Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 20 of 322
Found at i:5672043 original size:31 final size:30
Alignment explanation
Indices: 5672008--5672075 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
5671998 TATTTTATTG
5672008 TTCAAATTAATCCCTAT-ATATTAAA-TAAAAA
1 TTCAAATTAAT-CCT-TGA-ATTAAACTAAAAA
*
5672039 TTCAATTTAATCCTTGAATTAAACTAAAAA
1 TTCAAATTAATCCTTGAATTAAACTAAAAA
5672069 TTCAAAT
1 TTCAAAT
5672076 AAACTCATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 7 0.21
30 16 0.48
31 10 0.30
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (30 bp):
TTCAAATTAATCCTTGAATTAAACTAAAAA
Found at i:5672468 original size:16 final size:15
Alignment explanation
Indices: 5672433--5672468 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5672423 CTCATTTTAC
*
5672433 TTTTAAATAAAAAAA
1 TTTTAAACAAAAAAA
5672448 TTTTAAACAAAAAAA
1 TTTTAAACAAAAAAA
5672463 TCTTTA
1 T-TTTA
5672469 CTTTTGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
TTTTAAACAAAAAAA
Found at i:5691866 original size:21 final size:20
Alignment explanation
Indices: 5691813--5691866 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
5691803 AATTTTCTTA
*
5691813 ATTTAACTCAA-ATAAATTT
1 ATTTAACTCAACTTAAATTT
**
5691832 ATTTAACTTGACTTAAATTTT
1 ATTTAACTCAACTTAAA-TTT
*
5691853 ATTTCACTCAACTT
1 ATTTAACTCAACTT
5691867 GATTAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 9 0.33
20 4 0.15
21 14 0.52
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTAACTCAACTTAAATTT
Found at i:5694548 original size:166 final size:159
Alignment explanation
Indices: 5693966--5694662 Score: 846
Period size: 159 Copynumber: 4.5 Consensus size: 159
5693956 TCACATACGT
* * * * * *
5693966 TGTTTATATTCACTTTTTTTGCTCCACAAGCAATCCGAAACCATAAACAAAGGAATACTTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC-CTTTTT
* * *
5694031 TTTCTTTTTATAAATGGTTTTCTTGTTTCTTT-TCCGCTTTTT-AAATTCTTCATTCAATTCAAG
65 TTCCTTTTT-TAAATGGTTTTCTTGATTCTTTGT-TG-TTTTTAAAATTCTTCATTCAATTCAAG
*
5694094 TTCAAGAAACCATGCT--ATATATATATATATG
127 TTCAAGAAACCATACTAAATATATATATATATG
*
5694125 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
* * *
5694190 TCCTTTTTTTAATGGTTTTCTTGATTCTTTGTTGTTTTTAACATTCTTCGTTCAATTCAAGTTCA
66 TCCTTTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTCA
*
5694255 AGAAACCATGCTAAATATATATATATATG
131 AGAAACCATACTAAATATATATATATATG
*
5694284 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
*
5694349 TCCTGTTTTT-AATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCGTTCAATTCAAGTTC
66 TCCT-TTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTC
**
5694413 AAGAAACCATACTAAATATACATACATACATATACA
130 AAGAAACCATACTAAATAT--AT--AT--ATATATG
* * ** **
5694449 TATATTATATTCACTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATATATTTTT
1 TGT-TTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTT
* * * * *
5694514 CTCCTTTTTTAAATGGCTTTCTTGTTTCTTTGTTGTTTTTTAGATTCTTCATTCAATTCAAGTTC
65 TTCCTTTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTC
5694579 AAG-AA--AT-C-------------ATATG
130 AAGAAACCATACTAAATATATATATATATG
*
5694592 TGTTTATA-TCACTTTTCTTGCTACATAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
5694656 TCCTTTT
66 TCCTTTT
5694663 CTACTGTTGC
Statistics
Matches: 485, Mismatches: 40, Indels: 44
0.85 0.07 0.08
Matches are distributed among these distances:
141 56 0.12
142 5 0.01
143 5 0.01
156 5 0.01
157 56 0.12
158 14 0.03
159 207 0.43
160 5 0.01
161 2 0.00
162 1 0.00
163 4 0.01
165 14 0.03
166 111 0.23
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.43
Consensus pattern (159 bp):
TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
TCCTTTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTCA
AGAAACCATACTAAATATATATATATATG
Found at i:5694549 original size:325 final size:300
Alignment explanation
Indices: 5693966--5694811 Score: 842
Period size: 325 Copynumber: 2.8 Consensus size: 300
5693956 TCACATACGT
* * * * * *
5693966 TGTTTATATTCACTTTTTTTGCTCCACAAGCAATCCGAAACCATAAACAAAGGAATACTTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC-CTTTTT
* *
5694031 TTTCTTTTTATAAATGGTTTTCTTGTTTCTTTTCCGCTTTTTAAATTCTTCATTCAATTCAAGTT
65 TTCCTTTTTATAAATGGTTTTCTTGATTCTTTTCCGCTTTTTAAATTCTTCATTCAATTCAAGTT
* ** *
5694096 CAAGAAACCATGCTATATATATATATATGTGTTTATATTCACTTTTCTTGCTACACAAGCAAGCC
130 CAAGAAACCATACTATATATATATATACATATTTATATTCACTTTTCTTGCTACACAAGCAAGCC
* * * * *
5694161 AAAACCATAAACAAAGGCATGCCTTTTTTTCCTTTTTTTAATGGTTTTCTTGATTCTTTGTTGTT
195 AAAACCATAAACAAAGGCATACATTTTTCTCCTTTTTTAAATGGCTTTCTTGATTCTTTGTTGTT
*
5694226 TTTAACATTCTTCGTTCAATTCAAGTTCAAGAAACCATGCTAAATATATATATATATG
260 TTTAACATTCTTCATTCAATTCAAGTTCAAG-AA--AT-C-------------ATATG
*
5694284 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
* *
5694349 TCCTGTTTT-T-AATGGTTTTCTTGATTCTTTGT-TG-TTTTTAAAATTCTTCGTTCAATTCAAG
66 TCCT-TTTTATAAATGGTTTTCTTGATTCTTT-TCCGCTTTTT-AAATTCTTCATTCAATTCAAG
*
5694410 TTCAAGAAACCATACTAAATATACATACATACATATACATATATTATATTCACTTTTTTTGCTAC
128 TTCAAGAAACCATACT--ATAT--AT--AT--ATATACATAT-TTATATTCACTTTTCTTGCTAC
** * *
5694475 ACAAGCAAGCTGAAACCATAAACAAAGGCATATATTTTTCTCCTTTTTTAAATGGCTTTCTTGTT
184 ACAAGCAAGCCAAAACCATAAACAAAGGCATACATTTTTCTCCTTTTTTAAATGGCTTTCTTGAT
* *
5694540 TCTTTGTTGTTTTTTAGATTCTTCATTCAATTCAAGTTCAAGAAATCATATG
249 TCTTTGTTGTTTTTAACATTCTTCATTCAATTCAAGTTCAAGAAATCATATG
*
5694592 TGTTTATA-TCACTTTTCTTGCTACATAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
* * * *
5694656 TCC-TTTTCT-ACT-G-----TTG---C---T--GCTTTTTAGATTCTTCATTCAATTCATGTTC
66 TCCTTTTTATAAATGGTTTTCTTGATTCTTTTCCGCTTTTTAAATTCTTCATTCAATTCAAGTTC
* *
5694705 AAAAAACCATACTATATATATATAT--ATGTTTATATTCACTTTAATTTCTTGCTACACAAGTCA
131 AAGAAACCATACTATATATATATATACATATTTATATTCAC--T--TTTCTTGCTACACAAG-CA
* * * *
5694768 A-TCAAAACCATAAACAAAGGAATTAC-TTTTTCGCTTTTTTTAAA
191 AGCCAAAACCATAAACAAAGGCA-TACATTTTTCTCCTTTTTTAAA
5694812 ATGATTTTTT
Statistics
Matches: 464, Mismatches: 44, Indels: 73
0.80 0.08 0.13
Matches are distributed among these distances:
281 10 0.02
282 3 0.01
283 1 0.00
284 4 0.01
285 48 0.10
286 7 0.02
288 2 0.00
290 4 0.01
292 34 0.07
293 6 0.01
297 1 0.00
300 3 0.01
305 5 0.01
306 3 0.01
307 57 0.12
308 13 0.03
315 5 0.01
316 55 0.12
317 11 0.02
318 60 0.13
320 2 0.00
321 1 0.00
322 4 0.01
324 9 0.02
325 116 0.25
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (300 bp):
TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
TCCTTTTTATAAATGGTTTTCTTGATTCTTTTCCGCTTTTTAAATTCTTCATTCAATTCAAGTTC
AAGAAACCATACTATATATATATATACATATTTATATTCACTTTTCTTGCTACACAAGCAAGCCA
AAACCATAAACAAAGGCATACATTTTTCTCCTTTTTTAAATGGCTTTCTTGATTCTTTGTTGTTT
TTAACATTCTTCATTCAATTCAAGTTCAAGAAATCATATG
Found at i:5695103 original size:26 final size:25
Alignment explanation
Indices: 5695054--5695103 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
5695044 GAGGTTGAGA
*
5695054 GTTTAATGAAACGATACGTTTTGAT
1 GTTTAATGAAACGATACGTATTGAT
* *
5695079 GTTTAATGAAAACGGTGCGTATTGA
1 GTTTAATG-AAACGATACGTATTGA
5695104 AAGTTTGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (25 bp):
GTTTAATGAAACGATACGTATTGAT
Found at i:5697574 original size:37 final size:36
Alignment explanation
Indices: 5697532--5697682 Score: 214
Period size: 37 Copynumber: 4.1 Consensus size: 36
5697522 TAATTCATAG
*
5697532 GAATATAGCTTTCTTGTTAGTATTCTCATTCTAATT-T
1 GAATATACCTTTCTTGTT-GTATTCTCATTCT-ATTAT
5697569 GAATATACCTTTCTTGCTTGTATTCTCATTCTATTAT
1 GAATATACCTTTCTTG-TTGTATTCTCATTCTATTAT
*
5697606 GAATATACCTTTCTTCCTTGTATTCTCATTCTATTAT
1 GAATATACCTTTCTT-GTTGTATTCTCATTCTATTAT
*
5697643 GAATATACCTTTCTTGTTCGTATTCTCGTTCTATTGAT
1 GAATATACCTTTCTTGTT-GTATTCTCATTCTATT-AT
5697681 GA
1 GA
5697683 TTAATGTTGC
Statistics
Matches: 105, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
36 5 0.05
37 94 0.90
38 6 0.06
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.50
Consensus pattern (36 bp):
GAATATACCTTTCTTGTTGTATTCTCATTCTATTAT
Found at i:5699387 original size:17 final size:18
Alignment explanation
Indices: 5699356--5699389 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5699346 TATTTAACCT
5699356 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
5699374 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
5699390 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:5704129 original size:50 final size:50
Alignment explanation
Indices: 5704011--5704303 Score: 406
Period size: 50 Copynumber: 5.8 Consensus size: 50
5704001 GATCATAACA
* * ** * * *
5704011 TGCCAAAGCCATGTCCCAGACATGATCTTACATGGGATGTTCTCATGTAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * ** *
5704062 TACCCATGCGATGTCCCAGACATGGTCTTACGGGGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
5704112 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
5704162 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACGTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
5704212 TGCCAATGCCATGTCCCAGACATGGCCTTACATGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
5704262 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
5704304 TTACCCAAAT
Statistics
Matches: 214, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
50 184 0.86
51 30 0.14
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:5722305 original size:17 final size:18
Alignment explanation
Indices: 5722274--5722307 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5722264 AATTTAATTT
5722274 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
5722292 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
5722308 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:5722379 original size:27 final size:25
Alignment explanation
Indices: 5722342--5722415 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
5722332 TTTACAAATT
* * *
5722342 TTAATCATTTTGTTTTTTTT-CATAAG
1 TTAAT-ATTTT-TTTTTTTTGTACAAC
*
5722368 TTAATATTTTTTATTTTTGTACAAC
1 TTAATATTTTTTTTTTTTGTACAAC
*
5722393 TTAATATTTTTTATTTTTGTACA
1 TTAATATTTTTTTTTTTTGTACA
5722416 TCCAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 7 0.16
25 31 0.72
26 5 0.12
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (25 bp):
TTAATATTTTTTTTTTTTGTACAAC
Found at i:5727561 original size:32 final size:30
Alignment explanation
Indices: 5727501--5727566 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
5727491 TCAAAATTAA
* * *
5727501 AAAAAATATAGAAATTGAAGTTGACAAATT
1 AAAAAATATACAAATTAAAATTGACAAATT
*
5727531 CAAAAAATATACATATTAAAATTGATCAAATT
1 -AAAAAATATACAAATTAAAATTGA-CAAATT
5727563 AAAA
1 AAAA
5727567 GTGCACTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (30 bp):
AAAAAATATACAAATTAAAATTGACAAATT
Found at i:5728862 original size:159 final size:153
Alignment explanation
Indices: 5728564--5729092 Score: 622
Period size: 159 Copynumber: 3.5 Consensus size: 153
5728554 CACATACGCG
* * * * *
5728564 GTTTATATTCACTTTTTTTGCTCCACAAGCAATCCAAAACCATAAACAAAGGAATAGTTTTTTTT
1 GTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTT
* * *
5728629 TGCCTTTTTTAAATGGTTTTCTTGTTTCTTT-TCCGCTTTTTAAATTATTCATTCAATTCAAGTT
66 TTCCTTTTTTAAATGGTTTTCTTGTTTCTTTGT-TGCTTTTTAAATTCTTCATTCAATTCAAGTT
5728693 CAAAAAACCATACTAAATATATATATAT
130 C-AAAAACCATACT-AA-ATATATAT-T
* *
5728721 GTTTATATTTACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCTTTTTTTT
1 GTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC--TTTTTT
* *
5728786 TTTTCCTTTTTCT-AATGATTTTCTTGATTCTTTGTTG-TTTTTAAATCTCTTCATTCAATTCAA
64 TTTTCCTTTTT-TAAATGGTTTTCTTGTTTCTTTGTTGCTTTTTAAAT-TCTTCATTCAATTCAA
5728849 GTTCAAGAAACCATACTAAATATATATT
127 GTTCAA-AAACCATACTAAATATATATT
* ** *
5728877 -TTTATATTCACTTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC--ATTTT
1 GTTTATATTCAC-TTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
* * * * * *
5728939 TATCCTTTTTTAAATGGCTTTCTTGTTTCTTTGTTGTTTTTTAGATTCTTCGTTCAATTTAAGTT
65 TTTCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGCTTTTTAAATTCTTCATTCAATTCAAGTT
*
5729004 C-AAAA--A-AC----TATAT-GT
130 CAAAAACCATACTAAATATATATT
* *
5729019 GTTTATATTCACTTTTCTTGCTACATAAGCAAGCCCAAACCATAAACAAAGGCATAC-TTTTTTT
1 GTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTT
5729083 TTCCTTTTTT
66 TTCCTTTTTT
