Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 126 of 213
Found at i:36532397 original size:20 final size:20
Alignment explanation
Indices: 36532374--36532428 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
36532364 AGTTCAATTC
36532374 AGCTCAATTTTAGCTCAATG
1 AGCTCAATTTTAGCTCAATG
*
36532394 AGCTC-GTTCTTAGCTCAATG
1 AGCTCAATT-TTAGCTCAATG
* *
36532414 AGATCATTTTTAGCT
1 AGCTCAATTTTAGCT
36532429 TACTTTAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTTAGCTCAATG
Found at i:36537056 original size:50 final size:50
Alignment explanation
Indices: 36536961--36537056 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
36536951 TATTGAGGTT
* * * *
36536961 ATGAGAGGTCCCACGTAAGACCATGTTTAGAACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACATAAGACCATGTCTAGAACATGGCATAGGCACCGAG
* * *
36537011 ATGAGAGGTCCCTCATATGACCATGTCTAGGACATGGCATAGGCAC
1 ATGAGAGGTCCCACATAAGACCATGTCTAGAACATGGCATAGGCAC
36537057 TGATAAGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGTCTAGAACATGGCATAGGCACCGAG
Found at i:36545256 original size:40 final size:40
Alignment explanation
Indices: 36545204--36545475 Score: 454
Period size: 40 Copynumber: 6.8 Consensus size: 40
36545194 ATAACCACAA
* * * *
36545204 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
36545244 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
36545284 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
36545324 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
36545366 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
36545406 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
36545446 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
36545476 GTATTCAAAT
Statistics
Matches: 219, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
40 179 0.82
42 40 0.18
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:36545395 original size:122 final size:122
Alignment explanation
Indices: 36545204--36545483 Score: 467
Period size: 122 Copynumber: 2.3 Consensus size: 122
36545194 ATAACCACAA
* * * *
36545204 GCACAATTGCCTTCGGGTCTTAACCCGGGTATA-G-CAACTCGCACGAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
* *
36545267 CCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
36545324 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
*
36545389 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
66 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
36545446 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAT-TCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAA
36545484 ATGCTCATGC
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 30 0.20
121 5 0.03
122 115 0.77
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (122 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:36550643 original size:26 final size:25
Alignment explanation
Indices: 36550597--36550673 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 25
36550587 TTTCTTAACT
*
36550597 CAATTTTACCCCAGTAAAATTTTTA
1 CAATTTTACCCCAGTAAAATTTTGA
*
36550622 CGATTTTACTCCC-GATAAAATTTTGA
1 CAATTTTAC-CCCAG-TAAAATTTTGA
* *
36550648 CAATTTTACCCCTGGTAAAAATTTGA
1 CAATTTTACCCC-AGTAAAATTTTGA
36550674 GAAAATTCGT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
25 12 0.27
26 31 0.70
27 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (25 bp):
CAATTTTACCCCAGTAAAATTTTGA
Found at i:36554023 original size:45 final size:45
Alignment explanation
Indices: 36553941--36554059 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 45
36553931 GGTGGATAAG
* * *
36553941 CACATAGC-ACCATCC-TTATAATCAATTATATT-TGGTGGAATCAG
1 CACATAGCAACCA-CCTTTATAATCAATGAT-TTCCGGTGGAATCAA
* ** *
36553985 CATATAGCAACCACCTTTATTTTCAATGATTTCCGGTGGAGTCAA
1 CACATAGCAACCACCTTTATAATCAATGATTTCCGGTGGAATCAA
36554030 CACATAGCAACCACCTTTATAATCAATGAT
1 CACATAGCAACCACCTTTATAATCAATGAT
36554060 ACTCAGTACA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
44 11 0.18
45 51 0.82
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.31
Consensus pattern (45 bp):
CACATAGCAACCACCTTTATAATCAATGATTTCCGGTGGAATCAA
Found at i:36559275 original size:45 final size:45
Alignment explanation
Indices: 36559193--36559392 Score: 226
Period size: 45 Copynumber: 4.4 Consensus size: 45
36559183 CAGCACATTG
* * * * *
36559193 CCACCCTTATAATCAATTA-TATTCGTTGGAATCAACATATAGCAA
1 CCACCTTTATAATCAATGATTA-CCGGTGGAATCAACACATAGCAA
* ** * * * *
36559238 CCACATTTATTTTCAATGATTTCCGGTGCAGTCAACATATAGCAA
1 CCACCTTTATAATCAATGATTACCGGTGGAATCAACACATAGCAA
*
36559283 CCACCTTTATAATCAATG-GTACCCGGTGGAATCAACACATAGCAA
1 CCACCTTTATAATCAATGATTA-CCGGTGGAATCAACACATAGCAA
*
36559328 CCACCTTTATAATCAATG-GTACCAGGTGGAATCAACACATAGCAA
1 CCACCTTTATAATCAATGATTACC-GGTGGAATCAACACATAGCAA
36559373 CCACCTTTATAATCAATGAT
1 CCACCTTTATAATCAATGAT
36559393 ACTCAGTACA
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
44 3 0.02
45 128 0.97
46 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.28
Consensus pattern (45 bp):
CCACCTTTATAATCAATGATTACCGGTGGAATCAACACATAGCAA
Found at i:36563487 original size:39 final size:40
Alignment explanation
Indices: 36563392--36563614 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
36563382 TTGAATGATG
*
36563392 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
36563430 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
36563471 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
36563510 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
36563549 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
36563588 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
36563615 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 91 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:36563586 original size:79 final size:81
Alignment explanation
Indices: 36563392--36563614 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
36563382 TTGAATGATG
* * * *
36563392 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
36563454 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
*
36563471 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TTCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
36563532 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * *
36563549 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
36563613 TG
66 TG
36563615 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 53 0.42
80 24 0.19
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:36563636 original size:79 final size:79
Alignment explanation
Indices: 36563392--36563647 Score: 208
Period size: 79 Copynumber: 3.3 Consensus size: 79
36563382 TTGAATGATG
* * * *
36563392 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
36563453 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* **
36563471 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
36563535 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
36563549 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
36563612 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
36563629 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36563648 TACGTGATTT
Statistics
Matches: 151, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 67 0.44
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:36570859 original size:79 final size:81
Alignment explanation
Indices: 36570676--36570898 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 81
36570666 TTGAATGATG
* * *
36570676 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
36570738 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
**
36570755 TTTGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
36570816 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
36570833 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
36570897 TG
66 TG
36570899 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 44 0.36
79 54 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:36570860 original size:40 final size:40
Alignment explanation
Indices: 36570676--36570898 Score: 253
Period size: 39 Copynumber: 5.7 Consensus size: 40
36570666 TTGAATGATG
* *
36570676 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
36570715 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** * *
36570755 TTTGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
36570794 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36570833 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36570874 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36570899 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 90 0.56
40 61 0.38
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36570920 original size:79 final size:79
Alignment explanation
Indices: 36570676--36570931 Score: 199
Period size: 79 Copynumber: 3.3 Consensus size: 79
36570666 TTGAATGATG
* * * *
36570676 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
36570737 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
