Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 136 of 182
Found at i:42547507 original size:37 final size:38
Alignment explanation
Indices: 42547466--42547548 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 38
42547456 ATGTTCATGT
*
42547466 AGTGACA-TTCCTGGTTGCAA-TTGAAGAATACTTATGC
1 AGTGACAGTT-CTGGATGCAATTTGAAGAATACTTATGC
* * * * *
42547503 AGTGATAGTTTTGGATGCAATTTTAAGAATATTTTTGC
1 AGTGACAGTTCTGGATGCAATTTGAAGAATACTTATGC
42547541 AGTGACAG
1 AGTGACAG
42547549 CCTTGGGTGC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
37 14 0.38
38 23 0.62
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (38 bp):
AGTGACAGTTCTGGATGCAATTTGAAGAATACTTATGC
Found at i:42547560 original size:38 final size:38
Alignment explanation
Indices: 42547481--42547561 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
42547471 CATTCCTGGT
* **
42547481 TGCAA-TTGAAGAATACTTATGCAGTGATAGTTTTGGA
1 TGCAATTTGAAGAATACTTATGCAGTGACAGCCTTGGA
* * * *
42547518 TGCAATTTTAAGAATATTTTTGCAGTGACAGCCTTGGG
1 TGCAATTTGAAGAATACTTATGCAGTGACAGCCTTGGA
42547556 TGCAAT
1 TGCAAT
42547562 CTAGAAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
37 5 0.14
38 31 0.86
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (38 bp):
TGCAATTTGAAGAATACTTATGCAGTGACAGCCTTGGA
Found at i:42550200 original size:33 final size:33
Alignment explanation
Indices: 42550163--42550230 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
42550153 ACTTGAAAAA
*
42550163 AAAAGAGACCAAGTGACTAAACTTCTTGATCTT
1 AAAAGAGACCAAGTGACTAAACATCTTGATCTT
*
42550196 AAAAGAGCCCAAGTGACTAAACATCTTGATCTT
1 AAAAGAGACCAAGTGACTAAACATCTTGATCTT
42550229 AA
1 AA
42550231 GAAGCAGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (33 bp):
AAAAGAGACCAAGTGACTAAACATCTTGATCTT
Found at i:42555308 original size:16 final size:17
Alignment explanation
Indices: 42555281--42555313 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
42555271 AATCTCGTTT
42555281 TAAAAGCTAAAAATAAA
1 TAAAAGCTAAAAATAAA
*
42555298 TAAAA-CTAAAATTAAA
1 TAAAAGCTAAAAATAAA
42555314 AATTAAAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.70, C:0.06, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAGCTAAAAATAAA
Found at i:42568067 original size:23 final size:25
Alignment explanation
Indices: 42568022--42568095 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
42568012 TAATAGAGAG
* *
42568022 GAATTTTTTTTGAAATAAGATTCAGA
1 GAATTTTTTTTGACA-AACATTCAGA
*
42568048 G-ATTTTTTTATG-C-AACATTCAAA
1 GAATTTTTTT-TGACAAACATTCAGA
42568071 GAATTTTTTTTGACAAACATTCAGA
1 GAATTTTTTTTGACAAACATTCAGA
42568096 AAAAATTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
23 11 0.28
24 9 0.22
25 17 0.43
26 3 0.08
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (25 bp):
GAATTTTTTTTGACAAACATTCAGA
Found at i:42568341 original size:13 final size:13
Alignment explanation
Indices: 42568325--42568355 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
42568315 TTTTTTTTAC
42568325 ATTTAATTTATTG
1 ATTTAATTTATTG
*
42568338 ATTTAATTTATTT
1 ATTTAATTTATTG
42568351 ATTTA
1 ATTTA
42568356 TTTGACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
ATTTAATTTATTG
Found at i:42568347 original size:37 final size:37
Alignment explanation
Indices: 42568295--42568366 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
42568285 TTCTTTTTTA
* *
42568295 TTATTATTTATATTTAGTTT-TTTTTTTTACATTTAAT
1 TTATTATTTATATTTA-TTTATTTATTTGACATTTAAT
42568332 TTATTGATTTA-ATTTATTTATTTATTTGACATTTA
1 TTATT-ATTTATATTTATTTATTTATTTGACATTTA
42568367 TTTTCATGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 3 0.10
37 23 0.74
38 5 0.16
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (37 bp):
TTATTATTTATATTTATTTATTTATTTGACATTTAAT
Found at i:42580349 original size:33 final size:33
Alignment explanation
Indices: 42580312--42580385 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
42580302 CTTGAAAAAA
42580312 AAAAGAGCTCAAGTGACTAAACATCTTGATCTT
1 AAAAGAGCTCAAGTGACTAAACATCTTGATCTT
*
42580345 AAAAGAGCCCAAGTGACTAAACATCTTGATCTT
1 AAAAGAGCTCAAGTGACTAAACATCTTGATCTT
42580378 AAAA-AGCT
1 AAAAGAGCT
42580386 AGCTAGCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 3 0.08
33 36 0.92
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (33 bp):
AAAAGAGCTCAAGTGACTAAACATCTTGATCTT
Found at i:42584616 original size:21 final size:22
Alignment explanation
Indices: 42584592--42584645 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
42584582 ATGACCAAAG
*
42584592 AATAAAATTAACCCA-ATTATT
1 AATAAAATAAACCCATATTATT
*
42584613 AATAATTAATAAACTCATATTATT
1 AATAA--AATAAACCCATATTATT
*
42584637 AATTAAATA
1 AATAAAATA
42584646 TTCTATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 8 0.30
24 10 0.37
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
AATAAAATAAACCCATATTATT
Found at i:42591005 original size:8 final size:8
Alignment explanation
Indices: 42590992--42591018 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
42590982 ATTTAAGTAA
42590992 TATTTAGG
1 TATTTAGG
42591000 TATTTAGG
1 TATTTAGG
42591008 TATTTAGG
1 TATTTAGG
42591016 TAT
1 TAT
42591019 CGATTTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (8 bp):
TATTTAGG
Found at i:42591579 original size:16 final size:16
Alignment explanation
Indices: 42591527--42591579 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
42591517 ATTATGTTAG
42591527 ATATTTTTATTGCATTT
1 ATATTTTTATT-CATTT
* *
42591544 CATA-TATTATTCATTG
1 -ATATTTTTATTCATTT
*
42591560 ATATTTTTATTTATTT
1 ATATTTTTATTCATTT
42591576 ATAT
1 ATAT
42591580 GCCATATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 3 0.10
16 17 0.59
17 6 0.21
18 3 0.10
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (16 bp):
ATATTTTTATTCATTT
Found at i:42592616 original size:2 final size:2
Alignment explanation
Indices: 42592611--42592646 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
42592601 TTTTTTGTTT
42592611 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42592647 GTTGCTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:42597507 original size:15 final size:15
Alignment explanation
Indices: 42597487--42597517 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42597477 TGAATGAGAT
42597487 AAGATCCCCACGTAA
1 AAGATCCCCACGTAA
42597502 AAGATCCCCACGTAA
1 AAGATCCCCACGTAA
42597517 A
1 A
42597518 TGCTACCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.32, G:0.13, T:0.13
Consensus pattern (15 bp):
AAGATCCCCACGTAA
Found at i:42603464 original size:1 final size:1
Alignment explanation
Indices: 42603458--42603491 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
42603448 TAATAAAGTA
*
42603458 TTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
42603492 CTGTTGTGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:42603482 original size:18 final size:18
Alignment explanation
Indices: 42603459--42603496 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
42603449 AATAAAGTAT
*
42603459 TTTTTTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTCTG
42603477 TTTTTTTTTTTTTTTCTG
1 TTTTTTTTTTTTTTTCTG
42603495 TT
1 TT
42603497 GTGCGTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCTG
Found at i:42607986 original size:41 final size:41
Alignment explanation
Indices: 42607841--42608080 Score: 200
Period size: 41 Copynumber: 5.9 Consensus size: 41
42607831 TAAATAAATT
* *** * * *
42607841 ACCTTTAGCGGCACTTTTAAATAAACGCCGTTAATGCTCTT
1 ACCTTTAGCGGCGCTTTCCCATAAATGCCGCTAATGCTCTG
* * *** * *
42607882 ATCTTTAGCGTCGCTTTTAAATAAACGCCGTTAATG-TCTG
1 ACCTTTAGCGGCGCTTTCCCATAAATGCCGCTAATGCTCTG
* * * *
42607922 ACTTTTAGCGACGTTTTCCCATAAATGTCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCCCATAAATGCCGCTAATGCTCTG
* *
42607963 ACCTTTAGTGGCGCTTTCTCATAAACT-CCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCCCATAAA-TGCCGCTAATGCTCTG
* *
42608004 ACCTTTAG-TG-GCTTTCCCATAAATGCCGCTAATACTCTG
1 ACCTTTAGCGGCGCTTTCCCATAAATGCCGCTAATGCTCTG
* * * * *
42608043 ACTTTTAGCGGCGCTTTCTCAAAAACGCCGCTATTGCT
1 ACCTTTAGCGGCGCTTTCCCATAAATGCCGCTAATGCT
42608081 TAACTTTTTG
Statistics
Matches: 164, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.20
40 31 0.19
41 99 0.60
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTCCCATAAATGCCGCTAATGCTCTG
Found at i:42613987 original size:3 final size:3
Alignment explanation
Indices: 42613979--42614037 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
42613969 TCTTTATATG
42613979 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
42614027 TTC TTC TTC TT
1 TTC TTC TTC TT
42614038 AGCATGAGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:42615317 original size:75 final size:75
Alignment explanation
Indices: 42615194--42615341 Score: 269
Period size: 75 Copynumber: 2.0 Consensus size: 75
42615184 ATTCAGGTTC
* *
42615194 AACACTTGGCTCTACTGGTTCCTCTTCTAGCTTAACTTTTGGTTTAGGGTTTGTAAGTTCCTCAA
1 AACACTTGGCTCGACTGGTTCCTCTTCTAGCTTAACTTTTGATTTAGGGTTTGTAAGTTCCTCAA
42615259 TCAGTTTAAG
66 TCAGTTTAAG
*
42615269 AACACTTGGCTCGACTGGTTCCTCTTCTAGCTTAACTTTTGATTTAGGGTTTGTAGGTTCCTCAA
1 AACACTTGGCTCGACTGGTTCCTCTTCTAGCTTAACTTTTGATTTAGGGTTTGTAAGTTCCTCAA
42615334 TCAGTTTA
66 TCAGTTTA
42615342 GGAATGTTTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (75 bp):
AACACTTGGCTCGACTGGTTCCTCTTCTAGCTTAACTTTTGATTTAGGGTTTGTAAGTTCCTCAA
TCAGTTTAAG
Found at i:42623356 original size:38 final size:37
Alignment explanation
Indices: 42623304--42623376 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
42623294 TTCTTTTTTA
*
42623304 TTATTATTTATATTTAGTTGTTTATTTTGACATTTAAT
1 TTATTATTTATATTTAGTTATTTA-TTTGACATTTAAT
* *
42623342 TTATTGATTT-TATTTATTTATTTATTTGTCATTTA
1 TTATT-ATTTATATTTAGTTATTTATTTGACATTTA
42623377 TTCTCATGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 10 0.32
38 17 0.55
39 4 0.13
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.66
Consensus pattern (37 bp):
TTATTATTTATATTTAGTTATTTATTTGACATTTAAT
Found at i:42623489 original size:104 final size:98
Alignment explanation
Indices: 42623304--42623490 Score: 225
Period size: 98 Copynumber: 1.8 Consensus size: 98
42623294 TTCTTTTTTA
* *
42623304 TTATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTGATTTTATTTATTTATTTATTT
1 TTATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTAATTTTATTTATTTATTTAGTT
42623369 GTCATTTATTCTCATGTCTAATCTCAACTATTT
66 GTCATTTATTCTCATGTCTAATCTCAACTATTT
* * *
42623402 TTATTGTTTATATTTATTTGTTTATTTT-AGCATTTGATTTTCATTTTAACTTTCTATTTATTTA
1 TTATTATTTATATTTAGTTGTTTATTTTGA-CATTT-AATTT-A--TTAA-TTT-TATTTATTTA
* *
42623466 TCTT-GTTGTTATTTATTTTCATGTC
59 T-TTAGTTGTCATTTATTCTCATGTC
42623491 ATTTTATTGT
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
97 1 0.01
98 31 0.42
99 4 0.05
100 1 0.01
102 3 0.04
103 3 0.04
104 29 0.39
105 2 0.03
ACGTcount: A:0.22, C:0.08, G:0.07, T:0.63
Consensus pattern (98 bp):
TTATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTAATTTTATTTATTTATTTAGTT
GTCATTTATTCTCATGTCTAATCTCAACTATTT
Found at i:42632359 original size:18 final size:18
Alignment explanation
Indices: 42632317--42632361 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
42632307 AAGAAATCCC
*
42632317 AAGTTGATTGATTATCGA
1 AAGTTGGTTGATTATCGA
42632335 AAGTTGGTTGATTATCGA
1 AAGTTGGTTGATTATCGA
42632353 AAGTTGGTT
1 AAGTTGGTT
42632362 CTTGAGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.27, T:0.40
Consensus pattern (18 bp):
AAGTTGGTTGATTATCGA
Found at i:42634148 original size:20 final size:20
Alignment explanation
Indices: 42634091--42634148 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
42634081 CACTTCAGCA
** *
42634091 ATTTTTGATTGATTTTTGCT
1 ATTTTTGACCGATATTTGCT
* *
42634111 ATTTTTGACCAACATTTGCT
1 ATTTTTGACCGATATTTGCT
*
42634131 ATTTTTGACCGATGTTTG
1 ATTTTTGACCGATATTTG
42634149 TAATCTTTGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTTTTGACCGATATTTGCT
Found at i:42635017 original size:45 final size:45
Alignment explanation
Indices: 42634944--42635367 Score: 404
Period size: 45 Copynumber: 9.4 Consensus size: 45
42634934 ACATCACCTA
* ** *
42634944 ATCCAATCTTTTACCCCTAATCTTGAGGGGCAGATTGAAGCCACC
