Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 67 of 131
Found at i:22297073 original size:29 final size:28
Alignment explanation
Indices: 22297014--22297082 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
22297004 TAATAACAGT
* *
22297014 TTTAAATTAAAACAAAAAAGGAAATGAC
1 TTTAAATTAAAAAAAAAAAGGAAAAGAC
* *
22297042 TTTAATTTCAAAAAAAAAAAGGAAAAGGC
1 TTTAAATT-AAAAAAAAAAAGGAAAAGAC
22297071 TTTCAAA-TAAAA
1 TTT-AAATTAAAA
22297083 TAAGTAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 11 0.32
29 21 0.62
30 2 0.06
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.23
Consensus pattern (28 bp):
TTTAAATTAAAAAAAAAAAGGAAAAGAC
Found at i:22301185 original size:42 final size:42
Alignment explanation
Indices: 22301137--22301234 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
22301127 TCTCGGTATT
*
22301137 GCACACTTAGTGCCCGTTATACAACATCATCATTTTAATTTC
1 GCACACTTAGTGCCCATTATACAACATCATCATTTTAATTTC
* *
22301179 GCACACTTAGTGCCCATTATCCAACATCATTATTTTAATTTC
1 GCACACTTAGTGCCCATTATACAACATCATCATTTTAATTTC
22301221 GCACACTTAGTGCC
1 GCACACTTAGTGCC
22301235 ATTCATATAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (42 bp):
GCACACTTAGTGCCCATTATACAACATCATCATTTTAATTTC
Found at i:22302138 original size:16 final size:17
Alignment explanation
Indices: 22302105--22302138 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22302095 TATAAAGTTA
*
22302105 ATATTTACCTTATTACT
1 ATATTAACCTTATTACT
22302122 ATATTAACCTT-TTACT
1 ATATTAACCTTATTACT
22302138 A
1 A
22302139 ATAATTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAACCTTATTACT
Found at i:22307303 original size:2 final size:2
Alignment explanation
Indices: 22307265--22307289 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22307255 GAAAAGAATG
22307265 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
22307290 ATAAAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22310979 original size:23 final size:22
Alignment explanation
Indices: 22310953--22311008 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
22310943 ATAACCTTTA
22310953 TTTTATAAATTTTGTTCA-TAATT
1 TTTTATAAATTTT-TTCATTAA-T
* *
22310976 TTTTATAACTTTTTTTATTAAT
1 TTTTATAAATTTTTTCATTAAT
22310998 TTTTA-AAATTT
1 TTTTATAAATTT
22311009 AAAAGGGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 9 0.31
23 15 0.52
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTATAAATTTTTTCATTAAT
Found at i:22311001 original size:13 final size:12
Alignment explanation
Indices: 22310938--22310993 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
22310928 AAATTTTAAA
22310938 TTTTTATAACCTT
1 TTTTTATAA-CTT
*
22310951 TATTTTATAAATT
1 T-TTTTATAACTT
*
22310964 TTGTTCATAA--T
1 TT-TTTATAACTT
22310975 TTTTTATAACTT
1 TTTTTATAACTT
22310987 TTTTTAT
1 TTTTTAT
22310994 TAATTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 9 0.25
13 10 0.28
14 8 0.22
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (12 bp):
TTTTTATAACTT
Found at i:22311707 original size:17 final size:18
Alignment explanation
Indices: 22311685--22311727 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
22311675 ATAAAATTAC
22311685 ATAAAAAAATT-TAAAAT
1 ATAAAAAAATTATAAAAT
*
22311702 ATAAAAGAAATTATAAATT
1 ATAAAA-AAATTATAAAAT
22311721 ATAAAAA
1 ATAAAAA
22311728 TATATGTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAAAAAATTATAAAAT
Found at i:22311719 original size:18 final size:18
Alignment explanation
Indices: 22311685--22311727 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
22311675 ATAAAATTAC
22311685 ATAAAAAAATTTAAAA-T
1 ATAAAAAAATTTAAAATT
22311702 ATAAAAGAAA-TTATAAATT
1 ATAAAA-AAATTTA-AAATT
22311721 ATAAAAA
1 ATAAAAA
22311728 TATATGTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.39
18 7 0.30
19 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAAAAAATTTAAAATT
Found at i:22315415 original size:16 final size:16
Alignment explanation
Indices: 22315394--22315424 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22315384 TTCACTATTA
*
22315394 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
22315410 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
22315425 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:22322051 original size:14 final size:14
Alignment explanation
Indices: 22322032--22322058 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22322022 AAAGAACTCA
22322032 GATATTTCTATCAT
1 GATATTTCTATCAT
22322046 GATATTTCTATCA
1 GATATTTCTATCA
22322059 GATTTTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (14 bp):
GATATTTCTATCAT
Found at i:22322230 original size:15 final size:15
Alignment explanation
Indices: 22322210--22322243 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
22322200 TTTTGACAGA
22322210 AGAAAGATGAAGTGT
1 AGAAAGATGAAGTGT
22322225 AGAAAGATGAAGTGT
1 AGAAAGATGAAGTGT
22322240 AGAA
1 AGAA
22322244 GCAAGGTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.32, T:0.18
Consensus pattern (15 bp):
AGAAAGATGAAGTGT
Found at i:22326005 original size:50 final size:49
Alignment explanation
Indices: 22325940--22326516 Score: 271
Period size: 50 Copynumber: 11.5 Consensus size: 49
22325930 TTTGGAAAGT
* *
22325940 AAGATTCGCCATTGTGG-TTTCAATCTTTTTAACTGCAATGTCAGGGAAGC
1 AAGATTCACCGTTGTGGCTTT-AATCTTTTTAACTGCAATGTC-GGGAAGC
* * ** ** *
22325990 AAGATCCACCGTTGTGGCTTTAATCTATTCCACTGCACCGTCTGGGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGC
*** *
22326040 AAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGG-AAGC
* * *** ** * * *
22326090 AAGATTCACCGATGTGGCTTTAATCTGTTCCTCTGCACCGCTTGGGGAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATG-TCGGGAAGC
* * * * * *
22326140 AAGATTCACTGCTGTAGCTTTAATCTTTTTAACTGTAATTTCGGGGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGC
* * * * ** *** *
22326190 GAGATTCACCGATGTGACTTTAAT-TTGCTCCACTGCACCA-CAAGGGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTT-TTTAACTGCA--ATGTCGGGAAGC
* * * *
22326240 AGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTACAATGTCAGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGC
* * * ** *** ** * *
22326290 GAGATTCACTGATGTGGCTTTAATCTGCTCCGCTGCACCGCCAGGGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGC
* * ** * *
22326340 AGGATTCGCCACTGTGGCTTTAATCTTTTTAACTGAAATGTTGAGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCG-GGAAGC
* * * * * * ** * ** *
22326390 GAGATTCTCTGATGTGGCTTTAATCTGCTCT-ACTGCACCGCCAAAGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCT-TTTTAACTGCAATGTC-GGGAAGC
* * * *
22326440 AGGATTCACCGCTGTGGCTTTAATCTTTTTTAACTACAATGTCGGGGAAAC
1 AAGATTCACCGTTGTGGCTTTAATC-TTTTTAACTGCAATGTC-GGGAAGC
* *
22326491 GAGATTCACCGATGTGGCTTTAATCT
1 AAGATTCACCGTTGTGGCTTTAATCT
22326517 GCTCTACTGC
Statistics
Matches: 372, Mismatches: 140, Indels: 30
0.69 0.26 0.06
Matches are distributed among these distances:
48 1 0.00
49 7 0.02
50 319 0.86
51 44 0.12
52 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (49 bp):
AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGAAGC
Found at i:22326109 original size:100 final size:100
Alignment explanation
Indices: 22325936--22326545 Score: 704
Period size: 100 Copynumber: 6.1 Consensus size: 100
22325926 AACTTTTGGA
* ** * *
22325936 AAGTAAGATTCGCCATTGTGG-TTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATCCACC
1 AAGTAGGATTCGCCGCTGTGGCTTT-AATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACC
* ** * *
22326000 GTTGTGGCTTTAATCTATTCCACTGCACCGTCTGGG
65 GATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* ** * * *
22326036 AAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC-GGGAAAGCAAGATTCACC
1 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGG-AAGCGAGATTCACC
* * **
22326100 GATGTGGCTTTAATCTGTTCCTCTGCACCGCTTGGG
65 GATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* * * * * * * * *
22326136 GAGTAAGATTCACTGCTGTAGCTTTAATCTTTTTAACTGTAATTTCGGGGAAGTGAGATTCACCG
1 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACCG
* * * *
22326201 ATGTGACTTTAATTTGCTCCACTGCACCACAAGGG
66 ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* *
22326236 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTACAATGTCAGGGAAGCGAGATTCACTG
1 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACCG
*
22326301 ATGTGGCTTTAATCTGCTCCGCTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* * * * *
22326336 AAGTAGGATTCGCCACTGTGGCTTTAATCTTTTTAACTGAAATGT-TGAGGAAGCGAGATTCTCT
1 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAG-GGAAGCGAGATTCACC
* **
22326400 GATGTGGCTTTAATCTGCTCTACTGCACCGCCAAAG
65 GATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* * * *
22326436 AAGTAGGATTCACCGCTGTGGCTTTAATCTTTTTTAACTACAATGTCGGGGAAACGAGATTCACC
1 AAGTAGGATTCGCCGCTGTGGCTTTAATC-TTTTTAACTGCAATGTCAGGGAAGCGAGATTCACC
* * *
22326501 GATGTGGCTTTAATCTGCTCTACTGCACCACCAAGG
65 GATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
22326537 AAGTAGGAT
1 AAGTAGGAT
22326546 CTGTAATTCT
Statistics
Matches: 444, Mismatches: 60, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
99 4 0.01
100 363 0.82
101 76 0.17
102 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACCG
ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
Found at i:22327941 original size:8 final size:7
Alignment explanation
Indices: 22327930--22327970 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
22327920 CTATTTTTAC
22327930 TTTTTCA
1 TTTTTCA
22327937 TTTTTTCA
1 -TTTTTCA
22327945 TTTTTCA
1 TTTTTCA
22327952 -TTTTCA
1 TTTTTCA
22327958 TTTTTCA
1 TTTTTCA
22327965 TCTTTT
1 T-TTTT
22327971 TTTTTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 14 0.45
8 11 0.35
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:22327955 original size:13 final size:13
Alignment explanation
Indices: 22327939--22327965 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22327929 CTTTTTCATT
22327939 TTTTCATTTTTCA
1 TTTTCATTTTTCA
22327952 TTTTCATTTTTCA
1 TTTTCATTTTTCA
22327965 T
1 T
22327966 CTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:22328365 original size:19 final size:20
Alignment explanation
Indices: 22328324--22328376 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
22328314 TGACCTCTCC
* *
22328324 TTTTCTTTTTTTCTCTTTCTT
1 TTTTCTTTTATT-TCATTCTT
22328345 TTTTCTTTTATTTCATT-TT
1 TTTTCTTTTATTTCATTCTT
22328364 TTTAT-TTTTATTT
1 TTT-TCTTTTATTT
22328377 TTATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.45
20 5 0.17
21 11 0.38
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTCTTTTATTTCATTCTT
Found at i:22328377 original size:12 final size:12
Alignment explanation
Indices: 22328362--22328430 Score: 70
Period size: 12 Copynumber: 5.9 Consensus size: 12
22328352 TTATTTCATT
22328362 TTTTTATTTTTA
1 TTTTTATTTTTA
22328374 TTTTTATTTTTA
1 TTTTTATTTTTA
* *
