Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 120 of 433
Found at i:36695714 original size:19 final size:19
Alignment explanation
Indices: 36695686--36695723 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
36695676 TAAGAGTTCA
*
36695686 ATTTTGAAATTCAAAATTT
1 ATTTTAAAATTCAAAATTT
*
36695705 ATTTTAAAATTTAAAATTT
1 ATTTTAAAATTCAAAATTT
36695724 TCAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTTTAAAATTCAAAATTT
Found at i:36695731 original size:16 final size:15
Alignment explanation
Indices: 36695705--36695738 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
36695695 TTCAAAATTT
36695705 ATTTTAAAATTTAAA
1 ATTTTAAAATTTAAA
36695720 ATTTTCAAAATTTAAA
1 ATTTT-AAAATTTAAA
36695736 ATT
1 ATT
36695739 AATTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTAAAATTTAAA
Found at i:36697479 original size:2 final size:2
Alignment explanation
Indices: 36697474--36697499 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36697464 TGTATTTTGG
36697474 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
36697500 TAAACAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36697537 original size:13 final size:13
Alignment explanation
Indices: 36697521--36697546 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36697511 AACCCATAAG
36697521 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
36697534 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
36697547 AAGAAGAAGA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:36697540 original size:15 final size:15
Alignment explanation
Indices: 36697522--36697551 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36697512 ACCCATAAGG
36697522 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
36697537 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
36697552 GAAGAAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:36701280 original size:2 final size:2
Alignment explanation
Indices: 36701273--36701302 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
36701263 AAATATGCAT
*
36701273 AC AC AC AC AG AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
36701303 GTGTATGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:36701997 original size:7 final size:7
Alignment explanation
Indices: 36701987--36702021 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
36701977 AGAGAAAAAT
36701987 GGGAGGG
1 GGGAGGG
36701994 GGGA-GG
1 GGGAGGG
36702000 GGGAGGG
1 GGGAGGG
36702007 GGGAGGG
1 GGGAGGG
*
36702014 GGCAGGG
1 GGGAGGG
36702021 G
1 G
36702022 AGGCTCAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.14, C:0.03, G:0.83, T:0.00
Consensus pattern (7 bp):
GGGAGGG
Found at i:36702005 original size:13 final size:13
Alignment explanation
Indices: 36701987--36702021 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
36701977 AGAGAAAAAT
36701987 GGGAGGGGGGAGG
1 GGGAGGGGGGAGG
36702000 GGGAGGGGGGAGG
1 GGGAGGGGGGAGG
36702013 GGGCAGGGG
1 GGG-AGGGG
36702022 AGGCTCAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.14, C:0.03, G:0.83, T:0.00
Consensus pattern (13 bp):
GGGAGGGGGGAGG
Found at i:36702803 original size:18 final size:17
Alignment explanation
Indices: 36702768--36702821 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
36702758 TTTTAAAATT
36702768 AAAATTAAAATTTTAAA
1 AAAATTAAAATTTTAAA
36702785 AAAATTAAAATTATTAAA
1 AAAATTAAAATT-TTAAA
36702803 AAACA-TAAAATTTATAAA
1 AAA-ATTAAAATTT-TAAA
36702821 A
1 A
36702822 TTTATTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 13 0.38
18 20 0.59
19 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTAAAATTTTAAA
Found at i:36720703 original size:3 final size:3
Alignment explanation
Indices: 36720687--36720725 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
36720677 TTTAAATATA
36720687 ATT ATT AATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
36720726 TTTCTCTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:36723458 original size:13 final size:13
Alignment explanation
Indices: 36723442--36723480 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
36723432 TGGGGGTAGG
36723442 ATTCTGTATATCT
1 ATTCTGTATATCT
*
36723455 ATTCTGCATATCT
1 ATTCTGTATATCT
36723468 ATTTCT-TATATCT
1 A-TTCTGTATATCT
36723481 TTATCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (13 bp):
ATTCTGTATATCT
Found at i:36729016 original size:41 final size:41
Alignment explanation
Indices: 36728959--36729040 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
36728949 ATTCTAGCAC
* *
36728959 AAGTGTCTATCTGCTTCAGTGGTAGAGGAGTTTGAGGTCTT
1 AAGTGGCTATCTGCTTCAGTGGTAGAGGAGTTTGAAGTCTT
*
36729000 AAGTGGCTATCTGCTTCAGTGGTAGAGTAGTTTGAAGTCTT
1 AAGTGGCTATCTGCTTCAGTGGTAGAGGAGTTTGAAGTCTT
36729041 GGGTTCAAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.37
Consensus pattern (41 bp):
AAGTGGCTATCTGCTTCAGTGGTAGAGGAGTTTGAAGTCTT
Found at i:36731273 original size:12 final size:12
Alignment explanation
Indices: 36731253--36731300 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
36731243 ACCGTCACAC
*
36731253 CTCTCTTCTTTT
1 CTCTTTTCTTTT
36731265 CTCTTTTCTTTT
1 CTCTTTTCTTTT
*
36731277 ATCTTTTCTTTT
1 CTCTTTTCTTTT
* *
36731289 CCCTTTTATTTT
1 CTCTTTTCTTTT
36731301 TTTCCTTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (12 bp):
CTCTTTTCTTTT
Found at i:36731294 original size:19 final size:19
Alignment explanation
Indices: 36731259--36731301 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
36731249 ACACCTCTCT
*
36731259 TCTTTTCTCTTTTCTTTTA
1 TCTTTTCTCTTTCCTTTTA
36731278 TCTTTTCT-TTTCCCTTTTA
1 TCTTTTCTCTTT-CCTTTTA
36731297 T-TTTT
1 TCTTTT
36731302 TTCCTTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (19 bp):
TCTTTTCTCTTTCCTTTTA
Found at i:36732357 original size:10 final size:10
Alignment explanation
Indices: 36732339--36732378 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
36732329 AATTTCGTAG
*
36732339 ATCAGTTCAT
1 ATCATTTCAT
36732349 ATCATTTCAT
1 ATCATTTCAT
36732359 ATCATTTCAT
1 ATCATTTCAT
36732369 -TCATTTCAT
1 ATCATTTCAT
36732378 A
1 A
36732379 AGCAAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (10 bp):
ATCATTTCAT
Found at i:36732374 original size:19 final size:20
Alignment explanation
Indices: 36732339--36732378 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
36732329 AATTTCGTAG
36732339 ATCAGTTCATATCATTTCAT
1 ATCAGTTCATATCATTTCAT
*
36732359 ATCATTTCAT-TCATTTCAT
1 ATCAGTTCATATCATTTCAT
36732378 A
1 A
36732379 AGCAAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (20 bp):
ATCAGTTCATATCATTTCAT
Found at i:36738501 original size:251 final size:251
Alignment explanation
Indices: 36738044--36738526 Score: 716
Period size: 251 Copynumber: 1.9 Consensus size: 251
36738034 ACATTGGTAT
* * *
36738044 GAGGTATGTTGAGCCTCATAGAATGGAGTTTATTGAGCTAAAATAGTGTGATAAGACAGTGGTCA
1 GAGGTATGTTGAGCCTCATAGAATAGAGTTTATTGAGCTAAAACAGGGTGATAAGACAGTGGTCA
** * * * *
36738109 AGTATGAGGCTGAGTTTCTGAGGTTGAGCCATTACGCTTCGGATATGGTGTCTTCTGAGTAGGAT
66 AGTATGAGGCCAAGTTTCTAAGGTTGAGCCATTACGCTTCGGATATGGTGTCTACTGAGCAGAAT
* * * * * * * *
36738174 AAGTGTGTACAGCTCGAGGATGGGTTGATGTATGATTTAATGGTTCGATTTGTACCACATCAGGA
131 AAGTGTGTACAGCTAGAGGATGGGCTGAGGTATGATTTAAAGGTTAGAGTTGCACCACATCAAGA
36738239 GAGGATGTTTGAGATTCTAGTTAAGAAGGCCAAGATTCTAGTTGAGATTCTAGTAA
196 GAGGATGTTTGAGATTCTAGTTAAGAAGGCCAAGATTCTAGTTGAGATTCTAGTAA
* * * * * *
36738295 GAGGTATGTTGAGGCTCGTAGAATAGAGTTTATTTAGCTAAAACAGGGTGTTAAGGCAGTGGTCG
1 GAGGTATGTTGAGCCTCATAGAATAGAGTTTATTGAGCTAAAACAGGGTGATAAGACAGTGGTCA
*
36738360 AGTATGAGGCCAAGTTTCTAAGGTTGAGCCATTATGCTTCGGATATGGTGTCTACTGAGCAGAAT
66 AGTATGAGGCCAAGTTTCTAAGGTTGAGCCATTACGCTTCGGATATGGTGTCTACTGAGCAGAAT
36738425 AAGTGTGTACAGCTAGAGGATGGGCTGAGGTATGATTTAAAGGTTTAG-GTTGCACCACATCAAG
131 AAGTGTGTACAGCTAGAGGATGGGCTGAGGTATGATTTAAAGG-TTAGAGTTGCACCACATCAAG
* *
36738489 AGAGGGTGTTTGAGATTCTAGTTGAGAAGGCCAAGATT
195 AGAGGATGTTTGAGATTCTAGTTAAGAAGGCCAAGATT
36738527 GTATAAGAGG
Statistics
Matches: 205, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
251 202 0.99
252 3 0.01
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.30
Consensus pattern (251 bp):
GAGGTATGTTGAGCCTCATAGAATAGAGTTTATTGAGCTAAAACAGGGTGATAAGACAGTGGTCA
AGTATGAGGCCAAGTTTCTAAGGTTGAGCCATTACGCTTCGGATATGGTGTCTACTGAGCAGAAT
AAGTGTGTACAGCTAGAGGATGGGCTGAGGTATGATTTAAAGGTTAGAGTTGCACCACATCAAGA
GAGGATGTTTGAGATTCTAGTTAAGAAGGCCAAGATTCTAGTTGAGATTCTAGTAA
Found at i:36740656 original size:14 final size:13
Alignment explanation
Indices: 36740639--36740747 Score: 94
Period size: 14 Copynumber: 8.2 Consensus size: 13
36740629 TTATCAGGTG
36740639 GAAATGGACATAT
1 GAAATGGACATAT
*
36740652 GGAAATGGATATAT
1 -GAAATGGACATAT
* *
36740666 AGAAATGGTCTTAT
1 -GAAATGGACATAT
36740680 GAAATGGACAT-T
1 GAAATGGACATAT
* * *
36740692 GAAAAGAAAATAT
1 GAAATGGACATAT
*
36740705 GAAATGGATATAT
1 GAAATGGACATAT
* *
36740718 GGAAATGGTCTTAT
1 -GAAATGGACATAT
36740732 GAAATGGACATGAT
1 GAAATGGACAT-AT
36740746 GA
1 GA
36740748 TGTTACATGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
12 9 0.12
13 29 0.39
14 36 0.49
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.27
Consensus pattern (13 bp):
GAAATGGACATAT
Found at i:36745795 original size:57 final size:58
Alignment explanation
Indices: 36745697--36745814 Score: 184
Period size: 57 Copynumber: 2.1 Consensus size: 58
36745687 ATAGAAATTG
* *
36745697 TGAAAATGGAGAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATAAAAA
1 TGAAAATAGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
* * *