5729093 TACCGTTGCT
Statistics
Matches: 329, Mismatches: 32, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
142 42 0.13
143 30 0.09
147 2 0.01
148 1 0.00
150 3 0.01
151 2 0.01
152 52 0.16
153 8 0.02
155 10 0.03
156 42 0.13
157 58 0.18
158 13 0.04
159 64 0.19
160 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (153 bp):
GTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTT
TTCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGCTTTTTAAATTCTTCATTCAATTCAAGTTC
AAAAACCATACTAAATATATATT
Found at i:5728996 original size:152 final size:150
Alignment explanation
Indices: 5728565--5729092 Score: 619
Period size: 157 Copynumber: 3.5 Consensus size: 150
5728555 ACATACGCGG
* * * * *
5728565 TTTATATTCACTTTTTTTGCTCCACAAGCAATCCAAAACCATAAACAAAGGAATAGTTTTTTTTT
1 TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTTT
* *
5728630 GCCTTTTTTAAATGGTTTTCTTGTTTCTTT-TCCGCTTTTTAAATTATTCATTCAATTCAAGTTC
66 -CCTTTTTTAAATGGTTTTCTTGTTTCTTTGT-TG-TTTTTAAATTCTTCATTCAATTCAAGTTC
5728694 AAAAAACCATACTAAATATATATATAT
128 -AAAAACCATACT-AA-ATATATAT-T
* *
5728721 GTTTATATTTACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCTTTTTTTT
1 -TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC---TTTTT
* *
5728786 TTTTCCTTTTTCT-AATGATTTTCTTGATTCTTTGTTGTTTTTAAATCTCTTCATTCAATTCAAG
62 TTTTCCTTTTT-TAAATGGTTTTCTTGTTTCTTTGTTGTTTTTAAAT-TCTTCATTCAATTCAAG
5728850 TTCAAGAAACCATACTAAATATATATT
125 TTCAA-AAACCATACTAAATATATATT
* ** * *
5728877 TTTATATTCACTTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC-ATTTTTA
1 TTTATATTCAC-TTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTT
* * * *
5728941 TCCTTTTTTAAATGGCTTTCTTGTTTCTTTGTTGTTTTTTAGATTCTTCGTTCAATTTAAGTTC-
65 TCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTG-TTTTTAAATTCTTCATTCAATTCAAGTTCA
* *
5729005 AAAA--A-AC----TATATGTG
129 AAAACCATACTAAATATATATT
* *
5729020 TTTATATTCACTTTTCTTGCTACATAAGCAAGCCCAAACCATAAACAAAGGCATACTTTTTTTTT
1 TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTTT
5729085 CCTTTTTT
66 CCTTTTTT
5729093 TACCGTTGCT
Statistics
Matches: 328, Mismatches: 32, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
142 41 0.12
143 31 0.09
147 2 0.01
148 1 0.00
150 3 0.01
151 2 0.01
152 52 0.16
153 8 0.02
155 10 0.03
156 42 0.13
157 57 0.17
158 13 0.04
159 55 0.17
160 11 0.03
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.45
Consensus pattern (150 bp):
TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTTT
CCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGTTTTTAAATTCTTCATTCAATTCAAGTTCAAA
AACCATACTAAATATATATT
Found at i:5729797 original size:15 final size:16
Alignment explanation
Indices: 5729779--5729808 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5729769 TTAATCACTA
5729779 AATTATT-AATTTTTT
1 AATTATTAAATTTTTT
5729794 AATTATTAAATTTTT
1 AATTATTAAATTTTT
5729809 CGAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTATTAAATTTTTT
Found at i:5730191 original size:12 final size:12
Alignment explanation
Indices: 5730188--5730234 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 12
5730178 AATTTAAAAC
5730188 TTAAAACTTAAA
1 TTAAAACTTAAA
5730200 TTAAAACTTAATTTAA
1 TTAAAACTT-A---AA
5730216 TTAAAACTTAAA
1 TTAAAACTTAAA
5730228 TTAAAAC
1 TTAAAAC
5730235 AAAAGTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 18 0.58
13 1 0.03
15 1 0.03
16 11 0.35
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAAAACTTAAA
Found at i:5730243 original size:28 final size:28
Alignment explanation
Indices: 5730188--5730243 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
5730178 AATTTAAAAC
** *
5730188 TTAAAACTTAAATTAAAACTTAATTTAA
1 TTAAAACTTAAATTAAAACAAAAGTTAA
5730216 TTAAAACTTAAATTAAAACAAAAGTTAA
1 TTAAAACTTAAATTAAAACAAAAGTTAA
5730244 ATTTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (28 bp):
TTAAAACTTAAATTAAAACAAAAGTTAA
Found at i:5730525 original size:15 final size:15
Alignment explanation
Indices: 5730507--5730545 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
5730497 TAAAATGTAG
5730507 TATATTAAAAATATA
1 TATATTAAAAATATA
*
5730522 TATATT--TAATATA
1 TATATTAAAAATATA
5730535 TATATTAAAAA
1 TATATTAAAAA
5730546 AATTACCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATATTAAAAATATA
Found at i:5732328 original size:37 final size:36
Alignment explanation
Indices: 5732268--5732381 Score: 138
Period size: 37 Copynumber: 3.1 Consensus size: 36
5732258 TAATTCATAG
* * *
5732268 GAATATAGCTTTCGTGTTTGTATTCTCATTCGATTAT
1 GAATATACCTTTCTTG-TTGTATTCTCATTCTATTAT
*
5732305 GAATATACCTTTCTTGTTAGTATTCTCATTCTATTTT
1 GAATATACCTTTCTTGTT-GTATTCTCATTCTATTAT
* *
5732342 GAACATACCTTTCTTGCGTGTATTCTCATTCTATTGAT
1 GAATATACCTTTCTTG-TTGTATTCTCATTCTATT-AT
5732380 GA
1 GA
5732382 TTAATGCTGC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
36 2 0.03
37 61 0.91
38 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (36 bp):
GAATATACCTTTCTTGTTGTATTCTCATTCTATTAT
Found at i:5733855 original size:17 final size:18
Alignment explanation
Indices: 5733824--5733857 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5733814 ATTTTAACTT
5733824 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
5733842 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
5733858 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:5735002 original size:9 final size:9
Alignment explanation
Indices: 5734984--5735013 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
5734974 ACTGTTCAAT
*
5734984 AAAGTATTC
1 AAAGTTTTC
5734993 AAAGTTTTC
1 AAAGTTTTC
5735002 AAAGTTTTC
1 AAAGTTTTC
5735011 AAA
1 AAA
5735014 TAGATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (9 bp):
AAAGTTTTC
Found at i:5735409 original size:4 final size:4
Alignment explanation
Indices: 5735400--5735431 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
5735390 TATTTTTATT
5735400 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
5735432 CTTAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:5739205 original size:21 final size:19
Alignment explanation
Indices: 5739181--5739219 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
5739171 ATTTGCCTCC
5739181 CTATCTAAGACCATGTTTCCT
1 CTATCTAAG-CCAT-TTTCCT
5739202 CTATCTAAGCCATTTTCC
1 CTATCTAAGCCATTTTCC
5739220 GGAGGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (19 bp):
CTATCTAAGCCATTTTCCT
Found at i:5742784 original size:20 final size:20
Alignment explanation
Indices: 5742755--5742806 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
5742745 TCTGCTTTTT
5742755 ATTATTTTATTTTAAAA-TA
1 ATTATTTTATTTTAAAATTA
*
5742774 ATTATTTTTATCTTAAAATTA
1 ATTA-TTTTATTTTAAAATTA
5742795 ATTAGTTTTATT
1 ATTA-TTTTATT
5742807 ATCATTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
21 12 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTATTTTATTTTAAAATTA
Found at i:5743419 original size:16 final size:17
Alignment explanation
Indices: 5743398--5743431 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5743388 CATACATATT
*
5743398 TACATATATTTTT-ACA
1 TACATAGATTTTTCACA
5743414 TACATAGATTTTTCACA
1 TACATAGATTTTTCACA
5743431 T
1 T
5743432 TTTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (17 bp):
TACATAGATTTTTCACA
Found at i:5748984 original size:31 final size:31
Alignment explanation
Indices: 5748943--5749019 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
5748933 TTAATACTTG
*
5748943 TTTTGTCCCCTGTAATATAG-GAAAAATCTCA
1 TTTTGACCCCTGTAATATAGTG-AAAATCTCA
*
5748974 TTTTGACCCCTGTAATATAGTGAAAATCTTA
1 TTTTGACCCCTGTAATATAGTGAAAATCTCA
*
5749005 TTTTGATCCCTGTAA
1 TTTTGACCCCTGTAA
5749020 ATTGCCTGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (31 bp):
TTTTGACCCCTGTAATATAGTGAAAATCTCA
Found at i:5754153 original size:48 final size:48
Alignment explanation
Indices: 5754082--5754178 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
5754072 AGAAGCCCAC
*
5754082 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAATTTT
1 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
5754130 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
1 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
5754178 T
1 T
5754179 GATATCCCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.21, C:0.25, G:0.05, T:0.49
Consensus pattern (48 bp):
TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
Found at i:5757427 original size:159 final size:154
Alignment explanation
Indices: 5757163--5757811 Score: 620
Period size: 150 Copynumber: 4.3 Consensus size: 154
5757153 TTTTTTGCAC
* * * *
5757163 CACAAGCAATCCGAAACCATAAACAAAGG-A-ATACTTTTTTGCCTTTTTTAAATGGTTTTCTTC
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGGTTTTCTTG
* *
5757226 TTTCTTT-TCCGCCTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTAAATATATAT
66 TTTCTTTGT-TG-TTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACT---TATA-A-
*
5757290 ATATATATGTTTATATTCGCTTTTCTTGCTA
124 ATATATATGTTTATATTCACTTTTCTTGCTA
* * * *
5757321 CACAAGCAAGCCAAAACCATAAACAAA-GCATGCATTTTTTTTCCTTTTTTTAATGGTTTTCTTG
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGGTTTTCTTG
*
5757385 ATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTCAAGAAACCATA-TTA-AAA-A-AT
66 TTTCTTTGTTGTTTTT-AAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTTATAAATATAT
* * *
5757446 ATATTTATATTCGCTTTTTTTGCTA
130 ATGTTTATATTCACTTTTCTTGCTA
* *
5757471 CACAAGCAAGCTGAAACCATAAACAAAGGCATAC-CTTTTTCTCCTTTTTTAAATGGCTTTTTTT
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGG----TTTT
* * * *
5757535 TTTGTTTCTTTGTTGTTTTTTAGATTCTTCGTTCAGTTCAAGTTCAAGAAACCATAC---TAAAT
62 CTTGTTTCTTTGTTG-TTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTTATAAAT
*
5757597 ATATGTGTTTATATTCACTTTTCTTGCTA
126 ATATATGTTTATATTCACTTTTCTTGCTA
* * *
5757626 CATAAGCAAGCCGAAACCATAAACAAAGGCAAAC-CTTTTTTTTCCCTTTTT--A------TCTT
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACAC-TTTTTTTCCTTTTTTAAATGGTTTTCTT
* * * * *
5757682 G---C--TG--CTTTTTAGATTTTTTATTCAATTCCTAAGTTTAAGAAACCATACTATATATATA
65 GTTTCTTTGTTGTTTTTAAATTCTTCATTCAATT-C-AAGTTCAAGAAACCATACT-TATA-A-A
5757740 TATATATGTGTTTATATTCACTTTTCTTGCTA
125 TATATA--TGTTTATATTCACTTTTCTTGCTA
5757772 CACAAGTCAA-CCGAAACCATAAACAAAGGCATA-ACTTTTT
1 CACAAG-CAAGCCGAAACCATAAACAAAGGCATACACTTTTT
5757812 CGTTTTTTTT
Statistics
Matches: 421, Mismatches: 43, Indels: 67
0.79 0.08 0.13
Matches are distributed among these distances:
136 18 0.04
137 1 0.00
138 17 0.04
139 2 0.00
141 1 0.00
142 2 0.00
143 1 0.00
144 10 0.02
145 5 0.01
146 52 0.12
147 3 0.01
150 69 0.16
151 6 0.01
152 1 0.00
153 4 0.01
154 52 0.12
155 62 0.15
156 13 0.03
157 1 0.00
158 31 0.07
159 69 0.16
160 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (154 bp):
CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGGTTTTCTTG
TTTCTTTGTTGTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTTATAAATATATA
TGTTTATATTCACTTTTCTTGCTA
Found at i:5757692 original size:136 final size:141
Alignment explanation
Indices: 5757551--5757811 Score: 356
Period size: 146 Copynumber: 1.9 Consensus size: 141
5757541 TCTTTGTTGT
* *
5757551 TTTTTAGATTCTTCGTTCAGTT-C-AAGTTCAAGAAACCATAC-TA-A-ATATATGTGTTTATAT
1 TTTTTAGATTCTTCATTCAATTCCTAAGTTCAAGAAACCATACATATATATATATGTGTTTATAT
*
5757611 TCACTTTTCTTGCTACATAAG-CAAGCCGAAACCATAAACAAAGGCA-AACCTTTTTTTTCCCTT
66 TCACTTTTCTTGCTACACAAGTCAA-CCGAAACCATAAACAAAGGCATAA-CTTTTTTTTCCCTT
5757674 TTTATCTTGCTGC
129 TTTATCTTGCTGC
* * *
5757687 TTTTTAGATTTTTTATTCAATTCCTAAGTTTAAGAAACCATACTATATATATATATATATGTGTT
1 TTTTTAGATTCTTCATTCAATTCCTAAGTTCAAGAAACCATAC-----ATATATATATATGTGTT
5757752 TATATTCACTTTTCTTGCTACACAAGTCAACCGAAACCATAAACAAAGGCATAACTTTTT
61 TATATTCACTTTTCTTGCTACACAAGTCAACCGAAACCATAAACAAAGGCATAACTTTTT
5757812 CGTTTTTTTT
Statistics
Matches: 107, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
136 18 0.17
137 1 0.01
138 17 0.16
144 2 0.02
145 1 0.01
146 63 0.59
147 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (141 bp):
TTTTTAGATTCTTCATTCAATTCCTAAGTTCAAGAAACCATACATATATATATATGTGTTTATAT
TCACTTTTCTTGCTACACAAGTCAACCGAAACCATAAACAAAGGCATAACTTTTTTTTCCCTTTT
TATCTTGCTGC
Found at i:5758641 original size:22 final size:23