1 ATCCAATCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACC
* * *
42634989 ATCCAATCTTTTACCATTAATTCAGAGGGGCAGATTGAAGCCACC
1 ATCCAATCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACC
* * * * **
42635034 ATTCAACCTTTTACCCCTAATCCAGAAGGGTAGATTGAAATCACC
1 ATCCAATCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACC
* * *
42635079 ATACAATCTTTTACCCTAAATCCAG-AGAGGCAGATTGAAACCACC
1 ATCCAATCTTTTACCCTTAATCCAGAAG-GGCAGATTGAAGCCACC
* * *
42635124 ATACAATCTTTTACCCTAAATCCA-AAGAGGCAGATTGAACCCACC
1 ATCCAATCTTTTACCCTTAATCCAGAAG-GGCAGATTGAAGCCACC
* * * *** *
42635169 ATCCAATATTTTACCCCTAAAACCA-ATAGGATGGATTAAAGCCACC
1 ATCCAATCTTTTA-CCCTTAATCCAGA-AGGGCAGATTGAAGCCACC
* ** * * *
42635215 ATCCAATATTTTACCCCAAAATCCAAAAGGGCAGATTAAAGTCACC
1 ATCCAATCTTTTA-CCCTTAATCCAGAAGGGCAGATTGAAGCCACC
* * * *
42635261 ATCAAAGCTTTTACCCTTAATTCAAAAGGGCAGATTGAAGCCACC
1 ATCCAATCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACC
* * *
42635306 ATCCAATCTTTTACCCTTAAATCCAGAACGGCATATTGAAGCAACC
1 ATCCAATCTTTTACCCTT-AATCCAGAAGGGCAGATTGAAGCCACC
* *
42635352 ATTCAATATTTTACCC
1 ATCCAATCTTTTACCC
42635368 CCCAAAATCC
Statistics
Matches: 321, Mismatches: 52, Indels: 11
0.84 0.14 0.03
Matches are distributed among these distances:
44 2 0.01
45 209 0.65
46 107 0.33
47 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (45 bp):
ATCCAATCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACC
Found at i:42636325 original size:14 final size:12
Alignment explanation
Indices: 42636300--42636333 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
42636290 CTAATCCAAA
42636300 TTATTTTATTGT
1 TTATTTTATTGT
42636312 TTATATTTATTTGT
1 TTAT-TTTA-TTGT
42636326 TTATTTTA
1 TTATTTTA
42636334 GCATTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (12 bp):
TTATTTTATTGT
Found at i:42636341 original size:21 final size:22
Alignment explanation
Indices: 42636317--42636372 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
42636307 ATTGTTTATA
42636317 TTTATTTGTTTATTTTA-GCAT
1 TTTATTTGTTTATTTTACGCAT
*
42636338 TTTA-TT-TTTATTTTTACTCAT
1 TTTATTTGTTTA-TTTTACGCAT
42636359 TTT-TTTGTTTATTT
1 TTTATTTGTTTATTT
42636373 ATGTTGTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 15 0.50
22 4 0.13
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTATTTGTTTATTTTACGCAT
Found at i:42636478 original size:40 final size:40
Alignment explanation
Indices: 42636401--42636478 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
42636391 TTCATGTCAT
* *
42636401 TTTATTGTTATCTCTTTTATTATTTTTTATTTAATTTACA
1 TTTATTGTTATATCTTGTATTATTTTTTATTTAATTTACA
*
42636441 TTTATTGTTATTATCTTGT-TTGTTTATTTATTT-ATTTA
1 TTTATTGTTA-TATCTTGTATTATTT-TTTATTTAATTTA
42636479 TTTATCATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.61
41 13 0.39
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (40 bp):
TTTATTGTTATATCTTGTATTATTTTTTATTTAATTTACA
Found at i:42648559 original size:33 final size:33
Alignment explanation
Indices: 42648501--42648569 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
42648491 ATTTTCAAAC
42648501 TTTTACTGTTTAAATATTAAAGAT-AAATAATA
1 TTTTACTGTTTAAATATTAAAGATAAAATAATA
* * * *
42648533 TTTTGACTGTTTTAATTTTAAGGATAAAATATTA
1 TTTT-ACTGTTTAAATATTAAAGATAAAATAATA
42648567 TTT
1 TTT
42648570 ATCCTTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 4 0.13
33 17 0.55
34 10 0.32
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (33 bp):
TTTTACTGTTTAAATATTAAAGATAAAATAATA
Found at i:42648635 original size:32 final size:34
Alignment explanation
Indices: 42648558--42648637 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
42648548 TTTTAAGGAT
*
42648558 AAAATATTATTTATCCTTTCATAAAAATTTTAAA
1 AAAATATTATTTATCCTTTCATAAAAATATTAAA
*
42648592 AAAATATTATTTATCCTTTCAT-AATATATT-AA
1 AAAATATTATTTATCCTTTCATAAAAATATTAAA
*
42648624 AAAATAATATTTAT
1 AAAATATTATTTAT
42648638 TTTTGGGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 15 0.35
33 6 0.14
34 22 0.51
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (34 bp):
AAAATATTATTTATCCTTTCATAAAAATATTAAA
Found at i:42649620 original size:26 final size:27
Alignment explanation
Indices: 42649568--42649621 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
42649558 AGAAACTGAA
42649568 TTCAGAGTTCAAAATATTATTTATTCT
1 TTCAGAGTTCAAAATATTATTTATTCT
42649595 TTCAGAGTTCAAAAT-TTATTTATTCT
1 TTCAGAGTTCAAAATATTATTTATTCT
42649621 T
1 T
42649622 AATATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.50
Consensus pattern (27 bp):
TTCAGAGTTCAAAATATTATTTATTCT
Found at i:42649678 original size:33 final size:35
Alignment explanation
Indices: 42649641--42649706 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
42649631 ACAATTAAAA
42649641 TTTTT-AAA-TTTTATG-AAAGAATAAATGATATGT
1 TTTTTAAAATTTTTATGAAAAGAATAAAT-ATATGT
*
42649674 TTTTTAAAATTTTTATGAAAAGGATAAATATAT
1 TTTTTAAAATTTTTATGAAAAGAATAAATATAT
42649707 TTTATCCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 5 0.17
34 3 0.10
35 11 0.38
36 10 0.34
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (35 bp):
TTTTTAAAATTTTTATGAAAAGAATAAATATATGT
Found at i:42649767 original size:136 final size:134
Alignment explanation
Indices: 42649602--42649999 Score: 511
Period size: 136 Copynumber: 3.0 Consensus size: 134
42649592 TCTTTCAGAG
* *
42649602 TTCAAAAT-TTATTTAT-TCTTAATATTTAAACAATTAAAATTTTTAAATTTTATGAAAGAATAA
1 TTCAAAATATTATTTATCT-TTAATATTTAAACAGTTAAAATTTTAAAATTTTATGAAAGAATAA
* *
42649665 ATGATATGTTTTTTAAAATTTTTATGAAAAGGATAAATATATTTTATCCTTAAAATTAAAACAGT
65 ATGATATATTTTTTAAAA-TTTTATG-AAAGGATAAATATATTTTATACTTAAAATTAAAACAGT
42649730 CAAAATA
128 CAAAATA
* * * *
42649737 TTCAAAATATTATTTATCTTTAATATTTAAACAGTTAAAAGTTTGAAAATTTTACGGACGAATAA
1 TTCAAAATATTATTTATCTTTAATATTTAAACAGTTAAAA-TTTTAAAATTTTATGAAAGAATAA
* * *
42649802 ATGATATATTTTTTAAAATGTTATGAAAGGATAAATAATATTTTATTCTTAAAATTAAAACAGTT
65 ATGATATATTTTTTAAAATTTTATGAAAGGATAAAT-ATATTTTATACTTAAAATTAAAACAGTC
42649867 AAAATA
129 AAAATA
* * * * * * * *
42649873 TTTAAAATATTATTTATCCTTAAAATTCAACCCGTTAAAATTTTAAAATTTTGTGAAATAATAAA
1 TTCAAAATATTATTTATCTTTAATATTTAAACAGTTAAAATTTTAAAATTTTATGAAAGAATAAA
* *
42649938 T-ATTTATTTTTT-AAATTTTATGAAAGGATAAA-ATATTTTATAAC-TAAAATTAAAACAATCA
66 TGATATATTTTTTAAAATTTTATGAAAGGATAAATATATTTTAT-ACTTAAAATTAAAACAGTCA
42649999 A
130 A
42650000 GCTTTGAGAC
Statistics
Matches: 231, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
131 25 0.11
132 1 0.00
133 19 0.08
134 10 0.04
135 39 0.17
136 100 0.43
137 37 0.16
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (134 bp):
TTCAAAATATTATTTATCTTTAATATTTAAACAGTTAAAATTTTAAAATTTTATGAAAGAATAAA
TGATATATTTTTTAAAATTTTATGAAAGGATAAATATATTTTATACTTAAAATTAAAACAGTCAA
AATA
Found at i:42649889 original size:42 final size:42
Alignment explanation
Indices: 42649834--42649921 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
42649824 ATGAAAGGAT
*
42649834 AAATAATATTTTATTCTTAAAATTAAAACAGTTAAAATATTTA
1 AAATAATATTTTATCCTTAAAATTAAAACAGTTAAAAT-TTTA
* * * *
42649877 AAATATTA-TTTATCCTTAAAATTCAACCCGTTAAAATTTTA
1 AAATAATATTTTATCCTTAAAATTAAAACAGTTAAAATTTTA
42649918 AAAT
1 AAAT
42649922 TTTGTGAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 8 0.20
42 25 0.62
43 7 0.17
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (42 bp):
AAATAATATTTTATCCTTAAAATTAAAACAGTTAAAATTTTA
Found at i:42649969 original size:32 final size:33
Alignment explanation
Indices: 42649913--42649975 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
42649903 CCCGTTAAAA
* *
42649913 TTTTAAAATTTTGTGAAATAAT-AAATATTTAT
1 TTTTAAAATTTTATGAAAGAATAAAATATTTAT
* *
42649945 TTTTTAAATTTTATGAAAGGATAAAATATTT
1 TTTTAAAATTTTATGAAAGAATAAAATATTT
42649976 TATAACTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (33 bp):
TTTTAAAATTTTATGAAAGAATAAAATATTTAT
Found at i:42651650 original size:110 final size:110
Alignment explanation
Indices: 42651457--42651668 Score: 307
Period size: 110 Copynumber: 1.9 Consensus size: 110
42651447 TGTCGGATGG
* * * * *
42651457 TTGAGAATCCACGACCCCTCGTAGATAAAAGCTGTTAGAAAAAATCATGGATGCTCCATTCATAT
1 TTGAGAATCCACAACCCCTCGCAGATAAAAGCTATCAGAAAAAATCATGGATGCTCCAGTCATAT
42651522 AGTCACAATTGGAATATGCTAATCTATGAATACACAATGGATTGA
66 AGTCACAATTGGAATATGCTAATCTATGAATACACAATGGATTGA
* * * **
42651567 TTGAGGATCCACAATCCCTCGCAGATAAAAGCTATCAGAAGAAATCATGGATGCTCTGGTCATAT
1 TTGAGAATCCACAACCCCTCGCAGATAAAAGCTATCAGAAAAAATCATGGATGCTCCAGTCATAT
* * *
42651632 AGTCGCAGTTGGAATATGCTAATCTTTGAATACACAA
66 AGTCACAATTGGAATATGCTAATCTATGAATACACAA
42651669 CGGACAAACA
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
110 89 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (110 bp):
TTGAGAATCCACAACCCCTCGCAGATAAAAGCTATCAGAAAAAATCATGGATGCTCCAGTCATAT
AGTCACAATTGGAATATGCTAATCTATGAATACACAATGGATTGA
Found at i:42652614 original size:2 final size:2
Alignment explanation
Indices: 42652609--42652635 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42652599 ATATATATAT
42652609 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
42652636 ATAGGGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:42653615 original size:35 final size:35
Alignment explanation
Indices: 42653564--42653644 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
42653554 GTAGCAACAT
* * * *
42653564 CCTAGTTTAATCAACATCTATACTGTTAGTAGAAC
1 CCTAGTTTAATCAACATATATACTATTAATAAAAC
* *
42653599 CCTATTTTAATTAACATATATACTATTAATAAAAC
1 CCTAGTTTAATCAACATATATACTATTAATAAAAC
42653634 CCTAGTTTAAT
1 CCTAGTTTAAT
42653645 AGATTTCTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (35 bp):
CCTAGTTTAATCAACATATATACTATTAATAAAAC
Found at i:42657618 original size:17 final size:17
Alignment explanation
Indices: 42657598--42657703 Score: 130
Period size: 17 Copynumber: 6.4 Consensus size: 17
42657588 AATTTATTTG
* *
42657598 TTAAACTTATTTTAAGT
1 TTAAATTTATTTTAAAT
*
42657615 TTAAATTTATTTTAAGT
1 TTAAATTTATTTTAAAT
*
42657632 TT-AA---ATTTTATAT
1 TTAAATTTATTTTAAAT
*
42657645 TTAAATTTAATTTAAAT
1 TTAAATTTATTTTAAAT
42657662 TTAAATTTATTTTTAAAT
1 TTAAATTTA-TTTTAAAT
42657680 TTAAATTTATTTTAAAT
1 TTAAATTTATTTTAAAT
42657697 TTAAATT
1 TTAAATT
42657704 AAAAGTCCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
13 9 0.12
14 2 0.03
16 2 0.03
17 49 0.63
18 16 0.21
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.58
Consensus pattern (17 bp):
TTAAATTTATTTTAAAT
Found at i:42657676 original size:35 final size:35
Alignment explanation
Indices: 42657637--42657703 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
42657627 TAAGTTTAAA
*
42657637 TTTTATATTTAAATTTAATTTAAATTTAAATTTAT
1 TTTTAAATTTAAATTTAATTTAAATTTAAATTTAT
*
42657672 TTTTAAATTTAAATTTATTTTAAATTTAAATT
1 TTTTAAATTTAAATTTAATTTAAATTTAAATT
42657704 AAAAGTCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (35 bp):
TTTTAAATTTAAATTTAATTTAAATTTAAATTTAT
Found at i:42657705 original size:11 final size:11
Alignment explanation
Indices: 42657645--42657706 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
42657635 AATTTTATAT
*
42657645 TTAAATTTAAT
1 TTAAATTTAAA
42657656 TTAAATTTAAA
1 TTAAATTTAAA
**
42657667 TTTATTTTTAAA
1 -TTAAATTTAAA
**
42657679 TTTAAATTTATT
1 -TTAAATTTAAA
42657691 TTAAATTTAAA
1 TTAAATTTAAA
42657702 TTAAA
1 TTAAA
42657707 AGTCCAAATA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
11 24 0.59
12 17 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:42657706 original size:5 final size:6
Alignment explanation
Indices: 42657608--42657703 Score: 99
Period size: 6 Copynumber: 16.3 Consensus size: 6
42657598 TTAAACTTAT
* * * *
42657608 TTTAAG TTTAAA TTT-AT TTTAAG TTTAAA TTTTATA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
** *
42657655 TTTAAA TTTAAA TTTATT TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
42657702 TT
1 TT
42657704 AAAAGTCCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
5 13 0.18
6 56 0.76
7 5 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:42659393 original size:29 final size:29
Alignment explanation
Indices: 42659361--42659664 Score: 159
Period size: 29 Copynumber: 10.5 Consensus size: 29
42659351 AAAATATTCC
*