36745755 TGAAAATAGAGAAAT-GGAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATAGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
36745812 TGA
1 TGA
36745815 GAATGACCTG
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 41 0.75
58 14 0.25
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (58 bp):
TGAAAATAGAGAAATAGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
Found at i:36750490 original size:26 final size:26
Alignment explanation
Indices: 36750434--36750486 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
36750424 AGTTTATTTG
*
36750434 GCAAACTAGAGATCACCAGTTAAGTT
1 GCAAACTAGAGATCACCAGTAAAGTT
*
36750460 GCAAACTAGAGGTCCACCAGTCAAAGT
1 GCAAACTAGAGAT-CACCAGT-AAAGT
36750487 CAAAGCCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 7 0.30
28 4 0.17
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (26 bp):
GCAAACTAGAGATCACCAGTAAAGTT
Found at i:36751081 original size:13 final size:13
Alignment explanation
Indices: 36751065--36751120 Score: 76
Period size: 13 Copynumber: 4.3 Consensus size: 13
36751055 TGATACTCTA
*
36751065 TTTTCAGGATATG
1 TTTTCAAGATATG
*
36751078 TTTTCAAGTTATG
1 TTTTCAAGATATG
*
36751091 TTTTCAAGCTATG
1 TTTTCAAGATATG
*
36751104 TTTTAAAGATATG
1 TTTTCAAGATATG
36751117 TTTT
1 TTTT
36751121 ACGTGTGCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (13 bp):
TTTTCAAGATATG
Found at i:36764397 original size:26 final size:26
Alignment explanation
Indices: 36764367--36764422 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
36764357 CTTTATCTAG
*
36764367 AGTTAGGAATAGTTGTTTATTTGATA
1 AGTTAAGAATAGTTGTTTATTTGATA
* *
36764393 AGTTAAGATTAGTTTTTTATTTGATA
1 AGTTAAGAATAGTTGTTTATTTGATA
36764419 AGTT
1 AGTT
36764423 TTTTTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (26 bp):
AGTTAAGAATAGTTGTTTATTTGATA
Found at i:36764555 original size:17 final size:18
Alignment explanation
Indices: 36764529--36764562 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36764519 TTTATTTTTA
36764529 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
36764546 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
36764563 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:36765170 original size:25 final size:25
Alignment explanation
Indices: 36765142--36765205 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
36765132 TTTTCTCCTA
* *
36765142 AATTTTTAATTTTATTTAATTATT-T
1 AATTTTTAA-TTTATTGAATCATTAT
36765167 AATTTTTCAATTTATTGAATCATTAAT
1 AATTTTT-AATTTATTGAATCATT-AT
36765194 AATTTTT-ATTTA
1 AATTTTTAATTTA
36765206 ATTAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 24 0.71
26 2 0.06
27 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (25 bp):
AATTTTTAATTTATTGAATCATTAT
Found at i:36769407 original size:21 final size:21
Alignment explanation
Indices: 36769383--36769432 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
36769373 AAATTAACTT
36769383 ATTTAATCATCTCTCTATTCA
1 ATTTAATCATCTCTCTATTCA
36769404 ATTTAATCATCTCTCTATTCA
1 ATTTAATCATCTCTCTATTCA
36769425 ATTTAATC
1 ATTTAATC
36769433 CAAAATTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTAATCATCTCTCTATTCA
Found at i:36772861 original size:104 final size:105
Alignment explanation
Indices: 36772660--36772880 Score: 250
Period size: 104 Copynumber: 2.1 Consensus size: 105
36772650 TCTAGGCCAA
* * *
36772660 AAAGTATCGATA-CATTTTTGGCTAAGTATCGATATTTTTTGAATTACCGATACCCTTCTTAAAA
1 AAAGTATCGATACCATTTTTGGCTAAGTATCAATATTTTCTGAAATACCGATACCCTTCTTAAAA
* * * * * *
36772724 GCAATACCAAAATGGCATTCTGGTTTTTCACAAACCCTAT
66 ACAATACCAAAATAGCATTCTGGTTTCTAACAAAACCTAC
* * ** *
36772764 TAAGTATCGATACCTTTTTTTTC-AAGTATCAATATTTTCTGAAATATCGATACCCCTTCTTAAA
1 AAAGTATCGATACCATTTTTGGCTAAGTATCAATATTTTCTGAAATACCGATA-CCCTTCTTAAA
* * * *
36772828 AACGATACTAAAATAGCATT-TTGTTTCTAACAAAACTTAC
65 AACAATACCAAAATAGCATTCTGGTTTCTAACAAAACCTAC
36772868 AAAGTATCGATAC
1 AAAGTATCGATAC
36772881 AGTACCAATA
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
104 62 0.65
105 34 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (105 bp):
AAAGTATCGATACCATTTTTGGCTAAGTATCAATATTTTCTGAAATACCGATACCCTTCTTAAAA
ACAATACCAAAATAGCATTCTGGTTTCTAACAAAACCTAC
Found at i:36779738 original size:8 final size:8
Alignment explanation
Indices: 36779725--36779749 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36779715 TATTATTAAG
36779725 AGTAAATT
1 AGTAAATT
36779733 AGTAAATT
1 AGTAAATT
36779741 AGTAAATT
1 AGTAAATT
36779749 A
1 A
36779750 ATAATTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (8 bp):
AGTAAATT
Found at i:36786625 original size:16 final size:16
Alignment explanation
Indices: 36786613--36786703 Score: 65
Period size: 17 Copynumber: 5.5 Consensus size: 16
36786603 GACACAATTT
*
36786613 GCATATAACACAATTC
1 GCATATAACACAACTC
* * **
36786629 ACATATAAAACGGCTC
1 GCATATAACACAACTC
* *
36786645 ACATATAAACACAACTT
1 GCATAT-AACACAACTC
*
36786662 GCATATAAACACAGCTC
1 GCATAT-AACACAACTC
* *
36786679 GCATATAAACACATCTT
1 GCATAT-AACACAACTC
36786696 GCATATAA
1 GCATATAA
36786704 ATACATCTCA
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
16 19 0.32
17 41 0.68
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.23
Consensus pattern (16 bp):
GCATATAACACAACTC
Found at i:36786668 original size:17 final size:17
Alignment explanation
Indices: 36786630--36786839 Score: 188
Period size: 17 Copynumber: 12.4 Consensus size: 17
36786620 ACACAATTCA
* *
36786630 CATATAAA-ACGGCTCA
1 CATATAAACACAGCTCG
* *
36786646 CATATAAACACAACTTG
1 CATATAAACACAGCTCG
36786663 CATATAAACACAGCTCG
1 CATATAAACACAGCTCG
* *
36786680 CATATAAACACATCTTG
1 CATATAAACACAGCTCG
* * *
36786697 CATATAAATACATCTCA
1 CATATAAACACAGCTCG
* *
36786714 CATATAAACATAGCTCA
1 CATATAAACACAGCTCG
* *
36786731 TATATAAACACAGCTTG
1 CATATAAACACAGCTCG
* * * *
36786748 AATATAAATACATCTGG
1 CATATAAACACAGCTCG
* **
36786765 CATATAAACATAGCTAA
1 CATATAAACACAGCTCG
* *
36786782 CATATAAACACATCTAG
1 CATATAAACACAGCTCG
*
36786799 CATATAAACACAGCTCA
1 CATATAAACACAGCTCG
* *
36786816 CATATAAACATAGCTAG
1 CATATAAACACAGCTCG
36786833 CATATAA
1 CATATAA
36786840 TATAGCTCAC
Statistics
Matches: 156, Mismatches: 37, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
16 8 0.05
17 148 0.95
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (17 bp):
CATATAAACACAGCTCG
Found at i:36786689 original size:34 final size:34
Alignment explanation
Indices: 36786630--36786853 Score: 229
Period size: 34 Copynumber: 6.6 Consensus size: 34
36786620 ACACAATTCA
* *
36786630 CATATAAA-ACGGCTCACATATAAACACAACTTG
1 CATATAAACACAGCTCACATATAAACACATCTTG
*
36786663 CATATAAACACAGCTCGCATATAAACACATCTTG
1 CATATAAACACAGCTCACATATAAACACATCTTG
* * * * **
36786697 CATATAAATACATCTCACATATAAACATAGCTCA
1 CATATAAACACAGCTCACATATAAACACATCTTG
* * * *
36786731 TATATAAACACAGCTTGA-ATATAAATACATCTGG
1 CATATAAACACAGC-TCACATATAAACACATCTTG
* * *
36786765 CATATAAACATAGCTAACATATAAACACATCTAG
1 CATATAAACACAGCTCACATATAAACACATCTTG
* * *
36786799 CATATAAACACAGCTCACATATAAACATAGCTAG
1 CATATAAACACAGCTCACATATAAACACATCTTG
* *
36786833 CATAT-AATATAGCTCACATAT
1 CATATAAACACAGCTCACATAT
36786854 TGTTATAGTT
Statistics
Matches: 158, Mismatches: 30, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
33 24 0.15
34 132 0.84
35 2 0.01
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.25
Consensus pattern (34 bp):
CATATAAACACAGCTCACATATAAACACATCTTG
Found at i:36786719 original size:51 final size:51
Alignment explanation
Indices: 36786663--36786839 Score: 237
Period size: 51 Copynumber: 3.5 Consensus size: 51
36786653 ACACAACTTG
* **
36786663 CATATAAACACAGCTCGCATATAAACACATCTTGCATATAAATACATCTCA
1 CATATAAACATAGCTAACATATAAACACATCTTGCATATAAATACATCTCA
* * * * **
36786714 CATATAAACATAGCTCATATATAAACACAGCTTGAATATAAATACATCTGG
1 CATATAAACATAGCTAACATATAAACACATCTTGCATATAAATACATCTCA
* * *
36786765 CATATAAACATAGCTAACATATAAACACATCTAGCATATAAACACAGCTCA
1 CATATAAACATAGCTAACATATAAACACATCTTGCATATAAATACATCTCA
*
36786816 CATATAAACATAGCTAGCATATAA
1 CATATAAACATAGCTAACATATAA
36786840 TATAGCTCAC
Statistics
Matches: 109, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 109 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (51 bp):
CATATAAACATAGCTAACATATAAACACATCTTGCATATAAATACATCTCA
Found at i:36793753 original size:15 final size:15
Alignment explanation
Indices: 36793733--36793780 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
36793723 ATTTAAAAAG
36793733 TATAATAATCAAATT
1 TATAATAATCAAATT
* * **
36793748 TATAAT-TTAAAAAG
1 TATAATAATCAAATT
36793762 TATAATAATCAAATT
1 TATAATAATCAAATT
36793777 TATA
1 TATA
36793781 TCTTACACAT
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (15 bp):
TATAATAATCAAATT
Found at i:36793754 original size:29 final size:29
Alignment explanation
Indices: 36793712--36793780 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 29
36793702 TATAGTGACT
36793712 AAATTTGACTAATTTAAAAAGTATAATAATC
1 AAATTT-A-TAATTTAAAAAGTATAATAATC
36793743 AAATTTATAATTTAAAAAGTATAATAATC
1 AAATTTATAATTTAAAAAGTATAATAATC
36793772 AAATTTATA
1 AAATTTATA
36793781 TCTTACACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 31 0.82
30 1 0.03
31 6 0.16
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (29 bp):
AAATTTATAATTTAAAAAGTATAATAATC
Found at i:36805847 original size:46 final size:46
Alignment explanation
Indices: 36805780--36806007 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
36805770 AGTGTGCTCT
36805780 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
