Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 227 of 320
Found at i:75412804 original size:21 final size:21
Alignment explanation
Indices: 75412778--75412818 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
75412768 AATTATAAAA
* *
75412778 AAATTACCTTTAAAAATATAT
1 AAATTACATATAAAAATATAT
75412799 AAATTACATATAAAAATATA
1 AAATTACATATAAAAATATA
75412819 ATTGCTCCAC
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:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATTACATATAAAAATATAT
Found at i:75414197 original size:32 final size:29
Alignment explanation
Indices: 75414161--75414222 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 29
75414151 ATTAGTGAAA
*
75414161 TGTAAGAATCAAACCAAAATTAAAGTTAGATG
1 TGTAAAAAT-AAACC-AAATTAAAGTT-GATG
*
75414193 TGTAAAAATATACCAAATTAAAGTTGATG
1 TGTAAAAATAAACCAAATTAAAGTTGATG
75414222 T
1 T
75414223 ATAACATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.18
30 11 0.39
31 4 0.14
32 8 0.29
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (29 bp):
TGTAAAAATAAACCAAATTAAAGTTGATG
Found at i:75419301 original size:28 final size:27
Alignment explanation
Indices: 75419264--75419346 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 27
75419254 CACTTTGTGC
75419264 TATTCTGGTGTGTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTGGA-GGATTATAT
75419292 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTT-GGAGGATTATAT
* *
75419320 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTG-TTTGGAGGATTATA
75419347 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 45 0.88
29 6 0.12
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (27 bp):
TATTCTGGTGTGTTTGGAGGATTATAT
Found at i:75419316 original size:23 final size:23
Alignment explanation
Indices: 75419290--75419357 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 23
75419280 GATGGATTAT
75419290 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
75419313 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
*
75419341 ATTATACTGGTGTGTTT
1 ATTATTCTGGTGTGTTT
75419358 TGGTTGGACA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 12 0.32
24 1 0.03
25 3 0.08
26 3 0.08
27 2 0.05
28 17 0.45
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:75435045 original size:69 final size:69
Alignment explanation
Indices: 75434936--75435076 Score: 228
Period size: 69 Copynumber: 2.0 Consensus size: 69
75434926 GGAAGATTTA
* * *
75434936 TTATTATCGAATATTGAATATAATGGTAACATATATTATATTTTTTAAAAGAAAATTTAAGTTTG
1 TTATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCG
75435001 AAAT
66 AAAT
* * *
75435005 TTATTATCGAATTTTAAATATAATGGTAAGATATATTATATTTTCTAAAAGAGAATTTAAGTTCG
1 TTATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCG
75435070 AAAT
66 AAAT
75435074 TTA
1 TTA
75435077 AAAACAATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (69 bp):
TTATTATCGAATATTAAATATAATGGTAACATATATTATATTTTCTAAAAGAAAATTTAAGTTCG
AAAT
Found at i:75436181 original size:22 final size:23
Alignment explanation
Indices: 75436156--75436198 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
75436146 CCAAATTCTC
75436156 TCAAA-TT-TCTCTCAATTTTTTG
1 TCAAAGTTGTCTCT-AATTTTTTG
75436178 TCAAAGTTGTCTCTAATTTTT
1 TCAAAGTTGTCTCTAATTTTT
75436199 GCAAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.53
Consensus pattern (23 bp):
TCAAAGTTGTCTCTAATTTTTTG
Found at i:75438189 original size:18 final size:18
Alignment explanation
Indices: 75438162--75438203 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
75438152 AATTCCCCAT
*
75438162 CGCCTTATGGGATTCAAA
1 CGCCTCATGGGATTCAAA
75438180 CGCCTCATGGGATTCAAA
1 CGCCTCATGGGATTCAAA
75438198 CGCCTC
1 CGCCTC
75438204 CACCATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (18 bp):
CGCCTCATGGGATTCAAA
Found at i:75441347 original size:126 final size:126
Alignment explanation
Indices: 75441120--75441424 Score: 493
Period size: 126 Copynumber: 2.4 Consensus size: 126
75441110 CTAAAGCTTT
* *
75441120 TCAGATACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCCGTAATTTTGCTGACAGTG
1 TCAGATACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTAACAGTG
* *
75441185 CATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTA
66 CATCCTTCTTGAAGCCTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATTTTA
* * *
75441246 TCAGACACTACTTTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTAACAGTG
1 TCAGATACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTAACAGTG
* *
75441311 CATCCTTCTTGAAGCCTTTTTTATACTATTTATTCAGAAACATCTTCTCAAAATTATTTTA
66 CATCCTTCTTGAAGCCTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATTTTA
* * * *
75441372 TCAGATACTACTGTAGCAAAAGAGCATCCACGTAGGAGGTTTTTTCCGTAATT
1 TCAGATACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
75441425 AATAGTTAAT
Statistics
Matches: 164, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 164 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (126 bp):
TCAGATACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTAACAGTG
CATCCTTCTTGAAGCCTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTATTTTA
Found at i:75441870 original size:156 final size:155
Alignment explanation
Indices: 75441445--75442994 Score: 2155
Period size: 156 Copynumber: 9.8 Consensus size: 155
75441435 TTAATTAATA
*
75441445 AACCTTAAAAAAACCCTAAA-CCTAATTTAATTGATTTTTTTAAATTTCATAGTTAATTTAATTA
1 AACCTT-AAAAAACCCTAAACCCTAATTTATTTG-TTTTTTT-AATTTCATAGTTAATTTAATTA
* *
75441509 ATTAACCCTCAACTCTAATTAAATTAAATTTTCCCTTAAAAATACTAAAACCCTAAACCACTAAA
63 ATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAA
* *
75441574 ACCATAATCCTAAAACAATCAAAAACCTT
128 ACCCTAATCCTAAAACAAT-AAAAACCCT
* * *
75441603 AACCTT-AAAAACTCTAAACCCTAATTTAATTAATTTTTTATTTATTTTCATAGTTAATTTAATT
1 AACCTTAAAAAACCCTAAACCCTAATTT-ATT--TGTTTT-TTTAATTTCATAGTTAATTTAATT
* * *
75441667 AATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAATACTAAAACTCTAAACTACTAA
62 AATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAA
* *
75441732 AACCCTGATCCTAAAATAATAAAAAACCCT
127 AACCCTAATCCTAAAACAAT-AAAAACCCT
*
75441762 AACCTTAAAAAACCCTAAACCCTAATTTATTTGTTTTTTTATTTTCATAGTTAATTTAATTAATT
1 AACCTTAAAAAACCCTAAACCCTAATTTATTTGTTTTTTTAATTTCATAGTTAATTTAATTAATT
*
75441827 AACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAATACTAAAACCCTAAACCACTAAAACC
66 AACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAACC
* *
75441892 CTGATCCTAAAACAATAAAAAAATCCT
131 CTAATCCTAAAACAAT--AAAAACCCT
* * *
75441919 AACCTT-AAAAACCTTAAACCCTAATCTAATTAAT-TTTTTTTATTTTCATAGTTAATTTAATTA
1 AACCTTAAAAAACCCTAAACCCTAAT-TTATT--TGTTTTTTTAATTTCATAGTTAATTTAATTA
*
75441982 ATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAA-CCTAAACCACAAAA
63 ATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAA
*
75442046 ACCCTTATCCTAAAACAATCAAAAACCCT
128 ACCCTAATCCTAAAACAAT-AAAAACCCT
* * **
75442075 AACCTTAAAAAACCATAAA-CCTAATTTAATTGATTTTTTTACGTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTATTTG-TTTTTTTAATTTCATAGTTAATTTAATTAAT
* * * *
75442139 TAACCCTCAACTCTACTTAAATTAAATTTTCCCTTAAAAACACTAAAATCCTAAACTACTAAAAC
65 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAAC
** *
75442204 ATTGATCCTAAAACAATAAAAAACCCT
130 CCTAATCCTAAAACAAT-AAAAACCCT
* * * *
75442231 AACCTTAAAAAACCATAAACCCTAATTTAATTAATTTTTTTTTATTTTCACAGTTAATTTAATTA
1 AACCTTAAAAAACCCTAAACCCTAATTT-ATT--TGTTTTTTTAATTTCATAGTTAATTTAATTA
* *
75442296 ATTAACCATCAACTTTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAA
63 ATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAACACTAAAACCCTAAACCACTAA
* * *
75442361 AACCTTGATCCTAAAATAATAAAAACCCT
127 AACCCTAATCCTAAAACAATAAAAACCCT
* *
75442390 AACCCTAAAAAACCCTAAACCCTAATTTAGTTGATTTTTTTTAATTTCATAGTTAATTTAATTAA
1 AACCTTAAAAAACCCTAAACCCTAATTTATTTG--TTTTTTTAATTTCATAGTTAATTTAATTAA
75442455 TTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAA
64 TTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAACACTAAAACCCTAAACCACTAAA
* *
75442520 ATCCTAATCCTAAAACAATCAAAACCCT
128 ACCCTAATCCTAAAACAATAAAAACCCT
* * *
75442548 AACCCTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTAATTTCATAGTTAATTTAATTAATT
1 AACCTTAAAAAACCCTAAACCCTAATTTATTTGTTTTTTTAATTTCATAGTTAATTTAATTAATT
* *
75442613 AACCCTCAACTCCAATTAAATTAAATTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAAC
66 AACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAACACTAAAACCCTAAACCACTAAAAC
*
75442678 CTTAATCCTAAAACAATAAAAACCCT
130 CCTAATCCTAAAACAATAAAAACCCT
* *
75442704 AACCCTAAAAAACTCTAAACCCTAATTTAGTTT-TTTTTTTAATTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTA-TTTGTTTTTTTAATTTCATAGTTAATTTAATTAAT
*
75442768 TAACTCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
65 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAACACTAAAACCCTAAACCACTAAAA
* *
75442833 CTCTAATCCTAAAACAATCAAAACCCT
129 CCCTAATCCTAAAACAATAAAAACCCT
* * * *
75442860 AACCTTAAAAAACCCTAAATCCTAATTTAATTGATTTTTTAATTTCTTAGTTAATTTACTTAATT
1 AACCTTAAAAAACCCTAAACCCTAATTTATTTGTTTTTTTAATTTCATAGTTAA--T--TTAA--
*
75442925 TAAGTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACATTAAAACCCT-AACC
60 T---TAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACC
75442989 -CTAAAA
122 ACTAAAA
75442995 TATCGAAACA
Statistics
Matches: 1272, Mismatches: 88, Indels: 60
0.90 0.06 0.04
Matches are distributed among these distances:
153 1 0.00
155 80 0.06
156 518 0.41
157 84 0.07
158 237 0.19
159 215 0.17
160 72 0.06
162 7 0.01
163 4 0.00
164 16 0.01
165 38 0.03
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (155 bp):
AACCTTAAAAAACCCTAAACCCTAATTTATTTGTTTTTTTAATTTCATAGTTAATTTAATTAATT
AACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAACC
CTAATCCTAAAACAATAAAAACCCT
Found at i:75442293 original size:314 final size:312
Alignment explanation
Indices: 75441445--75442994 Score: 2262
Period size: 314 Copynumber: 4.9 Consensus size: 312
75441435 TTAATTAATA
75441445 AACCTTAAAAAAACCCTAAA-CCTAATTTAATTGATTTTTTTAAATTTCATAGTTAATTTAATTA
1 AACCTT-AAAAAACCCTAAACCCTAATTTAATTGATTTTTTT-AATTTCATAGTTAATTTAATTA
* *
75441509 ATTAACCCTCAACTCTAATTAAATTAAATTTTCCCTTAAAAATACTAAAACCCTAAACCACTAAA
64 ATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAA
* *
75441574 ACCATAATCCTAAAACAATCAAAAACCTTAACCTT-AAAAACTCTAAACCCTAATTTAATTAATT
129 ACC-TAATCCTAAAACAAT-AAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATTAATT
75441638 TTTTATTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCC
192 TTTT-TTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCC
* * * * *
75441703 TTAAAAATACTAAAACTCTAAACTACTAAAACCCTGATCCTAAAATAATAAAAAACCCT
256 TTAAAAACACTAAAAC-CTAAACCACTAAAACCTTAATCCTAAAACAAT-AAAAACCCT
* *
75441762 AACCTTAAAAAACCCTAAACCCTAATTTATTTG-TTTTTTTATTTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
*
75441826 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAATACTAAAACCCTAAACCACTAAAAC
66 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAA-
* * * *
75441891 CCTGATCCTAAAACAATAAAAAAATCCTAACCTT-AAAAACCTTAAACCCTAATCTAATTAA-TT
130 CCTAATCCTAAAACAAT--AAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATTAATTT
75441954 TTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT
193 TTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT
*
75442019 AAAAACACTAAAACCTAAACCACAAAAACCCTT-ATCCTAAAACAATCAAAAACCCT