42659361 AAAATTATATTTTAACCCTAAACTTCTCA
1 AAAATTACATTTTAACCCTAAACTTCTCA
* *
42659390 AAAATTACATTTTTACCCTCAAACTT-TTA
1 AAAATTACATTTTAACCCT-AAACTTCTCA
* * *
42659419 AAAATCACATTTTGACCCTCAAAAGTTC-C-
1 AAAATTACATTTTAACCCT--AAACTTCTCA
*
42659448 -AAATTGCATTTTAACACC-AAACTTCTCA
1 AAAATTACATTTTAAC-CCTAAACTTCTCA
* *
42659476 AAAATTACATTTTTATCCTTAAACTTC-CA
1 AAAATTACA-TTTTAACCCTAAACTTCTCA
* *
42659505 AAAATTACATTTTTGACCCCAAACTT-TCCA
1 AAAATTACA-TTTTAACCCTAAACTTCT-CA
* * *
42659535 AAAATTACCATTTT-ACCTTCGAACATC-CAA
1 AAAATTA-CATTTTAACCCT-AAACTTCTC-A
* * **
42659565 AAAATTACCATTATACCCCCGAA-TATC-C-
1 AAAATTA-CATTTTAACCCTAAACT-TCTCA
* * * *
42659593 AAAATTACGTTTTGACCCCAAACTTTTC-
1 AAAATTACATTTTAACCCTAAACTTCTCA
* * *
42659621 AAGATTACCATTTTACCCCTAAACATC-CA
1 AAAATTA-CATTTTAACCCTAAACTTCTCA
42659650 AAAATTATCATTTTA
1 AAAATTA-CATTTTA
42659665 TCCTCGGATG
Statistics
Matches: 211, Mismatches: 43, Indels: 42
0.71 0.15 0.14
Matches are distributed among these distances:
26 6 0.03
27 12 0.06
28 28 0.13
29 100 0.47
30 61 0.29
31 4 0.02
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTAACCCTAAACTTCTCA
Found at i:42659478 original size:86 final size:85
Alignment explanation
Indices: 42659323--42659536 Score: 268
Period size: 86 Copynumber: 2.5 Consensus size: 85
42659313 AAAGCCCCTG
* *
42659323 AACTGTCTAAAAATCATATTTTGACCCCAAAATATTCCAAAATTATATTTTAACCCTAAACTTCT
1 AACT-TCTAAAAATCACATTTTGACCCCAAAA-ATTCC-AAATTACATTTTAACCCTAAACTTCT
42659388 CAAAAATTACATTTTTACCCTCA
63 CAAAAATTACATTTTTACCCTCA
* * *
42659411 AACTTTTAAAAATCACATTTTGACCCTCAAAAGTTCCAAATTGCATTTTAACACC-AAACTTCTC
1 AACTTCTAAAAATCACATTTTGACCC-CAAAAATTCCAAATTACATTTTAAC-CCTAAACTTCTC
* *
42659475 AAAAATTACATTTTTATCCTTA
64 AAAAATTACATTTTTACCCTCA
* * **
42659497 AACTTCCAAAAATTACATTTTTGACCCCAAACTTTCCAAA
1 AACTTCTAAAAATCACA-TTTTGACCCCAAAAATTCCAAA
42659537 AATTACCATT
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
86 67 0.60
87 35 0.32
88 9 0.08
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (85 bp):
AACTTCTAAAAATCACATTTTGACCCCAAAAATTCCAAATTACATTTTAACCCTAAACTTCTCAA
AAATTACATTTTTACCCTCA
Found at i:42659779 original size:59 final size:58
Alignment explanation
Indices: 42659501--42659809 Score: 243
Period size: 58 Copynumber: 5.3 Consensus size: 58
42659491 TCCTTAAACT
* * * * * **
42659501 TCCAAAAATTA-CATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCTTCGAACA
1 TCCAAAAATTACCATTTTT--CCCCTAAGTGTCCAAAAATTATCGTTTTACCCCCGAACA
** * * * *
42659560 TCCAAAAAATTACCATTATACCCCCGAA-TATCC-AAAATTA-CGTTTTGA-CCCCAAACTT
1 TCC-AAAAATTACCATT-TTTCCCCTAAGTGTCCAAAAATTATCGTTTT-ACCCCCGAAC-A
* * * *** * * * * **
42659618 TTC-AAGATTACCATTTTACCCCTAAACATCCAAAAATTATCATTTTATCCTCGGATG
1 TCCAAAAATTACCATTTTTCCCCTAAGTGTCCAAAAATTATCGTTTTACCCCCGAACA
*
42659675 TCCAAAAATTACCATTTTTCCCCTAAGTGTCCAAAAATTACCGTTTTACCCCCGAACA
1 TCCAAAAATTACCATTTTTCCCCTAAGTGTCCAAAAATTATCGTTTTACCCCCGAACA
* * *
42659733 TCCAAAAATTACCATTTTTTCCCTCGAGTGTCCAAAAATTATCGTTTTACCCCCGATCA
1 TCCAAAAATTACCATTTTTCCCCT-AAGTGTCCAAAAATTATCGTTTTACCCCCGAACA
*
42659792 TCCCAAAATTACCATTTT
1 TCCAAAAATTACCATTTT
42659810 GCCCTCGGGC
Statistics
Matches: 200, Mismatches: 39, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
55 7 0.04
56 15 0.08
57 20 0.10
58 84 0.42
59 55 0.28
60 14 0.07
61 4 0.02
62 1 0.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (58 bp):
TCCAAAAATTACCATTTTTCCCCTAAGTGTCCAAAAATTATCGTTTTACCCCCGAACA
Found at i:42659893 original size:28 final size:29
Alignment explanation
Indices: 42659531--42659886 Score: 199
Period size: 29 Copynumber: 12.3 Consensus size: 29
42659521 CCCCAAACTT
** *
42659531 TCCAAAAATTACCATTTTACCTTCGAACA
1 TCCAAAAATTACCATTTTACCCCCGAGCA
* **
42659560 TCCAAAAAATTACCATTATACCCCCGAATA
1 TCC-AAAAATTACCATTTTACCCCCGAGCA
* * * *
42659590 TCC-AAAATTA-CGTTTTGA-CCCCAAACTT
1 TCCAAAAATTACCATTTT-ACCCCCGAGC-A
* * ** *
42659618 TTC-AAGATTACCATTTTACCCCTAAACA
1 TCCAAAAATTACCATTTTACCCCCGAGCA
* * *
42659646 TCCAAAAATTATCATTTTATCCTCG-G-A
1 TCCAAAAATTACCATTTTACCCCCGAGCA
* ** **
42659673 TGTCCAAAAATTACCATTTTTCCCCTAAGTG
1 --TCCAAAAATTACCATTTTACCCCCGAGCA
* *
42659704 TCCAAAAATTACCGTTTTACCCCCGAACA
1 TCCAAAAATTACCATTTTACCCCCGAGCA
* * **
42659733 TCCAAAAATTACCATTTTTTCCCTCGAGTG
1 TCCAAAAATTACCA-TTTTACCCCCGAGCA
* * *
42659763 TCCAAAAATTATCGTTTTACCCCCGATCA
1 TCCAAAAATTACCATTTTACCCCCGAGCA
* * * *
42659792 TCCCAAAATTACCATTTTGCCCTCGGGCA
1 TCCAAAAATTACCATTTTACCCCCGAGCA
* * * * *
42659821 T-CTAAAATT-GCATTTTTA-CCTCGAACT
1 TCCAAAAATTACCA-TTTTACCCCCGAGCA
* *
42659848 TTCAAAAATTACCATTTTACCCCCGGGCA
1 TCCAAAAATTACCATTTTACCCCCGAGCA
42659877 TCCAAAAATT
1 TCCAAAAATT
42659887 GCATTTTTGA
Statistics
Matches: 243, Mismatches: 69, Indels: 30
0.71 0.20 0.09
Matches are distributed among these distances:
27 20 0.08
28 42 0.17
29 133 0.55
30 48 0.20
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.31
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCCCGAGCA
Found at i:42664146 original size:24 final size:24
Alignment explanation
Indices: 42664119--42664387 Score: 322
Period size: 24 Copynumber: 11.1 Consensus size: 24
42664109 TTACTCTAGT
* *
42664119 CAGCTAATATACGTTTACGCTCAC
1 CAGCTAATATGCGTTTACGCTCGC
* * *
42664143 CAGCTAATATACGTTTATGCTCGT
1 CAGCTAATATGCGTTTACGCTCGC
42664167 CAGCTAATATGCGTTTACGCTCGC
1 CAGCTAATATGCGTTTACGCTCGC
*
42664191 CAGCTAATATGCGTTTACGCTCGT
1 CAGCTAATATGCGTTTACGCTCGC
* * *
42664215 CAGCTAATATGTGTTTATGCTCAC
1 CAGCTAATATGCGTTTACGCTCGC
* **
42664239 CAGCTAATATACGTTTACGCTCAT
1 CAGCTAATATGCGTTTACGCTCGC
* *
42664263 CAGCTAATATGCATTTACGCTCGT
1 CAGCTAATATGCGTTTACGCTCGC
* * * *
42664287 TAGCTAATATGCATTTACTCTCGT
1 CAGCTAATATGCGTTTACGCTCGC
42664311 CAGCTAATATGCGTTTACGCTCGC
1 CAGCTAATATGCGTTTACGCTCGC
* *
42664335 CAGCTAATATACGTTTACACTCGTC
1 CAGCTAATATGCGTTTACGCTCG-C
*
42664360 CAGCTAATATGCATTTACACGCTCGC
1 CAGCTAATATGCGTTT--ACGCTCGC
42664386 CA
1 CA
42664388 ACAATTCAGA
Statistics
Matches: 213, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
24 189 0.89
25 15 0.07
26 3 0.01
27 6 0.03
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (24 bp):
CAGCTAATATGCGTTTACGCTCGC
Found at i:42664173 original size:48 final size:48
Alignment explanation
Indices: 42664108--42664387 Score: 371
Period size: 48 Copynumber: 5.8 Consensus size: 48
42664098 GTTCAGTACA
* * * *
42664108 TTTACTCTAGTCAGCTAATATACGTTTACGCTCACCAGCTAATATACG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATACG
* *
42664156 TTTATGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATGCG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATACG
* * *
42664204 TTTACGCTCGTCAGCTAATATGTGTTTATGCTCACCAGCTAATATACG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATACG
* * ** * *
42664252 TTTACGCTCATCAGCTAATATGCATTTACGCTCGTTAGCTAATATGCA
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATACG
*
42664300 TTTACTCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATACG
1 TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATACG
* *
42664348 TTTACACTCGTCCAGCTAATATGCATTTACACGCTCGCCA
1 TTTACGCTCGT-CAGCTAATATGCGTTT--ACGCTCGCCA
42664388 ACAATTCAGA
Statistics
Matches: 200, Mismatches: 29, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
48 175 0.88
49 15 0.08
51 10 0.05
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (48 bp):
TTTACGCTCGTCAGCTAATATGCGTTTACGCTCGCCAGCTAATATACG
Found at i:42664877 original size:41 final size:41
Alignment explanation
Indices: 42664819--42665301 Score: 502
Period size: 41 Copynumber: 11.7 Consensus size: 41
42664809 AAACACTGTA
* *
42664819 AAAGGT-AGAGCAATAGCGGCGTTTATGGGAAAGTGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* * * * *
42664859 AAAGATCAAAGCAATAGCGGCGCTTCA-GGTAAAGCGACACT
1 AAAGGTCAGAGCAATAGCGGCGCTT-ATGGGAAAGCGCCGCT
* * * *
42664900 AAAAGTTAGAGCAATAGCGGTGCTTATGGGCAAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
** *
42664941 AAAGGTCAGAGCAATAGCGGCGCTTATATGGTCAAGCGTCGCT
1 AAAGGTCAGAGCAATAGCGGCGC-T-TATGGGAAAGCGCCGCT
* * *
42664984 AAAGGTCAGAGCAATAGCGGCACTTATGGGCAAGCGCAGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
*
42665025 AAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAGAAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGG--GA-AAGCGCCGCT
* ** *
42665069 AAAGGTCAGAGCAATAGCAGTACTTATGGGAAAGCGCTGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* * * * * * * *
42665110 AAAGGTCAAAACAATAACGGCGTTTATAGGTAAGTGCTGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* * * *
42665151 AAAGGTCAGAGCAATAGCGACGCTTTTGGGCAAGCGCCGTT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* * * *
42665192 AAAGGTCAGAGCAATAGTGGCGCTTATGGGAAAGCACTGTT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
* * * * *
42665233 AAAGGTCAGAGCAATAGTGACGCTTCTGGAAAAACGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
*
42665274 AAAGGTCAGAGCAATAGCGACGCTTATG
1 AAAGGTCAGAGCAATAGCGGCGCTTATG
42665302 ATCAAGCACC
Statistics
Matches: 365, Mismatches: 70, Indels: 15
0.81 0.16 0.03
Matches are distributed among these distances:
40 6 0.02
41 283 0.78
42 4 0.01
43 37 0.10
44 35 0.10
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (41 bp):
AAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAGCGCCGCT
Found at i:42665043 original size:24 final size:23
Alignment explanation
Indices: 42665016--42665086 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
42665006 CTTATGGGCA
42665016 AGCGCAGCTAAAGGTCAGAGCAAT
1 AGCGC-GCTAAAGGTCAGAGCAAT
* *
42665040 AGCGGCGCTTATGGTCA-AG--A-
1 AGC-GCGCTAAAGGTCAGAGCAAT
42665060 AGCGCCGCTAAAGGTCAGAGCAAT
1 AGCG-CGCTAAAGGTCAGAGCAAT
42665084 AGC
1 AGC
42665087 AGTACTTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 1 0.03
20 13 0.35
21 3 0.08
23 3 0.08
24 15 0.41
25 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.31, T:0.14
Consensus pattern (23 bp):
AGCGCGCTAAAGGTCAGAGCAAT
Found at i:42665075 original size:20 final size:22
Alignment explanation
Indices: 42665015--42665079 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 22
42665005 ACTTATGGGC
*
42665015 AAGCGCAGCTAAAGGTCAGAGCA
1 AAGCGCCGCTAAAGGTCAGAG-A
* * *
42665038 ATAGCGGCGCTTATGGTCA-AG-
1 A-AGCGCCGCTAAAGGTCAGAGA
42665059 AAGCGCCGCTAAAGGTCAGAG
1 AAGCGCCGCTAAAGGTCAGAG
42665080 CAATAGCAGT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 14 0.42
21 3 0.09
23 3 0.09
24 13 0.39
ACGTcount: A:0.32, C:0.22, G:0.32, T:0.14
Consensus pattern (22 bp):
AAGCGCCGCTAAAGGTCAGAGA
Found at i:42669291 original size:43 final size:43
Alignment explanation
Indices: 42669220--42669434 Score: 223
Period size: 43 Copynumber: 5.0 Consensus size: 43
42669210 TCTGTTAATG
* * * * * * *
42669220 TTAGTGGCATTTGTGGAAAAAGCGCCGCTAAAGAACGTGGTCT
1 TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCT
** *
42669263 TTAGCGGCGTTTGTGGGAAAAATACCGCTAAAGACCATGTTTT
1 TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCT
* ** * * *
42669306 TTAGTGGCGTTTGTGGGTGAAGCGCCGTTAAAGACCATATTCT
1 TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCT
* * *
42669349 TTAGTGGCGTTTGTGGTAAAAGCACCGTTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCT
* * * *
42669392 TTAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGATCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCT
42669435 ATAGAGGTGT
Statistics
Matches: 141, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTCT
Found at i:42671137 original size:113 final size:112
Alignment explanation
Indices: 42670983--42671211 Score: 379
Period size: 113 Copynumber: 2.0 Consensus size: 112
42670973 CTATTAACCC
* *
42670983 AAAGAAACTTAATGGAAGAAGATATTGGAATCAAAGATATTGAATCTTTTGGTTAAT-AGGTTTT
1 AAAGAAACTTAAGGGAAGAAGATATTGGAACCAAAGATATTGAATCTTTTGGTTAATGA-GTTTT
* *
42671047 AAAGATTCAAGCTTTGAGATAGATTTGTAACTAAAGATATTAGAATCA
65 AAAGATTCAAGCTTTGAGACAGATTTATAACTAAAGATATTAGAATCA
*
42671095 AAAGAAACTTAACGGGAAGAAGATATTGGAACCAAATATATTGAATCTTTTGGTTAATGAGTTTT
1 AAAGAAACTTAA-GGGAAGAAGATATTGGAACCAAAGATATTGAATCTTTTGGTTAATGAGTTTT
*
42671160 AAAGATTCAAGCTTTGAGACAGATTTATAACTAAAGATATTGGAATCA
65 AAAGATTCAAGCTTTGAGACAGATTTATAACTAAAGATATTAGAATCA
42671208 AAAG
