Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 64 of 150
Found at i:19134504 original size:6 final size:6
Alignment explanation
Indices: 19134493--19134531 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
19134483 CAGACTTTTG
*
19134493 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAATA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
19134532 TTTCTAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:19136662 original size:9 final size:9
Alignment explanation
Indices: 19136648--19136720 Score: 146
Period size: 9 Copynumber: 8.1 Consensus size: 9
19136638 TGAGTTTTCG
19136648 AATTCGAAT
1 AATTCGAAT
19136657 AATTCGAAT
1 AATTCGAAT
19136666 AATTCGAAT
1 AATTCGAAT
19136675 AATTCGAAT
1 AATTCGAAT
19136684 AATTCGAAT
1 AATTCGAAT
19136693 AATTCGAAT
1 AATTCGAAT
19136702 AATTCGAAT
1 AATTCGAAT
19136711 AATTCGAAT
1 AATTCGAAT
19136720 A
1 A
19136721 TTAAACTATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 64 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (9 bp):
AATTCGAAT
Found at i:19138971 original size:9 final size:9
Alignment explanation
Indices: 19138959--19138984 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19138949 TCTCTTTTAA
19138959 ATATTTTGC
1 ATATTTTGC
19138968 ATATTTTGC
1 ATATTTTGC
19138977 ATATTTTG
1 ATATTTTG
19138985 AACTTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (9 bp):
ATATTTTGC
Found at i:19140526 original size:50 final size:50
Alignment explanation
Indices: 19140417--19140616 Score: 192
Period size: 56 Copynumber: 3.9 Consensus size: 50
19140407 TAAATATAAC
* * * * * * *
19140417 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGAGATGTTTCTTGT-A-
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-TCTCATCTCAG
* * *
19140466 ATGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATCTC-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTCTCATCTCAG
* *
19140516 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--T-TC-TCATCTC-A-G
19140572 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATT-TCATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTCTCATC
19140617 CTCTTAATGT
Statistics
Matches: 124, Mismatches: 18, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
49 36 0.29
50 35 0.28
51 5 0.04
52 2 0.02
53 7 0.06
54 1 0.01
56 38 0.31
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTCTCATCTCAG
Found at i:19144554 original size:18 final size:18
Alignment explanation
Indices: 19144533--19144569 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19144523 TCTTCTCTTT
19144533 CTTTTTCATTTTCAGCAA
1 CTTTTTCATTTTCAGCAA
* *
19144551 CTTTTTCTTTTTTAGCAA
1 CTTTTTCATTTTCAGCAA
19144569 C
1 C
19144570 AACTTCCGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.05, T:0.54
Consensus pattern (18 bp):
CTTTTTCATTTTCAGCAA
Found at i:19157015 original size:21 final size:22
Alignment explanation
Indices: 19156991--19157034 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19156981 AAAAAAAATT
19156991 ACTT-GGAATTTTATAAAGAAA
1 ACTTGGGAATTTTATAAAGAAA
* *
19157012 ACTTGGGATTTTTATAGAGAAA
1 ACTTGGGAATTTTATAAAGAAA
19157034 A
1 A
19157035 ATCATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (22 bp):
ACTTGGGAATTTTATAAAGAAA
Found at i:19160806 original size:2 final size:2
Alignment explanation
Indices: 19160799--19160837 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19160789 NNNNNNNNNA
19160799 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
19160838 ATCCAAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19163831 original size:25 final size:25
Alignment explanation
Indices: 19163802--19163872 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
19163792 CAAACGTTCT
*
19163802 AGATAATACATCACAAAGGCTCTTC
1 AGATAATTCATCACAAAGGCTCTTC
* *
19163827 AGATAATTCACCACAAAGGCTCTTT
1 AGATAATTCATCACAAAGGCTCTTC
**
19163852 AGATAATTTGTCACAAAGGCT
1 AGATAATTCATCACAAAGGCT
19163873 TGGCTTGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (25 bp):
AGATAATTCATCACAAAGGCTCTTC
Found at i:19168971 original size:21 final size:21
Alignment explanation
Indices: 19168947--19168987 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19168937 GGTCGTATGG
* *
19168947 CTACTCCACATGCCCGTGTAA
1 CTACTCCACATACCCATGTAA
*
19168968 CTACTTCACATACCCATGTA
1 CTACTCCACATACCCATGTA
19168988 TGTAGACCAT
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:0.27, C:0.37, G:0.10, T:0.27
Consensus pattern (21 bp):
CTACTCCACATACCCATGTAA
Found at i:19177894 original size:19 final size:17
Alignment explanation
Indices: 19177845--19177895 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
19177835 TTTTAATGGT
19177845 TAAA-TAAGTAAATTAG
1 TAAATTAAGTAAATTAG
*
19177861 TAAATAAATGATAAATTAAG
1 TAAATTAA-G-TAAATT-AG
