Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 41
Found at i:8302413 original size:19 final size:18
Alignment explanation
Indices: 8302370--8302413 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
8302360 CACTTTTAAA
8302370 TTTACCGGTTTTATCATTT
1 TTTA-CGGTTTTATCATTT
8302389 TGTTACGGTTTTATCATATT
1 T-TTACGGTTTTATCAT-TT
8302409 TTTAC
1 TTTAC
8302414 CTGGTATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTACGGTTTTATCATTT
Found at i:8302907 original size:227 final size:227
Alignment explanation
Indices: 8302480--8302926 Score: 767
Period size: 228 Copynumber: 2.0 Consensus size: 227
8302470 TTATAACCGC
8302480 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
8302545 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAATATTATT
66 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAATATTATT
* *
8302610 TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAG
131 TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAG
*
8302675 TATGGACAC-TTTATAAAAATGATATATACTT
196 TATGGACACTTTTATAAAAAGGATATATACTT
*
8302706 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACA
1 TTTT-AAAGTTATGTAATTTATGTTTCAA--TTTATTTAATAGTGTTTCATGTTTTCCACCTACA
*
8302771 ATATTAATTTAATAATTTCATTTACACAAAA-TTTATTTGATT-TTTTGATATTTTATAAAATAT
63 ATATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTAT-AAATAT
* *
8302834 TATTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAA
127 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAA
8302898 TAAGTATGGACACTTTTATAAAAAGGATA
192 TAAGTATGGACACTTTTATAAAAAGGATA
8302927 GATAATTTAC
Statistics
Matches: 209, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
226 4 0.02
227 60 0.29
228 82 0.39
229 63 0.30
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (227 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAATATTATT
TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGATATATACTT
Found at i:8306419 original size:45 final size:45
Alignment explanation
Indices: 8306368--8306454 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 45
8306358 AGTAGAGTAC
8306368 TACCTAAAATGTTA-TTTTTCTACCGAAAATATTAATATCAAACGT
1 TACCTAAAATGTTAGTTTTT-TACCGAAAATATTAATATCAAACGT
* *
8306413 TACCTAAAATGTTAGTTTTTTATCGAAAATGTTAATATCAAA
1 TACCTAAAATGTTAGTTTTTTACCGAAAATATTAATATCAAA
8306455 AATATTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 34 0.87
46 5 0.13
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (45 bp):
TACCTAAAATGTTAGTTTTTTACCGAAAATATTAATATCAAACGT
Found at i:8307441 original size:22 final size:22
Alignment explanation
Indices: 8307406--8307463 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
8307396 CAGCCAGCTG
**
8307406 AAATGG-AGCGTTTGGTTGAGAA
1 AAATGGAAGC-TTTGGAAGAGAA
8307428 AAATGGAAGCTTT-GAAGAGAA
1 AAATGGAAGCTTTGGAAGAGAA
* *
8307449 AGATGAAAGCTTTGG
1 AAATGGAAGCTTTGG
8307464 GGAGAACGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 17 0.57
22 10 0.33
23 3 0.10
ACGTcount: A:0.38, C:0.05, G:0.33, T:0.24
Consensus pattern (22 bp):
AAATGGAAGCTTTGGAAGAGAA
Found at i:8307469 original size:21 final size:21
Alignment explanation
Indices: 8307423--8307462 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8307413 GCGTTTGGTT
*
8307423 GAGAAAAATGGAAGCTTTGAA
1 GAGAAAAATGAAAGCTTTGAA
*
8307444 GAGAAAGATGAAAGCTTTG
1 GAGAAAAATGAAAGCTTTG
8307463 GGGAGAACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (21 bp):
GAGAAAAATGAAAGCTTTGAA
Found at i:8312114 original size:21 final size:21
Alignment explanation
Indices: 8312068--8312192 Score: 64
Period size: 22 Copynumber: 5.9 Consensus size: 21
8312058 TAATGAAAAT
*
8312068 AAAT-AAATAGTATAAATA-AA
1 AAATAAAATA-TATATATATAA
8312088 ATAATAAAATATATATATATAA
1 A-AATAAAATATATATATATAA
* * *
8312110 AAATATAAAAATGTATGTATAA
1 AAATA-AAATATATATATATAA
8312132 TATAATAAAATACTA-A-ATAGTAA
1 -A-AATAAAATA-TATATATA-TAA
* * *
8312155 TAATAATAATAAATAAATA-AA
1 AAATAA-AATATATATATATAA
*
8312176 AAAT-AAATATACATATA
1 AAATAAAATATATATATA
8312193 ATATTAACTA
Statistics
Matches: 81, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
19 9 0.11
20 2 0.02
21 25 0.31
22 28 0.35
23 12 0.15
24 5 0.06
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (21 bp):
AAATAAAATATATATATATAA
Found at i:8312120 original size:24 final size:24
Alignment explanation
Indices: 8312085--8312167 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 24
8312075 TAGTATAAAT
8312085 AAAATAATAAAATATATATATATA
1 AAAATAATAAAATATATATATATA
* *
8312109 AAAAT-ATAAAA-ATGTATGTAT-
1 AAAATAATAAAATATATATATATA
* *
8312130 AATATAATAAAATACTAAATAGTAATA
1 AAAATAATAAAATA-TATATA-T-ATA
*
8312157 ATAATAATAAA
1 AAAATAATAAA
8312168 TAAATAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
21 4 0.09
22 14 0.31
23 7 0.16
24 8 0.18
25 1 0.02
26 2 0.04
27 9 0.20
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (24 bp):
AAAATAATAAAATATATATATATA
Found at i:8312406 original size:23 final size:23
Alignment explanation
Indices: 8312372--8312418 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
8312362 ACGCAAAGAA
8312372 AAATGAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAA-TATAATTAAAT
8312395 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAA-AAAATATAATTAAAT
8312418 A
1 A
8312419 TATACATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATGAAAAAAATATAATTAAAT
Found at i:8313990 original size:106 final size:105
Alignment explanation
Indices: 8313619--8314680 Score: 1521
Period size: 106 Copynumber: 10.1 Consensus size: 105
8313609 GTAAGTAGCA
* * *** *
8313619 TTGTTTTGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTATTT
1 TTGTCTTGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCT-GAAATTGGAAATTGTTT
* * *
8313683 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
64 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* *
8313725 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T-G-AATT-TTT-T
1 TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGT
* * *
8313784 TGACAATCAGC-G-CCCTTCGTCGTGAAGTTGAGCTTGTG
66 TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * * *
8313822 TTGTCTTGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTA
1 TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTG
*
8313887 TTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCG
65 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * *
8313928 TTGTCTTGAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTGAAATTTGGAAATTGTTTA
1 TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGGAAATTGTTTG
*
8313993 TTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCG
65 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * *
8314034 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTG
1 TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAATTGTTTG
8314099 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
65 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * *
8314140 TTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTA
1 TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTG
8314205 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
65 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* *
8314246 TTGTCTTGAGTCCAATATCCTTCGCTGTGAATTTAAAATTGGCTCTGAAATTTGGAAATTGTTTG
1 TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGGAAATTGTTTG
* *
8314311 TTGACAACCAGGGGTCCCTTCGTCGTGAAGTTGAACTTGTG
65 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * *
8314352 TTGTCTAGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTG
1 TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAATTGTTTG
8314417 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
65 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* *
8314458 TTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTA
1 TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAATTGTTTG
* *
8314523 TTGACAACCGGCGGTCCCTTCGTCGCGAAGTTGAACTTGCG
65 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * *
8314564 TTTTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTG
1 TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAATTGTTTG
* * *
8314629 TTGACAACCAGCGGTCCCTTCATTGTGAAGTTGAACTTGTG
65 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
8314670 TTGTCTTGAGT
1 TTGTCTTGAGT
8314681 GGCACGATAT
Statistics
Matches: 872, Mismatches: 69, Indels: 30
0.90 0.07 0.03
Matches are distributed among these distances:
97 66 0.08
98 3 0.00
99 12 0.01
100 3 0.00
101 5 0.01
102 4 0.00
103 3 0.00
104 11 0.01
105 8 0.01
106 751 0.86
107 6 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (105 bp):
TTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGT
TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
Found at i:8315475 original size:22 final size:22
Alignment explanation
Indices: 8315449--8315525 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
8315439 TTATGTTTGG
*
8315449 TCAAAGGTTTGGCATTTTATGC
1 TCAAAGGTTTGGCATTTGATGC
8315471 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
8315493 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
8315515 TCAACGGTTTG
1 TCAAAGGTTTG
8315526 ATGGGGTAGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:8316241 original size:171 final size:172
Alignment explanation
Indices: 8315921--8316266 Score: 581
Period size: 171 Copynumber: 2.0 Consensus size: 172
8315911 TAAATAGGCC
* * *
8315921 CAAACAAGTGTTTCAGTGTGTTGAACCAAGGATCAATTCATTCTGATGCCTTCAATCATGTCATG
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAAGATCAATTCATTATGATGCCTTCAATC---TCATG
*
8315986 CTCAAAATGTCTCTCTCTTGATTCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
63 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
8316051 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
128 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
*
8316096 CAAACAAGTGTTTCAGGGTGTTGAACCAAAGATCAATTCATTATGATGTCTTCAATC-C-TGCTC
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAAGATCAATTCATTATGATGCCTTCAATCTCATGCTC
