
1 -A-AAGCGCCGCTAATGCTCTGGGCTTTAGCGGCGTTTTTAG
* *
63873099 AAGATGCGCCGCTAATGATTTGGGCTTTAGCGGCGTTTTT-G
1 AA-A-GCGCCGCTAATGCTCTGGGCTTTAGCGGCGTTTTTAG
* *
63873140 AAGAAGCGACGCTAATGCTCTGGGCTTTAGCGGCATTTTTTAG
1 -A-AAGCGCCGCTAATGCTCTGGGCTTTAGCGGC-GTTTTTAG
*
63873183 AAAGCGCCGCTAATTCTCTGGGCTTTAGCGGCGCTTTTTAG
1 AAAGCGCCGCTAATGCTCTGGGCTTTAGCGGCG-TTTTTAG
* *
63873224 AAAACGCCGCTAATGCTCTGGGCATTAGCGGCGTTTTTGAAG
1 AAAGCGCCGCTAATGCTCTGGGCTTTAGCGGCGTTTTT--AG
* ** * * * * *
63873266 AAAGTGTTGCTATTGCTCTGGCCTTTAACGACATTTTTTAG
1 AAAGCGCCGCTAATGCTCTGGGCTTTAGCGGC-GTTTTTAG
* * *
63873307 AAAGGGCCGATAATTCTCTGGGCTTTAGCGGCGTTTTTAG
1 AAAGCGCCGCTAATGCTCTGGGCTTTAGCGGCGTTTTTAG
* *
63873347 AAAGCACCGCTAATGCTCAGGGGCTTTA
1 AAAGCGCCGCTAATGCTC-TGGGCTTTA
63873375 AGTGGGGCTT
Statistics
Matches: 259, Mismatches: 45, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.00
40 29 0.11
41 189 0.73
42 33 0.13
43 7 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCTGGGCTTTAGCGGCGTTTTTAG
Found at i:63874950 original size:51 final size:50
Alignment explanation
Indices: 63874799--63874964 Score: 165
Period size: 51 Copynumber: 3.3 Consensus size: 50
63874789 TATCGATGAA
* ** *
63874799 CACGTGTATAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATAGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAACGATAAAT-ATGGT
** * * * * * *
63874850 CAC--GTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAACGATAA-ATATGGT
*
63874899 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAAACGATAAATGATGGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAACGATAAAT-ATGGT
*
63874950 CACATGTGTAGTACT
1 CACGTGTGTAGTACT
63874965 AAGTGATAAA
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
49 36 0.40
50 2 0.02
51 52 0.58
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAACGATAAATATGGT
Found at i:63874978 original size:32 final size:32
Alignment explanation
Indices: 63874937--63875002 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
63874927 TACGTGAAAC
63874937 GATAAATGATGGTCACATGTGTAGTACTAAGT
1 GATAAATGATGGTCACATGTGTAGTACTAAGT
63874969 GATAAATGATGGTCACATGTGTAGTACTAAGT
1 GATAAATGATGGTCACATGTGTAGTACTAAGT
63875001 GA
1 GA
63875003 AGGCTGTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (32 bp):
GATAAATGATGGTCACATGTGTAGTACTAAGT
Found at i:63875025 original size:20 final size:20
Alignment explanation
Indices: 63875000--63875039 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
63874990 TAGTACTAAG
63875000 TGAAGGCTGTTATATGTACC
1 TGAAGGCTGTTATATGTACC
63875020 TGAAGGCTGTTATATGTACC
1 TGAAGGCTGTTATATGTACC
63875040 GAAAAGCTTT
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:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (20 bp):
TGAAGGCTGTTATATGTACC
Found at i:63875109 original size:50 final size:50
Alignment explanation
Indices: 63875037--63875185 Score: 192
Period size: 50 Copynumber: 2.9 Consensus size: 50
63875027 TGTTATATGT
* *
63875037 ACCGAAAAGCTTTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGA
1 ACCGAAAAGC-TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGA
* * *
63875088 ACCGTAAAA-CTTGATCACGTGTGTAGTACCATGTGAAGGCTACTATGTGT
1 ACCG-AAAAGCTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGA
* * *
63875138 ACCGAAAAGTTTTGGTCACATGTGTAGTACTATGTGAAGGCTACTACG
1 ACCGAAAAG-CTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
63875186 CGTATCGAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
49 4 0.05
50 39 0.46
51 38 0.45
52 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
ACCGAAAAGCTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGA
Found at i:63875173 original size:51 final size:50
Alignment explanation
Indices: 63875020--63875183 Score: 204
Period size: 51 Copynumber: 3.2 Consensus size: 50
63875010 TATATGTACC
