Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 9 of 50
Found at i:5083501 original size:22 final size:22
Alignment explanation
Indices: 5083473--5083516 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5083463 AATTAAAATT
5083473 ATTATGTCTCTTTATATGAAAA
1 ATTATGTCTCTTTATATGAAAA
* * *
5083495 ATTATGTTTTTTTATTTGAAAA
1 ATTATGTCTCTTTATATGAAAA
5083517 GTCAAATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (22 bp):
ATTATGTCTCTTTATATGAAAA
Found at i:5088483 original size:29 final size:29
Alignment explanation
Indices: 5088437--5088547 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
5088427 GTAGAAGCTA
* *
5088437 ATAA-AGAAG-AGTTGTACGTGAACCGGT
1 ATAAGAGAAGAAGCTGTACGTGAACAGGT
* * *
5088464 ATAAGAGAGGAAGCTATACGTGAATAGGT
1 ATAAGAGAAGAAGCTGTACGTGAACAGGT
* *
5088493 ATAAGAGAACAAGCTGTACATGAACAGGT
1 ATAAGAGAAGAAGCTGTACGTGAACAGGT
* *
5088522 ACAAGAGAAGAAGTTGTACGTGAACA
1 ATAAGAGAAGAAGCTGTACGTGAACA
5088548 TATACAAGAG
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 4 0.06
28 4 0.06
29 60 0.88
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (29 bp):
ATAAGAGAAGAAGCTGTACGTGAACAGGT
Found at i:5088542 original size:58 final size:58
Alignment explanation
Indices: 5088449--5088563 Score: 140
Period size: 58 Copynumber: 2.0 Consensus size: 58
5088439 AAAGAAGAGT
* * * * * * *
5088449 TGTACGTGAACCGGTATAAGAGAGGAAGCTATACGTGAATAGGTATAAGAGAACAAGC
1 TGTACATGAACAGGTACAAGAGAAGAAGCTATACGTGAACAGATACAAGAGAACAAGC
* * *
5088507 TGTACATGAACAGGTACAAGAGAAGAAGTTGTACGTGAACATATACAAGAGAACAAG
1 TGTACATGAACAGGTACAAGAGAAGAAGCTATACGTGAACAGATACAAGAGAACAAG
5088564 ATAAAAACAG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.43, C:0.12, G:0.27, T:0.18
Consensus pattern (58 bp):
TGTACATGAACAGGTACAAGAGAAGAAGCTATACGTGAACAGATACAAGAGAACAAGC
Found at i:5088553 original size:29 final size:29
Alignment explanation
Indices: 5088441--5088559 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 29
5088431 AAGCTAATAA
* * *
5088441 AGAAG-AGTTGTACGTGAACCGGTATAAG
1 AGAAGAAGCTGTACGTGAACAGGTACAAG
* * * *
5088469 AGAGGAAGCTATACGTGAATAGGTATAAG
1 AGAAGAAGCTGTACGTGAACAGGTACAAG
* *
5088498 AGAACAAGCTGTACATGAACAGGTACAAG
1 AGAAGAAGCTGTACGTGAACAGGTACAAG
* **
5088527 AGAAGAAGTTGTACGTGAACATATACAAG
1 AGAAGAAGCTGTACGTGAACAGGTACAAG
5088556 AGAA
1 AGAA
5088560 CAAGATAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 4 0.05
29 70 0.95
ACGTcount: A:0.43, C:0.11, G:0.28, T:0.18
Consensus pattern (29 bp):
AGAAGAAGCTGTACGTGAACAGGTACAAG
Found at i:5093959 original size:2 final size:2
Alignment explanation
Indices: 5093952--5093986 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5093942 CAACATATTT
5093952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5093987 TAATTTACAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5094063 original size:2 final size:2
Alignment explanation
Indices: 5094056--5094092 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5094046 TATNATTTAT
5094056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5094093 TTACATTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5094129 original size:102 final size:103
Alignment explanation
Indices: 5093951--5094150 Score: 377
Period size: 102 Copynumber: 2.0 Consensus size: 103
5093941 GCAACATATT
5093951 TTATATATATATATATATATATATATATATATATATTAATTTACATTCATGGAAAAAACTAATTT
1 TTATATATATATATATATATATATATATATATATATTAATTTACATTCATGGAAAAAACTAATTT
5094016 CTCAACATTGAAATTCTTCCTATATGGTAGTATNATTTA
66 CTCAACATTGAAATTCTTCCTATATGGTAGTAT-ATTTA
5094055 TTATATATATATATATATATATATATATATATATA-T-ATTTACATTCATGGAAAAAACTAATTT
1 TTATATATATATATATATATATATATATATATATATTAATTTACATTCATGGAAAAAACTAATTT
5094118 CTCAACATTGAAATTCTTCCTATATGGTAGTAT
66 CTCAACATTGAAATTCTTCCTATATGGTAGTAT
5094151 GAAAAAGAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 60 0.62
103 1 0.01
104 35 0.36
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (103 bp):
TTATATATATATATATATATATATATATATATATATTAATTTACATTCATGGAAAAAACTAATTT
CTCAACATTGAAATTCTTCCTATATGGTAGTATATTTA
Found at i:5095301 original size:42 final size:47
Alignment explanation
Indices: 5095248--5095338 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 47
5095238 ATTATCTATA
* *
5095248 TATTTTCTTTTTTTGTCAT-TTTT-TA-TTAT-T-TAATTATTATTT
1 TATTTTATTTTTTTATCATGTTTTCTATTTATGTCTAATTATTATTT
5095290 TATTTTATTTTTTTATCATGTTTTCTATTTTATGTCTAATTATTATTT
1 TATTTTATTTTTTTATCATGTTTTCTA-TTTATGTCTAATTATTATTT
5095338 T
1 T
5095339 TTATACCTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 17 0.41
43 4 0.10
44 2 0.05
46 4 0.10
47 1 0.02
48 13 0.32
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.71
Consensus pattern (47 bp):
TATTTTATTTTTTTATCATGTTTTCTATTTATGTCTAATTATTATTT
Found at i:5095514 original size:29 final size:29
Alignment explanation
Indices: 5095440--5095514 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
5095430 CAAGAATTTT
* * *
5095440 ATTATTT-TTTTACTATTTTTTATTTTTAT
1 ATTATTTATTATA-TATTTTTTATATTTAG
*
5095469 ATTATTTATTATATATTTTTTATATTTCG
1 ATTATTTATTATATATTTTTTATATTTAG
*
5095498 ATTGTTATATTAT-TATT
1 ATTATT-TATTATATATT
5095515 ATTATTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 29 0.74
30 10 0.26
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (29 bp):
ATTATTTATTATATATTTTTTATATTTAG
Found at i:5095868 original size:3 final size:3
Alignment explanation
Indices: 5095853--5095887 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
5095843 ATTTTTCTAT
* *
5095853 TTA TTA TTT TTA TTA TTA TTA CTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5095888 TTGAAGATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5095868 original size:12 final size:12
Alignment explanation
Indices: 5095792--5095889 Score: 51
Period size: 12 Copynumber: 7.7 Consensus size: 12
5095782 ACATATTTGA
*
5095792 ATTATTGTTATT
1 ATTATTTTTATT
*
5095804 ATCA-TTTTATT
1 ATTATTTTTATT
5095815 -TT-TTATTTATT
1 ATTATT-TTTATT
5095826 ATTTGATATTTTGAATT
1 A-TT-AT-TTTT--ATT
*
5095843 ATT-TTTCTATTT
1 ATTATTTTTA-TT
5095855 ATTATTTTTATT
1 ATTATTTTTATT
5095867 ATTATTACTATTATT
1 ATTATT--T-TTATT
5095882 ATTATTTT
1 ATTATTTT
5095890 GAAGATTTTG
Statistics
Matches: 67, Mismatches: 5, Indels: 28
0.67 0.05 0.28
Matches are distributed among these distances:
10 2 0.03
11 13 0.19
12 17 0.25
13 11 0.16
14 2 0.03
15 15 0.22
16 3 0.04
17 4 0.06
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (12 bp):
ATTATTTTTATT
Found at i:5096188 original size:16 final size:17
Alignment explanation
Indices: 5096162--5096194 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5096152 TTTGATATCC
5096162 ACATATTTTATTCTATT
1 ACATATTTTATTCTATT
*
5096179 ACAT-TTTTATTTTATT
1 ACATATTTTATTCTATT
5096195 TTTTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (17 bp):
ACATATTTTATTCTATT
Found at i:5103642 original size:2 final size:2
Alignment explanation
Indices: 5103630--5103734 Score: 122
Period size: 2 Copynumber: 52.0 Consensus size: 2
5103620 GAAAGCTGGG
*
5103630 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * ** *
5103672 AT AT AT -T AT TT NAG CT GGG AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT -AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
5103715 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
5103735 TTACTCTTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
1 1 0.01
2 86 0.99
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5103758 original size:3 final size:3
Alignment explanation
Indices: 5103750--5103774 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5103740 CTTTACTTAC
5103750 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
5103775 TAGGAAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5111920 original size:80 final size:80
Alignment explanation
Indices: 5111787--5111946 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
5111777 TGTAAAATAA
*
5111787 TATTTTAAAATCATTCCTAATTAAATAGTGCTTATAAACACTCGTTAATGGAACCTTTCAGTAAA
1 TATTTTAAAATCATTCCTAATAAAATAGTGCTTATAAACACTCGTTAATGGAACCTTTCAGTAAA
5111852 TTTAGTGCATAAGTT
66 TTTAGTGCATAAGTT
5111867 TATTTTAAAATCATTCCTAATAAAATAGTGCTTATAAACACTCGTTAATGGAACCTTTCAGTAAA
1 TATTTTAAAATCATTCCTAATAAAATAGTGCTTATAAACACTCGTTAATGGAACCTTTCAGTAAA
5111932 TTTAGTGCATAAGTT
66 TTTAGTGCATAAGTT
5111947 GATGGTGATG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (80 bp):
TATTTTAAAATCATTCCTAATAAAATAGTGCTTATAAACACTCGTTAATGGAACCTTTCAGTAAA
TTTAGTGCATAAGTT
Found at i:5114084 original size:3 final size:3
Alignment explanation
