Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 146 of 170
Found at i:43861687 original size:11 final size:12
Alignment explanation
Indices: 43861659--43861691 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
43861649 AAATTAGAAC
43861659 TATATTTATAAAA
1 TATATTT-TAAAA
43861672 TATATTTTAAAA
1 TATATTTTAAAA
43861684 -ATATTTTA
1 TATATTTTA
43861692 TCAAGTCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 5 0.25
13 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTTTAAAA
Found at i:43862299 original size:30 final size:32
Alignment explanation
Indices: 43862265--43862325 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
43862255 ATAAGAATGG
* *
43862265 TTAAATTTCA-ATTTAATCTCTATAT-TTTTC
1 TTAAATTTCAGATTTAACCTATATATATTTTC
*
43862295 TTAAATTTGAGATTTAACCTATATATATTTT
1 TTAAATTTCAGATTTAACCTATATATATTTT
43862326 AATTTTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 9 0.35
31 13 0.50
32 4 0.15
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (32 bp):
TTAAATTTCAGATTTAACCTATATATATTTTC
Found at i:43862327 original size:29 final size:30
Alignment explanation
Indices: 43862265--43862333 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
43862255 ATAAGAATGG
* *
43862265 TTAAATTTCAATTTAATCTCTATATTTTTC
1 TTAAATTTGAATTTAATCTCTATATTATTC
43862295 TTAAATTTGAGATTTAA-C-CTATATATATT-
1 TTAAATTTGA-ATTTAATCTCTATAT-TATTC
*
43862324 TTAATTTTGA
1 TTAAATTTGA
43862334 CATAATTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 15 0.44
30 13 0.38
31 6 0.18
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (30 bp):
TTAAATTTGAATTTAATCTCTATATTATTC
Found at i:43865502 original size:15 final size:14
Alignment explanation
Indices: 43865453--43865501 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
43865443 CAGCAAAAGT
43865453 AGAAAAGAAAGAA-A
1 AGAAAAG-AAGAAGA
* *
43865467 AGAAAATAAGAGGA
1 AGAAAAGAAGAAGA
43865481 ATGAAAAGAAGAAGA
1 A-GAAAAGAAGAAGA
43865496 AGAAAA
1 AGAAAA
43865502 AAAAACATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 12 0.41
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.04
Consensus pattern (14 bp):
AGAAAAGAAGAAGA
Found at i:43866397 original size:22 final size:21
Alignment explanation
Indices: 43866360--43866401 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
43866350 TATGATTTTA
43866360 ATAAATTTAAAATTAAATTAG
1 ATAAATTTAAAATTAAATTAG
*
43866381 ATAAATTATTAAATTAAATTA
1 ATAAATT-TAAAATTAAATTA
43866402 AATATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAAATTTAAAATTAAATTAG
Found at i:43866407 original size:17 final size:17
Alignment explanation
Indices: 43866361--43866407 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
43866351 ATGATTTTAA
43866361 TAAATTTAAA-ATTAAAT
1 TAAA-TTAAATATTAAAT
*
43866378 TAGA-TAAATTATTAAAT
1 TAAATTAAA-TATTAAAT
43866395 TAAATTAAATATT
1 TAAATTAAATATT
43866408 TTAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.16
17 17 0.68
18 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTAAATATTAAAT
Found at i:43868873 original size:48 final size:48
Alignment explanation
Indices: 43868790--43868882 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
43868780 GGGAATTCTA
* * *
43868790 TTGAATCCTTTATTGTTGCGAGTTGAGCTGGCTTAGGCGTTTTTACGG
1 TTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACGG
43868838 TTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 TTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
43868883 AGCCAAGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 2 0.05
48 38 0.95
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.41
Consensus pattern (48 bp):
TTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACGG
Found at i:43869717 original size:20 final size:19
Alignment explanation
Indices: 43869678--43869717 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43869668 CGTTGACAAT
*
43869678 AAATTATTTTTTATTGAAC
1 AAATTATTTTTTATTAAAC
*
43869697 AAATTATTTTTCTGTTAAAC
1 AAATTATTTTT-TATTAAAC
43869717 A
1 A
43869718 TAAGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (19 bp):
AAATTATTTTTTATTAAAC
Found at i:43873175 original size:44 final size:44
Alignment explanation
Indices: 43873124--43873541 Score: 372
Period size: 44 Copynumber: 9.3 Consensus size: 44
43873114 CGGTATGGGG
* *
43873124 AGACAAGATCTGTTGTCTTTGATCTACTTCACGCCAATACATGA
1 AGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
* * * * * ***
43873168 GGACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGA
1 AGACAAGATCTG--TTAT-CTTTGATCTACTTC-ACGCCAGTACATGA
43873216 AGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
1 AGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
* * * * ***
43873260 AGACAAGATCTATTTTTTCCTTTGATCTACTTCGCCACCAGTATGGGA
1 AGACAAGATC--TGTTAT-CTTTGATCTACTTC-ACGCCAGTACATGA
43873308 AGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
1 AGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
* * ** * ***
43873352 AGGCAAGATCTGCTT-TCTTCGATCTGTTTCACCACCAGTATGGGA
1 AGACAAGATCTG-TTATCTTTGATCTACTTCA-CGCCAGTACATGA
*
43873397 AGACAAGATCTGTTACCTTTGATCTACTTCACGCCAGTACATGA
1 AGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
** ** * * * ***
43873441 AGACAAGATCTGCTT-TCTTCAATCTGTTTCGCCACCAATATGGGA
1 AGACAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTACATGA
* *
43873486 AGACAAGATCTATTATCTTTGATCTACTTCAAGCCAGTACATGA
1 AGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
43873530 AGACAAGATCTG
1 AGACAAGATCTG
43873542 CTGCTACTCC
Statistics
Matches: 288, Mismatches: 72, Indels: 28
0.74 0.19 0.07
Matches are distributed among these distances:
44 116 0.40
45 93 0.32
46 14 0.05
47 27 0.09
48 38 0.13
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
AGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
Found at i:43873241 original size:45 final size:44
Alignment explanation
Indices: 43873077--43873541 Score: 342
Period size: 44 Copynumber: 10.3 Consensus size: 44
43873067 TCACGCCAAT
* * * * * *
43873077 GAAGACAAGGTCTGTTCTCTTCGATATACTCCACCACCGGTATGG
1 GAAGACAAGATCTGTTATCTTTGATCTACTTC-CCACCAGTATGG
* * * * * ***
43873122 GGAGACAAGATCTGTTGTCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCCCACCAGTATGG
* * *
43873166 GAGGACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTG--TTAT-CTTTGATCTACTTC-CCACCAGTATGG
* * ***
43873214 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCCCACCAGTATGG
* *
43873258 GAAGACAAGATCTATTTTTTCCTTTGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATC--TGTTAT-CTTTGATCTACTTC-CCACCAGTATGG
* * ***
43873306 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCCCACCAGTATGG
* * **
43873350 GAAGGCAAGATCTGCTT-TCTTCGATCTGTTTCACCACCAGTATGG
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTC-CCACCAGTATGG
* * * ***
43873395 GAAGACAAGATCTGTTACCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCCCACCAGTATGG
** ** *
43873439 GAAGACAAGATCTGCTT-TCTTCAATCTGTTTCGCCACCAATATGG
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTC-CCACCAGTATGG
* * ***
43873484 GAAGACAAGATCTATTATCTTTGATCTACTT-CAAGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCCCA-CCAGTATGG
43873528 GAAGACAAGATCTG
1 GAAGACAAGATCTG
43873542 CTGCTACTCC
Statistics
Matches: 319, Mismatches: 86, Indels: 31
0.73 0.20 0.07
Matches are distributed among these distances:
43 2 0.01
44 121 0.38
45 117 0.37
46 14 0.04
47 27 0.08
48 38 0.12
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCCCACCAGTATGG
Found at i:43873257 original size:92 final size:90
Alignment explanation
Indices: 43873057--43873543 Score: 673
Period size: 89 Copynumber: 5.4 Consensus size: 90
43873047 TCTGCTGCGC
* * * * * *
43873057 TTGATCTACTTCACGCC---A-ATGAAGACAAGGTCTG-TTCTCTTCGATATACTCCACCACCGG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTACTTCGCCACCAG
* *
43873117 TATGGGGAGACAAGATCTGTTGTCT
66 TATGGGAAGACAAGATCTGTTATCT
* *
43873142 TTGATCTACTTCACGCCAATACATGAGGACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTT-CTTCGATCTACTTCGCCACC
43873207 AGTATGGGAAGACAAGATCTGTTATCT
64 AGTATGGGAAGACAAGATCTGTTATCT
** *
43873234 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTTTCCTTTGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCT-GCTTTT-CTTCGATCTACTTCGCCACC
43873299 AGTATGGGAAGACAAGATCTGTTATCT
64 AGTATGGGAAGACAAGATCTGTTATCT
* ** *
43873326 TTGATCTACTTCACGCCAGTACATGAAGGCAAGATCTGC-TTTCTTCGATCTGTTTCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTACTTCGCCACCAG
*
43873390 TATGGGAAGACAAGATCTGTTACCT
66 TATGGGAAGACAAGATCTGTTATCT
* ** *
43873415 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTCTTCAATCTGTTTCGCCACCAA
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTACTTCGCCACCAG
*
43873479 TATGGGAAGACAAGATCTATTATCT
66 TATGGGAAGACAAGATCTGTTATCT
*
43873504 TTGATCTACTTCAAGCCAGTACATGAAGACAAGATCTGCT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
43873544 GCTACTCCAC
Statistics
Matches: 364, Mismatches: 29, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
85 17 0.05
88 1 0.00
89 177 0.49
90 3 0.01
91 3 0.01
92 163 0.45
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (90 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTCGATCTACTTCGCCACCAG
TATGGGAAGACAAGATCTGTTATCT
Found at i:43886865 original size:3 final size:3
Alignment explanation
Indices: 43886803--43886848 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
43886793 AAACTGATAA
* *
43886803 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT GTT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
43886849 GTTTTTGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:43887200 original size:21 final size:22
Alignment explanation
Indices: 43887154--43887200 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
43887144 TGTATTTTCT
*
43887154 ATATTTTATAATTCATATACAT
1 ATATTTTATAATTCATATACAA
