Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 77 of 187
Found at i:22490345 original size:40 final size:38
Alignment explanation
Indices: 22490267--22490345 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
22490257 GAATTTTCCT
* *
22490267 ATAAAAAATCAATATTTCATATAATTTTACCATATTAA
1 ATAAAAAATCAAAATTTCATATAATTATACCATATTAA
* * *
22490305 ATAAAAAATGAAAATTTGAGTATATATTATATCATATTAA
1 ATAAAAAATCAAAATTTCA-TATA-ATTATACCATATTAA
22490345 A
1 A
22490346 CAGATACTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 16 0.47
39 4 0.12
40 14 0.41
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (38 bp):
ATAAAAAATCAAAATTTCATATAATTATACCATATTAA
Found at i:22492530 original size:17 final size:17
Alignment explanation
Indices: 22492510--22492545 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22492500 TTAAACTTTG
*
22492510 CTTTGCTTTTCTTTTTC
1 CTTTGATTTTCTTTTTC
*
22492527 CTTTTATTTTCTTTTTC
1 CTTTGATTTTCTTTTTC
22492544 CT
1 CT
22492546 CTAGTTTGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (17 bp):
CTTTGATTTTCTTTTTC
Found at i:22502872 original size:34 final size:34
Alignment explanation
Indices: 22502812--22502877 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
22502802 CAAACACCAG
*
22502812 AAAATATTTTCCAGTAAATAATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATAATTTTAC-GAAAAGT
* *
22502847 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATAATTTTACGAAAA
22502878 ATATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.18
34 11 0.39
35 12 0.43
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATAATTTTACGAAAAGT
Found at i:22517635 original size:3 final size:3
Alignment explanation
Indices: 22517627--22517651 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22517617 GAAAGAAATG
22517627 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
22517652 ATTAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22522677 original size:13 final size:13
Alignment explanation
Indices: 22522600--22522695 Score: 52
Period size: 13 Copynumber: 7.3 Consensus size: 13
22522590 ATTATGTGTT
* *
22522600 AAATGGTAAAATG
1 AAATGGTTATATG
* *
22522613 AAATGTTTAGATG
1 AAATGGTTATATG
*
22522626 AAATGGTTATACG
1 AAATGGTTATATG
** *
22522639 AAATATTTTTATG
1 AAATGGTTATATG
* **
22522652 AAAATAGACATATG
1 -AAATGGTTATATG
22522666 AAATGGTTATAT-
1 AAATGGTTATATG
22522678 -AATGTGTCTATATG
1 AAATG-GT-TATATG
22522692 AAAT
1 AAAT
22522696 ATTTATATGG
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
11 4 0.07
12 2 0.03
13 43 0.70
14 9 0.15
15 3 0.05
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:22524572 original size:73 final size:73
Alignment explanation
Indices: 22524477--22524693 Score: 409
Period size: 73 Copynumber: 3.0 Consensus size: 73
22524467 TGTGATGGAA
* *
22524477 ATGGTATG-TTTTTTTGGTTTTAAATGCATTTTGAATGGTTGATTTGGAAGGGTTGAATTGATAC
1 ATGGAATGTTTTTTTTTGTTTTAAATGCATTTTGAATGGTTGATTTGGAAGGGTTGAATTGATAC
22524541 AAATGCTC
66 AAATGCTC
22524549 ATGGAATGTTTTTTTTTGTTTTAAATGCATTTTGAATGGTTGATTTGGAAGGGTTGAATTGATAC
1 ATGGAATGTTTTTTTTTGTTTTAAATGCATTTTGAATGGTTGATTTGGAAGGGTTGAATTGATAC
22524614 AAATGCTC
66 AAATGCTC
22524622 ATGGAATGTTTTTTTTTGTTTTAAATGCATTTTGAATGGTTGATTTGGAAGGGTTGAATTGATAC
1 ATGGAATGTTTTTTTTTGTTTTAAATGCATTTTGAATGGTTGATTTGGAAGGGTTGAATTGATAC
22524687 AAATGCT
66 AAATGCT
22524694 TAGGTAACTT
Statistics
Matches: 142, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
72 7 0.05
73 135 0.95
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (73 bp):
ATGGAATGTTTTTTTTTGTTTTAAATGCATTTTGAATGGTTGATTTGGAAGGGTTGAATTGATAC
AAATGCTC
Found at i:22526250 original size:71 final size:71
Alignment explanation
Indices: 22526049--22526265 Score: 231
Period size: 71 Copynumber: 3.1 Consensus size: 71
22526039 CATGTGCTAC
* * * * * **
22526049 ATCTCAGCCATCAATAAAGTATAATTCGGTGTTGCTCACTCAAGCTGTCGAGAATATGCAACTTA
1 ATCTCAGTCATCAGTAAAATATAATTCGATGCTGCTCACTCAAGCTGTCGAGAATCCGCAACTTA
**
22526114 TG-CCG
66 TGTTAG
* * * *
22526119 AATCTCAGTCATC-GTTAAAATATAATTCGATGCTGCTGACTCAAACTGTTGAGAACCCGCAACT
1 -ATCTCAGTCATCAG-TAAAATATAATTCGATGCTGCTCACTCAAGCTGTCGAGAATCCGCAACT
22526183 TATGTTAG
64 TATGTTAG
* * * * *
22526191 ATCTCAGTCATCAGTAAAATATAATTCGATGCTGCTTACTCAAGTTGTCAAAAATCCGCAACATA
1 ATCTCAGTCATCAGTAAAATATAATTCGATGCTGCTCACTCAAGCTGTCGAGAATCCGCAACTTA
*
22526256 TGTTGG
66 TGTTAG
22526262 ATCT
1 ATCT
22526266 TAACAATCGA
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
71 119 0.98
72 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (71 bp):
ATCTCAGTCATCAGTAAAATATAATTCGATGCTGCTCACTCAAGCTGTCGAGAATCCGCAACTTA
TGTTAG
Found at i:22533405 original size:15 final size:15
Alignment explanation
Indices: 22533385--22533417 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
22533375 CATGTCCGTC
22533385 CACATATGAGTTGGG
1 CACATATGAGTTGGG
22533400 CACATATGAGTTGGG
1 CACATATGAGTTGGG
22533415 CAC
1 CAC
22533418 GGATGTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (15 bp):
CACATATGAGTTGGG
Found at i:22534925 original size:5 final size:5
Alignment explanation
Indices: 22534915--22534949 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
22534905 TAGGCTACCA
22534915 ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG
22534950 CCCTCGTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:22538721 original size:27 final size:22
Alignment explanation
Indices: 22538660--22538712 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
22538650 TCAATCATAT
22538660 AACATTTCAATTCACTTAATTC
1 AACATTTCAATTCACTTAATTC
22538682 AACATTTCAATTCACTTAATTC
1 AACATTTCAATTCACTTAATTC
22538704 AACATTTCA
1 AACATTTCA
22538713 TCATTATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (22 bp):
AACATTTCAATTCACTTAATTC
Found at i:22541707 original size:30 final size:30
Alignment explanation
Indices: 22541673--22541744 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
22541663 AAGGGGCAAT
22541673 CAATTAATTGAGTTCTTAATTAAAAATTAG
1 CAATTAATTGAGTTCTTAATTAAAAATTAG
*
22541703 CAATTAATTGAGTTGTTAATTAAAAATTAG
1 CAATTAATTGAGTTCTTAATTAAAAATTAG
*
22541733 CAATCAATTGAG
1 CAATTAATTGAG
22541745 CCTTATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (30 bp):
CAATTAATTGAGTTCTTAATTAAAAATTAG
Found at i:22546298 original size:22 final size:23
Alignment explanation
Indices: 22546256--22546303 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
22546246 TTTTAGTTAA
22546256 GCTATTATTTTAACAAAAAATTTTT
1 GCTATTATTTTAAC--AAAATTTTT
*
22546281 GCTATTATTTTAACAAATTTTTT
1 GCTATTATTTTAACAAAATTTTT
22546304 TTTACTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.36
25 14 0.64
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.52
Consensus pattern (23 bp):
GCTATTATTTTAACAAAATTTTT
Found at i:22550023 original size:17 final size:17
Alignment explanation
Indices: 22549994--22550045 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
22549984 CTTTTATGAT
22549994 AAATTTTATAAATAATA
1 AAATTTTATAAATAATA
*
22550011 AAATATTTA-AAATGAT-
1 AAAT-TTTATAAATAATA
* *
22550027 AAATTATATATATAATA
1 AAATTTTATAAATAATA
22550044 AA
1 AA
22550046 GCAGAGTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 3 0.11
16 9 0.32
17 12 0.43
18 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATTTTATAAATAATA
Found at i:22551229 original size:28 final size:28
Alignment explanation
Indices: 22551189--22551254 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
22551179 ATGGATGCAG
* * *
22551189 AATCACATATGCAGAACTATAGATACGA
1 AATCATATATGCAAAACTATAAATACGA
*
22551217 AATCATATATGCAAAATTATAAATACGA
1 AATCATATATGCAAAACTATAAATACGA
*
22551245 AATTATATAT
1 AATCATATAT
22551255 ATTGATTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (28 bp):
AATCATATATGCAAAACTATAAATACGA
Found at i:22551280 original size:28 final size:28
Alignment explanation
Indices: 22551249--22551363 Score: 97
Period size: 28 Copynumber: 4.1 Consensus size: 28
22551239 ATACGAAATT
* *
22551249 ATATATATTGATTTATAAGTACTGATTC
1 ATATATATGGATTTATAAGTACAGATTC
** * **
22551277 ATATATGCGGACTCCT-AGATACAGATTC
1 ATATATATGGATTTATAAG-TACAGATTC
* *
22551305 ATATATATGGATTTATAAGTACGGAATC
1 ATATATATGGATTTATAAGTACAGATTC
* * * *
22551333 ATATATGTGGATTCATAAATACAGATAC
1 ATATATATGGATTTATAAGTACAGATTC
22551361 ATA
1 ATA
22551364 AGTACATATT
Statistics
Matches: 65, Mismatches: 20, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
27 2 0.03
28 61 0.94
29 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (28 bp):
ATATATATGGATTTATAAGTACAGATTC
Found at i:22551309 original size:56 final size:56
Alignment explanation
Indices: 22551249--22551363 Score: 158
Period size: 56 Copynumber: 2.1 Consensus size: 56
22551239 ATACGAAATT
* * * * * *
22551249 ATATATATTGATTTATAAGTACTGATTCATATATGCGGACTCCTAGATACAGATTC
1 ATATATATGGATTTATAAGTACGGAATCATATATGCGGACTCATAAATACAGATAC
* *
22551305 ATATATATGGATTTATAAGTACGGAATCATATATGTGGATTCATAAATACAGATAC
1 ATATATATGGATTTATAAGTACGGAATCATATATGCGGACTCATAAATACAGATAC
22551361 ATA
1 ATA
22551364 AGTACATATT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (56 bp):
ATATATATGGATTTATAAGTACGGAATCATATATGCGGACTCATAAATACAGATAC
Found at i:22551365 original size:42 final size:42
Alignment explanation
Indices: 22551319--22551400 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
22551309 ATATGGATTT
* *
22551319 ATAAGTACGGAATCATATATGTGGATTCATAAATACAGATAC
1 ATAAGTACAGAATCATATATATGGATTCATAAATACAGATAC
* * * *
22551361 ATAAGTACATATTCTTATATATGGATTCATAGATACAGAT
1 ATAAGTACAGAATCATATATATGGATTCATAAATACAGAT
22551401 TCATGCCTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (42 bp):
ATAAGTACAGAATCATATATATGGATTCATAAATACAGATAC
Found at i:22553965 original size:22 final size:22
Alignment explanation
Indices: 22553939--22553988 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
22553929 TTATCTAGAA
22553939 ATATGTTTATAA-G-TATTGTGAT