Indices: 5114076--5114100 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5114066 TAATAAAGAG
5114076 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
5114101 CATTGGCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5132086 original size:18 final size:18
Alignment explanation
Indices: 5132050--5132087 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5132040 TCTTCTAAAA
*
5132050 TTTTAAAATTTAATTATT
1 TTTTAAAATTTAATAATT
5132068 TTTTAAAATGTT-ATAATT
1 TTTTAAAAT-TTAATAATT
5132086 TT
1 TT
5132088 GTTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAAAATTTAATAATT
Found at i:5135364 original size:15 final size:16
Alignment explanation
Indices: 5135341--5135389 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
5135331 ATTTTGTGAA
5135341 AATTTTTTTAAAAAAT
1 AATTTTTTTAAAAAAT
5135357 AATTTTTTTAAAAAAT
1 AATTTTTTTAAAAAAT
*
5135373 AA-TTTTTTAAATAAT
1 AATTTTTTTAAAAAAT
5135388 AA
1 AA
5135390 AATTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 14 0.44
16 18 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTTTTTAAAAAAT
Found at i:5135634 original size:17 final size:17
Alignment explanation
Indices: 5135614--5135646 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5135604 AGATATTATT
5135614 TTTTTC-TTTCTATTTTA
1 TTTTTCATTT-TATTTTA
5135631 TTTTTCATTTTATTTT
1 TTTTTCATTTTATTTT
5135647 CTATCGTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCATTTTATTTTA
Found at i:5135640 original size:12 final size:13
Alignment explanation
Indices: 5135610--5135650 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
5135600 ATTCAGATAT
*
5135610 TATTTTTTTCTTTC
1 TATTTTATT-TTTC
5135624 TATTTTATTTTTC
1 TATTTTATTTTTC
5135637 -ATTTTA-TTTTC
1 TATTTTATTTTTC
5135648 TAT
1 TAT
5135651 CGTTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 5 0.20
12 8 0.32
13 4 0.16
14 8 0.32
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTATTTTTC
Found at i:5137165 original size:20 final size:16
Alignment explanation
Indices: 5137125--5137155 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5137115 TAATATTGTC
5137125 ATATTTTAATTATAAT
1 ATATTTTAATTATAAT
5137141 ATATTTTAATTATAA
1 ATATTTTAATTATAA
5137156 ATAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTTTAATTATAAT
Found at i:5137189 original size:14 final size:15
Alignment explanation
Indices: 5137170--5137198 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5137160 AATATTATTT
5137170 TTTTAAAA-TATTAA
1 TTTTAAAATTATTAA
5137184 TTTTAAAATTATTAA
1 TTTTAAAATTATTAA
5137199 GTGAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAATTATTAA
Found at i:5137331 original size:27 final size:28
Alignment explanation
Indices: 5137301--5137397 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 28
5137291 AATATTTTGA
5137301 ATTTAAAAATTAATTA-AAATTATTAAT
1 ATTTAAAAATTAATTACAAATTATTAAT
*
5137328 ATTTAAATTATAAATTAAATTACCAATTATTAAT
1 ATTT--A--A-AAATT-AATTACAAATTATTAAT
* * *
5137362 ATTT-TAAATCAATTATAAATTATTAAT
1 ATTTAAAAATTAATTACAAATTATTAAT
5137389 ATTTAAAAA
1 ATTTAAAAA
5137398 ATAAANNNNN
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
27 23 0.41
28 7 0.12
29 1 0.02
31 1 0.02
32 5 0.09
33 5 0.09
34 14 0.25
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTTAAAAATTAATTACAAATTATTAAT
Found at i:5141178 original size:19 final size:19
Alignment explanation
Indices: 5141154--5141191 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5141144 ACTTCTTAAC
5141154 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
5141173 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
5141192 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:5141985 original size:26 final size:26
Alignment explanation
Indices: 5141908--5142348 Score: 204
Period size: 26 Copynumber: 16.8 Consensus size: 26
5141898 TGTAATATTA
5141908 TTTCAACATGACGTGTAACAATTTTT
1 TTTCAACATGACGTGTAACAATTTTT
* *
5141934 TTT-AATAT-AAGATGTAACTAACTTTTT
1 TTTCAACATGACG-TGTAAC-AA-TTTTT
* *
5141961 TTTCAACATGACGTATAATAA-TTTT
1 TTTCAACATGACGTGTAACAATTTTT
* *** *
5141986 TTTAAACATGGTTTCTAACAACTTTTT
1 TTTCAACATGACGTGTAACAA-TTTTT
* * * *
5142013 TTTCAACATGACATATAATAACTTTT
1 TTTCAACATGACGTGTAACAATTTTT
* * **
5142039 TTTCTAACATGGCGTGTAATAA--CAT
1 TTTC-AACATGACGTGTAACAATTTTT
* * ** *
5142064 TTTGAATATGATATCTAACAACATTTTT
1 TTTCAACATGACGTGTAAC-A-ATTTTT
* * * *
5142092 TTT-AATATGATGTATAATAACTTTTT
1 TTTCAACATGACGTGTAACAA-TTTTT
* ** * **
5142118 TTT-AATATGATATGTCACAAAAATTT
1 TTTCAACATGACGTGTAAC-AATTTTT
* *
5142144 TTT-AACATGACGTGTAATAACTTTT
1 TTTCAACATGACGTGTAACAATTTTT
* **
5142169 TTTCTAACATGCCGTGTAACAA--CAT
1 TTTC-AACATGACGTGTAACAATTTTT
*
5142194 TTTGAACAT-AGCGTGTAACAATATTTT
1 TTTCAACATGA-CGTGTAACAAT-TTTT
* * * * *
5142221 TTATTAATATGACATATACCAATTTTT
1 TT-TCAACATGACGTGTAACAATTTTT
* * *
5142248 CTTCAACATGGCGTGTAACAAATTTT
1 TTTCAACATGACGTGTAACAATTTTT
* **
5142274 TTTCAACAT-AGCGTGTAATAACATTT
1 TTTCAACATGA-CGTGTAACAATTTTT
5142300 TTTCAACATGACGTGTAACAACTTTTTT
1 TTTCAACATGACGTGTAACAA--TTTTT
*
5142328 TTTCAACATGACGTATAACAA
1 TTTCAACATGACGTGTAACAA
5142349 AAATTTTTTC
Statistics
Matches: 310, Mismatches: 79, Indels: 50
0.71 0.18 0.11
Matches are distributed among these distances:
24 26 0.08
25 47 0.15
26 105 0.34
27 81 0.26
28 48 0.15
29 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (26 bp):
TTTCAACATGACGTGTAACAATTTTT
Found at i:5142039 original size:78 final size:78
Alignment explanation
Indices: 5141928--5142127 Score: 199
Period size: 79 Copynumber: 2.6 Consensus size: 78
5141918 ACGTGTAACA
* * * * **
5141928 ATTTTTTTTAATATAAGATGTAACTAACTTTTTTT-TCAACATGACGTATAATAATTTTTTTAAA
1 ATTTTTTTTAACATGACATATAA-TAACTTTTTTTCT-AACATGACGTATAATAA-CATTTTAAA
* *
5141992 CATGGTTTCTAACAAC
63 CATGATATCTAACAAC
* * * *
5142008 -TTTTTTTTCAACATGACATATAATAACTTTTTTTCTAACATGGCGTGTAATAACATTTTGAATA
1 ATTTTTTTT-AACATGACATATAATAACTTTTTTTCTAACATGACGTATAATAACATTTTAAACA
5142072 TGATATCTAACAAC
65 TGATATCTAACAAC
* ** *
5142086 ATTTTTTTTAATATGATGTATAATAACTTTTTTT-TAATATGA
1 ATTTTTTTTAACATGACATATAATAACTTTTTTTCTAACATGA
5142128 TATGTCACAA
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
77 6 0.06
78 41 0.41
79 42 0.42
80 11 0.11
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.47
Consensus pattern (78 bp):
ATTTTTTTTAACATGACATATAATAACTTTTTTTCTAACATGACGTATAATAACATTTTAAACAT
GATATCTAACAAC
Found at i:5142117 original size:130 final size:129
Alignment explanation
Indices: 5141908--5142326 Score: 393
Period size: 130 Copynumber: 3.2 Consensus size: 129
5141898 TGTAATATTA
** * * * *
5141908 TTTC-AACATGACGTGTAACAATTTTTTTTAATATAAG-ATGTAACTAAC-TTTTTTTTCAACAT
1 TTTCTAACATGACGTGTAACAA-CATTTTGAACAT-AGCATCTAAC-AACATTTTTTTT-AATAT
* * * * *
5141970 GACGTATAATAATTTTTTTAAACATGGTTTCTAACAACTTTTTTTTCAACATGACATATAATAAC
62 GACGTATAATAATTTTTTTAAACATGGTATGTAACAA-ATTTTTTTCAACATGACGTGTAATAAC
5142035 TTTT
126 TTTT
* * * * *
5142039 TTTCTAACATGGCGTGTAATAACATTTTGAATAT-GATATCTAACAACATTTTTTTTAATATGAT
1 TTTCTAACATGACGTGTAACAACATTTTGAACATAG-CATCTAACAACATTTTTTTTAATATGAC
* * * * *
5142103 GTATAATAACTTTTTTTTAATATGATATGTCACAAAAATTTTTT-AACATGACGTGTAATAACTT
65 GTATAATAA-TTTTTTTAAACATGGTATGTAAC-AAATTTTTTTCAACATGACGTGTAATAACTT
5142167 TT
128 TT
* * * *
5142169 TTTCTAACATGCCGTGTAACAACATTTTGAACATAGCGTGTAACAATATTTTTTATTAATATGAC
1 TTTCTAACATGACGTGTAACAACATTTTGAACATAGCATCTAACAACATTTTTT-TTAATATGAC
* ** * ** *
5142234 ATATACCAATTTTTCTTCAACATGGCGTGTAACAAATTTTTTTCAACAT-AGCGTGTAATAACAT
65 GTATAATAATTTTT-TTAAACATGGTATGTAACAAATTTTTTTCAACATGA-CGTGTAATAACTT
5142298 TT
128 TT
*
5142300 TTTC-AACATGACGTGTAACAACTTTTT
1 TTTCTAACATGACGTGTAACAACATTTT
5142327 TTTTCAACAT
Statistics
Matches: 238, Mismatches: 39, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
129 1 0.00
130 119 0.50
131 101 0.42
132 17 0.07
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (129 bp):
TTTCTAACATGACGTGTAACAACATTTTGAACATAGCATCTAACAACATTTTTTTTAATATGACG
TATAATAATTTTTTTAAACATGGTATGTAACAAATTTTTTTCAACATGACGTGTAATAACTTTT
Found at i:5142301 original size:28 final size:26
Alignment explanation
Indices: 5141908--5142359 Score: 159
Period size: 27 Copynumber: 17.2 Consensus size: 26
5141898 TGTAATATTA
5141908 TTTCAACATGACGTGTAAC-A-ATTTT
1 TTTCAACATG-CGTGTAACAACATTTT
* * ** *
5141933 TTTTAATATAAGATGTAACTAACTTTTT
1 TTTCAACATGCG-TGTAAC-AACATTTT
* *
5141961 TTTCAACATGACGTATAA-TA-ATTTT
1 TTTCAACATG-CGTGTAACAACATTTT
* * *
5141986 TTTAAACATG-GTTTCTAACAACTTTTT
1 TTTCAACATGCG--TGTAACAACATTTT
* * *
5142013 TTTCAACATGACATATAATAAC-TTTT
