Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 44 of 136
Found at i:14597347 original size:15 final size:15
Alignment explanation
Indices: 14597327--14597359 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14597317 ATGTACATCC
*
14597327 TCTACTCTGTTCTAT
1 TCTACTCTGTTATAT
14597342 TCTACTCTGTTATAT
1 TCTACTCTGTTATAT
14597357 TCT
1 TCT
14597360 GTTATGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.24, G:0.06, T:0.55
Consensus pattern (15 bp):
TCTACTCTGTTATAT
Found at i:14602281 original size:29 final size:29
Alignment explanation
Indices: 14602227--14602283 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
14602217 TCAATACAGT
**
14602227 TTAAATTATATGACTATCGATAAATATTA
1 TTAAATTATATGACTATAAATAAATATTA
*
14602256 TTAAATTATATGATTA-AAATATAATATT
1 TTAAATTATATGACTATAAATA-AATATT
14602284 GTGATGTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (29 bp):
TTAAATTATATGACTATAAATAAATATTA
Found at i:14602561 original size:105 final size:105
Alignment explanation
Indices: 14602420--14602734 Score: 612
Period size: 105 Copynumber: 3.0 Consensus size: 105
14602410 GTAACGCCCC
14602420 TAACCCGAATCCGTCGCCAGAATAGGGTTACGGAGCATTACCGGAGTTTACAATTTAATTATCAG
1 TAACCCGAATCCGTCGCCAGAATAGGGTTACGGAGCATTACCGGAGTTTACAATTTAATTATCAG
14602485 ACATTTCATTTCATCTAGCATTCATATTTGAAACCAATCA
66 ACATTTCATTTCATCTAGCATTCATATTTGAAACCAATCA
14602525 TAACCCGAATCCGTCGCCAGAATAGGGTTACGGAGCATTACCGGAGTTTACAATTTAATTATCAG
1 TAACCCGAATCCGTCGCCAGAATAGGGTTACGGAGCATTACCGGAGTTTACAATTTAATTATCAG
14602590 ACATTTCATTTCATCTAGCATTCATATTTGAAACCAATCA
66 ACATTTCATTTCATCTAGCATTCATATTTGAAACCAATCA
14602630 TAACCCGAATCCGTCGCCAGAATAGGGTTACGGAGCATTACCGGAGTTTACAATTTAATTATCAG
1 TAACCCGAATCCGTCGCCAGAATAGGGTTACGGAGCATTACCGGAGTTTACAATTTAATTATCAG
* *
14602695 ACATTTCATTTCATCGAGCATTCATATTTGAAACTAATCA
66 ACATTTCATTTCATCTAGCATTCATATTTGAAACCAATCA
14602735 AAATCAAAAC
Statistics
Matches: 208, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 208 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (105 bp):
TAACCCGAATCCGTCGCCAGAATAGGGTTACGGAGCATTACCGGAGTTTACAATTTAATTATCAG
ACATTTCATTTCATCTAGCATTCATATTTGAAACCAATCA
Found at i:14606918 original size:26 final size:26
Alignment explanation
Indices: 14606880--14606929 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
14606870 TCTCATCCTT
14606880 ATTTTAACCCTAGTAAAATTTTGACG
1 ATTTTAACCCTAGTAAAATTTTGACG
14606906 ATTTT-ACCTCTAGTAAAATTTTGA
1 ATTTTAACC-CTAGTAAAATTTTGA
14606930 GAAAATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (26 bp):
ATTTTAACCCTAGTAAAATTTTGACG
Found at i:14612320 original size:21 final size:20
Alignment explanation
Indices: 14612290--14612328 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
14612280 ACCAAAAATT
14612290 TATTTTAAAAATAAAAAAAG
1 TATTTTAAAAATAAAAAAAG
14612310 TATTTTAAAAATAAAAAAA
1 TATTTTAAAAATAAAAAAA
14612329 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
TATTTTAAAAATAAAAAAAG
Found at i:14612982 original size:48 final size:46
Alignment explanation
Indices: 14612912--14613002 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 46
14612902 AAAAATAATT
* *
14612912 TTATTTTAATAATTTAATATTAAATTAAATTTAATGTTTATCTACA
1 TTATTTTAATAATTTAATATTAAATTAAATCTAATATTTATCTACA
*
14612958 TTATTTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCT
1 TTATTTTAAT-A-ATTTAATATTAAATTAAATCTAATATTTATCT
14613003 TGATAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 10 0.25
47 1 0.03
48 29 0.73
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (46 bp):
TTATTTTAATAATTTAATATTAAATTAAATCTAATATTTATCTACA
Found at i:14617048 original size:25 final size:25
Alignment explanation
Indices: 14617016--14617066 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14617006 AGATGTCAAA
14617016 TAGTAAGTATGTATTAAACTGAAAG
1 TAGTAAGTATGTATTAAACTGAAAG
14617041 TAGTAAGTATGTATTAAACTGAAAG
1 TAGTAAGTATGTATTAAACTGAAAG
14617066 T
1 T
14617067 GTCCTTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (25 bp):
TAGTAAGTATGTATTAAACTGAAAG
Found at i:14623207 original size:1 final size:1
Alignment explanation
Indices: 14623203--14623227 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
14623193 TGTTTTTTGG
14623203 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
14623228 AAATAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:14623662 original size:73 final size:74
Alignment explanation
Indices: 14623547--14623692 Score: 258
Period size: 73 Copynumber: 2.0 Consensus size: 74
14623537 CATCAGTGGT
*
14623547 AATGTTATGCATTATTTCTTTTGGCTATTTCTTGGTTTCTTCTAAGCACTATTATGGTGATGGTA
1 AATGTTATGCATTATTTCTTTTGCCTATTTCTTGGTTTCTTCTAAGCACTATTATGGTGATGGTA
14623612 ATAATTTTC
66 ATAATTTTC
**
14623621 AATGTTATGTTTTATTTC-TTTGCCTATTTCTTGGTTTCTTCTAAGCACTATTATGGTGATGGTA
1 AATGTTATGCATTATTTCTTTTGCCTATTTCTTGGTTTCTTCTAAGCACTATTATGGTGATGGTA
14623685 ATAATTTT
66 ATAATTTT
14623693 TAAGTTTGCC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 53 0.77
74 16 0.23
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (74 bp):
AATGTTATGCATTATTTCTTTTGCCTATTTCTTGGTTTCTTCTAAGCACTATTATGGTGATGGTA
ATAATTTTC
Found at i:14627585 original size:2 final size:2
Alignment explanation
Indices: 14627578--14627607 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14627568 GGTTCTGCAT
14627578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14627608 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14627612 original size:2 final size:2
Alignment explanation
Indices: 14627607--14627631 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14627597 ATATATATAT
14627607 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
14627632 AATTATGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14634097 original size:23 final size:25
Alignment explanation
Indices: 14634067--14634121 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 25
14634057 TTCAAAAGAT
14634067 ATTTTTTTTAAAA-TA-TATTTTGA
1 ATTTTTTTTAAAATTATTATTTTGA
*
14634090 A-TTTTTTTAAAATTATTATTTTTA
1 ATTTTTTTTAAAATTATTATTTTGA
*
14634114 ATTGTTTT
1 ATTTTTTT
14634122 CAAACATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 11 0.41
23 3 0.11
24 8 0.30
25 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
ATTTTTTTTAAAATTATTATTTTGA
Found at i:14634109 original size:24 final size:22
Alignment explanation
Indices: 14634069--14634121 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
14634059 CAAAAGATAT
14634069 TTTTTTTAAAATATATTTTGAA
1 TTTTTTTAAAATATATTTTGAA
*
14634091 TTTTTTTAAAATTATTATTTTTAA
1 TTTTTTTAAAA-TA-TATTTTGAA
*
14634115 TTGTTTT
1 TTTTTTT
14634122 CAAACATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 11 0.41
23 2 0.07
24 14 0.52
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTTTTAAAATATATTTTGAA
Found at i:14638626 original size:25 final size:25
Alignment explanation
Indices: 14638565--14638631 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
14638555 ATTCGGGAGT
* *
14638565 GCTCATACGAGCAAATAAATGGGAA
1 GCTCATGCGAGCCAATAAATGGGAA
* * * * *
14638590 GCTCAAGAGAGCCATTAATTGGGGA
1 GCTCATGCGAGCCAATAAATGGGAA
14638615 GCTCATGCGAGCCAATA
1 GCTCATGCGAGCCAATA
14638632 TCGGGAAGCT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (25 bp):
GCTCATGCGAGCCAATAAATGGGAA
Found at i:14638666 original size:25 final size:25
Alignment explanation
Indices: 14638635--14638719 Score: 100
Period size: 25 Copynumber: 3.3 Consensus size: 25
14638625 GCCAATATCG
14638635 GGAAGCTCCGAAGAGCCATTAATCA
1 GGAAGCTCCGAAGAGCCATTAATCA
* * *
14638660 GGAAGCTCATGAAAGAGCCTTTAATTA
1 GGAAGCTC-CG-AAGAGCCATTAATCA
14638687 GGAAGCTCCGAAGAGCCA-TATATCA
1 GGAAGCTCCGAAGAGCCATTA-ATCA
*
14638712 GGACGCTC
1 GGAAGCTC
14638720 ATAAGAGCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 2 0.04
25 25 0.50
26 2 0.04
27 21 0.42
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
GGAAGCTCCGAAGAGCCATTAATCA
Found at i:14638725 original size:25 final size:26
Alignment explanation
Indices: 14638623--14638727 Score: 94
Period size: 25 Copynumber: 4.2 Consensus size: 26
14638613 GAGCTCATGC
* *
14638623 GAGCCA-AT-ATCGGGAAGCTCCGAA
1 GAGCCATATAATCAGGAAGCTCAGAA
14638647 GAGCCAT-TAATCAGGAAGCTCATGAAA
1 GAGCCATATAATCAGGAAGCTCA-G-AA
* * *
14638674 GAGCC-TTTAATTAGGAAGCTCCGAA
1 GAGCCATATAATCAGGAAGCTCAGAA
* *
14638699 GAGCCATAT-ATCAGGACGCTCATAA
1 GAGCCATATAATCAGGAAGCTCAGAA
14638724 GAGC
1 GAGC
14638728 TACGGTGTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
24 7 0.11
25 34 0.52
26 5 0.08
27 20 0.30
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
GAGCCATATAATCAGGAAGCTCAGAA
Found at i:14643149 original size:27 final size:27
Alignment explanation
Indices: 14643092--14643149 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
14643082 TCAATAGATT
* *
14643092 AAAAAAGTTCACGTTTTTTTTAAGTAA
1 AAAAAAGTTCAAGTTTTTTTTAAGAAA
14643119 AAAAAAGTT-AAGTTTTTTAATTAA-AAA
