Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 51 of 167
Found at i:15675346 original size:40 final size:40
Alignment explanation
Indices: 15675276--15675453 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
15675266 AAACCAAGTA
* * *
15675276 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
15675315 CCTTCGGGACTTGGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
15675355 CCTTCGGGACTTAGCGCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
15675395 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
15675435 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15675454 TTACGATCCG
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 12 0.10
40 113 0.90
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15677527 original size:88 final size:88
Alignment explanation
Indices: 15677421--15677590 Score: 286
Period size: 88 Copynumber: 1.9 Consensus size: 88
15677411 GACGGGTACT
* * *
15677421 TCCTTCGAACATACCAAGTTCACATCCTTATTTAGCATGCATTTTCAATATTAACCCATTAATTC
1 TCCTTCAAACATACCAAGTTCACATCCTTATTCAGCATACATTTTCAATATTAACCCATTAATTC
15677486 TCTATATCCCTTCAAAGCTCACA
66 TCTATATCCCTTCAAAGCTCACA
* * *
15677509 TCCTTCAAACATACCAAGTTCACATCTTTATTCAGCATATATTTTCAATATTAACCCATTACTTC
1 TCCTTCAAACATACCAAGTTCACATCCTTATTCAGCATACATTTTCAATATTAACCCATTAATTC
15677574 TCTATATCCCTTCAAAG
66 TCTATATCCCTTCAAAG
15677591 TTCTTCATTG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (88 bp):
TCCTTCAAACATACCAAGTTCACATCCTTATTCAGCATACATTTTCAATATTAACCCATTAATTC
TCTATATCCCTTCAAAGCTCACA
Found at i:15677709 original size:27 final size:27
Alignment explanation
Indices: 15677679--15677741 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
15677669 TTTGCAATAG
*
15677679 AGGCTATTCTTTCAGAATTCGTCACAA
1 AGGCTATTCTTTCAGAATTCGACACAA
* * *
15677706 AGGCTACTCTTTCAGATTTTGACACAA
1 AGGCTATTCTTTCAGAATTCGACACAA
15677733 AGGCTATTC
1 AGGCTATTC
15677742 CTCCTTAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (27 bp):
AGGCTATTCTTTCAGAATTCGACACAA
Found at i:15681394 original size:14 final size:14
Alignment explanation
Indices: 15681375--15681412 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
15681365 GTTTGCTAGT
*
15681375 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
15681389 AAAATGATTTCTGG
1 AAAATGATTTCCGG
15681403 AAAATGATTT
1 AAAATGATTT
15681413 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:15681428 original size:19 final size:20
Alignment explanation
Indices: 15681396--15681441 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
15681386 CGGAAAATGA
15681396 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
15681416 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
15681435 TTTCTGG
1 TTTCTGG
15681442 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:15685953 original size:18 final size:18
Alignment explanation
Indices: 15685916--15685955 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15685906 TGAATGCATT
* *
15685916 GGAAGAAGAAGAAACGAA
1 GGAAAAAGAAGAAACAAA
*
15685934 GGAAAAAGAAGAAGCAAA
1 GGAAAAAGAAGAAACAAA
15685952 GGAA
1 GGAA
15685956 TTAGCCGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.33, T:0.00
Consensus pattern (18 bp):
GGAAAAAGAAGAAACAAA
Found at i:15687749 original size:89 final size:89
Alignment explanation
Indices: 15687598--15687955 Score: 680
Period size: 89 Copynumber: 4.0 Consensus size: 89
15687588 TTGGTGAAGA
15687598 TACCTTAGCCAAATTATGCTAGAAATATCTAGTGTAACACCCTTTACTCGTATTCAATGTCTAAA
1 TACCTTAGCCAAATTATGCTAGAAATATCTAGTGTAACACCCTTTACTCGTATTCAATGTCTAAA
15687663 CAGGGTACAAGGCATTACCGAACT
66 CAGGGTACAAGGCATTACCGAACT
15687687 TACCTTAGCCAAATTATGCTAGAAATATCTAGTGTAACACCCTTTACTCGTATTCAATGTCTAAA
1 TACCTTAGCCAAATTATGCTAGAAATATCTAGTGTAACACCCTTTACTCGTATTCAATGTCTAAA
15687752 CAGGGTACAAGGCATTACCGAACT
66 CAGGGTACAAGGCATTACCGAACT
15687776 TACCTTAGCCAAATTATGCTAGAAATATCTAGTGTAACACCCTTTACTCGTATTCAATGTCTAAA
1 TACCTTAGCCAAATTATGCTAGAAATATCTAGTGTAACACCCTTTACTCGTATTCAATGTCTAAA
15687841 CAGGGTACAAGGCATTACCGAACT
66 CAGGGTACAAGGCATTACCGAACT
* *
15687865 TACCTTAGCCAAATTATGCTAGAAATATCTAGTGTAACACCCTTTACTCATATTCAATGTCGAAA
1 TACCTTAGCCAAATTATGCTAGAAATATCTAGTGTAACACCCTTTACTCGTATTCAATGTCTAAA
**
15687930 CAGGGTATGAGGCATTACCGAACT
66 CAGGGTACAAGGCATTACCGAACT
15687954 TA
1 TA
15687956 AACTCAAATA
Statistics
Matches: 265, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 265 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (89 bp):
TACCTTAGCCAAATTATGCTAGAAATATCTAGTGTAACACCCTTTACTCGTATTCAATGTCTAAA
CAGGGTACAAGGCATTACCGAACT
Found at i:15689438 original size:43 final size:42
Alignment explanation
Indices: 15689376--15689497 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 42
15689366 TACCATACCA
* *
15689376 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* *
15689418 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
15689461 ATGCCATATCCCATATATGGTCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
15689498 ACTAACCCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
42 31 0.44
43 38 0.54
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:15691943 original size:40 final size:40
Alignment explanation
Indices: 15691898--15692070 Score: 247
Period size: 40 Copynumber: 4.3 Consensus size: 40
15691888 AATGTCTCAT
* * * * *
15691898 ACACTAAGTGCCGTACATAGCCGAAGCTATCTCAAATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
15691938 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
* *
15691978 ACACTAAGTGCCATATATAGCCGAAACTATGTCGAATTGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
* * **
15692018 ACGCTAAGTGCCATATATAGCCGAAGCTATGTTGTGTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
15692058 ACACTAAGTGCCA
1 ACACTAAGTGCCA
15692071 CAAATAACTG
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
Found at i:15693718 original size:15 final size:17
Alignment explanation
Indices: 15693700--15693731 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15693690 TTGTGTAATT
15693700 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
15693715 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
15693732 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:15702769 original size:15 final size:17
Alignment explanation
Indices: 15702751--15702783 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15702741 TGCTTAATTT
15702751 ACCAAA-TCA-ATTCAC
1 ACCAAACTCACATTCAC
15702766 ACCAAACTCACATTCAC
1 ACCAAACTCACATTCAC
15702783 A
1 A
15702784 AGTATCGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (17 bp):
ACCAAACTCACATTCAC
Found at i:15706750 original size:93 final size:93
Alignment explanation
Indices: 15706591--15707506 Score: 1724
Period size: 93 Copynumber: 9.8 Consensus size: 93
15706581 GGATGGTTGA
15706591 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15706656 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15706684 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15706749 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15706777 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15706842 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15706870 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15706935 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15706963 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15707028 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15707056 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15707121 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15707149 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15707214 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15707242 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15707307 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15707335 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
* *
15707400 TGAGTTCGAGTTCGTGAGGTGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
* * * * * * * *
15707428 GCGTCCAAACTTGTTGAGTTGAGTTCGAGTTCACTCATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
* *
15707493 TGAGTCCGAGTTCG
66 TTAGTTCGAGTTCG
15707507 CTTATGGGCG
Statistics
Matches: 812, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 812 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
TTAGTTCGAGTTCGTGAGATGTAACTAG
Found at i:15710458 original size:15 final size:15
Alignment explanation
Indices: 15710438--15710493 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
15710428 GTATCTTGGG
15710438 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
15710453 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
15710468 TTTCTCTA-TCTTAGA
1 TTTCTTTATTC-TGGA
15710483 TTTCTTTATTC
1 TTTCTTTATTC
15710494 GGTTTCCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:15713035 original size:93 final size:93
Alignment explanation
Indices: 15712876--15713791 Score: 1753
Period size: 93 Copynumber: 9.8 Consensus size: 93
15712866 GGATGGTTGA
15712876 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15712941 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15712969 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15713034 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15713062 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15713127 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15713155 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15713220 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15713248 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15713313 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15713341 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15713406 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15713434 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15713499 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15713527 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15713592 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
