Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 31 of 226
Found at i:13658902 original size:41 final size:42
Alignment explanation
Indices: 13658844--13658947 Score: 131
Period size: 41 Copynumber: 2.5 Consensus size: 42
13658834 GGCTTTTAGC
* * * * * *
13658844 CTGCTAGACTTATAGTCTGAATTGTTTCACTGGCAT-TAAGT
1 CTGCTAGACATAAAGTCTGAAATCTTTCACCGGCATCAAAGT
13658885 CTGCTAGACATAAAGTCTGAAATCTTTCACCGGCATCAAAGT
1 CTGCTAGACATAAAGTCTGAAATCTTTCACCGGCATCAAAGT
*
13658927 -TGCTAGACGTAAAGTCTGAAA
1 CTGCTAGACATAAAGTCTGAAA
13658948 CATTCGATCA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 51 0.93
42 4 0.07
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (42 bp):
CTGCTAGACATAAAGTCTGAAATCTTTCACCGGCATCAAAGT
Found at i:13659359 original size:2 final size:2
Alignment explanation
Indices: 13659299--13659342 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
13659289 TTTATACATG
*
13659299 TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13659341 TA
1 TA
13659343 CGTAACTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13659570 original size:2 final size:2
Alignment explanation
Indices: 13659502--13659553 Score: 77
Period size: 2 Copynumber: 24.5 Consensus size: 2
13659492 NNNNNNNNNT
13659502 TA TA CTA TA GTA TA TA TA CTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
13659545 TA TA TA TA T
1 TA TA TA TA T
13659554 TCGAACCTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 41 0.87
3 6 0.13
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13659708 original size:18 final size:18
Alignment explanation
Indices: 13659685--13659720 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13659675 CCAGCATTAT
*
13659685 ATACACATATATATATAC
1 ATACACATATATACATAC
13659703 ATACACATATATACATAC
1 ATACACATATATACATAC
13659721 TCATACCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (18 bp):
ATACACATATATACATAC
Found at i:13659718 original size:14 final size:14
Alignment explanation
Indices: 13659695--13659725 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13659685 ATACACATAT
13659695 ATATATACATACAC
1 ATATATACATACAC
*
13659709 ATATATACATACTC
1 ATATATACATACAC
13659723 ATA
1 ATA
13659726 CCTGTATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATATACATACAC
Found at i:13660620 original size:44 final size:44
Alignment explanation
Indices: 13660572--13660662 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
13660562 TGAAGTATTC
13660572 AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
1 AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
13660616 AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
1 AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
13660660 AAA
1 AAA
13660663 ACGAACCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.56, C:0.20, G:0.09, T:0.15
Consensus pattern (44 bp):
AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
Found at i:13662318 original size:25 final size:25
Alignment explanation
Indices: 13662286--13662427 Score: 98
Period size: 24 Copynumber: 5.9 Consensus size: 25
13662276 GGCTTTTTAT
*
13662286 GAGCTTCTTGATTAATGGCTCTCCG
1 GAGCTTCTCGATTAATGGCTCTCCG
* *
13662311 GAGCTTCTAGA-T-ATGGCTCGTTC-
1 GAGCTTCTCGATTAATGGCTC-TCCG
* * * *
13662334 GAACTTCCCGATTTATGGCTATCCG
1 GAGCTTCTCGATTAATGGCTCTCCG
*
13662359 GAGCTTCTCG-TTAATGGCTCTTCG
1 GAGCTTCTCGATTAATGGCTCTCCG
* * * * **
13662383 GAGCTACCCG-TTATTGGCTCGCAT
1 GAGCTTCTCGATTAATGGCTCTCCG
*
13662407 GAGCTTCCCGATT-ATGGCTCT
1 GAGCTTCTCGATTAATGGCTCT
13662428 TATGAGCTTC
Statistics
Matches: 90, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
23 15 0.17
24 49 0.54
25 26 0.29
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (25 bp):
GAGCTTCTCGATTAATGGCTCTCCG
Found at i:13662401 original size:48 final size:48
Alignment explanation
Indices: 13662295--13662392 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 48
13662285 TGAGCTTCTT
* * *
13662295 GATTAATGGCTCTCCGGAGCTTCTAGATATGGCTCGTTCGAACTTCCC
1 GATTTATGGCTATCCGGAGCTTCTAGATATGGCTCGTTCGAACTACCC
* * *
13662343 GATTTATGGCTATCCGGAGCTTCTCGTTAATGGCTC-TTCGGAGCTACCC
1 GATTTATGGCTATCCGGAGCTTCTAGAT-ATGGCTCGTTC-GAACTACCC
13662392 G
1 G
13662393 TTATTGGCTC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 27 0.64
49 15 0.36
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (48 bp):
GATTTATGGCTATCCGGAGCTTCTAGATATGGCTCGTTCGAACTACCC
Found at i:13662410 original size:24 final size:24
Alignment explanation
Indices: 13662383--13662444 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
13662373 TGGCTCTTCG
*
13662383 GAGCTACCCGTTATTGGCTCGCAT
1 GAGCTTCCCGTTATTGGCTCGCAT
**
13662407 GAGCTTCCCGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCGCAT
*
13662431 GAGCTTCCCTTTAT
1 GAGCTTCCCGTTAT
13662445 ACAGCCCGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCGCAT
Found at i:13662435 original size:72 final size:73
Alignment explanation
Indices: 13662282--13662437 Score: 165
Period size: 72 Copynumber: 2.2 Consensus size: 73
13662272 TAAAGGCTTT
* * * *
13662282 TTATGAGCTTCTTGATTAATGGCTCTCCGGAGCTTCTAGATATGGCTCGTTCGAACTTCCCGATT
1 TTATGAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATGGCTCGATCGAACTTCCCGATT
13662347 TATGGCTA
66 TATGGCTA
*** * * * *
13662355 TCCGGAGCTTCTCG-TTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCAT-GAGCTTCCCGA
1 TTATGAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATA-TGGCTCG-ATCGAACTTCCCGA
*
13662418 -TTATGGCTC
64 TTTATGGCTA
13662427 TTATGAGCTTC
1 TTATGAGCTTC
13662438 CCTTTATACA
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
72 38 0.58
73 27 0.41
74 1 0.02
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (73 bp):
TTATGAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATGGCTCGATCGAACTTCCCGATT
TATGGCTA
Found at i:13663291 original size:19 final size:21
Alignment explanation
Indices: 13663267--13663307 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13663257 AAGACTTTAT
13663267 TTTTGG-TTGGATT-TGAATG
1 TTTTGGATTGGATTGTGAATG
*
13663286 TTTTGGATTGGTTTGTGAATG
1 TTTTGGATTGGATTGTGAATG
13663307 T
1 T
13663308 GTTAAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (21 bp):
TTTTGGATTGGATTGTGAATG
Found at i:13666123 original size:76 final size:78
Alignment explanation
Indices: 13665988--13666146 Score: 218
Period size: 76 Copynumber: 2.1 Consensus size: 78
13665978 TCTAGTAAAT
* *
13665988 TTTAATAATATTATATTTATTATATATATACATTTTAATTTAATCTCTTGACTAGTGAATGGTCA
1 TTTACTAATATTATATTTATTATATATATACATTTTAATTTAATCTCTTAACTAGTGAATGGTCA
*
13666053 TTTTCTAT-TGTCA
66 ATTTCT-TCTGTCA
** *
13666066 TTTACTAAT-TTATTATTT-TTAT-TATATATTTTTTAATTTAATGTCTTAACTAGTGAATGGTC
1 TTTACTAATATTA-TATTTATTATATATATACATTTTAATTTAATCTCTTAACTAGTGAATGGTC
13666128 AATTTCTTCTGTCA
65 AATTTCTTCTGTCA
13666142 TTTAC
1 TTTAC
13666147 ATTTTCTGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
75 1 0.01
76 52 0.71
77 7 0.10
78 13 0.18
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (78 bp):
TTTACTAATATTATATTTATTATATATATACATTTTAATTTAATCTCTTAACTAGTGAATGGTCA
ATTTCTTCTGTCA
Found at i:13694361 original size:18 final size:18
Alignment explanation
Indices: 13694338--13694372 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13694328 TAACAAGAAG
*
13694338 TGTATATATATTGAAATA
1 TGTATATAAATTGAAATA
13694356 TGTATATAAATTGAAAT
1 TGTATATAAATTGAAAT
13694373 TTCGTCTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (18 bp):
TGTATATAAATTGAAATA
Found at i:13699542 original size:55 final size:55
Alignment explanation
Indices: 13699458--13699569 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
13699448 AAAATGTAGG
*
13699458 TTGAGAAGAAATCCAACTACACCTTTAGTAAGAAAAGGTGAACTCCCTAACGATT
1 TTGAGAAGAAATCCAACTACACCTTTAGTAAGAAAAGGTGAACTCCCGAACGATT
*
13699513 TTGAGAAGAAATCCAACTACACCTTTAGTAAGAAAAGGTTAACTCCCGAACGATT
1 TTGAGAAGAAATCCAACTACACCTTTAGTAAGAAAAGGTGAACTCCCGAACGATT
13699568 TT
1 TT
13699570 CTTCTTTCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (55 bp):
TTGAGAAGAAATCCAACTACACCTTTAGTAAGAAAAGGTGAACTCCCGAACGATT
Found at i:13701596 original size:5 final size:5
Alignment explanation
Indices: 13701586--13701610 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13701576 ATTTAATCAA
13701586 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
13701611 GGCCTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:13706555 original size:31 final size:31
Alignment explanation
Indices: 13706520--13706592 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
13706510 ATAATTTTTT
* *
13706520 GGACAAGTTTAAGTATCAACTAGATACTTTC