1 AAAG
42671212 GGAAGAAGAA
Statistics
Matches: 109, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
112 12 0.11
113 96 0.88
114 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.31
Consensus pattern (112 bp):
AAAGAAACTTAAGGGAAGAAGATATTGGAACCAAAGATATTGAATCTTTTGGTTAATGAGTTTTA
AAGATTCAAGCTTTGAGACAGATTTATAACTAAAGATATTAGAATCA
Found at i:42671246 original size:21 final size:21
Alignment explanation
Indices: 42671220--42671260 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
42671210 AGGGAAGAAG
42671220 AAGAAGATGAAGAAGAGAGGA
1 AAGAAGATGAAGAAGAGAGGA
42671241 AAGAAGATGAAGAAGAGAGG
1 AAGAAGATGAAGAAGAGAGG
42671261 TGGGTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.39, T:0.05
Consensus pattern (21 bp):
AAGAAGATGAAGAAGAGAGGA
Found at i:42671506 original size:29 final size:30
Alignment explanation
Indices: 42671466--42671539 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
42671456 ATAAAATAAT
42671466 AACATAAGTGACTAAAACGTAATATT-T-CA
1 AACATAAGTGACTAAAACGTAAT-TTATGCA
*
42671495 AACATAAGTGACTAAAATGTAATTTGATGCA
1 AACATAAGTGACTAAAACGTAATTT-ATGCA
*
42671526 AACAAAAGTGACTA
1 AACATAAGTGACTA
42671540 TTTTTACAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 22 0.55
30 1 0.03
31 15 0.38
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.26
Consensus pattern (30 bp):
AACATAAGTGACTAAAACGTAATTTATGCA
Found at i:42673097 original size:19 final size:20
Alignment explanation
Indices: 42673073--42673111 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
42673063 TAAGGTTTTT
42673073 CAAAAAAGTCAAC-GTCAAC
1 CAAAAAAGTCAACGGTCAAC
*
42673092 CAAAAAAGTTAACGGTCAAC
1 CAAAAAAGTCAACGGTCAAC
42673112 TATCAATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.51, C:0.23, G:0.13, T:0.13
Consensus pattern (20 bp):
CAAAAAAGTCAACGGTCAAC
Found at i:42673131 original size:21 final size:21
Alignment explanation
Indices: 42673102--42673147 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
42673092 CAAAAAAGTT
* **
42673102 AACGGTCAACTATCAATGGTC
1 AACGATCAACTATCAACAGTC
*
42673123 AACGATCAATTATCAACAGTC
1 AACGATCAACTATCAACAGTC
42673144 AACG
1 AACG
42673148 GTCGGGTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (21 bp):
AACGATCAACTATCAACAGTC
Found at i:42673208 original size:22 final size:20
Alignment explanation
Indices: 42673182--42673230 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
42673172 GTCAAATCGA
*
42673182 ATTGGGTCTAGGGTTTGGGT
1 ATTGGGTCTAAGGTTTGGGT
* *
42673202 GATTTGGTTTTAAGGTTTGGGT
1 -A-TTGGGTCTAAGGTTTGGGT
42673224 ATTGGGT
1 ATTGGGT
42673231 TTTCATGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 5 0.22
21 2 0.09
22 16 0.70
ACGTcount: A:0.12, C:0.02, G:0.41, T:0.45
Consensus pattern (20 bp):
ATTGGGTCTAAGGTTTGGGT
Found at i:42673241 original size:22 final size:22
Alignment explanation
Indices: 42673193--42673233 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
42673183 TTGGGTCTAG
*
42673193 GGTTTGGGTGATTTGGTTTTAA
1 GGTTTGGGTGATTGGGTTTTAA
42673215 GGTTTGGGT-ATTGGGTTTT
1 GGTTTGGGTGATTGGGTTTT
42673234 CATGGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.10, C:0.00, G:0.39, T:0.51
Consensus pattern (22 bp):
GGTTTGGGTGATTGGGTTTTAA
Found at i:42677333 original size:3 final size:3
Alignment explanation
Indices: 42677325--42677356 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
42677315 CCACAAGTTT
42677325 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T
42677357 CCATTACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:42679856 original size:22 final size:22
Alignment explanation
Indices: 42679803--42679848 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
42679793 TAGAATTAAG
* *
42679803 TTTAGGGTTTGGGTGATTTGGT
1 TTTAAGGTTTGGGTGATTGGGT
42679825 TTTAAGGTTTGGGT-ATTGGGT
1 TTTAAGGTTTGGGTGATTGGGT
42679846 TTT
1 TTT
42679849 CATGGTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.11, C:0.00, G:0.37, T:0.52
Consensus pattern (22 bp):
TTTAAGGTTTGGGTGATTGGGT
Found at i:42682073 original size:57 final size:58
Alignment explanation
Indices: 42681980--42682095 Score: 216
Period size: 57 Copynumber: 2.0 Consensus size: 58
42681970 TTAACTTAGG
*
42681980 GTTAGTTTTTAAAAATATTTATATTGTAAATACGTACTTTCCACAAGTATATGCATAT
1 GTTAGTTTTTAAAAACATTTATATTGTAAATACGTACTTTCCACAAGTATATGCATAT
42682038 GTTA-TTTTTAAAAACATTTATATTGTAAATACGTACTTTCCACAAGTATATGCATAT
1 GTTAGTTTTTAAAAACATTTATATTGTAAATACGTACTTTCCACAAGTATATGCATAT
42682095 G
1 G
42682096 ATAGAATTTC
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 53 0.93
58 4 0.07
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (58 bp):
GTTAGTTTTTAAAAACATTTATATTGTAAATACGTACTTTCCACAAGTATATGCATAT
Found at i:42685697 original size:736 final size:729
Alignment explanation
Indices: 42684596--42686001 Score: 1881
Period size: 738 Copynumber: 1.9 Consensus size: 729
42684586 AGAAACAACT
* * * *
42684596 AGAGAAGAATGCAATCCGATAAATAACACAATCGCAATACAAAAAAAAAAAACTACATAAACAAT
1 AGAGAAGAACGCAATCCGATAAATAACACAACCGCAATAC-AAAAAAAAAAACTACAAAAAAAAT
42684661 GAGCAAAGACCAAAAGAAAAGAGAAGAACAGTAACGGGGAAAAATAAAAAGAAAGAAGGGAAATT
65 GAGCAAAGACCAAAAGAAAAGAGAAGAACAGTAACGGGGAAAAATAAAAAGAAAGAAGGGAAATT
*
42684726 TTCACTTTTTAAAAAAACATATTAATTAATTAAAAAGTAACCTATTTATCACAAGATACAAAAGT
130 TTCACTTTTTAAAAAAACATATTAATTAATTAAAAAGTAACCTATTTATCACAAGATACAAAAAT
*
42684791 ATTTCATTATCGCTTAAACACAAGACTAGAACACAAGACCAAGAGAATACAAAAAAATAACCATT
195 ATTTCATTATCGCTTAAACACAAGACTAGAACACAAAACCAAGAGAATACAAAAAAATAACCATT
* * *
42684856 GACCCACTAGACTCATCATTATCATAAATCGACGCAAAAATTAACTTAAGTAGAGGATTCCAAAC
260 GACCCACTAGACTCATCATTATCACAAATCGACGCAAAAATAAACTTAAGGAGAGGA-TCCAAAC
* * * * *
42684921 CTAAGTTTCAAATTAAATGATATTAGCAAAACTACAAAAGTGCGATTCAAACACAAGCTCT-TAA
324 CTAAGGTTCAAATTAAATAATATAAGCAAAACTACAAAAGTGCGATTCAAACACAAGATCTCAAA
* *
42684985 ACACATACACAGAACACTTAACCATTGAACTAGATACATAACTATTGATTGA-ATTTA-TCAAAC
389 ACACATACACAGAACACTTAACCATTGAACTAGATACATAACTATTGACTAATATTTATTCAAAC
* * * *
42685048 -AAAAGTTC-AAAATTGGGACGTAACAAACCACATTAAAGGAGTTAAGGGAGGGGATCCATCACG
454 AAAAAGTTCAAAAATT-GGAAGTAAC-AACCACATTAAAGGAG-TAAGGGAGAGGAGCCATCACA
* *
42685111 CAATCTTTGATACTTTTAATTCAGTTTTTTTTTTGTTTTCTTTGGTTTTTATTTTATTTTTTATT
516 CAATCTTTGATACTTTTAATTCA-------TTTT-TTTTCTTTGGTTTTTAGTTTACTTTTTATT
* * *
42685176 ATTTTCTGCTAAATCTGGGAAAATCCTATTCCGAACTTATTCGATCGTGAGAAGAGAAAGTTCCA
573 ATTTT-GGCTAAATCT-GGAAAATCCTATTCCGAACTTATTCGATCGCGAGAAGAGAAAGTTCAA
42685241 AAATCGCGCTA-TTCA-T-ATTAATTCATGAGCGAAGGGTAATTAAATAAATACGGTTAGCGAAT
636 AAATCGCGCTATTTCATTGATTAATTCATGAGCGAAGGGTAATTAAATAAATACGGTTAGCGAAT
42685303 TTGATAATGAAATATTACCTGATATAACG
701 TTGATAATGAAATATTACCTGATATAACG
* * * *
42685332 AGAGAAGAACGCAATCCTATAATTAACACTACCGCAA-AGC-AAAAAAAAGACTACACAAAAAAA
1 AGAGAAGAACGCAATCCGATAAATAACACAACCGCAATA-CAAAAAAAAAAACTACA-AAAAAAA
* * * *
42685395 TTAGCAAAGACCAATAGAAAAGAGAAGAACAGTAACGGGGGAAAATAAAAAGAAA-AAGGGAACT
64 TGAGCAAAGACCAAAAGAAAAGAGAAGAACAGTAACGGGGAAAAATAAAAAGAAAGAAGGGAA-A
* *
42685459 TTTTCCCTTTTTTTTAAAAAAACATATTAATTAATTCAAAAGTAACCTATTTATCACAAGATACA
128 TTTTCAC---TTTTTAAAAAAACATATTAATTAATTAAAAAGTAACCTATTTATCACAAGATACA
* * * * * **
42685524 AAAATATTTCCTTATCTCTTACACACAGAGACTTGAACACAAAATCAAGAGAATAC-AAAACTTA
190 AAAATATTTCATTATCGCTTAAACACA-AGACTAGAACACAAAACCAAGAGAATACAAAAAAATA
* * * * *
42685588 ACC-TATGACCCTA-TAGGCTTATCATTGTCACAAATCGATGC-AAAATAAACTTAAGGGGAAGG
254 ACCAT-TGACCC-ACTAGACTCATCATTATCACAAATCGACGCAAAAATAAACTTAAGGAG-AGG
******* *
42685650 -TCCAAACCTAAGGTTCAAATTAAATAATATAATTTTTTTTTCAAAAGTGCGATTCAAACACAAG
316 ATCCAAACCTAAGGTTCAAATTAAATAATATAAGCAAAACTACAAAAGTGCGATTCAAACACAAG
** * *
42685714 ATCTCAAAACACATACGTAGAACACTTAACCATTGAATTAGTTACATAACTATTGACTAATATTT
381 ATCTCAAAACACATACACAGAACACTTAACCATTGAACTAGATACATAACTATTGACTAATATTT
*
42685779 ATTCAAACAAAAAGTTCAAAAATTGGAAGTTACAACCACATTAAAGGAGTAAGGGAGAGGAGCCA
446 ATTCAAACAAAAAGTTCAAAAATTGGAAGTAACAACCACATTAAAGGAGTAAGGGAGAGGAGCCA
42685844 TCACACAATCTTTGATACTTTTAATTCATTTTTTTTCTTTGGTTTTTAGTTTACTTTTTATTATT
511 TCACACAATCTTTGATACTTTTAATTCATTTTTTTTCTTTGGTTTTTAGTTTACTTTTTATTATT
* * * * * *
42685909 TTGGCTTAATCTGGAAAATTCTATTCCGAATTTATTTGATCGCGAGAAGAGAATGTTTAAAAATC
576 TTGGCTAAATCTGGAAAATCCTATTCCGAACTTATTCGATCGCGAGAAGAGAAAGTTCAAAAATC
42685974 GCGCTATTTCATTGATTAATTCATGAGC
641 GCGCTATTTCATTGATTAATTCATGAGC
42686002 AAATGGTCAT
Statistics
Matches: 586, Mismatches: 66, Indels: 41
0.85 0.10 0.06
Matches are distributed among these distances:
728 52 0.09
729 12 0.02
730 34 0.06
731 18 0.03
734 21 0.04
735 64 0.11
736 89 0.15
737 63 0.11
738 164 0.28
739 48 0.08
740 15 0.03
741 6 0.01
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (729 bp):
AGAGAAGAACGCAATCCGATAAATAACACAACCGCAATACAAAAAAAAAAACTACAAAAAAAATG
AGCAAAGACCAAAAGAAAAGAGAAGAACAGTAACGGGGAAAAATAAAAAGAAAGAAGGGAAATTT
TCACTTTTTAAAAAAACATATTAATTAATTAAAAAGTAACCTATTTATCACAAGATACAAAAATA
TTTCATTATCGCTTAAACACAAGACTAGAACACAAAACCAAGAGAATACAAAAAAATAACCATTG
ACCCACTAGACTCATCATTATCACAAATCGACGCAAAAATAAACTTAAGGAGAGGATCCAAACCT
AAGGTTCAAATTAAATAATATAAGCAAAACTACAAAAGTGCGATTCAAACACAAGATCTCAAAAC
ACATACACAGAACACTTAACCATTGAACTAGATACATAACTATTGACTAATATTTATTCAAACAA
AAAGTTCAAAAATTGGAAGTAACAACCACATTAAAGGAGTAAGGGAGAGGAGCCATCACACAATC
TTTGATACTTTTAATTCATTTTTTTTCTTTGGTTTTTAGTTTACTTTTTATTATTTTGGCTAAAT
CTGGAAAATCCTATTCCGAACTTATTCGATCGCGAGAAGAGAAAGTTCAAAAATCGCGCTATTTC
ATTGATTAATTCATGAGCGAAGGGTAATTAAATAAATACGGTTAGCGAATTTGATAATGAAATAT
TACCTGATATAACG
Found at i:42694497 original size:731 final size:728
Alignment explanation
Indices: 42693350--42694708 Score: 1887
Period size: 732 Copynumber: 1.9 Consensus size: 728
42693340 TGCAATCCGC
* * * *
42693350 AAAAAGAAAGACTACACAAATAGTGAGCAAAGACAAAAAAAAAAAGTGAAGAACAGTAACGGCGA
1 AAAAAAAAAGACTACACAAAAAATGAGCAAAGACAAAAAAAAAAAGAGAAGAACAGTAACGGCGA
42693415 AAAATAAAAAGAAAGAAGGGAACTTTTCACTTTGTTTAAAAAAAACATATTAATTAATTAAAAAC
66 AAAATAAAAAGAAAGAAGGGAACTTTTCACTTTGTTT--AAAAAACATATTAATTAATTAAAAAC
* * ** *
42693480 AATCTATTTACCAGAAGATACAAAGGTATTCCACTATCGCTTACACACAGAGACTAGAACACAAG
129 AACCTATTTACCACAAGATACAAAAATATTCCACTATCGCTTACACACAGAGACTAGAACACAAA
*
42693545 ACCAAGAGAATACAAAAAATTAACATTGACCCACTAGACTCATCATTATCATAAATCGACGCAAA
194 ACCAAGAGAATACAAAAAATTAACATTGACCCACTAGACTCATCATTATCACAAATCGACGCAAA
* * * * *
42693610 AATAAACTTAAGTAGAGGAATCGAAACCTAAGTTTCAAATTAAATGATATTAGAAAAAGTGCAAA
259 AATAAACTTAAGGAGAAGAATCCAAACCTAAGGTTCAAATTAAATAATATTAGAAAAAGTGCAAA
* * * *
42693675 ATTGTGATTCAAACACAAGCTCTTAAACACATACACAGAACACTTAACCATTGAACTAGATACAT
324 AGTGCGATTCAAACACAAGATCTCAAACACATACACAGAACACTTAACCATTGAACTAGATACAT
* * *
42693740 AACTATTGATTGAATTTATCAAAC-AAAAGTTC-AAAATTGGGACGTAACAACCACATTAAAGGA
389 AACTATTGACTAAATTTATCAAACAAAAAGTTCAAAAATT-GGAAGTAACAACCACATTAAAGGA
* *
42693803 GTAAGGGAGGGGAGCCATCACGCAATCTTTGATACTTTTAATTCAGTTTTTTTTTGTTTTCTTTG
453 GTAAGGGAGAGGAGCCATCACACAATCTTTGATACTTTTAATTCA-------TTT-TTTTCTTTG
* *
42693868 GTTTTTATTTTAGTTTTTATTATTTCT-GCTAAATCTGGAAAATCCTATTCCGAACTTATTCGAT
510 GTTTTTAGTTTACTTTTTATTATTT-TGGCTAAATCTGGAAAATCCTATTCCGAACTTATTCGAT
*
42693932 CGTGAGAAGAGAAAGTTCCAAAATCGCGCTATTTCATCGATTAATTCATGAGCGAAGGGTAATTA
574 CGTGAGAAGAGAAAGTTCAAAAATCGCGCTATTTCATCGATTAATTCATGAGCGAAGGGTAATTA
42693997 AATAAATACGGTTAGCGTATTTGATAATGAAATCTTACCTGATATAGCGAGAGAAGAACGCAATC
639 AATAAATACGGTTAGCGTATTTGATAATGAAATCTTACCTGATATAGCGAGAGAAGAACGCAATC
42694062 CTATAATTAACACTATCGCAAAGCA
704 CTATAATTAACACTATCGCAAAGCA
* * * * * * *
42694087 AAAAAAAAAGACTATACAAAAAATTAGCAAAGAC-CAATAGAAAAGAGAAGAACAGTAACGGGGG
1 AAAAAAAAAGACTACACAAAAAATGAGCAAAGACAAAAAAAAAAAGAGAAGAACAGTAACGGCGA
**
42694151 AAAATAAAAAGAAA-AAGGGAACTTTTCACTTT-TTT-AAAAACATATTAATTAATTCAAAAGTA
66 AAAATAAAAAGAAAGAAGGGAACTTTTCACTTTGTTTAAAAAACATATTAATTAATT-AAAAACA
* * * * *
42694213 ACCTATTTATCACAAGATACAAAAATATTTCC-TTATCTCTTACGCACAGAGACTTGAACACAAA
130 ACCTATTTACCACAAGATACAAAAATA-TTCCACTATCGCTTACACACAGAGACTAGAACACAAA
* * * * * * *
42694277 ATCAAGAGAATACAAAAACTTAACCTATGACCCTA-TAGGCTTATCATTGTCACAAATCGATGC-
194 ACCAAGAGAATACAAAAAATTAACAT-TGACCC-ACTAGACTCATCATTATCACAAATCGACGCA
* * ***** *
42694340 AAAATAAACTTAAGGGGAAGATTCCAAACCTAAGGTTCAAATTAAATAATA-TA-ATTTTTTTTC