15713620 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
15713685 TTAGTTCGAGTTCGTGAGATGTAACTAG
66 TTAGTTCGAGTTCGTGAGATGTAACTAG
* * * * *
15713713 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC-GAACTCGTTGAG
* *
15713777 TTGAGTCCGAGTTCG
65 TTTAGTTCGAGTTCG
15713792 CTTATGGACG
Statistics
Matches: 815, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
92 2 0.00
93 813 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
TTAGTTCGAGTTCGTGAGATGTAACTAG
Found at i:15719656 original size:26 final size:25
Alignment explanation
Indices: 15719617--15719667 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
15719607 TTATATATAC
15719617 TTTTTTTCTCTTCTTCTTTTATTAT
1 TTTTTTTCTCTTCTTCTTTTATTAT
* *
15719642 TTTTTTTCTTTTTCTTCTTTTTTTAT
1 TTTTTTTC-TCTTCTTCTTTTATTAT
15719668 ATAATATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTTTCTCTTCTTCTTTTATTAT
Found at i:15731011 original size:96 final size:92
Alignment explanation
Indices: 15730949--15731320 Score: 550
Period size: 96 Copynumber: 3.9 Consensus size: 92
15730939 ATTTAGGATT
15730949 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
15731014 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGG-C--AT-GC
15731045 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
15731110 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGG-C--AT-GC
15731141 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
15731206 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGG-C--AT-GC
* * * * * * * *
15731237 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
15731302 AGTGTATA-A-ATGTGATAAG
66 AGTGTATATATATGTGATAAG
15731321 TCCCGAAGGG
Statistics
Matches: 268, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
94 10 0.04
95 1 0.00
96 257 0.96
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (92 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCATGC
Found at i:15731047 original size:49 final size:47
Alignment explanation
Indices: 15730949--15731320 Score: 591
Period size: 47 Copynumber: 7.8 Consensus size: 47
15730939 ATTTAGGATT
*
15730949 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
15730996 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
15731045 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
15731092 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
15731141 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
15731188 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
* * * *
15731237 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
15731284 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
15731321 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 15, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
47 166 0.55
49 138 0.45
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:15731495 original size:37 final size:37
Alignment explanation
Indices: 15731439--15731517 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
15731429 CCGAGCTCTA
* * *
15731439 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
15731476 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
15731513 AAGAC
1 AAGAC
15731518 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:15735835 original size:40 final size:39
Alignment explanation
Indices: 15735798--15736014 Score: 206
Period size: 40 Copynumber: 5.5 Consensus size: 39
15735788 ATATCCGGAC
15735798 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
15735838 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
15735878 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
15735918 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
15735957 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
15735996 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
15736015 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 73 0.46
40 84 0.52
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:15735955 original size:39 final size:39
Alignment explanation
Indices: 15735804--15736012 Score: 258
Period size: 39 Copynumber: 5.3 Consensus size: 39
15735794 GGACTAAGAT
* * *
15735804 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
15735844 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
15735884 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
15735924 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
* * *
15735963 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
15736002 CCGAAGGCATT
1 CCGAAGGCATT
15736013 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 77 0.49
40 75 0.48
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:15736043 original size:78 final size:79
Alignment explanation
Indices: 15735752--15736047 Score: 246
Period size: 80 Copynumber: 3.7 Consensus size: 79
15735742 TGAATGCTGT
* * * * * ** *
15735752 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATTT
1 CCGGGCTATGTCCCGAAGGCATTGTGC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATTC
* *
15735816 GTGCGAGATAC-AAATT
64 GTGCGAGTTACTAAA-A
* * * *
15735832 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTATGTCCCGAAGG-CATTGTGCGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
15735896 GTGCGAGTTATTAAAT
64 GTGCGAGTTACTAAAA
* * * * * *
15735912 CCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT-GT
1 CCGGGCTATGTCCCGAAGGCATTGTGCGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
*
15735976 GTGAGTTACTAAAA
66 GCGAGTTACTAAAA
* *
15735990 CCGGGCTATGTCCCGAAGGCATT-TGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTGTG--CGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
15736048 TACGTGATTT
Statistics
Matches: 180, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
77 2 0.01
78 50 0.28
79 46 0.26
80 70 0.39
81 12 0.07
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTATGTCCCGAAGGCATTGTGCGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
GCGAGTTACTAAAA
Found at i:15743867 original size:80 final size:79
Alignment explanation
Indices: 15743783--15743954 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
15743773 GGACTAAGAT
*
15743783 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
15743847 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
15743863 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
15743928 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
15743942 CCGAAGGCATTTG
1 CCGAAGGCATTTG
15743955 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:15743934 original size:39 final size:39
Alignment explanation
Indices: 15743730--15743952 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
15743720 TTGAATGCTG
* * * * *
15743730 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
15743770 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
15743809 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
15743850 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
15743890 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
15743929 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15743953 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:15743972 original size:79 final size:80
Alignment explanation
Indices: 15743810--15743987 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
15743800 AGATACAAAT
* * * *
15743810 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
15743875 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
15743890 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
15743954 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
15743969 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
15743988 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:15750769 original size:27 final size:27
Alignment explanation
Indices: 15750713--15750769 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
15750703 CCCTTGATCA
* *
15750713 ATAAAATGACGATTATGCCCCTATGTG
1 ATAAAATGACGATTATGCCCCAATGAG
* **
15750740 ATAAAATGACTATTATGCCGGAATGAG
1 ATAAAATGACGATTATGCCCCAATGAG
15750767 ATA
1 ATA
15750770 TATGATTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (27 bp):
ATAAAATGACGATTATGCCCCAATGAG
Found at i:15752739 original size:13 final size:13
Alignment explanation
Indices: 15752721--15752745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15752711 GTGTCTTATC
15752721 AAGGCTTGGATCG
1 AAGGCTTGGATCG
15752734 AAGGCTTGGATC
1 AAGGCTTGGATC
15752746 TTTGGAGCGA
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:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
AAGGCTTGGATCG
Found at i:15753286 original size:28 final size:28
Alignment explanation
Indices: 15753254--15753318 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
15753244 ATTTACTAGA
*
15753254 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
15753282 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
15753310 ATACCCCTA
1 ATACCCCTA
15753319 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:15753482 original size:27 final size:28
Alignment explanation
Indices: 15753424--15753513 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
15753414 AGGAAGCGTC
*
15753424 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
15753452 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
15753479 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
15753508 CTGGTG