** * *
36570755 TTTGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
36570819 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
36570833 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
36570896 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
36570913 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36570932 TACGTGATTT
Statistics
Matches: 149, Mismatches: 18, Indels: 20
0.80 0.10 0.11
Matches are distributed among these distances:
77 1 0.01
78 44 0.30
79 67 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:36584693 original size:32 final size:32
Alignment explanation
Indices: 36584643--36584706 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
36584633 GTTAATGATA
* *
36584643 TATTGTTATTATATTGTTTTTTTATAGTTAAAT
1 TATTGTTATTATAATGTTTTTTTACA-TTAAAT
36584676 TATTGTT-TTATAATGTTTTTTTACATTAAAT
1 TATTGTTATTATAATGTTTTTTTACATTAAAT
36584707 GGATTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 6 0.21
32 16 0.55
33 7 0.24
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (32 bp):
TATTGTTATTATAATGTTTTTTTACATTAAAT
Found at i:36585540 original size:31 final size:31
Alignment explanation
Indices: 36585502--36585582 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
36585492 AATTGATAAA
* *
36585502 CCATCGTCATCGGGCAATCTGGGGTGGTAAG
1 CCATCGTCATCGGGCAATCTAGGGTGGCAAG
* * *
36585533 CCATCGTCACCGGGCAAACTAGGGTGGCATG
1 CCATCGTCATCGGGCAATCTAGGGTGGCAAG
* * *
36585564 TCATCGTCCTTGGGCAATC
1 CCATCGTCATCGGGCAATC
36585583 CGGGATGACA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.22
Consensus pattern (31 bp):
CCATCGTCATCGGGCAATCTAGGGTGGCAAG
Found at i:36591525 original size:5 final size:5
Alignment explanation
Indices: 36591511--36591559 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
36591501 ATTGACTTTT
* * * *
36591511 TACCC AACCC TACCC TATCC TATCC TACCC TACCC TACCT TACCC TACC
1 TACCC TACCC TACCC TACCC TACCC TACCC TACCC TACCC TACCC TACC
36591560 ATTACTTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.22, C:0.53, G:0.00, T:0.24
Consensus pattern (5 bp):
TACCC
Found at i:36597442 original size:14 final size:14
Alignment explanation
Indices: 36597423--36597462 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
36597413 TTGATTGCCA
36597423 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
36597437 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
36597451 GGAAAATGTTTT
1 GTAAAATGTTTT
36597463 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:36597469 original size:34 final size:35
Alignment explanation
Indices: 36597431--36597497 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
36597421 CAGTAAAATG
*
36597431 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
36597465 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
36597498 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:36597471 original size:20 final size:20
Alignment explanation
Indices: 36597446--36597485 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36597436 CGTAAAATGA
*
36597446 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
36597466 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
36597486 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:36597501 original size:14 final size:15
Alignment explanation
Indices: 36597425--36597501 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
36597415 GATTGCCAGT
* *
36597425 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
36597439 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
36597453 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
36597473 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
36597488 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
36597502 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:36597654 original size:22 final size:24
Alignment explanation
Indices: 36597629--36597679 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
36597619 TTATTTATAA
36597629 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
36597649 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
36597675 ATAAA
1 ATAAA
36597680 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:36599914 original size:6 final size:6
Alignment explanation
Indices: 36599903--36599938 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
36599893 GGTGTCAAGC
* *
36599903 GAAGGG GAAGGG GAAGGG GAAGGG AAAGGG AAAGGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG
36599939 AAGATCGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:36599933 original size:17 final size:17
Alignment explanation
Indices: 36599907--36599941 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36599897 TCAAGCGAAG
* *
36599907 GGGAAGGGGAAGGGGAA
1 GGGAAAGGGAAAGGGAA
36599924 GGGAAAGGGAAAGGGAA
1 GGGAAAGGGAAAGGGAA
36599941 G
1 G
36599942 ATCGGTGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (17 bp):
GGGAAAGGGAAAGGGAA
Found at i:36601014 original size:13 final size:13
Alignment explanation
Indices: 36600996--36601024 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36600986 TATTAATTAG
36600996 TCAAGAAGTCATT
1 TCAAGAAGTCATT
36601009 TCAAGAAGTCATT
1 TCAAGAAGTCATT
36601022 TCA
1 TCA
36601025 CTAAGATATC
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:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (13 bp):
TCAAGAAGTCATT
Found at i:36603115 original size:54 final size:54
Alignment explanation
Indices: 36603057--36603171 Score: 221
Period size: 54 Copynumber: 2.1 Consensus size: 54
36603047 GTTCTGTTTC
36603057 AATTTCACTCATTTACATAACATTACAACAATTTATTTTGTAAGCACAGTACGA
1 AATTTCACTCATTTACATAACATTACAACAATTTATTTTGTAAGCACAGTACGA
36603111 AATTTCACTCATTTACATAACATTACAACAATTTATTTTGTAAGCACAGTACGA
1 AATTTCACTCATTTACATAACATTACAACAATTTATTTTGTAAGCACAGTACGA
*
36603165 AACTTCA
1 AATTTCA
36603172 TCACTCCAGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (54 bp):
AATTTCACTCATTTACATAACATTACAACAATTTATTTTGTAAGCACAGTACGA
Found at i:36603443 original size:51 final size:49
Alignment explanation
Indices: 36603317--36603505 Score: 189
Period size: 51 Copynumber: 3.8 Consensus size: 49
36603307 ATTATTATCA
* * * * * * *
36603317 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTAACCAAAC-C
* * * *
36603367 TTCGGTTCACGTAGTAGCCTACACATGGTACTACACATGTAACCAAAGCC
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTAACCAAA-CC
* * *
36603417 TTCCGGTACACATAGTAGCCTGCACATATTACTACACATGTAACCATTATC
1 TT-CGGTACACATAGTAGCCTGCACATAGTACTACACATGTAACCA-AACC
* *
36603468 TATCGATACACATAGTAGCCTGCACTTAGTACTACACA
1 T-TCGGTACACATAGTAGCCTGCACATAGTACTACACA
36603506 CGTGTTTATA
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 42 0.36
51 73 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (49 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTAACCAAACC
Found at i:36610078 original size:27 final size:27
Alignment explanation
Indices: 36610048--36610149 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 27
36610038 TCATCTCCTA
**
36610048 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
36610075 GGGGTATTTCAGTCATTTTAACATATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
36610102 GGGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
36610129 GGGGTATTTCAATTATTTTAC
1 GGGGTATTTCAGTCATTTTAC
36610150 TTATTTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:36619782 original size:22 final size:22
Alignment explanation
Indices: 36619754--36619826 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
36619744 ATCAGTGTTA
36619754 TCAGTGGCAGTTTATCTATAAT
1 TCAGTGGCAGTTTATCTATAAT
* *
36619776 TCAGTGGTAGTTTATTTGCA-AAT
1 TCAGTGGCAGTTTATCT--ATAAT
* * *
36619799 T-AGTGGCAGCTTATCTGTAAA
1 TCAGTGGCAGTTTATCTATAAT
36619820 TCAGTGG
1 TCAGTGG
36619827 TGACATGTCC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 3 0.08
22 32 0.80
23 4 0.10
24 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.38
Consensus pattern (22 bp):
TCAGTGGCAGTTTATCTATAAT
Found at i:36620206 original size:29 final size:29
Alignment explanation
Indices: 36620173--36620231 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
36620163 TTTTATGGCT
36620173 ATGGACTATTT-TATTATTTTGGGACTTTC
1 ATGGACT-TTTATATTATTTTGGGACTTTC
*
36620202 ATGGACTTTTAAATTTTATTTTGGGACTTT
1 ATGGACTTTT--ATATTATTTTGGGACTTT
36620232 AATTTGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 7 0.27
31 16 0.62
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (29 bp):
ATGGACTTTTATATTATTTTGGGACTTTC
Found at i:36621420 original size:135 final size:134
Alignment explanation
Indices: 36621166--36621427 Score: 452
Period size: 135 Copynumber: 1.9 Consensus size: 134
36621156 TGGTGTTAGA
* * * *
36621166 TTTTGTCGCACTTTATCACAATACAGTGTGATAACTTTTTTCCATATAAGGAATGACTTTGAGAC
1 TTTTGCCGCACTTTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGAC
36621231 CCATAAGAAACTTCTGAAGCCATATTACTTCTTCTATCTTCTCAAAAGAAGCTATATATTTGAGA
66 CCATAAGAAACTTCTGAAGCCATATTACTTCTTCTATCTTCTCAAAAGAAGCTATATATTTGAGA