257 AAAATAAACTTAAGGAGAAGAATCCAAACCTAAGGTTCAAATTAAATAATATTAGA-AAAAGTGC
* *
42694403 AAAAGTGCGATTCAAACACAAGATCTCAAACACATACACAGAACACTTAACCATTGAATTAGTTA
321 AAAAGTGCGATTCAAACACAAGATCTCAAACACATACACAGAACACTTAACCATTGAACTAGATA
*
42694468 CATAACTATTGACTAAATTTATCAAACAAAAAGTTCAAAAATTGGAAGTTACAACCACATTAAAG
386 CATAACTATTGACTAAATTTATCAAACAAAAAGTTCAAAAATTGGAAGTAACAACCACATTAAAG
42694533 GAGTAAGGGAGAGGAGCCATCACACAATCTTTGATACTTTTAATTCATTTTTTTCTTTGGTTTTT
451 GAGTAAGGGAGAGGAGCCATCACACAATCTTTGATACTTTTAATTCATTTTTTTCTTTGGTTTTT
* * * *
42694598 AGTTTACTTTTTATTATTTTGGCTTAATCTGGAAAATTCTATTCCGAATTTATTTGATCGTGAGA
516 AGTTTACTTTTTATTATTTTGGCTAAATCTGGAAAATCCTATTCCGAACTTATTCGATCGTGAGA
* * *
42694663 AGAGAATGTTTAAAAATCGCGCTATTTCATTGATTAATTCATGAGC
581 AGAGAAAGTTCAAAAATCGCGCTATTTCATCGATTAATTCATGAGC
42694709 AAATGGTCAT
Statistics
Matches: 548, Mismatches: 66, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
723 1 0.00
724 114 0.21
725 3 0.01
730 1 0.00
731 107 0.20
732 194 0.35
733 39 0.07
734 4 0.01
735 18 0.03
736 38 0.07
737 29 0.05
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.28
Consensus pattern (728 bp):
AAAAAAAAAGACTACACAAAAAATGAGCAAAGACAAAAAAAAAAAGAGAAGAACAGTAACGGCGA
AAAATAAAAAGAAAGAAGGGAACTTTTCACTTTGTTTAAAAAACATATTAATTAATTAAAAACAA
CCTATTTACCACAAGATACAAAAATATTCCACTATCGCTTACACACAGAGACTAGAACACAAAAC
CAAGAGAATACAAAAAATTAACATTGACCCACTAGACTCATCATTATCACAAATCGACGCAAAAA
TAAACTTAAGGAGAAGAATCCAAACCTAAGGTTCAAATTAAATAATATTAGAAAAAGTGCAAAAG
TGCGATTCAAACACAAGATCTCAAACACATACACAGAACACTTAACCATTGAACTAGATACATAA
CTATTGACTAAATTTATCAAACAAAAAGTTCAAAAATTGGAAGTAACAACCACATTAAAGGAGTA
AGGGAGAGGAGCCATCACACAATCTTTGATACTTTTAATTCATTTTTTTCTTTGGTTTTTAGTTT
ACTTTTTATTATTTTGGCTAAATCTGGAAAATCCTATTCCGAACTTATTCGATCGTGAGAAGAGA
AAGTTCAAAAATCGCGCTATTTCATCGATTAATTCATGAGCGAAGGGTAATTAAATAAATACGGT
TAGCGTATTTGATAATGAAATCTTACCTGATATAGCGAGAGAAGAACGCAATCCTATAATTAACA
CTATCGCAAAGCA
Found at i:42708451 original size:23 final size:24
Alignment explanation
Indices: 42708404--42708455 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
42708394 GTTTTGGTGC
*
42708404 TTTTTTTACTGTTTTGGTTGATGT
1 TTTTTTTACTGTTTTGGTAGATGT
* *
42708428 TTTTTTTACTGTTTTTG-AGTTGT
1 TTTTTTTACTGTTTTGGTAGATGT
42708451 TTTTT
1 TTTTT
42708456 ATTATTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.08, C:0.04, G:0.17, T:0.71
Consensus pattern (24 bp):
TTTTTTTACTGTTTTGGTAGATGT
Found at i:42708463 original size:21 final size:21
Alignment explanation
Indices: 42708421--42708463 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
42708411 ACTGTTTTGG
*
42708421 TTGATGTTTTTTTTACTGTTT
1 TTGATGTTTTTTTTACTATTT
*
42708442 TTGA-GTTGTTTTTTATTATTT
1 TTGATGTT-TTTTTTACTATTT
42708463 T
1 T
42708464 GATTGCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.12, C:0.02, G:0.14, T:0.72
Consensus pattern (21 bp):
TTGATGTTTTTTTTACTATTT
Found at i:42708510 original size:12 final size:12
Alignment explanation
Indices: 42708460--42708579 Score: 81
Period size: 12 Copynumber: 10.3 Consensus size: 12
42708450 TTTTTTATTA
42708460 TTTTGATTGCTAT
1 TTTTG-TTGCTAT
*
42708473 TTTTG-TGTTAT
1 TTTTGTTGCTAT
* *
42708484 TTTTGCTGTTAT
1 TTTTGTTGCTAT
*
42708496 TTTTGTTGCTGT
1 TTTTGTTGCTAT
*
42708508 TTTTATTGCTAT
1 TTTTGTTGCTAT
42708520 TTTTGTTG---T
1 TTTTGTTGCTAT
**
42708529 TTTTAATGCTAT
1 TTTTGTTGCTAT
**
42708541 TTTACTAT--TAT
1 TTTTGT-TGCTAT
*
42708552 TTTTGTTGCTGT
1 TTTTGTTGCTAT
*
42708564 TTTTGTTGTTAT
1 TTTTGTTGCTAT
42708576 TTTT
1 TTTT
42708580 ATTGTTTGGA
Statistics
Matches: 83, Mismatches: 17, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
9 7 0.08
10 1 0.01
11 17 0.20
12 52 0.63
13 6 0.07
ACGTcount: A:0.11, C:0.06, G:0.15, T:0.68
Consensus pattern (12 bp):
TTTTGTTGCTAT
Found at i:42708523 original size:68 final size:68
Alignment explanation
Indices: 42708451--42708583 Score: 158
Period size: 68 Copynumber: 2.0 Consensus size: 68
42708441 TTTGAGTTGT
* ** * * *
42708451 TTTTTATTATTTTGATTGCTATTTTTGTGTTATTTTTGCTGTTATTTTTGTTGCTGTTTTTATTG
1 TTTTTATTATTTTGAATGCTATTTTACTATTATTTTTGCTGCTATTTTTGTTGCTATTTTTATTG
42708516 CTA
66 CTA
* * * * * *
42708519 TTTTTGTTGTTTTTAATGCTATTTTACTATTATTTTTGTTGCTGTTTTTGTTGTTATTTTTATTG
1 TTTTTATTATTTTGAATGCTATTTTACTATTATTTTTGCTGCTATTTTTGTTGCTATTTTTATTG
42708584 TTTGGATGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.12, C:0.05, G:0.14, T:0.68
Consensus pattern (68 bp):
TTTTTATTATTTTGAATGCTATTTTACTATTATTTTTGCTGCTATTTTTGTTGCTATTTTTATTG
CTA
Found at i:42708532 original size:56 final size:56
Alignment explanation
Indices: 42708472--42708600 Score: 154
Period size: 56 Copynumber: 2.3 Consensus size: 56
42708462 TTGATTGCTA
* * *
42708472 TTTTTGTGTTATTTTTGCTGTTATTTTTGTTGCTGTTTTTATTGCTATTTTTGTTG
1 TTTTTGTGTTATTTTTACTATTATTTTTGTTGCTGTTTTTATTGCTATTTTTATTG
* * * *
42708528 TTTTTAATGCTA-TTTTACTATTATTTTTGTTGCTGTTTTTGTTGTTATTTTTATTG
1 TTTTT-GTGTTATTTTTACTATTATTTTTGTTGCTGTTTTTATTGCTATTTTTATTG
*
42708584 -TTTGGATGTTATTTTTA
1 TTTTTG-TGTTATTTTTA
42708601 TGCGTTTTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
55 7 0.12
56 49 0.82
57 4 0.07
ACGTcount: A:0.12, C:0.05, G:0.16, T:0.68
Consensus pattern (56 bp):
TTTTTGTGTTATTTTTACTATTATTTTTGTTGCTGTTTTTATTGCTATTTTTATTG
Found at i:42708801 original size:49 final size:47
Alignment explanation
Indices: 42708708--42708802 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 47
42708698 TATCTTAATA
* * *
42708708 TAATTTTTTAATGTATTTTAAATTTATTTATTTTCTAATGTTTGTTT
1 TAATTTTTTAATGTATTTGAAATTTATATATTTTCTAATATTTGTTT
* *
42708755 TAATGTTTTTAAGTGTATTTGATATATTATATATTTTTTAA-ATTTGTT
1 TAAT-TTTTTAA-TGTATTTGAAAT-TTATATATTTTCTAATATTTGTT
42708803 GTATGTAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 4 0.10
48 7 0.17
49 16 0.40
50 13 0.32
ACGTcount: A:0.27, C:0.01, G:0.08, T:0.63
Consensus pattern (47 bp):
TAATTTTTTAATGTATTTGAAATTTATATATTTTCTAATATTTGTTT
Found at i:42712264 original size:20 final size:20
Alignment explanation
Indices: 42712226--42712265 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42712216 TTTTGTCTTC
* *
42712226 TTTTGTTTTTTTAGTTTAAT
1 TTTTGTTATTTTAGCTTAAT
*
42712246 TTTTGTTATTTTGGCTTAAT
1 TTTTGTTATTTTAGCTTAAT
42712266 CTGAAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.70
Consensus pattern (20 bp):
TTTTGTTATTTTAGCTTAAT
Found at i:42712965 original size:16 final size:18
Alignment explanation
Indices: 42712941--42712973 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42712931 ATTATTTATT
42712941 ATATGTTAT-TTTTAAAA
1 ATATGTTATCTTTTAAAA
42712958 ATAT-TTATCTTTTAAA
1 ATATGTTATCTTTTAAA
42712974 TACGTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
ATATGTTATCTTTTAAAA
Found at i:42715384 original size:22 final size:22
Alignment explanation
Indices: 42715345--42715386 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
42715335 TTAACTCAAC
42715345 CACAAAGCAAAAAGAAAGACTA
1 CACAAAGCAAAAAGAAAGACTA
*
42715367 CACAAA-CAATAAGCAAAGAC
1 CACAAAGCAAAAAG-AAAGAC
42715387 CAAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.62, C:0.21, G:0.12, T:0.05
Consensus pattern (22 bp):
CACAAAGCAAAAAGAAAGACTA
Found at i:42715891 original size:12 final size:12
Alignment explanation
Indices: 42715844--42715894 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
42715834 TCTTTGATAC
42715844 TTTTAGTTTAGT
1 TTTTAGTTTAGT
* *
42715856 TTTT-TTTTTGT
1 TTTTAGTTTAGT
* *
42715867 TTTT-CTTTGGT
1 TTTTAGTTTAGT
42715878 TTTTAGTTTAGT
1 TTTTAGTTTAGT
42715890 TTTTA
1 TTTTA
42715895 TTATTTTGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 18 0.56
12 14 0.44
ACGTcount: A:0.10, C:0.02, G:0.14, T:0.75
Consensus pattern (12 bp):
TTTTAGTTTAGT
Found at i:42716531 original size:13 final size:13
Alignment explanation
Indices: 42716513--42716537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42716503 TCAGACTTGG
42716513 AGAAATAAAAAAC
1 AGAAATAAAAAAC
42716526 AGAAATAAAAAA
1 AGAAATAAAAAA
42716538 TGAATGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AGAAATAAAAAAC
Found at i:42718569 original size:6 final size:6
Alignment explanation
Indices: 42718555--42718588 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
42718545 TTTACAAGAA
*
42718555 AAAAAT AAAACT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
42718589 TTGGGTTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:42720895 original size:206 final size:207
Alignment explanation
Indices: 42720539--42720952 Score: 697
Period size: 206 Copynumber: 2.0 Consensus size: 207
42720529 GAGTGTTACA
* * *
42720539 AAATCTTGTACATCAAGATCGTGGGTGAAATCGTGCCCAAGAAAAGTGTTAGACCTAGAGAAATA
1 AAATCTTGTACATCAAGATCCTGGATGAAATCGTGCCCAAGAAAAGTGTCAGACCTAGAGAAAT-
*
42720604 AAAAAACAGAATTAAAAGAAATGAACGATTGAAGGTTTGAAATAATTGAAATTGTAGAAAAGTAA
65 AAAAAACAGAATTAAAAGAAATGAACGATTGAAGGTTTGAAATAATTGAAATTGTAAAAAAGTAA
* * * * *
42720669 ATAGTGTCGAGAAAAGAAGGGTTTTATCAATTTTGAGAGTTCTAACCTCCATTTATCTTGATTCT
130 AGAGAGTCGAGAAAAGAAGGGTTTTATCAATTTTGAGAGTTCCAACCTCCAGTTATCTTGATTCC
42720734 TCCTTGGTTCAAT
195 TCCTTGGTTCAAT
*
42720747 AAATCTTGTACATCAAGATCCTGGATGAAATCGTGCCCAAGAAAAGTGTCGGACCTAGAGAAAT-
1 AAATCTTGTACATCAAGATCCTGGATGAAATCGTGCCCAAGAAAAGTGTCAGACCTAGAGAAATA
42720811 AAAAACAGAATTAAAAGAAATGAACGATTGAAGGTTTGAAATAATTGAAATTGTAAAAAAGTAAA
66 AAAAACAGAATTAAAAGAAATGAACGATTGAAGGTTTGAAATAATTGAAATTGTAAAAAAGTAAA
*
42720876 CGA-AGTCGAGAAAAGAAGGGTTTTATCAATTTTGAGAGTTCCAACCTCCGGTTATCTTGATTCC
131 -GAGAGTCGAGAAAAGAAGGGTTTTATCAATTTTGAGAGTTCCAACCTCCAGTTATCTTGATTCC
42720940 TCCTTGGTTCAAT
195 TCCTTGGTTCAAT
42720953 CATAGACTTT
Statistics
Matches: 194, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
206 133 0.69
207 1 0.01
208 60 0.31
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (207 bp):
AAATCTTGTACATCAAGATCCTGGATGAAATCGTGCCCAAGAAAAGTGTCAGACCTAGAGAAATA
AAAAACAGAATTAAAAGAAATGAACGATTGAAGGTTTGAAATAATTGAAATTGTAAAAAAGTAAA
GAGAGTCGAGAAAAGAAGGGTTTTATCAATTTTGAGAGTTCCAACCTCCAGTTATCTTGATTCCT
CCTTGGTTCAAT
Found at i:42729569 original size:78 final size:78
Alignment explanation
Indices: 42729430--42729582 Score: 193
Period size: 78 Copynumber: 2.0 Consensus size: 78
42729420 TTTAAAATGT
* ** * *
42729430 AATATTGAACTGATGGTGACATTATAAACACTGTAATACTGTATCGAACTAGCAGTGACACTGTA
1 AATACTGAACTGATGGTGACATTATAAACACCATAATACTGTATCGAACGAGCAGTGACACTATA
*
42729495 AACATTACAAACC
66 AACACTACAAACC
* * *
42729508 AATACTGAATTGATGGTGAC-TATGTAAACACCATAATACTGTATCTAACCGA-CAGTGACACTA
1 AATACTGAACTGATGGTGACAT-TATAAACACCATAATACTGTATCGAA-CGAGCAGTGACACTA
42729571 TAAACACTACAA
64 TAAACACTACAA
42729583 TGCAACACCG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.02
78 61 0.95
79 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (78 bp):
AATACTGAACTGATGGTGACATTATAAACACCATAATACTGTATCGAACGAGCAGTGACACTATA
AACACTACAAACC
Found at i:42729604 original size:78 final size:78
Alignment explanation
Indices: 42729436--42729656 Score: 178
Period size: 78 Copynumber: 2.8 Consensus size: 78
42729426 ATGTAATATT
* * ** * * *
42729436 GAACTGATGGTGACAT-TATAAACACTGTAATACTGTATCGAACTAGCAGTGACACTGTAAACAT
1 GAACTGACGGTGAC-TCAATAAACACCATAATACTGTATCGAACGAGCAGTGACACTATAAACAC
* *
42729500 TACAAACCAATACT
65 TACAAACCAACACC
* * * *
42729514 GAATTGATGGTGACT-ATGTAAACACCATAATACTGTATCTAACCGA-CAGTGACACTATAAACA
1 GAACTGACGGTGACTCA-ATAAACACCATAATACTGTATCGAA-CGAGCAGTGACACTATAAACA
**
42729577 CTACAATGCAACACC
64 CTACAAACCAACACC
* * * * * * * * *
42729592 GACCTGACGGTGACTCAATAAATATCATAATACTGTATTGAGCTACCAGTGACATTGTAAACACT
1 GAACTGACGGTGACTCAATAAACACCATAATACTGTATCGAACGAGCAGTGACACTATAAACACT
42729657 GTGTAGCTAT
Statistics
Matches: 114, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
77 3 0.03
78 108 0.95
79 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (78 bp):
GAACTGACGGTGACTCAATAAACACCATAATACTGTATCGAACGAGCAGTGACACTATAAACACT
ACAAACCAACACC
Found at i:42729712 original size:39 final size:39
Alignment explanation
Indices: 42729638--42729712 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
42729628 ATTGAGCTAC
* ** *
42729638 CAGTGACATTGTAAACACTGTGTAGCTATGTTGAACTGG
1 CAGTGACATTATAAACACTGAATAGCTATGCTGAACTGG
*