1 CTGGTG
15753514 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:15753524 original size:29 final size:28
Alignment explanation
Indices: 15753434--15753524 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
15753424 CTGGTGGCTA
* * *
15753434 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
15753462 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
15753489 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
15753518 TGTCACA
1 TGCCACA
15753525 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:15753532 original size:55 final size:56
Alignment explanation
Indices: 15753424--15753538 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
15753414 AGGAAGCGTC
* * *
15753424 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
15753479 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
15753535 CTGG
1 CTGG
15753539 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:15755356 original size:115 final size:115
Alignment explanation
Indices: 15755154--15755383 Score: 451
Period size: 115 Copynumber: 2.0 Consensus size: 115
15755144 AGGCCACGGA
*
15755154 AAGAATTATGGATGACTTGGACTGTTTTGTGGAGCAGAAGCTGAAGGGGGCCGTATCGTTGCTGC
1 AAGAATTATGGATGACGTGGACTGTTTTGTGGAGCAGAAGCTGAAGGGGGCCGTATCGTTGCTGC
15755219 GAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCAGCT
66 GAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCAGCT
15755269 AAGAATTATGGATGACGTGGACTGTTTTGTGGAGCAGAAGCTGAAGGGGGCCGTATCGTTGCTGC
1 AAGAATTATGGATGACGTGGACTGTTTTGTGGAGCAGAAGCTGAAGGGGGCCGTATCGTTGCTGC
15755334 GAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCAGCT
66 GAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCAGCT
15755384 GATAGGGTTA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.24
Consensus pattern (115 bp):
AAGAATTATGGATGACGTGGACTGTTTTGTGGAGCAGAAGCTGAAGGGGGCCGTATCGTTGCTGC
GAGATGAGGCTTATCAGTGGTGGCTCACCGTGAGGGATGGAACCCCAGCT
Found at i:15761254 original size:28 final size:28
Alignment explanation
Indices: 15761222--15761286 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
15761212 ATTTACTAGA
*
15761222 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
15761250 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
15761278 ATACCCCTA
1 ATACCCCTA
15761287 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:15761433 original size:28 final size:29
Alignment explanation
Indices: 15761392--15761454 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
15761382 AGGAAGCGTC
*
15761392 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
15761420 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
15761449 CTGGTG
1 CTGGTG
15761455 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:15761465 original size:29 final size:28
Alignment explanation
Indices: 15761402--15761465 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
15761392 CTGGTGGCTA
* *
15761402 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
15761430 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
15761459 TGTCACA
1 TGCCACA
15761466 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:15761942 original size:19 final size:19
Alignment explanation
Indices: 15761918--15761956 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15761908 TTTTAATTAT
* *
15761918 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
15761937 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
15761956 T
1 T
15761957 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:15762569 original size:11 final size:10
Alignment explanation
Indices: 15762541--15762574 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
15762531 AGCCTGTAAG
15762541 TATTCTGAAT
1 TATTCTGAAT
*
15762551 TTTTCTGAAT
1 TATTCTGAAT
15762561 ATATTCTGAAT
1 -TATTCTGAAT
15762572 TAT
1 TAT
15762575 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:15769105 original size:28 final size:28
Alignment explanation
Indices: 15769073--15769137 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
15769063 ATTTACTAGA
*
15769073 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
15769101 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
15769129 ATACCCCTA
1 ATACCCCTA
15769138 GTGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:15769301 original size:27 final size:27
Alignment explanation
Indices: 15769243--15769332 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
15769233 AGGAAGCGTC
15769243 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
15769271 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
15769298 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
15769327 CTGGTG
1 CTGGTG
15769333 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:15769351 original size:55 final size:56
Alignment explanation
Indices: 15769243--15769357 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
15769233 AGGAAGCGTC
* *
15769243 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
15769298 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
15769354 CTGG
1 CTGG
15769358 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:15769819 original size:19 final size:19
Alignment explanation
Indices: 15769795--15769833 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15769785 TTTTAGTTAT
* *
15769795 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
15769814 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
15769833 T
1 T
15769834 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:15775413 original size:25 final size:25
Alignment explanation
Indices: 15775378--15775523 Score: 184
Period size: 25 Copynumber: 5.8 Consensus size: 25
15775368 TAAGCTTGTT
*
15775378 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
*
15775403 AATTTGCTCTTAATAATTCTGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* *
15775428 AATTTGTTCTTAATAATTTCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* *
15775453 AATTTGTTCTTAATAATTCCAGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* * *
15775478 AATTTGCTCCTAATATTTTCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* * *
15775503 AATTTGCCCTTATTATTTCCG
1 AATTTGCTCTTAATAATTCCG
15775524 AATAAGTTAC
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 105 1.00
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.49
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTCCGGTTA
Found at i:15776099 original size:45 final size:45
Alignment explanation
Indices: 15776025--15776289 Score: 306
Period size: 45 Copynumber: 6.0 Consensus size: 45
15776015 TATCGTACAG
* * * *
15776025 TACTATTCGGGTCTTTGAGCCTAGTAGGCTATAATGCTGGTGAGA
1 TACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * * *
15776070 TAGTAATCGGGCCTTTGAGCATAACAGGCTATAATGCCGATGATA
1 TACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
15776115 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
15776160 TACTATTCGGGCCTTTGAACCTAGCAGGCTATAATGCCAGTGAGA
1 TACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
15776205 TACT-ATCTGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAAA
1 TACTAATC-GGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
15776250 TGA-T-ATCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 T-ACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
15776290 ATGAATTCGG
Statistics
Matches: 193, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
42 10 0.05
43 18 0.09
44 5 0.03
45 159 0.82
46 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (45 bp):
TACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:15793348 original size:25 final size:25
Alignment explanation
Indices: 15793313--15793458 Score: 175
Period size: 25 Copynumber: 5.8 Consensus size: 25
15793303 TAAGCTTGTT
*
15793313 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
**
15793338 AATTTGCTCTTAATAATTCCAATTA
1 AATTTGCTCTTAATAATTCCGGTTA
* *
15793363 AATTTGTTCTTAATAATTCTGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* **
15793388 AATTTGTTCTTAATAATTCTAGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* *
15793413 AATTTGCTCTTAATATTTCTGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* * *
15793438 AATTTGCCCTTATTATTTCCG
1 AATTTGCTCTTAATAATTCCG
15793459 AATAAGTTAC
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 107 1.00
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTCCGGTTA
Found at i:15793372 original size:50 final size:50
Alignment explanation
Indices: 15793313--15793449 Score: 211
Period size: 50 Copynumber: 2.7 Consensus size: 50
15793303 TAAGCTTGTT
*
15793313 AATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTTAATAATTCCAATTA
1 AATTTGTTCTTAATAATTCTGGTTAAATTTGCTCTTAATAATTCCAATTA
* * *
15793363 AATTTGTTCTTAATAATTCTGGTTAAATTTGTTCTTAATAATTCTAGTTA
1 AATTTGTTCTTAATAATTCTGGTTAAATTTGCTCTTAATAATTCCAATTA
* * *
15793413 AATTTGCTCTTAATATTTCTGGTTAAATTTGCCCTTA
1 AATTTGTTCTTAATAATTCTGGTTAAATTTGCTCTTA
15793450 TTATTTCCGA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.49
Consensus pattern (50 bp):
AATTTGTTCTTAATAATTCTGGTTAAATTTGCTCTTAATAATTCCAATTA
Found at i:15794364 original size:45 final size:45
Alignment explanation
Indices: 15794300--15794477 Score: 311
Period size: 45 Copynumber: 4.0 Consensus size: 45
15794290 TATCGTAGAG
* *
15794300 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
15794345 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
15794390 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
15794435 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
15794478 AATGATATCC
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 126 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:15795394 original size:41 final size:42
