Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 61 of 292
Found at i:18167183 original size:29 final size:29
Alignment explanation
Indices: 18167111--18167236 Score: 139
Period size: 29 Copynumber: 4.4 Consensus size: 29
18167101 AACCCCTACA
* *
18167111 CACATGCATATGGCCCACTT-GGCCCAA-T
1 CACATTCATATGACCCA-TTAGGCCCAATT
* * *
18167139 CTCATTCATATGGCCCATCAGGCCCAATT
1 CACATTCATATGACCCATTAGGCCCAATT
* *
18167168 CACATTTATATGGCCCATTAGGCCCAATT
1 CACATTCATATGACCCATTAGGCCCAATT
* * *
18167197 AATATTCATATGACCCATTAGGCCCAAAT
1 CACATTCATATGACCCATTAGGCCCAATT
18167226 CACATTCATAT
1 CACATTCATAT
18167237 TCATGCTCAC
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
27 1 0.01
28 22 0.27
29 60 0.72
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
CACATTCATATGACCCATTAGGCCCAATT
Found at i:18167229 original size:58 final size:57
Alignment explanation
Indices: 18167111--18167236 Score: 157
Period size: 58 Copynumber: 2.2 Consensus size: 57
18167101 AACCCCTACA
* * *
18167111 CACATGCATATGGCCCACTTGGCCCAATCTCATTCATATGGCCCATCAGGCCCAATT
1 CACATTCATATGGCCCACTTGGCCCAATCTCATTCATATGACCCATCAGGCCCAAAT
* * *
18167168 CACATTTATATGGCCCA-TTAGGCCCAAT-TAATATTCATATGACCCATTAGGCCCAAAT
1 CACATTCATATGGCCCACTT-GGCCCAATCT--CATTCATATGACCCATCAGGCCCAAAT
18167226 CACATTCATAT
1 CACATTCATAT
18167237 TCATGCTCAC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
56 3 0.05
57 23 0.39
58 33 0.56
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (57 bp):
CACATTCATATGGCCCACTTGGCCCAATCTCATTCATATGACCCATCAGGCCCAAAT
Found at i:18174924 original size:29 final size:29
Alignment explanation
Indices: 18174887--18174982 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
18174877 GGCCCAATAT
*
18174887 CATTTATATGGCCTATTAGGCCCAATTCA
1 CATTCATATGGCCTATTAGGCCCAATTCA
* * *
18174916 CATTCATATGGCCCATCAGGTCCAATTCA
1 CATTCATATGGCCTATTAGGCCCAATTCA
* **
18174945 TATTCATATGGCCCT-TTAGGCCCAAACCA
1 CATTCATATGG-CCTATTAGGCCCAATTCA
18174974 CATTCATAT
1 CATTCATAT
18174983 TCATGCTAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 53 0.96
30 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (29 bp):
CATTCATATGGCCTATTAGGCCCAATTCA
Found at i:18175072 original size:18 final size:19
Alignment explanation
Indices: 18175049--18175085 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18175039 ATGGGCCCAA
18175049 AGCCCAT-CAGGCCCATTT
1 AGCCCATCCAGGCCCATTT
*
18175067 AGCCCATCCATGCCCATTT
1 AGCCCATCCAGGCCCATTT
18175086 GGCCAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.24
Consensus pattern (19 bp):
AGCCCATCCAGGCCCATTT
Found at i:18175215 original size:16 final size:16
Alignment explanation
Indices: 18175194--18175232 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18175184 CCCAACTTTT
*
18175194 GGCTTTTCGGCATTTC
1 GGCTTTTCGACATTTC
* *
18175210 GGCTTTTCTACATTTT
1 GGCTTTTCGACATTTC
18175226 GGCTTTT
1 GGCTTTT
18175233 ACCAATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.08, C:0.21, G:0.21, T:0.51
Consensus pattern (16 bp):
GGCTTTTCGACATTTC
Found at i:18179168 original size:13 final size:13
Alignment explanation
Indices: 18179152--18179177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18179142 CAAATATACC
18179152 GAGGTAAGTCTCT
1 GAGGTAAGTCTCT
18179165 GAGGTAAGTCTCT
1 GAGGTAAGTCTCT
18179178 AAGTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
GAGGTAAGTCTCT
Found at i:18179610 original size:39 final size:40
Alignment explanation
Indices: 18179551--18179635 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
18179541 AAATGAATTG
* * * * *
18179551 TGCTGAGATTGTATCTGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
18179590 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
18179630 TGCTGG
1 TGCTGG
18179636 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:18189486 original size:14 final size:15
Alignment explanation
Indices: 18189469--18189497 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18189459 TCACGAAAAT
18189469 TTCACACAT-ATAAA
1 TTCACACATAATAAA
18189483 TTCACACATAATAAA
1 TTCACACATAATAAA
18189498 CACATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:18192696 original size:21 final size:20
Alignment explanation
Indices: 18192672--18192710 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18192662 TTATAATGAT
*
18192672 CACACGGGCGTGTTGCCCTTC
1 CACACAGGCGTG-TGCCCTTC
*
18192693 CACACAGGTGTGTGCCCT
1 CACACAGGCGTGTGCCCT
18192711 ATTTCATGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.36, G:0.28, T:0.23
Consensus pattern (20 bp):
CACACAGGCGTGTGCCCTTC
Found at i:18202487 original size:17 final size:18
Alignment explanation
Indices: 18202445--18202493 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
18202435 AGTTGAAAAG
18202445 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
18202464 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
18202481 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
18202494 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:18203381 original size:40 final size:40
Alignment explanation
Indices: 18203315--18203465 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
18203305 AAATTGAATG
* * *
18203315 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
18203354 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
18203394 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
18203434 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
18203466 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:18203479 original size:40 final size:40
Alignment explanation
Indices: 18203351--18203481 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
18203341 TATGCTGGAA
* * * *
18203351 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
18203391 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
18203431 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
18203471 ATTATATCCGG
1 ATTATATCCGG
18203482 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:18210499 original size:17 final size:18
Alignment explanation
Indices: 18210457--18210505 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
18210447 AGTTGAAAAG
18210457 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
18210476 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
18210493 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
18210506 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:18211392 original size:40 final size:40
Alignment explanation
Indices: 18211326--18211476 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
18211316 AAATTGAATG
* * *
18211326 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
18211365 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
18211405 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
18211445 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
18211477 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:18211490 original size:40 final size:40
Alignment explanation
Indices: 18211362--18211492 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
18211352 TATGCTGGAA
* * * *
18211362 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
18211402 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
18211442 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
18211482 ATTATATCCGG
1 ATTATATCCGG
18211493 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:18218702 original size:40 final size:39
Alignment explanation
Indices: 18218578--18218704 Score: 150
Period size: 40 Copynumber: 3.3 Consensus size: 39
18218568 ATGCTGGAAA
* *
18218578 TTATAT-CGGGTTAAGA-CCGAAGGCAATTGTGCAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAGTGG
* * **
18218615 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AGTGG
* *
18218655 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-GTGG
18218695 TTATATCCGG
1 TTATATCCGG
18218705 TTATATTCCG
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
37 5 0.07
38 9 0.12
39 15 0.21
40 44 0.60
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAGTGG
Found at i:18226090 original size:40 final size:39
Alignment explanation
Indices: 18226024--18226174 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
18226014 AAATTGAATG
* * *
18226024 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
18226063 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
18226103 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
18226143 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
18226175 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:18226188 original size:40 final size:39
Alignment explanation
Indices: 18226061--18226190 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
18226051 ATGCTGGAAA
* *
18226061 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
18226101 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
18226141 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
18226181 TTATATCCGG
1 TTATATCCGG
18226191 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:18237447 original size:27 final size:28
Alignment explanation
Indices: 18237410--18237520 Score: 167
Period size: 27 Copynumber: 4.1 Consensus size: 28
18237400 AGCATGGCTG
* *
18237410 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
18237436 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
