Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 58 of 292
Found at i:17121233 original size:27 final size:27
Alignment explanation
Indices: 17121196--17121247 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
17121186 TTCAGCTCTA
17121196 TATTTTCTAATTTTATCAACCGGAGAC
1 TATTTTCTAATTTTATCAACCGGAGAC
17121223 TATTTTCTAATTTTATCAACCGGAG
1 TATTTTCTAATTTTATCAACCGGAG
17121248 GCTTACTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (27 bp):
TATTTTCTAATTTTATCAACCGGAGAC
Found at i:17123261 original size:43 final size:43
Alignment explanation
Indices: 17123214--17123308 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
17123204 TCCTAGACAA
* * * *
17123214 GGTCTTACACGAAATC-GATTAATGATGCCAATGTTTCAAACAT
1 GGTCTTACACGAAATCTCAAT-ATAATGCCAATGTCTCAAACAT
* *
17123257 GGTCTTACACGTAATCTCAATATAATGCCAATGTCTCAGACAT
1 GGTCTTACACGAAATCTCAATATAATGCCAATGTCTCAAACAT
17123300 GGTCTTACA
1 GGTCTTACA
17123309 TGTAATTACA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 43 0.96
44 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (43 bp):
GGTCTTACACGAAATCTCAATATAATGCCAATGTCTCAAACAT
Found at i:17124440 original size:13 final size:13
Alignment explanation
Indices: 17124422--17124446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17124412 CACACATACA
17124422 TAATCACATGCTG
1 TAATCACATGCTG
17124435 TAATCACATGCT
1 TAATCACATGCT
17124447 AAAACTGGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (13 bp):
TAATCACATGCTG
Found at i:17126495 original size:24 final size:24
Alignment explanation
Indices: 17126448--17126495 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17126438 TTTTGAGCAA
* **
17126448 TTTAATTTTTTTCTTTTATGTTCT
1 TTTAACTTTTTTCTTTTACATTCT
*
17126472 TTTAACTTTTTTCTTTTCCATTCT
1 TTTAACTTTTTTCTTTTACATTCT
17126496 CTTCTGCTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTAACTTTTTTCTTTTACATTCT
Found at i:17131929 original size:30 final size:30
Alignment explanation
Indices: 17131895--17131955 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17131885 TCCTTAACTC
17131895 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17131925 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17131955 A
1 A
17131956 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17137645 original size:2 final size:2
Alignment explanation
Indices: 17137640--17137672 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17137630 TATATAATGA
*
17137640 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17137673 CAATATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17142029 original size:34 final size:34
Alignment explanation
Indices: 17141956--17142029 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
17141946 TGCATTTCTG
* *
17141956 ATACTGTTACTGAATTGGGCTAAGGCCCACATTG
1 ATACTGTTACTGAATTGGGCTAAGGCCCACACTC
*
17141990 TTACTGTTACTGTAA-TGGGCTAAGGCCCTA-ACTC
1 ATACTGTTACTG-AATTGGGCTAAGGCCC-ACACTC
17142024 ATACTG
1 ATACTG
17142030 GACTGTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
34 31 0.91
35 3 0.09
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (34 bp):
ATACTGTTACTGAATTGGGCTAAGGCCCACACTC
Found at i:17144458 original size:28 final size:27
Alignment explanation
Indices: 17144427--17144482 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
17144417 CTCTTTTGAG
*
17144427 TTAATAAATTCTCTTTG-AGTTCTTCTTT
1 TTAAGAAATTCTC-TTGAAGTT-TTCTTT
*
17144455 TTAAGAATTTCTCTTGAAGTTTTCTTT
1 TTAAGAAATTCTCTTGAAGTTTTCTTT
17144482 T
1 T
17144483 AGAAGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.57
Consensus pattern (27 bp):
TTAAGAAATTCTCTTGAAGTTTTCTTT
Found at i:17145137 original size:163 final size:163
Alignment explanation
Indices: 17144853--17145191 Score: 491
Period size: 163 Copynumber: 2.1 Consensus size: 163
17144843 CCCGTGTCTC
* *
17144853 AGGCCATGTAACTTTCGAACTAGAGACACACGGTCGTGTTATAGCCTGTGTCCTCACCCGTGTAA
1 AGGCCGTGTAACTTTCGAACTAGAGACACACGGTCGTGTTATAGCCTGTGTCATCACCCGTGTAA
* ** *
17144918 CTCACTGAGTAGGGTCACACGGTTGTGTCACACGCCCGTGTGTCAAGCCGTGTAACT-TTCAAAA
66 CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAAGCCATGTAACTCTT-AAAA
* **
17144982 TAGCCCTACATGCCCATGTACCAGGTAGTGTGCT
130 TAGCCCTACACGCCCATGTACCAGGTAGCATGCT
* * *
17145016 AGGCTGTGTAACTTTTGAACTAGAGACACACGGTCGTGTTCTAGCCTGTGTCATCACCCGTGTAA
1 AGGCCGTGTAACTTTCGAACTAGAGACACACGGTCGTGTTATAGCCTGTGTCATCACCCGTGTAA
* ** *
17145081 CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAGGTTATGTAACTCTTGAAAT
66 CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAAGCCATGTAACTCTTAAAAT
* * *
17145146 AGTCCTACACGCCCGTGTGCCAGGTAGCATGCT
131 AGCCCTACACGCCCATGTACCAGGTAGCATGCT
17145179 AGGCCGTGTAACT
1 AGGCCGTGTAACT
17145192 GTCTGACTTG
Statistics
Matches: 155, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
163 153 0.99
164 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (163 bp):
AGGCCGTGTAACTTTCGAACTAGAGACACACGGTCGTGTTATAGCCTGTGTCATCACCCGTGTAA
CTCACTGAGTAGGGTCACAAGGCCGTGTCACACGCCCGTGTGTCAAGCCATGTAACTCTTAAAAT
AGCCCTACACGCCCATGTACCAGGTAGCATGCT
Found at i:17158581 original size:29 final size:29
Alignment explanation
Indices: 17158496--17158595 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
17158486 TACCTGTATC
* *
17158496 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATTTATA
* *
17158524 TGGCCCATTAGGCCCAAACCACT-TGTATA
1 TGGCCCATTAGGCCCAAATCA-TATTTATA
17158553 TGGCCCATTAGGCCCAAATCATATTTATA
1 TGGCCCATTAGGCCCAAATCATATTTATA
**
17158582 TGGCCTGTTAGGCC
1 TGGCCCATTAGGCC
17158596 TAGTCACATT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.25
29 45 0.74
30 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCATATTTATA
Found at i:17158833 original size:8 final size:8
Alignment explanation
Indices: 17158820--17158850 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
17158810 GTAGCCAAAC
17158820 TTTCGGCA
1 TTTCGGCA
17158828 TTTCGGCA
1 TTTCGGCA
*
17158836 TTTCAGCA
1 TTTCGGCA
17158844 TTTCGGC
1 TTTCGGC
17158851 TTTTGCCGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.39
Consensus pattern (8 bp):
TTTCGGCA
Found at i:17162508 original size:40 final size:40
Alignment explanation
Indices: 17162474--17162654 Score: 233
Period size: 40 Copynumber: 4.5 Consensus size: 40
17162464 ACTCGTTTAG
* *
17162474 ATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAA
17162514 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
17162554 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
** * * * *
17162594 ATGCCTTC-GGATCTTAGTCCGGATATAATCACTTAGCACAA
1 ATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAA
*
17162635 A-GCCTTCGGGACTTAGCCCG
1 ATGCCTTCGGGACTTAACCCG
17162655 AACATCATTC
Statistics
Matches: 128, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
Found at i:17168468 original size:37 final size:37
Alignment explanation
Indices: 17168410--17168554 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
17168400 GCTCAGACGA
* *
17168410 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
17168447 ACTCTCCACACGTAGTCATCGGGTCGTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
17168484 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
17168521 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
17168555 ATATATTTCC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:17168670 original size:48 final size:48
Alignment explanation
Indices: 17168599--17169032 Score: 697
Period size: 48 Copynumber: 9.0 Consensus size: 48
17168589 TGTTACAACA
* *
17168599 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
17168647 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
17168695 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
17168743 TTTACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
17168791 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
17168839 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
17168887 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
17168935 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATC-T-CATATATAT
* * *
17168985 TTCACATTAGCCATTCGGATTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
17169033 ATATTTATCT
Statistics
Matches: 355, Mismatches: 29, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
48 311 0.88
50 44 0.12
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:17172852 original size:65 final size:65
Alignment explanation
Indices: 17172757--17172901 Score: 193
Period size: 65 Copynumber: 2.2 Consensus size: 65
17172747 CCTAAAAGGT
* * * * **
17172757 TACATTTGAAAAGGTTATGTACACTTTGTGTGTA-CACTTTGAAAAGGTTATGTATACTTTGTGT
1 TACACTTGAAAAGGTTAGGTACACTCTGTGTATACCA-TTTGAAAAGGAAATGTATACTTTGTGT
17172821 G
65 G
*
17172822 TACACTTGAAAAGGTTAGGTATACTCTGTGTATACCATTTGAAAAGGAAATGTATACTTTGTGTG
1 TACACTTGAAAAGGTTAGGTACACTCTGTGTATACCATTTGAAAAGGAAATGTATACTTTGTGTG
*
17172887 TACTGCTTGAAAAGG
1 TAC-ACTTGAAAAGG
17172902 AACGTACACC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
65 58 0.83
66 12 0.17
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (65 bp):
TACACTTGAAAAGGTTAGGTACACTCTGTGTATACCATTTGAAAAGGAAATGTATACTTTGTGTG
Found at i:17172903 original size:33 final size:32
Alignment explanation
Indices: 17172757--17172901 Score: 182
Period size: 33 Copynumber: 4.4 Consensus size: 32
17172747 CCTAAAAGGT
* *
17172757 TACATTTGAAAAGGTTATGTACACTTTGTGTG
1 TACACTTGAAAAGGTTATGTATACTTTGTGTG
17172789 TACACTTTGAAAAGGTTATGTATACTTTGTGTG
1 TACAC-TTGAAAAGGTTATGTATACTTTGTGTG
* * *