258 AAAAACACTAAAACCTAAACCACTAAAA-CCTTAATCCTAAAACAAT-AAAAACCCT
* **
75442075 AACCTTAAAAAACCATAAA-CCTAATTTAATTGATTTTTTTACGTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
* * * *
75442139 TAACCCTCAACTCTACTTAAATTAAATTTTCCCTTAAAAACACTAAAATCCTAAACTACTAAAAC
66 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAAC
* * *
75442204 ATTGATCCTAAAACAATAAAAAACCCTAACCTTAAAAAACCATAAACCCTAATTTAATTAATTTT
131 -CTAATCCTAAAACAAT-AAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATTAATTTT
* * *
75442269 TTTTTATTTTCACAGTTAATTTAATTAATTAACCATCAACTTTAATTAAATTAATTTTTCCCTTA
194 TTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-
* *
75442334 AAAAACACTAAAACCCTAAACCACTAAAACCTTGATCCTAAAATAATAAAAACCCT
258 AAAAACACTAAAA-CCTAAACCACTAAAACCTTAATCCTAAAACAATAAAAACCCT
* *
75442390 AACCCTAAAAAACCCTAAACCCTAATTTAGTTGATTTTTTTTAATTTCATAGTTAATTTAATTAA
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGA-TTTTTTTAATTTCATAGTTAATTTAATTAA
75442455 TTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAA
65 TTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAACACTAAAACCCTAAACCACTAAA
* * *
75442520 ATCCTAATCCTAAAACAATCAAAACCCTAACCCTAAAAAACCCTAAACCCTAATTTAATTGA---
129 A-CCTAATCCTAAAACAATAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATTAATTT
* * *
75442582 TTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCCAATTAAATTAAATTTTCCCTT
193 TTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTT
75442647 AAAAAACACTAAAACCCTAAACCACTAAAACCTTAATCCTAAAACAATAAAAACCCT
258 -AAAAACACTAAAA-CCTAAACCACTAAAACCTTAATCCTAAAACAATAAAAACCCT
* * * *
75442704 AACCCTAAAAAACTCTAAACCCTAATTTAGTT-TTTTTTTTAATTTCATAGTTAATTTAATTAAT
1 AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
*
75442768 TAACTCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA
66 TAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAACACTAAAACCCTAAACCACTAAAA
* * *
75442833 CTCTAATCCTAAAACAATCAAAACCCTAACCTTAAAAAACCCTAAATCCTAATTTAATTGATTTT
130 C-CTAATCCTAAAACAATAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATTAATTTT
* * * *
75442898 TTAATTTCTTAGTTAATTTACTTAATTTAAGTAATTAACCCTCAACTCTAATTAAATTAATTTTT
194 TT--TTTATT--TTCA--TAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTT
*
75442963 CCCTTAAAAACATTAAAACCCT-AACC-CTAAAA
253 CCCTTAAAAACACTAAAA-CCTAAACCACTAAAA
75442995 TATCGAAACA
Statistics
Matches: 1138, Mismatches: 70, Indels: 49
0.91 0.06 0.04
Matches are distributed among these distances:
311 1 0.00
312 180 0.16
313 179 0.16
314 287 0.25
315 151 0.13
316 98 0.09
317 123 0.11
318 47 0.04
319 8 0.01
320 16 0.01
321 48 0.04
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (312 bp):
AACCTTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTAATTTCATAGTTAATTTAATTAAT
TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAAC
CTAATCCTAAAACAATAAAAACCCTAACCTTAAAAAACCCTAAACCCTAATTTAATTAATTTTTT
TTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAA
AACACTAAAACCTAAACCACTAAAACCTTAATCCTAAAACAATAAAAACCCT
Found at i:75442402 original size:16 final size:17
Alignment explanation
Indices: 75442381--75442414 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
75442371 CTAAAATAAT
75442381 AAAAACCCT-AACCCTA
1 AAAAACCCTAAACCCTA
75442397 AAAAACCCTAAACCCTA
1 AAAAACCCTAAACCCTA
75442414 A
1 A
75442415 TTTAGTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAACCCTAAACCCTA
Found at i:75442561 original size:16 final size:17
Alignment explanation
Indices: 75442540--75442572 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
75442530 TAAAACAATC
75442540 AAAACCCT-AACCCTAA
1 AAAACCCTAAACCCTAA
75442556 AAAACCCTAAACCCTAA
1 AAAACCCTAAACCCTAA
75442573 TTTAATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAACCCTAAACCCTAA
Found at i:75442651 original size:473 final size:467
Alignment explanation
Indices: 75441452--75442995 Score: 2297
Period size: 473 Copynumber: 3.3 Consensus size: 467
75441442 ATAAACCTTA
*
75441452 AAAAAACCCTAAA-CCTAATTTAATTGATTTTTTTAAATTTCATAGTTAATTTAATTAATTAACC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAATTAACC
* *
75441516 CTCAACTCTAATTAAATTAAATTTTCCCTTAAAAATACTAAAACCCTAAACCACTAAAA-CCATA
66 CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAATCC-TA
* * * *
75441580 ATCCTAAAACAATCAAAAACCTTAA-CCTTAAAAACTCTAAACCCTAATTTAATTAATTTTTTAT
130 ATCCTAAAACAATCAAAAACCCTAACCCTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTA-
*
75441644 TTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAA
194 --A-TTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAAATTTTCCCTTAAAA
* * *
75441709 ATACTAAAACTCTAAACTACTAAAACCCTGATCCTAAAATAATAAAAAACCCTAACCTTAAAAAA
256 ACACTAAAAC-CTAAACTACTAAAACCTTGATCCTAAAACAATAAAAAACCCTAACCTTAAAAAA
*
75441774 CCCTAAACCCTAATTTATTTGTTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTC
320 -CCTAAACCCTAATTTATTTTTTTTTTTATTTTCATAGTTAATTTAATTAATTAA-CCTCAACTC
* *
75441839 TAATTAAATTAATTTTTCCCTT-AAAAATACTAAAACCCTAAACCACTAAAACCCTGATCCTAAA
383 TAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCTTGATCCTAAA
*
75441903 ACAATAAAAAAATCCTAA-CCT
448 ACAAT--AAAAACCCTAACCCT
* * * * *
75441924 TAAAAACCTTAAACCCTAATCTAATTAATTTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAATTAACC
* * *
75441989 CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAA-CCTAAACCACAAAAACCCTTA
66 CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAATCCTAA
* * *
75442053 TCCTAAAACAATCAAAAACCCTAACCTTAAAAAACCATAAA-CCTAATTTAATTGATTTTTTTAC
131 TCCTAAAACAATCAAAAACCCTAACCCTAAAAAACCCTAAACCCTAATTTAATTGA-TTTTTTAA
* *
75442117 GTTCATAGTTAATTTAATTAATTAACCCTCAACTCTACTTAAATTAAATTTTCCCTTAAAAACAC
195 TTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAAATTTTCCCTTAAAAACAC
*
75442182 TAAAATCCTAAACTACTAAAACATTGATCCTAAAACAATAAAAAACCCTAACCTTAAAAAACCAT
260 TAAAA-CCTAAACTACTAAAACCTTGATCCTAAAACAATAAAAAACCCTAACCTTAAAAAACC-T
* *
75442247 AAACCCTAATTTAATTAATTTTTTTTTATTTTCACAGTTAATTTAATTAATTAACCATCAACTTT
323 AAACCCTAATTT-ATT--TTTTTTTTTATTTTCATAGTTAATTTAATTAATTAACC-TCAACTCT
75442312 AATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCTTGATCCTAAAA
384 AATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCTTGATCCTAAAA
*
75442377 TAATAAAAACCCTAACCCT
449 CAATAAAAACCCTAACCCT
*
75442396 AAAAAACCCTAAACCCTAATTTAGTTGATTTTTTTTAATTTCATAGTTAATTTAATTAATTAACC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAATTAACC
75442461 CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAATCCTA
66 CTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAACACTAAAACCCTAAACCACTAAAATCCTA
75442526 ATCCTAAAACAATC-AAAACCCTAACCCTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTAA
130 ATCCTAAAACAATCAAAAACCCTAACCCTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTAA
*
75442590 TTTCATAGTTAATTTAATTAATTAACCCTCAACTCCAATTAAATTAAATTTTCCCTTAAAAAACA
195 TTTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAAATTTTCCCTT-AAAAACA
* * *
75442655 CTAAAACCCTAAACCACTAAAACCTTAATCCTAAAACAAT-AAAAACCCTAACCCTAAAAAACTC
259 CTAAAA-CCTAAACTACTAAAACCTTGATCCTAAAACAATAAAAAACCCTAACCTTAAAAAAC-C
* *
75442719 TAAACCCTAATTTAGTTTTTTTTTTAATTTCATAGTTAATTTAATTAATTAACTCTCAACTCTAA
322 TAAACCCTAATTTATTTTTTTTTTTATTTTCATAGTTAATTTAATTAATTAAC-CTCAACTCTAA
*
75442784 TTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAA-CTCTAATCCTAAAAC
386 TTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCT-TGATCCTAAAAC
* *
75442848 AATCAAAACCCTAACCTT
450 AATAAAAACCCTAACCCT
* *
75442866 AAAAAACCCTAAATCCTAATTTAATTGA--TTTTTTAATTTCTTAGTTAATTTACTTAATTTAAG
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAA--T--TTAA--T---
*
75442929 TAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACATTAAAACCCT-AACC-CTA
57 TAATTAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTA
75442992 AAAT
122 AAAT
75442996 ATCGAAACAA
Statistics
Matches: 981, Mismatches: 63, Indels: 54
0.89 0.06 0.05
Matches are distributed among these distances:
468 21 0.02
469 132 0.13
470 150 0.15
471 13 0.01
472 223 0.23
473 286 0.29
474 97 0.10
475 4 0.00
476 16 0.02
477 39 0.04
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (467 bp):
AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAATTAACC
CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACTAAAATCCTAA
TCCTAAAACAATCAAAAACCCTAACCCTAAAAAACCCTAAACCCTAATTTAATTGATTTTTTAAT
TTCATAGTTAATTTAATTAATTAACCCTCAACTCTAATTAAATTAAATTTTCCCTTAAAAACACT
AAAACCTAAACTACTAAAACCTTGATCCTAAAACAATAAAAAACCCTAACCTTAAAAAACCTAAA
CCCTAATTTATTTTTTTTTTTATTTTCATAGTTAATTTAATTAATTAACCTCAACTCTAATTAAA
TTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCTTGATCCTAAAACAATAAA
AACCCTAACCCT
Found at i:75442688 original size:22 final size:23
Alignment explanation
Indices: 75442659--75442713 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
75442649 AAAACACTAA
* * *
75442659 AACCCTAAACCACT-AAAACCTT
1 AACCCTAAAACAATAAAAACCCT
*
75442681 AATCCTAAAACAATAAAAACCCT
1 AACCCTAAAACAATAAAAACCCT
75442704 AACCCTAAAA
1 AACCCTAAAA
75442714 AACTCTAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (23 bp):
AACCCTAAAACAATAAAAACCCT
Found at i:75442716 original size:16 final size:17
Alignment explanation
Indices: 75442695--75442728 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
75442685 CTAAAACAAT
75442695 AAAAACCCT-AACCCTA
1 AAAAACCCTAAACCCTA
*
75442711 AAAAACTCTAAACCCTA
1 AAAAACCCTAAACCCTA
75442728 A
1 A
75442729 TTTAGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAACCCTAAACCCTA
Found at i:75454276 original size:13 final size:12
Alignment explanation
Indices: 75454244--75454273 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
75454234 TCATACTTTA
75454244 TCAAAACATTTT
1 TCAAAACATTTT
*
75454256 TCACAACATTTT
1 TCAAAACATTTT
75454268 TCAAAA
1 TCAAAA
75454274 ACAATTCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (12 bp):
TCAAAACATTTT
Found at i:75454392 original size:25 final size:25
Alignment explanation
Indices: 75454363--75454411 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
75454353 ATTTTTGGAA
* * *
75454363 TTTTATTTTTCCAATTAAATTTTGT
1 TTTTAGTTTACCAATTAAACTTTGT
*
75454388 TTTTAGTTTACCACTTAAACTTTG
1 TTTTAGTTTACCAATTAAACTTTG
75454412 ATTAGTGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTTAGTTTACCAATTAAACTTTGT
Found at i:75457500 original size:18 final size:18
Alignment explanation
Indices: 75457465--75457498 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
75457455 TAATAATTAA
75457465 ATTTAAAATTTTATAAAT
1 ATTTAAAATTTTATAAAT
75457483 ATTTAAAA-TTTATAAA
1 ATTTAAAATTTTATAAA
75457499 ATCAATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAAAATTTTATAAAT
Found at i:75459170 original size:38 final size:38
Alignment explanation
Indices: 75459098--75459175 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 38
75459088 GTTAATAACA
* *
75459098 AATTGAGTATATGTTAAACATGACTACTGTTAGTGATG
1 AATTGAGTACATGTTAAACATGACTACTGCTAGTGATG
* ** * *
75459136 AATTGAGTACATGTTATACATGTTTATTGCTAGTGTTG
1 AATTGAGTACATGTTAAACATGACTACTGCTAGTGATG
75459174 AA
1 AA
75459176 CTATTCCATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (38 bp):
AATTGAGTACATGTTAAACATGACTACTGCTAGTGATG
Found at i:75459439 original size:45 final size:45
Alignment explanation
Indices: 75459390--75459511 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 45
75459380 AATTTATTTT
* *
75459390 TGATATTTTGTTGTGTATTCACAGCCCAGTGGAAGATTTTATCTA