19177881 TAAAATTAAGTAAAT
1 T-AAATTAAGTAAAT
19177896 GTATCATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 1 0.04
19 11 0.39
20 4 0.14
21 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
TAAATTAAGTAAATTAG
Found at i:19178782 original size:42 final size:43
Alignment explanation
Indices: 19178735--19178854 Score: 136
Period size: 42 Copynumber: 2.8 Consensus size: 43
19178725 TTTCAAGGCG
* * *
19178735 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATC-GTATA
1 TGATTTCGTGTAAGACCATATCTGGGACAGTGGCATCGGTATA
*
19178777 TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGGTATA
1 TGATTTCGTGTAAGACCATATCTGGGACAGTGGCATCGGTATA
* ** * * *
19178820 TTATAACATGTAAGACCTTATCTGGGATA-TGGCAT
1 TGATTTCGTGTAAGACCATATCTGGGACAGTGGCAT
19178855 TGTTTGAGCT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 39 0.58
43 28 0.42
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATATCTGGGACAGTGGCATCGGTATA
Found at i:19179503 original size:48 final size:48
Alignment explanation
Indices: 19179399--19179503 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
19179389 TGATGATATG
* * * * *
19179399 ATGCTGTCCAAATTGATGCTTAATTGCTGTCCATTTTTTAGTATATTA
1 ATGCTGTCCAAATTGATGCTTAAGTGCTATCCATTTTTTAGCAAATCA
* *
19179447 ATGTTGTCCAAATTGGTGCTTAAGTGCTATCCATTTTTTTA-CAAATCA
1 ATGCTGTCCAAATTGATGCTTAAGTGCTATCCA-TTTTTTAGCAAATCA
19179495 ATGCTGTCC
1 ATGCTGTCC
19179504 GAATGTTGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 41 0.85
49 7 0.15
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (48 bp):
ATGCTGTCCAAATTGATGCTTAAGTGCTATCCATTTTTTAGCAAATCA
Found at i:19184541 original size:33 final size:33
Alignment explanation
Indices: 19184499--19184623 Score: 133
Period size: 33 Copynumber: 3.5 Consensus size: 33
19184489 ATACGGTGGG
19184499 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
* *
19184532 ATCAGCACTTAGCAACCCCCTTTACATTTAAGATACGGTGGA
1 ATCAGCACTTAGCAACCACC---A-A--T--GATTCGG-GGA
* *
19184574 ATCAGCACTTAACAACCACCAATGAATCGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
19184607 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
19184624 CCTTGGGGGA
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
33 38 0.50
34 5 0.07
36 2 0.03
37 1 0.01
38 1 0.01
39 2 0.03
41 6 0.08
42 21 0.28
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATGATTCGGGGA
Found at i:19184541 original size:75 final size:74
Alignment explanation
Indices: 19184417--19184627 Score: 325
Period size: 75 Copynumber: 2.8 Consensus size: 74
19184407 TATCTATTAT
* * * *
19184417 CGGT-GGATTCAGTACTTAGCAACCACCAATGAGTCGGGAAATCAACACTTAGCAACCCCTTTCA
1 CGGTGGGA-TCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTT-A
19184481 CATTTAAGATA
64 CATTTAAGATA
*
19184492 CGGTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTTAC
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAA-CCCCTTTAC
19184557 ATTTAAGATA
65 ATTTAAGATA
* *
19184567 CGGTGGAATCAGCACTTAACAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
19184628 GGGGGAATTA
Statistics
Matches: 127, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
74 6 0.05
75 111 0.87
76 10 0.08
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (74 bp):
CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTACA
TTTAAGATA
Found at i:19184640 original size:27 final size:27
Alignment explanation
Indices: 19184602--19184654 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
19184592 CCAATGAATC
19184602 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
*
19184629 GGGGAATTAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
19184655 TTATATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:19187631 original size:36 final size:35
Alignment explanation
Indices: 19187591--19187668 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 35
19187581 ACAATCTACA
*
19187591 AGTAAGGAAGGACAACGGTAAGCATATCAAAGGCTT
1 AGTAAGGAA-GACAACAGTAAGCATATCAAAGGCTT
19187627 AGTAAGGGAAGACAACAGTAAGCATATCAAAGGCTT
1 AGTAA-GGAAGACAACAGTAAGCATATCAAAGGCTT
19187663 AGTAAG
1 AGTAAG
19187669 TTCATACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 1 0.03
36 35 0.88
37 4 0.10
ACGTcount: A:0.44, C:0.13, G:0.27, T:0.17
Consensus pattern (35 bp):
AGTAAGGAAGACAACAGTAAGCATATCAAAGGCTT
Found at i:19194838 original size:15 final size:16
Alignment explanation
Indices: 19194818--19194847 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19194808 TTGATCTCTC
19194818 TTTTT-AAATATTTAT
1 TTTTTAAAATATTTAT
19194833 TTTTTAAAATATTTA
1 TTTTTAAAATATTTA
19194848 CTATACTCAT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTAAAATATTTAT
Found at i:19195167 original size:15 final size:15
Alignment explanation
Indices: 19195137--19195165 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19195127 ACTATTAGTA