Alignment explanation
Indices: 5758597--5758645 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
5758587 TTATAGTTCA
5758597 AATCCTAAAAATTTCAATAAATTT
1 AATCCTAAAAATTT-AATAAATTT
*
5758621 AATCCTCAAAATTT-ATAAATTT
1 AATCCTAAAAATTTAATAAATTT
5758643 AAT
1 AAT
5758646 TTTAATTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.46
24 13 0.54
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
AATCCTAAAAATTTAATAAATTT
Found at i:5760999 original size:48 final size:48
Alignment explanation
Indices: 5760928--5761024 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
5760918 AGAAGCCCAC
*
5760928 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAATTTT
1 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
5760976 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
1 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
5761024 T
1 T
5761025 GATATCCCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.21, C:0.25, G:0.05, T:0.49
Consensus pattern (48 bp):
TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
Found at i:5764266 original size:159 final size:154
Alignment explanation
Indices: 5764002--5764650 Score: 620
Period size: 150 Copynumber: 4.3 Consensus size: 154
5763992 TTTTTTGCAC
* * * *
5764002 CACAAGCAATCCGAAACCATAAACAAAGG-A-ATACTTTTTTGCCTTTTTTAAATGGTTTTCTTC
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGGTTTTCTTG
* *
5764065 TTTCTTT-TCCGCCTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTAAATATATAT
66 TTTCTTTGT-TG-TTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACT---TATA-A-
*
5764129 ATATATATGTTTATATTCGCTTTTCTTGCTA
124 ATATATATGTTTATATTCACTTTTCTTGCTA
* * * *
5764160 CACAAGCAAGCCAAAACCATAAACAAA-GCATGCATTTTTTTTCCTTTTTTTAATGGTTTTCTTG
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGGTTTTCTTG
*
5764224 ATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTCAAGAAACCATA-TTA-AAA-A-AT
66 TTTCTTTGTTGTTTTT-AAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTTATAAATATAT
* * *
5764285 ATATTTATATTCGCTTTTTTTGCTA
130 ATGTTTATATTCACTTTTCTTGCTA
* *
5764310 CACAAGCAAGCTGAAACCATAAACAAAGGCATAC-CTTTTTCTCCTTTTTTAAATGGCTTTTTTT
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGG----TTTT
* * * *
5764374 TTTGTTTCTTTGTTGTTTTTTAGATTCTTCGTTCAGTTCAAGTTCAAGAAACCATAC---TAAAT
62 CTTGTTTCTTTGTTG-TTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTTATAAAT
*
5764436 ATATGTGTTTATATTCACTTTTCTTGCTA
126 ATATATGTTTATATTCACTTTTCTTGCTA
* * *
5764465 CATAAGCAAGCCGAAACCATAAACAAAGGCAAAC-CTTTTTTTTCCCTTTTT--A------TCTT
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACAC-TTTTTTTCCTTTTTTAAATGGTTTTCTT
* * * * *
5764521 G---C--TG--CTTTTTAGATTTTTTATTCAATTCCTAAGTTTAAGAAACCATACTATATATATA
65 GTTTCTTTGTTGTTTTTAAATTCTTCATTCAATT-C-AAGTTCAAGAAACCATACT-TATA-A-A
5764579 TATATATGTGTTTATATTCACTTTTCTTGCTA
125 TATATA--TGTTTATATTCACTTTTCTTGCTA
5764611 CACAAGTCAA-CCGAAACCATAAACAAAGGCATA-ACTTTTT
1 CACAAG-CAAGCCGAAACCATAAACAAAGGCATACACTTTTT
5764651 CGTTTTTTTT
Statistics
Matches: 421, Mismatches: 43, Indels: 67
0.79 0.08 0.13
Matches are distributed among these distances:
136 18 0.04
137 1 0.00
138 17 0.04
139 2 0.00
141 1 0.00
142 2 0.00
143 1 0.00
144 10 0.02
145 5 0.01
146 52 0.12
147 3 0.01
150 69 0.16
151 6 0.01
152 1 0.00
153 4 0.01
154 52 0.12
155 62 0.15
156 13 0.03
157 1 0.00
158 31 0.07
159 69 0.16
160 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (154 bp):
CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGGTTTTCTTG
TTTCTTTGTTGTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTTATAAATATATA
TGTTTATATTCACTTTTCTTGCTA
Found at i:5764531 original size:136 final size:141
Alignment explanation
Indices: 5764390--5764650 Score: 356
Period size: 146 Copynumber: 1.9 Consensus size: 141
5764380 TCTTTGTTGT
* *
5764390 TTTTTAGATTCTTCGTTCAGTT-C-AAGTTCAAGAAACCATAC-TA-A-ATATATGTGTTTATAT
1 TTTTTAGATTCTTCATTCAATTCCTAAGTTCAAGAAACCATACATATATATATATGTGTTTATAT
*
5764450 TCACTTTTCTTGCTACATAAG-CAAGCCGAAACCATAAACAAAGGCA-AACCTTTTTTTTCCCTT
66 TCACTTTTCTTGCTACACAAGTCAA-CCGAAACCATAAACAAAGGCATAA-CTTTTTTTTCCCTT
5764513 TTTATCTTGCTGC
129 TTTATCTTGCTGC
* * *
5764526 TTTTTAGATTTTTTATTCAATTCCTAAGTTTAAGAAACCATACTATATATATATATATATGTGTT
1 TTTTTAGATTCTTCATTCAATTCCTAAGTTCAAGAAACCATAC-----ATATATATATATGTGTT
5764591 TATATTCACTTTTCTTGCTACACAAGTCAACCGAAACCATAAACAAAGGCATAACTTTTT
61 TATATTCACTTTTCTTGCTACACAAGTCAACCGAAACCATAAACAAAGGCATAACTTTTT
5764651 CGTTTTTTTT
Statistics
Matches: 107, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
136 18 0.17
137 1 0.01
138 17 0.16
144 2 0.02
145 1 0.01
146 63 0.59
147 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (141 bp):
TTTTTAGATTCTTCATTCAATTCCTAAGTTCAAGAAACCATACATATATATATATGTGTTTATAT
TCACTTTTCTTGCTACACAAGTCAACCGAAACCATAAACAAAGGCATAACTTTTTTTTCCCTTTT
TATCTTGCTGC
Found at i:5765480 original size:22 final size:23
Alignment explanation
Indices: 5765436--5765484 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
5765426 TTATAGTTCA
5765436 AATCCTAAAAATTTCAATAAATTT
1 AATCCTAAAAATTT-AATAAATTT
*
5765460 AATCCTCAAAATTT-ATAAATTT
1 AATCCTAAAAATTTAATAAATTT
5765482 AAT
1 AAT
5765485 TTTAATTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.46
24 13 0.54
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
AATCCTAAAAATTTAATAAATTT
Found at i:5766720 original size:32 final size:32
Alignment explanation
Indices: 5766684--5766748 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
5766674 GTTAAGGGTC
5766684 AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
1 AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
5766716 AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
1 AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
5766748 A
1 A
5766749 ATATTGAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (32 bp):
AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
Found at i:5767379 original size:37 final size:36
Alignment explanation
Indices: 5767327--5767459 Score: 176
Period size: 37 Copynumber: 3.6 Consensus size: 36
5767317 AGGAACATGG
*
5767327 CTTTCTTGTTTGTATTCTCATTCGATTATGAATATAC
1 CTTTCTTG-TTGTATTCTCATTCTATTATGAATATAC
* * * * *
5767364 CTTTCTTGTTAGTATTCTCATTATTTTTTTAACATAC
1 CTTTCTTGTT-GTATTCTCATTCTATTATGAATATAC
5767401 CTTTCTTGCTTGTATTCTCATTCTATTATGAATATAC
1 CTTTCTTG-TTGTATTCTCATTCTATTATGAATATAC
5767438 CTTTCTTGTTCGTATTCTCATT
1 CTTTCTTGTT-GTATTCTCATT
5767460 ATTTTTTTGC
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
36 4 0.05
37 76 0.93
38 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (36 bp):
CTTTCTTGTTGTATTCTCATTCTATTATGAATATAC
Found at i:5767405 original size:74 final size:74
Alignment explanation
Indices: 5767327--5767467 Score: 255
Period size: 74 Copynumber: 1.9 Consensus size: 74
5767317 AGGAACATGG
*
5767327 CTTTCTTGTTTGTATTCTCATTCGATTATGAATATACCTTTCTTGTTAGTATTCTCATTATTTTT
1 CTTTCTTGCTTGTATTCTCATTCGATTATGAATATACCTTTCTTGTTAGTATTCTCATTATTTTT
5767392 TTAACATAC
66 TTAACATAC
* *
5767401 CTTTCTTGCTTGTATTCTCATTCTATTATGAATATACCTTTCTTGTTCGTATTCTCATTATTTTT
1 CTTTCTTGCTTGTATTCTCATTCGATTATGAATATACCTTTCTTGTTAGTATTCTCATTATTTTT
5767466 TT
66 TT
5767468 GCTTGCAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (74 bp):
CTTTCTTGCTTGTATTCTCATTCGATTATGAATATACCTTTCTTGTTAGTATTCTCATTATTTTT
TTAACATAC
Found at i:5769103 original size:17 final size:18
Alignment explanation
Indices: 5769072--5769105 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5769062 AATTTAATTT
5769072 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
5769090 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
5769106 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:5769177 original size:27 final size:25
Alignment explanation
Indices: 5769140--5769213 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
5769130 TTTACAAATT
* * *
5769140 TTAATCATTTTGTTTTTTTT-CATAAG
1 TTAAT-ATTTT-TTTTTTTTGTACAAC
*
5769166 TTAATATTTTTTATTTTTGTACAAC
1 TTAATATTTTTTTTTTTTGTACAAC
*
5769191 TTAATATTTTTTATTTTTGTACA
1 TTAATATTTTTTTTTTTTGTACA
5769214 TCCAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 7 0.16
25 31 0.72
26 5 0.12
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (25 bp):
TTAATATTTTTTTTTTTTGTACAAC
Found at i:5769847 original size:36 final size:36
Alignment explanation
Indices: 5769800--5769893 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
5769790 TACGATCGTT
* *
5769800 TACGATACTATTCACGTATACAACACTATTTACGTA
1 TACGATACTATTCACGTATACAACACTATTCACATA
* **
5769836 TACGATACTATTCACATATACGGCACTATTCACATA
1 TACGATACTATTCACGTATACAACACTATTCACATA
*
5769872 TAC-AGTACTGTTCACGTATACA
1 TACGA-TACTATTCACGTATACA
5769894 GTAGTTGGGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (36 bp):
TACGATACTATTCACGTATACAACACTATTCACATA
Found at i:5769894 original size:18 final size:18
Alignment explanation
Indices: 5769805--5769896 Score: 96
Period size: 18 Copynumber: 5.1 Consensus size: 18
5769795 TCGTTTACGA
*
5769805 TACTATTCACGTATACAA
1 TACTATTCACGTATACAG
* *
5769823 CACTATTTACGTATAC-G
1 TACTATTCACGTATACAG
* *
5769840 ATACTATTCACATATACGG
1 -TACTATTCACGTATACAG
* *
5769859 CACTATTCACATATACAG
1 TACTATTCACGTATACAG
*
5769877 TACTGTTCACGTATACAG
1 TACTATTCACGTATACAG
5769895 TA
1 TA
5769897 GTTGGGATTG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
18 60 0.98
19 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (18 bp):
TACTATTCACGTATACAG
Found at i:5773852 original size:11 final size:11
Alignment explanation
Indices: 5773836--5773866 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5773826 ATACCCATAC
5773836 CCCATACCTTG
1 CCCATACCTTG
*
5773847 CCCATACCTTT
1 CCCATACCTTG
5773858 CCCATACCT
1 CCCATACCT
5773867 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:5776678 original size:19 final size:19
Alignment explanation
Indices: 5776632--5776679 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
5776622 GTATATATTT
5776632 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
5776650 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
5776669 TAAATTTTATT
1 TAAATTTTATT
5776680 CATATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:5776728 original size:42 final size:42
Alignment explanation
Indices: 5776691--5776771 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
5776681 ATATTTTATT
* *
5776691 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTTTTCC
* *
5776733 TTATGTTTTAGTAGTTGATTAGAATAAATGAATTATTTT
1 TTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTTT
5776772 CCCAATTTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.51
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTGATTAGAATAAAGGAATTATTTTTCC
Found at i:5777434 original size:11 final size:11
Alignment explanation
Indices: 5777418--5777448 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5777408 AAGTATGGGT
5777418 AGGTATGGGAA
1 AGGTATGGGAA
*
5777429 AGGTATGGGCA
1 AGGTATGGGAA
5777440 AGGTATGGG
1 AGGTATGGG
5777449 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:5781525 original size:18 final size:18
Alignment explanation
Indices: 5781502--5781558 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
5781492 CCCAACTACT
* *
5781502 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTGCC
5781520 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
5781538 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
5781556 GTA
1 GTA
5781559 AACGGTCGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:5782745 original size:2 final size:2
Alignment explanation
Indices: 5782738--5782763 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5782728 CAGTCCAAGT
5782738 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
5782764 CACACACACA
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5785143 original size:19 final size:21
Alignment explanation
Indices: 5785114--5785162 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
5785104 TGTTTAATTT
5785114 TTTTAATTTAAATCGA-ATAAA
1 TTTT-ATTTAAATCGACATAAA
* *
5785135 -TTTATTTAACTCGACTTAAA
1 TTTTATTTAAATCGACATAAA
5785155 TTTTATTT
1 TTTTATTT
5785163 TACTCAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 7 0.29