1 TGATATTTTGTTGTGTATCCACAGCCCAGTGGAAGATTTCATCTA
* * * * *
75459435 TGATATTTTGCTGTGCACCCACAGCCTAGTGGTAGATTTCATCTA
1 TGATATTTTGTTGTGTATCCACAGCCCAGTGGAAGATTTCATCTA
75459480 TGGAT-TTTTGTTGTGTATCCACAGCCCAGTGG
1 T-GATATTTTGTTGTGTATCCACAGCCCAGTGG
75459512 CTAATTTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 62 0.95
46 3 0.05
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (45 bp):
TGATATTTTGTTGTGTATCCACAGCCCAGTGGAAGATTTCATCTA
Found at i:75463526 original size:30 final size:28
Alignment explanation
Indices: 75463460--75463527 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 28
75463450 CTTTTCGTAA
*
75463460 TTTAAAATTTAGTTTTTATATTTTTATT
1 TTTAAAATTTAGTTTTTATATTTTTAAT
75463488 TTTAAAAATTTAGTTTCTT-TATTTTTTAGAT
1 TTT-AAAATTTAGTTT-TTATA-TTTTTA-AT
75463519 TTTAAAATT
1 TTTAAAATT
75463528 CAGGTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 3 0.09
29 14 0.40
30 14 0.40
31 4 0.11
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTAAAATTTAGTTTTTATATTTTTAAT
Found at i:75463629 original size:18 final size:18
Alignment explanation
Indices: 75463606--75463640 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
75463596 GTTACATTGT
*
75463606 TATAATGATATCAAGTGC
1 TATAATGATACCAAGTGC
75463624 TATAATGATACCAAGTG
1 TATAATGATACCAAGTG
75463641 AGCATTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
TATAATGATACCAAGTGC
Found at i:75466038 original size:61 final size:62
Alignment explanation
Indices: 75465812--75466067 Score: 232
Period size: 62 Copynumber: 4.1 Consensus size: 62
75465802 CCATGTACCT
* * * * *
75465812 TGGCCGTGTGGATTTTA-AGC-ACAAACAGTGTGTCACACGGCCTGGGCACACGCTCGTGTCCC
1 TGGCCGTGTGG-TTTTATA-CAACAAACAGTGAGTTACACGGCCTAGGCACACACCCGTGTCCC
* * ** * * * *
75465874 TGGTCGTGTGGTTTTATACTATTAACAGTGAGTTACACGG-CTAGGGTACACGCCCATGTACC
1 TGGCCGTGTGGTTTTATACAACAAACAGTGAGTTACACGGCCTA-GGCACACACCCGTGTCCC
* **
75465936 TGGCTGTGTGGTTTTATACAATGAACAGTGAGTTACACGGCCTAGGCACACACCCGTGTCCC
1 TGGCCGTGTGGTTTTATACAACAAACAGTGAGTTACACGGCCTAGGCACACACCCGTGTCCC
** * ** * ** *
75465998 TGGCCGTGTGGTTTTACGC-CCCCACAGTGAGTTACACGGCCTGGGCACACATTCGTGTCCT
1 TGGCCGTGTGGTTTTATACAACAAACAGTGAGTTACACGGCCTAGGCACACACCCGTGTCCC
75466059 TGGCCGTGT
1 TGGCCGTGT
75466068 AAACTATGCA
Statistics
Matches: 161, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
61 51 0.32
62 107 0.66
63 3 0.02
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.27
Consensus pattern (62 bp):
TGGCCGTGTGGTTTTATACAACAAACAGTGAGTTACACGGCCTAGGCACACACCCGTGTCCC
Found at i:75466758 original size:14 final size:13
Alignment explanation
Indices: 75466735--75466772 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
75466725 AAGAATCGAA
75466735 AAAT-AAAAAAAG
1 AAATAAAAAAAAG
75466747 TAAATAAAAAAAAG
1 -AAATAAAAAAAAG
*
75466761 AAAGAAAAAAAA
1 AAATAAAAAAAA
75466773 TAGAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAATAAAAAAAAG
Found at i:75466772 original size:13 final size:13
Alignment explanation
Indices: 75466739--75466782 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
75466729 ATCGAAAAAT
*
75466739 AAAAAAAGTAAATA
1 AAAAAAAG-AAAGA
75466753 AAAAAAAGAAAGA
1 AAAAAAAGAAAGA
* *
75466766 AAAAAAATAGAGA
1 AAAAAAAGAAAGA
75466779 AAAA
1 AAAA
75466783 GATGAGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 19 0.70
14 8 0.30
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (13 bp):
AAAAAAAGAAAGA
Found at i:75473075 original size:62 final size:61
Alignment explanation
Indices: 75472935--75473104 Score: 187
Period size: 62 Copynumber: 2.7 Consensus size: 61
75472925 AACATCTTGC
* * * * * *
75472935 CACACGGCCTGGGCAAACGCCCATGTGCCTTGGTCGTATGGATTTTAAGTATAAACAGTGAGT
1 CACACGGCCTGGGCACACGCCCATGT-CCCTGGCCGTGTGG-TTTTAACTATAAACAGTAAGT
* * * *
75472998 CACATGGCCTGGGCACATGCCCATGTCCCTGGCCATGTGGTTTTATACTATGAACAGTAAGT
1 CACACGGCCTGGGCACACGCCCATGTCCCTGGCCGTGTGGTTTTA-ACTATAAACAGTAAGT
* ** *
75473060 TACACGGCCTGGGCACACGCTTATGTCCCTGACCGTGTGGTTTTA
1 CACACGGCCTGGGCACACGCCCATGTCCCTGGCCGTGTGGTTTTA
75473105 CAACCCAAAT
Statistics
Matches: 89, Mismatches: 17, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
61 5 0.06
62 61 0.69
63 23 0.26
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (61 bp):
CACACGGCCTGGGCACACGCCCATGTCCCTGGCCGTGTGGTTTTAACTATAAACAGTAAGT
Found at i:75475552 original size:16 final size:16
Alignment explanation
Indices: 75475506--75475554 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
75475496 TTATTTTATG
*
75475506 TATTTTCTTTTAAATC
1 TATTTTCTTTTAAATA
*
75475522 TATTTAT-GTTT--ATA
1 TATTT-TCTTTTAAATA
75475536 TATTTTCTTTTAAATA
1 TATTTTCTTTTAAATA
75475552 TAT
1 TAT
75475555 ATATATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
13 1 0.04
14 10 0.38
16 14 0.54
17 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (16 bp):
TATTTTCTTTTAAATA
Found at i:75482498 original size:20 final size:20
Alignment explanation
Indices: 75482456--75482500 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
75482446 TTTTTTACGT
*
75482456 TAAAAAATAATTAAATATCG
1 TAAAAAATAATAAAATATCG
*
75482476 TAAAAAATTATAAGAATAT-G
1 TAAAAAATAATAA-AATATCG
75482496 TAAAA
1 TAAAA
75482501 TTACTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
TAAAAAATAATAAAATATCG
Found at i:75484376 original size:16 final size:15
Alignment explanation
Indices: 75484350--75484384 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
75484340 TGATGTGAAT
75484350 AATATAAAATATTAA
1 AATATAAAATATTAA
*
75484365 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
75484381 AATA
1 AATA
75484385 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:75484571 original size:48 final size:49
Alignment explanation
Indices: 75484518--75484657 Score: 133
Period size: 48 Copynumber: 2.8 Consensus size: 49
75484508 GTACATATAT
* * * * *
75484518 AAAAATAAATACGTGATA-ATATTAAAAATATGTACATAATAT-A-GTGTA
1 AAAAATAAATACATAATATA-ATT-AAAATATATACATAAGATAACATGTA
*
75484566 AAAAATACATACATAATATAATTAAAATATATACATAAGATAACATGTA
1 AAAAATAAATACATAATATAATTAAAATATATACATAAGATAACATGTA
*
75484615 AAAAATATATATAAATAATATAGTATTAAAGATATATACATAA
1 AAAAATA-A-ATACATAATATA--ATTAAA-ATATATACATAA
75484658 AATAGTATAA
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
47 16 0.21
48 19 0.25
49 12 0.16
51 11 0.14
53 6 0.08
54 12 0.16
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (49 bp):
AAAAATAAATACATAATATAATTAAAATATATACATAAGATAACATGTA
Found at i:75484578 original size:25 final size:24
Alignment explanation
Indices: 75484541--75484685 Score: 98
Period size: 25 Copynumber: 5.9 Consensus size: 24
75484531 TGATAATATT
*
75484541 AAAAATATGTACATAATATAGTGTA
1 AAAAATATATACATAATATAGT-TA
* *
75484566 AAAAATACATACATAATATAATT-
1 AAAAATATATACATAATATAGTTA
* *
75484589 -AAAATATATACATAAGATAACATGTAA
1 AAAAATATATACAT-A-AT-ATA-GTTA
* *
75484616 AAAATATATATAAATAATATAGTATT
1 AAAA-ATATATACATAATATAGT-TA
* *
75484642 AAAGATATATACATAAAATAG-TA
1 AAAAATATATACATAATATAGTTA
* * *
75484665 TAATATATATACGTAATATAG
1 AAAAATATATACATAATATAG
75484686 AATTTAGAAT
Statistics
Matches: 93, Mismatches: 19, Indels: 18
0.72 0.15 0.14
Matches are distributed among these distances:
22 12 0.13
23 19 0.20
24 3 0.03
25 38 0.41
26 6 0.06
27 2 0.02
28 4 0.04
29 9 0.10
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (24 bp):
AAAAATATATACATAATATAGTTA
Found at i:75484649 original size:23 final size:23
Alignment explanation
Indices: 75484623--75484750 Score: 59
Period size: 23 Copynumber: 5.5 Consensus size: 23
75484613 TAAAAAATAT
75484623 ATATAAATAATATAGTATTAAAG
1 ATATAAATAATATAGTATTAAAG
* *
75484646 ATATATACATAAAATAGTA-TAATAT
1 ATATA-A-ATAATATAGTATTAA-AG
** * *
75484671 ATATACGTAATATAGAATT-TAG
1 ATATAAATAATATAGTATTAAAG
** *
75484693 AATATACCTAATATA-T-TAAAAG
1 -ATATAAATAATATAGTATTAAAG
* *
75484715 AATATATATAATATAATATT-AAG
1 -ATATAAATAATATAGTATTAAAG
*
75484738 AAATATAATAATA
1 ATATA-AATAATA
75484751 ACAAAAAAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
21 1 0.01
22 20 0.25
23 36 0.46
24 6 0.08
25 16 0.20
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAATAATATAGTATTAAAG
Found at i:75485270 original size:30 final size:30
Alignment explanation
Indices: 75485229--75485327 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
75485219 TAGGTACAAG
75485229 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
75485259 AGGTAGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
75485289 TGGTGGTGGAGCAAGTGTAGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
75485319 TGGTGGTGG
1 TGGTGGTGG
75485328 CAAAGGCTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:75486110 original size:87 final size:90
Alignment explanation
Indices: 75485942--75486548 Score: 514
Period size: 92 Copynumber: 6.8 Consensus size: 90
75485932 CTTTACTCGA
* ** * * * *
75485942 CATGTGATCCTGA-GCTTAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAC-TAAACATT
1 CATGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAA-TTT
*
75486004 -AAAAACAGAAATTGAAAATAGCTCAG
64 GAAAAACAGAAATTGAAAATACCTCAG
* * * * *
75486030 CACGTGAGCTAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTT-AAAACA-AAATTTGT
1 CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTTGA
** * *
75486092 AAAACAGATTTTGAAAATATCTCGG
66 AAAACAGAAATTGAAAATACCTCAG
* * * *
75486117 TATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTTA
1 CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACATAAATTT-
* ** *
75486181 AAAAAAACATCAATTGAAAATACCTCGG
64 -GAAAAACAGAAATTGAAAATACCTCAG
*
75486209 CGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAA-TT
1 CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA-AAACATAAATTT
* *
75486273 GAAAAAAAAAGAAATTGAAAATATCTCAG
64 G--AAAAACAGAAATTGAAAATACCTCAG
* *
75486302 C--GTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAA-ATAATATT
1 CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-GAAAACATAA-ATT
*
75486364 TGAAAAACAGAATTTGAAAATACCTCAG
63 TGAAAAACAGAAATTGAAAATACCTCAG
* * * * * * *
75486392 CGTGTGA-GTCAAGGCTCAACTCACCACTCTCAATATGAGCTGATTTTTTTTGAAACACAGAAA-
1 CATGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAA-ACATAAAT
* * *
75486455 TTGAAGAACAGAAATGGAAAACACCTCAG
62 TTGAAAAACAGAAATTGAAAATACCTCAG
* * * *
75486484 CA--T--CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA-TT
1 CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACATAAATTT
75486544 GAAAA
64 GAAAA
75486549 TACCTCAACG
Statistics
Matches: 432, Mismatches: 64, Indels: 47
0.80 0.12 0.09
Matches are distributed among these distances:
86 2 0.00
87 101 0.23
88 62 0.14
89 6 0.01
90 35 0.08
91 50 0.12
92 125 0.29
93 34 0.08
94 17 0.04
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (90 bp):
CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTTGA
AAAACAGAAATTGAAAATACCTCAG
Found at i:75486602 original size:73 final size:73
Alignment explanation
Indices: 75486461--75486821 Score: 433
Period size: 73 Copynumber: 4.9 Consensus size: 73
75486451 GAAATTGAAG
* * ** * *
75486461 AACAGAAATGGAAAACACCTC-A-GCATCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG-TTA-
*
75486524 TTTTTTGA-A
64 ATTTTTGACA
75486533 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
75486598 TTTTTGACA
65 TTTTTGACA
* * * * * *
75486607 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-AA
*
