Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 10 of 205
Found at i:2825940 original size:20 final size:20
Alignment explanation
Indices: 2825904--2825945 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2825894 AACGATTTAA
* *
2825904 ATAATATTATTTGAATAGTT
1 ATAATATTAATTGAATAATT
2825924 ATAATATTAAATT-AATAATT
1 ATAATATT-AATTGAATAATT
2825944 AT
1 AT
2825946 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
ATAATATTAATTGAATAATT
Found at i:2826404 original size:16 final size:16
Alignment explanation
Indices: 2826383--2826416 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2826373 TACTTAAAAG
2826383 TTAAAACTAATTGTTA
1 TTAAAACTAATTGTTA
*
2826399 TTAAAATTAATTGTTA
1 TTAAAACTAATTGTTA
2826415 TT
1 TT
2826417 GAATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTAAAACTAATTGTTA
Found at i:2826572 original size:76 final size:76
Alignment explanation
Indices: 2826488--2826646 Score: 318
Period size: 76 Copynumber: 2.1 Consensus size: 76
2826478 AAGATTACTT
2826488 ATTTGAATTTAATTACAAACAATCAAATCTTAAAAATAAAAAATGATTATAATATACAAGTAATT
1 ATTTGAATTTAATTACAAACAATCAAATCTTAAAAATAAAAAATGATTATAATATACAAGTAATT
2826553 ACAAACAATTA
66 ACAAACAATTA
2826564 ATTTGAATTTAATTACAAACAATCAAATCTTAAAAATAAAAAATGATTATAATATACAAGTAATT
1 ATTTGAATTTAATTACAAACAATCAAATCTTAAAAATAAAAAATGATTATAATATACAAGTAATT
2826629 ACAAACAATTA
66 ACAAACAATTA
2826640 ATTTGAA
1 ATTTGAA
2826647 AATAAAAAAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 83 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (76 bp):
ATTTGAATTTAATTACAAACAATCAAATCTTAAAAATAAAAAATGATTATAATATACAAGTAATT
ACAAACAATTA
Found at i:2826673 original size:50 final size:50
Alignment explanation
Indices: 2826573--2826688 Score: 171
Period size: 50 Copynumber: 2.3 Consensus size: 50
2826563 AATTTGAATT
* *
2826573 TAATTACAAACAATCAAATCTTAAAAATAAAAAATGATTATAATATACAAG
1 TAATTACAAACAAT-TAATCTTAAAAATAAAAAATGATTATAATACACAAG
* *
2826624 TAATTACAAACAATTAAT-TTGAAAATAAAAAAATGATTATAATGCACAAG
1 TAATTACAAACAATTAATCTTAAAAAT-AAAAAATGATTATAATACACAAG
2826674 TAATTACAAACAATT
1 TAATTACAAACAATT
2826689 CTGGCAAACC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 7 0.12
50 39 0.65
51 14 0.23
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.28
Consensus pattern (50 bp):
TAATTACAAACAATTAATCTTAAAAATAAAAAATGATTATAATACACAAG
Found at i:2828019 original size:8 final size:8
Alignment explanation
Indices: 2828008--2828039 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
2827998 TGAAGCACCA
2828008 TGGAGTCG
1 TGGAGTCG
2828016 TGGAGTCG
1 TGGAGTCG
2828024 TGGA--CG
1 TGGAGTCG
2828030 TGGAGTCG
1 TGGAGTCG
2828038 TG
1 TG
2828040 AATCGGTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.27
8 16 0.73
ACGTcount: A:0.12, C:0.12, G:0.50, T:0.25
Consensus pattern (8 bp):
TGGAGTCG
Found at i:2828036 original size:22 final size:22
Alignment explanation
Indices: 2828008--2828057 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2827998 TGAAGCACCA
*
2828008 TGGAGTCGTGGAGTC-GTGGACG
1 TGGAGTCGT-GAATCGGTGGACG
*
2828030 TGGAGTCGTGAATCGGTGGAGG
1 TGGAGTCGTGAATCGGTGGACG
2828052 TGGAGT
1 TGGAGT
2828058 TGGATCCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.16, C:0.10, G:0.50, T:0.24
Consensus pattern (22 bp):
TGGAGTCGTGAATCGGTGGACG
Found at i:2828127 original size:7 final size:7
Alignment explanation
Indices: 2828117--2828156 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
2828107 TGGGGACGGG
2828117 GGGAAAT
1 GGGAAAT
2828124 GGGAAA-
1 GGGAAAT
2828130 GGG-AA-
1 GGGAAAT
2828135 GGGAAAT
1 GGGAAAT
2828142 GGGAAAT
1 GGGAAAT
2828149 GGGAAAT
1 GGGAAAT
2828156 G
1 G
2828157 TATTAATGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 5 0.16
7 21 0.68
ACGTcount: A:0.42, C:0.00, G:0.47, T:0.10
Consensus pattern (7 bp):
GGGAAAT
Found at i:2828140 original size:18 final size:19
Alignment explanation
Indices: 2828117--2828153 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
2828107 TGGGGACGGG
2828117 GGGAAATGGGAAA-GGGAA
1 GGGAAATGGGAAATGGGAA
2828135 GGGAAATGGGAAATGGGAA
1 GGGAAATGGGAAATGGGAA
2828154 ATGTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.49, T:0.08
Consensus pattern (19 bp):
GGGAAATGGGAAATGGGAA
Found at i:2829651 original size:5 final size:5
Alignment explanation
Indices: 2829641--2829680 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
2829631 ATAAGTAAGT
*
2829641 TATTA TATTA TATTA TTATAA TATTA TATTA TTATTA TAT
1 TATTA TATTA TATTA -TATTA TATTA TATTA -TATTA TAT
2829681 ACATAAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:2829657 original size:8 final size:8
Alignment explanation
Indices: 2829646--2829675 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2829636 TAAGTTATTA
2829646 TATTATAT
1 TATTATAT
*
2829654 TATTATAA
1 TATTATAT
2829662 TATTATAT
1 TATTATAT
2829670 TATTAT
1 TATTAT
2829676 TATATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:2829664 original size:16 final size:16
Alignment explanation
Indices: 2829640--2829680 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
2829630 AATAAGTAAG
2829640 TTATTATATTATATTA
1 TTATTATATTATATTA
*
2829656 TTATAATATTATATTA
1 TTATTATATTATATTA
2829672 TTATTATAT
1 TTATTATAT
2829681 ACATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:2830817 original size:22 final size:22
Alignment explanation
Indices: 2830789--2830839 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
2830779 TCTCTGATTA
**
2830789 TTAGCACATTGGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
2830811 TTAGCACATCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
*
2830833 ATAGCAC
1 TTAGCAC
2830840 TTTAATGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:2830848 original size:22 final size:22
Alignment explanation
Indices: 2830801--2830854 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
2830791 AGCACATTGG
* *
2830801 TGCTCTCTGTTTAGCACATCAG
1 TGCTCTCTGTATAGCACATCAA
* *
2830823 TGCTCTCTGTATAGCACTTTAA
1 TGCTCTCTGTATAGCACATCAA
*
2830845 TGCTTTCTGT
1 TGCTCTCTGT
2830855 TCATTAGTGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (22 bp):
TGCTCTCTGTATAGCACATCAA
Found at i:2831014 original size:22 final size:22
Alignment explanation
Indices: 2830986--2831052 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
2830976 TCTCTGATTA
* *
2830986 TTAGCACGTTGGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
*
2831008 TTAGCACATCAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* *
2831030 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
2831052 T
1 T
2831053 CATTAGTGCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:2831056 original size:197 final size:197
Alignment explanation
Indices: 2830721--2831114 Score: 743
Period size: 197 Copynumber: 2.0 Consensus size: 197
2830711 TGCCCAAGTA
*
2830721 GATGGAATTTAGAACTACCAGGATATTAGTGGCATGCCATTAAGGAACTTTAGCGCGCTCTCTGA
1 GATGGAATTTAGAACTACCAGGATATTAGTGACATGCCATTAAGGAACTTTAGCGCGCTCTCTGA
*
2830786 TTATTAGCACATTGGTGCTCTCTGTTTAGCACATCAGTGCTCTCTGTATAGCACTTTAATGCTTT
66 TTATTAGCACATTGGTGCTCTCTGTTTAGCACATCAGTGCTCTCTGTATAGCACTTTAATGCTCT
*
2830851 CTGTTCATTAGTGCATACCAATGCACCTCTGTATTTGTTCCGTATATCCGATGTGTTCTATAAAA
131 CTGTTCATTAGTGCATACCAATGCACCTCTGTATTTGTTCCGTATATCCAATGTGTTCTATAAAA
2830916 TC
196 TC
2830918 GATGGAATTTAGAACTACCAGGATATTAGTGACATGCCATTAAGGAACTTTAGCGCGCTCTCTGA
1 GATGGAATTTAGAACTACCAGGATATTAGTGACATGCCATTAAGGAACTTTAGCGCGCTCTCTGA
* *
2830983 TTATTAGCACGTTGGTGCTCTCTGTTTAGCACATCAGTGCTCTCTGTATAGCACTTTAGTGCTCT
66 TTATTAGCACATTGGTGCTCTCTGTTTAGCACATCAGTGCTCTCTGTATAGCACTTTAATGCTCT
2831048 CTGTTCATTAGTGCATACCAATGCACCTCTGTATTTGTTCCGTATATCCAATGTGTTCTATAAAA
131 CTGTTCATTAGTGCATACCAATGCACCTCTGTATTTGTTCCGTATATCCAATGTGTTCTATAAAA
2831113 TC
196 TC
2831115 TACTTTGGGC
Statistics
Matches: 192, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
197 192 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (197 bp):
GATGGAATTTAGAACTACCAGGATATTAGTGACATGCCATTAAGGAACTTTAGCGCGCTCTCTGA
TTATTAGCACATTGGTGCTCTCTGTTTAGCACATCAGTGCTCTCTGTATAGCACTTTAATGCTCT
CTGTTCATTAGTGCATACCAATGCACCTCTGTATTTGTTCCGTATATCCAATGTGTTCTATAAAA
TC
Found at i:2838041 original size:18 final size:19
Alignment explanation
Indices: 2838004--2838052 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
2837994 TAAATTTGAT
*
2838004 AATTTATATATATATTTATA
1 AATTTATTTA-ATATTTATA
2838024 AATTTATTTAAT-TTTATA
1 AATTTATTTAATATTTATA
*
2838042 ATTTTATTTAA
1 AATTTATTTAA
2838053 AAATAGGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.59
19 2 0.07
20 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTATTTAATATTTATA
Found at i:2838309 original size:11 final size:11
Alignment explanation
Indices: 2838276--2838314 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
2838266 TTTTTCTCAT
2838276 AAAAATTAT-A
1 AAAAATTATAA
2838286 AAAAATTAGATAA
1 AAAAATT--ATAA
2838299 AAAAATTATAA
1 AAAAATTATAA
2838310 AAAAA
1 AAAAA
2838315 ATCAGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 7 0.27
11 9 0.35
12 2 0.08
13 8 0.31
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:2838323 original size:12 final size:12
Alignment explanation
Indices: 2838285--2838323 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2838275 TAAAAATTAT
2838285 AAAAAATTAGATA
1 AAAAAATTAGA-A
*
2838298 AAAAAATTATAA
1 AAAAAATTAGAA
*
2838310 AAAAAATCAGAA
1 AAAAAATTAGAA
2838322 AA
1 AA
2838324 CATTATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAAAATTAGAA
Found at i:2838323 original size:22 final size:21
Alignment explanation
Indices: 2838276--2838336 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
2838266 TTTTTCTCAT
2838276 AAAAATTATAAAAAATTAGATAA
1 AAAAATTATAAAAAA--AGATAA
2838299 AAAAATTATAAAAAAA-ATCAGA
1 AAAAATTATAAAAAAAGAT-A-A
* *
2838321 AAACATTATTAAAAAA
1 AAAAATTATAAAAAAA
2838337 TTAAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 15 0.44
23 15 0.44
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAAATTATAAAAAAAGATAA
Found at i:2838347 original size:15 final size:16
Alignment explanation
Indices: 2838327--2838357 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2838317 CAGAAAACAT
2838327 TATTAAAAA-ATTAAA
1 TATTAAAAATATTAAA
2838342 TATTAAAAATATTAAA
1 TATTAAAAATATTAAA
2838358 ATTGATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAAATATTAAA
Found at i:2838353 original size:9 final size:9
Alignment explanation
Indices: 2838327--2838512 Score: 64
Period size: 10 Copynumber: 20.3 Consensus size: 9
2838317 CAGAAAACAT
2838327 TATTAAAAA
1 TATTAAAAA
2838336 -ATT--AAA