*
43887176 ATATTTT-TAATAT-ATATATAA
1 ATATTTTATAAT-TCATATACAA
43887197 ATAT
1 ATAT
43887201 ACGTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATAATTCATATACAA
Found at i:43889399 original size:14 final size:15
Alignment explanation
Indices: 43889380--43889408 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43889370 AGATATAGTA
43889380 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
43889394 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
43889409 GTCACATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:43891807 original size:18 final size:18
Alignment explanation
Indices: 43891774--43891809 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43891764 TTCATAATTG
**
43891774 AATAACTCAATTTTTTCT
1 AATAACTCAAGCTTTTCT
43891792 AATAACTCAAGCTTTTCT
1 AATAACTCAAGCTTTTCT
43891810 TGGAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (18 bp):
AATAACTCAAGCTTTTCT
Found at i:43891852 original size:17 final size:16
Alignment explanation
Indices: 43891832--43891865 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
43891822 AAAATTAATT
*
43891832 TTAAAAACTAAAGAAAA
1 TTAAAAAATAAA-AAAA
43891849 TTAAAAAATAAAAAAA
1 TTAAAAAATAAAAAAA
43891865 T
1 T
43891866 GTTTGGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (16 bp):
TTAAAAAATAAAAAAA
Found at i:43908844 original size:9 final size:9
Alignment explanation
Indices: 43908781--43908846 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
43908771 TTTCGGTTAA
43908781 ATTAATTATT
1 ATTAA-TATT
*
43908791 -TTAACATT
1 ATTAATATT
43908799 ATTAATATT
1 ATTAATATT
43908808 ATT-ATATT
1 ATTAATATT
* *
43908816 GCATCATTATT
1 --ATTAATATT
43908827 ATT--TATT
1 ATTAATATT
43908834 ATTAATATT
1 ATTAATATT
43908843 ATTA
1 ATTA
43908847 TCCTTATCTC
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
7 7 0.16
8 8 0.18
9 24 0.53
10 2 0.04
11 4 0.09
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (9 bp):
ATTAATATT
Found at i:43910569 original size:3 final size:3
Alignment explanation
Indices: 43910561--43910601 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
43910551 CTTTCTAACC
43910561 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
43910602 CCCTAACATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:43910957 original size:24 final size:23
Alignment explanation
Indices: 43910911--43910957 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
43910901 TTAATTATGA
43910911 AATTAATTAAATTTACTTTAAATT
1 AATTAATTAAATTTA-TTTAAATT
43910935 AATTAATTAATATTT-TTTGAAAT
1 AATTAATTAA-ATTTATTT-AAAT
43910958 GGAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 14 0.67
25 4 0.19
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTAATTAAATTTATTTAAATT
Found at i:43915423 original size:26 final size:27
Alignment explanation
Indices: 43915390--43915442 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
43915380 ACTTTGGTTA
43915390 AATGTATAATTTTATACATG-AATTTT
1 AATGTATAATTTTATACATGAAATTTT
43915416 AATGTATAATTTTATACATGAAATTTT
1 AATGTATAATTTTATACATGAAATTTT
43915443 GATTTAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (27 bp):
AATGTATAATTTTATACATGAAATTTT
Found at i:43919523 original size:14 final size:14
Alignment explanation
Indices: 43919504--43919533 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43919494 TTGTTACAGG
43919504 TTTTCTTTCTTTTC
1 TTTTCTTTCTTTTC
43919518 TTTTCTTTCTTTTC
1 TTTTCTTTCTTTTC
43919532 TT
1 TT
43919534 GTAGATTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTCTTTTC
Found at i:43927210 original size:3 final size:3
Alignment explanation
Indices: 43927197--43927270 Score: 82
Period size: 3 Copynumber: 25.0 Consensus size: 3
43927187 TTATTTACTC
* * *
43927197 ATT ATT A-T ATT ATT -GT ATT A-T ACT ATT AGTT TTGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT
43927241 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
43927271 TACTCATTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
2 5 0.08
3 52 0.85
4 4 0.07
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:43927400 original size:26 final size:27
Alignment explanation
Indices: 43927369--43927419 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
43927359 AATTTTAAAA
43927369 TACAT-ATATACATATATATTTTATAA
1 TACATAATATACATATATATTTTATAA
*
43927395 TTCATACATATACATAT-T-TTTTATA
1 TACATA-ATATACATATATATTTTATA
43927420 TTTTATAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 11 0.50
27 1 0.05
28 10 0.45
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (27 bp):
TACATAATATACATATATATTTTATAA
Found at i:43941840 original size:18 final size:17
Alignment explanation
Indices: 43941814--43941848 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43941804 GATTATTAGA
*
43941814 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
43941831 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
43941849 TTAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:43941889 original size:42 final size:41
Alignment explanation
Indices: 43941694--43941975 Score: 134
Period size: 42 Copynumber: 7.1 Consensus size: 41
43941684 AATTATTTTA
* *
43941694 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAAT
1 AATTTTATTAAATTATATATTTTAAGTAAAATATATTTAAT
**
43941735 -ATTAATTATTTCAAA-T-TATATTTTATAGTATCATATA-TT-AT
1 AATT--TTA-TT-AAATTATATATTTTA-AGTAAAATATATTTAAT
* * * * * *
43941776 GATTTTAGTAAATT-CATA---TAAG-AATAT-TGATTATTAG
1 AATTTTATTAAATTATATATTTTAAGTAAAATAT-ATT-TAAT
*
43941813 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT
1 AATTTTATTAAATTATATATTTTAAGTAAAATATATTTAAT
* **
43941854 AATTATTATTTAATT-TATATTTTACAGTATCATATA-TT-AT
1 AATT-TTATTAAATTATATATTTTA-AGTAAAATATATTTAAT
* * * ** * *
43941894 GATTTGAGTAAATTCATATA--AGAA-TATTAAT-TA-TTAAG
1 AATTTTATTAAATT-ATATATTTTAAGTA-AAATATATTTAAT
*
43941932 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT
1 AATTTTATTAAATTATATATTTTAAGTAAAATATATTTAAT
43941973 AAT
1 AAT
43941976 AATTATGTTT
Statistics
Matches: 178, Mismatches: 35, Indels: 56
0.66 0.13 0.21
Matches are distributed among these distances:
33 1 0.01
34 4 0.02
35 3 0.02
36 3 0.02
37 24 0.13
38 22 0.12
39 18 0.10
40 15 0.08
41 33 0.19
42 41 0.23
43 11 0.06
44 3 0.02
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (41 bp):
AATTTTATTAAATTATATATTTTAAGTAAAATATATTTAAT
Found at i:43941917 original size:118 final size:120
Alignment explanation
Indices: 43941694--43941981 Score: 492
Period size: 119 Copynumber: 2.4 Consensus size: 120
43941684 AATTATTTTA
*
43941694 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTCAAATTATATTT
* * *
43941758 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
43941813 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATTT-AATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATTTCAAATTATATTTT
43941877 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
43941932 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTAT
43941982 GTTTAAATAT
Statistics
Matches: 161, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
118 60 0.37
119 98 0.61
120 3 0.02
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:43941961 original size:18 final size:17
Alignment explanation
Indices: 43941933--43941967 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43941923 ATTATTAAGA
*
43941933 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
43941950 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
43941968 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:43942074 original size:147 final size:149
Alignment explanation
Indices: 43941921--43942195 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
43941911 ATAAGAATAT
*
43941921 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
43941986 AAATATGAGTAAATTATTTATTATTGATATTAA-TAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAATTAATCTTATTAAAATTTAAATAACAATAATT
43942049 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
43942068 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
43942133 AAATATGATTAAATTATTTATTTTTGATAATAATTAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAATTAATCTTATTAAAATTTAAATAACAATAA
43942196 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAATTAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:43942108 original size:18 final size:17
Alignment explanation
Indices: 43942080--43942114 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43942070 ATTATTAAGA
*
43942080 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
43942097 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
43942115 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:43942325 original size:44 final size:45
Alignment explanation
Indices: 43942276--43942370 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
43942266 TTACACCTCT
* * *
43942276 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
43942320 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
43942365 ATTACA
1 ATTACA
43942371 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:43942370 original size:16 final size:16
Alignment explanation
Indices: 43942351--43942402 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
43942341 GATTTGCTAT
* * *
43942351 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
43942367 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43942383 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43942399 TACA
1 TACA
43942403 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:43943247 original size:6 final size:6
Alignment explanation
Indices: 43943236--43943260 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43943226 TTCTCCAATT
43943236 GTTATG GTTATG GTTATG GTTATG G
1 GTTATG GTTATG GTTATG GTTATG G
43943261 AATTTGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (6 bp):
GTTATG
