Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 97 of 255
Found at i:30077246 original size:79 final size:81
Alignment explanation
Indices: 30077110--30077294 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
30077100 TTGAATGATG
*
30077110 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
30077174 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
30077189 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
30077251 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
30077269 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30077295 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:30077308 original size:40 final size:40
Alignment explanation
Indices: 30077111--30077294 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
30077101 TGAATGATGT
* * * *
30077111 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
30077151 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
30077191 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30077229 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30077270 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30077295 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30077316 original size:79 final size:79
Alignment explanation
Indices: 30077163--30077327 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
30077153 GGACTAAGAT
* **
30077163 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
30077228 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
30077242 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
30077305 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
30077321 CCGAAGG
1 CCGAAGG
30077328 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:30079728 original size:43 final size:43
Alignment explanation
Indices: 30079606--30079764 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 43
30079596 TATGTGTTAT
* * *
30079606 CGTGTAAGACCACGTTTGGGACGCTGGCATCGACT-TTTGATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGA-TATTTGA-TTA
* *
30079650 CGTGTAAGACCACGTCTGGGACGTTGGCATC-ATATTTGATTC
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTA
30079692 CGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGATATTTGATTA
* * *
30079735 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
30079765 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 40 0.40
44 30 0.30
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTA
Found at i:30082234 original size:13 final size:13
Alignment explanation
Indices: 30082216--30082249 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
30082206 CCTAGCACAC
30082216 GCCCGTGTGCCTG
1 GCCCGTGTGCCTG
30082229 GCCCGTGTGCCTG
1 GCCCGTGTGCCTG
30082242 GCCCGTGT
1 GCCCGTGT
30082250 CCTTCACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.38, T:0.24
Consensus pattern (13 bp):
GCCCGTGTGCCTG
Found at i:30098218 original size:28 final size:28
Alignment explanation
Indices: 30098187--30098245 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
30098177 TGCGCTTGCC
*
30098187 TTTTCGTCGTGATAATAGTTAGTCTAGG
1 TTTTCGTCATGATAATAGTTAGTCTAGG
30098215 TTTTCGTCATGATAATAGTTAGTCTAGG
1 TTTTCGTCATGATAATAGTTAGTCTAGG
30098243 TTT
1 TTT
30098246 GATCTTCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (28 bp):
TTTTCGTCATGATAATAGTTAGTCTAGG
Found at i:30103269 original size:12 final size:11
Alignment explanation
Indices: 30103246--30103332 Score: 77
Period size: 12 Copynumber: 7.4 Consensus size: 11
30103236 CATTCTATTT
30103246 TTTTATTTTTTA
1 TTTTA-TTTTTA
30103258 TTCTTATTTTTA
1 TT-TTATTTTTA
30103270 TTTTA-TTTTA
1 TTTTATTTTTA
*
30103280 TTTTTATTTTTC
1 -TTTTATTTTTA
30103292 TTTTGATTTTTA
1 TTTT-ATTTTTA
**
30103304 TTTTCATTTCAA
1 TTTT-ATTTTTA
30103316 TTTTATTATTTTA
1 TTTTA-T-TTTTA
30103329 TTTT
1 TTTT
30103333 GAAAGACATA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
10 5 0.08
11 13 0.21
12 34 0.55
13 10 0.16
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:30103273 original size:5 final size:5
Alignment explanation
Indices: 30103253--30103332 Score: 56
Period size: 5 Copynumber: 14.8 Consensus size: 5
30103243 TTTTTTTATT
*
30103253 TTTTA TTCTTA TTTTTA TTTTA TTTTA TTTTTA TTTTTC TTTTGA TTTTTA
1 TTTTA TT-TTA -TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A -TTTTA
*
30103304 TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
30103333 GAAAGACATA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
3 3 0.05
5 28 0.45
6 25 0.40
7 6 0.10
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:30103281 original size:29 final size:30
Alignment explanation
Indices: 30103246--30103312 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
30103236 CATTCTATTT
*
30103246 TTTTATTTTTTATTCTTATTTTTA-TTTTA
1 TTTTATTTTTTATTCTTATTTTGATTTTTA
* *
30103275 TTTTA-TTTTTATTTTTCTTTTGATTTTTA
1 TTTTATTTTTTATTCTTATTTTGATTTTTA
30103304 TTTTCATTT
1 TTTT-ATTT
30103313 CAATTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 15 0.47
29 14 0.44
30 1 0.03
31 2 0.06
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.79
Consensus pattern (30 bp):
TTTTATTTTTTATTCTTATTTTGATTTTTA
Found at i:30103286 original size:35 final size:35
Alignment explanation
Indices: 30103245--30103331 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
30103235 TCATTCTATT
* *
30103245 TTTTTATTTTTTATTCTTATTTTTATTTT-ATTTTA
1 TTTTTATTTTTTATT-TGATTTTTATTTTCATTTCA
30103280 TTTTTATTTTTCT-TTTGATTTTTATTTTCATTTCA
1 TTTTTATTTTT-TATTTGATTTTTATTTTCATTTCA
*
30103315 ATTTTATTATTTTATTT
1 TTTTTATT-TTTTATTT
30103332 TGAAAGACAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
34 12 0.27
35 26 0.58
36 7 0.16
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (35 bp):
TTTTTATTTTTTATTTGATTTTTATTTTCATTTCA
Found at i:30103302 original size:7 final size:6
Alignment explanation
Indices: 30103245--30103312 Score: 77
Period size: 6 Copynumber: 11.5 Consensus size: 6
30103235 TCATTCTATT
* *
30103245 TTTTTA TTTTTTA TTCTTA TTTTTA -TTTTA -TTTTA TTTTTA TTTTTC
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
30103292 TTTTGA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTT
30103313 CAATTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
5 10 0.19
6 37 0.70
7 6 0.11
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:30103308 original size:17 final size:16
Alignment explanation
Indices: 30103261--30103322 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 16
30103251 TTTTTTATTC
*
30103261 TTATTTTTATTTTATT
1 TTATTTTTATTTTCTT
30103277 TTATTTTTATTTTTCTT
1 TTATTTTTA-TTTTCTT
30103294 TTGATTTTTATTTTCATT
1 TT-ATTTTTATTTTC-TT
* *
30103312 TCAATTTTATT
1 TTATTTTTATT
30103323 ATTTTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
16 9 0.22
17 21 0.52
18 10 0.25
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTTTTATTTTCTT
Found at i:30106254 original size:13 final size:13
Alignment explanation
Indices: 30106238--30106270 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30106228 TTTAATTAAA
*
30106238 TTAGTTAATTAGT
1 TTAGATAATTAGT
30106251 TTAGATAATTAGT
1 TTAGATAATTAGT
30106264 TTA-ATAA
1 TTAGATAA
30106271 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:30106863 original size:52 final size:51
Alignment explanation
Indices: 30106761--30106937 Score: 234
Period size: 52 Copynumber: 3.5 Consensus size: 51
30106751 GGATGCCCGT
* * * **
30106761 TGGCCTGCACATAGTGCCACCCTTGTAGTCAATGCTA-CTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTAACCAA-GCTATCTTTCTTCACAAAG
* *
30106812 TGGCCTTCACATAGTACCACAGTTGTGACCAAAGCTATCTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTAACC-AAGCTATCTTTCTTCACAAAG
*
30106864 TGGCCTTCACATAGTACCACACTTGTAACCAAGCTATC--TCTTCTCAAAG
1 TGGCCTTCACATAGTACCACACTTGTAACCAAGCTATCTTTCTTCACAAAG
*
30106913 TGGCTTTCACATAGTACCACACTTG
1 TGGCCTTCACATAGTACCACACTTG
30106938 AGTCACTAGT
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 34 0.30
51 35 0.31
52 44 0.39
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTAACCAAGCTATCTTTCTTCACAAAG
Found at i:30109894 original size:12 final size:12
Alignment explanation
Indices: 30109877--30109908 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30109867 ATACATATGG
30109877 TTTAGTTGCTTA
1 TTTAGTTGCTTA
*
30109889 TTTAGTTTCTTA
1 TTTAGTTGCTTA
30109901 TTTAGTTG
1 TTTAGTTG
30109909 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.16, T:0.62
Consensus pattern (12 bp):
TTTAGTTGCTTA
Found at i:30122862 original size:19 final size:19
Alignment explanation
Indices: 30122825--30122862 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30122815 ACTTGTCAGA
*
30122825 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
30122844 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
30122863 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:30123612 original size:14 final size:13
Alignment explanation
Indices: 30123589--30123620 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
30123579 GGAATATCAA
30123589 AACAATAATTAAG
1 AACAATAATTAAG
30123602 AACACATAATTAAG
1 AACA-ATAATTAAG
30123616 AACAA
1 AACAA
30123621 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:30129356 original size:79 final size:78
Alignment explanation
Indices: 30129256--30129478 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
30129246 GCTCCTCGTT
* *
30129256 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
30129321 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
30129336 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
30129399 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
30129414 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGTAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
30129477 GA
63 GA
30129479 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 19 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:30129373 original size:39 final size:40
Alignment explanation
Indices: 30129256--30129478 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
30129246 GCTCCTCGTT
* *
30129256 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
30129296 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
30129336 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
30129375 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
30129414 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
30129455 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30129479 CATCATTCAA
Statistics
Matches: 165, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:30134657 original size:27 final size:27
Alignment explanation
Indices: 30134540--30134657 Score: 123
Period size: 27 Copynumber: 4.4 Consensus size: 27
30134530 CCTTATGTGA
* * *
30134540 TAAAATGACGAAAATACTCCTATAAGGG
1 TAAAATGACTATAATACCCCTATAA-GG
* *
30134568 T-AAATTACCGA-AATACCCCTATAAGG
1 TAAAATGA-CTATAATACCCCTATAAGG
* *
30134594 TAAAATGATTATAATACCCCTATAAGA
1 TAAAATGACTATAATACCCCTATAAGG
**
30134621 TAAAATGACTATAATACCCCTGCAAGG
1 TAAAATGACTATAATACCCCTATAAGG
30134648 TAAAATGACT
1 TAAAATGACT
30134658 GATTTTCCCT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.05
27 69 0.90
28 4 0.05
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.25
Consensus pattern (27 bp):
TAAAATGACTATAATACCCCTATAAGG
Found at i:30135138 original size:34 final size:34
Alignment explanation
Indices: 30135056--30135161 Score: 94
Period size: 34 Copynumber: 3.1 Consensus size: 34
30135046 TACATATTGC
* *
30135056 ACTGATTCT-ATAATGGGCTTAGG-CCTCACTGAT
1 ACTGATTCTGA-AATGGGCTAAGGCCCACACTGAT
* * *