22328386 TTTTTCTTCTT-
1 TTTTTATTTTTA
* *
22328397 TTTTT-TTTGTC
1 TTTTTATTTTTA
*
22328408 TTTTGATTTTTA
1 TTTTTATTTTTA
*
22328420 TTTTGATTTTT
1 TTTTTATTTTT
22328431 TTTGAATTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
10 3 0.06
11 9 0.19
12 36 0.75
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.81
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:22328378 original size:31 final size:30
Alignment explanation
Indices: 22328325--22328388 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
22328315 GACCTCTCCT
* *
22328325 TTTCTTTTTTTCTCTTTCTTTTT-TCTTTTA
1 TTTCTTTTTTTATCTTTATTTTTAT-TTTTA
*
22328355 TTTCATTTTTTTATTTTTATTTTTATTTTTA
1 TTTC-TTTTTTTATCTTTATTTTTATTTTTA
22328386 TTT
1 TTT
22328389 TTCTTCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.14
31 24 0.83
32 1 0.03
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (30 bp):
TTTCTTTTTTTATCTTTATTTTTATTTTTA
Found at i:22333694 original size:5 final size:6
Alignment explanation
Indices: 22333678--22333712 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
22333668 GGGGATTTCC
22333678 ATTTTT ATTTTT ATTTTT ATTTTT CATTTTGT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT -ATTTT-T ATT
22333713 CGAAGATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.67
7 8 0.30
8 1 0.04
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:22342896 original size:124 final size:124
Alignment explanation
Indices: 22342676--22342928 Score: 434
Period size: 124 Copynumber: 2.0 Consensus size: 124
22342666 AACACGGAGT
*
22342676 AGTAGGTCATGGAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATTACTTCTAG
1 AGTAGGTCATGGAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATCACTTCTAG
* * * *
22342741 TAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGAAGCGTTTTTGCTAC
66 CAGGATGCTATTTAAGAAGAATTTGTGAAATCGCACCCTCGTGGAAGCGCTTTTGCTAC
*
22342800 AGTAGGTCATGGAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAG
1 AGTAGGTCATGGAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATCACTTCTAG
* *
22342865 CATGATGCTATTTAAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTAC
66 CAGGATGCTATTTAAGAAGAATTTGTGAAATCGCACCCTCGTGGAAGCGCTTTTGCTAC
22342924 AGTAG
1 AGTAG
22342929 CATTTTTGGG
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 121 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (124 bp):
AGTAGGTCATGGAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATAAAATCACTTCTAG
CAGGATGCTATTTAAGAAGAATTTGTGAAATCGCACCCTCGTGGAAGCGCTTTTGCTAC
Found at i:22346101 original size:49 final size:49
Alignment explanation
Indices: 22345983--22346103 Score: 206
Period size: 49 Copynumber: 2.5 Consensus size: 49
22345973 TAAGAATATT
* *
22345983 AACTATTTTGTATTTTATTAAATAAAATAATATCAGAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATAAAATAATATCAAAATATTCAAAATA
*
22346032 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATAAAATAATATCAAAATATTCAAAATA
*
22346081 AACTATTTTTTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
22346104 TAGTATAAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATAAAATAATATCAAAATATTCAAAATA
Found at i:22346592 original size:18 final size:18
Alignment explanation
Indices: 22346569--22346607 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
22346559 ACTGGGAAAG
*
22346569 GGATACATATAAGGGTTA
1 GGATACATATAAGGGCTA
22346587 GGATACATATAAGGGCTA
1 GGATACATATAAGGGCTA
22346605 GGA
1 GGA
22346608 AACGCACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (18 bp):
GGATACATATAAGGGCTA
Found at i:22347260 original size:7 final size:7
Alignment explanation
Indices: 22347250--22347274 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22347240 TTATATACAT
22347250 AATACTA
1 AATACTA
22347257 AATACTA
1 AATACTA
22347264 AATACTA
1 AATACTA
22347271 AATA
1 AATA
22347275 NNNNNNNNNN
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:22348416 original size:13 final size:12
Alignment explanation
Indices: 22348395--22348425 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22348385 ACTTTTACGG
*
22348395 TTTAAAAAAAAT
1 TTTAAAAAAAAA
22348407 TTTAAAAAAAAA
1 TTTAAAAAAAAA
22348419 TTTAAAA
1 TTTAAAA
22348426 TTATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TTTAAAAAAAAA
Found at i:22351199 original size:11 final size:11
Alignment explanation
Indices: 22351183--22351214 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
22351173 TCTCAGAAAG
22351183 AAATTTCATAA
1 AAATTTCATAA
22351194 AAATTTCATAA
1 AAATTTCATAA
*
22351205 AAAATTCATA
1 AAATTTCATA
22351215 GCACAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATTTCATAA
Found at i:22358318 original size:35 final size:35
Alignment explanation
Indices: 22358232--22358343 Score: 199
Period size: 35 Copynumber: 3.2 Consensus size: 35
22358222 TACTCTCTGT
*
22358232 TTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGTA
1 TTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCA
*
22358267 TTGGT-TGTTTCAGTTGGACTAGCTCTTATTAGCA
1 TTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCA
22358301 TTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCA
22358336 TTGGTGTG
1 TTGGTGTG
22358344 ATTTGGATGG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
34 32 0.44
35 41 0.56
ACGTcount: A:0.16, C:0.12, G:0.29, T:0.43
Consensus pattern (35 bp):
TTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCA
Found at i:22367062 original size:43 final size:42
Alignment explanation
Indices: 22366961--22367064 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 42
22366951 TATCAATTTG
*
22366961 TGATTTACATGTAAGACCATGTCTGAGACATCGGCATCGTATA
1 TGATTT-CATGTAAGACCATGTCGGAGACATCGGCATCGTATA
* * * * * *
22367004 CGAGTTCGTGTAAGACCCTGTCGGGGACAGT-GGCATCGGTATT
1 TGATTTCATGTAAGACCATGTCGGAGACA-TCGGCATC-GTATA
22367047 TGATTTCATGTAAGACCA
1 TGATTTCATGTAAGACCA
22367065 CGTCTGGGAC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
42 25 0.52
43 23 0.48
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCGGAGACATCGGCATCGTATA
Found at i:22367074 original size:43 final size:42
Alignment explanation
Indices: 22366961--22367087 Score: 116
Period size: 43 Copynumber: 3.0 Consensus size: 42
22366951 TATCAATTTG
* *
22366961 TGATTTACATGTAAGACCATGTCTGAGACA-TCGGCATCGTATA
1 TGATTT-CATGTAAGACCACGTCTGGGACAGT-GGCATCGTATA
* * * * *
22367004 CGAGTTCGTGTAAGACC-CTGTCGGGGACAGTGGCATCGGTATT
1 TGATTTCATGTAAGACCAC-GTCTGGGACAGTGGCATC-GTATA
*
22367047 TGATTTCATGTAAGACCACGTCTGGGAC-GTTGGCATTGTAT
1 TGATTTCATGTAAGACCACGTCTGGGACAG-TGGCATCGTAT
22367088 GAGCTTTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
42 29 0.43
43 37 0.55
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (42 bp):
TGATTTCATGTAAGACCACGTCTGGGACAGTGGCATCGTATA
Found at i:22377684 original size:16 final size:15
Alignment explanation
Indices: 22377660--22377689 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22377650 CTTTAATTAC
22377660 TTTTAATTTTATATG
1 TTTTAATTTTATATG
22377675 TTTTATATTTTATAT
1 TTTTA-ATTTTATAT
22377690 TTTATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTAATTTTATATG
Found at i:22397896 original size:19 final size:20
Alignment explanation
Indices: 22397874--22397922 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
22397864 AAAAAACCTA
*
22397874 TAAAATTA-TTAAAAATTAT
1 TAAAATTATTTAAAAAGTAT
*
22397893 TAAATTTATTTAAAAAGTA-
1 TAAAATTATTTAAAAAGTAT
*
22397912 TAAAAATATTT
1 TAAAATTATTT
22397923 TTCAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAAAATTATTTAAAAAGTAT
Found at i:22398299 original size:5 final size:6
Alignment explanation
Indices: 22398282--22398306 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22398272 TAATCACATC
22398282 TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT T
22398307 AAATACATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:22405652 original size:44 final size:44
Alignment explanation
Indices: 22405581--22406109 Score: 282
Period size: 44 Copynumber: 12.2 Consensus size: 44
22405571 ACTTGATGCG
* * * *
22405581 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * * *
22405625 ATTTGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCA
* * *
22405669 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTT-CTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCA
* * ** * * *
22405713 GTCTGCCCCACTGTTACTTCAGGGGGATAA-AACT-TGT-TTTCCCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTT--CA
* * * * *
22405757 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-CTGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
** * * *
22405798 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * * **
22405842 ATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCA
* * * * *
22405886 ATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGCTT-CTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCA
* **
22405930 ATCTGC-CCTACTGCAACTTCAGGGGGATAAGA-CT-TGTTTTATCA
1 ATCTGCTCC-ACTGCAACTTCAGGGAGATAAGATCTAT-TACT-TCA
* * * * * * * * *
22405974 GTCTGGTCCATTACAACTTCAGAGAGATAAGA-C-CTGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
** * * *
22406015 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
** * * * **
22406059 ATCCACTCCACTACAACTTTAGGGAGATAGGAT-TATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCA
22406103 ATCTGCT
1 ATCTGCT
22406110 TCTTTACACT
Statistics
Matches: 368, Mismatches: 92, Indels: 50
0.72 0.18 0.10
Matches are distributed among these distances:
41 56 0.15
42 7 0.02
43 20 0.05
44 278 0.76
45 5 0.01
46 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
Found at i:22405899 original size:173 final size:173
Alignment explanation
Indices: 22405638--22405962 Score: 399
Period size: 173 Copynumber: 1.9 Consensus size: 173
22405628 TGCTCCACTA
* * * *
22405638 CAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATT
1 CAACTTCAGAGAGATAAGATTATCGACTTCAATCCGCTCCACTACAACCTCAGGGAGATAAGATT
** * * *
22405703 TGCTTCTTCAGTCTGCCCCACTGTTACTTCAGGGGGATAAAACTTG-TT-TTCCCAGTCTGCTCC
66 TGCGGCTTCAATCTGCCCCACTGTAACTTCAGGGAGATAAAACTTGCTTCTT-CCA-TCTGC-CC
22405766 -ACTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
128 TACTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
* * * *
22405811 CAACTTCAGAGAGATAAGATCTAT-TACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGAT
1 CAACTTCAGAGAGATAAGAT-TATCGACTTCAATCCGCTCCACTACAACCTCAGGGAGATAAGAT
* * * * *
22405875 TAT-CGGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGCTTCTTCGATCTGCCCT
65 T-TGCGGCTTCAATCTGCCCCACTGTAACTTCAGGGAGATAAAACTTGCTTCTTCCATCTGCCCT
*
22405939 ACTGCAACTTCAGGGGGATAAGAC
129 ACTGCAACTTCAGGGAGATAAGAC
22405963 TTGTTTTATC
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
172 2 0.02
173 116 0.91
174 8 0.06
175 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (173 bp):