Found at i:43945224 original size:19 final size:17
Alignment explanation
Indices: 43945182--43945226 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
43945172 AAGTTTTGAT
*
43945182 AATTATACATTTAAAAAT
1 AATTATA-ATTTAAAAAA
43945200 AATTATAATTTAATAAAA
1 AATTATAATTTAA-AAAA
43945218 AATTTATAA
1 AA-TTATAA
43945227 GTACACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTATAATTTAAAAAA
Found at i:43947662 original size:7 final size:7
Alignment explanation
Indices: 43947652--43947710 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
43947642 GGGTTTAGGA
43947652 TTCAAGG
1 TTCAAGG
43947659 TTCAAGG
1 TTCAAGG
*
43947666 TTC-GGAG
1 TTCAAG-G
*
43947673 TT-TAGG
1 TTCAAGG
* *
43947679 ATTTAAGA
1 -TTCAAGG
43947687 TTCAAGG
1 TTCAAGG
43947694 TTCAAGG
1 TTCAAGG
43947701 TTCAAGG
1 TTCAAGG
43947708 TTC
1 TTC
43947711 GTGATTCAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 2 0.05
7 38 0.90
8 2 0.05
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (7 bp):
TTCAAGG
Found at i:43947677 original size:35 final size:34
Alignment explanation
Indices: 43947623--43947703 Score: 117
Period size: 35 Copynumber: 2.4 Consensus size: 34
43947613 CTAGGTATAG
* * * *
43947623 GGTTTAAGGTTTGGGTTTAGGGTTTAGGATTCAA
1 GGTTCAAGGTTCGGGTTTAGGATTTAAGATTCAA
43947657 GGTTCAAGGTTCGGAGTTTAGGATTTAAGATTCAA
1 GGTTCAAGGTTCGG-GTTTAGGATTTAAGATTCAA
43947692 GGTTCAAGGTTC
1 GGTTCAAGGTTC
43947704 AAGGTTCGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 12 0.29
35 30 0.71
ACGTcount: A:0.23, C:0.07, G:0.32, T:0.37
Consensus pattern (34 bp):
GGTTCAAGGTTCGGGTTTAGGATTTAAGATTCAA
Found at i:43950914 original size:2 final size:2
Alignment explanation
Indices: 43950907--43950937 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43950897 GAATTTACAA
43950907 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
43950938 ACAATGCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43951128 original size:30 final size:30
Alignment explanation
Indices: 43951082--43951170 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
43951072 ATTTCTTATG
*
43951082 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
43951113 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
43951142 ----TATTTGATACCCATATCTTTAACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
43951168 CCA
1 CCA
43951171 TAAATATGGA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
25 22 0.42
26 2 0.04
29 2 0.04
30 19 0.37
31 7 0.13
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:43951137 original size:15 final size:15
Alignment explanation
Indices: 43951092--43951138 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
43951082 CCAATATCTC
43951092 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
43951107 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
43951122 GATACCCATATCTTT
1 GATACCCATATCTTT
43951137 GA
1 GA
43951139 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:43955781 original size:30 final size:31
Alignment explanation
Indices: 43955735--43955795 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
43955725 ATTTCTTATG
43955735 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
*
43955766 CCAATAT-TTGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
43955796 ATTTGATACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.41
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:43955790 original size:15 final size:15
Alignment explanation
Indices: 43955745--43955791 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
43955735 CCAATATCTC
43955745 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
43955760 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
43955775 GATACCCATATCTTT
1 GATACCCATATCTTT
43955790 GA
1 GA
43955792 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:43955798 original size:25 final size:25
Alignment explanation
Indices: 43955745--43955820 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 25
43955735 CCAATATCTC
43955745 GATACCCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGAC-TT----TATTT
43955775 GATACCCATATCTTTGACTTTATTT
1 GATACCCATATCTTTGACTTTATTT
* *
43955800 GATACTCATATATTTGACTTT
1 GATACCCATATCTTTGACTTT
43955821 TCATAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 24 0.55
29 2 0.05
30 18 0.41
ACGTcount: A:0.26, C:0.20, G:0.08, T:0.46
Consensus pattern (25 bp):
GATACCCATATCTTTGACTTTATTT
Found at i:43958699 original size:11 final size:11
Alignment explanation
Indices: 43958683--43958708 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43958673 TCAAGTGTTT
43958683 GAGTAAAACTA
1 GAGTAAAACTA
43958694 GAGTAAAACTA
1 GAGTAAAACTA
43958705 GAGT
1 GAGT
43958709 CCAATGGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.19
Consensus pattern (11 bp):
GAGTAAAACTA
Found at i:43961709 original size:17 final size:18
Alignment explanation
Indices: 43961687--43961722 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43961677 TAAAATCCCT
43961687 AAACCCT-ACTTAATTAA
1 AAACCCTAACTTAATTAA
*
43961704 AAACCCTAATTTAATTAA
1 AAACCCTAACTTAATTAA
43961722 A
1 A
43961723 TTAAAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (18 bp):
AAACCCTAACTTAATTAA
Found at i:43961772 original size:24 final size:24
Alignment explanation
Indices: 43961675--43961764 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 24
43961665 ACATTATTTG
*
43961675 ATTAAAATCCCTAAACCCTACTTA
1 ATTAAAAACCCTAAACCCTACTTA
** *
43961699 ATTAAAAACCCT-AA-TTTAATTAA
1 ATTAAAAACCCTAAACCCTACTT-A
43961722 ATTAAAAACCCTAAACCCTACTTA
1 ATTAAAAACCCTAAACCCTACTTA
43961746 ATTAAAAACCCT-AACCCTA
1 ATTAAAAACCCTAAACCCTA
43961765 ACCTAATTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.07
23 22 0.39
24 26 0.46
25 4 0.07
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (24 bp):
ATTAAAAACCCTAAACCCTACTTA
Found at i:43961786 original size:34 final size:31
Alignment explanation
Indices: 43961743--43962541 Score: 243
Period size: 28 Copynumber: 29.7 Consensus size: 31
43961733 TAAACCCTAC
43961743 TTAATTAAAAACCCTAACCCTAACCTAATTTAA
1 TTAATTAAAAACCCTAACCCTAACCTAA--TAA
43961776 TTAAATTAAAAACCCTAA-CCTAACCTAAT--
1 TT-AATTAAAAACCCTAACCCTAACCTAATAA
*
43961805 TTAATTAAAAACCCTAACTCTAACCTAACCTAA
1 TTAATTAAAAACCCTAACCCTAACCTAA--TAA
43961838 TTGAATT--AAA----AACCCTAACCTAAT--
1 TT-AATTAAAAACCCTAACCCTAACCTAATAA
*
43961862 TGAATTAAAAACCCT-A-----ACCTAAT--
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
43961885 TTAATTAAAAACCCTAA-CCT-A-CT--T-A
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
43961910 --AATTAAAAACCCT-A-----ACCTAAT--
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
43961931 TTAATTAAAAACCCTAA-CCT-A-CT--T-A
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
* *
43961956 --AATTAAAAACCCTAA-CCTTA--T-TTAA
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
* *
43961981 TTAAATTAAAAATCGTAA-CCT-A-CT--T-A
1 TT-AATTAAAAACCCTAACCCTAACCTAATAA
43962007 --AATTAAAAACCCTAACCCCT-A-CT--TAA
1 TTAATTAAAAACCCTAA-CCCTAACCTAATAA
43962033 TTAAATTAAAAACCCTAAACCCT-A-C------
1 TT-AATTAAAAACCCT-AACCCTAACCTAATAA
43962058 TTAATTAAAAACCCTAACCCTAACCTAATTTAA
1 TTAATTAAAAACCCTAACCCTAACCTAA--TAA
43962091 TTAAATTAAAAACCCTAA-CCTAACCTAAT--
1 TT-AATTAAAAACCCTAACCCTAACCTAATAA
*
43962120 TTAATTAAAAACTCTAA-CCT-A-CT--T-A
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
43962145 --AATTAAAAACCCT-A-----ACCTAAT--
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
43962166 TTAATTAAAAACCCTAA-CCT-A-CT--T-A
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
* *
43962191 --AATTAAAAACCCTAA-CCTTA--T-TTAA
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
43962216 TTAAATTAAAAACCCTAA-CCT-A-CT--T-A
1 TT-AATTAAAAACCCTAACCCTAACCTAATAA
43962242 --AATTAAAAACCCTAACCCCT-A-CT--TAA
1 TTAATTAAAAACCCTAA-CCCTAACCTAATAA
43962268 TTAAATTAAAAACCCTAAACCCT-A-C------
1 TT-AATTAAAAACCCT-AACCCTAACCTAATAA
43962293 TTAATTAAAAACCCTAACCCTAACCTAATTTAA
1 TTAATTAAAAACCCTAACCCTAACCTAA--TAA
43962326 TTAAATTAAAAACCCTAA-CCTAACCTAAT--
1 TT-AATTAAAAACCCTAACCCTAACCTAATAA
43962355 TTAATTAAAAACCCTAA-CCTAACCTAAT--
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
*
43962383 TAAATTAAAAACCCTAACCCTAACCTAACCTAA
1 TTAATTAAAAACCCTAACCCTAACCTAA--TAA
43962416 TTTAATT--AAA----AACCCTAACCTAAT--
1 -TTAATTAAAAACCCTAACCCTAACCTAATAA
* *
43962440 TTAATTAAAAACCCTAA-CCTTA--T-TTAA
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
43962467 TTAAATTAAAAACCCT-A----AACCTAAT--
1 TT-AATTAAAAACCCTAACCCTAACCTAATAA
43962492 TTAATTAAAAACCCTAA-CCTAACCTAAT--
1 TTAATTAAAAACCCTAACCCTAACCTAATAA
*
43962520 TAAATTAAAAACCCTAACCCTA
1 TTAATTAAAAACCCTAACCCTA
43962542 TTTAATTAAA
Statistics
Matches: 637, Mismatches: 17, Indels: 228
0.72 0.02 0.26
Matches are distributed among these distances:
19 2 0.00
20 4 0.01
22 4 0.01
23 160 0.25
24 54 0.08
25 32 0.05
26 16 0.03
27 12 0.02
28 177 0.28
29 69 0.11
30 4 0.01
31 5 0.01
32 6 0.01
33 38 0.06
34 54 0.08
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (31 bp):
TTAATTAAAAACCCTAACCCTAACCTAATAA
Found at i:43961790 original size:28 final size:27
Alignment explanation
Indices: 43961698--43962551 Score: 600
Period size: 23 Copynumber: 32.1 Consensus size: 27
43961688 AACCCTACTT
43961698 AATTAAAAACCCTAA--T--TTAATTA
1 AATTAAAAACCCTAACCTAATTAATTA
*
43961721 AATTAAAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTAATTAATTA
*
43961750 AA--AACCCTAACCCTAACCTAATTTAATTA
1 AATTAA---AAACCCTAACCTAA-TTAATTA
* *
43961779 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-TTAATTA
*
43961807 AATTAAAAACCCTAACTCTAACCTAACCTAATTG
1 AATTAAAAACCCTAAC-CTAA--T----TAATTA
*
43961841 AATTAAAAACCCTAACC----TAATTG
1 AATTAAAAACCCTAACCTAATTAATTA
43961864 AATTAAAAACCCTAACCTAA-T--TT-
1 AATTAAAAACCCTAACCTAATTAATTA
*
43961887 AATTAAAAACCCTAACC----TACTTA