1 GGACAAGTTCAAGTACCAACTAGATACTTTC
* * *
13706551 GGACAAGTTCAGGTACCGACTAGATACTTTT
1 GGACAAGTTCAAGTACCAACTAGATACTTTC
13706582 GGACAAGTTCA
1 GGACAAGTTCA
13706593 TAGGGCAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (31 bp):
GGACAAGTTCAAGTACCAACTAGATACTTTC
Found at i:13707092 original size:29 final size:30
Alignment explanation
Indices: 13707059--13707119 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
13707049 TCGAAATATT
*
13707059 ATATATAAAATTACAGA-AAATCAAAGTTC
1 ATATATAAAATTACACATAAATCAAAGTTC
* *
13707088 ATATATGACATTACACATTAAATCAAAGTTC
1 ATATATAAAATTACACA-TAAATCAAAGTTC
13707119 A
1 A
13707120 CATGTAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 14 0.52
31 13 0.48
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.30
Consensus pattern (30 bp):
ATATATAAAATTACACATAAATCAAAGTTC
Found at i:13729665 original size:18 final size:18
Alignment explanation
Indices: 13729637--13729686 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
13729627 ATAGCTTTTA
13729637 AATAA-ATTTTATTAAGT
1 AATAATATTTTATTAAGT
*
13729654 AATAATATTTTAATAAGT
1 AATAATATTTTATTAAGT
13729672 AATAATATTTTATTA
1 AATAATATTTTATTA
13729687 TATATATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
AATAATATTTTATTAAGT
Found at i:13731712 original size:18 final size:16
Alignment explanation
Indices: 13731672--13731721 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
13731662 GAAAAAATTC
*
13731672 TAATTAATATTTTTAA
1 TAATTATTATTTTTAA
13731688 TAA-TATTATTTATTACA
1 TAATTATTATTT-TTA-A
13731705 TAATTATTATTTTTAA
1 TAATTATTATTTTTAA
13731721 T
1 T
13731722 GTTACAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.23
16 8 0.27
17 7 0.23
18 8 0.27
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTATTATTTTTAA
Found at i:13731992 original size:9 final size:9
Alignment explanation
Indices: 13731975--13732011 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13731965 TGAGTTTTCG
13731975 AATTCGAAT
1 AATTCGAAT
*
13731984 AACTCGAAT
1 AATTCGAAT
13731993 AATTCGAAT
1 AATTCGAAT
13732002 AATTCGAAT
1 AATTCGAAT
13732011 A
1 A
13732012 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13740217 original size:38 final size:39
Alignment explanation
Indices: 13740121--13740243 Score: 123
Period size: 38 Copynumber: 3.2 Consensus size: 39
13740111 CTTCGAATGC
** * *
13740121 ATATATATA-TTATTCAAATACATATGCCAAAAGCAA-AT
1 ATATATATACTTA-TCAACCACATATGCCGAATGCAACAT
*
13740159 A-AT-TATACTTATCAACCACATGTGCCGAATGC-ACAT
1 ATATATATACTTATCAACCACATATGCCGAATGCAACAT
*
13740195 ATATATATACTTAT-AATTCACATATGCCGAATGCATACAT
1 ATATATATACTTATCAA-CCACATATGCCGAATGCA-ACAT
13740235 ATATATATA
1 ATATATATA
13740244 TCCAACAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
35 1 0.01
36 23 0.32
37 9 0.13
38 25 0.35
40 13 0.18
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (39 bp):
ATATATATACTTATCAACCACATATGCCGAATGCAACAT
Found at i:13741192 original size:2 final size:2
Alignment explanation
Indices: 13741185--13741225 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
13741175 AACATTAGAA
13741185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13741226 AATCATTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13741670 original size:27 final size:27
Alignment explanation
Indices: 13741639--13741690 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
13741629 CACACATTTC
*
13741639 ATTT-ATTTCACATTTTAGTCCCTAAAA
1 ATTTAATTTCACAATTTAG-CCCTAAAA
13741666 ATTTAATTTCACAATTTAGCCCTAA
1 ATTTAATTTCACAATTTAGCCCTAA
13741691 TTACTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (27 bp):
ATTTAATTTCACAATTTAGCCCTAAAA
Found at i:13741700 original size:27 final size:28
Alignment explanation
Indices: 13741643--13741704 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
13741633 CATTTCATTT
* * *
13741643 ATTTCACATTTTAGTCCCTAAAAATTTA
1 ATTTCACAATTTAGTCCCTAAAAACTCA
**
13741671 ATTTCACAATTTAG-CCCTAATTACTCA
1 ATTTCACAATTTAGTCCCTAAAAACTCA
13741698 ATTTCAC
1 ATTTCAC
13741705 CAAAAATTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (28 bp):
ATTTCACAATTTAGTCCCTAAAAACTCA
Found at i:13742587 original size:22 final size:22
Alignment explanation
Indices: 13742562--13742612 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
13742552 GAGCACTAAA
*
13742562 GTGCTATACAAAGAGTACGAAT
1 GTGCTAAACAAAGAGTACGAAT
** *
13742584 GTGCTAAACGGAGAGTACTAAT
1 GTGCTAAACAAAGAGTACGAAT
13742606 GTGCTAA
1 GTGCTAA
13742613 TAATCAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (22 bp):
GTGCTAAACAAAGAGTACGAAT
Found at i:13743731 original size:9 final size:9
Alignment explanation
Indices: 13743717--13743789 Score: 103
Period size: 9 Copynumber: 8.2 Consensus size: 9
13743707 TTTGGTTAAA
*
13743717 AATTACCCG
1 AATTAACCG
*
13743726 AATTACCCG
1 AATTAACCG
**
13743735 AATTAATTG
1 AATTAACCG
13743744 AATTAACCG
1 AATTAACCG
13743753 AATTAACCG
1 AATTAACCG
13743762 AATTAACCG
1 AATTAACCG
13743771 AATTAACCG
1 AATTAACCG
13743780 AATT-ACCG
1 AATTAACCG
13743788 AA
1 AA
13743790 AAATACTCGA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
8 6 0.10
9 53 0.90
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:13743974 original size:13 final size:13
Alignment explanation
Indices: 13743956--13743980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13743946 AGTTTTATTG
13743956 GGTTGGGTAATTA
1 GGTTGGGTAATTA
13743969 GGTTGGGTAATT
1 GGTTGGGTAATT
13743981 GAGTTTGGGC
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:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (13 bp):
GGTTGGGTAATTA
Found at i:13744137 original size:20 final size:20
Alignment explanation
Indices: 13744112--13744151 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13744102 GACCCCCGAC
13744112 CGAAAAAATTCGGTTAACCG
1 CGAAAAAATTCGGTTAACCG
13744132 CGAAAAAATTCGGTTAACCG
1 CGAAAAAATTCGGTTAACCG
13744152 ACCGATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
CGAAAAAATTCGGTTAACCG
Found at i:13748398 original size:42 final size:42
Alignment explanation
Indices: 13748325--13748549 Score: 339
Period size: 42 Copynumber: 5.4 Consensus size: 42
13748315 CTGTGCCTAT
* * * *
13748325 CAGGTTTATTGCCAGTGAAAC-ATTTCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
13748366 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
*
13748408 CAGGCTTAATGCCGGTGAAATAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
13748450 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
13748492 CATGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
13748533 CAGGC-TAAGTGCCGGTG
1 CAGGCTTAA-TGCCGGTG
13748550 TACTGAATCA
Statistics
Matches: 171, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 3 0.02
41 47 0.27
42 121 0.71
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:13750838 original size:20 final size:20
Alignment explanation
Indices: 13750797--13750851 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
13750787 TCTACTAGAC
*
13750797 AAAAAGAATAACATTAATAAT
1 AAAAAAAATAA-ATTAATAAT
13750818 AAAAAAAATCAAATTAA-AAT
1 AAAAAAAAT-AAATTAATAAT
*
13750838 ACAAAAAATAAATT
1 AAAAAAAATAAATT
13750852 CCATCATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.16
20 11 0.35
21 13 0.42
22 2 0.06
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAAAAAATAAATTAATAAT
Found at i:13755922 original size:21 final size:23
Alignment explanation
Indices: 13755894--13755939 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13755884 GAATTTTTAT
* *
13755894 ATATTATTTAAATATTTTTTAAAA
1 ATATTATAT-AATATTTTATAAAA
13755918 ATATTATATAATATTTTATAAA
1 ATATTATATAATATTTTATAAA
13755940 TATAAATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATTATATAATATTTTATAAAA
Found at i:13763901 original size:20 final size:19
Alignment explanation
Indices: 13763872--13763926 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
13763862 TCATGTTAGT
*
13763872 TTTTTAAATTTTTATGAAC
1 TTTTAAAATTTTTATGAAC
* **
13763891 TTTTAATAATTTTTTTGATT
1 TTTTAA-AATTTTTATGAAC
13763911 TTTTAAATATTTTTAT
1 TTTTAAA-ATTTTTAT
13763927 AGCTATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTAAAATTTTTATGAAC
Found at i:13772209 original size:10 final size:10
Alignment explanation
Indices: 13772194--13772224 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
13772184 TTAATTTTCA
13772194 TTTTTCCTTT
1 TTTTTCCTTT
13772204 TTTTT-CTTT
1 TTTTTCCTTT
13772213 TTTTTCCTTT
1 TTTTTCCTTT
13772223 TT
1 TT
13772225 CCTTTTTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCCTTT
Found at i:13772811 original size:26 final size:25
Alignment explanation