CAACTTCAGAGAGATAAGATTATCGACTTCAATCCGCTCCACTACAACCTCAGGGAGATAAGATT
TGCGGCTTCAATCTGCCCCACTGTAACTTCAGGGAGATAAAACTTGCTTCTTCCATCTGCCCTAC
TGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
Found at i:22405951 original size:217 final size:217
Alignment explanation
Indices: 22405568--22406109 Score: 870
Period size: 217 Copynumber: 2.5 Consensus size: 217
22405558 TCTAGTCGGC
* ** * **
22405568 AAGACTTGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATTTGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
*
22405633 CACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
** *
22405698 AGATTTGCTTCTTCAGTCTGCCCCACTGTTACTTCAGGGGGATAAAACTTGTTTTCCCAGTCTGC
131 AGATTTGCTTCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAAACTTGTTTTACCAGTCTGC
* *
22405763 TCCACTGCAACTTCAGGGAGAT
196 TCCACTACAACTTCAGAGAGAT
22405785 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
* * *
22405850 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
* * *
22405915 AGATTTGCTTCTTC-GATCTGCCCTACTGCAACTTCAGGGGGATAAGACTTGTTTTATCAGTCTG
131 AGATTTGCTTCTTCAG-TCTGCCCCACTGCAACTTCAGGGGGATAAAACTTGTTTTACCAGTCTG
* *
22405979 GTCCATTACAACTTCAGAGAGAT
195 CTCCACTACAACTTCAGAGAGAT
*
22406002 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
*
22406067 CACTACAACTTTAGGGAGATAGGATTATCGGCTTCAATCTGCT
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCT
22406110 TCTTTACACT
Statistics
Matches: 302, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
216 1 0.00
217 301 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (217 bp):
AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
AGATTTGCTTCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAAACTTGTTTTACCAGTCTGC
TCCACTACAACTTCAGAGAGAT
Found at i:22407000 original size:30 final size:30
Alignment explanation
Indices: 22406964--22407021 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
22406954 CTCAAATTTC
* * *
22406964 CAACCTTTAAATTTGGTGTGTTCTAAACTT
1 CAACCTTTAAATCTAGTGCGTTCTAAACTT
22406994 CAACCTTTAAATCTAGTGCGTTCTAAAC
1 CAACCTTTAAATCTAGTGCGTTCTAAAC
22407022 AATAGTCCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (30 bp):
CAACCTTTAAATCTAGTGCGTTCTAAACTT
Found at i:22407637 original size:7 final size:7
Alignment explanation
Indices: 22407608--22407665 Score: 75
Period size: 7 Copynumber: 8.3 Consensus size: 7
22407598 CCTTAGCCTC
22407608 TTCATTT
1 TTCATTT
22407615 TT-ACTTT
1 TTCA-TTT
*
22407622 TCCACTTT
1 TTCA-TTT
22407630 TTCATTT
1 TTCATTT
22407637 TTCATTT
1 TTCATTT
22407644 TTCA-TT
1 TTCATTT
22407650 TTCATTT
1 TTCATTT
22407657 TTCATTT
1 TTCATTT
22407664 TT
1 TT
22407666 TGACTCAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
6 7 0.15
7 31 0.67
8 8 0.17
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TTCATTT
Found at i:22407651 original size:13 final size:14
Alignment explanation
Indices: 22407608--22407664 Score: 66
Period size: 13 Copynumber: 4.1 Consensus size: 14
22407598 CCTTAGCCTC
22407608 TTCATTTTT-ACTT
1 TTCATTTTTCACTT
*
22407621 TTCCACTTTTTCATTT
1 TT-CA-TTTTTCACTT
22407637 TTCATTTTTCA-TT
1 TTCATTTTTCACTT
22407650 TTCATTTTTCA-TT
1 TTCATTTTTCACTT
22407663 TT
1 TT
22407665 TTGACTCAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
13 19 0.47
14 9 0.22
15 7 0.17
16 5 0.12
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCATTTTTCACTT
Found at i:22407653 original size:20 final size:20
Alignment explanation
Indices: 22407628--22407665 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
22407618 CTTTTCCACT
22407628 TTTTCATTTTTCATTTTTCA
1 TTTTCATTTTTCATTTTTCA
22407648 TTTTCATTTTTCATTTTT
1 TTTTCATTTTTCATTTTT
22407666 TGACTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTCATTTTTCATTTTTCA
Found at i:22408556 original size:7 final size:7
Alignment explanation
Indices: 22408544--22408577 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
22408534 CCATCTAGAT
22408544 TTTTTTC
1 TTTTTTC
22408551 TTTTTTC
1 TTTTTTC
22408558 TTCTTTTC
1 TT-TTTTC
*
22408566 TTCTTTC
1 TTTTTTC
22408573 TTTTT
1 TTTTT
22408578 CTCTCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:22408594 original size:6 final size:6
Alignment explanation
Indices: 22408585--22408619 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
22408575 TTTCTCTCAT
*
22408585 TTTTTA TTTTGA TTTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA TTTT
22408620 TTTTGAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:22408620 original size:13 final size:13
Alignment explanation
Indices: 22408583--22408619 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
22408573 TTTTTCTCTC
*
22408583 ATTTTTTATTTTG
1 ATTTTTGATTTTG
22408596 ATTTTTGATTTTG
1 ATTTTTGATTTTG
22408609 A-TTTTGATTTT
1 ATTTTTGATTTT
22408620 TTTTGAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (13 bp):
ATTTTTGATTTTG
Found at i:22413258 original size:17 final size:17
Alignment explanation
Indices: 22413236--22413269 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22413226 TAGGTTTTTT
22413236 TTTCTTTTTTTAAAAAA
1 TTTCTTTTTTTAAAAAA
22413253 TTTCTTTTTTTAAAAAA
1 TTTCTTTTTTTAAAAAA
22413270 ATGTATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTCTTTTTTTAAAAAA
Found at i:22413263 original size:18 final size:17
Alignment explanation
Indices: 22413236--22413271 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
22413226 TAGGTTTTTT
*
22413236 TTTCTTTTTTTAAAAAA
1 TTTCTTTTTTAAAAAAA
22413253 TTTCTTTTTTTAAAAAAA
1 TTTC-TTTTTTAAAAAAA
22413271 T
1 T
22413272 GTATGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCTTTTTTAAAAAAA
Found at i:22415159 original size:27 final size:27
Alignment explanation
Indices: 22415071--22415160 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
22415061 TATCACAACT
* *
22415071 TGTGAGCAATCTAAATATTACAGCTTG
1 TGTGAGCAATCTAAACATTACAACTTG
* * *
22415098 TGTGAGAAATCTAAACATTATAGCTTG
1 TGTGAGCAATCTAAACATTACAACTTG
*
22415125 TGTGAGCAATCTACACATTACAACTTG
1 TGTGAGCAATCTAAACATTACAACTTG
*
22415152 TGTAAGCAA
1 TGTGAGCAA
22415161 ACCTAAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (27 bp):
TGTGAGCAATCTAAACATTACAACTTG
Found at i:22416123 original size:25 final size:25
Alignment explanation
Indices: 22416070--22416135 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
22416060 CAGAACGAAG
* * *
22416070 CAGAACATAACAAATCA-AGCAGAA
1 CAGAACAAAACAGAGCAGAGCAGAA
* **
22416094 TAGAATTAAACAGAGCAGAGCAGAA
1 CAGAACAAAACAGAGCAGAGCAGAA
22416119 CAGAACAAAACAGAGCA
1 CAGAACAAAACAGAGCA
22416136 TATTAGAACA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.56, C:0.18, G:0.18, T:0.08
Consensus pattern (25 bp):
CAGAACAAAACAGAGCAGAGCAGAA
Found at i:22416125 original size:20 final size:20
Alignment explanation
Indices: 22416109--22416170 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
22416099 TTAAACAGAG
*
22416109 CAGAGCAGAACAGAACAAAA
1 CAGAGCAAAACAGAACAAAA
* **
22416129 CAGAGCATATTAGAACAAAA
1 CAGAGCAAAACAGAACAAAA
* *
22416149 CAGAGTAAAACAGAACAGAA
1 CAGAGCAAAACAGAACAAAA
22416169 CA
1 CA
22416171 TAGTAGAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.58, C:0.18, G:0.18, T:0.06
Consensus pattern (20 bp):
CAGAGCAAAACAGAACAAAA
Found at i:22416143 original size:25 final size:25
Alignment explanation
Indices: 22416101--22416150 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22416091 GAATAGAATT
*
22416101 AAACAGAGCAGAGCAGAACAGAACA
1 AAACAGAGCAGAGCAGAACAAAACA
* **
22416126 AAACAGAGCATATTAGAACAAAACA
1 AAACAGAGCAGAGCAGAACAAAACA
22416151 GAGTAAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.58, C:0.18, G:0.18, T:0.06
Consensus pattern (25 bp):
AAACAGAGCAGAGCAGAACAAAACA
Found at i:22427181 original size:8 final size:7
Alignment explanation
Indices: 22427151--22427195 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
22427141 CCGTAGAAGA
22427151 GGGAAAT
1 GGGAAAT
22427158 GGGAAAT
1 GGGAAAT
22427165 GGGAAAT
1 GGGAAAT
22427172 GGGAAAAT
1 GGG-AAAT
*
22427180 GGGTTAAT
1 GGG-AAAT
22427188 GGGAAAT
1 GGGAAAT
22427195 G
1 G
22427196 TATTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.18
Consensus pattern (7 bp):
GGGAAAT
Found at i:22427928 original size:32 final size:33
Alignment explanation
Indices: 22427865--22427931 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
22427855 AACACATTTA
*
22427865 TTTAGGTTACTCTTCTACTCTGCCTGTAATAGT
1 TTTAGGTTACTCTTCTACACTGCCTGTAATAGT
22427898 TTTAGGTTACTCTTCTACACT-CCTGTAATAGT
1 TTTAGGTTACTCTTCTACACTGCCTGTAATAGT
22427930 TT
1 TT
22427932 CAGCTGAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (33 bp):
TTTAGGTTACTCTTCTACACTGCCTGTAATAGT
Found at i:22434710 original size:38 final size:39
Alignment explanation
Indices: 22434604--22434716 Score: 122
Period size: 38 Copynumber: 2.9 Consensus size: 39
22434594 CTTCGACCTC
* *
22434604 GAGTCGATGAAACACTGGGTGTCACTATTTTACTTCGGATA
1 GAGTCGATGAGACACTGGGTGTCA--ACTTTACTTCGGATA
* * * * *
22434645 GATTCGATGAGATATTGGGTATC-ACTTTACTTCGGCTA
1 GAGTCGATGAGACACTGGGTGTCAACTTTACTTCGGATA
*
22434683 G-GTCGATGAGACACTGGGTGTCAACTTTGCTTCG
1 GAGTCGATGAGACACTGGGTGTCAACTTTACTTCG
22434717 AACTATCCGA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
37 17 0.29
38 24 0.41
41 18 0.31
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (39 bp):
GAGTCGATGAGACACTGGGTGTCAACTTTACTTCGGATA
Found at i:22439186 original size:142 final size:141
Alignment explanation
Indices: 22438929--22439216 Score: 533
Period size: 142 Copynumber: 2.0 Consensus size: 141
22438919 CCTCAATTGT
22438929 TTTTTATTTTGTTCTAAATTTATGAACATGATTGTTAAATATATTTCTGATTTAGATTTAATTAT
1 TTTTTATTTTGTTCTAAATTTATGAACATGATTGTTAAATATATTTCTGATTTAGATTTAATTAT
*
22438994 AATGACTCAACTCTATATATGTTAGATTGATTGCATTCTTTTAACTTAGATTATTAAAATTATGT
66 AATGACTCAACACTATATATGTTAGATTGATTGCATTCTTTTAACTTAGATTATTAAAATTATGT
22439059 TAATGATGTTA
131 TAATGATGTTA
22439070 TGTTTTATTTTGTTCTAAATTTATGAACATGATTGTTAAATATATTTCT-ACTTTAGATTTAATT
1 T-TTTTATTTTGTTCTAAATTTATGAACATGATTGTTAAATATATTTCTGA-TTTAGATTTAATT
*
22439134 ATAATGACTCAACACTATTTATGTTAGATTGATTGCATTCTTTTAACTTAGATTATTAAAATTAT
64 ATAATGACTCAACACTATATATGTTAGATTGATTGCATTCTTTTAACTTAGATTATTAAAATTAT
22439199 GTTAATGATGTTA
129 GTTAATGATGTTA
22439212 TTTTT
1 TTTTT
22439217 GTGGTTGATT
Statistics
Matches: 143, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
141 6 0.04
142 137 0.96
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.50
Consensus pattern (141 bp):
TTTTTATTTTGTTCTAAATTTATGAACATGATTGTTAAATATATTTCTGATTTAGATTTAATTAT
AATGACTCAACACTATATATGTTAGATTGATTGCATTCTTTTAACTTAGATTATTAAAATTATGT
TAATGATGTTA
Found at i:22440292 original size:9 final size:9
Alignment explanation
Indices: 22440278--22440314 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
22440268 CCCCTAGTAA
22440278 TTCACTCAT
1 TTCACTCAT
22440287 TTCACTCAT