1 TTTCAACATG-CGTGTAACAACATTTT
*
5142039 TTTCTAACATGGCGTGTAATAACA---T
1 TTTC-AACAT-GCGTGTAACAACATTTT
* * ** *
5142064 TTTGAATATGATATCTAACAACATTTT
1 TTTCAACATG-CGTGTAACAACATTTT
* * * * *
5142091 TTTTAATATGATGTATAATAAC-TTTT
1 TTTCAACATG-CGTGTAACAACATTTT
* * ** * * *
5142117 TTTTAATATGATATGTCACAAAAATTT
1 TTTCAACATG-CGTGTAACAACATTTT
*
5142144 TTT-AACATGACGTGTAATAAC-TTTT
1 TTTCAACATG-CGTGTAACAACATTTT
5142169 TTTCTAACATGCCGTGTAACAACA---T
1 TTTC-AACATG-CGTGTAACAACATTTT
* *
5142194 TTTGAACATAGCGTGTAACAATATTTT
1 TTTCAACAT-GCGTGTAACAACATTTT
* * * * *
5142221 TTATTAATATGACATAT-ACCA-ATTTT
1 TT-TCAACATG-CGTGTAACAACATTTT
5142247 TCTTCAACATGGCGTGTAACAA-ATTTT
1 T-TTCAACAT-GCGTGTAACAACATTTT
*
5142274 TTTCAACATAGCGTGTAATAACA-TTT
1 TTTCAACAT-GCGTGTAACAACATTTT
*
5142300 TTTCAACATGACGTGTAACAACTTTTTT
1 TTTCAACATG-CGTGTAACAAC-ATTTT
* * *
5142328 TTTCAACATGACGTATAACAAAAATTT
1 TTTCAACATG-CGTGTAACAACATTTT
5142355 TTTCA
1 TTTCA
5142360 CTTGCGTTTG
Statistics
Matches: 325, Mismatches: 67, Indels: 68
0.71 0.15 0.15
Matches are distributed among these distances:
23 2 0.01
24 29 0.09
25 46 0.14
26 97 0.30
27 103 0.32
28 47 0.14
29 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (26 bp):
TTTCAACATGCGTGTAACAACATTTT
Found at i:5142329 original size:54 final size:52
Alignment explanation
Indices: 5141912--5142359 Score: 198
Period size: 53 Copynumber: 8.5 Consensus size: 52
5141902 ATATTATTTC
* * * * *
5141912 AACATGACGTGTAACAA-TTTTTTTTAATAT-AAGATGTAACTAACTTTTTTTTC
1 AACATGACGTGTAACAACATTTTTTCAACATGACG-TGTAAC-AA-TTTTTTTTT
* * * * *** * *
5141965 AACATGACGTATAATAA-TTTTTTTAAACATGGTTTCTAACAACTTTTTTTTC
1 AACATGACGTGTAACAACATTTTTTCAACATGACGTGTAACAA-TTTTTTTTT
* * * * * * ** *
5142017 AACATGACATATAATAACTTTTTTTCTAACATGGCGTGTAATAA--CATTTTG
1 AACATGACGTGTAACAACATTTTTTC-AACATGACGTGTAACAATTTTTTTTT
* ** * * * * * * *
5142068 AATATGATATCTAACAACATTTTTTTTAATATGATGTATAATAACTTTTTTTT
1 AACATGACGTGTAACAACA-TTTTTTCAACATGACGTGTAACAATTTTTTTTT
* ** * * * *
5142121 AATATGATATGTCACAAAAATTTTTT-AACATGACGTGTAATAACTTTTTTTCT
1 AACATGACGTGTAAC-AACATTTTTTCAACATGACGTGTAACAA-TTTTTTTTT
* *
5142174 AACATGCCGTGTAACAACA--TTTTGAACAT-AGCGTGTAACAATATTTTTTATT
1 AACATGACGTGTAACAACATTTTTTCAACATGA-CGTGTAACAAT-TTTTTT-TT
* * * * * * * *
5142226 AATATGACATATACCAA-TTTTTCTTCAACATGGCGTGTAACAAATTTTTTTC
1 AACATGACGTGTAACAACATTTT-TTCAACATGACGTGTAACAATTTTTTTTT
*
5142278 AACAT-AGCGTGTAATAACATTTTTTCAACATGACGTGTAACAACTTTTTTTTT
1 AACATGA-CGTGTAACAACATTTTTTCAACATGACGTGTAACAA-TTTTTTTTT
* *
5142331 CAACATGACGTATAACAAAAATTTTTTCA
1 -AACATGACGTGTAAC-AACATTTTTTCA
5142360 CTTGCGTTTG
Statistics
Matches: 305, Mismatches: 68, Indels: 42
0.73 0.16 0.10
Matches are distributed among these distances:
50 6 0.02
51 52 0.17
52 94 0.31
53 97 0.32
54 44 0.14
55 12 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (52 bp):
AACATGACGTGTAACAACATTTTTTCAACATGACGTGTAACAATTTTTTTTT
Found at i:5145111 original size:21 final size:20
Alignment explanation
Indices: 5145074--5145112 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
5145064 CTATTATATA
*
5145074 TTATAATATTAACATATAAC
1 TTATAATATTAAAATATAAC
*
5145094 TTATATTATTTAAAATATA
1 TTATAATA-TTAAAATATA
5145113 TAACTTGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATAATATTAAAATATAAC
Found at i:5145985 original size:29 final size:31
Alignment explanation
Indices: 5145938--5146009 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
5145928 TTTAAAAAAC
5145938 ATTTAAATAAAAATCTTTAT-TTTCTTATTAT
1 ATTTAAATAAAAATCTTTATATTT-TTATTAT
* *
5145969 ATTT-AATCAAAAT-TTTATATTTTTATTTT
1 ATTTAAATAAAAATCTTTATATTTTTATTAT
*
5145998 AAATTAAATAAA
1 -ATTTAAATAAA
5146010 TAGTTACAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 11 0.32
30 14 0.41
31 9 0.26
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTAAATAAAAATCTTTATATTTTTATTAT
Found at i:5146291 original size:75 final size:76
Alignment explanation
Indices: 5146168--5146313 Score: 231
Period size: 75 Copynumber: 1.9 Consensus size: 76
5146158 AATAAGTATG
* * * *
5146168 ATTTTGATTAACAATAATTAGTCCTTCATCAGTTATGAAGACTTATTTAGTTTAAAAT-AAAATA
1 ATTTTGATTAACAATAATTAGTCCTCCATCAATTATAAAGACTTATTTAGTTCAAAATAAAAATA
*
5146232 TGAAAACCTTA
66 TAAAAACCTTA
*
5146243 ATTTTGATTAACAATAATTATTCCTCCATCAATTATAAAGACTTATTTAGTTCAAAATAAAAATA
1 ATTTTGATTAACAATAATTAGTCCTCCATCAATTATAAAGACTTATTTAGTTCAAAATAAAAATA
5146308 TAAAAA
66 TAAAAA
5146314 GTTTAAAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
75 53 0.83
76 11 0.17
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.38
Consensus pattern (76 bp):
ATTTTGATTAACAATAATTAGTCCTCCATCAATTATAAAGACTTATTTAGTTCAAAATAAAAATA
TAAAAACCTTA
Found at i:5146328 original size:21 final size:22
Alignment explanation
Indices: 5146291--5146340 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
5146281 AGACTTATTT
*
5146291 AGTTCAAAATAAAAATATAAAA
1 AGTTTAAAATAAAAATATAAAA
5146313 AGTTTAAAAT-AAAATATAAAA
1 AGTTTAAAATAAAAATATAAAA
*
5146334 ACTTTAA
1 AGTTTAA
5146341 TTTTGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (22 bp):
AGTTTAAAATAAAAATATAAAA
Found at i:5146328 original size:97 final size:97
Alignment explanation
Indices: 5146216--5146415 Score: 330
Period size: 97 Copynumber: 2.1 Consensus size: 97
5146206 AGACTTATTT
* *
5146216 AGTTTAAAATAAAATATGAAAACCTTAATTTTGATTAACAATAATTATTCCTCCATCAATTATAA
1 AGTTTAAAATAAAATATAAAAACCTTAATTTTGATTAACAATAATTAGTCCTCCATCAATTATAA
5146281 AGACTTATTTAG-TTCAAAATAAAAATATAAAA
66 AGACTTATTTAGATT-AAAATAAAAATATAAAA
* * *
5146313 AGTTTAAAATAAAATATAAAAACTTTAATTTTGATTAACAATAATTAGTCCTCTATCAATTATGA
1 AGTTTAAAATAAAATATAAAAACCTTAATTTTGATTAACAATAATTAGTCCTCCATCAATTATAA
5146378 AGACTTATTTAGATTAAAATAAAAATATAAAA
66 AGACTTATTTAGATTAAAATAAAAATATAAAA
*
5146410 ATTTTA
1 AGTTTA
5146416 TTAAATATAA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
97 94 0.98
98 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (97 bp):
AGTTTAAAATAAAATATAAAAACCTTAATTTTGATTAACAATAATTAGTCCTCCATCAATTATAA
AGACTTATTTAGATTAAAATAAAAATATAAAA
Found at i:5151035 original size:11 final size:10
Alignment explanation
Indices: 5151015--5151041 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
5151005 ATTTGTAATG
5151015 ATTTTTAAAA
1 ATTTTTAAAA
5151025 ATTTTTAAAA
1 ATTTTTAAAA
5151035 ATTTTTA
1 ATTTTTA
5151042 TTTATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:5151183 original size:14 final size:14
Alignment explanation
Indices: 5151164--5151198 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
5151154 TTACTCCACA
5151164 TCTTTTTCTCTCTT-
1 TCTTTTTCTCT-TTC
5151178 TCTTTTTCTCTTTC
1 TCTTTTTCTCTTTC
5151192 TCTTTTT
1 TCTTTTT
5151199 TTTTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TCTTTTTCTCTTTC
Found at i:5151466 original size:16 final size:17
Alignment explanation
Indices: 5151436--5151472 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
5151426 TTCTTCCTTT
5151436 TATTTATATTATTTAAC
1 TATTTATATTATTTAAC
*
5151453 TATTTATA-TATTTAAT
1 TATTTATATTATTTAAC
5151469 TATT
1 TATT
5151473 GGGTGAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTATATTATTTAAC
Found at i:5154497 original size:15 final size:15
Alignment explanation
Indices: 5154451--5154501 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 15
5154441 TTGAAGTATT
5154451 TTTTTAAAAATA--A
1 TTTTTAAAAATAGTA
5154464 TTTTTAAAAATAAGATA
1 TTTTTAAAAAT-AG-TA
*
5154481 TTTTAAAAAATAGTA
1 TTTTTAAAAATAGTA
5154496 TTTTTA
1 TTTTTA
5154502 TAATTTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 11 0.34
14 1 0.03
15 7 0.22
16 2 0.06
17 11 0.34
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
TTTTTAAAAATAGTA
Found at i:5154500 original size:16 final size:15
Alignment explanation
Indices: 5154450--5154501 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
5154440 TTTGAAGTAT
*
5154450 TTTTTTAAAAATA-A
1 TTTTTAAAAAATAGA
5154464 TTTTT-AAAAATAAGA
1 TTTTTAAAAAAT-AGA
5154479 TATTTTAAAAAATAGTA
1 T-TTTTAAAAAATAG-A
5154496 TTTTTA
1 TTTTTA
5154502 TAATTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.18
14 6 0.18
15 2 0.06
16 11 0.33
17 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (15 bp):
TTTTTAAAAAATAGA
Found at i:5154604 original size:24 final size:24
Alignment explanation
Indices: 5154577--5154651 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 24
5154567 TACAAATTAC
5154577 GTACAAAAATATGTTACACGTCAT
1 GTACAAAAATATGTTACACGTCAT
* *
5154601 GTACAAAAACATGTTA-TCGTCAT
1 GTACAAAAATATGTTACACGTCAT
*
5154624 GGTTA-AAAAATATTGTTACACGTTAT
