Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 50 of 349
Found at i:14328722 original size:18 final size:18
Alignment explanation
Indices: 14328688--14328742 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 18
14328678 ACTTGTGAAA
14328688 AATAATATATAATAAATAAT
1 AATAATA-AT-ATAAATAAT
14328708 AATAATAATATAAATAAT
1 AATAATAATATAAATAAT
14328726 -AT-ATAATATAAA-AAT
1 AATAATAATATAAATAAT
14328741 AA
1 AA
14328743 GGTTAAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.09
16 11 0.32
17 2 0.06
18 9 0.26
19 2 0.06
20 7 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATAATATAAATAAT
Found at i:14328790 original size:18 final size:19
Alignment explanation
Indices: 14328750--14328800 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
14328740 TAAGGTTAAA
*
14328750 GATAAAACAAAT-TACAAT
1 GATAAAAAAAATATACAAT
*
14328768 TATAAAAAAAATATAC-AT
1 GATAAAAAAAATATACAAT
* *
14328786 GATAATAAATATATA
1 GATAAAAAAAATATA
14328801 TATATAGGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (19 bp):
GATAAAAAAAATATACAAT
Found at i:14333714 original size:27 final size:27
Alignment explanation
Indices: 14333674--14333741 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
14333664 AGATTCCAAT
*
14333674 CAAACACACCAGAACAAAGAATCCTTC
1 CAAACACACCAGAACAAAGAATCATTC
* * *
14333701 CAAACACACTAGAATAAATAATCATTC
1 CAAACACACCAGAACAAAGAATCATTC
*
14333728 CAAACACAACAGAA
1 CAAACACACCAGAA
14333742 AGGCATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.53, C:0.28, G:0.06, T:0.13
Consensus pattern (27 bp):
CAAACACACCAGAACAAAGAATCATTC
Found at i:14334925 original size:18 final size:18
Alignment explanation
Indices: 14334882--14334928 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
14334872 CTTGTCCTGA
* *
14334882 TTTAATTTAATTTATTTG
1 TTTAATATAATTTATATG
*
14334900 TTTTATATAATTTAATAT-
1 TTTAATATAATTT-ATATG
14334918 TTTAATATAAT
1 TTTAATATAAT
14334929 AAAAATCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTAATATAATTTATATG
Found at i:14336536 original size:40 final size:40
Alignment explanation
Indices: 14336481--14336556 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
14336471 GTACGGTACC
*
14336481 ACTTGGTGTGTAGGGTTGGATGGGTTGATTCTATCCCCAT
1 ACTTGGTGTGTAGGGTTGGATGGGTCGATTCTATCCCCAT
* *
14336521 ACTTGGTGTGTAGGGTTGGGTGGGTCGATTTTATCC
1 ACTTGGTGTGTAGGGTTGGATGGGTCGATTCTATCC
14336557 TCAAATGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.13, C:0.13, G:0.36, T:0.38
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGTTGGATGGGTCGATTCTATCCCCAT
Found at i:14336576 original size:38 final size:40
Alignment explanation
Indices: 14336484--14336578 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
14336474 CGGTACCACT
* *
14336484 TGGTGTGTAGGGTTGGATGGGTTGATTCTATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTCTATCCCCATACA
* * *
14336524 TGGTGTGTAGGGTTGGGTGGGTCGATTTTATCCTCA-A-A
1 TGGTGTGTAGGGTTGGATGGGTCGATTCTATCCCCATACA
14336562 TGGTGTGTTA-GGTTGGA
1 TGGTGTG-TAGGGTTGGA
14336579 CGGAGTTGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 13 0.27
39 3 0.06
40 32 0.67
ACGTcount: A:0.15, C:0.11, G:0.37, T:0.38
Consensus pattern (40 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTCTATCCCCATACA
Found at i:14338230 original size:23 final size:23
Alignment explanation
Indices: 14338198--14338314 Score: 103
Period size: 23 Copynumber: 5.0 Consensus size: 23
14338188 CAAAGAACTA
*
14338198 TATCAGGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * * *
14338221 TATCGAGAAGCTC-TGGATAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * *
14338243 ATATATCGGGAAGTTCAAG-CGAGCAC
1 ---TATCGGGAAGCTCACGAAGAGC-C
*
14338269 TATCGGGAAGCTCACAAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
14338292 TATCGGGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
14338315 ATATATCGGG
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
22 6 0.08
23 47 0.64
24 4 0.05
25 14 0.19
26 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.16
Consensus pattern (23 bp):
TATCGGGAAGCTCACGAAGAGCC
Found at i:14340503 original size:18 final size:20
Alignment explanation
Indices: 14340476--14340524 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
14340466 TAATTAATAA
* *
14340476 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
14340497 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
14340517 T-AAATAAT
1 TAAAATAAT
14340525 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:14340513 original size:20 final size:21
Alignment explanation
Indices: 14340476--14340535 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
14340466 TAATTAATAA
*
14340476 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
14340497 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
14340517 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
14340536 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:14355925 original size:41 final size:40
Alignment explanation
Indices: 14355872--14356017 Score: 202
Period size: 41 Copynumber: 3.6 Consensus size: 40
14355862 CTTTCTCAAA
*
14355872 TCGCACACTAAGTGCCATATATAGCCGAAGTTATCTCGACC
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGA-C
* *
14355913 TCGCACACTAAGTGCCATATATAGTCGAAGCTATCTTGATC
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGA-C
* * * *
14355954 TCGCACACTAAATGACATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAC
*
14355994 TCGCACACTAAGTGCCACATATAG
1 TCGCACACTAAGTGCCATATATAG
14356018 TTGATTTGTC
Statistics
Matches: 92, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 21 0.23
41 71 0.77
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAC
Found at i:14360173 original size:20 final size:21
Alignment explanation
Indices: 14360125--14360173 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
14360115 TACTAACATG
* *
14360125 TATATAC-TATATATTTTTAT
1 TATATACGTATACATTTTCAT
14360145 TATATTACGTATACATTTTCA-
1 TATA-TACGTATACATTTTCAT
14360166 TATATACG
1 TATATACG
14360174 CCATGCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 7 0.28
22 10 0.40
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (21 bp):
TATATACGTATACATTTTCAT
Found at i:14362527 original size:27 final size:26
Alignment explanation
Indices: 14362472--14362575 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 26
14362462 CTGCCATAAT
* *
14362472 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGA-AC
14362499 AGATAATCGTGGCAGAGCCACCAGAAC
1 AGATAAT-GTGGCAGAGCCACCAGAAC
*
14362526 AGATATATGTGGCAGAGCCACCAGATC
1 AGATA-ATGTGGCAGAGCCACCAGAAC
* *
14362553 AGATATTTGTGGCATAGCCACCA
1 AGATA-ATGTGGCAGAGCCACCA
14362576 TAACGCTTCC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
27 53 0.76
28 17 0.24
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
AGATAATGTGGCAGAGCCACCAGAAC
Found at i:14362565 original size:54 final size:54
Alignment explanation
Indices: 14362472--14362575 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
14362462 CTGCCATAAT
*
14362472 AGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
1 AGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
* * * *
14362526 AGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCATAGCCACCA
1 AGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCA
14362576 TAACGCTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 26 0.59
55 18 0.41
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
AGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
Found at i:14364228 original size:26 final size:26
Alignment explanation
Indices: 14364188--14364297 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
14364178 CATGAAATTC
*
14364188 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
14364214 TTATCAT-GAAGCATTTACCTAACCCA
1 TTATCATGGAA-CATTTACCTAACCCA
*
14364240 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
* *
14364266 TTATCATGGAACATATACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
14364292 TTATCA
1 TTATCA
14364298 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
25 2 0.03
26 74 0.94
27 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:14370565 original size:27 final size:26
Alignment explanation
Indices: 14370528--14370642 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
14370518 AGCATGGCTG
* *
14370528 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
14370554 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
14370582 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
14370609 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
14370636 CCAGAAC
1 CCAGAAC
14370643 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:14370587 original size:54 final size:54
Alignment explanation
Indices: 14370528--14370642 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
14370518 AGCATGGCTG
* *
14370528 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
14370582 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
14370636 CCAGAAC
1 CCAGAAC
14370643 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:14372296 original size:26 final size:26
Alignment explanation
Indices: 14372260--14372369 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
14372250 CATGAAATTC
14372260 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14372286 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
14372312 TTATCATGGAGCATTTATCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
14372338 TTATCATGGAACATATACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14372364 TTATCA
1 TTATCA