17172822 TACACTTGAAAAGGTTAGGTATACTCTGTGTA
1 TACACTTGAAAAGGTTATGTATACTTTGTGTG
* **
17172854 TACCATTTGAAAAGGAAATGTATACTTTGTGTG
1 TA-CACTTGAAAAGGTTATGTATACTTTGTGTG
*
17172887 TACTGCTTGAAAAGG
1 TAC-ACTTGAAAAGG
17172902 AACGTACACC
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
32 31 0.32
33 66 0.68
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (32 bp):
TACACTTGAAAAGGTTATGTATACTTTGTGTG
Found at i:17175105 original size:58 final size:56
Alignment explanation
Indices: 17174983--17175106 Score: 131
Period size: 58 Copynumber: 2.2 Consensus size: 56
17174973 TCAGTGTTCC
* * *
17174983 TTTCTAAATGAATTCATTTCTCATTTTCATTTCCATTTTGGAGAAAACCACATTTA
1 TTTCCAAATGAATTCATTTCTCATTTTCATTTCCATTTTGGAGAAAACCACAATCA
* * * * * ***
17175039 TTTACAAATGATTTCATTTCTGTATTTTGATTTTCATTTTTGGAGAAAACTTTAATCA
1 TTTCCAAATGAATTCATTTCT-CATTTTCATTTCCA-TTTTGGAGAAAACCACAATCA
17175097 TTTCCAAATG
1 TTTCCAAATG
17175107 TTTACTATTT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
56 18 0.33
57 11 0.20
58 25 0.46
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.47
Consensus pattern (56 bp):
TTTCCAAATGAATTCATTTCTCATTTTCATTTCCATTTTGGAGAAAACCACAATCA
Found at i:17177573 original size:304 final size:301
Alignment explanation
Indices: 17176990--17177575 Score: 696
Period size: 301 Copynumber: 1.9 Consensus size: 301
17176980 TAGGGAGAAT
* ** *
17176990 AATTTTCCATTGCTTGTTCTTGACATTTGATCCATATTTCAGGGCCTTTCTTCACTATTAGCCAA
1 AATTTTCCATTGCTTGTTCTAGACATTCAATCCATATTTCAGGGCCTTTCCTCACTATTAGCCAA
*** * ** * *
17177055 TTCTGTTGGTTGATGGAACCTGGCTGTATGGGAAATATACGCAAATCCTTCTTATTACAGTTGTA
66 TTCTGCAAGTTGATGGAACCTGACTGTATAAGAAATATACGCAAATCCTCCTTATCACAGTTGTA
** * * * *
17177120 CAAGATGGTAACCAGAACGAATTGTTGATAGCTTTTGCCATTATGGAGAAAGAGAACATGGAATT
131 CAAGATAATAACCAGAACGAACTGCTGATAGCTTTTGCAATTATGGAAAAAGAGAACATGGAATT
*
17177185 GTGGAAAAAAAATTGACAAACTTGCAGAAGCATGTTGTTAGACAAGATAACATTTACTTGATTTT
196 GTGGAAAAAAAATTGACAAACTTGCAGAAGCATGTTGTTAGACAAGATAACATTTACTTGATTTC
*
17177250 CGATCGATCAAAGGGGCTCATTGTGACAATTAGGTGTTCTA
261 CAATCGATCAAAGGGGCTCATTGTGACAATTAGGTGTTCTA
* * * *
17177291 AATTTTCCATTGCTTGTTCTAGATATTCAATCCATATGTT-AGGGTCTTTCCTCACTATTAGTCG
1 AATTTTCCATTGCTTGTTCTAGACATTCAATCCATAT-TTCAGGGCCTTTCCTCACTATTAGCCA
* * * *
17177355 ATTGTGCAAGTTGATGGAACTTGACTGTATTAAGAAATATAGGCAAATCCTCCTTATCGCAGTTG
65 ATTCTGCAAGTTGATGGAACCTGACTGTA-TAAGAAATATACGCAAATCCTCCTTATCACAGTTG
* * *
17177420 TACAAGATAATAA-CTGAAACGTACTGCTGATAGCTTTTGCAAATTGTGGAAAAAGAGAACATGG
129 TACAAGATAATAACCAG-AACGAACTGCTGATAGCTTTTGC-AATTATGGAAAAAGAGAACATGG
***** * * * * *
17177484 AATTGT-GACAATTTTTCTTGACAAAGTTG-AGGAGGCATGTTGTTAGGCAAGATAGCATTTGCT
192 AATTGTGGA-AA-AAAAATTGACAAACTTGCA-GAAGCATGTTGTTAGACAAGATAACATTTACT
17177547 TGATTTCCAAT-GAATCAAAGGGGCTCATT
254 TGATTTCCAATCG-ATCAAAGGGGCTCATT
17177576 ACGAGGATTA
Statistics
Matches: 236, Mismatches: 41, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
301 78 0.33
302 64 0.27
303 30 0.13
304 64 0.27
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (301 bp):
AATTTTCCATTGCTTGTTCTAGACATTCAATCCATATTTCAGGGCCTTTCCTCACTATTAGCCAA
TTCTGCAAGTTGATGGAACCTGACTGTATAAGAAATATACGCAAATCCTCCTTATCACAGTTGTA
CAAGATAATAACCAGAACGAACTGCTGATAGCTTTTGCAATTATGGAAAAAGAGAACATGGAATT
GTGGAAAAAAAATTGACAAACTTGCAGAAGCATGTTGTTAGACAAGATAACATTTACTTGATTTC
CAATCGATCAAAGGGGCTCATTGTGACAATTAGGTGTTCTA
Found at i:17181066 original size:20 final size:21
Alignment explanation
Indices: 17181043--17181083 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17181033 ATTATGTTCT
*
17181043 TTCC-ATTTAAATAAATAACA
1 TTCCTATTTAAAAAAATAACA
17181063 TTCCTATTTAAAAAAATAACA
1 TTCCTATTTAAAAAAATAACA
17181084 ATTATTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (21 bp):
TTCCTATTTAAAAAAATAACA
Found at i:17185453 original size:35 final size:30
Alignment explanation
Indices: 17185378--17185434 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
17185368 ATTAAATGGC
17185378 ATGAAATGTATATGAAATAGTATGTTTGGT
1 ATGAAATGTATATGAAATAGTATGTTTGGT
17185408 ATGAAATGTATATGAAATAGTATGTTT
1 ATGAAATGTATATGAAATAGTATGTTT
17185435 TGGCTGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.40
Consensus pattern (30 bp):
ATGAAATGTATATGAAATAGTATGTTTGGT
Found at i:17187338 original size:30 final size:30
Alignment explanation
Indices: 17187302--17187461 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
17187292 GACAAGATTG
* * * * *
17187302 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
17187332 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
17187360 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
17187389 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
17187419 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
17187448 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
17187462 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:17187430 original size:59 final size:57
Alignment explanation
Indices: 17187302--17187461 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
17187292 GACAAGATTG
* * * * * *
17187302 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
17187360 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
17187419 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
17187462 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:17192152 original size:12 final size:12
Alignment explanation
Indices: 17192135--17192159 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17192125 ATGTAAGTGA
17192135 TCTTGATGATTT
1 TCTTGATGATTT
17192147 TCTTGATGATTT
1 TCTTGATGATTT
17192159 T
1 T
17192160 TTTTGGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:17193023 original size:47 final size:45
Alignment explanation
Indices: 17192878--17193043 Score: 138
Period size: 47 Copynumber: 3.6 Consensus size: 45
17192868 GAGGGCTAGA
* * **
17192878 GTAAGACATGTCTGGGACATGCATCATCCACATTATGATTGCCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGA-TGCCAGT
* * * * *
17192924 GTAAGACCATGTTTGGGACATGGCATC-GACGT-AGAGATCAGTGCTAGC
1 GTAAGA-CATGTCTGGGACAT-GCATCAG-CCTCA-AGATGA-TGCCAGT
*
17192972 GTAAGACATGTCTAGGACATGCATCAGCCTCAACGATGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCAGCCTCAA-GATGAT-GCCAGT
* *
17193019 GTAAGACGTGTCTGAGACATGCATC
1 GTAAGACATGTCTGGGACATGCATC
17193044 GGCTAAGCTT
Statistics
Matches: 93, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
46 15 0.16
47 58 0.62
48 20 0.22
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGATGCCAGT
Found at i:17193038 original size:94 final size:93
Alignment explanation
Indices: 17192872--17193044 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 93
17192862 TTATATGAGG
* * ** * *
17192872 GCTAGAGTAAGACATGTCTGGGACATGCATCATCCACATTATGATTGCCAGTGTAAGACCATGTT
1 GCTAGAGTAAGACATGTCTAGGACATGCATCAGCCACACGATGATAGCCAGTGTAAGACCATGTC
*
17192937 TGGGACATGGCATCGACGTAGAGATCAGT
66 TGAGACAT-GCATCGACGTAGAGATCAGT
* * *
17192966 GCTAGCGTAAGACATGTCTAGGACATGCATCAGCCTCAACGATGATAGCCAGTGTAAGA-CGTGT
1 GCTAGAGTAAGACATGTCTAGGACATGCATCAGCCAC-ACGATGATAGCCAGTGTAAGACCATGT
17193030 CTGAGACATGCATCG
65 CTGAGACATGCATCG
17193045 GCTAAGCTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
93 6 0.09
94 44 0.65
95 18 0.26
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (93 bp):
GCTAGAGTAAGACATGTCTAGGACATGCATCAGCCACACGATGATAGCCAGTGTAAGACCATGTC
TGAGACATGCATCGACGTAGAGATCAGT
Found at i:17199544 original size:16 final size:16
Alignment explanation
Indices: 17199523--17199553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17199513 TAGCTATCAT
*
17199523 TTCTTTCTTCTCCAAC
1 TTCTTTCTTCACCAAC
17199539 TTCTTTCTTCACCAA
1 TTCTTTCTTCACCAA
17199554 AATTATCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.48
Consensus pattern (16 bp):
TTCTTTCTTCACCAAC
Found at i:17199642 original size:12 final size:12
Alignment explanation
Indices: 17199625--17199649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17199615 ATGTAAGTGA
17199625 TCTTGATGATTT
1 TCTTGATGATTT
17199637 TCTTGATGATTT
1 TCTTGATGATTT
17199649 T
1 T
17199650 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:17200027 original size:30 final size:30
Alignment explanation
Indices: 17199970--17200027 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17199960 CTTTCGAGCA
* **
17199970 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
*
17200000 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
17200028 ATGTAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:17200475 original size:47 final size:45
Alignment explanation
Indices: 17200359--17200579 Score: 189
Period size: 47 Copynumber: 4.8 Consensus size: 45
17200349 ATTGAGTTAT
* * * * *
17200359 ATGAGGGCTAGAGTAAGACATGTTTGGGACATGCATCAGC-CATATT
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACA-A-G
* * *
17200405 ATGA-TAGCCAGTGTAAGACCATGTCTGGGATATGGCATTGGCACAGAG
1 ATGAGT-GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACA-AG
*
17200453 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACG
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACAA-G
* * *
17200500 ATGA-TAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGC-TAAG
1 ATGAGT-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACAAG
* ** *
17200544 TTTTGTGCTAGTGTAAGACTTGTCTGGGACATGCAT
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCAT
17200580 TGGTACGTAT
Statistics
Matches: 145, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 30 0.21
45 3 0.02
46 23 0.16
47 64 0.44