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTATTTAAATCGACATAAA
Found at i:5785161 original size:21 final size:21
Alignment explanation
Indices: 5785114--5785172 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
5785104 TGTTTAATTT
* *
5785114 TTTTAATTTAAATCGA-ATAAA
1 TTTT-ATTTAACTCGACTTAAA
5785135 -TTTATTTAACTCGACTTAAA
1 TTTTATTTAACTCGACTTAAA
* *
5785155 TTTTATTTTACTCAACTT
1 TTTTATTTAACTCGACTT
5785173 GATTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.31
20 7 0.22
21 15 0.47
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.49
Consensus pattern (21 bp):
TTTTATTTAACTCGACTTAAA
Found at i:5787524 original size:158 final size:153
Alignment explanation
Indices: 5787230--5787760 Score: 608
Period size: 158 Copynumber: 3.4 Consensus size: 153
5787220 ACGTTCATTG
* * * *
5787230 TTTATATTCATTTTTTTTTTGCTCCACAAGCAATCCAAAACCATAAACAAAGGAATACTTTTTTT
1 TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
5787295 CGCC-TTTTTAAATGGTTTTCTTGTTTCTTT-TTCGCTTTTTAAATTCTTCATTCAATTCAAGTT
66 C-CCTTTTTTAAATGGTTTTCTTGTTTCTTTGTT-GCTTTTTAAATTCTTCATTCAATTCAAGTT
5787358 CAAGAAACCATACTAAATATATATA
129 CAAGAAACCATACTAAATATATATA
* * * **
5787383 TTTATATTTA-TATTCACTTTTCTTGCTACACAAGCAAGCCAAAATCATAAATAAAGGCACGCTT
1 TTTATATTCACT-TT---TTTT-TTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC-T
* * * *
5787447 TTTTTTCCCTTTTTTTAATGATTTTCTTGATTCTTTGTTG-TTTTTAAAATTCTTCATTCAATTT
60 TTTTTTCCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGCTTTTT-AAATTCTTCATTCAATTC
* *
5787511 AAGTTCAATAAACCATATTAAATATATATA
124 AAGTTCAAGAAACCATACTAAATATATATA
** *
5787541 TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC-ATTTTT
1 TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
* * * ***
5787605 CTCCTTTTTTAAATGGCTTTCTTGTTTCTTTGTTGTTGTTTTTTAATTCTTTGCTCAATTCAAGT
66 C-CCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTG--CTTTTTAAATTCTTCATTCAATTCAAGT
* * *
5787670 TCAAGAACCCATACTAAATATATGTG
128 TCAAGAAACCATACTAAATATATATA
* * * ** *
5787696 TTTATATTCAC--TTTTCTTGCTACATAAGTAAGCTGAAACCATAAACAAAGGCATACTTGTTTT
1 TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
5787759 CC
66 CC
5787761 TTTCTTACCG
Statistics
Matches: 322, Mismatches: 41, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
152 7 0.02
153 83 0.26
154 39 0.12
155 53 0.16
156 9 0.03
157 40 0.12
158 88 0.27
159 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (153 bp):
TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
CCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGCTTTTTAAATTCTTCATTCAATTCAAGTTCA
AGAAACCATACTAAATATATATA
Found at i:5787733 original size:153 final size:150
Alignment explanation
Indices: 5787243--5787763 Score: 594
Period size: 153 Copynumber: 3.4 Consensus size: 150
5787233 ATATTCATTT
* * * ** * *
5787243 TTTTTTTGCTCCACAAGCAATCCAAAACCATAAACAAAGGAATACTTTTTTTCGCCTTTTTAAAT
1 TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATACTTTTTTTC-CTTTTTTAAAT
*
5787308 GGTTTTCTTGTTTCTTT-TTCGCTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACT
65 GGTTTTCTTGTTTCTTTGTT-GTTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACT
5787372 AAATATATATATTTATATTTATATTCAC
129 --A-A-ATATA--TATATTTATATTCAC
** * * ** *
5787400 TTTTCTTGCTACACAAGCAAGCCAAAATCATAAATAAAGGCACGCTTTTTTTTCCCTTTTTTTAA
1 TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC-TTTTTTT-CCTTTTTTAAA
* * * * * *
5787465 TGATTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTTAAGTTCAATAAACCATATT
64 TGGTTTTCTTGTTTCTTTGTTGTTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACT
5787530 AAATATATATATTTATATTCAC
129 AAATATATATATTTATATTCAC
* *
5787552 TTTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATACATTTTTCTCCTTTTTTAA
1 --TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC-TTTTTTTCCTTTTTTAA
* * *** *
5787617 ATGGCTTTCTTGTTTCTTTGTTGTTGTTTTTTAATTCTTTGCTCAATTCAAGTTCAAGAACCCAT
63 ATGGTTTTCTTGTTTCTTTGTTG-T-TTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCAT
* *
5787682 ACTAAATATATGTGTTTATATTCAC
126 ACTAAATATATATATTTATATTCAC
* * *
5787707 TTTTCTTGCTACATAAGTAAGCTGAAACCATAAACAAAGGCATACTTGTTTTCCTTT
1 TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATACTTTTTTTCCTTT
5787764 CTTACCGTGG
Statistics
Matches: 311, Mismatches: 46, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
152 25 0.08
153 71 0.23
154 50 0.16
155 54 0.17
156 1 0.00
157 37 0.12
158 70 0.23
159 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (150 bp):
TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATACTTTTTTTCCTTTTTTAAATG
GTTTTCTTGTTTCTTTGTTGTTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTAA
ATATATATATTTATATTCAC
Found at i:5788164 original size:26 final size:25
Alignment explanation
Indices: 5788115--5788164 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
5788105 TTAGTTGAGA
*
5788115 GTTTAATGAAACGATACGTTTTGAT
1 GTTTAATGAAACGATACGTATTGAT
* *
5788140 GTTTAATGAAAACGGTGCGTATTGA
1 GTTTAATG-AAACGATACGTATTGA
5788165 AAGTTTGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (25 bp):
GTTTAATGAAACGATACGTATTGAT
Found at i:5790556 original size:37 final size:37
Alignment explanation
Indices: 5790506--5790619 Score: 156
Period size: 37 Copynumber: 3.1 Consensus size: 37
5790496 TAATTCATAG
* * *
5790506 GAATATAGCTTTCTTGTTTCTATTCTCATTCGATTAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
* *
5790543 GAATATACCTTTCTTGTTAGTATTCTCATTCTATTTT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
* *
5790580 GAACATACCTTTCTTGCTTGTATTCTCATTCTATTGAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATT-AT
5790618 GA
1 GA
5790620 TTAATGCTGC
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
37 64 0.96
38 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.50
Consensus pattern (37 bp):
GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
Found at i:5800305 original size:37 final size:37
Alignment explanation
Indices: 5800255--5800405 Score: 221
Period size: 37 Copynumber: 4.1 Consensus size: 37
5800245 TAATTCATAG
* * *
5800255 GAATATAGCTTTCTTGTTTCTATTCTCATTCGATTAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
* *
5800292 GAATATACCTTTCTTGTTAGTATTCTCATTCTATTTT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
* *
5800329 GAACATACCTTTCTTGCTTGTATTCTCATTCTATTAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
*
5800366 GAATATACCTTTCTTGTTTGTAGTCTCATTCTATTGAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATT-AT
5800404 GA
1 GA
5800406 TTAATTCATG
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
37 97 0.96
38 4 0.04
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (37 bp):
GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
Found at i:5802199 original size:31 final size:29
Alignment explanation
Indices: 5802129--5802200 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
5802119 GGCTCAGGTT
*
5802129 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTG
* * *
5802158 ACGTTTTAGTCACTTATGTTATCGCATTGTG
1 ACATTTTAGTCACTTATGTT-T-GAAATGTG
5802189 ACATTTTAGTCA
1 ACATTTTAGTCA
5802201 TTGAGCCGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 19 0.53
30 1 0.03
31 16 0.44
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTG
Found at i:5803559 original size:13 final size:13
Alignment explanation
Indices: 5803516--5803560 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
5803506 GCTATCTGCT
* *
5803516 TTTCTTTTTTGTG
1 TTTCTTTTTTTTC
*
5803529 TTTCTTTTTTATTT
1 TTTCTTTTTT-TTC
5803543 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
5803556 TTTCT
1 TTTCT
5803561 CGTTTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:5803566 original size:27 final size:27
Alignment explanation
Indices: 5803515--5803566 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
5803505 AGCTATCTGC
* **
5803515 TTTTCTTTTTTGTGTTTCTTTTTTATT
1 TTTTCTTTTTTGTCTTTCTCGTTTATT
*
5803542 TTTTCTTTTTTTTCTTTCTCGTTTA
1 TTTTCTTTTTTGTCTTTCTCGTTTA
5803567 AAAATGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.79
Consensus pattern (27 bp):
TTTTCTTTTTTGTCTTTCTCGTTTATT
Found at i:5804000 original size:3 final size:3
Alignment explanation
Indices: 5803992--5804026 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
5803982 GAATTAGTCC
*
5803992 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
5804027 CCTATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:5804027 original size:12 final size:12
Alignment explanation
Indices: 5803991--5804032 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
5803981 TGAATTAGTC
5803991 CTATTATTATTA
1 CTATTATTATTA
*
5804003 TTATTATTATTA
1 CTATTATTATTA
5804015 CTATTATTATTA
1 CTATTATTATTA
5804027 CCTATT
1 -CTATT
5804033 TATTTATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (12 bp):
CTATTATTATTA
Found at i:5805219 original size:22 final size:22
Alignment explanation
Indices: 5805194--5805238 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
5805184 TACGAGGGTG
5805194 CTAACCCTTCCTCGTACGTAAC
1 CTAACCCTTCCTCGTACGTAAC
*
5805216 CTAACCCTTTCTCGTACGTAAC
1 CTAACCCTTCCTCGTACGTAAC
5805238 C
1 C
5805239 GACTCCCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.40, G:0.09, T:0.29
Consensus pattern (22 bp):
CTAACCCTTCCTCGTACGTAAC
Found at i:5815117 original size:138 final size:138
Alignment explanation
Indices: 5814869--5815144 Score: 516
Period size: 138 Copynumber: 2.0 Consensus size: 138
5814859 CGTACCGTCC
*
5814869 AAAAATGAATGGTGCCGTGGAAGCAGCTAACAAAAACATCAAGAAAATTATAGGAAAAATGACTG
1 AAAAATGAATGGTACCGTGGAAGCAGCTAACAAAAACATCAAGAAAATTATAGGAAAAATGACTG
*
5814934 AAACCTACAAAGATTGGCACGAGAAATTACCTTTTGCTCTCCTGGCATATCGCACTTCTGTTAGA
66 AAACCTACAAAGACTGGCACGAGAAATTACCTTTTGCTCTCCTGGCATATCGCACTTCTGTTAGA
5814999 ACCTCTAT
131 ACCTCTAT
5815007 AAAAATGAATGGTACCGTGGAAGCAGCTAACAAAAACATCAAGAAAATTATAGGAAAAATGACTG
1 AAAAATGAATGGTACCGTGGAAGCAGCTAACAAAAACATCAAGAAAATTATAGGAAAAATGACTG
* *
5815072 AAACCTACAAAGACTGGCACGAGAAATTACCTTTTGCTCTCCTGGCATATCGTACTTCTGTTAGG
66 AAACCTACAAAGACTGGCACGAGAAATTACCTTTTGCTCTCCTGGCATATCGCACTTCTGTTAGA
5815137 ACCTCTAT
131 ACCTCTAT
5815145 TGGGGCAACA
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 134 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (138 bp):
AAAAATGAATGGTACCGTGGAAGCAGCTAACAAAAACATCAAGAAAATTATAGGAAAAATGACTG
AAACCTACAAAGACTGGCACGAGAAATTACCTTTTGCTCTCCTGGCATATCGCACTTCTGTTAGA
ACCTCTAT
Found at i:5816986 original size:48 final size:48
Alignment explanation
Indices: 5816925--5817280 Score: 207
Period size: 48 Copynumber: 7.3 Consensus size: 48
5816915 AGCCACAGCG
* * *
5816925 GCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATTGAAGCTACAACA
1 GCGAATCTCACTTCTGGCGATGCAGTGGAACAGATTGAAGCTACAACA
** * ** * * *
5816973 GCGAATCTCACTTC-CCCGACATTGCAATTTAA-AGGATCGAAGCCACAGCA
1 GCGAATCTCACTTCTGGCG--A-TGCAGTGGAACA-GATTGAAGCTACAACA
* ** *
5817023 GCGAATCTTACTTCTGGCGATGCAGCAGAGCAGATTGAAGCTACAACA
1 GCGAATCTCACTTCTGGCGATGCAGTGGAACAGATTGAAGCTACAACA
** * ** * * * * *
5817071 GCGAATCTCACTTC-CCCGACATTGCAATTTAAAAAATCGAAGCCACAACG
1 GCGAATCTCACTTCTGGCG--A-TGCAGTGGAACAGATTGAAGCTACAACA
* * *
5817121 GTGAATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGCTACAACA
1 GCGAATCTCACTTCTGGCGATGCAGTGGAACAGATTGAAGCTACAACA
* * * ** * * * *
5817169 GTGAATCTCACTTCCCTGAC-ATTGCAATTTAAAAGATCGAAGCCACAACG
1 GCGAATCTCACTT--CTGGCGA-TGCAGTGGAACAGATTGAAGCTACAACA
* * * * *
5817219 GTGAATCTTATTTTTGGCGATGCAGTGGAACAGATTGAAGCTACAACG
1 GCGAATCTCACTTCTGGCGATGCAGTGGAACAGATTGAAGCTACAACA
*
5817267 GCGAACCTCACTTC
1 GCGAATCTCACTTC
5817281 CCCGACATTG
Statistics
Matches: 221, Mismatches: 73, Indels: 28
0.69 0.23 0.09
Matches are distributed among these distances:
47 4 0.02
48 109 0.49
49 8 0.04
50 96 0.43
51 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (48 bp):
GCGAATCTCACTTCTGGCGATGCAGTGGAACAGATTGAAGCTACAACA
Found at i:5817028 original size:50 final size:50
Alignment explanation
Indices: 5816896--5817331 Score: 230
Period size: 50 Copynumber: 8.9 Consensus size: 50
5816886 AAACCATAGT
* * * *
5816896 TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTT--CTGGCGA
1 TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCCCTGAC-A