Indices: 13772764--13772812 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
13772754 CTCGGTGGAG
*
13772764 TGGATACGCGACTCGGACGATGGGT
1 TGGATACGCGAATCGGACGATGGGT
13772789 TGGATGACGCTGAATCGGA-GATGG
1 TGGAT-ACGC-GAATCGGACGATGG
13772813 TGCCACCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 9 0.43
27 7 0.33
ACGTcount: A:0.22, C:0.16, G:0.41, T:0.20
Consensus pattern (25 bp):
TGGATACGCGAATCGGACGATGGGT
Found at i:13775168 original size:20 final size:21
Alignment explanation
Indices: 13775145--13775188 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
13775135 AAAAATTATA
13775145 AAAAAATT-AAAATAATTTTC
1 AAAAAATTCAAAATAATTTTC
*
13775165 -AAAAATTCAAAATAATTTTT
1 AAAAAATTCAAAATAATTTTC
13775185 AAAA
1 AAAA
13775189 TTCCAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 11 0.52
21 3 0.14
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAATTCAAAATAATTTTC
Found at i:13775195 original size:20 final size:20
Alignment explanation
Indices: 13775146--13775215 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
13775136 AAAATTATAA
13775146 AAAAATT-AAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
13775165 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* *
13775184 TAAAATTCCAAAT-ATTTAT-
1 AAAAATTCAAAATAATTT-TC
*
13775203 AAAAATTCTAAAT
1 AAAAATTCAAAAT
13775216 TGTATATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.09
19 30 0.67
20 11 0.24
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:13775215 original size:26 final size:25
Alignment explanation
Indices: 13775186--13775239 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
13775176 ATAATTTTTA
13775186 AAATTCCAAATATTTATAAAAATTCT
1 AAATTCCAAATATTTA-AAAAATTCT
** * *
13775212 AAATTGTATATTTTTAAAAAATTCT
1 AAATTCCAAATATTTAAAAAATTCT
13775237 AAA
1 AAA
13775240 GAATATGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (25 bp):
AAATTCCAAATATTTAAAAAATTCT
Found at i:13787607 original size:19 final size:18
Alignment explanation
Indices: 13787553--13787611 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
13787543 TTTCTATACT
13787553 TTTATTCAGATTAAAATGTC
1 TTTATTCAGATT-AAATG-C
* * * *
13787573 ATTAGTAAGCTTAAATGC
1 TTTATTCAGATTAAATGC
13787591 TTTATTCAGATTGAAATGC
1 TTTATTCAGATT-AAATGC
13787610 TT
1 TT
13787612 ATGCAAACTT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 9 0.30
19 13 0.43
20 8 0.27
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTATTCAGATTAAATGC
Found at i:13818364 original size:17 final size:17
Alignment explanation
Indices: 13818342--13818380 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
13818332 TTGGGTTAGT
* *
13818342 TTTTTTTTTTCTTTTCC
1 TTTTTTTTATCCTTTCC
13818359 TTTTTTTTATCCTTTCC
1 TTTTTTTTATCCTTTCC
13818376 TTTTT
1 TTTTT
13818381 GTATAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTATCCTTTCC
Found at i:13818463 original size:3 final size:3
Alignment explanation
Indices: 13818455--13818487 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13818445 ATTCATTGTT
13818455 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13818488 AATCTATGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13833856 original size:24 final size:24
Alignment explanation
Indices: 13833829--13833874 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13833819 AACATAATTC
13833829 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
*
13833853 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
13833875 ACTCATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:13833882 original size:24 final size:24
Alignment explanation
Indices: 13833840--13833893 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13833830 AATCAAAGTC
** **
13833840 AAATATATTATGTTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
13833864 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
13833888 AAATAT
1 AAATAT
13833894 TCTAGAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:13840863 original size:24 final size:24
Alignment explanation
Indices: 13840813--13840864 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13840803 AATCAAAGTC
* *
13840813 AAATATATTATGTTAATAAATATT
1 AAATATATTATATTAATAAATACT
*
13840837 AAATATATTATATTCATAAATACT
1 AAATATATTATATTAATAAATACT
13840861 AAAT
1 AAAT
13840865 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (24 bp):
AAATATATTATATTAATAAATACT
Found at i:13845883 original size:29 final size:29
Alignment explanation
Indices: 13845844--13845903 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
13845834 GCGAAATGAA
* *
13845844 AACCGAATATACGGTGAATCAATATTATG
1 AACCGAATATACGGTCAAACAATATTATG
* *
13845873 AACCGGATATATGGTCAAACAATATTATG
1 AACCGAATATACGGTCAAACAATATTATG
13845902 AA
1 AA
13845904 ACTTCAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (29 bp):
AACCGAATATACGGTCAAACAATATTATG
Found at i:13850797 original size:41 final size:41
Alignment explanation
Indices: 13850747--13851019 Score: 370
Period size: 41 Copynumber: 6.6 Consensus size: 41
13850737 TTAATTTAAA
*
13850747 CAGATTCACCGGCACTTAGCCTGTTAGGCTTA-AAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTGATT
* *
13850789 CAGATCACCGACACTTAGCCTGTTAGGCTTA-AAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTGATT
* * *
13850830 CAGATCACCGGCACTTATCCTGCTAGGTTTATAACCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* * *
13850871 CAGATCACCGGCACTTAGCCTGGTAGGCATATAACCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
13850912 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* * *
13850953 CAGATCACCGGCAGTTGGCCTGCTAGGCTTATAACCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
13850994 CAGATCACCAGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
13851020 ACATAAAGGC
Statistics
Matches: 207, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
41 201 0.97
42 6 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:13850975 original size:123 final size:123
Alignment explanation
Indices: 13850747--13851032 Score: 412
Period size: 123 Copynumber: 2.3 Consensus size: 123
13850737 TTAATTTAAA
* * *
13850747 CAGATTCACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCATAAAGCCTGATTCAGATCACCGACACTTAGCCTGC
* * *
13850812 TAGGCTTAAAGCCTGATTCAGATCACCGGCACTTATCCTGCTAGGTTTATAACCTGGTT
65 TAGGCTTAAAGCCTAATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTT
* * *
13850871 CAGATCACCGGCACTTAGCCTGGTAGGCATATAA-CCTGGTTCAGATCACCGGCACTTAGCCTGC
1 CAGATCACCGGCACTTAGCCTGCTAGGCATA-AAGCCTGATTCAGATCACCGACACTTAGCCTGC
* * *
13850935 TAGGCTTATAGCCTAATTCAGATCACCGGCAGTTGGCCTGCTAGGCTTATAACCTGGTT
65 TAGGCTTAAAGCCTAATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTT
* * *
13850994 CAGATCACCAGCACTTAGCCTGCTAGACATAAAGGCTGA
1 CAGATCACCGGCACTTAGCCTGCTAGGCATAAAGCCTGA
13851033 ATTATCTCAA
Statistics
Matches: 144, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
122 2 0.01
123 136 0.94
124 6 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (123 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCATAAAGCCTGATTCAGATCACCGACACTTAGCCTGCT
AGGCTTAAAGCCTAATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTT
Found at i:13851190 original size:2 final size:2
Alignment explanation
Indices: 13851183--13851207 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13851173 AACCACATGG
13851183 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 A
13851208 AAGTTCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13851559 original size:78 final size:77
Alignment explanation
Indices: 13851405--13851560 Score: 172
Period size: 76 Copynumber: 2.0 Consensus size: 77
13851395 ATGTACATAT
* * * *
13851405 ATACATATTCGAATCTAACATATATACATGTATAATTTTATACTTACATTCGAAACAAGTACTTA
1 ATACATATTCGAATCTAACA-ATATACATATATAATTTTATACTTACACTCGAAACAAGCAATTA
*
13851470 TACTTGTATACAC
65 TACTTATATACAC
* * * * *
13851483 ATACATTTTCGAATTTAAC-ATATACCTATATAATTTTATACTTATACTC-AACATAAGCAATTA
1 ATACATATTCGAATCTAACAATATACATATATAATTTTATACTTACACTCGAA-ACAAGCAATTA
* *
13851546 TACGTATATATAC
65 TACTTATATACAC
13851559 AT
1 AT
13851561 GCTTATTTGA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
75 2 0.03
76 46 0.71
78 17 0.26
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.38
Consensus pattern (77 bp):
ATACATATTCGAATCTAACAATATACATATATAATTTTATACTTACACTCGAAACAAGCAATTAT
ACTTATATACAC
Found at i:13851772 original size:153 final size:157
Alignment explanation
Indices: 13851591--13851969 Score: 466
Period size: 153 Copynumber: 2.4 Consensus size: 157
13851581 TACAAATATA
* * * * *
13851591 TTATACATATATATATGTAACATCCATACTTTTAA-TATAATCCAATAATTTATACTCA-TATAT