1 ATATGTTTA-AATGTTA-TGTGAT
*
22553961 ATATGCTTAAATGTTATGTGAT
1 ATATGTTTAAATGTTATGTGAT
22553983 ATATGT
1 ATATGT
22553989 GTAATGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.08
22 20 0.83
23 2 0.08
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (22 bp):
ATATGTTTAAATGTTATGTGAT
Found at i:22555785 original size:26 final size:26
Alignment explanation
Indices: 22555744--22555804 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
22555734 AATTTTCTCG
* * *
22555744 AAATTTTACCGGGGGT-AAGATCGTTA
1 AAATTTTACCGAGGGTCAA-ATCATCA
*
22555770 AAATTTTACCTAGGGTCAAATCATCA
1 AAATTTTACCGAGGGTCAAATCATCA
22555796 AAATTTTAC
1 AAATTTTAC
22555805 TGGAGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (26 bp):
AAATTTTACCGAGGGTCAAATCATCA
Found at i:22557475 original size:21 final size:19
Alignment explanation
Indices: 22557445--22557483 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22557435 GTTGGAAAAA
22557445 GAAAAAATATATGTTCACC
1 GAAAAAATATATGTTCACC
22557464 GAAAAAATATATGTTCACC
1 GAAAAAATATATGTTCACC
22557483 G
1 G
22557484 TTTTCCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (19 bp):
GAAAAAATATATGTTCACC
Found at i:22558060 original size:39 final size:39
Alignment explanation
Indices: 22558014--22558092 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
22558004 TTTAAAAGTA
*
22558014 TATATTATAATTAAATAAAAATGATTTTTGAAATTTAAG
1 TATATTATAATTAAATAAAAATGATTTTTCAAATTTAAG
22558053 TATATTATAATTAAATAAAAATGATTTTTCAAATTTAAG
1 TATATTATAATTAAATAAAAATGATTTTTCAAATTTAAG
22558092 T
1 T
22558093 TTTTTATCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (39 bp):
TATATTATAATTAAATAAAAATGATTTTTCAAATTTAAG
Found at i:22562831 original size:29 final size:29
Alignment explanation
Indices: 22562775--22562831 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
22562765 TTATGAAAGA
* * * *
22562775 GATGGAGAACTTGTTCGTTGAGAGTTCGC
1 GATGAAGAACTTGTTCATTAAGAATTCGC
*
22562804 GATGAAGAACTTGTTCATTAATAATTCG
1 GATGAAGAACTTGTTCATTAAGAATTCG
22562832 TGTCAAGGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (29 bp):
GATGAAGAACTTGTTCATTAAGAATTCGC
Found at i:22563171 original size:6 final size:6
Alignment explanation
Indices: 22563160--22563195 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
22563150 CTGTGTGTTC
* *
22563160 TTTATT TTTATT TTTATT TCTATT TCTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
22563196 GCGATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:22566659 original size:44 final size:44
Alignment explanation
Indices: 22566575--22566691 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
22566565 GCTCAGGCTA
**
22566575 CTCCGCTGCAACTTCAGGGAAATAAGA-CCTGCTTACTCAATCTG
1 CTCCGCTGCAACTTCAGGGAAATAAGATTATGCTTA-TCAATCTG
* *
22566619 CTTCGCTGCAACTTCAGGGAAATAAGATTATCGGTT-TCAATCTG
1 CTCCGCTGCAACTTCAGGGAAATAAGATTAT-GCTTATCAATCTG
* * * *
22566663 CTCCACTGCAACCTCATGGAAATGAGATT
1 CTCCGCTGCAACTTCAGGGAAATAAGATT
22566692 CGCCATCTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 58 0.94
45 1 0.02
46 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
CTCCGCTGCAACTTCAGGGAAATAAGATTATGCTTATCAATCTG
Found at i:22580715 original size:29 final size:26
Alignment explanation
Indices: 22580667--22580719 Score: 70
Period size: 29 Copynumber: 1.9 Consensus size: 26
22580657 TTTGGACTGA
22580667 ATTTATTTATTATTTTCTTTGTTTTTG
1 ATTTATTTATTATTTTCTTT-TTTTTG
*
22580694 ATTTGATTTGATTTTTTTCTTTTTTT
1 ATTT-ATTT-ATTATTTTCTTTTTTT
22580720 ATTCAGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 8 0.35
29 11 0.48
ACGTcount: A:0.13, C:0.04, G:0.08, T:0.75
Consensus pattern (26 bp):
ATTTATTTATTATTTTCTTTTTTTTG
Found at i:22586668 original size:109 final size:109
Alignment explanation
Indices: 22586448--22586766 Score: 349
Period size: 109 Copynumber: 2.9 Consensus size: 109
22586438 AAAATTCAAG
* * * * *
22586448 AGGATATTTGACTATTTGGTTAAATGAG-AAATCGAAACCCCGCACATTAGGGCAC-ATTCCTCA
1 AGGATATTTGGCTATTTGGTTGAATGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCG
* * * *
22586511 AATTTCCAAACGCAAAATATAGTCTTACTTTGAAAATTTTTTTGAA
66 AATTTCCAAACGCAAAATATTGCCTTA-TTTGAAAA-TATTTTAAA
* * *
22586557 AGGATATTTGGCTATTTGGTTGAATGAGAAAAATTCGAAACCCAGCAGATTAAGGCGCGTTTCCT
1 AGGATATTTGGCTATTTGGTTGAATGAG-AAAA-TCGAAACCCAGCACATTAGGGCACGTTTCCT
* *
22586622 CGAATTTCCAAACG-AAAACATTGCCTTATTTTAAAA-ATTTTAAA
64 CGAATTTCCAAACGCAAAATATTGCCTTATTTGAAAATATTTTAAA
* * * * * *
22586666 AGGATACTTAGTTATTTGGTTGAACGAGAAAATCGAAACCCAGCACACTAGGGCACGTTTTCTCG
1 AGGATATTTGGCTATTTGGTTGAATGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCG
* ** *
22586731 AATTTCTAAACGTTAAATATTGCCTCATTTAGAAAA
66 AATTTCCAAACGCAAAATATTGCCTTATTT-GAAAA
22586767 ACTTTCCTTT
Statistics
Matches: 176, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
107 39 0.22
108 18 0.10
109 60 0.34
111 10 0.06
112 31 0.18
113 18 0.10
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTTGAATGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCG
AATTTCCAAACGCAAAATATTGCCTTATTTGAAAATATTTTAAA
Found at i:22586837 original size:21 final size:21
Alignment explanation
Indices: 22586793--22586838 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22586783 GTATGGTGTT
* *
22586793 AATATGCATAATGGAATAATA
1 AATATGCATAATGGAACAAAA
22586814 AATATG-ATAATGTGAACAAAA
1 AATATGCATAATG-GAACAAAA
22586835 AATA
1 AATA
22586839 ATATGAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (21 bp):
AATATGCATAATGGAACAAAA
Found at i:22611888 original size:125 final size:125
Alignment explanation
Indices: 22611635--22612007 Score: 658
Period size: 125 Copynumber: 3.0 Consensus size: 125
22611625 AGGATTTTTA
* * * * *
22611635 GGTCCTGGAAGAAATAATTTCGAGTTGGCATTTCTGAGCAAATAGTATAAAATCGCTTTTA-CAA
1 GGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAATCGCTTCTACCAT
* * * *
22611699 GATGCTTTATGAGAAGAATTTGTTAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTT
66 GATGCTTTATGAGAAGAATTTATGAAATTGCACCCACGTGGACGCGCTTTTGCTACAGTT
22611759 GGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAATCGCTTCTACCAT
1 GGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAATCGCTTCTACCAT
22611824 GATGCTTTATGAGAAGAATTTATGAAATTGCACCCACGTGGACGCGCTTTTGCTACAGTT
66 GATGCTTTATGAGAAGAATTTATGAAATTGCACCCACGTGGACGCGCTTTTGCTACAGTT
22611884 GGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAATCGCTTCTACCAT
1 GGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAATCGCTTCTACCAT
22611949 GATGCTTTATGAGAAGAATTTATGAAATTGCACCCACGTGGACGCGCTTTTGCTACAGT
66 GATGCTTTATGAGAAGAATTTATGAAATTGCACCCACGTGGACGCGCTTTTGCTACAGT
22612008 AGCATGTTTG
Statistics
Matches: 239, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
124 57 0.24
125 182 0.76
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
GGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAATCGCTTCTACCAT
GATGCTTTATGAGAAGAATTTATGAAATTGCACCCACGTGGACGCGCTTTTGCTACAGTT
Found at i:22614577 original size:30 final size:30
Alignment explanation
Indices: 22614542--22614598 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
22614532 CCTCGACTCT
*
22614542 AACTTTTTCAAAATTACAATTTTGCCCATA
1 AACTTTTACAAAATTACAATTTTGCCCATA
* *
22614572 AACTTTTACATAATTACATTTTTGCCC
1 AACTTTTACAAAATTACAATTTTGCCC
22614599 CAAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCATA
Found at i:22617589 original size:25 final size:25
Alignment explanation
Indices: 22617555--22617602 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
22617545 TAAAAAAAAT
22617555 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
22617580 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
22617603 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:22617591 original size:70 final size:70
Alignment explanation
Indices: 22617517--22617647 Score: 219
Period size: 70 Copynumber: 1.9 Consensus size: 70
22617507 TAATCTCATG
*
22617517 TTATTACATCAAATAATATCAAAATAACTAAAAAAAATTT-CTATTTTATTACATCAAATAAACT
1 TTATTACATCAAATAATATCAAAATAACT-AAAAAAATTTACTATTTTATTACATAAAATAAACT
22617581 TCTATT
65 TCTATT
* *
22617587 TTATTACATCAAATAATATCAAAATAACTCAAAAAATTTATTATTTTATTACATAAAATAA
1 TTATTACATCAAATAATATCAAAATAACTAAAAAAATTTACTATTTTATTACATAAAATAA
22617648 TATCAAAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 9 0.16
70 48 0.84
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.38
Consensus pattern (70 bp):
TTATTACATCAAATAATATCAAAATAACTAAAAAAATTTACTATTTTATTACATAAAATAAACTT
CTATT
Found at i:22617619 original size:45 final size:45
Alignment explanation
Indices: 22617570--22617657 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
22617560 TTTTATTACA
*
22617570 TCAAATAAACTT-CTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAA-AAACTTACTATTTTATTACATAAAATAATATCAAAATAAC
* *
22617615 TCAAAAAATTTATTATTTTATTACATAAAATAATATCAAAATA
1 TCAAAAAACTTACTATTTTATTACATAAAATAATATCAAAATA
22617658 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 5 0.13
45 34 0.87
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAAAAACTTACTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:22618418 original size:7 final size:7
Alignment explanation
Indices: 22618408--22618432 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22618398 TTATATACAT
22618408 AATACTA
1 AATACTA
22618415 AATACTA
1 AATACTA
22618422 AATACTA
1 AATACTA
22618429 AATA
1 AATA
22618433 GCAATCAACT
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:22618628 original size:20 final size:20
Alignment explanation
Indices: 22618603--22618640 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22618593 TTTATTTTTA
22618603 AAAATCTAA-ATAATAATTAT
1 AAAATCTAATATAA-AATTAT
22618623 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
22618641 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATCTAATATAAAATTAT
Found at i:22619558 original size:43 final size:43
Alignment explanation
Indices: 22619506--22619642 Score: 238