**** ** * * *
5816945 -TGCAGCGGAGCAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
1 TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCCCTGACA
* * * *
5816994 TTGCAATTTAAAGGATCGAAGCCACAGCAGCGAATCTTACTT--CTGGCGA
1 TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCCCTGAC-A
**** ** * * *
5817043 -TGCAGCAGAGCAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
1 TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCCCTGACA
* * * * *
5817092 TTGCAATTTAAAAAATCGAAGCCACAACGGTGAATCTTACTT--CTGGCGA
1 TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCCCTGAC-A
* ** ** * * *
5817141 -TGCAGTGGAGCAGATTGAAGCTACAACAGTGAATCTCACTTCCCTGACA
1 TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCCCTGACA
* * * ** *
5817190 TTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTA-TT-TTTGGCGA
1 TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCCCTGAC-A
* ** * * * * * *
5817239 -TGCAGTGGAACAGATTGAAGCTACAACGGCGAACCTCACTTCCCCGACA
1 TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCCCTGACA
* * * *
5817288 TTGAAATTTAAAAGATCGAAGCCACAACGGCAAATCTTACTTCC
1 TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCC
5817332 AGGCGACGCA
Statistics
Matches: 273, Mismatches: 99, Indels: 29
0.68 0.25 0.07
Matches are distributed among these distances:
48 129 0.47
49 11 0.04
50 133 0.49
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (50 bp):
TTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTCACTTCCCTGACA
Found at i:5817065 original size:98 final size:98
Alignment explanation
Indices: 5816896--5817373 Score: 715
Period size: 98 Copynumber: 4.9 Consensus size: 98
5816886 AAACCATAGT
*
5816896 TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
5816961 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
5816994 TTGCAATTTAAAGGATCGAAGCCACAGCAGCGAATCTTACTTCTGGCGATGCAGCAGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
5817059 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
5817092 TTGCAATTTAAAAAATCGAAGCCACAACGGTGAATCTTACTTCTGGCGATGCAGTGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
* *
5817157 GAAGCTACAACAGTGAATCTCACTTCCCTGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * *
5817190 TTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTTTGGCGATGCAGTGGAACAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
* *
5817255 GAAGCTACAACGGCGAACCTCACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * *
5817288 TTGAAATTTAAAAGATCGAAGCCACAACGGCAAATCTTACTTCCAGGCGACGCAGCAGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTT-CTGGCGATGCAGCGGAGCAGAT
*
5817353 TGAAGCCT-CAACGGCGAATCT
65 TGAAG-CTACAACAGCGAATCT
5817374 TTTCCTCGGC
Statistics
Matches: 348, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
98 312 0.90
99 34 0.10
100 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (98 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
GAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:5819676 original size:17 final size:18
Alignment explanation
Indices: 5819651--5819688 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
5819641 ACTTTAATTA
5819651 AATTATTTAAA-ATAAAT
1 AATTATTTAAATATAAAT
*
5819668 AATTTTTTAAATTATAAAT
1 AATTATTTAAA-TATAAAT
5819687 AA
1 AA
5819689 ACATCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTATTTAAATATAAAT
Found at i:5823087 original size:21 final size:19
Alignment explanation
Indices: 5823063--5823101 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
5823053 ATTTGCCTCC
5823063 CTATCTAAGACCATGTTTCCT
1 CTATCTAAG-CCAT-TTTCCT
5823084 CTATCTAAGCCATTTTCC
1 CTATCTAAGCCATTTTCC
5823102 GGAGGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (19 bp):
CTATCTAAGCCATTTTCCT
Found at i:5823732 original size:12 final size:12
Alignment explanation
Indices: 5823715--5823739 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5823705 AGTTACCTAG
5823715 TGATATAGGTAA
1 TGATATAGGTAA
5823727 TGATATAGGTAA
1 TGATATAGGTAA
5823739 T
1 T
5823740 CTCGTCCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TGATATAGGTAA
Found at i:5834198 original size:15 final size:16
Alignment explanation
Indices: 5834178--5834214 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
5834168 ACAAAATCAA
5834178 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
5834193 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
5834209 ATAAAA
1 ATAAAA
5834215 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:5834463 original size:19 final size:19
Alignment explanation
Indices: 5834439--5835287 Score: 277
Period size: 19 Copynumber: 44.3 Consensus size: 19
5834429 ATTATAAAAT
5834439 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
5834458 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
5834480 ATATTACAATATTCATACAA
1 A-ATTACAATATTCATACAA
5834500 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
5834519 AATTACAA-AAT--TACAG
1 AATTACAATATTCATACAA
* **
5834535 TATT-C-ATATAAAATTACAA
1 AATTACAATAT-TCA-TACAA
5834554 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
5834576 ATATTACAATATTCATACAA
1 A-ATTACAATATTCATACAA
*
5834596 AATTACAA-AAT--TACAA
1 AATTACAATATTCATACAA
* **
5834612 TATT-C-ATATAAAATTACAA
1 AATTACAATAT-TCA-TACAA
5834631 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
5834653 ATATTACAATATTCATACAA
1 A-ATTACAATATTCATACAA
*
5834673 AATTACAA-AAT--TACAA
1 AATTACAATATTCATACAA
* **
5834689 TATT-C-ATATAAAATTACAA
1 AATTACAATAT-TCA-TACAA
5834708 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* * *
5834727 AATTATAAAATTACAATATTCAT
1 AATTACAATATT-C-ATA--CAA
* *
5834750 AA--A-AATACTAAT-CAA
1 AATTACAATATTCATACAA
**
5834765 AA--AC--TATAAATACAA
1 AATTACAATATTCATACAA
*
5834780 AATT---A-ATT-ATAAAA
1 AATTACAATATTCATACAA
*
5834794 TAATTACACTATTCATACAA
1 -AATTACAATATTCATACAA
5834814 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
5834833 AA-TAC--TAATCA-AAAA
1 AATTACAATATTCATACAA
*
5834848 ATATAAATACAAAATTAATT-ATAAAA
1 A-AT---TAC--AA-T-ATTCATACAA
*
5834874 TAATTACACTATTCATACAA
1 -AATTACAATATTCATACAA
*
5834894 AATTACAA-AAT--TACAA
1 AATTACAATATTCATACAA
* * *
5834910 TATTCATACAAAATAC-TA-ATCA
1 -AAT--TACAATATTCATACA--A
**
5834932 AA--A-AATATAAATACAA
1 AATTACAATATTCATACAA
*
5834948 AATT---A-ATT-ATAAAA
1 AATTACAATATTCATACAA
5834962 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
5834982 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
5835001 AA-TACTAATCA--AAAACTATA
1 AATTAC-AAT-ATTCATAC-A-A
*
5835021 AA-TACAAAATTAATT-ATAAAA
1 AATTAC--AA-T-ATTCATACAA
*
5835042 TAATTACACTATTCATACAAAATTACAA
1 -AATTACA--A-T-ATTC---A-TACAA
5835070 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
5835089 AATTACAATATTAATTATAAAA
1 AATTACAATA-T--TCATACAA
5835111 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
* *
5835131 AATTACAATATTAATTATAAAA
1 AATTACAATA-T--TCATACAA
5835153 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
*
5835173 AATTACAATATTCATATAA
1 AATTACAATATTCATACAA
*
5835192 AATTACAA-AAT--TACAA
1 AATTACAATATTCATACAA
* *
5835208 TATT---A-ATT-ATAAAA
1 AATTACAATATTCATACAA
5835222 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
5835242 AATTACAATATTCATACAAA
1 AATTACAATATTCATAC-AA
*
5835262 AAGTTACAATATACATACAA
1 AA-TTACAATATTCATACAA
5835282 AATTAC
1 AATTAC
5835288 CCATTGGCAC
Statistics
Matches: 637, Mismatches: 80, Indels: 226
0.68 0.08 0.24
Matches are distributed among these distances:
13 3 0.00
14 22 0.03
15 35 0.05
16 50 0.08
17 5 0.01
18 24 0.04
19 242 0.38
20 73 0.11
21 44 0.07
22 26 0.04
23 88 0.14
24 1 0.00
25 3 0.00
26 8 0.01
27 9 0.01
28 4 0.01
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:5834490 original size:8 final size:8
Alignment explanation
Indices: 5834477--5834719 Score: 92
Period size: 8 Copynumber: 31.0 Consensus size: 8
5834467 ATTCATACAA
5834477 ACAATATT
1 ACAATATT
5834485 ACAATATTCAT
1 ACAATA-T--T
*
5834496 ACAAAATT
1 ACAATATT
5834504 ACAATATTCAT
1 ACAATA-T--T
*
5834515 ACAAAATT
1 ACAATATT
*
5834523 ACAAAATT
1 ACAATATT
*
5834531 ACAGTATT
1 ACAATATT
5834539 -C-ATA-T
1 ACAATATT
5834544 A-AA-ATT
1 ACAATATT
*
5834550 ACAAAATT
1 ACAATATT
5834558 ACAATATT
1 ACAATATT
**
5834566 -C-ATACAA
1 ACAATA-TT
5834573 ACAATATT
1 ACAATATT
5834581 ACAATATTCAT
1 ACAATA-T--T
*
5834592 ACAAAATT
1 ACAATATT
*
5834600 ACAAAATT
1 ACAATATT
5834608 ACAATATT
1 ACAATATT
5834616 -C-ATA-T
1 ACAATATT
5834621 A-AA-ATT
1 ACAATATT
*
5834627 ACAAAATT
1 ACAATATT
5834635 ACAATATT
1 ACAATATT
**
5834643 -C-ATACAA
1 ACAATA-TT
5834650 ACAATATT
1 ACAATATT
5834658 ACAATATTCAT
1 ACAATA-T--T
*
5834669 ACAAAATT
1 ACAATATT
*
5834677 ACAAAATT
1 ACAATATT
5834685 ACAATATT
1 ACAATATT
5834693 -C-ATA-T
1 ACAATATT
5834698 A-AA-ATT
1 ACAATATT
*
5834704 ACAAAATT
1 ACAATATT
5834712 ACAATATT
1 ACAATATT
5834720 CATACAAAAT
Statistics
Matches: 181, Mismatches: 21, Indels: 66
0.68 0.08 0.25
Matches are distributed among these distances:
5 6 0.03
6 23 0.13
7 11 0.06
8 103 0.57
9 10 0.06
10 4 0.02
11 24 0.13
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (8 bp):
ACAATATT
Found at i:5834525 original size:27 final size:27
Alignment explanation
Indices: 5834495--5835101 Score: 406
Period size: 27 Copynumber: 22.4 Consensus size: 27
5834485 ACAATATTCA
5834495 TACAAAATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
* *
5834522 TACAAAATTACAGTATTCATATAAAAT
1 TACAAAATTACAATATTCATACAAAAT
5834549 TACAAAATTACAATATTCATAC--AA-
1 TACAAAATTACAATATTCATACAAAAT
*
5834573 -ACAATATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
*
5834599 TACAAAATTACAATATTCATATAAAAT
1 TACAAAATTACAATATTCATACAAAAT
5834626 TACAAAATTACAATATTCATAC--AA-
1 TACAAAATTACAATATTCATACAAAAT
*
5834650 -ACAATATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
*
5834676 TACAAAATTACAATATTCATATAAAAT
1 TACAAAATTACAATATTCATACAAAAT
5834703 TACAAAATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
*
5834730 TATAAAATTACAATATTCATA-AAAA-
1 TACAAAATTACAATATTCATACAAAAT
* * * **
5834755 TAC-TAATCAAAAACTATAAATACAAAAT
1 TACAAAAT-TACAA-TATTCATACAAAAT
** * * * *
5834783 TA-ATTA-TAAAATAAT--TACACTATT
1 TACAAAATTACAATATTCATACA-AAAT
5834807 CATACAAAATTACAATATTCATACAAAA-
1 --TACAAAATTACAATATTCATACAAAAT
* **
5834835 TACTAATCAA--AAAATATAAATACAAAATTAATT
1 TAC-AA--AATTACAATATTCATAC--AA--AA-T
* *
5834868 ATAAAATAATTACACTATTCATACAAAAT
1 -TACAA-AATTACAATATTCATACAAAAT
5834897 TACAAAATTACAATATTCATACAAAA-
1 TACAAAATTACAATATTCATACAAAAT
* **
5834923 TACTAATCAA--AAAATATAAATACAAAAT
1 TAC-AA--AATTACAATATTCATACAAAAT
** * * *
5834951 TA-ATTA-TAAAATAAT--TACAATATT
1 TACAAAATTACAATATTCATACAA-AAT
5834975 CATACAAAATTACAATATTCATACAAAAT
1 --TACAAAATTACAATATTCATACAAAAT
* * *
5835004 ACTAATCAAAAACTATAA-ATACA-A-AATTAATT
1 --T-A-C-AAAATTACAATATTCATACAA--AA-T
* *
5835036 ATAAAATAATTACACTATTCATACAAAAT
1 -TACAA-AATTACAATATTCATACAAAAT
5835065 TACAAAATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
*
5835092 TACAATATTA
1 TACAAAATTA
5835102 ATTATAAAAT
Statistics
Matches: 457, Mismatches: 69, Indels: 108
0.72 0.11 0.17
Matches are distributed among these distances:
23 49 0.11
24 8 0.02
25 21 0.05
26 25 0.05
27 246 0.54
28 30 0.07
29 19 0.04
30 20 0.04
31 11 0.02
32 15 0.03
33 2 0.00
34 11 0.02
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (27 bp):
TACAAAATTACAATATTCATACAAAAT
Found at i:5834590 original size:77 final size:77
Alignment explanation
Indices: 5834453--5835262 Score: 475
Period size: 77 Copynumber: 11.0 Consensus size: 77
5834443 ACAATATTCA
* *
5834453 TACAAAATTACAATATTC--ATACAA--ACAATATTACAATATTCATAC--A-AA-ATTACAATA
1 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
5834510 TTCATACAAAAT
66 TTCATACAAAAT
*
5834522 TACAAAATTACAGTATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
1 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
5834587 TTCATACAAAAT
66 TTCATACAAAAT
5834599 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
1 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
5834664 TTCATACAAAAT
66 TTCATACAAAAT
5834676 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAA-ATTATAAAATTA
1 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACA--AT---ATTA