8316159 AAAATGTTTCTCTCTCTTGATGCTCTATGATCTTC-AGTGAAGTGATTCAGTGATTCGGGAATGA
66 AAAATG--TCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGA
8316223 TTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 TTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
8316267 TTTTTAGGGA
Statistics
Matches: 164, Mismatches: 5, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
170 11 0.07
171 74 0.45
172 26 0.16
175 53 0.32
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (172 bp):
CAAACAAGTGTTTCAGGGTGTTGAACCAAAGATCAATTCATTATGATGCCTTCAATCTCATGCTC
AAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGATT
GTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
Found at i:8316314 original size:9 final size:9
Alignment explanation
Indices: 8316302--8316372 Score: 60
Period size: 9 Copynumber: 8.2 Consensus size: 9
8316292 TTTGTCCCTT
8316302 TTTTTTTTC
1 TTTTTTTTC
*
8316311 TTTTTGTTC
1 TTTTTTTTC
*
8316320 --TTGTTTC
1 TTTTTTTTC
*
8316327 TCTTTTTTC
1 TTTTTTTTC
8316336 TTTTTTTT-
1 TTTTTTTTC
*
8316344 TTTTTTTGC
1 TTTTTTTTC
*
8316353 -TTCTTTTC
1 TTTTTTTTC
8316361 TTTTTTGTTC
1 TTTTTT-TTC
8316371 TT
1 TT
8316373 GATTGGATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
7 5 0.10
8 13 0.27
9 25 0.52
10 5 0.10
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:8316332 original size:25 final size:26
Alignment explanation
Indices: 8316304--8316373 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 26
8316294 TGTCCCTTTT
8316304 TTTTTTCTTTTTGTTCTTGTTTCT-C
1 TTTTTTCTTTTTGTTCTTGTTTCTGC
* *
8316329 TTTTTTCTTTTT-TT-TTTTTTTTGC
1 TTTTTTCTTTTTGTTCTTGTTTCTGC
8316353 TTCTTTTCTTTTTTGTTCTTG
1 TT-TTTTC-TTTTTGTTCTTG
8316374 ATTGGATCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 6 0.16
24 5 0.14
25 17 0.46
26 5 0.14
27 2 0.05
28 2 0.05
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (26 bp):
TTTTTTCTTTTTGTTCTTGTTTCTGC
Found at i:8316336 original size:16 final size:16
Alignment explanation
Indices: 8316307--8316372 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
8316297 CCCTTTTTTT
*
8316307 TTTCT-TTTTGTTCTTG
1 TTTCTCTTTT-TTCTTC
*
8316323 TTTCTCTTTTTTCTTT
1 TTTCTCTTTTTTCTTC
* *
8316339 TTTTTTTTTTTTGCTTC
1 TTTCTCTTTTTT-CTTC
*
8316356 TTT-TCTTTTTTGTTC
1 TTTCTCTTTTTTCTTC
8316371 TT
1 TT
8316373 GATTGGATCT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
15 5 0.12
16 27 0.64
17 10 0.24
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (16 bp):
TTTCTCTTTTTTCTTC
Found at i:8316356 original size:29 final size:29
Alignment explanation
Indices: 8316299--8316372 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
8316289 GCTTTTGTCC
*
8316299 CTTTTTTTTTTCTTTTTGTTCTTGTTTCT
1 CTTTTTTTTTTCTTTTTGTTCTTGCTTCT
* *
8316328 CTTTTTTCTTTT-TTTTTTTTTTTGCTTCT
1 CTTTTTT-TTTTCTTTTTGTTCTTGCTTCT
*
8316357 TTTCTTTTTTGTTCTT
1 CTT-TTTTTT-TTCTT
8316373 GATTGGATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 25 0.68
30 10 0.27
31 2 0.05
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (29 bp):
CTTTTTTTTTTCTTTTTGTTCTTGCTTCT
Found at i:8319575 original size:23 final size:23
Alignment explanation
Indices: 8319549--8319593 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8319539 CACCACAGCT
*
8319549 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
8319572 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
8319594 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:8320146 original size:19 final size:20
Alignment explanation
Indices: 8320100--8320136 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
8320090 CCACGTTTGG
*
8320100 AGAAGGAAGAGAAGAAGATA
1 AGAAAGAAGAGAAGAAGATA
8320120 AGAAAGAAG-GAAGAAGA
1 AGAAAGAAGAGAAGAAGA
8320137 AATGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (20 bp):
AGAAAGAAGAGAAGAAGATA
Found at i:8325682 original size:23 final size:23
Alignment explanation
Indices: 8325656--8325700 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8325646 CACCACAGCT
*
8325656 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
8325679 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
8325701 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:8325949 original size:149 final size:149
Alignment explanation
Indices: 8325679--8325982 Score: 574
Period size: 149 Copynumber: 2.0 Consensus size: 149
8325669 CGAAGTGCCC
8325679 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
* *
8325744 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
8325809 CATATGTC-CTAAAGAACCG
131 CATATGTCTC-AAAGAACCG
8325828 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
8325893 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
8325958 CATATGTCTCAAAGAACCG
131 CATATGTCTCAAAGAACCG
8325977 CGTAGA
1 CGTAGA
8325983 CCCTCTACCC
Statistics
Matches: 152, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
149 151 0.99
150 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCTCAAAGAACCG
Found at i:8326401 original size:19 final size:20
Alignment explanation
Indices: 8326355--8326391 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
8326345 CCACGTTTGG
*
8326355 AGAAGGAAGAGAAGAAGATA
1 AGAAAGAAGAGAAGAAGATA
8326375 AGAAAGAAG-GAAGAAGA
1 AGAAAGAAGAGAAGAAGA
8326392 AATGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (20 bp):
AGAAAGAAGAGAAGAAGATA
Found at i:8328756 original size:22 final size:22
Alignment explanation
Indices: 8328719--8328778 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
8328709 CAAAGAAACT
8328719 AAAAATATAATA-AAAATAAATA
1 AAAAATATAATATAAAAT-AATA
* *
8328741 AATAGTATAA-ATAAAATAATA
1 AAAAATATAATATAAAATAATA
8328762 AAAAATATAATATAAAA
1 AAAAATATAATATAAAA
8328779 ATATGAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 13 0.41
22 19 0.59
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAATATAATATAAAATAATA
Found at i:8328767 original size:28 final size:28
Alignment explanation
Indices: 8328718--8328781 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
8328708 GCAAAGAAAC
*
8328718 TAAAAATATAATAAAAATAAATA-AATA
1 TAAAAATAAAATAAAAATAAATATAATA
*
8328745 GTATAAATAAAATAATAAA-AAATATAATA
1 -TAAAAATAAAATAA-AAATAAATATAATA
8328774 TAAAAATA
1 TAAAAATA
8328782 TGAAAATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (28 bp):
TAAAAATAAAATAAAAATAAATATAATA
Found at i:8328787 original size:22 final size:21
Alignment explanation
Indices: 8328718--8328788 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
8328708 GCAAAGAAAC
*
8328718 TAAAAATATAATA-AAAATAAA
1 TAAAAATATAATATAAAA-ATA
*
8328739 TAAATAGTATAA-AT-AAAATAA
1 TAAA-AATATAATATAAAAAT-A
8328760 TAAAAAATATAATATAAAAATA
1 T-AAAAATATAATATAAAAATA
*
8328782 TGAAAAT
1 TAAAAAT
8328789 GTATGTATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
20 1 0.03
21 21 0.52
22 13 0.32
23 5 0.12
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (21 bp):
TAAAAATATAATATAAAAATA
Found at i:8329063 original size:23 final size:23
Alignment explanation
Indices: 8329029--8329075 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
8329019 ACGCAAAGAA
8329029 AAATGAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAA-TATAATTAAAT
8329052 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAA-AAAATATAATTAAAT
8329075 A
1 A
8329076 TATCATATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATGAAAAAAATATAATTAAAT
Found at i:8329904 original size:12 final size:12
Alignment explanation
Indices: 8329866--8329938 Score: 74
Period size: 12 Copynumber: 5.8 Consensus size: 12
8329856 GGAAAAAATG
8329866 AATAAATGAAAAA
1 AATAAAT-AAAAA
* *
8329879 AATGAAGAATAAA
1 AATAAATAA-AAA
*
8329892 AATAAGTAAAAA
1 AATAAATAAAAA
*
8329904 AATAAAATAAAAG
1 AAT-AAATAAAAA
*
8329917 AATAAATAAATA
1 AATAAATAAAAA
8329929 AATAAATAAA
1 AATAAATAAA
8329939 TGAAATATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
12 25 0.51
13 24 0.49
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:8329926 original size:4 final size:4
Alignment explanation
Indices: 8329891--8329945 Score: 58
Period size: 4 Copynumber: 13.2 Consensus size: 4
8329881 TGAAGAATAA
* *
8329891 AAAT AAGT AAAA AAAT AAAAT AAA- AGAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT -AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT
8329940 GAAAT A
1 -AAAT A
8329946 TTAAAATACA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
3 1 0.02
4 33 0.77
5 9 0.21
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:8330091 original size:29 final size:29
Alignment explanation
Indices: 8330026--8330100 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
8330016 ATGAAAATAT
*
8330026 AATAT-AATATAAACAAATAAAAAAACCA
1 AATATAAAAATAAACAAATAAAAAAACCA
* * * * *
8330054 AAAACAAAAATAAATAAATATATAAACCA
1 AATATAAAAATAAACAAATAAAAAAACCA
* *
8330083 AATATAAAAGTATACAAA
1 AATATAAAAATAAACAAA
8330101 CATACATATA
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.71, C:0.09, G:0.01, T:0.19
Consensus pattern (29 bp):
AATATAAAAATAAACAAATAAAAAAACCA
Found at i:8330810 original size:37 final size:37
Alignment explanation
Indices: 8330769--8330872 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 37
8330759 TGCTTGTGAG
* *
8330769 TCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCTA
1 TCCTATCTTTAGGAGTTTGAATCATAGTAGAACTATA
* * * * *
8330806 TCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTATA
1 TCCTATCTTTAGGAGTTTGAATCATAGTAGAACTATA
* *
8330843 T-CTAACTTTTAGGAGTTTGAATCTTAGTAG
1 TCCTATC-TTTAGGAGTTTGAATCATAGTAG
8330873 GACGAAAAGG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 3 0.06
37 51 0.94
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (37 bp):
TCCTATCTTTAGGAGTTTGAATCATAGTAGAACTATA
Found at i:8331080 original size:20 final size:20
Alignment explanation
Indices: 8331055--8331092 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8331045 GTAACTGTTA
8331055 TTTTGAATTATTATTATTAT
1 TTTTGAATTATTATTATTAT
* *