Alignment explanation
Indices: 15795326--15795446 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 42
15795316 CATTGATTTG
* *
15795326 TGATTTACATGTAAGACCATGTATGGGACATTGGCATC-TATA
1 TGATTT-CATGTAAGACCCTGTCTGGGACATTGGCATCATATA
* * * *
15795368 TGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATT
1 TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATC-ATATA
* * *
15795411 TGATTACATGTAAGACCAC-ATCTGGGACTTTGGCAT
1 TGATTTCATGTAAGACC-CTGTCTGGGACATTGGCAT
15795447 TGTTCGAGCT
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
41 26 0.41
42 6 0.09
43 31 0.48
44 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATCATATA
Found at i:15795425 original size:43 final size:41
Alignment explanation
Indices: 15795330--15795428 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
15795320 GATTTGTGAT
*
15795330 TTACATGTAAGACCATGTATGGGACATTGGCATCTATATGA
1 TTACATGTAAGACCATGTATGGGACAGTGGCATCTATATGA
* * * * * *
15795371 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTATGGGACAGTGGCATC--TATATGA
15795414 TTACATGTAAGACCA
1 TTACATGTAAGACCA
15795429 CATCTGGGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
41 28 0.61
43 18 0.39
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (41 bp):
TTACATGTAAGACCATGTATGGGACAGTGGCATCTATATGA
Found at i:15796911 original size:42 final size:42
Alignment explanation
Indices: 15796839--15796928 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
15796829 ATGGGCTAGA
*
15796839 CACATGGGTGTGTCTAATGCCGTGTAAGGCACACGGCCTGCT
1 CACACGGGTGTGTCTAATGCCGTGTAAGGCACACGGCCTGCT
* * *
15796881 CACACGGGTGTGTCTAATGCTGTGTGAGGCACACGGCCTGTT
1 CACACGGGTGTGTCTAATGCCGTGTAAGGCACACGGCCTGCT
15796923 CACACG
1 CACACG
15796929 AGCATGTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.23
Consensus pattern (42 bp):
CACACGGGTGTGTCTAATGCCGTGTAAGGCACACGGCCTGCT
Found at i:15799496 original size:43 final size:42
Alignment explanation
Indices: 15799376--15799533 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 42
15799366 AGCTCATACA
15799376 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAT-TAAATCAAATAT-G
* * * *
15799419 ATACC-ACTATCCCAGACAG-GGTCTTGCATGAAATCAAATATG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATTAAATCAAATATG
* *
15799461 ATGCCAACGTCCCAGATGTGGTCTTACACTTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACA-TTAAATCA-AA-TATG
*
15799505 ATGCCAACGTCCCAAACGTGGTCTTACAT
1 ATGCCAACGTCCCAGACGTGGTCTTACAT
15799534 GAAAACACAT
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 22 0.23
43 41 0.43
44 30 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATTAAATCAAATATG
Found at i:15801828 original size:20 final size:20
Alignment explanation
Indices: 15801805--15801853 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
15801795 TGCGATTTGG
15801805 TGCCTCTGA-TTGCACAATTC
1 TGCCTCT-ATTTGCACAATTC
15801825 TGCCTCTATTTGCACAATTC
1 TGCCTCTATTTGCACAATTC
15801845 TGCCTCTAT
1 TGCCTCTAT
15801854 CTACACTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.18, C:0.31, G:0.12, T:0.39
Consensus pattern (20 bp):
TGCCTCTATTTGCACAATTC
Found at i:15803166 original size:27 final size:28
Alignment explanation
Indices: 15803128--15803241 Score: 139
Period size: 27 Copynumber: 4.2 Consensus size: 28
15803118 CAGCATGACT
*
15803128 ACCAGA-ACAGATA-TTGTGACAGAGTC
1 ACCAGATACAGATATTTGTGACAGAGCC
*
15803154 ACCAGATACAGATA-TTGTGGCAGAGCC
1 ACCAGATACAGATATTTGTGACAGAGCC
* *
15803181 ACCAGAAACAGATATTTGTGGCAGAGCC
1 ACCAGATACAGATATTTGTGACAGAGCC
*
15803209 ACTAGAT-CAGATATTTGTGGA-AGAGCC
1 ACCAGATACAGATATTTGT-GACAGAGCC
15803236 ACCAGA
1 ACCAGA
15803242 ATGCTTCCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
26 6 0.08
27 53 0.68
28 19 0.24
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (28 bp):
ACCAGATACAGATATTTGTGACAGAGCC
Found at i:15803220 original size:54 final size:55
Alignment explanation
Indices: 15803128--15803242 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 55
15803118 CAGCATGACT
* *
15803128 ACCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCAGAGCC
1 ACCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGAAGAGCC
* *
15803181 ACCAGAAACAGATATTTGTGGCAGAGCCACTAGAT-CAGATATTTGTGGAAGAGCC
1 ACCAGAAACAGATA-TTGTGACAGAGCCACCAGATACAGATATTTGTGGAAGAGCC
15803236 ACCAGAA
1 ACCAGAA
15803243 TGCTTCCTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 5 0.09
54 14 0.25
55 36 0.65
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (55 bp):
ACCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGAAGAGCC
Found at i:15805117 original size:15 final size:15
Alignment explanation
Indices: 15805097--15805126 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15805087 TAAACTTACG
15805097 AAATAATAAAAATAA
1 AAATAATAAAAATAA
*
15805112 AAATAATAATAATAA
1 AAATAATAAAAATAA
15805127 CATCCAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAATAAAAATAA
Found at i:15807745 original size:46 final size:46
Alignment explanation
Indices: 15807695--15807867 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
15807685 TGGTTGAGCA
15807695 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
15807741 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
15807786 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
15807834 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
15807868 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15807851 original size:93 final size:93
Alignment explanation
Indices: 15807692--15807862 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
15807682 GGATGGTTGA
* *
15807692 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15807757 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
15807785 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15807850 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
15807863 ACTTAGGGGC
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:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:15809683 original size:42 final size:41
Alignment explanation
Indices: 15809637--15809789 Score: 182
Period size: 42 Copynumber: 3.7 Consensus size: 41
15809627 TGAGTTTACA
*
15809637 TGTAAGACCATATCCGGGATATGGCATCATTATGAGATTCCG
1 TGTAAGACCATATCTGGGATATGGCATCA-TATGAGATTCCG
* * *
15809679 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGAAT-CG
1 TGTAAGACCATATCTGGGATATGGCATC-ATATGAGATTCCG
* * * * *
15809720 TGTAAGACCATAGCTGGGCTATTGGCATCAATATAAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATC-ATATGAGATTCCG
15809763 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
15809790 TGGTATGATT
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 19 0.20
42 53 0.57
43 21 0.23
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCATATGAGATTCCG
Found at i:15829065 original size:12 final size:12
Alignment explanation
Indices: 15829048--15829072 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15829038 TTGTTTACCG
15829048 AAAAAAATAAAA
1 AAAAAAATAAAA
15829060 AAAAAAATAAAA
1 AAAAAAATAAAA
15829072 A
1 A
15829073 GATTTCATTT
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:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:15839921 original size:39 final size:39
Alignment explanation
Indices: 15839878--15839958 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
15839868 ACCAGTTCGA
* * *
15839878 AGCCTACGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTAC-GGACCTTAAGCCCGGACATAATTCCAGCACAT
* * *
15839917 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTACGGACCTTAAGCCCGGACATAATTCCAGCACAT
15839956 AGC
1 AGC
15839959 ATGCGGCCCC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 3 0.09
39 32 0.91
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
AGCCTACGGACCTTAAGCCCGGACATAATTCCAGCACAT
Found at i:15839964 original size:39 final size:39
Alignment explanation
Indices: 15839896--15839982 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
15839886 GGACTTTAGC
* * * * *
15839896 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCATGCGGACCCTAAGT
*
15839935 CCGGATATAATTCCAGCACATAGCATGCGGCCCCTAAGT
1 CCGGATATAATTCCAGCACATAGCATGCGGACCCTAAGT
15839974 CCGGATATA
1 CCGGATATA
15839983 CATCACTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCATGCGGACCCTAAGT
Found at i:15845736 original size:40 final size:40
Alignment explanation
Indices: 15845677--15845879 Score: 266
Period size: 40 Copynumber: 5.1 Consensus size: 40
15845667 GGATGATAAT
* * * *
15845677 CGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
* *
15845717 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
15845757 CGGGCTAAGCCCCGAAGGCATTTGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
15845797 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
15845837 CGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
15845877 CGG
1 CGG
15845880 TTAAATCTCG
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 143 0.99
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:15851196 original size:84 final size:83
Alignment explanation
Indices: 15851084--15851244 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 83
15851074 TGAGTTTACG
** * * * * *
15851084 TGTAAGACCATATTTGGGATATGGCATCATTATGATATTTCGTGTAAGACCATGTCCGGGACATG
1 TGTAAGACCATAGCTGGGATATGGCATCAATATGAGATCTCATGTAAGACCATATCCGGGACATG
15851149 GCATTGATATGAGAATCA
66 GCATTGATATGAGAATCA
* * *
15851167 TGTAAGACCATAGCTGGGCTATTGGCATCAATATGAGATCTCATGTAAGACCATATCTGGGATAT
1 TGTAAGACCATAGCTGGGATA-TGGCATCAATATGAGATCTCATGTAAGACCATATCCGGGACAT
*
15851232 GGCATTGGTATGA
65 GGCATTGATATGA