18237463 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
18237491 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
18237518 CCA
1 CCA
18237521 AAACGCTTCC
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
26 5 0.06
27 55 0.70
28 19 0.24
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:18237502 original size:54 final size:55
Alignment explanation
Indices: 18237410--18237524 Score: 175
Period size: 55 Copynumber: 2.1 Consensus size: 55
18237400 AGCATGGCTG
*
18237410 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCA
*
18237463 CCAGAAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCA
18237518 CCA-AAAC
1 CCAGAAAC
18237525 GCTTCCTCCA
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
53 4 0.07
54 18 0.32
55 35 0.61
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCA
Found at i:18246282 original size:46 final size:45
Alignment explanation
Indices: 18246213--18246384 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 45
18246203 TGGGCATCCA
**
18246213 AACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
18246259 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* * *
18246306 AGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC-G
* *
18246352 AGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18246385 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 59 0.58
47 31 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:18246364 original size:93 final size:93
Alignment explanation
Indices: 18246205--18246376 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
18246195 AGGATATTTG
*** * * *
18246205 GGCATCCAAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
18246270 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
18246298 GGCATCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACG-CCTGAGCTCATTGA
1 GGCATCCAAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGTCC-GAACTCATTGA
18246362 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
18246377 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:18251095 original size:15 final size:16
Alignment explanation
Indices: 18251066--18251095 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18251056 TAAACATGCT
18251066 TTAACACATTATCAAA
1 TTAACACATTATCAAA
18251082 TTAACACA-TATCAA
1 TTAACACATTATCAA
18251096 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:18252501 original size:2 final size:2
Alignment explanation
Indices: 18252494--18252523 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18252484 GCATACTAAC
18252494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18252524 TGATTTAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18258290 original size:5 final size:6
Alignment explanation
Indices: 18258276--18258306 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
18258266 ACCTTGTGGC
18258276 AAAAGA AAAAGA AAAAGA AAAAG- AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
18258307 GTGATGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:18266913 original size:40 final size:40
Alignment explanation
Indices: 18266867--18267015 Score: 199
Period size: 40 Copynumber: 3.7 Consensus size: 40
18266857 TATAACCACA
* * * **
18266867 AGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
* *
18266907 TGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
* *
18266947 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
* *
18266987 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
18267016 GTATCATTCA
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
Found at i:18278985 original size:43 final size:42
Alignment explanation
Indices: 18278913--18279056 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 42
18278903 TATGTGTTAT
* **
18278913 CGTGTAAGACCATGTGTGGGATGTTGGCATCGAT-TTGAGATTA
1 CGTGTAAGACCATGTCTGGGA-CATGGCATCGATATT-AGATTA
*
18278956 CGTGTAAGACCATGTCTGGGACATCGGCATC-ATATT-GATTT
1 CGTGTAAGACCATGTCTGGGACAT-GGCATCGATATTAGATTA
* *
18278997 TGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTCA-ATTA
1 CGTGTAAGACCATGTCTGGGACA-TGGCATCGATATT-AGATTA
* * *
18279040 CATGGAAGACCACGTCT
1 CGTGTAAGACCATGTCT
18279057 AGGATGTTGG
Statistics
Matches: 83, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
41 31 0.37
42 9 0.11
43 43 0.52
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATGGCATCGATATTAGATTA
Found at i:18281271 original size:36 final size:36
Alignment explanation
Indices: 18281230--18281299 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
18281220 ACTTCGTAAC
18281230 TTCTTCGATTTAAAGCTCATACTATGCATGTACATA
1 TTCTTCGATTTAAAGCTCATACTATGCATGTACATA
18281266 TTCTTCGATTTAAAGCTCATACTATGCATGTACA
1 TTCTTCGATTTAAAGCTCATACTATGCATGTACA
18281300 GACCTATACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (36 bp):
TTCTTCGATTTAAAGCTCATACTATGCATGTACATA
Found at i:18281466 original size:41 final size:42
Alignment explanation
Indices: 18281361--18281546 Score: 143
Period size: 41 Copynumber: 4.6 Consensus size: 42
18281351 ACTCGATATC
*** * * **
18281361 TCGCACACTAAGTGTTGTACATAGCCGAATCTATCT-C-AAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCGATT
* * * *
18281401 TCACACACTAAGTGTCGTACATAGCCGAAGCTAT-TCCGATT
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCGATT
18281442 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCC-ATCT
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCGAT-T
* * * * * * *
18281484 T-GTACATTAAGTGCCATATATAGCTGAAGTTATGT-TGA-A
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCGATT
*
18281523 TCGCACACTAAGTGCCACATATAG
1 TCGCACACTAAGTGCCATATATAG
18281547 TTGATTTGTC
Statistics
Matches: 121, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 2 0.02
40 51 0.42
41 63 0.52
42 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCGATT
Found at i:18283743 original size:16 final size:16
Alignment explanation
Indices: 18283724--18283754 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18283714 CTTCTTCACT
18283724 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
18283740 TACTTACTTACTTAA
1 TACTCACTTACTTAA
18283755 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:18283760 original size:20 final size:20
Alignment explanation
Indices: 18283721--18283760 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18283711 AAACTTCTTC
* *
18283721 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
18283741 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
18283761 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:18284130 original size:55 final size:54
Alignment explanation
Indices: 18283993--18284200 Score: 251
Period size: 55 Copynumber: 3.8 Consensus size: 54
18283983 ATCCCTCTGA
* * ** *
18283993 AACTTACCATTGCCATGTCTCAACATGGTTTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
18284046 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG
* * *
18284100 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
*
18284154 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
18284201 AAGCCCTAAT
Statistics
Matches: 132, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 43 0.33
54 8 0.06
55 77 0.58
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:18284139 original size:108 final size:110
Alignment explanation
Indices: 18283993--18284193 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
18283983 ATCCCTCTGA
* *
18283993 AACTTACCATTGCCATGTCTCAACATGGTTTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
18284056 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
18284101 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
18284166 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
18284194 TATCCTTAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 7 0.08
110 28 0.33
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:18284571 original size:30 final size:30
Alignment explanation
Indices: 18284537--18284595 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
18284527 TCCTTGACTC
18284537 AAACTTTGGA-AAAATTACACTTTTGCCCCT
1 AAACTTT-GACAAAATTACACTTTTGCCCCT
* * *
18284567 AAACTTTTACATATTTACACTTTTGCCCC
1 AAACTTTGACAAAATTACACTTTTGCCCC
18284596 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTTTTGCCCCT
Found at i:18294998 original size:16 final size:16
Alignment explanation
Indices: 18294979--18295009 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18294969 CTTCTTCACT
18294979 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
18294995 TACTTACTTACTTAA
1 TACTCACTTACTTAA
18295010 TCAAATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:18295015 original size:20 final size:20
Alignment explanation
Indices: 18294976--18295015 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18294966 AAACTTCTTC
* *
18294976 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
18294996 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
18295016 TCATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:18295329 original size:53 final size:54
Alignment explanation
Indices: 18295203--18295351 Score: 150
Period size: 53 Copynumber: 2.9 Consensus size: 54
18295193 CGGGTACCTT
* * *
18295203 ACCATTGCCATGACTTGTCATGGTCTTACGTGGTAT-C---CCTT-TGAAACTT
1 ACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTC
* * *
18295252 ACCATTTCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTC
1 ACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTC
* * * *
18295305 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTAT
1 ACCATTGCCATGACTTGACATGGTCTTACATGGTATCC-TTGCCTTAT
18295352 AGTAACTTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
49 31 0.38
50 1 0.01
52 2 0.02
53 46 0.56
54 2 0.02
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (54 bp):
ACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTC
Found at i:18297253 original size:40 final size:40
Alignment explanation
Indices: 18297174--18297331 Score: 162
Period size: 40 Copynumber: 4.0 Consensus size: 40
18297164 TTCGAATGAT
* * * *
18297174 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
18297214 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * *
18297254 ATCCGGACTAAGATCCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
*
18297294 ATCC-GAGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGA-CTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
18297332 GTAACCGGGC
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.03
40 90 0.91
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:18297352 original size:80 final size:80
Alignment explanation
Indices: 18297174--18297361 Score: 199
Period size: 80 Copynumber: 2.3 Consensus size: 80
18297164 TTCGAATGAT
* *
18297174 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
18297239 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * *
18297254 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCC-GAGTTAAG-TCCCGAAG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGA-CTAAGAT-CCGAAG
* *
18297314 GCATTCGTGCGAGTTACTGTA
61 GCATACGTGCGAGTTACT-AA
*
18297335 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
18297362 ATGTGTACCC
Statistics
Matches: 91, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
79 4 0.04
80 77 0.85
81 10 0.11
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:18300548 original size:44 final size:43
Alignment explanation
Indices: 18300500--18300582 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 43
18300490 AAATAATTAG
* *
18300500 CCGAATCTATAAT-GATATCGCATACTTAGTGCCATCATATTAAA
1 CCGAAGCTATAATGGA-ATCGCACACTTAGTGCCA-CATATTAAA
**
18300544 CCGAAGCTATCTTGGAATCGCACACTTAGTGCCACATAT
1 CCGAAGCTATAATGGAATCGCACACTTAGTGCCACATAT
18300583 AGCTGTAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 5 0.15
44 27 0.79
45 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
CCGAAGCTATAATGGAATCGCACACTTAGTGCCACATATTAAA
Found at i:18300662 original size:40 final size:40
Alignment explanation
Indices: 18300546--18300663 Score: 107
Period size: 39 Copynumber: 3.0 Consensus size: 40
18300536 ATATTAAACC
* * *
18300546 GAAGCTATCTTGGAATCGCACACTT-AGTGCCACATATAGCT
1 GAAGCTAT-TTCGAATCGCACA-TTAAGTGCAAAATATAGCT
* * ***
18300587 GTAGCTA-TTC-AATTCGCACACTAAGTGCTTTATATAGCT
1 GAAGCTATTTCGAA-TCGCACATTAAGTGCAAAATATAGCT
*
18300626 GAAGCTATTTCGAAGCGCACATTAAGTGCAAAATATAG
1 GAAGCTATTTCGAATCGCACATTAAGTGCAAAATATAG
18300664 TAGATTTGTC
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
38 3 0.05
39 28 0.46
40 22 0.36
41 8 0.13
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (40 bp):
GAAGCTATTTCGAATCGCACATTAAGTGCAAAATATAGCT
Found at i:18320004 original size:29 final size:29
Alignment explanation
Indices: 18319970--18320074 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
18319960 TACTAGATTT
* * *
18319970 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
18319999 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
18320028 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
18320057 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
18320075 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:18320062 original size:58 final size:59
Alignment explanation
Indices: 18320008--18320130 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 59
18319998 CCGCACACAC
* *
18320008 AGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
* * * *
18320066 AGTGCCATATATTTCCAGCAT-GCACACTCAGTGCCATATTTTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
18320124 AGTGCCA
1 AGTGCCA
18320131 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (59 bp):
AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:18320075 original size:29 final size:29
Alignment explanation
Indices: 18320029--18320130 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
18320019 CTTCGAGCTC
18320029 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
18320058 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
18320087 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
18320116 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
18320131 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:18321931 original size:15 final size:15
Alignment explanation
Indices: 18321913--18321948 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
18321903 GACTATTAAA
18321913 TTTAATTAAAGAAAT
1 TTTAATTAAAGAAAT
18321928 TTT-ATTAAAGAAAT
1 TTTAATTAAAGAAAT
18321942 TTTAATT
1 TTTAATT
18321949 TTCCAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTAATTAAAGAAAT
Found at i:18322965 original size:98 final size:98
Alignment explanation
Indices: 18322796--18322986 Score: 328
Period size: 98 Copynumber: 1.9 Consensus size: 98
18322786 AACGTGTACG
* *
18322796 AAGATTTGATGTCTGACCTCATTGATTGTTTGTGTCCATTATCATCATCTCATTTATGCCAGACA
1 AAGATTTGATGTCTGACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGACA
18322861 TGATAGACTCATCAACGATTAACAAGACGTATA
66 TGATAGACTCATCAACGATTAACAAGACGTATA
* * *
18322894 AAGATTTTATGTTTGACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGGCA
1 AAGATTTGATGTCTGACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGACA
*
18322959 TGATAGACTCATCAATGATTAACAAGAC
66 TGATAGACTCATCAACGATTAACAAGAC
18322987 ATTTATCAAT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (98 bp):
AAGATTTGATGTCTGACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGACA
TGATAGACTCATCAACGATTAACAAGACGTATA
Found at i:18330232 original size:44 final size:45
Alignment explanation
Indices: 18330165--18330358 Score: 198
Period size: 44 Copynumber: 4.4 Consensus size: 45
18330155 AGGAGGAAGG
*
18330165 ATTGGTGGTTTCTTCCACAACCTACATGGCAGCTTGTCTGTAAAA
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAA
* * *
18330210 ATTGGTGGTTT-ATCCACAACCTACATTGCATCTTGTCTGTAAAT
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAA
* * * * * *
18330254 ATTGGTAGTTTCATCCCCGACCTACATGGCAACTTGTCTAT-GAA
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAA
* * * * *
18330298 TTTGGAGGTTT-ATCCACAACCTACATGACAGCTTG-CTTGTGAAT
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTC-TGTAAAA
* *
18330342 ATTGGTGGCTTCGTCCA
1 ATTGGTGGTTTCATCCA
18330359 ATTATATATT
Statistics
Matches: 119, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
42 1 0.01
43 22 0.18
44 57 0.48
45 39 0.33
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (45 bp):
ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAA
Found at i:18335686 original size:46 final size:46
Alignment explanation
Indices: 18335581--18335706 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 46
18335571 TAACCCGCCT
* * *
18335581 ATAAGTGAACTCGGACTCAACTCAATGAG-TCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
* * *
18335626 ATGAGTGAACTCGGACACAACTCAACGAGTTCGGACATTTGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
18335672 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18335707 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 26 0.36
46 46 0.64
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
Found at i:18335725 original size:46 final size:45
Alignment explanation
Indices: 18335584--18335725 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
18335574 CCCGCCTATA
* ** *
18335584 AGTGAACTCGGACTCAACTCAATGAG-TCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
18335628 GAGTGAACTCGGACACAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
18335674 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
18335721 AGTGA
1 AGTGA
18335726 CATGTCACTT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
45 24 0.29
46 52 0.63
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:18343988 original size:47 final size:46
Alignment explanation
Indices: 18343886--18344105 Score: 171
Period size: 46 Copynumber: 4.7 Consensus size: 46
18343876 TCACTGGTGT
* *
18343886 AAGCTAGTGTAAGACATGTCTGGGACAT-TCATCGACCACATT-ATGA-G
1 AAGCTAGTGTAAGACATGTCTGGGACATGGCATCG---GCATTGA-GACG
18343933 -AGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG
1 AAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG
* * ** * * * * *
18343978 AGTGCTAGTGTAAGACAAGTCTGAAAGAT-GCATCAGCCTCGAGATG
1 A-AGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG
* * * *
18344024 TAAGCCAGTGTAAGACATGTCTGGGACATGGCATTGGCATTGATATGCT
1 -AAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGA--CG
*
18344073 AGAGCTTGTGTAAGACCATGTCTGGGACATGGC
1 A-AGCTAGTGTAAGA-CATGTCTGGGACATGGC
18344106 GTTTGCACCA
Statistics
Matches: 136, Mismatches: 26, Indels: 19
0.75 0.14 0.10
Matches are distributed among these distances:
44 6 0.04
45 2 0.01
46 61 0.45
47 38 0.28
48 1 0.01
49 11 0.08
50 17 0.12
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG
Found at i:18364689 original size:40 final size:40
Alignment explanation
Indices: 18364631--18364873 Score: 364