1 -G-TACAAAAATA-TGTTACACGTCAT
5154650 GT
1 GT
5154652 TGAAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 6 0.14
24 23 0.55
25 8 0.19
26 5 0.12
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (24 bp):
GTACAAAAATATGTTACACGTCAT
Found at i:5154657 original size:25 final size:24
Alignment explanation
Indices: 5154581--5154659 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
5154571 AATTACGTAC
5154581 AAAAATATGTTACACGTCATG-TA
1 AAAAATATGTTACACGTCATGTTA
* *
5154604 CAAAAACATGTTA-TCGTCATGGTTA
1 -AAAAATATGTTACACGTCAT-GTTA
*
5154629 AAAAATATTGTTACACGTTATGTTGA
1 AAAAATA-TGTTACACGTCATGTT-A
5154655 AAAAA
1 AAAAA
5154660 AATATTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
23 6 0.13
24 18 0.40
25 10 0.22
26 11 0.24
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (24 bp):
AAAAATATGTTACACGTCATGTTA
Found at i:5154677 original size:31 final size:30
Alignment explanation
Indices: 5154634--5154699 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
5154624 GGTTAAAAAA
* * *
5154634 TATTGTTACACGTTATGTTGAAAAAAAATAT
1 TATTATTACACGTCATATT-AAAAAAAATAT
* *
5154665 TATTATTACACGTCATATTAAAAAACATTT
1 TATTATTACACGTCATATTAAAAAAAATAT
5154695 TATTA
1 TATTA
5154700 CACTTTAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (30 bp):
TATTATTACACGTCATATTAAAAAAAATAT
Found at i:5166552 original size:21 final size:21
Alignment explanation
Indices: 5166528--5166570 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5166518 AAAGGGAAAA
*
5166528 CCCAAGTTGAGGTACATTAAT
1 CCCAAGTTGACGTACATTAAT
*
5166549 CCCAAGTTGACGTATATTAAT
1 CCCAAGTTGACGTACATTAAT
5166570 C
1 C
5166571 AAGAGAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (21 bp):
CCCAAGTTGACGTACATTAAT
Found at i:5178062 original size:2 final size:2
Alignment explanation
Indices: 5178055--5178091 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5178045 TTCCTTTATT
5178055 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5178092 TTTTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5193008 original size:3 final size:3
Alignment explanation
Indices: 5193000--5193029 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5192990 ATATTTTTTA
5193000 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5193030 TTAGTTGGAA
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:5194140 original size:43 final size:42
Alignment explanation
Indices: 5194061--5194141 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
5194051 CACTTACATG
* *
5194061 GCTGTTGAGCATGATCTGAATGATGGCTTTGATAATTTGAGT
1 GCTGTTGAGCATGATCTGAATGATGACTTCGATAATTTGAGT
* * *
5194103 GCTGTTGAGTATGATTTGAAATGATGACTTCGCTAATTT
1 GCTGTTGAGCATGATCTG-AATGATGACTTCGATAATTT
5194142 AAAGTGCCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 16 0.48
43 17 0.52
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.40
Consensus pattern (42 bp):
GCTGTTGAGCATGATCTGAATGATGACTTCGATAATTTGAGT
Found at i:5194185 original size:45 final size:44
Alignment explanation
Indices: 5194114--5194198 Score: 100
Period size: 45 Copynumber: 1.9 Consensus size: 44
5194104 CTGTTGAGTA
*
5194114 TGATTTGAAATGATGACTTCGCTAATTTAAAGTGCCATGGAAACT
1 TGATTTGAAATGATGACTTCGATAA-TTAAAGTGCCATGGAAACT
* * * *
5194159 TGATTTGAAATGCTGGA-TTTGATAATTAAATTGCTATGGA
1 TGATTTGAAATGAT-GACTTCGATAATTAAAGTGCCATGGA
5194199 TCATGGTTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
44 13 0.38
45 19 0.56
46 2 0.06
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (44 bp):
TGATTTGAAATGATGACTTCGATAATTAAAGTGCCATGGAAACT
Found at i:5194286 original size:30 final size:30
Alignment explanation
Indices: 5194237--5194418 Score: 113
Period size: 30 Copynumber: 5.9 Consensus size: 30
5194227 TATTTTGAAA
* *
5194237 AAAAATATATTAGACGATTAAATTGTAAAGG
1 AAAAA-ATATTAGAGGATTAAATTGAAAAGG
*
5194268 AAAAAATATT-GAAGGATTAAATT-AAAAAG
1 AAAAAATATTAG-AGGATTAAATTGAAAAGG
* *
5194297 AAAGAAAGTGTTAGAGAATTAAATTGAAAAGG
1 AAA-AAA-TATTAGAGGATTAAATTGAAAAGG
* * * * *
5194329 AAAAAATGTT-GCAGAAATAAATTAAAAAGA
1 AAAAAATATTAG-AGGATTAAATTGAAAAGG
* * ** *
5194359 AAATAAAT-TTGGAAGACCAAATTGAAAAGAA
1 AAA-AAATATTAGAGGATTAAATTGAAAAG-G
5194390 AAATAAATATTA-AGAGATTAAATTGAAAA
1 AAA-AAATATTAGAG-GATTAAATTGAAAA
5194419 AAAAAGATAA
Statistics
Matches: 122, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
29 9 0.07
30 54 0.44
31 36 0.30
32 23 0.19
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.24
Consensus pattern (30 bp):
AAAAAATATTAGAGGATTAAATTGAAAAGG
Found at i:5196657 original size:21 final size:19
Alignment explanation
Indices: 5196605--5196657 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 19
5196595 ATTGAATAAT
5196605 TTAAATAGTAATATTTTAAG
1 TTAAATA-TAATATTTTAAG
5196625 TTAAA-AT--T-TTTTGAAG
1 TTAAATATAATATTTT-AAG
5196641 TTAAATATTAATATTTT
1 TTAAATA-TAATATTTT
5196658 TTATTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 1 0.04
18 2 0.07
19 1 0.04
20 6 0.22
21 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TTAAATATAATATTTTAAG
Found at i:5197772 original size:35 final size:35
Alignment explanation
Indices: 5197690--5197773 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 35
5197680 AGCATTTCCG
* **
5197690 AGTGGGGTAGAAATACTATTGATTGTGCACTGCCA
1 AGTGGGGTAGAAATACTATTGATTGAGCACCACCA
* * *
5197725 AGTAGGGCAGAAATACTACTT-TTTGAGCACCACCA
1 AGTGGGGTAGAAATACTA-TTGATTGAGCACCACCA
*
5197760 GGTGGGGTAGAAAT
1 AGTGGGGTAGAAAT
5197774 GCCACTGATC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
35 37 0.95
36 2 0.05
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (35 bp):
AGTGGGGTAGAAATACTATTGATTGAGCACCACCA
Found at i:5202429 original size:7 final size:7
Alignment explanation
Indices: 5202417--5202441 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5202407 TATATAAGGT
5202417 TTTTCCA
1 TTTTCCA
5202424 TTTTCCA
1 TTTTCCA
5202431 TTTTCCA
1 TTTTCCA
5202438 TTTT
1 TTTT
5202442 AATGTTCTTG
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:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTCCA
Found at i:5208765 original size:23 final size:23
Alignment explanation
Indices: 5208714--5208773 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
5208704 ATAATTTTGT
* *
5208714 TAAAAAAATAAAAATATCAAATC
1 TAAAAAAATAAAAAAATCAAAAC
5208737 TGAAAAAAA-AAAAAAATCAAAAAC
1 T-AAAAAAATAAAAAAATC-AAAAC
*
5208761 TAAAAAACTAAAA
1 TAAAAAAATAAAA
5208774 GAAAGAAGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (23 bp):
TAAAAAAATAAAAAAATCAAAAC
Found at i:5208766 original size:24 final size:23
Alignment explanation
Indices: 5208714--5208767 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
5208704 ATAATTTTGT
* * *
5208714 TAAAAAAATAAAAATATCAAATC
1 TAAAAAAAAAAAAAAATCAAAAC
*
5208737 TGAAAAAAAAAAAAAATCAAAAAC
1 TAAAAAAAAAAAAAAATC-AAAAC
5208761 TAAAAAA
1 TAAAAAA
5208768 CTAAAAGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (23 bp):
TAAAAAAAAAAAAAAATCAAAAC
Found at i:5223253 original size:19 final size:18
Alignment explanation
Indices: 5223216--5223254 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5223206 CCTATAAATA
*
5223216 CTTTTTTCTTTCATTTTT
1 CTTTTTTCTTTCATCTTT
*
5223234 CTTTTTTTTTTCCATCTTT
1 CTTTTTTCTTT-CATCTTT
5223253 CT
1 CT
5223255 CACGTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
CTTTTTTCTTTCATCTTT
Found at i:5223714 original size:31 final size:30
Alignment explanation
Indices: 5223679--5223754 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
5223669 TTTTAAACTA
* *
5223679 TTAATGTTTTATTTATTAAATTATTAATAAT
1 TTAAT-TTTTATTTATTAAAATATAAATAAT
* *
5223710 TTAA-TATTATTTTGTTAAAATATAAATAAT
1 TTAATTTTTA-TTTATTAAAATATAAATAAT
*
5223740 TTTATTTTTATTTAT
1 TTAATTTTTATTTAT
5223755 ACTCATTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
29 4 0.11
30 24 0.67
31 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
TTAATTTTTATTTATTAAAATATAAATAAT
Found at i:5223814 original size:29 final size:30
Alignment explanation
Indices: 5223778--5223834 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5223768 TAATATATTA
* *
5223778 AAAATAATA-TAAATTATTTATATTTTAAC
1 AAAATAATATTAAATTATTAATAATTTAAC
5223807 AAAATAATATTAAATTATTAATAATTTA
1 AAAATAATATTAAATTATTAATAATTTA
5223835 TAATTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATAATATTAAATTATTAATAATTTAAC
Found at i:5223844 original size:26 final size:24
Alignment explanation
Indices: 5223815--5223934 Score: 136
Period size: 26 Copynumber: 4.9 Consensus size: 24
5223805 ACAAAATAAT
5223815 ATTAAATTATTAATAATTTATAATTA