48 21 0.14
49 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (45 bp):
ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACAAG
Found at i:17200570 original size:91 final size:94
Alignment explanation
Indices: 17200359--17200579 Score: 263
Period size: 94 Copynumber: 2.4 Consensus size: 94
17200349 ATTGAGTTAT
* * * **
17200359 ATGAGGGCTAGAGTAAGACATGTTTGGGACATGCATCAGCCATATTATGATAGCCAGTGTAAGAC
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACGATGATAGCCAGTGTAAGAC
* *
17200424 CATGTCTGGGATATGGCATTGGCACAGAG
66 CATGTCTGGGACATGGCATCGGCACAGAG
*
17200453 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAACGATGATAGCCAGTGTAAG
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACGATGATAGCCAGTGTAAG
* *
17200517 A-CGTGTCTGGGACAT-GCATCGGC-TA-AG
64 ACCATGTCTGGGACATGGCATCGGCACAGAG
* ** *
17200544 TTTTGTGCTAGTGTAAGACTTGTCTGGGACATGCAT
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCAT
17200580 TGGTACGTAT
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
91 34 0.31
92 1 0.01
93 8 0.07
94 49 0.44
95 19 0.17
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (94 bp):
ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACGATGATAGCCAGTGTAAGAC
CATGTCTGGGACATGGCATCGGCACAGAG
Found at i:17201548 original size:55 final size:55
Alignment explanation
Indices: 17201431--17201548 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 55
17201421 TTAAACTTTT
* * * * * *
17201431 AAATCAGGATTGCCCATGGTTAGGCCACACAGGCGTGTGCCATAGCCATGTCTTT
1 AAATCAGTATTGCCCACGGGTAGGCCACACAGGCGTGTGCCATAGCCATGCCCTA
* * * * * *
17201486 AAGTCAGTATTGTCCACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTGCCCTA
1 AAATCAGTATTGCCCACGGGTAGGCCACACAGGCGTGTGCCATAGCCATGCCCTA
17201541 AAATCAGT
1 AAATCAGT
17201549 GTCGCACACG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (55 bp):
AAATCAGTATTGCCCACGGGTAGGCCACACAGGCGTGTGCCATAGCCATGCCCTA
Found at i:17202459 original size:41 final size:41
Alignment explanation
Indices: 17202381--17202565 Score: 178
Period size: 41 Copynumber: 4.5 Consensus size: 41
17202371 ATCTCACATG
** * *
17202381 CTAAGTGCCAATGTATAGCTGAAGCTAT-TATAATCTCGCACA
1 CTAAGTGCC-ATACATAGCCGAAGCTATCT-TAGTCTCGCACA
* *
17202423 CTAAGTGCCTTACATAGCCGAAGCTATCTTGGTCTCGCACA
1 CTAAGTGCCATACATAGCCGAAGCTATCTTAGTCTCGCACA
* * *
17202464 CTAAGTGCCATATATAGCCGAAGCTAT-TATAATCTCACACA
1 CTAAGTGCCATACATAGCCGAAGCTATCT-TAGTCTCGCACA
* * * **
17202505 CTAAGTGCCATAAATAGTCGAAGCTATC-TCGAATCGCACA
1 CTAAGTGCCATACATAGCCGAAGCTATCTTAGTCTCGCACA
* *
17202545 CTAACTGCCAAACATAGCCGA
1 CTAAGTGCCATACATAGCCGA
17202566 TTTGTTGTTG
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 25 0.21
41 83 0.70
42 10 0.08
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (41 bp):
CTAAGTGCCATACATAGCCGAAGCTATCTTAGTCTCGCACA
Found at i:17202527 original size:82 final size:81
Alignment explanation
Indices: 17202381--17202565 Score: 244
Period size: 82 Copynumber: 2.3 Consensus size: 81
17202371 ATCTCACATG
* * * * *
17202381 CTAAGTGCCAATGTATAGCTGAAGCTATTATAATCTCGCACACTAAGTGCCTTACATAGCCGAAG
1 CTAAGTGCC-ATATATAGCCGAAGCTATTATAATCTCACACACTAAGTGCCATAAATAGCCGAAG
* **
17202446 CTATCTTGGTCTCGCACA
65 CTATC-TCGAATCGCACA
*
17202464 CTAAGTGCCATATATAGCCGAAGCTATTATAATCTCACACACTAAGTGCCATAAATAGTCGAAGC
1 CTAAGTGCCATATATAGCCGAAGCTATTATAATCTCACACACTAAGTGCCATAAATAGCCGAAGC
17202529 TATCTCGAATCGCACA
66 TATCTCGAATCGCACA
* * *
17202545 CTAACTGCCAAACATAGCCGA
1 CTAAGTGCCATATATAGCCGA
17202566 TTTGTTGTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
81 27 0.30
82 54 0.60
83 9 0.10
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (81 bp):
CTAAGTGCCATATATAGCCGAAGCTATTATAATCTCACACACTAAGTGCCATAAATAGCCGAAGC
TATCTCGAATCGCACA
Found at i:17203978 original size:37 final size:37
Alignment explanation
Indices: 17203928--17204009 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
17203918 GTAAACCCAT
17203928 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAGATCAA
1 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAGATCAA
17203965 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAGATCAA
1 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAGATCAA
17204002 TTAACTCC
1 TTAACTCC
17204010 CAGGTGTCGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (37 bp):
TTAACTCCAATTGGCTTTTTTCCTCTTGAAAGATCAA
Found at i:17206265 original size:29 final size:27
Alignment explanation
Indices: 17206231--17206333 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
17206221 TACTCAATCA
*
17206231 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
17206260 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
17206289 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
17206318 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
17206334 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:17211360 original size:46 final size:46
Alignment explanation
Indices: 17211310--17211485 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17211300 TGGTTGAGCA
17211310 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17211356 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17211401 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17211449 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17211486 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17211466 original size:93 final size:93
Alignment explanation
Indices: 17211307--17211478 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17211297 GGATGGTTGA
* *
17211307 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17211372 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
17211400 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17211465 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17211479 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17218941 original size:46 final size:46
Alignment explanation
Indices: 17218891--17219066 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17218881 TGGTTGAGCA
17218891 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17218937 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17218982 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17219030 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17219067 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17219047 original size:93 final size:93
Alignment explanation
Indices: 17218888--17219059 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17218878 GGATGGTTGA
* *
17218888 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17218953 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
17218981 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17219046 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17219060 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17226986 original size:40 final size:40
Alignment explanation
Indices: 17226889--17227067 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
17226879 CGAATGGTAT
* * *
17226889 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
17226930 CCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
17226970 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
17227010 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
17227050 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
17227068 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 91 0.77
41 25 0.21
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:17233485 original size:33 final size:33
Alignment explanation
Indices: 17233443--17233508 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
17233433 AAGCCATTGC
17233443 AGCCTCCGTTCCCTAAATGGTACGATGCTAATG
1 AGCCTCCGTTCCCTAAATGGTACGATGCTAATG
17233476 AGCCTCCGTTCCCTAAATGGTACGATGCTAATG
1 AGCCTCCGTTCCCTAAATGGTACGATGCTAATG
17233509 CTCAATGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (33 bp):
AGCCTCCGTTCCCTAAATGGTACGATGCTAATG
Found at i:17236199 original size:93 final size:93
Alignment explanation
Indices: 17236087--17236257 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
17236077 GCCCATAAGT
* *
17236087 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17236152 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17236180 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17236245 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17236258 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17236254 original size:46 final size:46
Alignment explanation
Indices: 17236079--17236254 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
17236069 TGTAACCCGC
* * *
17236079 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17236125 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
17236175 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
17236218 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17236255 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17240439 original size:79 final size:82
Alignment explanation
Indices: 17240299--17240483 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
17240289 TCGAATGATG
* * *
17240299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
17240363 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
17240379 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
17240441 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
17240459 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17240484 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:17240491 original size:40 final size:40