1 AATTAAAAACCCTAACCTAATTAATTA
43961910 AATTAAAAACCCTAACCTAA-T--TT-
1 AATTAAAAACCCTAACCTAATTAATTA
*
43961933 AATTAAAAACCCTAACC----TACTTA
1 AATTAAAAACCCTAACCTAATTAATTA
*
43961956 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TAATTAATTA
* * *
43961984 AATTAAAAATCGTAACC----TACTTA
1 AATTAAAAACCCTAACCTAATTAATTA
*
43962007 AATTAAAAACCCTAACCCCTACTTAATTA
1 AATTAAAAACCCTAA--CCTAATTAATTA
*
43962036 AATTAAAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTAATTAATTA
*
43962065 AA--AACCCTAACCCTAACCTAATTTAATTA
1 AATTAA---AAACCCTAACCTAA-TTAATTA
* *
43962094 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-TTAATTA
* *
43962122 AATTAAAAACTCTAACC----TACTTA
1 AATTAAAAACCCTAACCTAATTAATTA
43962145 AATTAAAAACCCTAACCTAA-T--TT-
1 AATTAAAAACCCTAACCTAATTAATTA
*
43962168 AATTAAAAACCCTAACC----TACTTA
1 AATTAAAAACCCTAACCTAATTAATTA
*
43962191 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TAATTAATTA
*
43962219 AATTAAAAACCCTAACC----TACTTA
1 AATTAAAAACCCTAACCTAATTAATTA
*
43962242 AATTAAAAACCCTAACCCCTACTTAATTA
1 AATTAAAAACCCTAA--CCTAATTAATTA
*
43962271 AATTAAAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTAATTAATTA
*
43962300 AA--AACCCTAACCCTAACCTAATTTAATTA
1 AATTAA---AAACCCTAACCTAA-TTAATTA
* *
43962329 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-TTAATTA
*
43962357 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCTAA-TTAATTA
*
43962385 AATTAAAAACCCTAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAA-CCTAA--T----TAATTA
43962419 AATTAAAAACCCTAACCTAA-T--TT-
1 AATTAAAAACCCTAACCTAATTAATTA
*
43962442 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TAATTAATTA
43962470 AATTAAAAACCCTAAACCTAA-T--TT-
1 AATTAAAAACCCT-AACCTAATTAATTA
*
43962494 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCTAA-TTAATTA
*
43962522 AATTAAAAACCCTAACCCTATTTAATTA
1 AATTAAAAACCCTAA-CCTAATTAATTA
43962550 AA
1 AA
43962552 AACCCTAATT
Statistics
Matches: 700, Mismatches: 41, Indels: 175
0.76 0.04 0.19
Matches are distributed among these distances:
20 3 0.00
22 6 0.01
23 220 0.31
24 25 0.04
25 8 0.01
26 4 0.01
27 12 0.02
28 220 0.31
29 125 0.18
30 24 0.03
31 6 0.01
33 6 0.01
34 41 0.06
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (27 bp):
AATTAAAAACCCTAACCTAATTAATTA
Found at i:43962115 original size:235 final size:235
Alignment explanation
Indices: 43961874--43962559 Score: 1108
Period size: 235 Copynumber: 2.9 Consensus size: 235
43961864 AATTAAAAAC
43961874 CCTAACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTAATTTAATTAA
1 CCTAACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTAATTTAATTAA
* *
43961939 AAACCCTAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAATCGTAACCTAC
66 AAACCCTAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCTAC
43962004 TTAAATTAAAAACCCTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAA
131 TTAAATTAAAAACCCTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAA
43962069 CCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAA
196 CCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAA
*
43962109 CCTAACCTAATTTAATTAAAAACTCTAACCTACTTAAATTAAAAACCCTAACCTAATTTAATTAA
1 CCTAACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTAATTTAATTAA
43962174 AAACCCTAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCTAC
66 AAACCCTAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCTAC
43962239 TTAAATTAAAAACCCTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAA
131 TTAAATTAAAAACCCTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAA
43962304 CCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAA
196 CCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAA
43962344 CCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCCTAACCT
1 CCTAACCTAATTTAATTAAAAACCCTAACCT-A-C---TTAAATT--AAA----AA--C---CCT
* *
43962409 AACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTTATTTAATTAAATT
50 AACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATT
* * *
43962474 AAAAACCCTAAACCTAATTTAATTAAAAACCCTAA--CCTAACCTAATTAAATTAAAAACCCT-A
115 AAAAACCCT-AACCTACTTAAATTAAAAACCCTAACCCCT-ACTTAATTAAATTAAAAACCCTAA
*
43962536 ACCCTATTTAATTAAAAACCCTAA
178 ACCCTACTTAATTAAAAACCCTAA
43962560 TTAAATTGTA
Statistics
Matches: 423, Mismatches: 10, Indels: 21
0.93 0.02 0.05
Matches are distributed among these distances:
235 262 0.62
236 1 0.00
237 1 0.00
240 7 0.02
242 3 0.01
246 2 0.00
248 1 0.00
250 27 0.06
251 96 0.23
252 23 0.05
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (235 bp):
CCTAACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAACCTAATTTAATTAA
AAACCCTAACCTACTTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCTAC
TTAAATTAAAAACCCTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAA
CCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAA
Found at i:43962117 original size:33 final size:34
Alignment explanation
Indices: 43962060--43962128 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 34
43962050 AACCCTACTT
43962060 AATTAAAAACCCTAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCCTAACCTAATTTAATTA
43962094 AATTAAAAACCCTAA-CCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCCTAACCTAATTTAATTA
43962127 AA
1 AA
43962129 AACTCTAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 20 0.57
34 15 0.43
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (34 bp):
AATTAAAAACCCTAACCCTAACCTAATTTAATTA
Found at i:43965793 original size:84 final size:84
Alignment explanation
Indices: 43965652--43965854 Score: 379
Period size: 84 Copynumber: 2.4 Consensus size: 84
43965642 CAAACTTGCT
43965652 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAAAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAAAAACGTCAAAAAAA
43965717 ATTATTTCCTACATGACCA
66 ATTATTTCCTACATGACCA
** *
43965736 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCGGAAACGTCAAAAACA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAAAAACGTCAAAAAAA
43965801 ATTATTTCCTACATGACCA
66 ATTATTTCCTACATGACCA
43965820 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
43965855 CACAATTTCT
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 116 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (84 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAAAAACGTCAAAAAAA
ATTATTTCCTACATGACCA
Found at i:43965987 original size:126 final size:125
Alignment explanation
Indices: 43965787--43966020 Score: 346
Period size: 126 Copynumber: 1.9 Consensus size: 125
43965777 ATTTGCTCGG
* * *
43965787 AAACGTCAAAAACAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGGCGCGA
1 AAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGCCACGA
* * **
43965852 TTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTATACTATTTCCTCAAA
66 TTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTATACTATTTCCTCAAA
43965912 AAACGTCAAAAAAAAAATTATTT-CTCACATGACC-ACTGTAGCGAAATCGCGTCCACGAGGCCA
1 AAACGTC--AAAAAAAATTATTTCCT-ACATGACCAACTGTAGCGAAATCGCGTCCACGAGGCCA
* *
43965975 CTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGCGATTT
63 CGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTT
43966021 CCCACTATTT
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
125 7 0.07
126 69 0.71
127 21 0.22
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (125 bp):
AAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGCCACGA
TTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTATACTATTTCCTCAAA
Found at i:43966028 original size:126 final size:125
Alignment explanation
Indices: 43965764--43966030 Score: 342
Period size: 126 Copynumber: 2.1 Consensus size: 125
43965754 CCACGAGGGC
* * ** *
43965764 GCGATTTGACACTATTTGCTC-GGAAACGTCAAAAACAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTCACACTATTTCCTCAAAAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * * * **
43965828 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* *
43965888 GCGATTTTATACTATTTCCTCAAAAAACGTCAAAAAAAAAATTATTT-CTCACATGACC-ACTGT
1 GCGATTTCACACTATTTCCTCAAAAAACGTC--AAAAAAAATTATTTCCT-ACATGACCAACTGT
* *
43965951 AGCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
63 AGCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
*
43966014 GCGATTTCCCACTATTT
1 GCGATTTCACACTATTT
43966031 AACCAGAAAT
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
124 18 0.15
125 7 0.06
126 76 0.62
127 21 0.17
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (125 bp):
GCGATTTCACACTATTTCCTCAAAAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:43972497 original size:109 final size:109
Alignment explanation
Indices: 43972306--43972629 Score: 508
Period size: 109 Copynumber: 3.0 Consensus size: 109
43972296 AAGATATAAG
* * *
43972306 AGGATATTTGGCTATGTGGTCCAACGAG--AAATCGAAACGTCCAGCACATTAGGGCACGTTTTT
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAAC--CCAGCACATTAGGGCACGTTTTC
43972369 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
64 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* * *
43972415 AGGATATTCGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
43972480 GAATTTCCAAACGCAAAATATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
*
43972524 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * *
43972589 GAATTTCTAAACGCAAAACATTGCCTTACTGTGAAATTTTT
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTT
43972630 TTTAAGGATA
Statistics
Matches: 196, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
109 186 0.95
111 10 0.05
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
Found at i:43973863 original size:12 final size:13
Alignment explanation
Indices: 43973842--43973867 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43973832 TTTTTCATTC
43973842 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
43973855 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
