Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 204 of 349
Found at i:65780083 original size:42 final size:42
Alignment explanation
Indices: 65780024--65780157 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
65780014 TGGCCCTTAG
*
65780024 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
65780066 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATACAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
65780108 TCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
65780150 GCCCATTT
1 GCCCATTT
65780158 GGGGAGACTA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:65780356 original size:25 final size:26
Alignment explanation
Indices: 65780305--65780374 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
65780295 CTCTTTTAAT
65780305 AACTAGGGCAAAGCCC-TTTCTGATA
1 AACTAGGGCAAAGCCCTTTTCTGATA
* *
65780330 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTAGGGCAAAGCCCTTTTCTGATA
* *
65780355 AACTAAGGCAGAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
65780375 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (26 bp):
AACTAGGGCAAAGCCCTTTTCTGATA
Found at i:65781214 original size:27 final size:27
Alignment explanation
Indices: 65781184--65781249 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
65781174 GGGCATATTC
65781184 GTCATTTTACCTTACAAGGG-TATTACG
1 GTCATTTTACCTTACAAGGGCT-TTACG
* * *
65781211 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCTTACAAGGGCTTTACG
*
65781238 GTCTTTTTACCT
1 GTCATTTTACCT
65781250 ATTAGGGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCTTACAAGGGCTTTACG
Found at i:65781415 original size:27 final size:27
Alignment explanation
Indices: 65781299--65781508 Score: 124
Period size: 27 Copynumber: 7.7 Consensus size: 27
65781289 TTGGTAAATC
* * *
65781299 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAGGGGTATTTCTGTAATTT
** * ** *
65781326 TGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAGGGGTATTTCTGTAA-TTT
* * *
65781354 TAGAAAGTCAAGGGTATTTCTGCAATTT
1 TACAAA-TCAGGGGTATTTCTGTAATTT
** *
65781382 TGTAAATCAGGGGTATTTATGTAATTT
1 TACAAATCAGGGGTATTTCTGTAATTT
* *
65781409 TACAAAT-TGAGGGTATTTCGGTAATTT
1 TACAAATCAG-GGGTATTTCTGTAATTT
* * *
65781436 CACAAACCAGTGGTATTT-TGGTAATTT
1 TACAAATCAGGGGTATTTCT-GTAATTT
*
65781463 TACAAA-CTAGGGGTATTT-TGGTAATTC
1 TACAAATC-AGGGGTATTTCT-GTAATTT
*
65781490 TACCATAT-AGGGGTATTTC
1 TA-CAAATCAGGGGTATTTC
65781509 AATAATTTCA
Statistics
Matches: 144, Mismatches: 30, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
26 2 0.01
27 110 0.76
28 18 0.12
29 14 0.10
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
TACAAATCAGGGGTATTTCTGTAATTT
Found at i:65781557 original size:27 final size:27
Alignment explanation
Indices: 65781527--65781638 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
65781517 CACAATCAAA
* *
65781527 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTATAAATCGAG
* *
65781554 GGTAAAATAGTAATTTTGTAAATCAAG
1 GGTAAAATAGTAATTTTATAAATCGAG
* *
65781581 GGTAAAATAATAATTCTATAAATCGAG
1 GGTAAAATAGTAATTTTATAAATCGAG
*** * * *
65781608 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTAAAATAGTAATTTTATAAATCGAG
65781635 GGTA
1 GGTA
65781639 TTTCTGTAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (27 bp):
GGTAAAATAGTAATTTTATAAATCGAG
Found at i:65787035 original size:24 final size:24
Alignment explanation
Indices: 65786936--65787036 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
65786926 AAGTCTGTCA
*
65786936 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
65786960 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
65786984 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
65787008 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
65787032 GGAGA
1 GGAGA
65787037 AAAGTGTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.33, C:0.02, G:0.41, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:65788404 original size:27 final size:27
Alignment explanation
Indices: 65788360--65788470 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
65788350 AGGAAGCGTC
* *
65788360 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
65788387 CTGGTGGCTCTGCTACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* * *
65788414 CTGGTGGCTCTACCACA-ATTATCGGTT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* * * *
65788441 TTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
65788467 CTGG
1 CTGG
65788471 CAGCAATGCT
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 11 0.16
27 58 0.84
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:65788446 original size:54 final size:53
Alignment explanation
Indices: 65788360--65788470 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 53
65788350 AGGAAGCGTC
* * * *
65788360 CTGGTGGCTATGCCACATTTATCTGATCTGGTGGCTCTG-CTACATATATCTGTT
1 CTGGTGGCTATACCACAATTATCGGATCTGGTGACTCTGTC-ACAT-TATCTGTT
* * *
65788414 CTGGTGGCTCTACCACAATTATCGGTTTTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATACCACAATTATCGGATCTGGTGACTCTGTCACATTATCTGTT
65788467 CTGG
1 CTGG
65788471 CAGCAATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 12 0.24
54 36 0.73
55 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATACCACAATTATCGGATCTGGTGACTCTGTCACATTATCTGTT
Found at i:65791654 original size:19 final size:19
Alignment explanation
Indices: 65791617--65791655 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65791607 AAATTTTATT
*
65791617 TAAATTTTGTTTATATTAC
1 TAAATTTTCTTTATATTAC
65791636 TAAATTTTCTTCTAT-TTAC
1 TAAATTTTCTT-TATATTAC
65791655 T
1 T
65791656 TCTGGCAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (19 bp):
TAAATTTTCTTTATATTAC
Found at i:65793284 original size:30 final size:28
Alignment explanation
Indices: 65793250--65793306 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
65793240 AGTCGAAAAA
* *
65793250 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAA-TAAAGTT
65793280 GAAAAAGAGAGTGAGCAAAAATAAAGT
1 GAAAAAGAGAGTGAGCAAAAATAAAGT
65793307 GTGGAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 3 0.12
30 16 0.64
ACGTcount: A:0.53, C:0.04, G:0.28, T:0.16
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAATAAAGTT
Found at i:65797742 original size:39 final size:39
Alignment explanation
Indices: 65797678--65797828 Score: 239
Period size: 39 Copynumber: 3.9 Consensus size: 39
65797668 AGTGATGAAG
*
65797678 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATAACCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
65797717 TATAACCGGTCTTAAGGTCTGCAGGCTATGTGCTGGAAT
1 TATAACCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
65797756 TATATCCGAACTTAAGGTCCGTAGGCTATGTGCTGGAAT
1 TATAACCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
65797795 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCT
1 TATAACCGGACTTAAGGTCCGCAGGCTATGTGCT
65797829 AGAAATATGT
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 100 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
TATAACCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:65802755 original size:46 final size:46
Alignment explanation
Indices: 65802687--65802823 Score: 168
Period size: 46 Copynumber: 3.0 Consensus size: 46
65802677 TATATATACA
* * * * *
65802687 CATCTCATACATATCTCACATTATCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
65802733 CATCTCATACACGTTTCGCATTAGCCATTCAGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
65802779 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTT-CCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGG-CTTTACCACATAT
65802824 ATACATGTTC
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 72 0.95
47 4 0.05
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:65802858 original size:47 final size:48
Alignment explanation
Indices: 65802797--65802988 Score: 250
Period size: 47 Copynumber: 4.1 Consensus size: 48
65802787 ACACATTTCG
* **
65802797 CATTAGCCATTCGGCCTT-TCCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCCACATATACGCATGTTCACATTCATCA
* * * *
65802844 CATCGGCCCTTCGGCCTTAT-CTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCCACATATACGCATGTTCACATTCATCA
65802891 CATTGGCCATTCGGCCTTATCGCAC--ATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATC-CACATATACGCATGTTCACATTCATCA
* * *
65802938 CATTGGCCATTCGGCTTTAT-CACACATACGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCCACATATACGCATGTTCACATTCATCA
65802985 CATT
1 CATT
65802989 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
45 3 0.02
47 123 0.95
48 1 0.01
49 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (48 bp):
CATTGGCCATTCGGCCTTATCCACATATACGCATGTTCACATTCATCA
Found at i:65807376 original size:46 final size:46
Alignment explanation
Indices: 65807326--65807494 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
65807316 TGAGCATCCA
65807326 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * * * *
65807372 AACTCGTTGAGTTGAGCCCGAGTTC-GTGA--AATG-TAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
65807419 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
65807465 AGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
65807495 GGGGCAGGTT
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 54 0.55
47 27 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:65807478 original size:93 final size:93
Alignment explanation
Indices: 65807319--65807489 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
65807309 GGATGGTTGA
* *
65807319 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65807384 TGAGCCCGAGTTCGTGAAATGTAACTAG
66 TGAGCCCGAGTTCGTGAAATGTAACTAG
* *
65807412 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
65807477 TGAGTCCGAGTTC
66 TGAGCCCGAGTTC
65807490 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGCCCGAGTTCGTGAAATGTAACTAG
Found at i:65811047 original size:20 final size:20
Alignment explanation
Indices: 65811017--65811054 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65811007 AACATTATTT
65811017 TCAACTAAATGAATTAAAGAA
1 TCAACTAAATGAA-TAAAGAA
65811038 TCAA-TAAATGAATAAAG
1 TCAACTAAATGAATAAAG
65811055 GGTAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (20 bp):
TCAACTAAATGAATAAAGAA
Found at i:65819124 original size:30 final size:31
Alignment explanation
Indices: 65819090--65819186 Score: 85
Period size: 30 Copynumber: 3.2 Consensus size: 31
65819080 TAAACTAAAA
*
65819090 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
1 TGAGCTAAGCTTTAGCTCATGAGCTGAAAGT
* * * * *
65819120 TGAGCTGAGGC-TAAACTCCTAAGCTGAAA-T
1 TGAGCT-AAGCTTTAGCTCATGAGCTGAAAGT