14372370 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14380932 original size:32 final size:34
Alignment explanation
Indices: 14380896--14380960 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
14380886 TACAAGTGGT
*
14380896 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
14380928 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
14380961 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:14381316 original size:26 final size:26
Alignment explanation
Indices: 14381270--14381322 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
14381260 TCAAACATGC
*
14381270 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
14381296 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
14381322 A
1 A
14381323 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:14382839 original size:26 final size:26
Alignment explanation
Indices: 14382808--14382915 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
14382798 TGAAATGCCC
14382808 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
14382834 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
14382860 ATCATGGAATATTTACCCAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
14382886 ATCATGGAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
14382912 ATCA
1 ATCA
14382916 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 2 0.03
26 72 0.97
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:14383995 original size:47 final size:47
Alignment explanation
Indices: 14383920--14384050 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
14383910 CACAATTGAT
* *
14383920 AAGTATCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
* * * * *
14383967 GAGTACCTATACAATGGCCCATAGCCAAATCAAGGTAGCTCCTCTCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
* *
14384014 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
14384051 TTATTAACAC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
Found at i:14389320 original size:17 final size:17
Alignment explanation
Indices: 14389279--14389344 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
14389269 CTTCGCAACT
***
14389279 TTGATGAGCTCACAGCC
1 TTGATGAGCTCACAAAA
*
14389296 TTGGTGAGCTCACAAAA
1 TTGATGAGCTCACAAAA
** * *
14389313 TTGATGAGCTCGTACAT
1 TTGATGAGCTCACAAAA
14389330 TTGATGAGCTCACAA
1 TTGATGAGCTCACAA
14389345 TCTTAGTGAG
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (17 bp):
TTGATGAGCTCACAAAA
Found at i:14389401 original size:35 final size:35
Alignment explanation
Indices: 14389313--14389417 Score: 101
Period size: 34 Copynumber: 3.1 Consensus size: 35
14389303 GCTCACAAAA
* * *
14389313 TTGATGAGCTCGTACATTT-GATGAGCTCACAATCT
1 TTGATGAGCTCGTACCTTTGGGTAAGCTCAC-ATCT
* *
14389348 TAG-TGAGCTC-TCAACTTTGGGTAAGCTCACATCT
1 TTGATGAGCTCGT-ACCTTTGGGTAAGCTCACATCT
* *
14389382 TTGATGAGCTCGTACCTTTGGG-AAGTTCGCATCT
1 TTGATGAGCTCGTACCTTTGGGTAAGCTCACATCT
14389416 TT
1 TT
14389418 ACGACTTGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
33 1 0.02
34 29 0.51
35 26 0.46
36 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (35 bp):
TTGATGAGCTCGTACCTTTGGGTAAGCTCACATCT
Found at i:14392816 original size:26 final size:26
Alignment explanation
Indices: 14392787--14392890 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
14392777 ATTCCCATCT
*
14392787 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
14392813 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
14392839 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
14392865 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
14392891 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:14393528 original size:18 final size:18
Alignment explanation
Indices: 14393500--14393546 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
14393490 AATTTAAAAC
14393500 TTTTAATAAATAAATTTAA
1 TTTTAA-AAATAAATTTAA
**
14393519 TTTTAAAAATATTTTTAA
1 TTTTAAAAATAAATTTAA
*
14393537 TATTAAAAAT
1 TTTTAAAAAT
14393547 TTATAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAAAATAAATTTAA
Found at i:14398055 original size:24 final size:23
Alignment explanation
Indices: 14397995--14398055 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
14397985 TTATATATTC
*
14397995 AAATTAAATTTTACAAATAATTT
1 AAATTAAATTTTAAAAATAATTT
* *
14398018 ATATTAATTATTTAAAAAT-ATTT
1 AAATTAAAT-TTTAAAAATAATTT
14398041 AAAATTTAAATTTTA
1 -AAA-TTAAATTTTA
14398056 TATATCATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
23 11 0.37
24 14 0.47
25 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATTAAATTTTAAAAATAATTT
Found at i:14401037 original size:26 final size:26
Alignment explanation
Indices: 14401008--14401060 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14400998 TTTACAGTTT
14401008 TACCCCTAGGAGATAAATT-ACTGAAA
1 TACCCCTAGG-GATAAATTGACTGAAA
* *
14401034 TACCCCTAGGGTTAAATTGACTTAAA
1 TACCCCTAGGGATAAATTGACTGAAA
14401060 T
1 T
14401061 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACTGAAA
Found at i:14406552 original size:26 final size:26
Alignment explanation
Indices: 14406523--14406626 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
14406513 TGGTACAAAT
14406523 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
14406549 TGATAATGGATTAGGTTAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14406575 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14406601 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14406627 AGATGGGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14412479 original size:40 final size:40
Alignment explanation
Indices: 14412405--14412493 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
14412395 GTTGAATAGT
* * *
14412405 TATCAAAACTATTGAATCATATGAGCTTATGAGCCATACC
1 TATCAAAACTATTGAATCATATAAGCCTAAGAGCCATACC
* **
14412445 TATCGAAACTATTGAATTGTATAAGCCTAAGAGCCATACC
1 TATCAAAACTATTGAATCATATAAGCCTAAGAGCCATACC
14412485 TATCAAAAC
1 TATCAAAAC
14412494 CACTAAATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (40 bp):
TATCAAAACTATTGAATCATATAAGCCTAAGAGCCATACC
Found at i:14426778 original size:2 final size:2
Alignment explanation
Indices: 14426771--14426919 Score: 91
Period size: 2 Copynumber: 74.5 Consensus size: 2
14426761 AATCACCTCA
* * * * *
14426771 AT AT AT AT AT AT AT GT GT GT AT AT AT AT AT GT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * *
14426813 AC AT AT AT AT AC AC AC AC AT AT AT AT AT AC AT AT AT TT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
14426855 AT AT AT AT AT GT GT GT GT AT AT AT AT GT GT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
14426897 AT AT AT AT AC AC AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
14426920 CATACTTTGA
Statistics
Matches: 125, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 125 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (2 bp):
AT
Found at i:14429344 original size:14 final size:15
Alignment explanation
Indices: 14429327--14429355 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14429317 TCACAAAAAT
14429327 TTCACACAT-ATAAA
1 TTCACACATAATAAA
14429341 TTCACACATAATAAA
1 TTCACACATAATAAA
14429356 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:14439669 original size:55 final size:55
Alignment explanation
Indices: 14439610--14439726 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 55
14439600 TGTTTATAAG
* * *
14439610 CCGTGGTAGAAACTGATAAATTAACAC-AGGAGTGCAACACGTCCATGCTCACCAC
1 CCGTGGTAGAAACTGAGAAATTAACACGA-GAGTGCAACACGCCCATGCCCACCAC
** * * * * *
14439665 CCGTGGTCTACACTGCGAAATTAACACGAGCGTGCGACACGCCCATGCCCACTAC
1 CCGTGGTAGAAACTGAGAAATTAACACGAGAGTGCAACACGCCCATGCCCACCAC
14439720 CCGTGGT
1 CCGTGGT
14439727 TGAATCCTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 50 0.98
56 1 0.02
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (55 bp):
CCGTGGTAGAAACTGAGAAATTAACACGAGAGTGCAACACGCCCATGCCCACCAC
Found at i:14445996 original size:42 final size:42
Alignment explanation
Indices: 14445946--14446072 Score: 116
Period size: 43 Copynumber: 3.0 Consensus size: 42
14445936 CAATGCCTTC
*
14445946 GTCCCAGACAGGGTCTTACACGAAATCAGATACGATGTCAAT
1 GTCCCAGACACGGTCTTACACGAAATCAGATACGATGTCAAT
* * *** *
14445988 GTCCCAGACATGGTCTTATACGTAAATCTCA-AT-CGAACCCTAT
1 GTCCCAGACACGGTCTTACACG-AAA--TCAGATACGATGTCAAT
*
14446031 GTCCCAGACACGGTCTTACACGATATCTCAGATA-GATGTCAA
1 GTCCCAGACACGGTCTTACACGA-A-ATCAGATACGATGTCAA
14446073 CCTTCCTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
42 24 0.37
43 36 0.55
44 2 0.03
45 3 0.05
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
GTCCCAGACACGGTCTTACACGAAATCAGATACGATGTCAAT
Found at i:14454033 original size:41 final size:41
Alignment explanation
Indices: 14453988--14454171 Score: 314
Period size: 41 Copynumber: 4.5 Consensus size: 41
14453978 ACAATAGTGA
14453988 CGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTTTAGCGG
1 CGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTTTAGCGG
14454029 CGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTTTAGCGG
1 CGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTTTAGCGG
* * * *
14454070 TGCTTATGGAAAAACGCCGTTATAGGCCGATGTTTTAGCGG
1 CGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTTTAGCGG
*
14454111 CGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTTTAGCGG
1 CGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTTTAGCGG
*
14454152 CGCTTATGGAAAAACGCCGC
1 CGCTTTTGGAAAAACGCCGC
14454172 AAAAAAGTAA
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (41 bp):
CGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTTTAGCGG
Found at i:14454511 original size:18 final size:18