1 TTCACTCAT
22440296 TTCACTCAT
1 TTCACTCAT
22440305 CCTTCACTCA
1 --TTCACTCA
22440315 CCAGGAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.41
Consensus pattern (9 bp):
TTCACTCAT
Found at i:22449496 original size:95 final size:95
Alignment explanation
Indices: 22449333--22449519 Score: 279
Period size: 95 Copynumber: 2.0 Consensus size: 95
22449323 AAGGCAAAAC
* * *
22449333 TTTTGGGCCAATTTATACATCTGTTTTTACCAGAAAAAGATAACTACACGACACTTTGAATTTTC
1 TTTTGAGCCAATTTATACATCTATTTTTACCAGAAAAAGATAACTAAACGACACTTTGAATTTTC
22449398 ATAAGCTGAATTCTTCAAGTTTTGTGGAGT
66 ATAAGCTGAATTCTTCAAGTTTTGTGGAGT
* * *
22449428 TTTTGAGCCAATTTATTA-TTCTATTTTTACCAGAAAAAGATGACTAAAC-ATCATTTTGAATTT
1 TTTTGAGCCAATTTA-TACATCTATTTTTACCAGAAAAAGATAACTAAACGA-CACTTTGAATTT
*
22449491 TCATAAGCTGAATTTTTCAAGTTTTGTGG
64 TCATAAGCTGAATTCTTCAAGTTTTGTGG
22449520 GGTACATTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
94 1 0.01
95 80 0.96
96 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (95 bp):
TTTTGAGCCAATTTATACATCTATTTTTACCAGAAAAAGATAACTAAACGACACTTTGAATTTTC
ATAAGCTGAATTCTTCAAGTTTTGTGGAGT
Found at i:22466700 original size:49 final size:50
Alignment explanation
Indices: 22466634--22466873 Score: 157
Period size: 50 Copynumber: 4.7 Consensus size: 50
22466624 GATAATAACA
*
22466634 TGCCAAAT-CCATGTCCCAAACATGGTCTTACATGGGATGTT-TC-T-TGTAC
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-TAC
* * **
22466683 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTAC
* *** ** * ***
22466733 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTAC
* * * * **
22466783 TGCAAATGCCATTTCCCAGAAATGGTATTACATGGGACCCTCTCATAACCTCAATGA-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCAT-A--T---T-AC
22466840 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
22466874 NNNNNNNNNN
Statistics
Matches: 149, Mismatches: 30, Indels: 16
0.76 0.15 0.08
Matches are distributed among these distances:
48 6 0.04
49 32 0.21
50 71 0.48
51 9 0.06
54 1 0.01
57 30 0.20
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATTAC
Found at i:22466758 original size:50 final size:52
Alignment explanation
Indices: 22466683--22466873 Score: 174
Period size: 50 Copynumber: 3.7 Consensus size: 52
22466673 TTTCTTGTAC
* * **
22466683 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATAT-TGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATATATGG
* *** * *
22466733 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGA-CCTCTCATCT-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATATATGG
* * * * *
22466783 TGCAAATGCCATTTCCCAGAAATGGTATTACATGGGACCCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCAT-A--T--ATGG
22466840 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
22466874 NNNNNNNNNN
Statistics
Matches: 109, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
50 69 0.63
51 8 0.07
54 1 0.01
57 31 0.28
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATATATGG
Found at i:22467788 original size:43 final size:43
Alignment explanation
Indices: 22467738--22467953 Score: 267
Period size: 43 Copynumber: 5.0 Consensus size: 43
22467728 CGCTTTCACT
* *
22467738 ACAAACGCCATTAAAGACCAGGACCTTTAGCGGCGCTTTTCCT
1 ACAAACGCCCTTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
22467781 ACAAACGCCGC-TAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCC-CTTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
*
22467824 ACAAACGCCGC-TAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCC-CTTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
* * * * * *
22467867 ACAAATGCCGCTAAAAGATCATGACCTCTAGCGGCGCTTTTCCA
1 ACAAACGCC-CTTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
* * *
22467911 AC-AACGCCGCTAAAAGACCATGACCTCTAGCGGCGCTTTTCCC
1 ACAAACGCC-CTTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
22467954 TATATGGCTC
Statistics
Matches: 159, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 130 0.82
44 29 0.18
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.20
Consensus pattern (43 bp):
ACAAACGCCCTTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
Found at i:22467839 original size:86 final size:87
Alignment explanation
Indices: 22467738--22467953 Score: 310
Period size: 86 Copynumber: 2.5 Consensus size: 87
22467728 CGCTTTCACT
** * *
22467738 ACAAACGCCATTAAAGACCAGGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCT-AAAGACCAG
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGACCAG
* *
22467802 GACCTTTAGCGGCGCTTTTCCC
66 GACCTCTAGCGGCGCTTTTCCA
* * *
22467824 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAAGATCAT
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGACCAG
22467889 GACCTCTAGCGGCGCTTTTCCA
66 GACCTCTAGCGGCGCTTTTCCA
* *
22467911 AC-AACGCCGCTAAAAGACCATGACCTCTAGCGGCGCTTTTCCC
1 ACAAACGCCGCT-AAAGACCAAGACCTTTAGCGGCGCTTTTCCC
22467954 TATATGGCTC
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
86 59 0.50
87 58 0.50
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.20
Consensus pattern (87 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGACCAG
GACCTCTAGCGGCGCTTTTCCA
Found at i:22471603 original size:70 final size:70
Alignment explanation
Indices: 22471486--22471626 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
22471476 TTTATAAAAT
22471486 AAAACCTACTTTTGCAAATCCAACCATCCAATATACAATTAAGTCATTAATAACAACAATTAAAC
1 AAAACCTACTTTTGCAAATCCAACCATCCAATATACAATTAAGTCATTAATAACAACAATTAAAC
22471551 CTTTA
66 CTTTA
* *
22471556 AAAACCTATTTTTGCAAATCCAACCATCCAATATACAATTAATTCATTAATAACAACAATTAAAC
1 AAAACCTACTTTTGCAAATCCAACCATCCAATATACAATTAAGTCATTAATAACAACAATTAAAC
22471621 CTTTA
66 CTTTA
22471626 A
1 A
22471627 TTTAACACAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (70 bp):
AAAACCTACTTTTGCAAATCCAACCATCCAATATACAATTAAGTCATTAATAACAACAATTAAAC
CTTTA
Found at i:22472469 original size:2 final size:2
Alignment explanation
Indices: 22472462--22472494 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22472452 AAAACAAGCA
22472462 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22472495 AAGCTCTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22485206 original size:30 final size:29
Alignment explanation
Indices: 22485146--22485206 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
22485136 GCTTTTTGAA
* *
22485146 AATATTTACAAAAGAGGCATCTAATGTTT
1 AATATTTACAAAAGAGGCACCAAATGTTT
*
22485175 AATATTTACAAAA-AGAGCAACCAAATTTTT
1 AATATTTACAAAAGAG-GC-ACCAAATGTTT
22485205 AA
1 AA
22485207 AAATAATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 15 0.56
30 10 0.37
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (29 bp):
AATATTTACAAAAGAGGCACCAAATGTTT
Found at i:22491891 original size:3 final size:3
Alignment explanation
Indices: 22491883--22491960 Score: 147
Period size: 3 Copynumber: 26.0 Consensus size: 3
22491873 TATGCTCGAA
*
22491883 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
22491931 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
22491961 TAAAAAAAAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22493916 original size:517 final size:517
Alignment explanation
Indices: 22492941--22494496 Score: 3004
Period size: 517 Copynumber: 3.0 Consensus size: 517
22492931 CTTGAAGAAG
*
22492941 AGAAAGTGACCCAATTGTGCTAAGTGAAGAGGACTAATCCAGCAAGGATTGGGCAGCCCAAAACC
1 AGAAAGTGACCCAATTGTGCTAAGTGAAGAGGACTAATCCAACAAGGATTGGGCAGCCCAAAACC
*
22493006 GTCTATATAGCTAACCCAATCAGCTTATTTTTAATAATTGCAAAACAAACCTTGAAATTTCCCTT
66 GTCTATATAGCTAACCCAATTAGCTTATTTTTAATAATTGCAAAACAAACCTTGAAATTTCCCTT
22493071 AATTCTGTTCAAACCCCTCCTCTTTCCATGCATTTTTAACCCAAGCTAAAAATAGCAAGTTTGAA
131 AATTCTGTTCAAACCCCTCCTCTTTCCATGCATTTTTAACCCAAGCTAAAAATAGCAAGTTTGAA
22493136 GCAAACAACCCTTGCTCAAAGCATGGCCGGCCAAGGGAGAGGTAGTGGCTGATATTTATTTGCTA
196 GCAAACAACCCTTGCTCAAAGCATGGCCGGCCAAGGGAGAGGTAGTGGCTGATATTTATTTGCTA
*
22493201 CTTTTAGAATCCATTCTTACCTATAAATACCCCTCTTCCCTTCCTAATTTCACACAACAAATTTC
261 CTTTTAGAATCCATTCTTACCTATAAATACCCCTCTTCCCTTCCTAATTTCACACAACTAATTTC
22493266 ACACATATCTCTTCATTTCTCTCTTCCATTTCCTTTATTTTTTCCCATTTCCTTTGTCCCCTTCC
326 ACACATATCTCTTCATTTCTCTCTTCCATTTCCTTTATTTTTTCCCATTTCCTTTGTCCCCTTCC
* *
22493331 CTTGTTGATTTCCACTCTTGAAAGAGAGCTTGCATCCCCCTTGGAGTAGCAACATTCAAGTTTTG
391 CTTGTCGATTTCCACTCTTGAAAGAGAGCTTGCATCCCCCTTGGAGTAGCAACATTCAAGTGTTG
*
22493396 GTGAAGGCCTTGAATCGACTGAACGAGTGGAGAATAAGAGGAGCACACTAGTCTGGCTTCGA
456 GTGAAGGCCTTGAATCGACTGAACGAGCGGAGAATAAGAGGAGCACACTAGTCTGGCTTCGA
22493458 AGAAAGTGACCCAATTGTGCTAAGTGAAGAGGACTAATCCAACAAGGATTGGGCAGCCCAAAACC
1 AGAAAGTGACCCAATTGTGCTAAGTGAAGAGGACTAATCCAACAAGGATTGGGCAGCCCAAAACC
22493523 GTCTATATAGCTAACCCAATTAGCTTATTTTTAATAATTGCAAAACAAACCTTGAAATTTCCCTT
66 GTCTATATAGCTAACCCAATTAGCTTATTTTTAATAATTGCAAAACAAACCTTGAAATTTCCCTT
22493588 AATTCTGTTCAAACCCCTCCTCTTTCCATGCATTTTTAACCCAAGCTAAAAATAGCAAGTTTGAA
131 AATTCTGTTCAAACCCCTCCTCTTTCCATGCATTTTTAACCCAAGCTAAAAATAGCAAGTTTGAA
22493653 GCAAACAACCCTTGCTCAAAGCATGGCCGGCCAAGGGAGAGGTAGTGGCTGATATTTATTTGCTA
196 GCAAACAACCCTTGCTCAAAGCATGGCCGGCCAAGGGAGAGGTAGTGGCTGATATTTATTTGCTA
* *
22493718 CTTTTAGAATCCATTCTTACCTATAAATACCCCTCTTCCTTTCCTAAATTCACACAACTAATTTC
261 CTTTTAGAATCCATTCTTACCTATAAATACCCCTCTTCCCTTCCTAATTTCACACAACTAATTTC
22493783 ACACATATCTCTTCATTTCTCTCTTCCATTTCCTTTATTTTTTCCCATTTCCTTTGTCCCCTTCC
326 ACACATATCTCTTCATTTCTCTCTTCCATTTCCTTTATTTTTTCCCATTTCCTTTGTCCCCTTCC
22493848 CTTGTCGATTTCCACTCTTGAAAGAGAGCTTGCATCCCCCTTGGAGTAGCAACATTCAAGTGTTG
391 CTTGTCGATTTCCACTCTTGAAAGAGAGCTTGCATCCCCCTTGGAGTAGCAACATTCAAGTGTTG
* *
22493913 GTGAAGGCCTTAAATTGACTGAACGAGCGGAGAATAAGAGGAGCACACTAGTCTGGCTTCGA
456 GTGAAGGCCTTGAATCGACTGAACGAGCGGAGAATAAGAGGAGCACACTAGTCTGGCTTCGA
22493975 AGAAAGTGACCCAATTGTGCTAAGTGAAGAGGACTAATCCAACAAGGATTGGGCAGCCCAAAACC
1 AGAAAGTGACCCAATTGTGCTAAGTGAAGAGGACTAATCCAACAAGGATTGGGCAGCCCAAAACC
22494040 GTCTATATAGCTAACCCAATTAGCTTATTTTTAATAATTGCAAAACAAACCTTGAAATTTCCCTT
66 GTCTATATAGCTAACCCAATTAGCTTATTTTTAATAATTGCAAAACAAACCTTGAAATTTCCCTT
22494105 AATTCTGTTCAAACCCCTCCTCTTTCCATGCATTTTTAACCCAAGCTAAAAATAGCAAGTTTGAA
131 AATTCTGTTCAAACCCCTCCTCTTTCCATGCATTTTTAACCCAAGCTAAAAATAGCAAGTTTGAA
22494170 GCAAACAACCCTTGCTCAAAGCATGGCCGGCCAAGGGAGAGGTAGTGGCTGATATTTATTTGCTA
196 GCAAACAACCCTTGCTCAAAGCATGGCCGGCCAAGGGAGAGGTAGTGGCTGATATTTATTTGCTA
*
22494235 CTTTTAGAATCCATTCTTACCTATAAATAACCCTCTTCCCTTCCTAATTTCACACAACTAATTTC
261 CTTTTAGAATCCATTCTTACCTATAAATACCCCTCTTCCCTTCCTAATTTCACACAACTAATTTC
22494300 ACACATATCTCTTCATTTCTCTCTTCCATTTCCTTTATTTTTTCCCATTTCCTTTGTCCCCTTCC
326 ACACATATCTCTTCATTTCTCTCTTCCATTTCCTTTATTTTTTCCCATTTCCTTTGTCCCCTTCC
22494365 CTTGTCGATTTCCACTCTTGAAAGAGAGCTTGCATCCCCCTTGGAGTAGCAACATTCAAGTGTTG
391 CTTGTCGATTTCCACTCTTGAAAGAGAGCTTGCATCCCCCTTGGAGTAGCAACATTCAAGTGTTG
*
22494430 GTGAAGGCCTTGAATCGACTGAACGAGCGGAGAATAAGAGGAGCACACTAGTTTGGCTTCGA