15851245 TTCTATGTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
83 18 0.27
84 48 0.73
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (83 bp):
TGTAAGACCATAGCTGGGATATGGCATCAATATGAGATCTCATGTAAGACCATATCCGGGACATG
GCATTGATATGAGAATCA
Found at i:15851244 original size:42 final size:42
Alignment explanation
Indices: 15851084--15851236 Score: 173
Period size: 42 Copynumber: 3.6 Consensus size: 42
15851074 TGAGTTTACG
* * * * *
15851084 TGTAAGACCATATTTGGGATATGGCATCATTATGATATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATATCA
* * * **
15851126 TGTAAGACCATGTCCGGGACATGGCATTGATATGAGA-ATCA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATATCA
* * *
15851167 TGTAAGACCATAGCTGGGCTATTGGCATCAATATGAGATCTCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATATGAGATATCA
15851210 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
15851237 TGGTATGATT
Statistics
Matches: 89, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
41 18 0.20
42 49 0.55
43 22 0.25
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATATCA
Found at i:15853259 original size:19 final size:19
Alignment explanation
Indices: 15853225--15853265 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15853215 AGGTAGGATG
*
15853225 AAAGAGGAAAGAAAAAGGA
1 AAAGAGGAAAGAAAAAAGA
15853244 AAAGAGG-AAGAAAAAAAGA
1 AAAGAGGAAAG-AAAAAAGA
15853263 AAA
1 AAA
15853266 TGAAGGAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAGGAAAGAAAAAAGA
Found at i:15856736 original size:31 final size:32
Alignment explanation
Indices: 15856698--15856758 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
15856688 TTGCTGCAAT
* *
15856698 CTGGTGGCTTCGCCAC-ATATATATATCTGTC
1 CTGGTGGCCTAGCCACAATATATATATCTGTC
*
15856729 CTGGTGGCCTAGCCACAATATCTATATCTG
1 CTGGTGGCCTAGCCACAATATATATATCTG
15856759 GTGACTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (32 bp):
CTGGTGGCCTAGCCACAATATATATATCTGTC
Found at i:15857588 original size:64 final size:64
Alignment explanation
Indices: 15857487--15857614 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
15857477 TCTGGGCTGG
* * *
15857487 GTTTGGGGTGGTACATTTAGTGGTATCAGAGTCAAGTTGCAACAACTCGGCTGTGGAACGGGTC
1 GTTTGGGGTGGTACATTTAGTGGTATCAAAGCCAAGTTGCAACAACTCAGCTGTGGAACGGGTC
*
15857551 GTTTGGGGTGTTACATTTAGTGGTATCAAAGCCAAGTTGCAACAACTCAGCTGTGGAACGGGTC
1 GTTTGGGGTGGTACATTTAGTGGTATCAAAGCCAAGTTGCAACAACTCAGCTGTGGAACGGGTC
15857615 TAGAAACGGG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.28
Consensus pattern (64 bp):
GTTTGGGGTGGTACATTTAGTGGTATCAAAGCCAAGTTGCAACAACTCAGCTGTGGAACGGGTC
Found at i:15863212 original size:37 final size:37
Alignment explanation
Indices: 15863149--15863220 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
15863139 AGCTCAGACG
* *
15863149 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCAGGTCTCACCCGGACA
* *
15863186 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGAAGTCATCAGGTCTCACCCGGA
15863221 ATATATTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCAGGTCTCACCCGGACA
Found at i:15863486 original size:47 final size:47
Alignment explanation
Indices: 15863425--15863571 Score: 231
Period size: 47 Copynumber: 3.1 Consensus size: 47
15863415 TACATATATT
* * * *
15863425 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
15863472 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
15863519 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
15863566 TCACAT
1 TCACAT
15863572 AAAATCCTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:15878495 original size:42 final size:43
Alignment explanation
Indices: 15878448--15878599 Score: 141
Period size: 42 Copynumber: 3.6 Consensus size: 43
15878438 GTGTTATCAT
* * * *
15878448 GTAAGACCATATCTGGGATATGGCGTTGATATAAGATTTCG-A
1 GTAAGACCATATCTGGGATATGGCATCGAAATAAGATCTCGTA
* * *
15878490 GTAAGACCATGTCTGGGACATGGCATCGAAATGAGATCTCGTA
1 GTAAGACCATATCTGGGATATGGCATCGAAATAAGATCTCGTA
* ** *
15878533 -TAAGACCATATTTGGGATATGGCATCGATGTGAGATC-C-TA
1 GTAAGACCATATCTGGGATATGGCATCGAAATAAGATCTCGTA
** *
15878573 TGTAAGACCACGTCTGGGACATGGCAT
1 -GTAAGACCATATCTGGGATATGGCAT
15878600 TGGTATCTTA
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 87 0.96
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (43 bp):
GTAAGACCATATCTGGGATATGGCATCGAAATAAGATCTCGTA
Found at i:15879029 original size:71 final size:71
Alignment explanation
Indices: 15878913--15879055 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
15878903 TTACTCATAT
*
15878913 TTACATGCAAACTTACTAAGCTTTATGCTTACTCCCCTTTCTTTTCCATTTTTCTTATAGTATCG
1 TTACATGCAAACTTACTAAGCTTTATGCTTACTCCACTTTCTTTTCCATTTTTCTTATAGTATCG
15878978 CCAAGC
66 CCAAGC
*
15878984 TTACATGCAAACTTACTAAGCTTTATGCTTACTCCATTTTCTTTTCCATTTTTCTTATAGTATCG
1 TTACATGCAAACTTACTAAGCTTTATGCTTACTCCACTTTCTTTTCCATTTTTCTTATAGTATCG
15879049 CCAAGC
66 CCAAGC
15879055 T
1 T
15879056 ATGTAACACC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.43
Consensus pattern (71 bp):
TTACATGCAAACTTACTAAGCTTTATGCTTACTCCACTTTCTTTTCCATTTTTCTTATAGTATCG
CCAAGC
Found at i:15888572 original size:9 final size:8
Alignment explanation
Indices: 15888543--15888576 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
15888533 AGTCCCTAAT
*
15888543 TCACAAAT
1 TCACAAAA
15888551 TCACAAAA
1 TCACAAAA
15888559 TCACAAAA
1 TCACAAAA
15888567 TACACAAAA
1 T-CACAAAA
15888576 T
1 T
15888577 TTGCTTGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.18
Consensus pattern (8 bp):
TCACAAAA
Found at i:15888572 original size:17 final size:16
Alignment explanation
Indices: 15888543--15888576 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15888533 AGTCCCTAAT
*
15888543 TCACAAATTCACAAAA
1 TCACAAATACACAAAA
15888559 TCACAAAATACACAAAA
1 TCAC-AAATACACAAAA
15888576 T
1 T
15888577 TTGCTTGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.18
Consensus pattern (16 bp):
TCACAAATACACAAAA
Found at i:15892301 original size:97 final size:97
Alignment explanation
Indices: 15892135--15892329 Score: 345
Period size: 97 Copynumber: 2.0 Consensus size: 97
15892125 TTTCAAATAC
* *
15892135 ATTTATTTGTATATAGACTTACATCTCATATACTATCAAAGTAATAACATTAAAATACACATTGC
1 ATTTATTTGTATATAGACTTACATCTCATATACTATCAAAGCAATAAAATTAAAATACACATTGC
*
15892200 ATTATTAAAAATCATATGAACTTATCTCATAT
66 ATTATTAAAAATCATATGAACTTACCTCATAT
*
15892232 ATTTATTTGTATATAGACTTGCATCTCATATACTATCAAAGCAATAAAATTAAAATACACATTGC
1 ATTTATTTGTATATAGACTTACATCTCATATACTATCAAAGCAATAAAATTAAAATACACATTGC
*
15892297 ATTATTAAAAATCATATGAACTTACCTCGTAT
66 ATTATTAAAAATCATATGAACTTACCTCATAT
15892329 A
1 A
15892330 CGAAAATGGC
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (97 bp):
ATTTATTTGTATATAGACTTACATCTCATATACTATCAAAGCAATAAAATTAAAATACACATTGC
ATTATTAAAAATCATATGAACTTACCTCATAT
Found at i:15896432 original size:37 final size:37
Alignment explanation
Indices: 15896382--15896454 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
15896372 ACCCCTTGTC
*
15896382 GAGGATAGATTATTTATTTGATCAACTTAAGGGAGCT
1 GAGGATAGATTATTTATTTGATCAACTGAAGGGAGCT
*
15896419 GAGGATAGATTATTTATTTGATCAACTGAATGGAGC
1 GAGGATAGATTATTTATTTGATCAACTGAAGGGAGC
15896455 CATAGCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (37 bp):
GAGGATAGATTATTTATTTGATCAACTGAAGGGAGCT
Found at i:15900307 original size:42 final size:41
Alignment explanation
Indices: 15900261--15900392 Score: 124
Period size: 42 Copynumber: 3.2 Consensus size: 41
15900251 CATCCAGGAT
* *
15900261 ATGGCATTGATATGAGATCTTATGTAAGATCATGATTGGGAC
1 ATGGCATCGATATGAGATCTTATGTAAGAGCAT-ATTGGGAC
* * * * *
15900303 ATGGCATCGAAATGAGAT-TTCGTATAAGAGCATATTTGAGAT
1 ATGGCATCGATATGAGATCTT-ATGTAAGAGCATA-TTGGGAC
* * *
15900345 ATGGCATCGATGTGAGATCCTATGTAAGCCGCATA-TGGGAC
1 ATGGCATCGATATGAGATCTTATGTAAG-AGCATATTGGGAC
15900386 ATGGCAT
1 ATGGCAT
15900393 TGGTATCTTA
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
41 14 0.20
42 51 0.72
43 6 0.08
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (41 bp):
ATGGCATCGATATGAGATCTTATGTAAGAGCATATTGGGAC
Found at i:15902173 original size:40 final size:40
Alignment explanation
Indices: 15902119--15902433 Score: 431
Period size: 40 Copynumber: 7.8 Consensus size: 40
15902109 ATTACCACAA
* ** *
15902119 GCACAATTGCCTTCGGGTCTTAGCCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
15902159 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
15902199 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
15902239 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
15902279 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
** * **
15902321 GCACAAATGCCTT-GAAT-TTAG-CCGGATAT-TACCACAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT-CAACTC
*
15902358 GCACAATTGCCTTCGGGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTC--GGGTCTTAGCCCGGATATATCAACTC
15902400 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
15902434 ATACAAATGC
Statistics
Matches: 242, Mismatches: 24, Indels: 18
0.85 0.08 0.06
Matches are distributed among these distances:
36 1 0.00
37 19 0.08
39 4 0.02
40 162 0.67
41 6 0.02
42 49 0.20
43 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:15911987 original size:28 final size:27
Alignment explanation
Indices: 15911951--15912079 Score: 109
Period size: 29 Copynumber: 4.5 Consensus size: 27
15911941 TCCCTACATA
**
15911951 CATTCATATTTCCCA-CTTGGCCCAATCT
1 CATTCATATGGCCCATC-TGGCCCAAT-T
*
15911979 CATTTATATGGCCCATCTGGCCCAATT
1 CATTCATATGGCCCATCTGGCCCAATT
*
15912006 CATATTCATATGGCCCATCAGGCCCAATT
1 C--ATTCATATGGCCCATCTGGCCCAATT
*
15912035 CATATTCATATGGCCCAT-TAGGCCCAAAT
1 C--ATTCATATGGCCCATCT-GGCCCAATT
*
15912064 CACCTTTATATGGCCC
1 CA--TTCATATGGCCC
15912080 GTTACGCCCA
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.03