36805826 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
36805872 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
36805918 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
36805964 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
36806008 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:36811100 original size:46 final size:46
Alignment explanation
Indices: 36811033--36811260 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
36811023 AGTGTGCTCT
36811033 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
36811079 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
36811125 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
36811171 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
36811217 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
36811261 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:36816721 original size:44 final size:44
Alignment explanation
Indices: 36816658--36816746 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
36816648 AGATGAAAAG
*
36816658 TAAACGTGGTCATAGGTCATTTGTCTTTGTGATAAATGACTTGA
1 TAAACGTGGCCATAGGTCATTTGTCTTTGTGATAAATGACTTGA
36816702 TAAACGTGGCCATAGGTCATTTGTCTTTGTGATAAATGACTTGA
1 TAAACGTGGCCATAGGTCATTTGTCTTTGTGATAAATGACTTGA
36816746 T
1 T
36816747 TACTATTTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.38
Consensus pattern (44 bp):
TAAACGTGGCCATAGGTCATTTGTCTTTGTGATAAATGACTTGA
Found at i:36819717 original size:16 final size:18
Alignment explanation
Indices: 36819691--36819724 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36819681 TTAGAATTGG
36819691 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
36819708 ATTG-GAAAATTAATTTA
1 ATTGAGAAAATTAATTTA
36819725 TTTAATTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:36831180 original size:22 final size:22
Alignment explanation
Indices: 36831153--36831197 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
36831143 TTATTAACCC
36831153 AAATTAAATTAGA-TATAAATTA
1 AAATT-AATTAGATTATAAATTA
*
36831175 AAATTAATTATATTATAAATTA
1 AAATTAATTAGATTATAAATTA
36831197 A
1 A
36831198 TGCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTAATTAGATTATAAATTA
Found at i:36831194 original size:16 final size:17
Alignment explanation
Indices: 36831157--36831198 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
36831147 TAACCCAAAT
36831157 TAAATTAGATATAAATTA
1 TAAATTA-ATATAAATTA
*
36831175 -AAATTAAT-TATATTA
1 TAAATTAATATAAATTA
36831190 TAAATTAAT
1 TAAATTAAT
36831199 GCATATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTAATATAAATTA
Found at i:36833682 original size:154 final size:154
Alignment explanation
Indices: 36833402--36833713 Score: 552
Period size: 154 Copynumber: 2.0 Consensus size: 154
36833392 ACTCATGTTA
* *
36833402 AACAAGTTTATTGCTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTGATTTGCT
1 AACAAGTTTATTACTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTAATTTGCT
36833467 ACAAGCATGTTATTACTACCATGTTGATCTATTGTAAGCATATCATGTTTCATTGCATGGGGTGG
66 ACAAGCATGTTATTACTACCATGTTGATCTATTGTAAGCATATCATGTTTCATTGCATGGGGTGG
*
36833532 GACGATATGAATGAAGAAATTATG
131 GACGATATGAATGAAGAAACTATG
*
36833556 AACAAGTTTATTACTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTAATTTTCT
1 AACAAGTTTATTACTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTAATTTGCT
* * * *
36833621 ATAAGTATGTTATTGCTACCATGTTGATCTGTTGTAAGCATATCATGTTTCATTGCATGGGGTGG
66 ACAAGCATGTTATTACTACCATGTTGATCTATTGTAAGCATATCATGTTTCATTGCATGGGGTGG
36833686 GACGATATGAATGAAGAAACTATG
131 GACGATATGAATGAAGAAACTATG
36833710 AACA
1 AACA
36833714 TATTATTAAC
Statistics
Matches: 150, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
154 150 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (154 bp):
AACAAGTTTATTACTACTGTAATGATCCGTTATAAGCATGATAATTGTTACTGTATTAATTTGCT
ACAAGCATGTTATTACTACCATGTTGATCTATTGTAAGCATATCATGTTTCATTGCATGGGGTGG
GACGATATGAATGAAGAAACTATG
Found at i:36833810 original size:42 final size:42
Alignment explanation
Indices: 36833759--36833841 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
36833749 TTTGAGCAGT
* * * *
36833759 TTATCTGCACTATTAAGTGGTTTATTCACACCATATTAGAAG
1 TTATCTGCACCAATAAGTGGTTTATCCACACCATAATAGAAG
* *
36833801 TTATCTGCACCAATGAGTGGTTTATCCACACCGTAATAGAA
1 TTATCTGCACCAATAAGTGGTTTATCCACACCATAATAGAA
36833842 ACATTAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (42 bp):
TTATCTGCACCAATAAGTGGTTTATCCACACCATAATAGAAG
Found at i:36841849 original size:79 final size:79
Alignment explanation
Indices: 36841718--36841928 Score: 242
Period size: 79 Copynumber: 2.7 Consensus size: 79
36841708 TGAAATTATA
** * * * * * * *
36841718 TTTTATTTGTAAATAGAAATCGATTGAACAATTCTATTTCAGAATTTTATTCCTGTCGTTCACCA
1 TTTTATTTCCAAACAGAAATCAATTGAACAATTCTATTTCAGGATTTTATTCCGGCCATTCAACA
*
36841783 GGATTTGTTCGATT
66 GGATTTCTTCGATT
* * * *
36841797 TTTTATTTCCAAACAGAAATCAAGTGAACAATTTTGTTTCAGGATTTTATTCCGGCCATTCAATA
1 TTTTATTTCCAAACAGAAATCAATTGAACAATTCTATTTCAGGATTTTATTCCGGCCATTCAACA
36841862 GGATTTCTTCGATT
66 GGATTTCTTCGATT
* ** * * *
36841876 TTCTATTTTGAAACATAAATCAATTGAACAATTCTATTTTAGGATTCTATTCC
1 TTTTATTTCCAAACAGAAATCAATTGAACAATTCTATTTCAGGATTTTATTCC
36841929 ATTTGTTCAA
Statistics
Matches: 109, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 109 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (79 bp):
TTTTATTTCCAAACAGAAATCAATTGAACAATTCTATTTCAGGATTTTATTCCGGCCATTCAACA
GGATTTCTTCGATT
Found at i:36847830 original size:12 final size:12
Alignment explanation
Indices: 36847813--36847850 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36847803 CTGTGACTGC
36847813 ATTTGTATCTGA
1 ATTTGTATCTGA
*
36847825 ATTTGTGTCT-A
1 ATTTGTATCTGA
36847836 CATTTGTATCTGA
1 -ATTTGTATCTGA
36847849 AT
1 AT
36847851 CTAAATATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.05
12 20 0.91
13 1 0.05
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.50
Consensus pattern (12 bp):
ATTTGTATCTGA
Found at i:36847887 original size:24 final size:24
Alignment explanation
Indices: 36847834--36847889 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
36847824 AATTTGTGTC
* *
36847834 TACATTTGTATCTGAATCTAAATA
1 TACATCTGTATCTGAATATAAATA
* *
36847858 TGCATCTGTATCTGATTATGAAA-A
1 TACATCTGTATCTGAATAT-AAATA
36847882 TACATCTG
1 TACATCTG
36847890 AATTTGTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (24 bp):
TACATCTGTATCTGAATATAAATA
Found at i:36852027 original size:21 final size:21
Alignment explanation
Indices: 36851998--36852047 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
36851988 ATCAACAATT
*
36851998 AATT-TTTAAAATACAAAAAA
1 AATTATTTAAAAGACAAAAAA
* *
36852018 AATTATTTAAAAGGCATAAAA
1 AATTATTTAAAAGACAAAAAA
36852039 AATATATTT
1 AAT-TATTT
36852048 TTTGATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 4 0.16
21 16 0.64
22 5 0.20
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
AATTATTTAAAAGACAAAAAA
Found at i:36852519 original size:29 final size:29
Alignment explanation
Indices: 36852460--36852519 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
36852450 CAACCGTTTG
* * *
36852460 AAAATTCAAAAAAATAATAATAATAATTA
1 AAAATTCAAAAAAATAATAAAAAAAAGTA
*
36852489 AAAATTTATAAAAAATAA-AAAAAAAAGTA
1 AAAATTCA-AAAAAATAATAAAAAAAAGTA
36852518 AA
1 AA
36852520 TATCAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (29 bp):
AAAATTCAAAAAAATAATAAAAAAAAGTA
Found at i:36862449 original size:112 final size:112
Alignment explanation
Indices: 36862322--36862549 Score: 447
Period size: 112 Copynumber: 2.0 Consensus size: 112
36862312 ACCTTGAAGT
36862322 AATAATATTTTTCATAAAATAATTTTACCAAAAATCAATCAAAAACATACAATGTAAGGATTATA
1 AATAATATTTTTCATAAAATAATTTTACCAAAAATCAATCAAAAACATACAATGTAAGGATTATA
36862387 TAAATTTCTTTGCATAATGATTACCCATAATGCGCAGGCATCAATTA
66 TAAATTTCTTTGCATAATGATTACCCATAATGCGCAGGCATCAATTA
36862434 AATAATATTTTTCATAAAATAATTTTACCAAAAATCAATCAAAAACATACAATGTAAGGATTATA
1 AATAATATTTTTCATAAAATAATTTTACCAAAAATCAATCAAAAACATACAATGTAAGGATTATA
*
36862499 TAAATTTCTTTGCATAATGATTACCCATAATGCGTAGGCATCAATTA
66 TAAATTTCTTTGCATAATGATTACCCATAATGCGCAGGCATCAATTA
36862546 AATA
1 AATA
36862550 CTGAAATAAC
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 115 1.00
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (112 bp):
AATAATATTTTTCATAAAATAATTTTACCAAAAATCAATCAAAAACATACAATGTAAGGATTATA
TAAATTTCTTTGCATAATGATTACCCATAATGCGCAGGCATCAATTA
Found at i:36870590 original size:35 final size:36
Alignment explanation
Indices: 36870432--36870591 Score: 229
Period size: 35 Copynumber: 4.6 Consensus size: 36
36870422 AGACAATGAA
36870432 AAAAAGGTTAGGATAGA-CTCGTCTAAGGCAACCTT
1 AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
* *
36870467 AAAGAGGTTAGGATAGACC-CGTCTAGGGCAACCTT
1 AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
* *
36870502 AAAAAGGTTGGGATAGA-CTCGTCTAAGGCAACCTA
1 AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
*
36870537 AAAAAGGTTTGGATAGACCT-GTCTAAGGCAACCTT
1 AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
* *
36870572 AAAAAGGTTTGGTTAGACCT
1 AAAAAGGTTAGGATAGACCT
36870592 TGTTTGCACC
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
34 1 0.01
35 109 0.96
36 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (36 bp):
AAAAAGGTTAGGATAGACCTCGTCTAAGGCAACCTT
Found at i:36880789 original size:19 final size:19
Alignment explanation
Indices: 36880752--36880789 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
36880742 TAGTCCACGT
*
36880752 TGGGCCTAGATGGGCCGTG
1 TGGGCCTAGATAGGCCGTG