* *
65819150 TGAGCTAAGGTTTAGCTCATGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCATGAGCTGAAAGT
65819180 TGAGCTA
1 TGAGCTA
65819187 GGAATGAGCT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
29 2 0.04
30 43 0.84
31 6 0.12
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (31 bp):
TGAGCTAAGCTTTAGCTCATGAGCTGAAAGT
Found at i:65825516 original size:11 final size:11
Alignment explanation
Indices: 65825485--65825532 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
65825475 ATATGAATAC
65825485 ATCATGTGCAT
1 ATCATGTGCAT
*
65825496 ATCA--TACAT
1 ATCATGTGCAT
65825505 ATCATGTGCAT
1 ATCATGTGCAT
*
65825516 ATCATGT-CAA
1 ATCATGTGCAT
65825526 ATCATGT
1 ATCATGT
65825533 ACATCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:65835096 original size:13 final size:13
Alignment explanation
Indices: 65835078--65835103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65835068 CTAAGCCACC
65835078 CCACACGGGCGTG
1 CCACACGGGCGTG
65835091 CCACACGGGCGTG
1 CCACACGGGCGTG
65835104 TCCCTGTTGA
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:0.15, C:0.38, G:0.38, T:0.08
Consensus pattern (13 bp):
CCACACGGGCGTG
Found at i:65841698 original size:6 final size:6
Alignment explanation
Indices: 65841679--65841802 Score: 71
Period size: 6 Copynumber: 20.2 Consensus size: 6
65841669 AATCAAACTT
* *
65841679 TTTTTC TATTTTC TTTTTC TTGTTC ATCTTTTC TTTTCTC ATTTTC -TTTTC
1 TTTTTC T-TTTTC TTTTTC TTTTTC -T-TTTTC TTTT-TC TTTTTC TTTTTC
* * *
65841730 TCTCTC TTTTTC -TATTC TTGTGTTC TTTTTC TCATTTT- TCTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TT-T-TTC TTTTTC T--TTTTC T-TTTTC TTTTTC
*
65841781 ATTTTC -TTTTC --TTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
65841803 CTCAATTTAT
Statistics
Matches: 94, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
4 4 0.04
5 14 0.15
6 47 0.50
7 16 0.17
8 13 0.14
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:65841708 original size:15 final size:12
Alignment explanation
Indices: 65841687--65841804 Score: 70
Period size: 13 Copynumber: 9.7 Consensus size: 12
65841677 TTTTTTTCTA
65841687 TTTTCT-TTTTC
1 TTTTCTCTTTTC
65841698 TTGTTCATCTTTTC
1 TT-TTC-TCTTTTC
65841712 TTTTCTCATTTTC
1 TTTTCTC-TTTTC
*
65841725 TTTTCTC-TCTC
1 TTTTCTCTTTTC
*
65841736 TTTT-TCTATTC
1 TTTTCTCTTTTC
65841747 TTGTGT-TCTTTTTC
1 TT-T-TCTC-TTTTC
*
65841761 TCATTTTTCTTTTC
1 T--TTTCTCTTTTC
65841775 TTTT-TCATTTTC
1 TTTTCTC-TTTTC
*
65841787 TTTTCT-TTCT-
1 TTTTCTCTTTTC
65841797 TTTTCTCT
1 TTTTCTCT
65841805 CAATTTATTT
Statistics
Matches: 88, Mismatches: 5, Indels: 28
0.73 0.04 0.23
Matches are distributed among these distances:
10 8 0.09
11 19 0.22
12 18 0.20
13 20 0.23
14 19 0.22
15 3 0.03
16 1 0.01
ACGTcount: A:0.04, C:0.21, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTTCTCTTTTC
Found at i:65841740 original size:17 final size:17
Alignment explanation
Indices: 65841705--65841747 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
65841695 TTCTTGTTCA
*
65841705 TCTTTTCTTTTCTCATTT
1 TCTTTTC-TCTCTCATTT
*
65841723 TCTTTTCTCTCTCTTTT
1 TCTTTTCTCTCTCATTT
*
65841740 TCTATTCT
1 TCTTTTCT
65841748 TGTGTTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.70
Consensus pattern (17 bp):
TCTTTTCTCTCTCATTT
Found at i:65841758 original size:19 final size:20
Alignment explanation
Indices: 65841734--65841780 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
65841724 CTTTTCTCTC
*
65841734 TCTTTTTCT-ATTCTTGTGT
1 TCTTTTTCTCATTCTTCTGT
* *
65841753 TCTTTTTCTCATTTTTCTTT
1 TCTTTTTCTCATTCTTCTGT
65841773 TCTTTTTC
1 TCTTTTTC
65841781 ATTTTCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.72
Consensus pattern (20 bp):
TCTTTTTCTCATTCTTCTGT
Found at i:65841775 original size:20 final size:20
Alignment explanation
Indices: 65841734--65841794 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
65841724 CTTTTCTCTC
* * *
65841734 TCTTTTTCT-ATTCTTGTGT
1 TCTTTTTCTCATTTTTCTTT
65841753 TCTTTTTCTCATTTTTCTTT
1 TCTTTTTCTCATTTTTCTTT
65841773 TC-TTTT-TCA-TTTTCTTT
1 TCTTTTTCTCATTTTTCTTT
65841790 TCTTT
1 TCTTT
65841795 CTTTTTCTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 10 0.27
18 5 0.14
19 13 0.35
20 9 0.24
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (20 bp):
TCTTTTTCTCATTTTTCTTT
Found at i:65845249 original size:39 final size:39
Alignment explanation
Indices: 65845189--65845314 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
65845179 GACTTAATGT
*
65845189 CTAGCAGGCCTCGTGCTGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTTGTGCTGGTGATAAATTCAGGTTTATAC
*
65845228 CTAGCAGGCCTTGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTTGTGCTGGTGATAAATTCAGGTTTATAC
* * * *
65845267 CTAGTAGGCCTTGTGCTGGTGTTAAGTTCGGGTTTATAC
1 CTAGCAGGCCTTGTGCTGGTGATAAATTCAGGTTTATAC
*
65845306 ATAGCAGGC
1 CTAGCAGGC
65845315 AAATTTTCGG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (39 bp):
CTAGCAGGCCTTGTGCTGGTGATAAATTCAGGTTTATAC
Found at i:65845690 original size:22 final size:22
Alignment explanation
Indices: 65845668--65845721 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 22
65845658 GGTTATGTAT
65845668 TTTCGGTCAAT-TGGTATTATA
1 TTTCGGTCAATATGGTATTATA
65845689 TTTC-G--AATATGGTATTATA
1 TTTCGGTCAATATGGTATTATA
65845708 TTTCGGTCAA-ATGG
1 TTTCGGTCAATATGG
65845722 CTAGTCTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 3 0.10
19 14 0.48
20 2 0.07
21 8 0.28
22 2 0.07
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.44
Consensus pattern (22 bp):
TTTCGGTCAATATGGTATTATA
Found at i:65852030 original size:34 final size:34
Alignment explanation
Indices: 65851992--65852063 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
65851982 GTAACAGTCT
65851992 AGTATCAGT-TACGGCCTTAGCCCATTACAGTAAC
1 AGTATCAGTGT-CGGCCTTAGCCCATTACAGTAAC
* * *
65852026 AGTATCAGTGTGGGCCTTAGCCCATTTCAGTAAT
1 AGTATCAGTGTCGGCCTTAGCCCATTACAGTAAC
65852060 AGTA
1 AGTA
65852064 AAAGGAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (34 bp):
AGTATCAGTGTCGGCCTTAGCCCATTACAGTAAC
Found at i:65861990 original size:39 final size:39
Alignment explanation
Indices: 65861876--65862176 Score: 403
Period size: 39 Copynumber: 7.6 Consensus size: 39
65861866 GCTCCTCGTT
* * *
65861876 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
* *
65861916 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
65861956 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
65861995 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
65862034 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
65862073 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * *
65862112 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTAAC-TCGCA
65862153 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
65862177 CATCATTCAA
Statistics
Matches: 243, Mismatches: 13, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
39 170 0.70
40 63 0.26
41 10 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:65870482 original size:40 final size:40
Alignment explanation
Indices: 65870427--65870655 Score: 413
Period size: 40 Copynumber: 5.7 Consensus size: 40
65870417 TGAAGCATTG
65870427 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65870467 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
65870507 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
65870547 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
65870587 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
65870627 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
65870656 ATGTGTTTGC
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:65879129 original size:40 final size:40
Alignment explanation
Indices: 65879075--65879342 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
65879065 GAGCATTGGA
*
65879075 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
65879115 ATATATCCGGGCTAAGACTCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
65879155 ATATATCCGGGCTAAGACTCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
65879195 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
65879235 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
65879275 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
65879315 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
65879343 ATGTGTTTGC
Statistics
Matches: 216, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:65883059 original size:4 final size:4
Alignment explanation
Indices: 65883050--65883076 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
65883040 CTTTATTGCT
65883050 TTAG TTAG TTAG TTAG TTAG TTAG TTA
1 TTAG TTAG TTAG TTAG TTAG TTAG TTA
65883077 TAAGTCGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TTAG
Found at i:65887061 original size:85 final size:85
Alignment explanation
Indices: 65886918--65887096 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
65886908 GGCCGGCCAT
65886918 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
65886983 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
65887003 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
65887068 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
65887088 GGGCATGGG
1 GAGCATGGG
65887097 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:65888445 original size:47 final size:47
Alignment explanation
Indices: 65888383--65888697 Score: 450
Period size: 47 Copynumber: 6.6 Consensus size: 47
65888373 ACCCGTATAT
* *
65888383 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGTACATGT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
65888430 GTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * **
65888477 GTATGTGTGGTAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATAT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGC
65888528 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
65888575 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
65888622 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGA
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
65888669 ATATATGTGGTAAGGCCGAATGGCTAATG
1 ATATGTGTGATAAGGCCGAATGGCCAATG
65888698 CGAAACGTGT
Statistics
Matches: 242, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 198 0.82
49 2 0.01
51 42 0.17
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:65888514 original size:145 final size:145
Alignment explanation
Indices: 65888357--65888697 Score: 555
Period size: 145 Copynumber: 2.4 Consensus size: 145
65888347 TTAGGATTTT
65888357 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * * * * * * *
65888422 GTACATGTGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACATGCGTATGTGTGG
66 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGA
65888487 TAAGGCCGAATGGCC
131 TAAGGCCGAATGGCC
65888502 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
65888567 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGA
66 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGA
65888632 TAAGGCCGAATGGCC
131 TAAGGCCGAATGGCC
** *
65888647 AATGTGATGAATGTGAACATG-A-ATATATGTG-G-TAAGGCCGAATGGCTAATG
1 AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
65888698 CGAAACGTGT
Statistics
Matches: 185, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
141 18 0.10
142 1 0.01
143 9 0.05
144 1 0.01
145 156 0.84
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (145 bp):
AATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGA
TAAGGCCGAATGGCC
Found at i:65888558 original size:24 final size:24
Alignment explanation
Indices: 65888530--65888605 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
65888520 CCGTATATAT
65888530 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
65888554 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
65888577 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
65888601 ATGTG
1 ATGTG
65888606 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:65888760 original size:46 final size:46
Alignment explanation
Indices: 65888671--65888761 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
65888661 GAACATGAAT
* * * *
65888671 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
65888717 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
65888762 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:65888956 original size:37 final size:37
Alignment explanation
Indices: 65888906--65889013 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
65888896 GGAAATATAT
65888906 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
65888943 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
65888980 TCTGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
65889014 TCGTCTGAGC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:65904218 original size:28 final size:29
Alignment explanation
Indices: 65904187--65904241 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
65904177 GATTTTTAAC
*
65904187 AAAAATGTCAATT-AGGAATTAAATTGAG
1 AAAAATGTAAATTGAGGAATTAAATTGAG
* **
65904215 AAAAGTGTAAATTGAGGGGTTAAATTG
1 AAAAATGTAAATTGAGGAATTAAATTG
65904242 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (29 bp):
AAAAATGTAAATTGAGGAATTAAATTGAG
Found at i:65904818 original size:43 final size:44
Alignment explanation
Indices: 65904725--65904895 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 44
65904715 GGTTATCGAG
* ***
65904725 ATGTGATTACATGTAAGACCATGTCTGGGACATCAACAT-TGTA
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
* *
65904768 TTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCTTTA
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
* * * *
65904812 AT-TGATTTCGCGTAAGACCCTGTCTGGGACAGTGGCATC-G-A
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
* * * * *
65904853 TATGTGATAACATGTAAGACTATATCTGGGATA-TGGCAT-TGTA
1 -ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
65904896 CAAGCTTATG
Statistics
Matches: 103, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 89 0.86
44 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (44 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
Found at i:65915488 original size:15 final size:15
Alignment explanation
Indices: 65915468--65915497 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65915458 TATTTCCTTG
*
65915468 TTTGAGTTCTAGGAA
1 TTTGAGTTCCAGGAA
65915483 TTTGAGTTCCAGGAA
1 TTTGAGTTCCAGGAA
65915498 CTCACTTCGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37
Consensus pattern (15 bp):
TTTGAGTTCCAGGAA
Found at i:65918105 original size:45 final size:45
Alignment explanation
Indices: 65917998--65918173 Score: 241
Period size: 45 Copynumber: 4.0 Consensus size: 45
65917988 CCGAATTCAT
65917998 TCACCGGCATT-T-CACCTGCTAGGCTCAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAC-CCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * * *
65918041 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAGTGGTATT
1 TCACCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAATAGTATC
65918086 TCACCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * *
65918131 TCATCGGCATTATAGCCAGCTAGGCTCAAAGGCCCAAATAGTA
1 TCACCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAATAGTA
65918174 CTGTGCGATA
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 11 0.09
44 16 0.14
45 89 0.77
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATACCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:65918141 original size:90 final size:88
Alignment explanation
Indices: 65917997--65918164 Score: 284
Period size: 90 Copynumber: 1.9 Consensus size: 88
65917987 CCCGAATTCA
*
65917997 TTCACCGGCATTTCACCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATAGCCTGCT
1 TTCACCGGCATTTCACCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATAGCCAGCT
65918062 AGGCTCAAAGGCCTGAGTGGTAT
66 AGGCTCAAAGGCCTGAGTGGTAT
*
65918085 TTCACCGGCATTAT-ACCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCGGCATTATAGCCA
1 TTCACCGGCATT-TCA-CCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACCGGCATTATAGCCA
65918149 GCTAGGCTCAAAGGCC
63 GCTAGGCTCAAAGGCC
65918165 CAAATAGTAC
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
88 13 0.17
89 16 0.21
90 46 0.61
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (88 bp):
TTCACCGGCATTTCACCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATAGCCAGCT
AGGCTCAAAGGCCTGAGTGGTAT
Found at i:65924394 original size:17 final size:19
Alignment explanation
Indices: 65924352--65924397 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
65924342 ATGAAATTTT
*
65924352 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
65924371 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
65924389 AA-TATTATT
1 AATTATTATT
65924398 GTATGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:65926683 original size:29 final size:28
Alignment explanation
Indices: 65926647--65926724 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
65926637 TCATGAGATT
65926647 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
65926677 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
65926704 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
65926725 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:65926948 original size:174 final size:174
Alignment explanation
Indices: 65926677--65927004 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
65926667 AAATTGTACA
*
65926677 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
65926742 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
65926807 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
65926851 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
65926916 TGTGCGAACCCAATATATATTTTCTGTAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
65926981 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
65927005 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:65933056 original size:37 final size:34
Alignment explanation
Indices: 65932962--65933056 Score: 115
Period size: 37 Copynumber: 2.7 Consensus size: 34
65932952 GTGGCATTAC
*
65932962 TTCCGG-TAAGCCCGAAG-A-AGTGGAATACTAA
1 TTCCGGCTAAGCCCGAAGCATTGTGGAATACTAA
65932993 TTCCGGCTAAGCCCGAAGGCATTTGTGGAGATACTAA
1 TTCCGGCTAAGCCCGAA-GCA-TTGTGGA-ATACTAA
65933030 TTCCGGGCTGAAGCCCGAAGCATTGTG
1 TTCC-GGCT-AAGCCCGAAGCATTGTG
65933057 CACGGTACTA
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
31 6 0.11
32 10 0.18
33 1 0.02
34 1 0.02
36 5 0.09
37 16 0.29
38 7 0.13
39 9 0.16
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (34 bp):
TTCCGGCTAAGCCCGAAGCATTGTGGAATACTAA
Found at i:65933066 original size:38 final size:37
Alignment explanation
Indices: 65932986--65933068 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 37
65932976 AAGAAGTGGA
*
65932986 ATACTAATTCCGGCTAAGCCCGAAGGCATTTGTGGAG
1 ATACTAATTCCGGCTAAGCCCGAAGGCATTTGTGCAG
65933023 ATACTAATTCCGGGCTGAAGCCCGAA-GCA-TTGTGCACG
1 ATACTAATTCC-GGCT-AAGCCCGAAGGCATTTGTGCA-G
*
65933061 GTACTAAT
1 ATACTAAT
65933069 CGCTACCGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
37 17 0.41
38 15 0.37
39 9 0.22
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (37 bp):
ATACTAATTCCGGCTAAGCCCGAAGGCATTTGTGCAG
Found at i:65935576 original size:41 final size:41
Alignment explanation
Indices: 65935526--65935622 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
65935516 TTGGTTTTCA
*
65935526 GCACTAAGTGTGCGAGC-ATAAGTGTTCATGGTTGTGAGATTG
1 GCACTAAGTGTGCG-GCAATAAGTGTTCACGGTTGTGA-ATTG
65935568 GCAC-AAGTGTGCGGCAATAAGTGTTCACGGTTGTGAATTG
1 GCACTAAGTGTGCGGCAATAAGTGTTCACGGTTGTGAATTG
65935608 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
65935623 GCTTGAAATC
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
40 10 0.19
41 38 0.73
42 4 0.08
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (41 bp):
GCACTAAGTGTGCGGCAATAAGTGTTCACGGTTGTGAATTG
Found at i:65935644 original size:29 final size:29
Alignment explanation
Indices: 65935606--65935679 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
65935596 GGTTGTGAAT
*
65935606 TGGCACTAAGTGTGCGGGCTTGAAA-T-CA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
65935634 TGGCCACTAAGTGTGCGAGTTTAAAGTACA
1 TGG-CACTAAGTGTGCGAGTTGAAAGTACA
65935664 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65935680 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
28 8 0.20
29 28 0.68
30 5 0.12
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:65936045 original size:40 final size:40
Alignment explanation
Indices: 65935988--65936175 Score: 231
Period size: 39 Copynumber: 4.8 Consensus size: 40
65935978 TGAGATGTCC
*
65935988 GGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCG
*
65936027 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC-
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCG
* *
65936066 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCG
* * * * * *
65936106 TGCTAA-ACCCGAAG-GCATTCGTGCTGGTGTTATGTCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCG
* * *
65936144 GGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
65936176 CGTGTATTCG
Statistics
Matches: 130, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
38 25 0.19
