Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 107 of 276
Found at i:33911101 original size:21 final size:21
Alignment explanation
Indices: 33911052--33911102 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
33911042 CCCATAACCG
**
33911052 GAGCAACCATAACCCCCGCTG
1 GAGCAACCATAACCCCCGCCA
*
33911073 GAGCAACCATAACCCTCGCCA
1 GAGCAACCATAACCCCCGCCA
*
33911094 GAGGAACCA
1 GAGCAACCA
33911103 AGGAGGAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.39, G:0.20, T:0.08
Consensus pattern (21 bp):
GAGCAACCATAACCCCCGCCA
Found at i:33914541 original size:126 final size:126
Alignment explanation
Indices: 33914313--33914563 Score: 369
Period size: 126 Copynumber: 2.0 Consensus size: 126
33914303 GGCCAAGCAT
* * *
33914313 GAACTTCTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
*
33914378 CTGCTTAGAGCGTTTTTTACATTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAC
66 CTGCTTAGAGCGTTTTTGACATTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAC
* * * *** *
33914439 GAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCTTTATTTTTACTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
* *
33914504 CTGCTT-GAAGTGTTTTTGACATTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCA
66 CTGCTTAG-AGCGTTTTTGACATTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCA
33914564 GGGTAAAAAT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 1 0.01
126 110 0.99
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
CTGCTTAGAGCGTTTTTGACATTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAC
Found at i:33914658 original size:28 final size:29
Alignment explanation
Indices: 33914612--33914699 Score: 79
Period size: 28 Copynumber: 3.0 Consensus size: 29
33914602 AATGTTATTT
** *
33914612 TTTAAAAAACTAAACCCTAATTTAATTAA
1 TTTAAAACCCTAAAACCTAATTTAATTAA
* * * *
33914641 TTT-TAACCCTAAATCCTAACTTAATTTA
1 TTTAAAACCCTAAAACCTAATTTAATTAA
* *
33914669 TTTAAAATCCTAAAACCTTAATTTACTTAA
1 TTTAAAACCCTAAAACC-TAATTTAATTAA
33914699 T
1 T
33914700 CTATTTAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
28 22 0.49
29 13 0.29
30 10 0.22
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (29 bp):
TTTAAAACCCTAAAACCTAATTTAATTAA
Found at i:33914723 original size:33 final size:34
Alignment explanation
Indices: 33914659--33914726 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
33914649 CTAAATCCTA
* * *
33914659 ACTTAATTTATTTAAAATCCTAAAACCTTAATTT
1 ACTTAATCTATTTAAAAACATAAAACCTTAATTT
33914693 ACTTAATCTATTTAAAAACAT-AAACCTTAATTT
1 ACTTAATCTATTTAAAAACATAAAACCTTAATTT
33914726 A
1 A
33914727 ATAAACCCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (34 bp):
ACTTAATCTATTTAAAAACATAAAACCTTAATTT
Found at i:33914760 original size:22 final size:22
Alignment explanation
Indices: 33914735--33914787 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
33914725 TAATAAACCC
*
33914735 TAAACCCTAATTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
* *
33914757 TAAACCTTAACTTAATTTGTTT
1 TAAACCCTAACTTAATTTATTT
*
33914779 AAAACCCTA
1 TAAACCCTA
33914788 GAACCCTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAACCCTAACTTAATTTATTT
Found at i:33914870 original size:22 final size:22
Alignment explanation
Indices: 33914844--33914896 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
33914834 TGATAAACCC
*
33914844 AAAACCCTAATTTAATTTATTT
1 AAAACCCTAACTTAATTTATTT
* * *
33914866 TAAACCTTAACTTAATTTGTTT
1 AAAACCCTAACTTAATTTATTT
33914888 AAAACCCTA
1 AAAACCCTA
33914897 GAACCCTAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAACCCTAACTTAATTTATTT
Found at i:33914979 original size:22 final size:22
Alignment explanation
Indices: 33914953--33915005 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
33914943 TGATAAACCC
*
33914953 AAAACCCTAATTTAATTTATTT
1 AAAACCCTAACTTAATTTATTT
* * *
33914975 TAAACCTTAACTTAATTTGTTT
1 AAAACCCTAACTTAATTTATTT
33914997 AAAACCCTA
1 AAAACCCTA
33915006 GAACCCTAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAACCCTAACTTAATTTATTT
Found at i:33915088 original size:22 final size:22
Alignment explanation
Indices: 33915063--33915330 Score: 106
Period size: 22 Copynumber: 12.4 Consensus size: 22
33915053 GATAAACCCA
33915063 AAACCCTAATTTAATTTATTTT
1 AAACCCTAATTTAATTTATTTT
* *
33915085 AAACCCTAACTTAATTTATTTA
1 AAACCCTAATTTAATTTATTTT
** *
33915107 AAACCCTAAAACCCTAATTTA-CTT
1 AAACCCT--AA-TTTAATTTATTTT
* ** * *
33915131 -AA-TCT-ATTTAA-AAAATAT
1 AAACCCTAATTTAATTTATTTT
* ** ***
33915149 AAACCTTAATTTAATAAACCAT
1 AAACCCTAATTTAATTTATTTT
33915171 AAACCCTAATTTAATTTATTTT
1 AAACCCTAATTTAATTTATTTT
* *
33915193 AAACCCTAACTTAATTTATTTA
1 AAACCCTAATTTAATTTATTTT
** *
33915215 AAACCCTAAAACCCTAATTTA-CTT
1 AAACCCT--AA-TTTAATTTATTTT
* ** * *
33915239 -AA-TCT-ATTTAA-AAAATAT
1 AAACCCTAATTTAATTTATTTT
* ** ***
33915257 AAACCTTAATTTAATAAACCAT
1 AAACCCTAATTTAATTTATTTT
33915279 AAACCCTAATTTAATTTATTTT
1 AAACCCTAATTTAATTTATTTT
* *
33915301 AAACCCTAAATTAATTTATTTA
1 AAACCCTAATTTAATTTATTTT
33915323 AAACCCTA
1 AAACCCTA
33915331 GAACCCTAAT
Statistics
Matches: 184, Mismatches: 46, Indels: 32
0.70 0.18 0.12
Matches are distributed among these distances:
17 2 0.01
18 8 0.04
19 6 0.03
20 2 0.01
21 12 0.07
22 128 0.70
23 4 0.02
24 6 0.03
25 16 0.09
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (22 bp):
AAACCCTAATTTAATTTATTTT
Found at i:33915153 original size:34 final size:34
Alignment explanation
Indices: 33915093--33915161 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
33915083 TTAAACCCTA
* **
33915093 ACTTAATTTATTTAAAACCCTAAAACCCTAATTT
1 ACTTAATCTATTTAAAACAATAAAACCCTAATTT
*
33915127 ACTTAATCTATTTAAAA-AATATAAACCTTAATTT
1 ACTTAATCTATTTAAAACAATA-AAACCCTAATTT
33915161 A
1 A
33915162 ATAAACCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 2 0.07
34 28 0.93
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (34 bp):
ACTTAATCTATTTAAAACAATAAAACCCTAATTT
Found at i:33915198 original size:108 final size:108
Alignment explanation
Indices: 33914650--33915590 Score: 1396
Period size: 109 Copynumber: 8.7 Consensus size: 108
33914640 ATTTTAACCC
* * * *
33914650 TAAATCCTAACTTAATTTATTTAAAATCCTAAAACCTTAATTTACTTAATCTATTT-AAAAACAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACAT
* *
33914714 AAACCTTAATTTAATAAACCCTAAACCCTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* *
33914757 TAAACCTTAACTTAATTTGTTTAAAACCCTAGAACCCTAATTTACTTAAT-TATTTAAAAAAAAC
1 TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTT--AAAAAAC
* *
33914821 ATAAGCCCTAATTTGATAAACCCAAAACCCTAATTTAATTTATTT
64 ATAAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* *
33914866 TAAACCTTAACTTAATTTGTTTAAAACCCTAGAACCCTAATTTACTTAAT-TATTTAAAAAAAAC
1 TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTT--AAAAAAC
* *
33914930 ATAAGCCCTAATTTGATAAACCCAAAACCCTAATTTAATTTATTT
64 ATAAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* *
33914975 TAAACCTTAACTTAATTTGTTTAAAACCCTAGAACCCTAATTTACTTAAT-TATTTAAAAAAAAC
1 TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTT--AAAAAAC
* *
33915039 ATAAGCCCTAATTTGATAAACCCAAAACCCTAATTTAATTTATTT
64 ATAAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* *
33915084 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAATAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACAT
*
33915149 AAACCTTAATTTAATAAA-CCATAAACCCTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCCA-AAACCCTAATTTAATTTATTT
* *
33915192 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAATAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACAT
*
33915257 AAACCTTAATTTAATAAA-CCATAAACCCTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCCA-AAACCCTAATTTAATTTATTT
* *
33915300 TAAACCCTAAATTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATTTATTT-AAAAACAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACAT
*
33915364 AAACCCTAATTTGATAAACCCAAAACCCTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* * *
33915407 AAAACCCTATCTTAATTTATTTAAAACCCTAGAACTCTAATTTACTTAATCTATTT-AAAAACAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACAT
* *
33915471 AAACCCTAATTTAACAAACCCTAAACCCTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* * * * * *
33915514 TAAACACTAACTTAATTTTTTTTAAATCCTAGAACCCTAATTTACTTAATATATTT-AAAACCAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACAT
*
33915578 AAGCCCTAATTTA
66 AAACCCTAATTTA
33915591 TTTAAAACCC
Statistics
Matches: 787, Mismatches: 41, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
106 5 0.01
107 257 0.33
108 208 0.26
109 312 0.40
110 5 0.01
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (108 bp):
TAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAAACAT
AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
Found at i:33915261 original size:34 final size:34
Alignment explanation
Indices: 33915201--33915269 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
33915191 TTAAACCCTA
* **
33915201 ACTTAATTTATTTAAAACCCTAAAACCCTAATTT
1 ACTTAATCTATTTAAAACAATAAAACCCTAATTT
*
33915235 ACTTAATCTATTTAAAA-AATATAAACCTTAATTT
1 ACTTAATCTATTTAAAACAATA-AAACCCTAATTT
33915269 A
1 A
33915270 ATAAACCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 2 0.07
34 28 0.93
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (34 bp):