Alignment explanation
Indices: 14454483--14454530 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
14454473 CCTTGTTATA
14454483 TATATATATATATTAA-ACT
1 TATA-ATATATATTAAGA-T
*
14454502 TCTAATATATATTAAGAT
1 TATAATATATATTAAGAT
14454520 TATAATATATA
1 TATAATATATA
14454531 ATTAGGGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
TATAATATATATTAAGAT
Found at i:14454972 original size:15 final size:15
Alignment explanation
Indices: 14454952--14454983 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14454942 TTTAATGTAG
*
14454952 AAGATAAATGTATAT
1 AAGATAAATATATAT
14454967 AAGATAAATATATAT
1 AAGATAAATATATAT
14454982 AA
1 AA
14454984 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:14455022 original size:24 final size:23
Alignment explanation
Indices: 14454955--14455022 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
14454945 AATGTAGAAG
* *
14454955 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
14454980 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
14455004 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
14455023 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:14459841 original size:24 final size:24
Alignment explanation
Indices: 14459814--14459881 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
14459804 ATTATTATTG
* *
14459814 AAATATTCTCGTCTGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
14459838 AAATATTATTC-TCCATTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
14459862 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
14459882 CCATTTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.05
24 34 0.89
25 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:14460102 original size:15 final size:15
Alignment explanation
Indices: 14460058--14460113 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
14460048 AACGACATGT
14460058 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
14460074 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
14460087 ATATTATTTAATTAA
1 ATATTATTTAATTAA
14460102 ATATTATTTAAT
1 ATATTATTTAAT
14460114 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:14460230 original size:9 final size:9
Alignment explanation
Indices: 14460218--14460443 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
14460208 TATTTGATAT
*
14460218 CATAATTTA
1 CATAACTTA
14460227 CATAACTTA
1 CATAACTTA
* *
14460236 TATAACATA
1 CATAACTTA
*
14460245 TATAACTTA
1 CATAACTTA
14460254 CATAACTTA
1 CATAACTTA
* *
14460263 TATAACATA
1 CATAACTTA
14460272 CATAACTTA
1 CATAACTTA
*
14460281 TATAACTTA
1 CATAACTTA
*
14460290 TATAACTTA
1 CATAACTTA
* *
14460299 GATAA-ATA
1 CATAACTTA
*
14460307 TATAACTTA
1 CATAACTTA
14460316 CATAACTTA
1 CATAACTTA
14460325 CATAATACTTA
1 CAT-A-ACTTA
* *
14460336 AATATATTTTATA
1 CATA-A--CT-TA
*
14460349 TCATAATTTA
1 -CATAACTTA
14460359 CATAACTTA
1 CATAACTTA
14460368 CATAACTTA
1 CATAACTTA
*
14460377 TATAACTTA
1 CATAACTTA
* *
14460386 GATAA-ATA
1 CATAACTTA
* *
14460394 TATAATTTA
1 CATAACTTA
*
14460403 CATAA-ATA
1 CATAACTTA
* * *
14460411 TATATCATA
1 CATAACTTA
*
14460420 TCATAAATTA
1 -CATAACTTA
14460430 CATAACTTA
1 CATAACTTA
14460439 CATAA
1 CATAA
14460444 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:14460240 original size:18 final size:18
Alignment explanation
Indices: 14460218--14460443 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
14460208 TATTTGATAT
* *
14460218 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
14460236 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
14460254 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
14460272 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
14460290 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
14460307 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
14460325 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
14460349 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
14460368 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
14460386 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
14460403 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
14460420 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
14460439 CATAA
1 CATAA
14460444 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:14460431 original size:114 final size:114
Alignment explanation
Indices: 14460246--14460467 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
14460236 TATAACATAT
* * *
14460246 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
14460311 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
14460360 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
14460423 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
14460468 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:14466537 original size:45 final size:43
Alignment explanation
Indices: 14466487--14466610 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 43
14466477 ATCTGCCAAA
*
14466487 TTAGCGGCGTTTTGTAAAAAAAAGCGCCGCTAAAAGCCTTGACCT
1 TTAGCGGCGTTTT-T-AAAAAAAGCGCCGCCAAAAGCCTTGACCT
* *** * *
14466532 TTAGCGGCGGTTTTCCCACAAGCGCTGCCAAAAGCCTTGACCT
1 TTAGCGGCGTTTTTAAAAAAAGCGCCGCCAAAAGCCTTGACCT
* ** * *
14466575 TTAGCGGCGGTTTT-CCACAAGCGCCGCTAAAAGCCT
1 TTAGCGGCGTTTTTAAAAAAAGCGCCGCCAAAAGCCT
14466611 NNNNNNNNNN
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 20 0.29
43 37 0.53
44 1 0.01
45 12 0.17
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (43 bp):
TTAGCGGCGTTTTTAAAAAAAGCGCCGCCAAAAGCCTTGACCT
Found at i:14466607 original size:42 final size:43
Alignment explanation
Indices: 14466508--14466610 Score: 181
Period size: 43 Copynumber: 2.4 Consensus size: 43
14466498 TTGTAAAAAA
14466508 AAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGGTTTTCCCAC
1 AAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGGTTTTCCCAC
* *
14466551 AAGCGCTGCCAAAAGCCTTGACCTTTAGCGGCGGTTTT-CCAC
1 AAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGGTTTTCCCAC
14466593 AAGCGCCGCTAAAAGCCT
1 AAGCGCCGCTAAAAGCCT
14466611 NNNNNNNNNN
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
42 20 0.36
43 36 0.64
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.21
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGCCTTGACCTTTAGCGGCGGTTTTCCCAC
Found at i:14470149 original size:24 final size:24
Alignment explanation
Indices: 14470122--14470189 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
14470112 ATTATTATTG
* *
14470122 AAATATTCTCGTCTGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
14470146 AAATATTATTC-TCCATTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
14470170 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
14470190 CCATTTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.05
24 34 0.89
25 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:14470408 original size:15 final size:15
Alignment explanation
Indices: 14470365--14470419 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
14470355 AACGACATGT
14470365 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* *
14470380 A-ATAATTTTA-TAA
1 ATATTATTTAATTAA
14470393 ATATTATTTAATTAA
1 ATATTATTTAATTAA
14470408 ATATTATTTAAT
1 ATATTATTTAAT
14470420 CCCGCTACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 4 0.12
14 14 0.41
15 16 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:14470536 original size:9 final size:9
Alignment explanation
Indices: 14470524--14470749 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
14470514 TATTTGATAT
*
14470524 CATAATTTA
1 CATAACTTA
14470533 CATAACTTA
1 CATAACTTA
* *
14470542 TATAACATA
1 CATAACTTA
*
14470551 TATAACTTA
1 CATAACTTA
14470560 CATAACTTA
1 CATAACTTA
* *
14470569 TATAACATA
1 CATAACTTA
14470578 CATAACTTA
1 CATAACTTA
*
14470587 TATAACTTA
1 CATAACTTA
*
14470596 TATAACTTA
1 CATAACTTA
* *
14470605 GATAA-ATA
1 CATAACTTA
*
14470613 TATAACTTA
1 CATAACTTA
14470622 CATAACTTA
1 CATAACTTA
14470631 CATAATACTTA
1 CAT-A-ACTTA
* *
14470642 AATATATTTTATA
1 CATA-A--CT-TA
*
14470655 TCATAATTTA
1 -CATAACTTA
14470665 CATAACTTA
1 CATAACTTA
14470674 CATAACTTA
1 CATAACTTA
*
14470683 TATAACTTA
1 CATAACTTA
* *
14470692 GATAA-ATA
1 CATAACTTA
* *
14470700 TATAATTTA
1 CATAACTTA
*
14470709 CATAA-ATA
1 CATAACTTA
* * *
14470717 TATATCATA
1 CATAACTTA
*
14470726 TCATAAATTA
1 -CATAACTTA
14470736 CATAACTTA
1 CATAACTTA
14470745 CATAA
1 CATAA
14470750 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:14470546 original size:18 final size:18
Alignment explanation
Indices: 14470524--14470749 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
14470514 TATTTGATAT
* *
14470524 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
14470542 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
14470560 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
14470578 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
14470596 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
14470613 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
14470631 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
14470655 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
14470674 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
14470692 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
14470709 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
14470726 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
14470745 CATAA
1 CATAA
14470750 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:14470737 original size:114 final size:114
Alignment explanation