39 57 0.44
40 48 0.37
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCG
Found at i:65939955 original size:187 final size:188
Alignment explanation
Indices: 65939632--65940109 Score: 832
Period size: 187 Copynumber: 2.5 Consensus size: 188
65939622 GAAATGATAG
* *
65939632 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
65939697 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
65939762 TGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
129 TGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
* * * *
65939822 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
65939887 GTGATGAATGTGAAAGTGTATATGTGTGAT-AGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
*
65939951 TATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
131 TATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
65940009 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
65940074 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCC
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
65940110 GAGTGGCCAA
Statistics
Matches: 271, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
187 179 0.66
188 58 0.21
190 34 0.13
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (188 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:65940044 original size:234 final size:236
Alignment explanation
Indices: 65939632--65940109 Score: 798
Period size: 234 Copynumber: 2.0 Consensus size: 236
65939622 GAAATGATAG
* * *
65939632 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG-ATATATATGTGATAGGGCCTAATAGCCG
* *
65939697 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
65 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAG
* *
65939762 TGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAGGG
130 TGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
65939827 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
195 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
65939869 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG-TATATGTGTGATA-GGCCTAATAGCCGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGATATATATGTGATAGGGCCTAATAGCCGA
**
65939932 TGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
66 TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
* *
65939997 GTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
131 GTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
65940062 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
196 CTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
65940103 CAAGGCC
1 TAAGGCC
65940110 GAGTGGCCAA
Statistics
Matches: 226, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
234 180 0.80
235 12 0.05
237 34 0.15
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (236 bp):
TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGATATATATGTGATAGGGCCTAATAGCCGA
TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
GTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:65940138 original size:47 final size:47
Alignment explanation
Indices: 65939632--65940109 Score: 787
Period size: 47 Copynumber: 10.1 Consensus size: 47
65939622 GAAATGATAG
* *
65939632 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
* * **
65939681 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
65939728 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
65939775 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
65939822 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
65939869 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
65939916 T-AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
65939962 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
65940009 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
65940056 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
65940103 CAAGGCC
1 TAAGGCC
65940110 GAGTGGCCAA
Statistics
Matches: 409, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 45 0.11
47 329 0.80
49 35 0.09
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:65940328 original size:37 final size:37
Alignment explanation
Indices: 65940272--65940350 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65940262 CCGAGCTCTA
* * *
65940272 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
65940309 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
65940346 AAGAC
1 AAGAC
65940351 TTCGTAATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:65941777 original size:34 final size:34
Alignment explanation
Indices: 65941739--65941811 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
65941729 AATAACAGTC
65941739 CAGTATCAGT-TACGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTATA-GGCCTTAGCCCATTACAGTAA
* * *
65941773 CAGTATTAGTATAGGCCTTAGCCCGTTTCAGTAA
1 CAGTATCAGTATAGGCCTTAGCCCATTACAGTAA
*
65941807 TAGTA
1 CAGTA
65941812 ACATTACAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 32 0.94
35 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (34 bp):
CAGTATCAGTATAGGCCTTAGCCCATTACAGTAA
Found at i:65942397 original size:18 final size:17
Alignment explanation
Indices: 65942363--65942397 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
65942353 TTTACCCGTG
*
65942363 TGGGGCCCACGAGCCCA
1 TGGGGCCCACCAGCCCA
65942380 TGGGGCCCACACAGCCCA
1 TGGGGCCCAC-CAGCCCA
65942398 ACGTGGCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.43, G:0.31, T:0.06
Consensus pattern (17 bp):
TGGGGCCCACCAGCCCA
Found at i:65945248 original size:10 final size:10
Alignment explanation
Indices: 65945233--65945257 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65945223 CATGGGTCAA
65945233 GGCCATTTTG
1 GGCCATTTTG
65945243 GGCCATTTTG
1 GGCCATTTTG
65945253 GGCCA
1 GGCCA
65945258 AACTGGGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (10 bp):
GGCCATTTTG
Found at i:65945603 original size:27 final size:27
Alignment explanation
Indices: 65945537--65945709 Score: 208
Period size: 27 Copynumber: 6.5 Consensus size: 27
65945527 AAAAGACTAC
* *
65945537 TTTGGCCTTATATGGTAAAATGACTG-
1 TTTGCCCTTATGTGGTAAAATGACTGT
* *
65945563 -TTGCCCTTAAGTGGTAAAATGATTGT
1 TTTGCCCTTATGTGGTAAAATGACTGT
* *
65945589 TTTGCCCTTATGTGGTAAAATAATTGT
1 TTTGCCCTTATGTGGTAAAATGACTGT
* *
65945616 TTTGCCCTTATGTGGTAAGATGACTAT
1 TTTGCCCTTATGTGGTAAAATGACTGT
*
65945643 TTTGCCCTTCTGTGGTAAAATGACTGT
1 TTTGCCCTTATGTGGTAAAATGACTGT
* * *
65945670 TTTACCCTTATATGGTAAGATGACTGT
1 TTTGCCCTTATGTGGTAAAATGACTGT
*
65945697 TTTTCCC-TATGTG
1 TTTGCCCTTATGTG
65945710 ATATATATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
25 21 0.17
26 5 0.04
27 100 0.79
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (27 bp):
TTTGCCCTTATGTGGTAAAATGACTGT
Found at i:65945671 original size:81 final size:79
Alignment explanation
Indices: 65945537--65945868 Score: 233
Period size: 81 Copynumber: 4.3 Consensus size: 79
65945527 AAAAGACTAC
* * * * *
65945537 TTTGGCCTTATATGGTAAAATGACTGTTGCCCTTAAGTGGTAAAATGATTGTTTTGCCCTTATGT
1 TTTGCCCTTATGTGGTAAAATGACTGTTGCCCTTAAGTGGTAAAATGACTGTTTTACCCTTATAT
*
65945602 GGTAAAATAATTGT
66 GGTAAAATAACTGT
* * **
65945616 TTTGCCCTTATGTGGTAAGATGACTATTTTGCCCTTCTGTGGTAAAATGACTGTTTTACCCTTAT
1 TTTGCCCTTATGTGGTAAAATGAC--TGTTGCCCTTAAGTGGTAAAATGACTGTTTTACCCTTAT
* *
65945681 ATGGTAAGATGACTGT
64 ATGGTAAAATAACTGT
* * * * * * *
65945697 TTTTCCC-TATGT-G----AT-A-T-AT----ATATGTGGTAAAATGACTATTTTGCCCTAA-AG
1 TTTGCCCTTATGTGGTAAAATGACTGTTGCCCTTAAGTGGTAAAATGACTGTTTTACCCTTATA-
* *
65945748 TGGTAAAATGACTAT
65 TGGTAAAATAACTGT
* * * * * *
65945763 TTTGCCCTTATGTGGTAAAATAATTGTTTTGCCCTTATGTGGTAAGATGACTGTTTTGCCCTTCT
1 TTTGCCCTTATGTGGTAAAATGACTG--TTGCCCTTAAGTGGTAAAATGACTGTTTTACCCTTAT
* *
65945828 GTGGTAAAATGACTGT
64 ATGGTAAAATAACTGT
* * *
65945844 TTTACCCTTATATGGTAAGATGACT
1 TTTGCCCTTATGTGGTAAAATGACT
65945869 ATTTTTCCCT
Statistics
Matches: 199, Mismatches: 35, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
65 1 0.01
66 44 0.22
67 5 0.03
68 1 0.01
70 1 0.01
71 1 0.01
72 2 0.01
73 1 0.01
74 2 0.01
75 2 0.01
77 1 0.01
79 22 0.11
80 5 0.03
81 111 0.56
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (79 bp):
TTTGCCCTTATGTGGTAAAATGACTGTTGCCCTTAAGTGGTAAAATGACTGTTTTACCCTTATAT
GGTAAAATAACTGT
Found at i:65945750 original size:27 final size:27
Alignment explanation
Indices: 65945718--65945883 Score: 181
Period size: 27 Copynumber: 6.2 Consensus size: 27
65945708 TGATATATAT
65945718 ATGTGGTAAAATGACTATTTTGCCCTA
1 ATGTGGTAAAATGACTATTTTGCCCTA
* *
65945745 AAGTGGTAAAATGACTATTTTGCCCTT
1 ATGTGGTAAAATGACTATTTTGCCCTA
* * * *
65945772 ATGTGGTAAAATAATTGTTTTGCCCTT
1 ATGTGGTAAAATGACTATTTTGCCCTA
* * *
65945799 ATGTGGTAAGATGACTGTTTTGCCCTT
1 ATGTGGTAAAATGACTATTTTGCCCTA
* * * *
65945826 CTGTGGTAAAATGACTGTTTTACCCTT
1 ATGTGGTAAAATGACTATTTTGCCCTA
* * *
65945853 ATATGGTAAGATGACTATTTTTCCCT-
1 ATGTGGTAAAATGACTATTTTGCCCTA
65945879 ATGTG
1 ATGTG
65945884 ATGTATATAT
Statistics
Matches: 121, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 4 0.03
27 117 0.97
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
ATGTGGTAAAATGACTATTTTGCCCTA
Found at i:65945805 original size:54 final size:54
Alignment explanation
Indices: 65945717--65946059 Score: 345
Period size: 54 Copynumber: 6.6 Consensus size: 54
65945707 GTGATATATA
* * * *
65945717 TATGTGGTAAAATGACTATTTTGCCCTAAAGTGGTAAAATGACTATTTTGCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCT
* * *
65945771 TATGTGGTAAAATAATTGTTTTGCCCTTATGTGGTAAGATGACTGTTTTGCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCT
* * * * * *
65945825 TCTGTGGTAAAATGACTGTTTTACCCTTATATGGTAAGATGACTATTTTTCCC-
1 TATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCT
* * *
65945878 TATGT-G----ATG--T-ATAT----ATATGTGGTAAAATGACTGTTTTGCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCT
* * *
65945920 TAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATAATTGTTTTGCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCT
* * * * *
65945974 TATGTGGTAAGATGACTTTTTTGCCCTTCTGTGGTAAAATGATTGTTTTACCCT
1 TATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCT
* * *
65946028 TATTTGGTAAGATGACTGTTTTTCCC-TATGTG
1 TATGTGGTAAAATGACTGTTTTGCCCTTATGTG
65946060 ATGTATATAT
Statistics
Matches: 238, Mismatches: 38, Indels: 27
0.79 0.13 0.09
Matches are distributed among these distances:
41 22 0.09
42 4 0.02
43 1 0.00
45 2 0.01
46 1 0.00
47 3 0.01
48 3 0.01
49 1 0.00
50 2 0.01
52 1 0.00
53 9 0.04
54 189 0.79
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (54 bp):
TATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCT
Found at i:65945810 original size:120 final size:120