1 TATTAAAAA
2838342 TATTAAAAA
1 TATTAAAAA
*
2838351 TATTAAAAT
1 TATTAAAAA
**
2838360 TGATATAAACT
1 T-AT-TAAAAA
2838371 TATT-AAAA
1 TATTAAAAA
*
2838379 -ATTATAAA
1 TATTAAAAA
2838387 TATATAAAAA
1 TAT-TAAAAA
* *
2838397 AACTTATAAA
1 TA-TTAAAAA
2838407 TATTATAAAA
1 TATTA-AAAA
*
2838417 TATAAAAAA
1 TATTAAAAA
* *
2838426 TTAATAAAATT
1 -TATTAAAA-A
*
2838437 TATTTAAAA
1 TATTAAAAA
*
2838446 TATTTAAAA
1 TATTAAAAA
*
2838455 TA--AAAATG
1 TATTAAAA-A
* *
2838463 TATTAGAAT
1 TATTAAAAA
*
2838472 TCTTTAAAAA
1 T-ATTAAAAA
*
2838482 TAATAAAAA
1 TATTAAAAA
2838491 T-TGTAAAAA
1 TAT-TAAAAA
*
2838500 AATATAAAAA
1 TAT-TAAAAA
2838510 TAT
1 TAT
2838513 ATTAAAAGCT
Statistics
Matches: 129, Mismatches: 30, Indels: 35
0.66 0.15 0.18
Matches are distributed among these distances:
6 3 0.02
7 9 0.07
8 10 0.08
9 47 0.36
10 53 0.41
11 7 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
TATTAAAAA
Found at i:2838386 original size:29 final size:29
Alignment explanation
Indices: 2838366--2838425 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
2838356 AAATTGATAT
2838366 AAACTTATTAAAAATTATAAATATATAAAA
1 AAACTTATTAAAAATTATAAA-ATATAAAA
*
2838396 AAACTTA-TAAATATTATAAAATATAAAA
1 AAACTTATTAAAAATTATAAAATATAAAA
2838424 AA
1 AA
2838426 TTAATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 10 0.34
29 12 0.41
30 7 0.24
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (29 bp):
AAACTTATTAAAAATTATAAAATATAAAA
Found at i:2839002 original size:60 final size:60
Alignment explanation
Indices: 2838937--2839052 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
2838927 TTTTATTATG
* * *
2838937 TTTTTTTAGTAATTTTTATAAGTTTATATAAA-TTTTAGATATATATTTATAATTTTAAAGA
1 TTTTTATAG-AATTTTAATAAGTTTATATAAATTTTTAAATATAT-TTTATAATTTTAAAGA
* * *
2838998 TTTTTATAGAATTTTAATACGTTTTTATAAATTTTTAAATATATTTTATTATTTT
1 TTTTTATAGAATTTTAATAAGTTTATATAAATTTTTAAATATATTTTATAATTTT
2839053 TATAATTTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 29 0.60
61 19 0.40
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (60 bp):
TTTTTATAGAATTTTAATAAGTTTATATAAATTTTTAAATATATTTTATAATTTTAAAGA
Found at i:2839044 original size:21 final size:20
Alignment explanation
Indices: 2838963--2839046 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 20
2838953 TATAAGTTTA
*
2838963 TATAAATTTTAGATATATATT
1 TATAAATTTTAAATATAT-TT
*
2838984 TAT-AATTTTAAAGAT-TTT
1 TATAAATTTTAAATATATTT
2839002 TATAGAATTTT-AATACGT-TTT
1 TATA-AATTTTAAATA--TATTT
2839023 TATAAATTTTTAAATATATTT
1 TATAAA-TTTTAAATATATTT
2839044 TAT
1 TAT
2839047 TATTTTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
18 5 0.09
19 4 0.08
20 19 0.36
21 21 0.40
22 4 0.08
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (20 bp):
TATAAATTTTAAATATATTT
Found at i:2839055 original size:9 final size:9
Alignment explanation
Indices: 2838939--2839207 Score: 129
Period size: 10 Copynumber: 28.3 Consensus size: 9
2838929 TTATTATGTT
2838939 TTTTTAGTAA
1 TTTTTA-TAA
2838949 TTTTTATAA
1 TTTTTATAA
*
2838958 GTTTATATAAA
1 -TTTTTAT-AA
*
2838969 TTTTAGATATA
1 TTTT-TATA-A
*
2838980 TATTTATAA
1 TTTTTATAA
*
2838989 -TTTTAAAGA
1 TTTTTATA-A
2838998 TTTTTATAGAA
1 TTTTTAT--AA
* *
2839009 TTTTAATACG
1 TTTTTATA-A
2839019 TTTTTATAAA
1 TTTTTAT-AA
*
2839029 TTTTTAAATA
1 TTTTTATA-A
*
2839039 TATTTTATTA
1 T-TTTTATAA
2839049 TTTTTATAA
1 TTTTTATAA
* *
2839058 TTTATTAGAT
1 TTT-TTATAA
2839068 TATTTTAT-A
1 T-TTTTATAA
2839077 TTTTTATAA
1 TTTTTATAA
*
2839086 -TATT-TAA
1 TTTTTATAA
*
2839093 TATTTATAAA
1 TTTTTAT-AA
*
2839103 TTTATATCAA
1 TTTTTAT-AA
2839113 TTTTTATATA
1 TTTTTATA-A
2839123 TTTTT-TAAA
1 TTTTTAT-AA
2839132 TTTTT-TAA
1 TTTTTATAA
* *
2839140 ATTTAATAA
1 TTTTTATAA
*
2839149 TTTTTAAAA
1 TTTTTATAA
*
2839158 TTTTTGATTA
1 TTTTT-ATAA
2839168 TTTTT-TATA
1 TTTTTATA-A
*
2839177 TTTTAATAA
1 TTTTTATAA
*
2839186 TTTTTATGAT
1 TTTTTAT-AA
2839196 TTTTTATAA
1 TTTTTATAA
2839205 TTT
1 TTT
2839208 GTATGATAAA
Statistics
Matches: 195, Mismatches: 39, Indels: 51
0.68 0.14 0.18
Matches are distributed among these distances:
7 3 0.02
8 22 0.11
9 59 0.30
10 87 0.45
11 23 0.12
12 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:2839063 original size:21 final size:20
Alignment explanation
Indices: 2839028--2839073 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2839018 GTTTTTATAA
**
2839028 ATTTTTAAATATATTTTATT
1 ATTTTTAAATATATTAGATT
*
2839048 ATTTTTATAATTTATTAGATT
1 ATTTTTA-AATATATTAGATT
2839069 ATTTT
1 ATTTT
2839074 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTTTAAATATATTAGATT
Found at i:2839180 original size:27 final size:27
Alignment explanation
Indices: 2839150--2839203 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
2839140 ATTTAATAAT
*
2839150 TTTTAA-AATTTTTGATTATTTTTTATA
1 TTTTAATAATTTTT-ATGATTTTTTATA
2839177 TTTTAATAATTTTTATGATTTTTTATA
1 TTTTAATAATTTTTATGATTTTTTATA
2839204 ATTTGTATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTAATAATTTTTATGATTTTTTATA
Found at i:2847300 original size:10 final size:10
Alignment explanation
Indices: 2847268--2847319 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 10
2847258 TTATTATGAT
2847268 TTTTTAATAA
1 TTTTTAATAA
2847278 TTATTTAATAA
1 TT-TTTAATAA
*
2847289 TTTTTGATAA
1 TTTTTAATAA
2847299 -TTTT-AT-A
1 TTTTTAATAA
2847306 TTTTTAAATAA
1 TTTTT-AATAA
2847317 TTT
1 TTT
2847320 GTTGCAACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
7 1 0.03
8 6 0.17
9 4 0.11
10 11 0.31
11 14 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:2856499 original size:17 final size:19
Alignment explanation
Indices: 2856477--2856513 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2856467 CTGAGATCAG
2856477 TTGATTTT-T-ATAATTTA
1 TTGATTTTATAATAATTTA
2856494 TTGATTTTATAATAATTTA
1 TTGATTTTATAATAATTTA
2856513 T
1 T
2856514 ACTTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 1 0.06
19 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTGATTTTATAATAATTTA
Found at i:2859361 original size:20 final size:20
Alignment explanation
Indices: 2859332--2859374 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2859322 TTTGTGGAGT
* *
2859332 TTATTAATGAGTATTTTATA
1 TTATTAATGAATATTTCATA
*
2859352 TTATTGATGAATATTTCATA
1 TTATTAATGAATATTTCATA
2859372 TTA
1 TTA
2859375 AAATTCACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (20 bp):
TTATTAATGAATATTTCATA
Found at i:2865342 original size:13 final size:13
Alignment explanation
Indices: 2865324--2865348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2865314 CTTCCCTTTT
2865324 TTTTAAAATATTA
1 TTTTAAAATATTA
2865337 TTTTAAAATATT
1 TTTTAAAATATT
2865349 TTTCTATATC
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAAATATTA
Found at i:2868912 original size:15 final size:15
Alignment explanation
Indices: 2868892--2868922 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2868882 TAGAAAAAAT
2868892 ATTAAATAATTAATA
1 ATTAAATAATTAATA
*
2868907 ATTAAATATTTAATA
1 ATTAAATAATTAATA
2868922 A
1 A
2868923 ATATTATTAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTAAATAATTAATA
Found at i:2870079 original size:20 final size:20
Alignment explanation
Indices: 2870056--2870097 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2870046 TTCTTTCTTG
*
2870056 TTTT-GTATTTTTATCATTTA
1 TTTTAGTATATTTAT-ATTTA
*
2870076 TTTTATTATATTTATATTTA
1 TTTTAGTATATTTATATTTA
2870096 TT
1 TT
2870098 CTTTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTAGTATATTTATATTTA
Found at i:2870095 original size:15 final size:16
Alignment explanation
Indices: 2870061--2870097 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
2870051 TCTTGTTTTG
2870061 TATTT-TTATCATTTA
1 TATTTATTATCATTTA
2870076 T-TTTATTAT-ATTTA
1 TATTTATTATCATTTA
2870090 TATTTATT
1 TATTTATT
2870098 CTTTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTATTATCATTTA
Found at i:2874415 original size:9 final size:9
Alignment explanation
Indices: 2874401--2874489 Score: 54
Period size: 10 Copynumber: 9.2 Consensus size: 9
2874391 CGTGTGTATA
2874401 TATAATTTT
1 TATAATTTT
2874410 TATAATTTT
1 TATAATTTT
* *
2874419 TAAAACTTT
1 TATAATTTT
*
2874428 TAAAAGTTATT
1 TATAA-TT-TT
2874439 TA-AATTTTCT
1 TATAA-TTT-T
*
2874449 TATAATTCAT
1 TATAATT-TT
*
2874459 AATAATTTT
1 TATAATTTT
*
2874468 TAAATATTTT
1 TATA-ATTTT
2874478 TATAATTATT
1 TATAATT-TT
2874488 TA
1 TA
2874490 AGAAACCACT
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 28 0.44
10 29 0.46
11 6 0.10
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (9 bp):
TATAATTTT
Found at i:2875403 original size:29 final size:29
Alignment explanation
Indices: 2875367--2875442 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 29
2875357 AAGCACAAAC
***
2875367 TCATAATATAAATAAATCGTCACCAAAAG
1 TCATAATATAAATAAAAAATCACCAAAAG
2875396 TCATAATATAAATATTAAAAATCACCAAAAG
1 TCATAATATAAATA--AAAAATCACCAAAAG
*
2875427 TCATAATGTAAATAAA
1 TCATAATATAAATAAA
2875443 GTAACAAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 16 0.39
31 25 0.61
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.26
Consensus pattern (29 bp):
TCATAATATAAATAAAAAATCACCAAAAG
Found at i:2903161 original size:17 final size:17
Alignment explanation
Indices: 2903139--2903173 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2903129 AAATTATTTG
2903139 TTTTGTTTACTATTCAC
1 TTTTGTTTACTATTCAC
2903156 TTTTGTTTACTATTCAC
1 TTTTGTTTACTATTCAC
2903173 T
1 T
2903174 CCCTTGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTGTTTACTATTCAC
Found at i:2903755 original size:16 final size:17
Alignment explanation
Indices: 2903729--2903761 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2903719 CATACAATAT
*
2903729 AAAATTATAAATTTATG
1 AAAATTATAAAATTATG
2903746 AAAA-TATAAAATTATG
1 AAAATTATAAAATTATG
2903762 TACCATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
AAAATTATAAAATTATG
Found at i:2903827 original size:7 final size:7
Alignment explanation
Indices: 2903815--2903864 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
2903805 TATAAAAATT
2903815 TATAATA
1 TATAATA
2903822 TATAATA
1 TATAATA
2903829 TATAATA
1 TATAATA
2903836 TATAA-A
1 TATAATA
2903842 T-TAATA
1 TATAATA
*
2903848 -AAAAT-
1 TATAATA
2903853 TATAAATA
1 TAT-AATA
2903861 TATA
1 TATA
2903865 TACTAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
5 3 0.08
6 7 0.19
7 23 0.64
8 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TATAATA
Found at i:2904005 original size:34 final size:34
Alignment explanation
Indices: 2903951--2904015 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