1 ATTAAATTATTAAT-ATTTA-AATTA
* * *
5223841 ATTAAAATATTATTAATTAAATTA
1 ATTAAATTATTAATATTTAAATTA
*
5223865 TATTAAAATATTAATATTTAAATT-
1 -ATTAAATTATTAATATTTAAATTA
*
5223889 ATT-AATTATTAATATTTTAATTA
1 ATTAAATTATTAATATTTAAATTA
5223912 ATTATAAATTATTAATATTTAAA
1 A-T-TAAATTATTAATATTTAAA
5223935 AATACAATAA
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
22 17 0.21
23 4 0.05
24 6 0.07
25 26 0.32
26 28 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTAAATTATTAATATTTAAATTA
Found at i:5223857 original size:15 final size:15
Alignment explanation
Indices: 5223837--5223927 Score: 61
Period size: 15 Copynumber: 6.4 Consensus size: 15
5223827 ATAATTTATA
5223837 ATTAATTAAAATATT
1 ATTAATTAAAATATT
5223852 ATTAATT--AA-ATT
1 ATTAATTAAAATATT
5223864 A-T-ATTAAAATATT
1 ATTAATTAAAATATT
* * *
5223877 AATATTTAAATTATT
1 ATTAATTAAAATATT
* *
5223892 AATT-ATTAATATTTT
1 -ATTAATTAAAATATT
*
5223907 AATTAATTATAA-ATT
1 -ATTAATTAAAATATT
5223922 ATTAAT
1 ATTAAT
5223928 ATTTAAAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
10 3 0.05
11 1 0.02
12 6 0.10
13 6 0.10
14 7 0.12
15 29 0.49
16 7 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTAATTAAAATATT
Found at i:5223929 original size:48 final size:51
Alignment explanation
Indices: 5223817--5223934 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 51
5223807 AAAATAATAT
*
5223817 TAAATTATTAATAATTTATAATTAATTAAAATATTATTAATTAAATTATATTA
1 TAAATTATTAAT-ATTTA-AATTAATTAAAATATTAATAATTAAATTATATTA
* * *
5223870 -AAA-TATTAATATTTAAATT-ATT-AATTATTAATATTTTAATTA-ATTA
1 TAAATTATTAATATTTAAATTAATTAAAATATTAATAATTAAATTATATTA
5223916 TAAATTATTAATATTTAAA
1 TAAATTATTAATATTTAAA
5223935 AATACAATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
46 4 0.07
47 19 0.32
48 17 0.29
49 4 0.07
50 5 0.08
51 7 0.12
52 3 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (51 bp):
TAAATTATTAATATTTAAATTAATTAAAATATTAATAATTAAATTATATTA
Found at i:5224137 original size:11 final size:10
Alignment explanation
Indices: 5224121--5224164 Score: 61
Period size: 10 Copynumber: 4.2 Consensus size: 10
5224111 GTAATAATTA
5224121 TTTTATTTTAT
1 TTTTA-TTTAT
5224132 TTTTATTTAT
1 TTTTATTTAT
5224142 TTTTATTTTAT
1 TTTTA-TTTAT
*
5224153 TCTTATTTAT
1 TTTTATTTAT
5224163 TT
1 TT
5224165 CGTAAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 16 0.53
11 14 0.47
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:5224147 original size:21 final size:21
Alignment explanation
Indices: 5224121--5224164 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
5224111 GTAATAATTA
*
5224121 TTTTATTTTATTTTTATTTAT
1 TTTTATTTTATTCTTATTTAT
5224142 TTTTATTTTATTCTTATTTAT
1 TTTTATTTTATTCTTATTTAT
5224163 TT
1 TT
5224165 CGTAAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTATTTTATTCTTATTTAT
Found at i:5224151 original size:15 final size:15
Alignment explanation
Indices: 5224118--5224164 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
5224108 CTCGTAATAA
5224118 TTATTTTATTTTATTT
1 TTATTTTA-TTTATTT
*
5224134 TTA-TTTATTTTTATT
1 TTATTTTATTTAT-TT
5224149 TTATTCTTATTTATTT
1 TTATT-TTATTTATTT
5224165 CGTAAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 6 0.23
17 7 0.27
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTATTTATTT
Found at i:5238199 original size:45 final size:45
Alignment explanation
Indices: 5238148--5238280 Score: 203
Period size: 45 Copynumber: 2.9 Consensus size: 45
5238138 TGAAGAGTTT
*
5238148 TCCCCTAAACTTTCGCCTACAAAACACACTATTATGGAAGTGGTC
1 TCCCCTAAACTTTCACCTACAAAACACACTATTATGGAAGTGGTC
5238193 TCCCCTAAACTTTCACCTACAAAACACACTATTATGGAAGTGGTC
1 TCCCCTAAACTTTCACCTACAAAACACACTATTATGGAAGTGGTC
* * *
5238238 TCCCCTAAACTTCCACTTCCTACAAAATACTCTATTATGGAAG
1 TCCCCTAAACTTTCA---CCTACAAAACACACTATTATGGAAG
5238281 AGGCAAAAGC
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
45 58 0.72
48 23 0.28
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.28
Consensus pattern (45 bp):
TCCCCTAAACTTTCACCTACAAAACACACTATTATGGAAGTGGTC
Found at i:5246423 original size:6 final size:6
Alignment explanation
Indices: 5246412--5246460 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
5246402 ATATCATATA
* *
5246412 TTTTAT TTTTATT TTTTAT TATAAT TTTATAT TTTATAT TTTTAT TTTT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT TTTT
5246461 TAATATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 19 0.51
7 18 0.49
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:5246430 original size:13 final size:13
Alignment explanation
Indices: 5246412--5246460 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
5246402 ATATCATATA
5246412 TTTTATTTTTATT
1 TTTTATTTTTATT
* *
5246425 TTTTATTATAATT
1 TTTTATTTTTATT
*
5246438 TTATA-TTTTATAT
1 TTTTATTTTTAT-T
5246451 TTTTATTTTT
1 TTTTATTTTT
5246461 TAATATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 4 0.14
13 20 0.71
14 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:5246446 original size:20 final size:19
Alignment explanation
Indices: 5246416--5246483 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 19
5246406 CATATATTTT
5246416 ATTTTTATTTTTTATTATA
1 ATTTTTATTTTTTATTATA
*
5246435 A-TTTTA--TATT-TTAT-
1 ATTTTTATTTTTTATTATA
*
5246449 ATTTTTATTTTTTAATATA
1 ATTTTTATTTTTTATTATA
5246468 ATTTTATATATTTTTA
1 ATTTT-TAT-TTTTTA
5246484 AAAAATAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 1 0.03
15 9 0.23
16 3 0.08
17 3 0.08
18 8 0.21
19 6 0.15
20 3 0.08
21 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTTATTTTTTATTATA
Found at i:5246452 original size:33 final size:33
Alignment explanation
Indices: 5246407--5246481 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
5246397 TTTTAATATC
*
5246407 ATATATTTTATTTTTATTTTTTATTATAATTTT
1 ATATATTTTATTTTTATTTTTTAATATAATTTT
5246440 ATAT-TTTATATTTTTATTTTTTAATATAATTTT
1 ATATATTT-TATTTTTATTTTTTAATATAATTTT
5246473 ATATATTTT
1 ATATATTTT
5246482 TAAAAAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
32 3 0.08
33 33 0.85
34 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTTTAATATAATTTT
Found at i:5247694 original size:16 final size:15
Alignment explanation
Indices: 5247668--5247697 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5247658 AAATATTTTA
5247668 TTAATTATTTTAATT
1 TTAATTATTTTAATT
5247683 TTAATATATTTTAAT
1 TTAAT-TATTTTAAT
5247698 ATAACTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATTATTTTAATT
Found at i:5254107 original size:24 final size:24
Alignment explanation
Indices: 5254075--5254155 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
5254065 CACATGTTTC
5254075 TGTTGATAATCCTAC-TAGTCCTAT
1 TGTTGATAATCCT-CTTAGTCCTAT
* * *
5254099 TGTTAATAATTCTCTTAGTTCTAT
1 TGTTGATAATCCTCTTAGTCCTAT
* * * *
5254123 TGTTGATAATTCTCCTGGT-ATAT
1 TGTTGATAATCCTCTTAGTCCTAT
5254146 TGTTGATAAT
1 TGTTGATAAT
5254156 TCTAGTTCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 14 0.29
24 35 0.71
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.48
Consensus pattern (24 bp):
TGTTGATAATCCTCTTAGTCCTAT
Found at i:5254150 original size:23 final size:24
Alignment explanation
Indices: 5254096--5254158 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 24
5254086 CTACTAGTCC
* * * *
5254096 TATTGTTAATAATTCTCTTAGTTC
1 TATTGTTGATAATTCTCCTAGGTA
5254120 TATTGTTGATAATTCTCCT-GGTA
1 TATTGTTGATAATTCTCCTAGGTA
5254143 TATTGTTGATAATTCT
1 TATTGTTGATAATTCT
5254159 AGTTCTATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (24 bp):
TATTGTTGATAATTCTCCTAGGTA
Found at i:5256580 original size:8 final size:8
Alignment explanation
Indices: 5256569--5256604 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
5256559 AATTGATAAA
5256569 TTATTAAT
1 TTATTAAT
5256577 TTATTAAT
1 TTATTAAT
5256585 TTATTAAT
1 TTATTAAT
5256593 TTATTAAT
1 TTATTAAT
5256601 TTAT
1 TTAT
5256605 ATATCAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATTAAT
Found at i:5256580 original size:24 final size:25
Alignment explanation
Indices: 5256553--5256604 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
5256543 AACCAAGATA
5256553 TTATTTAATTGA-TAAATTATTAAT
1 TTATTTAATTGATTAAATTATTAAT
* *
5256577 TTA-TTAATTTATTAATTTATTAAT
1 TTATTTAATTGATTAAATTATTAAT
5256601 TTAT
1 TTAT
5256605 ATATCAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTATTTAATTGATTAAATTATTAAT
Found at i:5256614 original size:24 final size:24
Alignment explanation
Indices: 5256569--5256615 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5256559 AATTGATAAA
**
5256569 TTATTAATTTATTAATTTATTAAT