30135089 ACTG-TTACTGGAATGGGCTCAGGCCCACACTGTT
1 ACTGATT-CTGAAATGGGCTAAGGCCCACACTGAT
* *
30135123 TCTGATTCTGAAATGGGCTAAGGCCCTA-ACTGAA
1 ACTGATTCTGAAATGGGCTAAGGCCC-ACACTGAT
30135157 ACTGA
1 ACTGA
30135162 AAGGGGTTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
32 2 0.03
33 17 0.29
34 36 0.62
35 3 0.05
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (34 bp):
ACTGATTCTGAAATGGGCTAAGGCCCACACTGAT
Found at i:30139180 original size:40 final size:40
Alignment explanation
Indices: 30139103--30139315 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
30139093 ACCCAAGTAT
* *
30139103 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
30139142 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30139182 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30139222 CTTCAGGACTTAGCCCGG-TATAG-CACTA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30139259 CTTCGGGAC-TAG-CC-GATATAGTAACT-GCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30139295 CTTCGGGACTTAGCCC-GATAT
1 CTTCGGGACTTAGCCCGGATAT
30139316 CATCCGAATA
Statistics
Matches: 158, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
34 1 0.01
35 7 0.04
36 24 0.15
37 20 0.13
38 12 0.08
39 16 0.10
40 77 0.49
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30147144 original size:40 final size:40
Alignment explanation
Indices: 30147068--30147329 Score: 411
Period size: 40 Copynumber: 6.6 Consensus size: 40
30147058 AACCCAAGTA
* * * *
30147068 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
30147107 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
30147147 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
30147187 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
30147227 CCTTCGGCACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
30147267 CCTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
30147307 CCTTCTGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30147330 CATTCGAATA
Statistics
Matches: 207, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 12 0.06
40 194 0.94
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:30162475 original size:26 final size:27
Alignment explanation
Indices: 30162444--30162557 Score: 110
Period size: 26 Copynumber: 4.3 Consensus size: 27
30162434 CCTTATGTGA
*
30162444 TAAAATGACGAAAATACTCCTATAAGG
1 TAAAATGACGAAAATACCCCTATAAGG
*
30162471 T-AAATTACCG-AAATACCCCTATAAGG
1 TAAAATGA-CGAAAATACCCCTATAAGG
** * *
30162497 TAAAATGATTATAATA-CCCTATAAGA
1 TAAAATGACGAAAATACCCCTATAAGG
* **
30162523 TAAAATGAC-ATAATACCCCTGCAAGG
1 TAAAATGACGAAAATACCCCTATAAGG
30162549 TAAAATGAC
1 TAAAATGAC
30162558 TGATTTTCCC
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
25 6 0.08
26 54 0.75
27 12 0.17
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (27 bp):
TAAAATGACGAAAATACCCCTATAAGG
Found at i:30163039 original size:34 final size:34
Alignment explanation
Indices: 30162957--30163061 Score: 92
Period size: 34 Copynumber: 3.1 Consensus size: 34
30162947 TACATATTGC
* *
30162957 ACTGATTCT-ATAATGGGCTTAGG-CCTCACTGAT
1 ACTGATTCTGA-AATGGGCTAAGGCCCACACTGAT
* * *
30162990 ACTG-TTACTGGAATGGGCTCAGGCCCACACTGTT
1 ACTGATT-CTGAAATGGGCTAAGGCCCACACTGAT
* * *
30163024 TCTGATTCTGAAATGGGCTAAGGCCTA-ACTGAA
1 ACTGATTCTGAAATGGGCTAAGGCCCACACTGAT
30163057 ACTGA
1 ACTGA
30163062 AAGGGGTTAG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
32 2 0.04
33 25 0.44
34 28 0.49
35 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (34 bp):
ACTGATTCTGAAATGGGCTAAGGCCCACACTGAT
Found at i:30167093 original size:40 final size:40
Alignment explanation
Indices: 30167016--30167239 Score: 265
Period size: 40 Copynumber: 5.5 Consensus size: 40
30167006 ACCCAAGTAT
*
30167016 CTTCGGGATTTAG-CCGGATATAG-CAACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
30167055 CTTCGGGTCTTAGCCCGGATATAGTCACTACCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30167095 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
30167135 CTTCAGGACTTAGCCCGGGTATAG-CAACTACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * * * *
30167178 CTTCGGGACATAGACCAGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30167218 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
30167240 CATCCGAATA
Statistics
Matches: 156, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
39 12 0.08
40 112 0.72
41 1 0.01
43 31 0.20
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30167218 original size:83 final size:80
Alignment explanation
Indices: 30167032--30167239 Score: 274
Period size: 83 Copynumber: 2.6 Consensus size: 80
30167022 GATTTAGCCG
* * *
30167032 GATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTACCATAAATGCCT
1 GATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTACCACAAATGCCT
* * *
30167097 TCGGGACTTAGCCCG
66 TCGGGACATAGACCA
* * *
30167112 GATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGGTATAG-CAACTACTCGTACAAAT
1 GATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTAC-C--ACAAAT
30167176 GCCTTCGGGACATAGACCA
62 GCCTTCGGGACATAGACCA
* *
30167195 GATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGAATAT
1 GATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30167240 CATCCGAATA
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 47 0.43
81 1 0.01
83 61 0.55
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (80 bp):
GATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTACCACAAATGCCT
TCGGGACATAGACCA
Found at i:30175219 original size:40 final size:40
Alignment explanation
Indices: 30175142--30175365 Score: 265
Period size: 40 Copynumber: 5.5 Consensus size: 40
30175132 ACCCAAGTAT
* * *
30175142 CTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
30175181 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30175221 CTTCGGGACTTAGCCCGGATCTAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** *
30175261 CTTCGGGACTTAGCCCGGGGATAG-CAACTACTCATACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA-GC--ACAAATGC
* * * *
30175304 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATTC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30175344 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30175366 CATCCGAATA
Statistics
Matches: 158, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 12 0.08
40 111 0.70
41 2 0.01
42 1 0.01
43 32 0.20
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30175338 original size:83 final size:80
Alignment explanation
Indices: 30175142--30175362 Score: 284
Period size: 83 Copynumber: 2.7 Consensus size: 80
30175132 ACCCAAGTAT
* * * * *
30175142 CTTCGGGATTTAG-CCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCAGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAGATAGT
30175206 CACTAGCATAAATGC
66 CACTAGCATAAATGC
* * * *
30175221 CTTCGGGACTTAGCCCGGATCTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGGATAG-
1 CTTCGGGACTTAGCCCAGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAGATAGT
*
30175285 CAACTACTCATACAAATGC
66 C-ACTA-GCAT--AAATGC
* *
30175304 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATTCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCAGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
30175363 TATCATCCGA
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 13 0.11
80 46 0.38
81 3 0.02
83 59 0.49
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCAGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAGATAGT
CACTAGCATAAATGC
Found at i:30177622 original size:54 final size:53
Alignment explanation
Indices: 30177537--30177660 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 53
30177527 GGTACCTGAA
* * * * * *
30177537 CCCTTTTGAGAGAAATTGAGTATTTTTCCCTTATGTTATAAAATGACGATTTT
1 CCCTTATGAGACAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATTTT
*
30177590 GCCCTTATGAGACAAAATGACTATTTTGCCCTTGTGTGATAAAATGACGATTTT
1 -CCCTTATGAGACAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATTTT
* *
30177644 TCCTTATGAGATAAAAT
1 CCCTTATGAGACAAAAT
30177661 AGCCGAAACA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 15 0.25
54 46 0.75
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (53 bp):
CCCTTATGAGACAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATTTT
Found at i:30177656 original size:26 final size:27
Alignment explanation
Indices: 30177558--30177660 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 27
30177548 GAAATTGAGT
* **
30177558 ATTTTTCCCTTATGTTATAAAATGACG
1 ATTTTGCCCTTATGAGATAAAATGACG
* *
30177585 ATTTTGCCCTTATGAGACAAAATGACT
1 ATTTTGCCCTTATGAGATAAAATGACG
* *
30177612 ATTTTGCCCTTGTGTGATAAAATGACG
1 ATTTTGCCCTTATGAGATAAAATGACG
*
30177639 ATTTT-TCCTTATGAGATAAAAT
1 ATTTTGCCCTTATGAGATAAAAT
30177661 AGCCGAAACA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 14 0.22
27 50 0.78
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTTTGCCCTTATGAGATAAAATGACG
Found at i:30177773 original size:27 final size:27
Alignment explanation
Indices: 30177694--30177773 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
30177684 AAATGGCCAA
** *
30177694 AATACCCCTATAACATAAAATGACTAT
1 AATACCCCTATAAGGTAAAATGACTGT
* * *
30177721 AATACTCCTACAAGGTAAAATTACTGT
1 AATACCCCTATAAGGTAAAATGACTGT
*
30177748 AATACCCCTGTAAGGTAAAATGACTG
1 AATACCCCTATAAGGTAAAATGACTG
30177774 ATTTGCCCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.26
Consensus pattern (27 bp):
AATACCCCTATAAGGTAAAATGACTGT
Found at i:30199977 original size:26 final size:27
Alignment explanation
Indices: 30199944--30200000 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
30199934 CAATATAGAC
30199944 ATTT-CATATAACAC-A-TCATATAATT
1 ATTTCCATATAAC-CGATTCATATAATT
*
30199969 ATTTCCATATAACCGATTTATATAATT
1 ATTTCCATATAACCGATTCATATAATT
30199996 ATTTC
1 ATTTC
30200001 GTTTACCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 5 0.18
26 9 0.32
27 14 0.50
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTTCCATATAACCGATTCATATAATT
Found at i:30200097 original size:84 final size:81
Alignment explanation
Indices: 30199961--30200121 Score: 189
Period size: 84 Copynumber: 2.0 Consensus size: 81
30199951 ATAACACATC
* * * ** * **
30199961 ATATAATTATTTCCATATAACCGATTTATATAATTATTTCGTTTACCTATTTCCATATAACTGAT
1 ATATAATTATTTCAATATAACCAATTTATATAATCATTTCCATAACCTATTT-CATATAACCAAT
30200026 TCATATAACCATTCTGT
65 TCATATAACCATTCTGT
* *
30200043 ATATATATCTATTTCAATATAACCAATTTTTATAATCATTTCACATAACC-ATTTCGTATAACCA
1 ATATA-AT-TATTTCAATATAACCAATTTATATAATCATTTC-CATAACCTATTTCATATAACCA
30200107 ATTCATATAACCATT
63 ATTCATATAACCATT
30200122 TGGAATAGCC
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
82 5 0.08
83 24 0.36
84 33 0.50
85 4 0.06
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (81 bp):
ATATAATTATTTCAATATAACCAATTTATATAATCATTTCCATAACCTATTTCATATAACCAATT
CATATAACCATTCTGT
Found at i:30200103 original size:13 final size:13
Alignment explanation
Indices: 30199943--30200122 Score: 84
Period size: 13 Copynumber: 13.4 Consensus size: 13
30199933 TCAATATAGA
30199943 CATTTCATATAAC
1 CATTTCATATAAC
*
30199956 ACA--TCATATAAT
1 -CATTTCATATAAC
*
30199968 TATTTCCATATAAC
1 CATTT-CATATAAC
*
30199982 CGATTT-ATATAAT
1 C-ATTTCATATAAC
* * *
30199995 TATTTCGT-TTAC
1 CATTTCATATAAC
30200007 CTATTTCCATATAAC
1 C-ATTT-CATATAAC
*
30200022 TGA-TTCATATAAC
1 -CATTTCATATAAC
*
30200035 CATTCTGTATATATATC
1 CATT-T-CATATA-A-C
*
30200052 TATTTCAATATAAC
1 CATTTC-ATATAAC
* *
30200066 CAATTT-TTATAAT
1 C-ATTTCATATAAC
*
30200079 CATTTCACATAAC
1 CATTTCATATAAC
*
30200092 CATTTCGTATAAC
1 CATTTCATATAAC