2903941 AATTCATTCT
2903951 TAATGTAAAATTTTTTATATTTTTATTAATTTATA
1 TAATGTAAAATTTTTTATATTTTT-TTAATTTATA
*
2903986 TAATTTAAAA-TTTTTATATTTTTTTAATTT
1 TAATGTAAAATTTTTTATATTTTTTTAATTT
2904016 TCAATTGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 7 0.24
34 13 0.45
35 9 0.31
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (34 bp):
TAATGTAAAATTTTTTATATTTTTTTAATTTATA
Found at i:2918801 original size:132 final size:132
Alignment explanation
Indices: 2918617--2920037 Score: 1869
Period size: 132 Copynumber: 10.8 Consensus size: 132
2918607 AAATAAGGTA
* * * *
2918617 ACTGGCTTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCTACTATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
* * * * *
2918682 CCACTGCTTAGAGAGACAAGATCTGAAATCTTCAATCAATTCCACTGTTGCCCAGGGAAATAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
2918747 TT
131 TT
*
2918749 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
* * *
2918814 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCTAGGG-AGATAGA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGA
2918878 ATT
130 ATT
* * * * * * **
2918881 ATTGGCTTCAATGTACTCCACTGCAACTTCAGAGAGGTAAAATCCGCCATCCTCAATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
** *
2918946 CTACTGCTTAGGGAGGGAAGATCTGAAATCTTCAATCTATTCTACTGCTGCCCAGGG-AGATAGA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGA
2919010 ATT
130 ATT
** * * * * * * *
2919013 GTTGGCTTCAATGTACTCCACTGCAACTTCCGAGAGGTAAAATCCGCCATCCTCGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
* **
2919078 CTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCGTTGCTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
2919143 TT
131 TT
* ** * * ** * *
2919145 ATTGGCTTCAATGTACTCCACTACAACTTCAGGTAGGTAAAATCTGCCATATTCGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
* * * * *
2919210 CTATTGCTTAGGGAGGCAAGATCTAAAATCTTCAATCTATTTCGCTGCTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
2919275 TT
131 TT
* * * **
2919277 AATGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTCCGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
* * * * *
2919342 GTACTGCTTAGGGAGGCAAGATCTGAAATCTTTAATCTATTCCGCTGCTGCCCAGAGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
2919407 TT
131 TT
* * * * * * * *
2919409 ACTGGCTTCAATATACTCTACTGTAACCACAGTGAGGTAAAATTCACCATCTTTGATTTGCTGCG
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
* * *
2919474 CTACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCACAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
2919539 TT
131 TT
* * *
2919541 ACTAGG-TTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCC
1 ACT-GGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
* * *
2919605 ACTACTGCTTGGGGAGACAAGATCTGAAATCTTCAATGTATTCCACTGTTGCCCAGGGAAGTAGA
65 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
2919670 ATT
130 ATT
* *
2919673 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCCTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
* * *
2919738 CTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
2919803 TT
131 TT
* * * * *
2919805 ACCGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCTTCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
* * ** * * * * * *
2919870 CTGTCTACGCAGGAAGATAAGATCTGTAATCTTCAATCTATTTCGCTGCTGCCCAAGGAAGTAGA
66 CT-ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
2919935 ATT
130 ATT
* * *
2919938 ACTGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
2920003 CTACTGCTT-GAGGAGACAAGATCTGAAATCTTCAA
66 CTACTGCTTAG-GGAGACAAGATCTGAAATCTTCAA
2920038 CTTGCTCCAC
Statistics
Matches: 1158, Mismatches: 125, Indels: 12
0.89 0.10 0.01
Matches are distributed among these distances:
131 4 0.00
132 1031 0.89
133 123 0.11
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCA
CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
TT
Found at i:2925321 original size:19 final size:20
Alignment explanation
Indices: 2925287--2925325 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2925277 TAATTTGGCA
*
2925287 GAAAAAAATTTGAAAGAATG
1 GAAAAAAATGTGAAAGAATG
2925307 GAAAAAAATGT-AAAGAATG
1 GAAAAAAATGTGAAAGAATG
2925326 AAAGAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (20 bp):
GAAAAAAATGTGAAAGAATG
Found at i:2936950 original size:22 final size:22
Alignment explanation
Indices: 2936894--2936953 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
2936884 TGAAGGTAAT
*
2936894 TCATTTTCCAGACTTTGGCATG
1 TCATTTTCCAGATTTTGGCATG
2936916 TCATTTTCCAGATTTTGGCATG
1 TCATTTTCCAGATTTTGGCATG
2936938 TCATTTTCCAGATTTT
1 TCATTTTCCAGATTTT
2936954 ATTTTATTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (22 bp):
TCATTTTCCAGATTTTGGCATG
Found at i:2941073 original size:83 final size:83
Alignment explanation
Indices: 2940983--2941149 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
2940973 ATAATTTTAA
2940983 AGGCTAATTAATGCGACATCTACATAGAAATTCACGAGAATAAAATTAATTTTTTATCTATTTTA
1 AGGCTAATTAATGCGACATCTACATAGAAATTCACGAGAATAAAATTAATTTTTTATCTATTTTA
2941048 AGATAATTTGATAAACAT
66 AGATAATTTGATAAACAT
2941066 AGGCTAATTAATGCGACATCTACATAGAAATTCACGAGAATAAAATTAATTTTTTATCTATTTTA
1 AGGCTAATTAATGCGACATCTACATAGAAATTCACGAGAATAAAATTAATTTTTTATCTATTTTA
2941131 AGATAATTTGATAAACAT
66 AGATAATTTGATAAACAT
2941149 A
1 A
2941150 TAAATTTAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (83 bp):
AGGCTAATTAATGCGACATCTACATAGAAATTCACGAGAATAAAATTAATTTTTTATCTATTTTA
AGATAATTTGATAAACAT
Found at i:2947319 original size:1 final size:1
Alignment explanation
Indices: 2947315--2947344 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
2947305 TTTCTGACTT
2947315 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2947345 GAGGAAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2948621 original size:72 final size:72
Alignment explanation
Indices: 2948504--2948647 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
2948494 TATAGGAACT
2948504 TTAGTACTATTGATTTAAGGGTTTCCTAGATGATCTCTAATGATCTTGTTTTCATACCAGTACAA
1 TTAGTACTATTGATTTAAGGGTTTCCTAGATGATCTCTAATGATCTTGTTTTCATACCAGTACAA
2948569 ATCTGTG
66 ATCTGTG
*
2948576 TTAGTACTATTGATTTAAGGGTTTCCTAGATGATCTCTAATGATCTTGTTTTCATACCAGTTCAA
1 TTAGTACTATTGATTTAAGGGTTTCCTAGATGATCTCTAATGATCTTGTTTTCATACCAGTACAA
2948641 ATCTGTG
66 ATCTGTG
2948648 GCAAGCTTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (72 bp):
TTAGTACTATTGATTTAAGGGTTTCCTAGATGATCTCTAATGATCTTGTTTTCATACCAGTACAA
ATCTGTG
Found at i:2962147 original size:15 final size:14
Alignment explanation
Indices: 2962114--2962147 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2962104 TTTAGAACTT
*
2962114 TAATTATTTAATTA
1 TAATTATTTAATAA
2962128 TAATTATTTAAATAA
1 TAATTATTT-AATAA
2962143 TAATT
1 TAATT
2962148 TTAAAACCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTATTTAATAA
Found at i:2962400 original size:27 final size:27
Alignment explanation
Indices: 2962370--2962425 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
2962360 AACTTACTTA
**
2962370 GTCACGAAGTCATTCCACTATAGTATT
1 GTCACGAAACCATTCCACTATAGTATT
*
2962397 GTCACGAAACCATTCTACTATAGTATT
1 GTCACGAAACCATTCCACTATAGTATT
2962424 GT
1 GT
2962426 GATTGAGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (27 bp):
GTCACGAAACCATTCCACTATAGTATT
Found at i:2967976 original size:14 final size:14
Alignment explanation
Indices: 2967957--2967990 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2967947 AGAACTATGC
* *
2967957 TTTTTTATTTTTAT
1 TTTTTTAGTTTAAT
2967971 TTTTTTAGTTTAAT
1 TTTTTTAGTTTAAT
2967985 TTTTTT
1 TTTTTT
2967991 CCTTTTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTTTAGTTTAAT
Found at i:2985087 original size:310 final size:310
Alignment explanation
Indices: 2984525--2985147 Score: 1158
Period size: 310 Copynumber: 2.0 Consensus size: 310
2984515 AATACACGCC
*
2984525 CCTCATATGTACATCATTCAGTTTCATTCATTTATGAATGGAAACTTGTTTTCTCTCTTTTCAAT
1 CCTCATATGTACATCATTCAGTTTCATTCATTTATGAATGAAAACTTGTTTTCTCTCTTTTCAAT
2984590 ATTATTTTCTTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTAGTT
66 ATTATTTTCTTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTAGTT
* * *
2984655 GTTCTTCACACTCCGATTTGCCAATAAACCTTTTCTGGAGGGTCGGTTAAAGCCTTTGGTGGAGT
131 GTTATTCAAACTCCGATTTGCCAAGAAACCTTTTCTGGAGGGTCGGTTAAAGCCTTTGGTGGAGT
*
2984720 TTGTTGAAGTCTTTCTTCAAAGGGTTCCATCGAACATCGCCTTTCATTCATCTTTATGCCTATCT
196 TTGTTGAAGTCTTTCTTCAAAGGGTTCCATCAAACATCGCCTTTCATTCATCTTTATGCCTATCT
*
2984785 TTTTTCCATCACTCCCTAATCTTTTTCAATCTTGATTTCTCTTTTATGAA
261 TTTTTCCATCACTCCCTAATCTTTTTCAATCTTGATTTATCTTTTATGAA
2984835 CCTCATATGTACATCATTCAGTTTCATTCATTTATGAATGAAAACTTGTTTTCTCTCTTTTCAAT
1 CCTCATATGTACATCATTCAGTTTCATTCATTTATGAATGAAAACTTGTTTTCTCTCTTTTCAAT
*
2984900 ATTATTTTCTTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTGGTT
66 ATTATTTTCTTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTAGTT
*
2984965 GTTATTCAAACTCCGATTTGCCAAGAAACCTTTAT-TGGAGGGTCGGTTAGAGCCTTTGGTGGAG
131 GTTATTCAAACTCCGATTTGCCAAGAAACCTTT-TCTGGAGGGTCGGTTAAAGCCTTTGGTGGAG
2985029 TTTGTTGAAGTCTTTCTTCAAAGGGTTCCATCAAACATCGCCTTTCATTCATCTTTATGCCTATC
195 TTTGTTGAAGTCTTTCTTCAAAGGGTTCCATCAAACATCGCCTTTCATTCATCTTTATGCCTATC
2985094 TTTTTTCCATCACTCCCTAATCTTTTTCAATCTTGATTTATCTTTTATGAA
260 TTTTTTCCATCACTCCCTAATCTTTTTCAATCTTGATTTATCTTTTATGAA
2985145 CCT
1 CCT
2985148 TCTTCTAACA
Statistics
Matches: 304, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
310 303 1.00
311 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (310 bp):
CCTCATATGTACATCATTCAGTTTCATTCATTTATGAATGAAAACTTGTTTTCTCTCTTTTCAAT
ATTATTTTCTTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTAGTT
GTTATTCAAACTCCGATTTGCCAAGAAACCTTTTCTGGAGGGTCGGTTAAAGCCTTTGGTGGAGT
TTGTTGAAGTCTTTCTTCAAAGGGTTCCATCAAACATCGCCTTTCATTCATCTTTATGCCTATCT
TTTTTCCATCACTCCCTAATCTTTTTCAATCTTGATTTATCTTTTATGAA
Found at i:2992555 original size:62 final size:62
Alignment explanation
Indices: 2992458--2992631 Score: 348
Period size: 62 Copynumber: 2.8 Consensus size: 62
2992448 TCTCTTTTTT
2992458 GCATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATAC
1 GCATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATAC
2992520 GCATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATAC
1 GCATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATAC
2992582 GCATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAA
1 GCATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAA
2992632 GTCTAAAAGT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 112 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (62 bp):
GCATTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAATAC
Found at i:2995518 original size:44 final size:43
Alignment explanation
Indices: 2995448--2996005 Score: 363
Period size: 44 Copynumber: 12.7 Consensus size: 43
2995438 TTAAAGCAGA
* * * *
2995448 TCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATTACAGG
1 TCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGA-TACAGG
* * *
2995492 TCATGTCTTCTTATATTGGTAGGAAGTGGATCGAAGATGCAGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGG
* * * * *
2995535 TCATGTATTCCTATATTGGTAGGAAGTGGATCGAAGAAAGTAGA
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATA-CAGG
* * * *** * * *
2995579 TCTTATCTTCATGTATTAACATGAAGTAGATCGAAGATGGCAGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-ACAGG
* * * *
2995623 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAAAGCAGA
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATA-CAGG
* * * * * * *
2995667 TCTTGTCTTCATGTATTAGCGT--GAATTAGATCGAATATGGCAAG
1 TCTTGTCTTCCTATATT-G-GTAGGAAGTGGATCGAAGAT-ACAGG
* *
2995711 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGG
* * *
2995754 TCTCGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAAGCAGA
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATA-CAGG
* * * * * **
2995798 TCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAATATGGTAGG
1 TCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-ACAGG
* * **
2995842 T-TATGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATGCATA
1 TCT-TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGG
* * * * * * *
2995885 TTTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGA
1 TCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATA-CAGG
* * * * *
2995930 TCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGTAGATAGCATG
1 TCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATA-CAGG
* * *
2995974 TCATGCCTTCTTATATTGGTAGGAAGTGGATC
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATC
2996006 AAAAATGCAG
Statistics
Matches: 395, Mismatches: 101, Indels: 36
0.74 0.19 0.07
Matches are distributed among these distances:
42 2 0.01
43 102 0.26
44 266 0.67
45 23 0.06
46 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (43 bp):
TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGG
Found at i:2995825 original size:219 final size:218
Alignment explanation
Indices: 2995440--2996026 Score: 691
Period size: 219 Copynumber: 2.7 Consensus size: 218
2995430 TGAAGACATT
* * * *
2995440 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTACAGGTCATGTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATGACAAGTCATGTCTTCCTA
2995505 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTATTCCTATATTGGTAGGAAGTGGATCGAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTATTCCTATATTGGTAGGAAGTGGATCGAA
* *
2995570 GAAAGTAGATCTTATCTTCATGTATTAACATGAAGTAGATCGAAGATGGCAGGTCCTATCTTCCT
131 GAAAGCAGATCTTATCTTCATGTATTAACATGAAGTAGATCGAAGATGGCAGGTCATATCTTCCT
2995635 ATATTGGTAGGAAGTGGATCGAA
196 ATATTGGTAGGAAGTGGATCGAA
* * * *
2995658 GAAAGCAGATCTTGTCTTCATGTATTAGCGTGAATTAGATCGAATATGGCAAGTCCTGTCTTCCT
1 -AAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATGACAAGTCATGTCTTCCT
*
2995723 ATATTGGTAGGAAGTGGATCGAAGATGCAGGTC-TCGTCTTCCTATATTGGTAGGAAGTGGATCG
65 ATATTGGTAGGAAGTGGATCGAAGATGCAGGTCAT-GTATTCCTATATTGGTAGGAAGTGGATCG
* ** * * * * *
2995787 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATGGTAGGTTATGTCTTC
129 AAGAAAGCAGATCTTATCTTCATGTATTAACATGAAGTAGATCGAAGATGGCAGGTCATATCTTC
2995852 CTATATTGGTAGGAAGTGGATCGAA
194 CTATATTGGTAGGAAGTGGATCGAA
* * * *** * * * * * *
2995877 AATGCATATTTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGA-AAGC-AGATCTTGTCTTC
1 AAAGCAGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGATGA-CAAG-TCATGTCTTC
* * * * * ** *
2995940 ATGTATTGGT-GTGAAGTAGATCGTAGATAGCATGTCATGCCTTCTTATATTGGTAGGAAGTGGA
63 CTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGGTCATGTATTCCTATATTGGTAGGAAGTGGA
* *
2996004 TC-AA-AAATGCAGATATTGTCTTC
126 TCGAAGAAA-GCAGATCTTATCTTC
2996027 CCATACTGGT
Statistics
Matches: 318, Mismatches: 42, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
218 27 0.08
219 258 0.81
220 32 0.10
221 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (218 bp):
AAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATGACAAGTCATGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTATTCCTATATTGGTAGGAAGTGGATCGAA
GAAAGCAGATCTTATCTTCATGTATTAACATGAAGTAGATCGAAGATGGCAGGTCATATCTTCCT
ATATTGGTAGGAAGTGGATCGAA
Found at i:2995937 original size:88 final size:87
Alignment explanation
Indices: 2995443--2996049 Score: 419
Period size: 88 Copynumber: 6.9 Consensus size: 87
2995433 AGACATTAAA
* * * * * * * * *
2995443 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATTA-CAGGTCATGTCTTCTTAT
1 GCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGA-AAGCAGATCTTGTCTTCATAT
* *
2995506 ATTGGTAGGAAGTGGATCGAAGAT
64 ATTGGTAGGAAGTAGATCGAAAAT
* * * * * *
2995530 GCAGGTCATGTATTCCTATATTGGTAGGAAGTGGATCGAAGAAAGTAGATCTTATCTTCATGTAT
1 GCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATATAT
*** * *
2995595 TAACATGAAGTAGATCGAAGAT
66 TGGTAGGAAGTAGATCGAAAAT
* * *
2995617 GGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTA
1 -GCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATATA
* *
2995682 TTAGCGT--GAATTAGATCGAATAT
65 TT-G-GTAGGAAGTAGATCGAAAAT
* * * *
2995705 GGCA-AGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAG-ATGCAGGTCTCGTCTTCCTAT
1 -GCAGA-TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATAT
* *
2995768 ATTGGTAGGAAGTGGATCGAAGAAA
64 ATTGGTAGGAAGTAGATCGAA-AAT
* * * * * * ** * * *
2995793 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAATATGGTAGGT-TATGTCTTCCTAT
1 GCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAAAGCAGATCT-TGTCTTCATAT
*
2995856 ATTGGTAGGAAGTGGATCGAAAAT
64 ATTGGTAGGAAGTAGATCGAAAAT
* ** * * * * *
2995880 GCATATTTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTA
1 GCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATATA
* *
2995945 TTGGT-GTGAAGTAGATCGTAGAT
65 TTGGTAG-GAAGTAGATCGAAAAT
* * * * **
2995968 AGCATG-TCATGCCTTCTTATATTGGTAGGAAGTGGATC-AA-AAATGCAGATATTGTCTTCCCA
1 -GCA-GATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAA-GCAGATCTTGTCTTCATA
* *
2996030 TACTGGTGGCGAAGTAGATC
63 TATTGGTAG-GAAGTAGATC
2996050 AAAGAAAGCA
Statistics
Matches: 417, Mismatches: 83, Indels: 39
0.77 0.15 0.07
Matches are distributed among these distances:
85 2 0.00
86 6 0.01
87 170 0.41
88 219 0.53
89 20 0.05
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (87 bp):
GCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATATAT
TGGTAGGAAGTAGATCGAAAAT
Found at i:2995989 original size:132 final size:131
Alignment explanation
Indices: 2995628--2996102 Score: 635
Period size: 132 Copynumber: 3.6 Consensus size: 131
2995618 GCAGGTCCTA
* * * *
2995628 TCTTCCTATATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAT
1 TCTTCCCATATTGGTAGGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAG
* * * * * *
2995693 TAGATCGAATATGGCAAGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGGTCTC
66 TAGATCGAAGATGGCAAGTCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATGCAGATATT
2995758 G
131 G
* * * *
2995759 TCTTCCTATATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 TCTTCCCATATTGGTAGGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAG
* * * * * *
2995824 TAGATCGAATATGGTAGGTTATGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATGCATATTTT
66 TAGATCGAAGATGGCAAGTCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATGCAGATATT
2995889 G
131 G
* * *
2995890 TCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAA
1 TCTTCCCATATTGGTAG-GAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAA
* * * * * *
2995955 GTAGATCGTAGATAGCATGTCATGCCTTCTTATATTGGTAGGAAGTGGATCAAAAATGCAGATAT
65 GTAGATCGAAGATGGCAAGTCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATGCAGATAT
2996020 TG
130 TG
* * *
2996022 TCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATATTGTCTTCATGTATTAGCGTGAA
1 TCTTCCCATATTGGTAG-GAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAA
*
2996087 GCAGATCGAAGATGGC
65 GTAGATCGAAGATGGC
2996103 GGATTTTACC
Statistics
Matches: 309, Mismatches: 34, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
131 135 0.44
132 174 0.56
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (131 bp):
TCTTCCCATATTGGTAGGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAG
TAGATCGAAGATGGCAAGTCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATGCAGATATT
G
Found at i:2996180 original size:132 final size:132
Alignment explanation
Indices: 2996086--2996620 Score: 901
Period size: 132 Copynumber: 4.1 Consensus size: 132
2996076 ATTAGCGTGA
* *
2996086 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGACTACAGTGGAGTACGTTGAAGCCGATAAT
1 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGACTACAGTGGAGTACATTGAAGCCGATAAT
*
2996151 TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACTGATCTTATCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
2996216 GG
131 GG
* * * *
2996218 AGCAGATCGAAGATGGCAGATTTTACCTTCCTGTGACTACAGTGGAGTACATTGAAGTCGATACT
1 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGACTACAGTGGAGTACATTGAAGCCGATAAT
*
2996283 TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTCTCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
2996348 GG
131 GG
*
2996350 AGCAGATCGAAGATGGCAGATTTTACCTCCCT-ATGACTACAGTGGAGTACATTGAAGCCAATAA
1 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGA-GACTACAGTGGAGTACATTGAAGCCGATAA
* * *
2996414 TTCTATCTCACTGGTTGACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAG
65 TTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
2996479 TGG
130 TGG
* *
2996482 AGCAGATCGAAGATGGCAGATTTTACCTCACTGTGACTACAGTGGAGTACATTGAAGCCGATAAT
1 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGACTACAGTGGAGTACATTGAAGCCGATAAT
**
2996547 TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGACCACAGATCTTATCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
2996612 GG
131 GG
*
2996614 AACAGAT
1 AGCAGAT
2996621 TGTATCAAGT
Statistics
Matches: 375, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
132 375 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGACTACAGTGGAGTACATTGAAGCCGATAAT
TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:2996481 original size:44 final size:44
Alignment explanation
Indices: 2996167--2996660 Score: 157
