Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 1 of 214
Found at i:10950 original size:31 final size:30
Alignment explanation
Indices: 10904--10965 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
10894 GCAGATTATA
* *
10904 TTTTACCTAAGTCATTCGATTTTGAGGTATT
1 TTTTACCTAAATCATTCGATTTTAAGG-ATT
*
10935 TTTTATCTAAATCATTCGATTTTAAGGATT
1 TTTTACCTAAATCATTCGATTTTAAGGATT
10965 T
1 T
10966 AGCTTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (30 bp):
TTTTACCTAAATCATTCGATTTTAAGGATT
Found at i:20766 original size:29 final size:29
Alignment explanation
Indices: 20709--20767 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
20699 AAAAGATTTT
*
20709 GGCCCGACTCTTAGGCACGGGACCAGCCC
1 GGCCCGACTCTTAGGCACAGGACCAGCCC
* * *
20738 GGCCCGACTCTTAGGCCCAGGCCCGGCCC
1 GGCCCGACTCTTAGGCACAGGACCAGCCC
20767 G
1 G
20768 AAATATGTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.44, G:0.32, T:0.10
Consensus pattern (29 bp):
GGCCCGACTCTTAGGCACAGGACCAGCCC
Found at i:31614 original size:19 final size:20
Alignment explanation
Indices: 31577--31615 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
31567 ACCTTAAAAA
31577 TTTAAATTATATTAGATTTT
1 TTTAAATTATATTAGATTTT
31597 TTTAAACTTAT-TTA-ATTTT
1 TTTAAA-TTATATTAGATTTT
31616 AAAACAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTAAATTATATTAGATTTT
Found at i:33136 original size:31 final size:31
Alignment explanation
Indices: 33098--33162 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
33088 ACCCCTAAAC
*
33098 CCCAAGCCGGGATATTCCTGGAATGGGATAT
1 CCCAAGCCCGGATATTCCTGGAATGGGATAT
33129 CCCAAGCCCGGATATTCCTGGAATGGGATAT
1 CCCAAGCCCGGATATTCCTGGAATGGGATAT
33160 CCC
1 CCC
33163 CAGAAGGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.22
Consensus pattern (31 bp):
CCCAAGCCCGGATATTCCTGGAATGGGATAT
Found at i:34232 original size:24 final size:23
Alignment explanation
Indices: 34193--34259 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 23
34183 ATAATATTTT
*
34193 AATATATA-AAATATAAGTT-TTA
1 AATATTTATAAATATAA-TTATTA
*
34215 AATATTTTTAAATAATAATTATTA
1 AATATTTATAAAT-ATAATTATTA
* *
34239 ATTATTTATAAAATTTAATTA
1 AATATTTAT-AAATATAATTA
34260 GAATATACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 6 0.17
23 6 0.17
24 20 0.56
25 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
AATATTTATAAATATAATTATTA
Found at i:37009 original size:43 final size:43
Alignment explanation
Indices: 36948--37035 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
36938 TATATCATCG
36948 TGGTCTAATCCATAATTCAAAAGTAAGTAGAGTTCCTAAATTA
1 TGGTCTAATCCATAATTCAAAAGTAAGTAGAGTTCCTAAATTA
* * *
36991 TGGTCTAATCCGTAATTCAAAAGTAAGTGGAGTTCTTAAATTA
1 TGGTCTAATCCATAATTCAAAAGTAAGTAGAGTTCCTAAATTA
37034 TG
1 TG
37036 CTACTACATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (43 bp):
TGGTCTAATCCATAATTCAAAAGTAAGTAGAGTTCCTAAATTA
Found at i:45498 original size:25 final size:25
Alignment explanation
Indices: 45460--45514 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
45450 TACCAAGTCC
45460 TTTAAAATATTTCTAAGCCACATTT
1 TTTAAAATATTTCTAAGCCACATTT
*
45485 TTTAAAATGA-TTCTAAGCCATATTT
1 TTTAAAAT-ATTTCTAAGCCACATTT
45510 TTTAA
1 TTTAA
45515 GGTTCTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.45
Consensus pattern (25 bp):
TTTAAAATATTTCTAAGCCACATTT
Found at i:48419 original size:16 final size:17
Alignment explanation
Indices: 48398--48431 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
48388 GATGCCATAC
48398 TTGAATA-ATTTTGGTT
1 TTGAATAGATTTTGGTT
*
48414 TTGAATAGGTTTTGGTT
1 TTGAATAGATTTTGGTT
48431 T
1 T
48432 ATGTGTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (17 bp):
TTGAATAGATTTTGGTT
Found at i:49415 original size:33 final size:33
Alignment explanation
Indices: 49378--49442 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
49368 TAATTTACAA
*
49378 TATATT-ATATATTATGTTTACTTA-AATAATAAG
1 TATATTGATATATTAT-ATTA-TTATAATAATAAG
*
49411 TATATTGTTATATTATATTATTATAATAATAA
1 TATATTGATATATTATATTATTATAATAATAA
49443 AACAAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 3 0.11
33 17 0.61
34 8 0.29
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (33 bp):
TATATTGATATATTATATTATTATAATAATAAG
Found at i:50565 original size:18 final size:18
Alignment explanation
Indices: 50542--50579 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
50532 GCATGCCATA
50542 GGATTGGAAGTGTTCAGG
1 GGATTGGAAGTGTTCAGG
50560 GGATTGGAAGTGTTCAGG
1 GGATTGGAAGTGTTCAGG
50578 GG
1 GG
50580 TACTTCGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.47, T:0.26
Consensus pattern (18 bp):
GGATTGGAAGTGTTCAGG
Found at i:54243 original size:24 final size:24
Alignment explanation
Indices: 54211--54286 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
54201 TAATTGAATC
*
54211 CTAATAAAACTCTTTTGAAATTAT
1 CTAAGAAAACTCTTTTGAAATTAT
** *
54235 CTAAGAAAA-T-AATTG-AA-T-C
1 CTAAGAAAACTCTTTTGAAATTAT
* *
54254 CTAATAAAACTCTTTTAAAATTAT
1 CTAAGAAAACTCTTTTGAAATTAT
54278 CTAAGAAAA
1 CTAAGAAAA
54287 TAAATAATAA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
19 8 0.22
20 2 0.05
21 4 0.11
22 5 0.14
23 2 0.05
24 16 0.43
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (24 bp):
CTAAGAAAACTCTTTTGAAATTAT
Found at i:54249 original size:43 final size:43
Alignment explanation
Indices: 54201--54289 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
54191 ATTACAAGAG
*
54201 TAATTGAATCCTAATAAAACTCTTTTGAAATTATCTAAGAAAA
1 TAATTGAATCCTAATAAAACTCTTTTAAAATTATCTAAGAAAA
54244 TAATTGAATCCTAATAAAACTCTTTTAAAATTATCTAAGAAAA
1 TAATTGAATCCTAATAAAACTCTTTTAAAATTATCTAAGAAAA
54287 TAA
1 TAA
54290 ATAATAACCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (43 bp):
TAATTGAATCCTAATAAAACTCTTTTAAAATTATCTAAGAAAA
Found at i:65090 original size:44 final size:44
Alignment explanation
Indices: 65040--65128 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
65030 ACCTGACATC
65040 AAATGTAGTATATATTTCAGTTTATTTCCACACTTAAGGAGCTT
1 AAATGTAGTATATATTTCAGTTTATTTCCACACTTAAGGAGCTT
* *
65084 AAATGTAGTATTTATTTCGGTTTATTTCCACACTTAAGGAGCTT
1 AAATGTAGTATATATTTCAGTTTATTTCCACACTTAAGGAGCTT
65128 A
1 A
65129 GTTTCTAGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (44 bp):
AAATGTAGTATATATTTCAGTTTATTTCCACACTTAAGGAGCTT
Found at i:66087 original size:45 final size:44
Alignment explanation
Indices: 65992--66087 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
65982 AGTTCGAAAG
* *
65992 GGTATCCTCTCGTGTATAACTTGTGCCAAGTGGTGAGACCGGAA
1 GGTATCATCTCGTGTATAACTTGTGCCAAGTAGTGAGACCGGAA
* *
66036 GAGTATCATGTCGTGTATACCTTGTGCCAAGTAGTGAGACCGGAA
1 G-GTATCATCTCGTGTATAACTTGTGCCAAGTAGTGAGACCGGAA
66081 TGGTATC
1 -GGTATC
66088 CATATGTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
44 1 0.02
45 44 0.96
46 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (44 bp):
GGTATCATCTCGTGTATAACTTGTGCCAAGTAGTGAGACCGGAA
Found at i:74438 original size:43 final size:43
Alignment explanation
Indices: 74278--74439 Score: 113
Period size: 44 Copynumber: 3.8 Consensus size: 43
74268 CGATATGTAA
* ** ** * *
74278 TTACGTGTAAGACCACATCTAAGATGTTGGCATCG-ATTTGTAAT
1 TTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATATG--AG
*
74322 TTACGTGTAAGACCATGTCTGGGACATCT-GCATCGTATATGAG
1 TTACGTGTAAGACCACGTCTGGGACAT-TGGCATCGTATATGAG
* *
74365 TT-CGTGTAAGACC-CTGTC-GGGAAAAGTGGCATCG-ATAGTTGA-
1 TTACGTGTAAGACCAC-GTCTGGG-ACATTGGCATCGTATA--TGAG
*
74407 TTACATGTAAGACCACGTCTGGGACATTGGCAT
1 TTACGTGTAAGACCACGTCTGGGACATTGGCAT
74440 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
41 7 0.07
42 24 0.26
43 27 0.29
44 31 0.33
45 5 0.05
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATATGAG
Found at i:75183 original size:21 final size:21
Alignment explanation
Indices: 75158--75201 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
75148 ATCTTCGAGG
75158 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
75179 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
75200 AT
1 AT
75202 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:75207 original size:19 final size:19
Alignment explanation
Indices: 75157--75212 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
75147 AATCTTCGAG
75157 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
75176 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
75197 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
75213 AGATATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:75238 original size:22 final size:23