** * *
63875020 TGAAGGCTGTTATATGTACCGAAAAGCTTTGGTCACGTGTGTAGTACTGTG
1 TGAAGGCTACTATGTGTACCGAAAAG-TTTGGTCACGTGTGTAGTACTATG
* * * * *
63875071 TGAAGGCTACTACGTGAACCGTAAAA-CTTGATCACGTGTGTAGTACCATG
1 TGAAGGCTACTATGTGTACCG-AAAAGTTTGGTCACGTGTGTAGTACTATG
*
63875121 TGAAGGCTACTATGTGTACCGAAAAGTTTTGGTCACATGTGTAGTACTATG
1 TGAAGGCTACTATGTGTACCGAAAAG-TTTGGTCACGTGTGTAGTACTATG
63875172 TGAAGGCTACTA
1 TGAAGGCTACTA
63875184 CGCGTATCGA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
49 4 0.04
50 39 0.41
51 48 0.51
52 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
TGAAGGCTACTATGTGTACCGAAAAGTTTGGTCACGTGTGTAGTACTATG
Found at i:63879334 original size:18 final size:18
Alignment explanation
Indices: 63879313--63879350 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
63879303 ATTCGGGTAA
63879313 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
63879331 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
63879349 AA
1 AA
63879351 TCGATTGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:63879553 original size:18 final size:18
Alignment explanation
Indices: 63879520--63879572 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
63879510 ATTCACCTAA
*
63879520 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
63879539 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
63879557 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
63879573 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:63879623 original size:6 final size:6
Alignment explanation
Indices: 63879614--63879648 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
63879604 AAATAAAATT
63879614 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
63879649 GTCTAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:63879702 original size:9 final size:9
Alignment explanation
Indices: 63879688--63879734 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
63879678 GTAGTGATTC
*
63879688 ATTCGGTTA
1 ATTCGGGTA
63879697 ATTCGGGTA
1 ATTCGGGTA
*
63879706 ATTCGGTTA
1 ATTCGGGTA
63879715 ATTCGGGTA
1 ATTCGGGTA
63879724 ATTCGGGTA
1 ATTCGGGTA
63879733 AT
1 AT
63879735 CCAAAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (9 bp):
ATTCGGGTA
Found at i:63879711 original size:18 final size:18
Alignment explanation
Indices: 63879688--63879734 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
63879678 GTAGTGATTC
63879688 ATTCGGTTAATTCGGGTA
1 ATTCGGTTAATTCGGGTA
63879706 ATTCGGTTAATTCGGGTA
1 ATTCGGTTAATTCGGGTA
*
63879724 ATTCGGGTAAT
1 ATTCGGTTAAT
63879735 CCAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (18 bp):
ATTCGGTTAATTCGGGTA
Found at i:63883239 original size:51 final size:50
Alignment explanation
Indices: 63883175--63883554 Score: 368
Period size: 51 Copynumber: 7.5 Consensus size: 50
63883165 TATCGATGAA
** * *
63883175 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAAAT-TTGGT
* * * * * * * *
63883226 CACATGTGTAGTACTAAGTGATGGCTACAATGTGTACTGAGAAGCTTTCGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAA-ATTTGGT
** * * *
63883277 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAAAT-TTGGT
* * * * *
63883328 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAA-ATTTGGT
** * * * *
63883379 CACGTGTGTAGTACTGTGTGAAGGCTACTACTTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAAAT-TTGGT
*
63883430 CACATGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAAA--TTTGGT
* * * *
63883481 CATGTGTGTAGTACTAAGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGAT-AAATTTGGT
*
63883531 CACGTGTGTAGTACTATGTGAAGG
1 CACGTGTGTAGTACTAAGTGAAGG
63883555 GTAGTACTAT
Statistics
Matches: 261, Mismatches: 60, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
50 31 0.12
51 224 0.86
52 6 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAAATTTGGT
Found at i:63883354 original size:102 final size:102