Period size: 44 Copynumber: 11.3 Consensus size: 44
2996157 TCCCTGGTTG
* * *
2996167 GCAGTGGAATAGATTGAAGATTACTGATCTTATCTCCCTAAGCA
1 GCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCA
* * * ** * * *
2996211 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTTCCT-GTGACTA
1 GCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAG-G-C-A
* **
2996257 -CAGTGGAGTACATTGAAG--T-C-GATACTTCTATCTCCCT-GGTTG
1 GCAGTGGAGTAGATTGAAGATTACAGAT-C-T-TATCTCCCTAGG-CA
* * *
2996299 GCAGTGGAATAGATTGAAGATTACAGATCTTCTCTCCCTAAGCA
1 GCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCA
* * * ** * * *
2996343 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTATGACTA
1 GCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTA-GGC-A
* * * * **
2996389 -CAGTGGAGTACATTGAAGCCAATA-A-TTC-TATCTCACT-GGTT
1 GCAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTAGGCA
*
2996430 GACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCA
1 G-CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCA
* * * ** * * *
2996475 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCACT-GTGACTA
1 GCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAG-G-C-A
* *** * **
2996521 -CAGTGGAGTACATTGAAGCCGATA-AT-TCTATCTCCCT-GGTTG
1 GCAGTGGAGTAGATTGAAGATTACAGATCT-TATCTCCCTAGG-CA
* ** *
2996563 GCAGTGGAATAGATTGAAGACCACAGATCTTATCTCCCTAAGCA
1 GCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCA
* ** * * *
2996607 GTAGTGGAACAGATTG--TATCA-AG-TCTTATCTCCCTAAGCA
1 GCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCA
* *
2996647 GTAGTGGAGCAGAT
1 GCAGTGGAGTAGAT
2996661 CGCATCAAGT
Statistics
Matches: 325, Mismatches: 95, Indels: 64
0.67 0.20 0.13
Matches are distributed among these distances:
40 30 0.09
41 8 0.02
42 6 0.02
43 58 0.18
44 157 0.48
45 56 0.17
46 6 0.02
47 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
GCAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCA
Found at i:2996634 original size:40 final size:40
Alignment explanation
Indices: 2996590--2996691 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
2996580 AGACCACAGA
* *
2996590 TCTTATCTCCCTAAGCAGTAGTGGAACAGATTGTATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAACAGATCGCATCAAG
*
2996630 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAACAGATCGCATCAAG
**
2996670 TCTTATCTCTATAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGT
2996692 TCTATCTCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAACAGATCGCATCAAG
Found at i:2996882 original size:40 final size:40
Alignment explanation
Indices: 2996820--2997145 Score: 316
Period size: 40 Copynumber: 7.8 Consensus size: 40
2996810 GAAGACCAGA
* * * *
2996820 TCTTATCCCCCTAAACAATAGTGGAGCATATCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * *
2996860 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-----ACATCAAG
2996904 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * *
2996944 TCTTATCTCCCTAAGAAGTAGTGGAGCAGA-CGAAAGAAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-----ACATCA-AG
* *
2996989 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* *
2997030 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-----ACATCA-AG
*
2997075 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
*
2997116 TCTTATCTTCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
2997146 CGAAAGAAAA
Statistics
Matches: 238, Mismatches: 26, Indels: 44
0.77 0.08 0.14
Matches are distributed among these distances:
39 3 0.01
40 118 0.50
41 4 0.02
42 6 0.03
44 42 0.18
45 5 0.02
46 58 0.24
47 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
Found at i:2997042 original size:86 final size:86
Alignment explanation
Indices: 2996816--2997154 Score: 583
Period size: 86 Copynumber: 4.0 Consensus size: 86
2996806 GGTCGAAGAC
* * * *
2996816 CAGATCTTATCCCCCTAAACAATAGTGGAGCATATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
2996881 TGGAGCAGACGAAAGAAACCA
66 TGGAGCAGACGAAAGAAACCA
*
2996902 -A-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
2996965 TGGAGCAGACGAAAGAAACCA
66 TGGAGCAGACGAAAGAAACCA
* *
2996986 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
2997051 TGGAGCAGACGAAAGAAACCA
66 TGGAGCAGACGAAAGAAACCA
* *
2997072 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTTCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
2997137 TGGAGCAGACGAAAGAAA
66 TGGAGCAGACGAAAGAAA
2997155 ACCAATCCTA
Statistics
Matches: 241, Mismatches: 10, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
84 78 0.32
85 2 0.01
86 161 0.67
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (86 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAACCA
Found at i:2997153 original size:172 final size:170
Alignment explanation
Indices: 2996816--2997154 Score: 588
Period size: 170 Copynumber: 2.0 Consensus size: 170
2996806 GGTCGAAGAC
*
2996816 CAGATCTTATCCCCCTAAACAATAGTGGAGCATATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCCCCCTAAACAATAGTGGAGCAAATCACATCAAGTCTTATCTCCCTAAGCAGTAG
2996881 TGGAGCAGACGAAAGAAACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTC
66 TGGAGCAGACGAAAGAAACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTC
2996946 TTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAACCA
131 TTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAACCA
* * * *
2996986 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCCCCCTAAACAATAGTGGAGCAAATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
2997051 TGGAGCAGACGAAAGAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
66 TGGAGCAGACGAAAGAAACCA-A-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* *
2997116 TCTTATCTTCCTAAGCAGTAGTGGAGCAGACGAAAGAAA
129 TCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAA
2997155 ACCAATCCTA
Statistics
Matches: 159, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
170 81 0.51
171 1 0.01
172 77 0.48
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (170 bp):
CAGATCTTATCCCCCTAAACAATAGTGGAGCAAATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAACCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTC
TTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAACCA
Found at i:2997782 original size:15 final size:15
Alignment explanation
Indices: 2997762--2997797 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2997752 GACAGAAACC
2997762 AACAAATAGCAAAAA
1 AACAAATAGCAAAAA
* *
2997777 AACAAATAGGAAAAC
1 AACAAATAGCAAAAA
2997792 AACAAA
1 AACAAA
2997798 CGAAACAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.72, C:0.14, G:0.08, T:0.06
Consensus pattern (15 bp):
AACAAATAGCAAAAA
Found at i:3005705 original size:24 final size:24
Alignment explanation
Indices: 3005678--3005743 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
3005668 AAATCTAATT
3005678 CTAATCAAA-GCCAAATATATTATG
1 CTAAT-AAATGCCAAATATATTATG
* *
3005702 CTAATAAATGCTAAATATATTATA
1 CTAATAAATGCCAAATATATTATG
* * *
3005726 CTCATAAATACTAAATAT
1 CTAATAAATGCCAAATAT
3005744 TCTAGAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 3 0.08
24 34 0.92
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (24 bp):
CTAATAAATGCCAAATATATTATG
Found at i:3009968 original size:24 final size:24
Alignment explanation
Indices: 3009941--3009988 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3009931 AAAGTCAAAG
* *
3009941 ATATTATGCTAATAAATGCTAAAT
1 ATATTATACTAATAAATACTAAAT
* *
3009965 ATATTGTACTCATAAATACTAAAT
1 ATATTATACTAATAAATACTAAAT
3009989 CTTCTAGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (24 bp):
ATATTATACTAATAAATACTAAAT
Found at i:3012722 original size:12 final size:12
Alignment explanation
Indices: 3012705--3012730 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3012695 ACTCTATTCA
3012705 ATTACCTTTTAT
1 ATTACCTTTTAT
3012717 ATTACCTTTTAT
1 ATTACCTTTTAT
3012729 AT
1 AT
3012731 ATATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTACCTTTTAT
Found at i:3020519 original size:16 final size:19
Alignment explanation
Indices: 3020484--3020520 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
3020474 GTAGATGTGA
3020484 TAATATCTTATAATAAAAT
1 TAATATCTTATAATAAAAT
3020503 TAATAT-TT-TAA-AAAAT
1 TAATATCTTATAATAAAAT
3020519 TA
1 TA
3020521 CTTATTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 2 0.11
19 6 0.33
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATATCTTATAATAAAAT
Found at i:3033274 original size:44 final size:44
Alignment explanation
Indices: 3033226--3033451 Score: 219
Period size: 44 Copynumber: 5.2 Consensus size: 44
3033216 TATCTCAGGA
** * * *
3033226 AGATAAGATTCGCCGTTTTCAATCTGCTCTACTACTGCTTAGGG
1 AGATAAGATTCGTAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * *
3033270 AGATAAGA-TCTGCAATCTTCAACCTACTCCACTACTGCTTAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
3033314 AGATAGGATTGGTAG-CTTAAATCTACTTCCTACTAC--CTTTGGA
1 AGATAAGATTCGTAGTCTTCAATCTAC-TCC-ACTACTGCTTAGGG
* * *
3033357 AGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGTAGTCTTCAATCTACTCCACTACTGCTTAGGG
* *
3033401 AGATAAGA-TCTGTAATCTTCAACCTACTCCACTACTGCTTAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTACTCCACTACTGCTTAGGG
3033445 AGATAAG
1 AGATAAG
3033452 GCTGGTGCTT
Statistics
Matches: 147, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
42 5 0.03
43 33 0.22
44 103 0.70
45 6 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
AGATAAGATTCGTAGTCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:3033321 original size:131 final size:131
Alignment explanation
Indices: 3033164--3033449 Score: 455
Period size: 131 Copynumber: 2.2 Consensus size: 131
3033154 TTTTAATCCG
** * * *
3033164 CTCCACTACAACTTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCTACTATCTCAGGAAGA
1 CTCCACTACTGCTT-AGGGAGATAGGATTGGTAGCTTAAATCTACTTCCTACTACCTCAGGAAGA
* *
3033229 TAAGATTCGCCGTTTTCAATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACC
65 TAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACC
3033294 TA
130 TA
**
3033296 CTCCACTACTGCTTAGGGAGATAGGATTGGTAGCTTAAATCTACTTCCTACTACCTTTGGAAGAT
1 CTCCACTACTGCTTAGGGAGATAGGATTGGTAGCTTAAATCTACTTCCTACTACCTCAGGAAGAT
* * *
3033361 AAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCT
66 AAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCT
3033426 A
131 A
3033427 CTCCACTACTGCTTAGGGAGATA
1 CTCCACTACTGCTTAGGGAGATA
3033450 AGGCTGGTGC
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
131 130 0.92
132 12 0.08
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (131 bp):
