Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 165 of 230
Found at i:49195493 original size:19 final size:19
Alignment explanation
Indices: 49195465--49195506 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
49195455 GTGACCACTG
49195465 TTTTCCAAAATTTTC-AAT
1 TTTTCCAAAATTTTCTAAT
49195483 TTTTCCCAAAATTTTCTAAT
1 TTTT-CCAAAATTTTCTAAT
49195503 TTTT
1 TTTT
49195507 TTTATTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTCCAAAATTTTCTAAT
Found at i:49199043 original size:8 final size:9
Alignment explanation
Indices: 49199019--49199044 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
49199009 TAAAAACTAA
49199019 ATTAAAAAT
1 ATTAAAAAT
49199028 ATTAAAAAT
1 ATTAAAAAT
49199037 ATTAAAAA
1 ATTAAAAA
49199045 CTCCTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:49209367 original size:40 final size:40
Alignment explanation
Indices: 49209215--49209360 Score: 190
Period size: 40 Copynumber: 3.6 Consensus size: 40
49209205 TTGAATGATG
* *
49209215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
*
49209255 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49209295 TCCGGGTTAAGTCCCGAACGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49209336 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49209361 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49209367 original size:80 final size:80
Alignment explanation
Indices: 49209215--49209383 Score: 186
Period size: 80 Copynumber: 2.1 Consensus size: 80
49209205 TTGAATGATG
* * *
49209215 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAACGCTTTGTGCGAGGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
**
49209280 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * *
49209295 TCCGGGTTAAGTCCCGAACGCATTTGTGCGA-GTTACTATAA-CCGGGCTATG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAACGC-TTTGTGCGAGGTGACTA-AATCCGGACTAAGAT-CCGAAGGCA
*
49209357 TTTGAACGAGTAGCTATA
63 TTTGAACGAGTAGCTAAA
49209375 TCC-GGTTAA
1 TCCGGGTTAA
49209384 ATTCCGAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
79 9 0.12
80 57 0.75
81 10 0.13
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAACGCTTTGTGCGAGGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:49216611 original size:40 final size:40
Alignment explanation
Indices: 49216453--49216597 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
49216443 TGAATGATGT
* *
49216453 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAA
*
49216492 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
49216532 TCCGGGTTAAGTCCCGAACGCATTTGTGTGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
49216573 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
49216598 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:49227819 original size:49 final size:49
Alignment explanation
Indices: 49227734--49227868 Score: 165
Period size: 49 Copynumber: 2.9 Consensus size: 49
49227724 CATTCATCAT
* *
49227734 GTGTTCACCTTTTGATTCATGATATTAAAC------TTAATTTTATACA
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
* * * * *
49227777 GTGTTGAGCTTTTGATTCATGATATTGAATTTAATTTTAATTTTATAAA
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
49227826 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTT
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTT
49227869 GTTTTTTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
43 26 0.34
49 50 0.66
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (49 bp):
GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
Found at i:49229420 original size:99 final size:99
Alignment explanation
Indices: 49229252--49229432 Score: 294
Period size: 99 Copynumber: 1.8 Consensus size: 99
49229242 TAGATTATAC
49229252 ATTATTTTTATAGCATTACATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 ATTATTTTTATAGCATTACATATTATGATTTTAGTAAATTC--ATAAGAATATTTAATATTAAGA
49229317 ATTTTATTAAATTATATTTAAAAGTAATTAATCTAA
64 ATTTTATTAAATTATATTTAAAAGTAATTAATCTAA
* *
49229353 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TAAGAATATTTAATATTATA-A
1 ATTAT-TTTTATAGCATTACATATTATGATTTTAGTAAATTCATAAGAATATTTAATATTA-AGA
49229416 ATTTTATTAAATTATAT
64 ATTTTATTAAATTATAT
49229433 ATTTTTACTA
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
99 36 0.47
100 1 0.01
101 5 0.07
102 34 0.45
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (99 bp):
ATTATTTTTATAGCATTACATATTATGATTTTAGTAAATTCATAAGAATATTTAATATTAAGAAT
TTTATTAAATTATATTTAAAAGTAATTAATCTAA
Found at i:49229438 original size:18 final size:18
Alignment explanation
Indices: 49229404--49229454 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
49229394 CTAAGAATAT
*
49229404 TTAATATTATA-AATTTTA
1 TTAA-ATTATATATTTTTA
49229422 TTAAATTATATATTTTTA
1 TTAAATTATATATTTTTA
*
49229440 CTAAATTATAT-TTTT
1 TTAAATTATATATTTT
49229455 AATAATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 10 0.33
18 20 0.67
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATTATATATTTTTA
Found at i:49229461 original size:15 final size:15
Alignment explanation
Indices: 49229430--49229481 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
49229420 TATTAAATTA
*
49229430 TATATTTTTACTAAAT
1 TATATTTTTAAT-AAT
49229446 TATATTTTTAATAAT
1 TATATTTTTAATAAT
49229461 TAT-TATTTT-A-AAT
1 TATAT-TTTTAATAAT
49229474 TATATTTT
1 TATATTTT
49229482 ATAGTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
15 10 0.30
16 11 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTTTTAATAAT
Found at i:49229465 original size:18 final size:18
Alignment explanation
Indices: 49229425--49229466 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
49229415 AATTTTATTA
*
49229425 AATTA-TATATTTTTACT
1 AATTATTATATTTTTAAT
49229442 AA--ATTATATTTTTAAT
1 AATTATTATATTTTTAAT
49229458 AATTATTAT
1 AATTATTAT
49229467 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 1 0.05
16 13 0.62
17 2 0.10
18 5 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTATTATATTTTTAAT
Found at i:49229490 original size:28 final size:29
Alignment explanation
Indices: 49229441--49229496 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
49229431 ATATTTTTAC
49229441 TAAATTATATTTTTAATAATTAT-TATTT
1 TAAATTATATTTTTAATAATTATATATTT
*
49229469 TAAATTATATTTTATAGT-ATTATATATT
1 TAAATTATATTTT-TAATAATTATATATT
49229497 ATGATTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TAAATTATATTTTTAATAATTATATATTT
Found at i:49229591 original size:26 final size:26
Alignment explanation
Indices: 49229562--49229718 Score: 80
Period size: 26 Copynumber: 5.5 Consensus size: 26
49229552 TATATTTTTA
49229562 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATTTAATAATAATTATT
*
49229588 TTAAATTATATTTTATAGTATTATATATTATGA
1 TTAAATTATA-TTTA-A-TA--ATA-ATTAT-T
** * * *
49229621 TTTTATTATTCATATAAGAATATTTAATAT
1 TTAAATTA-T-ATTTAATAATAATT-AT-T
* * * * *
49229651 TAATAATTTTATTAAATTATATATTTTT
1 TTA-AATTATATTTAATAATA-ATTATT
*
49229679 ATTAAATTATATTTAATAATAATTATG
1 -TTAAATTATATTTAATAATAATTATT
49229706 TTAAATTATATTT
1 TTAAATTATATTT
49229719 TATAGTATTA
Statistics
Matches: 94, Mismatches: 24, Indels: 26
0.65 0.17 0.18
Matches are distributed among these distances:
26 23 0.24
27 8 0.09
28 16 0.17
29 14 0.15
30 9 0.10
31 6 0.06
32 6 0.06
33 7 0.07
34 4 0.04
35 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (26 bp):
TTAAATTATATTTAATAATAATTATT
Found at i:49229678 original size:18 final size:18
Alignment explanation
Indices: 49229644--49229690 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
49229634 ATAAGAATAT
49229644 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
49229662 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
49229680 TTAAATTATAT
1 TTAAATTATAT
49229691 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:49229683 original size:118 final size:119
Alignment explanation
Indices: 49229318--49229811 Score: 811
Period size: 120 Copynumber: 4.1 Consensus size: 119
49229308 ATATTAAGAA
* *
49229318 TTTTATTAAATTATATTTAA-AAGTAATTAATCTAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTTAATAA-TAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
49229382 TTTTAGTAAATTC--TAAGAATATTTAATATTATA-AATTTTATTAAATTATATAT
65 TTTTAGTAAATTCATTAAGAATATTTAATATTA-AGAATTTTATTAAATTATATAT
* *
49229435 TTTTACTAAATTATATTTTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATG
1 TTTTATTAAATTATA--TTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATG
49229500 ATTTTAGTAAATTCAGTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
64 ATTTTAGTAAATTCA-TTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
49229557 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
* *
49229622 TTTA-T-TATTCATATAAGAATATTTAATATTAATAATTTTATTAAATTATATAT
66 TTTAGTAAATTCAT-TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
49229675 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
*
49229740 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCAT-TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
49229795 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
49229812 ATATTTAATA
Statistics
Matches: 355, Mismatches: 12, Indels: 17
0.92 0.03 0.04
Matches are distributed among these distances:
117 15 0.04
118 112 0.32
119 57 0.16
120 118 0.33
121 1 0.00
122 52 0.15
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (119 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:49229761 original size:238 final size:238
Alignment explanation
Indices: 49229318--49229811 Score: 820
Period size: 238 Copynumber: 2.1 Consensus size: 238
49229308 ATATTAAGAA
49229318 TTTTATTAAATTATATTTAAAAGTAATTAATCTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAAAAGTAATTAATCTAAATTATATTTTATAGTATTATATATTATGAT
49229383 TTTAGTAAATTCTAAGAATATTTAATATTATAAATTTTATTAAATTATATATTTTTACTAAATTA
66 TTTAGTAAATTCTAAGAATATTTAATATTATAAATTTTATTAAATTATATATTTTTACTAAATTA
* * *
49229448 TATTTTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATT
131 TA-TTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATT
49229513 CAGTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
195 CAGTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
49229557 TTTTATTAAATTATATTTAATAA-TAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTTAA-AAGTAATTAATCTAAATTATATTTTATAGTATTATATATTATGA
* *
49229621 TTTTA-T-TATTCATATAAGAATATTTAATATTA-ATAATTTTATTAAATTATATATTTTTATTA
65 TTTTAGTAAATTC---TAAGAATATTTAATATTATA-AATTTTATTAAATTATATATTTTTACTA
49229683 AATTATA-TTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAA
126 AATTATATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAA
49229747 AATTCA-TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
191 AATTCAGT-TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
49229795 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
49229812 ATATTTAATA
Statistics
Matches: 242, Mismatches: 7, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
237 5 0.02
238 118 0.49
239 65 0.27
240 54 0.22
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (238 bp):
TTTTATTAAATTATATTTAAAAGTAATTAATCTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCTAAGAATATTTAATATTATAAATTTTATTAAATTATATATTTTTACTAAATTA
TATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTC
AGTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:49229886 original size:238 final size:237
Alignment explanation
Indices: 49229318--49229887 Score: 759
Period size: 238 Copynumber: 2.4 Consensus size: 237
49229308 ATATTAAGAA
49229318 TTTTATTAAATTATATTTAA-AAGTAATTAAT-CTAAATTATATTTTATAGTATTATATATTATG
1 TTTTATTAAATTATATTTAATAA-TAATT-ATGCTAAATTATA-TTTATAG-ATTATATATTATG
* * *
49229381 ATTTTAGTAA--ATTCTAAGAATATTTAATATTATAAATTTTATTAAATTATATATTTTTACTAA
62 ATATTAATAATCA-TATAAGAATATTTAATATTATAAATTTTATTAAATTATATATTTTTACTAA
* * *
49229444 ATTATATTTTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTA
126 ATTATA-TTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAA
49229509 AATTCAGTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
190 AATTCAGTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
**
49229557 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGCTAAATTATA-TTTATAG-ATTATATATTATGAT
* * * *
49229622 TTTATTATTCATATAAGAATATTTAATATTA-ATAATTTTATTAAATTATATATTTTTATTAAAT
64 ATTAATAATCATATAAGAATATTTAATATTATA-AATTTTATTAAATTATATATTTTTACTAAAT
49229686 TATA-TTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAAT
128 TATATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAAT
49229750 TCA-TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
193 TCAGT-TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
49229795 TTTTATTAAATTATATTATATTTAATAATAATTATGCTAAATTATGA-TTA-A-ATTATTTATTA
1 TTTTATT--A--A-ATTATATTTAATAATAATTATGCTAAATTAT-ATTTATAGATTATATATTA
* * *
49229857 TTTATATTAATAATCTTATTA-AA-ATTTAATA
60 -TGATATTAATAATCATATAAGAATATTTAATA
49229888 ACAATAACAA
Statistics
Matches: 301, Mismatches: 17, Indels: 27
0.87 0.05 0.08
Matches are distributed among these distances:
237 1 0.00
238 117 0.39
239 77 0.26
240 70 0.23
241 2 0.01
242 4 0.01
243 29 0.10
244 1 0.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (237 bp):
TTTTATTAAATTATATTTAATAATAATTATGCTAAATTATATTTATAGATTATATATTATGATAT
TAATAATCATATAAGAATATTTAATATTATAAATTTTATTAAATTATATATTTTTACTAAATTAT
ATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCA
GTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:49230058 original size:45 final size:44