456 GTGAAGGCCTTGAATCGACTGAACGAGCGGAGAATAAGAGGAGCACACTAGTCTGGCTTCGA
22494492 AGAAA
1 AGAAA
22494497 CATTGAGATT
Statistics
Matches: 1023, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
517 1023 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (517 bp):
AGAAAGTGACCCAATTGTGCTAAGTGAAGAGGACTAATCCAACAAGGATTGGGCAGCCCAAAACC
GTCTATATAGCTAACCCAATTAGCTTATTTTTAATAATTGCAAAACAAACCTTGAAATTTCCCTT
AATTCTGTTCAAACCCCTCCTCTTTCCATGCATTTTTAACCCAAGCTAAAAATAGCAAGTTTGAA
GCAAACAACCCTTGCTCAAAGCATGGCCGGCCAAGGGAGAGGTAGTGGCTGATATTTATTTGCTA
CTTTTAGAATCCATTCTTACCTATAAATACCCCTCTTCCCTTCCTAATTTCACACAACTAATTTC
ACACATATCTCTTCATTTCTCTCTTCCATTTCCTTTATTTTTTCCCATTTCCTTTGTCCCCTTCC
CTTGTCGATTTCCACTCTTGAAAGAGAGCTTGCATCCCCCTTGGAGTAGCAACATTCAAGTGTTG
GTGAAGGCCTTGAATCGACTGAACGAGCGGAGAATAAGAGGAGCACACTAGTCTGGCTTCGA
Found at i:22494297 original size:14 final size:14
Alignment explanation
Indices: 22494278--22494304 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22494268 TCTTCCCTTC
22494278 CTAATTTCACACAA
1 CTAATTTCACACAA
22494292 CTAATTTCACACA
1 CTAATTTCACACA
22494305 TATCTCTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (14 bp):
CTAATTTCACACAA
Found at i:22498187 original size:28 final size:28
Alignment explanation
Indices: 22498156--22498269 Score: 135
Period size: 28 Copynumber: 4.1 Consensus size: 28
22498146 AATAGTACAG
22498156 TGTGGGCCTTAGCTCAATACAGTAA-CAA
1 TGTGGGCCTTAGCTCAATACAG-AATCAA
* * *
22498184 TGTGGGCCTTAGCCCAATACAGAATTAG
1 TGTGGGCCTTAGCTCAATACAGAATCAA
* *
22498212 TGTGGGCCTTAG-TCCAATATAGAATCAG
1 TGTGGGCCTTAGCT-CAATACAGAATCAA
22498240 TGTGGGCCTTAGCTCAATACAGTAA-CAA
1 TGTGGGCCTTAGCTCAATACAG-AATCAA
22498268 TG
1 TG
22498270 CAGTGCAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 69 0.93
29 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (28 bp):
TGTGGGCCTTAGCTCAATACAGAATCAA
Found at i:22498244 original size:56 final size:56
Alignment explanation
Indices: 22498154--22498261 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 56
22498144 GTAATAGTAC
22498154 AGTGTGGGCCTTAGCTCAATACAGTAACAATGTGGGCCTTAGCCCAATACAGAATT
1 AGTGTGGGCCTTAGCTCAATACAGTAACAATGTGGGCCTTAGCCCAATACAGAATT
* * *
22498210 AGTGTGGGCCTTAG-TCCAATATAG-AATCAGTGTGGGCCTTAGCTCAATACAG
1 AGTGTGGGCCTTAGCT-CAATACAGTAA-CAATGTGGGCCTTAGCCCAATACAG
22498262 TAACAATGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
55 3 0.06
56 44 0.94
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (56 bp):
AGTGTGGGCCTTAGCTCAATACAGTAACAATGTGGGCCTTAGCCCAATACAGAATT
Found at i:22498666 original size:27 final size:27
Alignment explanation
Indices: 22498644--22498838 Score: 213
Period size: 27 Copynumber: 7.3 Consensus size: 27
22498634 AGGGGTATAA
22498644 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
22498671 C-GATCATTCTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
*
22498698 CGGTCATTTTACCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
* *
22498725 CAATCATTTAACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
22498752 CAGTCAATTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
**
22498779 CAGTCATTTTATTCTAT---GGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
22498803 CGGTCAATTTACCCTAT-AGAGGTATTT
1 CAGTCATTTTACCCTATGAG-GGTATTT
*
22498830 CGGTCATTT
1 CAGTCATTT
22498839 ATTGACCTCT
Statistics
Matches: 142, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
24 20 0.14
26 1 0.01
27 119 0.84
28 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:22498765 original size:81 final size:81
Alignment explanation
Indices: 22498633--22498789 Score: 237
Period size: 81 Copynumber: 1.9 Consensus size: 81
22498623 TTTTATCTCC
* *
22498633 TAGGGGTATAACAGTCATTTTACCCTATGAGGGTATTTCGATCATTCTACCCTATGGGGGTATTT
1 TAGGGGTATAACAATCATTTAACCCTATGAGGGTATTTCGATCATTCTACCCTATGGGGGTATTT
*
22498698 CGGTCATTTTACCCTA
66 CAGTCATTTTACCCTA
**
22498714 TAGGGGTATTTCAATCATTTAACCCTATGAGGGTATTTC-AGTCAATT-TACCCTATGGGGGTAT
1 TAGGGGTATAACAATCATTTAACCCTATGAGGGTATTTCGA-TC-ATTCTACCCTATGGGGGTAT
22498777 TTCAGTCATTTTA
64 TTCAGTCATTTTA
22498790 TTCTATGGTA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
80 1 0.01
81 65 0.94
82 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (81 bp):
TAGGGGTATAACAATCATTTAACCCTATGAGGGTATTTCGATCATTCTACCCTATGGGGGTATTT
CAGTCATTTTACCCTA
Found at i:22503234 original size:12 final size:13
Alignment explanation
Indices: 22503217--22503246 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22503207 AAAATCACAA
22503217 AATAAT-AAAAAG
1 AATAATGAAAAAG
22503229 AATAATGAAAAAG
1 AATAATGAAAAAG
22503242 AATAA
1 AATAA
22503247 AAATAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (13 bp):
AATAATGAAAAAG
Found at i:22503946 original size:40 final size:40
Alignment explanation
Indices: 22503902--22503982 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
22503892 TATTAATAGT
* *
22503902 AATTAAAACTAAATGAATGAAACAATTGTTTGCCTAGAAC
1 AATTAAAACTAAATGAATGAAACAATTGTTTACCCAGAAC
22503942 AATTAAAACTAAATGAATGAAACAATTGTTTACCCAGAAC
1 AATTAAAACTAAATGAATGAAACAATTGTTTACCCAGAAC
22503982 A
1 A
22503983 TTCATAACGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (40 bp):
AATTAAAACTAAATGAATGAAACAATTGTTTACCCAGAAC
Found at i:22504053 original size:32 final size:32
Alignment explanation
Indices: 22504015--22504081 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
22504005 ACTCAAATAA
22504015 AAGATTCATACTCACTTTAACTAAACAAAACT
1 AAGATTCATACTCACTTTAACTAAACAAAACT
22504047 AAGATTCATACTCACTTTAACTAAACAAAACT
1 AAGATTCATACTCACTTTAACTAAACAAAACT
22504079 AAG
1 AAG
22504082 TCATGCTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.48, C:0.21, G:0.04, T:0.27
Consensus pattern (32 bp):
AAGATTCATACTCACTTTAACTAAACAAAACT
Found at i:22505589 original size:25 final size:27
Alignment explanation
Indices: 22505555--22505612 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
22505545 TCTCATCCTT
22505555 ATTTTACCCCAG-TAAA-ATTTTGACG
1 ATTTTACCCCAGATAAATATTTTGACG
* * *
22505580 ATTTTACCCCCGATAAATTTTTTGATG
1 ATTTTACCCCAGATAAATATTTTGACG
22505607 ATTTTA
1 ATTTTA
22505613 ACCTTTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.39
26 4 0.14
27 13 0.46
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.43
Consensus pattern (27 bp):
ATTTTACCCCAGATAAATATTTTGACG
Found at i:22520387 original size:27 final size:26
Alignment explanation
Indices: 22520349--22520440 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 26
22520339 AATATGCTAG
* *
22520349 AAAAAAGAAGCTTCTGTGTCTATGTAT
1 AAAAAGGAAGCTT-TGTGTCTATCTAT
22520376 AAAAAGGAAGCTTTTGTGGT-TATCTAT
1 AAAAAGGAAGC-TTTGT-GTCTATCTAT
*
22520403 AAAAAGGAAGTCTTTGTGACTATCTAT
1 AAAAAGGAAG-CTTTGTGTCTATCTAT
*
22520430 GAAAAGGAAGC
1 AAAAAGGAAGC
22520441 CTTCGTGGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
26 2 0.04
27 50 0.88
28 5 0.09
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (26 bp):
AAAAAGGAAGCTTTGTGTCTATCTAT
Found at i:22529244 original size:19 final size:20
Alignment explanation
Indices: 22529213--22529250 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
22529203 TAAATTTCAA
22529213 AATTTTTATAAA-TATTTTG
1 AATTTTTATAAATTATTTTG
22529232 AATTTTTGA-AAATTATTTT
1 AATTTTT-ATAAATTATTTT
22529251 TTAAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
AATTTTTATAAATTATTTTG
Found at i:22533585 original size:131 final size:132
Alignment explanation
Indices: 22533437--22533701 Score: 505
Period size: 131 Copynumber: 2.0 Consensus size: 132
22533427 GGTTATTTAG
22533437 GTTCAATGCGAGGAAAATCGAAATTCAGTAAGTTAGGGCACGACTTCTCGAATTTCTAAATACGG
1 GTTCAATGCGA-GAAAATCGAAATTCAGTAAGTTAGGGCACGACTTCTCGAATTTCTAAATACGG
*
22533502 AATATTGCCTTTATTTTCGAAATTTTCTTTTTTACAAATTTGGGTAAGAAATATGTAATATTTAA
65 AATATTGCCTTTATTTTCGAAATTTTCTCTTTTACAAATTTGGGTAAGAAATATGTAATATTTAA
22533567 AAT
130 AAT
22533570 GTTCAATGCGA-AAAATCGAAATTCAGTAAGTTAGGGCACGACTTCTCGAATTTCTAAATACGGA
1 GTTCAATGCGAGAAAATCGAAATTCAGTAAGTTAGGGCACGACTTCTCGAATTTCTAAATACGGA
22533634 ATATTGCCTTTATTTTCGAAATTTTCTCTTTTACAAATTTGGGTAAGAAATATGTAATATTTAAA
66 ATATTGCCTTTATTTTCGAAATTTTCTCTTTTACAAATTTGGGTAAGAAATATGTAATATTTAAA
22533699 AT
131 AT
22533701 G
1 G
22533702 ATACATGAAT
Statistics
Matches: 131, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
131 120 0.92
133 11 0.08
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (132 bp):
GTTCAATGCGAGAAAATCGAAATTCAGTAAGTTAGGGCACGACTTCTCGAATTTCTAAATACGGA
ATATTGCCTTTATTTTCGAAATTTTCTCTTTTACAAATTTGGGTAAGAAATATGTAATATTTAAA
AT
Found at i:22534056 original size:26 final size:25
Alignment explanation
Indices: 22534000--22534056 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
22533990 ATAATTTGTA
* * *
22534000 ATAAATTATATAAATAAATAATAAT
1 ATAAAATATAAAAATAAATAAAAAT
*
22534025 AGTAAAATATAAAAATACATAAAAAAT
1 A-TAAAATATAAAAATAAAT-AAAAAT
22534052 ATAAA
1 ATAAA
22534057 TAAATGAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 19 0.73
27 6 0.23
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
ATAAAATATAAAAATAAATAAAAAT
Found at i:22543827 original size:26 final size:25
Alignment explanation
Indices: 22543771--22543827 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
22543761 ATAATTTGTA
* * *
22543771 ATAAATTATATAAATAAATAATAAT
1 ATAAAATATAAAAATAAATAAAAAT
*
22543796 AGTAAAATATAAAAATACATAAAAAAT
1 A-TAAAATATAAAAATAAAT-AAAAAT
22543823 ATAAA
1 ATAAA
22543828 TAAATGAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 19 0.73
27 6 0.23
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
ATAAAATATAAAAATAAATAAAAAT
Found at i:22546853 original size:155 final size:156
Alignment explanation
Indices: 22546643--22546952 Score: 588
Period size: 155 Copynumber: 2.0 Consensus size: 156
22546633 AAAATTGAGA
22546643 TTCTTCGCTTAAATTTTTGTGCTTCTCGAGCTTCATATTGATCAATGCATTTACGTTGCTCTGTG
1 TTCTTCGCTTAAATTTTTGTGCTTCTCGAGCTTCATATTGATCAATGCATTTACGTTGCTCTGTG
*
22546708 TAAAAAGTCAGGAATTTACGATTAG-ATGACAAGCTCTCATTCAAACCCAACCAAAGATCATACA
66 TAAAAAGTCAGGAATTTACGATTAGAAGGA-AAGCTCTCATTCAAACCCAACCAAAGATCATACA
22546772 AATCGAATCTTGGGGGGCGGGGGGGTT
130 AATCGAATCTTGGGGGGCGGGGGGGTT
22546799 TTCTTCGCTT-AATTTTTGTGCTTCTCGAGCTTCATATTGATCAATGCATTTACGTTGCTCTGTG
1 TTCTTCGCTTAAATTTTTGTGCTTCTCGAGCTTCATATTGATCAATGCATTTACGTTGCTCTGTG
22546863 TAAAAAGTCAGGAATTTACGATTAGAAGGAAAGCTCTCATTCAAACCCAACCAAAGATCATACAA
66 TAAAAAGTCAGGAATTTACGATTAGAAGGAAAGCTCTCATTCAAACCCAACCAAAGATCATACAA
22546928 ATCGAATCTTGGGGGGCGGGGGGGT
131 ATCGAATCTTGGGGGGCGGGGGGGT
22546953 NNNNNNNNNN
Statistics
Matches: 152, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
155 139 0.91
156 13 0.09
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (156 bp):
TTCTTCGCTTAAATTTTTGTGCTTCTCGAGCTTCATATTGATCAATGCATTTACGTTGCTCTGTG
TAAAAAGTCAGGAATTTACGATTAGAAGGAAAGCTCTCATTCAAACCCAACCAAAGATCATACAA
ATCGAATCTTGGGGGGCGGGGGGGTT