43973868 CTCTCTCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:43974950 original size:41 final size:42
Alignment explanation
Indices: 43974893--43975090 Score: 154
Period size: 41 Copynumber: 4.6 Consensus size: 42
43974883 CTTCAGTCTA
43974893 CTCCATTGCAACTTCAGGGAGATAAGACTGG-ATGCGATCTG
1 CTCCATTGCAACTTCAGGGAGATAAGACTGGTATGCGATCTG
* *** *
43974934 CTCTATTGCAACTTCAGAGG-GATAAGAGCTGTGGCT-TTTAATCCG
1 CTCCATTGCAACTTCAG-GGAGATAAGA-C--TGG-TATGCGATCTG
* * * * *
43974979 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTG-TCTG
1 CTCCATTGCAACTTCAGGGAGATAAGACTGG--TATGC-GATCTG
* *
43975023 CTCCACTGCAACTTCAAGGAGATAAGACTGG-ATGCGATCTG
1 CTCCATTGCAACTTCAGGGAGATAAGACTGGTATGCGATCTG
* **
43975064 CTCTATTGCAACTTCAAAGAGATAAGA
1 CTCCATTGCAACTTCAGGGAGATAAGA
43975091 TCTGCGGTTT
Statistics
Matches: 125, Mismatches: 21, Indels: 22
0.74 0.12 0.13
Matches are distributed among these distances:
40 1 0.01
41 53 0.42
42 6 0.05
43 1 0.01
44 38 0.30
45 26 0.21
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (42 bp):
CTCCATTGCAACTTCAGGGAGATAAGACTGGTATGCGATCTG
Found at i:43975072 original size:130 final size:132
Alignment explanation
Indices: 43974839--43975178 Score: 441
Period size: 130 Copynumber: 2.5 Consensus size: 132
43974829 GGATTTCTTG
* * ** * * *
43974839 TTTTAATCCGCTACACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAGTCTACTCCATTGCAA
1 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
* * * *
43974904 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAGAGGGATAAGAGCTGTGG-
66 CTTCAAGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGAGCTGCGGT
43974968 C-
131 CT
*
43974969 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
*
43975034 CTTCAAGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGATCTGCGGT
66 CTTCAAGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGAGCTGCGG-
43975099 TTTTTTTCTT
130 ------TC-T
* * * *
43975109 TTTTAATCCGCTCCATTGGAGCTTTAGGGAGGTAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
43975174 CTTCA
66 CTTCA
43975179 GGGGTATGGG
Statistics
Matches: 182, Mismatches: 18, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
130 116 0.64
138 1 0.01
140 65 0.36
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (132 bp):
TTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
CTTCAAGGAGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAAAGAGATAAGAGCTGCGGT
CT
Found at i:43978149 original size:21 final size:22
Alignment explanation
Indices: 43978101--43978152 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
43978091 GCCTGGGTCG
43978101 ATTTTTAATAAACATAAAAAAAT
1 ATTTTTAA-AAACATAAAAAAAT
*
43978124 A-TTTTAAAAATA-AAAAAAAT
1 ATTTTTAAAAACATAAAAAAAT
43978144 ATTTTTAAA
1 ATTTTTAAA
43978153 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 11 0.41
22 6 0.22
23 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTTTAAAAACATAAAAAAAT
Found at i:43987015 original size:105 final size:106
Alignment explanation
Indices: 43986764--43987057 Score: 441
Period size: 105 Copynumber: 2.8 Consensus size: 106
43986754 AAGATATAAG
* *
43986764 AGGATATTTGGCTATTTGGTCCAACGAG--AAATCGAAACTCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
43986827 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGC--AA-ATTGCCTTATTTTAAAATTTTTAAA
* * * * *
43986871 AGGATATTCGGCTATTTGATTGAACAAGAAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
43986936 GAATTTCCAAACGCAAA-TGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGCAAATTGCCTTATTTTAAAATTTTTAAA
* *
43986976 AGGATATTTGGATATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTT
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
43987041 GAATTTCCAGACGCAAA
66 GAATTTCCAAACGCAAA
43987058 ACATTACCTT
Statistics
Matches: 169, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
105 96 0.57
106 1 0.01
107 25 0.15
109 47 0.28
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAATTGCCTTATTTTAAAATTTTTAAA
Found at i:43990795 original size:64 final size:64
Alignment explanation
Indices: 43990716--43990892 Score: 238
Period size: 64 Copynumber: 2.8 Consensus size: 64
43990706 ATATATATTT
* * *
43990716 AAAGTTCTTGAGCTGAATTTAGTGTATGAATTTTATATACATATGTGGTTTAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACATACATATGTGGTTCAAATATAGGTTAC
*
43990780 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACATACATATGTGGTTCAAATATAGGTTAC
* *
43990844 AAA-TTCTTTGAACTGAATTTTAATGT-TGTAA-ATT--ATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTACATACATATGTGGTTC
43990893 GAATGTTTGT
Statistics
Matches: 104, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
62 15 0.14
63 3 0.03
64 76 0.73
65 10 0.10
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACATACATATGTGGTTCAAATATAGGTTAC
Found at i:43991066 original size:41 final size:41
Alignment explanation
Indices: 43991002--43991120 Score: 211
Period size: 41 Copynumber: 2.9 Consensus size: 41
43990992 ATCTGAGATT
*
43991002 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
*
43991043 ATCGGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
*
43991084 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCAGTGAA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
43991121 TTTATTTAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (41 bp):
ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
Found at i:43993030 original size:33 final size:33
Alignment explanation
Indices: 43992993--43993061 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
43992983 TAAAAATGCT
*
43992993 AAGCCTTCATAAGTAGCCCTCCATTCAAATATA
1 AAGCCTTCATAAGTAACCCTCCATTCAAATATA
43993026 AAGCCTTCATAAGTAACCCTCCATTCAAATATA
1 AAGCCTTCATAAGTAACCCTCCATTCAAATATA
43993059 AAG
1 AAG
43993062 AAGTGTATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (33 bp):
AAGCCTTCATAAGTAACCCTCCATTCAAATATA
Found at i:43996125 original size:22 final size:22
Alignment explanation
Indices: 43996090--43996135 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
43996080 CAAATTTCAA
43996090 TCAAGTTTCAAAAGTCCAAA-AT
1 TCAAGTTTCAAAAGT-CAAATAT
43996112 TCAA-TTTCACAAAGTCAAATAT
1 TCAAGTTTCA-AAAGTCAAATAT
43996134 TC
1 TC
43996136 TAGTCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (22 bp):
TCAAGTTTCAAAAGTCAAATAT
Found at i:43999537 original size:15 final size:15
Alignment explanation
Indices: 43999517--43999547 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43999507 AAAATAAAGC
43999517 AAATAATAGGCTGTT
1 AAATAATAGGCTGTT
43999532 AAATAATAGGCTGTT
1 AAATAATAGGCTGTT
43999547 A
1 A
43999548 TGAAACAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
AAATAATAGGCTGTT
Found at i:44001725 original size:36 final size:36
Alignment explanation
Indices: 44001685--44001757 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
44001675 AAATTGAGAA
*
44001685 AAAAAAATCAATGTTTAAATCGGTTTATAATTTTTT
1 AAAAAAATCAATGTTTAAATCGGTTTACAATTTTTT
44001721 AAAAAAATCAATGTTTAAATCGGTTTACAATTTTTT
1 AAAAAAATCAATGTTTAAATCGGTTTACAATTTTTT
44001757 A
1 A
44001758 GGCTTAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (36 bp):
AAAAAAATCAATGTTTAAATCGGTTTACAATTTTTT
Found at i:44002998 original size:18 final size:19
Alignment explanation
Indices: 44002975--44003020 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
44002965 AACTCTCTTT
44002975 ATTCTCTCTAAA-CTC-CAA
1 ATTCTCTC-AAATCTCTCAA
44002993 ATTCTCTCAAATCTCTCAA
1 ATTCTCTCAAATCTCTCAA
44003012 ATT-TCTCAA
1 ATTCTCTCAA
44003021 TTTTTGTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.12
18 17 0.65
19 6 0.23
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTCTCTCAAATCTCTCAA
Found at i:44006816 original size:50 final size:50
Alignment explanation
Indices: 44006713--44006905 Score: 233
Period size: 50 Copynumber: 3.7 Consensus size: 50
44006703 GGGAATGAGA
*
44006713 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
*
44006769 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
44006819 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
44006869 TCCTATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
44006906 ATACAGAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
50 82 0.67
53 3 0.02
55 1 0.01
56 36 0.30
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:44006939 original size:49 final size:48
Alignment explanation
Indices: 44006769--44006944 Score: 147
Period size: 50 Copynumber: 3.6 Consensus size: 48
44006759 TTATGAGAGG
* * * * * **
44006769 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C-ATAAGAAAAC
** * *
44006819 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-C-ATAAGAAAAC
* * * *
44006869 TCCTATGTAAGACCATATCTGGGATATGGCATTGGCA-ATACAGAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACATA-AGAAAAC
*
44006917 ATCCCATGTAAGACTATGTCTGGGACAT
1 -TCCCATGTAAGACCATGTCTGGGACAT
44006945 AGCTTTGGCA
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
47 3 0.03
48 5 0.05
49 23 0.22
50 74 0.70
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (48 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACATAAGAAAAC
Found at i:44013591 original size:147 final size:147
Alignment explanation
Indices: 44013324--44013618 Score: 581
Period size: 147 Copynumber: 2.0 Consensus size: 147
44013314 GCTGCTTGAA
*
44013324 ATCTGTTTCTTTGCAAATTTTACTCTTTCATGATTTCTATGCATGATTTATCACCTAAACATTTG
1 ATCTGTTTCTTTGCAAATTTTACTCTTTCATGATTTCTATGCATGATTTATCACCTAAAAATTTG
44013389 TAACAACAAACACCTTCATACTTAGCCATTTTAACAATCATTCATCATCAAATACTTACATATAA
66 TAACAACAAACACCTTCATACTTAGCCATTTTAACAATCATTCATCATCAAATACTTACATATAA
44013454 TTCTTTAGCAAAATCAT
131 TTCTTTAGCAAAATCAT
44013471 ATCTGTTTCTTTGCAAATTTTACTCTTTCATGATTTCTATGCATGATTTATCACCTAAAAATTTG
1 ATCTGTTTCTTTGCAAATTTTACTCTTTCATGATTTCTATGCATGATTTATCACCTAAAAATTTG
44013536 TAACAACAAACACCTTCATACTTAGCCATTTTAACAATCATTCATCATCAAATACTTACATATAA