19195137 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
19195152 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
19195166 TACTATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:19205950 original size:21 final size:20
Alignment explanation
Indices: 19205925--19205974 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
19205915 AATTTTCTTA
*
19205925 TTTCTCTTTTCTTCTTTTTCC
1 TTTCTCTTTTCTTCTCTTT-C
* *
19205946 TTTCTTTTTTTTTCTCTTTC
1 TTTCTCTTTTCTTCTCTTTC
*
19205966 TTTGTCTTT
1 TTTCTCTTT
19205975 AGAGATAACT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTTTCTTCTCTTTC
Found at i:19215688 original size:89 final size:89
Alignment explanation
Indices: 19215537--19215716 Score: 360
Period size: 89 Copynumber: 2.0 Consensus size: 89
19215527 CACCAAAAGC
19215537 CATTAAGTTTCTATTTATTCCTAATACCCTGGAAGGATACGCAAAAGCCTGGTTAGATGCTCTGC
1 CATTAAGTTTCTATTTATTCCTAATACCCTGGAAGGATACGCAAAAGCCTGGTTAGATGCTCTGC
19215602 CTCCAGACACCATCACTATGTGGG
66 CTCCAGACACCATCACTATGTGGG
19215626 CATTAAGTTTCTATTTATTCCTAATACCCTGGAAGGATACGCAAAAGCCTGGTTAGATGCTCTGC
1 CATTAAGTTTCTATTTATTCCTAATACCCTGGAAGGATACGCAAAAGCCTGGTTAGATGCTCTGC
19215691 CTCCAGACACCATCACTATGTGGG
66 CTCCAGACACCATCACTATGTGGG
19215715 CA
1 CA
19215717 GAATATGTAC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (89 bp):
CATTAAGTTTCTATTTATTCCTAATACCCTGGAAGGATACGCAAAAGCCTGGTTAGATGCTCTGC
CTCCAGACACCATCACTATGTGGG
Found at i:19221108 original size:22 final size:20
Alignment explanation
Indices: 19221065--19221103 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19221055 TAATTTAAAA
19221065 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
19221085 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
19221104 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:19221165 original size:32 final size:32
Alignment explanation
Indices: 19221124--19221210 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
19221114 AACTTTTCCG
** *
19221124 GAAAATATTTTCAAGAAATCTGTCAAACAGCA
1 GAAAATATTTTCAAGAAATCAATCAAACACCA
*
19221156 GAAAATATTTTACACAG-ATTCAATCAAACACCA
1 GAAAATATTTT-CA-AGAAATCAATCAAACACCA
*
19221189 GAAAATATTTTCCAGTAAATCA
1 GAAAATATTTTCAAG-AAATCA
19221211 TTTTACAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
31 2 0.04
32 12 0.27
33 29 0.64
34 2 0.04
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAAGAAATCAATCAAACACCA
Found at i:19221208 original size:14 final size:15
Alignment explanation
Indices: 19221186--19221262 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
19221176 CAATCAAACA
19221186 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
19221200 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
19221215 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
19221235 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
19221249 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
19221263 ACTGCCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:19221227 original size:20 final size:20
Alignment explanation
Indices: 19221202--19221241 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19221192 AATATTTTCC
*
19221202 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
19221222 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
19221242 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:19221247 original size:34 final size:35
Alignment explanation
Indices: 19221190--19221256 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
19221180 CAAACACCAG
*
19221190 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
19221225 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19221257 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19221263 original size:14 final size:14
Alignment explanation
Indices: 19221225--19221264 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
19221215 ACAGAAAAGT
*
19221225 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
19221239 AAATCATTTTACGG
1 AAAACATTTTACAG
19221253 AAAACATTTTAC
1 AAAACATTTTAC
19221265 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:19223140 original size:26 final size:29
Alignment explanation
Indices: 19223111--19223163 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 29
19223101 TAAAATATAT
*
19223111 ATATATAGATT-T-AAAA-TAATTAAATC
1 ATATATACATTATCAAAACTAATTAAATC
*
19223137 ATATCTACATTATCAAAACTAATTAAA
1 ATATATACATTATCAAAACTAATTAAA
19223164 AAAATATGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 9 0.41
27 1 0.05
28 4 0.18
29 8 0.36
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (29 bp):
ATATATACATTATCAAAACTAATTAAATC
Found at i:19225103 original size:44 final size:44
Alignment explanation
Indices: 19225038--19225863 Score: 718