75486672 TTTTTGAAA
65 TTTTTGACA
* * *
75486681 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAG
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
*
75486746 TTTTGATA
66 TTTTGACA
* * * * ** *
75486754 AACA-AAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
75486818 TTTT
66 TTTT
75486822 TTTAGAAACA
Statistics
Matches: 252, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
72 57 0.23
73 92 0.37
74 70 0.28
75 33 0.13
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTGACA
Found at i:75486823 original size:147 final size:148
Alignment explanation
Indices: 75486495--75486842 Score: 556
Period size: 147 Copynumber: 2.4 Consensus size: 148
75486485 ATCTTGAGGT
* *
75486495 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGT
*
75486560 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAAAAATTGAAATTAC
66 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAGTTTTGACAAACAAAAATTGAAATTAC
*
75486625 CTCAGCGTGTCCTGAGGC
131 CTCAGCGTGTCCTGAGAC
*
75486643 TCAACTCACCTATCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGT
* * *
75486707 GTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGATAAAC-AAAATTGAAATTAC
66 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAGTTTTGACAAACAAAAATTGAAATTAC
75486771 CTCAGCGTGTCCTGAGAC
131 CTCAGCGTGTCCTGAGAC
** * * * *
75486789 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAGAAACATAAATTAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA
75486843 AACGAAAATT
Statistics
Matches: 184, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
146 56 0.30
147 102 0.55
148 26 0.14
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (148 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGT
GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAGTTTTGACAAACAAAAATTGAAATTAC
CTCAGCGTGTCCTGAGAC
Found at i:75487047 original size:14 final size:13
Alignment explanation
Indices: 75487012--75487056 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
75487002 TTGATTTTTG
75487012 AAAAACAGAAATT
1 AAAAACAGAAATT
*
75487025 AAAAGCAGAAATT
1 AAAAACAGAAATT
75487038 GAAAAACAGAAATT
1 -AAAAACAGAAATT
75487052 AAAAA
1 AAAAA
75487057 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:75487068 original size:100 final size:101
Alignment explanation
Indices: 75486840--75487128 Score: 424
Period size: 100 Copynumber: 2.9 Consensus size: 101
75486830 CATAAATTAA
*
75486840 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
75486904 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* *
75486939 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
75487004 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* * * *
75487039 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCTGAGTCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
75487104 GATTTTTGAAAAGCATAAATTGAAA
66 GATTTTTGAAAAGCAGAAATTGAAA
75487129 TTACCTCAGC
Statistics
Matches: 170, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
99 62 0.36
100 90 0.53
101 18 0.11
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
Found at i:75487134 original size:73 final size:73
Alignment explanation
Indices: 75487036--75487202 Score: 253
Period size: 73 Copynumber: 2.3 Consensus size: 73
75487026 AAAGCAGAAA
* * * * * * *
75487036 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCTGAGTCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
75487101 GTTGATTT
66 GTTGATTT
* *
75487109 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
75487174 GTTGATTT
66 GTTGATTT
75487182 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
75487203 AACGGAAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 84 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (73 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:75488164 original size:16 final size:17
Alignment explanation
Indices: 75488143--75488174 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
75488133 GATCCCTCTC
75488143 TCTTTT-TCTTTTTTTT
1 TCTTTTCTCTTTTTTTT
75488159 TCTTTTCTCTTTTTTT
1 TCTTTTCTCTTTTTTT
75488175 AAGATGCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TCTTTTCTCTTTTTTTT
Found at i:75494478 original size:20 final size:20
Alignment explanation
Indices: 75494421--75494480 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
75494411 AATACTACAT
75494421 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
75494440 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
75494463 AAATATGTACATAATATA
1 AAATATGTACATAATATA
75494481 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:75494489 original size:25 final size:25
Alignment explanation
Indices: 75494434--75494608 Score: 108
Period size: 25 Copynumber: 7.0 Consensus size: 25
75494424 TATGTACATA
* * *
75494434 TATAAAAAATAAATACGTGATA-A-
1 TATAAAAAATATATACATAATATAG
* *
75494457 TATTAAAAATATGTACATAATATAG
1 TATAAAAAATATATACATAATATAG
* *
75494482 TGTAAAAAAATACATACATAATATA-
1 TAT-AAAAAATATATACATAATATAG
* * *
75494507 -AT-TAAAATATATACATAAGATAACA
1 TATAAAAAATATATACATAATAT-A-G
* *
75494532 TGTAAAATATATATATAAATAATATAG
1 TATAAAA-A-ATATATACATAATATAG
* * *
75494559 TATTAAAGATATATACATAAAATAG
1 TATAAAAAATATATACATAATATAG
* * *
75494584 TATAATATATATATACGTAATATAG
1 TATAAAAAATATATACATAATATAG
75494609 AATTTAGAAT
Statistics
Matches: 114, Mismatches: 28, Indels: 18
0.71 0.17 0.11
Matches are distributed among these distances:
22 16 0.14
23 18 0.16
24 2 0.02
25 37 0.32
26 19 0.17
27 7 0.06
28 2 0.02
29 13 0.11
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (25 bp):
TATAAAAAATATATACATAATATAG
Found at i:75494499 original size:26 final size:25
Alignment explanation
Indices: 75494461--75494523 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
75494451 TGATAATATT
** *
75494461 AAAAATATGTACATAATATAGTGTAA
1 AAAAATACATACATAATATAAT-TAA
75494487 AAAAATACATACATAATATAATTAA
1 AAAAATACATACATAATATAATTAA
*
75494512 AATATATACATA
1 AA-AAATACATA
75494524 AGATAACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 5 0.16
26 27 0.84
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (25 bp):
AAAAATACATACATAATATAATTAA
Found at i:75494513 original size:22 final size:22
Alignment explanation
Indices: 75494488--75494529 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
75494478 ATAGTGTAAA
*
75494488 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
*
75494510 AAAATATATACATAAGATAA
1 AAAATACATACATAAGATAA
75494530 CATGTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:75494553 original size:29 final size:29
Alignment explanation
Indices: 75494513--75494579 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
75494503 TATAATTAAA
*
75494513 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* **
75494542 ATATATAAATAATATAGTATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
75494571 ATACATAAA
1 ATATATAAA
75494580 ATAGTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:75494607 original size:50 final size:49
Alignment explanation
Indices: 75494457--75494608 Score: 137
Period size: 50 Copynumber: 3.0 Consensus size: 49
75494447 TACGTGATAA
* * * * * *
75494457 TATTAAAAATATGTACATAATATAGTGTAAAAAAATACATACATAATATA-
1 TATT-AAAATATATACATAAAATAGTAT-AATATATATATACATAATATAG
* * *
75494507 -ATTAAAATATATACATAAGATAACATGTAAAATATATATATAAATAATATAG
1 TATTAAAATATATACAT-A-A-AATA-GTATAATATATATATACATAATATAG
*
75494559 TATTAAAGATATATACATAAAATAGTATAATATATATATACGTAATATAG
1 TATTAAA-ATATATACATAAAATAGTATAATATATATATACATAATATAG
75494609 AATTTAGAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
48 12 0.15
49 4 0.05
50 24 0.29
51 22 0.27
52 3 0.04
53 7 0.09
54 10 0.12
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (49 bp):
TATTAAAATATATACATAAAATAGTATAATATATATATACATAATATAG
Found at i:75495183 original size:18 final size:18
Alignment explanation
Indices: 75495160--75495213 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
75495150 ACAAGTGGTG
75495160 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
75495178 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
75495190 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
75495208 GTGGAG
1 GTGGAG
75495214 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.19, C:0.07, G:0.50, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:75495191 original size:30 final size:30
Alignment explanation
Indices: 75495155--75495223 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
75495145 TAGGTACAAG
75495155 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
75495185 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
75495215 TGGTGGTGG
1 TGGTGGTGG
75495224 CAAAGGCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.14, C:0.06, G:0.52, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:75497238 original size:19 final size:19
Alignment explanation
Indices: 75497214--75497250 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
75497204 AACATCAATC
75497214 AAGAAGTGTTGAGGGGTCA
1 AAGAAGTGTTGAGGGGTCA
75497233 AAGAAGTGTTGAGGGGTC
1 AAGAAGTGTTGAGGGGTC
75497251 TTTTGATTTA
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:0.30, C:0.05, G:0.43, T:0.22
Consensus pattern (19 bp):
AAGAAGTGTTGAGGGGTCA
Found at i:75500716 original size:25 final size:25
Alignment explanation
Indices: 75500688--75500739 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
75500678 ATCGTTAATA
75500688 AAACCCCTGACCTTTCTACAGCAAC
1 AAACCCCTGACCTTTCTACAGCAAC
75500713 AAACCCCTGACCTTTCTACAGCAAC
1 AAACCCCTGACCTTTCTACAGCAAC
75500738 AA
1 AA
75500740 CATATATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.38, G:0.08, T:0.19
Consensus pattern (25 bp):
AAACCCCTGACCTTTCTACAGCAAC
Found at i:75506558 original size:2 final size:2
Alignment explanation
Indices: 75506551--75506576 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75506541 ATCATGAATT
75506551 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
75506577 TATAATAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:75523035 original size:16 final size:17
Alignment explanation
Indices: 75523007--75523041 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
75522997 GCAACAATGG
75523007 AGCATTAACCGGGATTT
1 AGCATTAACCGGGATTT
75523024 AGCATT-ACCGGGATTT
1 AGCATTAACCGGGATTT
75523040 AG
1 AG
75523042 ATATCCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (17 bp):
AGCATTAACCGGGATTT
Found at i:75525193 original size:20 final size:19
Alignment explanation
Indices: 75525104--75525195 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 19
75525094 CATGTGACAA
*
75525104 AAAATTATAAAAAAATTAAT
1 AAAATTA-AAAAAAATTATT
* *
75525124 AAAAGTT-ATAAAAAGTATT
1 AAAA-TTAAAAAAAATTATT
* *
75525143 AAATTTTAATAAAAA-TA-T
1 AAA-ATTAAAAAAAATTATT
*
75525161 AAAATTATTAAAAAATTATT
1 AAAATTA-AAAAAAATTATT
75525181 AAAATTAGAAAAAAA
1 AAAATTA-AAAAAAA
75525196 GATTTATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.05
18 9 0.16
19 18 0.32
20 25 0.44
21 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATTAAAAAAAATTATT
Found at i:75525194 original size:19 final size:18
Alignment explanation
Indices: 75525111--75525194 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
75525101 CAAAAAATTA
*
75525111 TAAAAAAATTAATAAAAGT
1 TAAAAAAATTATTAAAA-T
* * *
75525130 TATAAAAAGTATTAAATTT
1 TAAAAAAATTATTAAA-AT
75525149 TAATAAAAA-TA-TAAAAT