1 TTATATATATATAAATATAACATACATACTTTTAACTA-AATCCAAGAATTTAT--TCAGTATAT
* * * * *
13851654 ACATACCTATTCGAACCTCTTGTAAACATATATAACATTCA-AC-ATTAACTAAATTCAA-AACT
63 ACATACATATCCGAACCTCTTATAAACAAATATAACATACATACTATTAACTAAATTCAAGAACT
*
13851716 TATTCATGTATATACACATATATCCGAAC-
128 TATTCATGTATATACAAATATATCCGAACT
*
13851745 TT-TATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATAC
1 TTATATATATATAAATATAACATACATACTTTTAACTAAATCCAAGAATTTATTCA-GTATATAC
* * * * * * *
13851809 ATATATATCCGAACTTTTTATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTA
65 ATACATATCCGAACCTCTTATAAACAAATATAACATACATACTATTAACTAAATTCAAGAACTTA
13851874 TTCATGTATATACAAATATATCCGAACT
130 TTCATGTATATACAAATATATCCGAACT
* * *
13851902 TTATATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATAC
1 TTATATATATATAAATATAACATACATACTTTTAACTAAATCCAAGAATTTATTCA-GTATATAC
13851967 ATA
65 ATA
13851970 TATTATCCAC
Statistics
Matches: 196, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
151 3 0.02
153 77 0.39
154 6 0.03
155 14 0.07
156 31 0.16
157 2 0.01
158 63 0.32
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.38
Consensus pattern (157 bp):
TTATATATATATAAATATAACATACATACTTTTAACTAAATCCAAGAATTTATTCAGTATATACA
TACATATCCGAACCTCTTATAAACAAATATAACATACATACTATTAACTAAATTCAAGAACTTAT
TCATGTATATACAAATATATCCGAACT
Found at i:13851942 original size:80 final size:79
Alignment explanation
Indices: 13851698--13851977 Score: 476
Period size: 78 Copynumber: 3.6 Consensus size: 79
13851688 ACATTCAACA
*
13851698 TTAACTAAATTCAA-AACTTATTCATGTATATACACATATATCCGAAC-TTTATATATATAAATA
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTTATATATATAAATA
13851761 TAACATACATACTT
66 TAACATACATACTT
*
13851775 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTT-TATATATAAATA
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTTATATATATAAATA
13851839 TAACATACATACTT
66 TAACATACATACTT
* *
13851853 TTAACTAAATTCAAGAATTTATTCATGTATATACAAATATATCCGAACTTTATATATATATAAAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTT-TATATATATAAAT
13851918 ATAACATACATACTT
65 ATAACATACATACTT
*
13851933 TTAACTAAATTCAAGAACTTATACATGTATATACATATATTATCC
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
13851978 ACTATTAGTT
Statistics
Matches: 192, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
77 14 0.07
78 107 0.56
79 4 0.02
80 62 0.32
81 5 0.03
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.39
Consensus pattern (79 bp):
TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTTATATATATAAATA
TAACATACATACTT
Found at i:13856475 original size:26 final size:27
Alignment explanation
Indices: 13856430--13856481 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
13856420 AAACCCCTAA
*
13856430 TTTTCTTTCTTTCCTTCCCT-TTTTCT
1 TTTTCTTTCTTTCCTCCCCTGTTTTCT
13856456 TTTTCTTTCCTTT-CTCCCCTGTTTTC
1 TTTTCTTT-CTTTCCTCCCCTGTTTTC
13856482 GTTTGCCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTCTTTCTTTCCTCCCCTGTTTTCT
Found at i:13856713 original size:14 final size:13
Alignment explanation
Indices: 13856687--13856736 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
13856677 ATTTATTTGA
13856687 AATATAATAATAT
1 AATATAATAATAT
13856700 AATATAATTAATAT
1 AATATAA-TAATAT
* *
13856714 AAT-TTACAATAT
1 AATATAATAATAT
13856726 AATA-AATAATA
1 AATATAATAATA
13856737 ATATACTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 13 0.42
13 9 0.29
14 9 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:13860773 original size:12 final size:12
Alignment explanation
Indices: 13860758--13860805 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
13860748 GTGGCGGCTT
*
13860758 AGGTGGCGGGGG
1 AGGTGGCGGTGG
*
13860770 AGGTGGTGGTGG
1 AGGTGGCGGTGG
*
13860782 CGGTGGCGGTGG
1 AGGTGGCGGTGG
*
13860794 AGGTGGGGGTGG
1 AGGTGGCGGTGG
13860806 CAAAGGAGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.06, C:0.06, G:0.71, T:0.17
Consensus pattern (12 bp):
AGGTGGCGGTGG
Found at i:13860780 original size:18 final size:18
Alignment explanation
Indices: 13860758--13860799 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13860748 GTGGCGGCTT
13860758 AGGTGGCGGGGGAGGTGG
1 AGGTGGCGGGGGAGGTGG
* * *
13860776 TGGTGGCGGTGGCGGTGG
1 AGGTGGCGGGGGAGGTGG
13860794 AGGTGG
1 AGGTGG
13860800 GGGTGGCAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.07, G:0.69, T:0.17
Consensus pattern (18 bp):
AGGTGGCGGGGGAGGTGG
Found at i:13860786 original size:6 final size:6
Alignment explanation
Indices: 13860759--13860806 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
13860749 TGGCGGCTTA
* * * * *
13860759 GGTGGC GGGGGA GGTGGT GGTGGC GGTGGC GGTGGA GGTGGG GGTGGC
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC
13860807 AAAGGAGGTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.04, C:0.08, G:0.71, T:0.17
Consensus pattern (6 bp):
GGTGGC
Found at i:13873890 original size:6 final size:6
Alignment explanation
Indices: 13873879--13873909 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
13873869 TTAAAACCGG
13873879 AATTAA AATTAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA AATTAA A
13873910 TGGAATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:13877835 original size:20 final size:19
Alignment explanation
Indices: 13877785--13877827 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
13877775 AAATTTTTCT
*
13877785 TTTTATGTTTTTTT--AAA
1 TTTTATATTTTTTTGAAAA
13877802 TTTTATATTTTTTTGAAAA
1 TTTTATATTTTTTTGAAAA
13877821 TATTTAT
1 T-TTTAT
13877828 TTATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 13 0.59
19 4 0.18
20 5 0.23
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTATATTTTTTTGAAAA
Found at i:13878172 original size:30 final size:28
Alignment explanation
Indices: 13878136--13878197 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
13878126 AAAATCCGTT
13878136 TTTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTT-AAAATTTACCGAAATGGGCC-A
** *
13878166 TTTTTTTATTATTTACCGGAATGGGCCA
1 TTTTTTTAAAATTTACCGAAATGGGCCA
13878194 TTTT
1 TTTT
13878198 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 17 0.59
30 7 0.24
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTTTTTAAAATTTACCGAAATGGGCCA
Found at i:13891219 original size:18 final size:19
Alignment explanation
Indices: 13891192--13891227 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13891182 GGATATAATA
13891192 AATTAATTATT-TTAAAAG
1 AATTAATTATTGTTAAAAG
*
13891210 AATTATTTATTGTTAAAA
1 AATTAATTATTGTTAAAA
13891228 ATTAACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
AATTAATTATTGTTAAAAG
Found at i:13904671 original size:24 final size:24
Alignment explanation
Indices: 13904639--13904695 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
13904629 CCAAACGTCA
13904639 AAATTTTCAAACAAAATTTTCACG
1 AAATTTTCAAACAAAATTTTCACG
** * *
13904663 AAATTTTCAAATGAAATTTTGACT
1 AAATTTTCAAACAAAATTTTCACG
13904687 AAATTTTCA
1 AAATTTTCA
13904696 CGAAATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (24 bp):
AAATTTTCAAACAAAATTTTCACG
Found at i:13904678 original size:13 final size:13
Alignment explanation
Indices: 13904639--13904682 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
13904629 CCAAACGTCA
*
13904639 AAATTTTCAAACA
1 AAATTTTCAAACG
13904652 AAATTTTC--ACG
1 AAATTTTCAAACG
*
13904663 AAATTTTCAAATG
1 AAATTTTCAAACG
13904676 AAATTTT
1 AAATTTT
13904683 GACTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.37
13 17 0.63
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (13 bp):
AAATTTTCAAACG
Found at i:13904712 original size:11 final size:11
Alignment explanation
Indices: 13904652--13904705 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
13904642 TTTTCAAACA
13904652 AAATTTTCACG
1 AAATTTTCACG
*
13904663 AAATTTTCAAATG
1 AAATTTTC--ACG
* *
13904676 AAATTTTGACT
1 AAATTTTCACG
13904687 AAATTTTCACG
1 AAATTTTCACG
13904698 AAATTTTC
1 AAATTTTC
13904706 GTGAAATCGT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 26 0.74
13 9 0.26
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (11 bp):
AAATTTTCACG
Found at i:13911555 original size:17 final size:17
Alignment explanation
Indices: 13911533--13911568 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13911523 TTTCCTTTCT
* *
13911533 ATTTTTTTATTTACTAC
1 ATTTTTATATTTAATAC
13911550 ATTTTTATATTTAATAC
1 ATTTTTATATTTAATAC
13911567 AT
1 AT
13911569 ATTAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTTATATTTAATAC
Found at i:13915847 original size:17 final size:18
Alignment explanation