Alignment explanation
Indices: 17240300--17240491 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
17240290 CGAATGATGT
* * * * *
17240300 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
17240340 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
17240380 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
17240419 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
17240459 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
17240492 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:17240514 original size:79 final size:79
Alignment explanation
Indices: 17240299--17240516 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
17240289 TCGAATGATG
* * * * ** *
17240299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
17240362 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
17240379 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
17240444 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
17240459 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
17240517 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:17241189 original size:9 final size:9
Alignment explanation
Indices: 17241175--17241203 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
17241165 GGGCCAATTG
17241175 AATCATGGA
1 AATCATGGA
17241184 AATCATGGA
1 AATCATGGA
17241193 AATCAT-GA
1 AATCATGGA
17241201 AAT
1 AAT
17241204 AGGTAAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.24
Consensus pattern (9 bp):
AATCATGGA
Found at i:17247017 original size:176 final size:176
Alignment explanation
Indices: 17246547--17247622 Score: 1063
Period size: 176 Copynumber: 6.1 Consensus size: 176
17246537 TTGGTAAAGA
* * * * **
17246547 TTGAAGATCTTAACTCCCTAAGCA--GTAGCGGAGCAGATCGA-AAGAGGCAAATCTTATCTCCA
1 TTGAAGATCTTATCTCCCTGAG-ATTGCAGCGGAGCAGATCGAGAA-TGGTGAATCTTATCTCCA
* * * * *
17246609 TGTATTGGCAATGGAGCAGATTTTACCACCAACCTCATCTCTCTAAGGTAGTAAGAGAGCAGGTT
64 TGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
* * * * * *
17246674 GAAGAATGAGCCTTATCTTTCTGAGGTAGGAAGGAAGCTGACTGAGAA
129 AAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAGAT
*
17246722 TTAAAGATCTTATCTCCCTGATG-TTGCAGCGGAGCAGATCTTCGCAG-ATGGTGAATCTTATCT
1 TTGAAGATCTTATCTCCCTGA-GATTGCAGCGGAGCAGA---TCG-AGAATGGTGAATCTTATCT
* * * * *
17246785 CCATGTATCAGCAATGGAG-AAAATTTACCACCAAACCTTATCTCTCTAAGGTAGCAAGAGAGCA
61 CCATGTATCGGCAATGGAGCAGATTTTACCACC-AGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
* * * * *
17246849 GGTTTATGATTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAAATGAGAT
125 GGTTAAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAGAT
* * * *
17246901 TTGAAGATGTTATCTCCCTGAGATTGCAGTGGAGTAGATCGAGAATGGTGAATCTTATCTCTATG
1 TTGAAGATCTTATCTCCCTGAGATTGCAGCGGAGCAGATCGAGAATGGTGAATCTTATCTCCATG
* * * *
17246966 TATCGGTAATGGAGCAGATTTTACGACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTAA
66 TATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAA
* * * ** *
17247031 AGATGGAGTCTTATCTTTCTGAGGAAGCAAGAAAGTTGACTAAAGA-
131 AGATTGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACT-GAGAT
* * * * * *
17247077 TGGAAGATCTTATCTCCCTAAGCAAT--AGCGGAACAGATCGA-AAGAGGTAAATCTTATCTCCA
1 TTGAAGATCTTATCTCCCTGAG-ATTGCAGCGGAGCAGATCGAGAA-TGGTGAATCTTATCTCCA
* * * * * *
17247139 TGTATCAGAAATGGAGAAAATTTTACCACCAGCCTCATCTCTTTGAGGTAGCAAGAGAGCAGGTT
64 TGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
* * *
17247204 GAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGAT
129 AAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAGAT
* *
17247252 TTGAAGATTTTATCTCCCTGAGATTGCAGTGGAGCAGATCGAGAATGGTGAATCTTATCTCCATG
1 TTGAAGATCTTATCTCCCTGAGATTGCAGCGGAGCAGATCGAGAATGGTGAATCTTATCTCCATG
*
17247317 TATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAA
66 TATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAA
* * * * ** *
17247382 AGATGGAGTCTTATCTTTCTAAGGAAGCAAGAAAGTTGACTAAAGA-
131 AGATTGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACT-GAGAT
* * * * * * **
17247428 TTGAAGATCTTCTTTCCTTAAGCA--GTAGCGGAGTAGATCG-GAGAT-GACAAGTCTTATCTCC
1 TTGAAGATCTTATCTCCCTGAG-ATTGCAGCGGAGCAGATCGAGA-ATGGTGAA-TCTTATCTCC
* * * * *
17247489 ATGTATCGGCAATGGAGCAGATTTAAGTCACCAGCCTTATCTCTTTGAAGTTGCAATG-GAGCAG
63 ATGTATCGGCAATGGAGCAGATTTTA-CCACCAGCCTTATCTCTCTGAGGTAGCAA-GAGAGCAG
* * * * * * *
17247553 GCTCATATATAG-GTCTTATCTTCCTGAGGTAGCAAAGAAGTAGACTGAAGA-
126 G-TTAAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTG-AGAT
*
17247604 TTAAAGATCTTATCTCCCT
1 TTGAAGATCTTATCTCCCT
17247623 AAATAGTAAT
Statistics
Matches: 742, Mismatches: 132, Indels: 53
0.80 0.14 0.06
Matches are distributed among these distances:
174 12 0.02
175 207 0.28
176 347 0.47
177 27 0.04
178 12 0.02
179 135 0.18
180 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (176 bp):
TTGAAGATCTTATCTCCCTGAGATTGCAGCGGAGCAGATCGAGAATGGTGAATCTTATCTCCATG
TATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAA
AGATTGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAGAT
Found at i:17247237 original size:351 final size:350
Alignment explanation
Indices: 17246596--17247592 Score: 1297
Period size: 351 Copynumber: 2.8 Consensus size: 350
17246586 GAAAGAGGCA
* * * * * *
17246596 AATCTTATCTCCATGTATTGGCAATGGAGCAGATTTTACCACCAACCTCATCTCTCTAAGGTAGT
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGC
* * * * * * *
17246661 AAGAGAGCAGGTTGAAGAAT-GAGCCTTATCTTTCTGAGGTAGGAAGGAAGCTGACT-GAGAATT
66 AAGAGAGCAGGTTAAAG-ATGGAGTCTTATCTTTCTGAGGAAGCAAGAAAGTTGACTAAAG-ATT
* * ** * * *
17246724 AAAGATCTTATCTCCCTGATGTTGCAGCGGAGCAGATCTTCGCAGATGGTGAATCTTATCTCCAT
129 GAAGATCTTATCTCCCT-AAGCAGTAGCGGAGCAGA---TCGAAGA-GGTAAATCTTATCTCCAT
* * *
17246789 GTATCAGCAATGGAGAAAA-TTTACCACCAAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTT
189 GTATCAGCAATGGAGAAAATTTTACCACC-AGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTT
* * *
17246853 TATGATTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAAATGAGATTTGAAGATGTTATCTCC
253 CAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAAATGAGATTTGAAGATGTTATCTCC
*
17246918 CTGAGATTGCAGTGGAGTAGATCGAGAATGGTG
318 CTGAGATTGCAGTGGAGCAGATCGAGAATGGTG
* * *
17246951 AATCTTATCTCTATGTATCGGTAATGGAGCAGATTTTACGACTAGCCTTATCTCTCTGAGGTAGC
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGC
* *
17247016 AAGAGAGCAAGTTAAAGATGGAGTCTTATCTTTCTGAGGAAGCAAGAAAGTTGACTAAAGATGGA
66 AAGAGAGCAGGTTAAAGATGGAGTCTTATCTTTCTGAGGAAGCAAGAAAGTTGACTAAAGATTGA
* *
17247081 AGATCTTATCTCCCTAAGCAATAGCGGAACAGATCGAAAGAGGTAAATCTTATCTCCATGTATCA
131 AGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCG-AAGAGGTAAATCTTATCTCCATGTATCA
* * *
17247146 GAAATGGAGAAAATTTTACCACCAGCCTCATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAAT
195 GCAATGGAGAAAATTTTACCACCAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTCAAGAAT
* * *
17247211 GAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGATTTGAAGATTTTATCTCCCTGAGAT
260 GAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAAATGAGATTTGAAGATGTTATCTCCCTGAGAT
17247276 TGCAGTGGAGCAGATCGAGAATGGTG
325 TGCAGTGGAGCAGATCGAGAATGGTG
17247302 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGC
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGC
*
17247367 AAGAGAGCAGGTTAAAGATGGAGTCTTATCTTTCTAAGGAAGCAAGAAAGTTGACTAAAGATTGA
66 AAGAGAGCAGGTTAAAGATGGAGTCTTATCTTTCTGAGGAAGCAAGAAAGTTGACTAAAGATTGA
* * * * * *
17247432 AGATCTTCTTTCCTTAAGCAGTAGCGGAGTAGATCGGAGATG-ACAAGTCTTATCTCCATGTATC
131 AGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGAGGTA-AA-TCTTATCTCCATGTATC
* * * * * * * *
17247496 GGCAATGGAGCAGATTTAAGTCACCAGCCTTATCTCTTTGAAGTTGCAATG-GAGCAGGCTCATA
194 AGCAATGGAGAAAATTTTA-CCACCAGCCTTATCTCTTTGAGGTAGCAA-GAGAGCAGGTTCA-A
* *
17247560 -TAT-AGGTCTTATCTTCCTGAGGTAGCAAAGAAG
256 GAATGA-GTCTTATCTTCCTGAGGTAGCAAGGAAG
17247593 TAGACTGAAG
Statistics
Matches: 566, Mismatches: 66, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
349 1 0.00
350 6 0.01
351 346 0.61
352 75 0.13
353 2 0.00
354 14 0.02
355 120 0.21
356 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (350 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTAAAGATGGAGTCTTATCTTTCTGAGGAAGCAAGAAAGTTGACTAAAGATTGA
AGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGAGGTAAATCTTATCTCCATGTATCAG
CAATGGAGAAAATTTTACCACCAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTCAAGAATG
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAAATGAGATTTGAAGATGTTATCTCCCTGAGATT
GCAGTGGAGCAGATCGAGAATGGTG
Found at i:17250167 original size:12 final size:12
Alignment explanation
Indices: 17250150--17250178 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
17250140 GTATATAATA
17250150 TTTTAGCATGTG
1 TTTTAGCATGTG
17250162 TTTTAGCATGTG
1 TTTTAGCATGTG
17250174 TTTTA
1 TTTTA
17250179 TTATTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.21, T:0.55
Consensus pattern (12 bp):
TTTTAGCATGTG
Found at i:17253756 original size:13 final size:13
Alignment explanation
Indices: 17253738--17253764 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17253728 ACATCAACAA
17253738 AAATAGAACCATC
1 AAATAGAACCATC
17253751 AAATAGAACCATC
1 AAATAGAACCATC
17253764 A
1 A
17253765 TATAAAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (13 bp):
AAATAGAACCATC
Found at i:17259844 original size:26 final size:26
Alignment explanation
Indices: 17259776--17259846 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