Period size: 43 Copynumber: 3.2 Consensus size: 43
22619496 GAAAATAACA
* *
22619506 CCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
22619549 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
22619592 CCGCTAAAGACCATGACCTTTAGCGGCACTTTTCCCATAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
22619635 CCGCTAAA
1 CCGCTAAA
22619643 AATATAACTT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (43 bp):
CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACG
Found at i:22620865 original size:24 final size:24
Alignment explanation
Indices: 22620836--22620889 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
22620826 TTGATGAAAG
* *
22620836 ATGAACTGTTAAATACATGCAGAA
1 ATGAACTGTTAAACACATACAGAA
* *
22620860 ATGAACCGTTCAACACATACAGAA
1 ATGAACTGTTAAACACATACAGAA
22620884 A-GAACT
1 ATGAACT
22620890 TACTTTTCCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (24 bp):
ATGAACTGTTAAACACATACAGAA
Found at i:22623926 original size:41 final size:41
Alignment explanation
Indices: 22623864--22624025 Score: 200
Period size: 41 Copynumber: 4.0 Consensus size: 41
22623854 TAAAATATTT
*
22623864 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGACCCCAACA
* * *
22623905 TTAGTGGCGCTTTCT-CAAAAACGCCGCTAAAGACACCAGCA
1 TTAGCGGCGCTTT-TACAAAAACGCCGCTAAAGACCCCAACA
* * * * *
22623946 TTACCGGCGCTTTTCCAAAGACGCCGCTAAAAACCCCAGCA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGACCCCAACA
* * *
22623987 TTAGCAGCGCTTTTACGAAAACGCCGCTAAAGCCCCCAA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGACCCCAA
22624026 AGGTAAGAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.01
41 101 0.98
42 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGACCCCAACA
Found at i:22624008 original size:82 final size:82
Alignment explanation
Indices: 22623868--22624018 Score: 223
Period size: 82 Copynumber: 1.8 Consensus size: 82
22623858 ATATTTTTAG
* * **
22623868 CGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAACATTAGTGGCGCTTTCTCAAAAACGCCGCT
1 CGGCGCTTTTCCAAAAACGCCGCTAAAAACCCCAACATTAGCAGCGCTTTCTCAAAAACGCCGCT
22623933 AAAGACACCAGCATTAC
66 AAAGACACCAGCATTAC
* * *
22623950 CGGCGCTTTTCCAAAGACGCCGCTAAAAACCCCAGCATTAGCAGCGCTTT-TACGAAAACGCCGC
1 CGGCGCTTTTCCAAAAACGCCGCTAAAAACCCCAACATTAGCAGCGCTTTCT-CAAAAACGCCGC
22624014 TAAAG
65 TAAAG
22624019 CCCCCAAAGG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 1 0.02
82 60 0.98
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.19
Consensus pattern (82 bp):
CGGCGCTTTTCCAAAAACGCCGCTAAAAACCCCAACATTAGCAGCGCTTTCTCAAAAACGCCGCT
AAAGACACCAGCATTAC
Found at i:22624112 original size:39 final size:40
Alignment explanation
Indices: 22624058--22624160 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
22624048 GGCTTTGGTT
22624058 AACGCCGCTAATGCTC-ATTTTTAGCGGCG-TTTT-TTGAAA
1 AACGCCGCTAATGCTCGATTTTTAGCGGCGATTTTCTT--AA
* *
22624097 AACGCCGCTAATGCTCGATCTTTAGTGGCGATTTTCTTAA
1 AACGCCGCTAATGCTCGATTTTTAGCGGCGATTTTCTTAA
*
22624137 AACGCCGCTAATGCTCTATTTTTA
1 AACGCCGCTAATGCTCGATTTTTA
22624161 CCAGCATTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
39 16 0.28
40 35 0.61
41 4 0.07
42 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.36
Consensus pattern (40 bp):
AACGCCGCTAATGCTCGATTTTTAGCGGCGATTTTCTTAA
Found at i:22624139 original size:40 final size:38
Alignment explanation
Indices: 22624058--22624188 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 38
22624048 GGCTTTGGTT
*
22624058 AACGCCGCTAATGCTCATTTTTAGCGGCGTTTTTTGAAA
1 AACGCCGCTAATGCTCATCTTTAGCGGCGTTTTTT-AAA
*
22624097 AACGCCGCTAATGCTCGATCTTTAGTGGCGATTTTCTT-AA
1 AACGCCGCTAATGCTC-ATCTTTAGCGGCG-TTTT-TTAAA
* * * * *
22624137 AACGCCGCTAATGCTCTATTTTTACCAGCATTTTTTATCCA
1 AACGCCGCTAATGCTC-ATCTTTAGCGGCGTTTTTTA--AA
22624178 AACGCCGCTAA
1 AACGCCGCTAA
22624189 AAGTGCAGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
38 2 0.03
39 20 0.26
40 37 0.48
41 16 0.21
42 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (38 bp):
AACGCCGCTAATGCTCATCTTTAGCGGCGTTTTTTAAA
Found at i:22624535 original size:11 final size:11
Alignment explanation
Indices: 22624521--22624575 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
22624511 TTAAATATGG
22624521 ATTTGAGAGAA
1 ATTTGAGAGAA
*
22624532 ATTTG-GAAGGA
1 ATTTGAG-AGAA
22624543 ATTTGAGAGCAA
1 ATTTGAGAG-AA
22624555 A-TTGAGAGGAA
1 ATTTGAGA-GAA
22624566 ATTTGAGAGA
1 ATTTGAGAGA
22624576 GGATAAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:22624568 original size:23 final size:22
Alignment explanation
Indices: 22624521--22624575 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
22624511 TTAAATATGG
22624521 ATTTGAGAGAAATTTGGAAGGA
1 ATTTGAGAGAAATTTGGAAGGA
22624543 ATTTGAGAGCAAA-TT-GAGAGGAA
1 ATTTGAGAG-AAATTTGGA-AGG-A
22624566 ATTTGAGAGA
1 ATTTGAGAGA
22624576 GGATAAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.07
22 15 0.50
23 13 0.43
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTTGGAAGGA
Found at i:22628322 original size:45 final size:45
Alignment explanation
Indices: 22628222--22628350 Score: 125
Period size: 45 Copynumber: 2.9 Consensus size: 45
22628212 CTATAAGCCT
* *
22628222 AAAATGAGTAAAACCATAGTTGAAAGGCACTATAGCATCAGAATG
1 AAAATGAGTAAAACCATAGCTGAAAGACACTATAGCATCAGAATG
* * * ** *
22628267 GAAATTAGTAAGACCATAGCTGAAAGATGCTATGGCATCATG-ATG
1 AAAATGAGTAAAACCATAGCTGAAAGACACTATAGCATCA-GAATG
* * * * *
22628312 AAAATGAGTAAAACGATGGTTGAAAGACATTATGGCATC
1 AAAATGAGTAAAACCATAGCTGAAAGACACTATAGCATC
22628351 CTTTGATAGT
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
45 65 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (45 bp):
AAAATGAGTAAAACCATAGCTGAAAGACACTATAGCATCAGAATG
Found at i:22628461 original size:27 final size:27
Alignment explanation
Indices: 22628428--22628540 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
22628418 ACGACATCAT
* * *
22628428 AGATAGTTTAATGGGATGTTAAATATG
1 AGATAGTTCAACGGGATGTTAAACATG
* * *
22628455 AGATAGTTTAACGGGAAGTTAAACA-C
1 AGATAGTTCAACGGGATGTTAAACATG
*
22628481 AGGATAGTCCAACGGGATGTTAAACATG
1 A-GATAGTTCAACGGGATGTTAAACATG
* * * *
22628509 AGATAGTTCGATGAGATGTTAAACACG
1 AGATAGTTCAACGGGATGTTAAACATG
22628536 AGATA
1 AGATA
22628541 AACTAATAGG
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 69 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.27
Consensus pattern (27 bp):
AGATAGTTCAACGGGATGTTAAACATG
Found at i:22628579 original size:54 final size:54
Alignment explanation
Indices: 22628500--22628623 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
22628490 CAACGGGATG
* * * * *
22628500 TTAAACATGAGATAGTTCGATGAGATGTTAAACACGAGATAAACTAA-TAGGACA
1 TTAAACACGGGATAATTCGACGAGATGTTAAACACAAGATAAACTAACTA-GACA
* * **
22628554 TTGAACACTGGATAATTCGACGAGATGTTAAACACAAGATAGTCTAACTAGACA
1 TTAAACACGGGATAATTCGACGAGATGTTAAACACAAGATAAACTAACTAGACA
22628608 TTAAACACGGGATAAT
1 TTAAACACGGGATAAT
22628624 CTGTTGAGAC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 56 0.97
55 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (54 bp):
TTAAACACGGGATAATTCGACGAGATGTTAAACACAAGATAAACTAACTAGACA
Found at i:22639720 original size:92 final size:94
Alignment explanation
Indices: 22639609--22639827 Score: 225
Period size: 92 Copynumber: 2.3 Consensus size: 94
22639599 TGTAGTACAT
* * *
22639609 GTACTTTGAACTATT-AATAT-TAGTTTTATTATGATACACATACTTTCATAAAATATCTAAT-T
1 GTAC-TTGAACT-TTCAATATGT-GTTTTATTATGATACACACACTTTCATAAAATACCCAATGT
*
22639671 TG-ATATATGTACTTTGAAAATGTCTAAT-A-TA
63 AGCAT-T-TGTACTTTGAAAATGTCTAATAAGTA
* * * * ** *
22639702 GTACTTGAACTTTCAATATGTGATTTCTTATGGTATATGCACTTTCGTAAAATACCCAATGTAGC
1 GTACTTGAACTTTCAATATGTGTTTTATTATGATACACACACTTTCATAAAATACCCAATGTAGC
22639767 ATTTGTACTTTGAAAATGTCTAATAATGTA
66 ATTTGTACTTTGAAAATGTCTAATAA-GTA
* *
22639797 GTACTTGAACTATCAACATGTGTTTTATTAT
1 GTACTTGAACTTTCAATATGTGTTTTATTAT
22639828 AGTATATAGA
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
91 2 0.02
92 62 0.60
93 9 0.09
94 2 0.02
95 29 0.28
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (94 bp):
GTACTTGAACTTTCAATATGTGTTTTATTATGATACACACACTTTCATAAAATACCCAATGTAGC
ATTTGTACTTTGAAAATGTCTAATAAGTA
Found at i:22639983 original size:20 final size:20
Alignment explanation
Indices: 22639934--22639983 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
22639924 ACGTTATGTG
22639934 AAAAACTAAATAAAACAAAA
1 AAAAACTAAATAAAACAAAA
* *
22639954 AAAAATTAAATTAAAA-AACA
1 AAAAACTAAA-TAAAACAAAA
*
22639974 AATAACTAAA
1 AAAAACTAAA
22639984 CATATTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAACTAAATAAAACAAAA
Found at i:22640211 original size:16 final size:17
Alignment explanation
Indices: 22640187--22640225 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
22640177 ATGTTTTGTT
*
22640187 ATTTGTTATTT-AATTA
1 ATTTTTTATTTCAATTA
*
22640203 ATTTTTTATTTCATTTA
1 ATTTTTTATTTCAATTA
22640220 ATTTTT
1 ATTTTT
22640226 CACATGATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTTTTTATTTCAATTA
Found at i:22640668 original size:22 final size:22
Alignment explanation
Indices: 22640621--22640668 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
22640611 TATATTATTT
* ***
22640621 AAAAAAATCCTAAATAAGTTGT
1 AAAAAAATCCTAAATAAATAAA
22640643 AAAAAAATCCTAAATAAATAAA
1 AAAAAAATCCTAAATAAATAAA
22640665 AAAA
1 AAAA
22640669 TTAAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAAAAATCCTAAATAAATAAA
Found at i:22640889 original size:27 final size:25
Alignment explanation
Indices: 22640827--22640902 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 25
22640817 GTGAACAAAT
* *
22640827 AATTCAT-AAATTATAAAAATAAAG
1 AATTCATAAAATTTTAAAAATAAAA
*
22640851 AATACATCAAAATTTTAAAAATATAAA
1 AATTCAT-AAAATTTTAAAAATA-AAA
* *
22640878 AAGTTCATAAAAATTCAAAAA-AAAA
1 AA-TTCATAAAATTTTAAAAATAAAA
22640903 TAGTATGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 6 0.14