Indices: 14470552--14470773 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
14470542 TATAACATAT
* * *
14470552 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
14470617 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
14470666 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
14470729 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
14470774 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:14476823 original size:43 final size:42
Alignment explanation
Indices: 14476771--14476999 Score: 255
Period size: 43 Copynumber: 5.3 Consensus size: 42
14476761 ATCTGCCAAA
**
14476771 TTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGTTT-TCCAAAAAGCGCCGCTAAAAGCCTTGACC
* * * *
14476814 TTTAGCGGCGGTTTTCCCACAAGCGCTGCCAAAAGCCTTGACC
1 TTTAGCGGC-GTTTTCCAAAAAGCGCCGCTAAAAGCCTTGACC
* *
14476857 TTTAGCGGCGGTTTTCCCACAAGCGCCGCTAAAAGCCTTGACC
1 TTTAGCGGC-GTTTTCCAAAAAGCGCCGCTAAAAGCCTTGACC
* * *
14476900 TTTAGGGGTGCTTTTCCCACAAA-CGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCG-TTTT-CCAAAAAGCGCCGCTAAAAGCCTTGACC
* *
14476943 TTTAGCGGCGCTTTTTCTACAAA-CGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCG--TTTTCCAAAAAGCGCCGCTAAAAGCCTTGACC
*
14476986 TTTAGCGGTGTTTT
1 TTTAGCGGCGTTTT
14477000 TTTCCAATAA
Statistics
Matches: 164, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
41 4 0.02
42 1 0.01
43 147 0.90
44 12 0.07
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTTCCAAAAAGCGCCGCTAAAAGCCTTGACC
Found at i:14477001 original size:43 final size:43
Alignment explanation
Indices: 14476794--14476993 Score: 310
Period size: 43 Copynumber: 4.7 Consensus size: 43
14476784 GTAAAAAAAG
* *
14476794 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGGTTTTCCCACAAG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* * * *
14476837 CGCTGCCAAAAGCCTTGACCTTTAGCGGCGGTTTTCCCACAAG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
14476880 CGCCGCTAAAAGCCTTGACCTTTAGGGGTGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
14476923 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTTCTACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
14476966 CGCCGCTAAAAGCCTTGACCTTTAGCGG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGG
14476994 TGTTTTTTTC
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:14480127 original size:15 final size:16
Alignment explanation
Indices: 14480107--14480143 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
14480097 TTAATTTTTT
14480107 TAAAATATAAAAAT-A
1 TAAAATATAAAAATAA
*
14480122 TAAAATATTAAAATAA
1 TAAAATATAAAAATAA
14480138 TAAAAT
1 TAAAAT
14480144 TATATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATATAAAAATAA
Found at i:14489123 original size:142 final size:142
Alignment explanation
Indices: 14488867--14489154 Score: 567
Period size: 142 Copynumber: 2.0 Consensus size: 142
14488857 GTTTAAAGAC
14488867 CTTGACAGGTCATTGAAGCCGAAAGTCAGGATAGGAAATGGAGAATACCTAGAAGTGAAGGAAGA
1 CTTGACAGGTCATTGAAGCCGAAAGTCAGGATAGGAAATGGAGAATACCTAGAAGTGAAGGAAGA
14488932 GGCACAGTAGCAATAGAGAGCTGTACTGGAACTAAGTTGATTTCAGATGTTCTATTTGTACCTTA
66 GGCACAGTAGCAATAGAGAGCTGTACTGGAACTAAGTTGATTTCAGATGTTCTATTTGTACCTTA
14488997 GATTGATCAAAA
131 GATTGATCAAAA
*
14489009 CTTGACAGGTCATTGAAGCTGAAAGTCAGGATAGGAAATGGAGAATACCTAGAAGTGAAGGAAGA
1 CTTGACAGGTCATTGAAGCCGAAAGTCAGGATAGGAAATGGAGAATACCTAGAAGTGAAGGAAGA
14489074 GGCACAGTAGCAATAGAGAGCTGTACTGGAACTAAGTTGATTTCAGATGTTCTATTTGTACCTTA
66 GGCACAGTAGCAATAGAGAGCTGTACTGGAACTAAGTTGATTTCAGATGTTCTATTTGTACCTTA
14489139 GATTGATCAAAA
131 GATTGATCAAAA
14489151 CTTG
1 CTTG
14489155 TTGAGTGTGG
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 145 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.25
Consensus pattern (142 bp):
CTTGACAGGTCATTGAAGCCGAAAGTCAGGATAGGAAATGGAGAATACCTAGAAGTGAAGGAAGA
GGCACAGTAGCAATAGAGAGCTGTACTGGAACTAAGTTGATTTCAGATGTTCTATTTGTACCTTA
GATTGATCAAAA
Found at i:14495889 original size:21 final size:20
Alignment explanation
Indices: 14495847--14495889 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
14495837 TGCCTTTCTT
*
14495847 TTTCTTTTTCTTTGTTTTTA
1 TTTCTTTTTCTTTGTTTATA
14495867 TTTCTTTATTCTTT-TATTATA
1 TTTCTTT-TTCTTTGT-TTATA
14495888 TT
1 TT
14495890 ATTAACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTCTTTTTCTTTGTTTATA
Found at i:14495913 original size:12 final size:15
Alignment explanation
Indices: 14495881--14495940 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
14495871 TTTATTCTTT
14495881 TATTATATTATTAAC
1 TATTATATTATTAAC
14495896 TATTATATT-TT-AC
1 TATTATATTATTAAC
14495909 TTTATTATATTATTTAA-
1 --TATTATATTA-TTAAC
14495926 TAATTATAATTATTA
1 T-ATTAT-ATTATTA
14495941 TTTCTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 2 0.05
14 2 0.05
15 19 0.50
16 8 0.21
17 6 0.16
18 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATATTATTAAC
Found at i:14509635 original size:68 final size:65
Alignment explanation
Indices: 14509421--14509635 Score: 188
Period size: 67 Copynumber: 3.3 Consensus size: 65
14509411 CATAATTTTG
* * * *
14509421 GCTCTCTTGTACACATGGTGAACACTTAGTATCACCCATGTGACCTAGCCACT--TTATCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACTCATTATCTCGTA
** * * * * * * *
14509484 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTA--CATTTATCT
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACTCA-TTATCT
14509547 CGTA
62 CGTA
*
14509551 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTA-CTCAT--TATCT
14509615 CGTA
62 CGTA
*
14509619 TCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
14509636 ATGTGCACTC
Statistics
Matches: 117, Mismatches: 22, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
63 18 0.15
64 24 0.21
66 22 0.19
67 30 0.26
68 22 0.19
69 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACTCATTATCTCGTA
Found at i:14511711 original size:18 final size:18
Alignment explanation
Indices: 14511690--14511724 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14511680 CTGAATAGTT
*
14511690 GACTGTTACAGAATAAAC
1 GACTGATACAGAATAAAC
*
14511708 GACTGATACTGAATAAA
1 GACTGATACAGAATAAA
14511725 TGAATATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
GACTGATACAGAATAAAC
Found at i:14515409 original size:13 final size:13
Alignment explanation
Indices: 14515391--14515419 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14515381 TAATTAAAAT
14515391 AAATGAAATAAAG
1 AAATGAAATAAAG
14515404 AAATGAAATAAAG
1 AAATGAAATAAAG
14515417 AAA
1 AAA
14515420 AAGGAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAATGAAATAAAG
Found at i:14520074 original size:61 final size:61
Alignment explanation
Indices: 14519981--14520143 Score: 174
Period size: 60 Copynumber: 2.7 Consensus size: 61
14519971 ACTAGGTCTA
* * *
14519981 AGCCCTATTCAGAAATCAGAGT-TATCTAGGCCTTAGCCCATATCACTATTAATCTGGGCCAT
1 AGCCCTATT-ACAAATCAGAGTATA-CTGGGCCTTAGCCCATATCACTATCAATCTGGGCCAT
* * * *
14520043 AGCCC-CTTACAATATCAGAGTATACTGGGCC-TAGCCCATATCAGTATCAATCTGGGTCGT
1 AGCCCTATTACAA-ATCAGAGTATACTGGGCCTTAGCCCATATCACTATCAATCTGGGCCAT
* *
14520103 AGCCCTATTACAAGTCA-AGATATATTGGGCCTT-GCCCATAT
1 AGCCCTATTACAAATCAGAG-TATACTGGGCCTTAGCCCATAT
14520144 TAACACAGTT
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
59 2 0.02
60 54 0.63
61 23 0.27
62 7 0.08
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (61 bp):
AGCCCTATTACAAATCAGAGTATACTGGGCCTTAGCCCATATCACTATCAATCTGGGCCAT
Found at i:14520825 original size:8 final size:8
Alignment explanation
Indices: 14520796--14520828 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
14520786 TCTCGAAATG
14520796 TCGGCTTT
1 TCGGCTTT
14520804 TCGGCATTT
1 TCGGC-TTT
14520813 T-GGCTTT
1 TCGGCTTT
14520820 TCGGCTTT
1 TCGGCTTT
14520828 T
1 T
14520829 GCCGATCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 4 0.17
8 15 0.65
9 4 0.17
ACGTcount: A:0.03, C:0.21, G:0.24, T:0.52
Consensus pattern (8 bp):
TCGGCTTT
Found at i:14524073 original size:13 final size:13
Alignment explanation
Indices: 14524055--14524079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14524045 TAAAATAAAA
14524055 GAAATAAAGAAAT
1 GAAATAAAGAAAT
14524068 GAAATAAAGAAA
1 GAAATAAAGAAA
14524080 AAGGAAAAAA
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:14528020 original size:24 final size:23
Alignment explanation
Indices: 14527975--14528020 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14527965 AATAGATACA
**
14527975 TGTTTACTTGTTATAAAATAATT
1 TGTTTACTTAATATAAAATAATT
*
14527998 TGTTTACTTAATATTAAAGTAAT
1 TGTTTACTTAATA-TAAAATAAT
14528021 AGATAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (23 bp):
TGTTTACTTAATATAAAATAATT
Found at i:14528193 original size:33 final size:33
Alignment explanation
Indices: 14528156--14528225 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 33
14528146 TATTTATACA
14528156 ATTATAATATT-TTATT-TAAATT-AGTAGATATTT
1 ATTAT-ATATTATTATTAT-AATTAAG-AGATATTT
*
14528189 ATTATTTATTATTATTATAATTAAGAGATATTT
1 ATTATATATTATTATTATAATTAAGAGATATTT
14528222 ATTA
1 ATTA
14528226 ATTAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 4 0.12
33 26 0.79
34 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (33 bp):
ATTATATATTATTATTATAATTAAGAGATATTT
Found at i:14529108 original size:14 final size:14
Alignment explanation
Indices: 14529089--14529127 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
14529079 ATGAATGTAT
14529089 GGTAAGTATTTTAA
1 GGTAAGTATTTTAA
14529103 GGTAAGTATTTTAA
1 GGTAAGTATTTTAA
*
14529117 GGTAAGCATTT
1 GGTAAGTATTT
14529128 AATGAACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (14 bp):