1 TTATTAATTTATTAATCAATTAAT
5256593 TTATTAATTTA-TATATCAATTAA
1 TTATTAATTTATTA-ATCAATTAA
5256616 AATTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATTAATTTATTAATCAATTAAT
Found at i:5259910 original size:2 final size:2
Alignment explanation
Indices: 5259905--5259935 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5259895 TAATGGAAAC
5259905 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 A
5259936 GAAGAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5262204 original size:21 final size:21
Alignment explanation
Indices: 5262178--5262219 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5262168 CCGTAGCCCA
* *
5262178 TCTCACTGTTCAATGATGTTT
1 TCTCACAGTTCAACGATGTTT
5262199 TCTCACAGTTCAACGATGTTT
1 TCTCACAGTTCAACGATGTTT
5262220 GGAAACTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (21 bp):
TCTCACAGTTCAACGATGTTT
Found at i:5264067 original size:8 final size:9
Alignment explanation
Indices: 5264055--5264177 Score: 103
Period size: 8 Copynumber: 14.8 Consensus size: 9
5264045 TATATACCTG
5264055 TATATATTA
1 TATATATTA
5264064 -ATATACTT-
1 TATATA-TTA
5264072 TA-AT-TTA
1 TATATATTA
*
5264079 -AT-TATTG
1 TATATATTA
5264086 TATATA-TA
1 TATATATTA
5264094 TATATA-TA
1 TATATATTA
5264102 TATATATATA
1 TATATAT-TA
5264112 TATATATATA
1 TATATAT-TA
5264122 TATATANTT-
1 TATATA-TTA
5264131 TAT-TATTA
1 TATATATTA
5264139 TATATA-TA
1 TATATATTA
5264147 TATATA-TA
1 TATATATTA
5264155 TATATA-TA
1 TATATATTA
5264163 TATATA-TA
1 TATATATTA
5264171 TATATAT
1 TATATAT
5264178 CAGTATCAAG
Statistics
Matches: 99, Mismatches: 2, Indels: 26
0.78 0.02 0.20
Matches are distributed among these distances:
6 4 0.04
7 4 0.04
8 61 0.62
9 10 0.10
10 19 0.19
11 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (9 bp):
TATATATTA
Found at i:5264093 original size:2 final size:2
Alignment explanation
Indices: 5264086--5264177 Score: 152
Period size: 2 Copynumber: 46.5 Consensus size: 2
5264076 TTAATTATTG
5264086 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5264128 NTT TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5264169 TA TA TA TA T
1 TA TA TA TA T
5264178 CAGTATCAAG
Statistics
Matches: 85, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
1 2 0.02
2 82 0.96
3 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5272228 original size:21 final size:21
Alignment explanation
Indices: 5272203--5272243 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5272193 AAAGAGGTTA
5272203 AAAATTAATATTTT-ATTTTAT
1 AAAATTAA-ATTTTAATTTTAT
5272224 AAAATTAAATTTTAATTTTA
1 AAAATTAAATTTTAATTTTA
5272244 ATTTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AAAATTAAATTTTAATTTTAT
Found at i:5282407 original size:2 final size:2
Alignment explanation
Indices: 5282400--5282425 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5282390 TGTTAGAAAC
5282400 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
5282426 ATGTGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5287697 original size:16 final size:16
Alignment explanation
Indices: 5287678--5287716 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
5287668 TTATCTTTAA
5287678 TTTTTTTCTCCTTTCT
1 TTTTTTTCTCCTTTCT
* *
5287694 TTTTCTTCTCTTTTCT
1 TTTTTTTCTCCTTTCT
5287710 TTTTTTT
1 TTTTTTT
5287717 AATAAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTCTCCTTTCT
Found at i:5288177 original size:26 final size:25
Alignment explanation
Indices: 5288125--5288182 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
5288115 CGTTTTCAGG
*
5288125 ATTTATGCTTGTTTAAAAGGTTGAAA
1 ATTTATGCTTGTTTAAAA-GTTAAAA
5288151 ATTTATGCTTGTTTGGAAAA-TTAAAA
1 ATTTATGCTTGTTT--AAAAGTTAAAA
5288177 ATTTAT
1 ATTTAT
5288183 TCCAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 25 0.86
28 4 0.14
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTTATGCTTGTTTAAAAGTTAAAA
Found at i:5288386 original size:20 final size:20
Alignment explanation
Indices: 5288326--5288397 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
5288316 AAATTTGATG
5288326 AATATTAATATTTAACTTAA
1 AATATTAATATTTAACTTAA
* * *
5288346 GATA-TAA-A--AAAATTAAA
1 AATATTAATATTTAACTT-AA
5288363 AATATTAATATTTAACTTAA
1 AATATTAATATTTAACTTAA
5288383 AATATTAATATTTAA
1 AATATTAATATTTAA
5288398 ATTATTCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 4 0.10
17 5 0.12
18 4 0.10
19 4 0.10
20 20 0.49
21 4 0.10
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (20 bp):
AATATTAATATTTAACTTAA
Found at i:5289181 original size:24 final size:23
Alignment explanation
Indices: 5289150--5289194 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
5289140 AATTTGGTTA
5289150 ATTTAATTTATATTTTCTTTTTT
1 ATTTAATTTATATTTTCTTTTTT
* *
5289173 ATTTGAATTTGTCTTTTCTTTT
1 ATTT-AATTTATATTTTCTTTT
5289195 GTGCACGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (23 bp):
ATTTAATTTATATTTTCTTTTTT
Found at i:5298405 original size:2 final size:2
Alignment explanation
Indices: 5298398--5298433 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
5298388 TTCCTTCCAT
*
5298398 TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5298434 AGTATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:5310390 original size:2 final size:2
Alignment explanation
Indices: 5310383--5310494 Score: 170
Period size: 2 Copynumber: 55.5 Consensus size: 2
5310373 TTAAGGAGCT
5310383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
**
5310425 TA NC TA GTA 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
* * *
5310468 TA TA TA TG TA TG TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
5310495 CAGCTAAAAC
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
2 97 0.98
3 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5314990 original size:3 final size:3
Alignment explanation
Indices: 5314982--5315032 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
5314972 TTTGATACTC
*
5314982 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5315030 TAT
1 TAT
5315033 ACATTCAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5319048 original size:7 final size:7
Alignment explanation
Indices: 5319014--5319046 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
5319004 GTTTCCGGCT
5319014 ACATTTC
1 ACATTTC
5319021 ACATTTC
1 ACATTTC
5319028 ACATTTC
1 ACATTTC
*
5319035 ACATTGC
1 ACATTTC
5319042 ACATT
1 ACATT
5319047 GCTGTCTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.39
Consensus pattern (7 bp):
ACATTTC
Found at i:5325135 original size:18 final size:19
Alignment explanation
Indices: 5325096--5325135 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
5325086 AATTTTGAAT
*
5325096 TGTAATTAATTAATTATAA
1 TGTAATTAATTAAATATAA
*
5325115 TGTAA-TAATTAAATATTA
1 TGTAATTAATTAAATATAA
5325133 TGT
1 TGT
5325136 GTTCATTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (19 bp):
TGTAATTAATTAAATATAA
Found at i:5330958 original size:10 final size:10
Alignment explanation
Indices: 5330943--5330976 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
5330933 CAAAAATACT
5330943 TTTTATTATA
1 TTTTATTATA
*
5330953 TTTTATTATT
1 TTTTATTATA
*
5330963 TTTTATTTTA
1 TTTTATTATA
5330973 TTTT
1 TTTT
5330977 TTAAATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTATTATA
Found at i:5331633 original size:32 final size:29
Alignment explanation
Indices: 5331583--5331644 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 29
5331573 GATGCCACTT
*
5331583 AGAGAGAGAATAAGAAAGGAAAGAAAATGAGA
1 AGAGAGAGAATAAAAAAGG---GAAAATGAGA
5331615 AGAGAGAGAA-AGAAAAAGGGAAAATGAGA
1 AGAGAGAGAATA-AAAAAGGGAAAATGAGA
5331644 A
1 A
5331645 TATATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 11 0.39
31 1 0.04
32 16 0.57
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (29 bp):
AGAGAGAGAATAAAAAAGGGAAAATGAGA
Found at i:5347257 original size:19 final size:19
Alignment explanation
Indices: 5347229--5347299 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
5347219 AGCAGACTTT
5347229 AGCAGCAGATTACTCCTTC
1 AGCAGCAGATTACTCCTTC
*
5347248 AGCAGTAGATTACT-C--C
1 AGCAGCAGATTACTCCTTC
*
5347264 AG-ATTGAAGATTACTCCTTC
1 AGCA--GCAGATTACTCCTTC
5347284 AGCAGCAGATTACTCC
1 AGCAGCAGATTACTCC
5347300 AGATTGAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
15 1 0.02
16 3 0.07
17 9 0.21
18 2 0.05
19 24 0.56
20 3 0.07
21 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (19 bp):
AGCAGCAGATTACTCCTTC
Found at i:5347276 original size:36 final size:36
Alignment explanation
Indices: 5347235--5347308 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