1 TAA-AAAAATTATTAAAAT
75525166 TATTAAAAAATTATTAAAAT
1 TA--AAAAAATTATTAAAAT
75525186 TAGAAAAAA
1 TA-AAAAAA
75525195 AGATTTATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.06
18 9 0.17
19 27 0.52
20 13 0.25
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
TAAAAAAATTATTAAAAT
Found at i:75525468 original size:22 final size:22
Alignment explanation
Indices: 75525443--75525495 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
75525433 ATTTTTTTAT
*
75525443 TTTTGAAATGTCTTTTTATACA
1 TTTTGAAAGGTCTTTTTATACA
75525465 TTTTGAAAGGTCTTTTTATACA
1 TTTTGAAAGGTCTTTTTATACA
75525487 TTTTGAAAG
1 TTTTGAAAG
75525496 TTCAAGTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (22 bp):
TTTTGAAAGGTCTTTTTATACA
Found at i:75526454 original size:3 final size:3
Alignment explanation
Indices: 75526446--75526484 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
75526436 TGCCAATAAA
75526446 ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
75526485 AATAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:75531900 original size:4 final size:4
Alignment explanation
Indices: 75531883--75531915 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
75531873 GTTACAACAT
75531883 CATG CATG TC-TG CATG CATG CATG CATG CATG C
1 CATG CATG -CATG CATG CATG CATG CATG CATG C
75531916 CCTTGCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 1 0.04
4 25 0.93
5 1 0.04
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (4 bp):
CATG
Found at i:75536027 original size:18 final size:18
Alignment explanation
Indices: 75536006--75536043 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
75535996 ACTTTAGCCA
*
75536006 TTTTTATTTT-ATTTTTG
1 TTTTTATTTTAATTCTTG
75536023 TTTTTATTTTAATTCTTG
1 TTTTTATTTTAATTCTTG
75536041 TTT
1 TTT
75536044 ACTAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTATTTTAATTCTTG
Found at i:75536993 original size:15 final size:17
Alignment explanation
Indices: 75536969--75537009 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
75536959 AAATGCGTAC
*
75536969 AAATATTATATA-A-AT
1 AAATAATATATACATAT
75536984 AAATAATATATACATAT
1 AAATAATATATACATAT
*
75537001 AAAAAATAT
1 AAATAATAT
75537010 GCATGTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 11 0.50
16 1 0.05
17 10 0.45
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATAATATATACATAT
Found at i:75537218 original size:14 final size:14
Alignment explanation
Indices: 75537199--75537225 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75537189 AAACAAATAC
75537199 ATATACATATATAT
1 ATATACATATATAT
75537213 ATATACATATATA
1 ATATACATATATA
75537226 AGCAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATACATATATAT
Found at i:75537336 original size:3 final size:3
Alignment explanation
Indices: 75537328--75537361 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
75537318 AGATATATAT
*
75537328 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
75537362 CATAAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:75542330 original size:3 final size:3
Alignment explanation
Indices: 75542322--75542372 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
75542312 TATTTTTACT
* *
75542322 TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTTA TT- TTA TT- TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
75542366 TTA TTA T
1 TTA TTA T
75542373 ATTTCTTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.07
3 35 0.85
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:75542370 original size:17 final size:18
Alignment explanation
Indices: 75542348--75542389 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
75542338 TAGTATTATT
75542348 ATTATTTAT-TTTATTTA
1 ATTATTTATATTTATTTA
*
75542365 ATTA-TTATATTTCTTTA
1 ATTATTTATATTTATTTA
*
75542382 CTTATTTA
1 ATTATTTA
75542390 ATTAGTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 4 0.19
17 14 0.67
18 3 0.14
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTATTTATATTTATTTA
Found at i:75542375 original size:25 final size:26
Alignment explanation
Indices: 75542342--75542393 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
75542332 TATTATTAGT
75542342 ATTATTATTATTTA-TT--TTATTTA
1 ATTATTATTATTTATTTACTTATTTA
*
75542365 ATTATTA-TATTTCTTTACTTATTTA
1 ATTATTATTATTTATTTACTTATTTA
75542390 ATTA
1 ATTA
75542394 GTCTTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 5 0.20
23 9 0.36
25 11 0.44
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTATTATTATTTATTTACTTATTTA
Found at i:75544142 original size:18 final size:20
Alignment explanation
Indices: 75544097--75544136 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
75544087 CCATTTATCA
*
75544097 TTTAATTTTAATTTCTTATT
1 TTTAGTTTTAATTTCTTATT
75544117 TTTAGTTTT-ATTTC-TATT
1 TTTAGTTTTAATTTCTTATT
75544135 TT
1 TT
75544137 ATGTTTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTAGTTTTAATTTCTTATT
Found at i:75555053 original size:29 final size:30
Alignment explanation
Indices: 75554988--75555054 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
75554978 AATATCGAAA
75554988 TTATATATAAATTTTGATGTAATGTATAATG
1 TTATATATAAATTTTGATGTAATG-ATAATG
* * * * *
75555019 TCATATATGAATTTTGATTTTATG-TAATT
1 TTATATATAAATTTTGATGTAATGATAATG
75555048 TTATATA
1 TTATATA
75555055 CATGAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 10 0.33
31 20 0.67
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.52
Consensus pattern (30 bp):
TTATATATAAATTTTGATGTAATGATAATG
Found at i:75563613 original size:15 final size:16
Alignment explanation
Indices: 75563588--75563621 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
75563578 CAAAAAATAA
*
75563588 AAAATTAATAATATGT
1 AAAATTAATAATATAT
75563604 AAAA-TAATAATATAT
1 AAAATTAATAATATAT
75563619 AAA
1 AAA
75563622 TTTATTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAATTAATAATATAT
Found at i:75564045 original size:30 final size:30
Alignment explanation
Indices: 75564009--75564068 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
75563999 TATTTTATTA
*
75564009 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
75564039 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
75564069 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:75564172 original size:11 final size:11
Alignment explanation
Indices: 75564156--75564180 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
75564146 ATTTATTTTG
75564156 ATTTTTTTAGT
1 ATTTTTTTAGT
75564167 ATTTTTTTAGT
1 ATTTTTTTAGT
75564178 ATT
1 ATT
75564181 ATATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
ATTTTTTTAGT
Found at i:75565101 original size:252 final size:252
Alignment explanation
Indices: 75564656--75565150 Score: 866
Period size: 252 Copynumber: 2.0 Consensus size: 252
75564646 ATAATTTGTA
*
75564656 AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCGCATAAACCAATAGGGATT
1 AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCACATAAACCAATAGGGATT
* * * *
75564721 AAAAAAGTAAATAAACCAAACCTCAAAACGAATCGTTTCAACGTGGACTGAAATGAGCATACGTG
66 AAAAAAGCAAATAAACCAAACCTCAAAACGAATCATTTCAACGCGGACTGAAATGAGCATACGCG
*
75564786 CAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAACATAAATAGGGCTCGATTGAATGGCTCAA
131 CAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAACATAAATAAGGCTCGATTGAATGGCTCAA
* * *
75564851 CAAAGAAAGATGACCACGCGAGCAAATCGACCCTTTTAGGTGAAAAGGCGTGGATCC
196 CAAAGAAAGAGGACCACGCAAACAAATCGACCCTTTTAGGTGAAAAGGCGTGGATCC
75564908 AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCACATAAACCAATAGGGATT
1 AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCACATAAACCAATAGGGATT
*
75564973 AAAAAAGCAAATAAACCAAACC-CGAAAACGAATCATTTCAACGCGGACTGAAATGATCATACGC
66 AAAAAAGCAAATAAACCAAACCTC-AAAACGAATCATTTCAACGCGGACTGAAATGAGCATACGC
*
75565037 GCAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAATATAAATAAGGCTCGATTGAATGGCTCA
130 GCAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAACATAAATAAGGCTCGATTGAATGGCTCA
*
75565102 ACAAAGAAAGAGGACCACGTAAACAAATCGACCCTTTTAGGTGAAAAGG
195 ACAAAGAAAGAGGACCACGCAAACAAATCGACCCTTTTAGGTGAAAAGG
75565151 TGCGGATTCG
Statistics
Matches: 230, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
251 1 0.00
252 229 1.00
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (252 bp):
AACAAATAAAAACTGTTAAGCAACATGGAGGACTAAAATACAATGCACATAAACCAATAGGGATT
AAAAAAGCAAATAAACCAAACCTCAAAACGAATCATTTCAACGCGGACTGAAATGAGCATACGCG
CAAATTCCAGGGATAATTTAAAAGAATCAAAGAAAACATAAATAAGGCTCGATTGAATGGCTCAA
CAAAGAAAGAGGACCACGCAAACAAATCGACCCTTTTAGGTGAAAAGGCGTGGATCC
Found at i:75565768 original size:16 final size:16
Alignment explanation
Indices: 75565747--75565777 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
75565737 TTATATAGTC
75565747 AAAAAAATAA-AAATA
1 AAAAAAATAAGAAATA
75565762 AAAAAAATAAGAAATA
1 AAAAAAATAAGAAATA
75565778 CAAATTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAGAAATA
Found at i:75566123 original size:11 final size:11
Alignment explanation
Indices: 75566107--75566134 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
75566097 TCATGGACTG
75566107 TTTTATGATTT
1 TTTTATGATTT
75566118 TTTTATGATTT
1 TTTTATGATTT
75566129 TTTTAT
1 TTTTAT
75566135 TTTTTGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (11 bp):
TTTTATGATTT
Found at i:75566461 original size:45 final size:45
Alignment explanation
Indices: 75566399--75566504 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
75566389 ATGGCTTTGA
*
75566399 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TCTGCCATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCCATCTTCAG
* *
75566444 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
*
75566489 TCTACTCCACTGCAAC
1 TCTGCTCCACTGCAAC
75566505 ACTCCACTGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
Found at i:75566510 original size:13 final size:13
Alignment explanation
Indices: 75566492--75566517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75566482 TCTTCAGTCT
75566492 ACTCCACTGCAAC
1 ACTCCACTGCAAC
75566505 ACTCCACTGCAAC
1 ACTCCACTGCAAC
75566518 TTTAAGGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.46, G:0.08, T:0.15
Consensus pattern (13 bp):
ACTCCACTGCAAC
Found at i:75566827 original size:44 final size:44
Alignment explanation
Indices: 75566581--75567511 Score: 311
Period size: 44 Copynumber: 21.1 Consensus size: 44
75566571 ATAAGGTCTT
* * * *
75566581 CAATCTTTATTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
** * *
75566625 CAATCTTCAGCCTGCTCCCTTGCTACCTCAGGGAGATAAGGCTA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
**** ** * * * * * *
75566669 GTGGCTAAAATCTGCTCCCCTACTACTTCGGGAAGATGAGATTCA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACT-A
* ** * * * * * *
75566714 CCATCTTTGATTTGCTCCATTACTA-CTTAGGGAGATAAGATCTT
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGA-CTA
* * * * *
75566758 TAATCCTCAGTCTGGTTCCTTGCTACCTCAGGAAGATAAGACTA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* * * *
75566802 CAATCTTCAACCTGCTCTCTTGCTACCTTA-GAGAGATAAGGCTA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGA-AGATAAGACTA
**** ** * * * *
75566846 GTGGCTAAAATCTGCTCCCCTGCTACCTTAGAAAGATAAG-TTCA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACT-A
* * * * * * *
75566890 CCATCTTCGATCTGCTCCAC-TACT-GCTTAGGGAGATAAGATCTT