CTCCACTACTGCTTAGGGAGATAGGATTGGTAGCTTAAATCTACTTCCTACTACCTCAGGAAGAT
AAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCT
A
Found at i:3033900 original size:24 final size:24
Alignment explanation
Indices: 3033868--3033925 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
3033858 CAGATTGCCC
3033868 CCACTGTAATCTTCAAAGTTCAA-T
1 CCACTGTAATCTTCAAAGTT-AAGT
*
3033892 CCACTGTAATCTTCAAGGTTAAGT
1 CCACTGTAATCTTCAAAGTTAAGT
3033916 CCACTGTAAT
1 CCACTGTAAT
3033926 TTTGGGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.06
24 30 0.94
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTAAGT
Found at i:3034574 original size:100 final size:98
Alignment explanation
Indices: 3034399--3034701 Score: 316
Period size: 91 Copynumber: 3.0 Consensus size: 98
3034389 ATGCTTGAAA
* * *
3034399 AAGATTATCACAATAGA-AAGATGAAATTTTATTAAGAGCAAAGCTCTAAACAAATAAATTAATC
1 AAGATTATCACAATGGATAAGATGAAATTTTATTAAGAACAAAGCTC--AA-AAATTAATT-A--
* *
3034463 AGGATAGCAAATTTTGTTAAGATTCAAAATGAATAAGATG
60 A-GATAGCAAATTTTGCTAAGATACAAAATGAATAAGATG
*
3034503 AAAAGGATTATCACAATGGATAAGATGGAATTTTATTAAGAACAAAGCTC-AAAATTAATTAAGA
1 --AA-GATTATCACAATGGATAAGATGAAATTTTATTAAGAACAAAGCTCAAAAATTAATTAAGA
3034567 TAGCAAATTTTGCTAAGATACAAAATG----A-AT-
63 TAGCAAATTTTGCTAAGATACAAAATGAATAAGATG
* *
3034597 AAGATTATCACAATGGATAAGATGAAATTTTGTTAAGAGCAAAGCTCGAAATGAATAAGTTAATT
1 AAGATTATCACAATGGATAAGATGAAATTTTATTAAGAACAAAGCTC---A--AA-AA-TTAATT
*
3034662 AAGATAGCAAATTTTGCTAAGATACGAAATGAATAAGATG
59 AAGATAGCAAATTTTGCTAAGATACAAAATGAATAAGATG
3034702 CAAGCAGGTG
Statistics
Matches: 171, Mismatches: 10, Indels: 33
0.80 0.05 0.15
Matches are distributed among these distances:
91 42 0.25
92 2 0.01
95 2 0.01
96 1 0.01
97 2 0.01
98 2 0.01
99 36 0.21
100 27 0.16
101 1 0.01
103 2 0.01
104 10 0.06
105 1 0.01
106 2 0.01
107 14 0.08
108 27 0.16
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (98 bp):
AAGATTATCACAATGGATAAGATGAAATTTTATTAAGAACAAAGCTCAAAAATTAATTAAGATAG
CAAATTTTGCTAAGATACAAAATGAATAAGATG
Found at i:3046008 original size:119 final size:120
Alignment explanation
Indices: 3045797--3046054 Score: 294
Period size: 119 Copynumber: 2.2 Consensus size: 120
3045787 AAATCACGTA
* ** * *
3045797 CCTTCGGAATTTAA-CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGGATTTAACCCGGATATAGCTACTCGCACAAATGCCTTCAGGACATAGCCCGGATATAG
* * *
3045861 TGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAC-TCGCACAAATG
66 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAAA-G
* * *
3045916 CCTTCGGGATTTAACCCGGATTTAG-TAACTCGCACCAATGCCTTCAGG-CTTAGCCCGGA-ATT
1 CCTTCGGGATTTAACCCGGATATAGCT-ACTCGCACAAATGCCTTCAGGACATAGCCCGGATA-T
* * *
3045978 AGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAG
64 AGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAAAG
* *
3046035 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGATTTAACCCGGA
3046055 CATCATTCAA
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.03
119 80 0.68
120 34 0.29
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CCTTCGGGATTTAACCCGGATATAGCTACTCGCACAAATGCCTTCAGGACATAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAAAG
Found at i:3046054 original size:40 final size:40
Alignment explanation
Indices: 3045811--3046054 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
3045801 CGGAATTTAA
** *
3045811 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
3045851 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
3045891 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGATTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
3045931 CCGGATTTAGTAACTCGCACCAATGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
3045970 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
3046010 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
3046050 CCGGA
1 CCGGA
3046055 CATCATTCAA
Statistics
Matches: 177, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 131 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:3048009 original size:19 final size:19
Alignment explanation
Indices: 3047969--3048013 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
3047959 TGAAAATCTG
*
3047969 ATGCATATGATGCAATGTA
1 ATGCAAATGATGCAATGTA
*
3047988 ATGCAAATGCATGGAATG-A
1 ATGCAAATG-ATGCAATGTA
3048007 ATGCAAA
1 ATGCAAA
3048014 AAGAAAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.24
Consensus pattern (19 bp):
ATGCAAATGATGCAATGTA
Found at i:3050855 original size:21 final size:21
Alignment explanation
Indices: 3050817--3050870 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
3050807 GTGTATATTG
* *
3050817 ATATATATAT-TATGAAAATGT
1 ATATATATATATA-AAAAAAGT
*
3050838 ATATATGTATATAAAAAAAGT
1 ATATATATATATAAAAAAAGT
*
3050859 ATCTATATATAT
1 ATATATATATAT
3050871 TTATCTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATATATATATAAAAAAAGT
Found at i:3050995 original size:23 final size:23
Alignment explanation
Indices: 3050934--3050984 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
3050924 AAACTAGATA
3050934 AATAA-ACAAAATATAATAACAAT
1 AATAATAC-AAATATAATAACAAT
* *
3050957 AATAATACAAAGATAATAGC-AT
1 AATAATACAAATATAATAACAAT
3050979 AATAAT
1 AATAAT
3050985 GAGGAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.32
23 15 0.60
24 2 0.08
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.24
Consensus pattern (23 bp):
AATAATACAAATATAATAACAAT
Found at i:3058869 original size:27 final size:27
Alignment explanation
Indices: 3058815--3058869 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
3058805 GTAAACGTTG
**
3058815 AAGACTAAATTTATCATTGTGGTGAAT
1 AAGACTAAATTTATCATTAAGGTGAAT
* *
3058842 AAGACTAAATTTATTATTAAGGTTAAT
1 AAGACTAAATTTATCATTAAGGTGAAT
3058869 A
1 A
3058870 TATAAACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (27 bp):
AAGACTAAATTTATCATTAAGGTGAAT
Found at i:3062749 original size:9 final size:9
Alignment explanation
Indices: 3062727--3062763 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
3062717 GGTTTTTGAA
3062727 TTTTAGGG-
1 TTTTAGGGT
3062735 -TTTAGGGT
1 TTTTAGGGT
*
3062743 TTTTAGGAT
1 TTTTAGGGT
3062752 TTTTAGGGT
1 TTTTAGGGT
3062761 TTT
1 TTT
3062764 AGAGAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.28
9 18 0.72
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:3063121 original size:125 final size:126
Alignment explanation
Indices: 3062878--3063192 Score: 447
Period size: 127 Copynumber: 2.5 Consensus size: 126
3062868 AATAAAATCA
* * * * * * *
3062878 AAGCACGATGCTTTATCAGAAGGATTTCTGAAGTCGCGCCCAT-GTGTACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCC-TCGTGGACGCGCTTTTGCTACAA
* * * *
3062942 TAGGTCCTGGAAAAATAATTTCTAGTTGACGTTTTTGAGTAAATAGTAT-AAAAAACGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTAC
3063003 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
* *
3063068 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAATGCTAC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTAC
* *
3063130 AAGCAGGATG-TTATTTGAGAAGAATTTGTGAAATCGCGCCTTCGTGGACGCGCTTTTGCTACA
1 AAGCAGGATGCTT-TATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
3063193 GTAGCATGTT
Statistics
Matches: 171, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
124 1 0.01
125 67 0.39
126 35 0.20
127 68 0.40
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (126 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTAC
Found at i:3064455 original size:13 final size:13
Alignment explanation
Indices: 3064437--3064513 Score: 118
Period size: 13 Copynumber: 5.9 Consensus size: 13
3064427 AGTTCTTTAT
3064437 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
3064450 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
3064463 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
* *
3064476 TACTTTTCAGAAG
1 TGCTTTTGAGAAG
3064489 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
3064502 TGCTTTTCAGAA
1 TGCTTTTGAGAA
3064514 ATTTGAGTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:3066574 original size:2 final size:2
Alignment explanation
Indices: 3066567--3066621 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
3066557 CAAAAATAGA
*
3066567 AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3066609 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
3066622 TCATCTCTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3069895 original size:21 final size:21
Alignment explanation
Indices: 3069862--3069916 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
3069852 TTATGTGAAT
3069862 GTTTAGGGTTTAGGATTTTTAA
1 GTTTAGGG-TTAGGATTTTTAA
*
3069884 -TTTAAGGGTTAGGGTTTTTAA
1 GTTT-AGGGTTAGGATTTTTAA
3069905 GTTTAGGGTTAG
1 GTTTAGGGTTAG
3069917 TGTTAGAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTAGGATTTTTAA
Found at i:3070871 original size:192 final size:192
Alignment explanation
Indices: 3070656--3071027 Score: 457
Period size: 192 Copynumber: 1.9 Consensus size: 192
3070646 AAAGGTCCCA
* *
3070656 AACTTGGTCTATTATGTTCATTAACATCATA-A-AAAAATCATCAATTACATCCTAATAACAATT
1 AACTTAGTCTATTATATTCATTAACATCA-ACATAAAAA-CATCAATTACATCCTAATAACAATT
* ** * * * *
3070719 TCAATTCCAAAATT-GACTAAAGAAGCTTTGCAGGATATGA-AAACACAAGTGCATTTCCATTCA
64 CCAACCCCAAAATTCAACTAAA-AAGCATTGCAGGATA-CACAAACACAAATGCATTTCCATTCA
* ** * * *
3070782 AGTAACTTGTTGTGTTGTAATCACAAAG-TTCAAATGAAAACCATAACTTGAACCCATAAAAAAT
127 ACTAA-TAATAGTGTTGTAATCACAAAGCTCCAAATGAAAACCATAACTTAAACCCATAAAAAAT
3070846 TC
191 TC
* *
3070848 AACTTAGTCTATTGTATTCATTAACATCAACATAAAAACATCAATTACTTCCTAATAACAATTCC
1 AACTTAGTCTATTATATTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCC
* * **
3070913 AACCCCAAAGTTCAATTAAAAAGCATTGCAGGATACACAAATGCAAATGCATTTCCATTCAACTA
66 AACCCCAAAATTCAACTAAAAAGCATTGCAGGATACACAAACACAAATGCATTTCCATTCAACTA
* *
3070978 ATAATAGTGTTTTAATCACAAAGCTCCAAATGAAAACCATGACTTAAACC
131 ATAATAGTGTTGTAATCACAAAGCTCCAAATGAAAACCATAACTTAAACC
3071028 TATTATAGAT
Statistics
Matches: 152, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
191 20 0.13
192 122 0.80
193 10 0.07
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (192 bp):
AACTTAGTCTATTATATTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCC
AACCCCAAAATTCAACTAAAAAGCATTGCAGGATACACAAACACAAATGCATTTCCATTCAACTA
ATAATAGTGTTGTAATCACAAAGCTCCAAATGAAAACCATAACTTAAACCCATAAAAAATTC
Found at i:3071316 original size:18 final size:18
Alignment explanation
Indices: 3071290--3071332 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3071280 GATTCGAAAA
* *
3071290 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
3071308 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