Alignment explanation
Indices: 75201--75245 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
75191 AGATATGATA
75201 TGTAATCTTAGAAGATATAATTT
1 TGTAATCTTAGAAGATATAATTT
*
75224 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
75246 GTAGATACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:75678 original size:3 final size:3
Alignment explanation
Indices: 75670--75706 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
75660 ATTAATTTTG
75670 TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
75707 ACCTACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:75968 original size:17 final size:16
Alignment explanation
Indices: 75946--75977 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
75936 AATTTTTAGG
75946 ATGTAATTATTATTTTT
1 ATGTAATTATT-TTTTT
75963 ATGTAATTATTTTTT
1 ATGTAATTATTTTTT
75978 AATTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
ATGTAATTATTTTTTT
Found at i:76516 original size:19 final size:20
Alignment explanation
Indices: 76475--76516 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
76465 ATTTCTATGC
* *
76475 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
76495 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
76514 CAT
1 CAT
76517 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:83485 original size:44 final size:44
Alignment explanation
Indices: 83437--83885 Score: 174
Period size: 44 Copynumber: 10.2 Consensus size: 44
83427 AAGATTGTAG
*
83437 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGACAA
* * * *
83481 ATCTTATCTTTCC-AAG-A-TAGTGGAAAGCAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGTGG--AGTAGATTAAAGACGA-CAA
** * * * * * * * *
83525 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGA-CGACAA
* *
83569 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGACAA
** * * *
83613 ATCTTATCT-TTTCAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 ATCTTATCTCCCT-AAGCAGTAGT-GG-AGTAGATTAAAGACGA-CAA
** * * * * * * * * *
83657 GCCTTGTCTCCCTTAGCAGCAGCGGAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGA-CGACAA
* * *
83701 ATCTTATCTCCCTAAGCAGTAGTGGAGGAGATCAAAGAC-AGTAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGA-CAA
* * * *
83745 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACTAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGTAGATTAAAGACGAC-AA
** * * * ** * * * * *
83789 GCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGA-CGACAA
83833 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGACAA
83877 ATCTTATCT
1 ATCTTATCT
83886 TTCCAAGATA
Statistics
Matches: 278, Mismatches: 95, Indels: 64
0.64 0.22 0.15
Matches are distributed among these distances:
42 14 0.05
43 21 0.08
44 222 0.80
45 13 0.05
46 8 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGACAA
Found at i:83629 original size:132 final size:132
Alignment explanation
Indices: 83387--84197 Score: 1356
Period size: 132 Copynumber: 6.1 Consensus size: 132
83377 ACCGGTGAAA
* **
83387 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAAAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
83452 GCAGTAGTGGAGTAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
83517 GC
131 GC
*
83519 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
83584 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTTCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
83649 GC
131 GC
*
83651 CACCAAGCCTTGTCTCCCTTAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
83716 GCAGTAGTGGAGGAGATCAAAGAC-AGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 GCAGTAGTGGAGCAGATCAAAGACGA-CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
83780 AGC
130 AGC
* *
83783 CACTAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
83848 GCAGTAGTGGAGTAGATTAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
83913 GC
131 GC
*
83915 CACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
83980 GCAGTTGTGGAGCAAATCGAAGAC-AGCAAATCTTAACTTTCCAAGATAGTGGGAAGCAGATTTA
66 GCAGTAGTGGAGCAGATCAAAGACGA-CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
*
84044 AGT
130 AGC
* *
84047 CACCAAGCCTTGTTTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
84112 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
84177 GC
131 GC
* *
84179 CACCAAGCTTTGCCTCCCT
1 CACCAAGCCTTGTCTCCCT
84198 CGGAGCAAGC
Statistics
Matches: 636, Mismatches: 39, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
131 2 0.00
132 632 0.99
133 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:84271 original size:44 final size:44
Alignment explanation
Indices: 84223--84384 Score: 170
Period size: 44 Copynumber: 3.7 Consensus size: 44
84213 CTACAAGTCT
* *
84223 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACAT-ATCC
* *
84267 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACATATCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACATATCC
* * * * * * * *
84311 TATCTCTCTGAAGTTGCAGTAGAGTAGA-TCACATC-GA-GTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACATATCC
84352 TATCTCCCTGAAGTTGCAGTGGAGTAGACTTAA
1 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TTAA
84385 GAAAGCAAGC
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 29 0.29
42 1 0.01
43 6 0.06
44 62 0.62
45 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACATATCC
Found at i:84803 original size:21 final size:21
Alignment explanation
Indices: 84774--84817 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
84764 ATCTTCGAGG
* *
84774 ATATTCAATCTTAGATATGAT
1 ATATGCAATCTCAGATATGAT
84795 ATATGCAATCTCAGATATGAT
1 ATATGCAATCTCAGATATGAT
84816 AT
1 AT
84818 GTAATCTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTCAGATATGAT
Found at i:84823 original size:19 final size:20
Alignment explanation
Indices: 84774--84824 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
84764 ATCTTCGAGG
* *
84774 ATATTCAATCTTAGATATGA
1 ATATGCAATCTCAGATATGA
84794 TATATGCAATCTCAGATATG-
1 -ATATGCAATCTCAGATATGA
*
84814 ATATGTAATCT
1 ATATGCAATCT
84825 TAGAAGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 10 0.37
21 17 0.63
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (20 bp):
ATATGCAATCTCAGATATGA
Found at i:84835 original size:22 final size:23
Alignment explanation
Indices: 84807--84851 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
84797 ATGCAATCTC
84807 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
84829 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
84852 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:84861 original size:22 final size:23
Alignment explanation
Indices: 84817--84861 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
84807 AGATATGATA
*
84817 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
84840 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
84862 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:85298 original size:3 final size:3
Alignment explanation
Indices: 85290--85323 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
85280 ATTAATTTTG
85290 TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T
85324 ACCTACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:85584 original size:17 final size:16
Alignment explanation
Indices: 85562--85593 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
85552 AATTTTTAGG
85562 ATGTAATTATTATTTTT
1 ATGTAATTATT-TTTTT
85579 ATGTAATTATTTTTT
1 ATGTAATTATTTTTT
85594 AATTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
ATGTAATTATTTTTTT
Found at i:85673 original size:10 final size:10
Alignment explanation
Indices: 85658--85695 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
85648 TAATTCTTTT
85658 TATATTTATA
1 TATATTTATA
*
85668 TATATTCATA
1 TATATTTATA
85678 TATATTTAT-
1 TATATTTATA
*
85687 TATTTTTAT
1 TATATTTAT
85696 GTAGATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTATA
Found at i:86128 original size:19 final size:20
Alignment explanation
Indices: 86087--86128 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
86077 ATTTCTATGC
* *
86087 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
86107 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
86126 CAT
1 CAT
86129 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:86861 original size:2 final size:2
Alignment explanation
Indices: 86854--86878 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
86844 TGGTTTCGAC
86854 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