1 CAATCTTCAATCTGCTCC-CTTGCTACCTCAGGAAGATAAGA-CTA
* * * * * * *
75566934 CAATCTTCAGTTTACTTCCTTGCTACCCCAGTAAGATAATACTA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* * * *
75566978 CAATTTTCAA-CATGCTCTCTTGCTACCTCA-GAGAGAAAAGGCTA
1 CAATCTTCAATC-TGCTCCCTTGCTACCTCAGGA-AGATAAGACTA
**** ** * *
75567022 GTGGCTAAAATATGCTTCCC-TGCTACCTC-GAAAGGATAAGATTCT-
1 CAATCTTCAATCTGC-TCCCTTGCTACCTCAGGAA-GATAAGA--CTA
* * * * * * *
75567067 CCATCTTCGATCTGCTTCAC-TACT-GCTTAGGGAGATAAGA-TA
1 CAATCTTCAATCTGC-TCCCTTGCTACCTCAGGAAGATAAGACTA
* * ** * * *
75567109 TTTAATCTTCAGTCTGCTTTCTTGCTACCTTAGAAAGATAATACTA
1 --CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* * * *
75567155 CAATCTTCAACCTGCTCTCTTGCTACCTCA-GAGAGATAAGGCTG
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGA-AGATAAGACTA
**** * * * **
75567199 GTGGCTTAAATCTGCCCCCCTGCTACCTTGGGAAGATAAGACTTA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGAC-TA
* * * * * *
75567244 CCATCTTCGATCTGCTCCAC-TACTA-CTTAGGGAGATAAGATCTT
1 CAATCTTCAATCTGCTCC-CTTGCTACCTCAGGAAGATAAGA-CTA
* * *
75567288 CAATCTTCAGTCTGCTTCCTTGCTACTTCAGGAAGATAAGACTA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* **
75567332 CAATCTTCAACCTGCTCCCTTGCTACCTCA-GAGAGATAAGGTTA
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGA-AGATAAGACTA
**** * * * *
75567376 GTGGCTTAAATCTGCTCCC-TGCTACCTCGGGAAGATAAGATTTT
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGA-CTA
* ** * * * *
75567420 CCATCTTCAATCTATTCCAC-TACT-GCTTA-GAGAGATAAGATCTT
1 CAATCTTCAATCTGCTCC-CTTGCTACCTCAGGA-AGATAAGA-CTA
* * * *
75567464 CAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTT
1 CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
75567508 CAAT
1 CAAT
75567512 TCGGCCTGCT
Statistics
Matches: 619, Mismatches: 227, Indels: 82
0.67 0.24 0.09
Matches are distributed among these distances:
41 1 0.00
43 43 0.07
44 449 0.73
45 120 0.19
46 6 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
CAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
Found at i:75566859 original size:177 final size:177
Alignment explanation
Indices: 75566563--75567546 Score: 1345
Period size: 177 Copynumber: 5.6 Consensus size: 177
75566553 CACTGCAACT
* * * *
75566563 TTAGGGAGATAAGGTCTTCAATCTTTATTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * * *
75566628 TCTTCAGCCTGCTCCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTACT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
* * * * *
75566693 ACTTCGGGAAGATGAGATTCACCATCTTTGATTTGCTCCATTACTAC
131 ACTTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
* * *
75566740 TTAGGGAGATAAGATCTTTAATCCTCAGTCTGGTTCCTTGCTACCTCAGGAAGATAAGACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
*
75566805 TCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
* *
75566870 ACCTT-AGAAAGATAAG-TTCACCATCTTCGATCTGCTCCACTACTGC
131 A-CTTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
* * * * *
75566916 TTAGGGAGATAAGATCTTCAATCTTCAGTTTACTTCCTTGCTACCCCAGTAAGATAATACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * * * *
75566981 TTTTCAACATGCTCTCTTGCTACCTCAGAGAGAAAAGGCTAGTGGCTAAAATATGCTTCCCTGCT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
* * * *
75567046 ACCTC-GAAAGGATAAGATTCTCCATCTTCGATCTGCTTCACTACTGC
131 ACTTCGGGAA-GATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
* * * * * *
75567093 TTAGGGAGATAAGATATTTAATCTTCAGTCTGCTTTCTTGCTACCTTAGAAAGATAATACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * *
75567158 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCCCCCCTGCT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
*
75567223 ACCTT-GGGAAGATAAGACTT-ACCATCTTCGATCTGCTCCACTACTAC
131 A-CTTCGGGAAGATAAGA-TTCACCATCTTCGATCTGCTCCACTACTGC
*
75567270 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTTCAGGAAGATAAGACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * *
75567335 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGTTAGTGGCTTAAATCTGCT-CCCTGCT
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
* ** * **
75567399 ACCTCGGGAAGATAAGATTTTCCATCTTCAATCTATTCCACTACTGC
131 ACTTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
* * *
75567446 TTAGAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTTCAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
** *
75567511 --TTCGGCCTGCTCTCTTGCTACTTCAGAGAGATAAGG
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
75567547 TTGTAAATTC
Statistics
Matches: 716, Mismatches: 82, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
174 32 0.04
175 10 0.01
176 252 0.35
177 412 0.58
178 10 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (177 bp):
TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCT
ACTTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
Found at i:75567212 original size:353 final size:353
Alignment explanation
Indices: 75566563--75567546 Score: 1406
Period size: 353 Copynumber: 2.8 Consensus size: 353
75566553 CACTGCAACT
* * *
75566563 TTAGGGAGATAAGGTCTTCAATCTTTA-TTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTT-TGCTTCCTTGCTACCTCAGGAAGATAAGACTACA
* * * *
75566627 ATCTTCAGCCTGCTCCCTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTAC
65 ATCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGC
* * * * * * * *
75566692 TACTTCGGGAAGATGAGATTCACCATCTTTGATTTGCTCCATTACTACTTAGGGAGATAAGATCT
130 TACCTCGGGAAGATAAGATTCTCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCT
* * *
75566757 TTAATCCTCAGTCTGGTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCT
195 TTAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCTCTCT
* *
75566822 TGCTACCTTAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGAAAGATAAG-
260 TGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCCCCCCTGCTACCTTAGAAAGATAAGA
*
75566886 TTCACCATCTTCGATCTGCTCCACTACTGC
325 TT-ACCATCTTCGATCTGCTCCACTACTAC
* * * *
75566916 TTAGGGAGATAAGATCTTCAATCTTCAGTTTACTTCCTTGCTACCCCAGTAAGATAATACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTTTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* * * * *
75566981 TTTTCAACATGCTCTCTTGCTACCTCAGAGAGAAAAGGCTAGTGGCTAAAATATGCTTCCCTGCT
66 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCT
* *
75567046 ACCTC-GAAAGGATAAGATTCTCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATAT
131 ACCTCGGGAA-GATAAGATTCTCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCT
* * *
75567110 TTAATCTTCAGTCTGCTTTCTTGCTACCTTAGAAAGATAATACTACAATCTTCAACCTGCTCTCT
195 TTAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCTCTCT
* * * *
75567175 TGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCCCCCCTGCTACCTTGGGAAGATAAGA
260 TGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCCCCCCTGCTACCTTAGAAAGATAAGA
75567240 CTTACCATCTTCGATCTGCTCCACTACTAC
325 -TTACCATCTTCGATCTGCTCCACTACTAC
* *
75567270 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTTCAGGAAGATAAGACTACAA
1 TTAGGGAGATAAGATCTTCAATCTTCAGTTTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* *
75567335 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGTTAGTGGCTTAAATCTGC-TCCCTGCT
66 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCT
* * * *
75567399 ACCTCGGGAAGATAAGATTTTCCATCTTCAATCT-ATTCCACTACTGCTTAGAGAGATAAGATCT
131 ACCTCGGGAAGATAAGATTCTCCATCTTCGATCTGCTT-CACTACTGCTTAGGGAGATAAGATCT
* * **
75567463 TCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTTCAA--TTCGGCCTGCTCTCT
195 TTAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCTCTCT
*
75567526 TGCTACTTCAGAGAGATAAGG
260 TGCTACCTCAGAGAGATAAGG
75567547 TTGTAAATTC
Statistics
Matches: 559, Mismatches: 66, Indels: 14
0.87 0.10 0.02
Matches are distributed among these distances:
351 33 0.06
352 5 0.01
353 380 0.68
354 139 0.25
355 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (353 bp):
TTAGGGAGATAAGATCTTCAATCTTCAGTTTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCT
ACCTCGGGAAGATAAGATTCTCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTT
TAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAATCTTCAACCTGCTCTCTT
GCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCCCCCCTGCTACCTTAGAAAGATAAGAT
TACCATCTTCGATCTGCTCCACTACTAC
Found at i:75567718 original size:64 final size:64
Alignment explanation
Indices: 75567616--75567742 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 64
75567606 TCATGTATCT
** * *
75567616 ATGCTTATGCCAAATAAGTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAAGTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAAATGTG
* *
75567680 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAAATGT
1 ATGCTTATGCCAAATAAGTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAAATGT
75567743 ATTATGAACG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAAGTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAAATGTG
Found at i:75569457 original size:14 final size:13
Alignment explanation
Indices: 75569424--75569491 Score: 57
Period size: 14 Copynumber: 5.0 Consensus size: 13
75569414 TCACTATGAC
*
75569424 CTTTTTTT-TATT
1 CTTTTTTTCTTTT
75569436 CTTCTTTTTCTTTT
1 CTT-TTTTTCTTTT
*
75569450 CCTTTTTTTATTTT
1 -CTTTTTTTCTTTT
*
75569464 CTTTTTGTACTTTT
1 CTTTTT-TTCTTTT
*
75569478 TTTGTTTTTCTTTT
1 CTT-TTTTTCTTTT
75569492 TGGCTGCCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
12 3 0.07
13 11 0.24
14 25 0.56
15 6 0.13
ACGTcount: A:0.04, C:0.13, G:0.03, T:0.79
Consensus pattern (13 bp):
CTTTTTTTCTTTT
Found at i:75569479 original size:22 final size:23
Alignment explanation
Indices: 75569451--75569493 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
75569441 TTTTCTTTTC
75569451 CTTTTTTT-ATTTTCTTTTTGTA
1 CTTTTTTTGATTTTCTTTTTGTA
*
75569473 CTTTTTTTGTTTTTCTTTTTG
1 CTTTTTTTGATTTTCTTTTTG
75569494 GCTGCCTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.05, C:0.09, G:0.07, T:0.79
Consensus pattern (23 bp):
CTTTTTTTGATTTTCTTTTTGTA
Found at i:75578900 original size:49 final size:49
Alignment explanation
Indices: 75578692--75579009 Score: 225
Period size: 50 Copynumber: 6.7 Consensus size: 49
75578682 TATGTGTGCT
* * * * *
75578692 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCC-ACAACATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGCTATATGAAAGCC
* * * *
75578738 AATGTCAA-A-CATGTCCGGGACAT-GCATCGGCCTCGCGATAT-ACAAGCT
1 AGTGT-AAGACCATGTCTGGGACATGGCATCGGCCT-GCTATATGA-AAGCC
* * * * ** * *
75578786 AGTGTAAGA-CTTGTCTGGGACAT-GCGTCAGCTTG-T-GGTG-TA-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGCTATATGAAAGCC
* * * * * *
75578829 AGTGTAAAACC-TGTCTGAGACATGGCATCGACACTGATAAATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTGCTATATGAAAGCC
*
75578878 AGTGTAAGACC-TGTCTGGGACATGGCATTGGCCTCGCTATATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-GCTATATGAAAGCC
* * * *
75578927 AGTGTAAGACCATGTCTGGGACATGACATTGGCCCCGCTATATGACAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CCTGCTATATGAAAGCC
75578977 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
75579010 ATCTTAACCC
Statistics
Matches: 214, Mismatches: 42, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
43 19 0.09
44 7 0.03
45 3 0.01
46 27 0.13
47 8 0.04
48 34 0.16
49 52 0.24
50 62 0.29
51 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGCTATATGAAAGCC
Found at i:75581116 original size:42 final size:42
Alignment explanation