Alignment explanation
Indices: 49229975--49230071 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 44
49229965 ATTACAACAT
*
49229975 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
*
49230019 CATTACATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTC
49230064 CATTACAT
1 CATTACAT
49230072 CTCTATTCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.43
45 27 0.55
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:49230075 original size:16 final size:16
Alignment explanation
Indices: 49230056--49230086 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49230046 ACTATTACGC
49230056 CTCTATTCCATTACAT
1 CTCTATTCCATTACAT
49230072 CTCTATTCCATTACA
1 CTCTATTCCATTACA
49230087 GCGAACCAAA
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:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTATTCCATTACAT
Found at i:49241022 original size:26 final size:25
Alignment explanation
Indices: 49240987--49241047 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
49240977 AAACTTTTTG
49240987 TATTCATTTTTGAGCCAA-TAGTCTTT
1 TATTC-TTTTTGAG-CAATTAGTCTTT
* *
49241013 TATTCTTTTTGAGTAATTATTCTTT
1 TATTCTTTTTGAGCAATTAGTCTTT
49241038 TATTCTTTTT
1 TATTCTTTTT
49241048 TTTCCACATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.78
26 5 0.16
ACGTcount: A:0.20, C:0.11, G:0.08, T:0.61
Consensus pattern (25 bp):
TATTCTTTTTGAGCAATTAGTCTTT
Found at i:49241079 original size:16 final size:19
Alignment explanation
Indices: 49241058--49241095 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
49241048 TTTCCACATC
49241058 ATTCAT-AA-TCATAT-TT
1 ATTCATAAATTCATATATT
49241074 ATTCATAAATTCATATATT
1 ATTCATAAATTCATATATT
49241093 ATT
1 ATT
49241096 TGTATATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 6 0.32
19 5 0.26
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTCATAAATTCATATATT
Found at i:49245944 original size:88 final size:88
Alignment explanation
Indices: 49245795--49245967 Score: 267
Period size: 88 Copynumber: 2.0 Consensus size: 88
49245785 GGTGAAATCT
** *
49245795 TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAATAAAGCAGATCTTGTCTTCCTGTATTG
1 TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAATAAAGCAGATCTTACCTTCCTGTACTG
*
49245860 GCAGCGAAGTAGATCGAAGATAC
66 GCAGCGAAGCAGATCGAAGATAC
* *
49245883 TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAA-AATAGCAGATCTTACCTTCCTGTACT
1 TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAATAA-AGCAGATCTTACCTTCCTGTACT
*
49245947 GGCAGCGAAGCATATCGAAGA
65 GGCAGCGAAGCAGATCGAAGA
49245968 CACCAGTCTT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 2 0.03
88 75 0.97
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (88 bp):
TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAATAAAGCAGATCTTACCTTCCTGTACTG
GCAGCGAAGCAGATCGAAGATAC
Found at i:49246216 original size:50 final size:49
Alignment explanation
Indices: 49246162--49246520 Score: 207
Period size: 50 Copynumber: 7.2 Consensus size: 49
49246152 GTAGGGGAAC
* *
49246162 AGATTAAAGTCACGACGACGAATCTTGTTTCCCCGACATTGTAGTTAAAT
1 AGATTGAAG-CACGACGACGAATCTTATTTCCCCGACATTGTAGTTAAAT
* * * * * * **** ***
49246212 AGATTGAAGCCACAACGTCAAATTTTACTTCCCTGGTGGTGTAGGGGAAT
1 AGATTGAAG-CACGACGACGAATCTTATTTCCCCGACATTGTAGTTAAAT
* *
49246262 AGATTGAAGCTACGACGATGAATCTTATTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGC-ACGACGACGAATCTTATTTCCCCGACATTGTAGTTAAAT
* * * * * * * ** ** *
49246312 AAATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGGTGTAAG-GGAAC
1 AGATTGAAG-CACGACGACGAATCTTATTTCCCCGACATTGT-AGTTAAAT
** *
49246362 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGTAGTTAAAT
1 AGATTGAAGC-ACGACGACGAATCTTATTTCCCCGACATTGTAGTTAAAT
* ** * * **** ** *
49246412 AGATTGAAGTCACAACGGTGAATCTTACTTCCCTGGTGGTGTAGTGGAAC
1 AGATTGAAG-CACGACGACGAATCTTATTTCCCCGACATTGTAGTTAAAT
* * * *
49246462 AGATTGAAGCTACGACGGCGAATCTTATTTCCCCCACATTGCAGTTAAAC
1 AGATTGAAGC-ACGACGACGAATCTTATTTCCCCGACATTGTAGTTAAAT
49246512 AGATTGAAG
1 AGATTGAAG
49246521 ATGGTAAGTC
Statistics
Matches: 221, Mismatches: 81, Indels: 14
0.70 0.26 0.04
Matches are distributed among these distances:
49 5 0.02
50 212 0.96
51 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (49 bp):
AGATTGAAGCACGACGACGAATCTTATTTCCCCGACATTGTAGTTAAAT
Found at i:49246255 original size:100 final size:101
Alignment explanation
Indices: 49246109--49246520 Score: 537
Period size: 100 Copynumber: 4.1 Consensus size: 101
49246099 ATTACAGTGG
* * * *
49246109 AATAGATTGAAGCCATAACAG-CAAATCTTACTTCTCTGGCAGTGTAGGGGAACAGATTAAAG-T
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
* *
49246172 CACGACGACGAATCTTGTTTCCCCGACATTGTAGTTA
66 -ACGACGACGAATCTTATTTCCCCGACATTGCAGTTA
* * *
49246209 AATAGATTGAAGCCACAAC-GTCAAATTTTACTTCCCTGGTGGTGTAGGGGAATAGATTGAAGCT
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
*
49246273 ACGACGATGAATCTTATTTCCCCGACATTGCAGTTA
66 ACGACGACGAATCTTATTTCCCCGACATTGCAGTTA
* * * * *
49246309 AATAAATTGAAGCCACAA-TGGCGAATCTTACTTCCCTGGCGGTGTAAGGGAACAGATTGAAGCT
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
** * *
49246373 ACGACGGTGAATCTTGTTTCCCCGACATTGTAGTTA
66 ACGACGACGAATCTTATTTCCCCGACATTGCAGTTA
* * * * *
49246409 AATAGATTGAAGTCACAACGGT-GAATCTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCT
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
* *
49246473 ACGACGGCGAATCTTATTTCCCCCACATTGCAGTTA
66 ACGACGACGAATCTTATTTCCCCGACATTGCAGTTA
*
49246509 AACAGATTGAAG
1 AATAGATTGAAG
49246521 ATGGTAAGTC
Statistics
Matches: 276, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
99 1 0.00
100 273 0.99
101 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (101 bp):
AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
ACGACGACGAATCTTATTTCCCCGACATTGCAGTTA
Found at i:49246468 original size:200 final size:200
Alignment explanation
Indices: 49246109--49246520 Score: 612
Period size: 200 Copynumber: 2.1 Consensus size: 200
49246099 ATTACAGTGG
* * *
49246109 AATAGATTGAAGCCATAACAGCAAATCTTACTTCTCTGGCAGTGTAGGGGAACAGATTAAAGTCA
1 AATAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGCAGTGTAAGGGAACAGATTAAAGTCA
*
49246174 CGACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACAACGTCAAATTTTA
66 CGACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACAACGTCAAATCTTA
* * *
49246239 CTTCCCTGGTGGTGTAGGGGAATAGATTGAAGCTACGACGATGAATCTTATTTCCCCGACATTGC
131 CTTCCCTGGTGGTGTAGGGGAACAGATTGAAGCTACGACGACGAATCTTATTTCCCCCACATTGC
49246304 AGTTA
196 AGTTA
* ** * * *
49246309 AATAAATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGGTGTAAGGGAACAGATTGAAG-CT
1 AATAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGCAGTGTAAGGGAACAGATTAAAGTC-
** * *
49246373 ACGACGGTGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGTCACAACGGT-GAATCT
65 ACGACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACAAC-GTCAAATCT
* *
49246437 TACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTATTTCCCCCACATT
129 TACTTCCCTGGTGGTGTAGGGGAACAGATTGAAGCTACGACGACGAATCTTATTTCCCCCACATT
49246502 GCAGTTA
194 GCAGTTA
*
49246509 AACAGATTGAAG
1 AATAGATTGAAG
49246521 ATGGTAAGTC
Statistics
Matches: 189, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
199 1 0.01
200 186 0.98
201 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (200 bp):
AATAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGCAGTGTAAGGGAACAGATTAAAGTCA
CGACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACAACGTCAAATCTTA
CTTCCCTGGTGGTGTAGGGGAACAGATTGAAGCTACGACGACGAATCTTATTTCCCCCACATTGC
AGTTA
Found at i:49246589 original size:44 final size:43
Alignment explanation
Indices: 49246532--49246694 Score: 179
Period size: 44 Copynumber: 3.8 Consensus size: 43
49246522 TGGTAAGTCT
*
49246532 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATGATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ATGATCC
* * * *
49246576 TATCTCTCTGAAGTTGCAGTGGAG-TGAGTTAAAACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAACCAT-GATCC
* * * * *
49246620 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCA--ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATGATCC
*
49246661 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA
49246695 TGATGAATCC
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
41 31 0.32
43 3 0.03
44 62 0.63
45 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATGATCC
Found at i:49246714 original size:85 final size:86
Alignment explanation
Indices: 49246532--49246726 Score: 211
Period size: 85 Copynumber: 2.3 Consensus size: 86
49246522 TGGTAAGTCT
* * * *
49246532 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATGATCCTATCTCTCTGAAGTTGCAGTG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCAA-GATCCTATCTCCCTGAAGTTGCAGTG
* * *
49246597 GAGTGAGTTAAAACCTTAGATCT
65 GAGGGAGTTAAAA-CTGAGATCC
* *
49246620 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC-A-ATCCTATCTCCCTGAAGTTGCAGTGG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCAAGATCCTATCTCCCTGAAGTTGCAGTGG
49246683 AGCGGA-TTAAAA-TGATGAATCC
66 AG-GGAGTTAAAACTGA-G-ATCC
*
49246705 TATAC-CTCTGAAGTTACAGTAG
1 TAT-CTCTCTGAAGTTGCAGTAG
49246727 GTCGGATTAA
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
83 2 0.02
84 1 0.01
85 55 0.59
86 3 0.03
87 1 0.01
88 31 0.33
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (86 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCAAGATCCTATCTCCCTGAAGTTGCAGTGG
AGGGAGTTAAAACTGAGATCC
Found at i:49247610 original size:22 final size:23
Alignment explanation
Indices: 49247580--49247627 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
49247570 ATTTTTTTCC
49247580 TTTCATTTTTTCTTCG-TACATT
1 TTTCATTTTTTCTTCGTTACATT
* * *
49247602 TTTCCTTTTTTTTTCGTTTCATT
1 TTTCATTTTTTCTTCGTTACATT
49247625 TTT
1 TTT
49247628 TATGATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.08, C:0.17, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTCATTTTTTCTTCGTTACATT
Found at i:49247638 original size:35 final size:38
Alignment explanation
Indices: 49247571--49247647 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
49247561 AGGTGGTTCA
* *
49247571 TTTTTTTCCTTTCATTTTTTCTTCGTACATTTTTCCTT
1 TTTTTTTCCTTTCATTTTTTCATCGTACATTTTTACTT
* *
49247609 TTTTTTTCGTTTCATTTTTT-AT-G-ATATTTTTACTT
1 TTTTTTTCCTTTCATTTTTTCATCGTACATTTTTACTT
49247644 TTTT
1 TTTT
49247648 AAAAAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 14 0.40
36 1 0.03
37 1 0.03
38 19 0.54
ACGTcount: A:0.10, C:0.14, G:0.04, T:0.71
Consensus pattern (38 bp):
TTTTTTTCCTTTCATTTTTTCATCGTACATTTTTACTT
Found at i:49258209 original size:10 final size:9
Alignment explanation
Indices: 49258175--49258211 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
49258165 TTTTAGAAAA
49258175 TTTTTAAATT
1 TTTTTAAA-T
49258185 TTTTTAAAT
1 TTTTTAAAT
49258194 TTTTTAGAAT
1 TTTTTA-AAT
49258204 TTTTTAAA
1 TTTTTAAA
49258212 AATATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:49258815 original size:18 final size:19
Alignment explanation
Indices: 49258785--49258820 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
49258775 TAAAATTTGA
49258785 AATAAATAATTAATAAATT
1 AATAAATAATTAATAAATT
49258804 AATAAA-AATTAATAAAT
1 AATAAATAATTAATAAAT
49258821 ACAATATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAATAATTAATAAATT
Found at i:49262952 original size:40 final size:40
Alignment explanation
Indices: 49262897--49262979 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
49262887 TGCACAATTC
49262897 TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
1 TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
49262937 TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
1 TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
49262977 TGT
1 TGT
49262980 GCTGGACAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (40 bp):
TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
Found at i:49277559 original size:13 final size:13
Alignment explanation
Indices: 49277541--49277565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49277531 ATTTATGATG
49277541 TCAAGTTCAATTT
1 TCAAGTTCAATTT
49277554 TCAAGTTCAATT
1 TCAAGTTCAATT
49277566 ACCCATTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:49281006 original size:28 final size:25
Alignment explanation
Indices: 49280959--49281025 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 25
49280949 ATCACTTGTA
*
49280959 TAATAACATATATATTGATTC-ATT
1 TAATAAAATATATATTGATTCAATT
49280983 TCAATAAAATCATATATTAAGATTCAATT
1 T-AATAAAAT-ATATATT--GATTCAATT
49281012 TAATCAAAAT-TATA
1 TAAT-AAAATATATA
49281026 CATAATAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 1 0.03
25 7 0.19
26 7 0.19
27 4 0.11
28 8 0.22
29 9 0.25
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (25 bp):
TAATAAAATATATATTGATTCAATT
Found at i:49281238 original size:5 final size:5
Alignment explanation
Indices: 49281228--49281257 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
49281218 CAAATTAACC
49281228 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
49281258 CAAATTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:49288940 original size:40 final size:40
Alignment explanation
Indices: 49288883--49289126 Score: 355
Period size: 40 Copynumber: 6.1 Consensus size: 40
49288873 AACTATTAGT
* * * *
49288883 TTCAGGGTTACCAAAGTACAAATAGGGGCACGTATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
* *
49288923 TTCAGGGGTATCGAAGTACAAACAGGGGCACCTATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