8331075 TTTTGATTTATTTTTATT
1 TTTTGAATTATTATTATT
8331093 TATGAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTGAATTATTATTATTAT
Found at i:8344738 original size:20 final size:20
Alignment explanation
Indices: 8344713--8344782 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
8344703 TCTACAGTAT
8344713 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
8344733 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
*
8344754 CGTTGCGATTATCCATTTCG
1 CGTTGCGATTTTCCATTTCG
8344774 CGTTGCGAT
1 CGTTGCGAT
8344783 AGTGTACAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 23 0.61
21 15 0.39
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:8344756 original size:21 final size:21
Alignment explanation
Indices: 8344668--8344762 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 21
8344658 GCGCTGCATT
8344668 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * * *
8344689 TCGTGTTTCGATAGTCT-ACAG
1 TCGCGTTGCGATAGT-TGAAAA
** * ** **
8344710 TATCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
8344730 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
8344751 TCGCGTTGCGAT
1 TCGCGTTGCGAT
8344763 TATCCATTTC
Statistics
Matches: 51, Mismatches: 20, Indels: 6
0.66 0.26 0.08
Matches are distributed among these distances:
19 1 0.02
20 11 0.22
21 38 0.75
22 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:8344804 original size:41 final size:40
Alignment explanation
Indices: 8344697--8344809 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 40
8344687 AATCGTGTTT
*
8344697 CGATAGTCTACAGTATCGTTGCGATTTTCCATTTCGCGTTG
1 CGATAGT-TACAGTGTCGTTGCGATTTTCCATTTCGCGTTG
* * *
8344738 CGATAGTTGAAAATCG-CGTTGCGATTATCCATTTCGCGTTG
1 CGATAGTT-ACAGT-GTCGTTGCGATTTTCCATTTCGCGTTG
* *
8344779 CGATAGTGTACAGTGTCATTACGATTTTCCA
1 CGATAGT-TACAGTGTCGTTGCGATTTTCCA
8344810 AATTCGTTGC
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
40 2 0.03
41 56 0.95
42 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (40 bp):
CGATAGTTACAGTGTCGTTGCGATTTTCCATTTCGCGTTG
Found at i:8346677 original size:22 final size:22
Alignment explanation
Indices: 8346642--8346696 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
8346632 TGACTAAATC
* * *
8346642 ATAACTATAATATTTTAAATTTA
1 ATAA-TATTATATTTTAAAATAA
8346665 ATAATATTATATTTTAAAATAA
1 ATAATATTATATTTTAAAATAA
8346687 ATAATATTAT
1 ATAATATTAT
8346697 TTAATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATTATATTTTAAAATAA
Found at i:8346702 original size:35 final size:35
Alignment explanation
Indices: 8346660--8346729 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
8346650 AATATTTTAA
*
8346660 ATTTAATAATATTATA-TTTTAAAATAAATAATATT
1 ATTTAAT-ATATTATAGGTTTAAAATAAATAATATT
* * *
8346695 ATTTAATATATTTTAGGTTTATAATGAATAATATT
1 ATTTAATATATTATAGGTTTAAAATAAATAATATT
8346730 TGGAAATCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 7 0.23
35 23 0.77
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (35 bp):
ATTTAATATATTATAGGTTTAAAATAAATAATATT
Found at i:8347314 original size:6 final size:6
Alignment explanation
Indices: 8347303--8347332 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8347293 ATGCTAAAAT
8347303 TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG
1 TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG
8347333 AGAGACGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.67, T:0.17
Consensus pattern (6 bp):
TGGAGG
Found at i:8366594 original size:6 final size:6
Alignment explanation
Indices: 8366584--8366634 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
8366574 GATTTATATA
*
8366584 CTCAAA CTCAAG CTCAAG CTCAAG CTCAAG CTCAAG CTCAAG CTCAAG
1 CTCAAG CTCAAG CTCAAG CTCAAG CTCAAG CTCAAG CTCAAG CTCAAG
8366632 CTC
1 CTC
8366635 GTTTCATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.33, C:0.35, G:0.14, T:0.18
Consensus pattern (6 bp):
CTCAAG
Found at i:8367033 original size:21 final size:21
Alignment explanation
Indices: 8367007--8367051 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8366997 TATATAACCC
*
8367007 AACAGAGGCCTAACAAACTCA
1 AACAGACGCCTAACAAACTCA
** *
8367028 AACAGACTTCTAACCAACTCA
1 AACAGACGCCTAACAAACTCA
8367049 AAC
1 AAC
8367052 GATTAGCTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.31, G:0.09, T:0.13
Consensus pattern (21 bp):
AACAGACGCCTAACAAACTCA
Found at i:8368323 original size:42 final size:42
Alignment explanation
Indices: 8368271--8368406 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 42
8368261 CCTCATCACT
8368271 CTACTGCTATTCCATCTCCATT-ACATTCATCACCACATAATA
1 CTACTGCTATTCCATCTCC-TTCACATTCATCACCACATAATA
* * * **
8368313 TTACTACTATTCCATCTCCTTCACATTCTTCACCACATAGCA
1 CTACTGCTATTCCATCTCCTTCACATTCATCACCACATAATA
* * * *
8368355 CTACTGCAATTCCATCTTCTTCACATTCATCACCACCTAATG
1 CTACTGCTATTCCATCTCCTTCACATTCATCACCACATAATA
*
8368397 CTTCTGCTAT
1 CTACTGCTAT
8368407 ATCACCTCCA
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 2 0.03
42 75 0.97
ACGTcount: A:0.26, C:0.35, G:0.04, T:0.35
Consensus pattern (42 bp):
CTACTGCTATTCCATCTCCTTCACATTCATCACCACATAATA
Found at i:8381403 original size:14 final size:15
Alignment explanation
Indices: 8381384--8381412 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8381374 TCAAGCATTT
8381384 AACAATCCA-AAACA
1 AACAATCCAGAAACA
8381398 AACAATCCAGAAACA
1 AACAATCCAGAAACA
8381413 TCAAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:8383354 original size:23 final size:22
Alignment explanation
Indices: 8383326--8383405 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
8383316 GCATGGCCTT
*
8383326 GTGCATTGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * * *
8383348 CGTGCATTGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
8383370 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
8383392 ATGCATCGATGCAC
1 GTGCATCGATGCAC
8383406 TGTTAGGTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 14 0.30
22 16 0.35
23 16 0.35
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:8383383 original size:44 final size:42
Alignment explanation
Indices: 8383333--8383424 Score: 114
Period size: 42 Copynumber: 2.1 Consensus size: 42
8383323 CTTGTGCATT
* * *
8383333 GATGCACATTCAAGGCGTGCATTGGTGCACCT-TCATGGTGTATC
1 GATGCACATTCAAGG-ATGCATCGATGCA-CTGTCA-GGTGTATC
*
8383377 GATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGTATC
1 GATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGTATC
8383419 GATGCA
1 GATGCA
8383425 TGAAGTACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 16 0.37
43 12 0.28
44 15 0.35
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (42 bp):
GATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGTATC
Found at i:8383388 original size:21 final size:19
Alignment explanation
Indices: 8383358--8383424 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 19
8383348 CGTGCATTGG
8383358 TGCACCTTCATGGTGTATCGA
1 TGCA-CTTCA-GGTGTATCGA
*
8383379 TGCACATTCAAGGATGCATCGA
1 TGCAC-TTC-AGG-TGTATCGA
*
8383401 TGCACTGTTAGGTGTATCGA
1 TGCACT-TCAGGTGTATCGA
8383421 TGCA
1 TGCA
8383425 TGAAGTACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 12 0.31
21 13 0.33
22 14 0.36
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (19 bp):
TGCACTTCAGGTGTATCGA
Found at i:8383421 original size:20 final size:21
Alignment explanation
Indices: 8383333--8383424 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 21
8383323 CTTGTGCATT
* *
8383333 GATGCACATTCAAGGCGTGCATT
1 GATGCACATTCAA-G-GTGTATC
* * *
8383356 GGTGCACCTTCATGGTGTATC
1 GATGCACATTCAAGGTGTATC
*
8383377 GATGCACATTCAAGGATGCATC
1 GATGCACATTCAAGG-TGTATC
*
8383399 GATGCAC-TGT-TAGGTGTATC
1 GATGCACAT-TCAAGGTGTATC
8383419 GATGCA
1 GATGCA
8383425 TGAAGTACAA
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 11 0.20
21 21 0.38
22 14 0.25
23 10 0.18
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (21 bp):
GATGCACATTCAAGGTGTATC
Found at i:8388314 original size:18 final size:17
Alignment explanation
Indices: 8388260--8388308 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
8388250 TTGGACCCTT
* *
8388260 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
8388278 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
8388296 AGTGCATTCGATG
1 AGTGCA-TCGATG
8388309 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:8388478 original size:65 final size:64
Alignment explanation
Indices: 8388280--8388489 Score: 232
Period size: 65 Copynumber: 3.2 Consensus size: 64
8388270 TGCACTAAGA
* * * *
8388280 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGTCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTG
* *
8388344 GTGCATCGATGCATCAAATGCATTTGATGTTTTC-ATAAAATCCTCA-GTGCATCGATGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT
8388407 AT-
63 -TG
* * *
8388409 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGGTGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TT
8388473 G
64 G
*
8388474 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
8388490 CTTTGATAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 50 0.41
65 63 0.51
66 1 0.01
67 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:8395409 original size:12 final size:12
Alignment explanation
Indices: 8395389--8395425 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8395379 TGTAACACCC
*
8395389 CCAAACCGTATA
1 CCAACCCGTATA
8395401 CCAACCCGTATA
1 CCAACCCGTATA
*
8395413 CCAACCCGGATA
1 CCAACCCGTATA
8395425 C
1 C
8395426 GAGTTAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.35, C:0.41, G:0.11, T:0.14
Consensus pattern (12 bp):
CCAACCCGTATA
Found at i:8396003 original size:23 final size:23
Alignment explanation
Indices: 8395977--8396040 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
8395967 CAGCTCATAT
8395977 AATTGCACCTTAGTGCCACGTAG
1 AATTGCACCTTAGTGCCACGTAG
* * *
8396000 AATTGCA-CTGGAGTACCGCGTAG
1 AATTGCACCT-TAGTGCCACGTAG
*
8396023 AATTGCACCGTAGTGCCA
1 AATTGCACCTTAGTGCCA