17259766 TCTCATACCT
*
17259776 ATTTT-CCACCTAACAAAATTTTGACG
1 ATTTTACC-CCTAATAAAATTTTGACG
** *
17259802 ATTTTACCCCTGGTAAAATTTTGATG
1 ATTTTACCCCTAATAAAATTTTGACG
* *
17259828 ATTTTGCCCTTAATAAAAT
1 ATTTTACCCCTAATAAAAT
17259847 GCCGAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
26 34 0.94
27 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACG
Found at i:17260861 original size:67 final size:67
Alignment explanation
Indices: 17260747--17260882 Score: 238
Period size: 67 Copynumber: 2.0 Consensus size: 67
17260737 ACTCGTATCC
* *
17260747 ATTGTGACAGCCTTAAAATGACCCTAGTCGGAATGTGGTTTTGGGACCACCAAACCGAGGCATAA
1 ATTGTGACAGCCTTAAAACGACCCTAGTCGGAATGTGGTTTTGGGACCACAAAACCGAGGCATAA
17260812 AA
66 AA
17260814 ATTGTGACAGCCTTAAAACGACCCTAGTCGGAATGTGGTTTCT-GGACCACAAAACCGAGGCATA
1 ATTGTGACAGCCTTAAAACGACCCTAGTCGGAATGTGGTTT-TGGGACCACAAAACCGAGGCATA
17260878 AAA
65 AAA
17260881 AT
1 AT
17260883 AATTTAATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 65 0.98
68 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (67 bp):
ATTGTGACAGCCTTAAAACGACCCTAGTCGGAATGTGGTTTTGGGACCACAAAACCGAGGCATAA
AA
Found at i:17262614 original size:40 final size:40
Alignment explanation
Indices: 17262514--17262706 Score: 136
Period size: 40 Copynumber: 4.8 Consensus size: 40
17262504 CGAATGGTAT
* * * * * * *
17262514 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACCAAAA
* *
17262555 CCGGGTCAATTCCCGAAGGCATTCGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACCAAAA
* * **
17262595 CCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAATT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACCAAAA
* * * * * * *
17262635 CCGAGCTAATTCCCGAAGGCAATT-GTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACCAAAA
* * * * *
17262675 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
17262707 CGCTATATAT
Statistics
Matches: 119, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
39 2 0.02
40 91 0.76
41 26 0.22
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACCAAAA
Found at i:17264888 original size:2 final size:2
Alignment explanation
Indices: 17264881--17264908 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17264871 AGTCATTGAC
17264881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17264909 GTTGCCGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17265764 original size:40 final size:40
Alignment explanation
Indices: 17265694--17265914 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
17265684 CATTTGAATG
*
17265694 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
17265734 ATATTCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
17265774 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
17265814 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
17265854 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
17265894 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
17265915 AAACTTGGGT
Statistics
Matches: 163, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 150 0.92
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:17283782 original size:26 final size:26
Alignment explanation
Indices: 17283735--17283803 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 26
17283725 CCTGCACATA
* *
17283735 TATGCTCACATGAGCTGTGAAATGAG
1 TATGCTCACACGAGCTGAGAAATGAG
* * *
17283761 TATGCTTACACGAGTTGAGAAATGGG
1 TATGCTCACACGAGCTGAGAAATGAG
* * *
17283787 TCTTCTCACATGAGCTG
1 TATGCTCACACGAGCTG
17283804 TGGGGTGGAA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (26 bp):
TATGCTCACACGAGCTGAGAAATGAG
Found at i:17287920 original size:14 final size:15
Alignment explanation
Indices: 17287896--17287924 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17287886 TGTGATTATT
17287896 ATGATGATTGATATG
1 ATGATGATTGATATG
17287911 ATGA-GATTGATATG
1 ATGATGATTGATATG
17287925 TTAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (15 bp):
ATGATGATTGATATG
Found at i:17288162 original size:16 final size:16
Alignment explanation
Indices: 17288136--17288173 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
17288126 TGGGATTTTC
17288136 TTTTGGATTTTGGATTA
1 TTTT-GATTTTGGATTA
*
17288153 TTTTGATTTTGGATTT
1 TTTTGATTTTGGATTA
17288169 TTTTG
1 TTTTG
17288174 GATGATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.13, C:0.00, G:0.21, T:0.66
Consensus pattern (16 bp):
TTTTGATTTTGGATTA
Found at i:17292788 original size:26 final size:26
Alignment explanation
Indices: 17292758--17292815 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
17292748 CATTATGTTA
* *
17292758 GAAAGTCTCGAAATCTTTATTTAATT
1 GAAAGACTCGAAATCTCTATTTAATT
17292784 GAAAGACTCGAAATCTCTATTTAATT
1 GAAAGACTCGAAATCTCTATTTAATT
*
17292810 AAAAGA
1 GAAAGA
17292816 ATTGTATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (26 bp):
GAAAGACTCGAAATCTCTATTTAATT
Found at i:17306526 original size:22 final size:20
Alignment explanation
Indices: 17306469--17306528 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
17306459 GTAACAAAAG
17306469 AATAAAAATGACTAAACTAAA
1 AATAAAAAT-ACTAAACTAAA
* *
17306490 AAGAAAGTAAAACTAAACTAAA
1 AATAAA--AATACTAAACTAAA
17306512 AACCTAAAAATACTAAA
1 AA--TAAAAATACTAAA
17306529 ACGGCTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 5 0.16
22 21 0.68
23 2 0.06
24 3 0.10
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.17
Consensus pattern (20 bp):
AATAAAAATACTAAACTAAA
Found at i:17311497 original size:40 final size:40
Alignment explanation
Indices: 17311442--17311609 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
17311432 TGAATGATAC
* *
17311442 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
*
17311482 CCGGGCTAAGACCCGAAGGCATTCGTG-TGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGATTATAT
* * * *
17311522 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* ** * *
17311562 CCGGGTTAAGACCCGAAGGCAAATGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
17311602 CC-GGCTAA
1 CCGGGCTAA
17311610 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 7 0.07
40 97 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:17321978 original size:51 final size:48
Alignment explanation
Indices: 17321900--17322074 Score: 190
Period size: 51 Copynumber: 3.5 Consensus size: 48
17321890 ACGGATACCC
* * * *
17321900 AGTGGCCTGCACATAGTACCACTCTTGTAGTCTAAGCTACCTTATACACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GACAAAGCTACCTT-T-CACAA
* *
17321951 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCCATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CAAAGCTA-C-CT-TTCACAA
* * *
17322003 AGTGG-CTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACAAAGCTACCT-TTCACAA
17322051 AGTGGCCTTCACATAGTACCACAC
1 AGTGGCCTTCACATAGTACCACAC
17322075 CTGAGTCACT
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
48 13 0.12
49 18 0.17
50 7 0.06
51 56 0.52
52 11 0.10
53 2 0.02
54 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (48 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACAAAGCTACCTTTCACAA
Found at i:17327309 original size:28 final size:27
Alignment explanation
Indices: 17327246--17327315 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
17327236 ATAGTGAGTC
17327246 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
17327273 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
17327301 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17327316 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:17331514 original size:51 final size:50
Alignment explanation
Indices: 17331436--17331607 Score: 204
Period size: 51 Copynumber: 3.4 Consensus size: 50
17331426 ACGGATACCC
* * * *
17331436 AGTGGCCTGCACATAGTACCACTCTTGTAGTCAAAGCTACCTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GACAAAGCTACCTTCTTCACAA
* * * *
17331487 AGTGGCCTTCACATGGTACCACGCTTGTGACCAAAGCCATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CAAAGCTA-CCTTCTTCACAA
* * *
17331539 AGTGG-CTTCACATAGTACCACACTTGTGACCAAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACAAAGCTACCTTCTTCACAA
17331587 AGTGGCCTTCACATAGTACCA
1 AGTGGCCTTCACATAGTACCA
17331608 TACCTGAGTC
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
48 13 0.12
49 15 0.14
50 7 0.07
51 54 0.52
52 15 0.14
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACAAAGCTACCTTCTTCACAA
Found at i:17337369 original size:154 final size:155
Alignment explanation
Indices: 17337068--17337378 Score: 570
Period size: 154 Copynumber: 2.0 Consensus size: 155
17337058 GCCATGGAAT
*
17337068 TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATGGACATG
1 TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATAGACATG
* *
17337133 AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAGTAAA
66 AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGGCATTTAGTAATTAAAAGAATAAA
17337198 AAGGGAAAAATGGAGCAAAATTTGC
131 AAGGGAAAAATGGAGCAAAATTTGC
*
17337223 TTTAATTAGAGGGTCTTAAATAGTAGTTTGACCAAATTCTACAATTTTGGATAAAAATAGACATG
1 TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATAGACATG
*
17337288 AATAGT-AAAATTTGAAAGAAAAGCCTTAAGGGCATTTTAGGCATTTAGTAATTAAAAGAATAAA
66 AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGGCATTTAGTAATTAAAAGAATAAA
17337352 AAGGGAAAAATGGAGCAAAATTTGC
131 AAGGGAAAAATGGAGCAAAATTTGC
17337377 TT
1 TT
17337379 ATCTTCTCCA
Statistics
Matches: 151, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
154 82 0.54
155 69 0.46
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.30