* * *
49288963 TTCAAGGGTACCGACGTTCAAACAGGGGCACATATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
*
49289003 TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
* *
49289043 TTCAAGGGTACCGACA-TTCAAACAGGGGCACATATGTGCA
1 TTCAGGGGTACCGA-AGTACAAACAGGGGCACATATGTGCA
*
49289083 TTCAGGGGTACCGAAGAACAAACAGGGGCACATATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
49289123 TTCA
1 TTCA
49289127 ACAATAATTA
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 180 0.99
41 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.20
Consensus pattern (40 bp):
TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
Found at i:49289010 original size:20 final size:20
Alignment explanation
Indices: 49288985--49289090 Score: 63
Period size: 20 Copynumber: 5.3 Consensus size: 20
49288975 GACGTTCAAA
49288985 CAGGGGCACATATGTGCATT
1 CAGGGGCACATATGTGCATT
* ** * * **
49289005 CAGGGGTACCGAAGTACAAA
1 CAGGGGCACATATGTGCATT
*
49289025 CAGGGGCACCTATGTGCATT
1 CAGGGGCACATATGTGCATT
* * * **
49289045 CAAGGGTACCGACAT-T-CAAA
1 CAGGGGCA-C-ATATGTGCATT
49289065 CAGGGGCACATATGTGCATT
1 CAGGGGCACATATGTGCATT
49289085 CAGGGG
1 CAGGGG
49289091 TACCGAAGAA
Statistics
Matches: 58, Mismatches: 24, Indels: 8
0.64 0.27 0.09
Matches are distributed among these distances:
18 3 0.05
19 2 0.03
20 49 0.84
21 2 0.03
22 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (20 bp):
CAGGGGCACATATGTGCATT
Found at i:49289039 original size:80 final size:80
Alignment explanation
Indices: 49288901--49289127 Score: 400
Period size: 80 Copynumber: 2.8 Consensus size: 80
49288891 TACCAAAGTA
* * *
49288901 CAAATAGGGGCACGTATGTGCATTCAGGGGTATCGAAGTACAAACAGGGGCACCTATGTGCATTC
1 CAAACAGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTC
*
49288966 AAGGGTACCGACGTT
66 AAGGGTACCGACATT
49288981 CAAACAGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTC
1 CAAACAGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTC
49289046 AAGGGTACCGACATT
66 AAGGGTACCGACATT
* *
49289061 CAAACAGGGGCACATATGTGCATTCAGGGGTACCGAAGAACAAACAGGGGCACATATGTGCATTC
1 CAAACAGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTC
49289126 AA
66 AA
49289128 CAATAATTAT
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 141 1.00
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (80 bp):
CAAACAGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTC
AAGGGTACCGACATT
Found at i:49295343 original size:40 final size:40
Alignment explanation
Indices: 49295282--49295498 Score: 272
Period size: 40 Copynumber: 5.4 Consensus size: 40
49295272 ATACTATTTG
* * * * *
49295282 ATTCAAGGTTACCAAATTACAAACAGGGTCACATATGTGC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
49295322 ATTCATGGGTACCGAAGTACAAACAGGGGCATGTATGTGC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
49295362 ATTCAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
49295402 ATTCAAGGGTATCAAAGTACAAACAGGGGCACGTATATGC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
49295442 ATTCAAGGGTATCAAAGTACAAACAGGGGCACGTATATGC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
49295482 ATTCAGGGGTACTGAAG
1 ATTCAAGGGTACCGAAG
49295499 AATAAATAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 158 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (40 bp):
ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
Found at i:49295506 original size:120 final size:120
Alignment explanation
Indices: 49295282--49295523 Score: 340
Period size: 120 Copynumber: 2.0 Consensus size: 120
49295272 ATACTATTTG
* * * * * *
49295282 ATTCAAGGTTACCAAATTACAAACAGGGTCACATATGTGCATTCATGGGTACCGAAGTACAAACA
1 ATTCAAGGGTACCAAAGTACAAACAGGGGCACATATATGCATTCAAGGGTACCAAAGTACAAACA
* * * * *
49295347 GGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGC
66 GGGGCACGTATATGCATTCAGGGGTACCGAAGAACAAATAGCGACATGTATGTGC
* * *
49295402 ATTCAAGGGTATCAAAGTACAAACAGGGGCACGTATATGCATTCAAGGGTATCAAAGTACAAACA
1 ATTCAAGGGTACCAAAGTACAAACAGGGGCACATATATGCATTCAAGGGTACCAAAGTACAAACA
* *
49295467 GGGGCACGTATATGCATTCAGGGGTACTGAAGAATAAATAGCGACATGTATGTGC
66 GGGGCACGTATATGCATTCAGGGGTACCGAAGAACAAATAGCGACATGTATGTGC
49295522 AT
1 AT
49295524 ACAACAAAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 106 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.23
Consensus pattern (120 bp):
ATTCAAGGGTACCAAAGTACAAACAGGGGCACATATATGCATTCAAGGGTACCAAAGTACAAACA
GGGGCACGTATATGCATTCAGGGGTACCGAAGAACAAATAGCGACATGTATGTGC
Found at i:49295523 original size:40 final size:40
Alignment explanation
Indices: 49295299--49295523 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 40
49295289 GTTACCAAAT
* ** * *
49295299 TACAAACAGGGTCACATATGTGCATTCATGGGTACCGAAG
1 TACAAACAGGGGCATGTATGTGCATTCAAGGGTACTGAAG
* *
49295339 TACAAACAGGGGCATGTATGTGCATTCAGGGGTACCGAAG
1 TACAAACAGGGGCATGTATGTGCATTCAAGGGTACTGAAG
* *
49295379 TACAAATAGGGGCATGTATGTGCATTCAAGGGTA-TCAAAG
1 TACAAACAGGGGCATGTATGTGCATTCAAGGGTACT-GAAG
* * *
49295419 TACAAACAGGGGCACGTATATGCATTCAAGGGTA-TCAAAG
1 TACAAACAGGGGCATGTATGTGCATTCAAGGGTACT-GAAG
* * *
49295459 TACAAACAGGGGCACGTATATGCATTCAGGGGTACTGAAG
1 TACAAACAGGGGCATGTATGTGCATTCAAGGGTACTGAAG
* * * * *
49295499 AATAAATAGCGACATGTATGTGCAT
1 TACAAACAGGGGCATGTATGTGCAT
49295524 ACAACAAAAA
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 162 0.99
41 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.22
Consensus pattern (40 bp):
TACAAACAGGGGCATGTATGTGCATTCAAGGGTACTGAAG
Found at i:49295523 original size:80 final size:80
Alignment explanation
Indices: 49295282--49295523 Score: 279
Period size: 80 Copynumber: 3.0 Consensus size: 80
49295272 ATACTATTTG
* * * * * *
49295282 ATTCAAGGTTACCAAATTACAAACAGGGTCACATATGTGCATTCATGGGTACCGAAGTACAAACA
1 ATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAACA
49295347 GGGGCATGTATGTGC
66 GGGGCATGTATGTGC
* * * * *
49295362 ATTCAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGCATTCAAGGGTA-TCAAAGTACAAAC
1 ATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACT-GAAGTACAAAC
* *
49295426 AGGGGCACGTATATGC
65 AGGGGCATGTATGTGC
* * * * * *
49295442 ATTCAAGGGTATCAAAGTACAAACAGGGGCACGTATATGCATTCAGGGGTACTGAAGAATAAATA
1 ATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAACA
* *
49295507 GCGACATGTATGTGC
66 GGGGCATGTATGTGC
49295522 AT
1 AT
49295524 ACAACAAAAA
Statistics
Matches: 132, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
80 131 0.99
81 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.23
Consensus pattern (80 bp):
ATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAACA
GGGGCATGTATGTGC
Found at i:49305250 original size:10 final size:10
Alignment explanation
Indices: 49305218--49305274 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
49305208 CCTTTGTGCT
49305218 AATTAATTAA
1 AATTAATTAA
* *
49305228 AAATAATAAA
1 AATTAATTAA
*
49305238 AATTAATCAA
1 AATTAATTAA
49305248 AATTTGAA-TAA
1 AA-TT-AATTAA
49305259 AATTAATTAA
1 AATTAATTAA
49305269 AATTAA
1 AATTAA
49305275 ACATATTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 2 0.05
10 29 0.74
11 6 0.15
12 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AATTAATTAA
Found at i:49307076 original size:10 final size:10
Alignment explanation
Indices: 49307057--49307105 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
49307047 AAATTTGTCG
49307057 AAAA-TAATC
1 AAAATTAATC
49307066 AAAATTAATC
1 AAAATTAATC
*
49307076 AAAATTAATTAT
1 AAAATTAA-T-C
*
49307088 AAAATTAATT
1 AAAATTAATC
49307098 AAAATTAA
1 AAAATTAA
49307106 ACATGTTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 4 0.11
10 22 0.61
11 2 0.06
12 8 0.22
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTAATC
Found at i:49310048 original size:25 final size:24
Alignment explanation
Indices: 49309994--49310049 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
49309984 TTAATCAGTA
* *
49309994 TAAAATATTAATAATTCAATAATT
1 TAAAATATTAATAATTAAATAAAT
49310018 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATT-AATAATTAAAT-AAAT
49310044 TAAAAT
1 TAAAAT
49310050 TTAGGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAATATTAATAATTAAATAAAT
Found at i:49310733 original size:16 final size:15
Alignment explanation
Indices: 49310708--49310742 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
49310698 AAAGTTGATA
*
49310708 ATAATTAATATATATT
1 ATAATAAATATA-ATT
49310724 ATAATAAATATAATT
1 ATAATAAATATAATT
49310739 ATAA
1 ATAA
49310743 ACTAGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:49314481 original size:30 final size:29
Alignment explanation
Indices: 49314447--49314531 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
49314437 AGAATCAGTT
** * *
49314447 TGGGCCTGAGCCTTATACAGGAGCAGTGTG
1 TGGGCCT-AGCCCAATACAGGAACAGAGTG
*
49314477 TGGGCCATAGCCCAATACAGTAACAGAGTG
1 TGGGCC-TAGCCCAATACAGGAACAGAGTG
*
49314507 TGGGCCTTAGCCCAATACAGTAACA
1 TGGGCC-TAGCCCAATACAGGAACA
49314532 ATGCAAATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 47 0.98
31 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (29 bp):
TGGGCCTAGCCCAATACAGGAACAGAGTG
Found at i:49314675 original size:26 final size:26
Alignment explanation
Indices: 49314646--49314711 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
49314636 AATATTGCAA
* * *
49314646 CAAAGCTGCAAGTAATAGTGACGCAG
1 CAAAGCTGCCAGTAACAGTAACGCAG
*
49314672 CAAAGCTGCCAGTAACAGTAATGCAG
1 CAAAGCTGCCAGTAACAGTAACGCAG
*
49314698 CAGAGCTGCCAGTA
1 CAAAGCTGCCAGTA
49314712 CTACCAGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTAACGCAG
Found at i:49314925 original size:27 final size:27
Alignment explanation
Indices: 49314904--49315251 Score: 316
Period size: 27 Copynumber: 12.9 Consensus size: 27
49314894 CATTTCATCT
*
49314904 CATAG-GGGTATTTTGGTAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* * *
49314930 CATCGAGGGTATTTTGGTAATTTCACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* *
49314957 CATTA-AGGGTATTTCACTAATTTTACC
1 CA-TAGAGGGTATTTTAGTAATTTTACC
*
49314984 CATCGAGGGTATTTTAGTAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* *
49315011 CATTGAGGGTATTTTAGTAATTTTATC
1 CATAGAGGGTATTTTAGTAATTTTACC
*
49315038 CATCAG-GGGTA-TTTCGATAATTTTACC
1 CAT-AGAGGGTATTTTAG-TAATTTTACC
* * * *
49315065 CTTCGAGGGTATTTCAATAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
*
49315092 CATCGAGGGTATTTTAGTAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* *
49315119 CATCAGA-GGTA-TTTCGATAAATTTACC
1 CAT-AGAGGGTATTTTAG-TAATTTTACC
* * * *
49315146 CTTCGAGGGTATTTTGGTCATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* * * *
49315173 TATCGGGGGTA-TTTCGATAATTTTACC
1 CATAGAGGGTATTTTAG-TAATTTTACC
* *
49315200 CATCGAGGGTATTTCAGTAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* *
49315227 TATCA-AGGGTATTTCAGTAATTTTA
1 CAT-AGAGGGTATTTTAGTAATTTTA
49315252 GAGGCCCATT
Statistics
Matches: 266, Mismatches: 42, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
26 20 0.08
27 233 0.88
28 13 0.05
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (27 bp):
CATAGAGGGTATTTTAGTAATTTTACC
Found at i:49314954 original size:54 final size:53
Alignment explanation
Indices: 49314904--49315251 Score: 367
Period size: 54 Copynumber: 6.5 Consensus size: 53
49314894 CATTTCATCT
*** * *
49314904 CATAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTAATTTCACC
1 CATAGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
* *
49314957 CATTAAGGGTATTTCACTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
1 CA-TAGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
* * * * *
49315011 CATTGAGGGTATTTTAGTAATTTTATCCATC-AGGGGTA-TTTCGATAATTTTACC
1 CATAG-GGGTATTTCAATAATTTTACCCATCGA-GGGTATTTTAG-TAATTTTACC
* *
49315065 CTTCGAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
1 CATAG-GGGTATTTCAATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
* * * * * *
49315119 CATCAGAGGTATTTCGATAAATTTACCCTTCGAGGGTATTTTGGTCATTTTACC
1 CAT-AGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
* * * *
49315173 TATCGGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACC
1 CAT-AGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
* * *
49315227 TATCAAGGGTATTTCAGTAATTTTA
1 CAT-AGGGGTATTTCAATAATTTTA
49315252 GAGGCCCATT
Statistics
Matches: 250, Mismatches: 38, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
53 8 0.03
54 236 0.94
55 6 0.02
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (53 bp):
CATAGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
Found at i:49315019 original size:81 final size:81
Alignment explanation
Indices: 49314909--49315251 Score: 433
Period size: 81 Copynumber: 4.2 Consensus size: 81
49314899 CATCTCATAG
* * * *
49314909 GGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTAATTTCACCCATTAAGGGTATTTC-A
1 GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCAAGGGTATTTCGA
49314973 CTAATTTTACCCATCGA
66 -TAATTTTACCCATCGA
* * *
49314990 GGGTATTTTAGTAATTTTACCCATTGAGGGTATTTTAGTAATTTTATCCATCAGGGGTATTTCGA
1 GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCAAGGGTATTTCGA
*
49315055 TAATTTTACCCTTCGA
66 TAATTTTACCCATCGA
* *
49315071 GGGTATTTCAATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATC-AGAGGTATTTCG
1 GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCAAG-GGTATTTCG
* *
49315135 ATAAATTTACCCTTCGA
65 ATAATTTTACCCATCGA
* * * * * *
49315152 GGGTATTTTGGTCATTTTACCTATCGGGGGTA-TTTCGATAATTTTACCCATCGAGGGTATTTC-