ACTTAATCTATTTAAAACAATAAAACCCTAATTT
Found at i:33915374 original size:33 final size:34
Alignment explanation
Indices: 33915311--33915375 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
33915301 AAACCCTAAA
* *
33915311 TTAATTTATTTAAAACCCTAGAACCCTAATTTAC
1 TTAATTTATTTAAAAACATAGAACCCTAATTTAC
33915345 TTAATTTATTTAAAAACATA-AACCCTAATTT
1 TTAATTTATTTAAAAACATAGAACCCTAATTT
33915376 GATAAACCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (34 bp):
TTAATTTATTTAAAAACATAGAACCCTAATTTAC
Found at i:33915410 original size:22 final size:23
Alignment explanation
Indices: 33915385--33915455 Score: 92
Period size: 22 Copynumber: 3.1 Consensus size: 23
33915375 TGATAAACCC
33915385 AAAACCCTAAT-TTAATTTATTT
1 AAAACCCTAATCTTAATTTATTT
33915407 AAAACCCT-ATCTTAATTTATTT
1 AAAACCCTAATCTTAATTTATTT
* *
33915429 AAAACCCTAGAACTCTAATTTACTT
1 AAAACCCTA-ATCT-TAATTTATTT
33915454 AA
1 AA
33915456 TCTATTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
21 2 0.05
22 27 0.63
24 3 0.07
25 11 0.26
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.39
Consensus pattern (23 bp):
AAAACCCTAATCTTAATTTATTT
Found at i:33915456 original size:34 final size:33
Alignment explanation
Indices: 33915417--33915483 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
33915407 AAAACCCTAT
* * * *
33915417 CTTAATTTATTTAAAACCCTAGAACTCTAATTTA
1 CTTAATCTATTTAAAAACATA-AACCCTAATTTA
33915451 CTTAATCTATTTAAAAACATAAACCCTAATTTA
1 CTTAATCTATTTAAAAACATAAACCCTAATTTA
33915484 ACAAACCCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.39
Consensus pattern (33 bp):
CTTAATCTATTTAAAAACATAAACCCTAATTTA
Found at i:33915517 original size:22 final size:22
Alignment explanation
Indices: 33915492--33915544 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
33915482 TAACAAACCC
*
33915492 TAAACCCTAATTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
* *
33915514 TAAACACTAACTTAATTTTTTT
1 TAAACCCTAACTTAATTTATTT
*
33915536 TAAATCCTA
1 TAAACCCTA
33915545 GAACCCTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAACCCTAACTTAATTTATTT
Found at i:33915612 original size:22 final size:22
Alignment explanation
Indices: 33915557--33915619 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 22
33915547 ACCCTAATTT
*
33915557 ACTTAATATATTTAAAACCATA
1 ACTTAATTTATTTAAAACCATA
* *
33915579 AGCCCTAATTTATTTAAAACCCTA
1 A--CTTAATTTATTTAAAACCATA
33915603 ACTTAATTTATTTAAAA
1 ACTTAATTTATTTAAAA
33915620 ATAATTAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 16 0.46
24 19 0.54
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (22 bp):
ACTTAATTTATTTAAAACCATA
Found at i:33915773 original size:35 final size:36
Alignment explanation
Indices: 33915698--33915777 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 36
33915688 TAAAACAATA
* *
33915698 AAAACCCTAACTTGTTTTAACAAAAACCTAGATACT
1 AAAACCCTAACTTATTTTAACAAAAACCTAGACACT
* * * *
33915734 -AAACCCTAACTTATTTTACCAAAATCTTA-ACCCT
1 AAAACCCTAACTTATTTTAACAAAAACCTAGACACT
33915768 AAAACCCTAA
1 AAAACCCTAA
33915778 AAAATCATAG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 3 0.08
35 34 0.92
ACGTcount: A:0.44, C:0.26, G:0.03, T:0.28
Consensus pattern (36 bp):
AAAACCCTAACTTATTTTAACAAAAACCTAGACACT
Found at i:33921863 original size:21 final size:21
Alignment explanation
Indices: 33921839--33921893 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
33921829 AATTAAAATA
33921839 TTTTATATGTAAATATTATTC
1 TTTTATATGTAAATATTATTC
*
33921860 TTTTGATA-GAAAATATTATTC
1 TTTT-ATATGTAAATATTATTC
*
33921881 TTTAATAT-TAAAT
1 TTTTATATGTAAAT
33921894 TGATGTGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.24
21 19 0.66
22 3 0.10
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTTATATGTAAATATTATTC
Found at i:33932363 original size:40 final size:40
Alignment explanation
Indices: 33932278--33932369 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
33932268 GACTATGTTC
*
33932278 GGCACTAAGTGTGCGATTTGAAATAGCTTCAACTATAAATA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCAACTAT-AATA
* **
33932319 -GCACTAAGTGTGCGAATTGGAATAGCTTCGGCTAT-ATGA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCAACTATAAT-A
33932358 GGCACTAAGTGT
1 GGCACTAAGTGT
33932370 ACTATACCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 42 0.93
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCAACTATAATA
Found at i:33932725 original size:15 final size:15
Alignment explanation
Indices: 33932705--33932736 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33932695 CTGTTGATTA
33932705 TATTCAGTACGAACT
1 TATTCAGTACGAACT
*
33932720 TATTCATTACGAACT
1 TATTCAGTACGAACT
33932735 TA
1 TA
33932737 CTAAGCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (15 bp):
TATTCAGTACGAACT
Found at i:33934066 original size:40 final size:40
Alignment explanation
Indices: 33933986--33934074 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
33933976 CTTTTCAATG
* *
33933986 GATTCAGTAGGTATGGCTCGAAAGCGAATATATTTCAGTA
1 GATTCAATAGGTATGGCTCGAAAGCGAATACATTTCAGTA
* * * *
33934026 GATTCAATAGGTATGGCTTGATAGCGCATACATTTTAGTA
1 GATTCAATAGGTATGGCTCGAAAGCGAATACATTTCAGTA
*
33934066 GATCCAATA
1 GATTCAATA
33934075 AATATTGATC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (40 bp):
GATTCAATAGGTATGGCTCGAAAGCGAATACATTTCAGTA
Found at i:33936852 original size:35 final size:35
Alignment explanation
Indices: 33936806--33936912 Score: 92
Period size: 35 Copynumber: 3.4 Consensus size: 35
33936796 ATTAGATAAA
33936806 TATTATCTTATTAATACTTTAATAAGATATTTTAT
1 TATTATCTTATTAATACTTTAATAAGATATTTTAT
* * *
33936841 TATTATTTTATTAGTA---T-ATAA-AGA----A-
1 TATTATCTTATTAATACTTTAATAAGATATTTTAT
*
33936866 -AGTATCTTATTAATACTTTAATAAGATATTTTAT
1 TATTATCTTATTAATACTTTAATAAGATATTTTAT
*
33936900 TATTATTTTATTA
1 TATTATCTTATTA
33936913 GTATATAAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 22
0.63 0.11 0.27
Matches are distributed among these distances:
24 12 0.23
26 1 0.02
27 1 0.02
28 4 0.08
29 2 0.04
30 2 0.04
31 4 0.08
32 1 0.02
33 1 0.02
35 24 0.46
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (35 bp):
TATTATCTTATTAATACTTTAATAAGATATTTTAT
Found at i:33936881 original size:59 final size:59
Alignment explanation
Indices: 33936809--33936926 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
33936799 AGATAAATAT
33936809 TATCTTATTAATACTTTAATAAGATATTTTATTATTATTTTATTAGTATATAAAGAAAG
1 TATCTTATTAATACTTTAATAAGATATTTTATTATTATTTTATTAGTATATAAAGAAAG
33936868 TATCTTATTAATACTTTAATAAGATATTTTATTATTATTTTATTAGTATATAAAGAAAG
1 TATCTTATTAATACTTTAATAAGATATTTTATTATTATTTTATTAGTATATAAAGAAAG
33936927 AAAGATGAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (59 bp):
TATCTTATTAATACTTTAATAAGATATTTTATTATTATTTTATTAGTATATAAAGAAAG
Found at i:33939039 original size:46 final size:46
Alignment explanation
Indices: 33938987--33940126 Score: 1974
Period size: 46 Copynumber: 25.0 Consensus size: 46
33938977 AGTGTGTTCT
33938987 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
33939033 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939079 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939125 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939171 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939217 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939263 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939309 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939355 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939401 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939447 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939493 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939539 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939585 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939631 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939677 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939723 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939769 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
33939815 GTGACATGAAAAGAATAGGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939861 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
33939907 C-----TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
33939945 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
33939991 GTGACATGAAAAGAATAGGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
33940037 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
33940083 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
33940127 TCACGTCAAA
Statistics
Matches: 1055, Mismatches: 30, Indels: 18
0.96 0.03 0.02
Matches are distributed among these distances:
38 36 0.03
41 2 0.00
43 2 0.00
45 1 0.00
46 1014 0.96
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:33940432 original size:23 final size:25
Alignment explanation
Indices: 33940387--33940433 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33940377 AATAAATATA
*
33940387 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
33940412 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
33940434 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:33944925 original size:11 final size:12