3071326 AGGAAAC
1 AGGAAAC
3071333 GCACTTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:3073261 original size:28 final size:28
Alignment explanation
Indices: 3073230--3073312 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 28
3073220 AGTATTTAAT
3073230 ATTTTTTTAATTTATGCAATTTTAATTA
1 ATTTTTTTAATTTATGCAATTTTAATTA
* *
3073258 A-TTTTTCAA--TAT--TA-TTTAA-TA
1 ATTTTTTTAATTTATGCAATTTTAATTA
* *
3073279 TTTTTTTTCATTTATGCAATTTTAATTA
1 ATTTTTTTAATTTATGCAATTTTAATTA
3073307 ATTTTT
1 ATTTTT
3073313 ATTTTATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
21 2 0.05
22 11 0.27
23 1 0.02
24 3 0.07
25 3 0.07
26 1 0.02
27 12 0.29
28 8 0.20
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (28 bp):
ATTTTTTTAATTTATGCAATTTTAATTA
Found at i:3073274 original size:48 final size:49
Alignment explanation
Indices: 3073207--3073312 Score: 178
Period size: 49 Copynumber: 2.2 Consensus size: 49
3073197 AGTGATAATT
*
3073207 TTAATATTTCAATAGTATTTAATA-TTTTTTTAATTTATGCAATTTTAA
1 TTAATTTTTCAATAGTATTTAATATTTTTTTTAATTTATGCAATTTTAA
* *
3073255 TTAATTTTTCAATATTATTTAATATTTTTTTTCATTTATGCAATTTTAA
1 TTAATTTTTCAATAGTATTTAATATTTTTTTTAATTTATGCAATTTTAA
3073304 TTAATTTTT
1 TTAATTTTT
3073313 ATTTTATAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
48 22 0.41
49 32 0.59
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (49 bp):
TTAATTTTTCAATAGTATTTAATATTTTTTTTAATTTATGCAATTTTAA
Found at i:3076639 original size:31 final size:31
Alignment explanation
Indices: 3076604--3076665 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
3076594 TTGCTGACAA
3076604 TGCATCCTGCATGAAACGTTTTTGACATTAT
1 TGCATCCTGCATGAAACGTTTTTGACATTAT
* * *
3076635 TGCATGCTGCTTGAAGCGTTTTTGACATTAT
1 TGCATCCTGCATGAAACGTTTTTGACATTAT
3076666 CTTTTTAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (31 bp):
TGCATCCTGCATGAAACGTTTTTGACATTAT
Found at i:3076862 original size:72 final size:72
Alignment explanation
Indices: 3076753--3076896 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
3076743 AATTTTTTCT
3076753 AAACCCTTAACCTAAACCCTTTTACAAAAACCTTAAAAGCTAAATACATAAACTATTTTTTAAAC
1 AAACCCTTAACCTAAACCCTTTTACAAAAACCTTAAAAGCTAAATACATAAACTATTTTTTAAAC
3076818 TAAACCC
66 TAAACCC
*
3076825 AAACCCTTAACCTAAACCCTTTTACAAAAACCTTAAAAGCTAAATACATAAATTATTTTTTAAAC
1 AAACCCTTAACCTAAACCCTTTTACAAAAACCTTAAAAGCTAAATACATAAACTATTTTTTAAAC
3076890 TAAACCC
66 TAAACCC
3076897 TAATTTAATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.28
Consensus pattern (72 bp):
AAACCCTTAACCTAAACCCTTTTACAAAAACCTTAAAAGCTAAATACATAAACTATTTTTTAAAC
TAAACCC
Found at i:3076927 original size:34 final size:33
Alignment explanation
Indices: 3076889--3076998 Score: 150
Period size: 34 Copynumber: 3.2 Consensus size: 33
3076879 ATTTTTTAAA
3076889 CTAAACCCTAATTTAATTAATTTTCTTAAAAACT
1 CTAAACCCTAATTTAATTAATTTT-TTAAAAACT
*
3076923 CTAAACCCTAATTTAATTAATTTATTT-AAAACC
1 CTAAACCCTAATTTAATTAATTT-TTTAAAAACT
*
3076956 CTTAAAACCTAATTTAATTAATTTTTTTGAAAAACT
1 C-TAAACCCTAATTTAATTAA-TTTTTT-AAAAACT
3076992 CTAAACC
1 CTAAACC
3076999 ATGATTTATT
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
33 6 0.09
34 46 0.69
35 9 0.13
36 6 0.09
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.40
Consensus pattern (33 bp):
CTAAACCCTAATTTAATTAATTTTTTAAAAACT
Found at i:3078448 original size:12 final size:12
Alignment explanation
Indices: 3078416--3078449 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3078406 AAGAATTAAT
*
3078416 AATAAATAAATG
1 AATAAATATATG
*
3078428 AATAAATATGTG
1 AATAAATATATG
3078440 AATAAATATA
1 AATAAATATA
3078450 AAATGGAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (12 bp):
AATAAATATATG
Found at i:3084459 original size:89 final size:89
Alignment explanation
Indices: 3084360--3084574 Score: 430
Period size: 89 Copynumber: 2.4 Consensus size: 89
3084350 ACTATCACCA
3084360 AGCTCAAGTATTCATCAATGGCATATCTCAAAATCACCAACAAATTCTAAAATTAAAGCATGGGC
1 AGCTCAAGTATTCATCAATGGCATATCTCAAAATCACCAACAAATTCTAAAATTAAAGCATGGGC
3084425 TAGATAGAACATGATGAATACTTG
66 TAGATAGAACATGATGAATACTTG
3084449 AGCTCAAGTATTCATCAATGGCATATCTCAAAATCACCAACAAATTCTAAAATTAAAGCATGGGC
1 AGCTCAAGTATTCATCAATGGCATATCTCAAAATCACCAACAAATTCTAAAATTAAAGCATGGGC
3084514 TAGATAGAACATGATGAATACTTG
66 TAGATAGAACATGATGAATACTTG
3084538 AGCTCAAGTATTCATCAATGGCATATCTCAAAATCAC
1 AGCTCAAGTATTCATCAATGGCATATCTCAAAATCAC
3084575 AAAAACGTAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 126 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (89 bp):
AGCTCAAGTATTCATCAATGGCATATCTCAAAATCACCAACAAATTCTAAAATTAAAGCATGGGC
TAGATAGAACATGATGAATACTTG
Found at i:3090616 original size:44 final size:44
Alignment explanation
Indices: 3090564--3090721 Score: 203
Period size: 44 Copynumber: 3.6 Consensus size: 44
3090554 GTGCTCAACA
3090564 GAAACCCATAAAAGTTAAACAGAAGCTCATAAAAGAGCTGAACG
1 GAAACCCATAAAAGTTAAACAGAAGCTCATAAAAGAGCTGAACG
** ** *
3090608 GAAACCCATAAGGGTTAAATGGAAGCTTATAAAAGAGCTGAACG
1 GAAACCCATAAAAGTTAAACAGAAGCTCATAAAAGAGCTGAACG
** *
3090652 GAAATTCATAAAGGTTAAACAGAAGCTC--AAAAGAGCTGAACG
1 GAAACCCATAAAAGTTAAACAGAAGCTCATAAAAGAGCTGAACG
* **
3090694 GAAACTCATATGAGTTAAACAGAAGCTC
1 GAAACCCATAAAAGTTAAACAGAAGCTC
3090722 GTGAGAGCTA
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 38 0.38
44 61 0.62
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (44 bp):
GAAACCCATAAAAGTTAAACAGAAGCTCATAAAAGAGCTGAACG
Found at i:3090654 original size:23 final size:23
Alignment explanation
Indices: 3090585--3090703 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 23
3090575 AAGTTAAACA
3090585 GAAGCTCATAAAAGAGCTGAACG
1 GAAGCTCATAAAAGAGCTGAACG
* * * * * *
3090608 GAAACCCAT--AAGGGTTAAATG
1 GAAGCTCATAAAAGAGCTGAACG
*
3090629 GAAGCTTATAAAAGAGCTGAACG
1 GAAGCTCATAAAAGAGCTGAACG
** * * *
3090652 GAAATTCAT-AAAG-GTTAAACA
1 GAAGCTCATAAAAGAGCTGAACG
3090673 GAAGCTC--AAAAGAGCTGAACG
1 GAAGCTCATAAAAGAGCTGAACG
*
3090694 GAAACTCATA
1 GAAGCTCATA
3090704 TGAGTTAAAC
Statistics
Matches: 65, Mismatches: 25, Indels: 12
0.64 0.25 0.12
Matches are distributed among these distances:
20 4 0.06
21 35 0.54
22 4 0.06
23 22 0.34
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (23 bp):
GAAGCTCATAAAAGAGCTGAACG
Found at i:3090697 original size:42 final size:42
Alignment explanation
Indices: 3090564--3090739 Score: 183
Period size: 44 Copynumber: 4.1 Consensus size: 42
3090554 GTGCTCAACA
* *
3090564 GAAACCCATAAAAGTTAAACAGAAGCTCATAAAAGAGCTGAACG
1 GAAACTCATAAAGGTTAAACAGAAGCTC--AAAAGAGCTGAACG
* * ** *
3090608 GAAACCCATAAGGGTTAAATGGAAGCTTATAAAAGAGCTGAACG
1 GAAACTCATAAAGGTTAAACAGAAGC-T-CAAAAGAGCTGAACG
*
3090652 GAAATTCATAAAGGTTAAACAGAAGCTCAAAAGAGCTGAACG
1 GAAACTCATAAAGGTTAAACAGAAGCTCAAAAGAGCTGAACG
* *** *
3090694 GAAACTCAT-ATGAGTTAAACAGAAGCTCGTGAGAGCTAAACG
1 GAAACTCATAAAG-GTTAAACAGAAGCTCAAAAGAGCTGAACG
3090736 GAAA
1 GAAA
3090740 GTAAACACGA
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.02
42 51 0.46
43 1 0.01
44 57 0.51
45 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.16
Consensus pattern (42 bp):
GAAACTCATAAAGGTTAAACAGAAGCTCAAAAGAGCTGAACG
Found at i:3093491 original size:15 final size:17
Alignment explanation
Indices: 3093466--3093503 Score: 53
Period size: 15 Copynumber: 2.3 Consensus size: 17
3093456 TTCTATTAAC
3093466 AAAATCATAAAAA-ATT
1 AAAATCATAAAAATATT
3093482 AAAA-CATAAAAATATT
1 AAAATCATAAAAATATT
3093498 AGAAAT
1 A-AAAT
3093504 TAATTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.42
16 8 0.42
17 3 0.16
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAATCATAAAAATATT
Found at i:3107136 original size:22 final size:22
Alignment explanation
Indices: 3107108--3107152 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3107098 AAATAAGTTG
*
3107108 TTTTGTTGTTATTTCGCTATTA
1 TTTTGTTGTCATTTCGCTATTA
*
3107130 TTTTGTTGTCATTTTGCTATTA
1 TTTTGTTGTCATTTCGCTATTA
3107152 T
1 T
3107153 ATTACTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.13, C:0.09, G:0.13, T:0.64
Consensus pattern (22 bp):
TTTTGTTGTCATTTCGCTATTA
Found at i:3107393 original size:14 final size:14
Alignment explanation
Indices: 3107374--3107427 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3107364 ATTTTTATGT
3107374 AAAAATAATCTTAA
1 AAAAATAATCTTAA
*
3107388 AAAAATAATACAAATT-T
1 AAAAATAAT-C---TTAA
3107405 AAAAATAATCTTAA
1 AAAAATAATCTTAA
3107419 AAAAATAAT
1 AAAAATAAT
3107428 ACAAGTGAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
13 2 0.06
14 18 0.55
15 1 0.03
16 1 0.03
17 9 0.27
18 2 0.06
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATAATCTTAA
Found at i:3107408 original size:31 final size:31
Alignment explanation
Indices: 3107373--3107431 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
3107363 TATTTTTATG
3107373 TAAAAATAATCTTAAAAAAATAATACAAATT
1 TAAAAATAATCTTAAAAAAATAATACAAATT
3107404 TAAAAATAATCTTAAAAAAATAATACAA
1 TAAAAATAATCTTAAAAAAATAATACAA
3107432 GTGAGTCGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (31 bp):
TAAAAATAATCTTAAAAAAATAATACAAATT
Found at i:3109608 original size:22 final size:22
Alignment explanation
Indices: 3109575--3109630 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
3109565 TTTGATTTTT
*
3109575 TTATTGCA-TTATATTAATTTG
1 TTATTGTAGTTATATTAATTTG
* *
3109596 TTATTGTAGTTATATTGATTTT
1 TTATTGTAGTTATATTAATTTG
*
3109618 TTACTGTAGTTAT
1 TTATTGTAGTTAT
3109631 TAATTTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.59
Consensus pattern (22 bp):
TTATTGTAGTTATATTAATTTG
Found at i:3109636 original size:20 final size:22
Alignment explanation
Indices: 3109583--3109638 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
3109573 TTTTATTGCA
* *
3109583 TTATATTAATTTGTTATTGTAG
1 TTATATTAATTTTTTACTGTAG
*
3109605 TTATATTGATTTTTTACTGTAG
1 TTATATTAATTTTTTACTGTAG
3109627 -T-TATTAATTTTT
1 TTATATTAATTTTT
3109639 GTATGGTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 10 0.33
21 1 0.03
22 19 0.63
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (22 bp):
TTATATTAATTTTTTACTGTAG
Found at i:3115679 original size:12 final size:12
Alignment explanation
Indices: 3115664--3115709 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
3115654 AAAATAATAT
3115664 TTAAATAAAAAA
1 TTAAATAAAAAA
3115676 TTAAA-AAATAAA
1 TTAAATAAA-AAA
*
3115688 TTATAATAAAATA
1 TTA-AATAAAAAA
3115701 TTAAATAAA
1 TTAAATAAA
3115710 TTAACTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 3 0.10
12 17 0.57
13 7 0.23
14 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TTAAATAAAAAA