25 3 0.07
26 14 0.33
27 15 0.36
28 4 0.10
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (25 bp):
AATTCATAAAATTTTAAAAATAAAA
Found at i:22640890 original size:28 final size:26
Alignment explanation
Indices: 22640834--22640892 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
22640824 AATAATTCAT
* *
22640834 AAATTATAAAAATAAAGAATACATCA
1 AAATTATAAAAATAAAAAATACATAA
* *
22640860 AAATTTTAAAAATATAAAAAGTTCATAA
1 AAATTATAAAAATA-AAAAA-TACATAA
22640888 AAATT
1 AAATT
22640893 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.48
27 4 0.15
28 10 0.37
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (26 bp):
AAATTATAAAAATAAAAAATACATAA
Found at i:22642947 original size:41 final size:40
Alignment explanation
Indices: 22642890--22643126 Score: 276
Period size: 41 Copynumber: 5.8 Consensus size: 40
22642880 CCTTTCGTGG
*
22642890 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCCAAGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATG-CCAGGT
*
22642931 CTTTAGCGGCGTTTTTGGCAAAGCGCCGCTAATGCCCAGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATG-CCAGGT
* *
22642972 ATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCAGGT
* * ** *
22643012 TTTTAGTGGCGTTTTTGGAAAAAGCGCCGCTAATGGTAGGGG
1 CTTTAGCGGCGTTTTTGG-AAAAGCGCCGCTAATGCCA-GGT
* * * ** *
22643054 CTTTAGTGGCGTTTTCGGAAAAGCGCAGCTAATGGTAAGGG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAT-GCCAGGT
* *
22643095 CTTTAGCGGCGTTTTTAGAAAAGTGCCGCTAA
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
22643127 AAATATTTTA
Statistics
Matches: 172, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 21 0.12
41 131 0.76
42 20 0.12
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCAGGT
Found at i:22643605 original size:8 final size:8
Alignment explanation
Indices: 22643592--22643622 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
22643582 GGGTTAATAG
22643592 TTAGGGAT
1 TTAGGGAT
22643600 TTAGGG-T
1 TTAGGGAT
22643607 TTAGGGAT
1 TTAGGGAT
22643615 TTAGGGAT
1 TTAGGGAT
22643623 CAGGTTAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.39
Consensus pattern (8 bp):
TTAGGGAT
Found at i:22643612 original size:15 final size:15
Alignment explanation
Indices: 22643592--22643620 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22643582 GGGTTAATAG
22643592 TTAGGGATTTAGGGT
1 TTAGGGATTTAGGGT
22643607 TTAGGGATTTAGGG
1 TTAGGGATTTAGGG
22643621 ATCAGGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
TTAGGGATTTAGGGT
Found at i:22647928 original size:12 final size:12
Alignment explanation
Indices: 22647911--22647945 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22647901 ATATACGTAA
22647911 ATATGTATATAT
1 ATATGTATATAT
22647923 ATATGTATATAT
1 ATATGTATATAT
* *
22647935 GTATGTCTATA
1 ATATGTATATA
22647946 AATTGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:22647934 original size:20 final size:20
Alignment explanation
Indices: 22647901--22647938 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22647891 GACAACAAAG
22647901 ATATACGTAAATATGTATAT
1 ATATACGTAAATATGTATAT
* *
22647921 ATATATGTATATATGTAT
1 ATATACGTAAATATGTAT
22647939 GTCTATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
ATATACGTAAATATGTATAT
Found at i:22649524 original size:29 final size:27
Alignment explanation
Indices: 22649492--22649551 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
22649482 CAAAAGAAAT
22649492 AAAAAAAATTACCAAAATAATATACAAAA
1 AAAAAAAATTACCAAAAT-A-ATACAAAA
** *
22649521 AAAATTATTTACCAAAATAATACAAAA
1 AAAAAAAATTACCAAAATAATACAAAA
22649548 AAAA
1 AAAA
22649552 GACGGCTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 12 0.43
28 1 0.04
29 15 0.54
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (27 bp):
AAAAAAAATTACCAAAATAATACAAAA
Found at i:22649606 original size:27 final size:27
Alignment explanation
Indices: 22649576--22649638 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
22649566 GGTAATGGAA
* *
22649576 TGGCGGCACCGGTGGTGCCTTTCTCAT
1 TGGCGGCACCGGTGGTGCCATTCCCAT
* *
22649603 TGGCGACACCGGTGGTGTCATTCCCAT
1 TGGCGGCACCGGTGGTGCCATTCCCAT
22649630 TGGCGGCAC
1 TGGCGGCAC
22649639 AGGACTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.11, C:0.30, G:0.33, T:0.25
Consensus pattern (27 bp):
TGGCGGCACCGGTGGTGCCATTCCCAT
Found at i:22651121 original size:27 final size:27
Alignment explanation
Indices: 22651083--22651145 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
22651073 TTTTAGTCCT
* *
22651083 GTGCCGCCAATGGGAATGACACCACCA
1 GTGCCGCCAATGAGAAAGACACCACCA
* *
22651110 GTGCCGCCAATGAGAAAGGCACCACCG
1 GTGCCGCCAATGAGAAAGACACCACCA
22651137 GTGCCGCCA
1 GTGCCGCCA
22651146 TTCCATTACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.35, G:0.29, T:0.10
Consensus pattern (27 bp):
GTGCCGCCAATGAGAAAGACACCACCA
Found at i:22651240 original size:20 final size:23
Alignment explanation
Indices: 22651197--22651246 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 23
22651187 GGTAAATAAG
22651197 TTTTTTTGTATATTATTTTGGTA
1 TTTTTTTGTATATTATTTTGGTA
*
22651220 TTTTTTT-TAT-TTCTTTT-GTA
1 TTTTTTTGTATATTATTTTGGTA
*
22651240 TTATTTT
1 TTTTTTT
22651247 AGTAAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.36
21 6 0.24
22 3 0.12
23 7 0.28
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (23 bp):
TTTTTTTGTATATTATTTTGGTA
Found at i:22653109 original size:14 final size:14
Alignment explanation
Indices: 22653090--22653145 Score: 78
Period size: 14 Copynumber: 4.0 Consensus size: 14
22653080 ATTCACTGCT
22653090 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
*
22653104 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAAG
*
22653118 TTTTAGGGTTTAGAG
1 -TTTAGGGTTTAAAG
22653133 TTTAGGG-TTAAAG
1 TTTAGGGTTTAAAG
22653146 GTTAAAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
13 5 0.14
14 20 0.54
15 12 0.32
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:22653113 original size:7 final size:7
Alignment explanation
Indices: 22653090--22653141 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
22653080 ATTCACTGCT
22653090 TTTAGGG
1 TTTAGGG
**
22653097 TTTAAAG
1 TTTAGGG
22653104 TTTAGGG
1 TTTAGGG
*
22653111 TTTAAGGT
1 TTT-AGGG
22653119 TTTAGGG
1 TTTAGGG
*
22653126 TTTAGAG
1 TTTAGGG
22653133 TTTAGGG
1 TTTAGGG
22653140 TT
1 TT
22653142 AAAGGTTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:22653122 original size:29 final size:29
Alignment explanation
Indices: 22653089--22653148 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
22653079 GATTCACTGC
*
22653089 TTTTAGGGTTTAAAGTTTAGGGTTTAAGG
1 TTTTAGGGTTTAAAGTTTAGGGTTAAAGG
*
22653118 TTTTAGGGTTTAGAGTTTAGGGTTAAAGG
1 TTTTAGGGTTTAAAGTTTAGGGTTAAAGG
22653147 TT
1 TT
22653149 AAAGATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (29 bp):
TTTTAGGGTTTAAAGTTTAGGGTTAAAGG
Found at i:22653419 original size:26 final size:28
Alignment explanation
Indices: 22653369--22653428 Score: 88
Period size: 26 Copynumber: 2.2 Consensus size: 28
22653359 ATAAACAACA
*
22653369 AAAAAATTATTTTAAAAATAAAAAGAAT
1 AAAAAAGTATTTTAAAAATAAAAAGAAT
*
22653397 AAAAAAGTATTTT-AAAAT-TAAAGAAT
1 AAAAAAGTATTTTAAAAATAAAAAGAAT
22653423 AAAAAA
1 AAAAAA
22653429 CATTTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 13 0.43
27 5 0.17
28 12 0.40
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAAAAGTATTTTAAAAATAAAAAGAAT
Found at i:22656793 original size:22 final size:22
Alignment explanation
Indices: 22656760--22656816 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
22656750 TAGGGATTTA
22656760 AGAG-AAATTTGAGAGGAAATTG
1 AGAGCAAA-TTGAGAGGAAATTG
22656782 AGAGCAAATTGAGAGGAAATTG
1 AGAGCAAATTGAGAGGAAATTG
*
22656804 GGAGCATAATTGA
1 AGAGCA-AATTGA
22656817 AAAATGATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 23 0.72
23 9 0.28
ACGTcount: A:0.44, C:0.04, G:0.32, T:0.21
Consensus pattern (22 bp):
AGAGCAAATTGAGAGGAAATTG
Found at i:22656803 original size:11 final size:11
Alignment explanation
Indices: 22656763--22656803 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
22656753 GGATTTAAGA
22656763 GAAATTTGAGAG
1 GAAA-TTGAGAG
22656775 GAAATTGAGAG
1 GAAATTGAGAG
*
22656786 CAAATTGAGAG
1 GAAATTGAGAG
22656797 GAAATTG
1 GAAATTG
22656804 GGAGCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 23 0.85
12 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.32, T:0.22
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:22657608 original size:7 final size:7
Alignment explanation
Indices: 22657591--22657640 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
22657581 TTTTGCAAGA
22657591 AAAAAAT
1 AAAAAAT
*
22657598 AAAATA-
1 AAAAAAT
22657604 AAAAAAT
1 AAAAAAT
22657611 AAAATATAT
1 AAAA-A-AT
*
22657620 AGAAAAT
1 AAAAAAT
22657627 AAAAAAT
1 AAAAAAT
22657634 AAAAAAT
1 AAAAAAT
22657641 GATTTTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 5 0.14
7 24 0.67
8 2 0.06
9 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:22662727 original size:58 final size:57
Alignment explanation
Indices: 22662665--22662787 Score: 167
Period size: 57 Copynumber: 2.1 Consensus size: 57
22662655 ATAGAAATGG
* * * *
22662665 TGAAAATGGAGAAATAGGAAA-CATTTGTAAATGATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGACAAAT--GAAATCATTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
* *
22662723 TGAAAATAGACAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATAAAAA
1 TGAAAATGGACAAATGAAATCATTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
22662780 TGAAAATG
1 TGAAAATG
22662788 ACTTGAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
56 4 0.07
57 40 0.70
58 13 0.23
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.28
Consensus pattern (57 bp):
TGAAAATGGACAAATGAAATCATTTGGAAATGAATATGGTTTTCTCCAAAATAAAAA
Found at i:22666604 original size:10 final size:10
Alignment explanation