Period size: 40 Copynumber: 6.1 Consensus size: 40
18364621 TGGATGATAA
18364631 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
** *
18364671 CCGGGCTAAGTCAAGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
18364711 CCGGGCTAAGTCGCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
18364751 CCGGGCTAAG-CCCGAAGGCATTGGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
18364790 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
18364830 CCGGGCTATGTCCCGAAGGCATTCGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
18364870 CCGG
1 CCGG
18364874 TTAAATCTCG
Statistics
Matches: 188, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 38 0.20
40 150 0.80
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:18364807 original size:79 final size:80
Alignment explanation
Indices: 18364631--18364852 Score: 365
Period size: 79 Copynumber: 2.8 Consensus size: 80
18364621 TGGATGATAA
** *
18364631 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCAAGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
*
18364696 TGCGAGTTACTATAT
66 CGCGAGTTACTATAT
* *
18364711 CCGGGCTAAGTCGCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
18364775 CGCGAGTTACTATAT
66 CGCGAGTTACTATAT
* *
18364790 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
18364853 CGAGCTAGTA
Statistics
Matches: 132, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
79 72 0.55
80 60 0.45
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
CGCGAGTTACTATAT
Found at i:18364868 original size:119 final size:120
Alignment explanation
Indices: 18364631--18364873 Score: 373
Period size: 119 Copynumber: 2.0 Consensus size: 120
18364621 TGGATGATAA
* *
18364631 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCAAGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGCGCGAGTTACTATATCCGGGCTAAGTCAAGAAGGCATTGG
* * *
18364696 TGCGAGTTACTATATCCGGGCTAAGTCGCGAAGGCATTTGTGCGAGTTACTATAT
66 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
* **
18364751 CCGGGCTAAG-CCCGAAGGCATTGGCGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTCGCGCGAGTTACTATATCCGGGCTAAGTCAAGAAGGCATTGG
* *
18364815 TGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCTAG-TAGCTATAT
66 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTA-CTATAT
18364870 CCGG
1 CCGG
18364874 TTAAATCTCG
Statistics
Matches: 112, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
118 2 0.02
119 100 0.89
120 10 0.09
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTCGCGCGAGTTACTATATCCGGGCTAAGTCAAGAAGGCATTGG
TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
Found at i:18372737 original size:40 final size:40
Alignment explanation
Indices: 18372682--18372937 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
18372672 TGGATGATAA
* * *
18372682 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
18372722 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
18372762 CCGGGCTAAGT--CGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
18372800 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
18372840 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
18372880 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
18372920 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
18372938 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
38 38 0.19
39 16 0.08
40 146 0.73
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:18378044 original size:47 final size:47
Alignment explanation
Indices: 18377976--18378238 Score: 463
Period size: 47 Copynumber: 5.6 Consensus size: 47
18377966 CCTGTATATA
* *
18377976 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
18378023 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
18378070 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
18378117 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
18378164 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
18378211 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
18378239 CGAAATGTGT
Statistics
Matches: 209, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 209 1.00
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:18378278 original size:46 final size:46
Alignment explanation
Indices: 18378212--18378301 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
18378202 GAACATGTAT
* * *
18378212 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
* *
18378258 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
18378302 GTATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
Found at i:18378310 original size:2 final size:2
Alignment explanation
Indices: 18378303--18378335 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18378293 GTATGAGATG
18378303 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18378336 GGCCAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18380655 original size:40 final size:40
Alignment explanation
Indices: 18380581--18381007 Score: 665
Period size: 40 Copynumber: 10.7 Consensus size: 40
18380571 TTGAGAGTTG
* * *
18380581 TATAGCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
18380621 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
18380661 TATATCCGGGCTAAATCCTGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
* * *
18380701 TGTATCCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
18380741 TATATCCGGGCTAAATCCTGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
* * * *
18380781 TGTATCTGGACTAAATCCCGAAGAGCATTTGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
18380821 TATATCCGGGCTAAATCCCGGAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
* *
18380861 TGTATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
18380901 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
18380941 TGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
* ***
18380981 TGTATCCGGGCTGGGTCCCGAAGAGCA
1 TATATCCGGGCTAAATCCCGAAGAGCA
18381008 ATCATGCTGG
Statistics
Matches: 354, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 354 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
Found at i:18384950 original size:67 final size:65
Alignment explanation
Indices: 18384871--18385052 Score: 242
Period size: 67 Copynumber: 2.7 Consensus size: 65
18384861 CATCATGTGT
* *
18384871 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTCAC-TGTGTGATACGGGATGTATCCCAT
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTAT-CCAT
18384934 GTAG
62 GTAG
18384938 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCATGT
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCATGT
18385003 AG
64 AG
* *
18385005 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGAT
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGAT
18385053 TCCAAGTGAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
67 78 0.73
68 24 0.22
69 5 0.05
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (65 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCATGTAG
Found at i:18385093 original size:67 final size:64
Alignment explanation
Indices: 18384930--18385116 Score: 191
Period size: 67 Copynumber: 2.8 Consensus size: 64
18384920 GGGATGTATC
* * * * *
18384930 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGT
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATGTAGCTAGGTCGCATGAGTGATAAGGGAAGG
*
18384995 AT
63 AA
*
18384997 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATGTAGCTAGGTCGCATGAGTGA-T--AAGGGA
18385062 AGGACA
60 AGGA-A
18385068 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG--GCTAGGTCGCATGAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GTAGCTAGGTCGCATGAGTG
18385117 GTACTAAGTG
Statistics
Matches: 108, Mismatches: 7, Indels: 11
0.86 0.06 0.09
Matches are distributed among these distances:
66 17 0.16
67 62 0.57
68 2 0.02
70 6 0.06
71 21 0.19
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.21
Consensus pattern (64 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGTAGCTAGGTCGCATGAGTGATAAGGGAAGGAA
Found at i:18392476 original size:68 final size:67
Alignment explanation
Indices: 18392430--18392587 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 67
18392420 ATACTATATA
18392430 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
18392495 AAT
65 AAT
18392498 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
18392563 AAT
65 AAT
* *
18392566 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
18392588 TCCAAGTGAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:18392661 original size:66 final size:67
Alignment explanation
Indices: 18392464--18392661 Score: 192
Period size: 68 Copynumber: 2.9 Consensus size: 67
18392454 GGGATGTATC
* * *
18392464 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
18392526 TGTATC-
62 AGGA-CA
*
18392532 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
18392597 AGGACA
62 AGGACA
* *
18392603 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
18392662 TTCACCATGT
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.47
69 1 0.01
70 1 0.01
71 26 0.22
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:18399355 original size:46 final size:47
Alignment explanation
Indices: 18399197--18399464 Score: 228
Period size: 46 Copynumber: 5.7 Consensus size: 47
18399187 AGGGTATAAT
* * * * *
18399197 GCCGATGCCATGTCCCAGACGTGGTCTTACACTGGCTCTCACATATCCAT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATCTCGAG
** *
18399247 GATGATGGATGTCCCAGACATGTCTTACACTAG--C-ACATCTCGCA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCG-AG
* * *
18399291 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TATATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAG
* * * * *
18399337 GCCGATGCATGTCTCAAACATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAG
* * * * *
18399383 GCCGATGCCATGTCCCAGATATGGTCTTACATTGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTACAT-CTCGAG
18399431 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
18399465 ACACACACAT
Statistics
Matches: 177, Mismatches: 32, Indels: 22
0.77 0.14 0.10
Matches are distributed among these distances:
44 34 0.19
45 2 0.01
46 64 0.36
47 25 0.14
48 34 0.19
49 13 0.07
50 5 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAG
Found at i:18399438 original size:94 final size:96
Alignment explanation
Indices: 18399194--18399467 Score: 325
Period size: 94 Copynumber: 2.9 Consensus size: 96
18399184 CATAGGGTAT
* * * ** *
18399194 AATGCCGATGCCATGTCCCAGACGTGGTCTTACACTGGCTCTCACATATCCAT-GATGATGGATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAT-CGTGGCCGATGCATG
18399258 TCCCAGACATGTCTTACACTAGCACATCTCGC
65 TCCCAGACATGTCTTACACTAGCACATCTCGC
* * *
18399290 -A-GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-ATATCTCGAGGCCGATGCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGTGGCCGATGCATGT
* * * *
18399349 CTCAAACATGTCTTACACTAGCTC-TCGTCTC
66 CCCAGACATGTCTTACACTAGCACATC-TCGC
* *
18399380 AATGCCGATGCCATGTCCCAGATATGGTCTTACATTGGCTCTCATA-AT-GTGGCCGATGCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGTGGCCGATGCATGT
18399443 CCCAGACATGTCTTACACTAGCACA
66 CCCAGACATGTCTTACACTAGCACA
18399468 CACACATCAC
Statistics
Matches: 148, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
89 3 0.02
90 37 0.25
91 2 0.01
92 21 0.14
93 24 0.16
94 55 0.37
95 3 0.02
96 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (96 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGTGGCCGATGCATGT
CCCAGACATGTCTTACACTAGCACATCTCGC
Found at i:18400997 original size:42 final size:43
Alignment explanation
Indices: 18400897--18401001 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
18400887 CAATATCAAC
* * *
18400897 ATCCCAGACGTGGCCTTACATGTAATCAAATATCAATGCCACT
1 ATCCCAAACGTGGTCTTACATGAAATCAAATATCAATGCCACT
*
18400940 ATCCCAAACAG-GGTCTTACATGAAATCAAATAT-GATGCCAAC-
1 ATCCCAAAC-GTGGTCTTACATGAAATCAAATATCAATGCC-ACT
* *
18400982 GTCTCAAACGTGGTCTTACA
1 ATCCCAAACGTGGTCTTACA
18401002 CGTAAAACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 21 0.40
43 30 0.57
44 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
ATCCCAAACGTGGTCTTACATGAAATCAAATATCAATGCCACT
Found at i:18402958 original size:22 final size:23
Alignment explanation
Indices: 18402933--18402978 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18402923 CAACCAAATC
18402933 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
18402955 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
18402978 A
1 A
18402979 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:18402984 original size:23 final size:23
Alignment explanation
Indices: 18402940--18402984 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18402930 ATCAATTCAA
*
18402940 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
18402963 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
18402985 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:18409639 original size:22 final size:23
Alignment explanation
Indices: 18409614--18409659 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18409604 CAACCAAATC
18409614 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
18409636 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
18409659 A
1 A
18409660 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:18409665 original size:23 final size:23
Alignment explanation
Indices: 18409621--18409665 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18409611 ATCAATTCAA
*
18409621 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
18409644 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
18409666 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:18426633 original size:48 final size:46
Alignment explanation
Indices: 18426531--18426655 Score: 166
Period size: 48 Copynumber: 2.7 Consensus size: 46
18426521 AGATGTAAGC
* *
18426531 CAGTATAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGAGGTGT
18426575 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACG---AGAGGTGT
* *
18426623 CAGTGTAAGACCATGTCTGAGACATGGAATCGG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG
18426656 TACAAATATG
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
44 9 0.12
45 17 0.24
46 8 0.11
48 38 0.53
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGAGGTGT
Found at i:18427924 original size:21 final size:20
Alignment explanation
Indices: 18427898--18427937 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
18427888 GTTATAATGA
18427898 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGTGTG-TGCCCTT
18427919 CCACACGGGTGTGTGCCCT
1 CCACACGGGTGTGTGCCCT
18427938 GTTTTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (20 bp):
CCACACGGGTGTGTGCCCTT
Found at i:18430794 original size:42 final size:43
Alignment explanation
Indices: 18430692--18430831 Score: 115
Period size: 42 Copynumber: 3.3 Consensus size: 43
18430682 TTATTGTGTT
* * * * * *
18430692 AGACCACGTCTAGGACATTGGCATCGATTTGA-GATTTATATGGA
1 AGACCATGTCTAGGACAGTGACATCGATAT-ATGA-TTACATGTA
* * *
18430736 AGACCATGTCTAGGACA-TCGGCATCG-TATATGTTTTCATGTA
1 AGACCATGTCTAGGACAGT-GACATCGATATATGATTACATGTA
* * *
18430778 AGACCCTGTCTGGGACAGTGACATCGATATTTGATTACATGTA
1 AGACCATGTCTAGGACAGTGACATCGATATATGATTACATGTA
*
18430821 AGACCACGTCT
1 AGACCATGTCT
18430832 TGGATGTTGG
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
42 28 0.36
43 27 0.35
44 23 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
AGACCATGTCTAGGACAGTGACATCGATATATGATTACATGTA
Found at i:18433361 original size:46 final size:46
Alignment explanation
Indices: 18433294--18433705 Score: 231
Period size: 46 Copynumber: 8.7 Consensus size: 46
18433284 TATGTGTGCT
*
18433294 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-C-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATCGA-GATGAGAGCC
* **
18433340 AGTGTAAGTCATGTCTGGGACATGCATCGGCATCGAGATGAGAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGAGAGCC
* * * * * *
18433386 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAT-GA-GAGCC
* * * * ** * *
18433434 AGTGTAAGACCTGTCTGGGACATG-GT-GTCAGCTTGATGAGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGAGAGCC
* * * * * ** **
18433478 AGTGTAAGACCTGTCTGGGACATGGCAGCGACTTTGATTTGCTAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCATCGAGATGAGAGCC
* * * * *
18433525 AGAGTAAGACCATATCTGGGACGTGGCATCGACATCGATAGATAAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCG--AGATGAGAGCC
* * * * * * *
18433575 AGTGTAGGACCTGTCTAGGACAATGCATCGGCCTCGATAAATGAAAGTC
1 AGTGTAAGACATGTCTGGGAC-ATGCATCGGCATCG--AGATGAGAGCC
* * * * * * **
18433624 AGTGTAAGACCTATCTGGGACATGGCATCGACTTTGATATGCTAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCATCGAGATGAGAGCC
18433671 AGTGTAA-ACTATGTCTGGGACATGGCATCGGCATC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCATC
18433706 TTATCCCATG
Statistics
Matches: 275, Mismatches: 78, Indels: 25
0.73 0.21 0.07
Matches are distributed among these distances:
44 24 0.09
45 4 0.01
46 78 0.28
47 51 0.19
48 49 0.18
49 55 0.20
50 14 0.05
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGAGAGCC
Found at i:18433612 original size:49 final size:49
Alignment explanation
Indices: 18433582--18433705 Score: 87
Period size: 47 Copynumber: 2.6 Consensus size: 49
18433572 GCCAGTGTAG
* * * *
18433582 GACCTGTCTAGGACAAT-GCATCGGCCTCGATAAATGAAAGTCAGTGTAA
1 GACCTATCTAGGAC-ATGGCATCGACATCGATAAATGAAAGCCAGTGTAA
* * * **
18433631 GACCTATCTGGGACATGGCATCGACTTTGAT--ATGCTAGCCAGTGTAA
1 GACCTATCTAGGACATGGCATCGACATCGATAAATGAAAGCCAGTGTAA
* *
18433678 -A-CTATGTCTGGGACATGGCATCGGCATC
1 GACCTA--TCTAGGACATGGCATCGACATC
18433706 TTATCCCATG
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
45 3 0.05
46 1 0.02
47 32 0.52
48 2 0.03
49 23 0.38
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (49 bp):
GACCTATCTAGGACATGGCATCGACATCGATAAATGAAAGCCAGTGTAA
Found at i:18439610 original size:51 final size:51
Alignment explanation
Indices: 18439555--18439652 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
18439545 CTTCTAGTGA
* *
18439555 AAGCTACCTTATT-CACAAAGTGGCCTTCACATAGTACCACACTTGTGACCC
1 AAGCTACCTT-TTACACAAAGTGGCCTGCACATAGTACCACACATGTGACCC
** * *
18439606 AAGCTATGTTTTACACATAGTGGCCTGCACTTAGTACCACACATGTG
1 AAGCTACCTTTTACACAAAGTGGCCTGCACATAGTACCACACATGTG
18439653 TTCGAAGCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 38 0.95
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (51 bp):
AAGCTACCTTTTACACAAAGTGGCCTGCACATAGTACCACACATGTGACCC
Found at i:18439661 original size:51 final size:51
Alignment explanation
Indices: 18439568--18439701 Score: 135
Period size: 51 Copynumber: 2.6 Consensus size: 51
18439558 CTACCTTATT
* * * * **
18439568 CACAAAGTGGCCTTCACATAGTACCACACTTGTGACCCAAGCTAT-GTTTTA