Found at i:22551049 original size:17 final size:17
Alignment explanation
Indices: 22551023--22551060 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
22551013 AAAAAAACAA
22551023 CATAACTCTTGACCTTT
1 CATAACTCTTGACCTTT
*
22551040 CATAATTCTTGACCTTT
1 CATAACTCTTGACCTTT
22551057 CATA
1 CATA
22551061 TAACATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (17 bp):
CATAACTCTTGACCTTT
Found at i:22555381 original size:17 final size:17
Alignment explanation
Indices: 22555359--22555396 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
22555349 AAAAAAACAA
22555359 CATAACTCTTGACCTTT
1 CATAACTCTTGACCTTT
22555376 CATAACTCTTGACCTTT
1 CATAACTCTTGACCTTT
22555393 CATA
1 CATA
22555397 TAACATAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.05, T:0.39
Consensus pattern (17 bp):
CATAACTCTTGACCTTT
Found at i:22564479 original size:41 final size:41
Alignment explanation
Indices: 22564424--22564614 Score: 296
Period size: 41 Copynumber: 4.7 Consensus size: 41
22564414 CATTTGGTGC
* *
22564424 TTTAGCGGCGTTTTTGAAAAAGCGCTGCTAATGCTTAGGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
* *
22564465 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCATGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
* *
22564506 TTTAGCAGCGTTTTTGAAAAAGC-CCTGCTAATGCTTAGGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCC-GCTAATGCTCAGGCT
22564547 TTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
*
22564587 TTTAGCGGCGTTTTTGATAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
22564615 AAAAACATTT
Statistics
Matches: 136, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
40 38 0.28
41 98 0.72
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:22564955 original size:14 final size:14
Alignment explanation
Indices: 22564938--22564974 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
22564928 GGTTTTAATA
*
22564938 TATATGTTTTAGGG
1 TATATGGTTTAGGG
22564952 TATATGGTTTAGGG
1 TATATGGTTTAGGG
22564966 TATATGGTT
1 TATATGGTT
22564975 AATTTAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:22565274 original size:152 final size:154
Alignment explanation
Indices: 22565074--22565349 Score: 407
Period size: 152 Copynumber: 1.8 Consensus size: 154
22565064 AGGGTTGTGA
* * * *
22565074 TTTAGGGGTTAAGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAGGGTTTATAGATTC-GGT
1 TTTAGGGGTTAAGGGTTAGGGGTTAAAGATTAAGAATTAAGGATTTAGGGTTTAGAGATTCAGG-
* *
22565138 GTC-AGGATAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTT
65 GTCGA-GATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTT
22565202 AGAGGGTAGTAGTTAGGGGTTTAAGG
129 AGAGGGTAGTAGTTAGGGGTTTAAGG
* * *
22565228 TTTA-GGGTTAGGGGTTA-GGGTTAAAGGTTAAGAATTAATGATTTAGGGTTTAGAGATTCAGGG
1 TTTAGGGGTTAAGGGTTAGGGGTTAAAGATTAAGAATTAAGGATTTAGGGTTTAGAGATTCAGGG
* *
22565291 TCGAGTTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAATTAAG
66 TCGAGATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAG
22565350 TTCTTATATA
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
152 90 0.83
153 15 0.14
154 4 0.04
ACGTcount: A:0.29, C:0.01, G:0.30, T:0.40
Consensus pattern (154 bp):
TTTAGGGGTTAAGGGTTAGGGGTTAAAGATTAAGAATTAAGGATTTAGGGTTTAGAGATTCAGGG
TCGAGATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAG
AGGGTAGTAGTTAGGGGTTTAAGG
Found at i:22569831 original size:43 final size:41
Alignment explanation
Indices: 22569728--22569917 Score: 136
Period size: 43 Copynumber: 4.5 Consensus size: 41
22569718 TTTTTAAATG
* *
22569728 CATGTTTTTAGCGGCGTTTGTGAA-AAAGCGTCGCTAAAATT
1 CATGTTTTTAGCGGCGTTTG-AAACAAAGCGTCGCTAAAGTT
* * *
22569769 CAT-TTTTATAGCGGTGTTTGAAACAGAAGCTTCGCTAAAGGT
1 CATGTTTT-TAGCGGCGTTTGAAACA-AAGCGTCGCTAAAGTT
*** *
22569811 CATGATTTTTAGCGGCGTTTGTTGCAAAAGCGCCGCTAAAGTT
1 CATG-TTTTTAGCGGCGTTTGAAAC-AAAGCGTCGCTAAAGTT
* * * *
22569854 CATGATCTTTAGCGGCGTTTGTAGTATAAA-CGCCGCTAAA-TAT
1 CATG-TTTTTAGCGGCGTTTG-A-AACAAAGCGTCGCTAAAGT-T
*
22569897 CATGGTCTTTAGCGGCGTTTG
1 CAT-GTTTTTAGCGGCGTTTG
22569918 TGGCAAAAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 18
0.78 0.10 0.11
Matches are distributed among these distances:
40 6 0.05
41 15 0.12
42 17 0.14
43 75 0.61
44 9 0.07
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
CATGTTTTTAGCGGCGTTTGAAACAAAGCGTCGCTAAAGTT
Found at i:22569900 original size:86 final size:85
Alignment explanation
Indices: 22569734--22570007 Score: 270
Period size: 86 Copynumber: 3.2 Consensus size: 85
22569724 AATGCATGTT
* * * * * * * *
22569734 TTTAGCGGCGTTTG-TGAAAAAGCGTCGCTAAAATTCAT--TTTTATAGCGGTGTTTGAAACAGA
1 TTTAGCGGCGTTTGTTGCAAAAGCGCCGCTAAAGTTCATGATCTT-TAGCGGCGTTTGTAGCAAA
* *
22569796 A-GCTTCGCTAAAGGTCATGATT
65 ACGC--CGCTAAAGATCATGATC
*
22569818 TTTAGCGGCGTTTGTTGCAAAAGCGCCGCTAAAGTTCATGATCTTTAGCGGCGTTTGTAGTATAA
1 TTTAGCGGCGTTTGTTGCAAAAGCGCCGCTAAAGTTCATGATCTTTAGCGGCGTTTGTAGCA-AA
* *
22569883 ACGCCGCTAAATATCATGGTC
65 ACGCCGCTAAAGATCATGATC
* ** * ** *
22569904 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGCCATGATCTTTAGCGACACTTGTGGCAAAA
1 TTTAGCGGCGTTTGTTGCAAAAGCGCCGCTAAAGTTCATGATCTTTAGCGGCGTTTGTAGCAAAA
*
22569969 GCGCCGCTAAAGACCATGATC
66 -CGCCGCTAAAGATCATGATC
22569990 TTTAGCGGCGCTTT-TTGC
1 TTTAGCGGCG-TTTGTTGC
22570008 GGCGCTAATG
Statistics
Matches: 158, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
84 14 0.09
85 24 0.15
86 110 0.70
87 8 0.05
88 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTTGCAAAAGCGCCGCTAAAGTTCATGATCTTTAGCGGCGTTTGTAGCAAAA
CGCCGCTAAAGATCATGATC
Found at i:22569918 original size:43 final size:43
Alignment explanation
Indices: 22569801--22569999 Score: 247
Period size: 43 Copynumber: 4.6 Consensus size: 43
22569791 ACAGAAGCTT
** * *
22569801 CGCTAAAGGTCATGATTTTTAGCGGCGTTTGTTGCAAAAGCGC
1 CGCTAAAGACCATGATCTTTAGCGGCGTTTGTGGCAAAAGCGC
** * *
22569844 CGCTAAAGTTCATGATCTTTAGCGGCGTTTGTAGTATAAA-CGC
1 CGCTAAAGACCATGATCTTTAGCGGCGTTTGTGGCA-AAAGCGC
* * *
22569887 CGCTAAATATCATGGTCTTTAGCGGCGTTTGTGGCAAAAGCGC
1 CGCTAAAGACCATGATCTTTAGCGGCGTTTGTGGCAAAAGCGC
* * **
22569930 CGCTAAAGGCCATGATCTTTAGCGACACTTGTGGCAAAAGCGC
1 CGCTAAAGACCATGATCTTTAGCGGCGTTTGTGGCAAAAGCGC
22569973 CGCTAAAGACCATGATCTTTAGCGGCG
1 CGCTAAAGACCATGATCTTTAGCGGCG
22570000 CTTTTTGCGG
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 3 0.02
43 129 0.96
44 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (43 bp):
CGCTAAAGACCATGATCTTTAGCGGCGTTTGTGGCAAAAGCGC
Found at i:22570071 original size:21 final size:21
Alignment explanation
Indices: 22570045--22570088 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
22570035 TTTAGCGGGG
* *
22570045 CTAAAAAGCGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
22570066 CTAAAAAACGCCGCTAAAAGC
1 CTAAAAAACGCCGCTAAAAGC
22570087 CT
1 CT
22570089 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.30, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:22581339 original size:25 final size:26
Alignment explanation
Indices: 22581311--22581368 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
22581301 TACCTACAGT
*
22581311 AGTTTCAAAATATCGT-ACATATATC
1 AGTTTCAAAATATCATAACATATATC
* * * *
22581336 AGTTTTAGATTATCATAACATGTATC
1 AGTTTCAAAATATCATAACATATATC
22581362 AGTTTCA
1 AGTTTCA
22581369 GAACACTTAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (26 bp):
AGTTTCAAAATATCATAACATATATC
Found at i:22611929 original size:43 final size:43
Alignment explanation
Indices: 22611882--22612057 Score: 343
Period size: 43 Copynumber: 4.1 Consensus size: 43
22611872 CACAAGGCCG
22611882 TGTCGCTTGGCCGTGTGTCACATACAGCTGAGACACACACCCA
1 TGTCGCTTGGCCGTGTGTCACATACAGCTGAGACACACACCCA
22611925 TGTCGCTTGGCCGTGTGTCACATACAGCTGAGACACACACCCA
1 TGTCGCTTGGCCGTGTGTCACATACAGCTGAGACACACACCCA
22611968 TGTCGCTTGGCCGTGTGTCACATACAGCTGAGACACACACCCA
1 TGTCGCTTGGCCGTGTGTCACATACAGCTGAGACACACACCCA
*
22612011 TGTCGCTTGGCCGTGTGTCACATACAGCTGAGACACACACCCG
1 TGTCGCTTGGCCGTGTGTCACATACAGCTGAGACACACACCCA
22612054 TGTC
1 TGTC
22612058 TTAACCAATG
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (43 bp):
TGTCGCTTGGCCGTGTGTCACATACAGCTGAGACACACACCCA
Found at i:22613218 original size:25 final size:25
Alignment explanation
Indices: 22613189--22613295 Score: 137
Period size: 25 Copynumber: 4.3 Consensus size: 25
22613179 TCCTGTACAT
22613189 GTATGCTCAT-ACGAGCTGT-GAGTCG
1 GTATGCTC-TCACGAGCTGTAGA-TCG
* * * *
22613214 ATATGCTCACTCGAGCTATAGATCG
1 GTATGCTCTCACGAGCTGTAGATCG
22613239 GTATGCTCTCACGAGCTGTAGATCG
1 GTATGCTCTCACGAGCTGTAGATCG
*
22613264 GTATGCTCTCACGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAGATCG
22613289 GTATGCT
1 GTATGCT
22613296 GACACAAGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
25 69 0.97
26 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAGATCG
Found at i:22618151 original size:12 final size:12
Alignment explanation
Indices: 22618134--22618158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22618124 ATTTGGGAAG
22618134 TATAAGGAAAAT
1 TATAAGGAAAAT
22618146 TATAAGGAAAAT
1 TATAAGGAAAAT
22618158 T
1 T
22618159 CACCAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (12 bp):
TATAAGGAAAAT
Found at i:22618763 original size:41 final size:41
Alignment explanation
Indices: 22618706--22618785 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
22618696 ATATAGGCAC
* * *
22618706 AATGAAACAAACTAGCAAGGCATCAAATGTATCAACCAAAT
1 AATGAAACAAACTAGCAAGACAACAAATGTAACAACCAAAT
*
22618747 AATGACACAAACTAGCAAGACAACAAATGTAACAACCAA
1 AATGAAACAAACTAGCAAGACAACAAATGTAACAACCAA
22618786 GTTAACTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.54, C:0.21, G:0.11, T:0.14
Consensus pattern (41 bp):
AATGAAACAAACTAGCAAGACAACAAATGTAACAACCAAAT
Found at i:22626121 original size:21 final size:22
Alignment explanation
Indices: 22626104--22626144 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
22626094 CCATGTGAGT
*
22626104 GGGTCACATGGCTGTGTG-GAA
1 GGGTCACACGGCTGTGTGAGAA
22626125 GGGTCACACGGCTGTGTGAG
1 GGGTCACACGGCTGTGTGAG
22626145 CAAACTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.17, C:0.17, G:0.44, T:0.22
Consensus pattern (22 bp):
GGGTCACACGGCTGTGTGAGAA
Found at i:22632113 original size:20 final size:20
Alignment explanation
Indices: 22632088--22632215 Score: 91
Period size: 20 Copynumber: 6.3 Consensus size: 20
22632078 CGTCTGTACA
22632088 GTGCCTCTGTTTGCACTTTG
1 GTGCCTCTGTTTGCACTTTG
**
22632108 GTGCCTCTAATTGCACATTT-
1 GTGCCTCTGTTTGCAC-TTTG
* * **
22632128 GTACCTCTTTTTGCACTCCG
1 GTGCCTCTGTTTGCACTTTG
* *
22632148 GTGCCTCTGATTACACATTT-
1 GTGCCTCTGTTTGCAC-TTTG
* *
22632168 GTGCCTCTGTCTACA-TTTCG
1 GTGCCTCTGTTTGCACTTT-G
22632188 GTGCCTCTGTTATGCATCTTTG
1 GTGCCTCTGTT-TGCA-CTTTG
*
22632210 ATGCCT
1 GTGCCT
22632216 TTGGTGTGGT
Statistics
Matches: 82, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
18 3 0.04
19 1 0.01