Indices: 13915813--13915860 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
13915803 TACGCTTATT
*
13915813 TTTTTTAAATTAAGATTTA
1 TTTTTT-AATTTAGATTTA
13915832 TTTTTTAATTTA-ATTTA
1 TTTTTTAATTTAGATTTA
* *
13915849 TTATTTATTTTA
1 TTTTTTAATTTA
13915861 TTATTTTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 15 0.58
18 5 0.19
19 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTAGATTTA
Found at i:13930227 original size:3 final size:3
Alignment explanation
Indices: 13930208--13930257 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
13930198 AATTTATTTC
* * *
13930208 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13930254 ATA A
1 ATA A
13930258 AACGTCATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:13930236 original size:18 final size:18
Alignment explanation
Indices: 13930208--13930254 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
13930198 AATTTATTTC
13930208 ATAAT-ATAATAACAATA
1 ATAATAATAATAACAATA
*
13930225 ATATTAATAATAACAATA
1 ATAATAATAATAACAATA
13930243 ATAATAA-AATAA
1 ATAATAATAATAA
13930255 TAAAACGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:13933222 original size:24 final size:24
Alignment explanation
Indices: 13933179--13933283 Score: 133
Period size: 24 Copynumber: 4.5 Consensus size: 24
13933169 ATTGGGAAAT
*
13933179 GATGAATTGA-TGAAAATGTAAAG
1 GATGAATTGACGGAAAATGTAAAG
13933202 GATGAATTGACGGAAAATGTAAAG
1 GATGAATTGACGGAAAATGTAAAG
* *
13933226 GAGGAACTGACGGAAAATGTAAAG
1 GATGAATTGACGGAAAATGTAAAG
** * *
13933250 GATGAATTGGTGG-TAATGTAAAA
1 GATGAATTGACGGAAAATGTAAAG
13933273 GATGAATTGAC
1 GATGAATTGAC
13933284 AGCAAATTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
23 27 0.39
24 43 0.61
ACGTcount: A:0.44, C:0.04, G:0.30, T:0.23
Consensus pattern (24 bp):
GATGAATTGACGGAAAATGTAAAG
Found at i:13941757 original size:60 final size:60
Alignment explanation
Indices: 13941666--13941784 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
13941656 TTTTTTAAAA
* * * * *
13941666 TTTTTAGAGTTAGGACTAAATTGACATATTTTGTAAATATTGAGGGGTAAATTTATTAAT
1 TTTTTAGAATTAGGACTAAAATGACAAATTTTGTAAACATTGAGGGCTAAATTTATTAAT
*
13941726 TTTTTAGAATT-GGAACTAAAATGATAAATTTTGTAAACATTGAGGGCTAAATTTATTAA
1 TTTTTAGAATTAGG-ACTAAAATGACAAATTTTGTAAACATTGAGGGCTAAATTTATTAA
13941785 ATTTATTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 2 0.04
60 50 0.96
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.41
Consensus pattern (60 bp):
TTTTTAGAATTAGGACTAAAATGACAAATTTTGTAAACATTGAGGGCTAAATTTATTAAT
Found at i:13971953 original size:17 final size:16
Alignment explanation
Indices: 13971933--13971993 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
13971923 TAATATTATT
13971933 ATAATATAAACATTAAA
1 ATAATATAAA-ATTAAA
* * *
13971950 ATAA-ATTAAGATGAAT
1 ATAATA-TAAAATTAAA
13971966 ATATATATAAAATTAAA
1 ATA-ATATAAAATTAAA
13971983 ATAAATATAAA
1 AT-AATATAAA
13971994 TATATTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 8 0.24
17 24 0.71
18 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (16 bp):
ATAATATAAAATTAAA
Found at i:13971979 original size:23 final size:23
Alignment explanation
Indices: 13971952--13971997 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13971942 ACATTAAAAT
* * *
13971952 AAATTAAGATGAATATATATATA
1 AAATTAAAATAAATATAAATATA
13971975 AAATTAAAATAAATATAAATATA
1 AAATTAAAATAAATATAAATATA
13971998 TTTTTAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATTAAAATAAATATAAATATA
Found at i:13976467 original size:47 final size:46
Alignment explanation
Indices: 13976348--13976541 Score: 149
Period size: 47 Copynumber: 4.0 Consensus size: 46
13976338 GATAACATGC
* * *
13976348 GATATGTGATTCCTGTATAAGACCATAGCT-AGCTATGACATCGGTGT
1 GATATGTGA-T-CTGTATAAGACCATATCTGGGATATGACATCGGTGT
*
13976395 GATGTGATTATGAGTTTCTGTATAAGACCATATCTGGGATATGACATCGGTGT
1 GA--T-A-TGTGA---TCTGTATAAGACCATATCTGGGATATGACATCGGTGT
* * * **
13976448 GATATGTGCTACTGTATAAGACGATATCT-GGATTATGGCATCAATGT
1 GATATGTGAT-CTGTATAAGACCATATCTGGGA-TATGACATCGGTGT
* ** * *
13976495 GATATGTGATCCGTATAAGACCATGGCTGGGCTATGACTTCGGTGT
1 GATATGTGATCTGTATAAGACCATATCTGGGATATGACATCGGTGT
13976541 G
1 G
13976542 TGATATGTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 21
0.74 0.13 0.13
Matches are distributed among these distances:
46 29 0.25
47 41 0.35
49 4 0.03
50 2 0.02
51 5 0.04
52 17 0.15
53 19 0.16
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (46 bp):
GATATGTGATCTGTATAAGACCATATCTGGGATATGACATCGGTGT
Found at i:13978846 original size:19 final size:19
Alignment explanation
Indices: 13978800--13978846 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
13978790 CCATCAATTA
*
13978800 CAATTATTATTCTAATTAC
1 CAATTATTATTCTAAATAC
* *
13978819 AAATAATTATATCTAAAT-C
1 CAATTATTAT-TCTAAATAC
13978838 CAATTATTA
1 CAATTATTA
13978847 AACTTTCTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.43
Consensus pattern (19 bp):
CAATTATTATTCTAAATAC
Found at i:13981414 original size:19 final size:20
Alignment explanation
Indices: 13981390--13981430 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13981380 GAATTTAAGT
13981390 AAATATT-GA-ATAAAAATTG
1 AAATATTCGATAT-AAAATTG
13981409 AAATATTCGATATAAAATTG
1 AAATATTCGATATAAAATTG
13981429 AA
1 AA
13981431 TTGTGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 11 0.55
21 2 0.10
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCGATATAAAATTG
Found at i:13981427 original size:20 final size:19
Alignment explanation
Indices: 13981390--13981430 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
13981380 GAATTTAAGT
13981390 AAATATTGAATAAAAATTG
1 AAATATTGAATAAAAATTG
13981409 AAATATTCG-ATATAAAATTG
1 AAATATT-GAATA-AAAATTG
13981429 AA
1 AA
13981431 TTGTGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (19 bp):
AAATATTGAATAAAAATTG
Found at i:13981659 original size:23 final size:23
Alignment explanation
Indices: 13981630--13981690 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
13981620 GCCCGGCCCG
13981630 TTTTTAATTAAAATTAAAA-TAA
1 TTTTTAATTAAAATTAAAACTAA
13981652 TTTTTTAA-TAAAATTAAAACTAA
1 -TTTTTAATTAAAATTAAAACTAA
*
13981675 TTGTT-ATTAAAATTAA
1 TTTTTAATTAAAATTAA
13981691 TTATTAGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 1 0.03
22 24 0.69
23 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TTTTTAATTAAAATTAAAACTAA
Found at i:13981703 original size:16 final size:16
Alignment explanation
Indices: 13981666--13981705 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
13981656 TTAATAAAAT
* * *
13981666 TAAAACTAATTGTTAT
1 TAAAATTAATTATTAG
13981682 TAAAATTAATTATTAG
1 TAAAATTAATTATTAG
13981698 TAAAATTA
1 TAAAATTA
13981706 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTATTAG
Found at i:13981811 original size:9 final size:9
Alignment explanation
Indices: 13981778--13981805 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13981768 TTTATCAAAT
13981778 TATTAATTG
1 TATTAATTG
13981787 TATTAATTG
1 TATTAATTG
13981796 TATTAATTG
1 TATTAATTG
13981805 T
1 T
13981806 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:13981816 original size:68 final size:68
Alignment explanation
Indices: 13981693--13981903 Score: 390
Period size: 68 Copynumber: 3.1 Consensus size: 68
13981683 AAAATTAATT
*
13981693 ATTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACAT
1 ATTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACAT
13981756 TTG
66 TTG
13981759 ATTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACAT
1 ATTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACAT
13981824 TTG
66 TTG
*
13981827 ATTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACAT
1 ATTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACAT
13981892 TTG
66 TTG
13981895 ATTAGTAAA
1 ATTAGTAAA
13981904 ATAAACTTGA
Statistics
Matches: 141, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
66 27 0.19
68 114 0.81
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (68 bp):
ATTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACAT
TTG
Found at i:13981858 original size:9 final size:9
Alignment explanation
Indices: 13981846--13981873 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13981836 TTTATCAAAT
13981846 TATTAATTG
1 TATTAATTG
13981855 TATTAATTG
1 TATTAATTG
13981864 TATTAATTG
1 TATTAATTG
13981873 T
1 T
13981874 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:13982010 original size:22 final size:24
Alignment explanation
Indices: 13981970--13982013 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13981960 AAATAAACTT