1 GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAG-TAATTTTACCCATCAAGGGTATTTCG
* *
49315215 AGTAATTTTACCTATCAA
65 A-TAATTTTACCCATCGA
*
49315233 GGGTATTTCAGTAATTTTA
1 GGGTATTTTAGTAATTTTA
49315252 GAGGCCCATT
Statistics
Matches: 229, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
80 6 0.03
81 220 0.96
82 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCAAGGGTATTTCGA
TAATTTTACCCATCGA
Found at i:49321172 original size:16 final size:16
Alignment explanation
Indices: 49321146--49321187 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
49321136 TAACCCAAAC
49321146 TAAATTGAATTAAAATTA
1 TAAATT-AATT-AAATTA
*
49321164 -AAATTAATTATATTA
1 TAAATTAATTAAATTA
49321179 TAAATTAAT
1 TAAATTAAT
49321188 ACACATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TAAATTAATTAAATTA
Found at i:49321365 original size:22 final size:22
Alignment explanation
Indices: 49321321--49321366 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
49321311 CGAAAAAAAT
**
49321321 TAAAATTAATAAAAATTTGATA
1 TAAAATTAATAAAAATTCAATA
*
49321343 TAAAATTAATTAAAATTCAATA
1 TAAAATTAATAAAAATTCAATA
49321365 TA
1 TA
49321367 TTCATAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAAATTAATAAAAATTCAATA
Found at i:49325016 original size:26 final size:26
Alignment explanation
Indices: 49324977--49325038 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
49324967 CACGACAGAT
* *
49324977 AAAGAAAGCCTTTGTGGCATAATATG
1 AAAGAAAGCATTTGTGGCATAATATA
* **
49325003 AAAGAAAGGATTTGTGGTGTAATATA
1 AAAGAAAGCATTTGTGGCATAATATA
49325029 AAATGAAAGC
1 AAA-GAAAGC
49325039 CTTTCTGACA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAGAAAGCATTTGTGGCATAATATA
Found at i:49327382 original size:27 final size:26
Alignment explanation
Indices: 49327338--49327458 Score: 92
Period size: 27 Copynumber: 4.7 Consensus size: 26
49327328 GTTATGATCG
* * *
49327338 AAATACCCCCATAAGGTAGAATGACCG
1 AAATA-CCCTATAGGGTAGAATGACCA
49327365 AAATACACCTATAGGGT---A--ACCA
1 AAATAC-CCTATAGGGTAGAATGACCA
*
49327387 AAATACCCTCATAGGGTAAAATGACCA
1 AAATACCCT-ATAGGGTAGAATGACCA
* *
49327414 AAATACCCCTATAAGGT-GAAATGACTA
1 AAATA-CCCTATAGGGTAG-AATGACCA
49327441 AAATACCCTTATAGGGTA
1 AAATACCC-TATAGGGTA
49327459 AAATACTTGA
Statistics
Matches: 76, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
21 3 0.04
22 16 0.21
24 1 0.01
25 1 0.01
26 4 0.05
27 47 0.62
28 4 0.05
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (26 bp):
AAATACCCTATAGGGTAGAATGACCA
Found at i:49327410 original size:49 final size:52
Alignment explanation
Indices: 49327338--49327462 Score: 139
Period size: 49 Copynumber: 2.4 Consensus size: 52
49327328 GTTATGATCG
* * * *
49327338 AAATACCCCCATAAGGTAGAATGACCGAAATACACCTAT-AGG-G-TAACCA
1 AAATACCCTCATAGGGTAAAATGACCAAAATACACCTATAAGGTGATAACCA
* * *
49327387 AAATACCCTCATAGGGTAAAATGACCAAAATACCCCTATAAGGTGAAATGACTA
1 AAATACCCTCATAGGGTAAAATGACCAAAATACACCTATAAGGTG--ATAACCA
*
49327441 AAATACCCTTATAGGGTAAAAT
1 AAATACCCTCATAGGGTAAAAT
49327463 ACTTGATTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
49 34 0.54
50 3 0.05
51 1 0.02
54 25 0.40
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (52 bp):
AAATACCCTCATAGGGTAAAATGACCAAAATACACCTATAAGGTGATAACCA
Found at i:49327462 original size:27 final size:27
Alignment explanation
Indices: 49327383--49327462 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
49327373 CTATAGGGTA
*
49327383 ACCAAAATACCCTCATAGGGTAAAATG
1 ACCAAAATACCCTTATAGGGTAAAATG
* * *
49327410 ACCAAAATACCCCTATAAGGTGAAATG
1 ACCAAAATACCCTTATAGGGTAAAATG
*
49327437 ACTAAAATACCCTTATAGGGTAAAAT
1 ACCAAAATACCCTTATAGGGTAAAAT
49327463 ACTTGATTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (27 bp):
ACCAAAATACCCTTATAGGGTAAAATG
Found at i:49336621 original size:34 final size:35
Alignment explanation
Indices: 49336578--49336644 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
49336568 CAGTAAAATA
* *
49336578 TTTTCTGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCTGTAAAATAATTTACGGGAAAATATTTTAC
*
49336612 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATAATTTACGGGAAAATATTTT
49336645 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCTGTAAAATAATTTACGGGAAAATATTTTAC
Found at i:49341241 original size:9 final size:9
Alignment explanation
Indices: 49341227--49341263 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
49341217 TATAGTTTGA
49341227 TATTCGAAT
1 TATTCGAAT
49341236 TATTCGAAT
1 TATTCGAAT
*
49341245 TATTCGAGT
1 TATTCGAAT
49341254 TATTCGAAT
1 TATTCGAAT
49341263 T
1 T
49341264 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:49341805 original size:62 final size:61
Alignment explanation
Indices: 49341677--49341922 Score: 245
Period size: 62 Copynumber: 4.2 Consensus size: 61
49341667 TTTACCTAAA
* *
49341677 TTAATAATAATTATATTAAAA-ATGTAATTAAATTA---A--ATTA-TTTTATTAAATTGTA-
1 TTAATAATAATTATGTTAAAATATG--ATTAAATTATTTATTATTATTTTTATTAAATTATAT
*
49341732 TT--TAATAATTATGTTAAAATATGATTAAATTATTTATTATGATTTTTATT-AATTCATAT
1 TTAATAATAATTATGTTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATT-ATAT
* * *
49341791 TCTAATAATAATTATATTAAGAT-TGTTATTAAATTA--TA-TATTA-TTTTATTAAATTGTAT
1 T-TAATAATAATTATGTTAAAATATG--ATTAAATTATTTATTATTATTTTTATTAAATTATAT
* *
49341850 TTAATAATAATAATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATAT
1 TTAATAATAATTATGTTAAAATATGATTAAATTATTT-ATTATTATTTTTATTAAATTATAT
49341912 TTAATAATAAT
1 TTAATAATAAT
49341923 CTTATTAAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 35
0.77 0.06 0.17
Matches are distributed among these distances:
52 9 0.06
53 16 0.10
54 3 0.02
55 3 0.02
57 16 0.10
58 27 0.17
59 15 0.09
60 10 0.06
61 8 0.05
62 42 0.27
63 9 0.06
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (61 bp):
TTAATAATAATTATGTTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATTATAT
Found at i:49341856 original size:117 final size:117
Alignment explanation
Indices: 49341677--49341932 Score: 378
Period size: 120 Copynumber: 2.2 Consensus size: 117
49341667 TTTACCTAAA
49341677 TTAATAATAATTATATTAAAAATGTAATTAAATTAAATTATTTTATTAAATTGTATTTAATAAT-
1 TTAATAATAATTATATTAAAAATGTAATTAAATTAAATTATTTTATTAAATTGTATTTAATAATA
49341741 T-ATGTTAAAATATGATTAAATTATTT-ATTATGATTTTTATT-AATTCATAT
66 TAATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATT-ATAT
* * *
49341791 TCTAATAATAATTATATTAAGATTGTTATTAAATTATATATTATTTTATTAAATTGTATTTAATA
1 T-TAATAATAATTATATTAAAAATGTAATTAAATTA-A-ATTATTTTATTAAATTGTATTTAATA
* *
49341856 ATAATAATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATAT
63 AT-ATAATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATAT
49341912 TTAATAATAATCT-TATTAAAA
1 TTAATAATAAT-TATATTAAAA
49341933 TTTAATAAAA
Statistics
Matches: 127, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
114 1 0.01
115 31 0.24
116 1 0.01
117 28 0.22
119 1 0.01
120 42 0.33
121 19 0.15
122 4 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (117 bp):
TTAATAATAATTATATTAAAAATGTAATTAAATTAAATTATTTTATTAAATTGTATTTAATAATA
TAATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATAT
Found at i:49350629 original size:14 final size:15
Alignment explanation
Indices: 49350612--49350648 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
49350602 AGCTGGCAGT
49350612 GAGGAGAAAA-AAGA
1 GAGGAGAAAAGAAGA
49350626 GAGG-GAAAAGAAGA
1 GAGGAGAAAAGAAGA
49350640 GAGGAGAAA
1 GAGGAGAAA
49350649 GAAAAGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 12 0.57
15 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (15 bp):
GAGGAGAAAAGAAGA
Found at i:49351239 original size:41 final size:40
Alignment explanation
Indices: 49351164--49351240 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
49351154 GAGTACGATA
*
49351164 AATTTGAATAATTAATTAGACCCAAAATTATTATTTGAAT
1 AATTTGAATAATTAAATAGACCCAAAATTATTATTTGAAT
*
49351204 AATTTGAATAATTAAATAGGTCCCAAAATTATTATTT
1 AATTTGAATAATTAAATA-GACCCAAAATTATTATTT
49351241 TAGAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 17 0.50
41 17 0.50
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (40 bp):
AATTTGAATAATTAAATAGACCCAAAATTATTATTTGAAT
Found at i:49351302 original size:17 final size:17
Alignment explanation
Indices: 49351248--49351331 Score: 57
Period size: 17 Copynumber: 4.9 Consensus size: 17
49351238 TTTTAGAAAA
49351248 TTTTAAAATTTTA-ATTT
1 TTTTAAAATTTTATA-TT
* *
49351265 TTTTATAACTTTTTTTGATT
1 TTTTA-AA-ATTTTAT-ATT
*
49351285 TTTTTAAATTTTATATT
1 TTTTAAAATTTTATATT
* **
49351302 TTTTAAAA-TATA-AAA
1 TTTTAAAATTTTATATT
49351317 TTTTAAAATTTTATA
1 TTTTAAAATTTTATA
49351332 AATATTCTGA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
15 9 0.18
16 6 0.12
17 16 0.31
18 7 0.14
19 6 0.12
20 6 0.12
21 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (17 bp):
TTTTAAAATTTTATATT
Found at i:49352062 original size:167 final size:168
Alignment explanation
Indices: 49351785--49352119 Score: 534
Period size: 167 Copynumber: 2.0 Consensus size: 168
49351775 GATAAAATAT
* *
49351785 TTTTTATTGGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTATTA
1 TTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTAATA
*
49351850 ATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATATAG
66 ATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATAGAG
*
49351915 ATT-AAATCTTAAGTTTCACCATAGTATAAAAGACAAAA
131 ATTAAAAT-TTAAGTTTCAACATAGTATAAAAGACAAAA
* *
49351953 TTTTTATTAGAATAATGTTCTCAAG-AAAAAAATAATG-CAAGTATTTTGATTGAAATATTTAAT
1 TTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAA-CATTTTCATTGAAATATTTAAT
* *
49352016 AATATTTAACTATTTAAACTAACTAATGATAGATG-ATCAAATTATATTAGAAATTAAAGTATAG
65 AATATTTAACTATTTAAACTAACTAATGAAAGA-GAATCAAATTATATTAAAAATTAAAGTATAG
*
49352080 AGATTAAAATTTAAGTTTCAACATAGTATAGAAGACAAAA
129 AGATTAAAATTTAAGTTTCAACATAGTATAAAAGACAAAA
49352120 CTGAAATTTG
Statistics
Matches: 155, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
166 3 0.02
167 123 0.79
168 29 0.19
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (168 bp):
TTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTAATA
ATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATAGAG
ATTAAAATTTAAGTTTCAACATAGTATAAAAGACAAAA
Found at i:49352273 original size:16 final size:17
Alignment explanation
Indices: 49352252--49352288 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
49352242 ATGTTTTTTT
49352252 AAATATTTAA-TATATA
1 AAATATTTAAGTATATA
*
49352268 AAATATTTAAGTATATC
1 AAATATTTAAGTATATA
49352285 AAAT
1 AAAT
49352289 GAATTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATATTTAAGTATATA
Found at i:49354658 original size:11 final size:11
Alignment explanation
Indices: 49354637--49354675 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
49354627 GAAAAGGCAG
49354637 AAAACTAAAAAC
1 AAAA-TAAAAAC
49354649 AAAATAAAAAAC
1 AAAAT-AAAAAC
*
49354661 AAAACAAAAAC
1 AAAATAAAAAC
49354672 AAAA
1 AAAA
49354676 GGCGCAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.82, C:0.13, G:0.00, T:0.05
Consensus pattern (11 bp):
AAAATAAAAAC
Found at i:49357467 original size:5 final size:5
Alignment explanation
Indices: 49357447--49357500 Score: 92
Period size: 5 Copynumber: 10.8 Consensus size: 5
49357437 ACTAAAAACG
49357447 AAAAT ATAAA- AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
49357497 AAAA
1 AAAA
49357501 ATGGCTAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
4 3 0.06
5 41 0.87
6 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:49363621 original size:51 final size:52
Alignment explanation
Indices: 49363566--49363768 Score: 181
Period size: 51 Copynumber: 4.0 Consensus size: 52
49363556 ATGTGAAAAT
* *
49363566 GAAT-GTGAT-GGTCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACC
1 GAATAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
* * * **
49363616 -AGA-A-TGATAGGTCGCATGTGTAGTACTATGTACAGGCTACTATGCATACC
1 GA-ATAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
* * **
49363666 GAATAGCT--TCA-ATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATT
1 GAATAG-TGAT-AGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
* * * *
49363717 GGATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACC
1 GAATAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
49363768 G
1 G
49363769 GTATCATTAA
Statistics
Matches: 118, Mismatches: 24, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
49 5 0.04
50 37 0.31
51 73 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (52 bp):
GAATAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
Found at i:49363692 original size:101 final size:102
Alignment explanation
Indices: 49363577--49363761 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
49363567 AATGTGATGG
*
49363577 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
49363640 ACTATGTACAGGCTACTATGCATACCGAATAGCTTCAA
65 ACTATGTACAGGCTACTATGCATACCGAATAGCTTCAA
* ***
49363678 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
**
49363743 CTATGTGTAGGCTACTATG
66 CTATGTACAGGCTACTATG
49363762 TGAACCGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTACAGGCTACTATGCATACCGAATAGCTTCAA
Found at i:49371481 original size:16 final size:16
Alignment explanation
Indices: 49371456--49371490 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49371446 ATTTAATCCC
* *
49371456 TAATACTAAAAATATT
1 TAATAATAAAAACATT
49371472 TAATAATAAAAACATT
1 TAATAATAAAAACATT
49371488 TAA
1 TAA
49371491 AATCTTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATAATAAAAACATT
Found at i:49371876 original size:19 final size:18