1 AAAAAAGTTCAAGTTTTTT--TTAAGAAA
14643146 AAAA
1 AAAA
14643150 CTTTTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 8 0.30
27 15 0.56
28 4 0.15
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (27 bp):
AAAAAAGTTCAAGTTTTTTTTAAGAAA
Found at i:14654767 original size:28 final size:28
Alignment explanation
Indices: 14654735--14654800 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
14654725 ATTATAGTAC
*
14654735 TCAGGTAGCAGAGCCGACCATATATCAT
1 TCAGGCAGCAGAGCCGACCATATATCAT
* * *
14654763 TCAGGCGGCAGAGTCGATCATATATCAT
1 TCAGGCAGCAGAGCCGACCATATATCAT
14654791 TCAGGCAGCA
1 TCAGGCAGCA
14654801 AAATCGATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (28 bp):
TCAGGCAGCAGAGCCGACCATATATCAT
Found at i:14654807 original size:28 final size:28
Alignment explanation
Indices: 14654753--14654815 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
14654743 CAGAGCCGAC
* * *
14654753 CATATATCATTCAGGCGGCAGAGTCGAT
1 CATATATCATTCAGGCAGCAAAATCGAT
14654781 CATATATCATTCAGGCAGCAAAATCGAT
1 CATATATCATTCAGGCAGCAAAATCGAT
*
14654809 TATATAT
1 CATATAT
14654816 TCAAACTAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (28 bp):
CATATATCATTCAGGCAGCAAAATCGAT
Found at i:14659419 original size:5 final size:5
Alignment explanation
Indices: 14659409--14659441 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
14659399 CCCTAAAATT
14659409 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
14659442 GTACAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:14661624 original size:58 final size:58
Alignment explanation
Indices: 14661550--14661668 Score: 166
Period size: 58 Copynumber: 2.1 Consensus size: 58
14661540 TATAAATATT
* * *
14661550 AAGGTCCAAGGTATGAACTTCTACTACTAAAAGTGATATTGCATAATAATGATTGATG
1 AAGGTCCAAGGCATGAACTCCTACTACTAAAAGTGATATTGCATAATAATGATTAATG
* ** * *
14661608 AAGGTCCAAGGCATGAACTCCTATTGTTAAAAGTGTTATTGCGTAATAATGATTAATG
1 AAGGTCCAAGGCATGAACTCCTACTACTAAAAGTGATATTGCATAATAATGATTAATG
14661666 AAG
1 AAG
14661669 TCATGACAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (58 bp):
AAGGTCCAAGGCATGAACTCCTACTACTAAAAGTGATATTGCATAATAATGATTAATG
Found at i:14669683 original size:29 final size:29
Alignment explanation
Indices: 14669650--14669712 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
14669640 TTGTGAAGAA
*
14669650 CCTAACCTTAGAACTCTTTGAAGAGAGCT
1 CCTAACCTTAGAACTCGTTGAAGAGAGCT
* *
14669679 CCTAACCTTGGAACTCGTTGAAGGGAGCT
1 CCTAACCTTAGAACTCGTTGAAGAGAGCT
*
14669708 TCTAA
1 CCTAA
14669713 TCATGAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (29 bp):
CCTAACCTTAGAACTCGTTGAAGAGAGCT
Found at i:14670297 original size:29 final size:29
Alignment explanation
Indices: 14670239--14670297 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
14670229 TGAATATATA
*
14670239 TGGAACCTGTTGAAAGGAGCTCCTACCCT
1 TGGAACCTGTTGAAAGGAGCTCCTAACCT
* * *
14670268 TGGAACTTGTTGAAGGGAGCTCTTAACCT
1 TGGAACCTGTTGAAAGGAGCTCCTAACCT
14670297 T
1 T
14670298 AAACTCATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (29 bp):
TGGAACCTGTTGAAAGGAGCTCCTAACCT
Found at i:14670441 original size:15 final size:15
Alignment explanation
Indices: 14670417--14670446 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14670407 TAAGAATGAG
*
14670417 AACTATAATTAAGGA
1 AACTAAAATTAAGGA
14670432 AACTAAAATTAAGGA
1 AACTAAAATTAAGGA
14670447 CTTCTAATTG
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:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (15 bp):
AACTAAAATTAAGGA
Found at i:14673853 original size:13 final size:13
Alignment explanation
Indices: 14673835--14673860 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14673825 TTGAAGCTTT
14673835 TTTTTAATTAATA
1 TTTTTAATTAATA
14673848 TTTTTAATTAATA
1 TTTTTAATTAATA
14673861 AATATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTAATTAATA
Found at i:14677868 original size:52 final size:50
Alignment explanation
Indices: 14677804--14677920 Score: 137
Period size: 50 Copynumber: 2.3 Consensus size: 50
14677794 ATGAACAAAT
* *
14677804 GAGTTACTTAATGCAAGAC-TTAATTTAATGATGCAGGCTTAAACTAACATGG
1 GAGTTACATAATGCAAGACATT-ATTT-ATGATGCAGACTT-AACTAACATGG
* * * *
14677856 GAGTTACATAATGCATGTCATTATTTATGATGCATACTTAACTAGCATGG
1 GAGTTACATAATGCAAGACATTATTTATGATGCAGACTTAACTAACATGG
*
14677906 AAGTTACATAATGCA
1 GAGTTACATAATGCA
14677921 CAACTTTATT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 24 0.42
51 11 0.19
52 20 0.35
53 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (50 bp):
GAGTTACATAATGCAAGACATTATTTATGATGCAGACTTAACTAACATGG
Found at i:14686648 original size:19 final size:19
Alignment explanation
Indices: 14686626--14686663 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14686616 TCAATCATCC
14686626 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
14686645 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
14686664 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:14692264 original size:26 final size:26
Alignment explanation
Indices: 14692228--14692278 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
14692218 TTGAATAAAA
*
14692228 AGGGGTTGCTAATTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
14692254 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
14692279 AAATTATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:14692397 original size:85 final size:84
Alignment explanation
Indices: 14692254--14692573 Score: 365
Period size: 85 Copynumber: 3.8 Consensus size: 84
14692244 TGATTCCCCG
* * * * *
14692254 AGGGGTTGCTAAGTGCTGATTCCCC-AAATTATTGACTCTAAAGGTGGTTGCTAAGTGCTGATCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAA-CACTGAATATAAAGGTGGTTGCTAAGTGCTGATC-
*
14692318 CACCGTATTTTTAACTGTGAA
64 CACCGTATTTTTAATTGTGAA
* * ** * *
14692339 AGGGGTTGCTAAGTGTTGGTTCCCCGTAACGTTGAATATAAATGTGGTTGCTATGTGCTGAATCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAACACTGAATATAAAGGTGGTTGCTAAGTGCTG-ATCC
14692404 ACCGTATTTTTAATTGTGAA
65 ACCGTATTTTTAATTGTGAA
* * * *
14692424 TGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATACAAAGGTGGTTGCTAAATGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAACACTGAATATAAAGGTGGTTGCTAAGTGCTGA-TCC
* **
14692489 ACCGAATCCTTAATTGTGAA
65 ACCGTATTTTTAATTGTGAA
* * * * *
14692509 AGGGGTTGCTATGTGCTGATTCCCTGTATCACTGAAT-TTATGGTGGTTGCTAAGTGCTGAATCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAACACTGAATATAAAGGTGGTTGCTAAGTGCTG-ATCC
14692573 A
65 A
14692574 TCGAGTAACG
Statistics
Matches: 201, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
84 23 0.11
85 173 0.86
86 5 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (84 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTAACACTGAATATAAAGGTGGTTGCTAAGTGCTGATCCA
CCGTATTTTTAATTGTGAA
Found at i:14692431 original size:43 final size:42
Alignment explanation
Indices: 14692254--14692531 Score: 192
Period size: 43 Copynumber: 6.5 Consensus size: 42
14692244 TGATTCCCCG
** * * *
14692254 AGGGGTTGCTAAGTGCTGATTCC-CCAAATTATTGACTCT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTATT-TTTAATGTGAA
14692295 AGGTGGTTGCTAAGTGCTGA-TCACACCGTATTTTTAACTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTC-CACCGTATTTTTAA-TGTGAA
* * ** * *
14692339 AGGGGTTGCTAAGTGTTGGTTCC-CCGTAACGTTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGT-ATTTTTAATGTGAA
* * *
14692380 ATGTGGTTGCTATGTGCTGAATCCACCGTATTTTTAATTGTGAA
1 A-GGGGTTGCTAAGTGCTGATTCCACCGTATTTTTAA-TGTGAA
* ** * **
14692424 TGGGGTTGCTAAGTGCTGATTCC-CCGTATCACTGAAT-ACAA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTAT-TTTTAATGTGAA
* * **
14692465 AGGTGGTTGCTAAATGCTGATTCCACCGAATCCTTAATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATTTTTAA-TGTGAA
*
14692509 AGGGGTTGCTATGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCC
14692532 CTGTATCACT
Statistics
Matches: 183, Mismatches: 38, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
41 12 0.07
42 78 0.43
43 79 0.43
44 14 0.08
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
AGGGGTTGCTAAGTGCTGATTCCACCGTATTTTTAATGTGAA
Found at i:14695056 original size:23 final size:23
Alignment explanation
Indices: 14695026--14695072 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
14695016 CAACCTCGAA
14695026 TCCCGAAAGAAACCCTAGTTCTT
1 TCCCGAAAGAAACCCTAGTTCTT
14695049 TCCCGAAAGAAACCCTAGTTCTT
1 TCCCGAAAGAAACCCTAGTTCTT
14695072 T
1 T
14695073 TCTTCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (23 bp):
TCCCGAAAGAAACCCTAGTTCTT
Found at i:14704152 original size:69 final size:70
Alignment explanation
Indices: 14704035--14704199 Score: 224
Period size: 69 Copynumber: 2.4 Consensus size: 70
14704025 ATCATCAGAA
* * * *
14704035 TGCCATAGCCTAGCTATAGTCCTACATATATACACTGCCATGGTCCAACCATGGTCTTACGTCAG
1 TGCCATAGCCTTGCTATGGTCTTACA-ATATACACTGCCATGGTCCAACCATGGTCTTACATCAG
*
14704100 AACAAT
65 AACAAC
* * * * *