Alignment explanation
Indices: 33944902--33944931 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
33944892 TCAAGGATAG
33944902 GGGAAGAGGAAA
1 GGGAAGAGGAAA
33944914 GGGAAG-GGAAA
1 GGGAAGAGGAAA
33944925 GGGAAGA
1 GGGAAGA
33944932 TAGATGTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GGGAAGAGGAAA
Found at i:33950352 original size:150 final size:150
Alignment explanation
Indices: 33950081--33950470 Score: 683
Period size: 150 Copynumber: 2.6 Consensus size: 150
33950071 CATCGGAAGA
33950081 GAAGATTCTGGATAAAAAATCTGTAAAGCGGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAGG
1 GAAGATTCTGGATAAAAAATCTGTAAAGCGGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAGG
33950146 ATTTTCAGGAGGAAGAAGAAGAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGG
66 ATTTTCAGGAGGAAGAAGAAGAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGG
* *
33950211 ATATCTTCGGTAAGGGAGAG
131 ATATCTTCAGAAAGGGAGAG
33950231 GAAGATTCTGGATAAAAAATCTGTAAAGCGGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAGG
1 GAAGATTCTGGATAAAAAATCTGTAAAGCGGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAGG
*
33950296 ATTTTCAGGAGGAAGAAGAAGAAGAGGAAGAGGTGAGAGAGGTTGTTAGGTTGAAAAGAGAACGG
66 ATTTTCAGGAGGAAGAAGAAGAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGG
33950361 ATATCTTCAGAAAGGGAGAG
131 ATATCTTCAGAAAGGGAGAG
* * *
33950381 GAAGATTGC-GGATAAAAAATCTGTCAAGCAGGAAAGCTTGTCTGTTGAAGAAGATGAAGACAAG
1 GAAGATT-CTGGATAAAAAATCTGTAAAGCGGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAG
* * *
33950445 GATTATGAGGAGGAGGAAGAAGAAGA
65 GATTTTCAGGAGGAAGAAGAAGAAGA
33950471 AAAGGAAGAT
Statistics
Matches: 230, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
150 229 1.00
151 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.34, T:0.19
Consensus pattern (150 bp):
GAAGATTCTGGATAAAAAATCTGTAAAGCGGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAGG
ATTTTCAGGAGGAAGAAGAAGAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGG
ATATCTTCAGAAAGGGAGAG
Found at i:33950491 original size:30 final size:30
Alignment explanation
Indices: 33950430--33950491 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
33950420 GTCTGTTGAA
* * **
33950430 GAAGATGAAGACAAGGATTATGAGGAGGAG
1 GAAGAAGAAGAAAAGGAAGATGAGGAGGAG
* *
33950460 GAAGAAGAAGAAAAGGAAGATGATGATGAG
1 GAAGAAGAAGAAAAGGAAGATGAGGAGGAG
33950490 GA
1 GA
33950492 GTTCACTCCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.39, T:0.11
Consensus pattern (30 bp):
GAAGAAGAAGAAAAGGAAGATGAGGAGGAG
Found at i:33950524 original size:36 final size:36
Alignment explanation
Indices: 33950484--33950600 Score: 171
Period size: 36 Copynumber: 3.2 Consensus size: 36
33950474 GGAAGATGAT
* * *
33950484 GATGAGGAGTTCACTCCAGATGTAGAAGATTGTTTG
1 GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
*
33950520 GATGAGGAATTTACTCCAGATGAAGAGGATTGTTTG
1 GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
* * *
33950556 GATGAAGAATTCACTCCGGATGAAGAGGATTGTTTA
1 GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
33950592 GATGAGGAA
1 GATGAGGAA
33950601 GAGGAATTGA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (36 bp):
GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
Found at i:33958279 original size:18 final size:17
Alignment explanation
Indices: 33958246--33958287 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
33958236 AGCTCCTCAG
* *
33958246 AAATACTTTTGGGATAA
1 AAATATTTTTGAGATAA
33958263 AAAGTATTTTTGAGATAA
1 AAA-TATTTTTGAGATAA
33958281 AAATATT
1 AAATATT
33958288 GTTAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (17 bp):
AAATATTTTTGAGATAA
Found at i:33958369 original size:6 final size:6
Alignment explanation
Indices: 33958358--33958386 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33958348 TTTTTTTAGC
33958358 CAAAAG CAAAAG CAAAAG CAAAAG CAAAA
1 CAAAAG CAAAAG CAAAAG CAAAAG CAAAA
33958387 AATTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.17, G:0.14, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:33960528 original size:43 final size:43
Alignment explanation
Indices: 33960449--33960597 Score: 158
Period size: 43 Copynumber: 3.4 Consensus size: 43
33960439 CAATGACATA
* * * ** *
33960449 TCCCAGATATGGTCCTACATGTTATCACATATCGATGCC-ATGG
1 TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAAT-G
* *
33960492 TCCCAGACAGGGTCTTACACGAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
* * *
33960535 TCCCAGACATGGTATTTACACGTAATCACA-ATACAATGCCAATG
1 TCCCAGACATGGT-CTTACACGAAATCACATA-ACGATGCCAATG
33960579 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
33960598 TATAATCACA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
43 50 0.56
44 39 0.44
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
Found at i:33960574 original size:44 final size:43
Alignment explanation
Indices: 33960483--33960597 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 43
33960473 TCACATATCG
* * *
33960483 ATGCC-ATGGTCCCAGACAGGGTCTTACACGAAATCATATAACG
1 ATGCCAAT-GTCCCAGACATGGTCTTACACGAAATCAAATAACA
* *
33960526 ATGCCAATGTCCCAGACATGGTATTTACACGTAATCACAAT-ACA
1 ATGCCAATGTCCCAGACATGGT-CTTACACGAAATCA-AATAACA
33960570 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
33960598 TATAATCACA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 23 0.37
44 38 0.60
45 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAACA
Found at i:33964151 original size:29 final size:30
Alignment explanation
Indices: 33964092--33964149 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33964082 TCCGAGCCTT
**
33964092 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATAAAAAAGTTTA
* *
33964122 GGGGCAAAATTGTAATTTTAAAAAAGTT
1 GGGGCAAAAATGTAATTATAAAAAAGTT
33964150 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATAAAAAAGTTTA
Found at i:33964379 original size:13 final size:13
Alignment explanation
Indices: 33964361--33964392 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
33964351 TTTCTAGCAA
33964361 TTATGAATTTATT
1 TTATGAATTTATT
33964374 TTATGAATTTATT
1 TTATGAATTTATT
*
33964387 TGATGA
1 TTATGA
33964393 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:33964600 original size:50 final size:50
Alignment explanation
Indices: 33964487--33964728 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
33964477 ATTTGGGTAA
* * *
33964487 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
33964543 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
33964593 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
33964643 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
33964693 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
33964729 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:33964676 original size:100 final size:103
Alignment explanation
Indices: 33964487--33964736 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
33964477 ATTTGGGTAA
33964487 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
33964552 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
33964593 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
33964655 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
33964693 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
33964737 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:33982309 original size:22 final size:22
Alignment explanation
Indices: 33982281--33982322 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
33982271 CTTAAGGCTT
*
33982281 GAGGTTAAGTCTTGAGACATAG
1 GAGGTTAAGTCTCGAGACATAG
33982303 GAGGTTAAGTCTCGAGACAT
1 GAGGTTAAGTCTCGAGACAT
33982323 GGTCCTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (22 bp):
GAGGTTAAGTCTCGAGACATAG
Found at i:33987507 original size:18 final size:18
Alignment explanation
Indices: 33987463--33987515 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
33987453 CCGGCACTCT
* *
33987463 ATAATAGTCAGTTATGCA
1 ATAATAGTCAATTATTCA
* *
33987481 GTAATAGTCATTTATTCA
1 ATAATAGTCAATTATTCA
*
33987499 ATAACAGTCAATTATTC
1 ATAATAGTCAATTATTC
33987516 CGTAGCAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (18 bp):
ATAATAGTCAATTATTCA
Found at i:33987771 original size:48 final size:48
Alignment explanation
Indices: 33987653--33987761 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
33987643 CCGTAACGGT
* * *
33987653 AACAGTCTCAGTCACGGTACACAAAGTACTTCATCGAAACGAATCCAG
1 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCAG
33987701 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCC-G
1 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCAG
33987748 AAACAGTCACAGTC
1 -AACAGTCACAGTC
33987762 TAGCGACACT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 1 0.02
48 56 0.98
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (48 bp):
AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCAG
Found at i:33988045 original size:3 final size:3
Alignment explanation
Indices: 33988037--33988067 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33988027 TATTCAACTC
33988037 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33988068 CTTACCATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33988286 original size:16 final size:15
Alignment explanation
Indices: 33988264--33988302 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