GGTAAGTATTTTAA
Found at i:14548699 original size:3 final size:3
Alignment explanation
Indices: 14548693--14548752 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
14548683 AAAAAATAAT
* * * * * *
14548693 AGA AGA AGA AGA GGA AGA GGA GGA GGA GGA GGA AG- AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
14548740 AGG AGA AGA AGA A
1 AGA AGA AGA AGA A
14548753 AAATAGAGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:14550787 original size:38 final size:38
Alignment explanation
Indices: 14550727--14550815 Score: 135
Period size: 38 Copynumber: 2.3 Consensus size: 38
14550717 CATTGTGAAC
* *
14550727 AGCCTCACTAACAATGATACACACA-CCCAAAAAAACAT
1 AGCCCCACCAACAATGATACACACACCCCAAAAAAA-AT
*
14550765 AGCCCCACCAACAATGATACACACACCCCTAAAAAAAT
1 AGCCCCACCAACAATGATACACACACCCCAAAAAAAAT
14550803 AGCCCCACCAACA
1 AGCCCCACCAACA
14550816 TGCATATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 38 0.81
39 9 0.19
ACGTcount: A:0.47, C:0.37, G:0.06, T:0.10
Consensus pattern (38 bp):
AGCCCCACCAACAATGATACACACACCCCAAAAAAAAT
Found at i:14550891 original size:39 final size:40
Alignment explanation
Indices: 14550837--14550937 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
14550827 AAAAAAATAC
*
14550837 TCACTGCATGTATATTAAAAAA-AGGCAACACACCGACAA
1 TCACTGCATGTATATTAAAAAATAGGCAACACACCAACAA
* * *
14550876 TCACTGCATGCATATTAAAAAATAGTCAACACACCAATAA
1 TCACTGCATGTATATTAAAAAATAGGCAACACACCAACAA
*
14550916 TCAATGCATGTATATTAAAAAA
1 TCACTGCATGTATATTAAAAAA
14550938 CATTCACTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
39 21 0.38
40 34 0.62
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.23
Consensus pattern (40 bp):
TCACTGCATGTATATTAAAAAATAGGCAACACACCAACAA
Found at i:14552619 original size:15 final size:15
Alignment explanation
Indices: 14552599--14552639 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
14552589 ATTACTAATT
14552599 ACTACCAGACACATC
1 ACTACCAGACACATC
*
14552614 ACTACCACACACATC
1 ACTACCAGACACATC
*
14552629 ACTATCAGACA
1 ACTACCAGACA
14552640 TGTTTTCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.41, C:0.39, G:0.05, T:0.15
Consensus pattern (15 bp):
ACTACCAGACACATC
Found at i:14554835 original size:7 final size:7
Alignment explanation
Indices: 14554823--14554951 Score: 66
Period size: 7 Copynumber: 18.1 Consensus size: 7
14554813 ACTAATTAAT
14554823 CTAAACC
1 CTAAACC
14554830 CTAAACC
1 CTAAACC
*
14554837 TCTTAACTC
1 -CTAAAC-C
*
14554846 CT-ATCC
1 CTAAACC
*
14554852 CATAAACA
1 C-TAAACC
*
14554860 CTAAACA
1 CTAAACC
14554867 CTAAACC
1 CTAAACC
*
14554874 CTTAACC
1 CTAAACC
*
14554881 CTTAACC
1 CTAAACC
*
14554888 CCAAACC
1 CTAAACC
*
14554895 CTTACACC
1 C-TAAACC
*
14554903 TTAAACTC
1 CTAAAC-C
14554911 C--AACC
1 CTAAACC
*
14554916 CTAACCC
1 CTAAACC
14554923 CTAAACC
1 CTAAACC
* *
14554930 TTAAATC
1 CTAAACC
* *
14554937 ATAATCC
1 CTAAACC
14554944 CTAAACC
1 CTAAACC
14554951 C
1 C
14554952 ATAATTCATC
Statistics
Matches: 92, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
5 2 0.02
6 5 0.05
7 69 0.75
8 15 0.16
9 1 0.01
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:14555030 original size:46 final size:46
Alignment explanation
Indices: 14554978--14555071 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
14554968 CTTCAAATAC
* * * *
14554978 TAGTTAACTCTTAAACCTTAAACCCTAAACCATATATCTTAAGCCA
1 TAGTTAACTCATAAACCATAAACCCTAAACCATATATATTAAACCA
14555024 TAGTTAACTCATAAACCATAAACCCTAAACCATATATATTAAACCA
1 TAGTTAACTCATAAACCATAAACCCTAAACCATATATATTAAACCA
14555070 TA
1 TA
14555072 AACCATAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCATAAACCCTAAACCATATATATTAAACCA
Found at i:14555045 original size:7 final size:7
Alignment explanation
Indices: 14555033--14555086 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
14555023 ATAGTTAACT
14555033 CATAAAC
1 CATAAAC
14555040 CATAAAC
1 CATAAAC
*
14555047 CCTAAAC
1 CATAAAC
*
14555054 CATATA-
1 CATAAAC
*
14555060 TATTAAAC
1 CA-TAAAC
14555068 CATAAAC
1 CATAAAC
14555075 CATAAAC
1 CATAAAC
*
14555082 TATAA
1 CATAA
14555087 TGATAATTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 1 0.03
7 36 0.95
8 1 0.03
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (7 bp):
CATAAAC
Found at i:14555400 original size:40 final size:42
Alignment explanation
Indices: 14555243--14555401 Score: 173
Period size: 41 Copynumber: 3.9 Consensus size: 42
14555233 GTTATATGAC
** * * * *
14555243 TTTTAGCGGCGTTTTT-CCAAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTGGTAAAAACGCCGCTATTGCTCTGAT
* ** * *
14555284 TTTTAGCGGCGCTTTT-CCAAAAGCGCCGCTAATGCTCTGAT
1 TTTTAGCGGCGTTTTTGGTAAAAACGCCGCTATTGCTCTGAT
*
14555325 TTTTAGCGGCGTTTTTGGTAAAAACGCTGCTATTGCTCT-AT
1 TTTTAGCGGCGTTTTTGGTAAAAACGCCGCTATTGCTCTGAT
*
14555366 TTTTAGTGGCGTTTTTGGT-AAAACGCCGCTATTGCT
1 TTTTAGCGGCGTTTTTGGTAAAAACGCCGCTATTGCT
14555402 ATGTGTTTTA
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 16 0.15
41 73 0.69
42 17 0.16
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (42 bp):
TTTTAGCGGCGTTTTTGGTAAAAACGCCGCTATTGCTCTGAT
Found at i:14555450 original size:12 final size:12
Alignment explanation
Indices: 14555435--14555460 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14555425 GTTTTTTGAT
14555435 AAAACGCCGCTA
1 AAAACGCCGCTA
14555447 AAAACGCCGCTA
1 AAAACGCCGCTA
14555459 AA
1 AA
14555461 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:14555877 original size:48 final size:48
Alignment explanation
Indices: 14555770--14555878 Score: 173
Period size: 48 Copynumber: 2.3 Consensus size: 48
14555760 TTGGATACAA
* * * *
14555770 ACAATGGCAAATATACACAATAATCATCAGTTTGATACTGGTATTCAT
1 ACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCAT
14555818 ACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCAT
*
14555866 ACAATGACAGATA
1 ACAATGGCAGATA
14555879 CAAACAATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (48 bp):
ACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCAT
Found at i:14555886 original size:64 final size:64
Alignment explanation
Indices: 14555818--14555950 Score: 212
Period size: 64 Copynumber: 2.1 Consensus size: 64
14555808 TGGTATTCAT
* * * *
14555818 ACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGACAGATACAA
1 ACAATGGCAAATATACAAAATAAACATCAGTTTGATAATAGCATTCATACAATGACAAATACAA
* *
14555882 ACAATGGCAAATATACAAAATAAACATCAGTTTGATAATAGCATTCGTACAATGGCAAATACAA
1 ACAATGGCAAATATACAAAATAAACATCAGTTTGATAATAGCATTCATACAATGACAAATACAA
14555946 ACAAT
1 ACAAT
14555951 AAACATCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (64 bp):
ACAATGGCAAATATACAAAATAAACATCAGTTTGATAATAGCATTCATACAATGACAAATACAA
Found at i:14556051 original size:6 final size:6
Alignment explanation
Indices: 14556042--14556145 Score: 52
Period size: 6 Copynumber: 17.8 Consensus size: 6
14556032 TAACAAATAC
** * *
14556042 AATCAA AATCAA AAT--A ACCCTA AATCGA AATCAA AATCAA AATCAA
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA
* * * ** * * ** *
14556088 ATTC-T AATCCA AATTGA GATCAA AATCGA AATTGA AATCAA AATCTA
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA
*
14556135 AATCAG AATCA
1 AATCAA AATCA
14556146 GTGAGTGTTT
Statistics
Matches: 72, Mismatches: 23, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
4 2 0.03
5 3 0.04
6 67 0.93
ACGTcount: A:0.55, C:0.17, G:0.06, T:0.22
Consensus pattern (6 bp):
AATCAA
Found at i:14556114 original size:18 final size:18
Alignment explanation
Indices: 14556063--14556137 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
14556053 AAATAACCCT
*
14556063 AAATCGAAATCAAAAT-C
1 AAATTGAAATCAAAATCC
* * *
14556080 AAAATCAAATTC-TAATCC
1 AAATTGAAA-TCAAAATCC
* *
14556098 AAATTGAGATCAAAATCG
1 AAATTGAAATCAAAATCC
*
14556116 AAATTGAAATCAAAATCT
1 AAATTGAAATCAAAATCC
14556134 AAAT
1 AAAT
14556138 CAGAATCAGT
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
17 11 0.25
18 33 0.75
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.24
Consensus pattern (18 bp):
AAATTGAAATCAAAATCC
Found at i:14556172 original size:12 final size:12
Alignment explanation
Indices: 14556155--14556210 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
14556145 AGTGAGTGTT
*
14556155 TCAAAATTGAAA
1 TCAAAATTAAAA
14556167 TCAAAATTAAAA
1 TCAAAATTAAAA
*
14556179 T-AGAAATCAAAA
1 TCA-AAATTAAAA
*
14556191 TCAAAATCAAAA
1 TCAAAATTAAAA
*
14556203 TTAAAATT
1 TCAAAATT
14556211 TAAACCGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 1 0.03
12 36 0.95
13 1 0.03
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (12 bp):
TCAAAATTAAAA
Found at i:14556173 original size:6 final size:6
Alignment explanation
Indices: 14556164--14556209 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
14556154 TTCAAAATTG
* *
14556164 AAATCA AAATTA AAAT-A GAAATCA AAATCA AAATCA AAATTA AAAT
1 AAATCA AAATCA AAATCA -AAATCA AAATCA AAATCA AAATCA AAAT
14556210 TTAAACCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
5 1 0.03
6 34 0.94
7 1 0.03
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (6 bp):
AAATCA
Found at i:14556184 original size:18 final size:18
Alignment explanation
Indices: 14556157--14556210 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
14556147 TGAGTGTTTC
*
14556157 AAAATTGAAATCAAAATT
1 AAAATAGAAATCAAAATT
*
14556175 AAAATAGAAATCAAAATC
1 AAAATAGAAATCAAAATT
*
14556193 AAAATCA-AAATTAAAATT
1 AAAAT-AGAAATCAAAATT
14556211 TAAACCGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 30 0.97
19 1 0.03
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (18 bp):
AAAATAGAAATCAAAATT
Found at i:14556799 original size:31 final size:30
