Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 169 of 211
Found at i:49932688 original size:22 final size:21
Alignment explanation
Indices: 49932663--49932703 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
49932653 GGAGGATATG
49932663 TATGTAGATGATTATTATATCA
1 TATGTAGATGA-TATTATATCA
**
49932685 TATGTTTATGATATTATAT
1 TATGTAGATGATATTATAT
49932704 GAGACGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.51
Consensus pattern (21 bp):
TATGTAGATGATATTATATCA
Found at i:49938846 original size:108 final size:111
Alignment explanation
Indices: 49938649--49938972 Score: 550
Period size: 110 Copynumber: 2.9 Consensus size: 111
49938639 GAAAAAGAAG
49938649 AAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAAATTCTTT
1 AAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTC-AAAAAAAAATTCTTT
49938713 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGT-AAAA-
65 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAAAAT
*
49938758 AAAAAATTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACAATTTC-AAAAAAAATT-TTAT
1 AAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATTCTT-T
*
49938821 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAT
65 TTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAAAAT
*
49938868 AAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTT
1 AAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTT
* *
49938933 TTTTTCGTTTCAAAATCAGATATCAGTATACGAAAAAAGT
66 TTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGT
49938973 GACAGGCCAG
Statistics
Matches: 202, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
107 2 0.01
108 51 0.25
109 13 0.06
110 85 0.42
111 49 0.24
112 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (111 bp):
AAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTT
TTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAAAAT
Found at i:49939436 original size:71 final size:72
Alignment explanation
Indices: 49939351--49939494 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 72
49939341 TGACAGGCCA
* * *
49939351 AAACCCAAAAAATTAA-TTTTTTAAGTCTGACACAATTATTAGGCAATCATGGTTACAAAAAACG
1 AAACCCAAAAAATTAATTTTTTTAAGTCAGACACAATTACTAGGCAATCATGGGTACAAAAAACG
*
49939415 AGTGGGT
66 AGTAGGT
* **
49939422 AAACCCAAAGAATTAATTTTTTTAAGTCAGACACAATTACTAGGCAATCATGGGTGTAAAAAACG
1 AAACCCAAAAAATTAATTTTTTTAAGTCAGACACAATTACTAGGCAATCATGGGTACAAAAAACG
49939487 AGTAGGT
66 AGTAGGT
49939494 A
1 A
49939495 CTGTTAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 15 0.23
72 50 0.77
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (72 bp):
AAACCCAAAAAATTAATTTTTTTAAGTCAGACACAATTACTAGGCAATCATGGGTACAAAAAACG
AGTAGGT
Found at i:49941020 original size:2 final size:2
Alignment explanation
Indices: 49941015--49941050 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49941005 GTGTGTATGT
49941015 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
49941051 AACAGAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:49942687 original size:25 final size:26
Alignment explanation
Indices: 49942659--49942708 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
49942649 TAATTATATG
49942659 TAAAAAATATATAT-TAT-TATGAAAT
1 TAAAAAATATAT-TGTATATATGAAAT
*
49942684 TAAAAATTATATTGTATATATGAAA
1 TAAAAAATATATTGTATATATGAAA
49942709 AATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 14 0.64
26 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (26 bp):
TAAAAAATATATTGTATATATGAAAT
Found at i:49947351 original size:51 final size:51
Alignment explanation
Indices: 49947210--49947610 Score: 338
Period size: 51 Copynumber: 7.9 Consensus size: 51
49947200 AACTATTATC
* * * *
49947210 ATTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA--AACT
1 ATTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATTAA-T
* * *
49947260 -TTCCGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAAT
1 ATT-CGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATTAAT
* * * * * *
49947311 ATTCGATACACATATTAGCTTGCACATAGTACTACACACGTGATCGA--AGCT
1 ATTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGA-CCATTA-AT
* * * * *
49947362 ATCCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACC-TT-TT
1 ATTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATTAAT
* * *
49947411 ATTCCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGCCCATTAAT
1 ATT-CGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATTAAT
* * * * * * *
49947463 ATCCGATACACATAGCAGCTTGCACATAGTACTACACACGTGATCGA--AGCT
1 ATTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGA-CCATTA-AT
* * * * * *
49947514 ATCCGGTACGCATAGTAGCTTACACATAGTACTACACATGCGACC-TT-TT
1 ATTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATTAAT
*
49947563 ATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 ATT-CGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCAT
49947611 CACTTTCACT
Statistics
Matches: 283, Mismatches: 51, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
49 8 0.03
50 118 0.42
51 146 0.52
52 11 0.04
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
ATTCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATTAAT
Found at i:49947354 original size:101 final size:101
Alignment explanation
Indices: 49947210--49947610 Score: 375
Period size: 101 Copynumber: 4.0 Consensus size: 101
49947200 AACTATTATC
* * * *
49947210 ATTCGATACACGTAGTAGCCTT-CACATAGTACTACACACGTGATCAAACTTTCCGGTTCACGTA
1 ATTCGATACACATAGTAG-CTTACACATAGTACTACACACGTGATCAAACTATCCGGTACACATA
*
49947274 GTAGCCTGCACATAGTACTACACACGTGACCATTAAT
65 GTAGCCTACACATAGTACTACACACGTGACCATTAAT
* * * *
49947311 ATTCGATACACATATTAGCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATA
1 ATTCGATACACATAGTAGCTTACACATAGTACTACACACGTGATC-AAACTATCCGGTACACATA
* * *
49947376 GTAGCCTACACATAGTACTACACATGCGACC-TT-TT
65 GTAGCCTACACATAGTACTACACACGTGACCATTAAT
* * * * ** *
49947411 ATTCCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGCCCATTAA-TATCCGATACACA
1 ATT-CGATACACATAGTAGCTTACACATAGTACTACACACGTGATCA--AACTATCCGGTACACA
* * * * *
49947475 TAGCAGCTTGCACATAGTACTACACACGTGATCGA--AGCT
63 TAGTAGCCTACACATAGTACTACACACGTGA-CCATTA-AT
* * * * * **** *
49947514 ATCCGGTACGCATAGTAGCTTACACATAGTACTACACATGCGA-CCTTTTATTCCGGTACACGTA
1 ATTCGATACACATAGTAGCTTACACATAGTACTACACACGTGATCAAACTA-TCCGGTACACATA
49947578 GTAGCCTACACATAGTACTACACACGTGACCAT
65 GTAGCCTACACATAGTACTACACACGTGACCAT
49947611 CACTTTCACT
Statistics
Matches: 244, Mismatches: 44, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
100 12 0.05
101 150 0.61
102 79 0.32
103 3 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
ATTCGATACACATAGTAGCTTACACATAGTACTACACACGTGATCAAACTATCCGGTACACATAG
TAGCCTACACATAGTACTACACACGTGACCATTAAT
Found at i:49947459 original size:152 final size:152
Alignment explanation
Indices: 49947260--49947610 Score: 630
Period size: 152 Copynumber: 2.3 Consensus size: 152
49947250 TGATCAAACT
* * *
49947260 TTCCGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATTCGATACACATA
1 TTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAATATCCGATACACATA
**
49947325 TTAGCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATA
66 GCAGCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATA
49947390 GTACTACACATGCGACCTTTTA
131 GTACTACACATGCGACCTTTTA
* *
49947412 TTCCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGCCCATTAATATCCGATACACATA
1 TTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAATATCCGATACACATA
*
49947477 GCAGCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCTTACACATA
66 GCAGCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATA
49947542 GTACTACACATGCGACCTTTTA
131 GTACTACACATGCGACCTTTTA
49947564 TTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
49947611 CACTTTCACT
Statistics
Matches: 189, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
152 189 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (152 bp):
TTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAATATCCGATACACATA
GCAGCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATA
GTACTACACATGCGACCTTTTA
Found at i:49951408 original size:18 final size:18
Alignment explanation
Indices: 49951387--49951432 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
49951377 ATTTACTATT
*
49951387 ATAATTTTATTTTAAATA
1 ATAATTTTATTATAAATA
* * *
49951405 ATAAATTTAATATGAATA
1 ATAATTTTATTATAAATA
49951423 ATAATTTTAT
1 ATAATTTTAT
49951433 ATTCTGAGAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATAATTTTATTATAAATA
Found at i:49952363 original size:29 final size:30
Alignment explanation
Indices: 49952329--49952385 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
49952319 TGGTTTAATT
49952329 TGTAATTGTATACACG-AACTTTGATTTTG
1 TGTAATTGTATACACGAAACTTTGATTTTG
* * *
49952358 TGTAATTTTATACATGAAATTTTGATTT
1 TGTAATTGTATACACGAAACTTTGATTT
49952386 GATCCAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (30 bp):
TGTAATTGTATACACGAAACTTTGATTTTG
Found at i:49952609 original size:29 final size:30
Alignment explanation
Indices: 49952577--49952635 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
49952567 TCACGTGTAT
*
49952577 AATTGCAC-CAAATTAAAGTTCATGTATAC
1 AATTGCACACAAATCAAAGTTCATGTATAC
*
49952606 AATTGCACATTAAATCAAAGTTCATGTATA
1 AATTGCACA-CAAATCAAAGTTCATGTATA
49952636 ATTTTGAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (30 bp):
AATTGCACACAAATCAAAGTTCATGTATAC
Found at i:49952638 original size:29 final size:27
Alignment explanation
Indices: 49952572--49952638 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 27
49952562 GAGTTTCACG
*
49952572 TGTATAATTGCACCAAATTAAAGTTCA
1 TGTATAATTGCACCAAATCAAAGTTCA
*
49952599 TGTATACAATTGCACATTAAATCAAAGTTCA
1 TGTAT--AATTGCAC--CAAATCAAAGTTCA
49952630 TGTATAATT
1 TGTATAATT
49952639 TTGAGATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.35
31 17 0.50
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (27 bp):
TGTATAATTGCACCAAATCAAAGTTCA
Found at i:49954773 original size:19 final size:20
Alignment explanation
Indices: 49954749--49954792 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
49954739 AAAGCAGAAA
*
49954749 AAATCC-AAAATTATATTAT
1 AAATCCAAAAATTATATCAT
49954768 AAATCCTAAAAAATTATATCAT
1 AAATCC--AAAAATTATATCAT
49954790 AAA
1 AAA
49954793 AAATAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
22 15 0.71
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATCCAAAAATTATATCAT
Found at i:49956793 original size:31 final size:29
Alignment explanation
Indices: 49956755--49956845 Score: 112
Period size: 31 Copynumber: 3.0 Consensus size: 29
49956745 GGCTCATTTT
49956755 TATTTTAAAAATTTTAAAAAATTTAAAAAAG
1 TATTTTAAAAATTTT--AAAATTTAAAAAAG
*
49956786 TATTTTAAAAGTATTTTAAAATTAAAAAAAG
1 TATTTTAAAA--ATTTTAAAATTTAAAAAAG
49956817 TATTTTAAAAATATTTTAAAA-TTAAAAAA
1 TATTTT-AAAA-ATTTTAAAATTTAAAAAA
49956846 TTAAAAAAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
30 7 0.13
31 39 0.71
32 4 0.07
33 5 0.09
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (29 bp):
TATTTTAAAAATTTTAAAATTTAAAAAAG
Found at i:49956795 original size:11 final size:10
Alignment explanation
Indices: 49956755--49956838 Score: 64
Period size: 11 Copynumber: 8.1 Consensus size: 10
49956745 GGCTCATTTT
49956755 TATTTTAAAA
1 TATTTTAAAA
49956765 -ATTTTAAAA
1 TATTTTAAAA
* *
49956774 AATTTAAAAAA
1 TATTT-TAAAA
49956785 GTATTTTAAAA
1 -TATTTTAAAA
49956796 GTATTTTAAAA
1 -TATTTTAAAA
***
49956807 T-TAAAAAAA
1 TATTTTAAAA
49956816 GTATTTTAAAAA
1 -TATTTT-AAAA
49956828 TATTTTAAAA
1 TATTTTAAAA
49956838 T
1 T
49956839 TAAAAAATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
9 14 0.24
10 11 0.19
11 26 0.44
12 8 0.14
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:49956846 original size:39 final size:39
Alignment explanation
Indices: 49956803--49956889 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
49956793 AAAGTATTTT
* *
49956803 AAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTAA
49956842 AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTAA
1 AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTAA
*
49956881 AAAAATAAA
1 AAAATTAAA
49956890 TATATTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (39 bp):
AAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTAA
Found at i:49963086 original size:19 final size:20
Alignment explanation
Indices: 49963063--49963108 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
49963053 TATTTTCAGT
49963063 AATTTATTTAATTTA-AATA
1 AATTTATTTAATTTATAATA
*
49963082 TATTTGA--TAATTTATAATA
1 AATTT-ATTTAATTTATAATA
49963101 AATTTATT
1 AATTTATT
49963109 AGATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 7
0.70 0.07 0.23
Matches are distributed among these distances:
18 8 0.38
19 12 0.57
20 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTATTTAATTTATAATA
Found at i:49963778 original size:30 final size:30
Alignment explanation
Indices: 49963744--49963806 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
49963734 ACTTAACAAG
49963744 CAAATGCCTCTAAAAAAATAACAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
* *
49963774 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
49963804 CAA
1 CAA
49963807 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.16, G:0.03, T:0.22
Consensus pattern (30 bp):
CAAATGCCTCTAAAAAAATAACAAAATTAA
Found at i:49966725 original size:13 final size:14
Alignment explanation
Indices: 49966681--49966730 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 14
49966671 ATTTTAATAT
**
49966681 TATT-TTGTGTGTT
1 TATTATTGTGTGAA
49966694 TATTA-TGTGTGAA
1 TATTATTGTGTGAA
*
49966707 TTTTATTGTGTGAA
1 TATTATTGTGTGAA
49966721 -ATTATTGTGT
1 TATTATTGTGT
49966731 TCTAATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 23 0.74
14 8 0.26
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.58
Consensus pattern (14 bp):
TATTATTGTGTGAA
Found at i:49967853 original size:43 final size:43
Alignment explanation
Indices: 49967805--49967925 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
49967795 TTTTTGATAA
49967805 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA-CTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATC-T
* ***
49967848 GTGTTTTTGTGTAAGACC-CTGT-TCGGGACAAGGGCATCGATCT
1 GTGTTTTCGTGTAAGACCAC-GTCT-GGGACGTTGGCATCGATCT
* * *
49967891 GTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGC
49967926 GTTGTACGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
42 2 0.03
43 57 0.92
44 3 0.05
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATCT
Found at i:49972144 original size:23 final size:23
Alignment explanation
Indices: 49972085--49972137 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
49972075 AGCACATAAC
49972085 ATTCTGTAAAGCCTTTATGGCGT
1 ATTCTGTAAAGCCTTTATGGCGT
49972108 ATTCTGTAAAGCCTTTATGGCGT
1 ATTCTGTAAAGCCTTTATGGCGT
49972131 ATTCTGT
1 ATTCTGT
49972138 GATGCCTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (23 bp):
ATTCTGTAAAGCCTTTATGGCGT
Found at i:49980882 original size:43 final size:43
Alignment explanation
Indices: 49980816--49981086 Score: 253
Period size: 43 Copynumber: 6.3 Consensus size: 43
49980806 TTTTAAAAAT
* ** * *
49980816 AAACACCGCTAAAGGTCATGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
49980859 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC-TTTCCTCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCC-CAC
* * * * *
49980902 GAACGCCACTATAGACCATGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * * * * *
49980945 AAACGCTGCTAAATACCATGACCTTTAGTGACGCTTTACTCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * **
49980988 AAACGCCGCTATAGACCATGG-CCTTTAACGACGCTTTTGTCAC
1 AAACGCCGCTAAAGACCA-GGACCTTTAGCGGCGCTTTTCCCAC
* *
49981031 AAACGCCGCTAAAGAAC-GTGACCTTTAGCGGCGCTTCTCGCCA-
1 AAACGCCGCTAAAGACCAG-GACCTTTAGCGGCGCTTTTC-CCAC
*
49981074 AAACGCTGCTAAA
1 AAACGCCGCTAAA
49981087 AACATATCAT
Statistics
Matches: 188, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 6 0.03
43 174 0.93
44 7 0.04
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:49980935 original size:86 final size:86
Alignment explanation
Indices: 49980832--49981066 Score: 319
Period size: 86 Copynumber: 2.7 Consensus size: 86
49980822 CGCTAAAGGT
* * *
49980832 CATGACCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTC
1 CATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTA
*
49980897 CTCACGAACGCCACTATAGAC
66 CTCACAAACGCCACTATAGAC
* * * * *
49980918 CATGACCTTTAGCGGCGCTTTTCTCACAAACGCTGCTAAATACCATGACCTTTAGTGACGCTTTA
1 CATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTA
*
49980983 CTCACAAACGCCGCTATAGAC
66 CTCACAAACGCCACTATAGAC
* * * * *
49981004 CATGGCCTTTAACGACGCTTTTGTCACAAACGCCGCTAAAGAAC-GTGACCTTTAGCGGCGCTT
1 CATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAG-GACCTTTAGCGGCGCTT
49981067 CTCGCCAAAA
Statistics
Matches: 128, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
86 128 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (86 bp):
CATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTA
CTCACAAACGCCACTATAGAC
Found at i:49980973 original size:129 final size:129
Alignment explanation
Indices: 49980832--49981086 Score: 343
Period size: 129 Copynumber: 2.0 Consensus size: 129
49980822 CGCTAAAGGT
* * * *
49980832 CATGACCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACCA-GGACCTTTAGCGGCGCTTT
1 CATGACCTTTAGTGACGCTTTACCCACAAACGCCGCTAAAGACCATGG-CCTTTAACGACGCTTT
* * * * *
49980896 CCTCACGAACGCCACTATAGACCATGACCTTTAGCGGCGCTTTTC-TCACAAACGCTGCTAAATA
65 CCTCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCGCCA-AAACGCTGCTAAATA
49980960 C
129 C
* * *
49980961 CATGACCTTTAGTGACGCTTTACTCACAAACGCCGCTATAGACCATGGCCTTTAACGACGCTTTT
1 CATGACCTTTAGTGACGCTTTACCCACAAACGCCGCTAAAGACCATGGCCTTTAACGACGCTTTC
* * *
49981026 GTCACAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTCTCGCCAAAACGCTGCTAAA
66 CTCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCGCCAAAACGCTGCTAAA
49981087 AACATATCAT
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
129 105 0.96
130 4 0.04
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (129 bp):
CATGACCTTTAGTGACGCTTTACCCACAAACGCCGCTAAAGACCATGGCCTTTAACGACGCTTTC
CTCACAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCGCCAAAACGCTGCTAAATAC
Found at i:49982470 original size:16 final size:16
Alignment explanation
Indices: 49982451--49982485 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
49982441 TTTCCACTGA
*
49982451 CAAATTATAACAAAGG
1 CAAAATATAACAAAGG
49982467 CAAAATATAACAAAGG
1 CAAAATATAACAAAGG
49982483 CAA
1 CAA
49982486 TACCTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (16 bp):
CAAAATATAACAAAGG
Found at i:49984393 original size:15 final size:15
Alignment explanation
Indices: 49984373--49984401 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49984363 GTCCATTATA
49984373 GTGATTACCTGAATC
1 GTGATTACCTGAATC
49984388 GTGATTACCTGAAT
1 GTGATTACCTGAAT
49984402 AATACAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (15 bp):
GTGATTACCTGAATC
Found at i:49986058 original size:11 final size:11
Alignment explanation
Indices: 49986044--49986103 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 11
49986034 AAAATAAAAG
*
49986044 TTTAAAATCTT
1 TTTAAAATCAT
49986055 TTTAAAAT--T
1 TTTAAAATCAT
* *
49986064 TTTAAAA-AAA
1 TTTAAAATCAT
49986074 TTTAAAATC-T
1 TTTAAAATCAT
49986084 TTTAAAATTCAT
1 TTTAAAA-TCAT
49986096 TTTAAAAT
1 TTTAAAAT
49986104 TTTAAATCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
9 8 0.20
10 14 0.34
11 11 0.27
12 8 0.20
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTAAAATCAT
Found at i:49986102 original size:29 final size:29
Alignment explanation
Indices: 49986037--49986111 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 29
49986027 TATTATAAAA
49986037 ATAAAAGTTTAAAATCTTTTTAAAATTTTT
1 ATAAAA-TTTAAAATCTTTTTAAAATTTTT
*
49986067 AAAAAAATTTAAAATC-TTTTAAAATTCATTT
1 -ATAAAATTTAAAATCTTTTTAAAATT--TTT
*
49986098 -TAAAATTTTAAATC
1 ATAAAATTTAAAATC
49986112 ACGAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.56
30 9 0.23
31 8 0.21
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (29 bp):
ATAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:49986108 original size:30 final size:30
Alignment explanation
Indices: 49986037--49986109 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
49986027 TATTATAAAA
*
49986037 ATAAAAGTTTAAAATCTTTTTAAAATTTTT
1 ATAAAAATTTAAAATCTTTTTAAAATTTTT
*
49986067 AAAAAAATTTAAAATC-TTTTAAAATTCATTT
1 ATAAAAATTTAAAATCTTTTTAAAATT--TTT
*
49986098 -TAAAATTTTAAA
1 ATAAAAATTTAAA
49986110 TCACGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.27
30 24 0.65
31 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (30 bp):
ATAAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:49986109 original size:20 final size:20
Alignment explanation
Indices: 49986044--49986106 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
49986034 AAAATAAAAG
*
49986044 TTTAAAATCTTTTTAAAATT
1 TTTAAAATCATTTTAAAATT
* *
49986064 TTTAAAA-AAATTTAAAATCT
1 TTTAAAATCATTTTAAAAT-T
49986084 TTTAAAATTCATTTTAAAATT
1 TTTAAAA-TCATTTTAAAATT
49986105 TT
1 TT
49986107 AAATCACGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.23
20 15 0.43
21 3 0.09
22 9 0.26
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATCATTTTAAAATT
Found at i:49986511 original size:7 final size:7
Alignment explanation
Indices: 49986501--49986556 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
49986491 CACTAAAATG
*
49986501 TAAACTC
1 TAAACCC
*
49986508 TAAACCT
1 TAAACCC
49986515 TAAACTCC
1 TAAAC-CC
*
49986523 -AATCCC
1 TAAACCC
*
49986529 TAAGCCC
1 TAAACCC
49986536 TAAA-CC
1 TAAACCC
49986542 TAAACCC
1 TAAACCC
49986549 TAAACCC
1 TAAACCC
49986556 T
1 T
49986557 GAACTCAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
6 8 0.20
7 31 0.77
8 1 0.03
ACGTcount: A:0.39, C:0.38, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:49987414 original size:41 final size:41
Alignment explanation
Indices: 49987355--49987582 Score: 357
Period size: 41 Copynumber: 5.6 Consensus size: 41
49987345 AGATTTTATT
*
49987355 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACTAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
*
49987396 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
*
49987437 ATTAGCGGCGGTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
* * * *
49987478 ATTCGCGGCACCTTTTCAAAAACGCCGCTGAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
* * *
49987519 ATTAGCGGCGCTTGTTCAAAAATGCCGCTAAAGGTACCAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
*
49987560 ATTAGTGGCGCTTTTTCAAAAAC
1 ATTAGCGGCGCTTTTTCAAAAAC
49987583 ACCACTATAG
Statistics
Matches: 168, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 168 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
Found at i:49990020 original size:27 final size:27
Alignment explanation
Indices: 49989937--49990078 Score: 144
Period size: 27 Copynumber: 5.3 Consensus size: 27
49989927 GTAATGGGCC
* *
49989937 TAAAATGACCG-AATACCCTCAATGGT
1 TAAAATGACCGAAATACCCTCGATGGG
* * *
49989963 TAAAATGATCGAAAAACCCT-GAAGGG
1 TAAAATGACCGAAATACCCTCGATGGG
* *
49989989 TAAAATTACCGAAATACCATCGATGGG
1 TAAAATGACCGAAATACCCTCGATGGG
* *
49990016 TAAAATAACCAAAATACCCTCGATGGG
1 TAAAATGACCGAAATACCCTCGATGGG
* * * * *
49990043 TAAAACGACCGAAATACCTTTGAAGGA
1 TAAAATGACCGAAATACCCTCGATGGG
49990070 TAAAATGAC
1 TAAAATGAC
49990079 TATTATACCC
Statistics
Matches: 93, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
26 29 0.31
27 64 0.69
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGATGGG
Found at i:49990444 original size:30 final size:31
Alignment explanation
Indices: 49990404--49990462 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
49990394 ACTGCATTGT
*
49990404 ACTGTTTACTGTATTGGGCTAAGGCCCACTC
1 ACTGTTTACTGTACTGGGCTAAGGCCCACTC
*
49990435 ACTG-TTACTGTACTGGGCTTAGGCCCAC
1 ACTGTTTACTGTACTGGGCTAAGGCCCAC
49990463 ATTGTACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (31 bp):
ACTGTTTACTGTACTGGGCTAAGGCCCACTC
Found at i:49998130 original size:26 final size:26
Alignment explanation
Indices: 49997998--49998123 Score: 182
Period size: 26 Copynumber: 4.9 Consensus size: 26
49997988 AGGGTTGATC
* *
49997998 TTTTACATATGCCAC-AAGGCTTCCA
1 TTTTAGATATGCCACAAAGGCTTCTA
*
49998023 TTTTAGATACGCCACAAAGGCTTCTA
1 TTTTAGATATGCCACAAAGGCTTCTA
*
49998049 TTTTAGATACGCCACAAAGGCTTCTA
1 TTTTAGATATGCCACAAAGGCTTCTA
* * *
49998075 TTATAGATATGCCATAAAAGCTTCTA
1 TTTTAGATATGCCACAAAGGCTTCTA
49998101 TTTTAGATATGCCACAAAGGCTT
1 TTTTAGATATGCCACAAAGGCTT
49998124 TCATTTTCTG
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 13 0.14
26 77 0.86
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (26 bp):
TTTTAGATATGCCACAAAGGCTTCTA
Found at i:50008175 original size:91 final size:91
Alignment explanation
Indices: 50008028--50008235 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
50008018 TTGATTTTAG
* *
50008028 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
50008093 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
50008120 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
50008185 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
50008211 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
50008236 GTTATAATTA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 93 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:50008204 original size:26 final size:28
Alignment explanation
Indices: 50008150--50008210 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