Alignment explanation
Indices: 63883175--63883554 Score: 582
Period size: 102 Copynumber: 3.7 Consensus size: 102
63883165 TATCGATGAA
* *
63883175 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
63883240 TAAGTGATGGCTACAATGTGTACTGAGAAGCTTTCGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
63883277 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
63883342 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
*
63883379 CACGTGTGTAGTACTGTGTGAAGGCTACTACTTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
63883444 TAAGTGAAGGCTACTACGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* ** * *** * *
63883481 CATGTGTGTAGTACTAAGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
63883545 TATGTGAAGG
66 TAAGTGAAGG
63883555 GTAGTACTAT
Statistics
Matches: 258, Mismatches: 20, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
101 29 0.11
102 229 0.89
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:63883560 original size:17 final size:17
Alignment explanation
Indices: 63883538--63883571 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
63883528 GATCACGTGT
63883538 GTAGTACTATGTGAAGG
1 GTAGTACTATGTGAAGG
63883555 GTAGTACTATGTGAAGG
1 GTAGTACTATGTGAAGG
63883572 CTATTACGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.29
Consensus pattern (17 bp):
GTAGTACTATGTGAAGG
Found at i:63883569 original size:67 final size:67
Alignment explanation
Indices: 63883488--63883621 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
63883478 GGTCATGTGT
63883488 GTAGTACTAAGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAA
1 GTAGTACTAAGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAA
63883553 GG
66 GG
* *
63883555 GTAGTACTATGTGAAGGCTATTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAA
1 GTAGTACTAAGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAA
63883620 GG
66 GG
63883622 CTACTACGTG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (67 bp):
GTAGTACTAAGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAA
GG
Found at i:63885513 original size:14 final size:14
Alignment explanation
Indices: 63885483--63885518 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
63885473 TTGAATGTTG
*
63885483 ATAATATT-TTTAA
1 ATAATATTATTGAA
63885496 ATAATATTATTGAA
1 ATAATATTATTGAA
63885510 ATAATATTA
1 ATAATATTA
63885519 ATAATGTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATAATATTATTGAA
Found at i:63886674 original size:31 final size:31
Alignment explanation
Indices: 63886636--63886715 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
63886626 TTGGATTTTA
*
63886636 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
63886667 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
*
63886698 ATTGATTTTTGCTGCTAA
1 ATTGGTTTTTGCTGCTAA
63886716 ATCAACCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (31 bp):
ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
Found at i:63888854 original size:12 final size:12
Alignment explanation
Indices: 63888837--63888861 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63888827 ATTTGTCATG
63888837 ATGTTACTATTA
1 ATGTTACTATTA
63888849 ATGTTACTATTA
1 ATGTTACTATTA
63888861 A
1 A
63888862 GGTCTTTAAT
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:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTTACTATTA
Found at i:63892290 original size:18 final size:18
Alignment explanation
Indices: 63892269--63892308 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
63892259 GATTGAGAGT
* * *
63892269 GAAAAGGAATGTGAAACA
1 GAAAAGAAAAGTGAAAAA
63892287 GAAAAGAAAAGTGAAAAA
1 GAAAAGAAAAGTGAAAAA
63892305 GAAA
1 GAAA
63892309 TTGAAGAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAGAAAAGTGAAAAA
Found at i:63895939 original size:7 final size:7