*
30200105 CAATTCATATAAC
1 CATTTCATATAAC
30200118 CATTT
1 CATTT
30200123 GGAATAGCCA
Statistics
Matches: 121, Mismatches: 28, Indels: 35
0.66 0.15 0.19
Matches are distributed among these distances:
11 1 0.01
12 19 0.16
13 57 0.47
14 15 0.12
15 18 0.15
16 7 0.06
17 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:30201565 original size:9 final size:9
Alignment explanation
Indices: 30201551--30201577 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
30201541 AATAGCAATT
30201551 AACTTTTAC
1 AACTTTTAC
30201560 AACTTTTAC
1 AACTTTTAC
30201569 AACTTTTAC
1 AACTTTTAC
30201578 GATTTAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (9 bp):
AACTTTTAC
Found at i:30207257 original size:75 final size:75
Alignment explanation
Indices: 30207145--30207288 Score: 234
Period size: 75 Copynumber: 1.9 Consensus size: 75
30207135 AATGATGGGA
*
30207145 AAAATAGTATATACCCGAGTTGTACTTAGAGGAAATGGCAACCTAGTTTGTTTGACTAACAGGAA
1 AAAATAGTATATACCCGAGTTATACTTAGAGGAAATGGCAACCTAGTTTGTTTGACTAACAGGAA
30207210 AATGAGACAC
66 AATGAGACAC
* * * * *
30207220 AAAATAGTATCTACCTGAGTTATACTTAGTGGAAATGGCAACCTAGTTTGTTTGGCTAATAGGAA
1 AAAATAGTATATACCCGAGTTATACTTAGAGGAAATGGCAACCTAGTTTGTTTGACTAACAGGAA
30207285 AATG
66 AATG
30207289 GGGCATCATT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (75 bp):
AAAATAGTATATACCCGAGTTATACTTAGAGGAAATGGCAACCTAGTTTGTTTGACTAACAGGAA
AATGAGACAC
Found at i:30211585 original size:26 final size:26
Alignment explanation
Indices: 30211534--30211586 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30211524 TCGAAAAGTG
* * *
30211534 TGGTTTTGGATCTCCATTTTCGTAAA
1 TGGTTTTGGAACTCCATTTACATAAA
*
30211560 TGGTTTTGGAACTCTATTTACATAAA
1 TGGTTTTGGAACTCCATTTACATAAA
30211586 T
1 T
30211587 TGGGCTCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (26 bp):
TGGTTTTGGAACTCCATTTACATAAA
Found at i:30213225 original size:48 final size:46
Alignment explanation
Indices: 30213154--30213320 Score: 167
Period size: 48 Copynumber: 3.5 Consensus size: 46
30213144 AGTACCAATG
* * *
30213154 CCATGTCCTAGACATGGTCTTACATGAATCCACATATCATCACCGATT
1 CCATGTCCCAGACATGGTCTTACATG-A-GCACATATCATCACCGATA
* * * * *
30213202 CCATGTCCCAGACATGGTCTTACATGGGCACATATAACAACGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGAGCACATAT--CATCACCGATA
30213250 CCATGTCCCAGACATGGTCTTACACT-AGCACATAT-ATCACCGCTGATA
1 CCATGTCCCAGACATGGTCTTACA-TGAGCACATATCATCA-C-C-GATA
*
30213298 CCATGTCCCAAACATGGTCTTAC
1 CCATGTCCCAGACATGGTCTTAC
30213321 GCTGGCACTT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.02
46 8 0.08
47 1 0.01
48 88 0.88
49 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (46 bp):
CCATGTCCCAGACATGGTCTTACATGAGCACATATCATCACCGATA
Found at i:30213380 original size:73 final size:73
Alignment explanation
Indices: 30213260--30213420 Score: 268
Period size: 73 Copynumber: 2.2 Consensus size: 73
30213250 CCATGTCCCA
30213260 GACATGGTCTTACACTAGCACATATATCACCGCTGATACCATGTCCCAAACATGGTCTTACGCTG
1 GACATGGTCTTACACTAGCACATATATCACCGCTGATACCATGTCCCAAACATGGTCTTACGCTG
30213325 GCACTTGG
66 GCACTTGG
** * * * *
30213333 GACATGGTCTTATGCTGGCACATATATCATCGCTGATTCCATTTCCCAAACATGGTCTTACGCTG
1 GACATGGTCTTACACTAGCACATATATCACCGCTGATACCATGTCCCAAACATGGTCTTACGCTG
30213398 GCACTTGG
66 GCACTTGG
30213406 GACATGGTCTTACAC
1 GACATGGTCTTACAC
30213421 AGTCACACAT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 80 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (73 bp):
GACATGGTCTTACACTAGCACATATATCACCGCTGATACCATGTCCCAAACATGGTCTTACGCTG
GCACTTGG
Found at i:30216955 original size:37 final size:37
Alignment explanation
Indices: 30216902--30217041 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
30216892 CGAATAGTCC
* *
30216902 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
30216939 CCACACGTAGTCATCGGGTCTTACCCTGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
30216976 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
30217013 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
30217042 ATATATTTCC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:30217256 original size:48 final size:48
Alignment explanation
Indices: 30217202--30217510 Score: 537
Period size: 48 Copynumber: 6.4 Consensus size: 48
30217192 GCCGAATCAC
*
30217202 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
30217250 TAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
30217298 TAGCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
30217346 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
30217394 TAGCCATTCGGCTTCACCACATATACATATCTCATATATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
30217442 TAGACATTCGACTTTACCACATATACATATCTCATATATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
30217490 TAGCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
30217511 CACATATATA
Statistics
Matches: 247, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 247 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:30221632 original size:47 final size:47
Alignment explanation
Indices: 30221581--30222114 Score: 717
Period size: 47 Copynumber: 11.1 Consensus size: 47
30221571 TTAGGATTTT
* *
30221581 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
30221628 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
30221679 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
30221726 CTATGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ***
30221773 ATATGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
30221824 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
30221871 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
30221924 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
30221971 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
30222018 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
30222065 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
30222112 ATG
1 ATG
30222115 CGAAACGTGT
Statistics
Matches: 436, Mismatches: 37, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
47 304 0.70
48 1 0.00
49 4 0.01
51 84 0.19
52 1 0.00
53 42 0.10
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:30221698 original size:145 final size:145
Alignment explanation
Indices: 30221584--30222114 Score: 628
Period size: 145 Copynumber: 3.7 Consensus size: 145
30221574 GGATTTTATG
* *
30221584 TGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACCCGT
1 TGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATATGATGAATGTGAACCCGT
***
30221649 ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAG
66 ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAAAATGTGTGATAAG
*
30221714 GCCGAATGGCCACTA
131 GCCGAATGGACACTA
30221729 TGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATATGATGAATGTGAACCCGT
1 TGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATATGATGAATGTGAACCCGT
***
30221794 ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAG
66 ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAAAATGTGTGATAAG
* * *
30221859 GCCGAATGGCCAATG
131 GCCGAATGGACACTA
* *** * *
30221874 TGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 TGATGGATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAATATGATGAATGTGA
*** ***
30221939 A--C--ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGT
60 ACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAAAATGTGT
* * * *
30222000 GATAAGGCCGGATGGCCAATG
125 GATAAGGCCGAATGGACACTA
* * * * * **
30222021 TGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG-
1 TGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATATGATGAATGTGAACCCGT
*
30222085 A-ATATATGTG-G-TAAGGCCGAATGGCTAATG
66 ATATATATGTGTGATAAGGCCGAATGGCCAATG
30222115 CGAAACGTGT
Statistics
Matches: 353, Mismatches: 24, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
141 59 0.17
142 1 0.00
143 6 0.02
144 1 0.00
145 153 0.43
146 2 0.01
147 89 0.25
149 1 0.00
151 41 0.12
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (145 bp):
TGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATATGATGAATGTGAACCCGT
ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAAAATGTGTGATAAG
GCCGAATGGACACTA
Found at i:30221951 original size:23 final size:23
Alignment explanation
Indices: 30221924--30221998 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
30221914 CGAATGGCCA
30221924 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
30221947 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
30221971 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
30221994 ATGTG
1 ATGTG
30221999 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:30222177 original size:46 final size:46
Alignment explanation
Indices: 30222088--30222178 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
30222078 GAACATGAAT
* * * *
30222088 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
30222134 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
30222179 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:30222468 original size:37 final size:37
Alignment explanation
Indices: 30222327--30222467 Score: 237
Period size: 37 Copynumber: 3.8 Consensus size: 37
30222317 ATATATTCCG
*
30222327 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
30222364 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
*
30222401 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* * *
30222438 GGTAAGACCCGATAACTTCATGTGGAGATT
1 GGTAAGACCCGATGACTACGTGTGGAGATT
30222468 TCGTCTGAGC
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
Found at i:30227025 original size:21 final size:21
Alignment explanation
Indices: 30226986--30227025 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30226976 TAATAATATA
* **
30226986 TCAATATTTTTATTTTAAATT
1 TCAATATTTTCATCATAAATT
30227007 TCAATATTTTCATCATAAA
1 TCAATATTTTCATCATAAA
30227026 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TCAATATTTTCATCATAAATT
Found at i:30233669 original size:4 final size:4
Alignment explanation
Indices: 30233660--30233687 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30233650 TTAAACTAAG
30233660 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
30233688 AATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:30233730 original size:17 final size:17
Alignment explanation
Indices: 30233700--30233733 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30233690 TAAAAATAAA
30233700 ACTTTACAACTTTGGCC
1 ACTTTACAACTTTGGCC
30233717 ACTTTGACAA-TTTGGCC
1 ACTTT-ACAACTTTGGCC
30233734 TGATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (17 bp):
ACTTTACAACTTTGGCC
Found at i:30235098 original size:23 final size:22
Alignment explanation
Indices: 30235046--30235098 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
30235036 TCCACGTCTT
*
30235046 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
30235068 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
30235091 TTTCTTTT
1 TTTCTTTT
30235099 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:30237470 original size:4 final size:4
Alignment explanation
Indices: 30237461--30237488 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30237451 TTAAACTAAG
30237461 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
30237489 AATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:30237963 original size:18 final size:18
Alignment explanation
Indices: 30237939--30238013 Score: 114
Period size: 18 Copynumber: 4.2 Consensus size: 18
30237929 CCCAACTACT
30237939 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* * *