50008140 TATTATCAAG
* *
50008150 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
50008178 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
50008204 AATTATA
1 AATTATA
50008211 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:50008210 original size:44 final size:43
Alignment explanation
Indices: 50008068--50008210 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
50008058 GAATTTTATG
* *
50008068 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
50008112 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
50008159 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
50008203 AAATTATA
1 AAATTATA
50008211 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:50008328 original size:59 final size:58
Alignment explanation
Indices: 50008262--50008570 Score: 217
Period size: 59 Copynumber: 5.2 Consensus size: 58
50008252 ATTTTATTAA
*
50008262 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAAATTATCTTTTA-AGT
* * ** *
50008321 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-T-TATTAA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-AATTATCTTTTAAG
50008382 -
58 T
* *
50008382 ATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAAATTATCTTTTA-AGT
* * ** *
50008441 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-T-TATTAA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-AATTATCTTTTAAG
50008502 -
58 T
* * *
50008502 ATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTT-AAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAAATTATCTTTTA-AGT
50008561 ATCATATATT
1 ATCATATATT
50008571 ATGATATGAG
Statistics
Matches: 192, Mismatches: 29, Indels: 58
0.69 0.10 0.21
Matches are distributed among these distances:
54 29 0.15
55 13 0.07
56 12 0.06
57 8 0.04
59 30 0.16
60 16 0.08
61 20 0.10
63 8 0.04
64 10 0.05
65 16 0.08
66 30 0.16
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAAATTATCTTTTAAGT
Found at i:50008375 original size:120 final size:120
Alignment explanation
Indices: 50008251--50008652 Score: 734
Period size: 120 Copynumber: 3.4 Consensus size: 120
50008241 AATTATTTTA
*
50008251 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
50008316 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
50008371 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
*
50008436 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
50008491 AATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTT-AAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
*
50008555 TATAGTATCATATATTATGATATGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
50008611 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
50008653 ATGTTAAGTA
Statistics
Matches: 273, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 271 0.99
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:50008400 original size:18 final size:17
Alignment explanation
Indices: 50008372--50008406 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50008362 ATTATTAAGA
*
50008372 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50008389 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50008407 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50022340 original size:23 final size:23
Alignment explanation
Indices: 50022288--50022341 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
50022278 TAAACATTGA
* *
50022288 GGTGTACTATGTAAAGCCTTTGT
1 GGTGTATTATGTAAAGCCTTTAT
** *
50022311 GACGTATTCTGTAAAGCCTTTAT
1 GGTGTATTATGTAAAGCCTTTAT
50022334 GGTGTATT
1 GGTGTATT
50022342 TTGCGATGCT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (23 bp):
GGTGTATTATGTAAAGCCTTTAT
Found at i:50027908 original size:18 final size:18
Alignment explanation
Indices: 50027885--50027929 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
50027875 TGAAATAACG
50027885 GTTCACAT-GAAAGAAACA
1 GTTCACATAG-AAGAAACA
*
50027903 GTTCACATAGAAGAAGCA
1 GTTCACATAGAAGAAACA
*
50027921 GCTCACATA
1 GTTCACATA
50027930 AAATAGTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (18 bp):
GTTCACATAGAAGAAACA
Found at i:50028734 original size:37 final size:37
Alignment explanation
Indices: 50028690--50028774 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 37
50028680 TGGTTTGCAC
*
50028690 ATAGGTAGGGCTCACACATCACATACAGGGTTCAAAA
1 ATAGGTAGGGCTCACACATCAAATACAGGGTTCAAAA
* ** * * *
50028727 ATAGGTAGGGGTTTGCACCTCAAATACAGGGTTCATAT
1 ATAGGTA-GGGCTCACACATCAAATACAGGGTTCAAAA
50028765 ATAGGTAGGG
1 ATAGGTAGGG
50028775 GTTCGCACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 10 0.25
38 30 0.75
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (37 bp):
ATAGGTAGGGCTCACACATCAAATACAGGGTTCAAAA
Found at i:50028917 original size:17 final size:18
Alignment explanation
Indices: 50028874--50028910 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50028864 ACAAAGGGAA
50028874 GGTTCGCACTATGGTAGG
1 GGTTCGCACTATGGTAGG
50028892 GGTTCGCACTATGGTAGG
1 GGTTCGCACTATGGTAGG
50028910 G
1 G
50028911 TTAGCACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.41, T:0.27
Consensus pattern (18 bp):
GGTTCGCACTATGGTAGG
Found at i:50029044 original size:23 final size:23
Alignment explanation
Indices: 50028995--50029073 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
50028985 TTAAAAAAAA
* * *
50028995 TAGGGGTTCATATATCTACAAAA
1 TAGGGGTTCGTATATTTACAAAG
*
50029018 TAGGGGTTCGTATATTTATAAAG
1 TAGGGGTTCGTATATTTACAAAG
* *
50029041 TAGGTGTTCGCT-TGTTTACAAAG
1 TAGGGGTTCG-TATATTTACAAAG
*
50029064 TAGGGCTTCG
1 TAGGGGTTCG
50029074 CATGTTTATA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
23 45 0.98
24 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.35
Consensus pattern (23 bp):
TAGGGGTTCGTATATTTACAAAG
Found at i:50029074 original size:23 final size:23
Alignment explanation
Indices: 50029011--50029081 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
50029001 TTCATATATC
* * * *
50029011 TACAAAATAGGGGTTCGTATATT
1 TACAAAGTAGGTGTTCGCATGTT
* *
50029034 TATAAAGTAGGTGTTCGCTTGTT
1 TACAAAGTAGGTGTTCGCATGTT
50029057 TACAAAGTAGG-GCTTCGCATGTT
1 TACAAAGTAGGTG-TTCGCATGTT
50029080 TA
1 TA
50029082 TAAAACAATG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 1 0.03
23 38 0.97
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (23 bp):
TACAAAGTAGGTGTTCGCATGTT
Found at i:50056072 original size:13 final size:12
Alignment explanation
Indices: 50056054--50056085 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
50056044 CACTTTCAGG
50056054 TCATTTTCATTTT
1 TCATTTTC-TTTT
50056067 TCATTTTCTTTT
1 TCATTTTCTTTT
50056079 TCATTTT
1 TCATTTT
50056086 GGAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:50074482 original size:24 final size:24
Alignment explanation
Indices: 50074440--50074491 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50074430 AATCAAATTC
** *
50074440 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
50074464 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
50074488 AAAT
1 AAAT
50074492 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:50079297 original size:16 final size:16
Alignment explanation
Indices: 50079276--50079306 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50079266 ATCGAGTTGA
50079276 GAAAATTAATTAATTG
1 GAAAATTAATTAATTG
50079292 GAAAATTAATTAATT
1 GAAAATTAATTAATT
50079307 TAATTAAATT
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:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:50081352 original size:16 final size:16
Alignment explanation
Indices: 50081328--50081368 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
50081318 TGGTTGGGTA
*
50081328 AATGAAATAGGGCTGT
1 AATGGAATAGGGCTGT
*
50081344 AATGGAATAGGGTTGT
1 AATGGAATAGGGCTGT
*
50081360 AATAGAATA
1 AATGGAATA
50081369 AAGTTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.29, T:0.27
Consensus pattern (16 bp):
AATGGAATAGGGCTGT
Found at i:50081613 original size:60 final size:60
Alignment explanation
Indices: 50081549--50081709 Score: 177
Period size: 60 Copynumber: 2.7 Consensus size: 60
50081539 TTTTAATAAG
* *
50081549 ATTATTATTAAATATATTTTAATAAAATAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATATTTTAATAAAATAATAAT-AATAATTTAATAACATTCTTAACATA
* * * *
50081609 ATTATTATTAAATAAAATTTAATAAAATAAT-AT-ACAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATATTTTAATAAAATAATAATAATAATTTAATAACATTCTTAACATA
* *
50081667 ATTATTATTAAA-ATATGAATTAATAAAACTCATAATATATAAT
1 ATTATTATTAAATATAT--TTTAATAAAA-TAATAATA-ATAAT
50081710 ATTATAAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
57 15 0.18
58 19 0.23
59 11 0.13
60 32 0.39
61 2 0.02
63 4 0.05
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (60 bp):
ATTATTATTAAATATATTTTAATAAAATAATAATAATAATTTAATAACATTCTTAACATA
Found at i:50082889 original size:28 final size:28
Alignment explanation
Indices: 50082812--50082922 Score: 99
Period size: 28 Copynumber: 4.1 Consensus size: 28
50082802 ATGTTTATCG
* *
50082812 TATTATTTCT-CACTTTGGTGCTTATCGT
1 TATTATTT-TGCACTTTGGTGCTTATTGA
* * * *
50082840 TGTAAAATTTGCACTTTAGTGCTTATTGA
1 TAT-TATTTTGCACTTTGGTGCTTATTGA
50082869 TATTATTTTGCACTTTGGTGCTTATTG-
1 TATTATTTTGCACTTTGGTGCTTATTGA
*
50082896 --TTA-TTTGCACTTT-GTGCTTAGTGA
1 TATTATTTTGCACTTTGGTGCTTATTGA
50082920 TAT
1 TAT
50082923 ATGATATGTG
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
23 9 0.13
24 10 0.15
25 3 0.04
26 1 0.01
28 24 0.36
29 20 0.30
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.51
Consensus pattern (28 bp):
TATTATTTTGCACTTTGGTGCTTATTGA
Found at i:50108561 original size:105 final size:105
Alignment explanation
Indices: 50108315--50108685 Score: 549
Period size: 103 Copynumber: 3.6 Consensus size: 105
50108305 AACCGTTATT
* * * *
50108315 GGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAACACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
50108380 ATCAGCACATAGCAACCCCCTTTT--CATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
* *
50108418 GGTGGAT-ATCGCACTTAGCACCACCAATGAACCCGGGAATCTGCACTTAGCAACCCCTCGGGGG
1 GGTGGATCA-CGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
50108482 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
*
50108523 GGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
* *
50108588 ATTAGCACATAGCAACCCCC-TTTCACATTT-AAAAATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
**
50108626 GGTGGACTCA-GCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCCCTC
1 GGTGGA-TCACGCACTTAGC-ACCACCAATGAA-CCGGGGAATCAGCACTTAGCAACCCCTC
50108686 TATATGTAAT
Statistics
Matches: 245, Mismatches: 16, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
103 104 0.42
104 48 0.20
105 92 0.38
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
Found at i:50109051 original size:30 final size:30
Alignment explanation
Indices: 50109012--50109074 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
50109002 ATCCACCACT
*
50109012 CAAATTTTTGAAAAATTACAATTTTGCCCC
1 CAAACTTTTGAAAAATTACAATTTTGCCCC
* * * *
50109042 CAAACTTTTGCATAATTACATTTTTGTCCC
1 CAAACTTTTGAAAAATTACAATTTTGCCCC
50109072 CAA
1 CAA
50109075 GCTCGGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.38
Consensus pattern (30 bp):
CAAACTTTTGAAAAATTACAATTTTGCCCC
Found at i:50115928 original size:21 final size:21
Alignment explanation
Indices: 50115902--50115946 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
50115892 GAAATCAAAC
50115902 GAGAAAGAGAAAACAAGATTA
1 GAGAAAGAGAAAACAAGATTA
50115923 GAGAAAGAGAAAACAAGATTA
1 GAGAAAGAGAAAACAAGATTA
50115944 GAG
1 GAG
50115947 GTGTGGTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.27, T:0.09
Consensus pattern (21 bp):
GAGAAAGAGAAAACAAGATTA
Found at i:50117871 original size:24 final size:23
Alignment explanation
Indices: 50117843--50117895 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 23
50117833 TATTTAGTAT
*
50117843 TAAATATTTTTATAATATAAGATA
1 TAAATATTTTAATAATATAA-ATA
50117867 TAAATATTTTAATAATATAAATA
1 TAAATATTTTAATAATATAAATA
50117890 TAAATA
1 TAAATA
50117896 ATGATTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAATATTTTAATAATATAAATA
Found at i:50125746 original size:106 final size:106
Alignment explanation
Indices: 50125558--50125750 Score: 323
Period size: 106 Copynumber: 1.8 Consensus size: 106
50125548 TTTTCTTTGC
* *
50125558 TTAAGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAACCAAGCACCCCAACTCGGTTACT
1 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACCCGGTTACT
*
50125623 CAGCCCAACATACTCCTAATTTATTATATTTATATATATAT
66 CAGCCCAACACACTCCTAATTTATTATATTTATATATATAT
* * *
50125664 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGTACCCCACCCCGGTTACT
1 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACCCGGTTACT
*
50125729 CAGCCCAACACATTCCTAATTT
66 CAGCCCAACACACTCCTAATTT