36880771 TGGGCCTA-ATAGGCTCGTG
1 TGGGCCTAGATAGGC-CGTG
36880790 GGCCCTACAT
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:0.13, C:0.21, G:0.42, T:0.24
Consensus pattern (19 bp):
TGGGCCTAGATAGGCCGTG
Found at i:36884500 original size:23 final size:20
Alignment explanation
Indices: 36884471--36884526 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 20
36884461 TCAAACTTTA
36884471 TTATTATTTGATATGTTTGATTT
1 TTATTATTTGATAT-TTT--TTT
36884494 TTATTATTT--TATTTTTTT
1 TTATTATTTGATATTTTTTT
36884512 TTATTATTTGATATT
1 TTATTATTTGATATT
36884527 AGCGGTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 12 0.39
20 7 0.23
21 3 0.10
23 9 0.29
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (20 bp):
TTATTATTTGATATTTTTTT
Found at i:36884907 original size:10 final size:10
Alignment explanation
Indices: 36884875--36884937 Score: 53
Period size: 9 Copynumber: 6.5 Consensus size: 10
36884865 ACACATAATG
*
36884875 TTTTTATATAT
1 TTTTTA-ATAA
36884886 TTTTTAGA-AA
1 TTTTTA-ATAA
36884896 TTTTTAATAA
1 TTTTTAATAA
36884906 -TTTTAAT-A
1 TTTTTAATAA
*
36884914 TTTTTTATAA
1 TTTTTAATAA
*
36884924 TTTTTCA-AA
1 TTTTTAATAA
36884933 TTTTT
1 TTTTT
36884938 TAATTTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 1 0.02
9 21 0.47
10 16 0.36
11 7 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:36884914 original size:29 final size:28
Alignment explanation
Indices: 36884876--36884936 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
36884866 CACATAATGT
36884876 TTTTATATATTTTTTAGAAATTTTTAATAA
1 TTTTATATATTTTTTA-AAATTTTTAA-AA
* *
36884906 TTTTA-ATATTTTTTATAATTTTTCAAA
1 TTTTATATATTTTTTAAAATTTTTAAAA
36884933 TTTT
1 TTTT
36884937 TTAATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 8 0.28
29 10 0.34
30 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTATATATTTTTTAAAATTTTTAAAA
Found at i:36884918 original size:19 final size:20
Alignment explanation
Indices: 36884896--36884941 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
36884886 TTTTTAGAAA
36884896 TTTTTAATAA-TTTT-AATAT
1 TTTTTAATAATTTTTCAA-AT
36884915 TTTTT-ATAATTTTTCAAAT
1 TTTTTAATAATTTTTCAAAT
36884934 TTTTTAAT
1 TTTTTAAT
36884942 TTAATATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTAATAATTTTTCAAAT
Found at i:36884936 original size:18 final size:17
Alignment explanation
Indices: 36884893--36884943 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
36884883 TATTTTTTAG
36884893 AAATTTTTAATAA-TTTT
1 AAATTTTT-ATAATTTTT
36884910 AATATTTTTTATAATTTTT
1 AA-A-TTTTTATAATTTTT
36884929 CAAATTTTT-TAATTT
1 -AAATTTTTATAATTT
36884944 AATATTCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.27
18 10 0.33
19 10 0.33
20 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
AAATTTTTATAATTTTT
Found at i:36884941 original size:29 final size:29
Alignment explanation
Indices: 36884870--36884937 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
36884860 TTTTTACACA
*
36884870 TAATGTTTTTATATATTTTTTAGAAATTTT
1 TAATATTTTTA-ATATTTTTTAGAAATTTT
* *
36884900 TAATAATTTTAATATTTTTTA-TAATTTT
1 TAATATTTTTAATATTTTTTAGAAATTTT
36884928 TCAA-ATTTTT
1 T-AATATTTTT
36884938 TAATTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 12 0.36
29 12 0.36
30 9 0.27
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (29 bp):
TAATATTTTTAATATTTTTTAGAAATTTT
Found at i:36885227 original size:18 final size:19
Alignment explanation
Indices: 36885201--36885245 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
36885191 TTTAAGTCAT
36885201 AAATT-TATTTTTA-GTGA
1 AAATTATATTTTTATGTGA
*
36885218 AAATTATATTTTTATGTTA
1 AAATTATATTTTTATGTGA
*
36885237 AAATAATAT
1 AAATTATAT
36885246 AGTAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (19 bp):
AAATTATATTTTTATGTGA
Found at i:36891729 original size:64 final size:64
Alignment explanation
Indices: 36891656--36891872 Score: 145
Period size: 64 Copynumber: 3.3 Consensus size: 64
36891646 CTAGGCCAGA
* *
36891656 GCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
***** * ** *
36891720 GCCCATTTCAAAATAC-ATGCAACATCAATAACATATGCAAGCCC--ATTTGGGTAACAGTGGTA
1 GCCCATTTCAAAATACAAT--AA-A-CTGGGCCTTA-GC---CCCTTATTCAGATAACA---GTA
* *
36891782 CTGGGCCAGA-
55 -TGGCCCATAG
* * * *
36891792 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGACCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
36891856 GCCCATTTCAAAATACA
1 GCCCATTTCAAAATACA
36891873 TGCAACATCA
Statistics
Matches: 106, Mismatches: 31, Indels: 32
0.63 0.18 0.19
Matches are distributed among these distances:
63 8 0.08
64 31 0.29
65 5 0.05
66 1 0.01
67 13 0.12
68 4 0.04
69 13 0.12
70 1 0.01
71 5 0.05
72 16 0.15
73 9 0.08
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:36891866 original size:136 final size:136
Alignment explanation
Indices: 36891634--36892043 Score: 766
Period size: 136 Copynumber: 3.0 Consensus size: 136
36891624 GCCCATTCAT
* *
36891634 GTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
36891699 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
36891764 ATTTGG
131 ATTTGG
36891770 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
*
36891835 AGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
36891900 ATTTGG
131 ATTTGG
*
36891906 GTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
*
36891971 AGATAACAGTATGGCCTATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGCC
36892036 CATTTGG
130 CATTTGG
36892043 G
1 G
36892044 GAGACTACTC
Statistics
Matches: 267, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
136 245 0.92
137 22 0.08
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (136 bp):
GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCCC
ATTTGG
Found at i:36893859 original size:26 final size:26
Alignment explanation
Indices: 36893823--36893958 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
36893813 CATGATATTC
36893823 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
36893849 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
36893875 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
36893901 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
36893927 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
36893953 TTATCA
1 TTATCA
36893959 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:36897975 original size:136 final size:136
Alignment explanation
Indices: 36897658--36898080 Score: 783
Period size: 136 Copynumber: 3.1 Consensus size: 136
36897648 TATTGGGCCT
** * *
36897658 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
36897723 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAAATACATGCAACATCAATAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTC-AAAATACATGCAACATCAATAA
36897788 CATATGC
130 CATATGC
36897795 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
36897860 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
36897925 ATATGC
131 ATATGC
*
36897931 AAGCCCATTTGGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
36897996 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
36898061 CATATGC
130 CATATGC
36898068 AAGCCCATTTGGG
1 AAGCCCATTTGGG
36898081 GAGACTAATC
Statistics
Matches: 280, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
136 155 0.55
137 125 0.45
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:36899897 original size:26 final size:26
Alignment explanation
Indices: 36899861--36899996 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
36899851 CATGATATTC
36899861 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
36899887 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
36899913 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
36899939 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
36899965 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
36899991 TTATCA
1 TTATCA
36899997 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:36909468 original size:16 final size:16
Alignment explanation
Indices: 36909449--36909479 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36909439 GAAATGATCA
36909449 AAACCTAAAATAACTT
1 AAACCTAAAATAACTT
*
36909465 AAACTTAAAATAACT
1 AAACCTAAAATAACT
36909480 CGAACAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (16 bp):
AAACCTAAAATAACTT
Found at i:36910762 original size:10 final size:10
Alignment explanation
Indices: 36910734--36910763 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
36910724 ATCCCTTCTA
*
36910734 ATATATATAT
1 ATATATATTT
36910744 ATATATATTT
1 ATATATATTT
36910754 ATATATATTT
1 ATATATATTT
36910764 CAACTTTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATATATATTT
Found at i:36912266 original size:12 final size:12
Alignment explanation
Indices: 36912251--36912275 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36912241 TCTTTTTATT
36912251 TAAAGTTAAAAG
1 TAAAGTTAAAAG
36912263 TAAAGTTAAAAG
1 TAAAGTTAAAAG
36912275 T
1 T
36912276 TAGAAAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (12 bp):
TAAAGTTAAAAG
Found at i:36912964 original size:19 final size:17
Alignment explanation
Indices: 36912942--36912978 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
36912932 AAGAAAGGAG
36912942 AAGAGAAGGAAGAAAAAGA
1 AAGAGAA-GAA-AAAAAGA
36912961 AAGAGAAGAAAAAAAGA
1 AAGAGAAGAAAAAAAGA
36912978 A
1 A
36912979 GGTATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
AAGAGAAGAAAAAAAGA
Found at i:36913339 original size:17 final size:18
Alignment explanation
Indices: 36913307--36913345 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