Alignment explanation
Indices: 49371836--49371884 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
49371826 TAATTACCAC
* *
49371836 TTTAATCTATCAATTGATT
1 TTTAATCTAT-AATTAACT
49371855 TTTAATCTATAATTCAACT
1 TTTAATCTATAATT-AACT
*
49371874 TTTACTCTATA
1 TTTAATCTATA
49371885 CGCGATTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTAATCTATAATTAACT
Found at i:49371986 original size:13 final size:13
Alignment explanation
Indices: 49371968--49371992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49371958 ATAGCTTCAT
49371968 AAATATTTATTAA
1 AAATATTTATTAA
49371981 AAATATTTATTA
1 AAATATTTATTA
49371993 GTCTGATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:49377165 original size:26 final size:26
Alignment explanation
Indices: 49377135--49377196 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
49377125 GCTGTAAGTG
* *
49377135 TTTTGAAACTGATACATGCTATGATA
1 TTTTGAAACTGACACATACTATGATA
* *
49377161 TTTTGAAACTGACATATATTATGATA
1 TTTTGAAACTGACACATACTATGATA
*
49377187 TATTGAAACT
1 TTTTGAAACT
49377197 AGTGTGGGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (26 bp):
TTTTGAAACTGACACATACTATGATA
Found at i:49385695 original size:3 final size:3
Alignment explanation
Indices: 49385687--49385721 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
49385677 CTCATGCTTA
49385687 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
49385722 AGACAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:49387058 original size:19 final size:19
Alignment explanation
Indices: 49387036--49387073 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
49387026 TCAATCATCC
49387036 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
49387055 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
49387074 AATCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:49388919 original size:19 final size:18
Alignment explanation
Indices: 49388895--49388943 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
49388885 TACAATTTTG
49388895 TCAAAATTAGCCACATTCA
1 TCAAAA-TAGCCACATTCA
*
49388914 TCAAAATATCCCACATTCA
1 TCAAAATA-GCCACATTCA
49388933 TCAAAATAGCC
1 TCAAAATAGCC
49388944 CTCGACTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.24
Consensus pattern (18 bp):
TCAAAATAGCCACATTCA
Found at i:49395809 original size:50 final size:50
Alignment explanation
Indices: 49395694--49395992 Score: 400
Period size: 50 Copynumber: 5.8 Consensus size: 50
49395684 CATCATAACA
* ** *
49395694 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
49395745 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
49395795 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
49395845 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
49395895 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCGTGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACC--TC-TCATC-T-CGG
* *
49395950 ATGCCAATGCCATGTTCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49395993 TTACCCAAAT
Statistics
Matches: 224, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
50 142 0.63
51 34 0.15
52 2 0.01
53 4 0.02
54 3 0.01
55 2 0.01
56 37 0.17
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:49404493 original size:10 final size:10
Alignment explanation
Indices: 49404478--49404514 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
49404468 ATTAACATGT
49404478 TTAATTTTAA
1 TTAATTTTAA
49404488 TTAATTTTAA
1 TTAATTTTAA
*
49404498 TTAATTTTGA
1 TTAATTTTAA
49404508 TT-ATTTT
1 TTAATTTT
49404515 CGATAGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 5 0.19
10 21 0.81
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:49410515 original size:17 final size:16
Alignment explanation
Indices: 49410493--49410545 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
49410483 AAATGCTCGT
49410493 GAAAAAAAAGAAAAAAA
1 GAAAAAAAA-AAAAAAA
*
49410510 GAAAAAGAAAAATAAAA
1 GAAAAA-AAAAAAAAAA
*
49410527 GAAAAAGAACAAAAAAA
1 GAAAAA-AAAAAAAAAA
49410544 GA
1 GA
49410546 GCATATGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 29 0.91
18 3 0.09
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAA
Found at i:49410520 original size:11 final size:10
Alignment explanation
Indices: 49410494--49410545 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
49410484 AATGCTCGTG
49410494 AAAAAAAAGA
1 AAAAAAAAGA
49410504 AAAAAAGAA-A
1 AAAAAA-AAGA
* *
49410514 AAGAAAAATA
1 AAAAAAAAGA
49410524 AAAGAAAAAGA
1 AAA-AAAAAGA
49410535 ACAAAAAAAGA
1 A-AAAAAAAGA
49410546 GCATATGTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 2 0.06
10 15 0.43
11 16 0.46
12 2 0.06
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:49411275 original size:10 final size:10
Alignment explanation
Indices: 49411234--49411273 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
49411224 ATTAAAATTT
49411234 TTAATTTTAA
1 TTAATTTTAA
49411244 TTAATTTTATAA
1 TTAA-TTT-TAA
*
49411256 TTAATTTTGA
1 TTAATTTTAA
49411266 TTAATTTT
1 TTAATTTT
49411274 GAAAATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 14 0.52
11 6 0.22
12 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:49419519 original size:33 final size:33
Alignment explanation
Indices: 49419475--49419721 Score: 159
Period size: 28 Copynumber: 8.2 Consensus size: 33
49419465 AGCATGCAGT
* * * * *
49419475 TACAGTCTGGGCCTGAGCCCTAT-TCAGTGATAG
1 TACAGTGTGGGCCTTAGCCCAATAT-AGTAACAG
49419508 TACAGTGTGGGCCTTAGCCCAATATAGTAACAG
1 TACAGTGTGGGCCTTAGCCCAATATAGTAACAG
*
49419541 TAACAGTGTGGGCCTTAGCCCAATACAGT---A-
1 T-ACAGTGTGGGCCTTAGCCCAATATAGTAACAG
*
49419571 -ACAGTGTGGGCCTTAGCCCAATACAG--A-A-
1 TACAGTGTGGGCCTTAGCCCAATATAGTAACAG
*
49419599 T-CAGTGTGGGCCTTAGCCCAATACAG--A-A-
1 TACAGTGTGGGCCTTAGCCCAATATAGTAACAG
* * * *
49419627 T-CAATGTGGGCCTTAACCTAATACAGT-A-A-
1 TACAGTGTGGGCCTTAGCCCAATATAGTAACAG
*
49419656 T--AGTGTGGGCCTTAGCCCAATACAG--A-A-
1 TACAGTGTGGGCCTTAGCCCAATATAGTAACAG
* *
49419683 T-CAGTGTGGGCCTTAGCCCAATACAATAACAG
1 TACAGTGTGGGCCTTAGCCCAATATAGTAACAG
49419715 TACAGTG
1 TACAGTG
49419722 CAATCATGCA
Statistics
Matches: 190, Mismatches: 13, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
27 3 0.02
28 121 0.64
29 3 0.02
30 1 0.01
31 2 0.01
32 1 0.01
33 32 0.17
34 27 0.14
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (33 bp):
TACAGTGTGGGCCTTAGCCCAATATAGTAACAG
Found at i:49419568 original size:28 final size:28
Alignment explanation
Indices: 49419509--49419715 Score: 267
Period size: 28 Copynumber: 7.2 Consensus size: 28
49419499 CAGTGATAGT
49419509 ACAGTGTGGGCCTTAGCCCAATATAGTAACAGTA
1 ACAGTGTGGGCCTTAGCCC---A-A-T-ACAGTA
49419543 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
49419571 ACAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
49419598 ATCAGTGTGGGCCTTAGCCCAATACAG-A
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
* * *
49419626 ATCAATGTGGGCCTTAACCTAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
49419655 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
49419682 ATCAGTGTGGGCCTTAGCCCAATACAATA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
49419711 ACAGT
1 ACAGT
49419716 ACAGTGCAAT
Statistics
Matches: 160, Mismatches: 9, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
27 4 0.03
28 130 0.81
29 5 0.03
30 1 0.01
31 1 0.01
34 19 0.12
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:49419651 original size:84 final size:88
Alignment explanation
Indices: 49419510--49419718 Score: 309
Period size: 84 Copynumber: 2.4 Consensus size: 88
49419500 AGTGATAGTA
* * *
49419510 CAGTGTGGGCCTTAGCCCAATATAGTAACAGTAACAGTGTGGGCCTTAGCCCAATACAGTAACAG
1 CAGTGTGGGCCTTAGCCCAATACAG-AACAGT-ACAATGTGGGCCTTAACCCAATACAGTAACAG
49419575 TGTGGGCCTTAGCCCAATACAGAAT
64 TGTGGGCCTTAGCCCAATACAGAAT
* *
49419600 CAGTGTGGGCCTTAGCCCAATACAG-A-A-T-CAATGTGGGCCTTAACCTAATACAGTAATAGTG
1 CAGTGTGGGCCTTAGCCCAATACAGAACAGTACAATGTGGGCCTTAACCCAATACAGTAACAGTG
49419661 TGGGCCTTAGCCCAATACAGAAT
66 TGGGCCTTAGCCCAATACAGAAT
*
49419684 CAGTGTGGGCCTTAGCCCAATACAATAACAGTACA
1 CAGTGTGGGCCTTAGCCCAATAC-AGAACAGTACA
49419719 GTGCAATCAT
Statistics
Matches: 108, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
84 75 0.69
85 1 0.01
86 2 0.02
87 2 0.02
88 2 0.02
89 2 0.02
90 24 0.22
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (88 bp):
CAGTGTGGGCCTTAGCCCAATACAGAACAGTACAATGTGGGCCTTAACCCAATACAGTAACAGTG
TGGGCCTTAGCCCAATACAGAAT
Found at i:49419848 original size:26 final size:27
Alignment explanation
Indices: 49419819--49419892 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 27
49419809 ACACACCAAT
*
49419819 ATCGCAGCAAAGCTACCAGTAAT-AGC
1 ATCGCAGCAAAGCTGCCAGTAATCAGC
* *
49419845 ATCGCAGCAGAGCTGCCAGT-ATCAGT
1 ATCGCAGCAAAGCTGCCAGTAATCAGC
*
49419871 ATCGTAGCAAAGCTGCCAGTAA
1 ATCGCAGCAAAGCTGCCAGTAA
49419893 CTATATATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.05
26 38 0.93
27 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.18
Consensus pattern (27 bp):
ATCGCAGCAAAGCTGCCAGTAATCAGC
Found at i:49420126 original size:27 final size:27
Alignment explanation
Indices: 49420096--49420182 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
49420086 TAATCTTCTA
*
49420096 GGGGTATAAAGATCATTTTACCCTTAG
1 GGGGTATAAAGATAATTTTACCCTTAG
* * *
49420123 GGGGTATTATGGTAATTTTACCCTTA-
1 GGGGTATAAAGATAATTTTACCCTTAG
** *
49420149 GGGGTATTTCA-ATAATTTTACCCTTCG
1 GGGGTA-TAAAGATAATTTTACCCTTAG
*
49420176 AGGGTAT
1 GGGGTAT
49420183 TTTAGTACTT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 20 0.41
27 29 0.59
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (27 bp):
GGGGTATAAAGATAATTTTACCCTTAG
Found at i:49420276 original size:81 final size:80
Alignment explanation
Indices: 49420108--49420550 Score: 373
Period size: 81 Copynumber: 5.5 Consensus size: 80
49420098 GGTATAAAGA
* * * * * * *
49420108 TCATTTTACCCTTAGGGGGTATTAT-GGTAATTTTACCCTTAG-GGGTATTTCAATAATTTTACC
1 TCATTTTACCCTTTGAGGGTATT-TCGATCATTTTA-CCTTCGAGGGTATTTCAGTCATTTTA-C
*
49420171 CT-TCGAGGGTATTTTAG
63 CTATCGAGGGTATTTCAG
* * **
49420188 T-ACTTTTACCCTTTGAGGGTATTTCGATAATTTTACATGTCGAGGGTATTTTGGTCATTTTACC
1 TCA-TTTTACCCTTTGAGGGTATTTCGATCATTTTACCT-TCGAGGGTATTTCAGTCATTTTACC
* * *
49420252 TTTCGGGGGTATTTCAA
64 TATCGAGGGTATTTCAG
* *
49420269 TCATTTTACCC-TTCAGGAGTATTTCGATCATTTTACCCTTC-AGGGGTATTTCAGTTATTTTAC
1 TCATTTTACCCTTTGAGG-GTATTTCGATCATTTTA-CCTTCGA-GGGTATTTCAGTCATTTTAC
* * *
49420332 CCATCAAGGGTATTTCGG
63 CTATCGAGGGTATTTCAG
* * * * * *
49420350 TCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCTTTGAAGGGTATTTTAGTCATTTTACCC
1 TCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCTTCG-AGGGTATTTCAGTCATTTTA-CC
* *
49420415 TAT-GGGGGTATTTCAA
64 TATCGAGGGTATTTCAG
* * * * *
49420431 TCATTCTACCCTATGAGGGTATTTCAATCATTTTACCCTATAGA-GGTATTTCGGTCATTTTACC
1 TCATTTTACCCTTTGAGGGTATTTCGATCATTTTA-CCT-TCGAGGGTATTTCAGTCATTTTA-C
*
49420495 CTAT-GAGGGTATTTCGG
63 CTATCGAGGGTATTTCAG
* * *
49420512 TCATTATACCCTATGAGGGTATTTCGGTCATTTTACCTT
1 TCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCTT
49420551 ATGGGGGTCT
Statistics
Matches: 295, Mismatches: 53, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
79 5 0.02
80 46 0.16
81 227 0.77
82 15 0.05
83 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCTTCGAGGGTATTTCAGTCATTTTACCTA
TCGAGGGTATTTCAG
Found at i:49420435 original size:54 final size:52
Alignment explanation
Indices: 49420107--49420550 Score: 325
Period size: 54 Copynumber: 8.2 Consensus size: 52
49420097 GGGTATAAAG
* * * * * *
49420107 ATCATTTTACCCTTAGGGGGTATTATGGTAATTTTACCCTTAGGGGTATTTCA
1 ATCATTTTA-CCTTTGAGGGTATTTTAGTCATTTTACCCTTGGGGGTATTTCA
* * * *
49420160 ATAATTTTACCCTTCGAGGGTATTTTAGT-ACTTTTACCCTTTGAGGGTATTTCG
1 ATCATTTTA-CCTTTGAGGGTATTTTAGTCA-TTTTACCC-TTGGGGGTATTTCA
* * * * *
49420214 ATAATTTTACATGTCGAGGGTATTTTGGTCATTTTACCTTTCGGGGGTATTTCA
1 ATCATTTTACCT-TTGAGGGTATTTTAGTCATTTTACCCTT-GGGGGTATTTCA
* * * *
49420268 ATCATTTTACCCTTCAGGAGTA-TTTCGATCATTTTACCCTTCAGGGGTATTTCA
1 ATCATTTTACCTTTGAGG-GTATTTTAG-TCATTTTACCCTT-GGGGGTATTTCA
* * * ** ** **
49420322 GTTATTTTACCCATCAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTTG
1 ATCATTTTA-CCTTTGAGGGTATTTTAGTCATTTTACCCTT-GGGGGTATTTCA
*
49420376 GTCATTTTACCTTTGAAGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCA
1 ATCATTTTACCTTTG-AGGGTATTTTAGTCATTTTACCCT-TGGGGGTATTTCA
* * * * * * *
49420430 ATCATTCTACCCTATGAGGGTATTTCAATCATTTTACCCTATAGAGGTATTTCG
1 ATCATTTTA-CCTTTGAGGGTATTTTAGTCATTTTACCCT-TGGGGGTATTTCA
* * ** * * *
49420484 GTCATTTTACCCTATGAGGGTATTTCGGTCATTATACCCTATGAGGGTATTTCG
1 ATCATTTTA-CCTTTGAGGGTATTTTAGTCATTTTACCCT-TGGGGGTATTTCA
*
49420538 GTCATTTTACCTT
1 ATCATTTTACCTT
49420551 ATGGGGGTCT
Statistics
Matches: 323, Mismatches: 56, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.00
53 50 0.15
54 256 0.79
55 16 0.05
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (52 bp):
ATCATTTTACCTTTGAGGGTATTTTAGTCATTTTACCCTTGGGGGTATTTCA
Found at i:49420553 original size:27 final size:27
Alignment explanation
Indices: 49420108--49420558 Score: 286
Period size: 27 Copynumber: 16.7 Consensus size: 27
49420098 GGTATAAAGA
*
49420108 TCATTTTACCCTTA-GGGGGTATTAT-GG
1 TCATTTTA-CCTTATGAGGGTATT-TCGG
* **
49420135 TAATTTTACCCTTA-G-GGGTATTTCAA
1 TCATTTTA-CCTTATGAGGGTATTTCGG
* * **
49420161 TAATTTTACCCTT-CGAGGGTATTTTAG
1 TCATTTTA-CCTTATGAGGGTATTTCGG
*
49420188 T-ACTTTTACCCTT-TGAGGGTATTTCGA
1 TCA-TTTTA-CCTTATGAGGGTATTTCGG
* * * *