8396041 TATAATAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
22 2 0.06
23 29 0.91
24 1 0.03
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (23 bp):
AATTGCACCTTAGTGCCACGTAG
Found at i:8396734 original size:7 final size:7
Alignment explanation
Indices: 8396722--8396753 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
8396712 AATAGTTTAG
8396722 TCTTTCT
1 TCTTTCT
8396729 TCTTTCT
1 TCTTTCT
8396736 TCTTTCT
1 TCTTTCT
8396743 TCTTTCT
1 TCTTTCT
8396750 TCTT
1 TCTT
8396754 CTTTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTCT
Found at i:8396803 original size:18 final size:19
Alignment explanation
Indices: 8396766--8396802 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8396756 TTTTTTTATA
*
8396766 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
8396785 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
8396803 TCAAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:8396853 original size:21 final size:21
Alignment explanation
Indices: 8396829--8396871 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8396819 TTCATATTCG
* *
8396829 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
8396850 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
8396871 T
1 T
8396872 AGCCTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:8402950 original size:23 final size:23
Alignment explanation
Indices: 8402924--8402987 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
8402914 CAGCTCATAT
*
8402924 AATTGCACCTTAGTGCCACGTAG
1 AATTGCACCGTAGTGCCACGTAG
* * *
8402947 AATTGCATCGGAGTGCCGCGTAG
1 AATTGCACCGTAGTGCCACGTAG
8402970 AATTGCACCGTAGTGCCA
1 AATTGCACCGTAGTGCCA
8402988 TATAATAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (23 bp):
AATTGCACCGTAGTGCCACGTAG
Found at i:8403182 original size:103 final size:103
Alignment explanation
Indices: 8403003--8403220 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
8402993 TAATGTCCAT
8403003 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
8403068 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
66 AACCTCACACATGTTCCAAAGAATACATATATATCCCG
8403106 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
8403171 AACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 AACCTCACACATGTTCCAAAGAATACATATATATCCCG
8403209 AAGGACCACATA
1 AAGGACCACATA
8403221 GACCCTCTAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
AACCTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:8403740 original size:19 final size:20
Alignment explanation
Indices: 8403703--8403740 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8403693 TTTTTTTATA
*
8403703 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
8403723 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
8403741 TCAAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:8403791 original size:21 final size:21
Alignment explanation
Indices: 8403767--8403809 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8403757 TTCATATTCG
*
8403767 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
* *
8403788 TTGAATGGGTATTGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
8403809 T
1 T
8403810 AGCCTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.28, T:0.35
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:8410723 original size:14 final size:14
Alignment explanation
Indices: 8410700--8410732 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8410690 ATAGGTTGGG
8410700 AAAAAAGAAAAA-A
1 AAAAAAGAAAAAGA
8410713 AAAACAAGAAAAAGA
1 AAAA-AAGAAAAAGA
8410728 AAAAA
1 AAAAA
8410733 CGTTTAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:8410789 original size:8 final size:8
Alignment explanation
Indices: 8410769--8410836 Score: 95
Period size: 8 Copynumber: 8.8 Consensus size: 8
8410759 GCCCTAAATT
8410769 AAAAAAA-
1 AAAAAAAG
*
8410776 AGAAAAAG
1 AAAAAAAG
8410784 -AAAAAAG
1 AAAAAAAG
*
8410791 AGAAAAAG
1 AAAAAAAG
*
8410799 AGAAAAAG
1 AAAAAAAG
8410807 AAAAAAAG
1 AAAAAAAG
8410815 AAAAAAAG
1 AAAAAAAG
8410823 AAAAAAAG
1 AAAAAAAG
8410831 AAAAAA
1 AAAAAA
8410837 GAACGAAACA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
7 12 0.22
8 43 0.78
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:8410797 original size:16 final size:16
Alignment explanation
Indices: 8410769--8410853 Score: 88
Period size: 16 Copynumber: 5.3 Consensus size: 16
8410759 GCCCTAAATT
*
8410769 AAAAAAAAG-AAAAAG
1 AAAAAAGAGAAAAAAG
8410784 AAAAAAGAG-AAAAAG
1 AAAAAAGAGAAAAAAG
8410799 AGAAAAAGA-AAAAAAG
1 A-AAAAAGAGAAAAAAG
8410815 AAAAAA-AGAAAAAAAG
1 AAAAAAGAG-AAAAAAG
*
8410831 AAAAAAGAACGAAACAAG
1 AAAAAAG-A-GAAAAAAG
8410849 AAAAA
1 AAAAA
8410854 TAAGGTGGGT
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.02
15 20 0.33
16 27 0.44
18 12 0.20
19 1 0.02
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAGAGAAAAAAG
Found at i:8410802 original size:23 final size:23
Alignment explanation
Indices: 8410769--8410839 Score: 108
Period size: 24 Copynumber: 3.1 Consensus size: 23
8410759 GCCCTAAATT
8410769 AAAAAAA-AGAAAAAGAAAAAAG
1 AAAAAAAGAGAAAAAGAAAAAAG
*
8410791 AGAAAAAGAGAAAAAGAAAAAAAG
1 AAAAAAAGAGAAAAAG-AAAAAAG
*
8410815 AAAAAAAGAAAAAAAGAAAAAAG
1 AAAAAAAGAGAAAAAGAAAAAAG
8410838 AA
1 AA
8410840 CGAAACAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
22 6 0.14
23 17 0.39
24 21 0.48
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAGAAAAAGAAAAAAG
Found at i:8410852 original size:23 final size:22
Alignment explanation
Indices: 8410771--8410852 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 22
8410761 CCTAAATTAA
8410771 AAAAAAGAAAAAGAAAAAAG-AG
1 AAAAAAG-AAAAGAAAAAAGAAG
*
8410793 AAAAAGAGAAAAAGAAAAAAAGAAA
1 AAAAA-AG-AAAAG-AAAAAAGAAG
*
8410818 AAAAGAAAAAAAGAAAAAAGAACG
1 AAAA-AAGAAAAGAAAAAAGAA-G
*
8410842 AAACAAGAAAA
1 AAAAAAGAAAA
8410853 ATAAGGTGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
22 5 0.10
23 23 0.46
24 15 0.30
25 6 0.12
26 1 0.02
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAAAGAAAAAAGAAG
Found at i:8412161 original size:99 final size:99
Alignment explanation
Indices: 8412004--8412189 Score: 291
Period size: 99 Copynumber: 1.9 Consensus size: 99
8411994 AACCAATTTC
* * *
8412004 AACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACGACGAAGGGGTGGC
1 AACTTCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGC
*
8412069 TGATTGTCAACAAACAACTTTCAGAGTCAATCTA
66 TGACTGTCAACAAACAACTTTCAGAGTCAATCTA
* * * **
8412103 AACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACGGTGAAGGGGCGGC
1 AACTTCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGC
8412168 TGACTGTCAACAAACAACTTTC
66 TGACTGTCAACAAACAACTTTC
8412190 CAGTTTCAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (99 bp):
AACTTCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGC
TGACTGTCAACAAACAACTTTCAGAGTCAATCTA
Found at i:8413893 original size:2 final size:2
Alignment explanation
Indices: 8413886--8413915 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8413876 GTGTTATTAA
8413886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8413916 TAATTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8415961 original size:68 final size:67
Alignment explanation
Indices: 8415880--8416014 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 67
8415870 TAGACTTGAA
* * * * ***
8415880 TTATAAAATTATTTTTGAATGGTCTGAATTTATAAAATTATTTATCCAGGGTGCCCGTCATTCTA
1 TTATAAAATTATTTTTGAATGATCTAAATTTACAAAA-TATTAAGAAAGGGTGCCCGTCATTCTA
8415945 AAT
65 AAT
* *
8415948 TTATAACATTATTTTTGAATGATCTAAATTTACAAAATATTAAGAAAGGGTGCGCGTCATTCTAA
1 TTATAAAATTATTTTTGAATGATCTAAATTTACAAAATATTAAGAAAGGGTGCCCGTCATTCTAA
8416013 AT
66 AT
8416015 GGCAACATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
67 25 0.43
68 33 0.57
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (67 bp):
TTATAAAATTATTTTTGAATGATCTAAATTTACAAAATATTAAGAAAGGGTGCCCGTCATTCTAA
AT
Found at i:8417874 original size:24 final size:23
Alignment explanation
Indices: 8417841--8417901 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
8417831 CCTGATATTA
*
8417841 ATAACATAAACTTTTATGTGTGTAT
1 ATAACATAAAATTTTATG-GTG-AT
8417866 ATAA-ATAAAATTTTATGGTGAT
1 ATAACATAAAATTTTATGGTGAT
8417888 ATAATCAATAAAAT
1 ATAA-C-ATAAAAT
8417902 AAATAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.19
23 3 0.09
24 12 0.38
25 11 0.34
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (23 bp):
ATAACATAAAATTTTATGGTGAT
Found at i:8429319 original size:2 final size:2
Alignment explanation
Indices: 8429312--8429344 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8429302 TAAGTGATTA
8429312 AT AT AT AT 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 AT AT AT AT A
8429345 AACACCTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8429717 original size:60 final size:60
Alignment explanation
Indices: 8429600--8429717 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
8429590 TCGACTACAT
* * * *
8429600 GATGTTATTTTATTGAGTCTTTTATCTATTATAAGTTACAAAATAGTCTCCTGACTATGG
1 GATGTTATTTGATTGAGTCTTTTATCTATTAAAAGTTACAAAATAGTCACCTAACTATGG
* *
8429660 GATGTTATTTGATTGAGTCCTTTTAT-TATTAAAAGTTATAAAATGGTCA-CTCAACTAT
1 GATGTTATTTGATTGAGT-CTTTTATCTATTAAAAGTTACAAAATAGTCACCT-AACTAT
8429718 TCATATGTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 2 0.04
60 41 0.82
61 7 0.14
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (60 bp):
GATGTTATTTGATTGAGTCTTTTATCTATTAAAAGTTACAAAATAGTCACCTAACTATGG
Found at i:8430527 original size:10 final size:9
Alignment explanation
Indices: 8430492--8430609 Score: 92
Period size: 10 Copynumber: 12.3 Consensus size: 9
8430482 GCTGCTGGAA
*
8430492 ACCGGTTTA
1 ACCGGTTTG
*
8430501 ACCGGTTTTCA
1 ACCGG-TTT-G
8430512 ACCGGTTATG
1 ACCGGTT-TG
8430522 ACCGGTTTG
1 ACCGGTTTG
*
8430531 ACCGGTTTCA
1 ACCGGTTT-G
*
8430541 ACCGGTTCG
1 ACCGGTTTG
8430550 AACCGGTTTG
1 -ACCGGTTTG
*
8430560 ACCGGTCTG
1 ACCGGTTTG
* *
8430569 AAACGGCTTG
1 -ACCGGTTTG
*