Alignment explanation
Indices: 65945597--65945824 Score: 348
Period size: 120 Copynumber: 1.9 Consensus size: 120
65945587 GTTTTGCCCT
* * * * * *
65945597 TATGTGGTAAAATAATTGTTTTGCCCTTATGTGGTAAGATGACTATTTTGCCCTTCTGTGGTAAA
1 TATGTGGTAAAATAACTATTTTGCCCTAAAGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAA
* *
65945662 ATGACTGTTTTACCCTTATATGGTAAGATGACTGTTTTTCCCTATGTGATATATA
66 ATAACTGTTTTACCCTTATATGGTAAGATGACTGTTTTGCCCTATGTGATATATA
*
65945717 TATGTGGTAAAATGACTATTTTGCCCTAAAGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAA
1 TATGTGGTAAAATAACTATTTTGCCCTAAAGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAA
* * *
65945782 ATAATTGTTTTGCCCTTATGTGGTAAGATGACTGTTTTGCCCT
66 ATAACTGTTTTACCCTTATATGGTAAGATGACTGTTTTGCCCT
65945825 TCTGTGGTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (120 bp):
TATGTGGTAAAATAACTATTTTGCCCTAAAGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAA
ATAACTGTTTTACCCTTATATGGTAAGATGACTGTTTTGCCCTATGTGATATATA
Found at i:65945928 original size:122 final size:122
Alignment explanation
Indices: 65945771--65946000 Score: 363
Period size: 122 Copynumber: 1.9 Consensus size: 122
65945761 ATTTTGCCCT
* * * *
65945771 TATGTGGTAAAATAATTGTTTTGCCCTTATGTGGTAAGATGACTGTTTTGCCCTTCTGTGGTAAA
1 TATGTGGTAAAATAACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAA
*
65945836 ATGACTGTTTTACCCTTATATGGTAAGATGACTATTTTT-CCCTATGTGATGTATATA
66 ATAACTGTTTTACCCTTATATGGTAAGATGACT-TTTTTGCCCTATGTGATGTATATA
*
65945893 TATGTGGTAAAATGACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAA
1 TATGTGGTAAAATAACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAA
* * *
65945958 ATAATTGTTTTGCCCTTATGTGGTAAGATGACTTTTTTGCCCT
66 ATAACTGTTTTACCCTTATATGGTAAGATGACTTTTTTGCCCT
65946001 TCTGTGGTAA
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
121 5 0.05
122 93 0.95
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (122 bp):
TATGTGGTAAAATAACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAA
ATAACTGTTTTACCCTTATATGGTAAGATGACTTTTTTGCCCTATGTGATGTATATA
Found at i:65945934 original size:27 final size:27
Alignment explanation
Indices: 65945893--65946059 Score: 228
Period size: 27 Copynumber: 6.2 Consensus size: 27
65945883 GATGTATATA
65945893 TATGTGGTAAAATGACTGTTTTGCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCT
*
65945920 TAAGTGGTAAAATGACTGTTTTGCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCT
* *
65945947 TATGTGGTAAAATAATTGTTTTGCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCT
* *
65945974 TATGTGGTAAGATGACTTTTTTGCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCT
* * *
65946001 TCTGTGGTAAAATGATTGTTTTACCCT
1 TATGTGGTAAAATGACTGTTTTGCCCT
* * *
65946028 TATTTGGTAAGATGACTGTTTTTCCC-
1 TATGTGGTAAAATGACTGTTTTGCCCT
65946054 TATGTG
1 TATGTG
65946060 ATGTATATAT
Statistics
Matches: 121, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 5 0.04
27 116 0.96
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (27 bp):
TATGTGGTAAAATGACTGTTTTGCCCT
Found at i:65945945 original size:149 final size:149
Alignment explanation
Indices: 65945747--65946015 Score: 412
Period size: 149 Copynumber: 1.8 Consensus size: 149
65945737 TTGCCCTAAA
* * * *
65945747 GTGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATAATTGTTTTGCCCTTATGTGGTAAGATG
1 GTGGTAAAATGACTATTTTGCCCTTAAGTGGTAAAATAACTGTTTTGCCCTTATGTGGTAAAATA
* *
65945812 ACTGTTTTGCCCTTCTGTGGTAAAATGACTGTTTTACCCTTATATGGTAAGATGACTATTTTTCC
66 ACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTACCCTTATATGGTAAAATGACTATTTTTCC
65945877 CTATGTGATGTATATATAT
131 CTATGTGATGTATATATAT
* *
65945896 GTGGTAAAATGACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATA
1 GTGGTAAAATGACTATTTTGCCCTTAAGTGGTAAAATAACTGTTTTGCCCTTATGTGGTAAAATA
* * * * * *
65945961 ATTGTTTTGCCCTTATGTGGTAAGATGACTTTTTTGCCCTTCTGTGGTAAAATGA
66 ACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTACCCTTATATGGTAAAATGA
65946016 TTGTTTTACC
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
149 106 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (149 bp):
GTGGTAAAATGACTATTTTGCCCTTAAGTGGTAAAATAACTGTTTTGCCCTTATGTGGTAAAATA
ACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTACCCTTATATGGTAAAATGACTATTTTTCC
CTATGTGATGTATATATAT
Found at i:65945988 original size:176 final size:176
Alignment explanation
Indices: 65945549--65946071 Score: 937
Period size: 176 Copynumber: 3.0 Consensus size: 176
65945539 TGGCCTTATA
*
65945549 TGGTAAAATGACTG--TTGCCCTTAAGTGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAA
1 TGGTAAAATGACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATAA
65945612 TTGTTTTGCCCTTATGTGGTAAGATGACTATTTTGCCCTTCTGTGGTAAAATGACTGTTTTACCC
66 TTGTTTTGCCCTTATGTGGTAAGATGACTATTTTGCCCTTCTGTGGTAAAATGACTGTTTTACCC
65945677 TTATATGGTAAGATGACTGTTTTTCCCTATGTGA--TATATATATG
131 TTATATGGTAAGATGACTGTTTTTCCCTATGTGATGTATATATATG
* * *
65945721 TGGTAAAATGACTATTTTGCCCTAAAGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATAA
1 TGGTAAAATGACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATAA
*
65945786 TTGTTTTGCCCTTATGTGGTAAGATGACTGTTTTGCCCTTCTGTGGTAAAATGACTGTTTTACCC
66 TTGTTTTGCCCTTATGTGGTAAGATGACTATTTTGCCCTTCTGTGGTAAAATGACTGTTTTACCC
*
65945851 TTATATGGTAAGATGACTATTTTTCCCTATGTGATGTATATATATG
131 TTATATGGTAAGATGACTGTTTTTCCCTATGTGATGTATATATATG
65945897 TGGTAAAATGACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATAA
1 TGGTAAAATGACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATAA
* *
65945962 TTGTTTTGCCCTTATGTGGTAAGATGACTTTTTTGCCCTTCTGTGGTAAAATGATTGTTTTACCC
66 TTGTTTTGCCCTTATGTGGTAAGATGACTATTTTGCCCTTCTGTGGTAAAATGACTGTTTTACCC
*
65946027 TTATTTGGTAAGATGACTGTTTTTCCCTATGTGATGTATATATAT
131 TTATATGGTAAGATGACTGTTTTTCCCTATGTGATGTATATATAT
65946072 ATGTGCATGT
Statistics
Matches: 334, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
172 13 0.04
174 143 0.43
176 178 0.53
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (176 bp):
TGGTAAAATGACTGTTTTGCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATAA
TTGTTTTGCCCTTATGTGGTAAGATGACTATTTTGCCCTTCTGTGGTAAAATGACTGTTTTACCC
TTATATGGTAAGATGACTGTTTTTCCCTATGTGATGTATATATATG
Found at i:65946766 original size:27 final size:28
Alignment explanation
Indices: 65946683--65946767 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 28
65946673 CAGTACATGT
* * * **
65946683 TTTTAATATGTCATAGTTTGA-ACATGA
1 TTTTAATGTGTCTTAGTTTAAGACAAAA
* * ** *
65946710 TTTTAATTTGTCTTATTTTATTACATAA
1 TTTTAATGTGTCTTAGTTTAAGACAAAA
65946738 TTTTAATGTGT-TTAGTTTAAGACAAAA
1 TTTTAATGTGTCTTAGTTTAAGACAAAA
65946765 TTT
1 TTT
65946768 AATTAGCTGC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 31 0.67
28 15 0.33
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.52
Consensus pattern (28 bp):
TTTTAATGTGTCTTAGTTTAAGACAAAA
Found at i:65949363 original size:18 final size:18
Alignment explanation
Indices: 65949324--65949384 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
65949314 AGAGAGACTG
* *
65949324 TGAAAAAGAAAACTGAGAT
1 TGAAAAAGAAAA-TAAAAT
65949343 TGAAAAAGAAAA-AAAACT
1 TGAAAAAGAAAATAAAA-T
**
65949361 TGATCAAGAAAATAAAAT
1 TGAAAAAGAAAATAAAAT
65949379 TGAAAA
1 TGAAAA
65949385 TGAGAGGGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 2 0.06
18 16 0.47
19 16 0.47
ACGTcount: A:0.64, C:0.05, G:0.15, T:0.16
Consensus pattern (18 bp):
TGAAAAAGAAAATAAAAT
Found at i:65953086 original size:27 final size:27
Alignment explanation
Indices: 65953055--65953232 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65953045 TAAATTGTAC
65953055 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
65953082 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65953108 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
65953136 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
65953164 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65953191 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
65953218 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65953233 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
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:65953169 original size:82 final size:81
Alignment explanation
Indices: 65953056--65953211 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65953046 AAATTGTACA
* *
65953056 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
65953120 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65953137 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
65953202 TGCGAGTTGA
65 TGCGAATTGA
65953212 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65953223 original size:82 final size:81
Alignment explanation
Indices: 65953052--65953232 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
65953042 GATTAAATTG
* *
65953052 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65953117 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65953133 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
65953197 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65953215 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65953233 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65958248 original size:17 final size:17
Alignment explanation
Indices: 65958222--65958312 Score: 62
Period size: 17 Copynumber: 5.2 Consensus size: 17
65958212 TAAATAATAG
*
65958222 ATAATGAAATAATATAT
1 ATAATAAAATAATATAT
* *
65958239 ATAATAAAATAAAATAC
1 ATAATAAAATAATATAT
65958256 ATAAATAAAAT-ATA-AT
1 AT-AATAAAATAATATAT
*
65958272 GA-AATATAAATACTATCAT
1 -ATAATA-AAATAATAT-AT
*
65958291 ATAAATAAGGATAATATAT
1 AT-AATAA-AATAATATAT
65958310 ATA
1 ATA
65958313 CTATTATTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 17
0.70 0.10 0.21
Matches are distributed among these distances:
15 4 0.07
16 5 0.09
17 21 0.37
18 10 0.18
19 7 0.12
20 10 0.18
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (17 bp):
ATAATAAAATAATATAT
Found at i:65958262 original size:30 final size:29
Alignment explanation
Indices: 65958228--65958284 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 29
65958218 ATAGATAATG
65958228 AAATAATATATATAATAAAATA-AAATACAT
1 AAATAA-A-ATATAATAAAATATAAATACAT
*
65958258 AAATAAAATATAATGAAATATAAATAC
1 AAATAAAATATAATAAAATATAAATAC
65958285 TATCATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 12 0.48
29 7 0.28
30 6 0.24
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (29 bp):
AAATAAAATATAATAAAATATAAATACAT
Found at i:65958450 original size:19 final size:19
Alignment explanation