36621296 TAAC
131 TAAC
36621300 TTTTGCCGCACTATTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGA
1 TTTTGCCGCACT-TTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGA
* * *
36621365 CCCGTAAGGAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTG
65 CCCATAAGAAACTTCTGAAGCCATATTACTTCTTCTATCTTCTCAAAAGAAGCTATATATTTG
36621428 TACACTCAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
134 11 0.09
135 109 0.91
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.35
Consensus pattern (134 bp):
TTTTGCCGCACTTTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGAC
CCATAAGAAACTTCTGAAGCCATATTACTTCTTCTATCTTCTCAAAAGAAGCTATATATTTGAGA
TAAC
Found at i:36624975 original size:7 final size:7
Alignment explanation
Indices: 36624963--36624988 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36624953 CATTACTAAA
36624963 TTATTCT
1 TTATTCT
36624970 TTATTCT
1 TTATTCT
36624977 TTATTCT
1 TTATTCT
36624984 TTATT
1 TTATT
36624989 TGTGATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTCT
Found at i:36630054 original size:30 final size:30
Alignment explanation
Indices: 36630019--36630075 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
36630009 AGGTTGCATC
**
36630019 ACAGCCCATGATCTTAAAAGGTTAATTGTA
1 ACAGCCCACAATCTTAAAAGGTTAATTGTA
36630049 ACAGCCCACAATCTTAAAAGGTTAATT
1 ACAGCCCACAATCTTAAAAGGTTAATT
36630076 AGAAACAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (30 bp):
ACAGCCCACAATCTTAAAAGGTTAATTGTA
Found at i:36642790 original size:40 final size:40
Alignment explanation
Indices: 36642638--36642783 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
36642628 TTGAATGATG
* * * *
36642638 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
36642678 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36642718 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36642759 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36642784 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36642790 original size:80 final size:80
Alignment explanation
Indices: 36642638--36642806 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
36642628 TTGAATGATG
* *
36642638 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
36642703 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
36642718 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
36642781 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
36642798 TCC-GGTTAA
1 TCCGGGTTAA
36642807 ATTCTGAAGG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
79 9 0.12
80 60 0.79
81 7 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:36646060 original size:4 final size:4
Alignment explanation
Indices: 36646051--36646078 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
36646041 TTAAACTAAG
36646051 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
36646079 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:36647484 original size:23 final size:22
Alignment explanation
Indices: 36647433--36647484 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
36647423 CCTCGTCTTT
*
36647433 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
36647455 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
36647478 TTCTTTT
1 TTCTTTT
36647485 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:36647499 original size:18 final size:18
Alignment explanation
Indices: 36647478--36647516 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36647468 TTTCTTCAAC
* *
36647478 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
36647496 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
36647514 TTC
1 TTC
36647517 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:36649887 original size:4 final size:4
Alignment explanation
Indices: 36649878--36649905 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
36649868 TTAAACTAAG
36649878 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
36649906 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:36655808 original size:40 final size:40
Alignment explanation
Indices: 36655656--36655801 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
36655646 TTGAATGATG
* * * *
36655656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
36655696 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36655736 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36655777 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36655802 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36655808 original size:80 final size:80
Alignment explanation
Indices: 36655656--36655834 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
36655646 TTGAATGATG
* *
36655656 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
36655721 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
36655736 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
36655799 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
36655816 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36655835 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:36661233 original size:18 final size:19
Alignment explanation
Indices: 36661210--36661258 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
36661200 GTTGTAAAGT
*
36661210 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
36661228 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
36661247 TTTAATTTTTAT
1 TTT-ATTTTTAT
36661259 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:36661238 original size:22 final size:22
Alignment explanation
Indices: 36661209--36661258 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
36661199 AGTTGTAAAG
* *
36661209 TTTTATTTTTATTTA-TTTATT
1 TTTTATTTTTACTTAGTTTAAT
36661230 TATTTATTTTTACTTAGTTTAAT
1 T-TTTATTTTTACTTAGTTTAAT
36661253 TTTTAT
1 TTTTAT
36661259 GTAAATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTACTTAGTTTAAT
Found at i:36667995 original size:25 final size:25
Alignment explanation
Indices: 36667940--36667987 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
36667930 TTACCGATTA
36667940 CAGCTCGTGAGAGCTTACTGATTCT
1 CAGCTCGTGAGAGCTTACTGATTCT
*
36667965 CAGCTCGT-ATGAGCTTATTGATT
1 CAGCTCGTGA-GAGCTTACTGATT
36667988 TGTAGCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACTGATTCT
Found at i:36668219 original size:30 final size:30
Alignment explanation
Indices: 36668180--36668241 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
36668170 TACATGAAAT
*
36668180 ACATGGAAATTA-TATTACATGATATATTGAA
1 ACATGGAAATGAGTATTACATG-TATA-TGAA
*
36668211 ACAT-GAAATGAGTGTTACATGTATATGAA
1 ACATGGAAATGAGTATTACATGTATATGAA
36668240 AC
1 AC
36668242 TTGCTTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 6 0.21
30 10 0.36
31 12 0.43
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (30 bp):
ACATGGAAATGAGTATTACATGTATATGAA
Found at i:36672201 original size:37 final size:37
Alignment explanation
Indices: 36672151--36672229 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
36672141 GTGTCGAGGT
* *
36672151 GTGTTATTGGTTGGATTAGCTCTCATGAGCGTTTGGC
1 GTGTTATTGGTTGGATTAGCACTCATGAGCATTTGGC
*
36672188 GTGTTATTGGTTGGATTAGCACTTATGAGCATTTGGC
1 GTGTTATTGGTTGGATTAGCACTCATGAGCATTTGGC
36672225 GTGTT
1 GTGTT
36672230 TCTGTTGGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.15, C:0.11, G:0.32, T:0.42
Consensus pattern (37 bp):
GTGTTATTGGTTGGATTAGCACTCATGAGCATTTGGC
Found at i:36676591 original size:45 final size:45
Alignment explanation
Indices: 36676522--36676703 Score: 210
Period size: 45 Copynumber: 4.1 Consensus size: 45
36676512 TACTACGTGT
* * * * * *
36676522 ACCGGGTACCATTGATTATAAAGGTGATTGTTGTGTACTGATTCC
1 ACCGGGTACTATTGACTATGAAGGTGGTTGCTATGTACTGATTCC
36676567 ACCGGGTACTATTGACTATGAAGGTGGTTGCTATGTACTGATTCC
1 ACCGGGTACTATTGACTATGAAGGTGGTTGCTATGTACTGATTCC
**
36676612 ACCAAGTACTATTGACTATGAAGGTGGTTGCTATGTACTGATTCC
1 ACCGGGTACTATTGACTATGAAGGTGGTTGCTATGTACTGATTCC
** * *
36676657 ACCAAGTA-TCATTGACTAT-AGGGGTGG-TGCTATGTGCTGA-TCC
1 ACCGGGTACT-ATTGACTATGA-AGGTGGTTGCTATGTACTGATTCC
36676700 ACCG
1 ACCG
36676704 TGTATCTGTT
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
43 6 0.05
44 14 0.11
45 104 0.84
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (45 bp):
ACCGGGTACTATTGACTATGAAGGTGGTTGCTATGTACTGATTCC
Found at i:36690572 original size:21 final size:21
Alignment explanation
Indices: 36690546--36690596 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
36690536 TTGAATGACA
*
36690546 GTTTTGTTAAGAAATTTTAAC
1 GTTTTGATAAGAAATTTTAAC
*
36690567 GTTTTGATAAGAAATTTTAAT
1 GTTTTGATAAGAAATTTTAAC
*
36690588 GTTTCGATA
1 GTTTTGATA
36690597 GTTAATTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (21 bp):
GTTTTGATAAGAAATTTTAAC
Found at i:36694257 original size:24 final size:23
Alignment explanation
Indices: 36694221--36694290 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
36694211 CATATTTTCG
* *
36694221 AAATCATTGTGTATTATTATTCTA
1 AAATTATTATGTATTATTATT-TA