36913297 TCAAACAACC
*
36913307 TATTTTAGTATTTTATTT
1 TATTTTAGTATTTTATAT
*
36913325 TATTTTA-TTTTTTATAT
1 TATTTTAGTATTTTATAT
36913342 TATT
1 TATT
36913346 AGAGTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TATTTTAGTATTTTATAT
Found at i:36918095 original size:20 final size:22
Alignment explanation
Indices: 36918056--36918096 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36918046 TAGTACATAA
36918056 TGTTTTAAATATATTATTTAAG
1 TGTTTTAAATATATTATTTAAG
36918078 TGTTTTAAATAT-TT-TTTAA
1 TGTTTTAAATATATTATTTAA
36918097 TAAATAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TGTTTTAAATATATTATTTAAG
Found at i:36918147 original size:15 final size:14
Alignment explanation
Indices: 36918127--36918190 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 14
36918117 ACTTTATTCA
36918127 TATTTTTTCGTATAT
1 TATTTTTTC-TATAT
*
36918142 TATTTTTTAAAATATAT
1 TATTTTTT---CTATAT
* *
36918159 TA-TTTTCCTATTT
1 TATTTTTTCTATAT
36918172 TATTTTTT-TATAT
1 TATTTTTTCTATAT
36918185 TATTTT
1 TATTTT
36918191 AGCAAAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 16 0.41
14 4 0.10
15 8 0.21
16 4 0.10
17 7 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (14 bp):
TATTTTTTCTATAT
Found at i:36918375 original size:22 final size:21
Alignment explanation
Indices: 36918347--36918388 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
36918337 TAGTACATAA
36918347 TGTTTTAAATATATTATTTAAG
1 TGTTTTAAATAT-TTATTTAAG
*
36918369 TGTTTTAAATATTTTTTTAA
1 TGTTTTAAATATTTATTTAA
36918389 TAAATAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TGTTTTAAATATTTATTTAAG
Found at i:36918472 original size:291 final size:289
Alignment explanation
Indices: 36917869--36919071 Score: 1591
Period size: 291 Copynumber: 4.1 Consensus size: 289
36917859 ATAAGTAAAA
* *
36917869 TATTTTCGTATATTATTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATTATGTAAGTATT
1 TATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATTATGTAAGTATT
36917934 TTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTT-T
66 TTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTTAT
*
36917998 TTTTTAAATATATTACTTTCGTATTATTTAATT-TTAAAACCCTTATTTTAGTACATAATGTTTT
131 TTTTTAAATATATTACTTTCGTA-T-TTTAATTCTTAAAA---TTATTTTAGTACATAATGTTTC
*
36918062 AAATATATTATTTAAGTGTTTTAAATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTC
191 AAATATATTATTTAAGTATTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTC
36918126 ATA-TTTTTTCGTATATTATTTTTTAAAATATAT
256 ATATTTTTTTCGTATATTATTTTTTAAAATATAT
36918159 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATTATGTAAGTAT
1 TATTTTCCTATTTTA-TTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATTATGTAAGTAT
36918224 TTTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTT-
65 TTTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTTA
36918288 TTTTTTAAATATATTACTTTCGTATTATTTAATT-TTAAAACCCTTATTTTAGTACATAATGTTT
130 TTTTTTAAATATATTACTTTCGTA-T-TTTAATTCTTAAAA---TTATTTTAGTACATAATGTTT
* *
36918352 TAAATATATTATTTAAGTGTTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATT
190 CAAATATATTATTTAAGTATTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATT
36918417 CATA-TTTTTTCGTATATTATTTTTTAAAATATAT
255 CATATTTTTTTCGTATATTATTTTTTAAAATATAT
*
36918451 TATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTA
1 TATTTTCCTATTTTATTTTTTATATTATTTTAGC-AAAAATGTTTTAAATGTATTATG--TA--A
* *
36918516 TGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTTTTCGTATTTTTT
61 -GT-A---TTTTTTTATATTAATTTAATAAATAACACTGATTTTGACAC-TTTTTCGTATTTTTT
* * * *
36918581 T-GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATA
120 TCGTATCTTATTTTTT-AAATATATTACTTTCGTATTTTAATTCTTAAAATTATTTTAGTACATA
* ** * *
36918645 ATGTTTCAAATGTATTATTTCAA-TATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCA
184 ATGTTTCAAATATATTATTT-AAGTATTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCA
*
36918709 CTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
248 CTTTATTCATATTTTTTTCGTATATTATTTTTTAAAATATAT
* *** * * *
36918751 T-TTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAAAATTAAAATGTATTAAT-TAACTGT
1 TATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATT-ATGTAAGTAT
* * * *
36918814 TTCTTTATATTAAGGGTTTTTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTA
65 TTTTTTATATTAA------TTTAATAAATAACACTGATTTTGACACTTT-TTCGT-A----TTT-
* * * * * *
36918879 TTTTCGTATATTATTTTTTAATATATATTATTTTCATATTTTATTTCTTTATATTATTTTAGTAC
117 TTTTCGTATCTTATTTTTTAA-ATATATTACTTTCGTATTTTAATTCTTAAAATTATTTTAGTAC
* * **
36918944 ATAATGCTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG
181 ATAATGTTTCAAATATATTATTTAAGTATTTTAAATATTTTTTTAATAAATAACCCTGATTTTAG
*
36919009 CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
246 CACTTTATTCATATTTTTTTCGTATATTATTTTTTAAAATATAT
**
36919053 TATTTTAGTATTTTATTTT
1 TATTTTCCTATTTTATTTT
36919072 AGCATAAAAT
Statistics
Matches: 841, Mismatches: 36, Indels: 59
0.90 0.04 0.06
Matches are distributed among these distances:
289 12 0.01
290 13 0.02
291 224 0.27
292 107 0.13
293 1 0.00
294 6 0.01
295 30 0.04
296 4 0.00
297 2 0.00
298 17 0.02
299 112 0.13
300 36 0.04
301 60 0.07
302 185 0.22
303 32 0.04
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (289 bp):
TATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATTATGTAAGTATT
TTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTTAT
TTTTTAAATATATTACTTTCGTATTTTAATTCTTAAAATTATTTTAGTACATAATGTTTCAAATA
TATTATTTAAGTATTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATT
TTTTTCGTATATTATTTTTTAAAATATAT
Found at i:36918597 original size:446 final size:441
Alignment explanation
Indices: 36917946--36919071 Score: 1177
Period size: 446 Copynumber: 2.5 Consensus size: 441
36917936 TTTATATTAA
* * * *
36917946 TTTAATAAATAACACTGATTTTGACACTTT-TTC--GTATTTTTTTCGTATCTT-TTTTTT-AAA
1 TTTAATAAATAACCCTGATTTTGACACTTTATTCAATTATTATTTTCGTATATTATTTTTTAAAA
* * * * * * * * * * *
36918006 TATATTACTTTCGTATTATTTAATT-TTAAAACCCTTATTTTAGTACATAATGTTTTAAATATAT
66 TATATTATTTTCATA-T-TTTATTTCTTTATA---TTATTTTAGCAAAAAATGCTTCAAATGTAT
* ** ** *
36918070 TATTTAAGTGTTTTAAATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTT
126 TATTTAAGTATTTTTTATACTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTT
* * *
36918134 TCGTATATTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATATTATTTTAGCA-AAA
191 TTGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTCATATTATTTTAGCACAAA
*
36918198 ATGTTTTAAATGTATTATGT-AAGTATTTTTTTATATTAATTT-AATAAATAACACTGATTTT-G
256 ATGTTTCAAATGTATTATGTCAA-TA-TTTTTTATATT-ATTTCAATAAATAACACTGATTTTAG
*
36918260 ACACTTT-TTCGTATTTTTTTCGTATCTT-TTTTTT-AAATATATTACTTTCGTATTATTTAATT
318 -CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATT-CTTTCGTA-T-TTTAATT
* * *** * * *
36918322 TTAAAACCCTTATTTTAGTACATAATGTTTTAAATATATTATTTAA-GTGT-TTTA-AAT-A-TT
379 TTAAAA---TTATTTTAGCA-AAAAAAATTAAAATATATTAATTAACGTGTCTTTATAATAAGGT
36918382 TT
440 TT
36918384 TTTAATAAATAACCCTGATTTT-AGCACTTTATTC-A-TATT-TTTTCGTATATTATTTTTTAAA
1 TTTAATAAATAACCCTGATTTTGA-CACTTTATTCAATTATTATTTTCGTATATTATTTTTTAAA
* *
36918445 ATATATTATTTTCCTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATG
65 ATATATTATTTTCATATTTTATTTCTTTATATTATTTTAGCAAAAAATGCTTCAAATGTATTAT-
*
36918509 TATATTATGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTT-GACACTTTTTTCG
129 T-TA--A-GT-A----TTTTTTATACTAATTTAATAAATAACCCTGATTTTAG-CACTTTATTCG
* *
36918573 TATTTTTTTGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTA
184 TATTTTTTTGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTCATATTATTTTA
* * * * * *
36918638 GTACATAATGTTTCAAATGTATTATTTCAATATTTTTTATATTTTTTCAATAAATATCCCTGATT
249 GCACAAAATGTTTCAAATGTATTATGTCAATATTTTTTATATTATTTCAATAAATAACACTGATT
* * *
36918703 TTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTTTTTCTTATTTTATTT
314 TTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTCTTTCGTATTTTAATT
* * * * *
36918768 TTTATATTATTTTAGCAAAAAAAATTAAAATGTATTAATTAACTGTTTCTTTATATTAAGGGTTT
379 TTAAAATTATTTTAGCAAAAAAAATTAAAATATATTAATTAAC-GTGTCTTTATAATAA-GGTTT
* * * *
36918833 TTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTT
1 TTTAATAAATAACCCTGATTTTGACACTTTATTC--AA--TTATTATTTTCGTATATTATTTTTT
* * * *
36918898 AATATATATTATTTTCATATTTTATTTCTTTATATTATTTTAGTACATAATGCTTCAAATGTATT
62 AAAATATATTATTTTCATATTTTATTTCTTTATATTATTTTAGCAAAAAATGCTTCAAATGTATT
* **
36918963 ATTTAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTT
127 ATTTAAGTATTTTTTATACTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTT
*
36919028 TCGTATATTATTTTTTAAAATATATTATTTTAGTATTTTATTTT
192 T-GTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTT
36919072 AGCATAAAAT
Statistics
Matches: 581, Mismatches: 65, Indels: 74
0.81 0.09 0.10
Matches are distributed among these distances:
435 28 0.05
436 1 0.00
437 3 0.01
438 48 0.08
439 15 0.03
440 18 0.03
442 18 0.03
443 10 0.02
444 3 0.01
445 15 0.03
446 140 0.24
447 96 0.17
448 54 0.09
449 41 0.07
450 1 0.00
451 1 0.00
452 3 0.01
453 1 0.00
455 5 0.01
456 45 0.08
457 35 0.06
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (441 bp):
TTTAATAAATAACCCTGATTTTGACACTTTATTCAATTATTATTTTCGTATATTATTTTTTAAAA
TATATTATTTTCATATTTTATTTCTTTATATTATTTTAGCAAAAAATGCTTCAAATGTATTATTT
AAGTATTTTTTATACTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTGTA
TATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTCATATTATTTTAGCACAAAATGTT
TCAAATGTATTATGTCAATATTTTTTATATTATTTCAATAAATAACACTGATTTTAGCACTTTAT