86879 GTAGGATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95482 original size:29 final size:29
Alignment explanation
Indices: 95434--95490 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
95424 AATAGATAGA
95434 ATAAAAATTATAAAAAATTAAGAAATTAT
1 ATAAAAATTATAAAAAATTAAGAAATTAT
* *
95463 ATAAAAA-TATAAAATTATTAATAAATTA
1 ATAAAAATTATAAAA-AATTAAGAAATTA
95491 GAAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
ATAAAAATTATAAAAAATTAAGAAATTAT
Found at i:95508 original size:21 final size:19
Alignment explanation
Indices: 95437--95511 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 19
95427 AGATAGAATA
*
95437 AAAATTA-TAAAAAATTA-
1 AAAATTATTAATAAATTAG
*
95454 AGAAATTATATAA-AAA-TAT
1 A-AAATTAT-TAATAAATTAG
95473 AAAATTATTAATAAATTAG
1 AAAATTATTAATAAATTAG
95492 AAAATTATTACAATAAATTA
1 AAAATTATT--AATAAATTA
95512 TTTAAAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
17 4 0.08
18 18 0.37
19 15 0.31
20 3 0.06
21 9 0.18
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAATTATTAATAAATTAG
Found at i:95857 original size:44 final size:44
Alignment explanation
Indices: 95807--95895 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
95797 CATGTTACAC
95807 TCATAAAGGGAGGATATGAATTCAAATATTAGAGTAGACATTGT
1 TCATAAAGGGAGGATATGAATTCAAATATTAGAGTAGACATTGT
95851 TCATAAAGGGAGGATATGAATTCAAATATTAGAGTAGACATTGT
1 TCATAAAGGGAGGATATGAATTCAAATATTAGAGTAGACATTGT
95895 T
1 T
95896 GAGAGAGATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (44 bp):
TCATAAAGGGAGGATATGAATTCAAATATTAGAGTAGACATTGT
Found at i:96431 original size:18 final size:17
Alignment explanation
Indices: 96408--96458 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
96398 TTAAAAACTG
96408 ATAAAATATTATAAAAA
1 ATAAAATATTATAAAAA
**
96425 ATAAAA-ATGGTAATAAA
1 ATAAAATATTATAA-AAA
96442 ATAAAATATTATAAAAA
1 ATAAAATATTATAAAAA
96459 TACATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 5 0.18
17 18 0.64
18 5 0.18
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (17 bp):
ATAAAATATTATAAAAA
Found at i:106643 original size:14 final size:14
Alignment explanation
Indices: 106605--106643 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
106595 ATAAAAAATT
106605 AATTAATTTATTTAA
1 AATT-ATTTATTTAA
*
106620 ATAATATTTATTTAA
1 A-ATTATTTATTTAA
106635 AATTATTTA
1 AATTATTTA
106644 CTAGAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 7 0.33
15 12 0.57
16 2 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTATTTATTTAA
Found at i:116186 original size:25 final size:23
Alignment explanation
Indices: 116145--116190 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
116135 GACTGTGGAC
116145 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGG-TTTATTTTT
116169 ATTTATAAAA-TTGAGTTTATTT
1 ATTT-TAAAATTTG-GTTTATTT
116191 GCTAAGGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (23 bp):
ATTTTAAAATTTGGTTTATTTTT
Found at i:117494 original size:3 final size:3
Alignment explanation
Indices: 117486--117583 Score: 81
Period size: 3 Copynumber: 32.7 Consensus size: 3
117476 TATTTTTAAC
* * * * *
117486 ATT ATT ATT TTT AAT ATT TTT ACT ATT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
117534 ATC ATCT -TT ACT ATT ATT ATT AAT ATT AAT GTT ATT ATT ATT ATC
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
117579 ATT AT
1 ATT AT
117584 ATTTCTATTT
Statistics
Matches: 71, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
2 1 0.01
3 70 0.99
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:117503 original size:24 final size:24
Alignment explanation
Indices: 117476--117527 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
117466 TTTAGCTAAT
*
117476 TATTTTTAAC-ATTATTATTTTTAA
1 TATTTTT-ACTATTATTATTATTAA
*
117500 TATTTTTACTATTATTATTATTAT
1 TATTTTTACTATTATTATTATTAA
117524 TATT
1 TATT
117528 ACTATTATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTTTTACTATTATTATTATTAA
Found at i:118132 original size:4 final size:4
Alignment explanation
Indices: 118123--118153 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
118113 ATTTTTGTGT
118123 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
118154 GTTATGGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:118471 original size:110 final size:110
Alignment explanation
Indices: 118274--118792 Score: 832
Period size: 110 Copynumber: 4.8 Consensus size: 110
118264 AAATTTTTCT
* * *
118274 AAATGAGGCAATGTTTTGCGTTT-GGAAATTTGAGAAAACATGCCTTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
*
118338 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
66 TTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTA
* *
118383 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAATATGCTCTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
*
118448 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
66 TTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTA
*
118493 AAATAAGGCAATGTTTTGCATTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
*
118558 TTTTCTCGTTCAACTAAATGACTTAATATCCTTTTAAAAATTTTA
66 TTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTA
*
118603 AAATAAGGTAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
* *
118668 TTTTCTCATTCAACTAAATGACTTAATATCCTTTTAAAAATTTTA
66 TTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTA
* * * * * *
118713 AAATAAGGTAATGTTTTGCGTTT-GGAAATTCGAG-GAACGTGCCCTAATGTGTTGGGTTTCGA-
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
*
118775 -TTTCTCGTTTAACCAAAT
66 TTTTCTCGTTCAACCAAAT
118793 AGCCAAATAT
Statistics
Matches: 388, Mismatches: 21, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
106 15 0.04
108 23 0.06
109 33 0.09
110 317 0.82
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (110 bp):
AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
TTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTA
Found at i:119100 original size:6 final size:6
Alignment explanation
Indices: 119089--119114 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
119079 TGGCGACTCC
119089 CATTTT CATTTT CATTTT CATTTT CA
1 CATTTT CATTTT CATTTT CATTTT CA
119115 AAAACCCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (6 bp):
CATTTT
Found at i:124425 original size:21 final size:21
Alignment explanation
Indices: 124399--124439 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
124389 GGAGCTATCA
* *
124399 CACACAGGTGTGTGGGATTTC
1 CACACAGGCGTGTGCGATTTC
124420 CACACAGGCGTGTGCGATTT
1 CACACAGGCGTGTGCGATTT
124440 GCCAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.27
Consensus pattern (21 bp):
CACACAGGCGTGTGCGATTTC
Found at i:126957 original size:14 final size:14
Alignment explanation
Indices: 126940--126971 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
126930 TATGTGTTTG
126940 TGTTTATACATATA
1 TGTTTATACATATA
126954 TGTTTATACATATA
1 TGTTTATACATATA
126968 TGTT
1 TGTT
126972 ACCATCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (14 bp):
TGTTTATACATATA
Found at i:128154 original size:8 final size:8
Alignment explanation
Indices: 128141--128180 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
128131 ATTGACCTGA
128141 TTATTATT
1 TTATTATT
128149 TTATTATTT
1 TTATTA-TT
128158 TTATTATT
1 TTATTATT
128166 TTACTTTATT
1 TTA--TTATT
128176 TTATT
1 TTATT
128181 TTATTTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 13 0.45
9 8 0.28
10 8 0.28
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:128178 original size:5 final size:5
Alignment explanation
Indices: 128144--128187 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
128134 GACCTGATTA
* *
128144 TTATT TTATT ATTTTT ATTATT TTACT TTATT TTATT TTATT TT
1 TTATT TTATT -TTATT -TTATT TTATT TTATT TTATT TTATT TT
128188 CTATGACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:135938 original size:10 final size:10
Alignment explanation
Indices: 135923--135953 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
135913 AATATGTACA
135923 CTATCTATAT
1 CTATCTATAT
135933 CTATCTATAT
1 CTATCTATAT
135943 CTATCTATAT
1 CTATCTATAT
135953 C
1 C
135954 ATATTTAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (10 bp):
CTATCTATAT
Found at i:150633 original size:41 final size:41
Alignment explanation
Indices: 150601--150682 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
150591 ATATTTTATT
150601 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
*
150642 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
150683 CAATTAGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