8430579 ACCGGTCTG
1 ACCGGTTTG
8430588 AACCGGTTTG
1 -ACCGGTTTG
*
8430598 ACCGGTCTG
1 ACCGGTTTG
8430607 ACC
1 ACC
8430610 CGACCCGACC
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
9 40 0.45
10 41 0.47
11 7 0.08
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:8430536 original size:19 final size:19
Alignment explanation
Indices: 8430491--8430607 Score: 121
Period size: 19 Copynumber: 6.1 Consensus size: 19
8430481 GGCTGCTGGA
* * *
8430491 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTGACCGG-TCTG
*
8430511 AACCGGTTATGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
8430531 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
8430550 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
* *
8430569 AAACGGCTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
8430588 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
8430607 A
1 A
8430608 CCCGACCCGA
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
18 2 0.02
19 56 0.67
20 20 0.24
21 6 0.07
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:8430554 original size:29 final size:30
Alignment explanation
Indices: 8430491--8430565 Score: 109
Period size: 29 Copynumber: 2.5 Consensus size: 30
8430481 GGCTGCTGGA
* *
8430491 AACCGGTTTAACCGGTTTTCAACCGGTTATG
1 AACCGGTTTGACCGG-TTTCAACCGGTTACG
8430522 -ACCGGTTTGACCGGTTTCAACCGGTT-CG
1 AACCGGTTTGACCGGTTTCAACCGGTTACG
8430550 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
8430566 CTGAAACGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 1 0.02
29 27 0.66
30 13 0.32
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTACG
Found at i:8430608 original size:9 final size:9
Alignment explanation
Indices: 8430520--8430609 Score: 58
Period size: 9 Copynumber: 9.6 Consensus size: 9
8430510 CAACCGGTTA
*
8430520 TGACCGGTT
1 TGACCGGTC
*
8430529 TGACCGGTT
1 TGACCGGTC
*
8430538 TCAACCGGT-
1 T-GACCGGTC
*
8430547 TCGAACCGGTT
1 T-G-ACCGGTC
8430558 TGACCGGTC
1 TGACCGGTC
*
8430567 TGAAACGG-C
1 TG-ACCGGTC
8430576 TTGACCGGTC
1 -TGACCGGTC
*
8430586 TGAACCGGTT
1 TG-ACCGGTC
8430596 TGACCGGTC
1 TGACCGGTC
8430605 TGACC
1 TGACC
8430610 CGACCCGACC
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
9 38 0.57
10 28 0.42
11 1 0.01
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.26
Consensus pattern (9 bp):
TGACCGGTC
Found at i:8430620 original size:38 final size:38
Alignment explanation
Indices: 8430541--8430620 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
8430531 ACCGGTTTCA
* **
8430541 ACCGGTTCGAACCGGTTTGACCGGTCTGAAACGGCTTG
1 ACCGGTTCGAACCGGTTTGACCGGTCTGAAACGACCCG
**
8430579 ACCGG-TCTGAACCGGTTTGACCGGTCTGACCCGACCCG
1 ACCGGTTC-GAACCGGTTTGACCGGTCTGAAACGACCCG
8430617 ACCG
1 ACCG
8430621 TTGACCCGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.20
Consensus pattern (38 bp):
ACCGGTTCGAACCGGTTTGACCGGTCTGAAACGACCCG
Found at i:8430632 original size:22 final size:22
Alignment explanation
Indices: 8430606--8430648 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
8430596 TGACCGGTCT
8430606 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
8430628 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
8430649 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:8437857 original size:10 final size:9
Alignment explanation
Indices: 8437822--8437940 Score: 85
Period size: 10 Copynumber: 12.3 Consensus size: 9
8437812 ACTGTTGGAA
*
8437822 ACCGGTTTA
1 ACCGGTTTG
*
8437831 ACCGGTTTTCA
1 ACCGG-TTT-G
8437842 ACCGGTTCTG
1 ACCGGTT-TG
8437852 ACCGGTTTG
1 ACCGGTTTG
*
8437861 ACCGGTTTCA
1 ACCGGTTT-G
*
8437871 ACCGGTTCG
1 ACCGGTTTG
8437880 AACCGGTTTG
1 -ACCGGTTTG
*
8437890 ACCCGGTCTG
1 A-CCGGTTTG
*
8437900 AACCGGCTTG
1 -ACCGGTTTG
* *
8437910 ATCGGTCTG
1 ACCGGTTTG
8437919 AACCGGTTTG
1 -ACCGGTTTG
*
8437929 ACCGGTCTG
1 ACCGGTTTG
8437938 ACC
1 ACC
8437941 CGACTCGACC
Statistics
Matches: 88, Mismatches: 14, Indels: 16
0.75 0.12 0.14
Matches are distributed among these distances:
9 33 0.38
10 47 0.53
11 8 0.09
ACGTcount: A:0.16, C:0.29, G:0.28, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:8437866 original size:19 final size:19
Alignment explanation
Indices: 8437841--8437938 Score: 110
Period size: 19 Copynumber: 5.1 Consensus size: 19
8437831 ACCGGTTTTC
*
8437841 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
8437861 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
8437880 AACCGGTTTGACCCGGTCTG
1 AACCGGTTTGA-CCGGTCTG
* *
8437900 AACCGGCTTGATCGGTCTG
1 AACCGGTTTGACCGGTCTG
8437919 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
8437938 A
1 A
8437939 CCCGACTCGA
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.03
19 40 0.60
20 24 0.36
21 1 0.01
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:8437884 original size:29 final size:31
Alignment explanation
Indices: 8437821--8437892 Score: 114
Period size: 29 Copynumber: 2.4 Consensus size: 31
8437811 GACTGTTGGA
*
8437821 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
8437852 -ACCGGTTTGACCGG-TTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
8437880 AACCGGTTTGACC
1 AACCGGTTTGACC
8437893 CGGTCTGAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.03
29 25 0.64
30 13 0.33
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.29
Consensus pattern (31 bp):
AACCGGTTTGACCGGTTTTCAACCGGTTCTG
Found at i:8437884 original size:39 final size:37
Alignment explanation
Indices: 8437822--8437940 Score: 125
Period size: 39 Copynumber: 3.1 Consensus size: 37
8437812 ACTGTTGGAA
*
8437822 ACCGGTTTAACCGGTTTTC-AACCGGTTCTGACCGGTTTG
1 ACCGGTTTAACCGG--TTCGAACCGGTT-TGACCGGTCTG
8437861 ACCGGTTTCAACCGGTTCGAACCGGTTTGACCCGGTCTG
1 ACCGGTTT-AACCGGTTCGAACCGGTTTGA-CCGGTCTG
* * *
8437900 AACCGGCTTGATCGG-TCTGAACCGGTTTGACCGGTCTG
1 -ACCGGTTTAACCGGTTC-GAACCGGTTTGACCGGTCTG
8437938 ACC
1 ACC
8437941 CGACTCGACC
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
37 3 0.04
38 16 0.23
39 39 0.55
40 13 0.18
ACGTcount: A:0.16, C:0.29, G:0.28, T:0.28
Consensus pattern (37 bp):
ACCGGTTTAACCGGTTCGAACCGGTTTGACCGGTCTG
Found at i:8437958 original size:17 final size:17
Alignment explanation
Indices: 8437959--8438018 Score: 75
Period size: 17 Copynumber: 3.2 Consensus size: 17
8437949 CCGTTGACCC
8437959 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
8437976 GACCCGACCCGACCCGACCGTT
1 G-----ACCCGACCCGACCGTT
8437998 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
8438015 GACC
1 GACC
8438019 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 21 0.55
22 17 0.45
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.10
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:8437962 original size:5 final size:5
Alignment explanation
Indices: 8437954--8438011 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
8437944 CTCGACCGTT
* *
8437954 GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC
8438003 GACCC GACC
1 GACCC GACC
8438012 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:8437963 original size:22 final size:22
Alignment explanation
Indices: 8437937--8438025 Score: 142
Period size: 22 Copynumber: 4.0 Consensus size: 22
8437927 TGACCGGTCT
*
8437937 GACCCGACTCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
8437959 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
8437981 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
8438003 GACCCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
8438026 GTTGACCGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
22 52 0.83
24 11 0.17
ACGTcount: A:0.18, C:0.46, G:0.24, T:0.12
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:8438018 original size:7 final size:7
Alignment explanation
Indices: 8438008--8438038 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
8437998 GACCCGACCC
8438008 GACCGTT
1 GACCGTT
8438015 GACCGTT
1 GACCGTT
8438022 GACCGTT
1 GACCGTT
8438029 GACCGTT
1 GACCGTT
8438036 GAC
1 GAC
8438039 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:8446259 original size:82 final size:82
Alignment explanation
Indices: 8446122--8446286 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
8446112 TTGGTTCTTC
8446122 TTGTGCCACATTTAGCTCGTTCAAAATATTCTTTAACCACATTGCTTGGCAAGTGCACGCTACTG
1 TTGTGCCACATTTAGCTCGTTCAAAATATTCTTTAACCACATTGCTTGGCAAGTGCACGCTACTG
8446187 CGGCTATGTATTCTGCT
66 CGGCTATGTATTCTGCT
8446204 TTGTGCCACATTTAGCTCGTTCAAAATATTCTTTAACCACATTGCTTGGCAAGTGCACGCTACTG
1 TTGTGCCACATTTAGCTCGTTCAAAATATTCTTTAACCACATTGCTTGGCAAGTGCACGCTACTG
8446269 CGGCTATGTATTCTGCT
66 CGGCTATGTATTCTGCT
8446286 T
1 T
8446287 CACATGTTGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (82 bp):
TTGTGCCACATTTAGCTCGTTCAAAATATTCTTTAACCACATTGCTTGGCAAGTGCACGCTACTG
CGGCTATGTATTCTGCT
Found at i:8452194 original size:23 final size:24
Alignment explanation
Indices: 8452157--8452202 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
8452147 GGAAAAAACA
8452157 CTTGGAGTTTAGTTGTCAGAAGAT
1 CTTGGAGTTTAGTTGTCAGAAGAT
*
8452181 CTTGG-GTTTTGTTGTCAGAAGA
1 CTTGGAGTTTAGTTGTCAGAAGA
8452203 GATCCAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.22, C:0.09, G:0.30, T:0.39
Consensus pattern (24 bp):
CTTGGAGTTTAGTTGTCAGAAGAT
Found at i:8456293 original size:2 final size:2
Alignment explanation
Indices: 8456286--8456348 Score: 101
Period size: 2 Copynumber: 32.0 Consensus size: 2
8456276 AATTCTCTAT
*
8456286 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
8456327 TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
8456349 GAAGGTATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8456505 original size:28 final size:28
Alignment explanation
Indices: 8456470--8456535 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
8456460 CTCATTGTCA
8456470 AGATCTTTCTGGTAAAATAGGCCTTGTG
1 AGATCTTTCTGGTAAAATAGGCCTTGTG
8456498 AGATCTTTCTGGTAAAATAGGCCTTGTG
1 AGATCTTTCTGGTAAAATAGGCCTTGTG
8456526 AGATCTTTCT
1 AGATCTTTCT