42729677 CAGTGACATTATAAACACTGAAATTGCTAT-CTGAAC
1 CAGTGACATTATAAACACTG-AATAGCTATGCTGAAC
42729713 CGACGGTGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 24 0.80
40 6 0.20
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (39 bp):
CAGTGACATTATAAACACTGAATAGCTATGCTGAACTGG
Found at i:42758221 original size:24 final size:24
Alignment explanation
Indices: 42758192--42758252 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
42758182 GAAATGTTTT
* * *
42758192 TTTCAATTAAATTTTGTTTATTTA
1 TTTCAATTAAACTATATTTATTTA
*
42758216 TTTCAATTAAACTATATTTATTTG
1 TTTCAATTAAACTATATTTATTTA
*
42758240 TTTCAATCAAACT
1 TTTCAATTAAACT
42758253 CTTATTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (24 bp):
TTTCAATTAAACTATATTTATTTA
Found at i:42761030 original size:2 final size:2
Alignment explanation
Indices: 42761023--42761049 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42761013 TAAAGCATAG
42761023 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 A
42761050 ATAATGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42762316 original size:14 final size:14
Alignment explanation
Indices: 42762297--42762328 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
42762287 ATCAAGGGTT
*
42762297 AAGGATTAACGGTC
1 AAGGATTAACAGTC
42762311 AAGGATTAACAGTC
1 AAGGATTAACAGTC
42762325 AAGG
1 AAGG
42762329 TCAACGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (14 bp):
AAGGATTAACAGTC
Found at i:42765185 original size:19 final size:19
Alignment explanation
Indices: 42765152--42765193 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
42765142 CCTTCTTCAC
42765152 AATTTAGTCCAAAAGTTTT
1 AATTTAGTCCAAAAGTTTT
42765171 AATTT-GTCCATAAAGTTTT
1 AATTTAGTCCA-AAAGTTTT
42765190 AATT
1 AATT
42765194 GAAGTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (19 bp):
AATTTAGTCCAAAAGTTTT
Found at i:42767971 original size:13 final size:14
Alignment explanation
Indices: 42767955--42767995 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
42767945 CAAGTAAAAA
42767955 AATTAAAGA-AAAT
1 AATTAAAGATAAAT
42767968 AATTAAA-ATAAAT
1 AATTAAAGATAAAT
*
42767981 AACT-AAGATAAAT
1 AATTAAAGATAAAT
42767994 AA
1 AA
42767996 AATGGAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 22 0.88
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (14 bp):
AATTAAAGATAAAT
Found at i:42779197 original size:12 final size:12
Alignment explanation
Indices: 42779180--42779226 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
42779170 GAAAAAGATC
42779180 AAGAAGAAAAAG
1 AAGAAGAAAAAG
* *
42779192 AAGAAGGAAAGG
1 AAGAAGAAAAAG
42779204 AA-AA-AAAAA-
1 AAGAAGAAAAAG
42779213 AAGAAGAAAAAG
1 AAGAAGAAAAAG
42779225 AA
1 AA
42779227 CCTACTGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
9 2 0.07
10 5 0.18
11 7 0.25
12 14 0.50
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAG
Found at i:42779662 original size:17 final size:18
Alignment explanation
Indices: 42779640--42779680 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
42779630 TTAGTTTTCA
**
42779640 TGCATTCTT-ATTGTGTC
1 TGCATTCTTAATTGTCAC
42779657 TGCATT-TTAATTGTCAC
1 TGCATTCTTAATTGTCAC
42779674 TGCATTC
1 TGCATTC
42779681 CTTTTAGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.49
Consensus pattern (18 bp):
TGCATTCTTAATTGTCAC
Found at i:42782468 original size:8 final size:8
Alignment explanation
Indices: 42782455--42782481 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
42782445 TTGTGTTCAT
42782455 TTTCTCAA
1 TTTCTCAA
42782463 TTTCTCAA
1 TTTCTCAA
42782471 TTTCTCAA
1 TTTCTCAA
42782479 TTT
1 TTT
42782482 ATTCCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTCTCAA
Found at i:42786190 original size:13 final size:13
Alignment explanation
Indices: 42786159--42786217 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
42786149 AAAATTCAAG
*
42786159 TAAAAAATTAAAA
1 TAAATAATTAAAA
42786172 -AAATAATTAAAA
1 TAAATAATTAAAA
* *
42786184 TAAATAACTAAGA
1 TAAATAATTAAAA
* *
42786197 TAAATAAATAGAA
1 TAAATAATTAAAA
42786210 -AAATAATT
1 TAAATAATT
42786218 CAAAGATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 18 0.47
13 20 0.53
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (13 bp):
TAAATAATTAAAA
Found at i:42786533 original size:30 final size:31
Alignment explanation
Indices: 42786497--42786557 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
42786487 ATATATTATA
*
42786497 GCCCTTTAAAATGT-TAAAATTTTAATTTAG
1 GCCCTTTAAAATGTATAAAATTTTAAATTAG
* *
42786527 GCCCTTTATAATTTATAAAATTTTAAATTAG
1 GCCCTTTAAAATGTATAAAATTTTAAATTAG
42786558 TAATGGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (31 bp):
GCCCTTTAAAATGTATAAAATTTTAAATTAG
Found at i:42793561 original size:3 final size:3
Alignment explanation
Indices: 42793555--42793589 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
42793545 TTATATTTTT
*
42793555 TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA T
42793590 GTATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:42795476 original size:32 final size:28
Alignment explanation
Indices: 42795412--42795468 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
42795402 TTTTATTTTT
*
42795412 AATAATTTATTTATTTTAAATTAGATGA
1 AATAATGTATTTATTTTAAATTAGATGA
42795440 AATAATGTATTTATTTTAAATTAGATGA
1 AATAATGTATTTATTTTAAATTAGATGA
42795468 A
1 A
42795469 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (28 bp):
AATAATGTATTTATTTTAAATTAGATGA
Found at i:42795568 original size:44 final size:44
Alignment explanation
Indices: 42795500--42795583 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
42795490 AACTTGATTA
* *
42795500 ATTAATTTAATTATGAATAGAATTTCAAAAATATTGATAACTTG
1 ATTAATTTAACTATGAATAAAATTTCAAAAATATTGATAACTTG
42795544 ATTAATTTAACTATGAATAAAATTTCAAAAATATTGATAA
1 ATTAATTTAACTATGAATAAAATTTCAAAAATATTGATAA
42795584 GTATTATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (44 bp):
ATTAATTTAACTATGAATAAAATTTCAAAAATATTGATAACTTG
Found at i:42796399 original size:29 final size:29
Alignment explanation
Indices: 42796360--42796440 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
42796350 ACAATATACT
42796360 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATTTCA
42796389 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATTTCA
* *
42796418 AATATAAGTGACTAAAATGTAAC
1 AACATAAGTGACTAAAACGTAAC
42796441 CTGAGGCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATTTCA
Found at i:42810354 original size:22 final size:21
Alignment explanation
Indices: 42810322--42810381 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
42810312 TGACAGGCCA
42810322 TGTCTCAAGACATATAGACTTT
1 TGTCTCAAGACA-ATAGACTTT
* * *
42810344 TGTTTCAAGACAAACAGGCTTT
1 TGTCTCAAGAC-AATAGACTTT
42810366 TGTCTCAAGACAATAG
1 TGTCTCAAGACAATAG
42810382 CCCCTGGAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 4 0.12
22 27 0.84
23 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (21 bp):
TGTCTCAAGACAATAGACTTT
Found at i:42810823 original size:13 final size:13
Alignment explanation
Indices: 42810781--42810830 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
42810771 TGAGAAGTGC
*
42810781 TTTTAAAAAGTAA
1 TTTTGAAAAGTAA
* *
42810794 TCTGGAAAAGTAA
1 TTTTGAAAAGTAA
*
42810807 TTTTGAAAAGTAT
1 TTTTGAAAAGTAA
42810820 TTTTGAAAAGT
1 TTTTGAAAAGT
42810831 TTAGTTTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTAA
Found at i:42818955 original size:64 final size:64
Alignment explanation
Indices: 42818794--42819080 Score: 547
Period size: 64 Copynumber: 4.5 Consensus size: 64
42818784 TTAGAACATA
*
42818794 GGTCTTAATTTTAATGAATATTTAAGTTATTGGAGAGTTTAATTTATTAGTACTTATTATTTTAT
1 GGTCTTAATTTTAATGAATATTTAAGTTATTGGAGGGTTTAATTTATTAGTACTTATTA-TTTAT
42818859 GGTCTTAATTTTAATGAATATTTAAGTTATTGGAGGGTTTAATTTATTAGTACTTATTATTTAT
1 GGTCTTAATTTTAATGAATATTTAAGTTATTGGAGGGTTTAATTTATTAGTACTTATTATTTAT
*
42818923 GGTCTTAATTTTAATGAATATTTAAGTTATTGGAGGGTTTAATTTATTAGTACTTATTATTTTT
1 GGTCTTAATTTTAATGAATATTTAAGTTATTGGAGGGTTTAATTTATTAGTACTTATTATTTAT
42818987 GGTCTTAATTTTAATGAATATTTAAGTTATTGGAGGGTTTAATTTATTAGTACTTATTATTTAT
1 GGTCTTAATTTTAATGAATATTTAAGTTATTGGAGGGTTTAATTTATTAGTACTTATTATTTAT
42819051 GGTCTTAATTTTAATGAATATTTAAGTTAT
1 GGTCTTAATTTTAATGAATATTTAAGTTAT
42819081 CATAAATTTC
Statistics
Matches: 219, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
64 161 0.74
65 58 0.26
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (64 bp):
GGTCTTAATTTTAATGAATATTTAAGTTATTGGAGGGTTTAATTTATTAGTACTTATTATTTAT
Found at i:42820048 original size:7 final size:7
Alignment explanation
Indices: 42820038--42820062 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42820028 TAATTTTAAA
42820038 ATTTACC
1 ATTTACC
42820045 ATTTACC
1 ATTTACC
42820052 ATTTACC
1 ATTTACC
42820059 ATTT
1 ATTT
42820063 TTTCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTACC
Found at i:42826633 original size:28 final size:28
Alignment explanation
Indices: 42826593--42826647 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
42826583 TTATCCGATC
42826593 TACTCCCTGTTGACCCAAAGGTCATGCT
1 TACTCCCTGTTGACCCAAAGGTCATGCT
42826621 TACTCCCTGTTGACCCAAAGGTCATGC
1 TACTCCCTGTTGACCCAAAGGTCATGC
42826648 CTGTTACCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (28 bp):
TACTCCCTGTTGACCCAAAGGTCATGCT
Found at i:42833348 original size:11 final size:12
Alignment explanation
Indices: 42833329--42833413 Score: 95
Period size: 11 Copynumber: 7.2 Consensus size: 12
42833319 TTAAATTGAT
*
42833329 TTTAAATTT-AT
1 TTTAAATTTAAA
42833340 TTTAAATTTAAA
1 TTTAAATTTAAA
*
42833352 TTT-ATTTTAAA
1 TTTAAATTTAAA
*
42833363 TTTAAATTTGATTA
1 TTTAAATTT-A-AA
*
42833377 TTTAAATTT-AC
1 TTTAAATTTAAA
42833388 TTTAAATTTAAA
1 TTTAAATTTAAA
42833400 TTTAAATTTAAA
1 TTTAAATTTAAA
42833412 TT
1 TT
42833414 AAAAAACTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
11 28 0.45
12 23 0.37
13 1 0.02
14 10 0.16
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:42833349 original size:6 final size:6
Alignment explanation
Indices: 42833329--42833413 Score: 95
Period size: 6 Copynumber: 14.3 Consensus size: 6
42833319 TTAAATTGAT
* * *
42833329 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTGATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-A-AA
*
42833377 TTTAAA TTT-AC TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
42833414 AAAAAACTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
5 12 0.18
6 48 0.73
7 2 0.03
8 4 0.06
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:42833351 original size:17 final size:17
Alignment explanation
Indices: 42833329--42833413 Score: 106
Period size: 17 Copynumber: 5.1 Consensus size: 17
42833319 TTAAATTGAT
42833329 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
42833346 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
42833363 TTTAAATTTGA--TT--A
1 TTTAAATTT-ATTTTAAA
*
42833377 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
*
42833394 TTTAAATTTAAATTTAAA
1 TTTAAATTT-ATTTTAAA
42833412 TT
1 TT
42833414 AAAAAACTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
13 1 0.02
14 10 0.16
15 2 0.03
16 2 0.03
17 36 0.59
18 10 0.16
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:42833415 original size:17 final size:17
Alignment explanation
Indices: 42833319--42833416 Score: 81
Period size: 17 Copynumber: 5.6 Consensus size: 17
42833309 TAATTTGGAG
* *
42833319 TTAAATTGATTTTAAAT
1 TTAAATTAAATTTAAAT
**
42833336 TTATTTTAAATTTAAAT
1 TTAAATTAAATTTAAAT
**
42833353 TTATTTTAAATTTAAAT
1 TTAAATTAAATTTAAAT
* *
42833370 TTGATTATTTAAATTT-ACT
1 TT-A--AATTAAATTTAAAT
42833389 TTAAATTTAAATTTAAAT
1 TTAAA-TTAAATTTAAAT
42833407 TTAAATTAAA
1 TTAAATTAAA
42833417 AAACTAAACA
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.01
17 45 0.66
18 9 0.13
19 4 0.06
20 9 0.13
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
TTAAATTAAATTTAAAT
Found at i:42835128 original size:162 final size:162
Alignment explanation
Indices: 42834945--42835408 Score: 815
Period size: 161 Copynumber: 2.9 Consensus size: 162
42834935 AGCTTTCAAT
* *
42834945 TTAGTCCTTTGACTGTTTGACTGTACTAGAGGCTGCCACATGTCACTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCA
42835010 TTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACCA
66 TTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACCA
42835075 AATTGGCCCAAGAATTTTTCAAGGTTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGGTTTATAAA
42835107 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCA
*
42835172 TCTAGTCCCTGACTTTTTT-ATTTGTTTTAATTT-ATACTTTAAATCAACTTTTATTTAATTACC
66 TTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAAT-CTTTAAATCAACTTTTATTTAATTACC
42835235 AAATTGGCCCAAGAATTTTTCAAGGTTTATAAA
130 AAATTGGCCCAAGAATTTTTCAAGGTTTATAAA
*
42835268 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGTTGCCACGTGTCACTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCA
* * * * *
42835333 TTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAGTCCTTAAATTAACTTTTATTTAATTACAA
66 TTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACCA
*
42835398 AATTGGTCCAA
131 AATTGGCCCAA
42835409 ATTTTTTTTC
Statistics
Matches: 288, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
160 2 0.01
161 155 0.54
162 130 0.45
163 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCA
TTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACCA
AATTGGCCCAAGAATTTTTCAAGGTTTATAAA
Found at i:42835789 original size:29 final size:30
Alignment explanation
Indices: 42835519--42835809 Score: 269
Period size: 30 Copynumber: 9.9 Consensus size: 30
42835509 AATTGTCCAG
* *
42835519 AAATTATATTTTGACACCAAAAC-TTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTTC-AA
**
42835549 AAATTACATTTTGACCCCAAAACTTTTTGA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
* * *
42835579 AAATTACATTTTTAACCCCTAAACTTTTCCA
1 AAATTACA-TTTTGACCCCAAAACTTTTCAA
* * **
42835610 AAATTATATTTTTGACCCTAAAA-TTTTTGA
1 AAATTACA-TTTTGACCCCAAAACTTTTCAA
* *
42835640 AAATTATA-TTTGACCCC-AAACTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
** *
42835668 AAATTACATTTTGACCTTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
*
42835698 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
* *
42835728 AAA-T-CATATTTCACCCC-AAA-TTTCCAA
1 AAATTACAT-TTTGACCCCAAAACTTTTCAA
* *
42835755 AAATTACATTTTTACCCCGAAAC-TTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
*
42835784 AAATTACCATTTTAACCCC-AAACTTT
1 AAATTA-CATTTTGACCCCAAAACTTT
42835810 CCTAAATCCC
Statistics
Matches: 220, Mismatches: 29, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
27 11 0.05
28 35 0.16
29 37 0.17
30 97 0.44
31 40 0.18
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCAA
Found at i:42835795 original size:87 final size:88
Alignment explanation
Indices: 42835514--42835817 Score: 280
Period size: 87 Copynumber: 3.4 Consensus size: 88
42835504 CCTTAAATTG
* * * * **
42835514 TCCAGAAATTATATTTTGACACCAAAAC-TTTCTAAAAATTACAT-TTTGACCCCAAAACTTTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTTTC-CAAAA-T-CATATTTCACCCC-AAACTTTCC
* *
42835577 GAAAATTACATTTTTAACCCCTAAACTTT
61 AAAAATTACATTTTT-ACCCCAAAACTTT
* * ** * * * *
42835606 TCCAAAATTATATTTTTGACCCTAAAA-TTTTTGAAAATTATATTTGACCCCAAACTTTTCTAAA
1 TCCAAAATTACA-TTTTGACCCCAAAACTTTTCCAAAATCATATTTCACCCCAAACTTTCCAAAA
* **
42835670 ATTACATTTTGACCTTAAAACTTT
65 ATTACATTTTTACCCCAAAACTTT
42835694 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATCATATTTCACCCCAAA-TTTCCAAAAA
1 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATCATATTTCACCCCAAACTTTCCAAAAA
*
42835758 TTACATTTTTACCCCGAAAC-TT
66 TTACATTTTTACCCCAAAACTTT
* * *
42835780 TCAAAAATTACCATTTTAACCCC-AAAC-TTTCCTAAATC
1 TCCAAAATTA-CATTTTGACCCCAAAACTTTTCCAAAATC
42835818 CCCTTTTAAA
Statistics
Matches: 181, Mismatches: 26, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
85 10 0.06
86 15 0.08
87 48 0.27
88 44 0.24
89 23 0.13
90 10 0.06
91 12 0.07
92 19 0.10
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.37
Consensus pattern (88 bp):
TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATCATATTTCACCCCAAACTTTCCAAAAA
TTACATTTTTACCCCAAAACTTT
Found at i:42847739 original size:76 final size:76
Alignment explanation
Indices: 42847460--42848624 Score: 1422
Period size: 76 Copynumber: 15.8 Consensus size: 76
42847450 ATCAGACCAT
* * * * * *
42847460 AGCAAAATTTTTTCCTATCCGCTTGAAATTGCAGTAAAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42847525 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
42847536 AGC-A-A---TGT-C-ATCCTCTTGAAATT-AAGTAGAGCTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42847593 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
42847604 AGC-A-A---TGT-C-ATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCATTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42847662 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
42847673 AGCAACATCGTTTCCTATCCTCTTGAAATTGAAGTAGAGTGGGATAACAAGTCATTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42847738 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
42847749 AGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42847814 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
42847825 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTGGGATAACAAGTCATTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42847890 ATTG-AGTAAG
66 ATTGAAGTAAG
* * * * *
42847900 AGTAACATCATTTCCTTTCCTCTTGAAATTGAAGTAGAG-TGAGATAACAAGTCATTATCTCTGA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTG-GATAACAAGTCTTTATCTCTGA
*
42847964 AATTGAAGTAAA
65 AATTGAAGTAAG
*
42847976 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42848041 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
42848052 AGCAAGATCTTCTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42848117 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
42848128 AGCAAGATCTTTTCCTATCC-CATTGGAATTGAAGTAGAGTTGGACAACAAGTCGTCATCTCTGA
1 AGCAAGATCTTTTCCTATCCTC-TTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTG-
42848192 AAATTGAAGTAAG
64 AAATTGAAGTAAG
* * * *
42848205 AGCCAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42848270 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * *
42848281 AGCAAGATCTTTTCCTATCCCCTTGGAATTGAAGTAGAGTTGGACAACAAGTCGTCATCTCTGAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTG-A
42848346 AATTGAAGTAAG
65 AATTGAAGTAAG
* * * * *
42848358 AGCCAGATCTTTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATATCAAG--------TCT---
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42848412 -TTGAAGTAAG
66 ATTGAAGTAAG
* * * ** *
42848422 AGCCAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTAAATATCAAGTC----T-T-TG-A
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
*
42848480 AGT-AA--AA-
66 ATTGAAGTAAG
* * * * *
42848487 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATCTCTAAA
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
42848552 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
42848563 AGCAAGATCTTTTCCCATCCTCTTGAAATTAAAGTAAAGTTGGATAGCAAGTCTTTATCTCT
1 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCT
42848625 CTAAAGAGCA
Statistics
Matches: 982, Mismatches: 75, Indels: 64
0.88 0.07 0.06
Matches are distributed among these distances:
64 58 0.06
65 49 0.05
66 3 0.00
67 1 0.00
68 67 0.07
69 64 0.07
70 3 0.00
71 4 0.00
72 3 0.00
73 2 0.00
74 4 0.00
75 73 0.07
76 524 0.53
77 126 0.13
78 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (76 bp):
AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:42848161 original size:303 final size:302
Alignment explanation
Indices: 42847470--42848624 Score: 1402
Period size: 303 Copynumber: 3.9 Consensus size: 302
42847460 AGCAAAATTT
* * *
42847470 TTTCCTATCCGCTTGAAATTGCAGTAAAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCGCTTGAAATTGAAGTAAAGTTGGACAACAAGTCTTTATCTCTGAAATTGAAGTAA
* *
42847535 GAGC-A-A---TGT-C-ATCCTCTTGAAATT-AAGTAGAGCTGGATAACACGTCTTTATCTCTGA
66 GAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTC-TTATCTCTGA
*
42847592 AATTGAAGTAAGAG---CA--ATGT-C-ATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTC
130 AATTGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTC
* * *
42847650 ATTATCTCTGAAATTGAAGTAAGAGCAACATCGTTTCCTATCCTCTTGAAATTGAAGTAGAGTGG
195 ATTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTG
* * * *
42847715 GATAACAAGTCATTATCTCTGAAATTGAAGTAAGAGTAACATC
260 GACAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
* *
42847758 GTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAATTGAAGTA
1 -TTTCCTATCCGCTTGAAATTGAAGTAAAGTTGGACAACAAGTCTTTATCTCTGAAATTGAAGTA
42847823 AGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGGATAACAAGTCATTATCTCT
65 AGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCT-GGATAACAAGTC-TTATCTCT
* *
42847887 GAAATTG-AGTAAGAGTAACATCATTTCCTTTCCTCTTGAAATTGAAGTAGAG-TGAGATAACAA
128 GAAATTGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTG-GATAACAA
*
42847950 GTCATTATCTCTGAAATTGAAGTAAAAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG
192 GTCATTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG
42848015 TTGGACAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
257 TTGGACAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
* *
42848061 TTCTCCTATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTTATCTCTGAAATTGAAGTA
1 TT-TCCTATCCGCTTGAAATTGAAGTAAAGTTGGACAACAAGTCTTTATCTCTGAAATTGAAGTA
* * * *
42848126 AGAGCAAGATCTTTTCCTATCC-CATTGGAATTGAAGTAGAGTTGGACAACAAGTCGTCATCTCT
65 AGAGCAAGATCTTTTCCTATCCTC-TTGAAATTGAAGTAGAGCTGGATAACAAGTC-TTATCTCT
* * * * * *
42848190 GAAAATTGAAGTAAGAGCCAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAC
128 G-AAATTGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAA
* * * *
42848255 GCCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCCCTTGGAATTGAAGTAGAG
192 GTCATTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG
* * *
42848320 TTGGACAACAAGTCGTCATCTCTGAAAATTGAAGTAAGAGCCAGATC
257 TTGGACAACAAGTCTTTATCTCTG-AAATTGAAGTAAGAGCAAGATC
* * *
42848367 TTTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATATCAAG--------TCT----TTGAAGTA
1 -TTTCCTATCCGCTTGAAATTGAAGTAAAGTTGGACAACAAGTCTTTATCTCTGAAATTGAAGTA
* * ** *
42848420 AGAGCCAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTAAATATCAAGTC---T-T-TG-
65 AGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTATCTCTGA
* * * * * *
42848479 AAGT-AA--AA-AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTC
130 AATTGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTC
* * * * *
42848540 TTTATCTCTAAAATTGAAGTAAGAGCAAGATCTTTTCCCATCCTCTTGAAATTAAAGTAAAGTTG
195 ATTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTG
* *
42848605 GATAGCAAGTCTTTATCTCT
260 GACAACAAGTCTTTATCTCT
42848625 CTAAAGAGCA
Statistics
Matches: 773, Mismatches: 67, Indels: 59
0.86 0.07 0.07
Matches are distributed among these distances:
282 122 0.16
283 2 0.00
285 2 0.00
286 3 0.00
288 2 0.00
289 65 0.08
290 2 0.00
291 1 0.00
294 55 0.07
295 2 0.00
296 23 0.03
297 34 0.04
298 3 0.00
299 2 0.00
301 3 0.00
302 6 0.01
303 252 0.33
304 7 0.01
305 128 0.17
306 57 0.07
307 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (302 bp):
TTTCCTATCCGCTTGAAATTGAAGTAAAGTTGGACAACAAGTCTTTATCTCTGAAATTGAAGTAA
GAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTATCTCTGAA
ATTGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCA
TTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGG
ACAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
Found at i:42848394 original size:38 final size:38
Alignment explanation
Indices: 42848192--42848394 Score: 116
Period size: 38 Copynumber: 5.3 Consensus size: 38
42848182 TCATCTCTGA
42848192 AAATTGAAGTAAGAGCCAGATCTTTTCCTATCCGCTTG
1 AAATTGAAGTAAGAGCCAGATCTTTTCCTATCCGCTTG
*** *** *
42848230 AAATTGAAGT-AGAGTTGGATAAC-ACGCCTTTAT-CTC-TG
1 AAATTGAAGTAAGAGCCAGAT--CTTTTCC--TATCCGCTTG
* *
42848268 AAATTGAAGTAAGAGCAAGATCTTTTCCTATCCCCTTG
1 AAATTGAAGTAAGAGCCAGATCTTTTCCTATCCGCTTG
* * * *** * *
42848306 GAATTGAAGTAGAGTTGGACA-A-CAAGTCGTCAT-CTC-TG
1 AAATTGAAGTA-AG--AGCCAGATCTTTTCCT-ATCCGCTTG
42848344 AAAATTGAAGTAAGAGCCAGATCTTTTCCTATCCGCTTG
1 -AAATTGAAGTAAGAGCCAGATCTTTTCCTATCCGCTTG