49420215 TAATTTTACATGT-CGAGGGTATTTTGG
1 TCATTTTACCT-TATGAGGGTATTTCGG
* **
49420242 TCATTTTACCTT-TCGGGGGTATTTCAA
1 TCATTTTACCTTAT-GAGGGTATTTCGG
* * *
49420269 TCATTTTACCCT-TCAGGAGTATTTCGA
1 TCATTTTACCTTATGAGG-GTATTTCGG
*
49420296 TCATTTTACCCTTCA-G-GGGTATTTCAG
1 TCATTTTA-CCTT-ATGAGGGTATTTCGG
* * *
49420323 TTATTTTACC-CATCAAGGGTATTTCGG
1 TCATTTTACCTTAT-GAGGGTATTTCGG
* * *
49420350 TCATTTTACCCTT-CGGGGGTATTTTGG
1 TCATTTTA-CCTTATGAGGGTATTTCGG
**
49420377 TCATTTTACCTT-TGAAGGGTATTTTAG
1 TCATTTTACCTTATG-AGGGTATTTCGG
* * **
49420404 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTTTACCTTATGAGGGTATTTCGG
* * **
49420431 TCATTCTACCCTATGAGGGTATTTCAA
1 TCATTTTACCTTATGAGGGTATTTCGG
*
49420458 TCATTTTACCCTAT-AGAGGTATTTCGG
1 TCATTTTACCTTATGAG-GGTATTTCGG
*
49420485 TCATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCTTATGAGGGTATTTCGG
* *
49420512 TCATTATACCCTATGAGGGTATTTCGG
1 TCATTTTACCTTATGAGGGTATTTCGG
*
49420539 TCATTTTACCTTATGGGGGT
1 TCATTTTACCTTATGAGGGT
49420559 CTCGGTGCAG
Statistics
Matches: 350, Mismatches: 54, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 36 0.10
27 300 0.86
28 12 0.03
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
TCATTTTACCTTATGAGGGTATTTCGG
Found at i:49430856 original size:50 final size:50
Alignment explanation
Indices: 49430751--49430942 Score: 204
Period size: 50 Copynumber: 3.7 Consensus size: 50
49430741 GGAATGAGAC
* ***
49430751 CCCATGTAAGACCATGTCTGGGACATGGCATTGGAATTATTAAGGTTATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGG---CACCGA-G--ATGAGAGGT
49430807 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
** * * * **
49430857 CCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
* * *
49430907 CCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
49430943 GTACAAGAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 81 0.69
52 1 0.01
53 2 0.02
56 34 0.29
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
Found at i:49454811 original size:22 final size:21
Alignment explanation
Indices: 49454778--49454822 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
49454768 AAAAAAAAAA
49454778 AACAGAAAAAATAAATAAAGC
1 AACAGAAAAAATAAATAAAGC
* *
49454799 AACATAAATAAATAATTAAAGC
1 AACAGAAA-AAATAAATAAAGC
49454821 AA
1 AA
49454823 AACTTGTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.16
Consensus pattern (21 bp):
AACAGAAAAAATAAATAAAGC
Found at i:49455648 original size:46 final size:46
Alignment explanation
Indices: 49455598--49455701 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
49455588 TTTAATGGAA
* *
49455598 TAATAGAGAATTAATTATT-GTGTTAAATAATTATATGAGATTGCTT
1 TAATAGAGAATTAATTATTAG-ATTAAATAATTATATAAGATTGCTT
* * *
49455644 TAATAGAGAATTAGTTATTAGATTAAATAATTATATAAGCTTGTTT
1 TAATAGAGAATTAATTATTAGATTAAATAATTATATAAGATTGCTT
*
49455690 TAATTGA-AATTA
1 TAATAGAGAATTA
49455702 CAATTGATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 5 0.10
46 45 0.88
47 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.43
Consensus pattern (46 bp):
TAATAGAGAATTAATTATTAGATTAAATAATTATATAAGATTGCTT
Found at i:49456439 original size:18 final size:18
Alignment explanation
Indices: 49456412--49456446 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49456402 TAAACAAGTG
*
49456412 AGGTAACTTTTGAATTAC
1 AGGTAACTTTTCAATTAC
*
49456430 AGGTATCTTTTCAATTA
1 AGGTAACTTTTCAATTA
49456447 TAACTATCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (18 bp):
AGGTAACTTTTCAATTAC
Found at i:49458788 original size:6 final size:6
Alignment explanation
Indices: 49458748--49458784 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
49458738 TCTAATAAAT
49458748 TATTAA TATTAA TATTAA TATTAA TATTAA TA-TAA TA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TA
49458785 ATAAAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TATTAA
Found at i:49468084 original size:66 final size:66
Alignment explanation
Indices: 49468014--49468221 Score: 169
Period size: 66 Copynumber: 3.2 Consensus size: 66
49468004 ATTTGAGTAA
49468014 GCTGATTTAAGGTCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATTATTAAGGTT
1 GCTGATTTAAGGTCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATTATTAAGGTT
49468079 C
66 C
** * ** ** * * * *
49468080 GCTGATTTAA--TATCACAACCTA-ATTTCATTTGAATTAAGATCATGAACAATT--T-TTATT-
1 GCTGATTTAAGGTCGCACTACAAACAACTC-GTTGATTTAAGGTC--G--CAGTTGATATTATTA
* **
49468138 TGAGTAA
61 AG-GTTC
*
49468145 GCTGATTTAAGGTCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATCATTAAGGTT
1 GCTGATTTAAGGTCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATTATTAAGGTT
49468210 C
66 C
*
49468211 ACTGATTTAAG
1 GCTGATTTAAG
49468222 ATCACAACCT
Statistics
Matches: 99, Mismatches: 30, Indels: 26
0.64 0.19 0.17
Matches are distributed among these distances:
63 7 0.07
64 19 0.19
65 19 0.19
66 28 0.28
67 19 0.19
68 7 0.07
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (66 bp):
GCTGATTTAAGGTCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATTATTAAGGTT
C
Found at i:49468187 original size:131 final size:130
Alignment explanation
Indices: 49467953--49468419 Score: 613
Period size: 131 Copynumber: 3.6 Consensus size: 130
49467943 CTATCATTCA
* * * *
49467953 ATTTATGATCGCAACCTAATTTCATTTGAATTAAGATCATGAACAATTTTTATTTGAGTAAGCTG
1 ATTTAAGATCACAACCTAAGTTCA-TTGAATTAAGATCATGAACAATTTTTATTTGAGTAAGCTA
*
49468018 ATTTAAGGTCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATTATTAAGGTTCGCT
65 ATTTAAGATCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATTATTAAGGTTCGCT
49468083 G
130 G
* * *
49468084 ATTTAATATCACAACCTAATTTCATTTGAATTAAGATCATGAACAATTTTTATTTGAGTAAGCTG
1 ATTTAAGATCACAACCTAAGTTCA-TTGAATTAAGATCATGAACAATTTTTATTTGAGTAAGCTA
* * *
49468149 ATTTAAGGTCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATCATTAAGGTTCACT
65 ATTTAAGATCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATTATTAAGGTTCGCT
49468214 G
130 G
* * *
49468215 ATTTAAGATCACAACCTAAGTTCATTCAATTTAAGATCATGAA-AAATTTTATTTGAGTTAGCTA
1 ATTTAAGATCACAACCTAAGTTCATTGAA-TTAAGATCATGAACAATTTTTATTTGAGTAAGCTA
* * * * * * ** **
49468279 ATTTATGATCGCAACTCCGAACAGCTCACTT-TTTTAAAATCATAGTTGATATTATTAAGGTTCG
65 ATTTAAGATCGC-ACTACAAACAACTC-GTTGATTTAAGGTCGCAGTTGATATTATTAAGGTTCG
49468343 CTG
128 CTG
*
49468346 ATTTAAGATCACAACCTAAGTTC---G-ATATAAGATCATGAACAATTTTTATTTGAGTTAGCTA
1 ATTTAAGATCACAACCTAAGTTCATTGAAT-TAAGATCATGAACAATTTTTATTTGAGTAAGCTA
49468407 ATTTAAGATCGCA
65 ATTTAAGATCGCA
49468420 ACTCTGAAAA
Statistics
Matches: 304, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
126 1 0.00
127 14 0.05
128 31 0.10
130 32 0.11
131 224 0.74
132 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (130 bp):
ATTTAAGATCACAACCTAAGTTCATTGAATTAAGATCATGAACAATTTTTATTTGAGTAAGCTAA
TTTAAGATCGCACTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATTATTAAGGTTCGCTG
Found at i:49468686 original size:132 final size:132
Alignment explanation
Indices: 49468438--49469178 Score: 769
Period size: 132 Copynumber: 5.6 Consensus size: 132
49468428 AAGCTTGCTT
** * * * *
49468438 ATTTAAGATTGCAACTTAAATTCATTGGATTTAAGATCATGAACAATTTTCATTTGAGTTA-CTT
1 ATTTAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC-T
* ** * *
49468502 GATTTAATA-T-CATAGCTCAAAACAACTCGTTGATTTAAAATCGCAGCTGATATTATTAAAGTT
65 GATTTAAGATTGCA-A-CTCTGAACAACTCGTTGATTTAAGATCGCAGATGATATTATTAAAGTT
49468565 CGCTG
128 CGCTG
* * *
49468570 ATTTAAGATCATAACCTAAGTTCATTCGATTTAAGATCATTAACAATTTTTATTTGAGTTAGTTG
1 ATTTAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * * *
49468635 ATTTCATATTGCAACTCTGAACAGCTCATTGATTTAAGATCGTAGAAGATATTATT-AAGCTTCA
66 ATTTAAGATTGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGATGATATTATTAAAG-TTCG
*
49468699 CTT
130 CTG
** *
49468702 ATTTAAGATCACAACCTAAGTTCATTTTATTTAAGATCATGAACAATTTTTATTTTAGTTAGCTG
1 ATTTAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * * * *
49468767 ATTTAAGATTGCAACTATGGATAGCTCGTTGATTTAAGATTGCAGTTGATATTATTAATGTTCAC
66 ATTTAAGATTGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGATGATATTATTAAAGTTCGC
49468832 TG
131 TG
* * * * * * *
49468834 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATTATTAATAATTTTTATTTGTGCTACCTG
1 ATTTAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * *
49468899 ATTTAAAATTGTAACTCTGAATAACTCATTGATTTAAGATCTCA-ACTGATATTATTAAGGTAT-
66 ATTTAAGATTGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGA-TGATATTATTAAAGT-TC
*
49468962 GCTA
129 GCTG
* * * *
49468966 ATTTAAGATCGCAACCTAAGTTAATTC-ACTTTAAAATCAAGAACAATTTTTATTTGAGTTAGCT
1 ATTTAAGATCACAACCTAAGTTCATTCGA-TTTAAGATCATGAACAATTTTTATTTGAGTTAGCT
* * * * * *
49469030 GATTTAAGATCGCAACTCCGAACAACTCGCTGATTTAAGATCACA-ACTGATATTATTTAGGTTC
65 GATTTAAGATTGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGA-TGATATTATTAAAGTTC
*
49469094 GTTG
129 GCTG
** * * * *
49469098 ATTTATTATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATTTTATTTGAGTTAGTTA
1 ATTTAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
*
49469163 ATTTAAGATCGCAACT
66 ATTTAAGATTGCAACT
49469179 GATATTATTA
Statistics
Matches: 510, Mismatches: 89, Indels: 20
0.82 0.14 0.03
Matches are distributed among these distances:
131 5 0.01
132 497 0.97
133 6 0.01
134 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (132 bp):
ATTTAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
ATTTAAGATTGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGATGATATTATTAAAGTTCGC
TG
Found at i:49468771 original size:65 final size:65
Alignment explanation
Indices: 49468554--49469177 Score: 219
Period size: 65 Copynumber: 9.5 Consensus size: 65
49468544 GCAGCTGATA
* * * * *
49468554 TTATTAAAGTTCGCTGATTTAAGATCATAACCTAAGTTCATTCGATTTAAGATCATTAACAATTT
1 TTATTTAAGTTAGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTAAGATCATGAACAATTT
* * * * ** * *
49468619 TTATTTGAGTTAGTTGATTTCATATTGCAACTCTGAACAGCTCA-TTGATTTAAGATCGTAGAA-
1 TTATTTAAGTTAGCTGATTTAAGATCACAAC-CT--A-AGTTCATTTGATTTAAGATCAT-GAAC
* *
49468682 GA-TA
61 AATTT
* *
49468686 TTA-TTAAGCTTCA-CTTATTTAAGATCACAACCTAAGTTCATTTTATTTAAGATCATGAACAAT
1 TTATTTAAG-TT-AGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTAAGATCATGAACAAT
49468749 TT
64 TT
* ** * * *
49468751 TTATTTTAGTTAGCTGATTTAAGATTGCAACTATGGATAGCTC-GTTGATTTAAGAT--TG--CA
1 TTATTTAAGTTAGCTGATTTAAGATCACAAC-CT--A-AGTTCATTTGATTTAAGATCATGAACA
*
49468811 GTTGAT
62 ATT--T
* * * * *
49468817 ATTA-TTAATGTTCA-CTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATTATTAATAA
1 -TTATTTAA-GTT-AGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTAAGATCATGAACAA
49468880 TTT
63 TTT
** * * * *** *
49468883 TTATTTGTGCTACCTGATTTAAAATTGTAACTCTGAA-TAACTCA-TTGATTTAAGATC-TCAAC
1 TTATTTAAGTTAGCTGATTTAAGATCACAAC-CT-AAGT---TCATTTGATTTAAGATCATGAAC
* *
49468945 TGA-TA
61 -AATTT
* * * * * * *
49468950 TTA-TTAAGGTATGCTAATTTAAGATCGCAACCTAAGTT-AATTCACTTTAAAATCAAGAACAAT
1 TTATTTAAGTTA-GCTGATTTAAGATCACAACCTAAGTTCATTTGA-TTTAAGATCATGAACAAT
49469013 TT
64 TT
* * * ** ** *
49469015 TTATTTGAGTTAGCTGATTTAAGATCGCAACTCCGAACAACTC-GCTGATTTAAGATCA-CAACT
1 TTATTTAAGTTAGCTGATTTAAGATCACAA--CC-TA-AGTTCATTTGATTTAAGATCATGAAC-
* *
49469078 GA-TA
61 AATTT
* * * ** ** *
49469082 TTATTTAGGTTCGTTGATTTATTATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATT
1 TTATTTAAGTTAGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTAAGATCATGAACAATTT
* * * *
49469147 TTATTTGAGTTAGTTAATTTAAGATCGCAAC
1 TTATTTAAGTTAGCTGATTTAAGATCACAAC
49469178 TGATATTATT
Statistics
Matches: 401, Mismatches: 108, Indels: 100
0.66 0.18 0.16
Matches are distributed among these distances:
62 1 0.00
63 19 0.05
64 55 0.14
65 119 0.30
66 41 0.10
67 93 0.23
68 55 0.14
69 18 0.04
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (65 bp):
TTATTTAAGTTAGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTAAGATCATGAACAATTT
Found at i:49469170 original size:396 final size:395
Alignment explanation
Indices: 49468438--49469178 Score: 941
Period size: 396 Copynumber: 1.9 Consensus size: 395
49468428 AAGCTTGCTT
* * * * *
49468438 ATTTAAGATTGCAACTTAAATTCATTGGATTTAAGATCATGAACAATTTTCATTTGAGTTACTTG
1 ATTTAAGATCGCAACCTAAATTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGCTACCTG
* * * *
49468503 ATTTAATATCATAGCTCAAAACAACTCGTTGATTTAAAATCGCAGCTGATATTATTAAAGTTCGC
66 ATTTAAAATCATAACTCAAAACAACTCATTGATTTAAAATCGCAACTGATATTATTAAAGTTCGC
* * * * ** *
49468568 TGATTTAAGATCATAACCTAAGTTCATTCGATTTAAGATCATTAACAATTTTTATTTGAGTTAGT
131 TAATTTAAGATCACAACCTAAGTTAATTCGATTTAAAATCAAGAACAATTTTTATTTGAGTTAGC
* * * * * * *
49468633 TGATTTCATATTGCAACTCTGAACAGCTCATTGATTTAAGATCGTAGAAGATATTATTAAGCTTC
196 TGATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCG-ACAAGATATTATTAAGCTTC
** * *
49468698 ACTTATTTAAGATCACAACCTAAGTTCATTTTATTTAAGATCATGAACAATTTTTATTTTAGTTA
260 ACTTATTTAAGATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATTTTATTTGAGTTA
* *
49468763 GCTGATTTAAGATTGCAACTATGGATAGCTCGTTGATTTAAGATTGCAGTTGATATTATTAATGT
325 GCTAATTTAAGATCGCAACTATGGATAGCTCGTTGATTTAAGATTGCAGTTGATATTATTAATGT
49468828 TCACTG
390 TCACTG
* * * * * *
49468834 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATTATTAATAATTTTTATTTGTGCTACCTG
1 ATTTAAGATCGCAACCTAAATTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGCTACCTG
** ** * * * *
49468899 ATTTAAAATTGTAACTCTGAATAACTCATTGATTTAAGATCTCAACTGATATTATTAAGGTAT-G
66 ATTTAAAATCATAACTCAAAACAACTCATTGATTTAAAATCGCAACTGATATTATTAAAGT-TCG
*
49468963 CTAATTTAAGATCGCAACCTAAGTTAATTC-ACTTTAAAATCAAGAACAATTTTTATTTGAGTTA