1 CACATAGTGGCCTGCACTTAGTACCACACATGTGACCCAAGCTATCG-GGTA
** *
18439619 CACATAGTGGCCTGCACTTAGTACCACACATGTGTTCGAAGCTATCGGGTA
1 CACATAGTGGCCTGCACTTAGTACCACACATGTGACCCAAGCTATCGGGTA
* * * *
18439670 CGCATAATAGCCTGCACTTAGTACTACACATG
1 CACATAGTGGCCTGCACTTAGTACCACACATG
18439702 CTACCTAACC
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
51 68 0.99
52 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (51 bp):
CACATAGTGGCCTGCACTTAGTACCACACATGTGACCCAAGCTATCGGGTA
Found at i:18444187 original size:25 final size:25
Alignment explanation
Indices: 18444158--18444214 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
18444148 TACCCAGAAT
18444158 AACATCAAAATCA-TCAAATGGTAAC
1 AACATCAAAATCACT-AAATGGTAAC
* *
18444183 AACATCAAACTCACTAAATGGTAAT
1 AACATCAAAATCACTAAATGGTAAC
18444208 AACATCA
1 AACATCA
18444215 GATTAGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.51, C:0.21, G:0.07, T:0.21
Consensus pattern (25 bp):
AACATCAAAATCACTAAATGGTAAC
Found at i:18447138 original size:23 final size:23
Alignment explanation
Indices: 18447112--18447188 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
18447102 AGGCTACTAC
18447112 GTGTACCGGATAATTGGTCACAT
1 GTGTACCGGATAATTGGTCACAT
* * *
18447135 GTGTA--GTACTAAGTGCAGGCTACTAT
1 GTGTACCGGA-TAATTG--GTC-AC-AT
*
18447161 GTGTACCGGATAATTGGTCGCAT
1 GTGTACCGGATAATTGGTCACAT
18447184 GTGTA
1 GTGTA
18447189 GTACTATGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
21 2 0.05
22 5 0.12
23 12 0.30
24 3 0.08
25 4 0.10
26 7 0.17
27 5 0.12
28 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (23 bp):
GTGTACCGGATAATTGGTCACAT
Found at i:18447162 original size:26 final size:26
Alignment explanation
Indices: 18447088--18447165 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 26
18447078 GGTCACGTGC
*
18447088 GTAGTACTAAGTGCAGGCTACTACGT
1 GTAGTACTAAGTGCAGGCTACTATGT
* * *
18447114 GTACCGGA-TAATTG--GTC-AC-ATGT
1 GTA--GTACTAAGTGCAGGCTACTATGT
18447137 GTAGTACTAAGTGCAGGCTACTATGT
1 GTAGTACTAAGTGCAGGCTACTATGT
18447163 GTA
1 GTA
18447166 CCGGATAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 6 0.16
24 4 0.11
25 4 0.11
26 10 0.26
27 5 0.13
28 2 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (26 bp):
GTAGTACTAAGTGCAGGCTACTATGT
Found at i:18447209 original size:49 final size:49
Alignment explanation
Indices: 18446977--18447221 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
18446967 TCTATTGTGA
* * * * *
18446977 GGTCGCATGTCTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T-T
* * * * **
18447028 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
18447077 AGGTCACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
*
18447127 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
18447176 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
18447222 GCTTTGGCTA
Statistics
Matches: 169, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 89 0.53
50 44 0.26
51 36 0.21
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:18449533 original size:33 final size:32
Alignment explanation
Indices: 18449474--18449537 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
18449464 ACGAAGTCAC
***
18449474 CAGATATAGATATTGTGGCTCGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
18449506 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATATAGATAT-TGTGGCGAAGCCACCAGA
18449538 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:18450288 original size:27 final size:27
Alignment explanation
Indices: 18450258--18450389 Score: 151
Period size: 27 Copynumber: 4.9 Consensus size: 27
18450248 GGCAAAATTG
* * *
18450258 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
18450285 TAATTCGACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
18450312 TATTTCTACCCTACAAGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
*
18450339 TAATTCTATCCTACAAGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
18450365 GTAATTCTACCCTA-AAGGGGTATTT
1 -TAATTCTACCCTACAA-GGGTATTT
18450390 TAGTAATTCT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.02
27 86 0.98
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:18454924 original size:37 final size:37
Alignment explanation
Indices: 18454874--18454946 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
18454864 TAGCTCAGAC
*
18454874 AAAATCTCCACACGAAGTTATCGGGTCTTACCCGGAT
1 AAAATCTCCACACGAAGTCATCGGGTCTTACCCGGAT
*
18454911 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
18454947 ATATATTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (37 bp):
AAAATCTCCACACGAAGTCATCGGGTCTTACCCGGAT
Found at i:18455209 original size:98 final size:96
Alignment explanation
Indices: 18455093--18455276 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
18455083 GCACATCGCC
*
18455093 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
18455158 -GACCATTCGGCTTTACCACATATGCATATCTCA
64 AG-CCATTCGGCTTTACCACATATGCATATCTCA
* * *
18455191 TACATATTTCACATTAGCCATTCGGCTTTACCACATGTACATATCTCATACATATTTCGCATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
18455256 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
18455277 ATACATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
96 35 0.43
97 1 0.01
98 45 0.56
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATGCATATCTCA
Found at i:18455217 original size:48 final size:48
Alignment explanation
Indices: 18455093--18455277 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
18455083 GCACATCGCC
*
18455093 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
18455143 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
18455191 TACATATTTCACATTAGCCATTCGGCTTTACCACATGTACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
18455239 TACATATTTCGCATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
18455278 TACATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
48 81 0.65
49 2 0.02
50 42 0.34
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:18455340 original size:47 final size:47
Alignment explanation
Indices: 18455250--18455393 Score: 162
Period size: 47 Copynumber: 3.1 Consensus size: 47
18455240 ACATATTTCG
* * * * * *
18455250 CATTAGCCATTCGGCTTTACCACATATATACATGTTCATATTCACCA
1 CATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCACCA
* *
18455297 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCACCA
* * *** *
18455344 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCACCA
18455391 CAT
1 CAT
18455394 AAAATCCTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 83 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCACCA
Found at i:18458527 original size:40 final size:40
Alignment explanation
Indices: 18458495--18458886 Score: 570
Period size: 40 Copynumber: 9.8 Consensus size: 40
18458485 CCAGCATGAT
* * *
18458495 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
18458535 TGCTCTTCGAGG-TTTGGCACGGATATATCACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATATATCACTAGCACGAA
* * *
18458575 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGAACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
18458615 TGCTCTTCGGGACTTAGTCCAGATAGATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
18458655 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
18458695 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
18458735 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
18458775 TGCTCTTCGGGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
18458815 TGCTCTTCGGGACATAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
18458855 TGCTCTTCGGAACTTAGCCTGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
18458887 CTCAATTCTC
Statistics
Matches: 313, Mismatches: 37, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
39 1 0.00
40 310 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:18460451 original size:37 final size:37
Alignment explanation
Indices: 18460401--18460476 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
18460391 CTTTAGCTCA
*
18460401 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
*
18460438 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
18460475 GA
1 GA
18460477 ATATATTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (37 bp):
GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
Found at i:18460739 original size:98 final size:96
Alignment explanation
Indices: 18460623--18460806 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
18460613 GCTCATCGCC
*
18460623 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
18460688 -GACCATTCGACTTTACCACATATGCATATCTCA
64 AG-CCATTCGACTTTACCACATATGCATATCTCA
* *
18460721 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
18460786 CCATTCGGCTTTACCACATAT
66 CCATTCGACTTTACCACATAT
18460807 ATACATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
96 34 0.42
97 1 0.01
98 46 0.57
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGACTTTACCACATATGCATATCTCA
Found at i:18460750 original size:48 final size:48
Alignment explanation
Indices: 18460623--18460807 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
18460613 GCTCATCGCC
*
18460623 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
18460673 TATATATTTCACATT-GACCATTCGACTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
18460721 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
18460769 TACATATTTCGCATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