14704106 TGTCATAGCCTTGCTATGGTCTTAC-ATATACATTGCCATGGTCCAACCATGGTTTTATATCCGA
1 TGCCATAGCCTTGCTATGGTCTTACAATATACACTGCCATGGTCCAACCATGGTCTTACATCAGA
14704170 ACAAC
66 ACAAC
14704175 TGCCATAGCCTTGCTATGGTCTTAC
1 TGCCATAGCCTTGCTATGGTCTTAC
14704200 GTTTATACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
69 62 0.75
71 21 0.25
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (70 bp):
TGCCATAGCCTTGCTATGGTCTTACAATATACACTGCCATGGTCCAACCATGGTCTTACATCAGA
ACAAC
Found at i:14707182 original size:50 final size:50
Alignment explanation
Indices: 14707116--14707357 Score: 277
Period size: 50 Copynumber: 4.7 Consensus size: 50
14707106 TTCATGAACA
* * * **
14707116 GCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
* * ** * *
14707166 GCCCATGCCATGTCCCAGACATTGTCTTACGGGGGACCTCTCATCTCGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
* * *
14707216 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
* * *
14707266 ACTAATGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG-T
14707322 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
14707358 TCACTTTACC
Statistics
Matches: 159, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
50 122 0.77
53 1 0.01
55 2 0.01
56 34 0.21
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
Found at i:14712489 original size:14 final size:14
Alignment explanation
Indices: 14712470--14712496 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14712460 ATCAATACTT
14712470 TTTTTTCTTATTCC
1 TTTTTTCTTATTCC
14712484 TTTTTTCTTATTC
1 TTTTTTCTTATTC
14712497 TTATTCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTCTTATTCC
Found at i:14715608 original size:20 final size:21
Alignment explanation
Indices: 14715571--14715630 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
14715561 TTCGGGTGGA
14715571 TCAGCTCTT-TCGAGCTTCTAT
1 TCAGCTCTTAT-GAGCTTCTAT
*
14715592 TCAGCTCTTAT-AGCTTCTGT
1 TCAGCTCTTATGAGCTTCTAT
*
14715612 TTAGCTCTTATGAGCTTCT
1 TCAGCTCTTATGAGCTTCT
14715631 GTTGGCGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 18 0.51
21 16 0.46
22 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTAT
Found at i:14715631 original size:21 final size:21
Alignment explanation
Indices: 14715571--14715633 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
14715561 TTCGGGTGGA
*
14715571 TCAGCTCTT-TCGAGCTTCTAT
1 TCAGCTCTTAT-GAGCTTCTGT
14715592 TCAGCTCTTAT-AGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
*
14715612 TTAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
14715633 T
1 T
14715634 GGCGTATTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.47
21 19 0.50
22 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:14721298 original size:48 final size:48
Alignment explanation
Indices: 14721228--14721347 Score: 172
Period size: 48 Copynumber: 2.5 Consensus size: 48
14721218 AGAACATATA
*
14721228 TGGACAAAGCCACCAAATTTGTAGACAAGCTGCCAATATACATAGTTG
1 TGGACAAAGCCACCAAATTTGTAGACAAGCTGCCAATACACATAGTTG
* * *
14721276 TGGACAAAGTCATCGAAA-TTGTAGACAAGCTGCCAATACACATAGTTT
1 TGGACAAAGCCA-CCAAATTTGTAGACAAGCTGCCAATACACATAGTTG
*
14721324 TGGATAAA-CCACCAAATTTGTAGA
1 TGGACAAAGCCACCAAATTTGTAGA
14721348 TTATTCAACT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
46 4 0.06
47 9 0.14
48 46 0.73
49 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (48 bp):
TGGACAAAGCCACCAAATTTGTAGACAAGCTGCCAATACACATAGTTG
Found at i:14728680 original size:92 final size:92
Alignment explanation
Indices: 14728581--14728779 Score: 398
Period size: 92 Copynumber: 2.2 Consensus size: 92
14728571 TCTGCGCTGA
14728581 TCTTCTATTCTTTTTTTGCTGTTCCAATGCTGCAAGTGTTTTTGATTATCGGTAAAGTGTTTATA
1 TCTTCTATTCTTTTTTTGCTGTTCCAATGCTGCAAGTGTTTTTGATTATCGGTAAAGTGTTTATA
14728646 CGCCTCACTTTTTGATTAAACCTGTTC
66 CGCCTCACTTTTTGATTAAACCTGTTC
14728673 TCTTCTATTCTTTTTTTGCTGTTCCAATGCTGCAAGTGTTTTTGATTATCGGTAAAGTGTTTATA
1 TCTTCTATTCTTTTTTTGCTGTTCCAATGCTGCAAGTGTTTTTGATTATCGGTAAAGTGTTTATA
14728738 CGCCTCACTTTTTGATTAAACCTGTTC
66 CGCCTCACTTTTTGATTAAACCTGTTC
14728765 TCTTCTATTCTTTTT
1 TCTTCTATTCTTTTT
14728780 CTTAAAACTG
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 107 1.00
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.50
Consensus pattern (92 bp):
TCTTCTATTCTTTTTTTGCTGTTCCAATGCTGCAAGTGTTTTTGATTATCGGTAAAGTGTTTATA
CGCCTCACTTTTTGATTAAACCTGTTC
Found at i:14729836 original size:26 final size:25
Alignment explanation
Indices: 14729797--14729870 Score: 103
Period size: 26 Copynumber: 2.9 Consensus size: 25
14729787 TGGAGGAAGT
14729797 ATACTATACTGGCAGCTTTGCTGCG
1 ATACTATACTGGCAGCTTTGCTGCG
*
14729822 ATACTGATATTGGCAGCTTTGCTGCG
1 ATACT-ATACTGGCAGCTTTGCTGCG
* *
14729848 TTACTATTACTGGCAGATTTGCT
1 ATACTA-TACTGGCAGCTTTGCT
14729871 ACAATATTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 6 0.14
26 37 0.86
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (25 bp):
ATACTATACTGGCAGCTTTGCTGCG
Found at i:14730016 original size:9 final size:9
Alignment explanation
Indices: 14730002--14730032 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14729992 GTTAAACGAA
14730002 TCGAGTTAT
1 TCGAGTTAT
*
14730011 TCGAGTTAA
1 TCGAGTTAT
14730020 TCGAGTTAT
1 TCGAGTTAT
14730029 TCGA
1 TCGA
14730033 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:14730358 original size:30 final size:31
Alignment explanation
Indices: 14730324--14730382 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
14730314 AAACCTTTTA
*
14730324 TTTTCCCCCAAAA-TTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
* *
14730353 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
14730383 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:14730970 original size:29 final size:29
Alignment explanation
Indices: 14730925--14731007 Score: 127
Period size: 27 Copynumber: 3.0 Consensus size: 29
14730915 ACTGTATTGA
*
14730925 TACTGTAATGGGCTAAGGCCCACACTGTT
1 TACTGTATTGGGCTAAGGCCCACACTGTT
*
14730954 TACTGTATTGGGTTAAGGCCC-CACTG-T
1 TACTGTATTGGGCTAAGGCCCACACTGTT
14730981 TACTGTATTGGGCTAAGG-CCACACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
14731008 ACTATTACTG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 2 0.04
27 23 0.47
28 5 0.10
29 19 0.39
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (29 bp):
TACTGTATTGGGCTAAGGCCCACACTGTT
Found at i:14731016 original size:32 final size:30
Alignment explanation
Indices: 14730925--14731032 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 30
14730915 ACTGTATTGA
*
14730925 TACTGTAATGGGCTAAGGCCCACACTG--TT
1 TACTGTATTGGGCTAAGG-CCACACTGACTT
* *
14730954 TACTGTATTGGGTTAAGGCCCCACTG---T
1 TACTGTATTGGGCTAAGGCCACACTGACTT
14730981 TACTGTATTGGGCTAAGGCCACACTGTACTAT
1 TACTGTATTGGGCTAAGGCCACACTG-ACT-T
* * *
14731013 TACTGAATAGGGCTCAGGCC
1 TACTGTATTGGGCTAAGGCC
14731033 CAGACTATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
27 25 0.38
28 7 0.11
29 16 0.24
32 18 0.27
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (30 bp):
TACTGTATTGGGCTAAGGCCACACTGACTT
Found at i:14734404 original size:20 final size:21
Alignment explanation
Indices: 14734366--14734405 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14734356 TTATATTTTA
14734366 TTTTTATTTTTTTATTATATG
1 TTTTTATTTTTTTATTATATG
14734387 TTTTT-TTTGTTTTA-TATAT
1 TTTTTATTT-TTTTATTATAT
14734406 TTCATTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTTTTATTATATG
Found at i:14746654 original size:45 final size:45
Alignment explanation
Indices: 14746598--14747120 Score: 682
Period size: 45 Copynumber: 11.8 Consensus size: 45
14746588 GTCTGAAAAG
* * *
14746598 AGCAGGTCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAATAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * *
14746643 AGTATATCTTGTCTTCCTATATT----GCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * * *
14746684 AGCAGATCTTGTCTTCCTATATGGGTAGCGAAGTATATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* *
14746729 AACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* *
14746774 AGCAGACCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * *
14746819 AGCAGATCTTGTCTTCCTATATGGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * *
14746864 AACATATC-T-T-TTCCTGTATTGGCAGCGAAGTAGATTAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * *
14746906 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * *
14746951 AACATATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * *
14746996 AGCAGATCTTATCTTCCTGTATTGGTAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* *
14747041 AACAGATCTTGTCTTCCTGTATTGGCAGAGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* *
14747086 AGCAGATCTTGTCTGCCTGTATTGGCAGTGAAGTA
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTA
14747121 AATCGAAGCC
Statistics
Matches: 417, Mismatches: 54, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
41 36 0.09
42 33 0.08
43 2 0.00
44 2 0.00
45 344 0.82