130 CTAATTTAAGATCACAACCTAAGTTAATTCGA-TTTAAAATCAAGAACAATTTTTATTTGAGTTA
* * *
49469027 GCTGATTTAAGATCGCAACTCCGAACAACTCGCTGATTTAAGATC-ACAACTGATATTATTTAGG
194 GCTGATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGACAA--GATATTATTAAGC
* **
49469091 TTC-GTTGATTTATTATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATTTTATTTGA
257 TTCACTT-ATTTAAGATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATTTTATTTGA
*
49469155 GTTAGTTAATTTAAGATCGCAACT
321 GTTAGCTAATTTAAGATCGCAACT
49469179 GATATTATTA
Statistics
Matches: 289, Mismatches: 51, Indels: 10
0.83 0.15 0.03
Matches are distributed among these distances:
394 3 0.01
395 3 0.01
396 282 0.98
397 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (395 bp):
ATTTAAGATCGCAACCTAAATTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGCTACCTG
ATTTAAAATCATAACTCAAAACAACTCATTGATTTAAAATCGCAACTGATATTATTAAAGTTCGC
TAATTTAAGATCACAACCTAAGTTAATTCGATTTAAAATCAAGAACAATTTTTATTTGAGTTAGC
TGATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGACAAGATATTATTAAGCTTCA
CTTATTTAAGATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATTTTATTTGAGTTAG
CTAATTTAAGATCGCAACTATGGATAGCTCGTTGATTTAAGATTGCAGTTGATATTATTAATGTT
CACTG
Found at i:49469243 original size:101 final size:101
Alignment explanation
Indices: 49469062--49469259 Score: 272
Period size: 101 Copynumber: 2.0 Consensus size: 101
49469052 CAACTCGCTG
* * *
49469062 ATTTAAGATCACAACTGATATTATTTAGGTTCGTTGATTTATTATCACAACCTAAGTTCATTCAA
1 ATTTAAGATCACAACTGATATTATTAAGGTTCCTTGATTTAATATCACAACCTAAGTTCATTCAA
*
49469127 TTTAAGATCATGAACAAATTTTATTTGAGTTAGTTA
66 TTTAAGATCACGAACAAATTTTATTTGAGTTAGTTA
* ** **
49469163 ATTTAAGATCGCAACTGATATTATTAAGGTTCACTT-ATTTAATATTGCAACCTAAGTTCATTGG
1 ATTTAAGATCACAACTGATATTATTAAGGTTC-CTTGATTTAATATCACAACCTAAGTTCATTCA
* * *
49469227 ATTTAAGGTTACGAACAATTTTTATTTGAGTTA
65 ATTTAAGATCACGAACAAATTTTATTTGAGTTA
49469260 CCTGATTTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 82 0.98
102 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (101 bp):
ATTTAAGATCACAACTGATATTATTAAGGTTCCTTGATTTAATATCACAACCTAAGTTCATTCAA
TTTAAGATCACGAACAAATTTTATTTGAGTTAGTTA
Found at i:49469245 original size:233 final size:232
Alignment explanation
Indices: 49468927--49469636 Score: 844
Period size: 233 Copynumber: 3.1 Consensus size: 232
49468917 GAATAACTCA
* * * *
49468927 TTGATTTAAGATCTCAACTGATATTATTAAGGTAT-GCTAATTTAAGATCGCAACCTAAGTTAAT
1 TTGATTTAAGATCGCAACTGATATTATTAAGGT-TCACTTATTTAAGATCGCAACCTAAGTTCAT
* * * *
49468991 TCACTTTAAAATCAAGAACAATTTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCCGAACAAC
65 TGA-TTTAAGATCAAGAACAATTTTTATTTGAGTTAGCTGATTTAATATCACAACTCCGAACAAC
* * * * *
49469056 TCGCTGATTTAAGATCACAACTGATATTATTTAGGTTCGTTGATTTATTATCACAACCTAAGTTC
129 TCGCTGATTTAATATCACAACTGATATTATTAAGGTTCGCTGATTTAATATCACAACCTAATTTC
* *
49469121 ATTCAATTTAAGATCATGAACAAATTTTATTTGAGTTAG
194 ATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAG
* * *
49469160 TTAATTTAAGATCGCAACTGATATTATTAAGGTTCACTTATTTAATATTGCAACCTAAGTTCATT
1 TTGATTTAAGATCGCAACTGATATTATTAAGGTTCACTTATTTAAGATCGCAACCTAAGTTCATT
* * * * * * *
49469225 GGATTTAAGGTTACGAACAATTTTTATTTGAGTTACCTGATTTAATATCATAGCTTCGAACAACT
66 -GATTTAAGATCAAGAACAATTTTTATTTGAGTTAGCTGATTTAATATCACAACTCCGAACAACT
* * * * * ** *
49469290 CGCTAATTTAATATTACAGCTAAAATTATTAAGGTTTACTGATTTAAGATCACAACCTAATTTCA
130 CGCTGATTTAATATCACAACTGATATTATTAAGGTTCGCTGATTTAATATCACAACCTAATTTCA
49469355 TTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAG
195 TTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAG
* * ** *
49469393 TTGATTTAAGATAGCAACT-CTGA--A-T-A-CCTCA-TTGATTTAAGATCGCAGCCTAAGTTCA
1 TTGATTTAAGATCGCAACTGAT-ATTATTAAGGTTCACTT-ATTTAAGATCGCAACCTAAGTTCA
* * * *
49469451 TTCGATTTAAGATCATGAACAATTTTCATTTGAGTTAGTTGATTTAATATCACAAC-CTCGAAGA
64 TT-GATTTAAGATCAAGAACAATTTTTATTTGAGTTAGCTGATTTAATATCACAACTC-CGAACA
* * * * *
49469515 ACTCGCTGATTTAATATCGCAATTGATTTTATTAAGGTTCGCTGATCTAATATCGCAACCTAATT
127 ACTCGCTGATTTAATATCACAACTGATATTATTAAGGTTCGCTGATTTAATATCACAACCTAATT
* *
49469580 TCATTCGATTTGAGATCATGAATAATTTTTATTTGAGTTAG
192 TCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAG
*
49469621 CTGATTTAAGATCGCA
1 TTGATTTAAGATCGCA
49469637 TTACAAACAA
Statistics
Matches: 403, Mismatches: 69, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
227 2 0.00
228 181 0.45
229 1 0.00
230 1 0.00
231 1 0.00
232 2 0.00
233 214 0.53
234 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (232 bp):
TTGATTTAAGATCGCAACTGATATTATTAAGGTTCACTTATTTAAGATCGCAACCTAAGTTCATT
GATTTAAGATCAAGAACAATTTTTATTTGAGTTAGCTGATTTAATATCACAACTCCGAACAACTC
GCTGATTTAATATCACAACTGATATTATTAAGGTTCGCTGATTTAATATCACAACCTAATTTCAT
TCGATTTAAGATCATGAACAATTTTTATTTGAGTTAG
Found at i:49469525 original size:96 final size:96
Alignment explanation
Indices: 49469327--49469536 Score: 298
Period size: 96 Copynumber: 2.2 Consensus size: 96
49469317 ATTAAGGTTT
* * *
49469327 ACTGATTTAAGATCACAACCTAATTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTA
1 ACTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGTTA
* *
49469392 GTTGATTTAAGATAGCAACTCTGAATACCTC
66 GTTGATTTAAGATAGCAACTCTGAAGAACTC
* *
49469423 ATTGATTTAAGATCGCAGCCTAAGTTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGTTA
1 ACTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGTTA
*
49469488 GTTGATTTAATATCA-CAAC-CTCGAAGAACTC
66 GTTGATTTAAGAT-AGCAACTCT-GAAGAACTC
* *
49469519 GCTGATTTAATATCGCAA
1 ACTGATTTAAGATCGCAA
49469537 TTGATTTTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
95 2 0.02
96 97 0.97
97 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (96 bp):
ACTGATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGTTA
GTTGATTTAAGATAGCAACTCTGAAGAACTC
Found at i:49469842 original size:132 final size:132
Alignment explanation
Indices: 49469425--49470062 Score: 753
Period size: 132 Copynumber: 4.8 Consensus size: 132
49469415 AATACCTCAT
* * * *
49469425 TGATTTAAGATCGCAGCCTAAGTTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGTTAGT
1 TGATTTAATATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * * ** * *
49469490 TGATTTAATATCACAAC-CTCGAAGAACTCGCTGATTTAATATCGCAATTGATTTTATTAAGGTT
66 TGATTTAAGATCGCAACTC-CAAACAACTCATTGATTTAAGATCGCAATTGATATTATTAAGGTT
49469554 CGC
130 CGC
* * * *
49469557 TGATCTAATATCGCAACCTAATTTCATTCGATTTGAGATCATGAATAATTTTTATTTGAGTTAGC
1 TGATTTAATATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * * *
49469622 TGATTTAAGATCGC-ATTACAAACAACTCGTTGATTTAAGGTCGCAGTTGATATTATTAAGGTTC
66 TGATTTAAGATCGCAACTCCAAACAACTCATTGATTTAAGATCGCAATTGATATTATTAAGGTTC
49469686 GC
131 GC
* * * * *
49469688 TGATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATTTTTATTTGAGTTAGC
1 TGATTTAATATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * * *
49469753 TGATTTAAAATTGCAACTCCAAAGAACTCATTGATTTAAGATCTCAACTGATATTATTAAGGTTC
66 TGATTTAAGATCGCAACTCCAAACAACTCATTGATTTAAGATCGCAATTGATATTATTAAGGTTC
*
49469818 TC
131 GC
* * *
49469820 TGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
1 TGATTTAATATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * ** * * *
49469885 TAATTTAAGATCACAACACTGAACAATTCACTT-ATTTAAGATCACATTTGATATTATTAAGGTT
66 TGATTTAAGATCGCAACTCCAAACAACTCA-TTGATTTAAGATCGCAATTGATATTATTAAGGTT
* *
49469949 TGT
130 CGC
* *
49469952 TGATTTAATATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTTGAG-TAGC
1 TGATTTAATATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * ** **
49470016 TAATTTAAGATCGCAACTCCGAACAGTTCGCTGATTTAAGATCGCAA
66 TGATTTAAGATCGCAACTCCAAACAACTCATTGATTTAAGATCGCAA
49470063 CCTAAGTTAT
Statistics
Matches: 429, Mismatches: 73, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
130 1 0.00
131 151 0.35
132 275 0.64
133 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (132 bp):
TGATTTAATATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
TGATTTAAGATCGCAACTCCAAACAACTCATTGATTTAAGATCGCAATTGATATTATTAAGGTTC
GC
Found at i:49469893 original size:263 final size:264
Alignment explanation
Indices: 49469425--49470063 Score: 809
Period size: 263 Copynumber: 2.4 Consensus size: 264
49469415 AATACCTCAT
* * * * *
49469425 TGATTTAAGATCGCAGCCTAAGTTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGTTAGT
1 TGATTTAATATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * * * * *
49469490 TGATTTAATATCACAAC-CTCGAAGAACTCGCTGATTTAATATCGCAATTGATTTTATTAAGGTT
66 TGATTTAAAATCGCAACTC-CAAAGAACTCACTGATTTAAGATCGCAACTGATATTATTAAGGTT
* * * * * *
49469554 CGCTGATCTAATATCGCAACCTAATTTCATTCGATTTGAGATCATGAATAATTTTTATTTGAGTT
130 CGCTGATCTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGAGTT
* * ** * * *
49469619 AGCTGATTTAAGATCGCATTAC-AAACAACTC-GTTGATTTAAGGTCGCAGTTGATATTATTAAG
195 AGCTAATTTAAGATCACAACACTAAACAACTCACTT-ATTTAAGATCACAGTTGATATTATTAAG
49469682 GTTCGC
259 GTTCGC
* * * *
49469688 TGATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATTTTTATTTGAGTTAGC
1 TGATTTAATATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * *
49469753 TGATTTAAAATTGCAACTCCAAAGAACTCATTGATTTAAGATCTCAACTGATATTATTAAGGTTC
66 TGATTTAAAATCGCAACTCCAAAGAACTCACTGATTTAAGATCGCAACTGATATTATTAAGGTTC
* *
49469818 TCTGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGAGTTA
131 GCTGATCTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGAGTTA
* * *
49469883 GCTAATTTAAGATCACAACACTGAACAATTCACTTATTTAAGATCACATTTGATATTATTAAGGT
196 GCTAATTTAAGATCACAACACTAAACAACTCACTTATTTAAGATCACAGTTGATATTATTAAGGT
* *
49469948 TTGT
261 TCGC
*
49469952 TGATTTAATATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTTGAG-TAGC
1 TGATTTAATATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * * ** *
49470016 TAATTTAAGATCGCAACTCCGAACAGTTCGCTGATTTAAGATCGCAAC
66 TGATTTAAAATCGCAACTCCAAAGAACTCACTGATTTAAGATCGCAAC
49470064 CTAAGTTATT
Statistics
Matches: 319, Mismatches: 54, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
263 225 0.71
264 92 0.29
265 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (264 bp):
TGATTTAATATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
TGATTTAAAATCGCAACTCCAAAGAACTCACTGATTTAAGATCGCAACTGATATTATTAAGGTTC
GCTGATCTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGAGTTA
GCTAATTTAAGATCACAACACTAAACAACTCACTTATTTAAGATCACAGTTGATATTATTAAGGT
TCGC
Found at i:49470050 original size:359 final size:362
Alignment explanation
Indices: 49469682--49470560 Score: 1087
Period size: 359 Copynumber: 2.4 Consensus size: 362
49469672 TATTATTAAG
* * * *
49469682 GTTCGCTGATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATTTTTATTTGA
1 GTTCGCTGATTTAAGATCGCAACCTAAGTTCATT-AATTTAAGATCATGAACTATTTTTATTTGA
* * * * *
49469747 GTTAGCTGATTTAAAATTGCAACTCCAAAGAACTCATTGATTTAAGATCTCAACTGATATTATTA
65 GTTAGCTGATTTAAGATTGTAACTCCGAACAACTCATTGATTTAAGATCGCAACTGATATTATTA
* *
49469812 AGGTTCTCTGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTT
130 AGGTTCGCTGATATAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTT
* **
49469877 GAGTTAGCTAATTTAAGATCACAACACTGAACAATTCACTT-ATTTAAGATCACATTTGATATTA
195 GAGTTAGCTAATTTAAGATCACAACACTGAACAACTC-CTTGATTTAAGATCACAAATGATATTA
* * *
49469941 TTAAGGTTTGTTGATTTAATATC-ACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTT
259 TTAAAGTTTGTTGATTTAAGATCGA-AAACTAAGTTCATTGGATTTAAGATCATGAACAATTTTT
* *
49470005 ATTTGAG-TAGCTA-ATTTAAGATCGCAACT-CCG---AAC
323 ATTTGAGTTAGC-AGATTTAAAATCGCAACTGACGTATAAC
* *
49470040 AGTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTT
1 -GTTCGCTGATTTAAGATCGCAACCTAAGTTCA-TT-AATTTAAGATCATGAACTATTTTTATTT
** * * *
49470104 GAGTTATTTTATTTAAGATCGTAACTCCGAACAACTCACTGATTTAAGATCGCAACTGATATTAT
63 GAGTTAGCTGATTTAAGATTGTAACTCCGAACAACTCATTGATTTAAGATCGCAACTGATATTAT
* * * * * *
49470169 TAAAGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCT
128 TAAGGTTCGCTGATATAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTAT
* * * * * * **
49470234 TTGAGTTAGCTAATTTAAGATCGCAACTCTGAATAGCTCGTTGATTTAAGCTTGCAAATGATATT
193 TTGAGTTAGCTAATTTAAGATCACAACACTGAACAACTCCTTGATTTAAGATCACAAATGATATT
*
49470299 ATTAAAGTTTGTTGATTTAAGATCGAAAACTAAGTTCATTTGATTTAAGATCATGAACAATTTTT
258 ATTAAAGTTTGTTGATTTAAGATCGAAAACTAAGTTCATTGGATTTAAGATCATGAACAATTTTT
*
49470364 ATTTGAGTTAGCAGATTTAAAATCGCAACTGATGTTATTAAC
323 ATTTGAGTTAGCAGATTTAAAATCGCAACTGACG-TA-TAAC
** * *
49470406 GTTTACTGATTTAAGATTGCAACCTAAGTTCATTAGATTTAAAATCATGAA-TAATTTTTATTTG
1 GTTCGCTGATTTAAGATCGCAACCTAAGTTCATTA-ATTTAAGATCATGAACT-ATTTTTATTTG
* * * * *
49470470 TGTTAGCTGATTTAAGATTGTAACCCCGAACAACTC-TCTAATTTAAGATCGCAACTAATATTGT
64 AGTTAGCTGATTTAAGATTGTAACTCCGAACAACTCAT-TGATTTAAGATCGCAACTGATATTAT
* * *
49470534 TAAGGTCCGCTGATATAAGATCACAAC
128 TAAGGTTCGCTGATATAAAATCGCAAC
49470561 CTAACTCTAA
Statistics
Matches: 443, Mismatches: 62, Indels: 24
0.84 0.12 0.05
Matches are distributed among these distances:
358 3 0.01
359 284 0.64
360 20 0.05
361 1 0.00
365 131 0.30
366 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (362 bp):
GTTCGCTGATTTAAGATCGCAACCTAAGTTCATTAATTTAAGATCATGAACTATTTTTATTTGAG
TTAGCTGATTTAAGATTGTAACTCCGAACAACTCATTGATTTAAGATCGCAACTGATATTATTAA
GGTTCGCTGATATAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTG
AGTTAGCTAATTTAAGATCACAACACTGAACAACTCCTTGATTTAAGATCACAAATGATATTATT
AAAGTTTGTTGATTTAAGATCGAAAACTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATT
TGAGTTAGCAGATTTAAAATCGCAACTGACGTATAAC
Found at i:49470066 original size:95 final size:96
Alignment explanation
Indices: 49469952--49470159 Score: 312