28 21 0.24
29 63 0.72
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.31
Consensus pattern (27 bp):
CATTCATATGGCCCATCTGGCCCAATT
Found at i:15912021 original size:29 final size:29
Alignment explanation
Indices: 15911968--15912079 Score: 140
Period size: 29 Copynumber: 3.9 Consensus size: 29
15911958 ATTTCCCACT
15911968 TGGCCCAATCTCAT-TT-ATATGGCCCATC
1 TGGCCCAAT-TCATATTCATATGGCCCATC
15911996 TGGCCCAATTCATATTCATATGGCCCATC
1 TGGCCCAATTCATATTCATATGGCCCATC
*
15912025 AGGCCCAATTCATATTCATATGGCCCAT-
1 TGGCCCAATTCATATTCATATGGCCCATC
* ** *
15912053 TAGGCCCAAATCACCTTTATATGGCCC
1 T-GGCCCAATTCATATTCATATGGCCC
15912080 GTTACGCCCA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
27 4 0.05
28 11 0.15
29 60 0.80
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.29
Consensus pattern (29 bp):
TGGCCCAATTCATATTCATATGGCCCATC
Found at i:15912088 original size:29 final size:28
Alignment explanation
Indices: 15911982--15912102 Score: 100
Period size: 29 Copynumber: 4.2 Consensus size: 28
15911972 CCAATCTCAT
* * **
15911982 TTATATGGCCCATCT-GGCCCAATTCATA
1 TTATATGGCCCAT-TACGCCCAAATCACC
* * * **
15912010 TTCATATGGCCCATCAGGCCCAATTCATA
1 TT-ATATGGCCCATTACGCCCAAATCACC
*
15912039 TTCATATGGCCCATTAGGCCCAAATCACC
1 TT-ATATGGCCCATTACGCCCAAATCACC
*
15912068 TTTATATGGCCCGTTACGCCCAAATCACC
1 -TTATATGGCCCATTACGCCCAAATCACC
15912097 TTATAT
1 TTATAT
15912103 TCATGCTCAC
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
28 8 0.10
29 73 0.88
30 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (28 bp):
TTATATGGCCCATTACGCCCAAATCACC
Found at i:15913945 original size:30 final size:30
Alignment explanation
Indices: 15913904--15913964 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
15913894 ATGTGTATGG
15913904 ACTACCATAGGCTTAATAAGGAAACTAGGA
1 ACTACCATAGGCTTAATAAGGAAACTAGGA
*
15913934 ACTACCGTAGGCTTAATAAGGAAACTAGGA
1 ACTACCATAGGCTTAATAAGGAAACTAGGA
15913964 A
1 A
15913965 AGGTCATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (30 bp):
ACTACCATAGGCTTAATAAGGAAACTAGGA
Found at i:15917990 original size:46 final size:45
Alignment explanation
Indices: 15917923--15918038 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 45
15917913 GTGCTAGTCA
* * * *
15917923 AAGACATGTTTGGGCCATGCATCAGCCA-CAGCATGAGAGCCAGTGT
1 AAGACATGTCTGGGACATGCATC-GACATCAG-ACGAGAGCCAGTGT
* * * *
15917969 AAGACATGTCTGAGACATGCATCGATATTGAGACGAGAGCTAGTGT
1 AAGACATGTCTGGGACATGCATCGACA-TCAGACGAGAGCCAGTGT
15918015 AAGACATGTCTGGGACATGCATCG
1 AAGACATGTCTGGGACATGCATCG
15918039 GTCTCGTGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.03
46 55 0.93
47 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
AAGACATGTCTGGGACATGCATCGACATCAGACGAGAGCCAGTGT
Found at i:15925333 original size:31 final size:29
Alignment explanation
Indices: 15925285--15925359 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
15925275 NNNNNNNNNN
*
15925285 AAAAAAAAA-GTGAAAAAAAAATCGAGCA
1 AAAAAAAAAGGTGAAAAAAAAATCAAGCA
**
15925313 AAAAAAAAAGGTGACCAAAAAAAATCAAGTT
1 AAAAAAAAAGGTGA--AAAAAAAATCAAGCA
15925344 AAAAAAAAA-GTGAAAA
1 AAAAAAAAAGGTGAAAA
15925360 GTCTTGCGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 12 0.29
29 4 0.10
30 4 0.10
31 21 0.51
ACGTcount: A:0.71, C:0.07, G:0.13, T:0.09
Consensus pattern (29 bp):
AAAAAAAAAGGTGAAAAAAAAATCAAGCA
Found at i:15926249 original size:18 final size:18
Alignment explanation
Indices: 15926228--15926262 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15926218 AGAAAAGAAA
15926228 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
15926246 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
15926263 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:15929470 original size:292 final size:292
Alignment explanation
Indices: 15928940--15929518 Score: 1045
Period size: 292 Copynumber: 2.0 Consensus size: 292
15928930 ACTCCACAGT
15928940 TTTTCGGGTTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTGC
1 TTTTCGGGTTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTGC
15929005 CTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTGT
66 CTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTGT
15929070 GCACAACTTTTTCCTCGGTGCAACACAAATCAATTGGTGTCTCGTCAGTTTTTGGCATCCTATGC
131 GCACAACTTTTTCCTCGGTGCAACACAAATCAATTGGTGTCTCGTCAGTTTTTGGCATCCTATGC
* * * * * *
15929135 AAATTAGGATTCTTTGGTAGTTTTGGTTCATACACTTTCTAATTGATTGATTTAGACT-TTACTA
196 AAATTAGGATTCTTTGGTAGTATCGGTTCATACACTCTCTAATTGATTGATATAAACTCTGA-TA
15929199 AAGAACTCACAAGACTGAATTCTACCTCTTTGC
260 AAGAACTCACAAGACTGAATTCTACCTCTTTGC
15929232 TTTTCGGGTTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTGC
1 TTTTCGGGTTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTGC
15929297 CTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTGT
66 CTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTGT
15929362 GCACAACTTTTTCCTCGGTGCAACACAAATCAATTGGTGTCTCGTCAGTTTTTGGCATCCTAGTG
131 GCACAACTTTTTCCTCGGTGCAACACAAATCAATTGGTGTCTCGTCAGTTTTTGGCATCCTA-TG
* *
15929427 CAAATTAGGATTCTTTGGTAG-ATCGGTTCATCCACTCTCTAATTGGTTGATATAAACTCTGATA
195 CAAATTAGGATTCTTTGGTAGTATCGGTTCATACACTCTCTAATTGATTGATATAAACTCTGATA
*
15929491 AAGAACTCACAAGATTGAATTCTACCTC
260 AAGAACTCACAAGACTGAATTCTACCTC
15929519 ATTGAGAATT
Statistics
Matches: 276, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
292 251 0.91
293 25 0.09
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (292 bp):
TTTTCGGGTTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTGC
CTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTGT
GCACAACTTTTTCCTCGGTGCAACACAAATCAATTGGTGTCTCGTCAGTTTTTGGCATCCTATGC
AAATTAGGATTCTTTGGTAGTATCGGTTCATACACTCTCTAATTGATTGATATAAACTCTGATAA
AGAACTCACAAGACTGAATTCTACCTCTTTGC
Found at i:15942666 original size:11 final size:11
Alignment explanation
Indices: 15942622--15942666 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
15942612 TAATAGTTTC
*
15942622 TCGAAAAAAAC
1 TCGAAAAAAAA
15942633 TCGAAAAAAAA
1 TCGAAAAAAAA
*
15942644 TTCAAAAAAAAA
1 -TCGAAAAAAAA
15942656 TCGAAAAAAAA
1 TCGAAAAAAAA
15942667 ACTAGTTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.71, C:0.11, G:0.07, T:0.11
Consensus pattern (11 bp):
TCGAAAAAAAA
Found at i:15942667 original size:12 final size:12
Alignment explanation
Indices: 15942625--15942667 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
15942615 TAGTTTCTCG
*
15942625 AAAAAAACTCGA
1 AAAAAAAATCGA
*
15942637 AAAAAAATTC-A
1 AAAAAAAATCGA
15942648 AAAAAAAATCGA
1 AAAAAAAATCGA
15942660 AAAAAAAA
1 AAAAAAAA
15942668 CTAGTTTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (12 bp):
AAAAAAAATCGA
Found at i:15942729 original size:13 final size:13
Alignment explanation
Indices: 15942705--15942744 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
15942695 GGATATCAAG
15942705 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
15942718 TTTGTGAAAAAAAA
1 -TTGTGAAAAAAAA
15942732 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
15942745 GAGAGCTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:15948977 original size:150 final size:150
Alignment explanation
Indices: 15948706--15949005 Score: 600
Period size: 150 Copynumber: 2.0 Consensus size: 150
15948696 GTACTCAGAC
15948706 TGGGCAGTGTCTGGAAAAATTTTTCAAAGTTTGTTAACATCTCGTGTCCGACTCCGGTGTCGGTC
1 TGGGCAGTGTCTGGAAAAATTTTTCAAAGTTTGTTAACATCTCGTGTCCGACTCCGGTGTCGGTC
15948771 TCGGGTTCGGGGTGTTACATTTTTATTGGTATCAGAGCTATGGTTTAGTCCATTCTAGGACTACC
66 TCGGGTTCGGGGTGTTACATTTTTATTGGTATCAGAGCTATGGTTTAGTCCATTCTAGGACTACC
15948836 GTAATGTTTTGGGTCTAGCT
131 GTAATGTTTTGGGTCTAGCT
15948856 TGGGCAGTGTCTGGAAAAATTTTTCAAAGTTTGTTAACATCTCGTGTCCGACTCCGGTGTCGGTC
1 TGGGCAGTGTCTGGAAAAATTTTTCAAAGTTTGTTAACATCTCGTGTCCGACTCCGGTGTCGGTC
15948921 TCGGGTTCGGGGTGTTACATTTTTATTGGTATCAGAGCTATGGTTTAGTCCATTCTAGGACTACC
66 TCGGGTTCGGGGTGTTACATTTTTATTGGTATCAGAGCTATGGTTTAGTCCATTCTAGGACTACC
15948986 GTAATGTTTTGGGTCTAGCT
131 GTAATGTTTTGGGTCTAGCT
15949006 ATACATGCCA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (150 bp):
TGGGCAGTGTCTGGAAAAATTTTTCAAAGTTTGTTAACATCTCGTGTCCGACTCCGGTGTCGGTC
TCGGGTTCGGGGTGTTACATTTTTATTGGTATCAGAGCTATGGTTTAGTCCATTCTAGGACTACC
GTAATGTTTTGGGTCTAGCT
Found at i:15955473 original size:39 final size:40
Alignment explanation
Indices: 15955270--15955492 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
15955260 TTGAATGCTG
* * * * * *
15955270 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
15955310 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
15955350 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
15955390 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
15955430 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
15955469 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15955493 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 36 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:15955512 original size:79 final size:80
Alignment explanation
Indices: 15955345--15955527 Score: 235
Period size: 79 Copynumber: 2.3 Consensus size: 80
15955335 GTGCGAGATA
* *
15955345 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
15955410 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
15955425 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
*
15955489 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
15955504 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
15955528 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.53
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:15962671 original size:39 final size:39
Alignment explanation
Indices: 15962507--15962689 Score: 161