Alignment explanation
Indices: 14556756--14556816 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
14556746 TTAGTAACTA
*
14556756 TTTTGTTACTTTTTTATAACGTTG-GTGACTG
1 TTTTGTTACTTTTTGA-AA-GTTGAGTGACTG
14556787 TTTTG-TAGCTTTTTGAAAGTTGAGTGACTG
1 TTTTGTTA-CTTTTTGAAAGTTGAGTGACTG
14556817 AAATGAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 4 0.15
30 11 0.41
31 12 0.44
ACGTcount: A:0.18, C:0.08, G:0.23, T:0.51
Consensus pattern (30 bp):
TTTTGTTACTTTTTGAAAGTTGAGTGACTG
Found at i:14560690 original size:26 final size:26
Alignment explanation
Indices: 14560652--14560707 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
14560642 TCTATATTTA
** *
14560652 GTTTTCATATTCATTTTGGTATCTAT
1 GTTTTCATATTCAAATTGGTACCTAT
* *
14560678 GTTTTCTTTTTCAAATTGGTACCTAT
1 GTTTTCATATTCAAATTGGTACCTAT
14560704 GTTT
1 GTTT
14560708 AATTTCCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.57
Consensus pattern (26 bp):
GTTTTCATATTCAAATTGGTACCTAT
Found at i:14566316 original size:25 final size:24
Alignment explanation
Indices: 14566279--14566326 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14566269 GATCCAATTA
*
14566279 GAAATACTAAGAAACGAAAATAAAG
1 GAAATAATAAG-AACGAAAATAAAG
* *
14566304 GAAATAATGAGAACGTAAATAAA
1 GAAATAATAAGAACGAAAATAAA
14566327 TAAAAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.62, C:0.06, G:0.17, T:0.15
Consensus pattern (24 bp):
GAAATAATAAGAACGAAAATAAAG
Found at i:14568445 original size:44 final size:44
Alignment explanation
Indices: 14568352--14568958 Score: 172
Period size: 44 Copynumber: 13.3 Consensus size: 44
14568342 AGGACTTGTT
* * * * * *
14568352 GCTTTAATCAGCTCCATTGCAACTTCATGGAAATAAGATTAGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCA
* * *
14568396 GCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGGCA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCA
* * * * * *
14568440 TCTTCAGTTTGCTCCACTGTATCTTCAGGGAGATAAGACTTGTAGTGGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TA---GCA
* ** * * * * * *
14568490 GATTTGATCTGATCTACTGCAACTTCAGAGG-TATAGGACTAATCA
1 GCTTCAATCTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTAGCA
* * * * *
14568535 -TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGCT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCA
* **
14568578 GTCTTCAGTCTGCTCCACAACAACTTCAGGGAGATAAGACTT-G-A
1 G-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCA
* * * * * * *
14568622 ACTTTAACCTGTTCCACTGCTACTTCAGGGAGATAAGGTTTGTGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-------GATTAGCA
* *
14568673 GCTTCAATCTGGC-CCACTGTAACTTCAGGGAGATAAGATTCGCGATGGTA
1 GCTTCAATCT-GCTCCACTGCAACTTCAGGGAGATAAGATT----A--GCA
* ** * * * *
14568723 GATTTGATCTGAC-CCACTACAACTTCAGAGG-TATAGGATTCA-TA
1 GCTTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATT-AGCA
* * * * * *
14568767 GCTTTAATCTACACTACTGCAACTTCAGAGAGATAAGATTTGCTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGC-A
* * * * * * ** *
14568812 TCTTTAGTATGCTCTACTACAACTTTGGGGAGATAAGACTT-GGA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCA
* ** * * * *
14568856 ACAGCAACCTGCTCCATTACAACTTCAGGGAGATAAGACTT-GGA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCA
* * * * *
14568900 ACTACAACCTGCTCCACTGCAACTTTAGGGAGATAAGATTCATCA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AGCA
**
14568945 TTTTCAATCTGCTC
1 GCTTCAATCTGCTC
14568959 TATTACTACC
Statistics
Matches: 411, Mismatches: 116, Indels: 71
0.69 0.19 0.12
Matches are distributed among these distances:
43 37 0.09
44 195 0.47
45 74 0.18
46 5 0.01
47 2 0.00
48 1 0.00
49 4 0.01
50 59 0.14
51 33 0.08
52 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCA
Found at i:14568747 original size:50 final size:51
Alignment explanation
Indices: 14568643--14568750 Score: 119
Period size: 50 Copynumber: 2.1 Consensus size: 51
14568633 TTCCACTGCT
* * * * * * **
14568643 ACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGGCCCACTGTA
1 ACTTCAGGGAGATAAGATTCGCGATTGGTAGATTCAATCTGACCCACTACA
**
14568694 ACTTCAGGGAGATAAGATTCGCGA-TGGTAGATTTGATCTGACCCACTACA
1 ACTTCAGGGAGATAAGATTCGCGATTGGTAGATTCAATCTGACCCACTACA
14568744 ACTTCAG
1 ACTTCAG
14568751 AGGTATAGGA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
50 26 0.55
51 21 0.45
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (51 bp):
ACTTCAGGGAGATAAGATTCGCGATTGGTAGATTCAATCTGACCCACTACA
Found at i:14568748 original size:233 final size:234
Alignment explanation
Indices: 14568453--14568892 Score: 564
Period size: 233 Copynumber: 1.9 Consensus size: 234
14568443 TCAGTTTGCT
* * * * *
14568453 CCACTGTATCTTCAGGGAGATAAGACTTGTAGTGGTAGATTTGATCTGATCTACTGCAACTTCAG
1 CCACTGTAACTTCAGGGAGATAAGACTTGGAGTGGTAGATTTGATCTGACCCACTACAACTTCAG
* * * * * *
14568518 AGGTATAGGACTAATCA-TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGCTGTCT
66 AGGTATAGGACTAAT-AGCTTTAATCCACACCACTGCAACTTCAGAGAGATAAGATTAGCTATCT
* *** * * *
14568582 TCAGTCTGCTCCACAACAACTTCAGGGAGATAAGACTT-GAACTTTAACCTGTTCCACTGCTACT
130 TCAGTATGCTCCACAACAACTTCAGGGAGATAAGACTTGGAACAGCAACCTGCTCCACTACAACT
14568646 TCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGGC
195 TCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGGC
14568686 CCACTGTAACTTCAGGGAGATAAGA-TTCGCGA-TGGTAGATTTGATCTGACCCACTACAACTTC
1 CCACTGTAACTTCAGGGAGATAAGACTT-G-GAGTGGTAGATTTGATCTGACCCACTACAACTTC
* * * * *
14568749 AGAGGTATAGGATTCATAGCTTTAATCTACACTACTGCAACTTCAGAGAGATAAGATTTGCTATC
64 AGAGGTATAGGACTAATAGCTTTAATCCACACCACTGCAACTTCAGAGAGATAAGATTAGCTATC
* * * ** *
14568814 TTTAGTATGCTCTACTACAACTTTGGGGAGATAAGACTTGGAACAGCAACCTGCTCCATTACAAC
129 TTCAGTATGCTCCACAACAACTTCAGGGAGATAAGACTTGGAACAGCAACCTGCTCCACTACAAC
14568879 TTCAGGGAGATAAG
194 TTCAGGGAGATAAG
14568893 ACTTGGAACT
Statistics
Matches: 174, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
232 3 0.02
233 138 0.79
234 33 0.19
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (234 bp):
CCACTGTAACTTCAGGGAGATAAGACTTGGAGTGGTAGATTTGATCTGACCCACTACAACTTCAG
AGGTATAGGACTAATAGCTTTAATCCACACCACTGCAACTTCAGAGAGATAAGATTAGCTATCTT
CAGTATGCTCCACAACAACTTCAGGGAGATAAGACTTGGAACAGCAACCTGCTCCACTACAACTT
CAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGGC
Found at i:14569579 original size:25 final size:25
Alignment explanation
Indices: 14569541--14569592 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
14569531 ATGATCCCCT
14569541 TTTACACATAGGTTAACATTACTCG
1 TTTACACATAGGTTAACATTACTCG
* * * *
14569566 TTTACACTTGGGTTGACATTGCTCG
1 TTTACACATAGGTTAACATTACTCG
14569591 TT
1 TT
14569593 ATTTGTCGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (25 bp):
TTTACACATAGGTTAACATTACTCG
Found at i:14579663 original size:54 final size:53
Alignment explanation
Indices: 14579582--14579743 Score: 200
Period size: 54 Copynumber: 3.0 Consensus size: 53
14579572 CCATGGCAAC
*
14579582 ATGTGATATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* **
14579635 ATGTGATCATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAGAC
1 ATGTGAT-ATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * * * **
14579689 ATGTGATTATGTG-CTTCCATATAAGACCATATCTAGGATATGGCATTAGTGTG
1 ATGTGA-TATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
14579742 AT
1 AT
14579744 ATGTGCTACT
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
53 39 0.42
54 53 0.57
55 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (53 bp):
ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
Found at i:14579750 original size:47 final size:47
Alignment explanation
Indices: 14579690--14579843 Score: 186
Period size: 47 Copynumber: 3.2 Consensus size: 47
14579680 ATCGGAGACA
14579690 TGTGATTATGTGCTTCCATATAAGACCATATCTAGGATATGGCATTAG
1 TGTGA-TATGTGCTTCCATATAAGACCATATCTAGGATATGGCATTAG
* **
14579738 TGTGATATGTGCTACTGTATAAGACCATATCTAGGATATGGCATTAG
1 TGTGATATGTGCTTCCATATAAGACCATATCTAGGATATGGCATTAG
* * ** *
14579785 TGTGATATGTG-GTCCATGTAAGACCATGGCTAGGCTATGGC-TTCAG
1 TGTGATATGTGCTTCCATATAAGACCATATCTAGGATATGGCATT-AG
14579831 TGTGTAATATGTG
1 TGTG--ATATGTG
14579844 ACTATGTGCA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
45 2 0.02
46 28 0.30
47 50 0.54
48 12 0.13
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (47 bp):
TGTGATATGTGCTTCCATATAAGACCATATCTAGGATATGGCATTAG
Found at i:14583996 original size:19 final size:19
Alignment explanation
Indices: 14583950--14583997 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
14583940 GTATATATTT
14583950 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
14583968 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
14583987 TAAATTTTATT
1 TAAATTTTATT
14583998 CATATTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:14585402 original size:40 final size:40
Alignment explanation
Indices: 14585330--14585435 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
14585320 TACCAGCTCG
* * *
14585330 TAGCCTGCGGGTCTCT-AGCTCGGATAGCATTCTAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCA-GA
* *
14585370 -AGCCTGCAGGTCTTTAAGCCCGGATAACATTCTAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCAGA
14585409 TAGCCTGCGGGTCTTTAAGCCCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
14585436 CAATTCCTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 14 0.24
40 44 0.76
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCAGA
Found at i:14587433 original size:26 final size:26
Alignment explanation
Indices: 14587397--14587480 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
14587387 TGATACAAAT
14587397 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