Indices: 75581049--75581132 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
75581039 ATGGACTGTC
75581049 ACACGGCCTGGCACACAACCATGTGTGGCAACTCAAAGAGTT
1 ACACGGCCTGGCACACAACCATGTGTGGCAACTCAAAGAGTT
* * ** * *
75581091 ACACGGCTTGGCACACGACTGTGTGTGGCAACTTAGAGAGTT
1 ACACGGCCTGGCACACAACCATGTGTGGCAACTCAAAGAGTT
75581133 TCATGGGCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (42 bp):
ACACGGCCTGGCACACAACCATGTGTGGCAACTCAAAGAGTT
Found at i:75583274 original size:23 final size:23
Alignment explanation
Indices: 75583248--75583374 Score: 123
Period size: 23 Copynumber: 5.5 Consensus size: 23
75583238 AAAGGTGTAC
75583248 TGGTTGTGTTTGGAGGGTATACT
1 TGGTTGTGTTTGGAGGGTATACT
* *
75583271 TGGTTGTGTTCGGAGGTTATACAT
1 TGGTTGTGTTTGGAGGGTATAC-T
* * *
75583295 ATGGTTGTGTTTGAAAGGTATATT
1 -TGGTTGTGTTTGGAGGGTATACT
* * *
75583319 TGGTTGTGTTCGGATGGTACA-T
1 TGGTTGTGTTTGGAGGGTATACT
*
75583341 ATGGTTGTGTTTGGAGGGTA-AAT
1 -TGGTTGTGTTTGGAGGGTATACT
*
75583364 TGGTTATGTTT
1 TGGTTGTGTTT
75583375 AGTGGGTGAT
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
22 12 0.14
23 55 0.64
24 2 0.02
25 17 0.20
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (23 bp):
TGGTTGTGTTTGGAGGGTATACT
Found at i:75583322 original size:48 final size:46
Alignment explanation
Indices: 75583248--75583353 Score: 151
Period size: 48 Copynumber: 2.3 Consensus size: 46
75583238 AAAGGTGTAC
* *
75583248 TGGTTGTGTTTGGAGGGTATACTTGGTTGTGTTCGGA-GGTTATACATA
1 TGGTTGTGTTTGAAAGGTATACTTGGTTGTGTTCGGATGG---TACATA
*
75583296 TGGTTGTGTTTGAAAGGTATATTTGGTTGTGTTCGGATGGTACATA
1 TGGTTGTGTTTGAAAGGTATACTTGGTTGTGTTCGGATGGTACATA
75583342 TGGTTGTGTTTG
1 TGGTTGTGTTTG
75583354 GAGGGTAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
46 18 0.33
48 34 0.63
49 2 0.04
ACGTcount: A:0.16, C:0.05, G:0.35, T:0.44
Consensus pattern (46 bp):
TGGTTGTGTTTGAAAGGTATACTTGGTTGTGTTCGGATGGTACATA
Found at i:75594123 original size:17 final size:17
Alignment explanation
Indices: 75594101--75594136 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
75594091 CTAAAACTCT
*
75594101 ACCGGGAAAGGTTCTCC
1 ACCGGGAAAAGTTCTCC
75594118 ACCGGGAAAAGTTCTCC
1 ACCGGGAAAAGTTCTCC
75594135 AC
1 AC
75594137 GACTGCCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.31, G:0.25, T:0.17
Consensus pattern (17 bp):
ACCGGGAAAAGTTCTCC
Found at i:75598587 original size:14 final size:14
Alignment explanation
Indices: 75598568--75598605 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
75598558 TAGTATCACA
75598568 TGTTCTTAATTATG
1 TGTTCTTAATTATG
75598582 TGTTCTTAATTATG
1 TGTTCTTAATTATG
75598596 TGTTCTTAAT
1 TGTTCTTAAT
75598606 CCTTTCTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:75600862 original size:12 final size:12
Alignment explanation
Indices: 75600845--75600870 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
75600835 ATGTGCAAGT
75600845 GTGGAAAATCCC
1 GTGGAAAATCCC
75600857 GTGGAAAATCCC
1 GTGGAAAATCCC
75600869 GT
1 GT
75600871 TTGAACCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (12 bp):
GTGGAAAATCCC
Found at i:75616382 original size:14 final size:15
Alignment explanation
Indices: 75616365--75616397 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
75616355 GTATTATGAT
75616365 TGATACGATATC-CA
1 TGATACGATATCACA
*
75616379 TGATATGATATCACA
1 TGATACGATATCACA
75616394 TGAT
1 TGAT
75616398 GTATTCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (15 bp):
TGATACGATATCACA
Found at i:75616464 original size:19 final size:19
Alignment explanation
Indices: 75616440--75616495 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
75616430 GGAGAAGTGC
75616440 AAAGGTTTGCCTAGTTA-CG
1 AAAGGTTTGCC-AGTTACCG
75616459 AAAGGTTTGCCCAGTTTACCG
1 AAAGGTTTG-CCAG-TTACCG
75616480 AAAGGCTTTGCCAGTT
1 AAAGG-TTTGCCAGTT
75616496 TATCAAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
19 11 0.33
20 7 0.21
21 11 0.33
22 4 0.12
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (19 bp):
AAAGGTTTGCCAGTTACCG
Found at i:75616483 original size:21 final size:21
Alignment explanation
Indices: 75616440--75616518 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
75616430 GGAGAAGTGC
*
75616440 AAAGG-TTTGCCTAG-TTACG
1 AAAGGCTTTGCCCAGTTTACG
75616459 AAAGG-TTTGCCCAGTTTACCG
1 AAAGGCTTTGCCCAGTTTA-CG
*
75616480 AAAGGCTTTG-CCAGTTTATCA
1 AAAGGCTTTGCCCAGTTTA-CG
75616501 AAAGGCTTTGCCCCAGTT
1 AAAGGCTTTG-CCCAGTT
75616519 ATTAAAAGGC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.25
20 3 0.06
21 26 0.50
22 4 0.08
23 6 0.12
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (21 bp):
AAAGGCTTTGCCCAGTTTACG
Found at i:75616525 original size:22 final size:21
Alignment explanation
Indices: 75616459--75616529 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
75616449 CCTAGTTACG
* *
75616459 AAAGG-TTTGCCCAGTTTACCG
1 AAAGGCTTTG-CCAGTTTATCA
75616480 AAAGGCTTTGCCAGTTTATCA
1 AAAGGCTTTGCCAGTTTATCA
*
75616501 AAAGGCTTTGCCCCAG-TTATTA
1 AAAGGCTTTG--CCAGTTTATCA
75616523 AAAGGCT
1 AAAGGCT
75616530 AGCTCATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
21 24 0.55
22 16 0.36
23 4 0.09
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (21 bp):
AAAGGCTTTGCCAGTTTATCA
Found at i:75616793 original size:30 final size:30
Alignment explanation
Indices: 75616731--75616813 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 30
75616721 CTAGTTGCAT
*
75616731 ATATG-ATAATAAAAAGGCTTCGGCCCAGTG
1 ATATGAATAAT-AAAAGGCTTCGGCCCAATG
75616761 ATATGAATAATGAAAAGGCTTCGG-CCAATG
1 ATATGAATAAT-AAAAGGCTTCGGCCCAATG
75616791 ATATGAATAATATAAAGGCTTCG
1 ATATGAATAATA-AAAGGCTTCG
75616814 ACCTAGTATA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.02
30 31 0.63
31 17 0.35
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (30 bp):
ATATGAATAATAAAAGGCTTCGGCCCAATG
Found at i:75624497 original size:25 final size:25
Alignment explanation
Indices: 75624396--75624490 Score: 120
Period size: 25 Copynumber: 3.8 Consensus size: 25
75624386 GAAGAAGTGT
* * *
75624396 AAAAGGGCTATGCCCCA-ATTACCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
* *
75624420 AAAAGGGCTTTGCCCTAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
75624445 AAAAGGGCTTTGCCACAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
75624470 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
75624491 ATTAAAAGAG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
24 15 0.25
25 34 0.57
26 11 0.18
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:75624503 original size:25 final size:24
Alignment explanation
Indices: 75624396--75624503 Score: 103
Period size: 25 Copynumber: 4.4 Consensus size: 24
75624386 GAAGAAGTGT
* * *
75624396 AAAAGGGCTATGCCCCA-ATTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
75624419 AAAAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
75624444 GAAAAGGGCTTTGCCACAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
75624469 AAAAAGGGCTTTTGCCCCAG-TTATT
1 -AAAAGGGC-TTTGCCCCAGTTTATC
75624494 AAAAGAGGCT
1 AAAAG-GGCT
75624504 AGGCCTCCAG
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.30
25 41 0.58
26 9 0.13
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:75624748 original size:31 final size:31
Alignment explanation
Indices: 75624710--75624824 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
75624700 TTGTTACAGT
75624710 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
75624741 AAAGGCTTCGGCCTAGTGATATGAATAGTGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
75624772 AAAGGCTTCGACCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
75624803 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
75624825 CTGAGATTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:75626311 original size:5 final size:5
Alignment explanation
Indices: 75626301--75626352 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
75626291 CCACTGAGTC
** *
75626301 TATTT TATTT TATTT CCTTT TATTT T-TCAT TATTT TATTT TATTTT TATTT
1 TATTT TATTT TATTT TATTT TATTT TAT-TT TATTT TATTT TA-TTT TATTT
75626352 T
1 T
75626353 TCTGTTTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 1 0.03
5 31 0.82
6 6 0.16
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:75626333 original size:20 final size:18
Alignment explanation
Indices: 75626310--75626368 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
75626300 CTATTTTATT
75626310 TTATTTCCTTTTATTTTTCA
1 TTATTT-CTTTTATTTTT-A
*
75626330 TTATTTTATTTTATTTTTA
1 TTA-TTTCTTTTATTTTTA
*
75626349 TT-TTTCTGTTTATTTGTA
1 TTATTTCT-TTTATTTTTA
75626367 TT
1 TT
75626369 TTCTAGACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.12
18 11 0.32
19 3 0.09
20 13 0.38
21 3 0.09
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (18 bp):
TTATTTCTTTTATTTTTA
Found at i:75626339 original size:25 final size:26
Alignment explanation
Indices: 75626305--75626354 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
75626295 TGAGTCTATT
*
75626305 TTATTTTA-TTTCCTTTTATTTTTCA
1 TTATTTTATTTTACTTTTATTTTTCA
*
75626330 TTATTTTATTTTATTTTTATTTTTC
1 TTATTTTATTTTACTTTTATTTTTC
75626355 TGTTTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (26 bp):
TTATTTTATTTTACTTTTATTTTTCA
Found at i:75626659 original size:49 final size:49
Alignment explanation
Indices: 75626587--75626684 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
75626577 TCTCTCTCTC
* *
75626587 TTATGATATTCTATTCCTATTATGATTATCTATTTTTGTACATTGGAGA
1 TTATGACATTCTATTCCTATTATGATTATATATTTTTGTACATTGGAGA
75626636 TTATGACATTCTATTCCTATTATGATTATATATTTTTGTACATTGGAGA
1 TTATGACATTCTATTCCTATTATGATTATATATTTTTGTACATTGGAGA
75626685 CAATGTACAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (49 bp):
TTATGACATTCTATTCCTATTATGATTATATATTTTTGTACATTGGAGA
Found at i:75629007 original size:28 final size:26
Alignment explanation
Indices: 75628952--75629064 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
75628942 AGCATGGCTG
* *
75628952 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
75628978 CCAGATACAGATAATCATGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
75629006 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
75629033 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
75629061 CCAG
1 CCAG
75629065 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 6 0.08
27 38 0.50
28 32 0.42
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:75629035 original size:55 final size:54
Alignment explanation
Indices: 75628952--75629064 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
75628942 AGCATGGCTG
*
75628952 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCATGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCATGGCAGAGCCA
* ** *
75629006 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCATGGCAGAGCCA
75629061 CCAG
1 CCAG
75629065 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCATGGCAGAGCCA
Found at i:75629516 original size:8 final size:8
Alignment explanation
Indices: 75629482--75629519 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
75629472 CAAAATACCA
75629482 GCTTTTCG
1 GCTTTTCG
*
75629490 GCATTTCG
1 GCTTTTCG
*
75629498 GCATTTCG
1 GCTTTTCG
75629506 GCTTTTCG
1 GCTTTTCG
75629514 GCTTTT
1 GCTTTT
75629520 GCCGATCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.05, C:0.24, G:0.24, T:0.47
Consensus pattern (8 bp):
GCTTTTCG