Consensus pattern (155 bp):
TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATAGACATG
AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGGCATTTAGTAATTAAAAGAATAAA
AAGGGAAAAATGGAGCAAAATTTGC
Found at i:17339453 original size:46 final size:46
Alignment explanation
Indices: 17339403--17339578 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17339393 TGGTTGAGCA
17339403 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17339449 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17339494 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17339542 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17339579 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17339559 original size:93 final size:93
Alignment explanation
Indices: 17339400--17339571 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17339390 GGATGGTTGA
* *
17339400 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17339465 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
17339493 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17339558 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17339572 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17347034 original size:46 final size:46
Alignment explanation
Indices: 17346984--17347159 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17346974 TGGTTGAGCA
17346984 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17347030 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17347075 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17347123 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17347160 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17347140 original size:93 final size:93
Alignment explanation
Indices: 17346981--17347152 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17346971 GGATGGTTGA
* *
17346981 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17347046 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
17347074 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17347139 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17347153 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17349302 original size:29 final size:30
Alignment explanation
Indices: 17349268--17349331 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
17349258 CAAGTAGTTG
17349268 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
* *
17349297 AAGCTAGTTTAAGTTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
17349327 AAGCT
1 AAGCT
17349332 TTCGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:17355142 original size:25 final size:25
Alignment explanation
Indices: 17355108--17355155 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
17355098 CAACATCGTC
17355108 AGCTACAGGTCTATCGGGATCCATT
1 AGCTACAGGTCTATCGGGATCCATT
17355133 AGCTACAGGTCTATCGGGATCCA
1 AGCTACAGGTCTATCGGGATCCA
17355156 AGAACTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
AGCTACAGGTCTATCGGGATCCATT
Found at i:17361015 original size:28 final size:28
Alignment explanation
Indices: 17360946--17361046 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
17360936 GACAAGATTG
* * * *
17360946 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
17360976 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
17361004 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
17361033 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
17361047 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:17368967 original size:28 final size:28
Alignment explanation
Indices: 17368898--17368998 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
17368888 GACAAGATTG
* * * *
17368898 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
17368928 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
17368956 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
17368985 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
17368999 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:17370510 original size:25 final size:25
Alignment explanation
Indices: 17370481--17370528 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17370471 TTATAATATG
* * *
17370481 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17370506 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17370529 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17370597 original size:20 final size:20
Alignment explanation
Indices: 17370572--17370630 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
17370562 TAAATATGGT
17370572 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
17370592 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
17370612 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
17370631 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:17370612 original size:11 final size:11
Alignment explanation
Indices: 17370576--17370630 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17370566 TATGGTATGT
17370576 ATGATATGCAC
1 ATGATATGCAC
* *
17370587 ATGAAATG--T
1 ATGATATGCAC
17370596 ATGATATGCAC
1 ATGATATGCAC
*
17370607 ATGATATG--T
1 ATGATATGCAC
17370616 ATGATATGCAC
1 ATGATATGCAC
17370627 ATGA
1 ATGA
17370631 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17370707 original size:24 final size:24
Alignment explanation
Indices: 17370680--17370798 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
17370670 GAGGAAGTGA
*
17370680 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
17370704 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
17370727 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
17370751 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
17370775 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17370799 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:17370749 original size:47 final size:48
Alignment explanation
Indices: 17370680--17370798 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
17370670 GAGGAAGTGA
17370680 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
17370727 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
17370775 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17370799 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:17371039 original size:31 final size:31
Alignment explanation
Indices: 17370990--17371083 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
17370980 CGTTTACAGT
17370990 AAAGGCTTCGG-CCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17371020 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
17371051 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17371082 AA
1 AA
17371084 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 11 0.18
31 51 0.82
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17378620 original size:25 final size:25
Alignment explanation
Indices: 17378591--17378638 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17378581 TTATAATATG
* * *
17378591 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17378616 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17378639 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17378707 original size:20 final size:20
Alignment explanation
Indices: 17378682--17378740 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
17378672 TAAATATGGT
17378682 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
17378702 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
17378722 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
17378741 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:17378722 original size:11 final size:11
Alignment explanation
Indices: 17378686--17378740 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17378676 TATGGTATGT
17378686 ATGATATGCAC
1 ATGATATGCAC
* *
17378697 ATGAAATG--T
1 ATGATATGCAC
17378706 ATGATATGCAC
1 ATGATATGCAC
*
17378717 ATGATATG--T
1 ATGATATGCAC
17378726 ATGATATGCAC
1 ATGATATGCAC
17378737 ATGA
1 ATGA
17378741 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17378817 original size:24 final size:24
Alignment explanation
Indices: 17378790--17378908 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
17378780 GAGGAAGTGA
*
17378790 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
17378814 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
17378837 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
17378861 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
17378885 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17378909 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:17378859 original size:47 final size:48
Alignment explanation
Indices: 17378790--17378908 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
17378780 GAGGAAGTGA
17378790 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
17378837 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
17378885 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17378909 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:17379146 original size:31 final size:31
Alignment explanation
Indices: 17379100--17379193 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
17379090 CGTTTACAGT
17379100 AAAGGCTT-GGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17379130 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
17379161 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17379192 AA
1 AA
17379194 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 8 0.13