8456536 TGTTGTGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (28 bp):
AGATCTTTCTGGTAAAATAGGCCTTGTG
Found at i:8462883 original size:23 final size:23
Alignment explanation
Indices: 8462857--8462903 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8462847 GAAAACTGAA
8462857 TTGTCTTGAGTAAATTTTGAAAC
1 TTGTCTTGAGTAAATTTTGAAAC
8462880 TTGTCTTGAGTAAATTTTGAAAC
1 TTGTCTTGAGTAAATTTTGAAAC
8462903 T
1 T
8462904 GACAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.45
Consensus pattern (23 bp):
TTGTCTTGAGTAAATTTTGAAAC
Found at i:8465386 original size:31 final size:31
Alignment explanation
Indices: 8465348--8465416 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
8465338 TTAAGTATTT
* *
8465348 TTAATTTGA-ACTCTATACTTTAGATAAAATA
1 TTAATTTGATA-TCTAAAATTTAGATAAAATA
8465379 TTAATTTGATATCTAAAATTTAGATAAAATA
1 TTAATTTGATATCTAAAATTTAGATAAAATA
*
8465410 TCAATTT
1 TTAATTT
8465417 AATCCACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (31 bp):
TTAATTTGATATCTAAAATTTAGATAAAATA
Found at i:8470716 original size:50 final size:51
Alignment explanation
Indices: 8470641--8470768 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 51
8470631 TTAGCAATAA
* * * * * *
8470641 AGCGCGCCCCCTGTATCGCGTTATACGATGATTTGGC-GCCACGTAGGGTAT
1 AGCGCGACCCCTGCACCGCGCTATACGATGATCTGGCAGACACGT-GGGTAT
* *
8470692 AGCGCG-CCCCTGCACCGCGCTATACGGTGATCTGGCATACACGTGGGTAT
1 AGCGCGACCCCTGCACCGCGCTATACGATGATCTGGCAGACACGTGGGTAT
*
8470742 AGCGCGACCCCTGCAGCGCGCTATACG
1 AGCGCGACCCCTGCACCGCGCTATACG
8470769 CCACGTAGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 37 0.55
51 30 0.45
ACGTcount: A:0.18, C:0.32, G:0.30, T:0.20
Consensus pattern (51 bp):
AGCGCGACCCCTGCACCGCGCTATACGATGATCTGGCAGACACGTGGGTAT
Found at i:8475049 original size:18 final size:18
Alignment explanation
Indices: 8475026--8475063 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8475016 AGGCGATGGT
8475026 GGCATCATATATGGATGC
1 GGCATCATATATGGATGC
*
8475044 GGCATCATATATGGCTGC
1 GGCATCATATATGGATGC
8475062 GG
1 GG
8475064 TGGCTGCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (18 bp):
GGCATCATATATGGATGC
Found at i:8476765 original size:110 final size:111
Alignment explanation
Indices: 8476571--8476791 Score: 390
Period size: 110 Copynumber: 2.0 Consensus size: 111
8476561 ATTACAAAAA
** * *
8476571 TTAATTCTTAATCTAATAATCATGTATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
8476636 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
8476682 TTAATTCTTAATCTAATAATCATACATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
8476746 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
8476792 ATGATTTTCA
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
110 72 0.69
111 33 0.31
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:8477166 original size:51 final size:51
Alignment explanation
Indices: 8477061--8477188 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
8477051 AGATATTCAG
* * * * * *
8477061 GTATAGCGCGCTGCAGGGGCCGCGCTATACCCACGTGTATGTCAGATCACC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGTACGCCAAATAACC
* *
8477112 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTG-GCGCCAAATAATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATA-CCCACGTGTACGCCAAATAACC
*
8477163 GTATAGCGCGGTGCTGGGGGCGCGCT
1 GTATAGCGCGGTGCAGGGGGCGCGCT
8477189 TTACTGCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
51 59 0.88
52 8 0.12
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (51 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGTACGCCAAATAACC
Found at i:8478224 original size:8 final size:8
Alignment explanation
Indices: 8478211--8478256 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
8478201 TACTTGCATG
8478211 AATTTTAA
1 AATTTTAA
8478219 AATTTT--
1 AATTTTAA
8478225 AATTTTAA
1 AATTTTAA
8478233 AATTTT--
1 AATTTTAA
8478239 AATTTTAA
1 AATTTTAA
*
8478247 AATTTGAA
1 AATTTTAA
8478255 AA
1 AA
8478257 GATGTGACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
6 12 0.36
8 21 0.64
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (8 bp):
AATTTTAA
Found at i:8478230 original size:14 final size:14
Alignment explanation
Indices: 8478211--8478251 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
8478201 TACTTGCATG
8478211 AATTTTAAAATTTT
1 AATTTTAAAATTTT
8478225 AATTTTAAAATTTT
1 AATTTTAAAATTTT
8478239 AATTTTAAAATTT
1 AATTTTAAAATTT
8478252 GAAAAGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTTAAAATTTT
Found at i:8478571 original size:31 final size:31
Alignment explanation
Indices: 8478536--8478594 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
8478526 AACTTAAAAG
*
8478536 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
8478567 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
8478595 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:8478643 original size:22 final size:22
Alignment explanation
Indices: 8478618--8479092 Score: 645
Period size: 22 Copynumber: 21.5 Consensus size: 22
8478608 ATAATAAATT
8478618 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
8478640 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
**
8478662 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
8478684 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
8478706 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
8478728 TTTTAAAATAAATCTATCCATA
1 TTTTAAAATAAATCAATCCATA
8478750 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
8478772 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
8478794 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
8478816 TTTTTAAAATAAAAT-TTTTCATA
1 -TTTTAAAAT-AAATCAATCCATA
8478839 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
8478861 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
8478883 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
8478905 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
8478927 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
8478949 TTTTAAAATAAATAAATCTATA
1 TTTTAAAATAAATCAATCCATA
8478971 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
8478993 TTTTAAAATAATTTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
*
8479015 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*
8479037 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
**
8479059 TTTTAAAATAAATCAATTTATA
1 TTTTAAAATAAATCAATCCATA
8479081 TTTTAAAATAAA
1 TTTTAAAATAAA
8479093 ATTTTAAAAT
Statistics
Matches: 408, Mismatches: 36, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.04
22 362 0.89
23 26 0.06
24 4 0.01
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:8487274 original size:18 final size:18
Alignment explanation
Indices: 8487251--8487288 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8487241 TCAAAAGCAT
8487251 TCTACAGCAA-AGTCTTCA
1 TCTACAGCAACA-TCTTCA
*
8487269 TCTACATCAACATCTTCA
1 TCTACAGCAACATCTTCA
8487287 TC
1 TC
8487289 GAATTCCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (18 bp):
TCTACAGCAACATCTTCA
Found at i:8494826 original size:111 final size:112
Alignment explanation
Indices: 8494487--8494949 Score: 739
Period size: 112 Copynumber: 4.1 Consensus size: 112
8494477 TTGTCAGTTT
**
8494487 GTGTCGATACTTTATAAAAATATATTAATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
8494552 AGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 AGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * * *
8494599 GTGTCGATACATTATAAAAATATATTGATCCATAACAATATAACATGTAAACAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
8494664 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
66 AGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
8494711 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACA
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
8494775 AGTTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 AGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
8494822 GTGTCGCTATTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* * * * *
8494887 CGGTCTAAAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGATA
65 CAGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
8494935 GTGTCTATACTTTAT
1 GTGTCGATACTTTAT
8494950 TATAAGTATC
Statistics
Matches: 322, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
111 103 0.32
112 151 0.47
113 68 0.21
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
AGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:8495046 original size:183 final size:183
Alignment explanation
Indices: 8494819--8495251 Score: 697
Period size: 182 Copynumber: 2.4 Consensus size: 183
8494809 GGATATATTG
* *
8494819 AAAGTGTCGCTATTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAA
* *
8494884 AACCGGTCTAAAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGATAGTGTCTATACTTTA
66 AACCGGTCTAAAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTA
* *
8494949 TTATAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 TTATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
*
8495002 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAATATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAA
** * *
8495066 AACCGGTCTCGAAATGACAAAACTGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATATTTTA
66 AACCGGTCTAAAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTA
*
8495131 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
131 TTATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
** * * * *
8495184 AACCTGTCGATACTTTATAAAATTGTATTGATCCATAACAATATAACAAGTAAAAAAAACGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAA
8495249 AAC
66 AAC
8495252 AGGTAAAACG
Statistics
Matches: 230, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
182 167 0.73
183 63 0.27
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (183 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAA
AACCGGTCTAAAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTA
TTATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