30237957 ATATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
30237975 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
30237993 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
30238011 GTA
1 GTA
30238014 AACGGTCGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:30245184 original size:43 final size:43
Alignment explanation
Indices: 30245086--30245184 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
30245076 TCAGATAATC
*
30245086 ACACATATCATACAATGCCAACGTCCCAGACATGGTCTTACATGT
1 ACACATAT-AT-CAATGCCAACGTCCCAGACAGGGTCTTACATGT
** * *
30245131 AGTCACATATCAATGCC-ACTGTCCCAGATAGGGTCTTAC-TCGT
1 ACACATATATCAATGCCAAC-GTCCCAGACAGGGTCTTACAT-GT
30245174 ACACATATATC
1 ACACATATATC
30245185 GGAATCATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
42 3 0.07
43 34 0.77
44 2 0.05
45 5 0.11
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
ACACATATATCAATGCCAACGTCCCAGACAGGGTCTTACATGT
Found at i:30247575 original size:16 final size:17
Alignment explanation
Indices: 30247550--30247587 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
30247540 TCGCGATCAT
30247550 TATTTTATTTA-TTA-A
1 TATTTTATTTACTTATA
30247565 TATTATTATTTACTTATA
1 TATT-TTATTTACTTATA
30247583 TATTT
1 TATTT
30247588 AACTACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 4 0.20
18 5 0.25
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTATTTACTTATA
Found at i:30255062 original size:81 final size:82
Alignment explanation
Indices: 30254932--30255086 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 82
30254922 AATTTTTGAG
* * * * *
30254932 CAAATATTCTTTATTCTTTCCATTTATAATTACACTATACAGATAATTATTTTTAGATTCTTTTG
1 CAAATATTCTTTATTCTTTCCATTCATAATCACACCATACAGATAATTATTCTTAGATTCTTTCG
30254997 TACTTTGGACATTCTCT
66 TACTTTGGACATTCTCT
* * *
30255014 CAAATATTCTTTTATTC-TT-CATTCATGATCATACCATACAGATGATTATTCTTAGATTCTTTC
1 CAAATATTC-TTTATTCTTTCCATTCATAATCACACCATACAGATAATTATTCTTAGATTCTTTC
*
30255077 GTTCTTTGGA
65 GTACTTTGGA
30255087 TCTTCCTTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 45 0.71
82 11 0.17
83 7 0.11
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (82 bp):
CAAATATTCTTTATTCTTTCCATTCATAATCACACCATACAGATAATTATTCTTAGATTCTTTCG
TACTTTGGACATTCTCT
Found at i:30259787 original size:143 final size:143
Alignment explanation
Indices: 30259526--30259802 Score: 394
Period size: 143 Copynumber: 1.9 Consensus size: 143
30259516 TCATGGTGAC
* * * * *
30259526 TCTTATCTCCTTGAAGTTGTAGTGAAGCAGATTGAAGCCATAAGTGTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTACA
* * * * * * *
30259591 GCGGAGTAGACTAAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTAC
66 GCGGAGCAAACTAAACACAGCGAATCTTATTTCCCTGAAGTCGCAGCGAAATAGATTAAAGCCAC
30259656 AAATTATGGCGAA
131 AAATTATGGCGAA
*
30259669 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTACA
1 TCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTACA
* * *
30259734 GCGGAGCAAACTAAACACAGCGAAT-TTAATTTCCTTGAAGTCGTAGCGAAATAGATTGAAGCCA
66 GCGGAGCAAACTAAACACAGCGAATCTT-ATTTCCCTGAAGTCGCAGCGAAATAGATTAAAGCCA
30259798 CAAAT
130 CAAAT
30259803 ACACAAACAT
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
142 2 0.02
143 115 0.98
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (143 bp):
TCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTACA
GCGGAGCAAACTAAACACAGCGAATCTTATTTCCCTGAAGTCGCAGCGAAATAGATTAAAGCCAC
AAATTATGGCGAA
Found at i:30261900 original size:38 final size:38
Alignment explanation
Indices: 30261857--30262320 Score: 271
Period size: 38 Copynumber: 11.0 Consensus size: 38
30261847 TTTCAAATTA
*
30261857 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACTGTGGTATATCCACTTAGCACCACGTT
*
30261895 ACATGTTTAACTGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACTGTGGTATATCCACTTAGCACCACG-T--T
* * *
30261936 GAATCGATATATGGAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTAT--AACTGTGGTATATCCACTTAGCACCACGTT
* *
30261980 ACATGTTTAACTGTGATATATCCACTTAGCACCACGTTAATT
1 ACATGTATAACTGTGGTATATCCACTTAGCACCACG----TT
* * *
30262022 AATCTATATATGTAACTGTGGCATATCCACTTAACACCACGTT
1 -A-C-ATGTA--TAACTGTGGTATATCCACTTAGCACCACGTT
* * * * *
30262065 ACATGTTTAACCGTTGTATATCCACTTAGCACAACATTAAT
1 ACATGTATAACTGTGGTATATCCACTTAGCACCAC-GT--T
* *
30262106 GAATCGATATATGTAACTGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACTGTGGTATATCCACTTAGCACCACGTT
* *
30262150 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACTGTGGTATATCCACTTAGCACCACGTT
* * *
30262188 AATGAATTGATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 -A--CA-TG---TA--TAACTGTGGTATATCCACTTAGCACCACGTT
* *
30262235 ACATGTATCAATATGTGTAATCGTAGTATATCCACTTAGCAACACGTT
1 ACATGTAT--A-A-CTG---T-G--GTATATCCACTTAGCACCACGTT
* * *
30262283 ACACGTATAACCGTGGTATATCCACCTAGCACCACGTT
1 ACATGTATAACTGTGGTATATCCACTTAGCACCACGTT
30262321 TTTTCCATTC
Statistics
Matches: 332, Mismatches: 48, Indels: 92
0.70 0.10 0.19
Matches are distributed among these distances:
38 133 0.40
39 3 0.01
40 14 0.04
41 8 0.02
42 8 0.02
43 7 0.02
44 7 0.02
45 13 0.04
46 5 0.02
47 106 0.32
48 28 0.08
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTATAACTGTGGTATATCCACTTAGCACCACGTT
Found at i:30261971 original size:85 final size:85
Alignment explanation
Indices: 30261864--30262240 Score: 628
Period size: 85 Copynumber: 4.4 Consensus size: 85
30261854 TTAACATGTA
* *
30261864 TAACTGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
30261929 CGTTAATGAATCGATATATG
66 CGTTAATGAATCGATATATG
* * *
30261949 GAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGATATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
* *
30262014 CGTTAATTAATCTATATATG
66 CGTTAATGAATCGATATATG
* * * *
30262034 TAACTGTGGCATATCCACTTAACACCACGTTACATGTTTAACCGTTGTATATCCACTTAGCACAA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
30262099 CATTAATGAATCGATATATG
66 CGTTAATGAATCGATATATG
*
30262119 TAACTGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
30262184 CGTTAATGAATTGATATATG
66 CGTTAATGAATCGATATATG
30262204 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
30262241 ATCAATATGT
Statistics
Matches: 271, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 271 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCGATATATG
Found at i:30262060 original size:47 final size:46
Alignment explanation
Indices: 30261987--30262283 Score: 225
Period size: 47 Copynumber: 6.7 Consensus size: 46
30261977 GTTACATGTT
**
30261987 TAACTGTGATATATCCACTTAGCACCACGTTAATTAATCTATATATG
1 TAACTGTGGCATATCCACTTAGCACCACGTTAATTAATC-ATATATG
* *
30262034 TAACTGTGGCATATCCACTTAACACCACG----TT-A-CATGT-T-
1 TAACTGTGGCATATCCACTTAGCACCACGTTAATTAATCATATATG
* * * * * *
30262072 TAACCGTTGTATATCCACTTAGCACAACATTAATGAATCGATATATG
1 TAACTGTGGCATATCCACTTAGCACCACGTTAATTAATC-ATATATG
*
30262119 TAACTGTGGCATATCCACTTAGCACCACG----TT-A-CATGT-T-
1 TAACTGTGGCATATCCACTTAGCACCACGTTAATTAATCATATATG
* * * *
30262157 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATTGATATATG
1 TAACTGTGGCATATCCACTTAGCACCACGTTAATTAA-TCATATATG
* *
30262204 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT-ATCAATATGTG
1 TAACTGTGGCATATCCACTTAGCACCACGTTA-AT-TAATC-ATATATG
* * *
30262252 TAA-TCGTAGTATATCCACTTAGCAACACGTTA
1 TAACT-GTGGCATATCCACTTAGCACCACGTTA
30262284 CACGTATAAC
Statistics
Matches: 196, Mismatches: 32, Indels: 43
0.72 0.12 0.16
Matches are distributed among these distances:
38 50 0.26
39 2 0.01
40 6 0.03
41 2 0.01
42 4 0.02
43 5 0.03
44 1 0.01
45 6 0.03
46 2 0.01
47 82 0.42
48 36 0.18
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (46 bp):
TAACTGTGGCATATCCACTTAGCACCACGTTAATTAATCATATATG
Found at i:30262273 original size:48 final size:48
Alignment explanation
Indices: 30262157--30262290 Score: 171
Period size: 48 Copynumber: 2.8 Consensus size: 48
30262147 GTTACATGTT
* * **
30262157 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATTGATATATG
1 TAACCGTAGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
30262204 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTAGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
30262252 TAATCGTAGTATATCCACTTAGCAACACGTTACACGTAT
1 TAACCGTAGTATATCCACTTAGCACCACGTTACATGTAT
30262291 AACCGTGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 31 0.41
48 45 0.59
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
TAACCGTAGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:30262313 original size:133 final size:132
Alignment explanation
Indices: 30262072--30262320 Score: 356
Period size: 133 Copynumber: 1.9 Consensus size: 132
30262062 GTTACATGTT
* * * *
30262072 TAACCGTTGTATATCCACTTAGCACAACATTAATGAATCGATATATGTAACTGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACAACATTAATGAATCAATATATGTAACTGTAGCATATCCAC
* * * *
30262137 TTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATTGATATA
66 TTAGCAACACGTTACACGTATAACCGTGGTATATCCACCTAGCACCACGTTAATGAATTGATATA
30262202 TG
131 TG
* * * * *
30262204 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAA-TCGTAGTATATCC
1 TAACCGTGGCATATCCACTTAGCACAACATTA-ATGAATCAATATATGTAACT-GTAGCATATCC
30262268 ACTTAGCAACACGTTACACGTATAACCGTGGTATATCCACCTAGCACCACGTT
64 ACTTAGCAACACGTTACACGTATAACCGTGGTATATCCACCTAGCACCACGTT
30262321 TTTTCCATTC
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
132 29 0.28
133 73 0.72
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACAACATTAATGAATCAATATATGTAACTGTAGCATATCCAC
TTAGCAACACGTTACACGTATAACCGTGGTATATCCACCTAGCACCACGTTAATGAATTGATATA
TG
Found at i:30267579 original size:38 final size:38
Alignment explanation
Indices: 30267536--30267863 Score: 126
Period size: 38 Copynumber: 7.9 Consensus size: 38
30267526 TTTCAAATTA
30267536 ACATGTATAA-CTGTGGCATATCCACTTAGCACCACATT
1 ACATGTATAATC-GTGGCATATCCACTTAGCACCACATT
* * *
30267574 ACATGTTTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAATCGTGGCATATCCACTTAGCACCACATT
* ** * *
30267612 A-ATGAATCGATATATGCAACCATGAAATATCCACTTA-CTACTACGTT
1 ACATG--T--ATA-AT-----CGTGGCATATCCACTTAGC-ACCACATT
* * * ** *
30267659 ACATGTTTAACCATGATATATCCACTTAGCACCACCTT
1 ACATGTATAATCGTGGCATATCCACTTAGCACCACATT
*
30267697 A-ATGAATCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATG--T--ATA-A--T---CGTGGCATATCCACTTAGCACCACATT
* * * * *
30267744 ACATGTTTAACCATGGTATATCCACTTAGCACAACATT
1 ACATGTATAATCGTGGCATATCCACTTAGCACCACATT
*
30267782 A-ATGAATCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATG--T--ATA-A--T---CGTGGCATATCCACTTAGCACCACATT
* *
30267829 ACATGTGTAATCGTGGTATATCCACTTAGCACCAC
1 ACATGTATAATCGTGGCATATCCACTTAGCACCAC
30267864 GCTAATGAAT
Statistics
Matches: 221, Mismatches: 33, Indels: 72
0.68 0.10 0.22
Matches are distributed among these distances:
37 9 0.04
38 104 0.47
39 5 0.02
41 7 0.03
42 4 0.02
43 3 0.01
44 6 0.03
46 4 0.02
47 70 0.32
48 9 0.04
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAATCGTGGCATATCCACTTAGCACCACATT
Found at i:30267668 original size:85 final size:85
Alignment explanation
Indices: 30267543--30267919 Score: 567
Period size: 85 Copynumber: 4.4 Consensus size: 85
30267533 TTAACATGTA
* * * *
30267543 TAACTGTGGCATATCCACTTAGCACCACATTACATGTTTAATCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
30267608 CGTTAATGAATCGATATATG
66 CGTTAATGAATCGATATATG
* * ** * *
30267628 CAACCATGAAATATCCACTTA-CTACTACGTTACATGTTTAACCATGATATATCCACTTAGCACC
1 TAACCGTGGCATATCCACTTAGC-ACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACC
*
30267692 ACCTTAATGAATCGATATATG
65 ACGTTAATGAATCGATATATG
*
30267713 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACAA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