31 54 0.87
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17384635 original size:14 final size:14
Alignment explanation
Indices: 17384616--17384650 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
17384606 CCTACTCTAA
17384616 CTGGCCCATTATCT
1 CTGGCCCATTATCT
17384630 CTGGCCCATTATCT
1 CTGGCCCATTATCT
17384644 CTGGCCC
1 CTGGCCC
17384651 TAACCCTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.40, G:0.17, T:0.31
Consensus pattern (14 bp):
CTGGCCCATTATCT
Found at i:17387137 original size:29 final size:28
Alignment explanation
Indices: 17387031--17387145 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 28
17387021 ACATACATGC
*
17387031 ATATGGCCCACTT-GGCCCAATTTCA-TTT
1 ATATGGCCCA-TTAGGCCCAA-ATCACTTT
* *
17387059 ATTTGGCCCATTAGGCCCAATTCA-TATT
1 ATATGGCCCATTAGGCCCAAATCACT-TT
17387087 CATATGGCCCATTAGGCCCAAATCACCTTT
1 -ATATGGCCCATTAGGCCCAAATCA-CTTT
17387117 ATATGGCCCATTAGGCCCAAATCACTTT
1 ATATGGCCCATTAGGCCCAAATCACTTT
17387145 A
1 A
17387146 CATTTATAAC
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
27 7 0.09
28 23 0.29
29 46 0.58
30 2 0.03
31 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACTTT
Found at i:17394685 original size:68 final size:67
Alignment explanation
Indices: 17394613--17394762 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
17394603 CATCATGTGT
* * * *
17394613 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
17394675 ATGTAG
62 ATGTAG
** * *
17394681 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
17394746 AG
66 AG
17394748 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
17394763 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:17394718 original size:64 final size:64
Alignment explanation
Indices: 17394637--17394820 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
17394627 AGACATTATG
* *
17394637 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
17394701 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
17394766 AA
63 AA
* * * *
17394768 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
17394821 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:17395904 original size:2 final size:2
Alignment explanation
Indices: 17395897--17395930 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17395887 GTATCATGAC
17395897 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17395931 GACTAGTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17399134 original size:68 final size:67
Alignment explanation
Indices: 17399062--17399211 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
17399052 CATCATGTGT
* * * *
17399062 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
17399124 ATGTAG
62 ATGTAG
** * *
17399130 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
17399195 AG
66 AG
17399197 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
17399212 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:17399167 original size:64 final size:64
Alignment explanation
Indices: 17399086--17399269 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
17399076 AGACATTATG
* *
17399086 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
17399150 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
17399215 AA
63 AA
* * * *
17399217 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
17399270 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:17418349 original size:25 final size:24
Alignment explanation
Indices: 17418321--17418367 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
17418311 TTATACCATG
* *
17418321 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACC-TTATACCCCTAGGTA
17418346 AAAATGACCTTATACCCCTAGG
1 AAAATGACCTTATACCCCTAGG
17418368 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCTTATACCCCTAGGTA
Found at i:17418436 original size:20 final size:20
Alignment explanation
Indices: 17418411--17418469 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
17418401 TAAATATGGT
*
17418411 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
17418431 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
17418451 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
17418470 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:17418551 original size:23 final size:23
Alignment explanation
Indices: 17418521--17418664 Score: 234
Period size: 24 Copynumber: 6.1 Consensus size: 23
17418511 AGGAAGTGCA
17418521 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17418544 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17418567 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
17418591 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
17418615 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17418638 GAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
17418662 AAA
1 AAA
17418665 AGAGGCTAGG
Statistics
Matches: 116, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
23 48 0.41
24 68 0.59
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:17418599 original size:24 final size:24
Alignment explanation
Indices: 17418519--17418685 Score: 232
Period size: 24 Copynumber: 7.0 Consensus size: 24
17418509 GGAGGAAGTG
17418519 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
17418543 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
17418566 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
17418589 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
17418613 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
** *
17418637 TGAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
17418661 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
17418686 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
23 45 0.34
24 76 0.58
25 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:17418914 original size:31 final size:31
Alignment explanation
Indices: 17418876--17418939 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17418866 CCGTTACAGT
17418876 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
17418907 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17418938 AA
1 AA
17418940 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17422207 original size:40 final size:39
Alignment explanation
Indices: 17422148--17422297 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 39
17422138 TAGCGGTGAT
*
17422148 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
17422187 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
17422227 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCA-CAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
17422267 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
17422298 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
39 9 0.10
40 81 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:17430279 original size:80 final size:78
Alignment explanation
Indices: 17430195--17430426 Score: 221
Period size: 80 Copynumber: 2.9 Consensus size: 78
17430185 TATGGTAACC
* * * * *
17430195 CGCACCAAGGCCTACGGGACTTAACTCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGC
1 CGCACAAAGGCCT-CGGGACTTAGCCCGGATAT-ACGACTAGCACAAATGCCTTCGGGTCTTAGC
17430260 CCGGATAGAATGACT
64 CCGGATAGAATGACT
* * * * * * *
17430275 CGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CGCACAAAGGCC-TCGGGACTTAGCCCGGATA-TACGACTAGCACAAATGCCTTCGGGTCTTAGC
* *
17430340 CCGGATATAATTACT
64 CCGGATAGAATGACT
* * * * * * *
17430355 AGCATAAATGTCCTCGGGACTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACAAA-GGCCTCGGGACTTAGCCCGGATATA-CGACTAGCACAAATGCCTTCGGGTCTTAGC
17430420 CCGGATA
64 CCGGATA
17430427 TAATTTCCAG
Statistics
Matches: 122, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
79 1 0.01
80 118 0.97
81 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (78 bp):
CGCACAAAGGCCTCGGGACTTAGCCCGGATATACGACTAGCACAAATGCCTTCGGGTCTTAGCCC
GGATAGAATGACT
Found at i:17430285 original size:40 final size:40
Alignment explanation
Indices: 17430236--17430426 Score: 235
Period size: 40 Copynumber: 4.8 Consensus size: 40
17430226 ATCACGATTT
*
17430236 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
17430276 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
17430316 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
17430356 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
17430396 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
17430427 TAATTTCCAG
Statistics
Matches: 132, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.02
40 127 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:17430427 original size:80 final size:79
Alignment explanation
Indices: 17430236--17430466 Score: 252
Period size: 80 Copynumber: 2.9 Consensus size: 79
17430226 ATCACGATTT
* * * ** *
17430236 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG-CCTTCGGGTCTTAGC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAATGTCC-TCGGGACTTAGC
*
17430300 CCGGATAGAATGACTC
64 CCGGATAGAATGACTA
17430316 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAATGTCCTCGGGACTTAGCC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAATGTCCTCGGGACTTAGCC
*
17430381 CGGAT-GTA-GCCACTA
65 CGGATAGAATG--ACTA
* * * * ** *
17430396 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATTAACATCTTCGGGACTTAGCC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAATGTCCTCGGGACTTAGCC
17430461 CGGATA
65 CGGATA
17430467 TCATTCAATT
Statistics
Matches: 130, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 4 0.03