Period size: 40 Copynumber: 4.6 Consensus size: 39
15962497 TTGAATGCTG
* * * ** * *
15962507 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
15962547 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
**
15962587 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
15962627 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
15962666 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15962690 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.31
40 74 0.62
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:15962709 original size:79 final size:79
Alignment explanation
Indices: 15962560--15962724 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
15962550 GGACTAAGAT
* * * ** ** *
15962560 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
15962625 AATCCGGGTTACGTC
66 AATCC-GGTTAAATC
* * * *
15962640 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
15962704 TATCCGGTTAAATC
66 AATCCGGTTAAATC
15962718 CCGAAGG
1 CCGAAGG
15962725 TACGTGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:15966324 original size:40 final size:40
Alignment explanation
Indices: 15966227--15966451 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 40
15966217 TTGAATGCTG
* * * *
15966227 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15966267 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
15966307 TCCGGGTTAAGTCCCGAAAGCATTCGTCCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * **
15966347 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
15966387 TCCGGGTTACGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15966426 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15966452 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 33 0.21
40 115 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15966469 original size:79 final size:80
Alignment explanation
Indices: 15966302--15966484 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
15966292 GTGCGAGATA
* * * *
15966302 CTAAATCCGGGTTAAGTCCCGAAAGCATTCGTCCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTCCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
15966367 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * ** *
15966382 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTCCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
15966446 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
15966461 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
15966485 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.53
80 26 0.31
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTCCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:15973509 original size:23 final size:23
Alignment explanation
Indices: 15973448--15973510 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
15973438 ATATGCTCTT
* *
15973448 ATATGCTGCATGATACGATTCTG
1 ATATGCTGAATGATATGATTCTG
** *
15973471 ATATG-TGAAACAATATGATTTTG
1 ATATGCTG-AATGATATGATTCTG
*
15973494 ATATGCTGTATGATATG
1 ATATGCTGAATGATATG
15973511 GAAAAATTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
22 2 0.07
23 26 0.87
24 2 0.07
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATGCTGAATGATATGATTCTG
Found at i:15977315 original size:22 final size:22
Alignment explanation
Indices: 15977276--15977353 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
15977266 CTCGTATGAA
15977276 CTTACTGATTCAGCTCAAAAGAG
1 CTTACTG-TTCAGCTCAAAAGAG
* *
15977299 CTTACTGTTCAGGTCAATAGAG
1 CTTACTGTTCAGCTCAAAAGAG
* * **
15977321 CTTCCTGTTTCCAACTCAATCGAG
1 CTTACTG-TT-CAGCTCAAAAGAG
15977345 CTTACTGTT
1 CTTACTGTT
15977354 ATTAGTTCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 19 0.41
23 11 0.24
24 16 0.35
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (22 bp):
CTTACTGTTCAGCTCAAAAGAG
Found at i:15983523 original size:15 final size:15
Alignment explanation
Indices: 15983503--15983534 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
15983493 ATAGATTATT
15983503 TATGTGAAAGTGTAG
1 TATGTGAAAGTGTAG
15983518 TATGTGAAAGTGTAG
1 TATGTGAAAGTGTAG
15983533 TA
1 TA
15983535 AAGAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (15 bp):
TATGTGAAAGTGTAG
Found at i:15987671 original size:22 final size:23
Alignment explanation
Indices: 15987623--15987681 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
15987613 AACTCACCAT
* *
15987623 AGCTCGTATGAGCTTACTGATTC
1 AGCTCGAAAGAGCTTACTGATTC
15987646 AGCTCGAAAGAGCTTACTG-TTC
1 AGCTCGAAAGAGCTTACTGATTC
15987668 AGCTC-AAGAGAGCT
1 AGCTCGAA-AGAGCT
15987682 ATCCGTTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 2 0.06
22 14 0.42
23 17 0.52
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (23 bp):
AGCTCGAAAGAGCTTACTGATTC
Found at i:15992616 original size:14 final size:15
Alignment explanation
Indices: 15992597--15992629 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15992587 CATTTCAACT
*
15992597 TAAACC-TAATTCCA
1 TAAACCTTAATTACA
15992611 TAAACCTTAATTACA
1 TAAACCTTAATTACA
15992626 TAAA
1 TAAA
15992630 TCCATAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAACCTTAATTACA
Found at i:15996322 original size:15 final size:17
Alignment explanation
Indices: 15996291--15996322 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15996281 GTGGTGTGTC
15996291 CACAACACATGCAGGAT
1 CACAACACATGCAGGAT
15996308 CACAACA-AT-CAGGAT
1 CACAACACATGCAGGAT
15996323 GCTCTGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.44, C:0.28, G:0.16, T:0.12
Consensus pattern (17 bp):
CACAACACATGCAGGAT
Found at i:16004192 original size:5 final size:5
Alignment explanation
Indices: 16004184--16004226 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
16004174 ATAAAAAATC
16004184 TTATT TTATTT TTATT TTATT TATCATT TTATT TTGATT TTAT
1 TTATT TTA-TT TTATT TTATT T-T-ATT TTATT TT-ATT TTAT
16004227 GTTAAATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 18 0.53
6 12 0.35
7 4 0.12
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:16004200 original size:11 final size:11
Alignment explanation
Indices: 16004184--16004226 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
16004174 ATAAAAAATC
16004184 TTATTTTATTT
1 TTATTTTATTT
16004195 TTATTTTATTT
1 TTATTTTATTT
*
16004206 ATCATTTTATTT
1 -TTATTTTATTT
*
16004218 TGATTTTAT
1 TTATTTTAT
16004227 GTTAAATTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:16013491 original size:19 final size:20
Alignment explanation
Indices: 16013464--16013517 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 20
16013454 TTAGTTGTAA
*
16013464 TTAAACTTAATTA-TAT-AGT
1 TTAATCTTAATTATTATCA-T
16013483 TTAATCTTAATTAATTATCAT
1 TTAATCTTAATT-ATTATCAT
16013504 TTAATCTTTAATTA
1 TTAATC-TTAATTA
16013518 ACTAATGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 11 0.37
20 1 0.03
21 11 0.37
22 7 0.23
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (20 bp):
TTAATCTTAATTATTATCAT
Found at i:16013529 original size:21 final size:20
Alignment explanation
Indices: 16013482--16013521 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
16013472 AATTATATAG
*
16013482 TTTAATCTTAATTAATTATCA
1 TTTAATCTTAATTAACTA-CA
16013503 TTTAATCTTTAATTAACTA
1 TTTAATC-TTAATTAACTA
16013522 ATGTTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAATCTTAATTAACTACA
Found at i:16016228 original size:46 final size:47
Alignment explanation
Indices: 16016100--16016361 Score: 263
Period size: 46 Copynumber: 5.6 Consensus size: 47
16016090 AGGCCGACGC
* * * *
16016100 CATGTCCCAAACACGCTCTTACACTAGCTCTCACATATTCGT-GCCGATG
1 CATGTCCCAGACATG-TCTTACACTGGCTCT-ACAT-CTCGTAGCCGATG
* *
16016149 CCATGTCCCAGACATGGTCTTAGACT-G-AC-ACATCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTACATCTCGTAGCCGATG
*
16016195 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGTAGCCGATG
* * *
16016241 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTC-AATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * *
16016287 ACATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTACAT-CTCGTAGCCGATG
16016335 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
16016362 ACACAAATAA
Statistics
Matches: 187, Mismatches: 14, Indels: 26
0.82 0.06 0.11
Matches are distributed among these distances:
44 9 0.05
45 21 0.11
46 79 0.42
47 29 0.16
48 26 0.14
49 2 0.01
50 20 0.11
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTACATCTCGTAGCCGATG
Found at i:16016308 original size:94 final size:90
Alignment explanation
Indices: 16016142--16016364 Score: 254
Period size: 94 Copynumber: 2.4 Consensus size: 90
16016132 ACATATTCGT
* * *
16016142 GCCGATGCCATGTCCCAGACATGGTCTTAGACTGACACATCTCGTAGCCGATGCATGTCCCAGAC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCATAGCCAATGCATGTCCCAGAC
*
16016207 ATGTCTTACACTGGCT-TACAT-CTCGAA
64 ATGTCTTACACTGGCTCT-CATAAT-GAA
* *
16016234 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA-ATGCCAATGACATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCATA-GCCAATG-CATGTCCCAG
**
16016298 ACATGGTCTTACACTGGCTCTCATAATGTG
62 ACAT-GTCTTACACTGGCTCTCATAATGAA
* *
16016328 GCCAATGCATGTCCCAGACATGTCTTACACTGGCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACACA
16016365 CAAATAACCC
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
90 9 0.08
91 16 0.14
92 23 0.20
93 15 0.13
94 48 0.42
95 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCATAGCCAATGCATGTCCCAGACAT
GTCTTACACTGGCTCTCATAATGAA
Found at i:16016336 original size:140 final size:143
Alignment explanation
Indices: 16015993--16016361 Score: 393
Period size: 140 Copynumber: 2.6 Consensus size: 143
16015983 CATAGGGTAT
*