Found at i:8495362 original size:163 final size:163
Alignment explanation
Indices: 8495081--8495404 Score: 488
Period size: 163 Copynumber: 2.0 Consensus size: 163
8495071 GTCTCGAAAT
* * *
8495081 GACAAAACTGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATATTTTATTATAAGTATCGACA
1 GACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTATCGATACTTTATTATAAGTATCGACA
* * * * *
8495146 CTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAACCTGTCGATACTTTATAAAATTGTA
66 CTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAACTGTCAATACTTTATAAAAATGTA
**
8495211 TTGATCCATAACAATATAACAAGTAAAAAAAAC
131 TCAATCCATAACAATATAACAAGTAAAAAAAAC
*
8495244 GACAAAACAGGTAAA-ACGCTACCGGATATGTTGATAGTATCGATACTTTATTATAAGTATCGAC
1 GACAAAACAGGTAAAGA-GCTACCGGATATGTTGAAAGTATCGATACTTTATTATAAGTATCGAC
* * *
8495308 ACTTTTAGAATTTAAAAGAAAATAAGTTATAGCACTAATAAAGTGTCAATACTTTATAAAAATGT
65 ACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAACTGTCAATACTTTATAAAAATGT
* *
8495373 ATCAATCCATAATAATATAACAGGTAAAAAAA
130 ATCAATCCATAACAATATAACAAGTAAAAAAA
8495405 GGATAAAACT
Statistics
Matches: 144, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
162 1 0.01
163 143 0.99
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (163 bp):
GACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTATCGATACTTTATTATAAGTATCGACA
CTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAACTGTCAATACTTTATAAAAATGTA
TCAATCCATAACAATATAACAAGTAAAAAAAAC
Found at i:8495530 original size:345 final size:344
Alignment explanation
Indices: 8494893--8495583 Score: 1132
Period size: 345 Copynumber: 2.0 Consensus size: 344
8494883 AAACCGGTCT
* * *
8494893 AAAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGATAGTGTCTATACTTTATTATAAGTA
1 AAAAACGACAAAACAGGTAAAGAGCTACCGGATATGTTGATAGTATCGATACTTTATTATAAGTA
* * *
8494958 TCGACACTTTTAGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTTATAAA
66 TCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACTAATAAAGTGTCAATACTTTATAAA
* * * *
8495023 AATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
131 AATGTATCAATCCATAACAATATAACAGGTAAAAAAAGGACAAAACCGGTCTAGAAATGACAAAA
** * * *
8495088 CTGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATATTTTATTATAAGTATCGACACTTTTGG
196 CAAGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGA
* *
8495153 AATTTAAAAGAAAAGAAGTTATAGCGCCAATAACCTGTCGATACTTTATAAAATTGTATTGATCC
261 AATTTAAAAGAAAAGAAGTTATAGCGCCAATAAACTGTCGATACTTTATAAAA-TGTATCGATCC
8495218 ATAACAATATAACAAGTAAA
325 ATAACAATATAACAAGTAAA
8495238 AAAAACGACAAAACAGGTAAA-ACGCTACCGGATATGTTGATAGTATCGATACTTTATTATAAGT
1 AAAAACGACAAAACAGGTAAAGA-GCTACCGGATATGTTGATAGTATCGATACTTTATTATAAGT
*
8495302 ATCGACACTTTTAGAATTTAAAAGAAAATAAGTTATAGCACTAATAAAGTGTCAATACTTTATAA
65 ATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACTAATAAAGTGTCAATACTTTATAA
* * * *
8495367 AAATGTATCAATCCATAATAATATAACAGGTAAAAAAAGGATAAAACTGGTCTATAAATGACAAA
130 AAATGTATCAATCCATAACAATATAACAGGTAAAAAAAGGACAAAACCGGTCTAGAAATGACAAA
*
8495432 ACAAGTAAAGAGCTACCATATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTG
195 ACAAGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTG
*
8495497 AAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAATGTATCGATCC
260 AAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAACTGTCGATACTTTATAAAATGTATCGATCC
*
8495562 ATAACAATATAACAGGTAAA
325 ATAACAATATAACAAGTAAA
8495582 AA
1 AA
8495584 TATGACAAAA
Statistics
Matches: 320, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
344 32 0.10
345 288 0.90
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.28
Consensus pattern (344 bp):
AAAAACGACAAAACAGGTAAAGAGCTACCGGATATGTTGATAGTATCGATACTTTATTATAAGTA
TCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACTAATAAAGTGTCAATACTTTATAAA
AATGTATCAATCCATAACAATATAACAGGTAAAAAAAGGACAAAACCGGTCTAGAAATGACAAAA
CAAGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGA
AATTTAAAAGAAAAGAAGTTATAGCGCCAATAAACTGTCGATACTTTATAAAATGTATCGATCCA
TAACAATATAACAAGTAAA
Found at i:8496083 original size:23 final size:23
Alignment explanation
Indices: 8496054--8496101 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
8496044 AAATAGGTCA
*
8496054 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
8496077 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
8496100 AT
1 AT
8496102 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:8496454 original size:23 final size:24
Alignment explanation
Indices: 8496405--8496455 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
8496395 TCGGTAAAAA
8496405 AATA-TTAAAAATAATATTATTTT
1 AATATTTAAAAATAATATTATTTT
8496428 --TATTTAAAACATAAT-TT-TTTT
1 AATATTTAAAA-ATAATATTATTTT
8496449 AATATTT
1 AATATTT
8496456 CCGATAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
21 6 0.25
22 8 0.33
23 10 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
AATATTTAAAAATAATATTATTTT
Found at i:8497081 original size:16 final size:17
Alignment explanation
Indices: 8497047--8497083 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
8497037 TCCTAAAACC
8497047 TTTGATAGGCATTCCTT
1 TTTGATAGGCATTCCTT
*
8497064 TTTG-TAGGC-TTTCTT
1 TTTGATAGGCATTCCTT
8497079 TTTGA
1 TTTGA
8497084 CTTCGGGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 9 0.50
16 5 0.28
17 4 0.22
ACGTcount: A:0.14, C:0.14, G:0.19, T:0.54
Consensus pattern (17 bp):
TTTGATAGGCATTCCTT
Found at i:8498980 original size:6 final size:6
Alignment explanation
Indices: 8498963--8498999 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
8498953 ATGTCCCAAC
*
8498963 CCCCACG CCCCAG CCCCAG CCCCAG TCCCAG CCCCAG
1 CCCCA-G CCCCAG CCCCAG CCCCAG CCCCAG CCCCAG
8499000 ATGGCCCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.16, C:0.65, G:0.16, T:0.03
Consensus pattern (6 bp):
CCCCAG
Found at i:8506855 original size:6 final size:6
Alignment explanation
Indices: 8506838--8506868 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8506828 TTAAGATTCA
*
8506838 AGTTTG AATTTG AGTTTG AGTTTG AGTTTG A
1 AGTTTG AGTTTG AGTTTG AGTTTG AGTTTG A
8506869 ATCGAACTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (6 bp):
AGTTTG
Found at i:8508207 original size:7 final size:7
Alignment explanation
Indices: 8508195--8508235 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
8508185 ATCATCATGA
8508195 TGGAGAT
1 TGGAGAT
8508202 TGGAGAT
1 TGGAGAT
8508209 TGGAGAT
1 TGGAGAT
8508216 TGGAGAT
1 TGGAGAT
*
8508223 TGGAGAA
1 TGGAGAT
8508230 TGGAGA
1 TGGAGA
8508236 GTGCTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (7 bp):
TGGAGAT
Found at i:8510502 original size:57 final size:56
Alignment explanation
Indices: 8510437--8510682 Score: 163
Period size: 57 Copynumber: 4.4 Consensus size: 56
8510427 ATAATAACGT
8510437 AAAT-ATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAGTTAAATTA
1 AAATAATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATA-TTAAATTA
* * * *
8510493 AAATAATATACATATATA-ATAATTTGTAAAACAGTATATACATA-T-ATATTAAAATATA
1 AAATAATATATATATATATA-AATTAGTAAAA-AGAAGATA-ATAGTAATATT-AAAT-TA
* * * * * * * *
8510551 ACATTAAGCA-A-AAATA-ATCAA-TA--AAAAAAAAGGT-ATACGTATATAATAATAATA
1 A-AATAA-TATATATATATATAAATTAGTAAAAAGAAGATAATA-GTA-ATATTAA-ATTA
**
8510605 ACGTAAATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAGTTAAATTA
1 AAAT-AATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATA-TTAAATTA
*
8510663 AAATAATATATACATATATA
1 AAATAATATATATATATATA
8510683 GCAAATTGTA
Statistics
Matches: 140, Mismatches: 27, Indels: 45
0.66 0.13 0.21
Matches are distributed among these distances:
51 3 0.02
53 6 0.04
54 12 0.09
55 9 0.06
56 12 0.09
57 49 0.35
58 22 0.16
59 23 0.16
60 4 0.03
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (56 bp):
AAATAATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATATTAAATTA
Found at i:8510646 original size:170 final size:174
Alignment explanation
Indices: 8510354--8510697 Score: 565
Period size: 172 Copynumber: 2.0 Consensus size: 174
8510344 TATATATATA
*
8510354 TATATATACATATATTAAAATATAACATTAAGCAAAATAATCAAAGAAGGAAAAAAAGTATACGT
1 TATATACACATATATTAAAATATAACATTAAGCAAAATAATCAAAGAA-GAAAAAAAGTATACGT
8510419 ATATAATAATAATAACGTAAATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATA
65 ATATAATAATAATAACGTAAATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATA
* *
8510484 GTTAAATTAAAAT-A-ATATACATATATAATAATTTGTAAAACAG
130 GTTAAATTAAAATAATATATACATATATAACAAATTGTAAAACAG
* *
8510527 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAATA-AA-AAAAAAGGTATACG
1 TATATACACATATATTAAAATATAACATTAAGC-AAAATAATCAA-AGAAGAAAAAAAGTATACG
8510590 TATATAATAATAATAACGT-AA-ATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAAT
64 TATATAATAATAATAACGTAAATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAAT
*
8510653 AGTTAAATTAAAATAATATATACATATATAGCAAATTGTAAAACA
129 AGTTAAATTAAAATAATATATACATATATAACAAATTGTAAAACA
8510698 CAACAAAAGT
Statistics
Matches: 161, Mismatches: 6, Indels: 9
0.91 0.03 0.05
Matches are distributed among these distances:
170 56 0.35
171 3 0.02
172 57 0.35
173 31 0.19
174 13 0.08
175 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.31
Consensus pattern (174 bp):
TATATACACATATATTAAAATATAACATTAAGCAAAATAATCAAAGAAGAAAAAAAGTATACGTA
TATAATAATAATAACGTAAATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAG
TTAAATTAAAATAATATATACATATATAACAAATTGTAAAACAG
Found at i:8512377 original size:105 final size:105
Alignment explanation
Indices: 8512195--8513060 Score: 1402
Period size: 105 Copynumber: 8.4 Consensus size: 105
8512185 GTGTTGTTTC
* * * ** * *
8512195 GAGTCCGATGTCCTTCGTTGTGGAGTTGAAATTGAATCTG-AA-T--GAAAT-TTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
* *
8512255 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* * *
8512295 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTT-GTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTCGTTGACAA
* *