18460808 TACATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
48 82 0.66
49 2 0.02
50 41 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:18460876 original size:47 final size:47
Alignment explanation
Indices: 18460780--18460923 Score: 153
Period size: 47 Copynumber: 3.1 Consensus size: 47
18460770 ACATATTTCG
* * * * * *
18460780 CATTAGCCATTCGGCTTTACCACATATATACATGTTCATATTCACCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
* * * *
18460827 CATTGGCCTTTCAGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
* * * **
18460874 CATTGGTCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
18460921 CAT
1 CAT
18460924 AAAATCCTAA
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:18463585 original size:17 final size:18
Alignment explanation
Indices: 18463553--18463586 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18463543 CTCTCCTAAA
18463553 ACGATTCTGATCTTTCTC
1 ACGATTCTGATCTTTCTC
*
18463571 ACGATTTTG-TCTTTCT
1 ACGATTCTGATCTTTCT
18463587 GCATGTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.24, G:0.12, T:0.50
Consensus pattern (18 bp):
ACGATTCTGATCTTTCTC
Found at i:18465592 original size:27 final size:26
Alignment explanation
Indices: 18465544--18465603 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
18465534 GCGAGGCTGC
*
18465544 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
18465571 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
18465597 TAGATAT
1 CAGATAT
18465604 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:18465607 original size:2 final size:2
Alignment explanation
Indices: 18465600--18465627 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18465590 ACCAGAATAG
18465600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18465628 GTGGCGAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18466415 original size:27 final size:27
Alignment explanation
Indices: 18466379--18466496 Score: 155
Period size: 27 Copynumber: 4.4 Consensus size: 27
18466369 AAGGGTTCTC
18466379 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* ** *
18466406 GTATTTCTACCCTACAAAGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
18466433 GTAATTCTATCTTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
18466460 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
18466487 GTAATTCTAC
1 GTAATTCTAC
18466497 AACTTATCCA
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:18468611 original size:51 final size:51
Alignment explanation
Indices: 18468509--18468679 Score: 139
Period size: 51 Copynumber: 3.4 Consensus size: 51
18468499 TTCTTCACAA
* * * * *** *
18468509 AGTGGCCTTCACATAGTACCATACTTGTGACCCAAGCTATCTTTTATGCAT
1 AGTGGCCTACACTTAGTACCACACATGTGACCCAAGCTATCAGGTACGCAT
* * *
18468560 AGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCAGGTACGCAT
1 AGTGGCCTACACTTAGTACCACACATGTGACCCAAGCTATCAGGTACGCAT
* * * * * * * *
18468611 AGTAGTCTACACTTAGTACTACACATGCGACCTAA-CCATCTA-GTACACGT
1 AGTGGCCTACACTTAGTACCACACATGTGACCCAAGCTATC-AGGTACGCAT
*
18468661 AGTAGCCTACACTTAGTAC
1 AGTGGCCTACACTTAGTAC
18468680 TATACACGTG
Statistics
Matches: 98, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
50 28 0.29
51 70 0.71
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (51 bp):
AGTGGCCTACACTTAGTACCACACATGTGACCCAAGCTATCAGGTACGCAT
Found at i:18473129 original size:46 final size:48
Alignment explanation
Indices: 18473077--18473198 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 48
18473067 TGATATGTGT
* * *
18473077 GCTAGTGTAATACATGTCTGGGACATGGATC-GACATTGAGA-CGA-GA
1 GCTAGTGTAAAACATGTCTGGGACATGGATCAG-CATTGAGATAGACAA
* * *
18473123 GCTAGTGTAAAACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
1 GCTAGTGTAAAACATGTCTGGGACATGGATCAGCATTGAGATAGACAA
* *
18473171 GCTAGTGTAAGACCTGTCTGGGACATGG
1 GCTAGTGTAAAACATGTCTGGGACATGG
18473199 TGTCAGCTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 36 0.56
47 2 0.03
48 26 0.41
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAAACATGTCTGGGACATGGATCAGCATTGAGATAGACAA
Found at i:18473344 original size:49 final size:49
Alignment explanation
Indices: 18473215--18473344 Score: 113
Period size: 49 Copynumber: 2.7 Consensus size: 49
18473205 CTTCTTGTGG
* * *
18473215 GTCAGTGTAAGACCTATCTGTGACATGGTATCGACACCGATAGATAAGA
1 GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAAATAAGA
* * * ** * * *
18473264 GCCAATGTAGGATTTGTCTAGGACAAT-GCATCGGC-CTCGATAAATGAA-A
1 GTCAGTGTAAGACCTATCTGGGAC-ATGGCATCGACAC-CGATAAAT-AAGA
18473313 GTCAGTGTAAGACCTATCTGGGACATGGCATC
1 GTCAGTGTAAGACCTATCTGGGACATGGCATC
18473345 AACTTTGATA
Statistics
Matches: 59, Mismatches: 18, Indels: 8
0.69 0.21 0.09
Matches are distributed among these distances:
48 3 0.05
49 52 0.88
50 4 0.07
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAAATAAGA
Found at i:18477153 original size:9 final size:9
Alignment explanation
Indices: 18477139--18477195 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
18477129 TTTAATAAAC
18477139 ATGATATGT
1 ATGATATGT
*
18477148 ATGATATGCAC
1 ATGATATG--T
*
18477159 ATGACATGT
1 ATGATATGT
*
18477168 ATGATATGCAC
1 ATGATATG--T
18477179 ATGATATGT
1 ATGATATGT
18477188 ATGATATG
1 ATGATATG
18477196 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:18477162 original size:20 final size:20
Alignment explanation
Indices: 18477137--18477207 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
18477127 ATTTTAATAA
18477137 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18477157 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
18477177 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18477197 ACATGAGATGT
1 ACATGATATGT
18477208 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:18477184 original size:11 final size:11
Alignment explanation
Indices: 18477148--18477202 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
18477138 CATGATATGT
18477148 ATGATATGCAC
1 ATGATATGCAC
* *
18477159 ATGACATG--T
1 ATGATATGCAC
18477168 ATGATATGCAC
1 ATGATATGCAC
*
18477179 ATGATATG--T
1 ATGATATGCAC
18477188 ATGATATGCAC
1 ATGATATGCAC
18477199 ATGA
1 ATGA
18477203 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18477309 original size:24 final size:23
Alignment explanation
Indices: 18477253--18477404 Score: 223
Period size: 24 Copynumber: 6.4 Consensus size: 23
18477243 GAGGAAGTGC
18477253 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
18477276 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
18477299 AAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
18477323 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
18477347 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
18477371 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
18477395 AAAAGAGGCT
1 AAAAG-GGCT
18477405 AGGCCTCCAG
Statistics
Matches: 119, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 43 0.36
24 72 0.61
25 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:18477322 original size:47 final size:46
Alignment explanation
Indices: 18477253--18477404 Score: 223
Period size: 47 Copynumber: 3.2 Consensus size: 46
18477243 GAGGAAGTGC
18477253 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
18477299 AAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* * *
18477347 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
18477395 AAAAGAGGCT
1 AAAAG-GGCT
18477405 AGGCCTCCAG
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
47 64 0.67
48 27 0.28
49 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:18477368 original size:71 final size:71
Alignment explanation
Indices: 18477252--18477404 Score: 261
Period size: 71 Copynumber: 2.1 Consensus size: 71
18477242 GGAGGAAGTG
18477252 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
18477317 AGTTAT
66 AGTTAT
* * *
18477323 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
18477388 AGTTAT
66 AGTTAT
*
18477394 TAAAAGAGGCT
1 CAAAAG-GGCT
18477405 AGGCCTCCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 73 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
AGTTAT
Found at i:18477649 original size:31 final size:31
Alignment explanation
Indices: 18477611--18477674 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
18477601 CGTTTACAGT
18477611 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* ** *
18477642 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
18477673 AA
1 AA
18477675 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:18479303 original size:47 final size:48
Alignment explanation
Indices: 18479250--18479382 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 48
18479240 CTCAATTGAT
* *
18479250 AAGTACCTATACCAT-AGCCTGTAGCCAAATCAAGGTAACTTATC-CCG
1 AAGTACCTATACCATGA-CCTGTAGCCAAATCAAGGTAACTCATCTCCA
* * * * *
18479297 AAGTACCTAAACCATGGTCCCGTAGCCAAATCAAGATAACTCCTCTCCA
1 AAGTACCTATACCAT-GACCTGTAGCCAAATCAAGGTAACTCATCTCCA
* *
18479346 AAATACCTATACGATGACCTGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGACCTGTAGCCAAATCAAGGTA
18479383 TGATTCGCAT
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
47 14 0.20
48 42 0.60
49 14 0.20
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (48 bp):
AAGTACCTATACCATGACCTGTAGCCAAATCAAGGTAACTCATCTCCA
Found at i:18492843 original size:79 final size:80
Alignment explanation
Indices: 18492706--18492868 Score: 204