*
30267778 CATTAATGAATCGATATATG
66 CGTTAATGAATCGATATATG
* * *
30267798 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTGTAATCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
* *
30267863 CGCTAATGAATTGATATATG
66 CGTTAATGAATCGATATATG
*
30267883 TAACCGTGGCATATCCACTTAACACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
30267920 ATCAATATGT
Statistics
Matches: 263, Mismatches: 27, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
84 1 0.00
85 261 0.99
86 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
CGTTAATGAATCGATATATG
Found at i:30267735 original size:47 final size:47
Alignment explanation
Indices: 30267676--30267825 Score: 183
Period size: 47 Copynumber: 3.4 Consensus size: 47
30267666 TAACCATGAT
30267676 ATATCCACTTAGCACCACCTTAATGAATCGATATATGTAACCGTGGC
1 ATATCCACTTAGCACCACCTTAATGAATCGATATATGTAACCGTGGC
* * * *
30267723 ATATCCACTTAGCACCA-CGT--T--A-C-ATGT-T-TAACCATGGT
1 ATATCCACTTAGCACCACCTTAATGAATCGATATATGTAACCGTGGC
* *
30267761 ATATCCACTTAGCACAACATTAATGAATCGATATATGTAACCGTGGC
1 ATATCCACTTAGCACCACCTTAATGAATCGATATATGTAACCGTGGC
30267808 ATATCCACTTAGCACCAC
1 ATATCCACTTAGCACCAC
30267826 GTTACATGTG
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
38 24 0.29
39 2 0.02
40 3 0.04
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.04
46 3 0.04
47 42 0.51
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (47 bp):
ATATCCACTTAGCACCACCTTAATGAATCGATATATGTAACCGTGGC
Found at i:30267864 original size:38 final size:38
Alignment explanation
Indices: 30267796--30267999 Score: 140
Period size: 38 Copynumber: 4.9 Consensus size: 38
30267786 AATCGATATA
*
30267796 TGTAACCGTGGCATATCCACTTAGCACCACGTTACATG
1 TGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
*
30267834 TGTAATCGTGGTATATCCACTTAGCACCACGCTAATGA-ATTG
1 TGTAACCGTGGTATATCCACTTAGCACCACG-T--T-ACA-TG
* *
30267876 ATATATGTAACCGTGGCATATCCACTTAACACCACGTTACATGTATCAATATG
1 -----TGTAACCGTGGTATATCCACTTAGCACCACG-----T-TA-C---ATG
* * *
30267929 TGTAATCGTGGTATATCCACTTAGCACCACATTACACG
1 TGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
* *
30267967 TATAACCGTGGTATATCCACTTAGAACCACGTT
1 TGTAACCGTGGTATATCCACTTAGCACCACGTT
30268000 TTTTTCCATT
Statistics
Matches: 131, Mismatches: 16, Indels: 38
0.71 0.09 0.21
Matches are distributed among these distances:
38 60 0.46
39 1 0.01
41 3 0.02
42 5 0.04
43 1 0.01
47 28 0.21
48 27 0.21
49 1 0.01
50 1 0.01
51 1 0.01
53 2 0.02
54 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (38 bp):
TGTAACCGTGGTATATCCACTTAGCACCACGTTACATG
Found at i:30267948 original size:48 final size:48
Alignment explanation
Indices: 30267831--30267969 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
30267821 ACCACGTTAC
* * **
30267831 ATGTGTAATCGTGGTATATCCACTTAGCACCACGCTA-ATGAATTGAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * *
30267878 ATATGTAACCGTGGCATATCCACTTAACACCACGTTACATGTATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
30267926 ATGTGTAATCGTGGTATATCCACTTAGCACCACATTACACGTAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTAT
30267970 AACCGTGGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 32 0.42
48 45 0.58
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:30270192 original size:16 final size:17
Alignment explanation
Indices: 30270167--30270206 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
30270157 TTGCGATCAT
30270167 TATTTTATTTA-TTA-A
1 TATTTTATTTACTTATA
30270182 TATTATTATTTACTTATA
1 TATT-TTATTTACTTATA
30270200 TATTTTA
1 TATTTTA
30270207 CTGCAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 7 0.32
17 6 0.27
18 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTATTTACTTATA
Found at i:30275496 original size:13 final size:13
Alignment explanation
Indices: 30275480--30275505 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30275470 CTGGAGACAC
30275480 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
30275493 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
30275506 CACACGGCCA
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:0.00, C:0.38, G:0.23, T:0.38
Consensus pattern (13 bp):
GCCCGTGTCCTTT
Found at i:30276405 original size:39 final size:40
Alignment explanation
Indices: 30276344--30276469 Score: 182
Period size: 41 Copynumber: 3.1 Consensus size: 40
30276334 GCAAAAATTG
* * *
30276344 TAAAACACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
1 TAAAA-ACCGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
30276385 TAAAAACCGAGCATTA-CGGCGGTTTTGGTAAAACGCCGC
1 TAAAAACCGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
30276424 TAAAAACCAGAGTATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACC-GAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
30276465 TAAAA
1 TAAAA
30276470 GTCATATAAC
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
39 30 0.38
40 16 0.21
41 32 0.41
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (40 bp):
TAAAAACCGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:30276458 original size:41 final size:41
Alignment explanation
Indices: 30276345--30276469 Score: 191
Period size: 39 Copynumber: 3.1 Consensus size: 41
30276335 CAAAAATTGT
* *
30276345 AAAACACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
30276387 AAAACC-GAGCATTA-CGGCGGTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
30276426 AAAACCAGAGTATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
30276467 AAA
1 AAA
30276470 GTCATATAAC
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
39 30 0.39
40 14 0.18
41 28 0.36
42 5 0.06
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:30277111 original size:24 final size:24
Alignment explanation
Indices: 30277084--30277132 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
30277074 CGTATATTTG
30277084 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
30277108 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
30277132 T
1 T
30277133 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:30278297 original size:17 final size:17
Alignment explanation
Indices: 30278275--30278324 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
30278265 AAAATTTAGC
30278275 TACTCTTTTTCTCTCGT
1 TACTCTTTTTCTCTCGT
*
30278292 TACTCTTTTTCTCTCTT
1 TACTCTTTTTCTCTCGT
30278309 TACTCTTTTTCTCTCG
1 TACTCTTTTTCTCTCG
30278325 ATCCTTCGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.06, C:0.30, G:0.04, T:0.60
Consensus pattern (17 bp):
TACTCTTTTTCTCTCGT
Found at i:30282976 original size:42 final size:43
Alignment explanation
Indices: 30282930--30283012 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
30282920 ATTTTTTAGC
*
30282930 GGCG-TTGTAAAAAAAGCGTCGCTAAAGGTAATGGTCTTTATA
1 GGCGTTTGTAAAAAAAGCGACGCTAAAGGTAATGGTCTTTATA
* ** *
30282972 GGCGTTTTTAGGAAAAGCGACGCTAAAGGTTATGGTCTTTA
1 GGCGTTTGTAAAAAAAGCGACGCTAAAGGTAATGGTCTTTA
30283013 GCGATGTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 4 0.11
43 31 0.89
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (43 bp):
GGCGTTTGTAAAAAAAGCGACGCTAAAGGTAATGGTCTTTATA
Found at i:30282996 original size:43 final size:44
Alignment explanation
Indices: 30282941--30283066 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 44
30282931 GCGTTGTAAA
*
30282941 AAAAGCGTCGCTAAAGGTAATGGTCTTTATAGGCGTTTTTAG-G
1 AAAAGCGACGCTAAAGGTAATGGTCTTTATAGGCGTTTTTAGAG
* *
30282984 AAAAGCGACGCTAAAGGTTATGGTC-TT-TA-GCGATGTTTTCGAG
1 AAAAGCGACGCTAAAGGTAATGGTCTTTATAGGCG-T-TTTTAGAG
* * *
30283027 AAAAGTGCCGCTAAAGGTCATGGTCTTTAGT-GGCGTTTTT
1 AAAAGCGACGCTAAAGGTAATGGTCTTTA-TAGGCGTTTTT
30283067 TTAAATAAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
40 3 0.04
41 3 0.04
42 7 0.10
43 46 0.66
44 6 0.09
45 1 0.01
46 4 0.06
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (44 bp):
AAAAGCGACGCTAAAGGTAATGGTCTTTATAGGCGTTTTTAGAG
Found at i:30283499 original size:47 final size:47
Alignment explanation
Indices: 30283416--30283588 Score: 156
Period size: 47 Copynumber: 3.7 Consensus size: 47
30283406 CTCTTAGCCG
30283416 ATGCATGTCCCAGACACGTCTTACACTGGCTA-TCATCATTGAGGCCA
1 ATGCATGTCCCAGACACGTCTTACACTGGC-ACTCATCATTGAGGCCA
* * **
30283463 ATGCATGTCCCAAACATGTCTTACACTGGCACTCATC-TCT-ACACCA
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATCAT-TGAGGCCA
** * * * * * *
30283509 ATGCCATGTCCCAGACGTGGTTTTACACAGGCACTCGT-AATGTGGCCG
1 ATG-CATGTCCCAGAC-ACGTCTTACACTGGCACTCATCATTGAGGCCA
* *
30283557 ATGCATGTCCCAGGCACATCTTACACTGGCAC
1 ATGCATGTCCCAGACACGTCTTACACTGGCAC
30283589 ACAAGTAATC
Statistics
Matches: 99, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
46 21 0.21
47 57 0.58
48 21 0.21
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (47 bp):
ATGCATGTCCCAGACACGTCTTACACTGGCACTCATCATTGAGGCCA
Found at i:30303861 original size:93 final size:93
Alignment explanation
Indices: 30303749--30303920 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
30303739 GCCCATAAGT
* * *
30303749 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACGCA
1 GAACTCGGACTCAACTCAACGAG-TTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACGCA
30303813 ACGAGCTCAGATGCCTAGTTACATCTCTC
65 ACGAGCTCAGATGCCTAGTTACATCTCTC
* * *
30303842 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCACCTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACGCAA
* *
30303907 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
30303921 CAAACATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACGCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:30303906 original size:46 final size:46
Alignment explanation
Indices: 30303741--30303913 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
30303731 TGTAACCCGC
* * * *
30303741 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCAGACATTTGCAT
* * * *
30303787 CCATAAGTGAACTCGGACTCAACGCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGA---C-ATTTGCAT
*
30303837 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
*
30303880 CCATAAGTGAACTCGGACTCACCTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
30303914 GGATGCCCAA
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
45 1 0.01
46 56 0.55
47 27 0.26
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
Found at i:30307870 original size:46 final size:45
Alignment explanation
Indices: 30307816--30307991 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
30307806 TGGTTGAGCA
30307816 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
* * * *
30307862 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G
* * * *
30307907 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATACAAAC
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
* * *
30307954 ACTCGAACTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30307992 GCTGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 59 0.56
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:30307972 original size:93 final size:93
Alignment explanation
Indices: 30307813--30307984 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
30307803 GGATGGTTGA
* * ** *
30307813 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACAAAACTCCAAACTCATTGAGT
30307878 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
30307906 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATACAAACACT-CGAACTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACAAA-ACTCCAAACTCATTGAG
30307970 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