5834740 CAATATTCATA-AAAA-
61 CAATATTCATACAAAAT
* ** * *
5834755 TAC-TAA-T-CAA-AAAC-TAT-AAA-TACAAAATT---A-ATT-ATA-AAA-TA-ATTACACTA
1 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
5834805 TTCATACAAAAT
66 TTCATACAAAAT
* * * * * * * *
5834817 TACAATATTCATACAAAATAC-TAATCAAAAAATA-TAAA-TACAAAATTAATTA-TAA-AATAA
1 TACAA-AAT--TACAATATTCAT-AT--AAAATTACAAAATTACAATATTCA-TACAAACAAT-A
*
5834877 TTACACTATTCATACAAAAT
58 TTACAATATTCATACAAAAT
* * ** * *
5834897 TACAAAATTACAATATTCATACAAAA-TACTAATCAA--AAAATATAAATACAAA-ATTAATTAT
1 TACAAAATTACAATATTCATATAAAATTAC-AA--AATTACAATATTCATACAAACAAT-ATTAC
* * *
5834958 AA-AATAATTACAATATT
62 AATATTCA-TACAA-AAT
* * * *
5834975 CATACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTA-TA
1 --TACAAAATTACAATATTCATATAAAAT--T-A-C--AAA--AT---TACAATATTCA-TACAA
*
5835039 A-AATAATTACACTATTCATACAAAAT
52 ACAAT-ATTACAATATTCATACAAAAT
* * *
5835065 TACAAAATTACAATATTCATACAAAATTACAATATT---A-ATT-ATA-AAA-TA-ATTACAATA
1 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
5835122 TTCATACAAAAT
66 TTCATACAAAAT
*
5835134 TACAATATT---A-A-T--TATAAAA-T----AATTACAATATTCATAC--A-AA-ATTACAATA
1 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
*
5835183 TTCATATAAAAT
66 TTCATACAAAAT
*
5835195 TACAAAATTACAATATTAATTATAAAA-T----AATTACAATATTCATAC--A-AA-ATTACAAT
1 TACAAAATTACAATATTCA-TATAAAATTACAAAATTACAATATTCATACAAACAATATTACAAT
5835251 ATTCATACAAAA
65 ATTCATACAAAA
5835263 AGTTACAATA
Statistics
Matches: 615, Mismatches: 52, Indels: 148
0.75 0.06 0.18
Matches are distributed among these distances:
57 3 0.00
60 15 0.02
61 38 0.06
62 12 0.02
64 4 0.01
65 2 0.00
66 5 0.01
67 4 0.01
68 6 0.01
69 97 0.16
70 2 0.00
71 10 0.02
72 11 0.02
73 32 0.05
74 8 0.01
75 8 0.01
76 15 0.02
77 183 0.30
78 14 0.02
79 5 0.01
80 58 0.09
81 15 0.02
82 2 0.00
83 1 0.00
84 3 0.00
85 2 0.00
86 4 0.01
88 27 0.04
90 2 0.00
91 22 0.04
92 5 0.01
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (77 bp):
TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATA
TTCATACAAAAT
Found at i:5834608 original size:104 final size:105
Alignment explanation
Indices: 5834495--5834757 Score: 394
Period size: 104 Copynumber: 2.5 Consensus size: 105
5834485 ACAATATTCA
*
5834495 TACAAAATTACAATATTCATACAAAATTACAAAATTACAGTATTCATATAAAATTACAAAATTAC
1 TACAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATATAAAA-TACAAAATTAC
*
5834560 AATATTCATAC-AA-ACAATATTACAATATTCATACAAAAT
65 AATATTCATACAAATACAAAATTACAATATTCATACAAAAT
* * *
5834599 TACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTC--ATACAA-ACAATATTACA
1 TACAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATATAAAATACAAAATTACA
*
5834661 ATATTCATACAAAATTACAAAATTACAATATTCATATAAAAT
66 ATATTCATAC-AAA-TACAAAATTACAATATTCATACAAAAT
*
5834703 TACAAAATTACAATATTCATACAAAATTATAAAATTACAATATTCATA-AAAATAC
1 TACAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATATAAAATAC
5834758 TAATCAAAAA
Statistics
Matches: 143, Mismatches: 9, Indels: 12
0.87 0.05 0.07
Matches are distributed among these distances:
100 20 0.14
102 7 0.05
104 110 0.77
105 3 0.02
106 3 0.02
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (105 bp):
TACAAAATTACAATATTCATACAAAATTACAAAATTACAATATTCATATAAAATACAAAATTACA
ATATTCATACAAATACAAAATTACAATATTCATACAAAAT
Found at i:5834841 original size:80 final size:80
Alignment explanation
Indices: 5834733--5835142 Score: 585
Period size: 80 Copynumber: 5.2 Consensus size: 80
5834723 ACAAAATTAT
5834733 AAAATTACAATATTCATA-AAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA
1 AAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA
5834797 TTACACTATTCATAC
66 TTACACTATTCATAC
*
5834812 AAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAATAA
1 AAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA
5834877 TTACACTATTCATACAAAATTAC
66 TTACACTA-T--T-C---A-TAC
*
5834900 AAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAATAA
1 AAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA
*
5834965 TTACAATATTCATAC
66 TTACACTATTCATAC
5834980 AAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA
1 AAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA
5835045 TTACACTATTCATAC
66 TTACACTATTCATAC
* * *
5835060 AAAATTACAA-AAT--TAC--AATA-T--TC--ATAC-A-AAATTACAATATTAATTATAAAATA
1 AAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAA-TACAAAATTAATTATAAAATA
*
5835113 ATTACAATATTCATAC
65 ATTACACTATTCATAC
5835129 AAAATTACAATATT
1 AAAATTACAATATT
5835143 AATTATAAAA
Statistics
Matches: 311, Mismatches: 9, Indels: 31
0.89 0.03 0.09
Matches are distributed among these distances:
68 3 0.01
69 46 0.15
70 5 0.02
72 2 0.01
74 1 0.00
75 4 0.01
77 3 0.01
79 20 0.06
80 144 0.46
81 2 0.01
83 1 0.00
84 2 0.01
85 1 0.00
87 2 0.01
88 75 0.24
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (80 bp):
AAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAA
TTACACTATTCATAC
Found at i:5834903 original size:88 final size:88
Alignment explanation
Indices: 5834809--5835249 Score: 506
Period size: 88 Copynumber: 5.1 Consensus size: 88
5834799 ACACTATTCA
5834809 TACAAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAA
1 TACAAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAA
*
5834874 TAATTACACTATTCATACAAAAT
66 TAATTACAATATTCATACAAAAT
5834897 TACAAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAA
1 TACAAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAA
5834962 TAATTACAATA-T--T-C---A-
66 TAATTACAATATTCATACAAAAT
*
5834977 TACAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAA
1 TACAAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAA
*
5835042 TAATTACACTATTCATACAAAAT
66 TAATTACAATATTCATACAAAAT
** *
5835065 TACAAAATTACAATATTCATACAAAATTAC-AAT-ATTAATTATAAAATA-ATTACAA-T-ATTC
1 TACAAAATTACAATATTCATACAAAA-TACTAATCAAAAAATAT-AAATACA--A-AATTAATT-
* * *
5835125 ATACAA-AATTACAATATTAATTATAAAA-
60 ATAAAATAATTACAATATTCA-TACAAAAT
* * *
5835153 T----AATTACAATATTCATACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTAA
1 TACAAAATTACAATATTCATACAAAA-TAC--TAATCA-A-AAAA-TA-TAAA-TACAAAATTAA
5835214 TTATAAAATAATTACAATATTCATACAAAAT
58 TTATAAAATAATTACAATATTCATACAAAAT
5835245 TACAA
1 TACAA
5835250 TATTCATACA
Statistics
Matches: 301, Mismatches: 19, Indels: 58
0.80 0.05 0.15
Matches are distributed among these distances:
80 74 0.25
81 2 0.01
83 1 0.00
84 27 0.09
85 1 0.00
87 11 0.04
88 126 0.42
89 16 0.05
90 5 0.02
91 18 0.06
92 19 0.06
93 1 0.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.32
Consensus pattern (88 bp):
TACAAAATTACAATATTCATACAAAATACTAATCAAAAAATATAAATACAAAATTAATTATAAAA
TAATTACAATATTCATACAAAAT
Found at i:5834952 original size:168 final size:168
Alignment explanation
Indices: 5834708--5835249 Score: 738
Period size: 168 Copynumber: 3.2 Consensus size: 168
5834698 AAAATTACAA
* *
5834708 AATTACAATATTCATACAAAATTATAAAATTACAATATTCATA-AAAATACTAATCAAAAACTAT
1 AATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAATACTAATCAAAAAATAT
*
5834772 AAATACAAAATTAATTATAAAATAATTACACTATTCATACAAAATTACAATATTCATACAAAATA
66 AAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAATA
5834837 CTAATCAAAAAATATAAATACAAAATTAATTATAAAAT
131 CTAATCAAAAAATATAAATACAAAATTAATTATAAAAT
*
5834875 AATTACACTATTCATACAAAATTACAAAATTACAATATTCATACAAAATACTAATCAAAAAATAT
1 AATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAATACTAATCAAAAAATAT
5834940 AAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAATA
66 AAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAATA
*
5835005 CTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
131 CTAATCAAAAAATATAAATACAAAATTAATTATAAAAT
* ** *
5835043 AATTACACTATTCATACAAAATTACAAAATTACAATATTCATACAAAATTAC-AAT-ATTAATTA
1 AATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAA-TACTAATCAAAAAATA
* * *
5835106 TAAAATA-ATTACAA-T-ATTCATACAA-AATTACAATATTAATTATAAAATAATTACAATATTC
65 T-AAATACA--A-AATTAATT-ATAAAATAATTACAATA-T--TCATACAA-AATTACAATATTC
* * *
5835167 ATACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTAATTATAAAAT
121 ATACAAAA-TAC--TAATCA-A-AAAA-TA-TAAA-TACAAAATTAATTATAAAAT
5835223 AATTACAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAA
5835250 TATTCATACA
Statistics
Matches: 340, Mismatches: 16, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
167 48 0.14
168 190 0.56
169 11 0.03
170 2 0.01
171 6 0.02
172 21 0.06
173 3 0.01
175 5 0.01
176 1 0.00
177 3 0.01
178 2 0.01
179 3 0.01
180 45 0.13
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.32
Consensus pattern (168 bp):
AATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAATACTAATCAAAAAATAT
AAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAATA
CTAATCAAAAAATATAAATACAAAATTAATTATAAAAT
Found at i:5835166 original size:111 final size:111
Alignment explanation
Indices: 5834963--5835287 Score: 416
Period size: 111 Copynumber: 3.0 Consensus size: 111
5834953 ATTATAAAAT
* * * * ** *
5834963 AATTACAATATTCATACAAAATTACAATATTCA-TACAAAATACTAATCAA-AAAC-TA-TAAA-
1 AATTACAATATTCATACAAAATTACAATATTAATTATAAAATAATTA-CAATATTCATACAAAAT
* *
5835023 TACAAAATTAATTATAAAATAATTACACTATTCATACAAAATTACAA
65 TACAATATTAATTATAAAATAATTACAATATTCATACAAAATTACAA
5835070 AATTACAATATTCATACAAAATTACAATATTAATTATAAAATAATTACAATATTCATACAAAATT
1 AATTACAATATTCATACAAAATTACAATATTAATTATAAAATAATTACAATATTCATACAAAATT
5835135 ACAATATTAATTATAAAATAATTACAATATTCATACAAAATTACAA
66 ACAATATTAATTATAAAATAATTACAATATTCATACAAAATTACAA
* **
5835181 TATT-C-ATATAAAATTACAAAATTACAATATTAATTATAAAATAATTACAATATTCATACAAAA
1 AATTACAATAT-TCA-TACAAAATTACAATATTAATTATAAAATAATTACAATATTCATACAAAA
* * * *
5835244 TTACAATATTCA-TACAAAA-AGTTACAATATACATACAAAATTAC
64 TTACAATATTAATTATAAAATAATTACAATATTCATACAAAATTAC
5835288 CCATTGGCAC
Statistics
Matches: 195, Mismatches: 16, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
107 35 0.18
108 12 0.06
109 29 0.15
110 11 0.06
111 108 0.55
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (111 bp):
AATTACAATATTCATACAAAATTACAATATTAATTATAAAATAATTACAATATTCATACAAAATT
ACAATATTAATTATAAAATAATTACAATATTCATACAAAATTACAA
Found at i:5835234 original size:23 final size:23
Alignment explanation
Indices: 5835089--5835165 Score: 108
Period size: 23 Copynumber: 3.5 Consensus size: 23
5835079 ATTCATACAA
5835089 AATTACAATATTAATTATAAAAT
1 AATTACAATATTAATTATAAAAT
* *
5835112 AATTACAATA-T--TCATACAA-
1 AATTACAATATTAATTATAAAAT
5835131 AATTACAATATTAATTATAAAAT
1 AATTACAATATTAATTATAAAAT
5835154 AATTACAATATT
1 AATTACAATATT
5835166 CATACAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 10 0.22
20 7 0.15
22 7 0.15
23 22 0.48
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTACAATATTAATTATAAAAT
Found at i:5835280 original size:40 final size:42
Alignment explanation
Indices: 5835195--5835287 Score: 136
Period size: 40 Copynumber: 2.3 Consensus size: 42
5835185 CATATAAAAT
* *
5835195 TACAAAATTACAATATTAATTATAAAATAATTACAATATTCA
1 TACAAAATTACAATATTAATTACAAAATAATTACAATATACA
* *
5835237 TACAAAATTACAATATTCA-TACAAAA-AGTTACAATATACA
1 TACAAAATTACAATATTAATTACAAAATAATTACAATATACA
5835277 TACAAAATTAC
1 TACAAAATTAC
5835288 CCATTGGCAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
40 23 0.49
41 6 0.13
42 18 0.38
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (42 bp):
TACAAAATTACAATATTAATTACAAAATAATTACAATATACA
Found at i:5835335 original size:27 final size:27
Alignment explanation
Indices: 5835297--5835364 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
5835287 CCCATTGGCA
5835297 CCTCCCTATGAGGCACTTTTAATGGTG
1 CCTCCCTATGAGGCACTTTTAATGGTG
5835324 CCTCCCTATGAGGCACTTTTAATGGTG
1 CCTCCCTATGAGGCACTTTTAATGGTG
5835351 CCTCCCTATGAGGC
1 CCTCCCTATGAGGC
5835365 GCCACCCGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (27 bp):
CCTCCCTATGAGGCACTTTTAATGGTG
Found at i:5839504 original size:21 final size:19
Alignment explanation
Indices: 5839480--5839518 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
5839470 ATTTGCCTCC
5839480 CTATCTAAGACCATGTTTCCT
1 CTATCTAAG-CCAT-TTTCCT
5839501 CTATCTAAGCCATTTTCC
1 CTATCTAAGCCATTTTCC
5839519 AGAGGATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (19 bp):