Found at i:160660 original size:19 final size:19
Alignment explanation
Indices: 160636--160676 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
160626 TATTTTAAAG
160636 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
* *
160655 TTATTTGGGTAGATAAATC
1 TTATTTAGGTAAATAAATC
160674 TTA
1 TTA
160677 GAATAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:164607 original size:18 final size:18
Alignment explanation
Indices: 164586--164625 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
164576 AATTCAAAAT
*
164586 TTAAAAATTAAATTTAAA
1 TTAAAAACTAAATTTAAA
*
164604 TTAAAGACTAAATTTAAA
1 TTAAAAACTAAATTTAAA
164622 TTAA
1 TTAA
164626 TTACAGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
TTAAAAACTAAATTTAAA
Found at i:167137 original size:9 final size:9
Alignment explanation
Indices: 167106--167145 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
167096 ACACTTTGAC
167106 ATTGAATTG
1 ATTGAATTG
*
167115 AATTAAAGTTG
1 -ATTGAA-TTG
167126 ATTGAATTG
1 ATTGAATTG
167135 ATTGAATTG
1 ATTGAATTG
167144 AT
1 AT
167146 ATATATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 14 0.52
10 10 0.37
11 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (9 bp):
ATTGAATTG
Found at i:171193 original size:28 final size:28
Alignment explanation
Indices: 171161--171218 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
171151 TCAATTAATC
171161 AATATAGAGTTAGTTGCTCTTACTCTCG
1 AATATAGAGTTAGTTGCTCTTACTCTCG
171189 AATATAGAGTTAGTTGCTCTTACTCTCG
1 AATATAGAGTTAGTTGCTCTTACTCTCG
171217 AA
1 AA
171219 AAATATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (28 bp):
AATATAGAGTTAGTTGCTCTTACTCTCG
Found at i:172603 original size:14 final size:15
Alignment explanation
Indices: 172586--172614 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
172576 ACAATTACAG
172586 AATAAAAA-ATGAAA
1 AATAAAAATATGAAA
172600 AATAAAAATATGAAA
1 AATAAAAATATGAAA
172615 TTGAAGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
AATAAAAATATGAAA
Found at i:172841 original size:22 final size:22
Alignment explanation
Indices: 172816--172866 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
172806 AACAATAACT
172816 TTAA-ACAGTTGAAAAAAAATCA
1 TTAACACAGTT-AAAAAAAATCA
*
172838 TTAACACTGTTAAAAAAAATCA
1 TTAACACAGTTAAAAAAAATCA
*
172860 TCAACAC
1 TTAACAC
172867 TCTTACAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.24
Consensus pattern (22 bp):
TTAACACAGTTAAAAAAAATCA
Found at i:176848 original size:56 final size:59
Alignment explanation
Indices: 176782--176897 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 59
176772 ATCATTTTAA
* * *
176782 TTTTATTTTTCTTTTTCGAGAAAACCACATTCATTT-CAAATGATT-TCATTTCTCCAT
1 TTTTATTTTTCATTTTCGAAAAAACCACAATCATTTCCAAATGATTCTCATTTCTCCAT
* * * *
176839 TTTTA-TTTTCATTTTGGAAAAAACCATAATCATTTCCAACTGTTTCTCATTTCTCCAT
1 TTTTATTTTTCATTTTCGAAAAAACCACAATCATTTCCAAATGATTCTCATTTCTCCAT
176897 T
1 T
176898 GTCACAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 25 0.50
57 12 0.24
58 13 0.26
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (59 bp):
TTTTATTTTTCATTTTCGAAAAAACCACAATCATTTCCAAATGATTCTCATTTCTCCAT
Found at i:179209 original size:444 final size:444
Alignment explanation
Indices: 178380--179251 Score: 1708
Period size: 444 Copynumber: 2.0 Consensus size: 444
178370 GCACTCAAAG
178380 ATGAACAAAAGCCACAGAAAAGCAAGAATACTAGAGAGAAAGTTTAAGTAAATGCTCTCAAAATT
1 ATGAACAAAAGCCACAGAAAAGCAAGAATACTAGAGAGAAAGTTTAAGTAAATGCTCTCAAAATT
*
178445 CTATTATTCACTGAATGAATTACAATGAGGAGGAGAGGCCTTTATTTATAACTGAGCCTCCCAAA
66 CTATTATTCACTGAATGAATTACAATGAGGAGGAGAGGCCTTTATTTATAACTGAGCCTCACAAA
178510 ATCAACGGTATAGATCAAAATACATCAATGGCTAAGATTAAAAGCTATCTACAAATCAAATATCT
131 ATCAACGGTATAGATCAAAATACATCAATGGCTAAGATTAAAAGCTATCTACAAATCAAATATCT
178575 AAGATTATAGAATCGTATCTTTCAAAGATTACATATCGTATCTAGGATTACATATCTTTGAAGAT
196 AAGATTATAGAATCGTATCTTTCAAAGATTACATATCGTATCTAGGATTACATATCTTTGAAGAT
178640 CACATTCCATATTTGTCAAGCTTTGTATATGGGCCTTCGATCTCTCCAAGCAATGAGCCAGTCCG
261 CACATTCCATATTTGTCAAGCTTTGTATATGGGCCTTCGATCTCTCCAAGCAATGAGCCAGTCCG
178705 ATTGGGCCAAATGACCCATTTTGAACATAATGGATCGCACAAGTGAGCCATGGTTGTTGGTTTCC
326 ATTGGGCCAAATGACCCATTTTGAACATAATGGATCGCACAAGTGAGCCATGGTTGTTGGTTTCC
*
178770 CTACGCAACCTATGACCTTCTCCACCACTTCTTCTAGTATGGTTGCTGGTTTCC
391 CTACGCAACCCATGACCTTCTCCACCACTTCTTCTAGTATGGTTGCTGGTTTCC
178824 ATGAACAAAAGCCACAGAAAAGCAAGAATACTAGAGAGAAAGTTTAAGTAAATGCTCTCAAAATT
1 ATGAACAAAAGCCACAGAAAAGCAAGAATACTAGAGAGAAAGTTTAAGTAAATGCTCTCAAAATT
178889 CTATTATTCACTGAATGAATTACAATGAGGAGGAGAGGCCTTTATTTATAACTGAGCCTCACAAA
66 CTATTATTCACTGAATGAATTACAATGAGGAGGAGAGGCCTTTATTTATAACTGAGCCTCACAAA
178954 ATCAACGGTATAGATCAAAATACATCAATGGCTAAGATTAAAAGCTATCTACAAATCAAATATCT
131 ATCAACGGTATAGATCAAAATACATCAATGGCTAAGATTAAAAGCTATCTACAAATCAAATATCT
179019 AAGATTATAGAATCGTATCTTTCAAAGATTACATATCGTATCTAGGATTACATATCTTTGAAGAT
196 AAGATTATAGAATCGTATCTTTCAAAGATTACATATCGTATCTAGGATTACATATCTTTGAAGAT
179084 CACATTCCATATTTGTCAAGCTTTGTATATGGGCCTTCGATCTCTCCAAGCAATGAGCCAGTCCG
261 CACATTCCATATTTGTCAAGCTTTGTATATGGGCCTTCGATCTCTCCAAGCAATGAGCCAGTCCG
*
179149 ATTGGGCCAAATGACCCATTTTGAACATAATGGATTGCACAAGTGAGCCATGGTTGTTGGTTTCC
326 ATTGGGCCAAATGACCCATTTTGAACATAATGGATCGCACAAGTGAGCCATGGTTGTTGGTTTCC
*
179214 CTACGCAACCCATGACCTTCTCCCCCACTTCTTCTAGT
391 CTACGCAACCCATGACCTTCTCCACCACTTCTTCTAGT
179252 GATGCCCTTG
Statistics
Matches: 424, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
444 424 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (444 bp):
ATGAACAAAAGCCACAGAAAAGCAAGAATACTAGAGAGAAAGTTTAAGTAAATGCTCTCAAAATT
CTATTATTCACTGAATGAATTACAATGAGGAGGAGAGGCCTTTATTTATAACTGAGCCTCACAAA
ATCAACGGTATAGATCAAAATACATCAATGGCTAAGATTAAAAGCTATCTACAAATCAAATATCT
AAGATTATAGAATCGTATCTTTCAAAGATTACATATCGTATCTAGGATTACATATCTTTGAAGAT
CACATTCCATATTTGTCAAGCTTTGTATATGGGCCTTCGATCTCTCCAAGCAATGAGCCAGTCCG
ATTGGGCCAAATGACCCATTTTGAACATAATGGATCGCACAAGTGAGCCATGGTTGTTGGTTTCC
CTACGCAACCCATGACCTTCTCCACCACTTCTTCTAGTATGGTTGCTGGTTTCC
Found at i:184411 original size:18 final size:17
Alignment explanation
Indices: 184380--184415 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
184370 AGGCCTTCCT
184380 TTTATATAATAGTAGTA
1 TTTATATAATAGTAGTA
184397 TTTATATATATAGTAGTA
1 TTTATATA-ATAGTAGTA
184415 T
1 T
184416 AGATACTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (17 bp):
TTTATATAATAGTAGTA
Found at i:185544 original size:9 final size:9
Alignment explanation
Indices: 185525--185568 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
185515 ATTCTAGAAG
185525 TTTTCTCTTC
1 TTTT-TCTTC
185535 TTTTTCTTC
1 TTTTTCTTC
*
185544 TTCTTCTTC
1 TTTTTCTTC
*
185553 -TTTGCTTC
1 TTTTTCTTC
185561 TTTTTCTT
1 TTTTTCTT
185569 TTACTGTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 6 0.21
9 19 0.66
10 4 0.14
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:188935 original size:17 final size:17
Alignment explanation
Indices: 188905--188951 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
188895 AAAATCATTT
* *
188905 TTAAAATTTCAAAATTA
1 TTAAAATATAAAAATTA
*
188922 TTAAAATATAAAAATTG
1 TTAAAATATAAAAATTA
188939 TTATAAA-ATAAAA
1 TTA-AAATATAAAA
188952 GACAGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
TTAAAATATAAAAATTA
Found at i:189490 original size:17 final size:17
Alignment explanation
Indices: 189470--189529 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
189460 AAATTAGGAA
189470 AATCTAAACATTAACTT
1 AATCTAAACATTAACTT
* **
189487 AATCTAAACGTTAGTAGAT
1 AATCTAAACATTA--ACTT
189506 AATCTAAACATTAACTT
1 AATCTAAACATTAACTT
189523 AATCTAA
1 AATCTAA
189530 TCAGAAATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 21 0.60
19 14 0.40
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (17 bp):
AATCTAAACATTAACTT
Found at i:190126 original size:22 final size:21
Alignment explanation
Indices: 190092--190134 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
190082 TAAAAACTGG
*
190092 TAGAATTGTTACTCTTGAAATA
1 TAGAATTGTTACT-TAGAAATA
190114 TAGAATT-TATACTTAGAAATA
1 TAGAATTGT-TACTTAGAAATA
190135 AATTCTCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (21 bp):
TAGAATTGTTACTTAGAAATA
Found at i:192708 original size:5 final size:5
Alignment explanation
Indices: 192700--192766 Score: 59
Period size: 5 Copynumber: 13.4 Consensus size: 5
192690 TAAAATATAA
* *
192700 ATATT ATATT ATATT ATATT A-ACTT A-A-T AAATA AGTAATT ATATT
1 ATATT ATATT ATATT ATATT ATA-TT ATATT ATATT A-T-ATT ATATT
*