20 62 0.76
21 7 0.09
22 6 0.07
23 3 0.04
ACGTcount: A:0.12, C:0.27, G:0.19, T:0.41
Consensus pattern (20 bp):
GTGCCTCTGTTTGCACTTTG
Found at i:22632196 original size:40 final size:40
Alignment explanation
Indices: 22632088--22632196 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
22632078 CGTCTGTACA
* *
22632088 GTGCCTCTGTTTGCACTTT-GGTGCCTCTAATTGCACATTT
1 GTGCCTCTGTTTGCA-TTTCGGTGCCTCTGATTACACATTT
* * * *
22632128 GTACCTCTTTTTGCACTCCGGTGCCTCTGATTACACATTT
1 GTGCCTCTGTTTGCATTTCGGTGCCTCTGATTACACATTT
* *
22632168 GTGCCTCTGTCTACATTTCGGTGCCTCTG
1 GTGCCTCTGTTTGCATTTCGGTGCCTCTG
22632197 TTATGCATCT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.12, C:0.28, G:0.19, T:0.40
Consensus pattern (40 bp):
GTGCCTCTGTTTGCATTTCGGTGCCTCTGATTACACATTT
Found at i:22633470 original size:11 final size:11
Alignment explanation
Indices: 22633452--22633481 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22633442 CGCATAGGTT
22633452 GCATGTTTTTG
1 GCATGTTTTTG
*
22633463 GTATGTTTTTG
1 GCATGTTTTTG
22633474 GCATGTTT
1 GCATGTTT
22633482 AGATGTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.27, T:0.57
Consensus pattern (11 bp):
GCATGTTTTTG
Found at i:22648120 original size:27 final size:26
Alignment explanation
Indices: 22648090--22648185 Score: 79
Period size: 27 Copynumber: 3.4 Consensus size: 26
22648080 AAAAGTGAGA
22648090 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAG-AAATT
* *
22648117 GAAAAATAAATTGAGATTGAGAAAGAAATT
1 GAAAAAGAAAATGA-A--GA-AAAGAAATT
22648147 GAAAAAGAGAAAATCG-A-AAAAGAAATT
1 G-AAAA-AGAAAAT-GAAGAAAAGAAATT
22648174 GAAGAAAGAAAA
1 GAA-AAAGAAAA
22648186 GAAAATGAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
26 8 0.14
27 24 0.42
28 2 0.04
30 8 0.14
31 9 0.16
32 5 0.09
33 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.14
Consensus pattern (26 bp):
GAAAAAGAAAATGAAGAAAAGAAATT
Found at i:22648144 original size:45 final size:45
Alignment explanation
Indices: 22648092--22648193 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
22648082 AAGTGAGAGA
* * **
22648092 AAAAGAAAATGAAGAAA-AGAAAATTGAAAAATAAATTG-AGATTG
1 AAAAGAAAATGAA-AAAGAGAAAATCGAAAAAGAAATTGAAGAAAG
*
22648136 AGAAAGAAATTGAAAAAGAGAAAATCGAAAAAGAAATTGAAGAAAG
1 A-AAAGAAAATGAAAAAGAGAAAATCGAAAAAGAAATTGAAGAAAG
22648182 AAAAGAAAATGA
1 AAAAGAAAATGA
22648194 GTTAGAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
44 4 0.08
45 40 0.82
46 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.14
Consensus pattern (45 bp):
AAAAGAAAATGAAAAAGAGAAAATCGAAAAAGAAATTGAAGAAAG
Found at i:22648145 original size:18 final size:18
Alignment explanation
Indices: 22648114--22648148 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22648104 AGAAAAGAAA
*
22648114 ATTGAAAAATAAATTGAG
1 ATTGAAAAAGAAATTGAG
*
22648132 ATTGAGAAAGAAATTGA
1 ATTGAAAAAGAAATTGA
22648149 AAAAGAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.26
Consensus pattern (18 bp):
ATTGAAAAAGAAATTGAG
Found at i:22648147 original size:12 final size:13
Alignment explanation
Indices: 22648091--22648184 Score: 57
Period size: 13 Copynumber: 6.7 Consensus size: 13
22648081 AAAGTGAGAG
*
22648091 AAAAAGAAAATGA
1 AAAAAGAAATTGA
22648104 AGAAAAGAAAATTG-
1 A-AAAAG-AAATTGA
*
22648118 AAAAATAAATTGA
1 AAAAAGAAATTGA
22648131 GATTGAGAAAGAAATTGA
1 -A---A-AAAGAAATTGA
*
22648149 AAAAGAGAAAATCG-
1 AAAA-AG-AAATTGA
22648163 AAAAAGAAATTGA
1 AAAAAGAAATTGA
*
22648176 AGAAAGAAA
1 AAAAAGAAA
22648185 AGAAAATGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 22
0.70 0.07 0.24
Matches are distributed among these distances:
12 11 0.17
13 17 0.27
14 14 0.22
15 10 0.16
17 2 0.03
18 10 0.16
ACGTcount: A:0.66, C:0.01, G:0.19, T:0.14
Consensus pattern (13 bp):
AAAAAGAAATTGA
Found at i:22666111 original size:56 final size:50
Alignment explanation
Indices: 22666044--22666230 Score: 151
Period size: 50 Copynumber: 3.6 Consensus size: 50
22666034 GGGAATGAGA
* **
22666044 TCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTAGC---ACCGA-G--ATGAGAGG
* * * *
22666100 TCTCACGTAAGACCATGTTTGGGACATAGCGTTAGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTAGCACCGAGATGAGAGG
* * ** * **
22666150 TCCCCCGTAAGACCATGTCTGGGAAATGGCATGGGCACCG-GTATAAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTAGCACCGAG-ATGAGAGG
* * *
22666200 TCCCATGTAAGACCATATCTGGGATATGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCA
22666231 CTTGCAGTAC
Statistics
Matches: 108, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
49 1 0.01
50 72 0.67
52 1 0.01
53 3 0.03
56 31 0.29
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTAGCACCGAGATGAGAGG
Found at i:22666513 original size:20 final size:20
Alignment explanation
Indices: 22666488--22666536 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
22666478 TGAATTATTT
* *
22666488 AAGTAAGCAAGTAAGTGAAC
1 AAGTAAGCAAGTAAGTAAAA
*
22666508 AAGTAAGAAAGTAAGTAAAA
1 AAGTAAGCAAGTAAGTAAAA
22666528 AAG-AAGCAA
1 AAGTAAGCAA
22666537 AGACCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAA
Found at i:22673021 original size:166 final size:167
Alignment explanation
Indices: 22672727--22673056 Score: 608
Period size: 166 Copynumber: 2.0 Consensus size: 167
22672717 AATAGGGTCA
* *
22672727 AAAAAAATTTTATGTTCTCCGGACAAACACAATTACCTGGATATTGTGGACTAAGGCAGAATTCT
1 AAAAAAATTTTACGTTCTCCGGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTCT
22672792 CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
66 CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
22672857 CTATTTCTTAGAATCTAGGATGGAAACAGCGGTTCAC
131 CTATTTCTTAGAATCTAGGATGGAAACAGCGGTTCAC
*
22672894 AAAAAAA-TTTACGTTCTCTGGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTCT
1 AAAAAAATTTTACGTTCTCCGGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTCT
*
22672958 CATCACTTGGATTGAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
66 CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
*
22673023 CTATTTCTTAGAATCTGGGATGGAAACAGCGGTT
131 CTATTTCTTAGAATCTAGGATGGAAACAGCGGTT
22673057 GGCATATAGC
Statistics
Matches: 158, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
166 151 0.96
167 7 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (167 bp):
AAAAAAATTTTACGTTCTCCGGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTCT
CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
CTATTTCTTAGAATCTAGGATGGAAACAGCGGTTCAC
Found at i:22675402 original size:23 final size:24
Alignment explanation
Indices: 22675370--22675415 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
22675360 TTTTCATTAG
* *
22675370 TATATTTTCTTTTCTT-ATTTTCA
1 TATATATTCTTCTCTTCATTTTCA
22675393 TATATATTCTTCTCTTCATTTTC
1 TATATATTCTTCTCTTCATTTTC
22675416 GATAACACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.65
Consensus pattern (24 bp):
TATATATTCTTCTCTTCATTTTCA
Found at i:22678244 original size:42 final size:42
Alignment explanation
Indices: 22678185--22678265 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
22678175 CCTAATTGGG
22678185 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGCA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGCA
*
22678227 AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
22678266 AATAAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGCA
Found at i:22678273 original size:42 final size:42
Alignment explanation
Indices: 22678185--22678278 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
22678175 CCTAATTGGG
*
22678185 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGCA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGAA
*
22678227 AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA-AA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGAA
22678268 TAAAAT-ATTCC
1 -AAAATAATTCC
22678279 TAGAATATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
41 6 0.12
42 43 0.88
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGAA
Found at i:22680785 original size:53 final size:53
Alignment explanation
Indices: 22680704--22680813 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
22680694 TTACTTCCAA
* *
22680704 AAGATGTCAGTTTTTTCTTTCTGTAATCCCATTTAGTTGTGGTGTATTTGTAT
1 AAGATATCAGTTTTTTCTTTCTGCAATCCCATTTAGTTGTGGTGTATTTGTAT
22680757 AAGATATCAGTTTTTTCTTTCTGCAATCCCATTTAGTTGTGGTGTATTTGTAT
1 AAGATATCAGTTTTTTCTTTCTGCAATCCCATTTAGTTGTGGTGTATTTGTAT
22680810 AAGA
1 AAGA
22680814 ACTTTGATGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (53 bp):
AAGATATCAGTTTTTTCTTTCTGCAATCCCATTTAGTTGTGGTGTATTTGTAT
Found at i:22693340 original size:22 final size:21
Alignment explanation
Indices: 22693308--22693382 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 21
22693298 AAACTAATCC
22693308 TCTCTCAAATTTCCTCTAAATT
1 TCTCTC-AATTTCCTCTAAATT
*
22693330 TCCTCTCAATTTCCTCTCAATT
1 T-CTCTCAATTTCCTCTAAATT
* *
22693352 TGCTCTCAAATTCCTTCAAAATT
1 T-CTCTCAATTTCC-TCTAAATT
22693375 TCTCTCAA
1 TCTCTCAA
22693383 ATCCATATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 34 0.74
23 12 0.26
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (21 bp):
TCTCTCAATTTCCTCTAAATT
Found at i:22693380 original size:33 final size:32
Alignment explanation
Indices: 22693308--22693382 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 32
22693298 AAACTAATCC
22693308 TCTCTCAAATTTCCTCTAAATTTCCTCTCAATT
1 TCTCTC-AATTTCCTCTAAATTTCCTCTCAATT
*
22693341 TCCTCTCAATTTGCTCTCAAA-TTCCT-TCAAAATT
1 T-CTCTCAATTTCCTCT-AAATTTCCTCTC--AATT
22693375 TCTCTCAA
1 TCTCTCAA
22693383 ATCCATATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
32 2 0.05
33 22 0.59
34 13 0.35
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (32 bp):
TCTCTCAATTTCCTCTAAATTTCCTCTCAATT
Found at i:22693384 original size:11 final size:11
Alignment explanation
Indices: 22693308--22693384 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
22693298 AAACTAATCC
22693308 TCTCTCAAATT
1 TCTCTCAAATT
22693319 TC-CTCTAAATT
1 TCTCTC-AAATT
22693330 TCCTCTC-AATT
1 T-CTCTCAAATT
22693341 TCCTCTC-AATT
1 T-CTCTCAAATT
22693352 TGCTCTCAAATT
1 T-CTCTCAAATT
*
22693364 CCT-TCAAAATT
1 TCTCTC-AAATT
22693375 TCTCTCAAAT
1 TCTCTCAAAT
22693385 CCATATTTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
10 5 0.09
11 42 0.74
12 7 0.12
13 3 0.05
ACGTcount: A:0.26, C:0.30, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:22693409 original size:51 final size:51
Alignment explanation
Indices: 22693346--22693443 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
22693336 CAATTTCCTC
22693346 TCAATTTGCTCTCAAATTCCTTC-AAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTGCTCTCAAATT-CTTCTAAAATTTCTCTCAAATCCATATTTAATT
* * * *
22693397 TCAATTTGCTCTCAAGTTCTTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCTTCTAAAATTTCTCTCAAATCCATATTT