50125751 TTTTTGTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 80 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (106 bp):
TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACCCGGTTACT
CAGCCCAACACACTCCTAATTTATTATATTTATATATATAT
Found at i:50134084 original size:16 final size:17
Alignment explanation
Indices: 50134062--50134105 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
50134052 CATCTCGTAA
50134062 TCATTTCTCATATTTTC
1 TCATTTCTCATATTTTC
*
50134079 -CATTTC-AATATTTTC
1 TCATTTCTCATATTTTC
50134094 TCA--TCTCATATT
1 TCATTTCTCATATT
50134106 CATTTCTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 8 0.35
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTTCTCATATTTTC
Found at i:50136937 original size:44 final size:44
Alignment explanation
Indices: 50136747--50136938 Score: 242
Period size: 44 Copynumber: 4.4 Consensus size: 44
50136737 ATACCCGTAA
* * *
50136747 AAATTAGATTCATTGCACCAAACTTGGAACCAA-TTTGTAATTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* * *
50136790 AAATTAGATTCATTGTAACAAACTTGGAACCAACTTTGTACTTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* * * * *
50136834 AAATTAGATTAATTAGAACAAACTTGAAACAAAATTTGTCATTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* *
50136878 CAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATAT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* *
50136922 AAATTATATACATTGGA
1 AAATTAGATTCATTGGA
50136939 GTAAATTAGC
Statistics
Matches: 127, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 31 0.24
44 96 0.76
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (44 bp):
AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
Found at i:50138877 original size:24 final size:25
Alignment explanation
Indices: 50138845--50138893 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
50138835 CTTAAGCCAG
50138845 ATAACAGG-AAGCTCACAAAGAGCC
1 ATAACAGGAAAGCTCACAAAGAGCC
* * *
50138869 ATAATAGGAAAGCTCATAAGGAGCC
1 ATAACAGGAAAGCTCACAAAGAGCC
50138894 TTTCAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (25 bp):
ATAACAGGAAAGCTCACAAAGAGCC
Found at i:50139127 original size:65 final size:65
Alignment explanation
Indices: 50139046--50139195 Score: 246
Period size: 65 Copynumber: 2.3 Consensus size: 65
50139036 CGAGCCATAT
50139046 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
1 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
* * * * *
50139111 CAGGACGCTCACAAAGAGTTTCATTTGTGTCTGTAATATATGCAGGATCATAACCGATCATAAAA
1 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
*
50139176 TAGGACGCTCACAAAGAGCT
1 CAGGACGCTCACAAAGAGCT
50139196 ACGGTAGTCC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 78 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (65 bp):
CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
Found at i:50142740 original size:41 final size:41
Alignment explanation
Indices: 50142695--50142854 Score: 284
Period size: 41 Copynumber: 3.9 Consensus size: 41
50142685 ACTGGTACTT
*
50142695 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* *
50142736 AGCCTGCTAGACTTAAAGTCTAAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
50142777 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
50142818 AGCCTTCTAGACTTAAAGTCTGAAATGTTTCACCGGC
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGC
50142855 ATAAACCTGA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:50157306 original size:41 final size:41
Alignment explanation
Indices: 50157168--50157302 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
50157158 TACCATTAGT
** *
50157168 GGCGTTTTTCTTAAAAACGCGGCAAAAGGT-AGGCAATAGC
1 GGCGTTTTTCCCAAAAACGCCGCAAAAGGTAAGGCAATAGC
* * *
50157208 GGCGTTTCTCCCAAAAACACCACAAAAGGTAAGGCAATAGC
1 GGCGTTTTTCCCAAAAACGCCGCAAAAGGTAAGGCAATAGC
** * * * *
50157249 GATG-TTTTCTCCATAAACGCTGTAAAAGGTAAGGCAATAGT
1 GGCGTTTTTC-CCAAAAACGCCGCAAAAGGTAAGGCAATAGC
50157290 GGCGTTTTTCCCA
1 GGCGTTTTTCCCA
50157303 TAAATGCTAG
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
40 28 0.37
41 42 0.56
42 5 0.07
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (41 bp):
GGCGTTTTTCCCAAAAACGCCGCAAAAGGTAAGGCAATAGC
Found at i:50157529 original size:278 final size:278
Alignment explanation
Indices: 50157029--50157566 Score: 934
Period size: 278 Copynumber: 1.9 Consensus size: 278
50157019 CGTACATATT
** * *
50157029 TGCTAGAACCGTATTTAGCTTGGGTGAATATACTAGGAGTGGTGCCGCCTATCAACTAGCCTCAC
1 TGCTAGAACCGTATTTAGCCCGGCTAAATATACTAGGAGTGGTGCCGCCTATCAACTAGCCTCAC
* * * *
50157094 TCCAACAAATTAAGCTTTTAGCGGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGTAAATATAT
66 TACAAAAAATTAAGCTTTTAACGGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGCAAATATAT
* *
50157159 ACCATTAGTGGCGTTTTTCTTAAAAACGCGGCAAAAGGTAGGCAATAGCGGCGTTTCTCCCAAAA
131 ACCATTAGTGGCATTTTTCTTAAAAACGCGGCAAAAGGTAGGCAATAGCGGCATTTCTCCCAAAA
* *
50157224 ACACCACAAAAGGTAAGGCAATAGCGATGTTTTCTCC-ATAAACGCTGTAAAAGGTAAGGCAATA
196 ACACCACAAAAGGTAAGGCAATAGCGATATTTT-TCCTATAAACGCTGCAAAAGGTAAGGCAATA
50157288 GTGGCGTTTTTCCCATAAA
260 GTGGCGTTTTTCCCATAAA
50157307 TGCTAGAACCGTATTTAGCCCGGCTAAATATACTAGGAGTGGTGCCGCCTATCAACTAGCCTCAC
1 TGCTAGAACCGTATTTAGCCCGGCTAAATATACTAGGAGTGGTGCCGCCTATCAACTAGCCTCAC
50157372 TACAAAAAATTAAGCTTTTAACGGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGCAAATATAT
66 TACAAAAAATTAAGCTTTTAACGGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGCAAATATAT
*
50157437 ACCATTAGTGGCATTTTTCTTAAAAACGCGGCAAAAGGTAGGCAATAGCGGCATTTCTCCCATAA
131 ACCATTAGTGGCATTTTTCTTAAAAACGCGGCAAAAGGTAGGCAATAGCGGCATTTCTCCCAAAA
*
50157502 ACACCACAAAAGGTAAGGCAGTAGCGATATTTTTCCTATAAACGCTGCAAAAGGTAAGGCAATAG
196 ACACCACAAAAGGTAAGGCAATAGCGATATTTTTCCTATAAACGCTGCAAAAGGTAAGGCAATAG
50157567 CAATGTTTTC
Statistics
Matches: 245, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
277 3 0.01
278 242 0.99
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (278 bp):
TGCTAGAACCGTATTTAGCCCGGCTAAATATACTAGGAGTGGTGCCGCCTATCAACTAGCCTCAC
TACAAAAAATTAAGCTTTTAACGGCATTTTTAGTGGCGTTTGGACCAAAAATGCCGCAAATATAT
ACCATTAGTGGCATTTTTCTTAAAAACGCGGCAAAAGGTAGGCAATAGCGGCATTTCTCCCAAAA
ACACCACAAAAGGTAAGGCAATAGCGATATTTTTCCTATAAACGCTGCAAAAGGTAAGGCAATAG
TGGCGTTTTTCCCATAAA
Found at i:50157543 original size:41 final size:41
Alignment explanation
Indices: 50157460--50157640 Score: 193
Period size: 41 Copynumber: 4.4 Consensus size: 41
50157450 TTTTTCTTAA
* ** *
50157460 AAACGCGGCAAAAGGT-AGGCAATAGCGGCATTTCTCCCAT
1 AAACGCCGCAAAAGGTAAGGCAATAGCGATATTTTTCCCAT
* * * *
50157500 AAACACCACAAAAGGTAAGGCAGTAGCGATATTTTTCCTAT
1 AAACGCCGCAAAAGGTAAGGCAATAGCGATATTTTTCCCAT
* * * *
50157541 AAACGCTGCAAAAGGTAAGGCAATAGCAATGTTTTCCCCAT
1 AAACGCCGCAAAAGGTAAGGCAATAGCGATATTTTTCCCAT
* *** *
50157582 AAACGCCGTAAAAGGTAAGGCAATAGCGGCGTTTTCCCCAT
1 AAACGCCGCAAAAGGTAAGGCAATAGCGATATTTTTCCCAT
*
50157623 AAACGCCGTAAAAGGTAA
1 AAACGCCGCAAAAGGTAA
50157641 AGAAAACGTC
Statistics
Matches: 119, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 13 0.11
41 106 0.89
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
AAACGCCGCAAAAGGTAAGGCAATAGCGATATTTTTCCCAT
Found at i:50157748 original size:44 final size:44
Alignment explanation
Indices: 50157698--50157801 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 44
50157688 ATGATACAAA
*
50157698 CCGATTCCATTTTCTTTCACAAATGATACCATTTTATGTCTCCC
1 CCGATTCCATTTTCTTTCACAAACGATACCATTTTATGTCTCCC
* * * * *
50157742 CCGATTCCCTTTTCTTTCGCAAACGATGCCGTTTTATTTCTCCC
1 CCGATTCCATTTTCTTTCACAAACGATACCATTTTATGTCTCCC
*
50157786 CCAATTCCATTTTCTT
1 CCGATTCCATTTTCTT
50157802 CCCTAATTCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.18, C:0.32, G:0.08, T:0.42
Consensus pattern (44 bp):
CCGATTCCATTTTCTTTCACAAACGATACCATTTTATGTCTCCC
Found at i:50157809 original size:18 final size:18
Alignment explanation
Indices: 50157778--50157819 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
50157768 TGCCGTTTTA
*
50157778 TTTCTCCCCCAATTCCAT
1 TTTCTTCCCCAATTCCAT
* *
50157796 TTTCTTCCCTAATTCCCT
1 TTTCTTCCCCAATTCCAT
50157814 TTTCTT
1 TTTCTT
50157820 TCTCAGCATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.38, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTCTTCCCCAATTCCAT
Found at i:50160295 original size:13 final size:15
Alignment explanation
Indices: 50160259--50160298 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
50160249 TGAATTTCTA
50160259 TGAACTTTTTATATTT
1 TGAA-TTTTTATATTT
50160275 TGAA-TTTTA-ATTT
1 TGAATTTTTATATTT
50160288 T-AATTTTTATA
1 TGAATTTTTATA
50160299 AATTTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.09
13 10 0.45
14 6 0.27
16 4 0.18
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (15 bp):
TGAATTTTTATATTT
Found at i:50160359 original size:14 final size:14
Alignment explanation
Indices: 50160340--50160372 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
50160330 TACTATGTTA
50160340 AATTTTATTTTTAT
1 AATTTTATTTTTAT
50160354 AA-TTT-TTTTTAT
1 AATTTTATTTTTAT
50160366 AATTTTA
1 AATTTTA
50160373 AATTTAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.53
13 6 0.35
14 2 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
AATTTTATTTTTAT
Found at i:50160757 original size:14 final size:13
Alignment explanation
Indices: 50160740--50160769 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
50160730 TTAATTTGTT
50160740 ATTTTAAATTTTAA
1 ATTTTAAA-TTTAA
50160754 ATTTTAAATTTAA
1 ATTTTAAATTTAA
50160767 ATT
1 ATT
50160770 CATTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTTTAAATTTAA
Found at i:50160767 original size:6 final size:7
Alignment explanation
Indices: 50160740--50160769 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
50160730 TTAATTTGTT
50160740 ATTTTAA
1 ATTTTAA
50160747 ATTTTAA
1 ATTTTAA
50160754 ATTTTAA
1 ATTTTAA
50160761 A-TTTAA
1 ATTTTAA
50160767 ATT
1 ATT
50160770 CATTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTTAA
Found at i:50165422 original size:818 final size:818
Alignment explanation
Indices: 50163847--50165479 Score: 2851
Period size: 818 Copynumber: 2.0 Consensus size: 818
50163837 CCTTCTTCAC
50163847 TATTATGGCGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
1 TATTATGGCGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
* *
50163912 AGGGTGCTAATTTATTTGTAAAGTTTTCATTCAGTCATGAATATACCTTTAGTTACTACTTTTGA
66 AGGGTGCTAATTTATCTGTAAAGTTTTCATTCAGTCATGAATATACCTTTAGTTACAACTTTTGA
* * *
50163977 TAATGTTGTATATTATGTTTAGGTTCCTATACAAATTGAATTCTTATTGTTGTAATAAGTGTTAT
131 TAATATTGTATATCATGTTTAGGTTCCTATACAAATTGAATTATTATTGTTGTAATAAGTGTTAT
* *
50164042 CCAGAAGGATCAATTGCTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCTCTAGATATTT
196 CCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCCCTAGATATTT
*
50164107 AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATGCTGGGTTCAATAATCATAACTTAG
261 AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATACTGGGTTCAATAATCATAACTTAG
* *
50164172 CCAAAACTTATCTATTTCGAAGTTATAGAGAACCAATCGGTAAAGTTGAAATTTCACACTTAGAT
326 CCAAAACTTATCTATTTCGAAGTTATAGAGAACCAATCGATAAAGTTGAAATTGCACACTTAGAT
*
50164237 GATAAATCTTGGGTACAAGAACATCGATATGTTCTTTGTCACCACGATTCAGTTGAACCATTACA
391 GATAAATCTTGGGTACAAGAACATCGATATGTTCTTTGTCACCACGATTCAGTTGAACAATTACA
50164302 CAAGTAAGTTTTAAAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
456 CAAGTAAGTTTTAAAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
*
50164367 CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCATTCACGCTCCCGAATATTACTACATC
521 CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCATTCACGCTCCCGAAGATTACTACATC
50164432 GAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTTAAGGAAAACGGTATGCAACTGA
586 GAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTTAAGGAAAACGGTATGCAACTGA
*
50164497 AGCTTTCATTGACAAATAATAATTTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGATT
651 AGCTTTCATTGAAAAATAATAATTTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGATT
* * *
50164562 CAATAGGTTTGGAGTGGAAAGGATGTCAATGACGAAGTTAAATGGTTTTCCCAAGGTCCGAATAG
716 CAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCCGAATAA
*
50164627 AGTAGTAAAAAGATATATTGTCTTCCTCATTAATGGAT
781 AGTAGTAAAAAGATATATTGCCTTCCTCATTAATGGAT
* * * * * *
50164665 TATTATGGTGTACTTGTTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGATCGGTTTTCTATC
1 TATTATGGCGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
* *
50164730 -GATGTGCTAATTTATCTGTAAAGTTTTCATTCATTCATGAATATACCTTTAGTTACAACTTTTG
66 AG-GGTGCTAATTTATCTGTAAAGTTTTCATTCAGTCATGAATATACCTTTAGTTACAACTTTTG
*
50164794 ATAATATTGTATATCATGTTTAGGTTCCTATGCAAATTGAATTATTATTGTTGTAATAAGTGTTA
130 ATAATATTGTATATCATGTTTAGGTTCCTATACAAATTGAATTATTATTGTTGTAATAAGTGTTA
*
50164859 TCTAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCCCTAGATATT
195 TCCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCCCTAGATATT
*
50164924 TAGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATACTGGGTTCACTAATCATAACTTA
260 TAGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATACTGGGTTCAATAATCATAACTTA
* *
50164989 GTCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGATAAAGTTGAAATTGCACACTTAGA
325 GCCAAAACTTATCTATTTCGAAGTTATAGAGAACCAATCGATAAAGTTGAAATTGCACACTTAGA
* *
50165054 TGATAAATCTTGGGTACAA-ACACATCGATATGTTCTTTTTCACCACGATTTAGTTGAACAATTA
390 TGATAAATCTTGGGTACAAGA-ACATCGATATGTTCTTTGTCACCACGATTCAGTTGAACAATTA
* * *
50165118 CGCAAGTAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCACGTAA
454 CACAAGTAAGTTTTAAAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAA
* * *
50165183 TCCACTTTTTAAATTGAGTACAAACAAGTCTTGAGATCTCGTTCACGCTCCCGAAGATTACTACA
519 TCCACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCATTCACGCTCCCGAAGATTACTACA
50165248 TCGAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTT-AGGACAAACGGTATGCAAC
584 TCGAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTTAAGGA-AAACGGTATGCAAC
50165312 TGAAGCTTTCATTGAAAAATAATAATGTTTTT-GTATAACATTTATAATTAATCAATTTACTTTC
648 TGAAGCTTTCATTGAAAAATAATAAT-TTTTTCGTATAACATTTATAATTAATCAATTTACTTTC
*
50165376 GATTCAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCTGA
712 GATTCAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCCGA
50165441 ATAAAGTAGTAAAAAGATATATTGCCTTCCTCATTAATG
777 ATAAAGTAGTAAAAAGATATATTGCCTTCCTCATTAATG
50165480 AATTCAGGTT
Statistics
Matches: 772, Mismatches: 39, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
817 6 0.01
818 761 0.99
819 5 0.01
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (818 bp):
TATTATGGCGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
AGGGTGCTAATTTATCTGTAAAGTTTTCATTCAGTCATGAATATACCTTTAGTTACAACTTTTGA
TAATATTGTATATCATGTTTAGGTTCCTATACAAATTGAATTATTATTGTTGTAATAAGTGTTAT
CCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCCCTAGATATTT
AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATACTGGGTTCAATAATCATAACTTAG
CCAAAACTTATCTATTTCGAAGTTATAGAGAACCAATCGATAAAGTTGAAATTGCACACTTAGAT
GATAAATCTTGGGTACAAGAACATCGATATGTTCTTTGTCACCACGATTCAGTTGAACAATTACA
CAAGTAAGTTTTAAAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCATTCACGCTCCCGAAGATTACTACATC
GAGAGATTCATAAGTTATTCACAGAATCTTTTCATGAATGGTTAAGGAAAACGGTATGCAACTGA
AGCTTTCATTGAAAAATAATAATTTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGATT
CAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCCGAATAA
AGTAGTAAAAAGATATATTGCCTTCCTCATTAATGGAT
Found at i:50167743 original size:66 final size:66
Alignment explanation
Indices: 50167671--50167808 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 66
50167661 AGCAAATGCT
** * * * *
50167671 CAACTTAAAGCGGAGGTAGCATCGAGAGAAGTAGAAGCTCA-AAGAAAATATGAAGAACTCCAGC
1 CAACTTAAAGCGGAGACAGCAGCGAGAGAAGCAGAAGC-AAGAAGAAAATATGAAGAACTCCAAC
50167735 TA
65 TA
* * *
50167737 CAACTTAAAGTGGAGACAGCAGCGAGAGAAGCAGAGGCAAGAAGAAAATATGACGAACTCCAACT
1 CAACTTAAAGCGGAGACAGCAGCGAGAGAAGCAGAAGCAAGAAGAAAATATGAAGAACTCCAACT
50167802 A
66 A
50167803 CAACTT
1 CAACTT
50167809 CAGAATATGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 1 0.02
66 61 0.98
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (66 bp):
CAACTTAAAGCGGAGACAGCAGCGAGAGAAGCAGAAGCAAGAAGAAAATATGAAGAACTCCAACT
A
Found at i:50171392 original size:2 final size:2
Alignment explanation
Indices: 50171385--50171430 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
50171375 GAGTATAATA
50171385 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
50171427 CT CT
1 CT CT
50171431 GTGTGTTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:50175080 original size:6 final size:6
Alignment explanation
Indices: 50175069--50175115 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
50175059 AGGTTTCCAA
*
50175069 AAATGG AAATGG AAATGA AAAT-G AAGATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AA-ATGG AAATGG AAATGG AAATG
50175116 ATCTATCTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 2 0.05
6 32 0.86
7 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:50175102 original size:24 final size:24
Alignment explanation
Indices: 50175071--50175116 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
50175061 GTTTCCAAAA
50175071 ATGGAAATGGAAATGAAAATGAAG
1 ATGGAAATGGAAATGAAAATGAAG
*
50175095 ATGGAAATGGAAATGGAAATGA
1 ATGGAAATGGAAATGAAAATGA
50175117 TCTATCTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.17
Consensus pattern (24 bp):
ATGGAAATGGAAATGAAAATGAAG
Found at i:50180932 original size:14 final size:14
Alignment explanation
Indices: 50180913--50180940 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50180903 ATGCCAGTGA
50180913 AAGGTATCCAAAGC
1 AAGGTATCCAAAGC
50180927 AAGGTATCCAAAGC
1 AAGGTATCCAAAGC
50180941 TTCCTTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
AAGGTATCCAAAGC
Found at i:50182443 original size:23 final size:23
Alignment explanation
Indices: 50182417--50182460 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
50182407 GAACACAATG
50182417 TAATATCCT-GAAAATTACTACTA
1 TAATA-CCTCGAAAATTACTACTA
50182440 TAATACCTCGAAAATTACTAC
1 TAATACCTCGAAAATTACTAC
50182461 AGTAAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (23 bp):
TAATACCTCGAAAATTACTACTA
Found at i:50182961 original size:11 final size:11
Alignment explanation
Indices: 50182947--50182976 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
50182937 TTTTAAATAA
50182947 TTTTTTATTAT
1 TTTTTTATTAT
50182958 TTTTTTATTAT
1 TTTTTTATTAT
50182969 TTTATTTA
1 TTT-TTTA
50182977 GTATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:50186761 original size:20 final size:20
Alignment explanation
Indices: 50186715--50186763 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
50186705 ATCATGGTCT
50186715 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTCTTTACTTAC
* *
50186734 TCT-TTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
50186754 TTGCTTACTT
1 TTGCTTACTT
50186764 AAATAACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.12, C:0.22, G:0.06, T:0.59
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:50187033 original size:49 final size:49
Alignment explanation
Indices: 50186968--50187095 Score: 127
Period size: 49 Copynumber: 2.6 Consensus size: 49
50186958 TAATAACATG
* *
50186968 CCAAAGCCATGTCCCAGACATGGTCTTACAGGGGATGTTTCCTATA-C-TA
1 CCAATGCCATATCCCAGACATGGTCTTACAGGGGA-G-TTCCTATATCGTA
* * * *
50187017 CCAATGTCATATCCCAGATC-TGGTCTTACATGGGAGTTCTTATATCGGTG
1 CCAATGCCATATCCCAGA-CATGGTCTTACAGGGGAGTTCCTATATC-GTA
* *
50187067 CCTATGCCATGTCCCAGACATGGTCTTAC
1 CCAATGCCATATCCCAGACATGGTCTTAC
50187096 GGAGGACCTC
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
47 7 0.11
48 2 0.03
49 30 0.46
50 26 0.40
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
CCAATGCCATATCCCAGACATGGTCTTACAGGGGAGTTCCTATATCGTA
Found at i:50187091 original size:50 final size:50
Alignment explanation
Indices: 50186966--50187145 Score: 172
Period size: 50 Copynumber: 3.6 Consensus size: 50
50186956 GATAATAACA
* *
50186966 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGATGTTTCCTATA-C--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-G-TTCTTATATCGG
* * * *
50187015 TACCAATGTCATATCCCAGATC-TGGTCTTACATGGGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAGA-CATGGTCTTACAGGGGAGTTCTTATATCGG
* ** * *
50187065 TGCCTATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGG-GGAGTTCTTATATCGG
* *
50187115 TGCCAACGCTATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
50187146 GTTGGACCTC
Statistics
Matches: 107, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
47 7 0.07
48 2 0.02
49 32 0.30
50 66 0.62
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGAGTTCTTATATCGG
Found at i:50187146 original size:50 final size:50
Alignment explanation
Indices: 50187061--50187156 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
50187051 AGTTCTTATA
* *
50187061 TCGGTGCCTATGCCATGTCCCAGACATGGTCTTACGGAGGACCTCTCATC
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGAGGACCTCTCATC
* **
50187111 TCGGTGCCAACGCTATGTCCCAGACATGGTCTTACGTTGGACCTCT
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGAGGACCTCT
50187157 TATAACCTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.18, C:0.31, G:0.24, T:0.27
Consensus pattern (50 bp):
TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGAGGACCTCTCATC
Found at i:50192832 original size:15 final size:15
Alignment explanation
Indices: 50192812--50192927 Score: 62
Period size: 15 Copynumber: 7.5 Consensus size: 15
50192802 GTCTGCTTTA
50192812 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
*
50192827 TGTTTCTGTACCATGTTT-
1 TGTTTC--T-CTAT-TTTC
50192845 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
*
50192860 TGTTTCTGTACCATGTTT-
1 TGTTTC--T-CTAT-TTTC
*
50192878 TGTTCCTCTATTTTC
1 TGTTTCTCTATTTTC
* **
50192893 TGTAGT-GGT-TTTT-
1 TGT-TTCTCTATTTTC
50192906 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
50192921 TGTTTCT
1 TGTTTCT
50192928 GTACCATGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
12 1 0.01
13 4 0.05
14 14 0.19
15 29 0.39
16 2 0.03
17 2 0.03
18 17 0.23
19 6 0.08
ACGTcount: A:0.08, C:0.17, G:0.13, T:0.62
Consensus pattern (15 bp):
TGTTTCTCTATTTTC
Found at i:50192849 original size:33 final size:33
Alignment explanation
Indices: 50192812--50192947 Score: 185
Period size: 33 Copynumber: 4.3 Consensus size: 33
50192802 GTCTGCTTTA
50192812 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
50192845 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
* * *
50192878 TGTTCCTCTATTTTCTGTAGT-GGT----T-TTT
1 TGTTTCTCTATTTTCTGT-TTCTGTACCATGTTT
50192906 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
50192939 TGTTCCTCT
1 TGTTTCTCT
50192948 TGCCATTTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.01
28 22 0.25
29 1 0.01
32 1 0.01
33 63 0.71
34 1 0.01
ACGTcount: A:0.08, C:0.18, G:0.13, T:0.60
Consensus pattern (33 bp):
TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
Found at i:50192850 original size:18 final size:18
Alignment explanation
Indices: 50192827--50192881 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
50192817 CTCTATTTTC
50192827 TGTTTCTGTACCATGTTT
1 TGTTTCTGTACCATGTTT
*
50192845 TGTTTC--T-CTAT-TTT
1 TGTTTCTGTACCATGTTT
50192859 CTGTTTCTGTACCATGTTT
1 -TGTTTCTGTACCATGTTT
50192878 TGTT
1 TGTT
50192882 CCTCTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 9 0.30
16 1 0.03
17 1 0.03
18 13 0.43
19 3 0.10
ACGTcount: A:0.09, C:0.16, G:0.15, T:0.60
Consensus pattern (18 bp):
TGTTTCTGTACCATGTTT
Found at i:50194045 original size:21 final size:22
Alignment explanation
Indices: 50194019--50194074 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
50194009 AGTTTCCCCC
50194019 GTTTGCAGTGGCTATACAA-TT
1 GTTTGCAGTGGCTATACAATTT
* *
50194040 GTTTGCTGTGGCTATATAATTT
1 GTTTGCAGTGGCTATACAATTT
*
50194062 ATTTGCAGTGGCT
1 GTTTGCAGTGGCT
50194075 CCATCTGCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.43
Consensus pattern (22 bp):
GTTTGCAGTGGCTATACAATTT
Found at i:50197254 original size:18 final size:18
Alignment explanation
Indices: 50197226--50197276 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
50197216 ATTATTAAGA
50197226 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
50197243 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
50197259 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
50197277 TTAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:50197520 original size:16 final size:16
Alignment explanation
Indices: 50197496--50197545 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
50197486 GATTTGCTAT
50197496 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
50197512 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
50197528 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
50197544 TA
1 TA
50197546 TAGCGAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:50201670 original size:24 final size:25
Alignment explanation
Indices: 50201608--50201673 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
50201598 ATAATTTTCA
* *
50201608 AAAGCACAGTCT-ATTTTTCTTCTC
1 AAAGCCCAGTCTAATTTGTCTTCTC
* *
50201632 AAAGTCCAAAT-TAATTTGT-TTCTC
1 AAAG-CCCAGTCTAATTTGTCTTCTC
50201656 AAAGCCCAGTCTAATTTG
1 AAAGCCCAGTCTAATTTG
50201674 GTTTAAAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 4 0.12
24 21 0.64
25 8 0.24
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (25 bp):
AAAGCCCAGTCTAATTTGTCTTCTC
Found at i:50211400 original size:24 final size:23
Alignment explanation
Indices: 50211360--50211409 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
50211350 GTTTGATTGT
*
50211360 TAAAATAAATAGGAATAAGTAAAA
1 TAAAATAAATAGAAAT-AGTAAAA
*