Indices: 22666586--22666619 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22666576 AAACCGAATT
*
22666586 TTTATGTCTA
1 TTTAAGTCTA
22666596 TTTAAGTCTA
1 TTTAAGTCTA
22666606 TTTAAGTCTCA
1 TTTAAGTCT-A
22666617 TTT
1 TTT
22666620 CACACTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (10 bp):
TTTAAGTCTA
Found at i:22670052 original size:982 final size:982
Alignment explanation
Indices: 22668149--22671096 Score: 5887
Period size: 982 Copynumber: 3.0 Consensus size: 982
22668139 TCTTGCTTTT
22668149 TTTTTCCCCGGAGTTCTATTCTTTTACTTGATAGCGCGTACAACCTCGGCTATGATGAACTAGGG
1 TTTTTCCCCGGAGTTCTATTCTTTTACTTGATAGCGCGTACAACCTCGGCTATGATGAACTAGGG
22668214 TACTTGCTTGTTAGCAGTCTCAACAGGGCTGCCGAAGTTGCGTCCACCGCCTTGTAACCCTGCTC
66 TACTTGCTTGTTAGCAGTCTCAACAGGGCTGCCGAAGTTGCGTCCACCGCCTTGTAACCCTGCTC
22668279 GATCCAATGAGCGTGTAGAGGCCAACAGCCTGCAAATGGGTCTCTATAGTTTTGCTCTATCCTTA
131 GATCCAATGAGCGTGTAGAGGCCAACAGCCTGCAAATGGGTCTCTATAGTTTTGCTCTATCCTTA
22668344 TACGGAATAGGACTTGGTGGGATTAAGTCAAGCGTTTCTGGATTCGGAACAGACCAATTTTGATA
196 TACGGAATAGGACTTGGTGGGATTAAGTCAAGCGTTTCTGGATTCGGAACAGACCAATTTTGATA
22668409 AGAATGATGAGAAGGAAAAGCTGCAAATGGCGACTTCTTCAACGTTTTCTACTTGATTATCAACA
261 AGAATGATGAGAAGGAAAAGCTGCAAATGGCGACTTCTTCAACGTTTTCTACTTGATTATCAACA
22668474 TAGGGACCCTGCTAGCTGTTACTGTTCTGGTTTATATACAAGACAAGGTAGGTCGAAGCTGGGGA
326 TAGGGACCCTGCTAGCTGTTACTGTTCTGGTTTATATACAAGACAAGGTAGGTCGAAGCTGGGGA
22668539 TACGGTATTTGCTCTGGTTTTATGCTTCTCGCCGCTTTTGTTTTTGTATCAGGAACTAAAAAGTA
391 TACGGTATTTGCTCTGGTTTTATGCTTCTCGCCGCTTTTGTTTTTGTATCAGGAACTAAAAAGTA
22668604 TAGGTACAAGGAGACCCCGGGAAGCCCTGTGATTCAAATTCTTCAAGTTCTGGTAGCTGCAATAA
456 TAGGTACAAGGAGACCCCGGGAAGCCCTGTGATTCAAATTCTTCAAGTTCTGGTAGCTGCAATAA
22668669 GGAAAAGGAACGTCAAATTTCCATCTGATATTAGCCGTTTATACGAGGATCCTGCACAGGAACTA
521 GGAAAAGGAACGTCAAATTTCCATCTGATATTAGCCGTTTATACGAGGATCCTGCACAGGAACTA
22668734 AGATTGTCACATACAAATAGGTTAAGGTATGTAGTCAAGAATTGAGTTTCATTGGTAACTGGTCC
586 AGATTGTCACATACAAATAGGTTAAGGTATGTAGTCAAGAATTGAGTTTCATTGGTAACTGGTCC
22668799 TAATCCATAACAGTAGACTTTGTTTTGCTGGCATCGTAAGGACTTAATCCGAAAGGATCTTGTGG
651 TAATCCATAACAGTAGACTTTGTTTTGCTGGCATCGTAAGGACTTAATCCGAAAGGATCTTGTGG
22668864 GAAAACTGCAAAAATTATATTGACGTATAAAAAGTTTGGATGGCAGGTGCTTGGACAAGGCAACT
716 GAAAACTGCAAAAATTATATTGACGTATAAAAAGTTTGGATGGCAGGTGCTTGGACAAGGCAACT
22668929 ATCATAACGAACAAGGACAACAGAACAAGTGAAGCATCACTAACTCCGAATCCATGGAGTCTTTG
781 ATCATAACGAACAAGGACAACAGAACAAGTGAAGCATCACTAACTCCGAATCCATGGAGTCTTTG
22668994 CTCAGTAACAAGGGTAGAGGAAGTTAAGATGTTAACTGGAGTACTGCCAATTTGGGCAACAACAA
846 CTCAGTAACAAGGGTAGAGGAAGTTAAGATGTTAACTGGAGTACTGCCAATTTGGGCAACAACAA
22669059 TAATGTTTTGGACTGTGAATGCACAAATGGTCAGCTTCTCAGTCCAGCAAGCTCTAACAATGGAG
911 TAATGTTTTGGACTGTGAATGCACAAATGGTCAGCTTCTCAGTCCAGCAAGCTCTAACAATGGAG
22669124 AGATCCA
976 AGATCCA
22669131 TTTTTCCCCGGAGTTCTATTCTTTTACTTGATAGCGCGTACAACCTCGGCTATGATGAACTAGGG
1 TTTTTCCCCGGAGTTCTATTCTTTTACTTGATAGCGCGTACAACCTCGGCTATGATGAACTAGGG
22669196 TACTTGCTTGTTAGCAGTCTCAACAGGGCTGCCGAAGTTGCGTCCACCGCCTTGTAACCCTGCTC
66 TACTTGCTTGTTAGCAGTCTCAACAGGGCTGCCGAAGTTGCGTCCACCGCCTTGTAACCCTGCTC
22669261 GATCCAATGAGCGTGTAGAGGCCAACAGCCTGCAAATGGGTCTCTATAGTTTTGCTCTATCCTTA
131 GATCCAATGAGCGTGTAGAGGCCAACAGCCTGCAAATGGGTCTCTATAGTTTTGCTCTATCCTTA
22669326 TACGGAATAGGACTTGGTGGGATTAAGTCAAGCGTTTCTGGATTCGGAACAGACCAATTTTGATA
196 TACGGAATAGGACTTGGTGGGATTAAGTCAAGCGTTTCTGGATTCGGAACAGACCAATTTTGATA
22669391 AGAATGATGAGAAGGAAAAGCTGCAAATGGCGACTTCTTCAACGTTTTCTACTTGATTATCAACA
261 AGAATGATGAGAAGGAAAAGCTGCAAATGGCGACTTCTTCAACGTTTTCTACTTGATTATCAACA
22669456 TAGGGACCCTGCTAGCTGTTACTGTTCTGGTTTATATACAAGACAAGGTAGGTCGAAGCTGGGGA
326 TAGGGACCCTGCTAGCTGTTACTGTTCTGGTTTATATACAAGACAAGGTAGGTCGAAGCTGGGGA
22669521 TACGGTATTTGCTCTGGTTTTATGCTTCTCGCCGCTTTTGTTTTTGTATCAGGAACTAAAAAGTA
391 TACGGTATTTGCTCTGGTTTTATGCTTCTCGCCGCTTTTGTTTTTGTATCAGGAACTAAAAAGTA
22669586 TAGGTACAAGGAGACCCCGGGAAGCCCTGTGATTCAAATTCTTCAAGTTCTGGTAGCTGCAATAA
456 TAGGTACAAGGAGACCCCGGGAAGCCCTGTGATTCAAATTCTTCAAGTTCTGGTAGCTGCAATAA
22669651 GGAAAAGGAACGTCAAATTTCCATCTGATATTAGCCGTTTATACGAGGATCCTGCACAGGAACTA
521 GGAAAAGGAACGTCAAATTTCCATCTGATATTAGCCGTTTATACGAGGATCCTGCACAGGAACTA
22669716 AGATTGTCACATACAAATAGGTTAAGGTATGTAGTCAAGAATTGAGTTTCATTGGTAACTGGTCC
586 AGATTGTCACATACAAATAGGTTAAGGTATGTAGTCAAGAATTGAGTTTCATTGGTAACTGGTCC
22669781 TAATCCATAACAGTAGACTTTGTTTTGCTGGCATCGTAAGGACTTAATCCGAAAGGATCTTGTGG
651 TAATCCATAACAGTAGACTTTGTTTTGCTGGCATCGTAAGGACTTAATCCGAAAGGATCTTGTGG
22669846 GAAAACTGCAAAAATTATATTGACGTATAAAAAGTTTGGATGGCAGGTGCTTGGACAAGGCAACT
716 GAAAACTGCAAAAATTATATTGACGTATAAAAAGTTTGGATGGCAGGTGCTTGGACAAGGCAACT
22669911 ATCATAACGAACAAGGACAACAGAACAAGTGAAGCATCACTAACTCCGAATCCATGGAGTCTTTG
781 ATCATAACGAACAAGGACAACAGAACAAGTGAAGCATCACTAACTCCGAATCCATGGAGTCTTTG
22669976 CTCAGTAACAAGGGTAGAGGAAGTTAAGATGTTAACTGGAGTACTGCCAATTTGGGCAACAACAA
846 CTCAGTAACAAGGGTAGAGGAAGTTAAGATGTTAACTGGAGTACTGCCAATTTGGGCAACAACAA
22670041 TAATGTTTTGGACTGTGAATGCACAAATGGTCAGCTTCTCAGTCCAGCAAGCTCTAACAATGGAG
911 TAATGTTTTGGACTGTGAATGCACAAATGGTCAGCTTCTCAGTCCAGCAAGCTCTAACAATGGAG
22670106 AGATCCA
976 AGATCCA
22670113 TTTTTCCCCGGAGTTCTATTCTTTTACTTGATAGCGCGTACAACCTCGGCTATGATGAACTAGGG
1 TTTTTCCCCGGAGTTCTATTCTTTTACTTGATAGCGCGTACAACCTCGGCTATGATGAACTAGGG
22670178 TACTTGCTTGTTAGCAGTCTCAACAGGGCTGCCGAAGTTGCGTCCACCGCCTTGTAACCCTGCTC
66 TACTTGCTTGTTAGCAGTCTCAACAGGGCTGCCGAAGTTGCGTCCACCGCCTTGTAACCCTGCTC
22670243 GATCCAATGAGCGTGTAGAGGCCAACAGCCTGCAAATGGGTCTCTATAGTTTTGCTCTATCCTTA
131 GATCCAATGAGCGTGTAGAGGCCAACAGCCTGCAAATGGGTCTCTATAGTTTTGCTCTATCCTTA
22670308 TACGGAATAGGACTTGGTGGGATTAAGTCAAGCGTTTCTGGATTCGGAACAGACCAATTTTGATA
196 TACGGAATAGGACTTGGTGGGATTAAGTCAAGCGTTTCTGGATTCGGAACAGACCAATTTTGATA
22670373 AGAATGATGAGAAGGAAAAGCTGCAAATGGCGACTTCTTCAACGTTTTCTACTTGATTATCAACA
261 AGAATGATGAGAAGGAAAAGCTGCAAATGGCGACTTCTTCAACGTTTTCTACTTGATTATCAACA
22670438 TAGGGACCCTGCTAGCTGTTACTGTTCTGGTTTATATACAAGACAAGGTAGGTCGAAGCTGGGGA
326 TAGGGACCCTGCTAGCTGTTACTGTTCTGGTTTATATACAAGACAAGGTAGGTCGAAGCTGGGGA
22670503 TACGGTATTTGCTCTGGTTTTATGCTTCTCGCCGCTTTTGTTTTTGTATCAGGAACTAAAAAGTA
391 TACGGTATTTGCTCTGGTTTTATGCTTCTCGCCGCTTTTGTTTTTGTATCAGGAACTAAAAAGTA
22670568 TAGGTACAAGGAGACCCCGGGAAGCCCTGTGATTCAAATTCTTCAAGTTCTGGTAGCTGCAATAA
456 TAGGTACAAGGAGACCCCGGGAAGCCCTGTGATTCAAATTCTTCAAGTTCTGGTAGCTGCAATAA
*
22670633 GGAAAAGGAACGTCAAATTTCCATCTGATATTAGTCGTTTATACGAGGATCCTGCACAGGAACTA
521 GGAAAAGGAACGTCAAATTTCCATCTGATATTAGCCGTTTATACGAGGATCCTGCACAGGAACTA
22670698 AGATTGTCACATACAAATAGGTTAAGGTATGTAGTCAAGAATTGAGTTTCATTGGTAACTGGTCC
586 AGATTGTCACATACAAATAGGTTAAGGTATGTAGTCAAGAATTGAGTTTCATTGGTAACTGGTCC
22670763 TAATCCATAACAGTAGACTTTGTTTTGCTGGCATCGTAAGGACTTAATCCGAAAGGATCTTGTGG
651 TAATCCATAACAGTAGACTTTGTTTTGCTGGCATCGTAAGGACTTAATCCGAAAGGATCTTGTGG
22670828 GAAAACTGCAAAAATTATATTGACGTATAAAAAGTTTGGATGGCAGGTGCTTGGACAAGGCAACT
716 GAAAACTGCAAAAATTATATTGACGTATAAAAAGTTTGGATGGCAGGTGCTTGGACAAGGCAACT
22670893 ATCATAACGAACAAGGACAACAGAACAAGTGAAGCATCACTAACTCCGAATCCATGGAGTCTTTG
781 ATCATAACGAACAAGGACAACAGAACAAGTGAAGCATCACTAACTCCGAATCCATGGAGTCTTTG
22670958 CTCAGTAACAAGGGTAGAGGAAGTTAAGATGTTAACTGGAGTACTGCCAATTTGGGCAACAACAA
846 CTCAGTAACAAGGGTAGAGGAAGTTAAGATGTTAACTGGAGTACTGCCAATTTGGGCAACAACAA
22671023 TAATGTTTTGGACTGTGAATGCACAAATGGTCAGCTTCTCAGTCCAGCAAGCTCTAACAATGGAG
911 TAATGTTTTGGACTGTGAATGCACAAATGGTCAGCTTCTCAGTCCAGCAAGCTCTAACAATGGAG
22671088 AGATCCA
976 AGATCCA
22671095 TT
1 TT
22671097 GGAAACTCTG
Statistics
Matches: 1965, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
982 1965 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (982 bp):
TTTTTCCCCGGAGTTCTATTCTTTTACTTGATAGCGCGTACAACCTCGGCTATGATGAACTAGGG
TACTTGCTTGTTAGCAGTCTCAACAGGGCTGCCGAAGTTGCGTCCACCGCCTTGTAACCCTGCTC
GATCCAATGAGCGTGTAGAGGCCAACAGCCTGCAAATGGGTCTCTATAGTTTTGCTCTATCCTTA
TACGGAATAGGACTTGGTGGGATTAAGTCAAGCGTTTCTGGATTCGGAACAGACCAATTTTGATA
AGAATGATGAGAAGGAAAAGCTGCAAATGGCGACTTCTTCAACGTTTTCTACTTGATTATCAACA
TAGGGACCCTGCTAGCTGTTACTGTTCTGGTTTATATACAAGACAAGGTAGGTCGAAGCTGGGGA
TACGGTATTTGCTCTGGTTTTATGCTTCTCGCCGCTTTTGTTTTTGTATCAGGAACTAAAAAGTA
TAGGTACAAGGAGACCCCGGGAAGCCCTGTGATTCAAATTCTTCAAGTTCTGGTAGCTGCAATAA
GGAAAAGGAACGTCAAATTTCCATCTGATATTAGCCGTTTATACGAGGATCCTGCACAGGAACTA
AGATTGTCACATACAAATAGGTTAAGGTATGTAGTCAAGAATTGAGTTTCATTGGTAACTGGTCC
TAATCCATAACAGTAGACTTTGTTTTGCTGGCATCGTAAGGACTTAATCCGAAAGGATCTTGTGG
GAAAACTGCAAAAATTATATTGACGTATAAAAAGTTTGGATGGCAGGTGCTTGGACAAGGCAACT
ATCATAACGAACAAGGACAACAGAACAAGTGAAGCATCACTAACTCCGAATCCATGGAGTCTTTG
CTCAGTAACAAGGGTAGAGGAAGTTAAGATGTTAACTGGAGTACTGCCAATTTGGGCAACAACAA
TAATGTTTTGGACTGTGAATGCACAAATGGTCAGCTTCTCAGTCCAGCAAGCTCTAACAATGGAG
AGATCCA
Found at i:22672117 original size:72 final size:72
Alignment explanation
Indices: 22672000--22672183 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
22671990 ACAACTTGAC
*
22672000 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
22672065 ACTAACA
66 ACTAACA
22672072 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
22672137 ACTAACA
66 ACTAACA
22672144 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
22672184 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:22672192 original size:3 final size:3
Alignment explanation
Indices: 22672184--22672227 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
22672174 ATTACATCCA
22672184 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22672228 ATGTGATTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22676564 original size:3 final size:3
Alignment explanation
Indices: 22676556--22676602 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
22676546 ATTACATCCA
22676556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22676603 AACATGTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22695271 original size:20 final size:19
Alignment explanation
Indices: 22695218--22695272 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
22695208 AACTAAAGTA
22695218 AGCTAAAAATGAGCTCATTG