*
36694245 AAATTATTATGTATTATTACTTA
1 AAATTATTATGTATTATTATTTA
*
36694268 AAAGTTA-TATTATATTATTATTT
1 AAA-TTATTA-TGTATTATTATTT
36694291 TTTCATTTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 7 0.18
24 32 0.82
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (23 bp):
AAATTATTATGTATTATTATTTA
Found at i:36699967 original size:6 final size:7
Alignment explanation
Indices: 36699950--36699984 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
36699940 TCTGAGTAAA
36699950 AAAAATG
1 AAAAATG
36699957 AAAAATG
1 AAAAATG
36699964 -AAAATG
1 AAAAATG
36699970 AAGAAATG
1 AA-AAATG
36699978 AAAAATG
1 AAAAATG
36699985 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:36701523 original size:44 final size:44
Alignment explanation
Indices: 36701460--36701548 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
36701450 TAGATCGCAT
* *
36701460 CAGATTGAAGCCAGAAATCTTACCTCCCTAAGATTATAGCGGAG
1 CAGATGGAAGCCAGAAATCTTACCTCCCTAAGATTACAGCGGAG
* * * * *
36701504 CAGATGGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATGGAAGCCAGAAATCTTACCTCCCTAAGATTACAGCGGAG
36701548 C
1 C
36701549 GGATTTAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (44 bp):
CAGATGGAAGCCAGAAATCTTACCTCCCTAAGATTACAGCGGAG
Found at i:36701582 original size:142 final size:142
Alignment explanation
Indices: 36701332--36701886 Score: 912
Period size: 142 Copynumber: 3.9 Consensus size: 142
36701322 CTGAAGAAGC
* * * *
36701332 AAATCTTATCTCCTTGAGATTACAGCGGAGTAGATTGAAGCGAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
36701397 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
36701462 GATTGAAGCCAG
131 GATTGAAGCCAG
* * * *
36701474 AAATCTTACCTCCCTAAGATTATAGCGGAGCAGATGGAAGCTAGTAATCTTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
* * *
36701539 ACAGTGGAGCGGATTTAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAAAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
36701604 GATTGAAGCCAG
131 GATTGAAGCCAG
* * * * *
36701616 ACATCTTATCTCTCTGAGATTATAGCCGAGCAGATGGAAGCTAGTAATCCTATCTCCCTAAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
* * *
36701681 ATAGTGGAGCGGATTTAAATAAAGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
36701746 GATTGAAGCCAG
131 GATTGAAGCCAG
*
36701758 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
36701823 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATC
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
36701887 GGGTCTTATC
Statistics
Matches: 380, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 380 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
GATTGAAGCCAG
Found at i:36701812 original size:44 final size:44
Alignment explanation
Indices: 36701744--36701837 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
36701734 TAGATCGCAT
*
36701744 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
* * *
36701788 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
*
36701832 CGGATT
1 CAGATT
36701838 AAAATAAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:36701856 original size:44 final size:44
Alignment explanation
Indices: 36701758--36701857 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
36701748 TTGAAGCCAG
** *
36701758 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAA
* * * *
36701802 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAA
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAA
36701845 AAGATCTTATCTC
1 AA-ATCTTATCTC
36701858 TTTGAAGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 5 0.11
44 41 0.89
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAA
Found at i:36702008 original size:50 final size:50
Alignment explanation
Indices: 36701954--36702228 Score: 282
Period size: 50 Copynumber: 5.5 Consensus size: 50
36701944 TCCCTAGCGG
* * *
36701954 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
* * * * * * **
36702004 TGCAGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTACTT-CCCTAGCGG
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGA-CAT
* *
36702054 TGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
* * * * * * * * **
36702104 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCTGGCGG
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
* * *
36702154 TGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCTCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
* *
36702204 TACAGTTAAAAAGATTAAAGCCACA
1 TGCAGTGAAAAAGATTAAAGCCACA
36702229 ATGGCGAATC
Statistics
Matches: 173, Mismatches: 50, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
49 4 0.02
50 165 0.95
51 4 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
Found at i:36702115 original size:100 final size:100
Alignment explanation
Indices: 36701934--36702244 Score: 532
Period size: 100 Copynumber: 3.1 Consensus size: 100
36701924 AAGAATTACA
*
36701934 AATCTTATCTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTA-CTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCC
*
36701999 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
36702035 AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
36702100 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * *
36702135 AATCTTACTTCTCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCTCG
1 AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
* * **
36702200 ACATTACAGTTAAAAAGATTAAAGCCACAATGGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
36702235 AATCTTACTT
1 AATCTTACTT
36702245 TCCAAAAGTT
Statistics
Matches: 201, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
100 194 0.97
101 7 0.03
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (100 bp):
AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
Found at i:36703971 original size:24 final size:24
Alignment explanation
Indices: 36703917--36703971 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
36703907 CATATTTTCG
* * *
36703917 AAATCATTGTGTATTATTATTCTA
1 AAATTATTATGTATTATTACTCTA
36703941 AAATTATTATGTATTATTACT-TA
1 AAATTATTATGTATTATTACTCTA
36703964 AAAGTTAT
1 AAA-TTAT
36703972 ACTATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (24 bp):
AAATTATTATGTATTATTACTCTA
Found at i:36707503 original size:21 final size:22
Alignment explanation
Indices: 36707460--36707503 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36707450 ATTCATGACA
*
36707460 GAAACTAAGAGAAACACTTACC
1 GAAACTAAGAGAAACACTAACC
* *
36707482 GAAACTAAGCG-AGCACTAACC
1 GAAACTAAGAGAAACACTAACC
36707503 G
1 G
36707504 CGTATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.11
Consensus pattern (22 bp):
GAAACTAAGAGAAACACTAACC
Found at i:36712376 original size:18 final size:18
Alignment explanation
Indices: 36712355--36712389 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36712345 TTTTTCTTTT
36712355 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
36712373 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
36712390 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:36713336 original size:11 final size:12
Alignment explanation
Indices: 36713322--36713358 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
36713312 TTTTTTTTCC
36713322 TTTTTTTCG-AT
1 TTTTTTTCGAAT
36713333 TTTTTTT-GAAT
1 TTTTTTTCGAAT
36713344 TTTTTTTCTGAAT
1 TTTTTTTC-GAAT
36713357 TT
1 TT
36713359 CTTCTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.04
11 16 0.70
13 6 0.26
ACGTcount: A:0.14, C:0.05, G:0.08, T:0.73
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:36713453 original size:11 final size:11
Alignment explanation
Indices: 36713437--36713465 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
36713427 CAACTCAAAA
36713437 TTTTTTTTGA-
1 TTTTTTTTGAC
36713447 TTTTTTTTGAC
1 TTTTTTTTGAC
36713458 TTTTTTTT
1 TTTTTTTT
36713466 CGTTACGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:36716903 original size:17 final size:18
Alignment explanation
Indices: 36716881--36716914 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36716871 TTTTTCTTTT
36716881 TCAATTT-TTTCTCAATC
1 TCAATTTCTTTCTCAATC
*
36716898 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTCTCAAT
36716915 TTTCTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTCTTTCTCAATC
Found at i:36718685 original size:20 final size:20
Alignment explanation
Indices: 36718639--36718685 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
36718629 AGCTCGTTTC
*
36718639 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
36718659 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
36718679 CAGCTCA
1 CAGCTCA
36718686 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:36721375 original size:48 final size:47
Alignment explanation
Indices: 36721296--36721401 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
36721286 GAGTGTCATG
*
36721296 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
36721344 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
36721392 GAAAAAGAAA
1 GAAAAAGAAA