CTATCTAAGCCATTTTCCT
Found at i:5843986 original size:21 final size:22
Alignment explanation
Indices: 5843957--5844003 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5843947 CAGAAGGAGT
*
5843957 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
5843979 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
5844000 GAGT
1 GAGT
5844004 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:5855957 original size:48 final size:48
Alignment explanation
Indices: 5855886--5855982 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
5855876 AGAAGCCCAC
*
5855886 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAATTTT
1 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
5855934 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
1 TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
5855982 T
1 T
5855983 GATATCCCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.21, C:0.25, G:0.05, T:0.49
Consensus pattern (48 bp):
TTTCTAATCTCTTCCTCCTTGCCATCATCTATTAGTTCATTAAAGTTT
Found at i:5860116 original size:24 final size:24
Alignment explanation
Indices: 5860089--5860137 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
5860079 TTGAGCTTTT
*
5860089 AACTTTAGCTACTGATTTGTAGCA
1 AACTTTAACTACTGATTTGTAGCA
5860113 AACTTTAACTACTGATTTGTAGCA
1 AACTTTAACTACTGATTTGTAGCA
5860137 A
1 A
5860138 CCAGTAGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (24 bp):
AACTTTAACTACTGATTTGTAGCA
Found at i:5860307 original size:40 final size:39
Alignment explanation
Indices: 5860233--5860309 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 39
5860223 ACAAGAAACA
*
5860233 TGAGTCTAAATAAGTTTTGTATAATAAAGTAGTATCTATG
1 TGAGTCTAAATAAGTCTTGTATAATAAAG-AGTATCTATG
5860273 TGAGTCTAAATAAGTCTTGTATGATATAAA-AGTATCT
1 TGAGTCTAAATAAGTCTTGTAT-A-ATAAAGAGTATCT
5860310 CATGAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
40 28 0.82
41 1 0.03
42 5 0.15
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (39 bp):
TGAGTCTAAATAAGTCTTGTATAATAAAGAGTATCTATG
Found at i:5867915 original size:6 final size:6
Alignment explanation
Indices: 5867902--5867943 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
5867892 TGATGGTTTT
*
5867902 GCTTTG GTTTTG G-TATTG GCTTTG GCTTTG GCTTTG GCTTTG
1 GCTTTG GCTTTG GCT-TTG GCTTTG GCTTTG GCTTTG GCTTTG
5867944 CATTTTGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
5 1 0.03
6 31 0.94
7 1 0.03
ACGTcount: A:0.02, C:0.12, G:0.33, T:0.52
Consensus pattern (6 bp):
GCTTTG
Found at i:5868352 original size:18 final size:17
Alignment explanation
Indices: 5868317--5868358 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
5868307 TTCAGTCCGG
5868317 TTTTATATTTTTTTTAA
1 TTTTATATTTTTTTTAA
5868334 TTTTA-ATTATTTATTTAA
1 TTTTATATT-TTT-TTTAA
5868352 TTATTAT
1 TT-TTAT
5868359 TTCATTACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 8 0.38
18 7 0.33
19 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATTTTTTTTAA
Found at i:5873375 original size:22 final size:22
Alignment explanation
Indices: 5873343--5873386 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5873333 AACTTTTATA
*
5873343 TTTTTATAATTTCAAAAATATT
1 TTTTTAAAATTTCAAAAATATT
* *
5873365 TTTTTAAAATTTTAAAATTATT
1 TTTTTAAAATTTCAAAAATATT
5873387 GTTAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTAAAATTTCAAAAATATT
Found at i:5882846 original size:14 final size:14
Alignment explanation
Indices: 5882827--5882875 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
5882817 TAATTATCTT
5882827 AATTAAAATAACTA
1 AATTAAAATAACTA
*
5882841 AATTAAGA-AA--A
1 AATTAAAATAACTA
5882852 AA-TAAAATAACTA
1 AATTAAAATAACTA
*
5882865 AAATAAAATAA
1 AATTAAAATAA
5882876 ACTCTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 4 0.14
11 5 0.17
13 5 0.17
14 15 0.52
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (14 bp):
AATTAAAATAACTA
Found at i:5884826 original size:15 final size:16
Alignment explanation
Indices: 5884808--5884837 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5884798 ATGTAACATT
5884808 TTAAATATAA-ATGAC
1 TTAAATATAACATGAC
5884823 TTAAATATAACATGA
1 TTAAATATAACATGA
5884838 GAGAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (16 bp):
TTAAATATAACATGAC
Found at i:5896917 original size:19 final size:19
Alignment explanation
Indices: 5896889--5896927 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5896879 ATTTTGGTAT
5896889 ATTTTAGTAAATAAAAAAA
1 ATTTTAGTAAATAAAAAAA
* *
5896908 ATTTTGGTAAGTAAAAAAA
1 ATTTTAGTAAATAAAAAAA
5896927 A
1 A
5896928 ATTATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (19 bp):
ATTTTAGTAAATAAAAAAA
Found at i:5897958 original size:20 final size:21
Alignment explanation
Indices: 5897930--5897969 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
5897920 GTACATTTTT
5897930 TAAAGTTTATAT-ATATAAAC
1 TAAAGTTTATATGATATAAAC
* *
5897950 TAAATTTTATGTGATATAAA
1 TAAAGTTTATATGATATAAA
5897970 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (21 bp):
TAAAGTTTATATGATATAAAC
Found at i:5901580 original size:27 final size:27
Alignment explanation
Indices: 5901549--5901602 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
5901539 ACATTCAAAA
5901549 TTTGTATAGATTTTGATTGGTATGAAT
1 TTTGTATAGATTTTGATTGGTATGAAT
5901576 TTTGTATAGATTTTGATTGGTATGAAT
1 TTTGTATAGATTTTGATTGGTATGAAT
5901603 ATCATTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (27 bp):
TTTGTATAGATTTTGATTGGTATGAAT
Found at i:5910615 original size:21 final size:21
Alignment explanation
Indices: 5910576--5910616 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5910566 CTAACTATAA
*
5910576 TAATTAAAATTTCATAAATTT
1 TAATTAAAATTACATAAATTT
5910597 TAATTAAAATGTACA-AAATT
1 TAATTAAAAT-TACATAAATT
5910617 AATTATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (21 bp):
TAATTAAAATTACATAAATTT
Found at i:5916414 original size:17 final size:17
Alignment explanation
Indices: 5916379--5916410 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5916369 TTATTTTCTC
5916379 TTTCTATTTTTTTTAAT
1 TTTCTATTTTTTTTAAT
5916396 TTTC-ATTTTTTTTAA
1 TTTCTATTTTTTTTAA
5916411 ATTTAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTCTATTTTTTTTAAT
Found at i:5916423 original size:17 final size:16
Alignment explanation
Indices: 5916384--5916423 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5916374 TTCTCTTTCT
* *
5916384 ATTTTTTTTAATTTTC
1 ATTTTTTTTAAATTTA
5916400 ATTTTTTTTAAATTTA
1 ATTTTTTTTAAATTTA
*
5916416 ATTGTTTT
1 ATTTTTTT
5916424 CCATAATCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
ATTTTTTTTAAATTTA
Found at i:5918071 original size:5 final size:6
Alignment explanation
Indices: 5918054--5918079 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5918044 AGTTAACAAA
5918054 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
5918080 AAATGGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:5918407 original size:15 final size:17
Alignment explanation
Indices: 5918375--5918407 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
5918365 AATGTGCTTA
5918375 AAAATATTACATAATTT
1 AAAATATTACATAATTT
5918392 AAAATA-TACA-AATTT
1 AAAATATTACATAATTT
5918407 A
1 A
5918408 TTTAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATATTACATAATTT
Found at i:5918412 original size:19 final size:19
Alignment explanation
Indices: 5918388--5918425 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
5918378 ATATTACATA
5918388 ATTTAAAATATACAA-ATTT
1 ATTT-AAATATACAATATTT
*
5918407 ATTTAATTATACAATATTT
1 ATTTAAATATACAATATTT
5918426 TAAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTAAATATACAATATTT
Found at i:5920067 original size:22 final size:23
Alignment explanation
Indices: 5920041--5920086 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
5920031 TAACTTGACA
5920041 AATTTTAT-AAAATTTAAAAGTT
1 AATTTTATCAAAATTTAAAAGTT
* *
5920063 AATTTTGTCAAAATTTTAAAGTT
1 AATTTTATCAAAATTTAAAAGTT
5920086 A
1 A
5920087 GAACCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (23 bp):
AATTTTATCAAAATTTAAAAGTT
Found at i:5923206 original size:36 final size:37
Alignment explanation
Indices: 5923145--5923218 Score: 141
Period size: 36 Copynumber: 2.0 Consensus size: 37
5923135 ATTAAAAATT
5923145 AACACTTTCATGATTTTTTTAATTATTTTTCTTTGTC
1 AACACTTTCATGATTTTTTTAATTATTTTTCTTTGTC
5923182 AACACTTTCATGA-TTTTTTAATTATTTTTCTTTGTC
1 AACACTTTCATGATTTTTTTAATTATTTTTCTTTGTC
5923218 A
1 A
5923219 TGTTGACGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 24 0.65
37 13 0.35
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.58
Consensus pattern (37 bp):
AACACTTTCATGATTTTTTTAATTATTTTTCTTTGTC
Found at i:5926638 original size:153 final size:154
Alignment explanation
Indices: 5926255--5926921 Score: 881
Period size: 155 Copynumber: 4.4 Consensus size: 154
5926245 ACCATGTTCA
* * * * *
5926255 TATTTCAGCCATTTATTTGTATTTTTTCTCCGGATTTTATTACTTT-AA-AAAAATATACTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTC-CCGAATTTTATTACTTTCAATAAAAATATACTATTT
* * * *
5926318 TCTAA-TTTATTATTTTATATTATTTTAGTACATTATGTTTGTAATGTATTCATTTAGTGTGTTT
65 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
* * *
5926382 TTT-ATTTAAATTTTAAAAAACCCT
130 TTTAAATAAAATTTAAAAAAACCCT
* * * * *
5926406 TATTTCAGCCATTTGTTCGTATTTTTTTCAG-ATTTTATTACTTTCAATAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATACTATTTT
*
5926470 CGT-ATTTTATTATTTTACACTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
66 C-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
5926534 TTTAAATAAAATTTAAAAAAACCCT
130 TTTAAATAAAATTTAAAAAAACCCT
5926559 TATTTCGGCCCTTTGTTCGTATTTTTTCCCCGAATTTTATTACTTT-AA-AAAAATATACTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTT-CCCGAATTTTATTACTTTCAATAAAAATATACTATTT
* * *
5926622 TCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTT
65 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
*
5926687 TTTAAAT-AAATTTAAAAAAAAATCCT
130 TTTAAATAAAATTT--AAAAAAACCCT
** *
5926713 TATTTCGATCCTTTGTTCGTATTTTTTCCC-ATATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGA-ATTTTATTACTTTCAATAAAAATATACTATTT
* * *
5926777 T-TGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTAT-AT
65 TCT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
* *
5926840 TTTTAAAAAAAATTTAGTAAAAAACTCT
129 TTTTAAATAAAATTTA--AAAAAACCCT
* *
5926868 TATTTCGGCCCTCTGTTCGTATTTTTTACCGAATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAA
5926922 ACACACTAAA
Statistics
Matches: 459, Mismatches: 39, Indels: 32
0.87 0.07 0.06
Matches are distributed among these distances:
149 13 0.03
150 4 0.01
151 42 0.09
152 66 0.14
153 140 0.31
154 50 0.11
155 143 0.31
156 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (154 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATACTATTTT
CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTT
TTAAATAAAATTTAAAAAAACCCT
Found at i:5926827 original size:308 final size:304
Alignment explanation
Indices: 5926255--5926921 Score: 1025
Period size: 308 Copynumber: 2.2 Consensus size: 304
5926245 ACCATGTTCA
* * * * * *
5926255 TATTTCAGCCATTTATTTGTATTTTTTCTCCGGATTTTATTACTTTAAAAAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTCACCGAATTTTATTACTTTAAAAAAATATACTATTTTC
* *
5926320 TAATTTATTATTTTATATTATTTTAGTACATTATGTTTGTAATGTATTCATTTAGTGTGTTTTTT
66 TAATTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
** * *
5926385 ATTTAAATTTTAAAAAACCCTTATTTCAGCCATTTGTTCGTATTTTTTTCAGATTTTATTACTTT
131 AAATAAATTTAAAAAAACCCTTATTTCAGCCATTTGTTCGTATTTTTTCCAGATTTTATTACTTT
5926450 CAATAAAAATATATTATTTTCGTATTTTATTATTTTACACTATTTTAGTACATTATGTTTGAAAT
196 CAATAAAAATATATTATTTTCGTATTTTATTATTTTACACTATTTTAGTACATTATGTTTGAAAT
* * *
5926515 GTATTAATTTACTGTGTTTTTTAAATAAAATTTA-AAAAAACCCT
261 GTATTAATTTACTAT-ATTTTTAAAAAAAATTTAGAAAAAACCCT
*
5926559 TATTTCGGCCCTTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTAAAAAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTCACCGAATTTTATTACTTTAAAAAAATATACTATTTTC
5926624 TAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
66 TAA-TTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTT
* * *
5926689 TAAATAAATTTAAAAAAAAATCCTTATTTCGATCC-TTTGTTCGTATTTTTTCCCATATTTTATT