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
Found at i:14746989 original size:222 final size:225
Alignment explanation
Indices: 14746604--14747120 Score: 724
Period size: 222 Copynumber: 2.3 Consensus size: 225
14746594 AAAGAGCAGG
* * * * ** * * *
14746604 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAATATAGTATATCTTGTCTTCCTATATT---
1 TCTTGTCTTCCTATATGGGCAGAGAAGTAGATCAAAGATAACAGATCTTGTCTGCCTGTATTGGC
*
14746666 -GCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATGGGTAGCGAAGTATATCGAAGATA
66 AGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATGGGTAGCGAAGTAGATCGAAGATA
* *
14746730 ACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGACCTTGTCTTCCTATA
131 ACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGACCTTATCTTCCTATA
*
14746795 TTGGCAGCGAAGTAGATCAAAGATAGCAGA
196 TTGGCAGCGAAGTAGATCAAAGATAACAGA
* * * *
14746825 TCTTGTCTTCCTATATGGGTAGCGAAGTAGATCGAAGATAACATATCTT-T-T-CCTGTATTGGC
1 TCTTGTCTTCCTATATGGGCAGAGAAGTAGATCAAAGATAACAGATCTTGTCTGCCTGTATTGGC
* *
14746887 AGCGAAGTAGATTAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATA
66 AGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATGGGTAGCGAAGTAGATCGAAGATA
* * * *
14746952 ACATATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTATCTTCCTGTA
131 ACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGACCTTATCTTCCTATA
* *
14747017 TTGGTAGTGAAGTAGATCAAAGATAACAGA
196 TTGGCAGCGAAGTAGATCAAAGATAACAGA
* * *
14747047 TCTTGTCTTCCTGTATTGGCAGAGAAGTAGATCAAAGATAGCAGATCTTGTCTGCCTGTATTGGC
1 TCTTGTCTTCCTATATGGGCAGAGAAGTAGATCAAAGATAACAGATCTTGTCTGCCTGTATTGGC
*
14747112 AGTGAAGTA
66 AGCGAAGTA
14747121 AATCGAAGCC
Statistics
Matches: 260, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
218 7 0.03
219 1 0.00
220 1 0.00
221 41 0.16
222 189 0.73
223 1 0.00
224 1 0.00
225 19 0.07
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (225 bp):
TCTTGTCTTCCTATATGGGCAGAGAAGTAGATCAAAGATAACAGATCTTGTCTGCCTGTATTGGC
AGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATGGGTAGCGAAGTAGATCGAAGATA
ACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGACCTTATCTTCCTATA
TTGGCAGCGAAGTAGATCAAAGATAACAGA
Found at i:14747673 original size:22 final size:22
Alignment explanation
Indices: 14747629--14747678 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
14747619 TTTGTACAAG
14747629 CCCAATAACCCTAAACCTAAAA
1 CCCAATAACCCTAAACCTAAAA
* *
14747651 CCCAACTAACCC-AAGCCTGAAA
1 CCCAA-TAACCCTAAACCTAAAA
14747673 -CCAATA
1 CCCAATA
14747679 GCAGAGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 4 0.16
22 13 0.52
23 6 0.24
ACGTcount: A:0.46, C:0.38, G:0.04, T:0.12
Consensus pattern (22 bp):
CCCAATAACCCTAAACCTAAAA
Found at i:14757535 original size:48 final size:48
Alignment explanation
Indices: 14757482--14757577 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
14757472 TTGTTGAGAT
*
14757482 TGTCAAATTGCATAGGGTACCAGTTTTTATTATTTTTTATAAAGATCC
1 TGTCAAATTGCACAGGGTACCAGTTTTTATTATTTTTTATAAAGATCC
* *
14757530 TGTCAAATTGCACGGGGTACCAGTTTTTATTATTTTTTATATAGATCC
1 TGTCAAATTGCACAGGGTACCAGTTTTTATTATTTTTTATAAAGATCC
14757578 GCAATTTACA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (48 bp):
TGTCAAATTGCACAGGGTACCAGTTTTTATTATTTTTTATAAAGATCC
Found at i:14760893 original size:12 final size:12
Alignment explanation
Indices: 14760876--14760905 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14760866 TCAGATAATT
14760876 ACACGGCCTAGC
1 ACACGGCCTAGC
*
14760888 ACACGGCCTGGC
1 ACACGGCCTAGC
14760900 ACACGG
1 ACACGG
14760906 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:14766581 original size:30 final size:27
Alignment explanation
Indices: 14766526--14766582 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
14766516 TAAAACAATT
*
14766526 ATAGAAAAATAATTAAATTAAAATTAA
1 ATAGAAAAATAATAAAATTAAAATTAA
14766553 ATAGAAAAATAATCCAAAATTCAAAATTAA
1 ATAGAAAAATAAT--AAAATT-AAAATTAA
14766583 CAATTTCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.50
29 5 0.19
30 8 0.31
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (27 bp):
ATAGAAAAATAATAAAATTAAAATTAA
Found at i:14769575 original size:35 final size:35
Alignment explanation
Indices: 14769430--14769576 Score: 145
Period size: 35 Copynumber: 4.2 Consensus size: 35
14769420 TGTTTTAAAA
*
14769430 GCAAAGCTTTTTGATAATCCAAGCTCACCTTGAAG
1 GCAAAGCTTTTTGATAATCCGAGCTCACCTTGAAG
* * * ** *
14769465 GTAGAG--TTTTAATAAAACGAAGCTCGCCTTGAAG
1 GCAAAGCTTTTTGATAATCCG-AGCTCACCTTGAAG
* * ** *
14769499 GCAAAGATTTTTTATAATCCGAGCTTGCATTGAAG
1 GCAAAGCTTTTTGATAATCCGAGCTCACCTTGAAG
* *
14769534 GCAAAGCTTTTTGATAATCTGAGCTTACCTTGAAG
1 GCAAAGCTTTTTGATAATCCGAGCTCACCTTGAAG
14769569 GCAAAGCT
1 GCAAAGCT
14769577 GTAATAGAAC
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
33 9 0.10
34 17 0.19
35 54 0.60
36 10 0.11
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (35 bp):
GCAAAGCTTTTTGATAATCCGAGCTCACCTTGAAG
Found at i:14771195 original size:35 final size:35
Alignment explanation
Indices: 14771150--14771343 Score: 124
Period size: 34 Copynumber: 5.6 Consensus size: 35
14771140 AATAAAATGA
* * *
14771150 AGCTCTCCTTGAAGGCAAAGCTTTTTGATAATTTG
1 AGCTCGCCTTGAAGGTAAAGCTTTTTGATAATTCG
* * *
14771185 AGCTCGCCTTGAAGGTAATGTTTTTTTGATAATTCA
1 AGCTCGCCTTGAAGGTAAAG-CTTTTTGATAATTCG
*** * * * **
14771221 AGCTCATTTTGAAGATAAAG--TTGTAATAAAACG
1 AGCTCGCCTTGAAGGTAAAGCTTTTTGATAATTCG
* * * * * *
14771254 AAGCTAGCCTTGAAGATAAAGATTTTTTATGATCCG
1 -AGCTCGCCTTGAAGGTAAAGCTTTTTGATAATTCG
* * **
14771290 AGCTTG-CTTGAAGGAAAAGCTTTTTGATAATTTA
1 AGCTCGCCTTGAAGGTAAAGCTTTTTGATAATTCG
*
14771324 AGCTCGCCTTGAAGATAAAG
1 AGCTCGCCTTGAAGGTAAAG
14771344 TTGTAATAGA
Statistics
Matches: 117, Mismatches: 37, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
33 8 0.07
34 41 0.35
35 33 0.28
36 35 0.30
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (35 bp):
AGCTCGCCTTGAAGGTAAAGCTTTTTGATAATTCG
Found at i:14771267 original size:34 final size:34
Alignment explanation
Indices: 14771229--14771427 Score: 127
Period size: 34 Copynumber: 5.8 Consensus size: 34
14771219 CAAGCTCATT
*
14771229 TTGAAGATAAAGTTGTAATAAAACGAAGCTAGCC
1 TTGAAGATAAAGTTGTAATAAAACAAAGCTAGCC
** * * ** *
14771263 TTGAAGATAAAGATT-TTTTATGATCCGAGCTTG-C
1 TTGAAGATAAAG-TTGTAATA-AAACAAAGCTAGCC
* * *** *
14771297 TTGAAGGA-AAAGCTTTTTGATAATTTAA-GCTCGCC
1 TTGAA-GATAAAG--TTGTAATAAAACAAAGCTAGCC
* * *
14771332 TTGAAGATAAAGTTGTAATAGAACAAAGTTAACC
1 TTGAAGATAAAGTTGTAATAAAACAAAGCTAGCC
* *
14771366 TTGAAGTTAAAGTTGTAATAAAACAAAGCTTGCC
1 TTGAAGATAAAGTTGTAATAAAACAAAGCTAGCC
** *
14771400 TTGAAGGCAAAGTTGTAATAAAAAAAAG
1 TTGAAGATAAAGTTGTAATAAAACAAAG
14771428 TATAGGTAAT
Statistics
Matches: 124, Mismatches: 33, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
33 8 0.06
34 89 0.72
35 24 0.19
36 3 0.02
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (34 bp):
TTGAAGATAAAGTTGTAATAAAACAAAGCTAGCC
Found at i:14771403 original size:103 final size:103
Alignment explanation
Indices: 14771207--14771411 Score: 234
Period size: 103 Copynumber: 2.0 Consensus size: 103
14771197 AGGTAATGTT
** * *
14771207 TTTTTGATAATTCAAGCTCATTTTGAAGATAAAGTTGTAATAAAACGAAGCTAGCCTTGAAGATA
1 TTTTTGATAATTCAAGCTCACCTTGAAGATAAAGTTGTAATAAAACAAAGCTAACCTTGAAGATA
** * * **
14771272 AAGATTTTTTATGATCCGAGCTTGCTTGAAGGAAAAGC
66 AAGATTTAATATAAACAAAGCTTGCTTGAAGGAAAAGC
* * * * *
14771310 TTTTTGATAATTTAAGCTCGCCTTGAAGATAAAGTTGTAATAGAACAAAGTTAACCTTGAAGTTA
1 TTTTTGATAATTCAAGCTCACCTTGAAGATAAAGTTGTAATAAAACAAAGCTAACCTTGAAGATA
*
14771375 AAG-TTGTAATA-AAACAAAGCTTGCCTTGAAGGCAAAG
66 AAGATT-TAATATAAACAAAGCTTG-CTTGAAGGAAAAG
14771412 TTGTAATAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
102 10 0.12
103 74 0.88
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (103 bp):
TTTTTGATAATTCAAGCTCACCTTGAAGATAAAGTTGTAATAAAACAAAGCTAACCTTGAAGATA
AAGATTTAATATAAACAAAGCTTGCTTGAAGGAAAAGC
Found at i:14774830 original size:7 final size:6
Alignment explanation
Indices: 14774796--14774829 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
14774786 TGAAAGTTAC
14774796 TTTCTTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTT
14774830 TTGCTTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:14781190 original size:14 final size:14
Alignment explanation
Indices: 14781171--14781200 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14781161 ATTGCGTTCG
14781171 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
*
14781185 TAGTTAATTTAGAT
1 TAGTTAAATTAGAT
14781199 TA
1 TA
14781201 AAAACAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:14788166 original size:27 final size:26
Alignment explanation
Indices: 14788140--14788203 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
14788130 CTTTCCTTTC
*
14788140 CTTTA-TTTTATTTTATTTCTTTATTT
1 CTTTATTTTTATTAT-TTTCTTTATTT
*
14788166 CTTTATCTTTTATTATTTTGTTTATTT