1 AGCT-AAAATGAGCTCATTG
* *
22695238 AGTTAAGAACGAGCTCATTG
1 AGCTAA-AATGAGCTCATTG
22695258 AGCTAAAATTGAGCT
1 AGCTAAAA-TGAGCT
22695273 GAATTGAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (19 bp):
AGCTAAAATGAGCTCATTG
Found at i:22696992 original size:12 final size:12
Alignment explanation
Indices: 22696975--22696999 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22696965 TTTCACTCAT
22696975 CTCTTTTTCAAA
1 CTCTTTTTCAAA
22696987 CTCTTTTTCAAA
1 CTCTTTTTCAAA
22696999 C
1 C
22697000 CCTCTCTCAT
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:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:22698142 original size:18 final size:18
Alignment explanation
Indices: 22698102--22698145 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22698092 ACACTTCTTT
*
22698102 TTTTTTATACTTCGAAATT
1 TTTTTT-TACTTCGAAATC
* *
22698121 TTTTTTTACTTCGTACTC
1 TTTTTTTACTTCGAAATC
22698139 TTTTTTT
1 TTTTTTT
22698146 TTGTAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTTTTACTTCGAAATC
Found at i:22700012 original size:25 final size:25
Alignment explanation
Indices: 22699971--22700027 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
22699961 ACAATCCATG
** * *
22699971 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
22699996 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
22700021 TATATCA
1 TAAATCA
22700028 ATTTTTTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:22700321 original size:23 final size:23
Alignment explanation
Indices: 22700291--22700359 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
22700281 CGAGCTGAAT
* *
22700291 AAACGGTAAGCTCTATTGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
*
22700314 AAACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
22700337 AAACGGTAAGCT-CATACGAGCTG
1 AAACGGTAAGCTCCATA-GAGCTG
22700360 TGGTGAGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 3 0.07
23 38 0.93
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGCTG
Found at i:22707030 original size:22 final size:21
Alignment explanation
Indices: 22706991--22707032 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
22706981 ATTTTATAAA
**
22706991 TATTTTGATTTTTTTGAAAAC
1 TATTTTGATTTTACTGAAAAC
22707012 TATTTTGAATTTTACTGAAAA
1 TATTTTG-ATTTTACTGAAAA
22707033 TGATCCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
TATTTTGATTTTACTGAAAAC
Found at i:22712360 original size:65 final size:65
Alignment explanation
Indices: 22712281--22712413 Score: 230
Period size: 65 Copynumber: 2.0 Consensus size: 65
22712271 AAAAAAAAAC
**
22712281 TGAGTGCTCCCATGTCCTTGAGAGCAAATTTGCTGTGAAGACGCTGCACAGTATCTTCAATGTAT
1 TGAGTGCTCCCATGTCCTTGAGAGCAAATTTGCTGTGAAGACGCTGCACAACATCTTCAATGTAT
* *
22712346 TGAGTGCTCTCATGTCCTTGAGAGCAAATTTGCTGTGAAGACGCTGCACAACATCTTCAATGTCT
1 TGAGTGCTCCCATGTCCTTGAGAGCAAATTTGCTGTGAAGACGCTGCACAACATCTTCAATGTAT
22712411 TGA
1 TGA
22712414 TCATGACTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (65 bp):
TGAGTGCTCCCATGTCCTTGAGAGCAAATTTGCTGTGAAGACGCTGCACAACATCTTCAATGTAT
Found at i:22723043 original size:23 final size:22
Alignment explanation
Indices: 22723009--22723057 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
22722999 CAAAAAAATG
*
22723009 AAAATGATGGAAAAAGAAAAGA
1 AAAATGAAGGAAAAAGAAAAGA
* *
22723031 AAAATAGAAGGAAAAAGGAAAGG
1 AAAAT-GAAGGAAAAAGAAAAGA
22723054 AAAA
1 AAAA
22723058 GAAAAATGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.06
Consensus pattern (22 bp):
AAAATGAAGGAAAAAGAAAAGA
Found at i:22723076 original size:29 final size:30
Alignment explanation
Indices: 22723024--22723081 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
22723014 GATGGAAAAA
22723024 GAAAAGAAAAATAGAAGGAAAAAG-GAAAG
1 GAAAAGAAAAATAGAAGGAAAAAGCGAAAG
**
22723053 GAAAAGAAAAAT-GAGAGGCCAAAGCGAAA
1 GAAAAGAAAAATAGA-AGGAAAAAGCGAAA
22723082 ACCCGCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 19 0.76
30 4 0.16
ACGTcount: A:0.64, C:0.05, G:0.28, T:0.03
Consensus pattern (30 bp):
GAAAAGAAAAATAGAAGGAAAAAGCGAAAG
Found at i:22724057 original size:48 final size:48
Alignment explanation
Indices: 22723997--22724089 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
22723987 AAGGAAAAAT
* *
22723997 GACCAAGATGAAAACCTGCAAATGGG-GCTTTGAGTCCTAAAAAAAAGA
1 GACCAAGATGAAAACCCGCAAA-GGGCGCTTTGAGTCATAAAAAAAAGA
* *
22724045 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCATTAAAAAA
1 GACCAAGATGAAAACCCGCAAAGGGCGCTTTGAGTCATAAAAAAA
22724090 GAAAAAGGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 3 0.08
48 37 0.93
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (48 bp):
GACCAAGATGAAAACCCGCAAAGGGCGCTTTGAGTCATAAAAAAAAGA
Found at i:22725019 original size:24 final size:24
Alignment explanation
Indices: 22724985--22725040 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
22724975 GTCCTAAAAG
*
22724985 TACAGTAGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
22725009 TACAGTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
22725033 TACAGTGG
1 TACAGTGG
22725041 GGGCAATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (24 bp):
TACAGTGGATTGAACCTTGAAGAT
Found at i:22725920 original size:89 final size:89
Alignment explanation
Indices: 22725548--22725911 Score: 345
Period size: 89 Copynumber: 4.1 Consensus size: 89
22725538 AGTTACAAGT
* * * * * * * * * **
22725548 CTTGCCTCCTTGAGTTTGCAACGAAGCAGACTGACGATAGTAGATTTTATTTTCCTATACTAACA
1 CTTGCCTCCATGAGTTTGCAGCGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTATACTGGCA
** * *
22725613 ATGAATCAGATC-AAAGACACCAGT
66 GCGAAGCAGATCGAAA-ACACCAGC
* * * *
22725637 CTTGCCTCTC-TGAGTTTGCAGCGGAGCAGATTGACGATAGCAGATCTTGTCTTCCTATACTGGT
1 CTTGCCTC-CATGAGTTTGCAGCGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTATACTGGC
*
22725701 AGCGAAGCAGATCGAAGACACCAGC
65 AGCGAAGCAGATCGAAAACACCAGC
* * * * * * *
22725726 CTTGTCTCCTTGAGTTTGCAGAGGTGCAAACTGAAGATAGCAGATCTTGTCTTCTTGTATTGGCA
1 CTTGCCTCCATGAGTTTGCAGCGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTATACTGGCA
* ** * *
22725791 GCAAAATAGATCGAAGACACTAGC
66 GCGAAGCAGATCGAAAACACCAGC
* * * *
22725815 CTTGCCTCCATGAGTTTACAGCGAAGCAAACTGAAAACAGCAGATCTTGTCTTCCTATACTGGCA
1 CTTGCCTCCATGAGTTTGCAGCGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTATACTGGCA
* *
22725880 GTGAAGCAGATCGAAAACACCAAC
66 GCGAAGCAGATCGAAAACACCAGC
*
22725904 CTTACCTC
1 CTTGCCTC
22725912 TCTAAGTTTG
Statistics
Matches: 224, Mismatches: 48, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
88 1 0.00
89 220 0.98
90 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (89 bp):
CTTGCCTCCATGAGTTTGCAGCGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTATACTGGCA
GCGAAGCAGATCGAAAACACCAGC
Found at i:22726096 original size:132 final size:133
Alignment explanation
Indices: 22725923--22726466 Score: 803
Period size: 132 Copynumber: 4.1 Consensus size: 133
22725913 CTAAGTTTGT
22725923 AGTGGAGTAGGTTGAAGATTGTAG-ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
1 AGTGGAGTAGGTTGAAGATTGTAGAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
*
22725987 GTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGC
66 GCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGC
22726052 AGC
131 AGC
* *
22726055 AGTGGAGTAGGTTGAAGATTGTAGAATCC-GTCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACG
1 AGTGGAGTAGGTTGAAGATTGTAGAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
22726119 GCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGC
66 GCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGC
22726184 AGC
131 AGC
* * *
22726187 AGTGGAGTAGGTTGAAGATTGTAG-ATTCTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACG
1 AGTGGAGTAGGTTGAAGATTGTAGAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
* * * * * *
22726251 GCGAATCTTATCTTCTCGAGATAGTA-GGAAGCAGATTTAAGCCACCAGTTCTATCTCCCTGAGC
66 GCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGC
*
22726315 AGT
131 AGC
* * *
22726318 AGTGGAGTAGGTTGAAAATTGTA-TATCCTGTCTCCCTAAGCAGTACTGGAGCAGATCAAAGACG
1 AGTGGAGTAGGTTGAAGATTGTAGAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
* * * * * * *
22726382 ACGAGTCTTATCTTCTCGAGGTAGTAGGGAAGCATATTTAAGCC-ACTAGCCTTATCTCCCTGAA
66 GCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAACAATCC-TATCTCCCTG-A
**
22726446 GTTGC
129 GCAGC
22726451 AGTGGAGTAGGTTGAA
1 AGTGGAGTAGGTTGAA
22726467 ATTACCAATT
Statistics
Matches: 376, Mismatches: 30, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
131 123 0.33
132 230 0.61
133 23 0.06
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (133 bp):
AGTGGAGTAGGTTGAAGATTGTAGAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG
GCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGC
AGC
Found at i:22726393 original size:263 final size:265
Alignment explanation
Indices: 22725923--22726466 Score: 817
Period size: 263 Copynumber: 2.1 Consensus size: 265
22725913 CTAAGTTTGT
22725923 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* *
22725988 TGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGCA
66 CGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGCA
* * *
22726053 GCAGTGGAGTAGGTTGAAGATTGTAGAATCCGTCTCCCTAAGCAGTAGTAGAGCAGATCGAAGAC
131 GCAGTGGAGTAGGTTGAAAATTGTAGAATCCGTCTCCCTAAGCAGTACTAGAGCAGATCAAAGAC
* *
22726118 GGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAACAATCC-TATCTCCCTG-
196 GACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCC-ACAAGCCTTATCTCCCTGA
22726181 AGCAGC
260 AGCAGC
* * *
22726187 AGTGGAGTAGGTTGAAGATTGTAGATTCTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* * * * *
22726252 CGAATCTTATCTTCTCGAGATAGTA-GGAAGCAGATTTAAGCCACCAGTTCTATCTCCCTGAGCA
66 CGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGCA
* * *
22726316 GTAGTGGAGTAGGTTGAAAATTGTA-TATCCTGTCTCCCTAAGCAGTACTGGAGCAGATCAAAGA
131 GCAGTGGAGTAGGTTGAAAATTGTAGAATCC-GTCTCCCTAAGCAGTACTAGAGCAGATCAAAGA