Found at i:3115695 original size:25 final size:26
Alignment explanation
Indices: 3115654--3115710 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
3115644 TTGAGAGAAT
3115654 AAAATAATATTTAAATAAAAAATTAA
1 AAAATAATATTTAAATAAAAAATTAA
*
3115680 AAAATAA-A-TTATAATAAAATATTAA
1 AAAATAATATTTA-AATAAAAAATTAA
3115705 ATAAAT
1 A-AAAT
3115711 TAACTTCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.11
25 14 0.50
26 11 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATAATATTTAAATAAAAAATTAA
Found at i:3116550 original size:28 final size:28
Alignment explanation
Indices: 3116518--3116576 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
3116508 AAAATCATAA
*
3116518 TTAATTAAT-TAATTAAATTTTATTAATT
1 TTAATTAATCTAATTAAA-TTTAATAATT
* *
3116546 TTAATTTATCTAATTATATTTAATAATT
1 TTAATTAATCTAATTAAATTTAATAATT
3116574 TTA
1 TTA
3116577 TAAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (28 bp):
TTAATTAATCTAATTAAATTTAATAATT
Found at i:3116599 original size:21 final size:23
Alignment explanation
Indices: 3116575--3116622 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
3116565 TTAATAATTT
*
3116575 TATAAATT-TATTAA-TTAATAA
1 TATAAATTATATCAATTTAATAA
3116596 TAT--ATTATATCAATTTAATAA
1 TATAAATTATATCAATTTAATAA
3116617 TATAAA
1 TATAAA
3116623 GAATAATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 3 0.14
20 5 0.23
21 13 0.59
23 1 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TATAAATTATATCAATTTAATAA
Found at i:3126243 original size:20 final size:20
Alignment explanation
Indices: 3126218--3126265 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3126208 ATGTCAGTCC
*
3126218 CATGAATAGTAGAGTCAAAT
1 CATGAACAGTAGAGTCAAAT
* *
3126238 CATGAACAGTGGAGTCAAGT
1 CATGAACAGTAGAGTCAAAT
*
3126258 TATGAACA
1 CATGAACA
3126266 ATGATAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (20 bp):
CATGAACAGTAGAGTCAAAT
Found at i:3151020 original size:23 final size:22
Alignment explanation
Indices: 3150994--3151044 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
3150984 TATATTTGAT
*
3150994 AAATTGAAAAATTAAGTATTAAA
1 AAATTGAAAAAATAAGTA-TAAA
* *
3151017 AAATTTTAAAAAATAAGTATAGA
1 AAA-TTGAAAAAATAAGTATAAA
3151040 AAATT
1 AAATT
3151045 AAGTGTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 2 0.08
23 9 0.38
24 13 0.54
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (22 bp):
AAATTGAAAAAATAAGTATAAA
Found at i:3151027 original size:24 final size:23
Alignment explanation
Indices: 3151000--3151044 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
3150990 TGATAAATTG
*
3151000 AAAAATTAAGTATTAAAAAATTTT
1 AAAAAATAAGTA-TAAAAAATTTT
*
3151024 AAAAAATAAGTATAGAAAATT
1 AAAAAATAAGTATAAAAAATT
3151045 AAGTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (23 bp):
AAAAAATAAGTATAAAAAATTTT
Found at i:3156211 original size:27 final size:27
Alignment explanation
Indices: 3156154--3156224 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
3156144 ATGATTCACT
* * *
3156154 ACAAAGGCGTTCTTTTCATATTACGCT
1 ACAAAGACGTTCATTTCATATTACGCC
*
3156181 ACAAAGACGTTCATTTCATAATT-TGCC
1 ACAAAGACGTTCATTTCAT-ATTACGCC
*
3156208 ACAAAGACGTTCCTTTC
1 ACAAAGACGTTCATTTC
3156225 CTGACGTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (27 bp):
ACAAAGACGTTCATTTCATATTACGCC
Found at i:3158515 original size:18 final size:16
Alignment explanation
Indices: 3158494--3158532 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3158484 AATAATGGAA
3158494 ATATATAAAAACATGT
1 ATATATAAAAACATGT
**
3158510 ATATATAAAAGTATGT
1 ATATATAAAAACATGT
3158526 ATATATA
1 ATATATA
3158533 TAAATTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:3161053 original size:19 final size:21
Alignment explanation
Indices: 3161028--3161083 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 21
3161018 AGATTTTTTC
3161028 AACTTTTAATATTTTTAAAA-
1 AACTTTTAATATTTTTAAAAT
3161048 AA-TTTTAA-ATTTTTTAAAAT
1 AACTTTTAATA-TTTTTAAAAT
*
3161068 AACTTTTACTATTTTT
1 AACTTTTAATATTTTT
3161084 TTTTCATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 4 0.13
21 10 0.32
22 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
AACTTTTAATATTTTTAAAAT
Found at i:3166670 original size:21 final size:21
Alignment explanation
Indices: 3166593--3166669 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
3166583 AAAAGGCATG
**
3166593 GATGACGACAATGAAGATGAT
1 GATGACGAGGATGAAGATGAT
*
3166614 GATGACGAGGACGAAGATGAT
1 GATGACGAGGATGAAGATGAT
** *
3166635 GACTTG-C-TTGATGATGATGAT
1 GA--TGACGAGGATGAAGATGAT
3166656 GATGACGAGGATGA
1 GATGACGAGGATGA
3166670 TTATAATGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.05
20 1 0.02
21 37 0.86
22 1 0.02
23 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.34, T:0.22
Consensus pattern (21 bp):
GATGACGAGGATGAAGATGAT
Found at i:3171880 original size:54 final size:47
Alignment explanation
Indices: 3171821--3171936 Score: 135
Period size: 47 Copynumber: 2.3 Consensus size: 47
3171811 TATTATTTCA
*
3171821 TTTAATAAAATAAAAGTTGTTTTTAATATTTTAATAGTAATTTATTTTT-ATATT
1 TTTAATAAAATAAAAGTT-CTTTTAA-A---TAAT-GTAA--TATTTTTAATATT
*
3171875 TTTAATAAAATAAAAGTTCTTTTGAATAATGTAATATTTTTAATATT
1 TTTAATAAAATAAAAGTTCTTTTAAATAATGTAATATTTTTAATATT
3171922 TTTAATAAAATAAAA
1 TTTAATAAAATAAAA
3171937 ATAATGCAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
46 7 0.12
47 20 0.34
48 4 0.07
49 4 0.07
52 1 0.02
53 5 0.08
54 18 0.31
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (47 bp):
TTTAATAAAATAAAAGTTCTTTTAAATAATGTAATATTTTTAATATT
Found at i:3175994 original size:3 final size:3
Alignment explanation
Indices: 3175980--3176065 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
3175970 GAGCTTTGTT
* *
3175980 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
3176024 TT- TCTCA TGTA TATA TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3176066 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 48 0.71
4 6 0.09
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3176022 original size:18 final size:18
Alignment explanation
Indices: 3175980--3176069 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 18
3175970 GAGCTTTGTT
*
3175980 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
3176000 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
3176018 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
*
3176039 TTATTTTTTATATTATTA
1 TTATTATTTATATTATTA
3176057 TTA-TATTATATAT
1 TTATTATT-TATAT
3176070 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.44
19 9 0.15
20 10 0.17
21 11 0.19
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:3176307 original size:18 final size:19
Alignment explanation
Indices: 3176271--3176327 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
3176261 ACTATTACTA
*
3176271 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
3176291 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
3176308 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
3176326 TT
1 TT
3176328 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:3176426 original size:12 final size:12
Alignment explanation
Indices: 3176409--3176438 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3176399 GTATTTCTAT
3176409 TATATACATATA
1 TATATACATATA
*
3176421 TATATACATTTA
1 TATATACATATA
3176433 TATATA
1 TATATA
3176439 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:3187566 original size:45 final size:46
Alignment explanation
Indices: 3187499--3187622 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
3187489 CATATGACCT
*
3187499 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
3187542 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
3187588 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
3187623 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:3187605 original size:46 final size:45
Alignment explanation
Indices: 3187499--3187770 Score: 198
Period size: 37 Copynumber: 6.8 Consensus size: 45
3187489 CATATGACCT
*
3187499 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
3187542 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
3187588 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
3187625 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
3187662 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
3187699 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
3187736 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
3187771 CACTTATCAC
Statistics
Matches: 214, Mismatches: 7, Indels: 18
0.90 0.03 0.08
Matches are distributed among these distances:
37 138 0.64
39 2 0.01
40 3 0.01
42 1 0.00
43 9 0.04
44 6 0.03
45 21 0.10
46 34 0.16
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:3187626 original size:37 final size:37
Alignment explanation
Indices: 3187585--3187797 Score: 390
Period size: 37 Copynumber: 5.8 Consensus size: 37
3187575 GCTGAAGCTA
* **
3187585 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
3187622 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
3187659 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
*
3187696 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
3187733 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
3187770 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTTTCTTGATCAGA
3187798 AGTACTCAAA
Statistics
Matches: 171, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 171 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (37 bp):
CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
Found at i:3195304 original size:45 final size:46
Alignment explanation
Indices: 3195237--3195360 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
3195227 CATATGACCT
*
3195237 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
3195280 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
3195326 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
3195361 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:3195343 original size:46 final size:45
Alignment explanation
Indices: 3195237--3195471 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
3195227 CATATGACCT
*
3195237 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
3195280 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
3195326 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
3195363 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
3195400 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
3195437 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
3195472 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Done.