36721402 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:36723117 original size:20 final size:20
Alignment explanation
Indices: 36723071--36723117 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
36723061 AGCTCGTTTC
*
36723071 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
36723091 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
36723111 CAGCTCA
1 CAGCTCA
36723118 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:36727624 original size:11 final size:12
Alignment explanation
Indices: 36727608--36727637 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
36727598 AACTCAAAAT
36727608 TTTTTTTTTGA-
1 TTTTTTTTTGAC
36727619 TTTTTTTTTGAC
1 TTTTTTTTTGAC
36727631 TTTTTTT
1 TTTTTTT
36727638 CGTTACGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTGAC
Found at i:36731590 original size:15 final size:15
Alignment explanation
Indices: 36731567--36731597 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36731557 CCAAAAATTC
36731567 CAATACAAAACATAT
1 CAATACAAAACATAT
*
36731582 CAATCCAAAACATAT
1 CAATACAAAACATAT
36731597 C
1 C
36731598 TTTCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:36735091 original size:46 final size:46
Alignment explanation
Indices: 36735024--36735196 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
36735014 TGTAACCCGC
* *
36735024 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCAT
*
36735070 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATTC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGC-A--T
* * *
36735116 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCAT
*
36735163 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
36735197 GGATGCTCAA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 61 0.56
47 29 0.27
48 3 0.03
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCAT
Found at i:36735143 original size:93 final size:93
Alignment explanation
Indices: 36735031--36735200 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
36735021 CGCCCATAAG
* *
36735031 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
36735096 ACGAGTTCGGATTCCTAGTTACATCTCA
66 ACGAGTTCGGATTCCTAGTTACATCTCA
*
36735124 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
36735189 ACGAGTTCGGAT
66 ACGAGTTCGGAT
36735201 GCTCAATCAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATTCCTAGTTACATCTCA
Found at i:36735218 original size:46 final size:45
Alignment explanation
Indices: 36735027--36735218 Score: 146
Period size: 46 Copynumber: 4.2 Consensus size: 45
36735017 AACCCGCCCA
* * *
36735027 TAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGC-ATC--C
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATTC-CAATCATC
*
36735072 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTCCTAGTTACATC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTCC-A-AT-CATC
* * *
36735121 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC-ATC--C
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G-GATTC-CAATCATC
*
36735165 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAATCATC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTC-CAATCATC
*
36735212 TTAGTGA
1 TAAGTGA
36735219 CATGTCACTT
Statistics
Matches: 118, Mismatches: 14, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
43 1 0.01
44 8 0.07
45 8 0.07
46 63 0.53
47 29 0.25
48 3 0.03
49 5 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTCCAATCATC
Found at i:36742703 original size:93 final size:93
Alignment explanation
Indices: 36742590--36742759 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
36742580 TGGCCATAAG
* *
36742590 CGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGATCTCAGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
36742654 AACGAGTTCGGATTCCTAGTTACATCTCA
65 AACGAGTTCGGATTCCTAGTTACATCTCA
* * *
36742683 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
36742748 ACGAGTTTGGAT
66 ACGAGTTCGGAT
36742760 GCTCAATCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATTCCTAGTTACATCTCA
Found at i:36742751 original size:46 final size:45
Alignment explanation
Indices: 36742583--36742754 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
36742573 TGTAACCTGG
* *
36742583 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTC-GGCATTCGCAT
* *
36742629 CCATAAGTGATCTCAGACTCAACTCAACGAGTTCGG-ATTC-CTAGTT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* * *
36742675 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCAGACTCAACTCAACGAGTTCGG-CATTCGCAT
* *
36742722 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTT
36742755 TGGATGCTCA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 59 0.56
47 29 0.28
48 2 0.02
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:36746568 original size:22 final size:22
Alignment explanation
Indices: 36746540--36746584 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
36746530 GGTTCCCACG
*
36746540 TAGCCTCTTCGACTCCATGTCT
1 TAGCCTCTTCAACTCCATGTCT
36746562 TAGCCTCTTCAACTCCATGTCT
1 TAGCCTCTTCAACTCCATGTCT
36746584 T
1 T
36746585 TGCCATAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.36, G:0.11, T:0.38
Consensus pattern (22 bp):
TAGCCTCTTCAACTCCATGTCT
Found at i:36754222 original size:27 final size:27
Alignment explanation
Indices: 36754191--36754242 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
36754181 CTGAGTTGAC
*
36754191 CTAT-ATAAATATATTTCAATAAAACCA
1 CTATAATAAA-ATATTGCAATAAAACCA
*
36754218 CTATAATAAAATATTGCAATTAAAC
1 CTATAATAAAATATTGCAATAAAAC
36754243 TATCGAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (27 bp):
CTATAATAAAATATTGCAATAAAACCA
Found at i:36756402 original size:42 final size:42
Alignment explanation
Indices: 36756347--36756465 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
36756337 TTAGAGTTAC
*
36756347 TGAGATTTACGTGTAAGACCATATCTGAGATATGACATCGATA
1 TGAGA-TTACGTGTAAGACCATACCTGAGATATGACATCGATA
* * * *
36756390 TGAGACTT-CGTGTAAGACTATAGCT-AGGCTATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATACCTGA-GATA-TGACATCGATA
* * *
36756433 CGAGATTACATGTAAGACCATACCTGGGATATG
1 TGAGATTACGTGTAAGACCATACCTGAGATATG
36756466 GCACTGGTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.02
42 22 0.36
43 38 0.62
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATACCTGAGATATGACATCGATA
Found at i:36758748 original size:28 final size:27
Alignment explanation
Indices: 36758706--36758766 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
36758696 CACTGTATTG
* * *
36758706 GTACTATATTGGGCTTAGGCCCACACT
1 GTACTGTATAGGGCTAAGGCCCACACT
*
36758733 GTTACTGTATAGGGCTAAGGCCCAGACT
1 G-TACTGTATAGGGCTAAGGCCCACACT
36758761 GTACTG
1 GTACTG
36758767 ATAATGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (27 bp):
GTACTGTATAGGGCTAAGGCCCACACT
Found at i:36759523 original size:20 final size:20
Alignment explanation
Indices: 36759485--36759524 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36759475 TTGCGAAAGC
*
36759485 CTTGTGATTATTGATATATA
1 CTTGTGATTATTGAAATATA
36759505 CTTGTGATGTA-TGAAATATA
1 CTTGTGAT-TATTGAAATATA
36759525 TGGTAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (20 bp):
CTTGTGATTATTGAAATATA
Found at i:36763580 original size:16 final size:15
Alignment explanation
Indices: 36763548--36763595 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
36763538 TAAATGATGA
* *
36763548 TATTTTCATCTTTTT
1 TATTTTTATCATTTT
36763563 TATTATTTATCATTTT
1 TATT-TTTATCATTTT
*
36763579 TATTTTTTTCATCTTT
1 TATTTTTATCAT-TTT
36763595 T
1 T
36763596 CAATTTTGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTATCATTTT
Found at i:36764552 original size:12 final size:12
Alignment explanation
Indices: 36764535--36764561 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36764525 TCACATGCCT
36764535 GTGTGCTAGGCC
1 GTGTGCTAGGCC
36764547 GTGTGCTAGGCC
1 GTGTGCTAGGCC
36764559 GTG
1 GTG
36764562 CCAAAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.26
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:36772638 original size:29 final size:29
Alignment explanation
Indices: 36772590--36772704 Score: 101
Period size: 29 Copynumber: 4.0 Consensus size: 29
36772580 TACCTGTATC
* *
36772590 TGGCCCATTAAG-CCTAATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
* * *
36772618 TGACCCAATAGGCCCAAATCATCTAT-ATA
1 TGGCCCATTAGGCCCAAATCATAT-TCATA
* * *
36772647 TGGTCCATTAGGCCCAAATCAAATTTATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
* * *
36772676 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
36772704 T
1 T
36772705 TCATCCTCAC
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
28 21 0.30
29 47 0.68
30 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCATATTCATA
Found at i:36772794 original size:18 final size:19
Alignment explanation
Indices: 36772771--36772806 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36772761 ATGGGCCTAA
36772771 TAGCCCA-TCGGGCCCATT
1 TAGCCCATTCGGGCCCATT
*
36772789 TAGCCCATTCTGGCCCAT
1 TAGCCCATTCGGGCCCAT