33988254 CTTTTTCTCC
33988264 TTCTTTCTCCCCTGT
1 TTCTTTCTCCCCTGT
* *
33988279 TTCGTTTCTTCTCTGT
1 TTC-TTTCTCCCCTGT
33988295 TTCTTTCT
1 TTCTTTCT
33988303 ATTCTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (15 bp):
TTCTTTCTCCCCTGT
Found at i:33992310 original size:14 final size:14
Alignment explanation
Indices: 33992291--33992354 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 14
33992281 ATGAATTGGT
*
33992291 TATATGGAAGTAGA
1 TATATGGAAATAGA
*
33992305 TATAT-GAAATAGT
1 TATATGGAAATAGA
* * *
33992318 TAAAT-GAATTAGT
1 TATATGGAAATAGA
*
33992331 TATATGGAACTAGA
1 TATATGGAAATAGA
33992345 TATAT-GAAAT
1 TATATGGAAAT
33992355 GAAACATTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 25 0.61
14 16 0.39
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (14 bp):
TATATGGAAATAGA
Found at i:33992319 original size:27 final size:27
Alignment explanation
Indices: 33992278--33992350 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
33992268 ATGAAATGAT
* *
33992278 TATATGAATTGGTTATATGGAAGTAGA
1 TATATGAAATAGTTATATGGAAGTAGA
* * *
33992305 TATATGAAATAGTTAAAT-GAATTAGT
1 TATATGAAATAGTTATATGGAAGTAGA
* *
33992331 TATATGGAACTAGATATATG
1 TATAT-GAAATAGTTATATG
33992351 AAATGAAACA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 11 0.31
27 25 0.69
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.37
Consensus pattern (27 bp):
TATATGAAATAGTTATATGGAAGTAGA
Found at i:33992325 original size:40 final size:40
Alignment explanation
Indices: 33992268--33992356 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
33992258 AAATGAATAA
* * *
33992268 ATGAAATGATTATATGAATTGGTTATATGGAAGTAGATAT
1 ATGAAATGATTAAATGAATTAGTTATATGGAACTAGATAT
33992308 ATGAAAT-AGTTAAATGAATTAGTTATATGGAACTAGATAT
1 ATGAAATGA-TTAAATGAATTAGTTATATGGAACTAGATAT
33992348 ATGAAATGA
1 ATGAAATGA
33992357 AACATTGGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 42 0.95
41 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.20, T:0.35
Consensus pattern (40 bp):
ATGAAATGATTAAATGAATTAGTTATATGGAACTAGATAT
Found at i:33998448 original size:3 final size:3
Alignment explanation
Indices: 33998442--33998471 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
33998432 CCCGCTTTCC
33998442 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33998472 TATCATTCAT
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):
ATT
Found at i:33999921 original size:24 final size:24
Alignment explanation
Indices: 33999894--33999971 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
33999884 ATTATTGGGC
*
33999894 AATGTATGTGTTTTGAATTGATGG
1 AATGTATGTGTTTCGAATTGATGG
* ** *
33999918 AATGGA-GACTTTGGATATT-ATTGGG
1 AATGTATGTGTTTCGA-ATTGA-T-GG
33999943 CAATGTATGTGTTTCGAATTGATGG
1 -AATGTATGTGTTTCGAATTGATGG
33999968 AATG
1 AATG
33999972 GAGACGATGC
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
23 7 0.17
24 13 0.32
25 4 0.10
26 9 0.22
27 7 0.17
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.40
Consensus pattern (24 bp):
AATGTATGTGTTTCGAATTGATGG
Found at i:33999952 original size:50 final size:50
Alignment explanation
Indices: 33999877--33999976 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
33999867 CGAATATGAT
*
33999877 TTTGGATATTATTGGGCAATGTATGTGTTTTGAATTGATGGAATGGAGAC
1 TTTGGATATTATTGGGCAATGTATGTGTTTCGAATTGATGGAATGGAGAC
33999927 TTTGGATATTATTGGGCAATGTATGTGTTTCGAATTGATGGAATGGAGAC
1 TTTGGATATTATTGGGCAATGTATGTGTTTCGAATTGATGGAATGGAGAC
33999977 GATGCTTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.05, G:0.30, T:0.39
Consensus pattern (50 bp):
TTTGGATATTATTGGGCAATGTATGTGTTTCGAATTGATGGAATGGAGAC
Found at i:34001073 original size:40 final size:40
Alignment explanation
Indices: 34001018--34001198 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
34001008 TATTCGGATG
* *
34001018 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
34001058 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
34001098 ATATCTGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
34001138 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
34001178 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
34001199 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.10
40 113 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34009218 original size:40 final size:40
Alignment explanation
Indices: 34009163--34009421 Score: 391
Period size: 40 Copynumber: 6.5 Consensus size: 40
34009153 TATTCGGATG
* *
34009163 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
34009203 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
34009242 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
34009282 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
34009321 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
34009361 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
34009401 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
34009422 ATACTTGGGT
Statistics
Matches: 200, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 86 0.43
40 112 0.56
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34009294 original size:79 final size:79
Alignment explanation
Indices: 34009163--34009421 Score: 414
Period size: 79 Copynumber: 3.3 Consensus size: 79
34009153 TATTCGGATG
34009163 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAGGCAT
34009228 TTGTGCTAGTGACT
66 TTGTGCTAGTGACT
34009242 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAGGCAT
34009307 TTGTGCTAGTGACT
66 TTGTGCTAGTGACT
** * * * *
34009321 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCG-AGGCA
*
34009386 TTTGTGCGAGTTG-CT
65 TTTGTGCTAG-TGACT
*
34009401 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
34009422 ATACTTGGGT
Statistics
Matches: 170, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
79 146 0.86
80 22 0.13
81 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAGGCAT
TTGTGCTAGTGACT
Found at i:34009374 original size:119 final size:118
Alignment explanation
Indices: 34009163--34009419 Score: 408
Period size: 119 Copynumber: 2.2 Consensus size: 118
34009153 TATTCGGATG
*
34009163 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAGGCAT
1 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAGGCAT
** *
34009228 TTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
65 TCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACT
*
34009282 ATATCCGGGCTAAGTCCCGAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCG-AGGCAT
* * *
34009347 TCATGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGCT
65 TCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACT
*
34009401 ATATCC-GGCTAAATCCCGA
1 ATATCCGGGCTAAGTCCCGA
34009420 AGATACTTGG
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
118 49 0.38
119 79 0.62
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (118 bp):
ATATCCGGGCTAAGTCCCGAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAGGCATT
CATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACT
Found at i:34011819 original size:19 final size:18
Alignment explanation
Indices: 34011797--34011842 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
34011787 ATCTTAAAAA
34011797 TAAAAAAATATTTTAACTT
1 TAAAAAAATATTTTAA-TT
**
34011816 TAAAAATTTATTTTAATT
1 TAAAAAAATATTTTAATT
*
34011834 AAAAAAAAT
1 TAAAAAAAT
34011843 TAACCCAACG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAAAATATTTTAATT
Found at i:34012723 original size:13 final size:13
Alignment explanation
Indices: 34012705--34012730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34012695 TCTTAGCGTT
34012705 GAATTGCAAGCTC
1 GAATTGCAAGCTC
34012718 GAATTGCAAGCTC
1 GAATTGCAAGCTC
34012731 ATCCTGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
GAATTGCAAGCTC
Found at i:34015008 original size:9 final size:9
Alignment explanation
Indices: 34014994--34015025 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
34014984 AACTTGGTGC
34014994 ATTTTGTTT
1 ATTTTGTTT
34015003 ATTTTGTTT
1 ATTTTGTTT
34015012 ATTTTGTTT
1 ATTTTGTTT
34015021 ATTTT
1 ATTTT
34015026 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:34015106 original size:23 final size:23
Alignment explanation
Indices: 34015076--34015127 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
34015066 TGCAACTTGG
34015076 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
34015099 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
34015122 TTTCAT
1 TTTCAT
34015128 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:34019471 original size:9 final size:9
Alignment explanation
Indices: 34019457--34019488 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
34019447 AACTTGGTGC
34019457 ATTTTGTTT
1 ATTTTGTTT
34019466 ATTTTGTTT
1 ATTTTGTTT
34019475 ATTTTGTTT
1 ATTTTGTTT
34019484 ATTTT
1 ATTTT
34019489 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:34019569 original size:23 final size:23
Alignment explanation
Indices: 34019539--34019590 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
34019529 TGCAACTTGG
34019539 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
34019562 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
34019585 TTTCAT
1 TTTCAT