1 CTTTAT-TTTTATTATTTTCTTTATTT
*
14788193 TTTTATTTTTA
1 CTTTATTTTTA
14788204 GTTTCTTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.30
27 15 0.45
28 8 0.24
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.77
Consensus pattern (26 bp):
CTTTATTTTTATTATTTTCTTTATTT
Found at i:14788201 original size:8 final size:8
Alignment explanation
Indices: 14788150--14788202 Score: 61
Period size: 8 Copynumber: 6.2 Consensus size: 8
14788140 CTTTATTTTA
14788150 TTTTATTT
1 TTTTATTT
*
14788158 CTTTATTT
1 TTTTATTT
*
14788166 CTTTATCTT
1 TTTTAT-TT
14788175 TTATTATTT
1 TT-TTATTT
14788184 TGTTTATTT
1 T-TTTATTT
14788193 TTTTATTT
1 TTTTATTT
14788201 TT
1 TT
14788203 AGTTTCTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
8 22 0.55
9 13 0.32
10 5 0.12
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTATTT
Found at i:14788202 original size:18 final size:17
Alignment explanation
Indices: 14788141--14788201 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
14788131 TTTCCTTTCC
* *
14788141 TTTATTTTATTTTATTTC
1 TTTATTTT-GTTTATTTT
*
14788159 TTTA-TTTCTTTATCTTT
1 TTTATTTTGTTTAT-TTT
14788176 TATTATTTTGTTTATTTT
1 T-TTATTTTGTTTATTTT
14788194 TTTATTTT
1 TTTATTTT
14788202 TAGTTTCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.14
17 13 0.35
18 11 0.30
19 8 0.22
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTATTTTGTTTATTTT
Found at i:14791230 original size:11 final size:14
Alignment explanation
Indices: 14791195--14791221 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14791185 TTAAAAATGT
14791195 TCATCTTTAGTGTA
1 TCATCTTTAGTGTA
14791209 TCATCTTTAGTGT
1 TCATCTTTAGTGT
14791222 TCTTTTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (14 bp):
TCATCTTTAGTGTA
Found at i:14792445 original size:14 final size:14
Alignment explanation
Indices: 14792426--14792455 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14792416 ATTGTGTTCG
14792426 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
*
14792440 TAGTTAATTTAGAT
1 TAGTTAAATTAGAT
14792454 TA
1 TA
14792456 AAAACAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:14795022 original size:20 final size:20
Alignment explanation
Indices: 14794997--14795039 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
14794987 CTAGGAGTTC
14794997 ATTTTTCTAGTAGAAATAAA
1 ATTTTTCTAGTAGAAATAAA
14795017 ATTTTTCTAGTAGAAATAAA
1 ATTTTTCTAGTAGAAATAAA
14795037 ATT
1 ATT
14795040 CTACAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (20 bp):
ATTTTTCTAGTAGAAATAAA
Found at i:14809419 original size:72 final size:72
Alignment explanation
Indices: 14809298--14809431 Score: 205
Period size: 72 Copynumber: 1.9 Consensus size: 72
14809288 AAAAGTTTTT
* * *
14809298 TCAAAATGTCAAAGTAATATTATCTTTCATTAAACATTGCATCACAGTGTCATACAATCATATCC
1 TCAAAATGCCAAAGTAACATTATCTTTCAATAAACATTGCATCACAGTGTCATACAATCATATCC
14809363 AATACTA
66 AATACTA
* * * *
14809370 TCAAAATGCCAATGTAACATTATCTTTCAATAAACATTGCATCATAGTGTTATACCATCATA
1 TCAAAATGCCAAAGTAACATTATCTTTCAATAAACATTGCATCACAGTGTCATACAATCATA
14809432 CCATGGATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (72 bp):
TCAAAATGCCAAAGTAACATTATCTTTCAATAAACATTGCATCACAGTGTCATACAATCATATCC
AATACTA
Found at i:14816535 original size:47 final size:44
Alignment explanation
Indices: 14816468--14816558 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 44
14816458 GCTTAGTCCC
14816468 TAGGGTTTTTTGGTTTAGGGTTTTAAGGG-TTTGTT-AAAATAATT
1 TAGGGTTTTTTGGTTTAGGG-TTT-AGGGTTTTGTTAAAAATAATT
*
14816512 TAGGGTTTTTGGTAGGTTTAGGGTTTAGGGTTTTTTTAAAAATAATT
1 TAGGGTTTTT--T-GGTTTAGGGTTTAGGGTTTTGTTAAAAATAATT
14816559 AAATTAGGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
44 10 0.24
45 4 0.10
46 9 0.22
47 18 0.44
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.49
Consensus pattern (44 bp):
TAGGGTTTTTTGGTTTAGGGTTTAGGGTTTTGTTAAAAATAATT
Found at i:14816572 original size:33 final size:31
Alignment explanation
Indices: 14816529--14816652 Score: 142
Period size: 33 Copynumber: 3.9 Consensus size: 31
14816519 TTTGGTAGGT
14816529 TTAGGGTTTAGGGTTTTTTTAAAAATAATTAAA
1 TTAGGGTTTAGGG--TTTTTAAAAATAATTAAA
* *
14816562 TTAGGTTTTAGGGTTTTAAATAAATAAATTAAA
1 TTAGGGTTTAGGGTTTTTAA-AAAT-AATTAAA
* *
14816595 TTAGGGATTAGGGTTTTTAAGAA-AATTAAA
1 TTAGGGTTTAGGGTTTTTAAAAATAATTAAA
* **
14816625 TTATGGTTTAGTTTTTTTAAAAATAATT
1 TTAGGGTTTAGGGTTTTTAAAAATAATT
14816653 TTGTATTTAG
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
30 25 0.32
31 10 0.13
32 6 0.08
33 36 0.47
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (31 bp):
TTAGGGTTTAGGGTTTTTAAAAATAATTAAA
Found at i:14816581 original size:30 final size:29
Alignment explanation
Indices: 14816545--14816652 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 29
14816535 TTTAGGGTTT
14816545 TTTTAAAAATAATTAAATTAGGTTTTAGGG
1 TTTTAAAAATAATTAAATTAGG-TTTAGGG
*
14816575 TTTTAAATAAATAAATTAAATTAGGGATTAGGG
1 TTTT-AA-AAAT-AATTAAATTA-GGTTTAGGG
* **
14816608 TTTTTAAGAA-AATTAAATTATGGTTTAGTTT
1 -TTTTAAAAATAATTAAATTA-GGTTTAG-GG
14816639 TTTTAAAAATAATT
1 TTTTAAAAATAATT
14816653 TTGTATTTAG
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
30 28 0.44
31 6 0.09
32 6 0.09
33 18 0.28
34 6 0.09
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (29 bp):
TTTTAAAAATAATTAAATTAGGTTTAGGG
Found at i:14816931 original size:125 final size:125
Alignment explanation
Indices: 14816704--14816970 Score: 342
Period size: 125 Copynumber: 2.1 Consensus size: 125
14816694 ACTTTTTTTC
*
14816704 TTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGCTCTGAAAAGATAATGAAAAAAC
1 TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGCTCTGAAAAGATAATGAAAAAAC
* * * *
14816769 GCTTCAAGCAGAATGCGCTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGTTCT
66 GCTTCAAGCAGAAGGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCT
* * * ** *
14816829 TTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGAGGGTTCTGAACAA-A-GGTGTCAAAA
1 TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGCTCTGAA-AAGATAATG-AAAAA
* * *
14816892 ATGCTTCAAGCAGGAGGCACTATCAGTAAAATTGA-TGAAAAAAGCTTCCACGTGGACGCTCTT
64 ACGCTTCAAGCAGAAGGCACTATCAGTAAAATT-ACTGAAAAAAGCTCCCACGTGGACGCTC-T
*
14816955 TTTTCTACAATAGTTC
1 TTTTCTACAGTAGTTC
14816971 TTATTTGGCA
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
124 2 0.02
125 102 0.84
126 18 0.15
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (125 bp):
TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGCTCTGAAAAGATAATGAAAAAAC
GCTTCAAGCAGAAGGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCT
Found at i:14817084 original size:28 final size:28
Alignment explanation
Indices: 14817052--14817105 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
14817042 AGGAGGCTAA
14817052 GTAGAATAGAAATTGAAGATGAGTGAAC
1 GTAGAATAGAAATTGAAGATGAGTGAAC
14817080 GTAGAATAGAAATTGAAGATGAGTGA
1 GTAGAATAGAAATTGAAGATGAGTGA
14817106 CTTTATTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (28 bp):
GTAGAATAGAAATTGAAGATGAGTGAAC
Found at i:14820200 original size:21 final size:21
Alignment explanation
Indices: 14820141--14820200 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
14820131 AAATAGGCCA
* *
14820141 GCCCATGTGGCTACCCCACAC
1 GCCCGTGTGGCTAACCCACAC
* * *
14820162 GCTCGTGTGGATATCCCACAC
1 GCCCGTGTGGCTAACCCACAC
14820183 GCCCGTGTGGCTAACCCA
1 GCCCGTGTGGCTAACCCA
14820201 TATGCCCATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.40, G:0.23, T:0.18
Consensus pattern (21 bp):
GCCCGTGTGGCTAACCCACAC
Found at i:14820207 original size:21 final size:21
Alignment explanation
Indices: 14820141--14820212 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
14820131 AAATAGGCCA
*
14820141 GCCCATGTGGCTACCCCACAC
1 GCCCATGTGGCTAACCCACAC
* * * *
14820162 GCTCGTGTGGATATCCCACAC
1 GCCCATGTGGCTAACCCACAC
* * *
14820183 GCCCGTGTGGCTAACCCATAT
1 GCCCATGTGGCTAACCCACAC
14820204 GCCCATGTG
1 GCCCATGTG
14820213 CTCAGACCGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.21
Consensus pattern (21 bp):
GCCCATGTGGCTAACCCACAC
Found at i:14824671 original size:23 final size:23
Alignment explanation
Indices: 14824645--14824688 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
14824635 TAAAAACCGA
14824645 AAATAAAC-TAAAATGAAAATAGG
1 AAATAAACATAAAA-GAAAATAGG
*
14824668 AAATAAACATACAAGAAAATA
1 AAATAAACATAAAAGAAAATA
14824689 AAATGTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.68, C:0.07, G:0.09, T:0.16
Consensus pattern (23 bp):
AAATAAACATAAAAGAAAATAGG
Found at i:14827208 original size:37 final size:37
Alignment explanation
Indices: 14827158--14827228 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
14827148 TTTAAATTAC
14827158 AAGTATATGGTTATTTGATATGTGAACGAAAATGATT
1 AAGTATATGGTTATTTGATATGTGAACGAAAATGATT
* *
14827195 AAGTATATGGTTATTTGATATGTGTATGAAAATG
1 AAGTATATGGTTATTTGATATGTGAACGAAAATG