* * * * *
22726380 CGACGAGTCTTATCTTCTCGAGGTAGTAGGGAAGCATATTTAAGCCACTAGCCTTATCTCCCTGA
195 CGACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACAAGCCTTATCTCCCTGA
**
22726445 AGTTGC
260 AGCAGC
22726451 AGTGGAGTAGGTTGAA
1 AGTGGAGTAGGTTGAA
22726467 ATTACCAATT
Statistics
Matches: 252, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
262 9 0.04
263 140 0.56
264 103 0.41
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (265 bp):
AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
CGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCAACAATCCTATCTCCCTGAGCA
GCAGTGGAGTAGGTTGAAAATTGTAGAATCCGTCTCCCTAAGCAGTACTAGAGCAGATCAAAGAC
GACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACAAGCCTTATCTCCCTGAA
GCAGC
Found at i:22728763 original size:78 final size:78
Alignment explanation
Indices: 22728672--22728827 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
22728662 GACGAAATCG
*
22728672 AAAAAAAAAATTAAGTTAGTTCAATTAGATTCATTAAGACTTATATTAGTCAATTAATCAGTTAA
1 AAAAAAAAAATTAAGTTAGTTCAATTAGATTCATTAAGACTTATATCAGTCAATTAATCAGTTAA
22728737 ATTTAAAAATAGT
66 ATTTAAAAATAGT
* *
22728750 AAAAAAAATATTAAGTTAGTTCAATTAGTTTCATTAAGACTTATATCAGTCAATTAATCAGTTAA
1 AAAAAAAAAATTAAGTTAGTTCAATTAGATTCATTAAGACTTATATCAGTCAATTAATCAGTTAA
*
22728815 ATTTGAAAATAGT
66 ATTTAAAAATAGT
22728828 CGATCACGTC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (78 bp):
AAAAAAAAAATTAAGTTAGTTCAATTAGATTCATTAAGACTTATATCAGTCAATTAATCAGTTAA
ATTTAAAAATAGT
Found at i:22744413 original size:19 final size:18
Alignment explanation
Indices: 22744389--22744446 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 18
22744379 AATTATTTAT
22744389 TAAATTTAATTAGAATATA
1 TAAATTTAATTA-AATATA
* *
22744408 TAAATTTTATTTAAATATT
1 TAAA-TTTAATTAAATATA
22744427 TAAATATAATAATTAAATAT
1 TAAAT-T--TAATTAAATAT
22744447 TTGTAATTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.03
19 14 0.44
20 7 0.22
21 10 0.31
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAAATTTAATTAAATATA
Found at i:22744810 original size:21 final size:21
Alignment explanation
Indices: 22744781--22744821 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22744771 TTTGATTCAC
22744781 CGTCATCGTCACCATCATCAT
1 CGTCATCGTCACCATCATCAT
* **
22744802 CGTCGTCGTCATTATCATCA
1 CGTCATCGTCACCATCATCA
22744822 CTTTCTCGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (21 bp):
CGTCATCGTCACCATCATCAT
Found at i:22753400 original size:20 final size:19
Alignment explanation
Indices: 22753380--22753417 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
22753370 TAATTTATAT
22753380 TTATTTTAAAGATTTTTTA
1 TTATTTTAAAGATTTTTTA
22753399 TTATTGTT-AAGAATTTTTT
1 TTATT-TTAAAG-ATTTTTT
22753418 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (19 bp):
TTATTTTAAAGATTTTTTA
Found at i:22753834 original size:15 final size:15
Alignment explanation
Indices: 22753814--22753843 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22753804 GATAGAATCA
*
22753814 ATTTTTTATTTTTTT
1 ATTTTTCATTTTTTT
22753829 ATTTTTCATTTTTTT
1 ATTTTTCATTTTTTT
22753844 TCATCTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTCATTTTTTT
Found at i:22754466 original size:15 final size:15
Alignment explanation
Indices: 22754434--22754481 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
22754424 TAATAAGTTA
22754434 AAAAATAATTACAAAAT
1 AAAAAT-ATTA-AAAAT
22754451 AAAAATATTAAAAAT
1 AAAAATATTAAAAAT
22754466 AAATAATA-TAAAAAT
1 AAA-AATATTAAAAAT
22754481 A
1 A
22754482 TGTCATATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 16 0.53
16 8 0.27
17 6 0.20
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAATATTAAAAAT
Found at i:22756903 original size:8 final size:9
Alignment explanation
Indices: 22756883--22756916 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
22756873 GTAAGGGCAG
22756883 CATACATTA
1 CATACATTA
22756892 CATACA-TA
1 CATACATTA
22756900 CATACATTCA
1 CATACATT-A
22756910 CATACAT
1 CATACAT
22756917 GTTTTCCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 7 0.30
10 8 0.35
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (9 bp):
CATACATTA
Found at i:22757182 original size:130 final size:130
Alignment explanation
Indices: 22756949--22757200 Score: 477
Period size: 130 Copynumber: 1.9 Consensus size: 130
22756939 TAATAACATG
* * *
22756949 AGCCATGTATATGTATGTATATGCTGTTGGGAGTTGGGACATATGTTCCAAATATAATAGACATG
1 AGCCATGTATATGTATCTATATACTCTTGGGAGTTGGGACATATGTTCCAAATATAATAGACATG
22757014 TGATATCATTTTCTTGTAAATTGTATTTCTCCATGCATTCTTCTTCTATACATTTCAGTTATAAT
66 TGATATCATTTTCTTGTAAATTGTATTTCTCCATGCATTCTTCTTCTATACATTTCAGTTATAAT
22757079 AGCCATGTATATGTATCTATATACTCTTGGGAGTTGGGACATATGTTCCAAATATAATAGACATG
1 AGCCATGTATATGTATCTATATACTCTTGGGAGTTGGGACATATGTTCCAAATATAATAGACATG
22757144 TGATATCATTTTCTTGTAAATTGTATTTCTCCATGCATTCTTCTTCTATACATTTCA
66 TGATATCATTTTCTTGTAAATTGTATTTCTCCATGCATTCTTCTTCTATACATTTCA
22757201 TTCAATGGAT
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 119 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (130 bp):
AGCCATGTATATGTATCTATATACTCTTGGGAGTTGGGACATATGTTCCAAATATAATAGACATG
TGATATCATTTTCTTGTAAATTGTATTTCTCCATGCATTCTTCTTCTATACATTTCAGTTATAAT
Found at i:22760365 original size:22 final size:22
Alignment explanation
Indices: 22760333--22760378 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
22760323 TCATAATCAT
*
22760333 ATAATGGGAGTTGATCCTAGTG
1 ATAATGAGAGTTGATCCTAGTG
22760355 ATAATGAGAGTTGATCCTAGTG
1 ATAATGAGAGTTGATCCTAGTG
22760377 AT
1 AT
22760379 TTACTTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (22 bp):
ATAATGAGAGTTGATCCTAGTG
Found at i:22766415 original size:16 final size:17
Alignment explanation
Indices: 22766375--22766421 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
22766365 GCAATTAGAG
22766375 TTAGGG-TTTTAGGATT
1 TTAGGGTTTTTAGGATT
* *
22766391 TTTGAGTTTTTA-GATT
1 TTAGGGTTTTTAGGATT
*
22766407 TTAGGGTTTTAAGGA
1 TTAGGGTTTTTAGGA
22766422 AAAAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (17 bp):
TTAGGGTTTTTAGGATT
Found at i:22766646 original size:97 final size:96
Alignment explanation
Indices: 22766406--22766725 Score: 416
Period size: 97 Copynumber: 3.3 Consensus size: 96
22766396 GTTTTTAGAT
* * * * * * *
22766406 TTTAGGG-TTTTAAGGAAAAAAT-AAATAAGGGTTTTGGATTTAGGGTTTCTTAATTAAATTAAT
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAA---ATTAGGGTTTAAGGTTACTTGAGTAAATTAAT
* *
22766469 TATAAATTTTAAAAAATTAGATTAGGGTTTAATG
63 TATAATTTTTAAAAAATTAGATTAGGGTTTAGTG
22766503 TTTATGGG-TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTA
1 TTTA-GGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTA
*
22766567 TAATTTTTTTAAAAA-TAGATTAGGGTTTAGTG
65 TAA-TTTTTAAAAAATTAGATTAGGGTTTAGTG
*
22766599 TTTAGGGTTTTTGAGGAAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTA
1 TTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTA
* * *
22766664 TAAATTTTAAAAAAATTAGATTGGGGTTTAGTC
65 T-AATTTTTAAAAAATTAGATTAGGGTTTAGTG
22766697 TTTAGGGTTTTTAAGG-AAAAATCAAATAA
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAA
22766726 GCTAGTTGTT
Statistics
Matches: 200, Mismatches: 16, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
95 3 0.01
96 70 0.35
97 71 0.35
98 50 0.25
99 6 0.03
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (96 bp):
TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTAT
AATTTTTAAAAAATTAGATTAGGGTTTAGTG
Found at i:22767369 original size:16 final size:17
Alignment explanation
Indices: 22767348--22767389 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
22767338 TTTTTTCCTT
*
22767348 AAAACTCTAAAATCT-A
1 AAAACTCTAAAAACTCA
22767364 AAAACTC-AAAAACTCA
1 AAAACTCTAAAAACTCA
*
22767380 AAAACCCTAA
1 AAAACTCTAA
22767390 CCTTAATTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 14 0.64
17 2 0.09
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAACTCTAAAAACTCA
Found at i:22774144 original size:43 final size:43
Alignment explanation
Indices: 22774093--22774189 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 43
22774083 TCCCAGATGT
*
22774093 GGTCTTACATTTAATCACATA-TCGATGCC-ACTGTCCCAGACAA
1 GGTCTTACATTAAATCACA-AGTCGATGCCAAC-GTCCCAGACAA
* **
22774136 GGTCTTACACGTAAATCACAAGTCGATGCCAACGTCCCAGACGT
1 GGTCTTACA-TTAAATCACAAGTCGATGCCAACGTCCCAGACAA
22774180 GGTCTTACAT
1 GGTCTTACAT
22774190 GACAACACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
43 10 0.22
44 34 0.74
45 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
GGTCTTACATTAAATCACAAGTCGATGCCAACGTCCCAGACAA
Found at i:22774166 original size:44 final size:44
Alignment explanation
Indices: 22774105--22774188 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
22774095 TCTTACATTT
22774105 AATCACATATCGATGCC-ACTGTCCCAGACAAGGTCTTACACGTA
1 AATCACATATCGATGCCAAC-GTCCCAGACAAGGTCTTACACGTA
**
22774149 AATCACA-AGTCGATGCCAACGTCCCAGACGTGGTCTTACA
1 AATCACATA-TCGATGCCAACGTCCCAGACAAGGTCTTACA
22774189 TGACAACACA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
43 1 0.03
44 33 0.92
45 2 0.06
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (44 bp):
AATCACATATCGATGCCAACGTCCCAGACAAGGTCTTACACGTA
Found at i:22774884 original size:25 final size:26
Alignment explanation
Indices: 22774833--22774885 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
22774823 TATAACAACA
*
22774833 AATAACAAAAATCACAAACTATCATC
1 AATAACAAAAATCACAAAATATCATC
*
22774859 AATAAC-AAAA-CACAAAATCATTATC
1 AATAACAAAAATCACAAAAT-ATCATC
22774884 AA
1 AA
22774886 ATTCAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 11 0.46
26 6 0.25
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (26 bp):
AATAACAAAAATCACAAAATATCATC
Found at i:22778482 original size:51 final size:52
Alignment explanation
Indices: 22778418--22778517 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
22778408 CTTGATTGGA
* *