34019591 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:34022030 original size:29 final size:29
Alignment explanation
Indices: 34021993--34022057 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
34021983 ATAAAACTTG
* * *
34021993 AAAAGTTAAAATAA-TATATAAGTTTTTA
1 AAAAATTAAAAAAATTATATAAATTTTTA
*
34022021 TAAAAATTAAAAAAATTATTTAAATTTTTA
1 -AAAAATTAAAAAAATTATATAAATTTTTA
34022051 AAAAATT
1 AAAAATT
34022058 GCTAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (29 bp):
AAAAATTAAAAAAATTATATAAATTTTTA
Found at i:34022237 original size:17 final size:18
Alignment explanation
Indices: 34022217--34022266 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
34022207 AATTTAAGGT
34022217 TTTTTAATATTTTTA-AA
1 TTTTTAATATTTTTATAA
* * *
34022234 TTTTAAATA-ATTTATAT
1 TTTTTAATATTTTTATAA
34022251 TTTTTAAT-TTTTTATA
1 TTTTTAATATTTTTATA
34022267 TATTATTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTAATATTTTTATAA
Found at i:34022272 original size:24 final size:23
Alignment explanation
Indices: 34022223--34022306 Score: 70
Period size: 24 Copynumber: 3.8 Consensus size: 23
34022213 AGGTTTTTTA
* ** *
34022223 ATATTTTTAAATTTTAAATAATTT
1 ATATTTTTTAATTTTTTAT-ATAT
34022247 ATATTTTTTAATTTTTTATATAT
1 ATATTTTTTAATTTTTTATATAT
*
34022270 -TA-TTTTGACA--TTTTATATAT
1 ATATTTTTTA-ATTTTTTATATAT
34022290 -TATTTTTTAATTTTTTA
1 ATATTTTTTAATTTTTTA
34022307 ATTTTATAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 13 0.26
21 10 0.20
22 8 0.16
23 3 0.06
24 16 0.32
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (23 bp):
ATATTTTTTAATTTTTTATATAT
Found at i:34022305 original size:22 final size:22
Alignment explanation
Indices: 34022248--34022306 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 22
34022238 AAATAATTTA
34022248 TATTTTTTAATTTTTTATATAT
1 TATTTTTTAATTTTTTATATAT
*
34022270 TA-TTTTGACA--TTTTATATAT
1 TATTTTTTA-ATTTTTTATATAT
34022290 TATTTTTTAATTTTTTA
1 TATTTTTTAATTTTTTA
34022307 ATTTTATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 13 0.42
21 10 0.32
22 8 0.26
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TATTTTTTAATTTTTTATATAT
Found at i:34022871 original size:54 final size:54
Alignment explanation
Indices: 34022812--34022975 Score: 328
Period size: 54 Copynumber: 3.0 Consensus size: 54
34022802 ATTGTTTTCT
34022812 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
1 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
34022866 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
1 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
34022920 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
1 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
34022974 TT
1 TT
34022976 AAGAACATTA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 110 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (54 bp):
TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
Found at i:34024954 original size:49 final size:49
Alignment explanation
Indices: 34024881--34025065 Score: 208
Period size: 49 Copynumber: 3.7 Consensus size: 49
34024871 TAGCCGAAGC
* *
34024881 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *** *
34024930 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * ** *
34024981 TTTCGGGTATGCATAGTAGCCTGCACTTAATACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
34025030 TATCCGGTACACGTAGTAGCCTTCACTTAGTACTAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTAC
34025066 CACGTGACCT
Statistics
Matches: 108, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
49 69 0.64
50 2 0.02
51 37 0.34
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:34025005 original size:100 final size:100
Alignment explanation
Indices: 34024886--34025065 Score: 306
Period size: 100 Copynumber: 1.8 Consensus size: 100
34024876 GAAGCTATCT
* * *
34024886 GGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
34024951 TGCACTTAGTACTACACACATGATCACAGTTTTCG
66 TGCACTTAGTACTACACACATGATCACAGTTTTCG
* *
34024986 GGTATGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
34025051 TTCACTTAGTACTAC
66 TGCACTTAGTACTAC
34025066 CACGTGACCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGATCACAGTTTTCG
Found at i:34030147 original size:41 final size:41
Alignment explanation
Indices: 34030082--34030160 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
34030072 AGGGGTTTTC
*
34030082 ACACGGCCAAGCACACGCAAGTGTCCCTAGCCCATGTCCCTT
1 ACACGGCCAAGCACACGCAAGTGT-CATAGCCCATGTCCCTT
** *
34030124 ACACGGCCAAG-ACACGCCCGTGTCATCGCCCATGTCC
1 ACACGGCCAAGCACACGCAAGTGTCATAGCCCATGTCC
34030161 AAAAACCTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 12 0.36
41 10 0.30
42 11 0.33
ACGTcount: A:0.23, C:0.42, G:0.20, T:0.15
Consensus pattern (41 bp):
ACACGGCCAAGCACACGCAAGTGTCATAGCCCATGTCCCTT
Found at i:34038174 original size:28 final size:28
Alignment explanation
Indices: 34038134--34038983 Score: 1684
Period size: 28 Copynumber: 30.4 Consensus size: 28
34038124 GAGATTGGCG
34038134 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038162 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038190 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038218 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038246 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038274 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038302 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038330 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038358 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038386 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038414 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038442 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038470 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038498 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038526 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038554 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038582 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038610 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038638 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038666 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038694 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038722 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038750 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038778 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038806 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038834 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038862 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038890 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038918 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34038946 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
34038973 CTGAGTGTGCG
1 CTAAGTGTGCG
34038984 GACTTAATAT
Statistics
Matches: 821, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
27 24 0.03
28 797 0.97
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:34051540 original size:38 final size:38
Alignment explanation
Indices: 34051488--34051560 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
34051478 ACCAGATTGG
*
34051488 CACCCAATGCCTCATCGGAT-AGTTCGAAGCAAAGTTGA
1 CACCCAATGCCTCATCGGATGAG-CCGAAGCAAAGTTGA
* * *
34051526 CACCCAGTGTCTCATCGGCTGAGCCGAAGCAAAGT
1 CACCCAATGCCTCATCGGATGAGCCGAAGCAAAGT
34051561 GGTACCCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.93
39 2 0.07
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (38 bp):
CACCCAATGCCTCATCGGATGAGCCGAAGCAAAGTTGA
Found at i:34051749 original size:18 final size:18
Alignment explanation
Indices: 34051728--34051795 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 18
34051718 TTCAAATCAT
34051728 TTTCAATGTCAATTTCAC-
1 TTTCAAT-TCAATTTCACA
*
34051746 TTTCAATTCAAATTCACA
1 TTTCAATTCAATTTCACA
* *
34051764 ATTCAATTCAA-TTCTCA
1 TTTCAATTCAATTTCACA
*
34051781 -TTCAATTCAAATTCA
1 TTTCAATTCAATTTCA
34051796 TTTTTCCACT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
16 10 0.23
17 17 0.39
18 17 0.39
ACGTcount: A:0.35, C:0.22, G:0.01, T:0.41
Consensus pattern (18 bp):
TTTCAATTCAATTTCACA
Found at i:34051756 original size:34 final size:33
Alignment explanation
Indices: 34051718--34051799 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 33
34051708 AAATTCACAT
34051718 TTCAAA-TCATTTTCAATGTCAATT-TCACTTTCAA
1 TTCAAATTCATTTTCAAT-TCAATTCTCA--TTCAA
**
34051752 TTCAAATTCACAATTCAATTCAATTCTCATTCAA
1 TTCAAATTCA-TTTTCAATTCAATTCTCATTCAA
34051786 TTCAAATTCATTTT
1 TTCAAATTCATTTT
34051800 TCCACTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
33 2 0.05
34 21 0.51
35 9 0.22
36 9 0.22
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.44
Consensus pattern (33 bp):
TTCAAATTCATTTTCAATTCAATTCTCATTCAA
Found at i:34051761 original size:11 final size:11
Alignment explanation
Indices: 34051747--34051795 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
34051737 CAATTTCACT
34051747 TTCAATTCAAA
1 TTCAATTCAAA
34051758 TTCACAATTC-AA
1 TT--CAATTCAAA
**
34051770 TTCAATTCTCA
1 TTCAATTCAAA
34051781 TTCAATTCAAA
1 TTCAATTCAAA
34051792 TTCA
1 TTCA
34051796 TTTTTCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.19