13981970 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
13981994 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
13982014 AATATTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:13986496 original size:18 final size:18
Alignment explanation
Indices: 13986473--13986514 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13986463 TTTTCTGGTC
*
13986473 TTTGACTCCGGAAGCTCA
1 TTTGACTCCGAAAGCTCA
* *
13986491 TTTGACTCTGAAAGCTCC
1 TTTGACTCCGAAAGCTCA
13986509 TTTGAC
1 TTTGAC
13986515 CGCGATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (18 bp):
TTTGACTCCGAAAGCTCA
Found at i:13996196 original size:27 final size:26
Alignment explanation
Indices: 13996166--13996228 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
13996156 TTTGCTTTGT
*
13996166 AAAATGGAAAGAAAAATGAAAAGATGA
1 AAAATGG-AAGAAAAATGAAAAGAAGA
* *
13996193 AAAATTGAAGAAAATTGAAAAGAAGA
1 AAAATGGAAGAAAAATGAAAAGAAGA
*
13996219 AAAATTGAAG
1 AAAATGGAAG
13996229 GGGTAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (26 bp):
AAAATGGAAGAAAAATGAAAAGAAGA
Found at i:14005334 original size:46 final size:44
Alignment explanation
Indices: 14005233--14005595 Score: 364
Period size: 46 Copynumber: 8.6 Consensus size: 44
14005223 TACGTATGAT
*
14005233 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTA
14005275 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTA
*
14005321 CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCT-A
14005368 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA-G---
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTA
* *
14005404 CACTAATCACTTTTTCACTTGATCAGATAA--GTA--TA-G---
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTA
*
14005440 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCT-A
14005486 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA----A
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTA
* * *
14005522 CACTTATCACTTTTTTCCCTTGATCAGATAAGTGTAGCTAAAGCTA
1 CACTTATCAC-TTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTA
* *
14005568 CCACTTATCACTTTATCTCTTGATCAGA
1 -CACTTATCACTTTGTCACTTGATCAGA
14005596 AGTACTCAAA
Statistics
Matches: 284, Mismatches: 11, Indels: 47
0.83 0.03 0.14
Matches are distributed among these distances:
36 74 0.26
37 18 0.06
38 3 0.01
39 3 0.01
40 2 0.01
41 4 0.01
42 4 0.01
43 10 0.04
44 11 0.04
45 20 0.07
46 124 0.44
47 11 0.04
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (44 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTA
Found at i:14005414 original size:36 final size:36
Alignment explanation
Indices: 14005368--14005559 Score: 231
Period size: 36 Copynumber: 5.0 Consensus size: 36
14005358 CTAAGGCTAA
*
14005368 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
14005404 CACTAATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
14005440 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T-A-G
* *
14005482 CTAACACTTATCACTTTGTCACTTGATCAGATAAGTATAA
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* *
14005522 CACTTATCACTTTTTTCCCTTGATCAGATAAGTGTAG
1 CACTTATCAC-TTTTTCACTTGATCAGATAAGTATAG
14005559 C
1 C
14005560 TAAAGCTACC
Statistics
Matches: 136, Mismatches: 9, Indels: 21
0.82 0.05 0.13
Matches are distributed among these distances:
36 73 0.54
37 23 0.17
38 3 0.02
40 1 0.01
41 2 0.01
42 2 0.01
44 3 0.02
46 29 0.21
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:14005531 original size:118 final size:119
Alignment explanation
Indices: 14005322--14005559 Score: 424
Period size: 118 Copynumber: 2.0 Consensus size: 119
14005312 CTAAGGCTAC
14005322 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
*
14005387 TGATCAGATAAGTATAGCACTAATCAC-TTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTATAACACTAATCACTTTTTTCACTTGATCAGATAAGTATAG
*
14005440 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
* * *
14005505 TGATCAGATAAGTATAACACTTATCACTTTTTTCCCTTGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAACACTAATCACTTTTTTCACTTGATCAGATAAGTATAG
14005559 C
1 C
14005560 TAAAGCTACC
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
118 89 0.78
119 25 0.22
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (119 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAACACTAATCACTTTTTTCACTTGATCAGATAAGTATAG
Found at i:14005553 original size:37 final size:36
Alignment explanation
Indices: 14005483--14005554 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 36
14005473 TAGCTAAGGC
14005483 TAACACTTATCACTTTGTCACTTGATCAGATAAGTA
1 TAACACTTATCACTTTGTCACTTGATCAGATAAGTA
* *
14005519 TAACACTTATCACTTTTTTCCCTTGATCAGATAAGT
1 TAACACTTATCAC-TTTGTCACTTGATCAGATAAGT
14005555 GTAGCTAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 13 0.39
37 20 0.61
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (36 bp):
TAACACTTATCACTTTGTCACTTGATCAGATAAGTA
Found at i:14008114 original size:23 final size:23
Alignment explanation
Indices: 14008087--14008130 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
14008077 TAACTATCAT
*
14008087 TAAAATAATAAAGTAAA-TAAATA
1 TAAAAGAATAAAG-AAACTAAATA
14008110 TAAAAGAATAAAGAAACTAAA
1 TAAAAGAATAAAGAAACTAAA
14008131 AGAATAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (23 bp):
TAAAAGAATAAAGAAACTAAATA
Found at i:14008132 original size:17 final size:18
Alignment explanation
Indices: 14008110--14008143 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14008100 TAAATAAATA
14008110 TAAAAGAAT-AAAGAAAC
1 TAAAAGAATAAAAGAAAC
14008127 TAAAAGAATAAAAGAAA
1 TAAAAGAATAAAAGAAA
14008144 GAAATGAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.12
Consensus pattern (18 bp):
TAAAAGAATAAAAGAAAC
Found at i:14009102 original size:21 final size:22
Alignment explanation
Indices: 14009076--14009139 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 22
14009066 GCTTTGTCGA
14009076 TCAGGCACTATATGTGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
* *
14009098 T-AGGCACCATATGTGTCGT-T
1 TCAGGCACTATATGTGTTGTAT
*
14009118 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
14009140 ACTGCTTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (22 bp):
TCAGGCACTATATGTGTTGTAT
Found at i:14025192 original size:23 final size:23
Alignment explanation
Indices: 14025166--14025212 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
14025156 TCACCTTTGG
14025166 ATTATGATCCAAGAAACATAATA
1 ATTATGATCCAAGAAACATAATA
* *
14025189 ATTATGATCTAAGCAACATAATA
1 ATTATGATCCAAGAAACATAATA
14025212 A
1 A
14025213 GCATTAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.28
Consensus pattern (23 bp):
ATTATGATCCAAGAAACATAATA
Found at i:14026376 original size:3 final size:3
Alignment explanation
Indices: 14026368--14026397 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14026358 CCAAATAGCC
14026368 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14026398 GTGGAATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14030940 original size:30 final size:30
Alignment explanation
Indices: 14030906--14030963 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
14030896 ATTTTTTTTC
14030906 ATATTGT-TTCAATTTTTTTAATTAATAAAT
1 ATATTGTGTTCAA-TTTTTTAATTAATAAAT
*
14030936 ATATTGTGTTCAATTTTTTATTTAATAA
1 ATATTGTGTTCAATTTTTTAATTAATAA
14030964 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (30 bp):
ATATTGTGTTCAATTTTTTAATTAATAAAT
Found at i:14035169 original size:32 final size:32
Alignment explanation
Indices: 14035133--14035440 Score: 254
Period size: 32 Copynumber: 9.7 Consensus size: 32
14035123 AATCAAATCA
* * *
14035133 GCAATATATAAATACATATACAAATCAATTTG
1 GCAATATATATATACATATACAATTCAATTCG
** * * *
14035165 GCAATAGGTGTATACCTATACAATTCAATTTG
1 GCAATATATATATACATATACAATTCAATTCG
* *
14035197 GCAATATA-AGTATATATATACAATTCAATTTG
1 GCAATATATA-TATACATATACAATTCAATTCG
* * * *
14035229 GTAATAGATGTATACCTATACAATTCAATTCG
1 GCAATATATATATACATATACAATTCAATTCG
*
14035261 GCAATATA-AGTATATATATACAATTCAATTCG
1 GCAATATATA-TATACATATACAATTCAATTCG
** * *
14035293 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATATATATACATATACAATTCAATTCG
* * * *
14035325 ACAATATA-AGTATATATGTACAATTCAATTTG
1 GCAATATATA-TATACATATACAATTCAATTCG
*
14035357 GCAATATA-AGTATATATATACAATTCAATTCG
1 GCAATATATA-TATACATATACAATTCAATTCG
* *
14035389 GCAATATATA-A-CCATATATGAA-TCAAATTCG
1 GCAATATATATATACATATA-CAATTC-AATTCG
* *
14035420 GCAACATATA-AAACATATACA
1 GCAATATATATATACATATACA
14035441 TTTAAATTTA
Statistics
Matches: 223, Mismatches: 44, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
30 7 0.03
31 20 0.09
32 195 0.87
33 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (32 bp):