36772807 ATGGCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.17, C:0.39, G:0.19, T:0.25
Consensus pattern (19 bp):
TAGCCCATTCGGGCCCATT
Found at i:36778185 original size:44 final size:44
Alignment explanation
Indices: 36778122--36778212 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
36778112 AGTTTATTAG
36778122 TTAAAGTTACCCCTGTTTCAGGACTTGGCTGGACTGACCTCTGT
1 TTAAAGTTACCCCTGTTTCAGGACTTGGCTGGACTGACCTCTGT
36778166 TTAAAGTTACCCCTGTTTCAGGACTTGGCTGGACTGACCTCTGT
1 TTAAAGTTACCCCTGTTTCAGGACTTGGCTGGACTGACCTCTGT
36778210 TTA
1 TTA
36778213 CTACGAAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (44 bp):
TTAAAGTTACCCCTGTTTCAGGACTTGGCTGGACTGACCTCTGT
Found at i:36779282 original size:46 final size:46
Alignment explanation
Indices: 36779215--36779340 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
36779205 AACCCGCCCC
* * * * *
36779215 TAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCTTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
36779261 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
36779307 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36779341 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:36787674 original size:27 final size:27
Alignment explanation
Indices: 36787643--36787820 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
36787633 TAAATTGTAC
36787643 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36787670 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
36787696 ATGCAGTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36787724 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36787752 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36787779 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36787806 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36787821 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36787788 original size:82 final size:81
Alignment explanation
Indices: 36787644--36787799 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36787634 AAATTGTACA
* * *
36787644 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCAGTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
36787709 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
36787725 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
36787789 GTGCGAGTTGA
64 GTGCGAATTGA
36787800 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36787811 original size:82 final size:81
Alignment explanation
Indices: 36787640--36787820 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
36787630 GATTAAATTG
* * *
36787640 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCAGTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36787705 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36787721 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36787785 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36787803 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36787821 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36795982 original size:27 final size:27
Alignment explanation
Indices: 36795891--36796066 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
36795881 TAAATTGTAC
36795891 AGCACTAAGTGTGCGATTTGACT-TGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36795917 TGCACTAAGTGTGC-AAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36795942 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36795970 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36795998 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36796025 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36796052 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36796067 GACTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
25 5 0.04
26 28 0.22
27 70 0.56
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36796011 original size:55 final size:53
Alignment explanation
Indices: 36795891--36796066 Score: 185
Period size: 55 Copynumber: 3.3 Consensus size: 53
36795881 TAAATTGTAC
* * **
36795891 AGCACTAAGTGTGCGATTTGACTTGTTGCACTAAGTGTGC-AAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACATGTAGCACTAAGTGTGCGAGTTGAATATGT
* ** *
36795942 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGA-CATGTAGCACTAAGTGTGCGAG-TTGAATATGT
* * * *
36795998 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGA-CATGTAGCACTAAGTGTGCGAGTTGAATATGT
*
36796052 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36796067 GACTCAATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
51 1 0.01
52 19 0.18
53 16 0.15
54 23 0.22
55 44 0.42
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACATGTAGCACTAAGTGTGCGAGTTGAATATGT
Found at i:36796057 original size:82 final size:79
Alignment explanation
Indices: 36795888--36796066 Score: 207
Period size: 82 Copynumber: 2.2 Consensus size: 79
36795878 GATTAAATTG
* *
36795888 TACAGCACTAAGTGTGCGATTTGACTTGTTGCACTAAGTGTGCAAATGAATATGATGCACTAAGT
1 TACAGCACTAAGTGTGCGATTTGACTTGTAGCACTAAGTGTGCAAATGAATACGATGCACTAAGT
36795953 GTGCGAATTGACCA
66 GTGCGAATTGACCA
* * ** *
36795967 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACT-TGTAGCACTAAGTGTGC-AAATGAATACGAT-GCACT
* **
36796031 AAGTGTGCGAGTTGATTA
62 AAGTGTGCGAATTGACCA
* *
36796049 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36796067 GACTCAATAT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 17 0.21
80 7 0.09
81 17 0.21
82 41 0.50
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (79 bp):
TACAGCACTAAGTGTGCGATTTGACTTGTAGCACTAAGTGTGCAAATGAATACGATGCACTAAGT
GTGCGAATTGACCA
Found at i:36812156 original size:17 final size:18
Alignment explanation
Indices: 36812134--36812167 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36812124 TTTTTCTTTT
36812134 TCAATTT-TTTCTCAATC
1 TCAATTTCTTTCTCAATC
*
36812151 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTCTCAAT
36812168 TTTCTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTCTTTCTCAATC
Found at i:36812185 original size:27 final size:28
Alignment explanation
Indices: 36812125--36812191 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
36812115 TTCAACATCT
36812125 TTTTCTTTTTCAATTTTTTCTCAATCTCA
1 TTTTCTTTTTCAATTTTTTCTC-ATCTCA
* *
36812154 ATTTCTTTTTCAATTTTCTTTTC-T-TCA
1 TTTTCTTTTTCAATTTT-TTCTCATCTCA
36812181 TTTTCTTTTTC
1 TTTTCTTTTTC
36812192 TCTCACTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.38
28 1 0.03
29 16 0.47
30 4 0.12
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTCTTTTTCAATTTTTTCTCATCTCA
Found at i:36813225 original size:11 final size:11
Alignment explanation
Indices: 36813209--36813237 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
36813199 CAACTCAAAA
36813209 TTTTTTTTGA-
1 TTTTTTTTGAC
36813219 TTTTTTTTGAC
1 TTTTTTTTGAC
36813230 TTTTTTTT
1 TTTTTTTT
36813238 CGTTACGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:36816681 original size:18 final size:18
Alignment explanation
Indices: 36816658--36816692 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36816648 CTTTTTCTTT
36816658 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
36816676 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
36816693 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:36817758 original size:12 final size:13
Alignment explanation
Indices: 36817741--36817772 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
36817731 CAACTCAAAA
36817741 TTTTTTTTGA-TT
1 TTTTTTTTGACTT
36817753 TTTTTTTTGACTT
1 TTTTTTTTGACTT
36817766 TTTTTTT
1 TTTTTTT
36817773 CGCTACGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (13 bp):
TTTTTTTTGACTT
Found at i:36822099 original size:20 final size:20
Alignment explanation
Indices: 36822076--36822114 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36822066 GCTACTCATA
36822076 TTTTTA-AAAACTTACTAGAG
1 TTTTTAGAAAACTTA-TAGAG
*
36822096 TTTTTAGAACACTTATAGA
1 TTTTTAGAAAACTTATAGA
36822115 ACCGGCGCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTTTAGAAAACTTATAGAG
Found at i:36827701 original size:27 final size:27
Alignment explanation
Indices: 36827669--36827728 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
36827659 ATAAGTTAAA
36827669 TTAATTATTTTAAGTTATTTGAATGGT
1 TTAATTATTTTAAGTTATTTGAATGGT
36827696 TTAATTATTTTAAGTTATTTGAATGGT
1 TTAATTATTTTAAGTTATTTGAATGGT
36827723 TTAATT
1 TTAATT
36827729 GAGTGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (27 bp):
TTAATTATTTTAAGTTATTTGAATGGT
Found at i:36835933 original size:53 final size:52
Alignment explanation
Indices: 36835849--36836163 Score: 339
Period size: 53 Copynumber: 6.0 Consensus size: 52
36835839 ACATGCCAAA
* * *
36835849 AAATGGAAGCCTTTGTAGCAATCTATGAAATGGAAGTCTTTGTGGCGTATCTG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGC-TATCTG
* *
36835902 AAATGGAAGCCTTTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCTATC--TG
* * * *
36835956 AAATGGAAACC-TTATGGC-ATATCTGAAATGGAAGCCTTTGTGGCAATCCATG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCTAT-C-TG