30307985 CTTATGGGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACAAAACTCCAAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30313715 original size:79 final size:78
Alignment explanation
Indices: 30313604--30313827 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
30313594 GCTCCTCGTT
* * * *
30313604 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
30313668 GATTTAATAACTCGCA
64 GATTT-ATAACTCGCA
*
30313684 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG-
* *
30313748 ATTTGTATCTCGCA
65 ATTTATAACTCGCA
* * * *
30313762 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
30313825 GGA
63 GGA
30313828 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
78 30 0.24
79 60 0.48
80 36 0.29
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTATAACTCGCA
Found at i:30313721 original size:39 final size:40
Alignment explanation
Indices: 30313604--30313827 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
30313594 GCTCCTCGTT
* * *
30313604 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
30313644 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
30313684 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
30313723 CAAATGCCTTCGGG-CTTAGCCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
30313762 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
30313803 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30313828 CATCATTCAA
Statistics
Matches: 164, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 70 0.43
40 76 0.46
41 16 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:30321837 original size:20 final size:20
Alignment explanation
Indices: 30321812--30321852 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
30321802 GCAGTAAGTG
30321812 TTAGTTTGAAATTGATATGA
1 TTAGTTTGAAATTGATATGA
30321832 TTAGTTTGAAATTGATATGA
1 TTAGTTTGAAATTGATATGA
30321852 T
1 T
30321853 ATCTGTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (20 bp):
TTAGTTTGAAATTGATATGA
Found at i:30347603 original size:40 final size:40
Alignment explanation
Indices: 30347509--30347651 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
30347499 AATGATGTCT
* * * *
30347509 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* *
30347549 GGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTA-AACCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
*
30347589 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
30347629 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
30347652 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 2 0.02
40 76 0.87
41 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:30347945 original size:47 final size:47
Alignment explanation
Indices: 30347876--30348472 Score: 1023
Period size: 47 Copynumber: 12.6 Consensus size: 47
30347866 AAGGGTTGGT
*
30347876 AATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30347923 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30347970 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30348017 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
30348066 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30348113 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30348162 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30348209 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
30348258 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30348305 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30348352 AATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
30348399 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
30348446 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
30348473 TCCCGAAGGG
Statistics
Matches: 525, Mismatches: 19, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
47 387 0.74
49 138 0.26
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:30348049 original size:143 final size:141
Alignment explanation
Indices: 30347876--30348472 Score: 1023
Period size: 143 Copynumber: 4.2 Consensus size: 141
30347866 AAGGGTTGGT
*
30347876 AATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30347941 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
30348006 CCGATGTGATG
131 CCGATGTGATG
*
30348017 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
30348082 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTCTA
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
30348147 ATGGCCGATGTGATG
127 ATGGCCGATGTGATG
*
30348162 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
30348227 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
30348292 GGCCGATGTGATG
129 GGCCGATGTGATG
30348305 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
30348370 TGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* *
30348435 CCAACGTGATG
131 CCGATGTGATG
* *
30348446 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
30348473 TCCCGAAGGG
Statistics
Matches: 436, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
141 112 0.26
143 231 0.53
145 93 0.21
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATG
Found at i:30348063 original size:96 final size:94
Alignment explanation
Indices: 30347876--30348472 Score: 1023
Period size: 96 Copynumber: 6.3 Consensus size: 94
30347866 AAGGGTTGGT
*
30347876 AATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30347941 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
30347970 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
30348035 TATGTGATAAGGTCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
30348066 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
30348131 TATGTGATAAGGTCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
30348162 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
30348227 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
30348258 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30348323 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
*
30348352 AATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
30348417 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
30348446 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
30348473 TCCCGAAGGG
Statistics
Matches: 486, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
94 204 0.42
96 282 0.58
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:30350367 original size:40 final size:40
Alignment explanation
Indices: 30349924--30350355 Score: 657
Period size: 40 Copynumber: 10.8 Consensus size: 40
30349914 GAGAATTGAG
30349924 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
30349964 AGTGATATATCCGGGATAAGTCCCGAAGGGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30350004 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
30350044 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
30350084 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
30350124 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
30350164 AGTGATGTATCCAGGCTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30350204 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
30350244 AGTGATGTATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * ** * *
30350284 AGTGATATATTCGTGCTAAACCCCGAAGAGCATTTGTGTT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
30350324 GGTGTTATGTCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
30350356 ATCATGCTGG
Statistics
Matches: 358, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 358 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:30350560 original size:25 final size:25
Alignment explanation
Indices: 30350531--30350582 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
30350521 TGTGTATTAA
30350531 TGAATGAATAAGA-GCACTATGTATG
1 TGAAT-AATAAGAGGCACTATGTATG
* * *
30350556 TGAATAATTAGAGGCACTGTGTGTG
1 TGAATAATAAGAGGCACTATGTATG
30350581 TG
1 TG
30350583 CGAATTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (25 bp):
TGAATAATAAGAGGCACTATGTATG
Found at i:30354314 original size:40 final size:41
Alignment explanation
Indices: 30354235--30354376 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 41
30354225 ATGATGTCTA
* * * * *
30354235 GGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCAT-ATCCG
1 GGCTATGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCCG
* *
30354275 GACTATGAT-CCGAAGGCATTTGTGTGAGTTACTA-AATCCG
1 GGCTATG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
* *
30354315 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
30354355 GGCTATGTCCCGAAGGCATTTG
1 GGCTATGTCCCGAAGGCATTTG
30354377 AACGAGTAGC
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.01
40 74 0.88
41 9 0.11
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (41 bp):
GGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
Found at i:30354394 original size:80 final size:79
Alignment explanation
Indices: 30354238--30354409 Score: 179
Period size: 80 Copynumber: 2.2 Consensus size: 79
30354228 ATGTCTAGGC
* * ***
30354238 TAAGTCCTGAAGGCTTTGTGCTAAGTGACCATATCCGGACTATGATCCGAAGGCATTTGTGTGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTATGATCCGAAGGCATTTGAACGAG
30354303 TTACTAAATCCGGGT
66 TTACTAAATCC-GGT
* * * *
30354318 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTGAACG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTATGAT-CCGAAGGCATTTGAACG
*
30354381 AG-TAGCTATATCCGGT
64 AGTTA-CTAAATCCGGT
* *
30354397 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
30354410 TATGTGATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
79 17 0.22
80 53 0.69
81 7 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (79 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTATGATCCGAAGGCATTTGAACGAG
TTACTAAATCCGGT
Found at i:30354670 original size:47 final size:47
Alignment explanation
Indices: 30354601--30355668 Score: 1895
Period size: 47 Copynumber: 22.6 Consensus size: 47
30354591 AAGGGTTGGT
* *
30354601 AATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
30354648 AATGTGAAAGTGTATATATGTGACAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
30354695 AATGTGAAAGTGTATATATATGTGATAACGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
30354744 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30354791 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30354838 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
30354887 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30354934 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30354981 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355028 AATGTGAAAGTGTATATATG-GATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30355074 AATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355121 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355168 AATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30355217 AATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355264 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355311 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355358 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355405 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355452 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355501 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30355548 AATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
30355595 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
30355642 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
30355669 TCCCGAAGGG
Statistics
Matches: 989, Mismatches: 23, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
46 46 0.05