192745 ATATT ATATT ATAAT ATATT AT
1 ATATT ATATT ATATT ATATT AT
192767 TATATAAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 44 0.85
6 1 0.02
7 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (5 bp):
ATATT
Found at i:192730 original size:30 final size:29
Alignment explanation
Indices: 192695--192766 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
192685 TTTAATAAAA
192695 TATAAATATTATATTATATTATATTA-ACT
1 TATAAATATTATATTATATTATATTATA-T
*
192724 TAATAAATAAGTA-ATTATATTATATTATAT
1 T-ATAAAT-ATTATATTATATTATATTATAT
192754 TATAATATATTAT
1 TATAA-ATATTAT
192767 TATATAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
29 8 0.22
30 24 0.67
31 4 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (29 bp):
TATAAATATTATATTATATTATATTATAT
Found at i:193763 original size:25 final size:25
Alignment explanation
Indices: 193734--193814 Score: 117
Period size: 25 Copynumber: 3.2 Consensus size: 25
193724 ACTTTAGTGC
193734 GCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACGTCAGT
**
193759 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTCAGT
* * *
193784 GTTCTCTGATTACTAGCATGTCAGT
1 GCTCTCTGATTATTAGCACGTCAGT
193809 GCTCTC
1 GCTCTC
193815 CGTTTAGCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTCAGT
Found at i:195937 original size:27 final size:27
Alignment explanation
Indices: 195875--195926 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
195865 GTAGAAAGCT
195875 CTAAAGGAATCGTACTCATGGCGAATA
1 CTAAAGGAATCGTACTCATGGCGAATA
*
195902 CTAAAGGAATGGTACTCATGGCGAA
1 CTAAAGGAATCGTACTCATGGCGAA
195927 CTATGAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (27 bp):
CTAAAGGAATCGTACTCATGGCGAATA
Found at i:206873 original size:23 final size:21
Alignment explanation
Indices: 206842--206897 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
206832 GTGTGGTGAT
*
206842 TATAAATACATGTGTAATAAA
1 TATATATACATGTGTAATAAA
* *
206863 TATATGTATACATTTGTAATTAA
1 TATA--TATACATGTGTAATAAA
206886 TATATATACATG
1 TATATATACATG
206898 CTTATTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 11 0.38
23 18 0.62
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
TATATATACATGTGTAATAAA
Found at i:213999 original size:63 final size:63
Alignment explanation
Indices: 213928--214253 Score: 181
Period size: 63 Copynumber: 4.9 Consensus size: 63
213918 CTAATAGCTC
* *
213928 GCTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCACGAACAATTTCTTTTGAGTTA
1 GCTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCACGAATAATTTCTTTTGAGTTA
* ** * * * * * *
213991 GCTGATTTACGATCGCAACTGCATTCTAACAACTCATTAATTTACGATCGCGATTGATAT-TATT
1 GCTGATTTACGATCACAA---C---CT-A-AGTTCATTGATTTACGATCACGAATAATTTCTTTT
*
214055 AAGGCTTA
58 GA-G-TTA
* * * *
214063 -CTAATTTACGATCATAGCCTAAGTTTATTGATTTACGATCACGAATAATTTCTTTTGAGTTA
1 GCTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCACGAATAATTTCTTTTGAGTTA
* * ** * *
214125 GCTGATTTACGATCGCAACTCCATTCTAATTGCTCATTGATTTACGATCACGTTTAATAT-TATT
1 GCTGATTTACGATCACAA---C---CTAA--GTTCATTGATTTACGATCACGAATAATTTCTTTT
* * *
214189 AAGGCTC
58 GA-GTTA
* * * * * *
214196 GATGATTTATGATCACAGCCTAAGTTCATTGATTTATGATCATGAATGATTTCTTTTG
1 GCTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCACGAATAATTTCTTTTG
214254 TTAAACTAAG
Statistics
Matches: 189, Mismatches: 52, Indels: 43
0.67 0.18 0.15
Matches are distributed among these distances:
62 3 0.02
63 75 0.40
64 8 0.04
65 6 0.03
66 2 0.01
68 2 0.01
69 6 0.03
70 9 0.05
71 75 0.40
72 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (63 bp):
GCTGATTTACGATCACAACCTAAGTTCATTGATTTACGATCACGAATAATTTCTTTTGAGTTA
Found at i:214172 original size:134 final size:134
Alignment explanation
Indices: 213932--214253 Score: 466
Period size: 134 Copynumber: 2.4 Consensus size: 134
213922 TAGCTCGCTG
* *
213932 ATTTACGATCACAACCTAAGTTCATTGATTTATGATCACGAACAATTTCTTTTGAGTTAGCTGAT
1 ATTTACGATCACAGCCTAAGTTCATTGATTTATGATCACGAATAATTTCTTTTGAGTTAGCTGAT
* * *
213997 TTACGATCGCAACTGCATTCTAACAACTCATTAATTTACGATCGCGATTGATATTATTAAGGCT-
66 TTACGATCGCAACTCCATTCTAACAACTCATTAATTTACGATCACGATTAATATTATTAAGGCTC
*
214061 TACTA
131 GA-TA
* * *
214066 ATTTACGATCATAGCCTAAGTTTATTGATTTACGATCACGAATAATTTCTTTTGAGTTAGCTGAT
1 ATTTACGATCACAGCCTAAGTTCATTGATTTATGATCACGAATAATTTCTTTTGAGTTAGCTGAT
*** * *
214131 TTACGATCGCAACTCCATTCTAATTGCTCATTGATTTACGATCACGTTTAATATTATTAAGGCTC
66 TTACGATCGCAACTCCATTCTAACAACTCATTAATTTACGATCACGATTAATATTATTAAGGCTC
*
214196 GATG
131 GATA
* * *
214200 ATTTATGATCACAGCCTAAGTTCATTGATTTATGATCATGAATGATTTCTTTTG
1 ATTTACGATCACAGCCTAAGTTCATTGATTTATGATCACGAATAATTTCTTTTG
214254 TTAAACTAAG
Statistics
Matches: 166, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
134 165 0.99
135 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (134 bp):
ATTTACGATCACAGCCTAAGTTCATTGATTTATGATCACGAATAATTTCTTTTGAGTTAGCTGAT
TTACGATCGCAACTCCATTCTAACAACTCATTAATTTACGATCACGATTAATATTATTAAGGCTC
GATA
Found at i:215776 original size:134 final size:134
Alignment explanation
Indices: 215544--215882 Score: 407
Period size: 134 Copynumber: 2.5 Consensus size: 134
215534 TCATGAACGA
* * * *
215544 TTTCATCTGAGTTAGCTAATTTACGATCGCAA-TGTCATTCAAACAGCTCGCAGATTTATGATCA
1 TTTCATCTGAGTTAGCTGATTTACGATCGCAACTCT-ATTCAAACAGCTCGCTGATTTACGATCA
* * *
215608 CAACTGATATTATCATGGCTCGCTGATTTCTGATCACA-CCTTACGTTCATTGATTTACGATCAT
65 CAACTGATATTATCATGGCTCGCTAATTTATGATCACATCC-TAAGTTCATTGATTTACGATCAT
*
215672 GAAAAT
129 GAAAAG
* * * *
215678 TTTCTTCTGAGATAGCTGATTTACGATCGCAACTCTATTCAAACAACTAGCTGATTTACGATCAC
1 TTTCATCTGAGTTAGCTGATTTACGATCGCAACTCTATTCAAACAGCTCGCTGATTTACGATCAC
** * *
215743 AGTTGATATTATTGA-GGCTCGTTAATTTATGATCACATCCTAAGTTCATTGATTTACGATCATG
66 AACTGATATTA-TCATGGCTCGCTAATTTATGATCACATCCTAAGTTCATTGATTTACGATCATG
**
215807 AACCG
130 AAAAG
* * * * *
215812 TTTCATCTGAGTTAGC-GAATTTATGATTGCAACTCCATTCTAACAGCTCGCTGACTTACGATCA
1 TTTCATCTGAGTTAGCTG-ATTTACGATCGCAACTCTATTCAAACAGCTCGCTGATTTACGATCA
215876 CAACTGA
65 CAACTGA
215883 CCTTAAAGGT
Statistics
Matches: 172, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
133 1 0.01
134 165 0.96
135 6 0.03
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (134 bp):
TTTCATCTGAGTTAGCTGATTTACGATCGCAACTCTATTCAAACAGCTCGCTGATTTACGATCAC
AACTGATATTATCATGGCTCGCTAATTTATGATCACATCCTAAGTTCATTGATTTACGATCATGA
AAAG
Found at i:216303 original size:19 final size:18
Alignment explanation
Indices: 216281--216321 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
216271 AAAAAAAGCA
216281 AAATATAATGTGAAAATTG
1 AAATATAATGTG-AAATTG
* *
216300 AAATTTTATGTGAAATTG
1 AAATATAATGTGAAATTG
216318 AAAT
1 AAAT
216322 GTGTAGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (18 bp):
AAATATAATGTGAAATTG
Found at i:241809 original size:59 final size:58
Alignment explanation
Indices: 241704--241824 Score: 224
Period size: 59 Copynumber: 2.1 Consensus size: 58
241694 GGAGTAATCC
*
241704 CTTTGAGACAAGTGTCTTGCTGGGGAAAGCAGTTAACCGAGTCACGCTGGGTTTTCAA
1 CTTTGAGACAAGTGTCTTGCTGGGGAAAGCAGTTAACCGAGCCACGCTGGGTTTTCAA
241762 CTTTGAGACAAGTGTCTTGCTGGGGGAAAGCAGTTAACCGAGCCACGCTGGGTTTTCAA
1 CTTTGAGACAAGTGTCTTGCT-GGGGAAAGCAGTTAACCGAGCCACGCTGGGTTTTCAA
241821 CTTT
1 CTTT
241825 CTCATTGTCT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 21 0.34
59 40 0.66
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (58 bp):
CTTTGAGACAAGTGTCTTGCTGGGGAAAGCAGTTAACCGAGCCACGCTGGGTTTTCAA
Found at i:247576 original size:25 final size:27
Alignment explanation
Indices: 247459--247576 Score: 90
Period size: 26 Copynumber: 4.6 Consensus size: 27
247449 GAATTCTCTA
* *
247459 GAAAAGCCTTTGTGGCGTGATATCT-AG
1 GAAAAGCCTTTGTGGC-TAATATCTGTG
* * *
247486 G--AAGCCTTTATGACTAATCT-TGTG
1 GAAAAGCCTTTGTGGCTAATATCTGTG
* *
247510 GAAAAACCTTTGTGG-TGAAT-TCTCTG
1 GAAAAGCCTTTGTGGCT-AATATCTGTG
*
247536 GAAAAACCTTTGTGGCTAATAT-TGTG
1 GAAAAGCCTTTGTGGCTAATATCTGTG
247562 G-AAAGCCTTTGTGGC
1 GAAAAGCCTTTGTGGC
247577 GTGTTATCTG
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
23 1 0.01
24 6 0.08
25 26 0.36
26 37 0.51
27 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (27 bp):
GAAAAGCCTTTGTGGCTAATATCTGTG
Found at i:250790 original size:15 final size:16
Alignment explanation
Indices: 250761--250793 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
250751 AAAATTTTTT
250761 TTATCATTTTAATAAA
1 TTATCATTTTAATAAA
*
250777 TTAT-ATTTTTATAAA
1 TTATCATTTTAATAAA
250792 TT
1 TT
250794 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATCATTTTAATAAA
Found at i:262301 original size:27 final size:27
Alignment explanation
Indices: 262271--262329 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
262261 ATCATGTCGG
* *
262271 ACTATCTCCTATTTAACGTGCC-GTCAA
1 ACTATCTCATATGTAACGT-CCTGTCAA
*
262298 ACTATCTCATGTGTAACGTCCTGTCAA
1 ACTATCTCATATGTAACGTCCTGTCAA
262325 ACTAT
1 ACTAT
262330 TTACGATGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (27 bp):
ACTATCTCATATGTAACGTCCTGTCAA
Found at i:267089 original size:33 final size:33
Alignment explanation
Indices: 267047--267110 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
267037 TGAAAATTGG
267047 CATTGCCTGTTATCTTGGGATTATTTTAGCTTT
1 CATTGCCTGTTATCTTGGGATTATTTTAGCTTT
*
267080 CATTGCCTGTTATCTTGGGTTTATTTTAGCT
1 CATTGCCTGTTATCTTGGGATTATTTTAGCT
267111 AGTTCATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.14, C:0.16, G:0.19, T:0.52
Consensus pattern (33 bp):
CATTGCCTGTTATCTTGGGATTATTTTAGCTTT
Found at i:275462 original size:19 final size:19
Alignment explanation
Indices: 275414--275463 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
275404 TGGTACTATA
*
275414 TTTTAATATTTAAATTAAT
1 TTTTAATAATTAAATTAAT
275433 TTTTAATTAATT-AATTAAT
1 TTTTAA-TAATTAAATTAAT
275452 TTATTAATAATT
1 TT-TTAATAATT
275464 GCATTTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTAATAATTAAATTAAT
Found at i:275546 original size:18 final size:19
Alignment explanation
Indices: 275525--275560 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
275515 AAAATAAACT
275525 AGAAA-TATCAAAAGAACG
1 AGAAATTATCAAAAGAACG
275543 AGAAATTATCAAAAGAAC
1 AGAAATTATCAAAAGAAC
275561 TTTTTGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (19 bp):
AGAAATTATCAAAAGAACG
Found at i:280945 original size:22 final size:22
Alignment explanation
Indices: 280920--280961 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
280910 TGTTTTTTTC
* *
280920 ACTATTTTGCTACCATTTTGCT
1 ACTATGTTGATACCATTTTGCT
*
280942 ACTATGTTGATACTATTTTG
1 ACTATGTTGATACCATTTTG
280962 TTGTTATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (22 bp):
ACTATGTTGATACCATTTTGCT
Found at i:281017 original size:18 final size:19
Alignment explanation
Indices: 280977--281017 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
280967 ATTATTTGGA
*
280977 TATTGTATAATTTTTGTTT
1 TATTGTATAATTTTTGTTC
280996 TATTGT-TAA-TTTTGTTAC
1 TATTGTATAATTTTTGTT-C
281014 TATT
1 TATT
281018 TTAGGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.35
18 7 0.35
19 6 0.30
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (19 bp):
TATTGTATAATTTTTGTTC
Found at i:281831 original size:3 final size:3
Alignment explanation
Indices: 281825--281857 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
281815 AGCAGCGGGC
*
281825 GGA GGA GGA GGA GGA GGA GGA GGA GGA GAA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
281858 CAGCAGCCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:288693 original size:19 final size:19
Alignment explanation
Indices: 288669--288705 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
288659 CTTAATTGAC
288669 TTTTCCATGCATTTAATTT
1 TTTTCCATGCATTTAATTT
288688 TTTTCCATGCATTTAATT
1 TTTTCCATGCATTTAATT
288706 CTTAAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTCCATGCATTTAATTT
Found at i:298676 original size:11 final size:11
Alignment explanation
Indices: 298649--298684 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
298639 TTTCCAATTC
*
298649 TTTAATATATTT
1 TTTAATA-ATAT
298661 TTTAATAATAT
1 TTTAATAATAT
298672 TTTAATAATAT
1 TTTAATAATAT
298683 TT
1 TT
298685 ATATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:303501 original size:49 final size:49
Alignment explanation
Indices: 303445--303539 Score: 147
Period size: 49 Copynumber: 1.9 Consensus size: 49
303435 GAAAGGATAT
303445 ATCTTAGAAATAAACG-AGTGCATAAAGAAAAGGTAGCTAAATTGGTTAC
1 ATCTTAGAAATAAACGTA-TGCATAAAGAAAAGGTAGCTAAATTGGTTAC
** *
303494 ATCTTAGAAATAAGTGTATGCATAAAGAAAAGGTGGCTAAATTGGT
1 ATCTTAGAAATAAACGTATGCATAAAGAAAAGGTAGCTAAATTGGT
303540 ATTTCTCTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
49 41 0.98
50 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.26
Consensus pattern (49 bp):
ATCTTAGAAATAAACGTATGCATAAAGAAAAGGTAGCTAAATTGGTTAC
Found at i:303725 original size:52 final size:53
Alignment explanation
Indices: 303627--303733 Score: 155
Period size: 52 Copynumber: 2.0 Consensus size: 53
303617 CAAGAGAGAT
*
303627 ATAGTTTAGATGCCAAGTAAAGTTGAAAAAGAAACAATGCAACTCTTATGCTG
1 ATAGTTTAAATGCCAAGTAAAGTTGAAAAAGAAACAATGCAACTCTTATGCTG
* * *
303680 ATAGTTTAAATGCTAAGTAGAGTTG-GAAAG-AACAAATGCAACTCTTATGCTG
1 ATAGTTTAAATGCCAAGTAAAGTTGAAAAAGAAAC-AATGCAACTCTTATGCTG
303732 AT
1 AT
303734 GAATTTCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
51 3 0.06
52 24 0.49
53 22 0.45
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (53 bp):
ATAGTTTAAATGCCAAGTAAAGTTGAAAAAGAAACAATGCAACTCTTATGCTG
Found at i:305795 original size:19 final size:19
Alignment explanation
Indices: 305771--305811 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
305761 TTTCTGCTTC
305771 TTCTTCTCA-TACGTTTCTT
1 TTCTTCT-ATTACGTTTCTT
305790 TTCTTCTATTTACGTTTCTT
1 TTCTTCTA-TTACGTTTCTT
305810 TT
1 TT
305812 TTTTCTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.05
19 7 0.35
20 12 0.60
ACGTcount: A:0.10, C:0.22, G:0.05, T:0.63
Consensus pattern (19 bp):
TTCTTCTATTACGTTTCTT
Found at i:306847 original size:78 final size:78
Alignment explanation
Indices: 306726--306869 Score: 207
Period size: 78 Copynumber: 1.8 Consensus size: 78
306716 GTGTTGCTAT
* * *
306726 CTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACCATTGCGAATTCAGTCCTCATTAACCC
1 CTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCACTCCTCATTAACCC
306791 CGAGTGCCACTGC
66 CGAGTGCCACTGC
* * * * **
306804 CTTATCAATGGAAGCTAAGCCAATTAAGTTAGAATCACAATTGCAAATTCACTCCTTGTTAACCC
1 CTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCACTCCTCATTAACCC
306869 C
66 C
306870 TTGGCTGATA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 57 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (78 bp):
CTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCACTCCTCATTAACCC
CGAGTGCCACTGC
Found at i:310790 original size:49 final size:49
Alignment explanation
Indices: 310733--310836 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
310723 TCATGTGTTA
* * *
310733 TAATTTTATAAAATGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAATGTTCACCTTTTGATTCATGATATTAAACTTAATTT
*
310782 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAATGTTCACCTTTTGATTCATGATATTAAACTTAATTT
310831 TAATTT
1 TAATTT
310837 ATTTTTTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAATGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:312262 original size:21 final size:21
Alignment explanation
Indices: 312221--312263 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
312211 AATAAAGTAG
*
312221 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
312242 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
312263 A
1 A
312264 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:312325 original size:28 final size:27
Alignment explanation
Indices: 312276--312346 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 27
312266 TTCATATAAG
* *
312276 AATAATTA-TATTTAATTTTATTAAAT
1 AATAATTATTATTAAATTATATTAAAT
* * *
312302 TATATATTTTTATTAAATTATATTTAAT
1 AATA-ATTATTATTAAATTATATTAAAT
312330 AATAATTATT-TTAAATT
1 AATAATTATTATTAAATT
312347 CTGCTAAGGG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 10 0.28
27 8 0.22
28 18 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
AATAATTATTATTAAATTATATTAAAT
Found at i:312578 original size:6 final size:6
Alignment explanation
Indices: 312567--312625 Score: 118
Period size: 6 Copynumber: 9.8 Consensus size: 6
312557 TAATAAATAA
312567 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
312615 ATATTT ATATT
1 ATATTT ATATT
312626 ACATAATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:312741 original size:34 final size:33
Alignment explanation
Indices: 312695--312758 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
312685 AATAAAATGT
312695 AAATATTGTTAAATTATATTCATAATAAATAATA
1 AAATATTGTTAAATTAT-TTCATAATAAATAATA
* *
312729 AAATATAT-TTAAATTATTTTATATTAAATA
1 AAATAT-TGTTAAATTATTTCATAATAAATA
312759 TAATTAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 11 0.41
34 15 0.56
35 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (33 bp):