5347225 CTTTAGCAGC
*
5347235 AGATTACTCCTTCAGCAGTAGATTACTCCAGATTGA
1 AGATTACTCCTTCAGCAGCAGATTACTCCAGATTGA
5347271 AGATTACTCCTTCAGCAGCAGATTACTCCAGATTGA
1 AGATTACTCCTTCAGCAGCAGATTACTCCAGATTGA
5347307 AG
1 AG
5347309 GTCACTTTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (36 bp):
AGATTACTCCTTCAGCAGCAGATTACTCCAGATTGA
Found at i:5364871 original size:13 final size:14
Alignment explanation
Indices: 5364835--5364872 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
5364825 AGAAAAATGC
*
5364835 AAAAACAAAAACAG
1 AAAAACAAATACAG
*
5364849 AAAAAAAAATACA-
1 AAAAACAAATACAG
5364862 AAAAACAAATA
1 AAAAACAAATA
5364873 AAATTTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.82, C:0.11, G:0.03, T:0.05
Consensus pattern (14 bp):
AAAAACAAATACAG
Found at i:5372737 original size:21 final size:20
Alignment explanation
Indices: 5372704--5372745 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
5372694 TCAACTTTAA
5372704 ATTTTTTAATTTATATTATT
1 ATTTTTTAATTTATATTATT
*
5372724 ATTTTTT-ATTTTTATT-TT
1 ATTTTTTAATTTATATTATT
5372742 ATTT
1 ATTT
5372746 GTTCATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 8 0.38
20 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTTTTAATTTATATTATT
Found at i:5373342 original size:2 final size:2
Alignment explanation
Indices: 5373335--5373388 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
5373325 TAGGAAGATG
5373335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
5373377 AT AT AT GT AT AT
1 AT AT AT AT AT AT
5373389 GTTGCAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5375241 original size:11 final size:12
Alignment explanation
Indices: 5375210--5375246 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5375200 TCGAAATATT
5375210 ATTATATTTTTA
1 ATTATATTTTTA
*
5375222 AATATATTTTTA
1 ATTATATTTTTA
5375234 ATTA-A-TTTTA
1 ATTATATTTTTA
5375244 ATT
1 ATT
5375247 TTAGAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 8 0.35
11 1 0.04
12 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATATTTTTA
Found at i:5379146 original size:28 final size:30
Alignment explanation
Indices: 5379082--5379148 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 30
5379072 ATTTATGTAT
* * *
5379082 TTGATTT-AAAATAATAATAATATATAAAT
1 TTGATTTAAAAATAATAATAAAATAAAAAG
5379111 TTGA-TTAAAAATAATAA-AAAATAAAAAG
1 TTGATTTAAAAATAATAATAAAATAAAAAG
5379139 TT-ATTTAAAA
1 TTGATTTAAAA
5379149 TTTCTTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 1 0.03
28 18 0.55
29 14 0.42
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (30 bp):
TTGATTTAAAAATAATAATAAAATAAAAAG
Found at i:5396273 original size:2 final size:2
Alignment explanation
Indices: 5396266--5396328 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
5396256 GTGCAACAAG
5396266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
5396308 AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
5396329 AAGAGTTGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5399466 original size:23 final size:23
Alignment explanation
Indices: 5399436--5399481 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5399426 CTGTTTGCTT
5399436 AAGTCGGTGGCTGAACCTTCTGA
1 AAGTCGGTGGCTGAACCTTCTGA
5399459 AAGTCGGTGGCTGAACCTTCTGA
1 AAGTCGGTGGCTGAACCTTCTGA
5399482 GAAGCGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (23 bp):
AAGTCGGTGGCTGAACCTTCTGA
Found at i:5439203 original size:14 final size:13
Alignment explanation
Indices: 5439169--5439207 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
5439159 TTATTATAAA
5439169 AAATAATAAAAAGT
1 AAATAATAAAAA-T
5439183 AAA-AATATAAAAT
1 AAATAATA-AAAAT
5439196 AAATAATAAAAA
1 AAATAATAAAAA
5439208 ATTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATAATAAAAAT
Found at i:5439208 original size:14 final size:14
Alignment explanation
Indices: 5439169--5439214 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
5439159 TTATTATAAA
*
5439169 AAATAATAAAAAGT
1 AAATAATAAAAAAT
*
5439183 AAA-AATATAAAAT
1 AAATAATAAAAAAT
5439196 AAATAATAAAAAAT
1 AAATAATAAAAAAT
*
5439210 TAATA
1 AAATA
5439215 TTTAATGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
AAATAATAAAAAAT
Found at i:5454467 original size:15 final size:15
Alignment explanation
Indices: 5454431--5454470 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
5454421 ACACAACCCA
5454431 TTATAAAACCTACAC
1 TTATAAAACCTACAC
5454446 -T-TAAAACCTACAC
1 TTATAAAACCTACAC
5454459 TTATAAAACCTA
1 TTATAAAACCTA
5454471 TAAAACCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.52
14 2 0.09
15 9 0.39
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (15 bp):
TTATAAAACCTACAC
Found at i:5457167 original size:15 final size:15
Alignment explanation
Indices: 5457149--5457191 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
5457139 AAGAGAGGTA
5457149 AGAAGTAGAAGGAAG
1 AGAAGTAGAAGGAAG
5457164 AGAAGTAGAAGGAAG
1 AGAAGTAGAAGGAAG
*
5457179 AGAAGGAGAAGGA
1 AGAAGTAGAAGGA
5457192 GAAGGAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.42, T:0.05
Consensus pattern (15 bp):
AGAAGTAGAAGGAAG
Found at i:5457201 original size:18 final size:18
Alignment explanation
Indices: 5457178--5457225 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
5457168 GTAGAAGGAA
*
5457178 GAGAAGGAGAAGGAGAAG
1 GAGAAGGTGAAGGAGAAG
*
5457196 GAGAAGGTGAAGGTGAAG
1 GAGAAGGTGAAGGAGAAG
*
5457214 GTGAAGGTGAAG
1 GAGAAGGTGAAG
5457226 AAAAAGAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (18 bp):
GAGAAGGTGAAGGAGAAG
Found at i:5457202 original size:6 final size:6
Alignment explanation
Indices: 5457178--5457225 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
5457168 GTAGAAGGAA
* * * *
5457178 GAGAAG GAGAAG GAGAAG GAGAAG GTGAAG GTGAAG GTGAAG GTGAAG
1 GAGAAG GAGAAG GAGAAG GAGAAG GAGAAG GAGAAG GAGAAG GAGAAG
5457226 AAAAAGAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (6 bp):
GAGAAG
Found at i:5458896 original size:4 final size:4
Alignment explanation
Indices: 5458887--5458913 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
5458877 AAAGTTAGGT
5458887 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
5458914 TGGGGCTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:5463193 original size:81 final size:81
Alignment explanation
Indices: 5463101--5463321 Score: 253
Period size: 81 Copynumber: 2.7 Consensus size: 81
5463091 TCATTTTAAT
* *
5463101 TATTTTTATTATAAATATTAATAAGATTTATTTAATTTGTAAATAAAAATTCTAATTGCAGCCAA
1 TATTTTTATTATAAATATTAATAAGATTTATTTAATTTGTAAATAAGAATTCTAATTGCAGCAAA
* *
5463166 TGCCTATCATTAAAGA
66 TGACTATCATTAAAAA
* * ** * * * ** *
5463182 TATTTTAATTATAAATATTAATAAAATTCGTTTGATTAGTAAATAAGAATTTTAATTATATCAAA
1 TATTTTTATTATAAATATTAATAAGATTTATTTAATTTGTAAATAAGAATTCTAATTGCAGCAAA
5463247 TGACTATCATTAAAAA
66 TGACTATCATTAAAAA
* * * * * *
5463263 TATTTTTTATTATAAACATAAACAAGGTTTATCTAATTTGTGAATAAGAATTCTAATTG
1 TA-TTTTTATTATAAATATTAATAAGATTTATTTAATTTGTAAATAAGAATTCTAATTG
5463322 GATTGAATAA
Statistics
Matches: 111, Mismatches: 28, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
81 69 0.62
82 42 0.38
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.43
Consensus pattern (81 bp):
TATTTTTATTATAAATATTAATAAGATTTATTTAATTTGTAAATAAGAATTCTAATTGCAGCAAA
TGACTATCATTAAAAA
Found at i:5468397 original size:16 final size:17
Alignment explanation
Indices: 5468378--5468416 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
5468368 GTCCGCTTGT
5468378 TTTAATAAA-ATATAA-A
1 TTTAATAAATAT-TAATA
5468394 TTTAATAAATATTAATA
1 TTTAATAAATATTAATA
5468411 TTTAAT
1 TTTAAT
5468417 TATAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAATAAATATTAATA
Found at i:5478196 original size:8 final size:8
Alignment explanation
Indices: 5478183--5478211 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
5478173 CATTATTTTC
5478183 GTTTTGGT
1 GTTTTGGT
5478191 GTTTTGGT
1 GTTTTGGT
5478199 GTTTTGGT
1 GTTTTGGT
5478207 GTTTT
1 GTTTT
5478212 CCAGAGTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (8 bp):
GTTTTGGT
Found at i:5479071 original size:23 final size:23
Alignment explanation
Indices: 5479045--5479089 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5479035 TATACTTTCG
*
5479045 ATTTCTCTCTCTTACGTTTTCAT
1 ATTTCTCTCTCTTACGCTTTCAT
*
5479068 ATTTCTCTTTCTTACGCTTTCA
1 ATTTCTCTCTCTTACGCTTTCA
5479090 AGACACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.27, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTTCTCTCTCTTACGCTTTCAT
Found at i:5479471 original size:24 final size:24