Indices: 65958422--65958463 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
65958412 AATGAAAGGA
*
65958422 ATAATATATAGTAAAATAT
1 ATAATATATAATAAAATAT
* *
65958441 ATAATGTATAATAAAATTT
1 ATAATATATAATAAAATAT
65958460 ATAA
1 ATAA
65958464 ATAAAATGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATAATATATAATAAAATAT
Found at i:65958462 original size:12 final size:12
Alignment explanation
Indices: 65958443--65958479 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
65958433 TAAAATATAT
65958443 AATGTATAATAA
1 AATGTATAATAA
*
65958455 AATTTATAAATAA
1 AATGTAT-AATAA
65958468 AATGTATAATAA
1 AATGTATAATAA
65958480 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:65958468 original size:13 final size:13
Alignment explanation
Indices: 65958443--65958476 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
65958433 TAAAATATAT
65958443 AATGTAT-AATAA
1 AATGTATAAATAA
*
65958455 AATTTATAAATAA
1 AATGTATAAATAA
65958468 AATGTATAA
1 AATGTATAA
65958477 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:65958469 original size:32 final size:32
Alignment explanation
Indices: 65958433--65958494 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
65958423 TAATATATAG
* *
65958433 TAAAATATATAATGTATAATAA-AATTTATAAA
1 TAAAATATATAAT-AATAAAAATAATTTATAAA
*
65958465 TAAAATGTATAATAATAAAAATAATTTATA
1 TAAAATATATAATAATAAAAATAATTTATA
65958495 CTATTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (32 bp):
TAAAATATATAATAATAAAAATAATTTATAAA
Found at i:65960078 original size:44 final size:44
Alignment explanation
Indices: 65960030--65960150 Score: 161
Period size: 44 Copynumber: 2.8 Consensus size: 44
65960020 CTTGCAAACT
* * * * * *
65960030 CAGAAATGCCAGATCTGTTATCTTTGATCTGCTTTCTGATAATA
1 CAGAAACGCCAAATCTGCTATCTTCGATCTGCTATCTGACAATA
* *
65960074 CAGAAACGCCAAATCTGCTATCTTCGATCTGGTATCTGGCAATA
1 CAGAAACGCCAAATCTGCTATCTTCGATCTGCTATCTGACAATA
*
65960118 CAGAGACGCCAAATCTGCTATCTTCGATCTGCT
1 CAGAAACGCCAAATCTGCTATCTTCGATCTGCT
65960151 CCTTGTAAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
CAGAAACGCCAAATCTGCTATCTTCGATCTGCTATCTGACAATA
Found at i:65960381 original size:131 final size:131
Alignment explanation
Indices: 65960218--65960489 Score: 400
Period size: 131 Copynumber: 2.1 Consensus size: 131
65960208 CGAAGGTTAG
** *
65960218 ATCTACTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTG
1 ATCTACTATGTCTTCGATCTGCTCTCCATCGAATACAGAGATGACAAATCTGTTTCTTCAATTTG
* *
65960283 TTCTCTGACAATATAGAGATGCCAAATCATCTTAGATCTGCTACAGCGTAAACACGTGAAAGCCA
66 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTACTACAGCGTAAACACGTGAAAGCCA
65960348 A
131 A
* ** * *
65960349 ATCTTCTATGTCTTCGATCTGCTCTCTGTCGAATACAGAGATGACAAATTTGTTTCTTCGATTTG
1 ATCTACTATGTCTTCGATCTGCTCTCCATCGAATACAGAGATGACAAATCTGTTTCTTCAATTTG
* * * *
65960414 TTCTCTGATAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGTGTAAACACGTGAAAGCCA
66 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTACTACAGCGTAAACACGTGAAAGCCA
*
65960479 G
131 A
*
65960480 ATCTGCTATG
1 ATCTACTATG
65960490 CTTTAGCCTG
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (131 bp):
ATCTACTATGTCTTCGATCTGCTCTCCATCGAATACAGAGATGACAAATCTGTTTCTTCAATTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTACTACAGCGTAAACACGTGAAAGCCA
A
Found at i:65963326 original size:93 final size:93
Alignment explanation
Indices: 65963167--65963337 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
65963157 GGATGGTTGA
* * *
65963167 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
65963232 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
65963260 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
65963325 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
65963338 ACTTGGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65963340 original size:46 final size:46
Alignment explanation
Indices: 65963171--65963341 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
65963161 GGTTGAGCAT
* * * *
65963171 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* * *
65963217 CTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
65963262 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
*
65963310 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
65963342 GGGGGCGGGT
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.55
47 27 0.26
48 4 0.04
50 5 0.05
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:65972315 original size:47 final size:47
Alignment explanation
Indices: 65972237--65972698 Score: 726
Period size: 47 Copynumber: 9.7 Consensus size: 47
65972227 CCCTTCGGGA
* * * * * *
65972237 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65972284 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65972331 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65972378 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65972425 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65972472 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65972521 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65972568 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65972617 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65972664 CTTATCACATATATGCACATTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
65972699 AAAATCCTAA
Statistics
Matches: 384, Mismatches: 27, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 295 0.77
49 89 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65972514 original size:96 final size:94
Alignment explanation
Indices: 65972237--65972698 Score: 735
Period size: 96 Copynumber: 4.9 Consensus size: 94
65972227 CCCTTCGGGA
* * * * * * * * *
65972237 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
65972302 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
65972331 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
65972396 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
65972425 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATAC
* *
65972490 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
65972521 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATAC
* *
65972586 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
65972617 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
*
65972682 ATTCACATTCATCACAT
66 TTTCACATTCATCACAT
65972699 AAAATCCTAA
Statistics
Matches: 349, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
94 163 0.47
96 186 0.53
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:65972738 original size:143 final size:137
Alignment explanation
Indices: 65972294--65972700 Score: 525
Period size: 143 Copynumber: 2.9 Consensus size: 137
65972284 CCTGTCACAT
65972294 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
*
65972359 ATCACATCAGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
66 ATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-----A--AGG
* *
65972424 CCTTATC--ACAT-
124 CCTAATCAAATATA
*
65972435 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACAT
* * *
65972500 TCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
64 TCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-----A--A
* *
65972565 GGCCTTATCACATAT-
122 GGCCTAATCAAATATA
* *
65972580 ATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
* *
65972645 ATCACATCGGCTATTAGGCCTTATCACATATATGCACATTCACATTCATCACATAA
66 ATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAA
65972701 AATCCTAAAT
Statistics
Matches: 248, Mismatches: 14, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
136 1 0.00
138 1 0.00
141 44 0.18
143 157 0.63
145 45 0.18
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (137 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
ATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAAGGCCTAATC
AAATATA
Found at i:65974680 original size:13 final size:13
Alignment explanation
Indices: 65974662--65974686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65974652 TACTAAATTT
65974662 TCATGGATTCAAA
1 TCATGGATTCAAA
65974675 TCATGGATTCAA
1 TCATGGATTCAA
65974687 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:65982086 original size:79 final size:79
Alignment explanation
Indices: 65981942--65982161 Score: 250
Period size: 79 Copynumber: 2.7 Consensus size: 79
65981932 TTCGAATGAT
* * * **
65981942 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCAGACTAAGATCCGAAGGCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCC-GGTTAAG-TCCGAAGGCAT
65982007 TTGTGCGAATTACTA-A
63 TTGTGCGAATTACTATA
* * *
65982023 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGTTAAGT-CCGAAGGCATT
*
65982087 TGTGCGAGTTACTATA
64 TGTGCGAATTACTATA
* *
65982103 AT-CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGTT-AAGTCCGAAGG
65982162 TATGTGATTC
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 62 0.52
80 45 0.38
81 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGTTAAGTCCGAAGGCATTTG
TGCGAATTACTATA
Found at i:65982092 original size:40 final size:40
Alignment explanation
Indices: 65981942--65982135 Score: 241
Period size: 40 Copynumber: 4.8 Consensus size: 40
65981932 TTCGAATGAT
* * * *
65981942 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* * *
65981983 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAATTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* *
65982023 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
65982062 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
65982103 AT-CGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
65982136 AGCTATATCC
Statistics
Matches: 132, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
39 34 0.26
40 69 0.52
41 28 0.21
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:65986188 original size:40 final size:40
Alignment explanation
Indices: 65986043--65986224 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
65986033 GAGCACCTGA
* * * * *
65986043 GGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
65986084 GACTAAGAT-CCGAAGGCATTTGTGCGAATTACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
65986124 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCGG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
65986163 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
65986203 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
65986225 AGTGAGTAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 33 0.28
40 62 0.52
41 23 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:65986246 original size:79 final size:79
Alignment explanation
Indices: 65986093--65986257 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