14587423 TGATAATAGGTTAGGTAAACGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
14587449 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
14587475 TGATAA
1 TGATAA
14587481 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:14588965 original size:28 final size:26
Alignment explanation
Indices: 14588923--14588997 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
14588913 AAAAGTAGCT
* *
14588923 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* *
14588951 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
14588977 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
14588998 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:14589142 original size:27 final size:27
Alignment explanation
Indices: 14589101--14589267 Score: 228
Period size: 27 Copynumber: 6.2 Consensus size: 27
14589091 GAGGAAGCGT
*
14589101 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
14589128 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
14589155 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
14589182 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
** *
14589209 TCTGGTGGCTCTGCCATGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
14589237 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
14589263 TCTGG
1 TCTGG
14589268 CAGCCATGCT
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
26 5 0.04
27 108 0.85
28 14 0.11
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:14592542 original size:19 final size:19
Alignment explanation
Indices: 14592502--14592540 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14592492 GATTTTGTAC
*
14592502 TTTGGCCCATTTTCTCTGT
1 TTTGGCCCAGTTTCTCTGT
14592521 TTTGGCCC-GTTTCTC-GT
1 TTTGGCCCAGTTTCTCTGT
14592538 TTT
1 TTT
14592541 TTTCGCTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 8 0.42
ACGTcount: A:0.03, C:0.26, G:0.18, T:0.54
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCTGT
Found at i:14598175 original size:22 final size:22
Alignment explanation
Indices: 14598129--14598187 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
14598119 TCAAATTTCA
14598129 AAAATTAAACATAATATAATATTT
1 AAAA-TAAA-ATAATATAATATTT
* *
14598153 AACATAGAAATAA-ATATTATTT
1 AAAATA-AAATAATATAATATTT
14598175 AAAATAAAATAAT
1 AAAATAAAATAAT
14598188 TTTTTTAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 6 0.20
22 13 0.43
23 6 0.20
24 5 0.17
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATAAAATAATATAATATTT
Found at i:14598259 original size:42 final size:43
Alignment explanation
Indices: 14598193--14598428 Score: 237
Period size: 43 Copynumber: 5.5 Consensus size: 43
14598183 ATAATTTTTT
* * *
14598193 TAAAGTTCATGATTTTTAGC-GCGTTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * *
14598235 TAAAAGTCAT-GTCTTTAGTGGCGTTTGTGTGAAAAGCGCGGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * *
14598277 TAAAGGTTATGATTTTTAGCGGCGTTT-TCGGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGT-GAGAAAAGCGCCGC
* * *
14598320 TAAAGGTCTTGGACTTTAGCGGCGTTTTTTG-GAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCG-TTTGTGAGAAAAGCGCCGC
* * * * * *
14598363 TAAAGGTCATGGCCTTTAGCGGCGCTTGTAAAAAAAGAGCCAC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
*
14598406 TAAAAGTCATGGTCTTTAGCGGC
1 TAAAGGTCATGGTCTTTAGCGGC
14598429 ATTTTTTTAA
Statistics
Matches: 159, Mismatches: 29, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
41 6 0.04
42 40 0.25
43 108 0.68
44 4 0.03
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
Found at i:14600407 original size:29 final size:29
Alignment explanation
Indices: 14600356--14600422 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
14600346 CACCCTTAAA
* * * *
14600356 ATATTTGCACTATAGTCCTTCAACTTTTC
1 ATATTTACACTATAATCCCTCAAATTTTC
* *
14600385 ATATTTACACTTTAATCCCTCAAATTTTG
1 ATATTTACACTATAATCCCTCAAATTTTC
14600414 AGTATTTAC
1 A-TATTTAC
14600423 TCTTGGGCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (29 bp):
ATATTTACACTATAATCCCTCAAATTTTC
Found at i:14607508 original size:136 final size:133
Alignment explanation
Indices: 14607309--14607566 Score: 356
Period size: 136 Copynumber: 1.9 Consensus size: 133
14607299 CACAAGTCTT
* *
14607309 ATCTCCATGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTCATTTTACTAAAGTTGCAGTG
1 ATCTCCATGAAGTTGCAGCGGAGTAGACTGAAGATAGCAAATCTCATTTTACTAAAGTCGCAGTG
*
14607374 GAACAGATTAAAGCTACAAGCTATGGCAAAT-CTAATCCCCCTAAAGTTGCAGTGGAGCAGATTG
66 GAACAGATTAAAGCTACAAG-T-T-AC-AATCCTAATCCCCCTAAAGTTGCAGTGGAGCAGATTG
14607438 AAGCCAC
127 AAGCCAC
* * * * *
14607445 ATCTCCTTGAAGTTGTAGCGGAGTAGACTGAAGATAGCGAATCTCATTTTCCTGAAGTCGCAGTG
1 ATCTCCATGAAGTTGCAGCGGAGTAGACTGAAGATAGCAAATCTCATTTTACTAAAGTCGCAGTG
* * * * *
14607510 GAATAGATTGAAGCTACAAGTTACAATCCTTATCTCCTTAAAGTTGCAGTGGAGCAG
66 GAACAGATTAAAGCTACAAGTTACAATCCTAATCCCCCTAAAGTTGCAGTGGAGCAG
14607567 GAAAGTACAC
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
132 3 0.03
133 27 0.25
134 1 0.01
135 1 0.01
136 76 0.70
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (133 bp):
ATCTCCATGAAGTTGCAGCGGAGTAGACTGAAGATAGCAAATCTCATTTTACTAAAGTCGCAGTG
GAACAGATTAAAGCTACAAGTTACAATCCTAATCCCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
CAC
Found at i:14607642 original size:45 final size:43
Alignment explanation
Indices: 14607532--14607651 Score: 125
Period size: 43 Copynumber: 2.7 Consensus size: 43
14607522 GCTACAAGTT
* *
14607532 ACAATCCTTATCTCCTTAAAGTTGCAGTGGAGCAGGAAAGTAC
1 ACAATCCTTATCTCCTTAAAGTTGCAGTAGAGAAGGAAAGTAC
* * * *
14607575 ACAAACCTTATCTCCCTGAAGTTGCAGTAGAGAAGGTTGAAATTAC
1 ACAATCCTTATCTCCTTAAAGTTGCAGTAGAGAA-G--GAAAGTAC
* * *
14607621 -CAATTCTTATCTCCTTTAAGTTCCAGTAGAG
1 ACAATCCTTATCTCCTTAAAGTTGCAGTAGAG
14607652 TAGATCAAAG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 29 0.46
44 1 0.02
45 26 0.41
46 7 0.11
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (43 bp):
ACAATCCTTATCTCCTTAAAGTTGCAGTAGAGAAGGAAAGTAC
Found at i:14609084 original size:13 final size:12
Alignment explanation
Indices: 14609063--14609093 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
14609053 GTTTTGTTTG
14609063 TTATTTTTTTAT
1 TTATTTTTTTAT
14609075 TTATTCTTTTTAT
1 TTATT-TTTTTAT
14609088 TTATTT
1 TTATTT
14609094 AGTCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (12 bp):
TTATTTTTTTAT
Found at i:14609102 original size:17 final size:16
Alignment explanation
Indices: 14609065--14609103 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
14609055 TTTGTTTGTT
*
14609065 ATTTTTTTATTTATTC
1 ATTTTTTTATTTAGTC
*
14609081 TTTTTATTTATTTAGTC
1 ATTTT-TTTATTTAGTC
14609098 ATTTTT
1 ATTTTT
14609104 CATCAAATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTTTTTATTTAGTC
Found at i:14617325 original size:40 final size:40
Alignment explanation
Indices: 14617163--14617318 Score: 235
Period size: 40 Copynumber: 3.9 Consensus size: 40
14617153 TATTCGGATG
14617163 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
14617203 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
14617243 A-AATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
14617283 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
14617319 AGCTATATCC
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:14625325 original size:40 final size:40
Alignment explanation
Indices: 14625163--14625318 Score: 235
Period size: 40 Copynumber: 3.9 Consensus size: 40
14625153 TATTCGGATG
14625163 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
14625203 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
14625243 A-AATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
14625283 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
14625319 AGCTATATCC
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:14633749 original size:11 final size:11
Alignment explanation
Indices: 14633743--14633768 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14633733 TGAAATTTTC
14633743 TCAAAATTCTA
1 TCAAAATTCTA
14633754 TCAAAATTCTA
1 TCAAAATTCTA
14633765 TCAA
1 TCAA
14633769 TTTTATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:14633972 original size:48 final size:48
Alignment explanation
Indices: 14633908--14634017 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 48
14633898 AGTAATAATT
*
14633908 TTAAATTTTG-AATACTATTCGATATTTTCTTAATTTTTGCAAATT-TAA
1 TTAAA-TTTGCAATACTATTCGATATTTTCTTAATTTATGC-AATTATAA
* * *
14633956 TTAAATTTGCAATACTATTTGATATTTTTTTCATTTATGCAATTATAA
1 TTAAATTTGCAATACTATTCGATATTTTCTTAATTTATGCAATTATAA
14634004 TTAAAATTT-CAATA
1 TT-AAATTTGCAATA
14634018 TTGCTTGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
47 8 0.15
48 41 0.75
49 6 0.11
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (48 bp):
TTAAATTTGCAATACTATTCGATATTTTCTTAATTTATGCAATTATAA
Found at i:14635028 original size:7 final size:7
Alignment explanation
Indices: 14635008--14635050 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
14634998 TATAATAAAA
14635008 TAGTCATT
1 TAGT-ATT
*
14635016 TCGTATT
1 TAGTATT
14635023 TAGTATT
1 TAGTATT
*
14635030 TCGTATT
1 TAGTATT
14635037 TAGTATT
1 TAGTATT
14635044 TAGTATT
1 TAGTATT
14635051 ATGTATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
7 28 0.90
8 3 0.10
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.56
Consensus pattern (7 bp):
TAGTATT
Found at i:14635032 original size:14 final size:14
Alignment explanation
Indices: 14635008--14635050 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
14634998 TATAATAAAA
14635008 TAGTCATTTCGTATT
1 TAGT-ATTTCGTATT
14635023 TAGTATTTCGTATT