16015993 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT--CTATGCCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CAT-AAGTGCCAATG-CATGT
* * * *
16016056 CCTAGATATGGTCTTACACTGACTATCAAAATTGAGGCCGACGCCATGTCCCAAACACGCTCTTA
63 CCCAGACAT-GTCTTACACTGGCTAT-AAAATTGAAGCCGACGCCATGTCCCAAACACGCTCTTA
*
16016121 CACTAGCTCTCACATATTC
126 CACTAGCTCT-ACATACTC
* * * * * *
16016140 -GTGCCGATGCCATGTCCCAGACATGGTCTTAGACTGACACATC-T-CGTAGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAAGT-GCCAATGCATGTCC
* * * *
16016202 CAGACATGTCTTACACTGGCT-T-ACATCTCGAAGCCGATG-CATGTCCCAGACATG-TCTTACA
65 CAGACATGTCTTACACTGGCTATAAAAT-T-GAAGCCGACGCCATGTCCCAAACACGCTCTTACA
16016263 CTAGCTCT-CAT-CTC
128 CTAGCTCTACATACTC
* *
16016277 AATGCCAATGACATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCAATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAA-GT-GCCAATGCATGTC
16016341 CCAGACATGTCTTACACTGGC
64 CCAGACATGTCTTACACTGGC
16016362 ACACAAATAA
Statistics
Matches: 189, Mismatches: 24, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
137 4 0.02
138 38 0.20
140 53 0.28
141 14 0.07
142 11 0.06
143 13 0.07
144 13 0.07
145 5 0.03
146 38 0.20
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (143 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAAGTGCCAATGCATGTCCC
AGACATGTCTTACACTGGCTATAAAATTGAAGCCGACGCCATGTCCCAAACACGCTCTTACACTA
GCTCTACATACTC
Found at i:16020897 original size:6 final size:6
Alignment explanation
Indices: 16020866--16020914 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
16020856 CATATTTGCT
* * * *
16020866 ATCTGA ATCTAA ATCCGA TATTTGA ATCTGA ATCTGA ATCTGA AACTGA
1 ATCTGA ATCTGA ATCTGA -ATCTGA ATCTGA ATCTGA ATCTGA ATCTGA
16020915 GCATGTATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (6 bp):
ATCTGA
Found at i:16020897 original size:25 final size:26
Alignment explanation
Indices: 16020857--16020905 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
16020847 GGATTTTGGC
*
16020857 ATATTTGCTATCTGAATCTAAATCCG
1 ATATTTGCAATCTGAATCTAAATCCG
*
16020883 ATATTTG-AATCTGAATCTGAATC
1 ATATTTGCAATCTGAATCTAAATC
16020906 TGAAACTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (26 bp):
ATATTTGCAATCTGAATCTAAATCCG
Found at i:16045279 original size:21 final size:21
Alignment explanation
Indices: 16045230--16045296 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
16045220 CCTCTTTGAA
* * *
16045230 CCATAACCAATTCGTACCAAATA
1 CCAT-ACCATTTCATACC-AATT
*
16045253 CCATACTATTTCATACCAATT
1 CCATACCATTTCATACCAATT
*
16045274 CCATACCATTTCGTACCAATT
1 CCATACCATTTCATACCAATT
16045295 CC
1 CC
16045297 CAAATACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 24 0.63
22 10 0.26
23 4 0.11
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:16045600 original size:12 final size:13
Alignment explanation
Indices: 16045577--16045606 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
16045567 ACTCGAAGTC
16045577 AATTGTAAAAAAA
1 AATTGTAAAAAAA
16045590 AATTG-AAAAAAA
1 AATTGTAAAAAAA
16045602 AATTG
1 AATTG
16045607 CATACGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (13 bp):
AATTGTAAAAAAA
Found at i:16045905 original size:100 final size:101
Alignment explanation
Indices: 16045713--16045914 Score: 381
Period size: 100 Copynumber: 2.0 Consensus size: 101
16045703 TTTTACACCC
16045713 TTTTATATCCCCCGTAGTGAAATTTCACGCAATTAAAAAAAAAATTTCGATATAAAAAAAAAGTG
1 TTTTATATCCCCCGTAGTGAAATTTCACGCAATTAAAAAAAAAATTTCGATATAAAAAAAAAGTG
16045778 TTTCGAGTTTGTAAGTTTGGCATTTTCTTCCATTCA
66 TTTCGAGTTTGTAAGTTTGGCATTTTCTTCCATTCA
16045814 TTTTATATCCCCCGTAGTGAAATTTCACGCAATT-AAAAAAAAA-TTCGATATAAAAAAAAAAGT
1 TTTTATATCCCCCGTAGTGAAATTTCACGCAATTAAAAAAAAAATTTCGATAT-AAAAAAAAAGT
16045877 GTTTCGAGTTTGTAAGTTTGGCATTTTCTTCCATTCA
65 GTTTCGAGTTTGTAAGTTTGGCATTTTCTTCCATTCA
16045914 T
1 T
16045915 CTTCTAAGCC
Statistics
Matches: 100, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
99 8 0.08
100 58 0.58
101 34 0.34
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (101 bp):
TTTTATATCCCCCGTAGTGAAATTTCACGCAATTAAAAAAAAAATTTCGATATAAAAAAAAAGTG
TTTCGAGTTTGTAAGTTTGGCATTTTCTTCCATTCA
Found at i:16053033 original size:269 final size:269
Alignment explanation
Indices: 16052554--16053042 Score: 951
Period size: 269 Copynumber: 1.8 Consensus size: 269
16052544 CTGCACCTTG
16052554 TGATACGACCTCGGTTTAGTAGTTGAACCCGAGTCGTTTAGTTCCCGATCGTAAACGAAGAAGTA
1 TGATACGACCTCGGTTTAGTAGTTGAACCCGAGTCGTTTAGTTCCCGATCGTAAACGAAGAAGTA
16052619 TATTAGACCAGAAGAAGATAGAATATATTTGAGTTCAAAGAAGTAAAGTAAGTCCGTGCAAAGTT
66 TATTAGACCAGAAGAAGATAGAATATATTTGAGTTCAAAGAAGTAAAGTAAGTCCGTGCAAAGTT
16052684 GGATATGGATTTGGTTTAAGTCGAAATGGTATGACTAGAATGGTCGAGTTCGGTTTAGGATTAAT
131 GGATATGGATTTGGTTTAAGTCGAAATGGTATGACTAGAATGGTCGAGTTCGGTTTAGGATTAAT
16052749 TAAGAAATGGTATTTGGTTTTGGTATTGACTTCGAGTGCTCGTACTTCTCATTTTTACCAGCTCT
196 TAAGAAATGGTATTTGGTTTTGGTATTGACTTCGAGTGCTCGTACTTCTCATTTTTACCAGCTCT
16052814 GATACCAAA
261 GATACCAAA
* **
16052823 TGATACGATCTCGGTTTAGTAGTTGAGTCCGAGTCGTTTAGTTCCCGATCGTAAACGAAGAAGTA
1 TGATACGACCTCGGTTTAGTAGTTGAACCCGAGTCGTTTAGTTCCCGATCGTAAACGAAGAAGTA
16052888 TATTAGACCAGAAGAAGATAGAATATATTTGAGTTCAAAGAAGTAAAGTAAGTCCGTGCAAAGTT
66 TATTAGACCAGAAGAAGATAGAATATATTTGAGTTCAAAGAAGTAAAGTAAGTCCGTGCAAAGTT
16052953 GGATATGGATTTGGTTTAAGTCGAAATGGTATGACTAGAATGGTCGAGTTCGGTTTAGGATTAAT
131 GGATATGGATTTGGTTTAAGTCGAAATGGTATGACTAGAATGGTCGAGTTCGGTTTAGGATTAAT
16053018 TAAGAAATGGTATTTGGTTTTGGTA
196 TAAGAAATGGTATTTGGTTTTGGTA
16053043 CGCTTTGGTA
Statistics
Matches: 217, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
269 217 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (269 bp):
TGATACGACCTCGGTTTAGTAGTTGAACCCGAGTCGTTTAGTTCCCGATCGTAAACGAAGAAGTA
TATTAGACCAGAAGAAGATAGAATATATTTGAGTTCAAAGAAGTAAAGTAAGTCCGTGCAAAGTT
GGATATGGATTTGGTTTAAGTCGAAATGGTATGACTAGAATGGTCGAGTTCGGTTTAGGATTAAT
TAAGAAATGGTATTTGGTTTTGGTATTGACTTCGAGTGCTCGTACTTCTCATTTTTACCAGCTCT
GATACCAAA
Found at i:16053086 original size:22 final size:22
Alignment explanation
Indices: 16053056--16053102 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
16053046 TTTGGTATTT
16053056 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
16053078 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
16053100 GGG
1 GGG
16053103 TTCAAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:16060372 original size:24 final size:25
Alignment explanation
Indices: 16060345--16060398 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
16060335 ATGAGTGATA
*
16060345 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
16060369 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
16060393 AAAAAA
1 AAAAAA
16060399 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:16067394 original size:19 final size:19
Alignment explanation
Indices: 16067370--16067409 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16067360 AGCTCCCATG
16067370 TAGCTCCAAACCAGCTCAT
1 TAGCTCCAAACCAGCTCAT
***
16067389 TAGCTCGGGACCAGCTCAT
1 TAGCTCCAAACCAGCTCAT
16067408 TA
1 TA
16067410 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCAAACCAGCTCAT
Found at i:16068674 original size:14 final size:14
Alignment explanation
Indices: 16068657--16068698 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
16068647 ACCGACCAAA
*
16068657 TTGTTCATACCATT
1 TTGTTCCTACCATT
*
16068671 TTGTTCCTACCCTT
1 TTGTTCCTACCATT
*
16068685 TCGTTCCTACCATT
1 TTGTTCCTACCATT
16068699 CCATTCGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.14, C:0.31, G:0.07, T:0.48
Consensus pattern (14 bp):
TTGTTCCTACCATT
Found at i:16068845 original size:18 final size:17
Alignment explanation
Indices: 16068822--16068907 Score: 63
Period size: 18 Copynumber: 5.1 Consensus size: 17
16068812 TCGTATCACA
16068822 TTTTCTTTTTCATTCTCT
1 TTTTCTTTTTCATT-TCT
*
16068840 TTTTCTTTCTCTATTTCT
1 TTTTCTTTTTC-ATTTCT
** *
16068858 TTTTCACTTTCGTTTTCT
1 TTTTCTTTTTC-ATTTCT
*
16068876 TTTTC--TTTCTTTTC-
1 TTTTCTTTTTCATTTCT
*
16068890 TCTTCTTTTT-ATTTCT
1 TTTTCTTTTTCATTTCT
16068906 TT
1 TT
16068908 ACAACTTGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
14 4 0.07
15 9 0.16
16 8 0.15
18 31 0.56
19 3 0.05
ACGTcount: A:0.05, C:0.21, G:0.01, T:0.73
Consensus pattern (17 bp):
TTTTCTTTTTCATTTCT
Found at i:16068846 original size:6 final size:6
Alignment explanation
Indices: 16068822--16068883 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
16068812 TCGTATCACA
* * * * * * *
16068822 TTTTCT TTTTCA TTCTCT TTTTCT TTCTCT ATTTCT TTTTCA CTTTCG
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
16068870 TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TT
16068884 CTTTTCTCTT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTCT
Found at i:16069873 original size:34 final size:34
Alignment explanation
Indices: 16069808--16069874 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
16069798 TACAACAAAA
* **
16069808 AATCTCAACACATGAATTTTTTTTGAATTTTTTT
1 AATCCCAACACATGAATTTTTTTAAAATTTTTTT
*
16069842 AATCCCAATACATGAA-TTTTTTAAAATTTTTTT
1 AATCCCAACACATGAATTTTTTTAAAATTTTTTT
16069875 CACTACATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 15 0.52
34 14 0.48
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (34 bp):
AATCCCAACACATGAATTTTTTTAAAATTTTTTT
Found at i:16070106 original size:14 final size:14
Alignment explanation
Indices: 16070089--16070128 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
16070079 CGAATGGAAT
*
16070089 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
16070103 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
16070117 GATATGAACAAA
1 GGTAGGAACAAA
16070129 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Done.