65986083 AGACTAAGAT
* *
65986093 CCGAAGGCATTTGTGCGAATTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAATTACTAATACCGGGCTAAGCCCGAAGGCATTGGAGCGAGTTACTAA
* *
65986158 ATCGGGGTTAAGTC
66 ATCGCGGTTAAATC
* * * *
65986172 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAGTGAG-TAGC
1 CCGAAGGCATTTGTGCGAATTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTA-C
* *
65986235 TATATC-CGGTTAAATT
63 TAAATCGCGGTTAAATC
65986251 CCGAAGG
1 CCGAAGG
65986258 TATGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAATTACTAATACCGGGCTAAGCCCGAAGGCATTGGAGCGAGTTACTAA
ATCGCGGTTAAATC
Found at i:65999555 original size:40 final size:40
Alignment explanation
Indices: 65999455--65999624 Score: 252
Period size: 40 Copynumber: 4.3 Consensus size: 40
65999445 GCTCCTCGTT
* * ** *
65999455 CAAATGCCTTCGGGACATAGCCCAGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
65999495 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
*
65999534 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
** *
65999574 CGTATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
65999614 CAAATGCCTTC
1 CAAATGCCTTC
65999625 ATATTTTGCA
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
Found at i:66002860 original size:53 final size:54
Alignment explanation
Indices: 66002739--66002982 Score: 207
Period size: 55 Copynumber: 4.6 Consensus size: 54
66002729 TTACCATTTC
* * * * * *
66002739 CATGACTTGTCATGGTCTTACGTGGTATCCTT---TTA--AAACTTACCATTGC
1 CATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACTAATGT
* * * *
66002788 CATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTCAGTAATGT
1 CATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACTAATGT
* * * *
66002841 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAACTTATTAATGC
1 CATGTCTTGGCATGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTTACTAATGT
* * * * * *
66002896 CATGTCTTGACATAGTCTTACATGATATCCTTTCCTTA-GAAACCTTACCAATTT
1 CATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACTAATGT
*
66002950 CCATGTCTTGGTATGGTCTTACATGGTATCCTT
1 -CATGTCTTGGCATGGTCTTACATGGTATCCTT
66002983 AAACCCTAAT
Statistics
Matches: 154, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
49 28 0.18
52 5 0.03
53 44 0.29
54 8 0.05
55 67 0.44
56 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
CATGTCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACTAATGT
Found at i:66009562 original size:93 final size:93
Alignment explanation
Indices: 66009450--66009621 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
66009440 CGCCCATAAG
*
66009450 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
66009514 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
66009543 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66009608 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
66009622 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:66009616 original size:46 final size:46
Alignment explanation
Indices: 66009443--66009618 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
66009433 TGTAACCCGC
* *
66009443 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
66009489 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
66009539 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
66009582 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
66009619 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:66016871 original size:46 final size:46
Alignment explanation
Indices: 66016804--66016976 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
66016794 TGTAACCCGC
* *
66016804 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
* * *
66016850 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCGCAT
* *
66016900 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
*
66016943 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
66016977 GGATGCTCAA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 3 0.03
46 58 0.54
47 26 0.24
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
Found at i:66016923 original size:93 final size:93
Alignment explanation
Indices: 66016811--66016982 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
66016801 CGCCCATAAG
* *
66016811 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66016876 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
66016904 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66016969 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
66016983 TCAATCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:66019673 original size:23 final size:24
Alignment explanation
Indices: 66019642--66019721 Score: 110
Period size: 23 Copynumber: 3.3 Consensus size: 24
66019632 TTGGAGGCCT
66019642 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
66019666 AGCCCTTTTGATAAAC-GGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
66019689 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCA-A
66019715 AGCCCTT
1 AGCCCTT
66019722 CTGCACTTCC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
23 23 0.46
24 13 0.26
25 6 0.12
26 8 0.16
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:66019798 original size:20 final size:20
Alignment explanation
Indices: 66019773--66019839 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
66019763 TTATGAATAC
66019773 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
66019793 ATCATGTGCATTTTATACGT
1 ATCATGTGCATTTCATACAT
*
66019813 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
66019833 ATCATGT
1 ATCATGT
66019840 ATATCATATC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 40 0.98
21 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:66020772 original size:27 final size:27
Alignment explanation
Indices: 66020746--66020875 Score: 111
Period size: 27 Copynumber: 4.7 Consensus size: 27
66020736 ATCTACAAAC
*
66020746 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
66020773 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
**
66020802 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
66020829 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
**
66020856 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
66020876 CACAATCGAG
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.01
27 57 0.69
28 7 0.08
29 17 0.20
30 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:66020880 original size:27 final size:26
Alignment explanation
Indices: 66020832--66020889 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
66020822 TGTAAATCAG
** * *
66020832 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTCAC-AATCGA
66020859 GGGTATTTCAGTAATTTCACAATCGA
1 GGGTATTTCAGTAATTTCACAATCGA
66020885 GGGTA
1 GGGTA
66020890 AAACGGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTCACAATCGA
Found at i:66020913 original size:53 final size:53
Alignment explanation
Indices: 66020841--66020995 Score: 161
Period size: 54 Copynumber: 2.9 Consensus size: 53
66020831 GGGGTATTTT
* **
66020841 GGTAATTTTACAAATTGAGGGTATTTCAGTAA-TTT-CACAATCGAGGGTAAAAC
1 GGTAATTTTATAAATTGAGGGTAAAT-AGTAATTTTGCA-AATCGAGGGTAAAAC
* * * *
66020894 GGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATTGAGGGT-AAATAGTAATTTTGCAAATCGAGGGTAAAAC
* * * *
66020948 GGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 GGTAATTTTATAAATTGAGGGT-AAATAGTAATTTTGCAAATCGAGGG
66020996 CATTTCAGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 23 0.27
54 62 0.72
55 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (53 bp):
GGTAATTTTATAAATTGAGGGTAAATAGTAATTTTGCAAATCGAGGGTAAAAC
Found at i:66020967 original size:54 final size:54
Alignment explanation
Indices: 66020879--66020995 Score: 180
Period size: 54 Copynumber: 2.2 Consensus size: 54
66020869 GTAATTTCAC
* * * **
66020879 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATGGTAATTCTACA
*
66020933 AATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATGGTAATTCTACA
66020987 AATCGAGGG
1 AATCGAGGG
66020996 CATTTCAGTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATGGTAATTCTACA
Found at i:66020982 original size:27 final size:27
Alignment explanation
Indices: 66020879--66020995 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
66020869 GTAATTTCAC
* *
66020879 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
66020906 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
66020933 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
66020960 AATTGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
66020987 AATCGAGGG
1 AATCGAGGG
66020996 CATTTCAGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:66024732 original size:30 final size:30
Alignment explanation
Indices: 66024692--66024768 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
66024682 GCAGTGGTTT
* * *
66024692 TCACATGGCCTAGACACATGCCCGTGTCTC
1 TCACACGGCCTAGACACACGCCCGTGTCCC
66024722 TCACACGGCCTAGACACACGCCCGTGTCCC
1 TCACACGGCCTAGACACACGCCCGTGTCCC
66024752 TCACACGGCCTAGACAC
1 TCACACGGCCTAGACAC
66024769 GCCTGTGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.22, C:0.42, G:0.19, T:0.17
Consensus pattern (30 bp):
TCACACGGCCTAGACACACGCCCGTGTCCC
Found at i:66026798 original size:44 final size:44
Alignment explanation
Indices: 66026735--66026822 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
66026725 TCAAAAATAC
66026735 AAAGAACATTAAAAACGGGGCTAGGATTAACTTACTATCAAGCT
1 AAAGAACATTAAAAACGGGGCTAGGATTAACTTACTATCAAGCT
*
66026779 AAAGAACATTAAAAACGGGGCTAGGATTGACTTACTATCAAGCT
1 AAAGAACATTAAAAACGGGGCTAGGATTAACTTACTATCAAGCT
66026823 TGAAAGTTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (44 bp):
AAAGAACATTAAAAACGGGGCTAGGATTAACTTACTATCAAGCT
Found at i:66030474 original size:49 final size:50
Alignment explanation
Indices: 66030402--66030547 Score: 204
Period size: 50 Copynumber: 2.9 Consensus size: 50
66030392 AGGCTATCTA
* * *
66030402 GTACACATAGTAGCCTGTACTTAGTACTACACATGTGACC-AATAATCCG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCG
* * *
66030451 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCG
* * *
66030501 ATACACGTAGTAGCCTTCACTTAGTACTACACATGTGACCTCACAAT
1 GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAT
66030548 AGATCATTCG
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 37 0.44
50 48 0.56
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCG
Found at i:66033333 original size:15 final size:15
Alignment explanation
Indices: 66033313--66033345 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
66033303 AAAGCCCATA