1 TAGTATTTCGTATT
*
14635037 TAGTATTTAGTATT
1 TAGTATTTCGTATT
14635051 ATGTATTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 23 0.85
15 4 0.15
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.56
Consensus pattern (14 bp):
TAGTATTTCGTATT
Found at i:14635056 original size:7 final size:7
Alignment explanation
Indices: 14635046--14635112 Score: 134
Period size: 7 Copynumber: 9.6 Consensus size: 7
14635036 TTAGTATTTA
14635046 GTATTAT
1 GTATTAT
14635053 GTATTAT
1 GTATTAT
14635060 GTATTAT
1 GTATTAT
14635067 GTATTAT
1 GTATTAT
14635074 GTATTAT
1 GTATTAT
14635081 GTATTAT
1 GTATTAT
14635088 GTATTAT
1 GTATTAT
14635095 GTATTAT
1 GTATTAT
14635102 GTATTAT
1 GTATTAT
14635109 GTAT
1 GTAT
14635113 ATAAATAATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 60 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTAT
Found at i:14635523 original size:7 final size:7
Alignment explanation
Indices: 14635512--14635543 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14635502 ACGCAAGCCA
*
14635512 TATTTAA
1 TATTTAG
14635519 TATTTAG
1 TATTTAG
14635526 TATTTAG
1 TATTTAG
14635533 TATTTAG
1 TATTTAG
14635540 TATT
1 TATT
14635544 ATGTCTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:14635924 original size:444 final size:444
Alignment explanation
Indices: 14635095--14635961 Score: 1455
Period size: 444 Copynumber: 2.0 Consensus size: 444
14635085 TATGTATTAT
* *
14635095 GTATTATGTATTATGTATATAAATAATATTTTTATCATGTTCATATAGTTTCAATGGACACCATA
1 GTATTATGTATTATGTATATAAATAATATTTTTATCATGTTCATATAGTGTCAATAGACACCATA
*
14635160 CGAGGATCCGACAATTCGGGCAGTGATTCCGGATGAATTCTTCCAAAATCCAAACGCTTGGCATG
66 CGAGGATCCGACAATTCGGGCAGTAATTCCGGATGAATTCTTCCAAAATCCAAACGCTTGGCATG
* * *
14635225 TGAAGGTTGCATTGGTGAACTATGCTACCGTGGAGATGCACTAGTCAGATAGAGTATTGAGGCAA
131 TGAAGGTCGCATTGGTGAACTATGCTACCGTGGAGATACACCAGTCAGATAGAGTATTGAGGCAA
*
14635290 TTTGGATTCAAACAACCAATTCCCGTGGCACCTGAGGTGTTTGATGATGAGCACAAAGTCGACTT
196 TTTGGATTCAAACAACCAATTCCCGTGGCACCTAAGGTGTTTGATGATGAGCACAAAGTCGACTT
* * * *
14635355 ACGGCAACTGCATACGGATTGGTCGAGATTCTGGTCACACTATATCAAAATGTGGGAAAATTGGT
261 ACGGCAACTACATACGGATTGGTCGAGATTCTGGTCACACTATATCAAAATATGGAAAAATCGGT
* *
14635420 ATGATTATATCCCAACTCGAGAACCGATCATTGTTCCAGAGTTAACGTGCGTACCGGAATACATG
326 ATGATTATATACCAACTCGAGAACCGATCATCGTTCCAGAGTTAACGTGCGTACCGGAATACATG
* *
14635485 TCATGGTTTAGGATCCAACGCAAGCCATATTTAATATTTAGTATTTAGTATTTA
391 CCATGGTTTAGGATCCAACGCAAGCAATATTTAATATTTAGTATTTAGTATTTA
* *
14635539 GTATTATGTCTTATGTATATAAATAATATTTTTATCATGTTTATATAGTGTCAATAGACACCATA
1 GTATTATGTATTATGTATATAAATAATATTTTTATCATGTTCATATAGTGTCAATAGACACCATA
* * *
14635604 CGAGGATCTGGCAATTCGGGCAGTAATTCCGGATGAATTCTTTCAAAATCCAAACGCTTGGCATG
66 CGAGGATCCGACAATTCGGGCAGTAATTCCGGATGAATTCTTCCAAAATCCAAACGCTTGGCATG
*
14635669 TGAAGGTCGTATTGGTGAACTATGCTACCGTGGAGATACACCAGTCAGATAGAGTATTGAGGCAA
131 TGAAGGTCGCATTGGTGAACTATGCTACCGTGGAGATACACCAGTCAGATAGAGTATTGAGGCAA
* *
14635734 TTTGGATTCAGACAACCGATTCCCGTGGCACCTAAGGTGTTTGATGATGAGCACAAAGTCGACTT
196 TTTGGATTCAAACAACCAATTCCCGTGGCACCTAAGGTGTTTGATGATGAGCACAAAGTCGACTT
* *
14635799 ACGGTAACTACATACGGATTGGTCGAGATTCTGGTCACACTATATCGAAATATGGAAAAATCGGT
261 ACGGCAACTACATACGGATTGGTCGAGATTCTGGTCACACTATATCAAAATATGGAAAAATCGGT
* * * *
14635864 ATGATTATATACCAACTCGGGAACTGATCATCGTTTCAGAGTTAGCGTGCGTACCGGAATACATG
326 ATGATTATATACCAACTCGAGAACCGATCATCGTTCCAGAGTTAACGTGCGTACCGGAATACATG
**
14635929 CCATGGTTTAGGATCCATGGCAAGCAATATTTA
391 CCATGGTTTAGGATCCAACGCAAGCAATATTTA
14635962 TTATCGGAAG
Statistics
Matches: 392, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
444 392 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (444 bp):
GTATTATGTATTATGTATATAAATAATATTTTTATCATGTTCATATAGTGTCAATAGACACCATA
CGAGGATCCGACAATTCGGGCAGTAATTCCGGATGAATTCTTCCAAAATCCAAACGCTTGGCATG
TGAAGGTCGCATTGGTGAACTATGCTACCGTGGAGATACACCAGTCAGATAGAGTATTGAGGCAA
TTTGGATTCAAACAACCAATTCCCGTGGCACCTAAGGTGTTTGATGATGAGCACAAAGTCGACTT
ACGGCAACTACATACGGATTGGTCGAGATTCTGGTCACACTATATCAAAATATGGAAAAATCGGT
ATGATTATATACCAACTCGAGAACCGATCATCGTTCCAGAGTTAACGTGCGTACCGGAATACATG
CCATGGTTTAGGATCCAACGCAAGCAATATTTAATATTTAGTATTTAGTATTTA
Found at i:14636161 original size:18 final size:18
Alignment explanation
Indices: 14636138--14636180 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
14636128 CGCGAGATGC
*
14636138 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
14636156 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
14636174 GTTTCCT
1 GTATCCT
14636181 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:14639885 original size:126 final size:126
Alignment explanation
Indices: 14639647--14640024 Score: 521
Period size: 126 Copynumber: 3.0 Consensus size: 126
14639637 GCTCATTTGT
* *
14639647 AGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGATCTTTTTTCAGAATTT
1 AGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAA-AT
* *
14639712 TTTGCCGACAGTGCATCCTGCTTGAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTC
65 TTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
* * * *
14639774 AGGCTCATTTTCCTGCGAACTACTGTAGCAAAAGAACGTCCACGTGGAAGCTTTTTTCAGAACTT
1 AGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATT
*
14639839 TTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATCTGTTCAGAAACGTCTACTC
66 TTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
* * * * *
14639900 -GGATTTATTTTTCTACAAAC-ACTGTAGCAAAAGAGCGTCCACGTGGGAG-TTTTTTCCAAAAA
1 AGG-CTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTT-CAGAAA
* * * * **
14639962 TTTT-CTGACACTGCATCCTACTTAAAGCGTTTTCGACATTATTTGTTCAGAAATATCTACTC
64 TTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
14640024 A
1 A
14640025 AAATTATTCT
Statistics
Matches: 224, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
124 57 0.25
125 37 0.17
126 72 0.32
127 58 0.26
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (126 bp):
AGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATT
TTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
Found at i:14640712 original size:23 final size:23
Alignment explanation
Indices: 14640673--14640737 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
14640663 ATTTTTTTAT
14640673 AAACCCTAAAACCCTAAAACATAAA
1 AAACCCT--AACCCTAAAACATAAA
**
14640698 AAACCCTAACCCTAAATTATAAA
1 AAACCCTAACCCTAAAACATAAA
*
14640721 AAACCCTAACCTTAAAA
1 AAACCCTAACCCTAAAA
14640738 ATCCTAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 29 0.81
25 7 0.19
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (23 bp):
AAACCCTAACCCTAAAACATAAA
Found at i:14641096 original size:24 final size:24
Alignment explanation
Indices: 14641064--14641112 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
14641054 GCCAGATTTT
14641064 ATACAGGGTGGAACCAAGTCAAGC
1 ATACAGGGTGGAACCAAGTCAAGC
*
14641088 ATACGGGGTGGAACCAAGTCAAGC
1 ATACAGGGTGGAACCAAGTCAAGC
14641112 A
1 A
14641113 ACGTTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.31, T:0.12
Consensus pattern (24 bp):
ATACAGGGTGGAACCAAGTCAAGC
Found at i:14644261 original size:19 final size:19
Alignment explanation
Indices: 14644231--14644282 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
14644221 ATAAAAAATA
*
14644231 AAAAATT-T-ATTTTATGT
1 AAAAATTATAATTTTATAT
14644248 AAAAACTTA-AATTTTTATAT
1 AAAAA-TTATAA-TTTTATAT
14644268 AAAAATTATAATTTT
1 AAAAATTATAATTTT
14644283 TATTTTCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.17
18 2 0.07
19 8 0.28
20 14 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AAAAATTATAATTTTATAT
Found at i:14644265 original size:20 final size:20
Alignment explanation
Indices: 14644240--14644285 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
14644230 AAAAAATTTA
*
14644240 TTTTATGTAAAAACTTA-AAT
1 TTTTATATAAAAA-TTATAAT
14644260 TTTTATATAAAAATTATAAT
1 TTTTATATAAAAATTATAAT
14644280 TTTTAT
1 TTTTAT
14644286 TTTCTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTTATATAAAAATTATAAT
Found at i:14644951 original size:24 final size:22
Alignment explanation
Indices: 14644924--14644991 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 22
14644914 AAAAACCTTT
14644924 TATTTTTATATATTTAAAAAAACA
1 TATTTTTATAT-TTTAAAAAAA-A
*
14644948 TATTTTCATACTTTTCAATAAAAAA
1 TATTTTTATA-TTTT-AA-AAAAAA
*
14644973 TATTTTATATTTTTTAAAA
1 TATTTT-TATATTTTAAAA
14644992 TTTTAGTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 2 0.05
24 14 0.38
25 14 0.38
26 7 0.19
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTTATATTTTAAAAAAAA
Found at i:14654691 original size:31 final size:29
Alignment explanation
Indices: 14654653--14654726 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
14654643 TCTATAAAAA
* *
14654653 TAGTCACTTTTGTTTGACCCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
14654684 TAGTCACTTATGTTTGAAATGTTATATTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
14654713 TAGTCACTTATGTT
1 TAGTCACTTATGTT
14654727 ATTATTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 23 0.59
31 16 0.41
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.49
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:14656488 original size:13 final size:14
Alignment explanation
Indices: 14656469--14656510 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
14656459 ATTTCAATTT
14656469 TATTTTAATAATAA
1 TATTTTAATAATAA
*
14656483 -ATTTTAAAAATAA
1 TATTTTAATAATAA
14656496 TAGTTTTAAATAATA
1 TA-TTTT-AATAATA
14656511 TGATTCACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 12 0.52
14 1 0.04
15 4 0.17
16 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TATTTTAATAATAA
Done.