47 758 0.77
49 185 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:30354859 original size:143 final size:141
Alignment explanation
Indices: 30354601--30355668 Score: 1895
Period size: 143 Copynumber: 7.5 Consensus size: 141
30354591 AAGGGTTGGT
* *
30354601 AATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCTGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
30354666 TGTGACAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAACGTCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
30354731 GGCCGATGTGATG
129 GGCCGATGTGATG
30354744 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
30354809 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
30354874 GGCCGATGTGATG
129 GGCCGATGTGATG
30354887 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30354952 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
30355017 CCGATGTGATG
131 CCGATGTGATG
30355028 AATGTGAAAGTGTATATATG-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
30355092 TGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
30355157 CCGATGTGATG
131 CCGATGTGATG
30355168 AATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
30355233 TATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
30355298 GGCCGATGTGATG
129 GGCCGATGTGATG
30355311 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30355376 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
30355441 CCGATGTGATG
131 CCGATGTGATG
30355452 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
30355517 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
30355582 GGCCGATGTGATG
129 GGCCGATGTGATG
* * * * * * * *
30355595 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30355660 TGTGATAAG
66 TGTGATAAG
30355669 TCCCGAAGGG
Statistics
Matches: 901, Mismatches: 19, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
140 128 0.14
141 251 0.28
142 11 0.01
143 511 0.57
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATG
Found at i:30354924 original size:190 final size:188
Alignment explanation
Indices: 30354601--30355668 Score: 1895
Period size: 190 Copynumber: 5.6 Consensus size: 188
30354591 AAGGGTTGGT
* *
30354601 AATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCTGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
30354666 TGTGACAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAACGTCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
30354731 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
129 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30354791 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
30354856 TATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
30354921 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
129 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30354981 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
30355046 TG-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
30355110 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355168 AATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
30355233 TATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
30355298 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
129 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30355358 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
30355423 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
30355488 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
129 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30355548 AATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
30355613 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30355669 TCCCGAAGGG
Statistics
Matches: 852, Mismatches: 19, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
187 127 0.15
188 118 0.14
189 58 0.07
190 503 0.59
192 46 0.05
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (188 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:30362471 original size:42 final size:42
Alignment explanation
Indices: 30362360--30362473 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 42
30362350 TTCCGTACCA
* *
30362360 ATGCCATATCCCAGATATGGTCTAACATGAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * * *
30362402 ATGCCAAGAGCCCAGCTATGGTCTTACACGAAGTCTCGTATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
30362445 ATGCCATATCCCATATATGGTTTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
30362474 TAATACCAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:30378665 original size:55 final size:53
Alignment explanation
Indices: 30378539--30378728 Score: 146
Period size: 55 Copynumber: 3.5 Consensus size: 53
30378529 AGGGTTTAAG
* * * * * * ** * *
30378539 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTAGAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAA-CTACATAAGGCAAA
* * * *
30378593 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGCTAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGGCAAA
* * * * * * * *
30378648 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGTAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAA
*
30378701 GATACCACGTAAGACCATGTCAAGACAT
1 GATACCATGTAAGACCATGTCAAGACAT
30378729 CCCGTGTATC
Statistics
Matches: 106, Mismatches: 28, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
53 32 0.30
54 35 0.33
55 39 0.37
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAA
Found at i:30382794 original size:39 final size:40
Alignment explanation
Indices: 30382669--30382849 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
30382659 GCTACTCGTT
*
30382669 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
30382709 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
30382749 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
30382788 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30382829 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
30382850 TGGACATCAT
Statistics
Matches: 117, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 31 0.26
40 73 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30388720 original size:27 final size:27
Alignment explanation
Indices: 30388690--30388867 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
30388680 ATATTGAGCC
* *
30388690 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30388717 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30388744 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30388772 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
30388799 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
30388826 CGCACACTTAATGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
30388853 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30388868 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30388829 original size:82 final size:81
Alignment explanation
Indices: 30388711--30388866 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30388701 TGCTATATAA
* * *
30388711 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAATGCAACATAGTCAAA-TCGCA
30388776 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30388793 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAATGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAATGCAACATAGTCAAATCGCA
30388857 CACTTAGTGC
65 CACTTAGTGC
30388867 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAATGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30405482 original size:40 final size:40
Alignment explanation
Indices: 30405438--30405701 Score: 363
Period size: 40 Copynumber: 6.6 Consensus size: 40
30405428 GCCACTAGCT
* *
30405438 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
30405478 CAAATGCCTTCGGGACTTAGCCCGGTA-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
30405517 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
30405557 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
30405597 CAAATGCCTTCAGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
** * *
30405637 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
30405677 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
30405702 TTATCATCCG
Statistics
Matches: 206, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
39 37 0.18
40 169 0.82
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:30416208 original size:4 final size:5
Alignment explanation
Indices: 30416149--30416237 Score: 67
Period size: 5 Copynumber: 16.8 Consensus size: 5
30416139 TATGTCTTTC
* *
30416149 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
30416197 AAAA- ATAAAT AAAAT AAAAT AAAAT AAAAAT AAGAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAA
30416238 AAATAGGAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
3 3 0.04
4 1 0.01
5 33 0.48
6 32 0.46
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:30416240 original size:25 final size:24
Alignment explanation
Indices: 30416149--30416242 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 24
30416139 TATGTCTTTC
* * *
30416149 AAAATAAAATAATAAAATTGAAATG
1 AAAATAAAATAA-AAAAATAAAATA
* *
30416174 AAAATAAAAATCAAAAGA-AAAATA
1 AAAAT-AAAATAAAAAAATAAAATA
30416198 AAAAT-AAATAAAATAAAATAAAATA
1 AAAATAAAAT-AAA-AAAATAAAATA
30416223 AAAATAAGAATAAAAAAATA
1 AAAATAA-AATAAAAAAATA
30416243 GGAGGATTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
22 4 0.07
23 2 0.04
24 12 0.21
25 25 0.45
26 10 0.18
27 3 0.05
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (24 bp):
AAAATAAAATAAAAAAATAAAATA
Found at i:30421619 original size:13 final size:13
Alignment explanation
Indices: 30421597--30421629 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30421587 AAGGATTTGT
30421597 TTAT-TAAACTAA
1 TTATCTAAACTAA
30421609 TTATCTAAACTAA
1 TTATCTAAACTAA
*
30421622 TTAACTAA
1 TTATCTAA
30421630 TTTAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:30422867 original size:37 final size:37
Alignment explanation
Indices: 30422803--30422911 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
30422793 AGCTCAGACG
* * * *
30422803 AAATCTCCACATGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
30422840 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
30422877 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
30422912 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:30423152 original size:47 final size:47
Alignment explanation
Indices: 30423090--30423431 Score: 423
Period size: 47 Copynumber: 7.1 Consensus size: 47
30423080 ACACGTTTCG
* * *
30423090 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
30423137 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
30423184 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
30423231 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* * * *
30423284 CATTGACCATTCGGACTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * **
30423331 CATTGGCCATTCAGCCTTATCACAGATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCAC----ATATATGCATGTTCACATTCATCA
* * *
30423382 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
30423429 CAT
1 CAT
30423432 AAAATCCTAA
Statistics
Matches: 253, Mismatches: 32, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
47 170 0.67
49 1 0.00
51 42 0.17
53 40 0.16
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:30423280 original size:147 final size:148
Alignment explanation
Indices: 30423090--30423409 Score: 447
Period size: 147 Copynumber: 2.2 Consensus size: 148
30423080 ACACGTTTCG
* * *
30423090 CATTAGCCATTCGGCCTTA-C-CAC--ATATAT-T-CATGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGACCATTC
* * * * * *
30423149 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACA
30423214 CAT-GTTCACATTCATCA
131 CATGGTTCACATTCATCA
*
30423231 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGACCATTC
1 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGACCATTC
* *
30423296 GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACAGATATA
66 GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACA
*
30423361 TATACGGGTTCACATTCATCA
131 CAT---GGTTCACATTCATCA
30423382 CATTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
30423410 CGCATGTTCA
Statistics
Matches: 155, Mismatches: 14, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
141 18 0.12
142 1 0.01
143 2 0.01
145 6 0.04
146 1 0.01
147 86 0.55
151 41 0.26
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (148 bp):
CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGACCATTC
GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACA
CATGGTTCACATTCATCA
Found at i:30423303 original size:100 final size:98
Alignment explanation
Indices: 30423090--30423431 Score: 512
Period size: 100 Copynumber: 3.5 Consensus size: 98
30423080 ACACGTTTCG
* * * **
30423090 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
30423155 AT--C-T-CATATATGCATGTTCACATTCATCA
66 ATCACATATATATATACAGGTTCACATTCATCA
30423184 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
30423249 ATCACGCATATATATATACAGGTTCACATTCATCA
66 ATCA--CATATATATATACAGGTTCACATTCATCA
* * *
30423284 CATTGACCATTCGGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
30423349 ATCACAGATATATATACGGGTTCACATTCATCA
66 ATCACATATATATATACAGGTTCACATTCATCA
*
30423382 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
30423432 AAAATCCTAA
Statistics
Matches: 226, Mismatches: 16, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
94 62 0.27
98 75 0.33
99 1 0.00
100 88 0.39
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACATATATATATACAGGTTCACATTCATCA
Found at i:30425740 original size:85 final size:85
Alignment explanation
Indices: 30425611--30425789 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
30425601 TATTTTATTG
*
30425611 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
30425676 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
30425696 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
30425761 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
30425781 CCCATGCTC
1 CCCATGCTC
30425790 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:30427593 original size:40 final size:40
Alignment explanation
Indices: 30427543--30427881 Score: 579
Period size: 40 Copynumber: 8.5 Consensus size: 40
30427533 CTCTTCGGGT
* * *
30427543 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
30427583 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
30427623 GTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
30427663 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
30427703 TTAGCCCGAATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
30427743 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGAGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
30427783 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* * * *
30427823 TTAGCACGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
30427863 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
30427882 CTCAGTTCTC
Statistics
Matches: 282, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 282 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:30427712 original size:23 final size:23
Alignment explanation
Indices: 30427641--30427830 Score: 68
Period size: 23 Copynumber: 9.3 Consensus size: 23
30427631 GATATATCAC
30427641 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
* * * *
30427664 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCCTCGGGACT
30427681 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
* * *
30427704 TAGCCCGAAT-AT-ATC---AC-
1 TAGCACGAATGCTCCTCGGGACT
30427721 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
* * * *
30427744 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCCTCGGGACT
*
30427761 TAGCACGAATGCTCCTCGAGACT
1 TAGCACGAATGCTCCTCGGGACT
* * * *
30427784 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCCTCGGGACT
30427801 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
30427824 TAGCACG
1 TAGCACG
30427831 GATACATCAC
Statistics
Matches: 113, Mismatches: 30, Indels: 48
0.59 0.16 0.25
Matches are distributed among these distances:
17 33 0.29
18 12 0.11
19 8 0.07
21 8 0.07
22 12 0.11
23 40 0.35
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (23 bp):
TAGCACGAATGCTCCTCGGGACT
Found at i:30429199 original size:37 final size:37
Alignment explanation
Indices: 30429135--30429243 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
30429125 AGCTTAGACG
* * * *
30429135 AAATCTCCACATGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
30429172 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
30429209 TAATCTCTACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
30429244 ATATATTTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:30429515 original size:47 final size:47
Alignment explanation
Indices: 30429452--30429793 Score: 432
Period size: 47 Copynumber: 7.1 Consensus size: 47
30429442 ACACGCTTCG
* * *
30429452 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
30429499 CATTGGCCATTTGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
30429546 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
30429593 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* * *
30429646 CATTGGCCATTCGGACTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
30429693 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* * *
30429744 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
30429791 CAT
1 CAT
30429794 AAAATCCTAA
Statistics
Matches: 255, Mismatches: 30, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
47 167 0.65
49 7 0.03
51 40 0.16
53 41 0.16
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:30429641 original size:147 final size:148
Alignment explanation
Indices: 30429452--30429771 Score: 465
Period size: 147 Copynumber: 2.2 Consensus size: 148
30429442 ACACGCTTCG
* * *
30429452 CATTAGCCATTCGGCCTTA-C-CAC--ATATAT-T-CATGTTCACATTCATCACATTGGCCATTT
1 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTC
* * * * *
30429511 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
30429576 CAT-GTTCACATTCATCA
131 CATGGTTCACATTCATCA
*
30429593 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTC
*
30429658 GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATA
66 GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
*
30429723 TATACGGGTTCACATTCATCA
131 CAT---GGTTCACATTCATCA
30429744 CATTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
30429772 CGCATGTTCA
Statistics
Matches: 157, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
141 18 0.11
142 1 0.01
143 2 0.01
145 6 0.04
146 1 0.01
147 88 0.56
151 41 0.26
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (148 bp):
CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTC
GGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
CATGGTTCACATTCATCA
Found at i:30429665 original size:100 final size:98
Alignment explanation
Indices: 30429452--30429793 Score: 521
Period size: 100 Copynumber: 3.5 Consensus size: 98
30429442 ACACGCTTCG
* * * ** *
30429452 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTTGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
30429517 AT--C-T-CATATATGCATGTTCACATTCATCA
66 ATCACATATATATATACAGGTTCACATTCATCA
30429546 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
30429611 ATCACGCATATATATATACAGGTTCACATTCATCA
66 ATCA--CATATATATATACAGGTTCACATTCATCA
*
30429646 CATTGGCCATTCGGACTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
30429711 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACATATATATATACAGGTTCACATTCATCA
*
30429744 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
30429794 AAAATCCTAA
Statistics
Matches: 228, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
94 61 0.27
98 76 0.33
99 1 0.00
100 90 0.39
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACATATATATATACAGGTTCACATTCATCA
Found at i:30432106 original size:85 final size:85
Alignment explanation
Indices: 30431978--30432155 Score: 338
Period size: 85 Copynumber: 2.1 Consensus size: 85
30431968 ATTTTATTGT
*
30431978 CCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTT
1 CCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTT
*
30432043 AGCCATAACATCTTGTCCAC
66 AGCCATAACATCTTGCCCAC
30432063 CCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTT
1 CCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTT
30432128 AGCCATAACATCTTGCCCAC
66 AGCCATAACATCTTGCCCAC
30432148 CCATGCTC
1 CCATGCTC
30432156 ATGGCCGGCC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTT
AGCCATAACATCTTGCCCAC
Found at i:30460315 original size:12 final size:12
Alignment explanation
Indices: 30460294--30460361 Score: 57
Period size: 12 Copynumber: 5.4 Consensus size: 12
30460284 TAATAAGAAT
*
30460294 TAAAACTAATAA
1 TAAAAATAATAA
30460306 TAAAAATAATAA
1 TAAAAATAATAA
* *
30460318 -AGAAATGGATATAG
1 TAAAAAT--A-ATAA
30460332 TAAATAATAATAA
1 TAAA-AATAATAA
*
30460345 TAATAATAATAA
1 TAAAAATAATAA
30460357 TAAAA
1 TAAAA
30460362 GAAGTTGAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
11 5 0.11
12 23 0.52
13 7 0.16
14 4 0.09
15 2 0.05
16 3 0.07
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.26
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:30460345 original size:6 final size:6
Alignment explanation
Indices: 30460334--30460359 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30460324 GGATATAGTA
30460334 AATAAT AATAAT AATAAT AATAAT AA
1 AATAAT AATAAT AATAAT AATAAT AA
30460360 AAGAAGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATAAT
Found at i:30461625 original size:56 final size:56
Alignment explanation
Indices: 30461539--30461648 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
30461529 ATATTCGCAT
*
30461539 GTCAAAACTCCTCTTTCTTGTGGTCAATTCTATTATTAAAATATGGTTTGAGTCGA
1 GTCAAAACTCCTCTTTCTTGCGGTCAATTCTATTATTAAAATATGGTTTGAGTCGA
30461595 GTCAAAACTCCTCTTTCTTGCGGTCAATTCTATTATTAAAATATGGTTTGAGTC
1 GTCAAAACTCCTCTTTCTTGCGGTCAATTCTATTATTAAAATATGGTTTGAGTC
30461649 AAGTAATATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (56 bp):
GTCAAAACTCCTCTTTCTTGCGGTCAATTCTATTATTAAAATATGGTTTGAGTCGA
Found at i:30465910 original size:17 final size:19
Alignment explanation
Indices: 30465878--30465915 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
30465868 AAACCTTCAA
30465878 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
30465897 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
30465914 TT
1 TT
30465916 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:30472776 original size:44 final size:43
Alignment explanation
Indices: 30472708--30472792 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
30472698 ATTGACTTTT
* * * *
30472708 GATTTACGTGTAAGACCATTTCTGGGACGTTGGCATCGATTTGA
1 GATTCACGTGTAAGACCATGTCTGGGACATCGGCATC-ATTTGA
30472752 GATTCACGTGTAAGACCCA-GTCTGGGACATCGGCATCATTT
1 GATTCACGTGTAAGA-CCATGTCTGGGACATCGGCATCATTT
30472793 TTTATTTCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 4 0.11
44 29 0.81
45 3 0.08
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTCACGTGTAAGACCATGTCTGGGACATCGGCATCATTTGA
Done.