AAATATTGTTAAATTATTTCATAATAAATAATA
Found at i:313170 original size:18 final size:18
Alignment explanation
Indices: 313147--313198 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
313137 AATATTAAAT
313147 TAAAAAATTAAATTTAAG
1 TAAAAAATTAAATTTAAG
* **
313165 TAAAAATTTAAATTTATT
1 TAAAAAATTAAATTTAAG
*
313183 TAAAATA-TAAATTTAA
1 TAAAAAATTAAATTTAA
313199 TTTGAACTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAAAATTAAATTTAAG
Found at i:313201 original size:18 final size:17
Alignment explanation
Indices: 313150--313201 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
313140 ATTAAATTAA
* *
313150 AAAATTAAATTTAAGTA
1 AAAATTAAATTTAATTT
313167 AAAATTTAAATTT-ATTT
1 AAAA-TTAAATTTAATTT
313184 AAAATATAAATTTAATTT
1 AAAAT-TAAATTTAATTT
313202 GAACTTCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 1 0.03
17 17 0.57
18 12 0.40
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAATTAAATTTAATTT
Found at i:314062 original size:19 final size:19
Alignment explanation
Indices: 314038--314148 Score: 75
Period size: 19 Copynumber: 5.9 Consensus size: 19
314028 TGCAAACTCT
*
314038 TTTTTACAATTTTATATAA
1 TTTTTATAATTTTATATAA
** * *
314057 TTTTTATTTTTTTTTGTAA
1 TTTTTATAATTTTATATAA
* *
314076 TTTCTATAATTTT-TATAC
1 TTTTTATAATTTTATATAA
* *
314094 TTTTTGTAATTTTGTA-AA
1 TTTTTATAATTTTATATAA
* ** *
314112 ATTTTGCAATTTTATATTA
1 TTTTTATAATTTTATATAA
314131 TTTTTA-ATATTTTATATA
1 TTTTTATA-ATTTTATATA
314149 TTTCTTAAAA
Statistics
Matches: 69, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
18 29 0.42
19 40 0.58
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTTATAATTTTATATAA
Found at i:314083 original size:28 final size:27
Alignment explanation
Indices: 314052--314105 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
314042 TACAATTTTA
**
314052 TATAATTTTTATTTTTTTTTGTAATTTC
1 TATAATTTTTA-TACTTTTTGTAATTTC
314080 TATAATTTTTATACTTTTTGTAATTT
1 TATAATTTTTATACTTTTTGTAATTT
314106 TGTAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (27 bp):
TATAATTTTTATACTTTTTGTAATTTC
Found at i:314097 original size:9 final size:9
Alignment explanation
Indices: 314038--314116 Score: 59
Period size: 9 Copynumber: 8.4 Consensus size: 9
314028 TGCAAACTCT
*
314038 TTTTTACAA
1 TTTTTATAA
314047 TTTTATATAA
1 TTTT-TATAA
**
314057 TTTTTATTTT
1 TTTTTA-TAA
*
314067 TTTTTGTAA
1 TTTTTATAA
*
314076 TTTCTATAA
1 TTTTTATAA
*
314085 TTTTTATAC
1 TTTTTATAA
*
314094 TTTTTGTAA
1 TTTTTATAA
*
314103 TTTTGTAAAA
1 TTTT-TATAA
314113 TTTT
1 TTTT
314117 GCAATTTTAT
Statistics
Matches: 53, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
9 32 0.60
10 21 0.40
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:314156 original size:19 final size:19
Alignment explanation
Indices: 314120--314156 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
314110 AAATTTTGCA
314120 ATTTTATATTATTTTTAAT
1 ATTTTATATTATTTTTAAT
314139 ATTTTATA-TATTTCTTAA
1 ATTTTATATTATTT-TTAA
314157 AATTCTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTATATTATTTTTAAT
Found at i:315596 original size:37 final size:34
Alignment explanation
Indices: 315537--315620 Score: 91
Period size: 38 Copynumber: 2.4 Consensus size: 34
315527 ATGCAACATG
315537 ACATGTTATAAC-AAATTAATACAGCAGCAA-TA
1 ACATGTTATAACAAAATTAATACAGCAGCAATTA
*
315569 ACATGTTTATAACAAATATATATATACAGTAGCAATTA
1 ACATG-TTATAACAAA-AT-TA-ATACAGCAGCAATTA
*
315607 TCATGCTTATAACA
1 ACATG-TTATAACA
315621 GATCATGACA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
32 5 0.12
33 7 0.16
34 2 0.05
35 2 0.05
36 2 0.05
37 11 0.26
38 14 0.33
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.31
Consensus pattern (34 bp):
ACATGTTATAACAAAATTAATACAGCAGCAATTA
Found at i:318865 original size:34 final size:34
Alignment explanation
Indices: 318821--318917 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
318811 ATACAATATG
*
318821 ACATGCTTATAACATATCAATACTA-TAGCAATTA
1 ACATGCTTATAACAAATCAATAC-AGTAGCAATTA
*
318855 GCATGCTTATAACAAATCAATACAGTAGCAATTA
1 ACATGCTTATAACAAATCAATACAGTAGCAATTA
* * *
318889 ATATGCTTATAACAAATAAATAAAGTAGC
1 ACATGCTTATAACAAATCAATACAGTAGC
318918 TATAGACACC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 1 0.02
34 55 0.98
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.29
Consensus pattern (34 bp):
ACATGCTTATAACAAATCAATACAGTAGCAATTA
Found at i:321800 original size:92 final size:92
Alignment explanation
Indices: 321615--321800 Score: 203
Period size: 92 Copynumber: 2.0 Consensus size: 92
321605 AATATATTGA
* * *
321615 TGGATGAATCATTCGTCTGTGCAGATAAAAGCTACTAATACGTTGTGGATGACCCACTAGTCAAG
1 TGGATGAACCATTCGTCTGTGCAGATAAAAGCTACTAATACGTTGTGGATGAACCACTAGTCAAA
* * * *
321680 TAGATAAACTTCTGACTAAAATATTGG
66 CAGATAAACTACCGACTAAAATAGTGG
* * * * ** * * *
321707 TGGATGAACCATTCGTTTGTGTATATAAAAGTTGTTAATACGTTGTGGATGAACCATTGGTTAAA
1 TGGATGAACCATTCGTCTGTGCAGATAAAAGCTACTAATACGTTGTGGATGAACCACTAGTCAAA
*
321772 CAGAT-GACTACCGACTAAAATACGTGG
66 CAGATAAACTACCGACTAAAATA-GTGG
321799 TG
1 TG
321801 AATAAGCCAC
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
91 14 0.18
92 62 0.82
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (92 bp):
TGGATGAACCATTCGTCTGTGCAGATAAAAGCTACTAATACGTTGTGGATGAACCACTAGTCAAA
CAGATAAACTACCGACTAAAATAGTGG
Found at i:324416 original size:14 final size:14
Alignment explanation
Indices: 324397--324426 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
324387 AATTAGCTTG
324397 ACATAGTTAACAAT
1 ACATAGTTAACAAT
324411 ACATAGTTAACAAT
1 ACATAGTTAACAAT
324425 AC
1 AC
324427 CTTGACACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.27
Consensus pattern (14 bp):
ACATAGTTAACAAT
Found at i:325034 original size:51 final size:48
Alignment explanation
Indices: 324920--325023 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
324910 ATAAAATATT
* * * * *
324920 TTAAAAATT-ATTAAAAACCGTAAAAATAATTTATAAATCAATATAAA
1 TTAAAAATTAATTAAAATCAGGAAAAATAATTTATAAATAAAAATAAA
324967 TTAAAAATTAATTAAAATCAGGAAAAATAATATTATATAATGAAAAATAAA
1 TTAAAAATTAATTAAAATCAGGAAAAATAAT-TTATA-AAT-AAAAATAAA
325018 TATAAA
1 T-TAAA
325024 TTATTTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 9 0.19
48 18 0.38
49 5 0.11
50 3 0.06
51 8 0.17
52 4 0.09
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (48 bp):
TTAAAAATTAATTAAAATCAGGAAAAATAATTTATAAATAAAAATAAA
Found at i:325769 original size:17 final size:17
Alignment explanation
Indices: 325727--325769 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
325717 CAATCATGTC
*
325727 AAAATTAAATTTTACAA
1 AAAATTATATTTTACAA
*
325744 AAAAATATATTTTA-AA
1 AAAATTATATTTTACAA
325760 TAAAATTATA
1 -AAAATTATA
325770 CATTTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTATATTTTACAA
Found at i:334106 original size:16 final size:17
Alignment explanation
Indices: 334075--334107 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
334065 ATATTTAATT
*
334075 TAAAAAATTATAATTTA
1 TAAAAAAATATAATTTA
334092 TAAAAAAATAT-ATTTA
1 TAAAAAAATATAATTTA
334108 ATATTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAAAAATATAATTTA
Found at i:334725 original size:70 final size:70
Alignment explanation
Indices: 334643--334782 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
334633 TCTTAAGTTG
334643 TCATTCTTACATGCTAAACATAGATCAGATAGTCATATAACAATAGTTTAAAATGCATAAGGTCA
1 TCATTCTTACATGCTAAACATAGATCAGATAGTCATATAACAATAGTTTAAAATGCATAAGGTCA
334708 ATTTT
66 ATTTT
334713 TCATTCTTACATGCTAAACATAGATCAGATAGTCATATAACAATAGTTTAAAATGCATAAGGTCA
1 TCATTCTTACATGCTAAACATAGATCAGATAGTCATATAACAATAGTTTAAAATGCATAAGGTCA
334778 ATTTT
66 ATTTT
334783 GCAAAATCTC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (70 bp):
TCATTCTTACATGCTAAACATAGATCAGATAGTCATATAACAATAGTTTAAAATGCATAAGGTCA
ATTTT
Found at i:341798 original size:20 final size:20
Alignment explanation
Indices: 341746--341799 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
341736 AATTTTCAGT
341746 TTTCAATAACTTTTTTTATAAA
1 TTTC-ATAA-TTTTTTTATAAA
* *
341768 TTTTATGATTTTTTTAATAAA
1 TTTCATAATTTTTTT-ATAAA
341789 TTTCA-AATTTT
1 TTTCATAATTTT
341800 AAAAAAGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 12 0.44
21 12 0.44
22 3 0.11
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTCATAATTTTTTTATAAA
Found at i:359451 original size:29 final size:28
Alignment explanation
Indices: 359362--359453 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
359352 ATTTGTGTAT
*
359362 TTTGGTATATTTATGTTTTGAGAATTATG