Period size: 79 Copynumber: 2.0 Consensus size: 80
18492696 TTGAATGATA
* * * **
18492706 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCAATT-
*
18492770 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
18492786 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCA-ATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCAATTG
**
18492850 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
18492865 CCGG
1 CCGG
18492869 TTAAATCCCG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
79 38 0.54
80 33 0.46
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCATATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:18492882 original size:39 final size:40
Alignment explanation
Indices: 18492706--18492868 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
18492696 TTGAATGATA
* * *
18492706 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
18492746 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * **
18492786 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCA-AT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
18492825 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
18492865 CCGG
1 CCGG
18492869 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.34
40 63 0.61
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:18494662 original size:15 final size:15
Alignment explanation
Indices: 18494638--18494669 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18494628 TATGCATGCA
*
18494638 AAATATAAAAGACAT
1 AAATACAAAAGACAT
18494653 AAATACAAAAGACAT
1 AAATACAAAAGACAT
18494668 AA
1 AA
18494670 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:18496326 original size:27 final size:27
Alignment explanation
Indices: 18496256--18496335 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
18496246 ATATGCATAC
* *
18496256 ACCACATAAGGGCAAAACAATCATCTT
1 ACCACATAAGGGCAAAATAATCATTTT
* *
18496283 ACCATATAAGGGCAAAATAGTCATTTT
1 ACCACATAAGGGCAAAATAATCATTTT
**
18496310 ACCACATAAGGAAAAAATAATCATTT
1 ACCACATAAGGGCAAAATAATCATTT
18496336 AATTAAATTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (27 bp):
ACCACATAAGGGCAAAATAATCATTTT
Found at i:18503497 original size:20 final size:21
Alignment explanation
Indices: 18503472--18503510 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18503462 TCCTTAAAAT
18503472 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
18503492 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
18503511 ACCAACTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:18504678 original size:47 final size:47
Alignment explanation
Indices: 18504607--18504875 Score: 214
Period size: 47 Copynumber: 5.7 Consensus size: 47
18504597 TGGGTAAGGT
* *
18504607 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGAA
* * *
18504654 GTCGATGACATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCA-CATCTCGAA
* * * *
18504702 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGTTTA-AGTCTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCACA-TCTCGAA
* * *
18504748 GCCGATGCATGTCCCAGATAT-GTCTCACACTAGCTCTCATCTC-AA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGAA
** * * * **
18504793 TGTTGATGCCATGTCCTAGACATGGTCTTACACTTGCTC-CAATAAT-GTG
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCAC-AT-CTCGAA
* *
18504842 GCCAATGCATGTCCCAGGCAT-GTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGC
18504876 CAACAACAAC
Statistics
Matches: 177, Mismatches: 34, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
45 2 0.01
46 69 0.39
47 79 0.45
48 26 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGAA
Found at i:18504867 original size:140 final size:141
Alignment explanation
Indices: 18504607--18504872 Score: 342
Period size: 140 Copynumber: 1.9 Consensus size: 141
18504597 TGGGTAAGGT
* * *
18504607 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGACATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTCACATCTCAAGTCGATGACATGTCCCAG
* * *
18504672 ACATGGTCTTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGTT
66 ACATGGTCTTACACTAACTACCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGTT
18504737 TAAGTCTCGAG
131 TAAGTCTCGAG
* * * * *
18504748 GCCGATG-CATGTCCCAGATAT-GTCTCACACTAGCTCTCATCTCAATGTTGATGCCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTCACATCTCAA-GTCGATGACATGTCCCA
** * *
18504811 GACATGGTCTTACACTTGCT-CCAATAAT-GTGGCCAATGCATGTCCCAGGCATGTCTTACACT
65 GACATGGTCTTACACTAACTACC-AT-ATCGTAGCCAATGCATGTCCCAGACATGTCTTACACT
18504873 AGCCAACAAC
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
139 22 0.21
140 77 0.72
141 8 0.07
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTCACATCTCAAGTCGATGACATGTCCCAG
ACATGGTCTTACACTAACTACCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGTT
TAAGTCTCGAG
Found at i:18506329 original size:40 final size:40
Alignment explanation
Indices: 18506280--18506439 Score: 137
Period size: 39 Copynumber: 4.0 Consensus size: 40
18506270 TACTCGTTCA
* * * * *
18506280 AAACACCTTCGGGACATAGCCCGGTTATGGTAAC-CTGCAC
1 AAACGCCTTCGGGACTTAGCCCGGATATCGCAACTC-GCAC
*
18506320 AAACGCCTTCGGGACTTAACCCGGATATCGCAACTCGCAC
1 AAACGCCTTCGGGACTTAGCCCGGATATCGCAACTCGCAC
** ** * *
18506360 AATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTTGCAC
1 AAACGCCTTCGGGACTTAGCCCGGATATCGCAACTCGCAC
** * * *
18506399 AATTGCCTTCGGG-CTTAGCCCAGATATCACAATTCGCAC
1 AAACGCCTTCGGGACTTAGCCCGGATATCGCAACTCGCAC
18506438 AA
1 AA
18506440 TTCATTCACA
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 57 0.56
40 43 0.43
41 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
AAACGCCTTCGGGACTTAGCCCGGATATCGCAACTCGCAC
Found at i:18506399 original size:39 final size:39
Alignment explanation
Indices: 18506315--18506441 Score: 157
Period size: 39 Copynumber: 3.2 Consensus size: 39
18506305 TATGGTAACC
** * *
18506315 TGCACAAACGCCTTCGGGACTTAACCCGGATATCGCAACT
1 TGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
18506355 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
18506394 TGCACAATTGCCTTCGGGCTTAGCCCAGATATCACAA-T
1 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
18506432 TCGCACAATT
1 T-GCACAATT
18506442 CATTCACATC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
38 2 0.03
39 58 0.77
40 15 0.20
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:18514215 original size:40 final size:39
Alignment explanation
Indices: 18514171--18514327 Score: 179
Period size: 39 Copynumber: 4.0 Consensus size: 39
18514161 GTTCAAAACA
* * ** * *
18514171 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* * *
18514211 CCTTCGGGACTTAACCCGGATATCACAACTTGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
18514251 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* * *
18514290 CCTTCGGGCTTAGCCCGGTTATCACAATTCGCACAATT
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
18514328 CATTCACATC
Statistics
Matches: 100, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 61 0.61
40 39 0.39
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:18514285 original size:39 final size:39
Alignment explanation
Indices: 18514201--18514327 Score: 182
Period size: 39 Copynumber: 3.2 Consensus size: 39
18514191 TATGGTAACC
* *
18514201 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
18514241 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
18514280 CGCACAATTGCCTTCGGGCTTAGCCCGGTTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
18514319 CGCACAATT
1 CGCACAATT
18514328 CATTCACATC
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 61 0.79
40 16 0.21
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:18518911 original size:20 final size:21
Alignment explanation
Indices: 18518856--18518927 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 21
18518846 GTTTACCTAA
* *
18518856 AATATAAACATTAATTAAATTT
1 AATATTAAGATTAA-TAAATTT
*
18518878 AATATTAAGA-TAATAACTTT
1 AATATTAAGATTAATAAATTT
* *
18518898 GATATTAA-ATTAATAAA-AT
1 AATATTAAGATTAATAAATTT
*
18518917 ACTATTAAGAT
1 AATATTAAGAT
18518928 AAATGTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 8 0.20
20 21 0.52
21 3 0.08
22 8 0.20
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (21 bp):
AATATTAAGATTAATAAATTT
Found at i:18520987 original size:43 final size:43
Alignment explanation
Indices: 18520938--18521028 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
18520928 GTATACTCCA
18520938 CTAACTATGTTGTTAATTTACTATAGGTAAGTCAAAAACAGGT
1 CTAACTATGTTGTTAATTTACTATAGGTAAGTCAAAAACAGGT
18520981 CTAACTATGTTGTTAATTTACTATAGGTAAGTCAAAAACAGGT
1 CTAACTATGTTGTTAATTTACTATAGGTAAGTCAAAAACAGGT
18521024 CTAAC
1 CTAAC
18521029 AAGTGCTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (43 bp):
CTAACTATGTTGTTAATTTACTATAGGTAAGTCAAAAACAGGT
Found at i:18525889 original size:52 final size:51
Alignment explanation
Indices: 18525758--18525889 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
18525748 ATGTGTTTTG
* *
18525758 CATTAAATAAAGTCTTGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
* * * *
18525809 -AATAAATTATGACATGCTTTATGTAACTCTCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCAT
*
18525860 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
18525890 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 34 0.50
51 10 0.15
52 24 0.35
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
Done.