11 16 0.50
12 4 0.12
13 6 0.19
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCAATTCAAA
Found at i:34052910 original size:17 final size:18
Alignment explanation
Indices: 34052890--34052927 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
34052880 TTCGAAATAG
34052890 CTTTTG-TTCTTTTTCTT
1 CTTTTGTTTCTTTTTCTT
*
34052907 C-TTTGTTTCTTTTTTTT
1 CTTTTGTTTCTTTTTCTT
34052924 CTTT
1 CTTT
34052928 ATTTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 4 0.22
17 12 0.67
18 2 0.11
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (18 bp):
CTTTTGTTTCTTTTTCTT
Found at i:34052932 original size:17 final size:17
Alignment explanation
Indices: 34052896--34052932 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
34052886 ATAGCTTTTG
*
34052896 TTCTTTTTCTTCTTTGT
1 TTCTTTTTCTTCTTTAT
*
34052913 TTCTTTTTTTTCTTTAT
1 TTCTTTTTCTTCTTTAT
34052930 TTC
1 TTC
34052933 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (17 bp):
TTCTTTTTCTTCTTTAT
Found at i:34052963 original size:3 final size:3
Alignment explanation
Indices: 34052955--34053002 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
34052945 ATATGTTAGT
*
34052955 TAA TAA TAA TAA TAA TAA TAA TAA TACA TTA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
34053000 TAA
1 TAA
34053003 ATATCTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:34053161 original size:15 final size:15
Alignment explanation
Indices: 34053127--34053168 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34053117 AATATGATAT
*
34053127 TTATAATAATT-TAA
1 TTATAATAATTATTA
34053141 TT-TAATAATTATTA
1 TTATAATAATTATTA
*
34053155 TTATAATAAATATT
1 TTATAATAATTATT
34053169 TTTAGCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 6 0.25
15 10 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATAATAATTATTA
Found at i:34056248 original size:16 final size:16
Alignment explanation
Indices: 34056227--34056295 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
34056217 TTTGGTTCGC
34056227 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
34056243 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
34056259 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
34056276 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
34056292 TGTA
1 TGTA
34056296 ATAGCAAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:34056273 original size:33 final size:32
Alignment explanation
Indices: 34056227--34056295 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
34056217 TTTGGTTCGC
34056227 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
34056259 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
34056292 TGTA
1 TGTA
34056296 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:34056551 original size:16 final size:16
Alignment explanation
Indices: 34056511--34056565 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
34056501 TTAATCATAT
*
34056511 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
34056527 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
34056542 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
34056560 -TAAAAT
1 TTAAAAT
34056566 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:34056558 original size:18 final size:17
Alignment explanation
Indices: 34056531--34056565 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34056521 TTTTTATTAA
*
34056531 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
34056549 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
34056566 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:34056619 original size:157 final size:157
Alignment explanation
Indices: 34056418--34056734 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
34056408 TAGAATACCC
*
34056418 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
34056483 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTTTTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
34056548 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
34056575 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
34056640 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
34056705 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
34056732 TTA
1 TTA
34056735 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:34056705 original size:16 final size:16
Alignment explanation
Indices: 34056668--34056709 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
34056658 TTAATCATAT
*
34056668 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
34056684 TT-AAATATATTATAA
1 TTAAAATATATTATAA
34056699 TTAAAATATAT
1 TTAAAATATAT
34056710 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:34056716 original size:14 final size:15
Alignment explanation
Indices: 34056677--34056718 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34056667 TTTAAACATA
*
34056677 ATTATTATTAAATAT
1 ATTATAATTAAATAT
34056692 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
34056706 A-TATAATTTAATA
1 ATTATAATTAAATA
34056719 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:34056835 original size:18 final size:17
Alignment explanation
Indices: 34056808--34056842 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34056798 TTAATATTAA
*
34056808 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
34056826 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
34056843 CGGCATTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:34059886 original size:21 final size:20
Alignment explanation
Indices: 34059856--34059894 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
34059846 TAAAACTTGT
34059856 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
34059876 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
34059895 CTAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:34067373 original size:21 final size:20
Alignment explanation
Indices: 34067335--34067373 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
34067325 CAAAACTTGT
*
34067335 ATAACTATCATCATACATTC
1 ATAACTATCATCAAACATTC
*
34067355 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
34067374 CAAAAGACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:34079982 original size:42 final size:42
Alignment explanation
Indices: 34079935--34080022 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
34079925 GGGCTCCCAT
* **
34079935 GGCCGTGGGGCTAGCCCGTGGGCAGA-TCTGACTTT-CTCACAC
1 GGCCGTGGGACTAAACCGTGGGCA-ATTCTGACTTTAC-CACAC
*
34079977 GGCCGTGGGACTAAACTGTGGGCAATTCTGACTTTACCACAC
1 GGCCGTGGGACTAAACCGTGGGCAATTCTGACTTTACCACAC
34080019 GGCC
1 GGCC
34080023 TGGACGCACG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
41 1 0.03
42 38 0.95
43 1 0.03
ACGTcount: A:0.18, C:0.30, G:0.31, T:0.22
Consensus pattern (42 bp):
GGCCGTGGGACTAAACCGTGGGCAATTCTGACTTTACCACAC
Found at i:34081826 original size:4 final size:4
Alignment explanation
Indices: 34081805--34081875 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
34081795 ATTTCTCCTT
* *
34081805 TTTC TTTT TTTC -TTC TTTC TTTC TTTC TATTC TGTT- TCTTC TTTA TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC T-TTC T-TTC TTTC TTTC
*
34081854 -TT- TTTC TTGTT TTTC TTTC TTT
1 TTTC TTTC TT-TC TTTC TTTC TTT
34081876 TATTTATTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
3 7 0.13
4 36 0.68
5 10 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:34081848 original size:26 final size:24
Alignment explanation
Indices: 34081802--34081875 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 24
34081792 CTAATTTCTC
*
34081802 CTTTTTCTTTTTTTCTTCTTTCTTT
1 CTTTTTC-TTGTTTCTTCTTTCTTT
*
34081827 CTTTCTAT-TCTGTTTCTTCTTTATTT
1 CTTT-T-TCT-TGTTTCTTCTTTCTTT
34081853 CTTTTTCTTGTTT-TTCTTTCTTT
1 CTTTTTCTTGTTTCTTCTTTCTTT
34081876 TATTTATTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
23 9 0.21
24 6 0.14
25 7 0.17
26 19 0.45
27 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (24 bp):
CTTTTTCTTGTTTCTTCTTTCTTT
Found at i:34082052 original size:3 final size:3
Alignment explanation
Indices: 34082044--34082078 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34082034 TTGATAAAAT
34082044 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
34082079 GATGATGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:34088424 original size:17 final size:17
Alignment explanation
Indices: 34088391--34088424 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34088381 TTTTATTGTC
*
34088391 ATTACTACTATCGTATT
1 ATTACTACTATCATATT
*
34088408 ATTACTACTATTATATT
1 ATTACTACTATCATATT
34088425 TTCATCTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTACTACTATCATATT
Found at i:34088469 original size:37 final size:37
Alignment explanation
Indices: 34088418--34088491 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
34088408 ATTACTACTA
34088418 TTATATTTTCATCTACATAGATTTTC-TTGTTACTTAT
1 TTATATTTTCATCTACATAGATTTTCATTGTTA-TTAT
** *
34088455 TTATA-TTTCTATCTATTTATATTTTCATTGTTATTAT
1 TTATATTTTC-ATCTACATAGATTTTCATTGTTATTAT
34088492 ATTTTAAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 4 0.12
37 22 0.69
38 6 0.19
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (37 bp):
TTATATTTTCATCTACATAGATTTTCATTGTTATTAT
Found at i:34090972 original size:47 final size:47