Period size: 44 Copynumber: 18.7 Consensus size: 44
19225028 TGCCTCACTG
* * * ** *
19225038 CCAATATAAGAAGACAGGATCTGCTATTTTTTATCCACTTCACG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCACA
* * * * *
19225082 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-ACA
* *
19225127 CCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC-A
* * * * *
19225171 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTTACG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCACA
* * * *
19225215 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-ACA
* *
19225260 CCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCACTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC-A
* * * * *
19225304 CCAATATAGGAAGACAGGATCTGTTATCTTCGAACTACTTCACG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCACA
* * * * *
19225348 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-ACA
* * * *
19225393 CCAGTATGGGAAGACAAGATCTGC-ATATTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC-A
** *
19225437 CCAATATAGGAAGAC-AGAATCTATTATCTTCGATCTACTTCACA
1 CCAATATAGGAAGACAAG-ATCTGCTATCTTCGATCCACTTCACA
* * * * *
19225481 CCAATATATGAAGACAAGATCTTCTTTCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-ACA
* * * *
19225526 CCAATATGGGAATACAAGATCTGC-ATCTTCGATCCATTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC-A
** * *
19225570 CCAATATAGGAAGACCGGATCTGCTATCTTCGATCTACTTCACG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCACA
* * * * * * * *
19225614 CCAATACATGAAGCCAAAATCTACT-TTTTCCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTT-CGATCCACTTC-ACA
* * * * *
19225659 CCAGTATGGGAAGACAAGATCTAC-ATCTTCGATCCAATTCGCTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC-A
* * * * **
19225703 CCGATACAGGAAGACAGGATCTGCTATCTTCGATCTACTTCATG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCACA
* * * * *
19225747 CCAATACACGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-ACA
*
19225792 CCAGTAT-GGAAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTA
1 CCAATATAGG-AAGACAAGATCTGCTATCTTCGATCCACTTCAC-A
* *
19225835 CCAATATAGGAAGACAGGATCTGTTATCT
1 CCAATATAGGAAGACAAGATCTGCTATCT
19225864 GTGAAACATG
Statistics
Matches: 623, Mismatches: 135, Indels: 48
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.00
43 29 0.05
44 389 0.62
45 204 0.33
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCACA
Found at i:19225276 original size:133 final size:133
Alignment explanation
Indices: 19225038--19225863 Score: 1332
Period size: 133 Copynumber: 6.2 Consensus size: 133
19225028 TGCCTCACTG
* * * ** *
19225038 CCAATATAAGAAGACAGGATCTGCTATTTTTTATCCACTTCACGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
19225103 TGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCG
66 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCG
19225168 CTA
131 CTA
*
19225171 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTTACGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
* *
19225236 TGCTTTCTTCGATCCACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCA
66 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCG
19225301 CTA
131 CTA
*
19225304 CCAATATAGGAAGACAGGATCTGTTATCTTCGAACTACTTCACGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
19225369 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATATTCGATCCACTTCG
66 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCG
19225434 CTA
131 CTA
* * * *
19225437 CCAATATAGGAAGACAGAATCTATTATCTTCGATCTACTTCACACCAATATATGAAGACAAGATC
1 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
* * * *
19225502 TTCTTTCTTCGATCTACTTCGCCACCAATATGGGAATACAAGATCTGCATCTTCGATCCATTTCG
66 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCG
19225567 CTA
131 CTA
* * * *
19225570 CCAATATAGGAAGACCGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGCCAAAATC
1 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
* * *
19225635 TACTTT-TTCCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCAATTC
66 TGCTTTCTT-CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
19225699 GCTA
130 GCTA
* * * * *
19225703 CCGATACAGGAAGACAGGATCTGCTATCTTCGATCTACTTCATGCCAATACACGAAGACAAGATC
1 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
19225768 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGAAAGACAAGATCTGCATCTTCGATCCACTTC-
66 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCG
19225832 CTA
131 CTA
19225835 CCAATATAGGAAGACAGGATCTGTTATCT
1 CCAATATAGGAAGACAGGATCTGTTATCT
19225864 GTGAAACATG
Statistics
Matches: 639, Mismatches: 52, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
132 31 0.05
133 606 0.95
134 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (133 bp):
CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCG
CTA
Found at i:19236656 original size:16 final size:16
Alignment explanation
Indices: 19236617--19236658 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
19236607 TGTAATGTAT
* * *
19236617 AATGCAAAGATCAATT
1 AATGCAAAAAACAATG
19236633 AA-GCAAAAAACAATG
1 AATGCAAAAAACAATG
19236648 AATGCAAAAAA
1 AATGCAAAAAA
19236659 GGATCTTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.14
Consensus pattern (16 bp):
AATGCAAAAAACAATG
Found at i:19242893 original size:13 final size:13
Alignment explanation
Indices: 19242870--19242934 Score: 69
Period size: 13 Copynumber: 4.8 Consensus size: 13
19242860 TACAAATTTT
19242870 TTATATGGAAATAG
1 TTATAT-GAAATAG
*
19242884 TTATATGAAATGG
1 TTATATGAAATAG
19242897 TTATATG-AATCAG
1 TTATATGAAAT-AG
*
19242910 ATATATGAAAATAG
1 TTATATG-AAATAG
*
19242924 ATATATGAAAT
1 TTATATGAAAT
19242935 GGAACATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
12 3 0.07
13 24 0.53
14 15 0.33
15 3 0.07
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (13 bp):
TTATATGAAATAG
Found at i:19242998 original size:20 final size:20
Alignment explanation
Indices: 19242955--19242992 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19242945 AATAGACATT
*
19242955 TGAAATGAAAATGTGATATG
1 TGAAATGAAAATATGATATG
*
19242975 TGAAATGAATATATGATA
1 TGAAATGAAAATATGATA
19242993 GATGAACGTC
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:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (20 bp):
TGAAATGAAAATATGATATG
Found at i:19247156 original size:37 final size:36
Alignment explanation
Indices: 19247088--19247184 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 36
19247078 TAACTATTCC
* *
19247088 AAATATAATATTATTTTAATAGTTTAATATTAAATT
1 AAATTTAATATTATCTTAATAGTTTAATATTAAATT
* *
19247124 AAATTTAATACTTATCTTAATAGTATT-TTATTAATTT
1 AAATTTAATA-TTATCTTAATAGT-TTAATATTAAATT
*
19247161 AATATTAAAGTGATTATCTTAATA
1 AA-ATTTAA-T-ATTATCTTAATA
19247185 TTAAATTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
36 9 0.18
37 22 0.43
38 7 0.14
39 12 0.24
40 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (36 bp):
AAATTTAATATTATCTTAATAGTTTAATATTAAATT
Found at i:19247436 original size:25 final size:25
Alignment explanation
Indices: 19247399--19247449 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
19247389 AGTTATAGAG
19247399 AGAAAATTCTCTAAAAATATTATTTC
1 AGAAAATTCTCTAAAAATATT-TTTC
*
19247425 AGAAAATT-TCTAGAAATATTTTTC
1 AGAAAATTCTCTAAAAATATTTTTC
19247449 A
1 A
19247450 AATTTACATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.21
25 11 0.46
26 8 0.33
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (25 bp):
AGAAAATTCTCTAAAAATATTTTTC
Found at i:19247601 original size:24 final size:24
Alignment explanation
Indices: 19247569--19247619 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
19247559 GCTCATCCTA
19247569 GATGAATAAAAAATGTACAATTTT
1 GATGAATAAAAAATGTACAATTTT
19247593 GATGAATAAAAAATGTACAATTTT
1 GATGAATAAAAAATGTACAATTTT
19247617 GAT
1 GAT
19247620 TAAGTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (24 bp):
GATGAATAAAAAATGTACAATTTT
Found at i:19253065 original size:488 final size:488
Alignment explanation
Indices: 19252149--19253126 Score: 1812
Period size: 488 Copynumber: 2.0 Consensus size: 488
19252139 TGAGGCGTGG
* *
19252149 CCTCAGTGAGTGCCGCTCTATCTACATGAACAATTACCACACTCCACGTAACTTGGGATAAGTAT
1 CCTCAGTGAGTGCCCCTCTATATACATGAACAATTACCACACTCCACGTAACTTGGGATAAGTAT
19252214 AGCTTGGTCCCTCTTGATGTCCCAATCTTTGTCAACCTACATTCAAGCTACGGTTTTATAAGTTC
66 AGCTTGGTCCCTCTTGATGTCCCAATCTTTGTCAACCTACATTCAAGCTACGGTTTTATAAGTTC
19252279 CGAAGAACTTAGTGAGACCTGCACATAAATTTATATAAGCCGCATAATTTTTAAGAAATTAGGGT
131 CGAAGAACTTAGTGAGACCTGCACATAAATTTATATAAGCCGCATAATTTTTAAGAAATTAGGGT
*
19252344 GTCTGGATCAGAAGTACAACTCCCTAATTTTCGTAAAAGAATTTGCGAACTCCCTTCGCAAGACC
196 GTCTGGATCAGAAGTACAACTCCCTAATTTTCGTAAAAGAATTTACGAACTCCCTTCGCAAGACC
19252409 CATGCCCTAGTTTCTCTAAGCCATTCATTGGAAAACTTAGACTCCAGACTAGTCCTGATAGAGTC
261 CATGCCCTAGTTTCTCTAAGCCATTCATTGGAAAACTTAGACTCCAGACTAGTCCTGATAGAGTC
19252474 CATCTCTTGGGTCTCATTTTCTCTTCCTATCTCTCATCATTCTACCTTATGATATTCGTTTTCAT
326 CATCTCTTGGGTCTCATTTTCTCTTCCTATCTCTCATCATTCTACCTTATGATATTCGTTTTCAT
*
19252539 TACATTTGGCTGGTGGCGCTTAGCGTCTACCCAAGTAATGATAGTAACTATGGTTATTTCAAGAA
391 TACATTTGGCTGGCGGCGCTTAGCGTCTACCCAAGTAATGATAGTAACTATGGTTATTTCAAGAA
* *
19252604 CGTAATACCTTTACTTCTTCAATGAGCTAGTAC
456 CGTAATACCCTCACTTCTTCAATGAGCTAGTAC
19252637 CCTCAGTGAGTGCCCCTCTATATACATGAACAATTACCACACTCCACGTAACTTGGGATAAGTAT
1 CCTCAGTGAGTGCCCCTCTATATACATGAACAATTACCACACTCCACGTAACTTGGGATAAGTAT
*
19252702 AGCTTGGTCCCTCTTGATGTCCCAATCTTTGTCAACCTACATTCAAGCTACGGTTTTATAAGTTT
66 AGCTTGGTCCCTCTTGATGTCCCAATCTTTGTCAACCTACATTCAAGCTACGGTTTTATAAGTTC