42848383 AAATTGAAGTAA
1 AAATTGAAGTAA
42848395 AGCTGGATAT
Statistics
Matches: 117, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
36 6 0.05
37 13 0.11
38 60 0.51
39 30 0.26
40 6 0.05
41 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (38 bp):
AAATTGAAGTAAGAGCCAGATCTTTTCCTATCCGCTTG
Found at i:42848526 original size:65 final size:64
Alignment explanation
Indices: 42848348--42848542 Score: 327
Period size: 64 Copynumber: 3.0 Consensus size: 64
42848338 TCTCTGAAAA
*
42848348 TTGAAGTAAGAGCCAGATCTTTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
1 TTGAAGTAAGAGCCAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
**
42848412 TTGAAGTAAGAGCCAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTAAATATCAAGTCT
1 TTGAAGTAAGAGCCAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
* * *
42848476 TTGAAGTAAAAAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCT
1 TTGAAGT-AAGAGCCAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
42848541 TT
1 TT
42848543 ATCTCTAAAA
Statistics
Matches: 122, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 68 0.56
65 54 0.44
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (64 bp):
TTGAAGTAAGAGCCAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCT
Found at i:42848592 original size:38 final size:37
Alignment explanation
Indices: 42848476--42848601 Score: 103
Period size: 38 Copynumber: 3.3 Consensus size: 37
42848466 TATCAAGTCT
42848476 TTGAAGTAAAAAGCAAGATCTTTTCCTATCCTCTTGAAA
1 TTGAAGT--AAAGCAAGATCTTTTCCTATCCTCTTGAAA
* * *** * *
42848515 TTGAAGTAAAGCTGGATATCACGTCTTTAT-CTC-TAAAA
1 TTGAAGTAAAGC--AAGATCTTTTC-CTATCCTCTTGAAA
*
42848553 TTGAAGTAAGAGCAAGATCTTTTCCCATCCTCTTGAAA
1 TTGAAGTAA-AGCAAGATCTTTTCCTATCCTCTTGAAA
*
42848591 TTAAAGTAAAG
1 TTGAAGTAAAG
42848602 TTGGATAGCA
Statistics
Matches: 65, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
36 2 0.03
37 16 0.25
38 25 0.38
39 19 0.29
40 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (37 bp):
TTGAAGTAAAGCAAGATCTTTTCCTATCCTCTTGAAA
Found at i:42848938 original size:6 final size:6
Alignment explanation
Indices: 42848929--42849002 Score: 64
Period size: 6 Copynumber: 12.3 Consensus size: 6
42848919 ATTTTAATTT
*
42848929 ATTTAA ATTTAA ATTT-- ATCTTCA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* * *
42848977 CTTTAA ATTTAA ATTAAA ATTAAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
42849003 AAAATACTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
4 2 0.03
5 6 0.10
6 42 0.72
7 2 0.03
8 6 0.10
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:42848956 original size:17 final size:16
Alignment explanation
Indices: 42848919--42848991 Score: 78
Period size: 17 Copynumber: 4.6 Consensus size: 16
42848909 AGTTAAATTG
* *
42848919 ATTTTAATTTATTTAA
1 ATTTAAATTTACTTAA
*
42848935 ATTTAAATTTATCTTCA
1 ATTTAAATTTA-CTTAA
*
42848952 ATTTAAATTTAATT--
1 ATTTAAATTTACTTAA
42848966 ATTTAAATTTACTTTAA
1 ATTTAAATTTAC-TTAA
42848983 ATTTAAATT
1 ATTTAAATT
42848992 AAAATTAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
14 11 0.23
15 2 0.04
16 12 0.25
17 23 0.48
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTAAATTTACTTAA
Found at i:42848965 original size:11 final size:11
Alignment explanation
Indices: 42848919--42848999 Score: 56
Period size: 11 Copynumber: 7.1 Consensus size: 11
42848909 AGTTAAATTG
*
42848919 ATTTTAATTT-
1 ATTTAAATTTA
42848929 ATTTAAATTTAA
1 ATTTAAATTT-A
** *
42848941 ATTTATCTTCA
1 ATTTAAATTTA
42848952 ATTTAAATTTAA
1 ATTTAAATTT-A
42848964 TTATTTAAATTTA
1 --ATTTAAATTTA
*
42848977 CTTTAAATTTA
1 ATTTAAATTTA
* *
42848988 AATTAAAATTA
1 ATTTAAATTTA
42848999 A
1 A
42849000 AATAAAATAC
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
10 9 0.16
11 27 0.49
12 8 0.15
13 1 0.02
14 10 0.18
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:42848999 original size:17 final size:17
Alignment explanation
Indices: 42848931--42849000 Score: 65
Period size: 17 Copynumber: 4.3 Consensus size: 17
42848921 TTTAATTTAT
**
42848931 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTAAA
*
42848948 TTCAATTTAAATTT-AA
1 TTAAATTTAAATTTAAA
**
42848964 TT--ATTTAAATTTACT
1 TTAAATTTAAATTTAAA
*
42848979 TTAAATTTAAATTAAAA
1 TTAAATTTAAATTTAAA
42848996 TTAAA
1 TTAAA
42849001 ATAAAATACT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 10 0.24
15 2 0.05
16 2 0.05
17 28 0.67
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:42849719 original size:9 final size:9
Alignment explanation
Indices: 42849705--42849736 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
42849695 ATACATTAAT
42849705 AATAATATC
1 AATAATATC
42849714 AATAATATC
1 AATAATATC
*
42849723 AATAATATT
1 AATAATATC
42849732 AATAA
1 AATAA
42849737 CAATGGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (9 bp):
AATAATATC
Found at i:42850946 original size:162 final size:162
Alignment explanation
Indices: 42850532--42851031 Score: 808
Period size: 161 Copynumber: 3.1 Consensus size: 162
42850522 AGCTTTCAAT
*
42850532 TTAGTCCTTTGACTGTTTGACTGTACTAGAGGCTGCCACGTGTCACTTTTTGGATTATTT-CTGC
1 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTAC-GC
42850596 ATTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACC
65 ATTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACC
42850661 AAATTGGCCCAAGAATTTTTCAAGG-TTATAAA
130 AAATTGGCCCAAGAATTTTTCAAGGTTTATAAA
*
42850693 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTACGCA
*
42850758 TCTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACCA
66 TTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACCA
42850823 AATTGGCCCAAGAATTTTTCAAGGTTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGGTTTATAAA
*
42850855 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGTTGCCACGTGTCACTTTTTGGATTATTTACGCA
1 TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTACGCA
* * * * * *
42850920 TTTAGTCCCTGACATGTTTAATTTGTTTTAATTTAGTCCTTAAATTAACTTTTATTTAATTACAA
66 TTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACCA
* * * *
42850985 AATTGGTCCAA-ATTTTTTTTCAAGATTTTTAAA
131 AATTGGCCCAAGA--ATTTTTCAAGGTTTATAAA
* *
42851018 TTAATCCCTTGACT
1 TTAGTCCTTTGACT
42851032 TCTGGATGCC
Statistics
Matches: 317, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
161 151 0.48
162 138 0.44
163 28 0.09
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGTATTAGAGGCTGCCACGTGTCACTTTTTGGATTATTTACGCA
TTTAGTCCCTGACTTTTTTAATTTGTTTTAATTTAATCTTTAAATCAACTTTTATTTAATTACCA
AATTGGCCCAAGAATTTTTCAAGGTTTATAAA
Found at i:42851141 original size:30 final size:30
Alignment explanation
Indices: 42851105--42851478 Score: 302
Period size: 30 Copynumber: 12.6 Consensus size: 30
42851095 AATTGTCCAG
*
42851105 AAATTACATTTTGACCCCAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
*
42851135 AAATTACATTTTGACCCCTAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* *
42851165 AAATTATATTTTAACCCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* * * *
42851195 AAATTATATTTTTACCTCAAAACTTTCTGA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
* * *
42851225 AAATTATATTTAGACCCTAAAAACTTTC-CA
1 AAATTACATTTTGACCC-CAAAACTTTCTCA
* * * * * *
42851255 AAATTATATTTTAATCCTAAAACTTTTTGA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
** *
42851285 AAATTTTATTTTGACCCCAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
* *
42851315 AAATTACATTTTGACTCCAAAAATTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
*
42851345 AAATTACATTTTGACCCTAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
*
42851375 AAATTACATTTTGACCCTAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* * * *
42851405 AAATCATATTTTCACCCTAAAA--TTC-CAA
1 AAATTACATTTTGACCCCAAAACTTTCTC-A
* * * * *
42851433 AAATTGCATTTTTACCTCGAAACTTTC-AA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
42851462 AAATTACCATTTT-ACCC
1 AAATTA-CATTTTGACCC
42851479 TTAAACTTCC
Statistics
Matches: 288, Mismatches: 46, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.00
28 18 0.06
29 19 0.07
30 240 0.83
31 10 0.03
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTCTCA
Found at i:42851198 original size:60 final size:59
Alignment explanation
Indices: 42851100--42851467 Score: 334
Period size: 60 Copynumber: 6.2 Consensus size: 59
42851090 CCTTAAATTG
* *
42851100 TCCAGAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTT
1 TCCA-AAATTATATTTTGACCCCAAAACTTTC-CAAAATTACATTTTGACCCCTAAACTTT
* * * * *
42851161 TCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAATTATATTTTTACCTCAAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAAC-TTTCCAAAATTACATTTTGACCCCTAAACTTT
* * * * **
42851220 TCTGAAAATTATATTTAGACCCTAAAAACTTTCCAAAATTATATTTT-AATCCTAAAACTTT
1 TC-CAAAATTATATTTTGACCC-CAAAACTTTCCAAAATTACATTTTGACCCCT-AAACTTT
** * * * * *
42851281 TTGAAAATTTTATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACTCCAAAAATTT
1 TCCAAAATTATATTTTGACCCCAAAACTTTC-CAAAATTACATTTTGACCCCTAAACTTT
* *
42851341 TCCAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGA-CCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAAC-TTTCCAAAATTACATTTTGACCCCT-AAACTTT
* * * * * * *
42851401 TCCAAAATCATATTTTCACCCTAAAA--TTCCAAAAATTGCATTTTTACCTCGAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTTCC-AAAATTACATTTTGACCCCTAAACTTT
*
42851458 TCAAAAATTA
1 TCCAAAATTA
42851468 CCATTTTACC
Statistics
Matches: 254, Mismatches: 42, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
57 14 0.06
58 17 0.07
59 19 0.07
60 180 0.71
61 24 0.09
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (59 bp):
TCCAAAATTATATTTTGACCCCAAAACTTTCCAAAATTACATTTTGACCCCTAAACTTT
Found at i:42851258 original size:90 final size:90
Alignment explanation
Indices: 42851100--42851426 Score: 401
Period size: 90 Copynumber: 3.6 Consensus size: 90
42851090 CCTTAAATTG
42851100 TCCAGAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCT--AAACTTTTC
1 TCCA-AAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGA-CCCTAAAAAC-TTTC
*
42851163 CAAAATTATATTTTAACCCCAAAACTTT
63 CAAAATTATATTTTAACCCTAAAACTTT
* * * * * *
42851191 TCCAAAATTATATTTTTACCTCAAAACTTTCTGAAAATTATATTTAGACCCTAAAAACTTTCCAA
1 TCCAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCTAAAAACTTTCCAA
*
42851256 AATTATATTTTAATCCTAAAACTTT
66 AATTATATTTTAACCCTAAAACTTT
** ** *
42851281 TTGAAAATTTTATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACTCC-AAAAATTTTCCA
1 TCCAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGAC-CCTAAAAACTTTCCA
* *
42851345 AAATTACATTTTGACCCTAAAACTTT
65 AAATTATATTTTAACCCTAAAACTTT
* * * * *
42851371 TCCAAAATTACATTTTGACCCTAAAACTTT-TCCAAAATCATATTTTCACCCTAAAA
1 TCCAAAATTACATTTTGACCCCAAAACTTTCT-AAAAATTACATTTTGACCCTAAAA
42851427 TTCCAAAAAT
Statistics
Matches: 202, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
89 7 0.03
90 185 0.92
91 10 0.05
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (90 bp):
TCCAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCTAAAAACTTTCCAA
AATTATATTTTAACCCTAAAACTTT
Found at i:42851597 original size:59 final size:58
Alignment explanation
Indices: 42851461--42851597 Score: 202
Period size: 58 Copynumber: 2.3 Consensus size: 58
42851451 GAAACTTTCA
* * * *
42851461 AAAATTACCATTTTACCCTTAAACTTCCCTAAATCCCCTTTTAAACCCCGATTTCACT
1 AAAATTACCATTTTACCCTCAAACTCCCCTAAATCCCATTTTAAACCCCGATTTCACC
* *
42851519 AAAATTACCATTTCACCCTCAAACTCCCCTAAATCCCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCTCAAACTCCCCTAAATCCCATTTTAAACCCCGATTTCACC
*
42851577 AAAATCTACCATTTTTCCCTC
1 AAAAT-TACCATTTTACCCTC
42851598 GGGTATCCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 57 0.81
59 13 0.19
ACGTcount: A:0.31, C:0.35, G:0.01, T:0.33
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCAAACTCCCCTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:42857812 original size:1 final size:1
Alignment explanation
Indices: 42857806--42857835 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
42857796 TTGCAAAGGA
42857806 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
42857836 GAGGATATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Done.