1 TTTGGTATATTTATGTTTTAAG-ATTATG
* * **
359391 TTTGGTATA-TGATGTTTTGTA-ATGGTG
1 TTTGGTATATTTATGTTTT-AAGATTATG
359418 CTTTGGTATATTTATGTTTTCAAGATTATG
1 -TTTGGTATATTTATGTTTT-AAGATTATG
359448 TTTGGT
1 TTTGGT
359454 TGATGGACTT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
27 4 0.08
28 17 0.34
29 25 0.50
30 4 0.08
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.54
Consensus pattern (28 bp):
TTTGGTATATTTATGTTTTAAGATTATG
Found at i:361306 original size:15 final size:15
Alignment explanation
Indices: 361286--361323 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
361276 GTGGTTGCTG
361286 TGAATCCTACAAATC
1 TGAATCCTACAAATC
* *
361301 TGAATCCTATAAATT
1 TGAATCCTACAAATC
361316 TGAATCCT
1 TGAATCCT
361324 GCTGAATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (15 bp):
TGAATCCTACAAATC
Found at i:364654 original size:46 final size:46
Alignment explanation
Indices: 364594--364948 Score: 437
Period size: 46 Copynumber: 8.1 Consensus size: 46
364584 CTTGTCCCTA
* *
364594 ATCAGATTAGTGTAGGT-AAGACTACCACTTATCACTTTGTCACTTG
1 ATCAGATAAGTGTAGCTAAAG-CTACCACTTATCACTTTGTCACTTG
* *
364640 ATTAGATAAGTGTAGCTAAGGCTACCCACTTATCACTTTGTCACTTG
1 ATCAGATAAGTGTAGCTAAAGCTA-CCACTTATCACTTTGTCACTTG
* *
364687 ATCAGATAAGTGTAGCTAAAGTTAACACTTATCACTTTGTCACTTG
1 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
*
364733 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTG
1 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
364779 ATCAGATAA--GT-G-T--AG-T---ACTTATCACTTTGTCACTTG
1 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
* *
364815 ATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTG
1 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
*
364861 ATCAGATAA--GT-G-T--A--T--CACTTATCATTTTGTCACTTG
1 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
* *
364897 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
1 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
364943 ATCAGA
1 ATCAGA
364949 AGTACTCAAA
Statistics
Matches: 267, Mismatches: 20, Indels: 44
0.81 0.06 0.13
Matches are distributed among these distances:
36 55 0.21
38 5 0.02
39 3 0.01
40 5 0.02
42 5 0.02
43 3 0.01
44 5 0.02
46 141 0.53
47 45 0.17
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (46 bp):
ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
Found at i:364800 original size:36 final size:37
Alignment explanation
Indices: 364758--364911 Score: 177
Period size: 36 Copynumber: 4.0 Consensus size: 37
364748 CTAAAGCTAC
*
364758 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGT
*
364795 -ACTTATCACTTTGTCACTTGATCAAATAAGTGTAGCTAAAGCT
1 CACTTATCACTTTGTCACTTGATCAGATAA--GT-G-T--AG-T
*
364838 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA-T
1 --CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGT
*
364876 CACTTATCATTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
364912 CTAAAGCTAC
Statistics
Matches: 100, Mismatches: 6, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
36 60 0.60
38 3 0.03
39 1 0.01
40 2 0.02
42 3 0.03
43 2 0.02
44 2 0.02
46 27 0.27
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGT
Found at i:364807 original size:82 final size:82
Alignment explanation
Indices: 364712--364948 Score: 431
Period size: 82 Copynumber: 2.9 Consensus size: 82
364702 CTAAAGTTAA
364712 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
364777 TGATCAGATAAGTGTAGT
66 TGATCAGATAAGTGTA-T
*
364795 -ACTTATCACTTTGTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
364859 TGATCAGATAAGTGTAT
66 TGATCAGATAAGTGTAT
* *
364876 CACTTATCATTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
364941 TGATCAGA
66 TGATCAGA
364949 AGTACTCAAA
Statistics
Matches: 149, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
81 1 0.01
82 148 0.99
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTGTAT
Found at i:364927 original size:128 final size:134
Alignment explanation
Indices: 364614--364946 Score: 410
Period size: 128 Copynumber: 2.6 Consensus size: 134
364604 TGTAGGTAAG
* *
364614 ACTACCACTTATCACTTTGTCACTTGATTAGATAAGTGTAGCTAAGGCTACCCACTTATCACTTT
1 ACTA-CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA-CCACTTATCACTTT
* *
364679 GTCACTTGATCAGATAAGTGTAGCTAAAGTTAACACTTATCACTTTGTCACTTGATCAGATAAGT
64 GTCACTTGATCAAATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACTTGATCAGATAAG-
364744 GTAGCTAA
128 GTAGCT-A
*
364752 AGCTACCACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG-T---ACTTATCACTTT
1 A-CTA-CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
* *
364807 GTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAA-G
64 GTCACTTGATCAAATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACTTGATCAGATAAGG
364871 T-G-T-
129 TAGCTA
* *
364874 A-T-CACTTATCATTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTAT
1 ACTACACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGT
*
364937 CTCTTGATCA
66 CACTTGATCA
364947 GAAGTACTCA
Statistics
Matches: 173, Mismatches: 11, Indels: 32
0.80 0.05 0.15
Matches are distributed among these distances:
118 28 0.16
120 3 0.02
121 1 0.01
122 2 0.01
124 3 0.02
125 2 0.01
126 2 0.01
128 93 0.54
132 1 0.01
133 1 0.01
135 1 0.01
136 1 0.01
137 2 0.01
138 1 0.01
139 32 0.18
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (134 bp):
ACTACACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGT
CACTTGATCAAATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACTTGATCAGATAAGGTA
GCTA
Found at i:366978 original size:21 final size:21
Alignment explanation
Indices: 366954--366995 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
366944 CTTTTTGTTC
*
366954 AATTAATTATCGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
**
366975 AATTTCTTAACGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
366996 TACTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:367442 original size:46 final size:45
Alignment explanation
Indices: 367355--367546 Score: 325
Period size: 46 Copynumber: 4.3 Consensus size: 45
367345 TTATCTGATC
*
367355 AAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATAAAGTGACA
367400 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATAAAGTGACA
1 AAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATAAAGTGACA
367446 AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATAAAGTGACA
1 AAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATAAAGTGACA
* *
367492 AAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT-CAGGGAC-
1 AAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATAAAGTGACA
367535 AAGTGATAAGTG
1 AAGTGATAAGTG
367547 ATCATACATA
Statistics
Matches: 143, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
43 12 0.08
44 5 0.03
45 36 0.25
46 90 0.63
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (45 bp):
AAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATAAAGTGACA
Found at i:372950 original size:18 final size:19
Alignment explanation
Indices: 372923--372961 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
372913 TACCTGACAT
*
372923 ATAAATAATATATATAAAA
1 ATAAATAATATATAAAAAA
372942 ATAAA-AATATATAAAAAA
1 ATAAATAATATATAAAAAA
372960 AT
1 AT
372962 TAGTTGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAAATAATATATAAAAAA
Found at i:374721 original size:14 final size:14
Alignment explanation
Indices: 374699--374745 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
374689 TTGTTACTGA
374699 TTTTGGGTTATTTGG
1 TTTT-GGTTATTTGG
* *
374714 TTTTGGTTA-CTGC
1 TTTTGGTTATTTGG
*
374727 TTTCGGTTATTTGG
1 TTTTGGTTATTTGG
374741 TTTTG
1 TTTTG
374746 CTAGGTTTGG
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
13 10 0.40
14 11 0.44
15 4 0.16
ACGTcount: A:0.06, C:0.06, G:0.28, T:0.60
Consensus pattern (14 bp):
TTTTGGTTATTTGG
Found at i:377809 original size:18 final size:18
Alignment explanation
Indices: 377771--377809 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
377761 ATATTTACGA
* *
377771 TTTTTTATAATTTTAAGT
1 TTTTTTATAATTATAAAT
*
377789 TTTTTTATTATTATAAAT
1 TTTTTTATAATTATAAAT
377807 TTT
1 TTT
377810 ATGTATTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTTATAATTATAAAT
Found at i:382141 original size:3 final size:3
Alignment explanation
Indices: 382126--382169 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
382116 AAGAGTTTCA
*
382126 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
382170 AGTGTATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Done.