50211384 TAAAATAAAATA-AAATATTAAAA
1 TAAAAT-AAATAGAAATAGTAAAA
50211407 TAA
1 TAA
50211410 TTGGAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 9 0.39
25 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (23 bp):
TAAAATAAATAGAAATAGTAAAA
Found at i:50215986 original size:26 final size:26
Alignment explanation
Indices: 50215957--50216009 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
50215947 GATATTTGTA
50215957 TATGTTCATGTCAGGATACATATCAT
1 TATGTTCATGTCAGGATACATATCAT
50215983 TATGTTCATGTCAGGATACATATCAT
1 TATGTTCATGTCAGGATACATATCAT
50216009 T
1 T
50216010 CTCTTACCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (26 bp):
TATGTTCATGTCAGGATACATATCAT
Found at i:50216348 original size:21 final size:21
Alignment explanation
Indices: 50216322--50216429 Score: 130
Period size: 21 Copynumber: 5.1 Consensus size: 21
50216312 TCGAAAGATG
50216322 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * *
50216343 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTA
* *
50216364 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
50216385 AACAGAAGCTCGA-AAGAGCTA
1 AACAGAAGCTC-ATAAGAGCTA
*
50216406 AACAGGAGCTCGA-AAGAGCTA
1 AACAGAAGCTC-ATAAGAGCTA
50216427 AAC
1 AAC
50216430 TAAAAATAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:50216368 original size:42 final size:42
Alignment explanation
Indices: 50216303--50216429 Score: 145
Period size: 42 Copynumber: 3.1 Consensus size: 42
50216293 CAGATACGCC
*
50216303 AACAGAAGCTCGAAAGA--TGAACAGAAGCTCATAAGAGCTA
1 AACAGAAACTCGAAAGAGCTGAACAGAAGCTCATAAGAGCTA
* * *
50216343 AACAGAAACTC-ATAAGAGTTGAACAGAAGCTCGTAAGAGCTG
1 AACAGAAACTCGA-AAGAGCTGAACAGAAGCTCATAAGAGCTA
* * *
50216385 AACAGAAGCTCGAAAGAGCTAAACAGGAGCTCGA-AAGAGCTA
1 AACAGAAACTCGAAAGAGCTGAACAGAAGCTC-ATAAGAGCTA
50216427 AAC
1 AAC
50216430 TAAAAATAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.01
40 14 0.19
42 57 0.78
43 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.13
Consensus pattern (42 bp):
AACAGAAACTCGAAAGAGCTGAACAGAAGCTCATAAGAGCTA
Found at i:50218007 original size:15 final size:15
Alignment explanation
Indices: 50217982--50218017 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
50217972 GGTGTGACAT
50217982 TTACC-TAGGTTAAA
1 TTACCTTAGGTTAAA
*
50217996 TTCCCTTAGGTTAAA
1 TTACCTTAGGTTAAA
50218011 TTACCTT
1 TTACCTT
50218018 GGAAAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (15 bp):
TTACCTTAGGTTAAA
Found at i:50236702 original size:16 final size:16
Alignment explanation
Indices: 50236681--50236720 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
50236671 CGTTTGGTTC
50236681 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
50236697 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
50236713 GGTGTAAT
1 GCTGTAAT
50236721 AGTAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:50236986 original size:16 final size:17
Alignment explanation
Indices: 50236953--50237228 Score: 67
Period size: 18 Copynumber: 16.0 Consensus size: 17
50236943 TTATTATTAA
50236953 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
*
50236971 ATATAATTTAATAAATT
1 ATATAATTTAATAAAAT
* ***
50236988 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATA-AAAT
50237007 ATATGAATTTAATAAAAT
1 ATAT-AATTTAATAAAAT
* * *
50237025 -CATAATAT-ATAATACT
1 ATATAATTTAATAA-AAT
* *
50237041 ATAAAATATAATTTAAAAT
1 ATATAATTTAA--TAAAAT
* *
50237060 A-ATTA-TT-AT-TAA-
1 ATATAATTTAATAAAAT
50237072 ATATAATTTAATAATAAT
1 ATATAATTTAATAA-AAT
50237090 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
* * *
50237107 -TCTTAATATTAAATATTATT
1 AT-ATAAT-TT-AATA-AAAT
* * *
50237127 AAATGAATTTACTATAAT
1 ATAT-AATTTAATAAAAT
* *
50237145 -CATAATAT-ATAATAAT
1 ATATAATTTAATAA-AAT
* *
50237161 ATAAAATATAATTTAAAAT
1 ATATAATTTAA--TAAAAT
* *
50237180 A-ATTA-TTATTAAAA-
1 ATATAATTTAATAAAAT
*
50237194 ATATAATTTAGTAAAAAT
1 ATATAATTTAAT-AAAAT
50237212 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50237229 TCATAATATT
Statistics
Matches: 187, Mismatches: 40, Indels: 63
0.64 0.14 0.22
Matches are distributed among these distances:
12 1 0.01
13 5 0.03
14 4 0.02
15 16 0.09
16 23 0.12
17 44 0.24
18 53 0.28
19 21 0.11
20 14 0.07
21 6 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:50237016 original size:55 final size:54
Alignment explanation
Indices: 50236907--50237225 Score: 180
Period size: 55 Copynumber: 5.4 Consensus size: 54
50236897 GATTATTAAT
*
50236907 ATAAATAATAAATAATTTAATAATATTTTAACATAATTATTATTAAATATAATTTA
1 ATAAA-AATAAATAATTTAATAATATTTTAACATAAATATTATT-AATATAATTTA
* * *
50236963 ATAAAAATATATAATTTAATAA-ATTCTTAATATTAAATATTCTT-ATATGAATTTA
1 ATAAAAATAAATAATTTAATAATATT-TTAACA-TAAATATTATTAATAT-AATTTA
* *
50237018 ATAAAATCATAATATATAATACTATAA-AATATAATTTAAAATAATTATTATTAAATATAATTTA
1 ATAAAA--AT-A-A-ATAAT--T-TAATAATAT--TTTAACATAAATATTATT-AATATAATTTA
* * * *
50237082 ATAATAATATATAATTTAATAAAATTCTTAATATTAAATATTATTAA-ATGAATTTA
1 ATAAAAATAAATAATTTAATAATATT-TTAACA-TAAATATTATTAATAT-AATTTA
* * *
50237138 CTATAATCATAATATATAATAATATAA-AATATAATTTAAAATAATTATTATTAAAAATATAATT
1 --AT-A--A-AA-ATA-AATAATTTAATAATAT--TTTAACATAAATATTATT---AATATAATT
50237202 TA
53 TA
* *
50237204 GTAAAAATATATAATTTAATAA
1 ATAAAAATAAATAATTTAATAA
50237226 AATTCATAAT
Statistics
Matches: 206, Mismatches: 22, Indels: 67
0.70 0.07 0.23
Matches are distributed among these distances:
54 7 0.03
55 36 0.17
56 30 0.15
57 17 0.08
58 11 0.05
59 11 0.05
60 7 0.03
61 3 0.01
62 6 0.03
63 32 0.16
64 30 0.15
65 6 0.03
66 8 0.04
67 2 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (54 bp):
ATAAAAATAAATAATTTAATAATATTTTAACATAAATATTATTAATATAATTTA
Found at i:50237164 original size:120 final size:120
Alignment explanation
Indices: 50236933--50240593 Score: 2297
Period size: 120 Copynumber: 30.0 Consensus size: 120
50236923 TTAATAATAT
*
50236933 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT-AAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
50236997 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
50237052 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * *
50237117 AAATATTATTAAATGAATTTACTATAATCATAATATATAATAATATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
50237172 TTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCATAATA
1 TTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
*
50237237 TTAAATATTCTT--A-GAATTTACTAAAATCATAATATATAATATTATAAAAATATAA
64 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTAT-AAAATATAA
* *
50237292 TTTAAATTAATTATCT-TTAAATATAATTTAATAAAAATATAAAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTAT-TATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
*
50237356 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAACACTATAAAATATAA
65 TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * *
50237412 TTTAAAATAATAATTATTAAAAATATAATTTAGTAAAACTATATAATTTAATAAAATTTTTAATA
1 TTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * *
50237477 TTAAATATTCTTATATGAATTTAATAAAATCATAATATATACTACTA-AAAATATAA
64 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * *
50237533 TTTAAAATAATTAATATTAAATATAATTTAATAAAATTCT-TAATATT-A-AATATTCTTAA-A-
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAAT-TTAATAAAATTCTTAATAT
* * * * * * * * *
50237593 TGAAT-TTACTAAAAT-CATAATA-TATAATACTATAAAATATAAT-TTAAAATAATTATTA
65 TAAATATT-CTTAAATGAAT-TTACTAAAAT-C-ATAATATATAATACTATAA-AA-TATAA
* * * *
50237651 TTTAAAATATAATT-TAAAATAATTATTAATTTAAT-AAAATCATAATATATAATACTATAAAAT
1 TTT-AAA-ATAATTAT-TATTAAATA-TAATTTAATAAAAAT-AT-ATA-AT-TTA--ATAAAAT
* * * * * * *
50237714 ATAATTTAA-AATAATTATTATTAAATATAATTTA--ATAA--A-AATATATAAT-TTAATAAAA
56 -T--CTTAATATTAAATATTCTTAAAT-GAATTTACTAAAATCATAATATATAATACT-ATAAAA
50237772 T-T--
116 TATAA
* * * * * * *
50237774 CTTAATATTAAATATTCTTAAAT-GAATTTACT-AAAATCATAATATATAATACTATAAAATATA
1 TTTAA-AATAATTATTATTAAATATAATTTAATAAAAAT-AT-ATA-AT-TTA--ATAAAAT-T-
* * * * * * ** * * * * *
50237837 ATTTAA-AATAATTATTATTAAA--AATATAATTTAGTAAAAATATATAAT-TTAATAAAA-GT-
57 -CTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACT-ATAAAATATA
50237896 A
120 A
* * * * * * ** * * * *
50237897 -TTAACATTAAATATTCCTTGAATTTACTAAAATCATAATATATAATACT-ATAAAA-T-ATAAT
1 TTTAA-AATAATTATT-ATTAAATATAATTTAATAAAAATATATAAT-TTAATAAAATTCTTAAT
* * * * *
50237958 -TTAAATAATAATTATTAAATATAATTTAGTAAAATTAT-ATA-AT-TTA--ATAAAAT-T--
63 ATT--A-AAT-ATTCTTAAAT-GAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * * * * * * *
50238012 CTTAATATTAAATATTCTTAAAT-GAATTTACT-AAAAT-CATAATAT-ATAACA--CTATAA-A
1 TTTAA-AATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCT-TAATA
* * * * * *
50238070 ATATA-ATT-TAAAAT-AATAATTATTAAAAAT-ATAATTTAATAAAAATA-TATAATTTAATAA
64 TTAAATATTCTTAAATGAAT--TTACT-AAAATCATAA--T-AT-ATAATACTATAA---AATAT
50238130 AA
119 AA
* * * *
50238132 TTTTAATATTAAATATTCTT--ATATGAATTTAAT-AAAATCATAATATATACTACTATAAAATA
1 -TTTAA-AATAATTATTATTAAATAT-AATTTAATAAAAAT-AT-ATA-AT-TTA--ATAAAAT-
* * * * * * * * * *
50238194 TAATTTAA-AATAATTATTATTAAATATAATTTAATAAAATTCTTAATAT-TAAATATTCTTAAA
56 T--CTTAATATTAAATATTCTTAAAT-GAATTTACTAAAA-TCATAATATAT-AATACTATAAAA
*
50238257 T-GAA
116 TATAA
* * * * * * *
50238261 TTTACTAA-AATCA-TA--ATATATAA--TACTATAAA-ATATAATTTAA-AATAATTATTATTA
1 TTTA-AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAA-AATTCTTAATA
* ** * * * * ** * * * * **
50238318 -AAAATATAATTTAGTAAAATATA-TAATTTAATAAAAT-TATTAAC-ATTAAATATTC
64 TTAAATATTCTTAAAT-GAATTTACTAAAATCATAATATATAAT-ACTATAAAATATAA
* * *
50238373 CTT-GAAT--TTACTA--AAATCATAATATATAATACTATAAA-ATATAATTTAAAATAATAATT
1 TTTAAAATAATTATTATTAAAT-ATAAT-T-TAATA--A-AAATATATAATTT--AATAA-AATT
* *** * * * * * *
50238432 ATTAA-ATATAATTTAGTAAAATTATAT-AATTTAATAAAATTCTTAATAT-TAAATATTCTTAA
57 CTTAATAT-TAA---A-TATTCTTAAATGAATTTACTAAAA-TCATAATATAT-AATACTATAAA
*
50238494 AT-GAA
115 ATATAA
* * * * * *
50238499 TTTACTAA-AATCATAATATATAACACTATAAAATATAATTTAAAATA-ATAA-TTATTAAAAAT
1 TTTA-AAATAAT--TATTAT-TAA-A-TAT--AATTTAA-TAAAAATATATAATTTAATAAAATT
* **** * * ** *
50238561 -ATAAT-TT-AATAAAAATATAT-AATTTAATAAAATTTTTAATAT-TAAATATTCTTATATGAA
57 CTTAATATTAAATATTCTTAAATGAATTTACTAAAA-TCATAATATAT-AATA--C-TATA-AAA
*
50238621 TTTAA
116 TATAA
* *
50238626 -TAAAATCATAATATATACTACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAA
1 TTTAAA--ATAAT-TAT--TA-T-T-AAATATAATTT--AATAA--A--A--ATATATAATTTAA
50238690 TAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAA
50 TAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAA
50238755 ATATAA
115 ATATAA
* * * * * **
50238761 TTTAAAATAATTATTAATTTAATAAAATCATAATATATAATACTATGAAATATAATTTAAAATAA
1 TTTAAAATAATTATT-ATTAAATATAAT-TTAATA-AAAATA-TAT--AATTTAA--TAAAATTC
* ** * * ** * * *
50238826 TTATTATTAAATATAATTTAATAAAAATA-TATAAT-TTAATA-A-AATTCTTCATATTAAATAT
58 TTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATAC-T-ATA--AAATAT
50238887 --
119 AA
*
50238887 TCTT-AAATGAATTCACTA--AAATCATAATATATAATACTATAAA-ATATAATTTAAAATAATA
1 T-TTAAAAT-AATT-ATTATTAAAT-ATAAT-T-TAATA--A-AAATATATAATTT--AATAA-A
* * * * * * * *
50238948 ATTATTAAAAATATAAT-TTAGTAAAAATATATAATTTAATAAAATTATTAATAT-TAAATATTC
54 ATTCTTAATATTA-AATATT-CT--TAA-AT-GAATTTACTAAAATCA-TAATATAT-AATA--C
* *
50239011 T-TAGAAT-TTA
109 TATAAAATATAA
* * * * * * * *
50239021 -CTAAAATCA-TAATATATAATACTATAAAATATAATTTAAAATA-ATAA-TTATTAAAAAT-AT
1 TTTAAAATAATTATTAT-TAA-A-TAT--AATTTAA-TAAAAATATATAATTTAATAAAATTCTT
* **** * * * ***
50239081 AAT-TT-AGTAAAAATATAT-AATTTAATAAAATTCTTAATAT-TAA-A-TATTCTTATATGAA
60 AATATTAAATATTCTTAAATGAATTTACTAAAA-TCATAATATATAATACTA-TAAAATAT-AA
* * * * * *
50239139 TTTACTAA-AATCA-TA--ATATATAATACT-ATAAAAATATAATTTATTAAAAATATATAATT-
1 TTTA-AAATAATTATTATTAAATATAAT-TTAATAAAAATAT-A-TAATT--TAATA-A-AATTC
* * *
50239198 TAATAAAATTCTTAATATTGAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTAT
58 T--T--AA-TATTAA-A-T--A--TTCTTAAATGAATTTACTAAAATCATAATATATAATACTAT
50239263 AAAATATAA
112 AAAATATAA
*
50239272 TTTAAAATAATTATTATTAAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
50239337 AAATATTCTTAAATGAATTTACTAAAATCAGAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
50239392 TTTAAAATAATTATTACTAAAAATATAATTTAGTAAAAATATA-AATTTCATAAAATTCTTAATA
1 TTTAAAATAATTATTA-T-TAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
50239456 TTAAATATTC-T-AA-GAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * *
50239510 TTTAAAATAATTATCATTAAAAATATAATTTAGTAAAAGTATATAAGTTAATAAAATTCTTAATA
1 TTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
*
50239575 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
50239632 TTTAAAATAATTATTATTAAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
50239697 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
50239752 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATGAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