19252767 CGAAGAACTTAGTGAGACCTGCACATAAATTTATATAAGCCGCATAATTTTTAAGAAATTAGGGT
131 CGAAGAACTTAGTGAGACCTGCACATAAATTTATATAAGCCGCATAATTTTTAAGAAATTAGGGT
19252832 GTCTGGATCAGAAGTACAACTCCCTAATTTTCGTAAAAGAATTTACGAACTCCCTTCGCAAGACC
196 GTCTGGATCAGAAGTACAACTCCCTAATTTTCGTAAAAGAATTTACGAACTCCCTTCGCAAGACC
* ** *
19252897 CATGCTCTAGTTTCTCTAAGCCATTCATTGGAAGGCTTAGACTCCAGACTGGTCCTGATAGAGTC
261 CATGCCCTAGTTTCTCTAAGCCATTCATTGGAAAACTTAGACTCCAGACTAGTCCTGATAGAGTC
*
19252962 CATCTCTTGGGTCTCATTTTCTCTTCCTATCTCTCATCATTCTACCTTATGATATTTGTTTTCAT
326 CATCTCTTGGGTCTCATTTTCTCTTCCTATCTCTCATCATTCTACCTTATGATATTCGTTTTCAT
* *
19253027 TACATTTGGCTGGCGGCGCTTAGCGTCTGCCCAAGTAATGATCGTAACTATGGTTATTTCAAGAA
391 TACATTTGGCTGGCGGCGCTTAGCGTCTACCCAAGTAATGATAGTAACTATGGTTATTTCAAGAA
**
19253092 CGTAATACCCTCACTTCTTCGGTGAGCTAGTAC
456 CGTAATACCCTCACTTCTTCAATGAGCTAGTAC
19253125 CC
1 CC
19253127 ACATAACAGC
Statistics
Matches: 474, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
488 474 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (488 bp):
CCTCAGTGAGTGCCCCTCTATATACATGAACAATTACCACACTCCACGTAACTTGGGATAAGTAT
AGCTTGGTCCCTCTTGATGTCCCAATCTTTGTCAACCTACATTCAAGCTACGGTTTTATAAGTTC
CGAAGAACTTAGTGAGACCTGCACATAAATTTATATAAGCCGCATAATTTTTAAGAAATTAGGGT
GTCTGGATCAGAAGTACAACTCCCTAATTTTCGTAAAAGAATTTACGAACTCCCTTCGCAAGACC
CATGCCCTAGTTTCTCTAAGCCATTCATTGGAAAACTTAGACTCCAGACTAGTCCTGATAGAGTC
CATCTCTTGGGTCTCATTTTCTCTTCCTATCTCTCATCATTCTACCTTATGATATTCGTTTTCAT
TACATTTGGCTGGCGGCGCTTAGCGTCTACCCAAGTAATGATAGTAACTATGGTTATTTCAAGAA
CGTAATACCCTCACTTCTTCAATGAGCTAGTAC
Found at i:19254282 original size:37 final size:37
Alignment explanation
Indices: 19254221--19254366 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
19254211 TACGTATGAT
* *
19254221 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
19254256 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19254293 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
19254330 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19254367 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:19254383 original size:46 final size:46
Alignment explanation
Indices: 19254330--19254598 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
19254320 TAAGTGTAGC
* **
19254330 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
19254376 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
19254422 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
19254474 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
19254526 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
19254572 CACTTATCACTTTGTCACCTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
19254599 AGTACTCAAA
Statistics
Matches: 207, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
46 112 0.54
49 1 0.00
50 1 0.00
51 3 0.01
52 90 0.43
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:19254449 original size:52 final size:52
Alignment explanation
Indices: 19254373--19254589 Score: 320
Period size: 52 Copynumber: 4.2 Consensus size: 52
19254363 TAGCTAAAGC
* *
19254373 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
19254426 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
19254478 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
19254530 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
19254576 TATCACTTTGTCAC
1 TATCACTTT-TCAC
19254590 CTGATCAGAA
Statistics
Matches: 149, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
46 43 0.29
50 1 0.01
52 93 0.62
53 12 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:19254541 original size:98 final size:94
Alignment explanation
Indices: 19254330--19254598 Score: 348
Period size: 98 Copynumber: 2.8 Consensus size: 94
19254320 TAAGTGTAGC
* ** *
19254330 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--TTTGTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
19254393 CTTGATCAGATAAGTATAGCCGAAGCTAT
66 CTTGATCAGATAAGTATAGCCGAAGCTAT
19254422 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
* *
19254487 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
60 ----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
19254526 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TTTGTCA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
*
19254589 CCTGATCAGA
66 CTTGATCAGA
19254599 AGTACTCAAA
Statistics
Matches: 157, Mismatches: 8, Indels: 24
0.83 0.04 0.13
Matches are distributed among these distances:
92 25 0.16
95 1 0.01
96 1 0.01
98 86 0.55
100 1 0.01
101 1 0.01
104 42 0.27
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (94 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
CTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:19261975 original size:7 final size:7
Alignment explanation
Indices: 19261965--19262089 Score: 250