22693444 TTAAATAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 4 0.10
51 38 0.90
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCTTCTAAAATTTCTCTCAAATCCATATTTAATT
Found at i:22702492 original size:124 final size:125
Alignment explanation
Indices: 22702259--22702615 Score: 448
Period size: 124 Copynumber: 2.9 Consensus size: 125
22702249 AGGGCGTATC
*
22702259 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACTG
1 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTCTTCCAGGACCAACTG
* * ***
22702324 TAGCAAAAGTGCGTCCACGAGGGCGCAATTTCGGAAATTCTTCTCA-AATAGCATCCTGCT
66 TAGCAAAAGCGCGCCCACGAGGGCGCAATTTAACAAATTCTTCTCATAA-AGCATCCTGCT
* * * *
22702384 TGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTCAGGACCTACTG
1 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTCTTCCAGGACCAACTG
* * *
22702448 TAGCAAAAGCGCGCCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGT
66 TAGCAAAAGCGCGCCCACGAGGGCGCAATTTAACAAATTCTTCTCATAAAGCATCCTGCT
* * * * * *
22702508 AGAAGCGATTTTATACTATTTTCTTAGAAACGTCAACTCGAAATTATATCTTCCAAGACCAACTA
1 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTCTTCCAGGACCAACTG
* * * * * * * *
22702573 TGGCCAAAGCGCGTCTAGGAGGGTGCGATTTCACAAATTCTTC
66 TAGCAAAAGCGCGCCCACGAGGGCGCAATTTAACAAATTCTTC
22702616 GCGTCCACGT
Statistics
Matches: 199, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
124 105 0.53
125 94 0.47
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (125 bp):
AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTCTTCCAGGACCAACTG
TAGCAAAAGCGCGCCCACGAGGGCGCAATTTAACAAATTCTTCTCATAAAGCATCCTGCT
Found at i:22705769 original size:28 final size:27
Alignment explanation
Indices: 22705725--22705805 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
22705715 CAAATTTGTA
*
22705725 AAGGGAAAAAGTGTAAAATCTAAAAAAT
1 AAGGG-AAAACTGTAAAATCTAAAAAAT
* * *
22705753 AAGGGAAATATTTTAAAATCTGAAAAAT
1 AAGGGAAA-ACTGTAAAATCTAAAAAAT
*
22705781 ATGGGAAAACTGTAAAATCTAAAAA
1 AAGGGAAAACTGTAAAATCTAAAAA
22705806 CCAAGGGACA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 17 0.38
28 28 0.62
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.22
Consensus pattern (27 bp):
AAGGGAAAACTGTAAAATCTAAAAAAT
Found at i:22707297 original size:51 final size:51
Alignment explanation
Indices: 22707233--22707574 Score: 306
Period size: 51 Copynumber: 6.8 Consensus size: 51
22707223 TACCGATGAA
* *
22707233 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAATATTGGT
* * * * * * *
22707284 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCAAG-AAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GGTAAATATTG-GT
* *
22707335 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAA-TATTGGT
* * * * **** *
22707386 TACATGTGTGGTACTAAGTGAAGGCTACTATAAATACCGG-AAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAA--TATTGGT
* * * * *
22707437 CACGTATGTAGTATTATGTGAAGGCTACTACGTG-AGCCGTAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAATA-TTGGT
* * * *
22707487 CACGTGTGTAGTAATATGTGAAGGCTACTACGTG-AACTGTAAA-ATTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAATATTGGT
22707536 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
22707575 AATGATAAAA
Statistics
Matches: 231, Mismatches: 49, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
49 38 0.16
50 54 0.23
51 136 0.59
52 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAATATTGGT
Found at i:22707409 original size:102 final size:101
Alignment explanation
Indices: 22707233--22707574 Score: 367
Period size: 102 Copynumber: 3.4 Consensus size: 101
22707223 TACCGATGAA
*
22707233 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
22707297 CTAAGTGAAGGCTACTATGTGTACCAAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCAAGAAG-TTTGAG
* * * *
22707335 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
*** *
22707400 TAAGTGAAGGCTACTATAAATACC-GGAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTGTACCAAG-AAG-TTTGAG
* * * * * *
22707436 TCACGTATGTAGTATTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGT
* * * * * *
22707499 AATATGTGAAGGCTACTACGTGAACTGTAA-AA--TTGAT
64 ACTAAGTGAAGGCTACTATGTGTAC--CAAGAAGTTTGAG
22707536 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
22707575 AATGATAAAA
Statistics
Matches: 199, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
99 35 0.18
100 2 0.01
101 36 0.18
102 125 0.63
103 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCAAGAAGTTTGAG
Found at i:22710103 original size:18 final size:19
Alignment explanation
Indices: 22710074--22710114 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
22710064 TAATATTTTT
22710074 AAATATTAAAAAATTATAA
1 AAATATTAAAAAATTATAA
*
22710093 AAATA-TAAAAAATTATAG
1 AAATATTAAAAAATTATAA
22710111 AAAT
1 AAAT
22710115 NNNNNNNNNN
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATATTAAAAAATTATAA
Found at i:22711573 original size:24 final size:24
Alignment explanation
Indices: 22711528--22711573 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
22711518 TCATATTGAG
* * *
22711528 ATTAATTTTCTATTTTTCATTTTC
1 ATTAAATTTCAATTTTACATTTTC
*
22711552 ATTAAATTTCAATTTTAGATTT
1 ATTAAATTTCAATTTTACATTT
22711574 AATTTTTATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTAAATTTCAATTTTACATTTTC
Found at i:22713194 original size:19 final size:19
Alignment explanation
Indices: 22713170--22713225 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
22713160 AAACACCAAC
22713170 AAAAAATTTTAAAAAAATA
1 AAAAAATTTTAAAAAAATA
*
22713189 AAAAAATATTT-TAAAAATA
1 AAAAAAT-TTTAAAAAAATA
22713208 AAAAAATTTTTAAAAAAA
1 AAAAAA-TTTTAAAAAAA
22713226 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAATTTTAAAAAAATA
Found at i:22713249 original size:11 final size:11
Alignment explanation
Indices: 22713190--22713250 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
22713180 AAAAAAATAA
22713190 AAAAATATTTT
1 AAAAATATTTT
*
22713201 AAAAATA---A
1 AAAAATATTTT
22713209 AAAAAT-TTTT
1 AAAAATATTTT
22713219 AAAAAAAGTATTTT
1 --AAAAA-TATTTT
22713233 AAAAATATTTT
1 AAAAATATTTT
22713244 AAAAATA
1 AAAAATA
22713251 AAAAATAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
8 6 0.15
11 20 0.49
12 10 0.24
13 1 0.02
14 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:22714294 original size:164 final size:167
Alignment explanation
Indices: 22714018--22714647 Score: 572
Period size: 164 Copynumber: 3.9 Consensus size: 167
22714008 ACTAACTTTG
*
22714018 CCAATATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTATAAAAATTAAATTTGAAATT
1 CCAATATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTATAAAAATTAAATCTGAAATT
*
22714083 TGAGCATATTATAGGGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAAAAA-AG-TCT
66 TGAGCATATTATAGGGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAAAAAGAGAGCT
*
22714146 TTGTTTTATTATTTGGACAAATATAAAAAAGGAATGT
131 TTGTTTCATTATTTGGACAAATATAAAAAAGGAATGT
*
22714183 CCAA-ATAAAAGTTGTGGTACCAAATTATGTAAAAAAATTAAAGTAT-AAAATTAAATCTGAAAT
1 CCAATATAAAAGTTGAGGTACCAAATTATGT-AAAAAATTAAAGTATAAAAATTAAATCTGAAAT
*
22714246 TTGAGCATATTATAGGGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAAGAGAGC
65 TTGAGCATATTATAGGGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAAAAAGAGAGC
* * *
22714311 TTTGTTTCATTATTTGGACAAGTTTCATAAAAGGAATG-
130 TTTGTTTCATTATTTGGACAAATAT-AAAAAAGGAATGT
* * ** * * *
22714349 CC--T-TAGACA-TTCA--T-TTATATTGAAGTACAAAAATTAAA-T-T-TAAA-T---------
1 CCAATATA-AAAGTTGAGGTACCAAATT-ATGTA-AAAAATTAAAGTATAAAAATTAAATCTGAA
* * *
22714394 -TTTGAGCATGTTATAGGGATTAAAATTGAAATTGGACCATTTTTATAAAATCTCAAAAGAAGAA
63 ATTTGAGCATATTATAGGGACTAAAATTGAAATTGGACCATTATTATAAAATCT----A-AA-AA
* *
22714458 GAAGAAGAAAAAGCTTTGTTTCATTATTTGGACAAACT-TCATAAAGGAATGT
122 -AAG-AG----AGCTTTGTTTCATTATTTGGACAAA-TATAAAAAAGGAATGT
* * * * *
22714510 CCAA-ATAAAATTTAAGGTACCAAATTATGT-AGAAATTAAAGTAT-AAAATTAAATTTGAAATC
1 CCAATATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTATAAAAATTAAATCTGAAATT
* * * * * *
22714572 TAAGCATATTATAAGGACTAAAACTAAAATTGGACCGTTCTTATAAAA---AAAAAGAAGA-AGC
66 TGAGCATATTATAGGGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAAA-AAGAGAGC
22714633 TTTGTTTCATTATTT
130 TTTGTTTCATTATTT
22714648 ATATAGATGT
Statistics
Matches: 383, Mismatches: 40, Indels: 88
0.75 0.08 0.17
Matches are distributed among these distances:
149 50 0.13
153 1 0.00
154 2 0.01
155 2 0.01
156 3 0.01
157 2 0.01
159 1 0.00
160 13 0.03
161 51 0.13
162 17 0.04
163 14 0.04
164 104 0.27
165 31 0.08
166 31 0.08
167 17 0.04
168 2 0.01
169 1 0.00
176 41 0.11
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (167 bp):
CCAATATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTATAAAAATTAAATCTGAAATT
TGAGCATATTATAGGGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAAAAAGAGAGCT
TTGTTTCATTATTTGGACAAATATAAAAAAGGAATGT
Found at i:22716440 original size:35 final size:35
Alignment explanation
Indices: 22716391--22716889 Score: 378
Period size: 35 Copynumber: 14.1 Consensus size: 35
22716381 ATGGCTAATA
* * * *
22716391 AATGAATTACCAGTGTTGTGGTGGGATATTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
*
22716426 AGTGAAGTATCAGTGTTGTGGTGGGATGTTAAATGAATGAAG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTT--A--AAT---G
* *
22716468 AATGAAGTATCAGTGTTGTGGTAGGATATTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * *
22716503 AATGAATTAACGGTGTTGTGGTGAGATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
** ** *
22716538 AATGAAGTATTGGTGTTGTGGCAGAATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
** * *
22716573 AATGAAGAAGTATTGGTGTTATGATGGGATGTTAAATG
1 AAT---GAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * * *
22716611 AATGTAGTA--A-CGTTGTGGCGGGATATTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
22716643 AATGAGGTATC-GATGTTGTGATAGGATGTTAAATG
1 AATGAAGTATCAG-TGTTGTGGTGGGATGTTAAATG
* ** * * * *
22716678 AATGTAGTAAAAATGTTGTAGTGGGATATTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * *
22716713 AATGAAGTATCGGTATCGTGGTAGGATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
22716748 AATAAAGTATCAATGTTGTGGTGGGATATTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* *
22716783 AATAAAGTAACAGTGTTGTGGTGGGATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * *
22716818 AATGAAGTATCGGTGTTGTGGCGAGATGTTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * * *
22716853 AAAGAAGTAT-TGATGTTGTGGCGGAATGTTAATTG
1 AATGAAGTATCAG-TGTTGTGGTGGGATGTTAAATG
22716888 AA
1 AA
22716890 AAAGGATTGG
Statistics
Matches: 365, Mismatches: 83, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
32 23 0.06
34 1 0.00
35 276 0.76
37 1 0.00
38 33 0.09
39 2 0.01
40 1 0.00
42 28 0.08
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.34
Consensus pattern (35 bp):
AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
Done.