* * * *
36836008 AAATGAAAGCCTTTGTGGC-ATATTTGAAATGGAAGTCTTTGTGGCATATCTA
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGC-TATCTG
* * * *
36836060 AAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTGTGTCATATCTA
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGC-TATCTG
* * * * * *
36836113 AAATGGAAGACTTTTTGGCAATTTATGAAATGAAAGCCTTTATGGCGATCT
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCTATCT
36836164 ATGGAAAGGG
Statistics
Matches: 226, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
52 65 0.29
53 147 0.65
54 14 0.06
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (52 bp):
AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCTATCTG
Found at i:36836018 original size:79 final size:81
Alignment explanation
Indices: 36835849--36836166 Score: 391
Period size: 79 Copynumber: 4.0 Consensus size: 81
36835839 ACATGCCAAA
* * * *
36835849 AAATGGAAGCCTTTGTAGCA-ATCTATGAAATGGAAGTCTTTGTGGCGTATCTGAAATGGAAGCC
1 AAATGAAAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGCATATCTGAAATGGAAGCC
* *
36835913 TTTGTGGCAATATATC
66 TTTGTGGCAATCTATG
* * *
36835929 AAATGGAAGCCTTTGTGGCA-ATCTATGAAATGGAA-ACCTTATGGCATATCTGAAATGGAAGCC
1 AAATGAAAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGCATATCTGAAATGGAAGCC
*
36835992 TTTGTGGCAATCCATG
66 TTTGTGGCAATCTATG
* *
36836008 AAATGAAAGCCTTTGTGGCATAT-T-TGAAATGGAAGTCTTTGTGGCATATCTAAAATGGAAGCC
1 AAATGAAAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGCATATCTGAAATGGAAGCC
36836071 TTTGTGGCAATCTATG
66 TTTGTGGCAATCTATG
* * * * *
36836087 AAAT-AGAAGCCTTTGTGTCATATCTA--AAATGGAAGACTTTTTGGCAATTTATGAAATGAAAG
1 AAATGA-AAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGC-ATATCTGAAATGGAAG
* *
36836149 CCTTTATGGCGATCTATG
64 CCTTTGTGGCAATCTATG
36836167 GAAAGGGTTA
Statistics
Matches: 209, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
78 11 0.05
79 133 0.64
80 65 0.31
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (81 bp):
AAATGAAAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGCATATCTGAAATGGAAGCC
TTTGTGGCAATCTATG
Found at i:36836109 original size:132 final size:132
Alignment explanation
Indices: 36835848--36836158 Score: 446
Period size: 132 Copynumber: 2.4 Consensus size: 132
36835838 AACATGCCAA
* * * *
36835848 AAAATGGAAGCCTTTGTAGCAATCTATGAAATGGAAGTCTTTGTGGCGTATCTGAAATGGAAGCC
1 AAAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCC
* *
36835913 TTTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATGAAATGGAAACCTTATGGCATAT
66 TTTGTGGCAATATATAAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTATGGCATAT
36835978 CT
131 CT
* * * *
36835980 GAAATGGAAGCCTTTGTGGCAATCCATGAAATGAAAGCCTTTGTGGCATATTTGAAATGGAAGTC
1 AAAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCC
* *
36836045 TTTGTGGC-ATATCTAAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAGCCTT-TGTGTCAT
66 TTTGTGGCAATATATAAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTATG-G-CAT
36836108 ATCT
129 ATCT
* * * *
36836112 AAAATGGAAGACTTTTTGGCAATTTATGAAATGAAAGCCTTTATGGC
1 AAAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGC
36836159 GATCTATGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
130 2 0.01
131 44 0.28
132 113 0.71
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (132 bp):
AAAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCC
TTTGTGGCAATATATAAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTATGGCATAT
CT
Found at i:36836166 original size:27 final size:27
Alignment explanation
Indices: 36835849--36836166 Score: 352
Period size: 27 Copynumber: 12.0 Consensus size: 27
36835839 ACATGCCAAA
*
36835849 AAATGGAAGCCTTTGTAGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
36835876 AAATGGAAGTCTTTGTGGCGTATC--TG
1 AAATGGAAGCCTTTGTGGC-AATCTATG
* *
36835902 AAATGGAAGCCTTTGTGGCAATATATC
1 AAATGGAAGCCTTTGTGGCAATCTATG
36835929 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
36835956 AAATGGAAACC-TTATGGCATATC--TG
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
*
36835981 AAATGGAAGCCTTTGTGGCAATCCATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
*
36836008 AAATGAAAGCCTTTGTGGCATAT-T-TG
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
*
36836034 AAATGGAAGTCTTTGTGGCATATCTA--
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
36836060 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
36836087 AAATAGAAGCCTTTGTGTCATATCTA--
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
* * *
36836113 AAATGGAAGACTTTTTGGCAATTTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * *
36836140 AAATGAAAGCCTTTATGGCGATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
36836167 GAAAGGGTTA
Statistics
Matches: 246, Mismatches: 30, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
25 26 0.11
26 92 0.37
27 118 0.48
28 10 0.04
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:36836358 original size:27 final size:27
Alignment explanation
Indices: 36836328--36836398 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
36836318 TGGTATGGCA
*
36836328 AACACTAAAGGAATAGTACATATAGAG
1 AACACTGAAGGAATAGTACATATAGAG
* * *
36836355 AACATTGAAGGAAT-GATACATATGGCG
1 AACACTGAAGGAATAG-TACATATAGAG
*
36836382 AACACTGTAGGAATAGT
1 AACACTGAAGGAATAGT
36836399 GTGTATGGCG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (27 bp):
AACACTGAAGGAATAGTACATATAGAG
Found at i:36841366 original size:50 final size:52
Alignment explanation
Indices: 36841303--36841449 Score: 201
Period size: 50 Copynumber: 2.9 Consensus size: 52
36841293 AGTGAAAGTG
* *
36841303 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGAT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGATA
* ** *
36841354 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTATTG-AATGGTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGATA
* *
36841404 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTATGTGAACCGAA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAA
36841450 CATCATTGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 5 0.06
50 38 0.46
51 38 0.46
52 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (52 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGATA
Found at i:36841391 original size:26 final size:26
Alignment explanation
Indices: 36841361--36841442 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
36841351 GATAGGTCGC
36841361 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* *
36841387 ATGTGTATTGA--ATG-GTAATGG-TCAC-
1 ATGTGTAGT-ACTATGTG-CA-GGCT-ACT
*
36841412 ATGTGTAGTACTATGTGCAAGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
36841438 ATGTG
1 ATGTG
36841443 AACCGAACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 18
0.65 0.08 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.38
26 22 0.52
27 2 0.05
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:36841500 original size:45 final size:45
Alignment explanation
Indices: 36841449--36841535 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
36841439 TGTGAACCGA
* *
36841449 ACATCATTGATTAGTAAAGTGGTTCCTATGTGCTGATTCCACTGG
1 ACATCATTGATTAATAAAGTGGTTCCTATGTGCTGAATCCACTGG
* * *
36841494 ACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCCAC
1 ACATCATTGATTAATAAAGTGGTTCCTATGTGCTGAATCCAC
36841536 CGAGTATCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGTGGTTCCTATGTGCTGAATCCACTGG
Found at i:36844128 original size:3 final size:3
Alignment explanation
Indices: 36844108--36844197 Score: 76
Period size: 3 Copynumber: 30.3 Consensus size: 3
36844098 AATACTAAAT
* * * * * *
36844108 ATA ATA ATG ATA ACA ATA ATA AGA ATA AGT- ATA ATA ACA CTA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * *
36844153 ATA ATA ATA ATA ATA AGA ATA TTA ATA A-A ATA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36844198 GGACTAATTT
Statistics
Matches: 66, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
2 3 0.05
3 62 0.94
4 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:36844166 original size:15 final size:14
Alignment explanation
Indices: 36844091--36844191 Score: 69
Period size: 15 Copynumber: 6.9 Consensus size: 14
36844081 ATGAATATAC
*
36844091 AAAAT-ATAATACT
1 AAAATAATAATAAT
*
36844104 AAATATAATAATGAT
1 AAA-ATAATAATAAT
*
36844119 AACAATAATAAGAAT
1 AA-AATAATAATAAT
* * *
36844134 AAGTATAATAACACT
1 AA-AATAATAATAAT
*
36844149 AATGATAATAATAAT
1 AA-AATAATAATAAT
* *
36844164 AATAAGAATATTAAT
1 AA-AATAATAATAAT
36844179 AAAATAATAATAA
1 AAAATAATAATAA
36844192 AAATAAGGAC
Statistics
Matches: 68, Mismatches: 17, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
13 3 0.04
14 11 0.16
15 53 0.78
16 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:36845625 original size:35 final size:35
Alignment explanation
Indices: 36845568--36845677 Score: 168
Period size: 35 Copynumber: 3.1 Consensus size: 35
36845558 AATCCAACTG
36845568 AAACACACCAGATGCTCATAAGAGCTAATCCATCCA