TCGTATTTTTTTCGTATATTATTTTTTAAAATATATTCTTTCGTATTTTAATTTTAAAATTATTT
TAGCAAAAAAAATTAAAATATATTAATTAACGTGTCTTTATAATAAGGTTT
Found at i:36918910 original size:30 final size:29
Alignment explanation
Indices: 36918876--36918936 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
36918866 CGTAATTTTT
*
36918876 TTATTTTCGTATATTATTT-TTTAATATATA
1 TTATTTTCATATATTATTTCTTT-ATAT-TA
*
36918906 TTATTTTCATATTTTATTTCTTTATATTA
1 TTATTTTCATATATTATTTCTTTATATTA
36918935 TT
1 TT
36918937 TTAGTACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 21 0.75
31 3 0.11
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (29 bp):
TTATTTTCATATATTATTTCTTTATATTA
Found at i:36919180 original size:302 final size:290
Alignment explanation
Indices: 36918543--36919220 Score: 827
Period size: 302 Copynumber: 2.4 Consensus size: 290
36918533 ACTAATTTAA
* * *
36918543 TAAATAACCCTGATTTTGACACTTTTTTCGT-A----TTT-TTTT-GTATCTTATTTTTTAAAAT
1 TAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTTAAAAT
* *
36918601 ATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTC
66 ATATTATTTTCATATTTTATTTCTTCATATTATTTTAGTACATAATGCTTCAAATGTATTATTTC
*
36918666 AATATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTA
131 AATATTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTA
*
36918731 TATTATTTTTTAAAATATATTTTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAAAATTAA
196 TATTATTTTTTAAAATATA-----T-TTATTTTA---TGTATATTATTTTAGCAAAAAAAATTAA
* *
36918796 AATGTATTAATTAACTGTTTCTTTATATTAAGGGTTTTTTAC
252 AATGTATTAATTAAC-GTTTCTTTATATTAA--GTTTATAAC
*
36918838 TAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTTAATAT
1 TAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTTAAAAT
*
36918903 ATATTATTTTCATATTTTATTTCTTTATATTATTTTAGTACATAATGCTTCAAATGTATTATTT-
66 ATATTATTTTCATATTTTATTTCTTCATATTATTTTAGTACATAATGCTTCAAATGTATTATTTC
*
36918967 AAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGT
131 AA-TATTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGT
* ** *
36919032 ATATTATTTTTTAAAATATA-TTATTTTA-GTATTTTATTTTAGCATAAAATCATTCAAATGTAT
195 ATATTATTTTTTAAAATATATTTATTTTATGTATATTATTTTAGCA-AAAAAAATTAAAATGTAT
* *
36919095 TATTTAA-GTTTTTTTATATTAA--TT-TAA-
259 TAATTAACGTTTCTTTATATTAAGTTTATAAC
* * ** * * * *
36919122 TAAGTAA-CCTGACTTTGGCACCTTGTTCGT-ATTTTTTTATTTTCAG-ATTTTATTTTTT-AAT
1 TAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTC-GTATATTATTTTTTAAAA
* * *
36919183 TATACTATTTTCATATTTTATTTTTTTATATTATTTTA
65 TATATTATTTTCATATTTTATTTCTTCATATTATTTTA
36919221 ACAAAAAACT
Statistics
Matches: 345, Mismatches: 28, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
281 37 0.11
282 25 0.07
283 19 0.06
284 6 0.02
285 2 0.01
286 2 0.01
290 14 0.04
291 14 0.04
292 21 0.06
295 37 0.11
296 1 0.00
300 3 0.01
301 6 0.02
302 158 0.46
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.57
Consensus pattern (290 bp):
TAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTTAAAAT
ATATTATTTTCATATTTTATTTCTTCATATTATTTTAGTACATAATGCTTCAAATGTATTATTTC
AATATTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTA
TATTATTTTTTAAAATATATTTATTTTATGTATATTATTTTAGCAAAAAAAATTAAAATGTATTA
ATTAACGTTTCTTTATATTAAGTTTATAAC
Found at i:36919676 original size:14 final size:14
Alignment explanation
Indices: 36919657--36919719 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
36919647 AAAAAATTAC
36919657 CTTTTTCTTTCCTT
1 CTTTTTCTTTCCTT
* *
36919671 CTTTTTCCTTCCCT
1 CTTTTTCTTTCCTT
*
36919685 CTTCTTCTTCTCCTTCT
1 CTTTTTCTT-TCC-T-T
36919702 CTTTTTCTTT--TT
1 CTTTTTCTTTCCTT
36919714 CTTTTT
1 CTTTTT
36919720 TCTTCTCTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.17
13 1 0.03
14 19 0.47
15 3 0.08
16 1 0.03
17 9 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTTTCTTTCCTT
Found at i:36919690 original size:17 final size:18
Alignment explanation
Indices: 36919668--36919714 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
36919658 TTTTTCTTTC
36919668 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
36919685 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
36919705 TTTCTTTTTC
1 CTTCTTTTTC
36919715 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:36919784 original size:8 final size:8
Alignment explanation
Indices: 36919771--36919805 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
36919761 TTTTCTTTCT
36919771 TCTTCTTC
1 TCTTCTTC
36919779 TCTTCTTC
1 TCTTCTTC
*
36919787 CCTTCTTC
1 TCTTCTTC
*
36919795 CCTTCTTC
1 TCTTCTTC
36919803 TCT
1 TCT
36919806 CTTTTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (8 bp):
TCTTCTTC
Found at i:36921907 original size:24 final size:24
Alignment explanation
Indices: 36921880--36921934 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
36921870 CATAATATCA
36921880 TTTAAATCTTACTTTGTTTGTTCT
1 TTTAAATCTTACTTTGTTTGTTCT
36921904 TTTAAATCTTACTTTGTTTGTTCT
1 TTTAAATCTTACTTTGTTTGTTCT
36921928 TTTAAAT
1 TTTAAAT
36921935 AATGCATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.62
Consensus pattern (24 bp):
TTTAAATCTTACTTTGTTTGTTCT
Found at i:36928542 original size:3 final size:3
Alignment explanation
Indices: 36928534--36928627 Score: 170
Period size: 3 Copynumber: 31.3 Consensus size: 3
36928524 TATCTTATAT
36928534 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
36928582 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36928628 ATATCTATTT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36929203 original size:25 final size:25
Alignment explanation
Indices: 36929169--36929218 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
36929159 ATAATAATAT
*
36929169 AATATAATATATTAATATAATTTAA
1 AATATAATATAATAATATAATTTAA
*
36929194 AATATGATATAATAATATAATTTAA
1 AATATAATATAATAATATAATTTAA
36929219 TATTTAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AATATAATATAATAATATAATTTAA
Found at i:36930601 original size:18 final size:19
Alignment explanation
Indices: 36930578--36930618 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
36930568 TTTTCGTTTC
*
36930578 TTCTTTCTTTCT-ATTTTT
1 TTCTTTCTTTCTCATTCTT
36930596 TTCTTTCTTTCTCATTCTT
1 TTCTTTCTTTCTCATTCTT
36930615 TTCT
1 TTCT
36930619 CTATCGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (19 bp):
TTCTTTCTTTCTCATTCTT
Found at i:36937194 original size:34 final size:34
Alignment explanation
Indices: 36937145--36937218 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
36937135 AGTGTCACGA
*
36937145 TTCACAACTCAGTATGGAAACACCATACCTACGT
1 TTCACAACTCAGTATGAAAACACCATACCTACGT
* * *
36937179 TTCACAGCTCGGTATGAAAATACCATACCTACGT
1 TTCACAACTCAGTATGAAAACACCATACCTACGT
36937213 TTCACA
1 TTCACA
36937219 CTTTGCCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (34 bp):
TTCACAACTCAGTATGAAAACACCATACCTACGT
Found at i:36937303 original size:27 final size:27
Alignment explanation
Indices: 36937273--36937337 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
36937263 GATCACTGAA
* *
36937273 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
* *
36937300 CACTTTGCCATGATTGGCACATTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
*
36937327 CACTTTTCCAT
1 CACTTTGCCAT
36937338 AGTTCAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.42
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:36937470 original size:31 final size:31
Alignment explanation
Indices: 36937394--36937605 Score: 275
Period size: 31 Copynumber: 6.8 Consensus size: 31
36937384 TCACATAAGT
* * *
36937394 GTAGCTAAAGCTACCACTTATCACTTG-TCACTT
1 GTAGCTGAAGCTACCACTTTTCAC-TGATCA--G
* * *
36937427 GTAGCCGAAGCTACCACTATTCACTGGTCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
36937458 GTAGCTGGAGCTACCACTTTTCACTAATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
36937489 GTAGCCGAAGCTACTACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
36937520 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
36937551 GTAG-TCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCT-GAAGCTACCACTTTTCACTGATCAG
*
36937582 GTAGCTAAAGCTACCACTTTTCAC
1 GTAGCTGAAGCTACCACTTTTCAC
36937606 ATTGTACACA
Statistics
Matches: 159, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
30 1 0.01
31 132 0.83
32 3 0.02
33 23 0.14
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
GTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:36937682 original size:33 final size:33
Alignment explanation
Indices: 36937598--36937710 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
36937588 AAAGCTACCA
* **
36937598 CTTTTCACA-TTGTACACACAAGGCATACATTTC
1 CTTTTCA-AGTTGTACACACAAAGTGTACATTTC
36937631 CTTTTCAAG-TGTACACACAAAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
* *
36937663 CTTTTTAAGTTGTACACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
*
36937696 CTTTTCCAGTTGTAC
1 CTTTTCAAGTTGTAC
36937711 CTTTTAGGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
32 29 0.41
33 42 0.59
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGTGTACATTTC
Found at i:36939404 original size:11 final size:11
Alignment explanation
Indices: 36939388--36939440 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
36939378 TATACTAAAT
36939388 AAATAATAATA
1 AAATAATAATA
36939399 AAATAATAAT-
1 AAATAATAATA
* *
36939409 AAATATCTCATTA
1 AAATA-AT-AATA
*
36939422 AAATATTAATA
1 AAATAATAATA
36939433 AAATAATA
1 AAATAATA
36939441 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 5 0.15
11 21 0.62
12 3 0.09
13 5 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAATAATA
Found at i:36939447 original size:31 final size:33
Alignment explanation
Indices: 36939388--36939453 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
36939378 TATACTAAAT
*
36939388 AAATAATAATAAAATAATAATAAATATCTCATTA
1 AAATAATAATAAAATAATAAT-AATATCTAATTA
* *
36939422 AAATATTAATAAAATAAT-AT-TTATCTAATTA
1 AAATAATAATAAAATAATAATAATATCTAATTA
36939453 A
1 A
36939454 TTAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
33 2 0.07
34 17 0.59
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (33 bp):
AAATAATAATAAAATAATAATAATATCTAATTA
Found at i:36944753 original size:48 final size:47
Alignment explanation
Indices: 36944603--36944774 Score: 163
Period size: 48 Copynumber: 3.6 Consensus size: 47
36944593 TGAATTGCCT
* * * *
36944603 ATGCCATGTTTCAAACATGGTCTTACACTGGCTCGCATG-TCGAGGCCA
1 ATGCCATG-TCCAGACATGGTCTTACACTGGCTCTCATGAT-GTGGCCA
* * *
36944651 ATGCCATGTCCAGACATGGTCTTACACTAGCTTTCGTC-TCAT-T-GCCT
1 ATGCCATGTCCAGACATGGTCTTACACTGGC--TC-TCATGATGTGGCCA
* *
36944698 ATGCCATGTCCTAGACTTGGTCTTACACTGGCTCTCATGATGTGGCCG
1 ATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCATGATGTGGCCA
*
36944746 ATACCATGTCCAAGACATGGTCTTACACT
1 ATGCCATGTCC-AGACATGGTCTTACACT
36944775 AATGCACATA
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 2 0.02
46 5 0.05
47 35 0.34
48 55 0.54
49 3 0.03
50 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
ATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCA
Found at i:36944801 original size:96 final size:94
Alignment explanation
Indices: 36944603--36944820 Score: 242
Period size: 96 Copynumber: 2.3 Consensus size: 94
36944593 TGAATTGCCT
** * *
36944603 ATGCCATGTTTCAAACATGGTCTTACACTGGCTCGCATGTCGAGGCCAATGCCATGTCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATGTCGAGGCCAATACCATGTCCAGACAT
* * * ** *
36944668 GGTCTTACACTAGCTTTCGTCTCATTGCCT
66 GGTCTTACACTAGC-TACATATCAACGCCG
* * * * *
36944698 ATGCCATGTCCTAGACTTGGTCTTACACTGGCTCTCATGAT-GTGGCCGATACCATGTCCAAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATG-TCGAGGCCAATACCATGTCC-AGAC
36944762 ATGGTCTTACACTAATGC-ACATATCAACGCCG
64 ATGGTCTTACACT-A-GCTACATATCAACGCCG
36944794 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
36944821 TTAGCACACA
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
95 48 0.47
96 51 0.50
97 1 0.01
98 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (94 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATGTCGAGGCCAATACCATGTCCAGACAT
GGTCTTACACTAGCTACATATCAACGCCG
Found at i:36944831 original size:48 final size:48
Alignment explanation
Indices: 36944742--36944835 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 48
36944732 TCATGATGTG
**
36944742 GCCGATACCATGTCCAAGACATGGTCTTACACTAATGCACATATCAAC
1 GCCGATACCATGTCCAAGACATGGTCTTACACTAACACACATATCAAC
* * * *
36944790 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGCACACATATCA
1 GCCGATACCATGTCCAAGACATGGTCTTACACTAACACACATATCA
36944836 CCCAAATGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (48 bp):
GCCGATACCATGTCCAAGACATGGTCTTACACTAACACACATATCAAC
Found at i:36947698 original size:23 final size:23
Alignment explanation
Indices: 36947647--36947700 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
36947637 TGGCGGTAAC
*
36947647 ACATGGCAGTCTCTCAGTATGCG
1 ACATGGAAGTCTCTCAGTATGCG
* * *
36947670 ATATGGAAGTCTTTCAGTATGCT
1 ACATGGAAGTCTCTCAGTATGCG
36947693 ACATGGAA
1 ACATGGAA
36947701 AATATAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (23 bp):
ACATGGAAGTCTCTCAGTATGCG
Found at i:36947951 original size:26 final size:25
Alignment explanation
Indices: 36947904--36947959 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
36947894 TATTATTTTG
** *
36947904 AAAAATATATAAAATATTAATTTAT
1 AAAAATATATAAAATAAAAATTAAT
*
36947929 AAAAATATATACAATTAAAAATTAAT
1 AAAAATATATA-AAATAAAAATTAAT
36947955 AAAAA
1 AAAAA
36947960 GCCTATAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAAATATATAAAATAAAAATTAAT
Found at i:36948222 original size:23 final size:24
Alignment explanation
Indices: 36948171--36948223 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
36948161 TTTATTATGT
* *
36948171 TATATATTTTATTTATTAAATTAA
1 TATATATTTTAGTTATTAAAATAA
36948195 TATAT-TTTTAGTT-TTAAAATAA
1 TATATATTTTAGTTATTAAAATAA
36948217 TAATATA
1 T-ATATA
36948224 ATAGTATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 9 0.36
23 11 0.44
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TATATATTTTAGTTATTAAAATAA
Found at i:36948481 original size:26 final size:26
Alignment explanation
Indices: 36948429--36948481 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
36948419 GTGACAAAAT
* * * *
36948429 AAAAGTTAGGTACCATCTAGGTCCAA
1 AAAAATTAGGTACCAACTAAGTACAA
36948455 AAAAATTAGGTACCAACTAAGTACAA
1 AAAAATTAGGTACCAACTAAGTACAA
36948481 A
1 A
36948482 TGAACAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (26 bp):
AAAAATTAGGTACCAACTAAGTACAA
Found at i:36948672 original size:3 final size:3
Alignment explanation
Indices: 36948666--36948732 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
36948656 ATAACATGGC
36948666 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36948714 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
36948733 GGGCTAAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36949048 original size:12 final size:13
Alignment explanation
Indices: 36949020--36949054 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
36949010 CCACATTGTT
*
36949020 TTCTTCATCTTTC
1 TTCTTCATCTGTC
36949033 TTCTTCA-CTGTC
1 TTCTTCATCTGTC
36949045 TTCTTCATCT
1 TTCTTCATCT
36949055 TCCATTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.09, C:0.31, G:0.03, T:0.57
Consensus pattern (13 bp):
TTCTTCATCTGTC
Found at i:36951727 original size:46 final size:45
Alignment explanation
Indices: 36951583--36951791 Score: 174
Period size: 46 Copynumber: 4.5 Consensus size: 45
36951573 AATGTGAGCT
* * * * * *
36951583 AGTGTAAGTCATGTCTGAGACATACATCAGCCAC-ATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATTA-AGCC
* * * *
36951629 AATGTAAGACCATGTCTAGGG-CATGGCATCGGCATCGAGA-TAAGTGCT
1 AGTGTAAGA-CATGTCT-GGGACAT-GCATCAGCCTCGAGATTAA--GCC
36951677 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAATTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG-ATTAAGCC
** * *
36951723 AGTGTAAGACATGTCTGGGACATGCATC-GGTTTGAGATATGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAT-TAAGCC
36951768 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGA-CATGTCTGGGACAT
36951792 CCATGTTTGA
Statistics
Matches: 134, Mismatches: 18, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
44 2 0.01
45 19 0.14
46 67 0.50
47 22 0.16
48 23 0.17
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATTAAGCC
Found at i:36953837 original size:26 final size:26
Alignment explanation
Indices: 36953775--36953883 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
36953765 TGATACAAAT
36953775 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36953800 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36953826 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36953852 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
36953878 TGATAA
1 TGATAA
36953884 GAATTCATGT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:36955538 original size:27 final size:27
Alignment explanation
Indices: 36955497--36955556 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
36955487 GAGGAAGCGT
36955497 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTATGCCACAAATATCTGA
* * *
36955524 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTATGCCACAAATATCTGA
36955551 TCTGGT
1 TCTGGT
36955557 AACTCTGTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTATGCCACAAATATCTGA
Found at i:36955580 original size:26 final size:27
Alignment explanation
Indices: 36955508--36955581 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
36955498 CTGGTGGCTA
* * **
36955508 TGCCACAAATATCTGATCTGGTGGCTC
1 TGCCACATATATCTGTTCTGGTAACTC
36955535 TGCCACATATATCTGTTCTGGTAACTC
1 TGCCACATATATCTGTTCTGGTAACTC
*
36955562 TGTCACAT-TATCTGTTCTGG
1 TGCCACATATATCTGTTCTGG
36955582 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 12 0.29
27 30 0.71
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.36
Consensus pattern (27 bp):
TGCCACATATATCTGTTCTGGTAACTC
Found at i:36959619 original size:26 final size:26
Alignment explanation
Indices: 36959557--36959665 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
36959547 TGATACAAAT
36959557 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36959582 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36959608 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36959634 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
36959660 TGATAA
1 TGATAA
36959666 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:36961319 original size:27 final size:27
Alignment explanation
Indices: 36961278--36961390 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
36961268 GAGGAAGCGT
*
36961278 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
36961305 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
36961332 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
36961360 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
36961386 TCTGG
1 TCTGG
36961391 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:36961383 original size:54 final size:54
Alignment explanation
Indices: 36961276--36961390 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