Period size: 95 Copynumber: 2.2 Consensus size: 96
49469942 TAAGGTTTGT
* *
49469952 TGATTTAATATCACAACCTAAGTTCA-TTGGATTTAAGATCATGAACAATTTTTATTTGAG-TAG
1 TGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTTGAGTTAG
** *
49470015 CTAATTTAAGATCGCAACTCCGAACAGTTCGC
65 CTAATTTAAGATCGCAACTCCGAACAACTCAC
**
49470047 TGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGAGTTATT
1 TGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* *
49470112 TTATTTAAGATCGTAACTCCGAACAACTCAC
66 TAATTTAAGATCGCAACTCCGAACAACTCAC
49470143 TGATTTAAGATCGCAAC
1 TGATTTAAGATCGCAAC
49470160 TGATATTATT
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
94 1 0.01
95 56 0.55
96 45 0.44
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (96 bp):
TGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
TAATTTAAGATCGCAACTCCGAACAACTCAC
Found at i:49470151 original size:227 final size:228
Alignment explanation
Indices: 49469814--49470283 Score: 647
Period size: 227 Copynumber: 2.1 Consensus size: 228
49469804 TATTATTAAG
* *
49469814 GTTCTCTGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGA
1 GTTCGCTGATTTAAGATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGA
* * * **
49469879 GTTAGCTAATTTAAGATCACAACACTGAACAATTCACTTATTTAAGATCACATTTGATATTATTA
66 GTTAGCTAATTTAAGATCACAACACCGAACAACTCACTGATTTAAGATCACAACTGATATTATTA
* * * * * *
49469944 AGGTTTGTTGATTTAATATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTT
131 AAGTTCGCTGATATAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTT
49470009 GAG-TAGCTAATTTAAGATCGCAACTCCGAACA
196 GAGTTAGCTAATTTAAGATCGCAACTCCGAACA
* **
49470041 GTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTTG
1 GTTCGCTGATTTAAGATCGCAACATAAGTTCA-TTCAATTTAAGATCATGAACAATTTTTATTTG
** * ** * *
49470105 AGTTATTTTATTTAAGATCGTAACTCCGAACAACTCACTGATTTAAGATCGCAACTGATATTATT
65 AGTTAGCTAATTTAAGATCACAACACCGAACAACTCACTGATTTAAGATCACAACTGATATTATT
* * *
49470170 AAAGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTT
130 AAAGTTCGCTGATATAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATT
* *
49470235 TGAGTTAGCTAATTTAAGATCGCAACTCTGAATA
195 TGAGTTAGCTAATTTAAGATCGCAACTCCGAACA
* *
49470269 GCTCGTTGATTTAAG
1 GTTCGCTGATTTAAG
49470284 CTTGCAAATG
Statistics
Matches: 211, Mismatches: 30, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
226 1 0.00
227 170 0.81
228 40 0.19
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (228 bp):
GTTCGCTGATTTAAGATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGA
GTTAGCTAATTTAAGATCACAACACCGAACAACTCACTGATTTAAGATCACAACTGATATTATTA
AAGTTCGCTGATATAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTT
GAGTTAGCTAATTTAAGATCGCAACTCCGAACA
Found at i:49470188 original size:132 final size:132
Alignment explanation
Indices: 49470040--49470393 Score: 487
Period size: 132 Copynumber: 2.7 Consensus size: 132
49470030 AACTCCGAAC
49470040 AGTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTT
1 AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTT-GATTTAAGATCATGAACAATTTTTATTT
** * * *
49470104 GAGTTATTTTATTTAAGATCGTAACTCCGAACAACTCACTGATTTAAGATCGCAACTGATATTAT
65 GAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGCAAATGATATTAT
49470169 TAA
130 TAA
* * * *
49470172 AGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTTTG
1 AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
* * * ** * *
49470237 AGTTAGCTAATTTAAGATCGCAACTCTGAATAGCTCGTTGATTTAAGCTTGCAAATGATATTATT
66 AGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGCAAATGATATTATT
49470302 AA
131 AA
* * * *
49470304 AGTTTGTTGATTTAAGATCGAAAACTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
1 AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
*
49470369 AGTTAGC-AGATTTAAAATCGCAACT
66 AGTTAGCTA-ATTTAAGATCGCAACT
49470394 GATGTTATTA
Statistics
Matches: 195, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.01
132 191 0.98
133 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (132 bp):
AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
AGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGCAAATGATATTATT
AA
Found at i:49470259 original size:65 final size:64
Alignment explanation
Indices: 49470040--49470392 Score: 191
Period size: 65 Copynumber: 5.4 Consensus size: 64
49470030 AACTCCGAAC
* * *
49470040 AGTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTT
1 AGTTAGCTAATTTAAGATCGCAACCTATGTTCA-TT-GATTTAAGATCATGAACAATTTTTATTT
49470104 G
64 G
** * * * *** * * *
49470105 AGTTATTTTATTTAAGATCGTAACTCCGAACAACTCACTGATTTAAGATC--GCAACTGA-TATT
1 AGTTAGCTAATTTAAGATCGCAA--CC-TA-TGTTCATTGATTTAAGATCATG-AAC-AATTTTT
**
49470167 ATTAA
60 ATTTG
* * * *
49470172 AGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTTTG
1 AGTTAGCTAATTTAAGATCGCAACCTATGTTCATT-GATTTAAGATCATGAACAATTTTTATTTG
* * * * *
49470237 AGTTAGCTAATTTAAGATCGCAACTCTGAATAGCTCGTTGATTTAAG--CTTGCA-AATGATATT
1 AGTTAGCTAATTTAAGATCGCAAC-CT--AT-GTTCATTGATTTAAGATCATGAACAAT--TTTT
**
49470299 ATTAA
60 ATTTG
* * * * * *
49470304 AGTTTGTTGATTTAAGATCGAAAACTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
1 AGTTAGCTAATTTAAGATCGCAACCTATGTTCA-TTGATTTAAGATCATGAACAATTTTTATTTG
*
49470369 AGTTAGC-AGATTTAAAATCGCAAC
1 AGTTAGCTA-ATTTAAGATCGCAAC
49470393 TGATGTTATT
Statistics
Matches: 207, Mismatches: 59, Indels: 44
0.67 0.19 0.14
Matches are distributed among these distances:
63 7 0.03
64 24 0.12
65 75 0.36
66 14 0.07
67 55 0.27
68 23 0.11
69 8 0.04
70 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (64 bp):
AGTTAGCTAATTTAAGATCGCAACCTATGTTCATTGATTTAAGATCATGAACAATTTTTATTTG
Found at i:49470347 original size:227 final size:222
Alignment explanation
Indices: 49469887--49470524 Score: 568
Period size: 233 Copynumber: 2.8 Consensus size: 222
49469877 GAGTTAGCTA
* * * * * ** * *
49469887 ATTTAAGATCACAACACTGAACAATTCACTTATTTAAGATCACATTTGATATTATTAAGGTTTGT
1 ATTTAAGATCATAACTCTGAACAACTCACTGATTTAAGATCGCAACTGATATTATTAAAGTTTGC
* * *
49469952 TGATTTAATATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTTGAG-TAGC
66 TGATTTAAGATCGCAACCTAAGTTCATTAGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * *
49470016 TAATTTAAGATCGCAACTCCGAACAGTTCGCTGATTTAAGATCGCAACCTAAGTTATTTGGATTT
131 TAATTTAAGATCGCAACTCCGAACAGCTCGCTGATTTAAGATCGCAACATAAATTATTTGGATTT
* *
49470081 AAGATCATGAACAATTTTTATTTGAGTTATTTT
196 AAGATCA-GAACAA--TCTA--T-AGTTATTTG
* * *
49470114 ATTTAAGATCGTAACTCCGAACAACTCACTGATTTAAGATCGCAACTGATATTATTAAAGTTCGC
1 ATTTAAGATCATAACTCTGAACAACTCACTGATTTAAGATCGCAACTGATATTATTAAAGTTTGC
* * * *
49470179 TGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTTTGAGTTAGC
66 TGATTTAAGATCGCAACCTAAGTTCATTAGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * * *
49470244 TAATTTAAGATCGCAACTCTGAATAGCTCGTTGATTTAAGCTTGCAA-ATGATATTATTAAAGTT
131 TAATTTAAGATCGCAACTCCGAACAGCTCGCTGATTTAAGATCGCAACAT-A-A--ATT--A-TT
49470308 TGTTGATTTAAGATC-GAA-AA-CTA-AGTTCATTTG
189 TG--GATTTAAGATCAGAACAATCTATAGTT-ATTTG
* * *** * * * * * *
49470341 ATTTAAGATCATGAACAATTTTTATTTGAGTTAGCAGATTTAAAATCGCAACTGATGTTATTAAC
1 ATTTAAGATCAT-AAC---TCTGA-ACAACTCA-CTGATTTAAGATCGCAACTGATATTATTAAA
* * * * *
49470406 GTTTACTGATTTAAGATTGCAACCTAAGTTCATTAGATTTAAAATCATGAATAATTTTTATTTGT
60 GTTTGCTGATTTAAGATCGCAACCTAAGTTCATTAGATTTAAGATCATGAACAATTTTTATTTGA
* * * * * * *
49470471 GTTAGCTGATTTAAGATTGTAACCCCGAACAACTCTCTAATTTAAGATCGCAAC
125 GTTAGCTAATTTAAGATCGCAACTCCGAACAGCTCGCTGATTTAAGATCGCAAC
49470525 TAATATTGTT
Statistics
Matches: 330, Mismatches: 63, Indels: 29
0.78 0.15 0.07
Matches are distributed among these distances:
226 4 0.01
227 123 0.37
228 49 0.15
229 1 0.00
230 2 0.01
231 4 0.01
232 3 0.01
233 126 0.38
234 7 0.02
236 11 0.03
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (222 bp):
ATTTAAGATCATAACTCTGAACAACTCACTGATTTAAGATCGCAACTGATATTATTAAAGTTTGC
TGATTTAAGATCGCAACCTAAGTTCATTAGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC
TAATTTAAGATCGCAACTCCGAACAGCTCGCTGATTTAAGATCGCAACATAAATTATTTGGATTT
AAGATCAGAACAATCTATAGTTATTTG
Found at i:49470418 original size:101 final size:101
Alignment explanation
Indices: 49470287--49470484 Score: 279
Period size: 101 Copynumber: 2.0 Consensus size: 101
49470277 ATTTAAGCTT
** * *
49470287 GCAAATGATATTATTAAAGTTTGTTGATTTAAGATCGAAAACTAAGTTCATTTGATTTAAGATCA
1 GCAAATGATATTATTAAAGTTTACTGATTTAAGATCGAAAACTAAGTTCATTAGATTTAAAATCA
49470352 TGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
66 TGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
* * * * * *
49470388 GCAACTGATGTTATTAACGTTTACTGATTTAAGATTGCAACCTAAGTTCATTAGATTTAAAATCA
1 GCAAATGATATTATTAAAGTTTACTGATTTAAGATCGAAAACTAAGTTCATTAGATTTAAAATCA
* * *
49470453 TGAATAATTTTTATTTGTGTTAGCTGATTTAA
66 TGAACAATTTTTATTTGAGTTAGCAGATTTAA
49470485 GATTGTAACC
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (101 bp):
GCAAATGATATTATTAAAGTTTACTGATTTAAGATCGAAAACTAAGTTCATTAGATTTAAAATCA
TGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
Found at i:49482312 original size:26 final size:26
Alignment explanation
Indices: 49482283--49482338 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
49482273 ATTATTTTCA
* *
49482283 AAATTA-TAAAAGTTATTAAAAAATAT
1 AAATTATTAAAAATT-TCAAAAAATAT
49482309 AAATTATTAAAAATTTCAAAAAATAT
1 AAATTATTAAAAATTTCAAAAAATAT
49482335 AAAT
1 AAAT
49482339 AATTCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
AAATTATTAAAAATTTCAAAAAATAT
Found at i:49485730 original size:18 final size:18
Alignment explanation
Indices: 49485695--49485731 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49485685 ATTCAGTGGA
*
49485695 ATAAAAGCATGGTTAGTG
1 ATAAAAGCATGGTGAGTG
*
49485713 ATAAAAGCATTGTGAGTG
1 ATAAAAGCATGGTGAGTG
49485731 A
1 A
49485732 AACAGTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (18 bp):
ATAAAAGCATGGTGAGTG
Found at i:49488726 original size:131 final size:131
Alignment explanation
Indices: 49488492--49488754 Score: 490
Period size: 131 Copynumber: 2.0 Consensus size: 131
49488482 TATCTTAGTG
*
49488492 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGTTAAAATATCAAAAATTTTCA
1 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGCTAAAATATCAAAAATTTTCA
*
49488557 GAAAAGGGGCATATTTGACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
66 GAAAAGGGGCATATTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
49488622 C
131 C
49488623 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGCTAAAATATCAAAAATTTTCA
1 TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGCTAAAATATCAAAAATTTTCA
* *
49488688 GAAAAGGGGCATATTTCACGTTAATCGAGAAAGAGAATTATGTCCCGTAAGTTAGGTCACTATGT
66 GAAAAGGGGCATATTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
49488753 C
131 C
49488754 T
1 T
49488755 TAAACCCCGA
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (131 bp):
TCAAAAATTGAAAGCTTTGAAGAGATTTAAAATACGATCATTTGCTAAAATATCAAAAATTTTCA
GAAAAGGGGCATATTTCACGTTAATCGAGAAAGAGAATTATGTCCCATAAGTTAGGTCACAATGT
C
Found at i:49489379 original size:17 final size:17
Alignment explanation
Indices: 49489353--49489390 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
49489343 GTAGTAAAAT
*
49489353 TAAAATAAAA-AATACAA
1 TAAAAGAAAATAATA-AA
49489370 TAAAAGAAAATAATAAA
1 TAAAAGAAAATAATAAA
49489387 TAAA
1 TAAA
49489391 TAAATGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
TAAAAGAAAATAATAAA
Found at i:49489380 original size:22 final size:21
Alignment explanation
Indices: 49489354--49489394 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
49489344 TAGTAAAATT
49489354 AAAATAAAAAATACAATAAAAG
1 AAAATAAAAAATA-AATAAAAG
*
49489376 AAAATAATAAATAAATAAA
1 AAAATAAAAAATAAATAAA
49489395 TGTGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAATAAAAAATAAATAAAAG
Found at i:49491529 original size:18 final size:17
Alignment explanation
Indices: 49491498--49491555 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
49491488 CTCGTTTCTC
*
49491498 CAAAGTTTTAAAGTTTAT
1 CAAAATTTTAAAGTTT-T
* *
49491516 CTAAATTTTCAAGTTTT
1 CAAAATTTTAAAGTTTT
49491533 CAAAA-TTT-AAGTTTT
1 CAAAATTTTAAAGTTTT
49491548 -AAAATTTT
1 CAAAATTTT
49491556 TATTACAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 4 0.11
15 10 0.29
16 3 0.09
17 5 0.14
18 13 0.37
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (17 bp):
CAAAATTTTAAAGTTTT
Found at i:49491553 original size:14 final size:15
Alignment explanation
Indices: 49491526--49491554 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49491516 CTAAATTTTC
49491526 AAGTTTTCAAAATTT
1 AAGTTTTCAAAATTT
49491541 AAGTTTT-AAAATTT
1 AAGTTTTCAAAATTT
49491555 TTATTACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (15 bp):
AAGTTTTCAAAATTT
Found at i:49494901 original size:15 final size:15
Alignment explanation
Indices: 49494881--49494911 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49494871 ACATCTACCG
*
49494881 AAATAGATGAATTAC
1 AAATAGACGAATTAC
49494896 AAATAGACGAATTAC
1 AAATAGACGAATTAC
49494911 A
1 A
49494912 TACAACATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:49496096 original size:24 final size:25
Alignment explanation
Indices: 49496050--49496101 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
49496040 ACAAATGAAC
* *
49496050 AAAGAAATGGAAGAATTTTTTAA-A
1 AAAGAAATGCAAGAATTTCTTAATA
49496074 AAAGAAATGCAAGACA-TTCTTAATA
1 AAAGAAATGCAAGA-ATTTCTTAATA
49496099 AAA
1 AAA
49496102 ATTTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.56, C:0.06, G:0.13, T:0.25
Consensus pattern (25 bp):
AAAGAAATGCAAGAATTTCTTAATA
Done.