Alignment explanation
Indices: 34090838--34091296 Score: 675
Period size: 47 Copynumber: 9.6 Consensus size: 47
34090828 AGTATATGTG
* *
34090838 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
34090887 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
34090936 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
34090983 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
34091030 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
34091079 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
34091126 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
34091175 GAATGTGAAGGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * * *
34091222 GAATGTGAAAGTGTATGTATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
34091269 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
34091297 TCCCGAAGGG
Statistics
Matches: 375, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
47 228 0.61
49 147 0.39
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:34090997 original size:96 final size:95
Alignment explanation
Indices: 34090838--34091296 Score: 656
Period size: 96 Copynumber: 4.8 Consensus size: 95
34090828 AGTATATGTG
* *
34090838 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-T
*
34090903 ATATATGTGATAAGGCCTAATGGCCGATGTGAT
63 ATATATGTGATAAGGCCTAATAGCCGATGTGAT
* *
34090936 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-TATA
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATA
34091000 TATGTGATAAGGCCTAATAGCCGATGTGAT
66 TATGTGATAAGGCCTAATAGCCGATGTGAT
34091030 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TA
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTA
* * *
34091094 TATATGTGATAAGGCCGAATGGCCAATGTGAT
64 TATATGTGATAAGGCCTAATAGCCGATGTGAT
*
34091126 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG-TA
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTA
34091190 TATATGTGATAAGGCCTAATAGCCGATGTGAT
64 TATATGTGATAAGGCCTAATAGCCGATGTGAT
* * * * * * * * *
34091222 GAATGTGAAAGTGTATGTATGTGACAGGGCCGAGTGGCCAACGTGATGGACGTGAAAGTG-TATA
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATA
*
34091286 AATGTGATAAG
66 TATGTGATAAG
34091297 TCCCGAAGGG
Statistics
Matches: 334, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
94 97 0.29
96 226 0.68
98 11 0.03
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (95 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATA
TATGTGATAAGGCCTAATAGCCGATGTGAT
Found at i:34091009 original size:143 final size:143
Alignment explanation
Indices: 34090838--34091296 Score: 760
Period size: 143 Copynumber: 3.2 Consensus size: 143
34090828 AGTATATGTG
*
34090838 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
34090903 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCG
64 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCG
34090968 AATGGCCAATGTGAT
129 AATGGCCAATGTGAT
34090983 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
34091048 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
34091113 TGGCCAATGTGAT
131 TGGCCAATGTGAT
* *
34091126 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTGT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
* * * *
34091189 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATGTGACAGGGCCG
64 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCG
* *
34091254 AGTGGCCAACGTGAT
129 AATGGCCAATGTGAT
* * *
34091269 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
34091297 TCCCGAAGGG
Statistics
Matches: 300, Mismatches: 12, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
141 14 0.05
143 232 0.77
144 3 0.01
145 51 0.17
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
TGGCCAATGTGAT
Found at i:34091849 original size:101 final size:101
Alignment explanation
Indices: 34091674--34091875 Score: 386
Period size: 101 Copynumber: 2.0 Consensus size: 101
34091664 GTGAGAGGTT
34091674 ATGTGAAATCATACAATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATATGCCTA
1 ATGTGAAATCATACAATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATATGCCTA
34091739 TTGTATATGATGAGATGTGCATATTCGGTAAAGGGA
66 TTGTATATGATGAGATGTGCATATTCGGTAAAGGGA
* *
34091775 ATGTGAAATCATACGATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTA
1 ATGTGAAATCATACAATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATATGCCTA
34091840 TTGTATATGATGAGATGTGCATATTCGGTAAAGGGA
66 TTGTATATGATGAGATGTGCATATTCGGTAAAGGGA
34091876 TGGTATGCCC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (101 bp):
ATGTGAAATCATACAATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATATGCCTA
TTGTATATGATGAGATGTGCATATTCGGTAAAGGGA
Found at i:34093734 original size:40 final size:40
Alignment explanation
Indices: 34092811--34093722 Score: 1691
Period size: 40 Copynumber: 22.8 Consensus size: 40
34092801 GAGAATTGAG
*
34092811 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
34092851 AGTGATGTATCCGGGCTAAGTCTGGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34092891 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34092931 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34092971 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093011 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093051 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093091 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093131 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093171 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093211 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093251 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093291 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093331 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093371 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093411 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093451 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093491 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093531 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
34093571 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
34093611 AGTGATGTATCCGGACTAAGT-TCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCT-CGAAGAGCATTCGTGCT
* * ** *
34093651 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * * * *
34093691 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCA
34093723 ATCATGCTGG
Statistics
Matches: 854, Mismatches: 16, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
39 1 0.00
40 853 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
Found at i:34095671 original size:93 final size:92
Alignment explanation
Indices: 34095512--34095697 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 92
34095502 AAGAAATGGG
34095512 TGATAAAAACAAAGTTGGTTCATCTTTTTCTTCCTCCATTGCCATACCTAAAGAAAGAAAAGAAG
1 TGATAAAAACAAAGTTGGTTCATCTTTTTCTTCCTCCATTGCCATACCTAAAGAAAGAAAAGAAG
*
34095577 AAATTGAAGTTAAGGCATTTGGTCACCT
66 AAATTGAAGTT-AGCCATTTGGTCACCT
*
34095605 TGATAAAAACAAAGTTGGTTCATCTTTTTCTTCCTCCATTGCCGTACCTAAAGAAAGAAAAGAAG
1 TGATAAAAACAAAGTTGGTTCATCTTTTTCTTCCTCCATTGCCATACCTAAAGAAAGAAAAGAAG
34095670 AAATTGAAGTTAGCCATTTGGTCACCT
66 AAATTGAAGTTAGCCATTTGGTCACCT
34095697 T
1 T
34095698 TGAGTGGATT
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 16 0.18
93 75 0.82
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (92 bp):
TGATAAAAACAAAGTTGGTTCATCTTTTTCTTCCTCCATTGCCATACCTAAAGAAAGAAAAGAAG
AAATTGAAGTTAGCCATTTGGTCACCT
Found at i:34097188 original size:47 final size:47
Alignment explanation
Indices: 34097135--34097545 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
34097125 TTAGGATTCT
34097135 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34097182 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34097229 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34097276 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34097323 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34097370 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
34097417 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
34097464 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
34097511 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
34097546 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:34097720 original size:37 final size:37
Alignment explanation
Indices: 34097664--34097742 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
34097654 CCGAGCTCTA
* * *
34097664 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
34097701 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
34097738 AAGAC
1 AAGAC
34097743 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:34105964 original size:6 final size:6
Alignment explanation
Indices: 34105934--34105963 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
34105924 AGGAGCCCTA
*
34105934 TAGGAG TAGGAG TAGGAG TAGGAG CAGGAG
1 TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG
34105964 CTCTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.50, T:0.13
Consensus pattern (6 bp):
TAGGAG
Found at i:34110422 original size:23 final size:22
Alignment explanation
Indices: 34110392--34110436 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