Alignment explanation
Indices: 63895927--63895952 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
63895917 TTAATAAACC
63895927 CTTTTAT
1 CTTTTAT
63895934 CTTTTAT
1 CTTTTAT
63895941 CTTTTAT
1 CTTTTAT
63895948 CTTTT
1 CTTTT
63895953 TTACCCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
CTTTTAT
Found at i:63902247 original size:10 final size:10
Alignment explanation
Indices: 63902219--63902287 Score: 61
Period size: 10 Copynumber: 6.8 Consensus size: 10
63902209 GATTACATAG
*
63902219 ATAGAAAAAA
1 ATAGAAAAAT
*
63902229 ATAATAAAAAT
1 AT-AGAAAAAT
*
63902240 ATAGAAAATT
1 ATAGAAAAAT
63902250 ATA-AAAAAT
1 ATAGAAAAAT
*
63902259 ATAGAAAATTT
1 ATAGAAAA-AT
63902270 ATA-AAAATAT
1 ATAGAAAA-AT
63902280 ATAGAAAA
1 ATAGAAAA
63902288 TTTATTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
9 8 0.17
10 24 0.50
11 16 0.33
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.25
Consensus pattern (10 bp):
ATAGAAAAAT
Found at i:63902256 original size:19 final size:19
Alignment explanation
Indices: 63902234--63902289 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 19
63902224 AAAAAATAAT
63902234 AAAAATATAGAAAATTATA
1 AAAAATATAGAAAATTATA
63902253 AAAAATATAGAAAATTTATA
1 AAAAATATAGAAAA-TTATA
63902273 AAAATATATAGAAAATT
1 AAAA-ATATAGAAAATT
63902290 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.40
20 11 0.31
21 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAATATAGAAAATTATA
Found at i:63902275 original size:28 final size:28
Alignment explanation
Indices: 63902224--63902280 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
63902214 CATAGATAGA
*
63902224 AAAAAATAATAAAAATATAGAAAATTAT
1 AAAAAATAATAAAAATATAGAAAAATAT
* *
63902252 AAAAAAT-ATAGAAAATTTATAAAAATAT
1 AAAAAATAATA-AAAATATAGAAAAATAT
63902280 A
1 A
63902281 TAGAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (28 bp):
AAAAAATAATAAAAATATAGAAAAATAT
Found at i:63902281 original size:21 final size:20
Alignment explanation
Indices: 63902234--63902292 Score: 102
Period size: 21 Copynumber: 3.0 Consensus size: 20
63902224 AAAAAATAAT
63902234 AAAAATATAGAAAA-TTATA
1 AAAAATATAGAAAATTTATA
63902253 AAAAATATAGAAAATTTATA
1 AAAAATATAGAAAATTTATA
63902273 AAAATATATAGAAAATTTAT
1 AAAA-ATATAGAAAATTTAT
63902293 TTTTAAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.37
20 9 0.24
21 15 0.39
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAAATATAGAAAATTTATA
Found at i:63902770 original size:8 final size:8
Alignment explanation
Indices: 63902757--63902851 Score: 59
Period size: 9 Copynumber: 11.1 Consensus size: 8
63902747 TGAGGTGCCG
63902757 TATTTTTA
1 TATTTTTA
63902765 TATTTTTATA
1 TA-TTTT-TA
63902775 TATTTTTTAA
1 TA-TTTTT-A
* *
63902785 AATTTTAA
1 TATTTTTA
63902793 TAATTTTTA
1 T-ATTTTTA
63902802 TATATTTTAA
1 TAT-TTTT-A
*
63902812 TATTTTAA
1 TATTTTTA
*
63902820 TATTTGTA
1 TATTTTTA
*
63902828 TA-TATTA
1 TATTTTTA
63902835 TAATTTTTA
1 T-ATTTTTA
63902844 T-TTTTTA
1 TATTTTTA
63902851 T
1 T
63902852 CATATATCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
7 11 0.16
8 15 0.22
9 28 0.41
10 15 0.22
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (8 bp):
TATTTTTA
Found at i:63902778 original size:10 final size:10
Alignment explanation
Indices: 63902759--63902833 Score: 65
Period size: 9 Copynumber: 8.1 Consensus size: 10
63902749 AGGTGCCGTA
63902759 TTTT-TATAT
1 TTTTATATAT
63902768 TTTTATATAT
1 TTTTATATAT
* *
63902778 TTTT-TAAAA
1 TTTTATATAT
63902787 TTTTA-ATAAT
1 TTTTATAT-AT
63902797 TTTTATATA-
1 TTTTATATAT
63902806 TTTTA-ATA-
1 TTTTATATAT
63902814 TTTTA-ATAT
1 TTTTATATAT
*
63902823 TTGTATATAT
1 TTTTATATAT
63902833 T
1 T
63902834 ATAATTTTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
8 11 0.20
9 21 0.38
10 21 0.38
11 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Done.