GCAATATATATATACATATACAATTCAATTCG
Found at i:14035216 original size:64 final size:64
Alignment explanation
Indices: 14035148--14035396 Score: 390
Period size: 64 Copynumber: 3.9 Consensus size: 64
14035138 ATATAAATAC
* * *
14035148 ATATACAAATCAATTTGGCAATAGGTGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
1 ATATACAATTCAATTTGGCAATAGATGTATACCTATACAATTCAATTCGGCAATATAAGTATAT
*
14035212 ATATACAATTCAATTTGGTAATAGATGTATACCTATACAATTCAATTCGGCAATATAAGTATAT
1 ATATACAATTCAATTTGGCAATAGATGTATACCTATACAATTCAATTCGGCAATATAAGTATAT
* * *
14035276 ATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGACAATATAAGTATAT
1 ATATACAATTCAATTTGGCAATAGATGTATACCTATACAATTCAATTCGGCAATATAAGTATAT
* * * **
14035340 ATGTACAATTCAATTTGGCAATATAAGTATATATATACAATTCAATTCGGCAATATA
1 ATATACAATTCAATTTGGCAATAGATGTATACCTATACAATTCAATTCGGCAATATA
14035397 TAACCATATA
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 169 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (64 bp):
ATATACAATTCAATTTGGCAATAGATGTATACCTATACAATTCAATTCGGCAATATAAGTATAT
Found at i:14035265 original size:96 final size:96
Alignment explanation
Indices: 14035144--14035396 Score: 317
Period size: 96 Copynumber: 2.6 Consensus size: 96
14035134 CAATATATAA
* *** ** *
14035144 ATACATATACAAATCAATTTGGCAATAGGTGTATACCTATACAATTCAATTTGGCAATATAAGTA
1 ATACATATACAATTCAATTTGGCAATATAAGTATATATATACAATTCAATTCGGCAATATAAGTA
* * ** *
14035209 TATATATACAATTCAATTTGGTAATAGATGT
66 TACATATACAATTCAATTCGACAATAGAAGT
* * ***
14035240 ATACCTATACAATTCAATTCGGCAATATAAGTATATATATACAATTCAATTCGGCAATAGGTGTA
1 ATACATATACAATTCAATTTGGCAATATAAGTATATATATACAATTCAATTCGGCAATATAAGTA
* *
14035305 TACCTATACAATTCAATTCGACAATATAAGT
66 TACATATACAATTCAATTCGACAATAGAAGT
* *
14035336 ATATATGTACAATTCAATTTGGCAATATAAGTATATATATACAATTCAATTCGGCAATATA
1 ATACATATACAATTCAATTTGGCAATATAAGTATATATATACAATTCAATTCGGCAATATA
14035397 TAACCATATA
Statistics
Matches: 132, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 132 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (96 bp):
ATACATATACAATTCAATTTGGCAATATAAGTATATATATACAATTCAATTCGGCAATATAAGTA
TACATATACAATTCAATTCGACAATAGAAGT
Found at i:14051012 original size:2 final size:2
Alignment explanation
Indices: 14051005--14051039 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14050995 TCAACCATGA
14051005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14051040 GAATAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14053326 original size:9 final size:9
Alignment explanation
Indices: 14053309--14053345 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14053299 TGAGTTTTCG
14053309 AATTCGAAT
1 AATTCGAAT
*
14053318 AACTCGAAT
1 AATTCGAAT
14053327 AATTCGAAT
1 AATTCGAAT
14053336 AATTCGAAT
1 AATTCGAAT
14053345 A
1 A
14053346 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14054264 original size:5 final size:5
Alignment explanation
Indices: 14054254--14054279 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14054244 GAACAAATAT
14054254 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
14054280 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:14065659 original size:16 final size:15
Alignment explanation
Indices: 14065638--14065668 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
14065628 ATGTAATTAT
14065638 AAAAATAGTTAAAATA
1 AAAAATA-TTAAAATA
14065654 AAAAATATTAAAATA
1 AAAAATATTAAAATA
14065669 TTATATGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAATATTAAAATA
Found at i:14074870 original size:16 final size:16
Alignment explanation
Indices: 14074849--14074880 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14074839 CATAGATCCA
14074849 ACGCAAATCCTACTTC
1 ACGCAAATCCTACTTC
14074865 ACGCAAATCCTACTTC
1 ACGCAAATCCTACTTC
14074881 TTTATGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.38, G:0.06, T:0.25
Consensus pattern (16 bp):
ACGCAAATCCTACTTC
Found at i:14081370 original size:2 final size:2
Alignment explanation
Indices: 14081363--14081408 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
14081353 AATAGAAAAT
14081363 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
14081405 GA GA
1 GA GA
14081409 TGTAGTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14085235 original size:21 final size:21
Alignment explanation
Indices: 14085203--14085272 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
14085193 TTGAGCTGCA
*
14085203 GTTTAACCCTTATGGGTTTCC
1 GTTTAGCCCTTATGGGTTTCC
* * * *
14085224 ATTTAGCTCTTATGAGCTTCC
1 GTTTAGCCCTTATGGGTTTCC
* *
14085245 GTTCAACCCTTATGGGTTTCC
1 GTTTAGCCCTTATGGGTTTCC
14085266 GTTTAGC
1 GTTTAGC
14085273 ACTTGTGTGC
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (21 bp):
GTTTAGCCCTTATGGGTTTCC
Found at i:14085271 original size:42 final size:42
Alignment explanation
Indices: 14085150--14085272 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
14085140 AGTTAACTCA
* * * ** *
14085150 TATGAGTTTCTGTTTAACCCTAATGGGTTTTAGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
* * *
14085192 TTTGAGCTGCAGTTTAACCCTTATGGGTTTCCATTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
* *
14085234 TATGAGCTTCCGTTCAACCCTTATGGGTTTCCGTTTAGC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTTAGC
14085273 ACTTGTGTGC
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
Found at i:14088305 original size:33 final size:32
Alignment explanation
Indices: 14088234--14088309 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
14088224 GTATTTATAA
* * *
14088234 GTAAGACCATAGCTGGGATATGGCATTCTGAT
1 GTAAGACCATAACTGAGATATGGCATACTGAT
*
14088266 GATAAGACCATAACTGAGTTATGGCACTAC-GAAT
1 G-TAAGACCATAACTGAGATATGGCA-TACTG-AT
14088300 GTAAGACCAT
1 GTAAGACCAT
14088310 GGCTAGGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 1 0.03
33 31 0.84
34 5 0.14
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGAGATATGGCATACTGAT
Found at i:14088321 original size:101 final size:99
Alignment explanation
Indices: 14088128--14088309 Score: 220
Period size: 101 Copynumber: 1.8 Consensus size: 99
14088118 TGTGGCAATT
* * * * *
14088128 TTTATATGTAAGACCATAGCTGGGATGACATTTTAATGAAAAAACCATAATTGGGTTATGGCATT
1 TTTATAAGTAAGACCATAGCTGGGATGACATTCTAATGAAAAAACCATAACTGAGTTATGGCACT
** *
14088193 TTGAACATAAGACCATAGTTGGACCATGACAGTA
66 ACGAACATAAGACCATAGTAGGACCATGACAGTA
* * * *
14088227 TTTATAAGTAAGACCATAGCTGGGATATGGCATTCTGATGATAAGACCATAACTGAGTTATGGCA
1 TTTATAAGTAAGACCATAGCTGGG--ATGACATTCTAATGAAAAAACCATAACTGAGTTATGGCA
**
14088292 CTACGAATGTAAGACCAT
64 CTACGAACATAAGACCAT
14088310 GGCTAGGCCA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 23 0.34
101 45 0.66
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (99 bp):
TTTATAAGTAAGACCATAGCTGGGATGACATTCTAATGAAAAAACCATAACTGAGTTATGGCACT
ACGAACATAAGACCATAGTAGGACCATGACAGTA
Found at i:14096593 original size:9 final size:9
Alignment explanation
Indices: 14096575--14096677 Score: 161
Period size: 9 Copynumber: 11.4 Consensus size: 9
14096565 GTAGTGATTC
14096575 AATTCGGTT
1 AATTCGGTT
*
14096584 AATTCAGTT
1 AATTCGGTT
*
14096593 AATTCGGGT
1 AATTCGGTT
14096602 AATTCGGTT
1 AATTCGGTT
*
14096611 AATTCAGTT
1 AATTCGGTT
*
14096620 AATTCGGGT
1 AATTCGGTT
14096629 AATTCGGTT
1 AATTCGGTT
14096638 AATTCGGTT
1 AATTCGGTT
*
14096647 AATTCGGGT
1 AATTCGGTT
14096656 AATTCGGTT
1 AATTCGGTT
14096665 AATTCGGTT
1 AATTCGGTT
14096674 AATT
1 AATT
14096678 TTTAACCAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 84 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:14096607 original size:27 final size:27
Alignment explanation
Indices: 14096575--14096677 Score: 188
Period size: 27 Copynumber: 3.8 Consensus size: 27
14096565 GTAGTGATTC
14096575 AATTCGGTTAATTCAGTTAATTCGGGT
1 AATTCGGTTAATTCAGTTAATTCGGGT
14096602 AATTCGGTTAATTCAGTTAATTCGGGT
1 AATTCGGTTAATTCAGTTAATTCGGGT
*
14096629 AATTCGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCAGTTAATTCGGGT
*
14096656 AATTCGGTTAATTCGGTTAATT
1 AATTCGGTTAATTCAGTTAATT
14096678 TTTAACCAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCAGTTAATTCGGGT
Found at i:14096799 original size:28 final size:29
Alignment explanation
Indices: 14096740--14096799 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
14096730 GAATTAACCG
*** *
14096740 AAAAAATTTCGGTTCGATTAATTTTTTTA
1 AAAAAATTTCGGTTCGATTAATCAGTTAA
*
14096769 AAAAAATTTCGGTTCGGTTAA-CAGTTAA
1 AAAAAATTTCGGTTCGATTAATCAGTTAA
14096797 AAA
1 AAA
14096800 TTTTGAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (29 bp):
AAAAAATTTCGGTTCGATTAATCAGTTAA
Found at i:14100768 original size:16 final size:15