66 TAACAACAAACACCTTCATACTTAGCCATTTTAACAATCATTCATCATCAAATACTTACATATAA
44013601 TTCTTTAGCAAAATCAT
131 TTCTTTAGCAAAATCAT
44013618 A
1 A
44013619 AATACAAACA
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 147 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (147 bp):
ATCTGTTTCTTTGCAAATTTTACTCTTTCATGATTTCTATGCATGATTTATCACCTAAAAATTTG
TAACAACAAACACCTTCATACTTAGCCATTTTAACAATCATTCATCATCAAATACTTACATATAA
TTCTTTAGCAAAATCAT
Found at i:44014238 original size:50 final size:50
Alignment explanation
Indices: 44014116--44014308 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
44014106 GATAATAACA
* *** * *
44014116 TGCCAAAGCCATGTCCCAGACATGGTCTTACATAGGGTGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-GGGACCTCTAATCTCGG
* * **
44014167 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTAATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGG
* * * *
44014217 TGTCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGG
44014267 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44014309 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 94 0.76
51 29 0.24
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGG
Found at i:44017819 original size:3 final size:3
Alignment explanation
Indices: 44017811--44017836 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44017801 AGTGTATCTA
44017811 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
44017837 CCATTTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:44020263 original size:23 final size:24
Alignment explanation
Indices: 44020237--44020291 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
44020227 CAATATTAAG
*
44020237 ATTTTTTA-ATAAATTAAATAAAT
1 ATTTTTTATATAAATAAAATAAAT
*
44020260 A-TTTTTATTTAAATAAAATAAAT
1 ATTTTTTATATAAATAAAATAAAT
44020283 ATTTTTTAT
1 ATTTTTTAT
44020292 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 6 0.21
23 15 0.54
24 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTTTTATATAAATAAAATAAAT
Found at i:44026772 original size:21 final size:23
Alignment explanation
Indices: 44026738--44026798 Score: 86
Period size: 23 Copynumber: 2.5 Consensus size: 23
44026728 CATTCTTATA
44026738 ATTTATATATTATAAAATATAATAAT
1 ATTTATATA-TAT--AATATAATAAT
*
44026764 ATTTATATATATTATATAATAAT
1 ATTTATATATATAATATAATAAT
44026787 ATTTATATATAT
1 ATTTATATATAT
44026799 TTAAATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 22 0.65
25 3 0.09
26 9 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTTATATATATAATATAATAAT
Found at i:44026775 original size:10 final size:10
Alignment explanation
Indices: 44026762--44026801 Score: 53
Period size: 10 Copynumber: 3.7 Consensus size: 10
44026752 AAATATAATA
44026762 ATATTTATAT
1 ATATTTATAT
44026772 ATATTATATAAT
1 ATATT-TAT-AT
44026784 AATATTTATAT
1 -ATATTTATAT
44026795 ATATTTA
1 ATATTTA
44026802 AATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 12 0.44
11 5 0.19
12 5 0.19
13 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATATTTATAT
Found at i:44026780 original size:33 final size:32
Alignment explanation
Indices: 44026743--44026816 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 32
44026733 TTATAATTTA
*
44026743 TATATTATAAAATATAATA-ATATTTATATATAT
1 TATATTATAAAAT-TAATATATATTTAAAT-TAT
* * *
44026776 TATATAATAATATTTATATATATTTAAATTAT
1 TATATTATAAAATTAATATATATTTAAATTAT
44026808 TATTATTAT
1 TA-TATTAT
44026817 TATTGATTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 9 0.26
33 25 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TATATTATAAAATTAATATATATTTAAATTAT
Found at i:44026794 original size:14 final size:13
Alignment explanation
Indices: 44026754--44026795 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
44026744 ATATTATAAA
44026754 ATATAATAATATT
1 ATATAATAATATT
44026767 -TAT-AT-ATATT
1 ATATAATAATATT
44026777 ATATAATAATATTT
1 ATATAATAATA-TT
44026791 ATATA
1 ATATA
44026796 TATTTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 5 0.20
11 5 0.20
12 5 0.20
13 3 0.12
14 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATAATAATATT
Found at i:44026813 original size:21 final size:23
Alignment explanation
Indices: 44026754--44026799 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44026744 ATATTATAAA
44026754 ATATAATAATATTTATATATATT
1 ATATAATAATATTTATATATATT
44026777 ATATAATAATATTTATATATATT
1 ATATAATAATATTTATATATATT
44026800 TAAATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATAATAATATTTATATATATT
Found at i:44029996 original size:30 final size:31
Alignment explanation
Indices: 44029928--44030000 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
44029918 CAAACTGAAA
* *
44029928 AAACTCAAGTACCAAAATAAATATCGAAGCT
1 AAACTCAAGTATCAAAATAAATATCAAAGCT
* *
44029959 AAACTCAAGTATCAAAGTAAATATTAAAGC-
1 AAACTCAAGTATCAAAATAAATATCAAAGCT
*
44029989 CAACTCAAGTAT
1 AAACTCAAGTAT
44030001 TAAATTAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 11 0.30
31 26 0.70
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.22
Consensus pattern (31 bp):
AAACTCAAGTATCAAAATAAATATCAAAGCT
Found at i:44032516 original size:17 final size:17
Alignment explanation
Indices: 44032491--44032523 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44032481 TCTCTTTTTT
*
44032491 TTTCTTTTAAATTATTG
1 TTTCATTTAAATTATTG
44032508 TTTCATTTAAATTATT
1 TTTCATTTAAATTATT
44032524 TGTCTCATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTCATTTAAATTATTG
Found at i:44032531 original size:18 final size:17
Alignment explanation
Indices: 44032496--44032531 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44032486 TTTTTTTTCT
*
44032496 TTTAAATTATTGTTTCA
1 TTTAAATTATTGTCTCA
44032513 TTTAAATTATTTGTCTCA
1 TTTAAATTA-TTGTCTCA
44032531 T
1 T
44032532 CTCCACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTAAATTATTGTCTCA
Found at i:44032691 original size:12 final size:14
Alignment explanation
Indices: 44032662--44032690 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44032652 CATGCATGAG
44032662 AAATATAAAGATAA
1 AAATATAAAGATAA
44032676 AAATA-AAAGATAA
1 AAATATAAAGATAA
44032689 AA
1 AA
44032691 TGGAGAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (14 bp):
AAATATAAAGATAA
Found at i:44041185 original size:7 final size:7
Alignment explanation
Indices: 44041162--44041214 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
44041152 AGGCAACCCA
44041162 ATTT-TT
1 ATTTATT
44041168 ATTT-TT
1 ATTTATT
*
44041174 GTTTATT
1 ATTTATT
44041181 ATTTATTT
1 ATTTA-TT
44041189 ATTTA-T
1 ATTTATT
44041195 -TTTATT
1 ATTTATT
44041201 ATTTATT
1 ATTTATT
*
44041208 ACTTATT
1 ATTTATT
44041215 TGGATATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
5 4 0.10
6 11 0.28
7 18 0.45
8 7 0.17
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (7 bp):
ATTTATT
Found at i:44041200 original size:20 final size:21
Alignment explanation
Indices: 44041165--44041207 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
44041155 CAACCCAATT
*
44041165 TTTATTTTTGTTTATTATTTA
1 TTTATTTATGTTTATTATTTA
44041186 TTTATTTAT-TTTATTATTTA
1 TTTATTTATGTTTATTATTTA
44041206 TT
1 TT
44041208 ACTTATTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTATTTATGTTTATTATTTA
Found at i:44041409 original size:22 final size:21
Alignment explanation
Indices: 44041362--44041416 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
44041352 GCCTAGAATG
* *
44041362 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCC-AACCACCCTATC
*
44041384 CCTGCAGCCAACCACTCTTATC
1 CCTGCAGCCAACCAC-CCTATC
*
44041406 CCTGCACCCAA
1 CCTGCAGCCAA
44041417 GCATCACCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.25, C:0.45, G:0.09, T:0.20
Consensus pattern (21 bp):
CCTGCAGCCAACCACCCTATC
Found at i:44042551 original size:19 final size:18
Alignment explanation
Indices: 44042529--44042570 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
44042519 TTCCTAAAGC
44042529 ATAAAAATATAAATAATAA
1 ATAAAAATATAAA-AATAA
*
44042548 AT--AAATATCAAAATAA
1 ATAAAAATATAAAAATAA
44042564 ATAAAAA
1 ATAAAAA
44042571 AGAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 3 0.15
19 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAAATATAAAAATAA
Found at i:44042564 original size:16 final size:17
Alignment explanation
Indices: 44042533--44042568 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
44042523 TAAAGCATAA
44042533 AAATATAAATAATAAAT
1 AAATATAAATAATAAAT
*
44042550 AAATATCAA-AATAAAT
1 AAATATAAATAATAAAT
44042566 AAA
1 AAA
44042569 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATATAAATAATAAAT
Found at i:44043174 original size:15 final size:15
Alignment explanation
Indices: 44043149--44043183 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44043139 GACTCTATTT
*
44043149 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
44043163 TAATTAATATTAAGA
1 TAATTAATATTAAGA
44043178 TAATTA
1 TAATTA
44043184 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:44046618 original size:43 final size:43
Alignment explanation
Indices: 44046513--44046618 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 43
44046503 TGTGTTTTCC
* * * * * *
44046513 TGTAAGACCACGTCTGGGACATTGGCATCGACCTGTGTTTACG
1 TGTAAGACCACGTCTGGGATAGTGACATCGACATGTGATTACA
** **
44046556 TGTAAGACCTTGTCTGGGATAGTGACATCGGTATGTGATTACA
1 TGTAAGACCACGTCTGGGATAGTGACATCGACATGTGATTACA
*
44046599 TGTAAGACCACGTTTGGGAT
1 TGTAAGACCACGTCTGGGAT
44046619 GTTGGCATTG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATAGTGACATCGACATGTGATTACA
Found at i:44049650 original size:25 final size:25
Alignment explanation
Indices: 44049592--44049651 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
44049582 TTTTATCAAG
* *
44049592 GGTAAAATCGTCAAAATTTTATGGG
1 GGTAAAATTGTCAAAATTTTATGGA
* *
44049617 GGTAAAATTGTCAAATTTTTATTGA