14827229 TTCAAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.37, C:0.01, G:0.23, T:0.39
Consensus pattern (37 bp):
AAGTATATGGTTATTTGATATGTGAACGAAAATGATT
Found at i:14831352 original size:41 final size:41
Alignment explanation
Indices: 14831298--14831390 Score: 159
Period size: 41 Copynumber: 2.2 Consensus size: 41
14831288 TGGGATTAGG
14831298 ATTTTGAATTATTCAACTTGTTTTTGGACTTTGGATGAGGTTA
1 ATTTTG-A-TATTCAACTTGTTTTTGGACTTTGGATGAGGTTA
*
14831341 ATTTTGATATTCAACTTGTTTTTGGACTTTGGATGTGGTTA
1 ATTTTGATATTCAACTTGTTTTTGGACTTTGGATGAGGTTA
14831382 ATTTTGATA
1 ATTTTGATA
14831391 CTTGATATTG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 42 0.86
42 1 0.02
43 6 0.12
ACGTcount: A:0.23, C:0.06, G:0.20, T:0.51
Consensus pattern (41 bp):
ATTTTGATATTCAACTTGTTTTTGGACTTTGGATGAGGTTA
Found at i:14834115 original size:2 final size:2
Alignment explanation
Indices: 14834108--14834135 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14834098 TCAAAATTTG
14834108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14834136 TCAATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14836362 original size:30 final size:30
Alignment explanation
Indices: 14836328--14836392 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
14836318 TGACAAACTT
* *
14836328 TTTTTTGTTCATATTATATTTGACTT-TAAA
1 TTTTTTATTCATATTATATCTGACTTCT-AA
*
14836358 TTTTTTATTCGTATTATATCTGACTTCTAA
1 TTTTTTATTCATATTATATCTGACTTCTAA
14836388 TTTTT
1 TTTTT
14836393 GTTTTTGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (30 bp):
TTTTTTATTCATATTATATCTGACTTCTAA
Found at i:14836550 original size:9 final size:9
Alignment explanation
Indices: 14836507--14836619 Score: 69
Period size: 9 Copynumber: 12.4 Consensus size: 9
14836497 TGTGTATTAC
14836507 TGTTATGTA
1 TGTTATGTA
14836516 TGTTA-GTA
1 TGTTATGTA
* *
14836524 TTATGTCTGCTA
1 -TGT-TATG-TA
*
14836536 TG-TATGTT
1 TGTTATGTA
14836544 TGTTATGTA
1 TGTTATGTA
14836553 TGTTATGAATA
1 TGTTATG--TA
*
14836564 TG-TATGCA
1 TGTTATGTA
14836572 TGTTATGTA
1 TGTTATGTA
14836581 TGTCTAT-TA
1 TGT-TATGTA
14836590 TGTCTAT-TA
1 TGT-TATGTA
14836599 TGTCTAT-TA
1 TGT-TATGTA
14836608 TG-TATGTA
1 TGTTATGTA
14836616 TGTT
1 TGTT
14836620 GTGAATATGT
Statistics
Matches: 85, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
7 3 0.04
8 13 0.15
9 53 0.62
10 8 0.09
11 6 0.07
12 2 0.02
ACGTcount: A:0.22, C:0.05, G:0.19, T:0.53
Consensus pattern (9 bp):
TGTTATGTA
Found at i:14836566 original size:37 final size:37
Alignment explanation
Indices: 14836507--14836592 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 37
14836497 TGTGTATTAC
* * *
14836507 TGTTATGTATGTTAGTATTATGTCTGCTATG-TATGTT
1 TGTTATGTATGTTAGTAATATGTATGC-ATGTTATGTA
14836544 TGTTATGTATGTTA-TGAATATGTATGCATGTTATGTA
1 TGTTATGTATGTTAGT-AATATGTATGCATGTTATGTA
14836581 TGTCTAT-TATGT
1 TGT-TATGTATGT
14836593 CTATTATGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
36 4 0.09
37 36 0.84
38 3 0.07
ACGTcount: A:0.22, C:0.05, G:0.21, T:0.52
Consensus pattern (37 bp):
TGTTATGTATGTTAGTAATATGTATGCATGTTATGTA
Found at i:14836614 original size:63 final size:62
Alignment explanation
Indices: 14836507--14836663 Score: 163
Period size: 63 Copynumber: 2.5 Consensus size: 62
14836497 TGTGTATTAC
* * *
14836507 TGTTATGTATGTTAGTATTATGTCTGCTATGTATGTTTGTTATGTATGTTATGAATATGTATGCA
1 TGTTATGTATG-T-CTATTATGTCT-ATATGTATATTTGTTATGTATGTTATGAATATGTATGCA
* * **
14836572 TGTTATGTATGTCTATTATGTCTATTATGTCTATTATG-TATGTATGTTGTGAATATGTATGTT
1 TGTTATGTATGTCTATTATGTCTA-TATGTATATT-TGTTATGTATGTTATGAATATGTATGCA
* * * *
14836635 TGTGATTTATGACTATTATGTATATATGT
1 TGTTATGTATGTCTATTATGTCTATATGT
14836664 TGTGAATATT
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
62 5 0.06
63 60 0.76
64 3 0.04
65 11 0.14
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (62 bp):
TGTTATGTATGTCTATTATGTCTATATGTATATTTGTTATGTATGTTATGAATATGTATGCA
Found at i:14836630 original size:15 final size:16
Alignment explanation
Indices: 14836610--14836639 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14836600 GTCTATTATG
14836610 TATGTATG-TTGTGAA
1 TATGTATGTTTGTGAA
14836625 TATGTATGTTTGTGA
1 TATGTATGTTTGTGA
14836640 TTTATGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (16 bp):
TATGTATGTTTGTGAA
Found at i:14836744 original size:15 final size:16
Alignment explanation
Indices: 14836712--14836746 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14836702 TTACTGTGAA
*
14836712 GTATATTATTGTTTAT
1 GTATACTATTGTTTAT
14836728 GTATACTATTG-TTAT
1 GTATACTATTGTTTAT
14836743 GTAT
1 GTAT
14836747 GTATGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.26, C:0.03, G:0.14, T:0.57
Consensus pattern (16 bp):
GTATACTATTGTTTAT
Found at i:14836801 original size:69 final size:69
Alignment explanation
Indices: 14836724--14836908 Score: 282
Period size: 69 Copynumber: 2.7 Consensus size: 69
14836714 ATATTATTGT
* * * *
14836724 TTATGTATACTATTGTTATGTATGTATGTTATGTGGTATATTATTGTTTATTATTGTATATCATG
1 TTATGTATATTAATATTATGTATGTTTGTTATGTGGTATATTATTGTTTATTATTGTATATCATG
14836789 TATG
66 TATG
* * * * *
14836793 TTATGTATATTACTATTATGTATGTTTGTTATATGGAATATTACTGTTTATTATTGTATATTATG
1 TTATGTATATTAATATTATGTATGTTTGTTATGTGGTATATTATTGTTTATTATTGTATATCATG
14836858 TATG
66 TATG
14836862 TTATGTATATTAATATTATGTATGTTTGTTATGT-GTATATTATTGTT
1 TTATGTATATTAATATTATGTATGTTTGTTATGTGGTATATTATTGTT
14836909 ATTTATGTAT
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
68 11 0.11
69 93 0.89
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.56
Consensus pattern (69 bp):
TTATGTATATTAATATTATGTATGTTTGTTATGTGGTATATTATTGTTTATTATTGTATATCATG
TATG
Found at i:14836813 original size:24 final size:25
Alignment explanation
Indices: 14836781--14836918 Score: 111
Period size: 24 Copynumber: 5.8 Consensus size: 25
14836771 TTATTATTGT
*
14836781 ATATCATGTATGTTATGTATAT-TA
1 ATATTATGTATGTTATGTATATGTA
* *
14836805 CTATTATGTATGTT-TGTTATATGGA
1 ATATTATGTATGTTATG-TATATGTA
14836830 ATATTACTG--T-TTAT-TAT-TGT-
1 ATATTA-TGTATGTTATGTATATGTA
14836850 ATATTATGTATGTTATGTATAT-TA
1 ATATTATGTATGTTATGTATATGTA
*
14836874 ATATTATGTATGTT-TGT-TATGTGT
1 ATATTATGTATGTTATGTATATGT-A
14836898 ATATTATTGTTAT-TTATGTAT
1 ATATTA-TG-TATGTTATGTAT
14836919 GCTATGTTGA
Statistics
Matches: 92, Mismatches: 6, Indels: 29
0.72 0.05 0.23
Matches are distributed among these distances:
19 2 0.02
20 6 0.07
21 3 0.03
22 10 0.11
23 12 0.13
24 40 0.43
25 10 0.11
26 8 0.09
27 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (25 bp):
ATATTATGTATGTTATGTATATGTA
Found at i:14836865 original size:9 final size:9
Alignment explanation
Indices: 14836712--14836918 Score: 77
Period size: 9 Copynumber: 23.4 Consensus size: 9
14836702 TTACTGTGAA
14836712 GTATATTAT
1 GTATATTAT
*
14836721 -TGT-TTAT
1 GTATATTAT
*
14836728 GTATACTATT
1 GTATATTA-T
14836738 GT-TATGTAT
1 GTATAT-TAT
*
14836747 GTATGTTATGT
1 GTATATTA--T
14836758 GGTATATTATT
1 -GTATATTA-T
*
14836769 GTTTATTATT
1 GTATATTA-T
*
14836779 GTATATCAT
1 GTATATTAT
*
14836788 GTATGTTAT
1 GTATATTAT
14836797 GTATATTA-
1 GTATATTAT
*
14836805 --CTATTAT
1 GTATATTAT
*
14836812 GTATGTT-T
1 GTATATTAT
14836820 GT-TA-TAT
1 GTATATTAT
*
14836827 GGAATATTACT
1 -GTATATTA-T
*
14836838 GTTTATTATT
1 GTATATTA-T
14836848 GTATATTAT
1 GTATATTAT
*
14836857 GTATGTTAT
1 GTATATTAT
14836866 GTATATTA-
1 GTATATTAT
14836874 --ATATTAT
1 GTATATTAT
*
14836881 GTATGTT-T
1 GTATATTAT
*
14836889 GT-TA-TGT
1 GTATATTAT
14836896 GTATATTATT
1 GTATATTA-T
14836906 GT-TATTTAT
1 GTATA-TTAT
14836915 GTAT
1 GTAT
14836919 GCTATGTTGA
Statistics
Matches: 146, Mismatches: 27, Indels: 49
0.66 0.12 0.22
Matches are distributed among these distances:
6 13 0.09
7 10 0.07
8 13 0.09
9 55 0.38
10 45 0.31
11 3 0.02
12 7 0.05
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (9 bp):
GTATATTAT
Found at i:14836961 original size:13 final size:13
Alignment explanation
Indices: 14836943--14836967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14836933 TATTTAAAAT
14836943 ATGTATGTATATC
1 ATGTATGTATATC
14836956 ATGTATGTATAT
1 ATGTATGTATAT
14836968 TATAGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
ATGTATGTATATC
Found at i:14839542 original size:20 final size:20
Alignment explanation
Indices: 14839516--14839563 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
14839506 GAGCTCAAAC
*
14839516 GAGCTGAATTAAGCTCATGT
1 GAGCTGAATTAAACTCATGT
*
14839536 GATCTGAATTAAACTCATGT
1 GAGCTGAATTAAACTCATGT
14839556 GAGCTGAA
1 GAGCTGAA
14839564 CCGAGCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (20 bp):
GAGCTGAATTAAACTCATGT
Found at i:14841368 original size:18 final size:18
Alignment explanation
Indices: 14841347--14841389 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
14841337 TTTTTACTCA
14841347 CTTTTTCAATTTCCTTTT
1 CTTTTTCAATTTCCTTTT
* *
14841365 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCCTTTT
14841383 CTTTTTC
1 CTTTTTC
14841390 TTTTTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.21, G:0.02, T:0.67
Consensus pattern (18 bp):
CTTTTTCAATTTCCTTTT
Found at i:14841383 original size:6 final size:6
Alignment explanation
Indices: 14841374--14841416 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
14841364 TCTTTTGCAA
** *
14841374 TTTCTT TTTCTT TTTCTT TTTCTT TTTCAA TGTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
14841417 CATTTCTCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:14841395 original size:18 final size:18
Alignment explanation
Indices: 14841347--14841416 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
14841337 TTTTTACTCA
* *
14841347 CTTTTTCAATTTCCTTTT
1 CTTTTTCAATGTCTTTTT
* *
14841365 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATGTCTTTTT
14841383 C--TTT---T-TCTTTTT
1 CTTTTTCAATGTCTTTTT
14841395 CTTTTTCAATGTCTTTTT
1 CTTTTTCAATGTCTTTTT
14841413 CTTT
1 CTTT
14841417 CATTTCTCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
12 8 0.19
13 1 0.02
14 3 0.07
16 2 0.05
17 1 0.02
18 28 0.65
ACGTcount: A:0.09, C:0.19, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTTCAATGTCTTTTT
Found at i:14841416 original size:30 final size:30
Alignment explanation
Indices: 14841293--14841413 Score: 118
Period size: 30 Copynumber: 3.9 Consensus size: 30
14841283 TTTCCCACTC
14841293 TTTCTTTTTCTTCTCTTTCAATTTCTTTTTCAA
1 TTTCTTTTTC-T-T-TTTCAATTTCTTTTTCAA
* * **
14841326 TCTCTTTTTCCTTTTT-ACTCACTTTTTCAA
1 TTTCTTTTT-CTTTTTCAATTTCTTTTTCAA
* * **
14841356 TTTCCTTTTCTTTTGCAATTTCTTTTTCTT
1 TTTCTTTTTCTTTTTCAATTTCTTTTTCAA
*
14841386 TTTCTTTTTCTTTTTCAATGTCTTTTTC
1 TTTCTTTTTCTTTTTCAATTTCTTTTTC
14841414 TTTCATTTCT
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
29 5 0.07
30 52 0.73
31 3 0.04
32 1 0.01
33 9 0.13
34 1 0.01
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.67
Consensus pattern (30 bp):
TTTCTTTTTCTTTTTCAATTTCTTTTTCAA
Found at i:14841753 original size:14 final size:15
Alignment explanation
Indices: 14841726--14841754 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14841716 TAAGAAACTC
14841726 TTTCATCTCTTCGTG
1 TTTCATCTCTTCGTG
14841741 TTTCATC-CTTCGTG
1 TTTCATCTCTTCGTG
14841755 GACGAGTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.28, G:0.14, T:0.52
Consensus pattern (15 bp):
TTTCATCTCTTCGTG
Found at i:14844209 original size:20 final size:20
Alignment explanation
Indices: 14844184--14844227 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
14844174 TCAAACGAGT
*
14844184 TGAATTAAGCTCATGTGAGC
1 TGAATTAAACTCATGTGAGC
14844204 TGAATTAAACTCATGTGAGC
1 TGAATTAAACTCATGTGAGC
14844224 TGAA
1 TGAA
14844228 CCGAGCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (20 bp):
TGAATTAAACTCATGTGAGC
Found at i:14845696 original size:40 final size:40
Alignment explanation
Indices: 14845652--14845729 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
14845642 CCTCTGTTTG
14845652 CACTTCGGTGCCTCTGATTGCACATTTGTGCCTTTTCCTA
1 CACTTCGGTGCCTCTGATTGCACATTTGTGCCTTTTCCTA
14845692 CACTTCGGTGCCTCTGATTGCACATTTGTGCCTTTTCC
1 CACTTCGGTGCCTCTGATTGCACATTTGTGCCTTTTCC
14845730 AACTTTGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.12, C:0.31, G:0.18, T:0.40
Consensus pattern (40 bp):
CACTTCGGTGCCTCTGATTGCACATTTGTGCCTTTTCCTA
Found at i:14845724 original size:20 final size:21
Alignment explanation
Indices: 14845627--14845717 Score: 77
Period size: 20 Copynumber: 4.5 Consensus size: 21
14845617 GCTTGTATGG
* *
14845627 GATTACAC-TTCGATGCCTCT
1 GATTGCACATTCGGTGCCTCT
*
14845647 GTTTGCAC-TTCGGTGCCTCT
1 GATTGCACATTCGGTGCCTCT
*
14845667 GATTGCACATT-TGTGCCT-T
1 GATTGCACATTCGGTGCCTCT
*
14845686 --TTCCTACACTTCGGTGCCTCT
1 GATTGC-ACA-TTCGGTGCCTCT
14845707 GATTGCACATT
1 GATTGCACATT
14845718 TGTGCCTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.05
18 3 0.05
19 3 0.05
20 36 0.64
21 5 0.09
22 3 0.05
23 3 0.05
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (21 bp):
GATTGCACATTCGGTGCCTCT
Found at i:14846160 original size:13 final size:13
Alignment explanation
Indices: 14846134--14846190 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
14846124 CTTATGAGTT
14846134 AAATGTGTAA-ATG
1 AAATG-GTAAGATG
14846147 AAATGGTAAGATG
1 AAATGGTAAGATG
** *
14846160 AAATATTTAGATG
1 AAATGGTAAGATG
* *
14846173 AAATGGTTATATG
1 AAATGGTAAGATG
14846186 AAATG
1 AAATG
14846191 CTTATATGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
12 4 0.11
13 33 0.89
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.32
Consensus pattern (13 bp):
AAATGGTAAGATG
Found at i:14848305 original size:29 final size:29
Alignment explanation
Indices: 14848268--14848336 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
14848258 TGAATCATTA
14848268 TGATGGTTGTATTTTGATGGACAATTTAT
1 TGATGGTTGTATTTTGATGGACAATTTAT
*
14848297 TGATAGTTGTATTTTGATGGACAATTTAT
1 TGATGGTTGTATTTTGATGGACAATTTAT
14848326 TGATGGTTGTA
1 TGATGGTTGTA
14848337 ATGGATGGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.48
Consensus pattern (29 bp):
TGATGGTTGTATTTTGATGGACAATTTAT
Found at i:14860559 original size:1 final size:1
Alignment explanation
Indices: 14860553--14860583 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
14860543 CACCCAACTC
14860553 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14860584 CAACAGCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14865292 original size:15 final size:16
Alignment explanation
Indices: 14865253--14865294 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
14865243 TAATAATAAC
14865253 ATATGAAATAT-AAAAA
1 ATATGAAA-ATGAAAAA
*
14865269 ATATTAAAATGAAAAA
1 ATATGAAAATGAAAAA
14865285 A-ATGAAAATG
1 ATATGAAAATG
14865295 TGAGAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (16 bp):
ATATGAAAATGAAAAA
Found at i:14872780 original size:45 final size:45
Alignment explanation
Indices: 14872711--14872828 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 45
14872701 TTGCTTGAAT
* *
14872711 GAAACGAATAAGATCATAGTTGAAAGACACTATAGCA-CTATACC-
1 GAAATGAATAAGACCATAGTTGAAAGACACTATAGCATC-ATACCG
* *
14872755 GAAATTGAATAAGACCATAGTTGAAAGAAACTATGGCATCATACCG
1 GAAA-TGAATAAGACCATAGTTGAAAGACACTATAGCATCATACCG
* * *
14872801 GAAATGAGTAAGACCATAGCTAAAAGAC
1 GAAATGAATAAGACCATAGTTGAAAGAC
14872829 GTTATGGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
44 4 0.06
45 54 0.86
46 5 0.08
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (45 bp):
GAAATGAATAAGACCATAGTTGAAAGACACTATAGCATCATACCG
Found at i:14874206 original size:42 final size:42
Alignment explanation
Indices: 14874144--14874233 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
14874134 ATGGCCTGGC
* * *
14874144 ACACGGTCTGCGACACGGCCGTGTGTATC-AAGTTAGAGAGTT
1 ACACGGCCTACGACACGGCCGTGTG-ATCTAAGTCAGAGAGTT
* *
14874186 ACACGGCCTACGACATGGCCGTGTGATCTAAGTCAGTGAGTT
1 ACACGGCCTACGACACGGCCGTGTGATCTAAGTCAGAGAGTT
14874228 ACACGG
1 ACACGG
14874234 TTTAAGACAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 3 0.07
42 39 0.93
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.22
Consensus pattern (42 bp):
ACACGGCCTACGACACGGCCGTGTGATCTAAGTCAGAGAGTT
Found at i:14879835 original size:10 final size:11
Alignment explanation
Indices: 14879822--14879869 Score: 64
Period size: 10 Copynumber: 4.5 Consensus size: 11
14879812 ATAAAAATAA
14879822 ATAAAATAC-T
1 ATAAAATACAT
*
14879832 ATAAAATACTT
1 ATAAAATACAT
14879843 ATAAAATACAT
1 ATAAAATACAT
*
14879854 ATAAAA-AGAT
1 ATAAAATACAT
14879864 ATAAAA
1 ATAAAA
14879870 GTATTTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
10 18 0.51
11 17 0.49
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (11 bp):
ATAAAATACAT
Found at i:14879847 original size:11 final size:10
Alignment explanation
Indices: 14879822--14879859 Score: 58
Period size: 11 Copynumber: 3.6 Consensus size: 10
14879812 ATAAAAATAA
14879822 ATAAAATACT
1 ATAAAATACT
14879832 ATAAAATACTT
1 ATAAAATAC-T
14879843 ATAAAATACAT
1 ATAAAATAC-T
14879854 ATAAAA
1 ATAAAA
14879860 AGATATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (10 bp):
ATAAAATACT
Found at i:14879866 original size:21 final size:20
Alignment explanation
Indices: 14879812--14879869 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
14879802 TTAGTTTTCA
* *
14879812 ATAAAAATAAATAAAATACT
1 ATAAAAACATATAAAATACT
*
14879832 ATAAAATACTTATAAAATACAT
1 ATAAAA-ACATATAAAATAC-T
*
14879854 ATAAAAAGATATAAAA
1 ATAAAAACATATAAAA
14879870 GTATTTATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 6 0.19
21 18 0.58
22 7 0.23
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (20 bp):
ATAAAAACATATAAAATACT
Found at i:14885392 original size:3 final size:3
Alignment explanation
Indices: 14885384--14885426 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
14885374 TGTTTTTTCC
* *