Alignment explanation
Indices: 5479444--5479716 Score: 93
Period size: 24 Copynumber: 11.9 Consensus size: 24
5479434 TTTCACAGGT
*
5479444 TTTTGTACATGGCTTGTCACAGAC
1 TTTTGTACATGGCGTGTCACAGAC
*
5479468 TTTTGTATATGGCGTGTCAC--AC
1 TTTTGTACATGGCGTGTCACAGAC
* * * * *
5479490 -GTT-AACCATGGCTTGTAATAGAC
1 TTTTGTA-CATGGCGTGTCACAGAC
* * *
5479513 TTTTGTTCATGGCGTGTAACACAC
1 TTTTGTACATGGCGTGTCACAGAC
* * * * *
5479537 ---T-AACCATGACTTGTTACAGGC
1 TTTTGTA-CATGGCGTGTCACAGAC
5479558 TTTTGTACATGGCGTGTCACATG-C
1 TTTTGTACATGGCGTGTCACA-GAC
* * * *
5479582 ---T-AACCATGACTTGTCACAGAT
1 TTTTGTA-CATGGCGTGTCACAGAC
*
5479603 TTTTGTACATGGTGTGTCACATG--
1 TTTTGTACATGGCGTGTCACA-GAC
5479626 TGTTTGTACATGGCGTGTCACACG-C
1 T-TTTGTACATGGCGTGTCACA-GAC
* * *
5479651 ---T-AACCATGGCTTGTCACAGAT
1 TTTTGTA-CATGGCGTGTCACAGAC
* *
5479672 TTTTGTACATGACGTGTCACACG-T
1 TTTTGTACATGGCGTGTCACA-GAC
5479696 TTTTGTACATGGCGTGTCACA
1 TTTTGTACATGGCGTGTCACA
5479717 CGCGAACCAT
Statistics
Matches: 180, Mismatches: 42, Indels: 54
0.65 0.15 0.20
Matches are distributed among these distances:
20 5 0.03
21 51 0.28
22 2 0.01
23 3 0.02
24 113 0.63
25 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (24 bp):
TTTTGTACATGGCGTGTCACAGAC
Found at i:5479503 original size:45 final size:45
Alignment explanation
Indices: 5479451--5479802 Score: 227
Period size: 45 Copynumber: 7.8 Consensus size: 45
5479441 GGTTTTTGTA
* * *
5479451 CATGGCTTGTCACAGACTTTTGTATATGGCGTGTCACACGTTAAC
1 CATGACTTGTCACAGACTTTTGTACATGGCGTGTCACACGCTAAC
* * * * * *
5479496 CATGGCTTGTAATAGACTTTTGTTCATGGCGTGTAACACACTAAC
1 CATGACTTGTCACAGACTTTTGTACATGGCGTGTCACACGCTAAC
* * *
5479541 CATGACTTGTTACAGGCTTTTGTACATGGCGTGTCACATGCTAAC
1 CATGACTTGTCACAGACTTTTGTACATGGCGTGTCACACGCTAAC
* * * * *
5479586 CATGACTTGTCACAGATTTTTGTACATGGTGTGTCACATGTGTTTGTA-
1 CATGACTTGTCACAGACTTTTGTACATGGCGTGTCACA--CG-CT-AAC
* * * * * *
5479634 CATGGCGTGTCACACG-C---T-AACCATGGCTTGTCACA-GATTTTTGTA-
1 CATGACTTGTCACA-GACTTTTGTA-CATGGCGTGTCACACG----CT-AAC
* * *
5479679 CATGACGTGTCACACG-TTTTTGTACATGGCGTGTCACACGCGAAC
1 CATGACTTGTCACA-GACTTTTGTACATGGCGTGTCACACGCTAAC
* ** * *
5479724 CATGGCTTGTCACAGGTTTTTGTACATGGCGTGTAACACGCTAAT
1 CATGACTTGTCACAGACTTTTGTACATGGCGTGTCACACGCTAAC
* * *
5479769 CATGACTTGTTACAGATTTTTGTACATTGCGTGT
1 CATGACTTGTCACAGACTTTTGTACATGGCGTGT
5479803 AACATCATAA
Statistics
Matches: 248, Mismatches: 43, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.00
44 3 0.01
45 211 0.85
47 2 0.01
48 27 0.11
49 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (45 bp):
CATGACTTGTCACAGACTTTTGTACATGGCGTGTCACACGCTAAC
Found at i:5479670 original size:69 final size:69
Alignment explanation
Indices: 5479559--5479763 Score: 329
Period size: 69 Copynumber: 3.0 Consensus size: 69
5479549 GTTACAGGCT
* * *
5479559 TTTGTACATGGCGTGTCACATGCTAACCATGACTTGTCACAGATTTTTGTACATGGTGTGTCACA
1 TTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCACAGATTTTTGTACATGGCGTGTCACA
*
5479624 TGTG
66 CGTG
*
5479628 TTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCACAGATTTTTGTACATGACGTGTCACA
1 TTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCACAGATTTTTGTACATGGCGTGTCACA
*
5479693 CGTT
66 CGTG
* * *
5479697 TTTGTACATGGCGTGTCACACGCGAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTAACA
1 TTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCACAGATTTTTGTACATGGCGTGTCACA
5479762 CG
66 CG
5479764 CTAATCATGA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 126 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (69 bp):
TTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCACAGATTTTTGTACATGGCGTGTCACA
CGTG
Found at i:5479717 original size:24 final size:24
Alignment explanation
Indices: 5479593--5479763 Score: 128
Period size: 24 Copynumber: 7.4 Consensus size: 24
5479583 AACCATGACT
*
5479593 TGTCACA-GATTTTTGTACATGGTG
1 TGTCACACG-TTTTTGTACATGGCG
* *
5479617 TGTCACATGTGTTTGTACATGGCG
1 TGTCACACGTTTTTGTACATGGCG
* * *
5479641 TGTCACACG---CT-AACCATGGCT
1 TGTCACACGTTTTTGTA-CATGGCG
*
5479662 TGTCACA-GATTTTTGTACATGACG
1 TGTCACACG-TTTTTGTACATGGCG
5479686 TGTCACACGTTTTTGTACATGGCG
1 TGTCACACGTTTTTGTACATGGCG
* * *
5479710 TGTCACACG----CGAACCATGGCT
1 TGTCACACGTTTTTGTA-CATGGCG
*
5479731 TGTCACAGGTTTTTGTACATGGCG
1 TGTCACACGTTTTTGTACATGGCG
*
5479755 TGTAACACG
1 TGTCACACG
5479764 CTAATCATGA
Statistics
Matches: 114, Mismatches: 20, Indels: 26
0.71 0.12 0.16
Matches are distributed among these distances:
20 4 0.04
21 28 0.25
24 77 0.68
25 5 0.04
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (24 bp):
TGTCACACGTTTTTGTACATGGCG
Found at i:5479802 original size:114 final size:112
Alignment explanation
Indices: 5479438--5479802 Score: 353
Period size: 114 Copynumber: 3.2 Consensus size: 112
5479428 TTGAATTTTC
* * * *
5479438 ACAGGTTTTTGTACATGGCTTGTCACAGACTTTTGTATATGGCGTGTCACACGTTAACCATGGCT
1 ACAGATTTTTGTACATGGCGTGTCACAG--TTTTGTACATGGCGTGTCACACGTGAACCATGGCT
* * ** * *
5479503 TGTAATAGACTTTTGTTCATGGCGTGTAACACACTAACCATGACTTGTT
64 TGTCACAGGTTTTTGTACATGGCGTGTAACACGCTAACCATGACTTGTT
** ** * * * *
5479552 ACAGGCTTTTGTACATGGCGTGTCACA-TGCT-AACCATGACTTGTCACA-GATTTTTGTA-CAT
1 ACAGATTTTTGTACATGGCGTGTCACAGTTTTGTA-CATGGCGTGTCACACG-----TGAACCAT
* * * * *
5479613 GG-TGTGTCACATGTGTTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTC
60 GGCT-TGTCACAGGTTTTTGTACATGGCGTGTAACACGCTAACCATGACTTGTT
* *
5479666 ACAGATTTTTGTACATGACGTGTCACACGTTTTTGTACATGGCGTGTCACACGCGAACCATGGCT
1 ACAGATTTTTGTACATGGCGTGTCACA-G-TTTTGTACATGGCGTGTCACACGTGAACCATGGCT
*
5479731 TGTCACAGGTTTTTGTACATGGCGTGTAACACGCTAATCATGACTTGTT
64 TGTCACAGGTTTTTGTACATGGCGTGTAACACGCTAACCATGACTTGTT
*
5479780 ACAGATTTTTGTACATTGCGTGT
1 ACAGATTTTTGTACATGGCGTGT
5479803 AACATCATAA
Statistics
Matches: 198, Mismatches: 39, Indels: 28
0.75 0.15 0.11
Matches are distributed among these distances:
110 2 0.01
111 13 0.07
113 3 0.02
114 161 0.81
115 3 0.02
117 14 0.07
118 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (112 bp):
ACAGATTTTTGTACATGGCGTGTCACAGTTTTGTACATGGCGTGTCACACGTGAACCATGGCTTG
TCACAGGTTTTTGTACATGGCGTGTAACACGCTAACCATGACTTGTT
Found at i:5481277 original size:16 final size:15
Alignment explanation
Indices: 5481258--5481291 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
5481248 TTTTACAATA
5481258 ATTAAAATTTATTAAT
1 ATTAAAATTTATT-AT
5481274 ATTAAAATTTATTAT
1 ATTAAAATTTATTAT
5481289 ATT
1 ATT
5481292 TAGTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTAAAATTTATTAT
Found at i:5481467 original size:2 final size:2
Alignment explanation
Indices: 5481460--5481495 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
5481450 CATGTCGTGT
*
5481460 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5481496 TCATGTACGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5485370 original size:26 final size:26
Alignment explanation
Indices: 5485329--5485382 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
5485319 CAGGCTATTA
5485329 AACAAGTACAAAAGAAGATGTATGTG
1 AACAAGTACAAAAGAAGATGTATGTG
** *
5485355 AACAAGTACATTAGAAGTTGTATGTG
1 AACAAGTACAAAAGAAGATGTATGTG
5485381 AA
1 AA
5485383 TAGATATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (26 bp):
AACAAGTACAAAAGAAGATGTATGTG
Found at i:5488562 original size:35 final size:37
Alignment explanation
Indices: 5488506--5488574 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 37
5488496 TTATAATGTT
*
5488506 ATAATTGAAATAAAAAGT-AAA-AAATAAAATATTTA
1 ATAAATGAAATAAAAAGTAAAATAAATAAAATATTTA
* *
5488541 ATAAATGAATTAAAAATTAAAATAAATAAAATAT
1 ATAAATGAAATAAAAAGTAAAATAAATAAAATAT
5488575 AAAAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 15 0.52
36 3 0.10
37 11 0.38
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (37 bp):
ATAAATGAAATAAAAAGTAAAATAAATAAAATATTTA
Found at i:5488585 original size:51 final size:52
Alignment explanation
Indices: 5488513--5488635 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 52
5488503 GTTATAATTG
*
5488513 AAATAAAA-AGTAAAAAATAAAATATT-TAATAA-AT-GAATTAAAAATTAAAAT-
1 AAATAAAATA-TAAAAAATAAAAT-TTAT-ATAATATAG-ATAAAAAATTAAAATA
*
5488564 AAATAAAATATAAAAAATAAAATTTATATAATATAGGTAAAAAATTAAAATA
1 AAATAAAATATAAAAAATAAAATTTATATAATATAGATAAAAAATTAAAATA
5488616 AAATATATAATATAAAAAAT
1 AAATA-A-AATATAAAAAAT
5488636 TATATTAAAG
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
50 6 0.10
51 37 0.59
52 7 0.11
53 1 0.02
54 12 0.19
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (52 bp):
AAATAAAATATAAAAAATAAAATTTATATAATATAGATAAAAAATTAAAATA
Done.