8512359 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
8512400 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
8512465 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
8512505 GAGTCC-A-A-------TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
8512561 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
*
8512601 GAGTCCAATATCCTTCGTTGTGAATTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
8512666 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
8512706 GAGTCTAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
8512771 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
8512811 GAGTCTAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
8512876 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
8512916 GAGTCTAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
*
8512981 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
8513021 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
8513061 GGTAAAACCT
Statistics
Matches: 727, Mismatches: 23, Indels: 27
0.94 0.03 0.03
Matches are distributed among these distances:
96 94 0.13
97 1 0.00
98 1 0.00
100 35 0.05
101 1 0.00
102 1 0.00
103 1 0.00
104 8 0.01
105 583 0.80
106 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
Found at i:8523329 original size:10 final size:10
Alignment explanation
Indices: 8523304--8523337 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
8523294 AACGTTAGTA
*
8523304 AAATAGAAAT
1 AAATAAAAAT
*
8523314 AGATAAAAAT
1 AAATAAAAAT
8523324 AAATAAAAAT
1 AAATAAAAAT
8523334 AAAT
1 AAAT
8523338 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:8524491 original size:8 final size:8
Alignment explanation
Indices: 8524480--8524509 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8524470 CTATTATAAG
8524480 TATATACA
1 TATATACA
*
8524488 TATATATA
1 TATATACA
8524496 TATATACA
1 TATATACA
8524504 TATATA
1 TATATA
8524510 TTAAAATATA
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:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (8 bp):
TATATACA
Found at i:8524781 original size:171 final size:171
Alignment explanation
Indices: 8524496--8524837 Score: 607
Period size: 171 Copynumber: 2.0 Consensus size: 171
8524486 CATATATATA
8524496 TATATACATATATATTAAAATATAACATTAAGCAAAATAATCAAGAAGGAAAAAAAGTATACGTA
1 TATATACATATATATTAAAATATAACATTAAGCAAAATAATCAAGAA-GAAAAAAAGTATACGTA
8524561 TATAATAATAATAACGTAAATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAGTT
65 TATAATAATAATAACGTAAATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAGTT
* *
8524626 AAATT-AAATAATATATACATATATAATAATTTGTAAAACAG
130 AAATTAAAATAATATATACATATATAACAAATTGTAAAACAG
*
8524667 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAATAA-AAAAAAAGGTATACGT
1 TATATACATATATATTAAAATATAACATTAAGC-AAAATAATCAAGAAGAAAAAAA-GTATACGT
8524731 ATATAATAATAATAACGTAAATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAGT
64 ATATAATAATAATAACGTAAATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAGT
*
8524796 TAAATTAAAATAATATATACATATATAGCAAATTGTAAAACA
129 TAAATTAAAATAATATATACATATATAACAAATTGTAAAACA
8524838 CAACAACATA
Statistics
Matches: 164, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
170 7 0.04
171 112 0.68
172 45 0.27
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.31
Consensus pattern (171 bp):
TATATACATATATATTAAAATATAACATTAAGCAAAATAATCAAGAAGAAAAAAAGTATACGTAT
ATAATAATAATAACGTAAATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATAGTTA
AATTAAAATAATATATACATATATAACAAATTGTAAAACAG
Found at i:8533355 original size:55 final size:55
Alignment explanation
Indices: 8533256--8533371 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
8533246 AGGTTTATTA
* * * *
8533256 TTTTTAATCCATGTCTAATAGTAGAAATATAATCTTATAGAAATTTC-AATTTGGT
1 TTTTTAATCAAAGTCTAATAGTAGAAATATAATCTCATAGAAA-TTCAAACTTGGT
* * * * *
8533311 TTTTTAATCAAAGTTTAATAGTAGAAGTATACTCTCGTATAAATTCAAACTTGGT
1 TTTTTAATCAAAGTCTAATAGTAGAAATATAATCTCATAGAAATTCAAACTTGGT
8533366 TTTTTA
1 TTTTTA
8533372 CTCGAATTGG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 3 0.06
55 48 0.94
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.44
Consensus pattern (55 bp):
TTTTTAATCAAAGTCTAATAGTAGAAATATAATCTCATAGAAATTCAAACTTGGT
Found at i:8536981 original size:32 final size:33
Alignment explanation
Indices: 8536945--8537014 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
8536935 ATATACTTTT
8536945 AGGCCCCGAGAT-ATTCCCTTGGGTAGGCTCTC
1 AGGCCCCGAGATGATTCCCTTGGGTAGGCTCTC
* * *
8536977 AGG-CCCGAGGTGCTTCCCTTGGGTAGGCTCTG
1 AGGCCCCGAGATGATTCCCTTGGGTAGGCTCTC
8537009 AGGCCC
1 AGGCCC
8537015 AATGTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 7 0.21
32 24 0.73
33 2 0.06
ACGTcount: A:0.13, C:0.31, G:0.33, T:0.23
Consensus pattern (33 bp):
AGGCCCCGAGATGATTCCCTTGGGTAGGCTCTC
Found at i:8537805 original size:55 final size:55
Alignment explanation
Indices: 8537709--8537905 Score: 290
Period size: 55 Copynumber: 3.6 Consensus size: 55
8537699 ATTGTATGAG
* * * *
8537709 TGTGTATCGGTACACTGAGGAGTGTATCGATAC-CCTTAAAACATCGAATGTTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCAATACACC-CAAAACATCGAGTGCTATT
8537764 TGTGTATCGGTACACTGAGGAGTGTATCAATACACCCAAAACATCGAGTGCTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCAATACACCCAAAACATCGAGTGCTATT
* * * *
8537819 TGTGTATTGGTACACTGAGGAGTGTATCGATACA-CCAAAACATTGAGTGCTAAT
1 TGTGTATCGGTACACTGAGGAGTGTATCAATACACCCAAAACATCGAGTGCTATT
*
8537873 TGTGTATCGGTACATTGAGGAGTGTATCAATAC
1 TGTGTATCGGTACACTGAGGAGTGTATCAATAC
8537906 CCCTAAGTAT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
54 48 0.37
55 80 0.62
56 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTGTATCAATACACCCAAAACATCGAGTGCTATT
Found at i:8538188 original size:12 final size:13
Alignment explanation
Indices: 8538165--8538201 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
8538155 GATCGAAAAC
8538165 TATATG-TTTATT
1 TATATGTTTTATT
8538177 T-TATGTTTTATT
1 TATATGTTTTATT
*
8538189 TAAATGTTTTATT
1 TATATGTTTTATT
8538202 CAGTTTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 4 0.18
12 8 0.36
13 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TATATGTTTTATT
Found at i:8544563 original size:55 final size:56
Alignment explanation
Indices: 8544479--8544676 Score: 287
Period size: 55 Copynumber: 3.6 Consensus size: 56
8544469 ATTGTATGAG
* *
8544479 TGTGTATTGGTACACTGAGGAGTGTATCGATAC-CCTCAAAACATCGAATGTTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACACCTCAAAACATCGAATGCTATT
*
8544534 TGTGTATCGATACACTGAGGAGTGTATCGATACACC-CAAAACATC-AAGTGCTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACACCTCAAAACATCGAA-TGCTATT
* *
8544589 TGTGTATCGGTACACTGAGGAGTGTATCGATACACCT-AAAATATCGAGTGCTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACACCTCAAAACATCGAATGCTATT
* * *
8544644 TTTGTATCGGTACACTAAGGAGTGTATCAATAC
1 TGTGTATCGGTACACTGAGGAGTGTATCGATAC
8544677 CCCCAAGTAT
Statistics
Matches: 130, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
54 2 0.02
55 125 0.96
56 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (56 bp):
TGTGTATCGGTACACTGAGGAGTGTATCGATACACCTCAAAACATCGAATGCTATT
Found at i:8545272 original size:22 final size:23
Alignment explanation
Indices: 8545223--8545274 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
8545213 TCGGGACAAA
*
8545223 TATGTGGCACTTCGATACAACCC
1 TATGTGGCACTTCAATACAACCC
*
8545246 TATGTGGCACTTCAATGCAA-CC
1 TATGTGGCACTTCAATACAACCC
8545268 TATGTGG
1 TATGTGG
8545275 TCCTTCAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (23 bp):
TATGTGGCACTTCAATACAACCC
Found at i:8555545 original size:25 final size:26
Alignment explanation
Indices: 8555496--8555546 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
8555486 CTTGTTGGTA
8555496 AAATAAAAATATATTTTATATAATAT
1 AAATAAAAATATATTTTATATAATAT
*
8555522 AAATAAATAT-TATTTTA-ATAA-AT
1 AAATAAAAATATATTTTATATAATAT
8555545 AA
1 AA
8555547 TTTAAAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 7 0.29
26 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATAAAAATATATTTTATATAATAT
Found at i:8555552 original size:24 final size:24
Alignment explanation
Indices: 8555502--8555546 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
8555492 GGTAAAATAA
8555502 AAATATATTTTATATAATATAAAT
1 AAATATATTTTATATAATATAAAT
8555526 AAATATTATTTTA-ATAA-ATAA
1 AAATA-TATTTTATATAATATAA
8555547 TTTAAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATATATTTTATATAATATAAAT
Found at i:8558275 original size:14 final size:14
Alignment explanation
Indices: 8558250--8558283 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
8558240 TTTTTTTCTC
8558250 TTCTTTTGATTTGT
1 TTCTTTTGATTTGT
8558264 ATTCTTTT-ATTTGT
1 -TTCTTTTGATTTGT
8558278 TTCTTT
1 TTCTTT
8558284 GGCTTCCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 6 0.32
15 7 0.37
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (14 bp):
TTCTTTTGATTTGT
Found at i:8560291 original size:38 final size:37
Alignment explanation
Indices: 8560218--8560428 Score: 200
Period size: 38 Copynumber: 5.6 Consensus size: 37
8560208 TGTTTTTGAC
* * *
8560218 AAAATATA-ATA-TATATAATTTTCAGAAAATGATTTTCG
1 AAAATATATATATTATATAGTTTT-TGAAAA-CATTTT-G
* *
8560256 AAAATTTATATATTATATAGTTTTTGAAAATATTTTG
1 AAAATATATATATTATATAGTTTTTGAAAACATTTTG
*
8560293 AAAATATATATAATATATAG-TTTTGAAAACATTTTG
1 AAAATATATATATTATATAGTTTTTGAAAACATTTTG
*
8560329 AAAACGTTTATATATTATATAGTTTTT-AAAACATTTTG
1 AAAA--TATATATATTATATAGTTTTTGAAAACATTTTG
* * *
8560367 AAAACATATATAGTATATAG-TTTTAAAAACATTTTTTG
1 AAAATATATATATTATATAGTTTTTGAAAACA--TTTTG
* *
8560405 TGAAAT-TATATAATATATAGTTTT
1 -AAAATATATATATTATATAGTTTT
8560429 AAAAACTTTT
Statistics
Matches: 148, Mismatches: 15, Indels: 19
0.81 0.08 0.10
Matches are distributed among these distances:
35 4 0.03
36 38 0.26
37 19 0.13
38 59 0.40
39 18 0.12
40 10 0.07
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (37 bp):
AAAATATATATATTATATAGTTTTTGAAAACATTTTG
Done.