34110382 ATAGCATTGT
34110392 TTTTTTTTTGGGTACAAAAAACA
1 TTTTTTTTT-GGTACAAAAAACA
34110415 TTTTTTTTTGGTACAAAAAACA
1 TTTTTTTTTGGTACAAAAAACA
34110437 ATCATGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (22 bp):
TTTTTTTTTGGTACAAAAAACA
Found at i:34113115 original size:17 final size:18
Alignment explanation
Indices: 34113081--34113126 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
34113071 CCGTTATGTC
34113081 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
34113096 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
34113113 CGCGACCGCGACCG
1 CGCGACCGCGACCG
34113127 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:34116471 original size:47 final size:47
Alignment explanation
Indices: 34116377--34116552 Score: 178
Period size: 47 Copynumber: 3.8 Consensus size: 47
34116367 AAATTAAGAC
* * * * * * *
34116377 CCGAGCTCGTTGAGTTGCGTTCCGAGTTCGTGA-GAATTATGAGGCAT
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGA-TGTCAAGCAT
* * *
34116424 CTGAACTCATTGAGTTGCATTCCGAGTTCACTTATGGATG-CAAGCAT
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGTCAAGCAT
* * *
34116471 CCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGTGAA-CAC
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGTCAAGCAT
* *
34116517 CCGAGCTCGTTGAGTTGCGTTCTGAGTTCATTATGG
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
34116553 GTGAAAATAT
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
46 44 0.41
47 58 0.54
48 3 0.03
49 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGTCAAGCAT
Found at i:34121990 original size:22 final size:22
Alignment explanation
Indices: 34121962--34122005 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
34121952 TCAAATCTCA
*
34121962 GTGTTCAGCTAACAATGGATGG
1 GTGTTCAACTAACAATGGATGG
34121984 GTGTTCAACTAACAATGGATGG
1 GTGTTCAACTAACAATGGATGG
34122006 ATGCTACTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (22 bp):
GTGTTCAACTAACAATGGATGG
Found at i:34125714 original size:44 final size:46
Alignment explanation
Indices: 34125660--34125749 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
34125650 AATATCTATC
* *
34125660 CCATTCAACCAAATAAAAGAA-TACT-ATTACAGCTTTATTCCATT
1 CCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
**
34125704 CCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATT
1 CCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
34125750 ACAGCTCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.45
45 4 0.10
46 18 0.45
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (46 bp):
CCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
Found at i:34125752 original size:16 final size:16
Alignment explanation
Indices: 34125731--34125785 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
34125721 TGAATTACTG
34125731 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
34125747 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
34125763 ATTATAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
34125779 ATTACAG
1 ATTACAG
34125786 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:34131766 original size:16 final size:17
Alignment explanation
Indices: 34131740--34131779 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
34131730 TGTGTCTCTC
*
34131740 CTTTCTTCTTTCTTTCT
1 CTTTCTTCTTTATTTCT
*
34131757 CTTT-TTCTTTATTTTT
1 CTTTCTTCTTTATTTCT
34131773 CTTTCTT
1 CTTTCTT
34131780 AATTTTGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (17 bp):
CTTTCTTCTTTATTTCT
Found at i:34147430 original size:18 final size:18
Alignment explanation
Indices: 34147392--34147431 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34147382 ACTTTAGACT
*
34147392 TTTTTCATTTTCTATATA
1 TTTTTCATTTTCTATAAA
34147410 TTTTTCTATTTTCT-TAAA
1 TTTTTC-ATTTTCTATAAA
34147428 TTTT
1 TTTT
34147432 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTCATTTTCTATAAA
Found at i:34149154 original size:21 final size:21
Alignment explanation
Indices: 34149102--34149161 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
34149092 AAAAATATAT
34149102 AAAATTATTAAATATTAAATTA
1 AAAATT-TTAAATATTAAATTA
* *
34149124 AAAA-TATAAATA-TATATTTA
1 AAAATTTTAAATATTA-AATTA
*
34149144 AAAATTTTAAAAATTAAA
1 AAAATTTTAAATATTAAA
34149162 ATGGGTGGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 8 0.27
22 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATTTTAAATATTAAATTA
Found at i:34154648 original size:2 final size:2
Alignment explanation
Indices: 34154641--34154667 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34154631 GTAAATCATA
34154641 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
34154668 AGGTTTAAAA
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:34155570 original size:7 final size:7
Alignment explanation
Indices: 34155558--34155582 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34155548 AATATTTTCT
34155558 AAAAATG
1 AAAAATG
34155565 AAAAATG
1 AAAAATG
34155572 AAAAATG
1 AAAAATG
34155579 AAAA
1 AAAA
34155583 TAGAAAATAT
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:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:34155575 original size:13 final size:15
Alignment explanation
Indices: 34155558--34155589 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
34155548 AATATTTTCT
34155558 AAAAATGAAAAAT-G
1 AAAAATGAAAAATAG
34155572 AAAAATG-AAAATAG
1 AAAAATGAAAAATAG
34155586 AAAA
1 AAAA
34155590 TATTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAATGAAAAATAG
Found at i:34163110 original size:20 final size:20
Alignment explanation
Indices: 34163085--34163122 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
34163075 GTCGAAGTTG
34163085 ATCTTGCTTACACCCGAAAC
1 ATCTTGCTTACACCCGAAAC
34163105 ATCTTGCTTACACCCGAA
1 ATCTTGCTTACACCCGAA
34163123 TTATCACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.34, G:0.11, T:0.26
Consensus pattern (20 bp):
ATCTTGCTTACACCCGAAAC
Found at i:34163666 original size:27 final size:27
Alignment explanation
Indices: 34163636--34163694 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
34163626 TATTGTGCTT
*
34163636 TGTTGCCCGACAAAGCTTACAGTACAA
1 TGTTGCCCGACAAAGCTCACAGTACAA
*
34163663 TGTTGCCCGACAAAGCTCACGGTACAA
1 TGTTGCCCGACAAAGCTCACAGTACAA
34163690 TGTTG
1 TGTTG
34163695 ATAATACTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (27 bp):
TGTTGCCCGACAAAGCTCACAGTACAA
Found at i:34166290 original size:23 final size:23
Alignment explanation
Indices: 34166263--34166306 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
34166253 GATTAAGCGC
*
34166263 GCAAGTGATAGTGACACTACAGT
1 GCAAGTGAAAGTGACACTACAGT
*
34166286 GCAAGTGAAAGTGGCACTACA
1 GCAAGTGAAAGTGACACTACA
34166307 TGATGGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (23 bp):
GCAAGTGAAAGTGACACTACAGT
Found at i:34171719 original size:19 final size:19
Alignment explanation
Indices: 34171677--34171720 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
34171667 ATATTTTAAA
34171677 TTTATTTAGGTAGATGAAT
1 TTTATTTAGGTAGATGAAT
*
34171696 CTTATTTAGGTAGAT-AAGT
1 TTTATTTAGGTAGATGAA-T
34171715 TTTATT
1 TTTATT
34171721 CATATTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (19 bp):
TTTATTTAGGTAGATGAAT
Found at i:34171796 original size:42 final size:42
Alignment explanation
Indices: 34171737--34171825 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
34171727 CTAGGAATAT
* *
34171737 TTTTATTTTATCTTTTAGTAGTTTATTAGAAGAAGCGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
* *
34171779 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
34171821 TTTTC
1 TTTTC
34171826 CTAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
Found at i:34174231 original size:41 final size:41
Alignment explanation
Indices: 34174142--34174229 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
34174132 GCACGCTCTT
* *
34174142 GAAAAAATAGGTACATGGGAAACAATAGAAGTACCTGTAGG
1 GAAAAAACAGGTACATGGAAAACAATAGAAGTACCTGTAGG
* *
34174183 GAAAAAACAGGTACATGGAAAACAGT-GGAGTA-CTGGTAGG
1 GAAAAAACAGGTACATGGAAAACAATAGAAGTACCT-GTAGG
34174223 GAAAAAA
1 GAAAAAA
34174230 ACTGTGGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.05
40 17 0.40
41 23 0.55
ACGTcount: A:0.48, C:0.09, G:0.28, T:0.15
Consensus pattern (41 bp):
GAAAAAACAGGTACATGGAAAACAATAGAAGTACCTGTAGG
Found at i:34175718 original size:19 final size:19
Alignment explanation
Indices: 34175672--34175719 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
34175662 GTATATATTT
34175672 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34175690 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34175709 TAAGTTTTATT
1 TAAATTTTATT
34175720 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:34177323 original size:31 final size:30
Alignment explanation
Indices: 34177261--34177322 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 30
34177251 ATGTGTCAGA
34177261 TGACATCATTTTTAAAAAAAAATAAATTTTT
1 TGACATCATTTTT-AAAAAAAATAAATTTTT
34177292 TGACATCAATTTTT-AAAAAAATAAATTTTT
1 TGACATC-ATTTTTAAAAAAAATAAATTTTT
34177322 T
1 T
34177323 TCTTACCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 17 0.57
31 7 0.23
32 6 0.20
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (30 bp):
TGACATCATTTTTAAAAAAAATAAATTTTT
Done.