14885384 CTT CTT CTT ATT C-T CTTT CTT CTT CTT CTT TTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT C
14885427 CCCCCAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:14885423 original size:15 final size:15
Alignment explanation
Indices: 14885385--14885524 Score: 103
Period size: 15 Copynumber: 9.2 Consensus size: 15
14885375 GTTTTTTCCC
* *
14885385 TTCTTCTTATTCTCT
1 TTCTTCTTCTTCTTT
14885400 TTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTT
14885415 TTCTTCTTCTTCCCCCCAATTT
1 TTCTTCTTCTT-----C--TTT
*
14885437 TT-TT-ATCATTCTTT
1 TTCTTCTTC-TTCTTT
*
14885451 TT-TT-TCCTTC--T
1 TTCTTCTTCTTCTTT
*
14885462 TTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTT
*
14885477 TTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTT
*
14885492 TTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTT
14885507 TTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTT
14885522 TTC
1 TTC
14885525 GTCATCCCTC
Statistics
Matches: 105, Mismatches: 8, Indels: 24
0.77 0.06 0.18
Matches are distributed among these distances:
11 3 0.03
12 2 0.02
13 8 0.08
14 8 0.08
15 71 0.68
16 1 0.01
20 3 0.03
21 4 0.04
22 5 0.05
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (15 bp):
TTCTTCTTCTTCTTT
Found at i:14885468 original size:3 final size:3
Alignment explanation
Indices: 14885457--14885520 Score: 119
Period size: 3 Copynumber: 21.0 Consensus size: 3
14885447 CTTTTTTTTC
14885457 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
14885503 CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT
14885521 TTTCGTCATC
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:14889304 original size:20 final size:20
Alignment explanation
Indices: 14889268--14889306 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14889258 TGGTAACGAA
*
14889268 TTTCTTGATGTTGCTTGATG
1 TTTCTTGATGCTGCTTGATG
14889288 TTTCTTGATAGCT-CTTGAT
1 TTTCTTGAT-GCTGCTTGAT
14889307 CTCTTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.54
Consensus pattern (20 bp):
TTTCTTGATGCTGCTTGATG
Found at i:14893133 original size:44 final size:44
Alignment explanation
Indices: 14893043--14893133 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
14893033 TGTCTAGACA
* * *
14893043 GTGTAACTCTCTGACTTGGGTCACACGGGTGTATGTCAGGCCGT
1 GTGTAACTCTCTGACTTGGGTCACACGGGTGTATGACAGACAGT
*
14893087 GTGTAACTCTCTGACTTGGGTCACAC-GGTCGTGTGACAGACAGT
1 GTGTAACTCTCTGACTTGGGTCACACGGGT-GTATGACAGACAGT
14893131 GTG
1 GTG
14893134 AGGCACTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.29
Consensus pattern (44 bp):
GTGTAACTCTCTGACTTGGGTCACACGGGTGTATGACAGACAGT
Found at i:14893749 original size:22 final size:22
Alignment explanation
Indices: 14893721--14893779 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
14893711 GGGGTAAGAA
**
14893721 TCTGCATCTGTATCTGATTTGT
1 TCTGCATCTGTATCTGACATGT
* *
14893743 TCTGCATTTGTATATGACATGT
1 TCTGCATCTGTATCTGACATGT
* *
14893765 TCTACAACTGTATCT
1 TCTGCATCTGTATCT
14893780 AATATCTTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (22 bp):
TCTGCATCTGTATCTGACATGT
Found at i:14904851 original size:21 final size:21
Alignment explanation
Indices: 14904827--14904878 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
14904817 GCGGTGGCGG
*
14904827 TGAGATTAGTTACTGTAGCGA
1 TGAGATTAGATACTGTAGCGA
* *
14904848 TGAGATTGGATACTGTAGCGG
1 TGAGATTAGATACTGTAGCGA
14904869 TGAGATTAGA
1 TGAGATTAGA
14904879 AACAATGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCGA
Found at i:14906418 original size:20 final size:20
Alignment explanation
Indices: 14906395--14906433 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14906385 ATTTTTACAT
14906395 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
14906415 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
14906434 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:14908424 original size:31 final size:31
Alignment explanation
Indices: 14908382--14908442 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
14908372 GACAAATCAG
*
14908382 AGGGACTAACTTCTCAGATGATGTAAAATAA
1 AGGGACAAACTTCTCAGATGATGTAAAATAA
*
14908413 AGGGACAAACTTCTCAGATGCTGTAAAATA
1 AGGGACAAACTTCTCAGATGATGTAAAATA
14908443 CATACTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (31 bp):
AGGGACAAACTTCTCAGATGATGTAAAATAA
Found at i:14910394 original size:18 final size:17
Alignment explanation
Indices: 14910365--14910399 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
14910355 TTTGCAACCC
14910365 AAGGGGAGGGGAAAGGG
1 AAGGGGAGGGGAAAGGG
14910382 AAGGGGAAGGGGAAAGGG
1 AAGGGG-AGGGGAAAGGG
14910400 GAGAAGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (17 bp):
AAGGGGAGGGGAAAGGG
Found at i:14910408 original size:18 final size:18
Alignment explanation
Indices: 14910371--14910410 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14910361 ACCCAAGGGG
**
14910371 AGGGGAAAGGGAAGGGGA
1 AGGGGAAAGGGAAGAAGA
*
14910389 AGGGGAAAGGGGAGAAGA
1 AGGGGAAAGGGAAGAAGA
14910407 AGGG
1 AGGG
14910411 TAACCAAACA
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:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
AGGGGAAAGGGAAGAAGA
Found at i:14911985 original size:30 final size:31
Alignment explanation
Indices: 14911925--14911985 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
14911915 TAATTGCACC
*
14911925 AAACCAAAATTCATATATCAAATTGCATATT
1 AAACCAAAATTCATATATCAAATTGAATATT
* * *
14911956 AAACCAAAGTTGATATAT-AAATTTAATATT
1 AAACCAAAATTCATATATCAAATTGAATATT
14911986 TATAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (31 bp):
AAACCAAAATTCATATATCAAATTGAATATT
Found at i:14914742 original size:37 final size:38
Alignment explanation
Indices: 14914671--14914819 Score: 168
Period size: 37 Copynumber: 4.1 Consensus size: 38
14914661 AGTACACATG
** *
14914671 TAATCCAACCGA-AACAT-GCCAAACGCCCAT-AAGAGC
1 TAATCCAACCGATAACATCGCCAAGTGCTC-TGAAGAGC
14914707 TAATCCAACCGATAA-ATCGCCAAGTGCTCTGAAGAGC
1 TAATCCAACCGATAACATCGCCAAGTGCTCTGAAGAGC
* * * *
14914744 TAATACAACTGATAACAT-GTCAAATGCT-TCGAAGAGC
1 TAATCCAACCGATAACATCGCCAAGTGCTCT-GAAGAGC
14914781 TAATCCAACCGATAACA-CGCCAAGTGCTCTGAAGAGC
1 TAATCCAACCGATAACATCGCCAAGTGCTCTGAAGAGC
14914818 TA
1 TA
14914820 TATATCCTCC
Statistics
Matches: 95, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
36 16 0.17
37 76 0.80
38 3 0.03
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (38 bp):
TAATCCAACCGATAACATCGCCAAGTGCTCTGAAGAGC
Found at i:14915925 original size:13 final size:13
Alignment explanation
Indices: 14915907--14915931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14915897 TAGGTTATAT
14915907 GTGTGAAAATTTC
1 GTGTGAAAATTTC
14915920 GTGTGAAAATTT
1 GTGTGAAAATTT
14915932 AATCGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:14916978 original size:26 final size:26
Alignment explanation
Indices: 14916927--14916978 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
14916917 AAAAGTATGT
*
14916927 TAATTTAATAAATTTTAAGTTATGAA
1 TAATTTAATAAATTATAAGTTATGAA
14916953 TAATTT-ATATAATTATAATGTT-TGAA
1 TAATTTAATA-AATTATAA-GTTATGAA
14916979 AATACAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 3 0.13
26 17 0.74
27 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (26 bp):
TAATTTAATAAATTATAAGTTATGAA
Found at i:14917647 original size:41 final size:40
Alignment explanation
Indices: 14917590--14917698 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 40
14917580 TGATCGAATC
* * * *
14917590 TAATTCAAACTTATTGTCTAGCAGGCTTGATGCCGGTGATA
1 TAATTCAGAC-TATTGTCTAGCAGGCTTAATGCCAGTGAAA
14917631 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGAAA
1 TAATTCAGACT-ATTGTCTAGCAGGCTTAATGCCAGTGAAA
* * *
14917672 TTATTCGGACTATAAGTCTAGCAGGCT
1 TAATTCAGACTAT-TGTCTAGCAGGCT
14917699 AAAAGTCATT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 3 0.05
41 56 0.95
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (40 bp):
TAATTCAGACTATTGTCTAGCAGGCTTAATGCCAGTGAAA
Found at i:14919553 original size:21 final size:20
Alignment explanation
Indices: 14919496--14919553 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
14919486 AGTGGATGCC
14919496 ATTATATTGAAATTGA-ACGT
1 ATTATA-TGAAATTGATACGT
* *
14919516 ATTAT-TGATAATAGATAGGT
1 ATTATATGA-AATTGATACGT
14919536 AATTATATGAAATTGATA
1 -ATTATATGAAATTGATA
14919554 TTGAATTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 3 0.10
19 5 0.16
20 8 0.26
21 12 0.39
22 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.40
Consensus pattern (20 bp):
ATTATATGAAATTGATACGT
Found at i:14926683 original size:15 final size:14
Alignment explanation
Indices: 14926656--14926688 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
14926646 ACTAATATGT
14926656 ATAATAAGATAATA
1 ATAATAAGATAATA
14926670 ATAATAATGATAATA
1 ATAATAA-GATAATA
14926685 ATAA
1 ATAA
14926689 AATCTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (14 bp):
ATAATAAGATAATA
Done.