36961266 TGGAGGAAGC
*
36961276 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
36961330 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
36961384 GTTCTGG
1 GTTCTGG
36961391 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:36963689 original size:48 final size:46
Alignment explanation
Indices: 36963590--36963765 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
36963580 AGACTATTGT
* * * *
36963590 GAGCTAGTGTAAGACATG-TCTGGGACATACATCGACCAC-ATTACGA
1 GAGCTAGTGTAAGACATGTTC-GGGACATGCATCGGCCTCGA-GACGA
*
36963636 GAGCTAGTGTAAGACCATGTTCGGGACATGGCATCGGCAGT-GAGACGA
1 GAGCTAGTGTAAGA-CATGTTCGGGACAT-GCATCGGC-CTCGAGACGA
* * *
36963684 GAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTTCGGGACATGCATCGGCCTCGAGACG-A
*
36963731 -AGCCAGTGTAAGACATG-TCTGGGACATGCATCGGC
1 GAGCTAGTGTAAGACATGTTC-GGGACATGCATCGGC
36963766 TACGAGTTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
45 2 0.02
46 56 0.51
47 25 0.23
48 26 0.24
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTTCGGGACATGCATCGGCCTCGAGACGA
Found at i:36963742 original size:46 final size:46
Alignment explanation
Indices: 36963637--36963793 Score: 164
Period size: 46 Copynumber: 3.4 Consensus size: 46
36963627 ACATTACGAG
* * *
36963637 AGCTAGTGTAAGACCATGTTCGGGACATGGCATCGGCAGT-GAGACG-A
1 AGCTAGTGTAAGACCATGTTTGGGACAT-GCATC-GC-CTCGAGATGTA
36963684 GAGCTAGTGTAAGA-CATGTTTGGGACATGCATCAGCCTCGAGATGTA
1 -AGCTAGTGTAAGACCATGTTTGGGACATGCATC-GCCTCGAGATGTA
* * *
36963731 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAG-T-TA
1 AGCTAGTGTAAGACCATGTTTGGGACATGCATCGCCT-CGAGATGTA
36963775 AGCTAGTGTAAGACCATGT
1 AGCTAGTGTAAGACCATGT
36963794 CCAAGATATG
Statistics
Matches: 97, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
44 14 0.14
45 10 0.10
46 46 0.47
47 14 0.14
48 13 0.13
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
AGCTAGTGTAAGACCATGTTTGGGACATGCATCGCCTCGAGATGTA
Found at i:36964410 original size:9 final size:9
Alignment explanation
Indices: 36964396--36964420 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36964386 TTGTCCATTG
36964396 TGGCTATTT
1 TGGCTATTT
36964405 TGGCTATTT
1 TGGCTATTT
36964414 TGGCTAT
1 TGGCTAT
36964421 GTGATGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.52
Consensus pattern (9 bp):
TGGCTATTT
Found at i:36969115 original size:13 final size:13
Alignment explanation
Indices: 36969075--36969129 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
36969065 TATGTAAATA
*
36969075 AAATGGTTATATG
1 AAATGATTATATG
*
36969088 AAATGATTACATG
1 AAATGATTATATG
*
36969101 AAATGATTATGTG
1 AAATGATTATATG
* * *
36969114 AATTGGTTATGTG
1 AAATGATTATATG
36969127 AAA
1 AAA
36969130 ATATATGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:36971240 original size:25 final size:25
Alignment explanation
Indices: 36971210--36971259 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
36971200 GGAAAAACTT
*
36971210 TATTTATAAATGTTAGAGACGAGCC
1 TATTTATAAATATTAGAGACGAGCC
36971235 TATTTATAAATATTAGAGACGAGCC
1 TATTTATAAATATTAGAGACGAGCC
36971260 CTTCAAATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (25 bp):
TATTTATAAATATTAGAGACGAGCC
Found at i:36973997 original size:24 final size:24
Alignment explanation
Indices: 36973964--36974015 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36973954 TCAAAAAAAG
* *
36973964 AAAAAGCAGTCCAAAATCAATAGA
1 AAAAACCAGTCCAAAAGCAATAGA
*
36973988 AAAAACCAGTCCTAAAGCAATAGA
1 AAAAACCAGTCCAAAAGCAATAGA
36974012 AAAA
1 AAAA
36974016 TATGATTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.12
Consensus pattern (24 bp):
AAAAACCAGTCCAAAAGCAATAGA
Found at i:36974832 original size:24 final size:25
Alignment explanation
Indices: 36974805--36974863 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
36974795 CTTATTTTAA
*
36974805 TATTTGTTTTAATAT-TTTTAAATG
1 TATTTGATTTAATATATTTTAAATG
*
36974829 TATTTGATTTATTATATTTTAAAT-
1 TATTTGATTTAATATATTTTAAATG
36974853 T-TTT-ATTTAAT
1 TATTTGATTTAAT
36974864 GAAATAAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 6 0.19
23 3 0.10
24 14 0.45
25 8 0.26
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (25 bp):
TATTTGATTTAATATATTTTAAATG
Found at i:36977607 original size:5 final size:5
Alignment explanation
Indices: 36977599--36977635 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
36977589 TAATTAAATT
36977599 ATTTA ATTTA ATTTA ATTTA ATTT- ATATT- ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT-TTA ATTTA ATT
36977636 ATATTGTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:36977619 original size:15 final size:14
Alignment explanation
Indices: 36977596--36977640 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
36977586 AGTTAATTAA
36977596 ATTATTTAATTTA-
1 ATTATTTAATTTAT
36977609 ATTTAATTTAATTTAT
1 A-TT-ATTTAATTTAT
36977625 ATTATTTAA-TTAT
1 ATTATTTAATTTAT
36977638 ATT
1 ATT
36977641 GTACATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.28
14 8 0.28
15 12 0.41
16 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATTTAATTTAT
Found at i:36979423 original size:13 final size:13
Alignment explanation
Indices: 36979405--36979429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36979395 CCTAACACAT
36979405 GCCCGTGTCTATG
1 GCCCGTGTCTATG
36979418 GCCCGTGTCTAT
1 GCCCGTGTCTAT
36979430 CACATGGCCA
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:0.08, C:0.32, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCTATG
Found at i:36980499 original size:45 final size:45
Alignment explanation
Indices: 36980434--36980548 Score: 187
Period size: 45 Copynumber: 2.6 Consensus size: 45
36980424 GTATAATGCT
36980434 GATGCCATGTCCCAGACATGGTCTTATACTGACACATCATATAGCC
1 GATG-CATGTCCCAGACATGGTCTTATACTGACACATCATATAGCC
* * *
36980480 GATGCATGTCCCAGACATGGTATTATACTGACACATCATGTAGTC
1 GATGCATGTCCCAGACATGGTCTTATACTGACACATCATATAGCC
36980525 GATGCATGTCCCAGACAT-GTCTTA
1 GATGCATGTCCCAGACATGGTCTTA
36980549 CAGTAGCTCT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
44 5 0.08
45 56 0.86
46 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGGTCTTATACTGACACATCATATAGCC
Found at i:36980627 original size:47 final size:45
Alignment explanation
Indices: 36980524--36980649 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 45
36980514 ATCATGTAGT
*
36980524 CGATGCATGTCCCAGACATGTCTTACAGTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAATGC
* *
36980570 CGATGCCATGTCCCAGACATGGTCTTGCACTAGCTCT-TGT-AATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTCTCAA--T-GC
*
36980618 CGATGCATGTCCCAAACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
36980650 ACACAAATGA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
45 2 0.03
46 19 0.27
47 28 0.40
48 21 0.30
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAATGC
Found at i:36985886 original size:16 final size:17
Alignment explanation
Indices: 36985849--36985894 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
36985839 TTGAGTAAAT
36985849 CAAATT-TATATATTCAA
1 CAAATTATA-ATATTCAA
*
36985866 TAAATTATAATATT-AA
1 CAAATTATAATATTCAA
36985882 CAAATTAT-ATATT
1 CAAATTATAATATT
36985895 TCGTGTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 9 0.35
17 10 0.38
18 2 0.08
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (17 bp):
CAAATTATAATATTCAA
Found at i:36987198 original size:17 final size:18
Alignment explanation
Indices: 36987176--36987209 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36987166 CATGTATATA
36987176 TTATTTT-TTTATTAAAT
1 TTATTTTATTTATTAAAT
*
36987193 TTATTTTATTTTTTAAA
1 TTATTTTATTTATTAAA
36987210 CATTTTATTT
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTTTATTTATTAAAT
Found at i:37001675 original size:23 final size:24
Alignment explanation
Indices: 37001645--37001711 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
37001635 AGTTAGGATT
37001645 TTTAATATTTTTAGGTTTAAGG-C
1 TTTAATATTTTTAGGTTTAAGGTC
* * *
37001668 TTTAATATTATTAGTGTTTAGGGTT
1 TTTAATATTTTTAG-GTTTAAGGTC
*
37001693 TTTAATATTTTTAAGTTTA
1 TTTAATATTTTTAGGTTTA
37001712 GGTTTTTTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 13 0.35
24 12 0.32
25 12 0.32
ACGTcount: A:0.27, C:0.01, G:0.15, T:0.57
Consensus pattern (24 bp):
TTTAATATTTTTAGGTTTAAGGTC
Found at i:37010084 original size:20 final size:21
Alignment explanation
Indices: 37010061--37010099 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37010051 TTATAATGAC
*
37010061 AAAAATTATTTT-AATTTATA
1 AAAAAATATTTTAAATTTATA
37010081 AAAAAATATTTTAAATTTA
1 AAAAAATATTTTAAATTTA
37010100 ACTTGATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAAATATTTTAAATTTATA
Found at i:37010463 original size:18 final size:18
Alignment explanation
Indices: 37010437--37010475 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
37010427 TTACAATTTG
* *
37010437 AAAAGAAGTATAAGTATA
1 AAAAAAAGTATAAGCATA
*
37010455 AAAAAAAGTGTAAGCATA
1 AAAAAAAGTATAAGCATA
37010473 AAA
1 AAA
37010476 TACAAAATAA
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:0.64, C:0.03, G:0.15, T:0.18
Consensus pattern (18 bp):
AAAAAAAGTATAAGCATA
Found at i:37010681 original size:19 final size:19
Alignment explanation
Indices: 37010657--37010699 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
37010647 TATCTGAAAA
37010657 AGGATGAAACATTCAAGCT
1 AGGATGAAACATTCAAGCT
37010676 AGGATGAAACATTCAAGCT
1 AGGATGAAACATTCAAGCT
37010695 AGGAT
1 AGGAT
37010700 TTGCCGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (19 bp):
AGGATGAAACATTCAAGCT
Done.