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCCA
* * *
36845604 GAACACATCAATGCTCATAAGAGCTAATCCATCTA
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCA
*
36845639 AAACACACCAATGCTCATAAGAGAT-ATCCATCCA
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCA
36845673 AAACA
1 AAACA
36845678 TGCCAAAACA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
34 13 0.19
35 46 0.69
36 8 0.12
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCCA
Found at i:36848726 original size:51 final size:50
Alignment explanation
Indices: 36848664--36848852 Score: 247
Period size: 51 Copynumber: 3.7 Consensus size: 50
36848654 ATACTCGGTT
* *
36848664 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCTGGTA
* * *
36848715 CACGTAGTAGCCTGCACATAGTACTACACATGTGATCGA-AGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATATC-ATCTGGTA
* * *
36848766 CGCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCTGGTA
*
36848816 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC
36848853 TAGCAACTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
49 1 0.01
50 44 0.37
51 72 0.61
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCTGGTA
Found at i:36848843 original size:101 final size:101
Alignment explanation
Indices: 36848666--36848850 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
36848656 ACTCGGTTCA
* * * *
36848666 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TATCATCTGATACACATAGTAGCCTGCA
*
36848731 CATAGTACTACACATGTGATCGAAGCTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
*
36848768 CATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCTGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATATCA-TCTGATACACATAGTAGCCTGCA
36848832 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
36848851 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATATCATCTGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:36849035 original size:16 final size:16
Alignment explanation
Indices: 36849010--36849041 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36849000 ATCTAGTCCA
36849010 AAAATCACATTTTTGC
1 AAAATCACATTTTTGC
*
36849026 AAAATTACATTTTTGC
1 AAAATCACATTTTTGC
36849042 CCCTAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAATCACATTTTTGC
Found at i:36851362 original size:17 final size:16
Alignment explanation
Indices: 36851342--36851386 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
36851332 AAAATTATTT
36851342 AATTAATAATTAAATTA
1 AATTAATAATTAAA-TA
*
36851359 AATTAATTAATTGAATA
1 AATTAA-TAATTAAATA
36851376 AA-TAATAATTA
1 AATTAATAATTA
36851387 TTTGGGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 5 0.20
16 3 0.12
17 10 0.40
18 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTAATAATTAAATA
Found at i:36854597 original size:13 final size:13
Alignment explanation
Indices: 36854579--36854623 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
36854569 TTTAAATAAA
36854579 CAGTTAATAAAAT
1 CAGTTAATAAAAT
* *
36854592 CAGTTAGTCAAAT
1 CAGTTAATAAAAT
*
36854605 CAGTTAATAGAAT
1 CAGTTAATAAAAT
36854618 CAGTTA
1 CAGTTA
36854624 GTCAAACCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (13 bp):
CAGTTAATAAAAT
Found at i:36854608 original size:26 final size:26
Alignment explanation
Indices: 36854579--36854629 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
36854569 TTTAAATAAA
36854579 CAGTTAATAAAATCAGTTAGTCAAAT
1 CAGTTAATAAAATCAGTTAGTCAAAT
*
36854605 CAGTTAATAGAATCAGTTAGTCAAA
1 CAGTTAATAAAATCAGTTAGTCAAA
36854630 CCAGCAATTA
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:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (26 bp):
CAGTTAATAAAATCAGTTAGTCAAAT
Found at i:36854644 original size:26 final size:26
Alignment explanation
Indices: 36854579--36854645 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
36854569 TTTAAATAAA
* * *
36854579 CAGTTAATAAAATCAGTTAGTCAAAT
1 CAGTCAATACAATCAGTTAGTCAAAC
* *
36854605 CAGTTAATAGAATCAGTTAGTCAAAC
1 CAGTCAATACAATCAGTTAGTCAAAC
36854631 CAG-CAATTACAATCA
1 CAGTCAA-TACAATCA
36854646 ACTATCAGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 2 0.06
26 34 0.94
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (26 bp):
CAGTCAATACAATCAGTTAGTCAAAC
Found at i:36854893 original size:20 final size:20
Alignment explanation
Indices: 36854848--36854896 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
36854838 TTTGTAATGG
*
36854848 TTATATCTTAATACTTAAAA
1 TTATATTTTAATACTTAAAA
36854868 -TATATTTTATATA-TTAAAA
1 TTATATTTTA-ATACTTAAAA
36854887 TTATATTTTA
1 TTATATTTTA
36854897 GAAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATATTTTAATACTTAAAA
Found at i:36855018 original size:38 final size:36
Alignment explanation
Indices: 36854946--36855021 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 36
36854936 TATATTTAAT
** **
36854946 TTATTAAAATATTAATAATAAATTATTTTTATATTA
1 TTATTAAAATATTAATAATAAAAAATTTAAATATTA
*
36854982 TTATTAAAATATCATAATATTAAAAAATTTAAATATTA
1 TTATTAAAATAT--TAATAATAAAAAATTTAAATATTA
36855020 TT
1 TT
36855022 TAAATATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 12 0.36
38 21 0.64
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
TTATTAAAATATTAATAATAAAAAATTTAAATATTA
Found at i:36857708 original size:3 final size:3
Alignment explanation
Indices: 36857700--36857752 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
36857690 GTTACTTTTG
36857700 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
36857747 TAT TAT
1 TAT TAT
36857753 AAATACCATC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:36858200 original size:17 final size:17
Alignment explanation
Indices: 36858175--36858213 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
36858165 ATCATTATAA
* *
36858175 ATATTTTTTGTTATCTT
1 ATATATTTTGTAATCTT
*
36858192 ATATATTTTGTAATTTT
1 ATATATTTTGTAATCTT
36858209 ATATA
1 ATATA
36858214 CACATACATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (17 bp):
ATATATTTTGTAATCTT
Found at i:36861829 original size:20 final size:20
Alignment explanation
Indices: 36861804--36861843 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
36861794 TTCACCTCAT
*
36861804 GCATCGCATCATATGCATTA
1 GCATCGCATCATATACATTA
36861824 GCATCGCATCATATACATTA
1 GCATCGCATCATATACATTA
36861844 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATACATTA
Found at i:36870004 original size:100 final size:100
Alignment explanation
Indices: 36869832--36870226 Score: 657
Period size: 100 Copynumber: 4.0 Consensus size: 100
36869822 ATGGAGCGGG
* *
36869832 TTGCAATTAAAAAGATTGAAGCCATAACGG-TGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
* *
36869896 TTGAAGCTACGACGGCGAATTTGGTTTCCCTGATA
66 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
*
36869931 TTGCAATTAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
36869996 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
66 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
36870031 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
*
36870096 TTGAAGCTACGACGGCGGATCTGGTTTCCCTAATA
66 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
* * * **
36870131 TTGCAATTAAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCGGTGGAACAG
1 TTGCAATT-AAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAG
* *
36870196 ATTGAAGCTACGACGGCAGATCTAGTTTCCC
65 ATTGAAGCTACGACGGCGGATCTGGTTTCCC
36870227 CAACATTGCA
Statistics
Matches: 280, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
99 28 0.10
100 172 0.61
101 80 0.29
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
Found at i:36870226 original size:50 final size:50
Alignment explanation
Indices: 36869879--36870252 Score: 268
Period size: 50 Copynumber: 7.5 Consensus size: 50
36869869 ACTTCCTTAG
* * * *
36869879 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGAATTTGGTTTCCCTGA
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
* * ** * * * * * * *
36869929 TATTGCAATTAAAAAGATTGAAGCCACAACGACGGATCTTA-CTTCCTTAG
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTAA
* *
36869979 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
* * ** * * * * * *
36870029 TATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCTTAG
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTAA
*
36870079 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAA
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
* * ** * * * * **
36870129 TATTGCAATTAAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTGG
1 CAGTGCAA-TGGAACAGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTAA
* ** * *
36870180 CGGTGCGGTGGAACAGATTGAAGCTACGACGGCAGATCTAGTTTCCCCAA
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
* * * *
36870230 CATTGCAGTTGAACAAATTGAAG
1 CAGTGCAATGGAACAGATTGAAG
36870253 ATTACAGATC
Statistics
Matches: 235, Mismatches: 82, Indels: 14
0.71 0.25 0.04
Matches are distributed among these distances:
49 4 0.02
50 194 0.83
51 36 0.15
52 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
Done.