50239817 AAATATTCTTAAATGGATTTAATAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
50239872 TTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATGCTTAATA
1 TTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
50239937 TTAAATATTCTT--A-GAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
50239991 TTTAAATTAATTATTTTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
50240056 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAACACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
50240111 TTTAAAATAATAATTATTAAAAGTATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATTATTATT-AAA-TATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* *
50240176 TTAAATATTCTTATATGAGTTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
50240233 TTTAAAATAATTAGTATTAAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
50240298 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
50240353 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
50240418 AAATATTCTT--A-GAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
50240470 TTTAAATTAGTTATTTTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
50240535 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
50240590 TTTA
1 TTTA
50240594 TAATCTACTT
Statistics
Matches: 2893, Mismatches: 361, Indels: 575
0.76 0.09 0.15
Matches are distributed among these distances:
104 3 0.00
106 11 0.00
107 9 0.00
109 4 0.00
110 9 0.00
111 25 0.01
112 24 0.01
113 11 0.00
114 46 0.02
115 27 0.01
116 42 0.01
117 199 0.07
118 170 0.06
119 231 0.08
120 785 0.27
121 161 0.06
122 473 0.16
123 23 0.01
124 32 0.01
125 32 0.01
126 71 0.02
127 67 0.02
128 71 0.02
129 35 0.01
130 24 0.01
131 22 0.01
132 54 0.02
133 62 0.02
134 45 0.02
135 34 0.01
136 45 0.02
137 12 0.00
138 3 0.00
139 19 0.01
140 12 0.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:50237169 original size:15 final size:16
Alignment explanation
Indices: 50237140--50237172 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
50237130 TGAATTTACT
*
50237140 ATAATCATAATATATA
1 ATAATCATAAAATATA
50237156 ATAAT-ATAAAATATA
1 ATAATCATAAAATATA
50237171 AT
1 AT
50237173 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATCATAAAATATA
Found at i:50237209 original size:15 final size:16
Alignment explanation
Indices: 50237157--50237227 Score: 60
Period size: 17 Copynumber: 4.5 Consensus size: 16
50237147 TAATATATAA
50237157 TAATATAAAATATAATT
1 TAATA-AAAATATAATT
*
50237174 TAA-AATAAT-T-A-T
1 TAATAAAAATATAATT
*
50237186 TATTAAAAATATAATT
1 TAATAAAAATATAATT
*
50237202 TAGTAAAAATATATAATT
1 TAAT-AAAA-ATATAATT
50237220 TAATAAAA
1 TAATAAAA
50237228 TTCATAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
12 3 0.07
13 6 0.14
14 2 0.05
15 5 0.12
16 5 0.12
17 11 0.26
18 11 0.26
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (16 bp):
TAATAAAAATATAATT
Found at i:50237329 original size:16 final size:17
Alignment explanation
Indices: 50237310--50237345 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
50237300 AATTATCTTT
50237310 AAATAT-AATTTAATAA
1 AAATATAAATTTAATAA
50237326 AAATATAAAATTTAATAA
1 AAATAT-AAATTTAATAA
50237344 AA
1 AA
50237346 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
18 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAAATTTAATAA
Found at i:50237448 original size:16 final size:15
Alignment explanation
Indices: 50237403--50237467 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 15
50237393 ATAACACTAT
50237403 AAAATATAATTTA-A
1 AAAATATAATTTATA
*
50237417 AATA-ATAA-TTATTA
1 AAAATATAATTTA-TA
50237431 AAAATATAATTTAGTA
1 AAAATATAATTTA-TA
50237447 AAACTATATAATTTAATA
1 AAA--ATATAATTT-ATA
50237465 AAA
1 AAA
50237468 TTTTTAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
12 3 0.07
13 4 0.10
14 7 0.17
15 4 0.10
16 8 0.20
18 14 0.34
19 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AAAATATAATTTATA
Found at i:50237655 original size:16 final size:16
Alignment explanation
Indices: 50237634--50237684 Score: 65
Period size: 12 Copynumber: 3.4 Consensus size: 16
50237624 ATAAAATATA
50237634 ATTTAAAATAATTATT
1 ATTTAAAATAATTATT
50237650 ATTTAAAAT-A-TA--
1 ATTTAAAATAATTATT
50237662 ATTTAAAATAATTATT
1 ATTTAAAATAATTATT
50237678 AATTTAA
1 -ATTTAA
50237685 TAAAATCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
12 9 0.30
13 1 0.03
14 4 0.13
15 1 0.03
16 9 0.30
17 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTAAAATAATTATT
Found at i:50237880 original size:122 final size:121
Alignment explanation
Indices: 50237678--50240593 Score: 3382
Period size: 120 Copynumber: 24.4 Consensus size: 121
50237668 AATAATTATT
*
50237678 AATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
50237742 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
50237798 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAAATA
* * * * *
50237863 TAATTTAGTAAAAATATATAATTTAATAAAAGTATTAACATTAAATATTCCT---TG
65 TAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
*
50237917 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTT-AAATAATAATTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
* *
50237980 AATTTAGTAAAATTATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* *
50238036 AATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATTATTAAAAATA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAAATA
*
50238101 TAATTTAATAAAAATATATAATTTAATAAAATT-TTAATATTAAATATTCTTATATG
65 TAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* *
50238157 AATTTAATAAAATCATAATATATACTACTATAAAATATAATTTAAAATAATTATTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
* * * *
50238221 AATTTAAT--AAA-AT-T--CTTAAT---A---TTAA-A-T-ATTCTT-A--AATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
50238259 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAAATA
* * * *
50238324 TAATTTAGT-AAAATATATAATTTAATAAAATTATTAACATTAAATATTCCT---TG
65 TAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
*
50238377 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
* *
50238441 AATTTAGTAAAATTATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* *
50238497 AATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATTATTAAAAATA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAAATA
* *
50238562 TAATTTAATAAAAATATATAATTTAATAAAATTTTTAATATTAAATATTCTTATATG
65 TAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* *
50238619 AATTTAATAAAATCATAATATATACTACTATAAAATATAATTTAAAATAATTATTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
* * * *
50238683 AATTTAAT--AAA-AT-T--CTTAAT---A---TTAA-A-T-ATTCTT-A--AATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
*
50238721 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTAATT-TAATA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATT-ATTAAAATA
* * * * ** * ** * *
50238785 AAATCATAATATATAATACTATGAAATATAATTTAAAATAATTATTATTAAATATAATTTAATA
65 TAAT-TTAATA-AAAATA-TAT--AATTTAA--TAAAATTCTTAATATTAAATATTCTTAAATG
** * * * * *
50238849 AAAATA-TATAAT-TTAATA-A-AATTCTTCATATTAAATAT--TCTT-AAATGAA-T-TCACTA
1 AATTTACTAAAATCATAATATATAATAC-T-ATA--AAATATAAT-TTAAAAT-AATTATTATTA
* * *
50238905 AAATCATAATATATAATACTATAAA-ATATAATTTAAAATAATAATTATTAAAAATATAAT-TTA
60 AAAT-ATAAT-T-TAATA--A-AAATATATAATTT--AATAA-AATTCTTAATATTA-AATATT-
* * *
50238968 GTAAAAATATAT
114 CT--TAA-AT-G
* * * * * *
50238980 AATTTAATAAAATTATTAATAT-TAAATATTCT-TAGAAT-TTACTAAAATCATAATATATAATA
1 AATTTACTAAAATCA-TAATATAT-AATA--CTATAAAATATAATTTAAA--ATAAT-TAT--TA
* * *
50239042 CTATAAAATATAATTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAAT-TTAA
57 -T-TAAAATATAATTT--AATAA-AA--A-T----ATATAATTTAATAAAATTCT-TAATATT-A
* *
50239106 TAAAATTCTTAATATTA
108 -AATATTCTTAA-A-TG
* * *
50239123 AATATT-CTTATATGAATTTACTAAAATCATAATA-TATAATACTATAA---AAATATAATTTAT
1 AAT-TTAC-TA-A--AA-TCA-TAATAT-ATAATACTATAA-AATATAATTTAAA-ATAA-TTAT
* * * * *
50239183 TA-AAAATATATAATTTAAT--AAA-AT-T--CTTAAT---A-T-TGAATA-T---TCTTAT---
55 TATTAAA-ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAA
50239229 ATG
119 ATG
*
50239232 AATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
*
50239296 AATTTATTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* *
50239352 AATTTACTAAAATCAGAATATATAATACTATAAAATATAATTTAAAATAATTATTACTAAAAATA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTA-TTAAAATA
* *
50239417 TAATTTAGTAAAAATATA-AATTTCATAAAATTCTTAATATTAAATATTC-T-AA-G
65 TAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
*
50239470 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATCATTAAAAATA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAAATA
* * * *
50239535 TAATTTAGTAAAAGTATATAAGTTAATAAAATTCTTAATATTAAATATTCTTATATG
65 TAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
50239592 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
* *
50239656 AATTTATTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
*
50239712 AATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
*
50239776 AATTTAATAAAAATATATAATTTAATGAAATTCTTAATATTAAATATTCTTAAATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* * *
50239832 GATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTAAAAATA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAAATA
* *
50239897 TAATTTAGTAAAAATATATAATTTAATAAAATGCTTAATATTAAATATTCTT--A-G
65 TAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* *
50239951 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAATTAATTATT-TTTAAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
50240015 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* *
50240071 AATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATTATTAAAAGTA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAA-TA
* *
50240136 TAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
65 TAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* *
50240193 AGTTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAGTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
* *
50240257 AATTTATTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
*
50240313 AATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT-AAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
50240377 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT--A-G
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
* * *
50240430 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAATTAGTTATT-TTTAAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
*
50240494 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
66 AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
50240550 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
1 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
50240594 TAATCTACTT
Statistics
Matches: 2448, Mismatches: 180, Indels: 336
0.83 0.06 0.11
Matches are distributed among these distances:
102 138 0.06
103 28 0.01
104 26 0.01
105 18 0.01
106 5 0.00
107 6 0.00
108 18 0.01
109 10 0.00
110 3 0.00
111 2 0.00
112 2 0.00
113 10 0.00
114 12 0.00
115 5 0.00
116 73 0.03
117 214 0.09
118 160 0.07
119 193 0.08
120 703 0.29
121 117 0.05
122 449 0.18
123 1 0.00
124 7 0.00
125 20 0.01
126 29 0.01
127 24 0.01
128 18 0.01
129 3 0.00
130 2 0.00
131 4 0.00
132 6 0.00
133 4 0.00
134 8 0.00
135 4 0.00
136 7 0.00
137 2 0.00
138 2 0.00
139 8 0.00
140 5 0.00
141 19 0.01
142 6 0.00
143 9 0.00
144 11 0.00
145 20 0.01
146 7 0.00
147 13 0.01
148 10 0.00
149 6 0.00
150 1 0.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (121 bp):
AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAATAT
AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATG
Found at i:50237881 original size:18 final size:17
Alignment explanation
Indices: 50237856--50237893 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
50237846 AATTATTATT
*
50237856 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
50237873 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
50237891 AAA
1 AAA
50237894 GTATTAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:50237960 original size:38 final size:38
Alignment explanation
Indices: 50237756--50237842 Score: 88
Period size: 37 Copynumber: 2.3 Consensus size: 38
50237746 TAATAAAAAT
* * * *
50237756 ATATAATTTAATAAAATTCTTAATAT-TAAATATTCTTAA
1 ATATAATTTAATAAAA-TCATAATATAT-AATACTATAAA
* *
50237795 AT-GAATTTACTAAAATCATAATATATAATACTATAAA
1 ATATAATTTAATAAAATCATAATATATAATACTATAAA
50237832 ATATAATTTAA
1 ATATAATTTAA
50237843 AATAATTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
37 18 0.47
38 18 0.47
39 2 0.05
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (38 bp):
ATATAATTTAATAAAATCATAATATATAATACTATAAA
Found at i:50237999 original size:18 final size:18
Alignment explanation