1 GGTAAAATTGTCAAAATTTTATGGA
44049642 GGTAAAATTG
1 GGTAAAATTG
44049652 GGGTGAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (25 bp):
GGTAAAATTGTCAAAATTTTATGGA
Found at i:44056544 original size:64 final size:64
Alignment explanation
Indices: 44056466--44056609 Score: 225
Period size: 64 Copynumber: 2.2 Consensus size: 64
44056456 ACGAATATAC
* *
44056466 ATTGCTGAATTGAATTGTATAGGTATACACCTATTACCGAATTGAAATGTATATATATACTTAT
1 ATTGCCGAATTGAATTGTATAGGTATACACCTATTACCGAATTGAAATATATATATATACTTAT
* * * * *
44056530 ATTGCCGAAATGAATTGTATAGGTATGCACCTATTGCCGAATTGAATTATATATGTATACTTAT
1 ATTGCCGAATTGAATTGTATAGGTATACACCTATTACCGAATTGAAATATATATATATACTTAT
44056594 ATTGCCGAATTGAATT
1 ATTGCCGAATTGAATT
44056610 TTATTTGTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 72 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (64 bp):
ATTGCCGAATTGAATTGTATAGGTATACACCTATTACCGAATTGAAATATATATATATACTTAT
Found at i:44056619 original size:32 final size:32
Alignment explanation
Indices: 44056382--44056630 Score: 163
Period size: 32 Copynumber: 8.0 Consensus size: 32
44056372 TGTTTGTTTT
* * * *
44056382 GAATTGAAATGTATATGT-T-TTATATATTACT
1 GAATTGAATTGTATATGTATACT-TATATTGCC
* * * *
44056413 GAATTGATTTATATATG-ATA-TT-TATAGTC
1 GAATTGAATTGTATATGTATACTTATATTGCC
* * * * *
44056442 GAATTGATTTGTATACGAATA--TACATTGCT
1 GAATTGAATTGTATATGTATACTTATATTGCC
* *** *
44056472 GAATTGAATTGTATAGGTATACACCTATTACC
1 GAATTGAATTGTATATGTATACTTATATTGCC
* *
44056504 GAATTGAAATGTATATATATACTTATATTGCC
1 GAATTGAATTGTATATGTATACTTATATTGCC
* * * ***
44056536 GAAATGAATTGTATAGGTATGCACCTATTGCC
1 GAATTGAATTGTATATGTATACTTATATTGCC
*
44056568 GAATTGAATTATATATGTATACTTATATTGCC
1 GAATTGAATTGTATATGTATACTTATATTGCC
* *
44056600 GAATTGAATTTTATTTGTATA-TATATATTGC
1 GAATTGAATTGTATATGTATACT-TATATTGC
44056631 TGATTTGATT
Statistics
Matches: 166, Mismatches: 45, Indels: 13
0.74 0.20 0.06
Matches are distributed among these distances:
29 19 0.11
30 25 0.15
31 17 0.10
32 105 0.63
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (32 bp):
GAATTGAATTGTATATGTATACTTATATTGCC
Found at i:44056817 original size:41 final size:41
Alignment explanation
Indices: 44056769--44056854 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
44056759 TGATTTTGTG
44056769 TAAGACCATATCTGGGACATTAGCATCATGTATGATTCGTA
1 TAAGACCATATCTGGGACATTAGCATCATGTATGATTCGTA
* *
44056810 TAAGACCATGTCTGGGACATTAGCATCGTGTATGATTCGTA
1 TAAGACCATATCTGGGACATTAGCATCATGTATGATTCGTA
44056851 TAAG
1 TAAG
44056855 GCCCTGTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (41 bp):
TAAGACCATATCTGGGACATTAGCATCATGTATGATTCGTA
Found at i:44056867 original size:41 final size:41
Alignment explanation
Indices: 44056769--44056867 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
44056759 TGATTTTGTG
* *
44056769 TAAGACCATATCTGGGACATTAGCATCATGTATGATTCGTA
1 TAAGACCATGTATGGGACATTAGCATCATGTATGATTCGTA
* *
44056810 TAAGACCATGTCTGGGACATTAGCATCGTGTATGATTCGTA
1 TAAGACCATGTATGGGACATTAGCATCATGTATGATTCGTA
* *
44056851 TAAGGCCCTGTATGGGA
1 TAAGACCATGTATGGGA
44056868 TAGTGGCATC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (41 bp):
TAAGACCATGTATGGGACATTAGCATCATGTATGATTCGTA
Found at i:44057672 original size:16 final size:17
Alignment explanation
Indices: 44057651--44057683 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44057641 TTGAGCAAGT
*
44057651 AAAATG-TGTTTGGTTA
1 AAAATGTTGTTTAGTTA
44057667 AAAATGTTGTTTAGTTA
1 AAAATGTTGTTTAGTTA
44057684 CGAAATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (17 bp):
AAAATGTTGTTTAGTTA
Found at i:44065125 original size:40 final size:40
Alignment explanation
Indices: 44065064--44065196 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 40
44065054 CGAAAGTTGC
* *
44065064 GCCCAGCACTAGTCGGGTAAACCGACAAATATAATGGTGT
1 GCCCAGCACTAGTCAGATAAACCGACAAATATAATGGTGT
* **
44065104 GCCCAGCACTAGTCAGATAAACTGACAAAGGT--T-GTG-
1 GCCCAGCACTAGTCAGATAAACCGACAAATATAATGGTGT
* *
44065140 G-CCAGCGCTAGTCAGGTAAACCGACAAATATAATGGTGT
1 GCCCAGCACTAGTCAGATAAACCGACAAATATAATGGTGT
* *
44065179 GTCCAGCACTAGTTAGAT
1 GCCCAGCACTAGTCAGAT
44065197 GTACCAATGA
Statistics
Matches: 75, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 25 0.33
36 1 0.01
37 4 0.05
38 4 0.05
39 1 0.01
40 40 0.53
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (40 bp):
GCCCAGCACTAGTCAGATAAACCGACAAATATAATGGTGT
Found at i:44065145 original size:75 final size:75
Alignment explanation
Indices: 44065025--44065196 Score: 256
Period size: 75 Copynumber: 2.3 Consensus size: 75
44065015 GTATAAAAAA
* * *
44065025 GTGTGCCCAGCACTAGTCAGGTAAATTGACGAAAGTTGCGCCCAGCACTAGTCGGGTAAACCGAC
1 GTGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTGCGCCCAGCACTAGTCAGGTAAACCGAC
44065090 AAATATAATG
66 AAATATAATG
* * *
44065100 GTGTGCCCAGCACTAGTCAGATAAACTGAC-AAAGGTTGTGGCCAGCGCTAGTCAGGTAAACCGA
1 GTGTGCCCAGCACTAGTCAGATAAACTGACGAAA-GTTGCGCCCAGCACTAGTCAGGTAAACCGA
44065164 CAAATATAATG
65 CAAATATAATG
* *
44065175 GTGTGTCCAGCACTAGTTAGAT
1 GTGTGCCCAGCACTAGTCAGAT
44065197 GTACCAATGA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 3 0.03
75 85 0.97
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (75 bp):
GTGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTGCGCCCAGCACTAGTCAGGTAAACCGAC
AAATATAATG
Found at i:44065152 original size:35 final size:35
Alignment explanation
Indices: 44065026--44065167 Score: 117
Period size: 35 Copynumber: 3.9 Consensus size: 35
44065016 TATAAAAAAG
* **
44065026 TGTGCCCAGCACTAGTCAGGTAAATTGACGAAA-GT
1 TGTGCCCAGCACTAGTCAGATAAACCGAC-AAAGGT
* * *
44065061 TGCGCCCAGCACTAGTCGGGTAAACCGACAAATATAATGG-
1 TGTGCCCAGCACTAGTCAGATAAACCGAC----A-AA-GGT
*
44065101 TGTGCCCAGCACTAGTCAGATAAACTGACAAAGGT
1 TGTGCCCAGCACTAGTCAGATAAACCGACAAAGGT
* * *
44065136 TGTGGCCAGCGCTAGTCAGGTAAACCGACAAA
1 TGTGCCCAGCACTAGTCAGATAAACCGACAAA
44065168 TATAATGGTG
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
34 2 0.02
35 55 0.63
36 1 0.01
38 1 0.01
39 2 0.02
40 25 0.29
41 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.19
Consensus pattern (35 bp):
TGTGCCCAGCACTAGTCAGATAAACCGACAAAGGT
Found at i:44065245 original size:75 final size:76
Alignment explanation
Indices: 44065025--44065242 Score: 217
Period size: 75 Copynumber: 2.9 Consensus size: 76
44065015 GTATAAAAAA
* *** * * * *
44065025 GTGTGCCCAGCACTAGTCAGGTAAATTGACGAA-AGTTGCGCCCAGCACTAGTCGGGTAAACCGA
1 GTGTGCCCAGCACTAGTCAGATAAACCAACAAAGAGTTGCGCCCAGCGCTAGTTGAGTAAACCGA
44065089 CAAATATAATG
66 CAAATATAATG
** * * *
44065100 GTGTGCCCAGCACTAGTCAGATAAACTGACAAAG-GTTGTGGCCAGCGCTAG-TCAGGTAAACCG
1 GTGTGCCCAGCACTAGTCAGATAAACCAACAAAGAGTTGCGCCCAGCGCTAGTTGA-GTAAACCG
44065163 ACAAATATAATG
65 ACAAATATAATG
* * ** ** * *
44065175 GTGTGTCCAGCACTAGTTAGATGTACCAATGATGAGTTGCGCCCAACGCTAGTTGAGTAAACCGA
1 GTGTGCCCAGCACTAGTCAGATAAACCAACAAAGAGTTGCGCCCAGCGCTAGTTGAGTAAACCGA
44065240 CAA
66 CAA
44065243 TATCGATTGC
Statistics
Matches: 117, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
75 89 0.76
76 26 0.22
77 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (76 bp):
GTGTGCCCAGCACTAGTCAGATAAACCAACAAAGAGTTGCGCCCAGCGCTAGTTGAGTAAACCGA
CAAATATAATG
Found at i:44065615 original size:35 final size:35
Alignment explanation
Indices: 44065569--44065650 Score: 155
Period size: 35 Copynumber: 2.3 Consensus size: 35
44065559 CCGACCCGGT
44065569 CCGAAATATGGGAGGGTTCAGGTAAAAATACAGGC
1 CCGAAATATGGGAGGGTTCAGGTAAAAATACAGGC
*
44065604 CCGAAATATGGGAGGGTTCAGGTAAAAATATAGGC
1 CCGAAATATGGGAGGGTTCAGGTAAAAATACAGGC
44065639 CCGAAATATGGG
1 CCGAAATATGGG
44065651 TTTGGGCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.32, T:0.18
Consensus pattern (35 bp):
CCGAAATATGGGAGGGTTCAGGTAAAAATACAGGC
Found at i:44068400 original size:18 final size:18
Alignment explanation
Indices: 44068360--44068403 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
44068350 AAGGAATATA
*
44068360 ATAATAATAATCATCATT
1 ATAATAATAATCATCAAT
*
44068378 ATAATAATAA-CATTAAT
1 ATAATAATAATCATCAAT
44068395 ATTAATAAT
1 A-TAATAAT
44068404 CAAATCATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATAATAATCATCAAT
Found at i:44068559 original size:29 final size:27
Alignment explanation
Indices: 44068518--44068575 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
44068508 TAATAAAAGA
44068518 AATAATAAAATAA-AGA-GAATAATAAAT
1 AATAATAAAATAATA-ACG-ATAATAAAT
44068545 AATAATAAAATATAATAACGATAATAAAT
1 AATAAT-AAA-ATAATAACGATAATAAAT
44068574 AA
1 AA
44068576 AAAAATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 6 0.22
28 3 0.11
29 16 0.59
30 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (27 bp):
AATAATAAAATAATAACGATAATAAAT
Found at i:44068676 original size:15 final size:15
Alignment explanation
Indices: 44068644--44068682 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
44068634 AGTAATACAT
44068644 AAATATAAATAGATAA
1 AAATA-AAATAGATAA
44068660 AAATAAAATA-ATAAA
1 AAATAAAATAGAT-AA
44068675 AAATAAAA
1 AAATAAAA
44068683 CAAATAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAAAATAGATAA
Found at i:44068800 original size:18 final size:18
Alignment explanation
Indices: 44068777--44068813 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
44068767 ATAAGTAAAT
44068777 AAATAAATAAAAGAATTA
1 AAATAAATAAAAGAATTA
*
44068795 AAATAAATAAAAGACTTA
1 AAATAAATAAAAGAATTA
44068813 A
1 A
44068814 TCATAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (18 bp):
AAATAAATAAAAGAATTA
Found at i:44070281 original size:26 final size:24
Alignment explanation
Indices: 44070252--44070308 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
44070242 CGGTTATAAT
* *
44070252 ATTTTGGTTTTATTTGATTTATCTAA
1 ATTTTGGTTTAATATG-TTT-TCTAA
* *
44070278 ATTTGGGTTTAATATGTTTTGTAA
1 ATTTTGGTTTAATATGTTTTCTAA
44070302 ATTTTGG
1 ATTTTGG