Period size: 7 Copynumber: 17.9 Consensus size: 7
19261955 ATCCAAAAAT
19261965 ATTTTTC
1 ATTTTTC
19261972 ATTTTTC
1 ATTTTTC
19261979 ATTTTTC
1 ATTTTTC
19261986 ATTTTTC
1 ATTTTTC
19261993 ATTTTTC
1 ATTTTTC
19262000 ATTTTTC
1 ATTTTTC
19262007 ATTTTTC
1 ATTTTTC
19262014 ATTTTTC
1 ATTTTTC
19262021 ATTTTTC
1 ATTTTTC
19262028 ATTTTTC
1 ATTTTTC
19262035 ATTTTTC
1 ATTTTTC
19262042 ATTTTTC
1 ATTTTTC
19262049 ATTTTTC
1 ATTTTTC
19262056 ATTTTTC
1 ATTTTTC
19262063 ATTTTTC
1 ATTTTTC
19262070 ATTTTTC
1 ATTTTTC
19262077 ATTTTTC
1 ATTTTTC
19262084 ATTTTT
1 ATTTTT
19262090 TTGTGTAATT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 118 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTC
Found at i:19268033 original size:5 final size:5
Alignment explanation
Indices: 19268023--19268055 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
19268013 TAAATATTTT
19268023 TATCA TATCA TATCA TATCA TATCA TATCA TAT
1 TATCA TATCA TATCA TATCA TATCA TATCA TAT
19268056 ATTAGTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (5 bp):
TATCA
Found at i:19268583 original size:4 final size:4
Alignment explanation
Indices: 19268576--19268657 Score: 164
Period size: 4 Copynumber: 20.5 Consensus size: 4
19268566 CGTTGCATGC
19268576 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
19268624 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
19268658 AGATTTCTAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 78 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:19272229 original size:10 final size:10
Alignment explanation
Indices: 19272202--19272231 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19272192 GCCCAATGCC
19272202 AAAACCAAAT
1 AAAACCAAAT
19272212 AAAA-CAAAT
1 AAAACCAAAT
19272221 AAAACCAAAT
1 AAAACCAAAT
19272231 A
1 A
19272232 CAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.73, C:0.17, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAACCAAAT
Found at i:19279161 original size:9 final size:9
Alignment explanation
Indices: 19279147--19279192 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
19279137 AATGTTTCAT
19279147 AAAAAAGAA
1 AAAAAAGAA
19279156 AAAAAAG-A
1 AAAAAAGAA
* *
19279164 AAAATACAA
1 AAAAAAGAA
19279173 AAAAAAG-A
1 AAAAAAGAA
*
19279181 AAAGAAGAA
1 AAAAAAGAA
19279190 AAA
1 AAA
19279193 GAAAAAGGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:19279191 original size:17 final size:16
Alignment explanation
Indices: 19279147--19279192 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
19279137 AATGTTTCAT
19279147 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
*
19279163 AAAAATACAAAAAAAAG
1 AAAAA-AGAAAAAAAAG
19279180 AAAAGAAGAAAAA
1 AAAA-AAGAAAAA
19279193 GAAAAAGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 5 0.19
17 20 0.77
18 1 0.04
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:19280261 original size:100 final size:99
Alignment explanation
Indices: 19280077--19280563 Score: 647
Period size: 100 Copynumber: 4.9 Consensus size: 99
19280067 ACCCCTGAGG
* * *
19280077 TTACAA-TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGGACAGA
1 TTACAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAACAGA
*
19280141 TTGAAGCTGCAACGGCGAATCTTGCTTCCCCGACA
65 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * *
19280176 TTGCAATTAAAAATATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCTATGCAGTGGAACAGA
1 TTACAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAACAGA
* *
19280241 TTGAAGCTACAATGGTGAATCTTGCTTCCCCGACA
65 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * *
19280276 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCAGTGCAGTGGAATAAA
1 TTACAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCA-TGCAGTGGAACAGA
* **
19280341 TTAAAGCTACAACGGCGAATCTTG-TTCCCTTAACA
65 TTGAAGCTACAACGGCGAATCTTGCTTCCC-CGACA
* * *
19280376 TTACAATTAAAAAGATTGAAGTCACAACGGTGAATCTTACTTTCCTGGCAGTGCAGTAGG-ACAG
1 TTACAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCA-TGCAGT-GGAACAG
* *
19280440 ATTGAAGCTACAACGACGAATCTTGCTTCCTCGACA
64 ATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * *
19280476 ATATAATTAAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCTGGCGGTGCAGTGGAACAGA
1 TTACAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAACAGA
* *
19280541 TTGAAGCTACAATGACGAATCTT
65 TTGAAGCTACAACGGCGAATCTT
19280564 ATCTCCCTGA
Statistics
Matches: 341, Mismatches: 40, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
99 13 0.04
100 322 0.94
101 6 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (99 bp):
TTACAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATGCAGTGGAACAGAT
TGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
Found at i:19280565 original size:50 final size:50