Indices: 50237976--50238169 Score: 77
Period size: 18 Copynumber: 10.9 Consensus size: 18
50237966 TAATTATTAA
*
50237976 ATATAATTTAGTAAAATT
1 ATATAATTTAATAAAATT
50237994 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
50238012 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
* *
50238031 AAATGAATTTACTAAAA-T
1 ATAT-AATTTAATAAAATT
* * * *
50238049 -CATAATAT-ATAACACT
1 ATATAATTTAATAAAATT
* *
50238065 ATAAAATATAATTTAAAA-T
1 ATATAATTTAA--TAAAATT
*
50238084 A-ATAA-TTATTAAAA--
1 ATATAATTTAATAAAATT
*
50238098 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
50238116 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
***
50238134 -T-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
50238152 ATATGAATTTAATAAAAT
1 ATAT-AATTTAATAAAAT
50238170 CATAATATAT
Statistics
Matches: 129, Mismatches: 29, Indels: 35
0.67 0.15 0.18
Matches are distributed among these distances:
14 1 0.01
15 13 0.10
16 17 0.13
17 17 0.13
18 48 0.37
19 17 0.13
20 10 0.08
21 6 0.05
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:50238078 original size:38 final size:38
Alignment explanation
Indices: 50238036--50238303 Score: 147
Period size: 37 Copynumber: 7.2 Consensus size: 38
50238026 TTCTTAAATG
* *
50238036 AATTTACTAAAATCATAATATATAACACTATAAAATAT
1 AATTTAATAAAATCATAATATATAATACTATAAAATAT
* * * *
50238074 AATTTAAAATAATAATTATTAAAAATATAATTTAATAAAAATATAT
1 AATTT--AATAA-AATCA-T-AATATATAA--TACTATAAA-ATAT
** ***
50238120 AATTTAATAAAATTTTAATAT-TAA-A-TATTCTTATAT
1 AATTTAATAAAATCATAATATATAATACTA-TAAAATAT
*
50238156 GAATTTAATAAAATCATAATATATACTACTATAAAATAT
1 -AATTTAATAAAATCATAATATATAATACTATAAAATAT
50238195 AA-TT--T-AAA--ATAAT-TAT--TA-T-T-AAATAT
1 AATTTAATAAAATCATAATATATAATACTATAAAATAT
* * * * *
50238221 AATTTAATAAAATTCTTAATAT-TAAATATTCTTAAAT-G
1 AATTTAATAAAA-TCATAATATAT-AATACTATAAAATAT
*
50238259 AATTTACTAAAATCATAATATATAATACTATAAAATAT
1 AATTTAATAAAATCATAATATATAATACTATAAAATAT
50238297 AATTTAA
1 AATTTAA
50238304 AATAATTATT
Statistics
Matches: 174, Mismatches: 27, Indels: 58
0.67 0.10 0.22
Matches are distributed among these distances:
26 8 0.05
27 3 0.02
28 1 0.01
29 3 0.02
30 3 0.02
31 3 0.02
32 5 0.03
33 5 0.03
34 4 0.02
35 1 0.01
36 8 0.05
37 41 0.24
38 28 0.16
39 10 0.06
40 9 0.05
41 8 0.05
42 2 0.01
43 12 0.07
44 5 0.03
45 6 0.03
46 9 0.05
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (38 bp):
AATTTAATAAAATCATAATATATAATACTATAAAATAT
Found at i:50238087 original size:15 final size:14
Alignment explanation
Indices: 50238067--50238132 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 14
50238057 ATAACACTAT
50238067 AAAATATAATTTAA
1 AAAATATAATTTAA
* *
50238081 AATA-ATAATTATTA
1 AAAATATAATT-TAA
50238095 AAAATATAATTTAATAA
1 AAAATATAA-TT--TAA
50238112 AAATATATAATTTAA
1 AAA-ATATAATTTAA
50238127 TAAAAT
1 -AAAAT
50238133 TTTAATATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.14
14 8 0.19
15 9 0.21
16 5 0.12
17 8 0.19
18 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAATATAATTTAA
Found at i:50238100 original size:16 final size:16
Alignment explanation
Indices: 50238079--50238131 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
50238069 AATATAATTT
*
50238079 AAAATAATAATTATTA
1 AAAATAATAATTAATA
50238095 AAAAT-ATAATTTAATA
1 AAAATAATAA-TTAATA
50238111 AAAATATATAATTTAATA
1 AAAATA-ATAA-TTAATA
50238129 AAA
1 AAA
50238132 TTTTAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 4 0.12
16 15 0.45
18 14 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATAATAATTAATA
Found at i:50238132 original size:33 final size:29
Alignment explanation
Indices: 50238064--50238132 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
50238054 TATATAACAC
* *
50238064 TATAAAATATAATTTAAAATAATAATTAT
1 TATAAAATATAATTTAAAAAAATAATAAT
50238093 TA-AAAATATAATTTAATAAAAATATATAATT
1 TATAAAATATAATTTAA-AAAAATA-ATAA-T
50238124 TAATAAAAT
1 T-ATAAAAT
50238133 TTTAATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 14 0.42
29 8 0.24
30 3 0.09
31 2 0.06
32 1 0.03
33 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
TATAAAATATAATTTAAAAAAATAATAAT
Found at i:50238253 original size:102 final size:102
Alignment explanation
Indices: 50238116--50238454 Score: 430
Period size: 102 Copynumber: 3.2 Consensus size: 102
50238106 TAATAAAAAT
*
50238116 ATATAATTTAATAAAATTTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATA
1 ATATAATTTAATAAAATTTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATA
*
50238181 CTACTATAAAATATAATTTAAAATAATTATTATT-AA
66 ATACTATAAAATATAATTTAAAATAATTATTATTAAA
*
50238217 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATT-TTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATAT
50238282 AATACTATAAAATATAATTTAAAATAATTATTATTAAAA
65 AATACTATAAAATATAATTTAAAATAATTATTATT-AAA
* * * *
50238321 ATATAATTTAGTAAAATATATAATTTAATAAAATTATTAACATTAAATATTCCTTGAATTTACTA
1 ATATAATTTAATAAAAT-TTTAA--T-ATTAAA-TATT--C-TT-AA-A-----TGAATTTAATA
*
50238386 AAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATT-AA
51 AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAA
*
50238437 ATATAATTTAGTAAAATT
1 ATATAATTTAATAAAATT
50238455 ATATAATTTA
Statistics
Matches: 213, Mismatches: 7, Indels: 22
0.88 0.03 0.09
Matches are distributed among these distances:
101 18 0.08
102 78 0.37
104 21 0.10
105 1 0.00
106 1 0.00
107 5 0.02
108 4 0.02
110 1 0.00
111 2 0.01
112 2 0.01
113 1 0.00
115 1 0.00
116 19 0.09
118 59 0.28
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (102 bp):
ATATAATTTAATAAAATTTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATA
ATACTATAAAATATAATTTAAAATAATTATTATTAAA
Found at i:50238274 original size:461 final size:462
Alignment explanation
Indices: 50237756--50238776 Score: 2010
Period size: 461 Copynumber: 2.2 Consensus size: 462
50237746 TAATAAAAAT
50237756 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
50237821 AATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATT
66 AATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGT-AAAATATATAATT
50237886 TAATAAAAGTATTAACATTAAATATTCCTTGAATTTACTAAAATCATAATATATAATACTATAAA
130 TAATAAAAGTATTAACATTAAATATTCCTTGAATTTACTAAAATCATAATATATAATACTATAAA
50237951 ATATAATTT-AAATAATAATTATTAAATATAATTTAGTAAAATTATATAATTTAATAAAATTCTT
195 ATATAATTTAAAATAATAATTATTAAATATAATTTAGTAAAATTATATAATTTAATAAAATTCTT
50238015 AATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAACACTATAAAATATAATTTA
260 AATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAACACTATAAAATATAATTTA
50238080 AAATAATAATTATTAAAAATATAATTTAATAAAAATATATAATTTAATAAAA-TTTTAATATTAA
325 AAATAATAATTATTAAAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAATATTAA
50238144 ATATTCTTATATGAATTTAATAAAATCATAATATATACTACTATAAAATATAATTTAAAATAATT
390 ATATTCTTATATGAATTTAATAAAATCATAATATATACTACTATAAAATATAATTTAAAATAATT
50238209 ATTATTAA
455 ATTATTAA
50238217 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
50238282 AATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAATATATAATTT
66 AATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAATATATAATTT
*
50238347 AATAAAATTATTAACATTAAATATTCCTTGAATTTACTAAAATCATAATATATAATACTATAAAA
131 AATAAAAGTATTAACATTAAATATTCCTTGAATTTACTAAAATCATAATATATAATACTATAAAA
50238412 TATAATTTAAAATAATAATTATTAAATATAATTTAGTAAAATTATATAATTTAATAAAATTCTTA
196 TATAATTTAAAATAATAATTATTAAATATAATTTAGTAAAATTATATAATTTAATAAAATTCTTA
50238477 ATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAA
261 ATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAA
50238542 AATAATAATTATTAAAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAATATTAAA
326 AATAATAATTATTAAAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAATATTAAA
50238607 TATTCTTATATGAATTTAATAAAATCATAATATATACTACTATAAAATATAATTTAAAATAATTA
391 TATTCTTATATGAATTTAATAAAATCATAATATATACTACTATAAAATATAATTTAAAATAATTA
50238672 TTATTAA
456 TTATTAA
50238679 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
50238744 AATACTATAAAATATAATTTAAAATAATTATTA
66 AATACTATAAAATATAATTTAAAATAATTATTA
50238777 ATTTAATAAA
Statistics
Matches: 557, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
460 86 0.15
461 288 0.52
462 183 0.33
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (462 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAATATATAATTT
AATAAAAGTATTAACATTAAATATTCCTTGAATTTACTAAAATCATAATATATAATACTATAAAA
TATAATTTAAAATAATAATTATTAAATATAATTTAGTAAAATTATATAATTTAATAAAATTCTTA
ATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAA
AATAATAATTATTAAAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAATATTAAA
TATTCTTATATGAATTTAATAAAATCATAATATATACTACTATAAAATATAATTTAAAATAATTA
TTATTAA
Found at i:50238296 original size:54 final size:53
Alignment explanation
Indices: 50238136--50238296 Score: 140
Period size: 53 Copynumber: 3.1 Consensus size: 53
50238126 ATAAAATTTT
* *
50238136 AATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATACTACTATAA
1 AATATTAAATATTCTTAAATGAATTT-ATAAAATCATAATATATAATACTATAA
* * * * * * *
50238190 AATA-T--A-ATT-TAAAAT-AATTATTATTAAAT-ATAATTTAATAAAATTCT-T
1 AATATTAAATATTCTTAAATGAA-T-TTATAAAATCATAATAT-ATAATACTATAA
50238238 AATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAA
1 AATATTAAATATTCTTAAATGAATTTA-TAAAATCATAATATATAATACTATAA
50238292 AATAT
1 AATAT
50238297 AATTTAAAAT
Statistics
Matches: 79, Mismatches: 16, Indels: 24
0.66 0.13 0.20
Matches are distributed among these distances:
48 12 0.15
49 18 0.23
50 5 0.06
51 2 0.03
52 6 0.08
53 19 0.24
54 17 0.22
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.42
Consensus pattern (53 bp):
AATATTAAATATTCTTAAATGAATTTATAAAATCATAATATATAATACTATAA
Found at i:50238336 original size:15 final size:16
Alignment explanation
Indices: 50238290--50238353 Score: 64
Period size: 17 Copynumber: 4.2 Consensus size: 16
50238280 ATAATACTAT
50238290 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
50238305 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
50238318 AAAATATAATTTAGTA
1 AAAATATAATTTAATA
50238334 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
50238351 AAA
1 AAA
50238354 TTATTAACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 8 0.21
17 15 0.38
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:50238420 original size:38 final size:39
Alignment explanation
Indices: 50238377--50238541 Score: 94
Period size: 38 Copynumber: 4.2 Consensus size: 39
50238367 ATATTCCTTG
*
50238377 AATTTACTAAAA-TCATAATA-TATAATACTATAAAATAT
1 AATTTAATAAAATTCATAATATTA-AATACTATAAAATAT
* *
50238415 AATTTAAAATAATAATT-ATTAA-ATATAATTTAGTA-AAATTATAT
1 AATTT--AATAA-AATTCA-TAATAT-TAA-ATACTATAAA--ATAT
* * * * *
50238459 AATTTAATAAAATTCTTAATATTAAATATTCTTAAAT-G
1 AATTTAATAAAATTCATAATATTAAATACTATAAAATAT
* *
50238497 AATTTACTAAAA-TCATAATA-TATAACACTATAAAATAT
1 AATTTAATAAAATTCATAATATTA-AATACTATAAAATAT
50238535 AATTTAA
1 AATTTAA
50238542 AATAATAATT
Statistics
Matches: 95, Mismatches: 17, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
36 2 0.02
37 16 0.17
38 22 0.23
39 2 0.02
40 7 0.07
41 16 0.17
42 15 0.16
43 6 0.06
44 9 0.09
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.40
Consensus pattern (39 bp):
AATTTAATAAAATTCATAATATTAAATACTATAAAATAT
Found at i:50238431 original size:13 final size:12
Alignment explanation
Indices: 50238407--50238446 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
50238397 TATAATACTA
50238407 TAAAATATAATT
1 TAAAATATAATT
50238419 TAAAATAATAATT
1 TAAAAT-ATAATT
*
50238432 ATTAAATATAATT
1 -TAAAATATAATT
50238445 TA
1 TA
50238447 GTAAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 7 0.29
13 12 0.50
14 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:50238460 original size:18 final size:18
Alignment explanation
Indices: 50238437--50238631 Score: 77
Period size: 18 Copynumber: 10.9 Consensus size: 18
50238427 TAATTATTAA
*
50238437 ATATAATTTAGTAAAATT
1 ATATAATTTAATAAAATT
50238455 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
50238473 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
* *
50238492 AAATGAATTTACTAAAA-T
1 ATAT-AATTTAATAAAATT
* * * *
50238510 -CATAATAT-ATAACACT
1 ATATAATTTAATAAAATT
* *
50238526 ATAAAATATAATTTAAAA-T
1 ATATAATTTAA--TAAAATT
*
50238545 A-ATAA-TTATTAAAA--
1 ATATAATTTAATAAAATT
*
50238559 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
50238577 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
50238595 -TTTAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
50238614 ATATGAATTTAATAAAAT
1 ATAT-AATTTAATAAAAT
50238632 CATAATATAT
Statistics
Matches: 129, Mismatches: 31, Indels: 33
0.67 0.16 0.17
Matches are distributed among these distances:
14 1 0.01
15 13 0.10
16 13 0.10
17 19 0.15
18 44 0.34
19 22 0.17
20 11 0.09
21 6 0.05
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Done.