44070309 ACTGTTTTCG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 10 0.38
25 3 0.12
26 13 0.50
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.58
Consensus pattern (24 bp):
ATTTTGGTTTAATATGTTTTCTAA
Found at i:44071644 original size:18 final size:20
Alignment explanation
Indices: 44071607--44071656 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
44071597 TAAAATATAA
*
44071607 ATTTTGGAATTTTCATAAA-T
1 ATTTT-GAATTTTCAAAAATT
44071627 ATTTTGAATTTT-AAAAATT
1 ATTTTGAATTTTCAAAAATT
44071646 ATTTTG-ATTTT
1 ATTTTGAATTTT
44071657 TTTTCGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.32
19 14 0.50
20 5 0.18
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTCAAAAATT
Found at i:44075222 original size:30 final size:29
Alignment explanation
Indices: 44075188--44075244 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
44075178 CTTTGCTTAC
* *
44075188 TTTTTTTATATTGGTATGTATGTATCATTA
1 TTTTTATATATTGATATGTAT-TATCATTA
* *
44075218 TTTTTATATTTTTATATGTATTATCAT
1 TTTTTATATATTGATATGTATTATCAT
44075245 GTCAAACTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 6 0.26
30 17 0.74
ACGTcount: A:0.25, C:0.04, G:0.09, T:0.63
Consensus pattern (29 bp):
TTTTTATATATTGATATGTATTATCATTA
Found at i:44078832 original size:30 final size:33
Alignment explanation
Indices: 44078788--44078849 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 33
44078778 AAAAAATCCT
*
44078788 TATAACTTTTTAGTAA-TTTTT-TAATATTTTC
1 TATAACTTTCTAGTAATTTTTTATAATATTTTC
44078819 TATAA-TTTCTAGTAATTTTTTATAATATTTT
1 TATAACTTTCTAGTAATTTTTTATAATATTTT
44078850 AAAAATTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 9 0.32
31 10 0.36
32 9 0.32
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (33 bp):
TATAACTTTCTAGTAATTTTTTATAATATTTTC
Found at i:44078888 original size:25 final size:26
Alignment explanation
Indices: 44078846--44078904 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
44078836 TTTTATAATA
*
44078846 TTTTAAAAATTACAAATTTCATATTT
1 TTTTAAAAATTACAAATTTCAAATTT
* * *
44078872 TTTTTAAAATTA-GAATTTTAAA-TT
1 TTTTAAAAATTACAAATTTCAAATTT
44078896 TTTTAAAAA
1 TTTTAAAAA
44078905 GAATTTTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 10 0.36
25 7 0.25
26 11 0.39
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (26 bp):
TTTTAAAAATTACAAATTTCAAATTT
Found at i:44078912 original size:22 final size:23
Alignment explanation
Indices: 44078871--44078922 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
44078861 ATTTCATATT
44078871 TTTTTTAAAATTAGAATTTTA-AA
1 TTTTTTAAAA-TAGAATTTTAGAA
*
44078894 TTTTTTAAAA-AGAATTTTTAGAG
1 TTTTTTAAAATAGAA-TTTTAGAA
44078917 TTTTTT
1 TTTTTT
44078923 GTTAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 17 0.65
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (23 bp):
TTTTTTAAAATAGAATTTTAGAA
Found at i:44081782 original size:23 final size:22
Alignment explanation
Indices: 44081756--44081815 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
44081746 TACTTTTTTG
44081756 CTGTTGTTTTCTGCGTT-TGTTGT
1 CTGTTGTTTTCTGCGTTGTG-T-T
* *
44081779 CTGTTGTTGTGTGCGTTGTGTT
1 CTGTTGTTTTCTGCGTTGTGTT
44081801 CAT-TTGTTTTCTGCG
1 C-TGTTGTTTTCTGCG
44081816 CAGGTACATG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 12 0.39
23 17 0.55
24 2 0.06
ACGTcount: A:0.02, C:0.13, G:0.28, T:0.57
Consensus pattern (22 bp):
CTGTTGTTTTCTGCGTTGTGTT
Found at i:44081815 original size:22 final size:23
Alignment explanation
Indices: 44081756--44081815 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
44081746 TACTTTTTTG
44081756 CTGTTGTTTTCTGCGTTTGTTGT
1 CTGTTGTTTTCTGCGTTTGTTGT
* *
44081779 CTGTTGTTGTGTGCG-TTG-TGTT
1 CTGTTGTTTTCTGCGTTTGTTG-T
44081801 CAT-TTGTTTTCTGCG
1 C-TGTTGTTTTCTGCG
44081816 CAGGTACATG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 2 0.06
22 15 0.48
23 14 0.45
ACGTcount: A:0.02, C:0.13, G:0.28, T:0.57
Consensus pattern (23 bp):
CTGTTGTTTTCTGCGTTTGTTGT
Found at i:44082834 original size:87 final size:87
Alignment explanation
Indices: 44082700--44083117 Score: 658
Period size: 87 Copynumber: 4.8 Consensus size: 87
44082690 GCTAGTGCTT
* * *
44082700 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAATGCTTCATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
*
44082765 CGATCTGCTTCGCTGTTAATAC
66 CGATCTGCTTCGCTGTTAATGC
* * * * * *
44082787 AGGAAGGAAAAATATGCTATCTTTAACCAACTCTACTGCAACTGATGGAGGCAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
*
44082852 CGATCTGCTTCGCTGTTAATGT
66 CGATCTGCTTCGCTGTTAATGC
* * * *
44082874 AGAAAGGCAATATCTGCTATCTTTAACCAGCTTCACTGCAACCGATGGAGGCAAGGCTTCATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
44082939 CGATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAATGC
*
44082961 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
*
44083026 CTATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAATGC
* *
44083048 AGGAAAGCAAGATCTGCTATCTTTAACCAGC-CCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
44083112 CGATCT
66 CGATCT
44083118 TCACTAATCT
Statistics
Matches: 300, Mismatches: 31, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
86 36 0.12
87 264 0.88
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
CGATCTGCTTCGCTGTTAATGC
Found at i:44084358 original size:21 final size:22
Alignment explanation
Indices: 44084334--44084387 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
44084324 TTAGCCTCTC
44084334 CATTTTTACT-ATT-TCATTTTT
1 CATTTTT-CTCATTCTCATTTTT
*
44084355 CATTTTTTTCATTCTCATTTTT
1 CATTTTTCTCATTCTCATTTTT
44084377 CATTTTCTCTC
1 CATTTT-TCTC
44084388 TCTCTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 10 0.36
22 14 0.50
23 3 0.11
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (22 bp):
CATTTTTCTCATTCTCATTTTT
Found at i:44084391 original size:21 final size:21
Alignment explanation
Indices: 44084334--44084397 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
44084324 TTAGCCTCTC
*
44084334 CATTTTTACT-ATTTCATTTTT
1 CATTTTT-CTCATCTCATTTTT
*
44084355 CATTTTTTTCATTCTCATTTTT
1 CATTTTTCTCA-TCTCATTTTT
*
44084377 CATTTTCTCTC-TCTCTTTTTT
1 CATTTT-TCTCATCTCATTTTT
44084398 TTTTTGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.03
21 17 0.47
22 15 0.42
23 3 0.08
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.67
Consensus pattern (21 bp):
CATTTTTCTCATCTCATTTTT
Found at i:44084794 original size:26 final size:25
Alignment explanation
Indices: 44084750--44084819 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
44084740 ACTTTGATTG
* * * *
44084750 ATTTCTCTTTTTTGCTTTTGATTTT
1 ATTTTTCTTTTTCGTTTTTTATTTT
44084775 -TCTTTTCTTTTTCGTTTTTTATTTT
1 AT-TTTTCTTTTTCGTTTTTTATTTT
*
44084800 GATTTTTCTTTTTTGTTTTT
1 -ATTTTTCTTTTTCGTTTTT
44084820 GAATCTGAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 19 0.51
26 16 0.43
27 1 0.03
ACGTcount: A:0.06, C:0.10, G:0.07, T:0.77
Consensus pattern (25 bp):
ATTTTTCTTTTTCGTTTTTTATTTT
Found at i:44084821 original size:20 final size:20
Alignment explanation
Indices: 44084782--44084818 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
44084772 TTTTCTTTTC
44084782 TTTTTCGTTTTTTATTTTGA
1 TTTTTCGTTTTTTATTTTGA
*
44084802 TTTTTC-TTTTTTGTTTT
1 TTTTTCGTTTTTTATTTT
44084819 TGAATCTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.05, C:0.05, G:0.08, T:0.81
Consensus pattern (20 bp):
TTTTTCGTTTTTTATTTTGA
Found at i:44086229 original size:39 final size:37
Alignment explanation
Indices: 44086162--44086254 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
44086152 ACCAATATGG
* *
44086162 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
44086201 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
44086238 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
44086255 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:44086467 original size:23 final size:24
Alignment explanation
Indices: 44086423--44086468 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
44086413 TTTCTCACAT
* **
44086423 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
44086447 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
44086469 AATTCATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:44086616 original size:3 final size:3
Alignment explanation
Indices: 44086608--44086653 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
44086598 CCACTCATTT
* *
44086608 TAA TAA TAA TGA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
44086654 GCTAATATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:44086960 original size:24 final size:23
Alignment explanation
Indices: 44086920--44086966 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
44086910 CTCAATTTAA
44086920 TCCTAACTAAATTCACT-TATTT
1 TCCTAACTAAATTCACTCTATTT
*
44086942 TCCTAACTCAATTCACACTCTATTT
1 TCCTAACTAAATT--CACTCTATTT
44086967 CTATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
24 4 0.19
25 5 0.24
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.43
Consensus pattern (23 bp):
TCCTAACTAAATTCACTCTATTT
Found at i:44087384 original size:17 final size:17
Alignment explanation
Indices: 44087364--44087403 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
44087354 TTTCCTATTC
*
44087364 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
44087381 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
44087398 TAGTTT
1 T-GTTT
44087404 ATGTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.75
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:44087447 original size:16 final size:17
Alignment explanation
Indices: 44087419--44087450 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44087409 TTGTTTATTA
44087419 TTTAATAAATATAATAC
1 TTTAATAAATATAATAC
44087436 TTTAAT-AATATAATA
1 TTTAATAAATATAATA
44087451 TAATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAATAAATATAATAC
Done.