Found at i:75630365 original size:39 final size:34
Alignment explanation
Indices: 75630296--75630367 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 34
75630286 TCGGCTATGG
*
75630296 AGAAAAGAAGAGGAGAAGGTAGATGGAGAGAAAA
1 AGAAAAGAAGAGGAGAAGGAAGATGGAGAGAAAA
75630330 AGAAAAGAAAGAAGGAGAAGGAAGGATGGTCAGAGAAA
1 AGAAAAG-AAG-AGGAGAAGGAA-GATGG--AGAGAAA
75630368 CGGTACAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 7 0.22
35 3 0.09
36 10 0.31
37 5 0.16
39 7 0.22
ACGTcount: A:0.56, C:0.01, G:0.38, T:0.06
Consensus pattern (34 bp):
AGAAAAGAAGAGGAGAAGGAAGATGGAGAGAAAA
Found at i:75636869 original size:27 final size:26
Alignment explanation
Indices: 75636812--75636918 Score: 99
Period size: 27 Copynumber: 3.9 Consensus size: 26
75636802 GCTGCCAAAC
* * *
75636812 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGA-AT
*
75636839 AGATAATCGTGGCAAAGCCACCAGAAT
1 AGATAAT-GTGGCAGAGCCACCAGAAT
75636866 AGATATATGTGGCAGAGCCACCAG-AT
1 AGATA-ATGTGGCAGAGCCACCAGAAT
* *
75636892 CAGATAATTTGTGGCATAGCTACCAGA
1 -AGATAA--TGTGGCAGAGCCACCAGA
75636919 CGCTTCCTCC
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
26 3 0.04
27 33 0.49
28 31 0.46
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATAATGTGGCAGAGCCACCAGAAT
Found at i:75636906 original size:55 final size:54
Alignment explanation
Indices: 75636812--75636918 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 54
75636802 GCTGCCAAAC
*
75636812 AGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCACCAGAAT
1 AGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCACCAGAAT
* * * *
75636866 AGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTGGCATAGCTACCAGA
1 AGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGGCAAAGCCACCAGA
75636919 CGCTTCCTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 12 0.26
55 34 0.74
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (54 bp):
AGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCACCAGAAT
Found at i:75636916 original size:28 final size:28
Alignment explanation
Indices: 75636829--75636918 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
75636819 GTGACAGAGT
*
75636829 CACCAGATACAGATAA-TCGTGGCAAAGC
1 CACCAGAT-CAGATAATTTGTGGCAAAGC
* *
75636857 CACCAGAAT-AGAT-ATATGTGGCAGAGC
1 CACCAG-ATCAGATAATTTGTGGCAAAGC
*
75636884 CACCAGATCAGATAATTTGTGGCATAGC
1 CACCAGATCAGATAATTTGTGGCAAAGC
*
75636912 TACCAGA
1 CACCAGA
75636919 CGCTTCCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.06
27 23 0.44
28 24 0.46
29 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (28 bp):
CACCAGATCAGATAATTTGTGGCAAAGC
Found at i:75642734 original size:43 final size:43
Alignment explanation
Indices: 75642687--75642855 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 43
75642677 TTACCGAGAT
*
75642687 GTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATA
1 GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTATA
** * *
75642730 GTGATTATGTGTAAGACCATGTTTGAGACATTGGCATCGTTATA
1 GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTG-TATA
* * * *
75642774 -TGATTTCGTGTAAGACCCTGTC-GAGACAGTGGCATTG-ATA
1 GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTATA
* * * *
75642814 TGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 -GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
75642856 GAGCTATGTG
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
40 3 0.03
42 38 0.37
43 58 0.56
44 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
GTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTATA
Found at i:75657745 original size:257 final size:257
Alignment explanation
Indices: 75657284--75657801 Score: 1009
Period size: 257 Copynumber: 2.0 Consensus size: 257
75657274 ATGGACAAAA
75657284 ATTTAGACATGGATGGAATTTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTACATAATA
1 ATTTAGACATGGATGGAATTTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTACATAATA
75657349 AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
66 AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
75657414 GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTCAAGCTCAATAGTAAGTGCATTCAAGCCC
131 GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTCAAGCTCAATAGTAAGTGCATTCAAGCCC
75657479 CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCAGTTTACCTATTTCTACCATT
196 CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCAGTTTACCTATTTCTACCATT
* *
75657541 ATTTGGACATGGATGGAATTTTTAGAAAGTTTATTAGTAAGGGCATTTTGGTCATTTACATAATA
1 ATTTAGACATGGATGGAATTTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTACATAATA
75657606 AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
66 AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
75657671 GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTCAAGCTCAATAGTAAGTGCATTCAAGCCC
131 GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTCAAGCTCAATAGTAAGTGCATTCAAGCCC
*
75657736 CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCGGTTTACCTATTTCTACCATT
196 CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCAGTTTACCTATTTCTACCATT
75657798 ATTT
1 ATTT
75657802 CGAGTTAGGG
Statistics
Matches: 258, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
257 258 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (257 bp):
ATTTAGACATGGATGGAATTTTTAGAAAGTTTAGTAGTAAGGGCATTTTGGTCATTTACATAATA
AATGAAATAAAATGGGAAAAATAACACAAAAATGTGTTCATCCTCATTTAACTTGGCCGAAACTT
GCATGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTTCAAGCTCAATAGTAAGTGCATTCAAGCCC
CGTTTTTAATGTTCTTTACATTTTTGAAATCCTCGTAGCTCAGTTTACCTATTTCTACCATT
Found at i:75662374 original size:10 final size:11
Alignment explanation
Indices: 75662355--75662384 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
75662345 TTTTTCTAAG
75662355 ATGTGAATTGA
1 ATGTGAATTGA
75662366 ATG-GAATTGA
1 ATGTGAATTGA
75662376 ATGTGAATT
1 ATGTGAATT
75662385 TTATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:75662985 original size:24 final size:24
Alignment explanation
Indices: 75662958--75663018 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
75662948 GGCTTTTCGA
*
75662958 AGCTACCCGTTATTGGCT-TACATG
1 AGCTTCCCGTTATTGGCTCT-CATG
*
75662982 AGCTTCCCGATTA-TGGCTCTTATG
1 AGCTTCCCG-TTATTGGCTCTCATG
75663006 AGCTTCCCGTTAT
1 AGCTTCCCGTTAT
75663019 ACAGCCCAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 3 0.09
24 25 0.78
25 4 0.12
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (24 bp):
AGCTTCCCGTTATTGGCTCTCATG
Found at i:75663061 original size:25 final size:25
Alignment explanation
Indices: 75662963--75663075 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
75662953 TTCGAAGCTA
* *
75662963 CCCGTTAT-TGGCTTACATGAGCTT
1 CCCGTTATATGGCTCACATGAACTT
* ** *
75662987 CCCGAT-TATGGCTCTTATGAGCTT
1 CCCGTTATATGGCTCACATGAACTT
** * *
75663011 CCCGTTATACAGCCCAGAT-AAGCTT
1 CCCGTTATATGGCTCACATGAA-CTT
*
75663036 CCCGTTATATAGCTCACATGAACTT
1 CCCGTTATATGGCTCACATGAACTT
*
75663061 CCTGTTATATGGCTC
1 CCCGTTATATGGCTC
75663076 GAGAGAGGGG
Statistics
Matches: 69, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
23 1 0.01
24 24 0.35
25 42 0.61
26 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
CCCGTTATATGGCTCACATGAACTT
Found at i:75664879 original size:34 final size:34
Alignment explanation
Indices: 75664836--75664904 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
75664826 AGACCCTGTC
75664836 TAAGTGTACATTTTTCATAATTAAGCGGAGTTGT
1 TAAGTGTACATTTTTCATAATTAAGCGGAGTTGT
75664870 TAAGTGTACATTTTTCATAATTAAGCGGAGTTGT
1 TAAGTGTACATTTTTCATAATTAAGCGGAGTTGT
75664904 T
1 T
75664905 TGCGCGCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (34 bp):
TAAGTGTACATTTTTCATAATTAAGCGGAGTTGT
Found at i:75671589 original size:10 final size:11
Alignment explanation
Indices: 75671570--75671599 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
75671560 TTTGCCTAAG
75671570 ATGTGAATTGA
1 ATGTGAATTGA
75671581 ATG-GAATTGA
1 ATGTGAATTGA
75671591 ATGTGAATT
1 ATGTGAATT
75671600 TTATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:75672197 original size:24 final size:24
Alignment explanation
Indices: 75672168--75672239 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
75672158 TCTTGACTAA
*
75672168 TGGCTCTTCTGAGCTACCCGTTAT
1 TGGCTCTTCTGAGCTTCCCGTTAT
*
75672192 TGGCTC-ACATGAGCTTCCCGATTA-
1 TGGCTCTTC-TGAGCTTCCCG-TTAT
* *
75672216 TGGCTCTTATGAGCTTCCCATTAT
1 TGGCTCTTCTGAGCTTCCCGTTAT
75672240 ACAGCCTGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
23 4 0.10
24 32 0.82
25 3 0.08
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (24 bp):
TGGCTCTTCTGAGCTTCCCGTTAT
Found at i:75678945 original size:21 final size:21
Alignment explanation
Indices: 75678893--75678941 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
75678883 ACTCTCAACA
*
75678893 AAAAATAT-AAAAATAATTTTT
1 AAAAAT-TCAAAAATAATTTAT
75678914 AAAAATTCAAAAAT-ATTTAT
1 AAAAATTCAAAAATAATTTAT
75678934 AAAAATTC
1 AAAAATTC
75678942 CAAATTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTCAAAAATAATTTAT
Found at i:75681173 original size:3 final size:3
Alignment explanation
Indices: 75681159--75681189 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
75681149 CACCTAGTCC
*
75681159 ATG ATC ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
75681190 GACTGGCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:75682226 original size:29 final size:29
Alignment explanation
Indices: 75682150--75682218 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
75682140 AATCGTTTTT
75682150 AAACTCAAGTACTTAATTGGTACAAAAAG
1 AAACTCAAGTACTTAATTGGTACAAAAAG
75682179 AAACTCAAGTACTTAATTGGTACAAAAAG
1 AAACTCAAGTACTTAATTGGTACAAAAAG
75682208 AAACTCAAGTA
1 AAACTCAAGTA
75682219 TCAAATTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (29 bp):
AAACTCAAGTACTTAATTGGTACAAAAAG
Found at i:75682686 original size:23 final size:22
Alignment explanation
Indices: 75682661--75682703 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
75682651 TAAAAGTAAA
*
75682661 AAAAAAT-AAAATTCTTAAAAAT
1 AAAAAATCAAAA-TTTTAAAAAT
*
75682683 AAAAATTCAAAATTTTAAAAA
1 AAAAAATCAAAATTTTAAAAA
75682704 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAAAATCAAAATTTTAAAAAT
Found at i:75682717 original size:23 final size:23
Alignment explanation
Indices: 75682660--75682717 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
75682650 ATAAAAGTAA
*
75682660 AAAAAAATAAAATTCTTAAAAAT
1 AAAAATATAAAATTCTTAAAAAT
75682683 AAAAAT-TCAAAATT-TTAAAAAAT
1 AAAAATAT-AAAATTCTT-AAAAAT
* *
75682706 ATATATATAAAA
1 AAAAATATAAAA
75682718 ACTTATGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 3 0.10
23 25 0.86
24 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAATATAAAATTCTTAAAAAT
Found at i:75683148 original size:34 final size:35
Alignment explanation
Indices: 75683106--75683177 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
75683096 TTTATGTACT
75683106 TTTAATATTTTATAATTTT-T-TATTTTTATAAA-A
1 TTTAATATTTTATAATTTTATATATTTTT-TAAATA
*
75683139 TTTATATATTTTATGATTTTATATATTTTTTAAATA
1 TTTA-ATATTTTATAATTTTATATATTTTTTAAATA
75683175 TTT
1 TTT
75683178 CTTAACATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
33 4 0.12
34 14 0.41
35 5 0.15
36 11 0.32
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (35 bp):
TTTAATATTTTATAATTTTATATATTTTTTAAATA
Done.