130 TAAATAAATTT--AAAAAAACCCTTATTTC-AGCCATTTGTTCGTATTTTTT-CCAGATTTTATT
* *
5926753 ACTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTATGTTT
191 ACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACACTATTTTAGTACATTATGTTT
*
5926818 GAAATGTATTAATTTACTATATTTTTAAAAAAAATTTAGTAAAAAACTCT
256 GAAATGTATTAATTTACTATATTTTTAAAAAAAATTTAG-AAAAAACCCT
*
5926868 TATTTCGGCCCTCTGTTCGTATTTTTT-ACCGAATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTCACCGAATTTTATTACTTT-AA-AAAAA
5926922 ACACACTAAA
Statistics
Matches: 331, Mismatches: 23, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
304 62 0.19
305 68 0.21
307 47 0.14
308 112 0.34
309 37 0.11
310 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.51
Consensus pattern (304 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTCACCGAATTTTATTACTTTAAAAAAATATACTATTTTC
TAATTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
AAATAAATTTAAAAAAACCCTTATTTCAGCCATTTGTTCGTATTTTTTCCAGATTTTATTACTTT
CAATAAAAATATATTATTTTCGTATTTTATTATTTTACACTATTTTAGTACATTATGTTTGAAAT
GTATTAATTTACTATATTTTTAAAAAAAATTTAGAAAAAACCCT
Found at i:5927169 original size:29 final size:27
Alignment explanation
Indices: 5927137--5927204 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
5927127 TTTTTGTACC
5927137 ATTTTAGTAAATAAACTTTTTTGTATATT
1 ATTTTAGTAAATAAA-TTTTTT-TATATT
** **
5927166 ATTTTAGTATTTTTTATTTTTTTATATT
1 ATTTTAGTA-AATAAATTTTTTTATATT
5927194 ATTTTAGTAAA
1 ATTTTAGTAAA
5927205 ATACCTAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
28 15 0.47
29 15 0.47
30 2 0.06
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (27 bp):
ATTTTAGTAAATAAATTTTTTTATATT
Found at i:5933697 original size:3 final size:3
Alignment explanation
Indices: 5933689--5933716 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5933679 TTGTTTCATG
5933689 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5933717 GTTATATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5936755 original size:17 final size:14
Alignment explanation
Indices: 5936718--5936747 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5936708 ACCATTAGCC
5936718 TTATATTATTATTT
1 TTATATTATTATTT
5936732 TTATATTATTATTT
1 TTATATTATTATTT
5936746 TT
1 TT
5936748 TACATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATATTATTATTT
Found at i:5936847 original size:24 final size:23
Alignment explanation
Indices: 5936816--5936860 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
5936806 TATACATACC
* *
5936816 TTATTATATATCTTTATATCTTA
1 TTATTATATATATCTATATCTTA
5936839 TTATGTATATATATCTATATCT
1 TTAT-TATATATATCTATATCT
5936861 CTTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATATATATCTATATCTTA
Found at i:5937140 original size:19 final size:19
Alignment explanation
Indices: 5937118--5937171 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
5937108 GCATATGTAC
5937118 ATATTATATATATATTT-AT
1 ATATTATATATAT-TTTAAT
* *
5937137 ATATTCTTTATATTTTAAAAT
1 ATATTATATATATTTT--AAT
5937158 ATATTATATATATT
1 ATATTATATATATT
5937172 ATATATACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.11
19 11 0.39
21 14 0.50
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTATATATATTTTAAT
Found at i:5937185 original size:9 final size:9
Alignment explanation
Indices: 5937118--5937178 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
5937108 GCATATGTAC
5937118 ATATTATAT
1 ATATTATAT
*
5937127 ATATATTTAT
1 ATAT-TATAT
*
5937137 ATATTCTTTAT
1 ATA-T-TATAT
* *
5937148 ATTTTAAAAT
1 ATATT-ATAT
5937158 ATATTATAT
1 ATATTATAT
5937167 ATATTATAT
1 ATATTATAT
5937176 ATA
1 ATA
5937179 CTTTATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 20 0.48
10 14 0.33
11 8 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATTATAT
Found at i:5937359 original size:18 final size:18
Alignment explanation
Indices: 5937312--5937355 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
5937302 CTTAAAGTGC
* *
5937312 TTTAATTTTATTTGTTTA
1 TTTACTTTTATTTGTTGA
5937330 TTTACTTTTATTTGTTGA
1 TTTACTTTTATTTGTTGA
5937348 TTT-CTTTT
1 TTTACTTTT
5937356 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTACTTTTATTTGTTGA
Found at i:5949480 original size:30 final size:30
Alignment explanation
Indices: 5949414--5949480 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
5949404 GGTTTGATTT
* * **
5949414 TAAAATAAATAAGTTATTGTGGTTCAATTT
1 TAAAATAAATAAATTATTGTGGCTCAATAA
* * *
5949444 TGAAATAAATAAATTTTTGTGGCTCGATAA
1 TAAAATAAATAAATTATTGTGGCTCAATAA
5949474 TAAAATA
1 TAAAATA
5949481 TGTTTTGGAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (30 bp):
TAAAATAAATAAATTATTGTGGCTCAATAA
Found at i:5950632 original size:3 final size:3
Alignment explanation
Indices: 5950624--5950664 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
5950614 ATGAATTAAA
*
5950624 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
5950665 ATAACTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:5951783 original size:23 final size:22
Alignment explanation
Indices: 5951752--5951843 Score: 112
Period size: 23 Copynumber: 4.0 Consensus size: 22
5951742 GGCTTAGCCG
*
5951752 ATCATGCACTATATGTGTCGTAT
1 ATCAGGCACT-TATGTGTCGTAT
5951775 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCAC-TTATGTGTCGTAT
* **
5951798 TTCAGGCACCTCGTGTGTCGTAT
1 ATCAGGCA-CTTATGTGTCGTAT
*
5951821 TTCAGGCACTTATGTGTCGTAT
1 ATCAGGCACTTATGTGTCGTAT
5951843 A
1 A
5951844 CTGATCAGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.20
23 46 0.77
24 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (22 bp):
ATCAGGCACTTATGTGTCGTAT
Found at i:5961137 original size:21 final size:21
Alignment explanation
Indices: 5961113--5961154 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5961103 AATTAACACA
5961113 TAAATTATTTGTAATTTTTAT
1 TAAATTATTTGTAATTTTTAT
5961134 TAAATTATTTGTAATTTTTAT
1 TAAATTATTTGTAATTTTTAT
5961155 GATTGGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TAAATTATTTGTAATTTTTAT
Found at i:5961179 original size:18 final size:18
Alignment explanation
Indices: 5961156--5961191 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5961146 AATTTTTATG
*
5961156 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTAGATA
5961174 ATTGGGTTGGGTTAGATA
1 ATTGGGTTGGGTTAGATA
5961192 CTTGAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGTTAGATA
Found at i:5962289 original size:9 final size:9
Alignment explanation
Indices: 5962263--5962292 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5962253 TTTTAAAAAT
5962263 AATTTATAA
1 AATTTATAA
5962272 AATTT-TAA
1 AATTTATAA
5962280 AATTTATAA
1 AATTTATAA
5962289 AATT
1 AATT
5962293 AATTAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AATTTATAA
Found at i:5964488 original size:72 final size:72
Alignment explanation
Indices: 5964371--5964903 Score: 656
Period size: 72 Copynumber: 7.4 Consensus size: 72
5964361 GTTACTCACC
* * *
5964371 TTGATCTTTCAGTAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
5964436 AAGTTGT
66 AAGTTGT
* * * * * * *
5964443 TTGATGTTTCAGAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGTATTTGTCATC-CTT
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTC-T
* ** *
5964507 GGAGGAGA
65 GAAGTTGT
* *
5964515 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
*
5964580 AAGTCGT
66 AAGTTGT
* * *
5964587 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
5964652 AAGTTGT
66 AAGTTGT
* * * * * *
5964659 TTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
*
5964724 CAGTTGT
66 AAGTTGT
* * * * * * *
5964731 CTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATC-CTT
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTC-T
**
5964795 GAAGGAGT
65 GAAGTTGT
* *
5964803 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
** * *
5964868 GTGGTAT
66 AAGTTGT
5964875 TTGATGTTTCAGAAAATCAATTAAATGGT
1 TTGATGTTTCAGAAAATCAATTAAATGGT
5964904 ACTTTTCCTC
Statistics
Matches: 402, Mismatches: 55, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
71 1 0.00
72 400 1.00
73 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (72 bp):
TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
AAGTTGT
Found at i:5964576 original size:144 final size:144
Alignment explanation
Indices: 5964371--5964899 Score: 734
Period size: 144 Copynumber: 3.7 Consensus size: 144
5964361 GTTACTCACC
* * * *
5964371 TTGATCTTTCAGTAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTG
1 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
* * *
5964436 AAGTTGTTTGATGTTTCAGAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGTATTTGTC
66 AAGTTGTTTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTC
* *
5964501 ATCCTTGGAGGAGA
131 ATCCTTGAAGGAGT
*
5964515 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTG
1 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
* * * * * * *
5964580 AAGTCGTTTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATC
66 AAGTTGTTTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTC
* **
5964645 ATCTTTGAAGTTGT
131 ATCCTTGAAGGAGT
* * * * * * *
5964659 TTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATCATCTTTG
1 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
* * * *
5964724 CAGTTGTCTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTC
66 AAGTTGTTTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTC
5964789 ATCCTTGAAGGAGT
131 ATCCTTGAAGGAGT
*
5964803 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTG
1 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
** * *
5964868 GTGGTATTTGATGTTTCAGAAAATCAATTAAA
66 AAGTTGTTTGATGTTTCAGAAAATCAATTAAA
5964900 TGGTACTTTT
Statistics
Matches: 333, Mismatches: 52, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
144 333 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (144 bp):
TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTG
AAGTTGTTTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTC
ATCCTTGAAGGAGT
Found at i:5964766 original size:216 final size:216
Alignment explanation
Indices: 5964371--5964899 Score: 774
Period size: 216 Copynumber: 2.4 Consensus size: 216
5964361 GTTACTCACC
* * * *
5964371 TTGATCTTTCAGTAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTG
1 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
* * *
5964436 AAGTTGTTTGATGTTTCAGAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGTATTTGTC
66 AAGTTGTTTGATGTTTCAGAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATC
* * * * *
5964501 ATCCTTGGAGGAGATTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGG
131 ATCCTTGCAGGAGATTGATGTTTCAAAAAACCAATTAAACGGCCAAATTCCATTGTCTATAGGGC
**
5964566 AGTTATCAT-CTCTGAAGTCGT
196 AGTTATCATCCT-TGAAGGAGT
5964587 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
*
5964652 AAGTTGTTTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATC
66 AAGTTGTTTGATGTTTCAGAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATC
* ** * * *
5964717 ATCTTTGCAGTTG-TCTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGG
131 ATCCTTGCAGGAGAT-TGATGTTTCAAAAAACCAATTAAACGGCCAAATTCCATTGTCTATAGGG
*
5964781 CAGTTGTCATCCTTGAAGGAGT
195 CAGTTATCATCCTTGAAGGAGT
*
5964803 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTG
1 TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
** * * *
5964868 GTGGTATTTGATGTTTCAGAAAATCAATTAAA
66 AAGTTGTTTGATGTTTCAGAAAATCAGTTAAA
5964900 TGGTACTTTT
Statistics
Matches: 282, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
215 1 0.00
216 279 0.99
217 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (216 bp):
TTGATGTTTCAGAAAACCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
AAGTTGTTTGATGTTTCAGAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATC
ATCCTTGCAGGAGATTGATGTTTCAAAAAACCAATTAAACGGCCAAATTCCATTGTCTATAGGGC
AGTTATCATCCTTGAAGGAGT
Found at i:5979546 original size:14 final size:14
Alignment explanation
Indices: 5979527--5979560 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
5979517 AAGAATAATA
5979527 TAAAAATATAAAA-T
1 TAAAAAT-TAAAATT
5979541 TAAAAATTAAAATT
1 TAAAAATTAAAATT
5979555 TAAAAA
1 TAAAAA
5979561 AAATTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAAATTAAAATT
Done.