22778418 TTGTTAGATGATGATATTTATTAATAACT-AAAGGATTATGTTGGTTTTTAG
1 TTGTTAGAAGATGACATTTATTAATAACTAAAAGGATTATGTTGGTTTTTAG
* * *
22778469 TTGTTTGAAGATGACATTTATTGATAACTAAAATGATTATGTTGGTTTT
1 TTGTTAGAAGATGACATTTATTAATAACTAAAAGGATTATGTTGGTTTT
22778518 CAGAAGTACC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 25 0.58
52 18 0.42
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (52 bp):
TTGTTAGAAGATGACATTTATTAATAACTAAAAGGATTATGTTGGTTTTTAG
Found at i:22781931 original size:28 final size:28
Alignment explanation
Indices: 22781891--22781977 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
22781881 CAGTTCGCAG
*
22781891 TTAGACTGTCCGCCACTTTGGCTTTCAC
1 TTAGATTGTCCGCCACTTTGGCTTTCAC
*
22781919 TTAGATTGTCCGCCACCTTGGCTTGT-AC
1 TTAGATTGTCCGCCACTTTGGCTT-TCAC
* * * *
22781947 TTTGGATTGTCTGCCACTTTGACTTGCAC
1 -TTAGATTGTCCGCCACTTTGGCTTTCAC
22781976 TT
1 TT
22781978 TTGCATCTCG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 26 0.53
29 23 0.47
ACGTcount: A:0.14, C:0.28, G:0.20, T:0.39
Consensus pattern (28 bp):
TTAGATTGTCCGCCACTTTGGCTTTCAC
Found at i:22781962 original size:29 final size:29
Alignment explanation
Indices: 22781891--22781978 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
22781881 CAGTTCGCAG
*
22781891 TTAGACTGTCCGCCACTTTGGCTT-TCAC-
1 TTAGATTGTCCGCCACTTTGGCTTGT-ACT
*
22781919 TTAGATTGTCCGCCACCTTGGCTTGTACT
1 TTAGATTGTCCGCCACTTTGGCTTGTACT
* * * *
22781948 TTGGATTGTCTGCCACTTTGACTTGCACT
1 TTAGATTGTCCGCCACTTTGGCTTGTACT
22781977 TT
1 TT
22781979 TGCATCTCGT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 24 0.47
29 27 0.53
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.40
Consensus pattern (29 bp):
TTAGATTGTCCGCCACTTTGGCTTGTACT
Found at i:22787101 original size:41 final size:41
Alignment explanation
Indices: 22787043--22787147 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
22787033 CCTGATTCAA
* * * * *
22787043 TTCACCGGCA-ATTAGCCTGCTAGACTTAAAGTCTGAATTAT
1 TTCACCGGCATA-AAGCCTGCTAGACATAAAGTCCGAATAAC
22787084 TTCACCGGCATAAAGCCTGCTAGACATAAAGTCCGAATAAC
1 TTCACCGGCATAAAGCCTGCTAGACATAAAGTCCGAATAAC
* *
22787125 TTCACCGGCCTTAAGCCTGCTAG
1 TTCACCGGCATAAAGCCTGCTAG
22787148 GTTTTAAACC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 55 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (41 bp):
TTCACCGGCATAAAGCCTGCTAGACATAAAGTCCGAATAAC
Found at i:22788816 original size:13 final size:13
Alignment explanation
Indices: 22788798--22788822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22788788 TCAAACTATC
22788798 AAATTTTCACACG
1 AAATTTTCACACG
22788811 AAATTTTCACAC
1 AAATTTTCACAC
22788823 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:22815670 original size:22 final size:24
Alignment explanation
Indices: 22815609--22815658 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
22815599 ACTTAAATAG
22815609 CACAATTCAAAGGGAAAATTATCA
1 CACAATTCAAAGGGAAAATTATCA
22815633 CACAATTCAAAGGGAAAATTATCA
1 CACAATTCAAAGGGAAAATTATCA
22815657 CA
1 CA
22815659 AATAAATTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.20
Consensus pattern (24 bp):
CACAATTCAAAGGGAAAATTATCA
Found at i:22821151 original size:51 final size:51
Alignment explanation
Indices: 22821085--22821190 Score: 185
Period size: 51 Copynumber: 2.1 Consensus size: 51
22821075 TCTCTAAAAA
* *
22821085 AATTAATGACATGATCTTTACTTGGTACGTCAAGTGTTTAACTCTAATACC
1 AATTAATCACATGATCTTTACTTAGTACGTCAAGTGTTTAACTCTAATACC
*
22821136 AATTAATCACATGATCTTTACTTAGTGCGTCAAGTGTTTAACTCTAATACC
1 AATTAATCACATGATCTTTACTTAGTACGTCAAGTGTTTAACTCTAATACC
22821187 AATT
1 AATT
22821191 GAAAATCTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (51 bp):
AATTAATCACATGATCTTTACTTAGTACGTCAAGTGTTTAACTCTAATACC
Found at i:22826901 original size:28 final size:27
Alignment explanation
Indices: 22826861--22826923 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
22826851 TCTTTCTTTC
*
22826861 TTTTTTCCTCTTTACTATCTCTC-TTGATT
1 TTTTTTTCTCTTT--TATCTCTCATTG-TT
*
22826890 TTTTTTTC-CTTTTCTCTCTCATTGTT
1 TTTTTTTCTCTTTTATCTCTCATTGTT
22826916 TTTTTTTC
1 TTTTTTTC
22826924 ATATTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 17 0.55
27 3 0.10
28 4 0.13
29 7 0.23
ACGTcount: A:0.06, C:0.22, G:0.03, T:0.68
Consensus pattern (27 bp):
TTTTTTTCTCTTTTATCTCTCATTGTT
Found at i:22827971 original size:19 final size:18
Alignment explanation
Indices: 22827947--22827989 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
22827937 AATAGTTATC
22827947 AAAATATTATAATTTTTTT
1 AAAATATTA-AATTTTTTT
*
22827966 AAAATATTAATTTTTTTT
1 AAAATATTAAATTTTTTT
22827984 AGAAAT
1 A-AAAT
22827990 GATAGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
AAAATATTAAATTTTTTT
Found at i:22828086 original size:49 final size:47
Alignment explanation
Indices: 22828032--22828143 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 47
22828022 TATTAAAATT
*
22828032 ATTATAAAAATTATAGCTAAAATTCATTAAAATAT-TTAAAATTTTGAAA
1 ATTATAAAAATTATAGC-AAAATT-ATT-AAATATCATAAAATTTTGAAA
* * * * *
22828081 TTTATAAAAAAAATCTATCAAAATTATTAAATATCATAAAATTTTTAAA
1 ATTAT--AAAAATTATAGCAAAATTATTAAATATCATAAAATTTTGAAA
22828130 ATTATAAAAATTAT
1 ATTATAAAAATTAT
22828144 TAAATATTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
47 7 0.14
48 6 0.12
49 23 0.45
50 6 0.12
51 9 0.18
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (47 bp):
ATTATAAAAATTATAGCAAAATTATTAAATATCATAAAATTTTGAAA
Found at i:22828129 original size:9 final size:9
Alignment explanation
Indices: 22828090--22828155 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
22828080 ATTTATAAAA
*
22828090 AAAATCTATC
1 AAAAT-TATT
22828100 AAAATTATT
1 AAAATTATT
*
22828109 AAATATCA-T
1 AAA-ATTATT
*
22828118 AAAATTTTT
1 AAAATTATT
*
22828127 AAAATTATA
1 AAAATTATT
22828136 AAAATTATT
1 AAAATTATT
22828145 -AAA-TATT
1 AAAATTATT
22828152 AAAA
1 AAAA
22828156 AAACTATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
7 4 0.09
8 8 0.17
9 26 0.57
10 8 0.17
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAATTATT
Found at i:22828157 original size:19 final size:19
Alignment explanation
Indices: 22828100--22828165 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 19
22828090 AAAATCTATC
* *
22828100 AAAATTATTAAATA-TCAT
1 AAAATTATTAAATATTAAA
* *
22828118 AAAATTTTTAAA-ATTATA
1 AAAATTATTAAATATTAAA
22828136 AAAATTATTAAATATTAAA
1 AAAATTATTAAATATTAAA
*
22828155 AAAACTATTAA
1 AAAATTATTAA
22828166 TATGTTATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
17 1 0.03
18 23 0.59
19 15 0.38
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAATATTAAA
Found at i:22828167 original size:18 final size:18
Alignment explanation
Indices: 22828125--22828168 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
22828115 CATAAAATTT
* * *
22828125 TTAAAATTATAAAAATTA
1 TTAATATTAAAAAAACTA
22828143 TTAAATATTAAAAAAACTA
1 TT-AATATTAAAAAAACTA
22828162 TTAATAT
1 TTAATAT
22828169 GTTATGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAATATTAAAAAAACTA
Found at i:22828631 original size:28 final size:28
Alignment explanation
Indices: 22828592--22828677 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
22828582 TTTTTAAAAA
22828592 AAAAT-TAA-AATTTATTAGAAATTAAT
1 AAAATATAATAATTTATTAGAAATTAAT
*
22828618 AAAATATAATAATTTCTTTAGAAAATT-AT
1 AAAATATAATAATTT-ATTAG-AAATTAAT
* *
22828647 -AAATATATATAATTTATTAAAAATTATT
1 AAAATATA-ATAATTTATTAGAAATTAAT
22828675 AAA
1 AAA
22828678 CGTTATAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 5 0.10
27 8 0.16
28 16 0.33
29 15 0.31
30 5 0.10
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (28 bp):
AAAATATAATAATTTATTAGAAATTAAT
Found at i:22828639 original size:29 final size:29
Alignment explanation
Indices: 22828606--22828673 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
22828596 TTAAAATTTA
22828606 TTAG-AAATTAATAAA-ATATAATAATTTCT
1 TTAGAAAATT-ATAAATATAT-ATAATTTCT
*
22828635 TTAGAAAATTATAAATATATATAATTT-A
1 TTAGAAAATTATAAATATATATAATTTCT
22828663 TTA-AAAATTAT
1 TTAGAAAATTAT
22828674 TAAACGTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 8 0.22
28 3 0.08
29 16 0.44
30 9 0.25
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (29 bp):
TTAGAAAATTATAAATATATATAATTTCT
Found at i:22834845 original size:19 final size:19
Alignment explanation
Indices: 22834809--22834863 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
22834799 TCTTATGCGC
**
22834809 CAAGATGCACCTCATGTGG
1 CAAGATGCACCTTGTGTGG
* *
22834828 CAGGATGCACCTTGTGTGT
1 CAAGATGCACCTTGTGTGG
*
22834847 CAAGATGCACTTTGTGT
1 CAAGATGCACCTTGTGT
22834864 CCGAGTAATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (19 bp):
CAAGATGCACCTTGTGTGG
Found at i:22836574 original size:61 final size:61
Alignment explanation
Indices: 22836473--22836596 Score: 162
Period size: 61 Copynumber: 2.0 Consensus size: 61
22836463 TTGGTCTAGT
* * *
22836473 AACAAAATTATCCCTTTAATGTTTACACAATTTATTATTTT-GATTCTAAATATAAAAAATTC
1 AACAAAATTATCCCTTCAATGTTTACAAAATTTATCATTTTAG-TTCT-AATATAAAAAATTC
* * *
22836535 AACAAAATTATCCC-TCAATGTTTACAAAATTTGTCATTTTAGTTCTAATTTTAAAAATTC
1 AACAAAATTATCCCTTCAATGTTTACAAAATTTATCATTTTAGTTCTAATATAAAAAATTC
22836595 AA
1 AA
22836597 TAAATTTGGC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 14 0.25
61 26 0.47
62 15 0.27
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (61 bp):
AACAAAATTATCCCTTCAATGTTTACAAAATTTATCATTTTAGTTCTAATATAAAAAATTC
Found at i:22837509 original size:31 final size:31
Alignment explanation
Indices: 22837474--22837534 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
22837464 TACTTATATC
*
22837474 CAGAGCTACGAAAATCCAAATTTCGATCCGT
1 CAGAGCTACGAAAATCCAAATTTCAATCCGT
*
22837505 CAGAGCTACGAAATTCCAAATTTCAATCCG
1 CAGAGCTACGAAAATCCAAATTTCAATCCG
22837535 CTAATTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (31 bp):
CAGAGCTACGAAAATCCAAATTTCAATCCGT
Done.