Alignment explanation
Indices: 14100742--14100773 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
14100732 TTTTAATGTG
14100742 ACATAATTATATTTA
1 ACATAATTATATTTA
14100757 ACATATATTATATTTA
1 ACATA-ATTATATTTA
14100773 A
1 A
14100774 AAAGTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
ACATAATTATATTTA
Found at i:14101550 original size:31 final size:31
Alignment explanation
Indices: 14101509--14101568 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
14101499 TATTCGGGTC
14101509 GCGGGCCGGAGACCCGGATCCCTTTTAGGAT
1 GCGGGCCGGAGACCCGGATCCCTTTTAGGAT
* *
14101540 GCGGGTCGGAGACTCGGATCCCTTTTAGG
1 GCGGGCCGGAGACCCGGATCCCTTTTAGG
14101569 TAGGGGTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.22
Consensus pattern (31 bp):
GCGGGCCGGAGACCCGGATCCCTTTTAGGAT
Found at i:14101650 original size:9 final size:9
Alignment explanation
Indices: 14101636--14101666 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14101626 GTTAAACGAA
14101636 TCGAGTTAT
1 TCGAGTTAT
*
14101645 TCGAGTTAA
1 TCGAGTTAT
14101654 TCGAGTTAT
1 TCGAGTTAT
14101663 TCGA
1 TCGA
14101667 ATTTCGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:14101714 original size:9 final size:9
Alignment explanation
Indices: 14101697--14101733 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14101687 TGAGTTTTTA
14101697 AATTCGAAT
1 AATTCGAAT
*
14101706 AACTCGAAT
1 AATTCGAAT
*
14101715 AATTTGAAT
1 AATTCGAAT
14101724 AATTCGAAT
1 AATTCGAAT
14101733 A
1 A
14101734 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14101981 original size:30 final size:31
Alignment explanation
Indices: 14101947--14102006 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
14101937 AAACCTTTTA
*
14101947 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
14101977 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
14102007 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:14102662 original size:5 final size:5
Alignment explanation
Indices: 14102652--14102677 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14102642 GAACAAATAT
14102652 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
14102678 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:14102780 original size:5 final size:5
Alignment explanation
Indices: 14102770--14102796 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14102760 AAAAATTTTA
14102770 GATTC GATTC GATTC GATTC GATTC GA
1 GATTC GATTC GATTC GATTC GATTC GA
14102797 CCGAATGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (5 bp):
GATTC
Found at i:14107884 original size:56 final size:56
Alignment explanation
Indices: 14107798--14107911 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
14107788 TCACCCGCCC
* *
14107798 TTTCTATTGTTCCTGTTCCTCAACTCAAAACTCAAGCTACTAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
* *
14107854 TTTCTATTTTTCCTCTTTCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
14107910 TT
1 TT
14107912 GTTTCATAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
Found at i:14108726 original size:355 final size:355
Alignment explanation
Indices: 14108075--14109137 Score: 2054
Period size: 355 Copynumber: 3.0 Consensus size: 355
14108065 AAAACAAGAA
* *
14108075 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCTACATAGAATATCATGCCTAGGTTGGAAAGG
1 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCTTAGGTTGGAAAGG
*
14108140 GAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
66 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
*
14108205 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
131 CTCATCAATTGAAATTTATACTCTAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
* * *
14108270 ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACATAGGCCAACAAT
196 ATAGGTCTCACTTGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGATAACAAAGGCCAACAAT
14108335 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
261 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
14108400 ACCTACAAAGTACACTGTAAATAGTATTAC
326 ACCTACAAAGTACACTGTAAATAGTATTAC
14108430 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCTTAGGTTGGAAAGG
1 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCTTAGGTTGGAAAGG
14108495 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
66 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
14108560 CTCATCAATTGAAATTTATACTCTAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
131 CTCATCAATTGAAATTTATACTCTAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
14108625 ATAGGTCTCACTTGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGATAACAAAGGCCAACAAT
196 ATAGGTCTCACTTGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGATAACAAAGGCCAACAAT
14108690 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
261 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
14108755 ACCTACAAAGTACACTGTAAATAGTATTAC
326 ACCTACAAAGTACACTGTAAATAGTATTAC
14108785 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCTTAGGTTGGAAAGG
1 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCTTAGGTTGGAAAGG
14108850 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
66 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
14108915 CTCATCAATTGAAATTTATACTCTAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
131 CTCATCAATTGAAATTTATACTCTAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
*
14108980 ATAGGTCTCACTTGCCAAAAGCAAGAGAAAGAAGAAAAATGGGTAAGATAACAAAGGCCAACAAT
196 ATAGGTCTCACTTGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGATAACAAAGGCCAACAAT
14109045 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
261 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
14109110 ACCTACAAAGTACACTGTAAATAGTATT
326 ACCTACAAAGTACACTGTAAATAGTATT
14109138 CACTTTTTTC
Statistics
Matches: 700, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
355 700 1.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.23
Consensus pattern (355 bp):
AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCTTAGGTTGGAAAGG
AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
CTCATCAATTGAAATTTATACTCTAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
ATAGGTCTCACTTGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGATAACAAAGGCCAACAAT
TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
ACCTACAAAGTACACTGTAAATAGTATTAC
Found at i:14112481 original size:150 final size:146
Alignment explanation
Indices: 14112218--14112504 Score: 380
Period size: 150 Copynumber: 1.9 Consensus size: 146
14112208 AATTTAATTA
* * * *
14112218 AAAAATTATTAAAATATTTCTATACATAAAATAATATATATTATTATGAGGGTGTTTTTTCTTTT
1 AAAAATTACTAAAATATTTATATACATAAAATAAGATATATTATCATGAGGGTGTTTTTTCTTTT
* * * *
14112283 TATATTTTTATTTAAATTTTATATTAATATTAAGTCCTAAACTATGTTGGTATCACGAGTTAACA
66 TATATTTTTATTTAAAATCTATATTAATATTAAGTCCTAAACTATGTTGATATCACAAGTTAACA
14112348 TACACTAGTTCTGTTG
131 TACACTAGTTCTGTTG
* *
14112364 AAAAATTACTAAAATATATTATATATATAAACTGAGAGATATATTATCATGAGGGTGTTTTTATC
1 AAAAATTACTAAAATAT-TTATATACATAAAAT-A-AGATATATTATCATGAGGGTGTTTTT-TC
* * *
14112429 TTTTTGTATTTTT-TTTATAAATCTATACTT-ATATTAAGTCTTAAACTGTGTTGATATCACAAG
62 TTTTTATATTTTTATTTA-AAATCTATA-TTAATATTAAGTCCTAAACTATGTTGATATCACAAG
*
14112492 TTAATATACACTA
125 TTAACATACACTA
14112505 ATGCAAGTTT
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
146 16 0.13
147 12 0.10
148 1 0.01
149 28 0.23
150 62 0.51
151 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (146 bp):
AAAAATTACTAAAATATTTATATACATAAAATAAGATATATTATCATGAGGGTGTTTTTTCTTTT
TATATTTTTATTTAAAATCTATATTAATATTAAGTCCTAAACTATGTTGATATCACAAGTTAACA
TACACTAGTTCTGTTG
Found at i:14113240 original size:31 final size:31
Alignment explanation
Indices: 14113201--14113261 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
14113191 AAAACAAACT
*
14113201 TTATTTTTTATTAAAAT-TCAATTTTTTAAC
1 TTATTTTTTATCAAAATCTCAATTTTTTAAC
* *
14113231 TTATATTTTTATCCAAATCTCCATTTTTTAA
1 TTAT-TTTTTATCAAAATCTCAATTTTTTAA
14113262 ACGGATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 11 0.42
32 11 0.42
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (31 bp):
TTATTTTTTATCAAAATCTCAATTTTTTAAC
Found at i:14114361 original size:22 final size:22
Alignment explanation
Indices: 14114313--14114364 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
14114303 CCCGGCCCGG
*
14114313 TTTTTAATAAACACAAAAAAATA
1 TTTTTAA-AAACAAAAAAAAATA
*
14114336 -TTTTAAAAATAAAAAAAAATA
1 TTTTTAAAAACAAAAAAAAATA
14114357 TTTTTAAA
1 TTTTTAAA
14114365 GTATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTTTAAAAACAAAAAAAAATA
Done.