80 123 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAATGTCCTCGGGACTTAGCCC
GGATAGAATGACTA
Found at i:17434978 original size:25 final size:25
Alignment explanation
Indices: 17434949--17434996 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17434939 TTATACCATG
* * *
17434949 AAAATAACCGTTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
*
17434974 AAAATGACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
17434997 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:17435072 original size:20 final size:20
Alignment explanation
Indices: 17435044--17435098 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
17435034 TATGGTATGC
*
17435044 ATGAGATGCACATGACATGT
1 ATGATATGCACATGACATGT
*
17435064 ATGATATGCACATGATATGT
1 ATGATATGCACATGACATGT
17435084 ATGATATGCACATGA
1 ATGATATGCACATGA
17435099 GGTAATCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (20 bp):
ATGATATGCACATGACATGT
Found at i:17435180 original size:23 final size:23
Alignment explanation
Indices: 17435150--17435340 Score: 292
Period size: 24 Copynumber: 8.1 Consensus size: 23
17435140 AGGAAGTGCA
*
17435150 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17435173 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17435196 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
17435220 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
17435244 AAAGGGTTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
17435268 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17435291 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17435314 GAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
17435338 AAA
1 AAA
17435341 AGAGGCTAGG
Statistics
Matches: 160, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
23 70 0.44
24 90 0.56
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:17435240 original size:47 final size:47
Alignment explanation
Indices: 17435150--17435340 Score: 303
Period size: 47 Copynumber: 4.1 Consensus size: 47
17435140 AGGAAGTGCA
* *
17435150 AAAGGGCTTATGCCCTAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
17435196 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-T
*
17435244 AAAGGGTTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
17435291 AAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
17435338 AAA
1 AAA
17435341 AGAGGCTAGG
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 21 0.16
47 68 0.51
48 45 0.34
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:17435588 original size:31 final size:31
Alignment explanation
Indices: 17435553--17435616 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17435543 CGGTTACAGT
17435553 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
17435584 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17435615 AA
1 AA
17435617 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17443873 original size:31 final size:31
Alignment explanation
Indices: 17443830--17443909 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
17443820 CTCAGCATAT
17443830 ACTGGGCCGAAGCCTTTACATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
* * *
17443861 ACTGGGCTGAAGCCTTTTCATTATTCATATC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
*
17443892 ACTGTGCCGAAGCCTTTA
1 ACTGGGCCGAAGCCTTTA
17443910 TTGTAAACGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTACATTATTCATACC
Found at i:17444157 original size:25 final size:25
Alignment explanation
Indices: 17444129--17444223 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
17444119 CTCTTTTAAT
* *
17444129 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
17444154 AACTGGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
17444179 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
17444204 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17444224 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:17444159 original size:50 final size:50
Alignment explanation
Indices: 17444104--17444223 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
17444094 TTTATCATAT
* *
17444104 AACTGGAGGCCTAGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGG-GGCATAGCC-CTTTTCAATAAACTGGGGCAAAGCCCTTTTCGATA
* * ** *
17444154 AACTGGGGTAAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCATAGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCGATA
17444204 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCATAGCCCTTTT
17444224 GCACTTCCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
48 5 0.08
49 7 0.12
50 47 0.80
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (50 bp):
AACTGGGGCATAGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCGATA
Found at i:17444282 original size:10 final size:10
Alignment explanation
Indices: 17444269--17444303 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
17444259 ATATATGTAT
*
17444269 ATATCACGGC
1 ATATCATGGC
17444279 ATATCATGTGC
1 ATATCATG-GC
17444290 ATATCATGGC
1 ATATCATGGC
17444300 ATAT
1 ATAT
17444304 TATGCACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATCATGGC
Found at i:17450396 original size:31 final size:31
Alignment explanation
Indices: 17450358--17450438 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
17450348 CTCAGCATAT
17450358 ACTGGGCCGAAGCCTTTACATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
* * *
17450389 ACTGGGCCGAAGCCTTTTCATTATTCGTATC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
17450420 ACTGGGCCGAAGCCTTTAC
1 ACTGGGCCGAAGCCTTTAC
17450439 TATAAACAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTACATTATTCATACC
Found at i:17450685 original size:25 final size:25
Alignment explanation
Indices: 17450657--17450726 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
17450647 CTCTTTTAAT
*
17450657 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
17450682 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
17450707 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17450727 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:17458165 original size:93 final size:93
Alignment explanation
Indices: 17458053--17458224 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17458043 CGCCCATAAG
* *
17458053 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17458118 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
17458146 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17458211 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17458225 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17458221 original size:46 final size:46
Alignment explanation
Indices: 17458046--17458221 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17458036 TGTAACCCGC
* * *
17458046 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17458092 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17458142 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17458185 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17458222 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17465743 original size:93 final size:93
Alignment explanation
Indices: 17465631--17465802 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17465621 CGCCCATAAG
* *
17465631 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17465696 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
17465724 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17465789 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17465803 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17465799 original size:46 final size:46
Alignment explanation
Indices: 17465624--17465799 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17465614 TGTAACCCGC
* * *
17465624 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17465670 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17465720 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17465763 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17465800 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17468004 original size:2 final size:2
Alignment explanation
Indices: 17467997--17468026 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17467987 ACCAGAACAG
17467997 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17468027 GTGGCGAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17468107 original size:27 final size:26
Alignment explanation
Indices: 17468059--17468110 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
17468049 GCGAGGCTGC
*
17468059 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
17468085 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
17468111 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:17468790 original size:27 final size:27
Alignment explanation
Indices: 17468760--17468905 Score: 195
Period size: 27 Copynumber: 5.4 Consensus size: 27
17468750 TAGGGCAAAA
* * * *
17468760 TGGTAATTTTACCCCACAAAGGTATCT
1 TGGTAATTCTACCCTACAAGGGTATTT
*
17468787 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* *
17468814 CGGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
*
17468841 TGGTAA-TCTATCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
*
17468867 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
*
17468894 TAGTAATTCTAC
1 TGGTAATTCTAC
17468906 AACTTATCCA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
26 25 0.24
27 79 0.76
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAAGGGTATTT
Done.