66033313 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
66033328 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
66033343 ATA
1 ATA
66033346 CGAGAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:66035732 original size:27 final size:26
Alignment explanation
Indices: 66035684--66035764 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
66035674 GCGAGGCTGC
*
66035684 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
66035711 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
66035737 CATATATATATGTGGCGAAGCCACCAGA
1 C--AGATAT-TGTGACGAAGCCACCAGA
66035765 TTGCAGCGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.05
27 21 0.48
28 5 0.11
29 16 0.36
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:66036513 original size:27 final size:27
Alignment explanation
Indices: 66036483--66036546 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
66036473 GGGGCAAAAT
*
66036483 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* *
66036510 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
*
66036537 GATAATTCTA
1 GGTAATTCTA
66036547 AAACTTATCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:66037288 original size:162 final size:162
Alignment explanation
Indices: 66037021--66037348 Score: 629
Period size: 162 Copynumber: 2.0 Consensus size: 162
66037011 CACCTACTTG
66037021 CTTCCAGATTTATTGAAAAGAAAAACCAAAATATATTGCAAGAGCCAAGACTTGAACCTTGGACC
1 CTTCCAGATTTATTGAAAAGAAAAACCAAAATATATTGCAAGAGCCAAGACTTGAACCTTGGACC
*
66037086 CCTTGCTTCCTCTATGGCGTCACTTCCTTGTCCTCTAAGTGGCGCCACCTTGCCACTACACCACA
66 CCTTGCTTCCTCTATGGCGTCACTTCCTTGTCCCCTAAGTGGCGCCACCTTGCCACTACACCACA
*
66037151 CTCCTTTTTGTGTCATCTTTTACCCCTTTACT
131 CTCCTTTTTGTGACATCTTTTACCCCTTTACT
*
66037183 CTTCCAGATTTATTGAAAAGAAAAACTAAAATATATTGCAAGAGCCAAGACTTGAACCTTGGACC
1 CTTCCAGATTTATTGAAAAGAAAAACCAAAATATATTGCAAGAGCCAAGACTTGAACCTTGGACC
66037248 CCTTGCTTCCTCTATGGCGTCACTTCCTTGTCCCCTAAGTGGCGCCACCTTGCCACTACACCACA
66 CCTTGCTTCCTCTATGGCGTCACTTCCTTGTCCCCTAAGTGGCGCCACCTTGCCACTACACCACA
66037313 CTCCTTTTTGTGACATCTTTTACCCCTTTACT
131 CTCCTTTTTGTGACATCTTTTACCCCTTTACT
66037345 CTTC
1 CTTC
66037349 AAAGCCCAAA
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 163 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.31
Consensus pattern (162 bp):
CTTCCAGATTTATTGAAAAGAAAAACCAAAATATATTGCAAGAGCCAAGACTTGAACCTTGGACC
CCTTGCTTCCTCTATGGCGTCACTTCCTTGTCCCCTAAGTGGCGCCACCTTGCCACTACACCACA
CTCCTTTTTGTGACATCTTTTACCCCTTTACT
Found at i:66041899 original size:42 final size:42
Alignment explanation
Indices: 66041837--66042005 Score: 164
Period size: 42 Copynumber: 4.1 Consensus size: 42
66041827 AATCACATAC
* * *
66041837 ACATGGAA--TCATACCAATGCCATATCCTAGATATGGTCTT
1 ACATGGAATCTCATATCGATGCCATATCCCAGATATGGTCTT
* *
66041877 ACATGGAATCTCATATCGATGCCAATAGCCCAGCTATGGTCTT
1 ACATGGAATCTCATATCGATGCC-ATATCCCAGATATGGTCTT
* * * * *
66041920 ACA-CGATTCTCATATCGATGCCATGTCCCAAACATGGTCTT
1 ACATGGAATCTCATATCGATGCCATATCCCAGATATGGTCTT
* * * * * *
66041961 ACACGAAATCTCATAACGATTCTATATCCCAGTTATGGTCTT
1 ACATGGAATCTCATATCGATGCCATATCCCAGATATGGTCTT
66042003 ACA
1 ACA
66042006 CGTAAACTCA
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
40 8 0.08
41 17 0.17
42 59 0.57
43 19 0.18
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
ACATGGAATCTCATATCGATGCCATATCCCAGATATGGTCTT
Found at i:66047099 original size:31 final size:31
Alignment explanation
Indices: 66047056--66047139 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
66047046 TCAGTCTCAA
66047056 CATAT-ACTGGGCCGAAGCCTTTTCATAATT
1 CATATCACTGGGCCGAAGCCTTTTCATAATT
* *
66047086 CATATCACTGGGCCGAATCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATAATT
66047117 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
66047140 ACTGTAAACG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAATT
Found at i:66048561 original size:27 final size:27
Alignment explanation
Indices: 66048530--66048707 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
66048520 TATATGAGTC
* * * *
66048530 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
66048557 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
66048584 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
66048612 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
66048639 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
66048666 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
66048693 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66048708 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:66048669 original size:82 final size:81
Alignment explanation
Indices: 66048551--66048706 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
66048541 TGCTATATAA
*
66048551 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
66048616 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
66048633 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
66048697 CACTTAGTGC
65 CACTTAGTGC
66048707 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:66061045 original size:39 final size:40
Alignment explanation
Indices: 66060927--66061145 Score: 227
Period size: 39 Copynumber: 5.6 Consensus size: 40
66060917 TTGAATGCTG
* * * * * *
66060927 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * *
66060967 TCCGGACTAAGAT-CCGAAGGC-TTTGTGCGAGATA-TAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
66061005 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
66061044 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
66061084 TCCGGGTT-AGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66061122 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66061146 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
37 1 0.01
38 38 0.24
39 80 0.51
40 38 0.24
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:66061165 original size:78 final size:79
Alignment explanation
Indices: 66061001--66061180 Score: 213
Period size: 78 Copynumber: 2.3 Consensus size: 79
66060991 GTGCGAGATA
* * *
66061001 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAATCCGGGTTAAGTCCCGAAGGCA
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTCTAAAACCGGGCTAAGTCCCGAAGGCA
** ** *
66061066 TTCGTGCGAGTTGT
66 TTCGAACGAGGAGC
* *
66061080 TAAATCCGGGTT-AGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-CTAAAACCGGGCTAAGTCCCGAAGGC
*
66061143 ATTTGAACGAGGAGC
65 ATTCGAACGAGGAGC
* *
66061158 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
66061181 TACGTGATTT
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
77 12 0.14
78 62 0.72
79 12 0.14
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTCTAAAACCGGGCTAAGTCCCGAAGGCA
TTCGAACGAGGAGC
Found at i:66068991 original size:39 final size:40
Alignment explanation
Indices: 66068789--66069008 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 40
66068779 TTGAATGCTG
* * * * * *
66068789 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * *
66068829 TCCGGACTAAGAT-CCGAAGGC-TTTGTGCGAGATA-TAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
66068867 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
66068907 TCCGGGTTAAGTCCCGAAGCCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66068947 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66068986 ACCGGGCTATGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66069009 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 31 0.20
39 35 0.22
40 90 0.57
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:66070531 original size:68 final size:68
Alignment explanation
Indices: 66070422--66070558 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
66070412 TACCAGACTC
66070422 TAGCTGAATTAACACTGGCACTTCTGTCAGGACCTTCTTTAACTTCTCAAAAGCCTCTTGCTGTT
1 TAGCTGAATTAACACTGGCACTTCTGTCAGGACCTTCTTTAACTTCTCAAAAGCCTCTTGCTGTT
66070487 TAT
66 TAT
66070490 TAGCTGAATTAACACTGGCACTTCTGTCAGGACCTTCTTTAACTTCTCAAAAGCCTCTTGCTGTT
1 TAGCTGAATTAACACTGGCACTTCTGTCAGGACCTTCTTTAACTTCTCAAAAGCCTCTTGCTGTT
66070555 TAT
66 TAT
66070558 T
1 T
66070559 TGTCCAAACA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (68 bp):
TAGCTGAATTAACACTGGCACTTCTGTCAGGACCTTCTTTAACTTCTCAAAAGCCTCTTGCTGTT
TAT
Found at i:66074329 original size:30 final size:30
Alignment explanation
Indices: 66074295--66074371 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
66074285 TTAAACGACT
66074295 ATTGGCTCGAAGCCTTTTCATAATTCA-ATC
1 ATTGGC-CGAAGCCTTTTCATAATTCATATC
* *
66074325 ATTGGGCCAAAGCCTTTTCATTATTCATATC
1 ATT-GGCCGAAGCCTTTTCATAATTCATATC
* *
66074356 ACTGGGCGAAGCCTTT
1 ATTGGCCGAAGCCTTT
66074372 ACTGTAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 32 0.80
31 8 0.20
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (30 bp):
ATTGGCCGAAGCCTTTTCATAATTCATATC
Found at i:66077565 original size:56 final size:56
Alignment explanation
Indices: 66077505--66077678 Score: 267
Period size: 56 Copynumber: 3.1 Consensus size: 56
66077495 GTGATTATGT
* * *
66077505 GTAAGACCACGTTTAATACGTTGGCATCGATATGTTATTCTGATATATATGTGTGA
1 GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* *
66077561 GTAAGACCACATTTAATACATTGGCATCGATATGTGATTCTGATATATGTGTGCGA
1 GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* * **
66077617 GTAAGACCACGTTTAATACGTTGGCATGGATATATGGCTCTGATATATGTGTGCGA
1 GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
66077673 GTAAGA
1 GTAAGA
66077679 ACCTGTCTGG
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 107 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (56 bp):
GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
Found at i:66077698 original size:112 final size:111
Alignment explanation
Indices: 66077505--66077711 Score: 263
Period size: 112 Copynumber: 1.8 Consensus size: 111
66077495 GTGATTATGT
* * * *
66077505 GTAAGACCACGTTTAATACGTTGGCATCGATATGTTATTCTGATATATATGTGTGAGTAAGACCA
1 GTAAGACCACGTTTAATACGTTGGCATCGATATATGACTCTGATATATATGTGCGAGTAAGA-CA
* *
66077570 CATTTAATACATTGGCATCGATATGTGATTCTGATATATGTGTGCGA
65 CATTTAAGACAGTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* * *
66077617 GTAAGACCACGTTTAATACGTTGGCATGGATATATGGCTCTGATATATGTGTGCGAGTAAGA-AC
1 GTAAGACCACGTTTAATACGTTGGCATCGATATATGACTCTGATATATATGTGCGAGTAAGACAC
* ** *
66077681 CTGTCTGGGACAGTGGCATTGATATGTGATT
66 AT-T-TAAGACAGTGGCATCGATATGTGATT
66077712 ACATGTAAGA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
110 3 0.04
111 1 0.01
112 76 0.95
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (111 bp):
GTAAGACCACGTTTAATACGTTGGCATCGATATATGACTCTGATATATATGTGCGAGTAAGACAC
ATTTAAGACAGTGGCATCGATATGTGATTCTGATATATGTGTGCGA
Done.