Alignment explanation
Indices: 19280088--19280596 Score: 370
Period size: 50 Copynumber: 10.2 Consensus size: 50
19280078 TACAATAAAA
* * *
19280088 AGATTGAAGCCACAACGGCGAATCTTACTTCCCT-AGCGGTGCAGTGGGAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGA-CAGTGCAGTGGAAC
* * * * * ** *
19280138 AGATTGAAGCTGCAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * *
19280188 ATATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCTA-TGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGAC-AGTGCAGTGGAAC
* * * * * * ** *
19280238 AGATTGAAGCTACAATGGTGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* *
19280288 AGATTGAAGCCACAACGGCGAATCTTACTTCCCT-AGCAGTGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGA-CAGTGCAGTGGAAC
* * * * * * * ** *
19280338 AAATTAAAGCTACAACGGCGAATCTT-GTTCCCTTAACATTACAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCC-TGACAGTGCAGTGGAAC
* * *
19280388 AGATTGAAG-TCACAACGGTGAATCTTACTTTCCTGGCAGTGCAGTAGG-AC
1 AGATTGAAGCT-ACAACGGCGAATCTTACTTCCCTGACAGTGCAGT-GGAAC
* * * ** * ** *
19280438 AGATTGAAGCTACAACGACGAATCTTGCTT-CCTCGACAATATAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GACAGTGCAGTGGAAC
* * * *
19280488 AGATTGAAGCCACAACGGCGAATCTTATTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * *
19280538 AGATTGAAGCTACAATGACGAATCTTA-TCTCCCTGA-AGTTGTAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTACT-TCCCTGACAG-TGCAGTGGAAC
19280588 AGATTGAAG
1 AGATTGAAG
19280597 TCACTAATCT
Statistics
Matches: 348, Mismatches: 96, Indels: 30
0.73 0.20 0.06
Matches are distributed among these distances:
49 13 0.04
50 324 0.93
51 11 0.03
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
Found at i:19280621 original size:44 final size:44
Alignment explanation
Indices: 19280558--19280906 Score: 250
Period size: 44 Copynumber: 7.8 Consensus size: 44
19280548 TACAATGACG
*
19280558 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-TCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACT
* *
19280602 AATCTTATC-CCCTTGAAGTTGCAGTGGGGCAAATTGAAGATAC-
1 AATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * *
19280645 AAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * * * * *
19280690 GAGTCTTATCTCCCTGATGTTGTAGTGGAGTAGACTGAAGCTACT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
*
19280735 AATCCTT-TCTCCCTGAAGTTGCAGTGGAGCGGATT-AA-A-ACGAT
1 AAT-CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC--T
* * ** * **
19280778 GAATCATATACT-TCTGAAGTTGCAGTAGGTCGAATTAGATCTTATCATA-T
1 -AATCTTAT-CTCCCTGAAGTTGCAGT--G--G-AGCAGAT-TGAAGATACT
* *
19280828 CAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAC-
1 -AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
**
19280873 AACTCTTATCTTACTGAAGTTGCAGTGGAGCAGA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
19280907 CTAAATACAC
Statistics
Matches: 238, Mismatches: 42, Indels: 50
0.72 0.13 0.15
Matches are distributed among these distances:
41 2 0.01
43 10 0.04
44 137 0.58
45 50 0.21
46 6 0.03
47 1 0.00
48 1 0.00
49 5 0.02
50 7 0.03
51 17 0.07
52 1 0.00
53 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
Found at i:19280754 original size:89 final size:88
Alignment explanation
Indices: 19280560--19280764 Score: 229
Period size: 89 Copynumber: 2.3 Consensus size: 88
19280550 CAATGACGAA
* *
19280560 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTCACTAATCTTATCCCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTCACTAATCTTATCCCCTTGAAGTTGCA
* *
19280625 GTGGGGCAAATTGAAGATACAAG
66 GTGGAGCAAACTGAAGATACAAG
* * * *
19280648 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGTGAGTCTTATCTCCC-TGATGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-TCACT-AATCTTATC-CCCTTGAAGTT
* * * *
19280711 GTAGTGGAGTAGACTGAAGCTACTAA-
63 GCAGTGGAGCAAACTGAAGATAC-AAG
19280737 TCCTT-TCTCCCTGAAGTTGCAGTGGAGC
1 T-CTTATCTCCCTGAAGTTGCAGTGGAGC
19280765 GGATTAAAAC
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
88 36 0.36
89 55 0.56
90 8 0.08
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTCACTAATCTTATCCCCTTGAAGTTGCA
GTGGAGCAAACTGAAGATACAAG
Found at i:19280798 original size:133 final size:133
Alignment explanation
Indices: 19280560--19280803 Score: 311
Period size: 133 Copynumber: 1.8 Consensus size: 133
19280550 CAATGACGAA
*
19280560 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTCACTAATCTTATCCCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGTCACTAATCTTATCCCCTTGAAGTTGCA
* * *
19280625 GTGGGGCAAATTGAAGATACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGT
66 GTGGAGCAAATTAAAGATACAAGTCATATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGT
19280690 GAG
131 GAG
* *
19280693 TCTTATCTCCCTGATGTTGTAGTGGAGTAGACTGAAG-CTACTAATCCTT-TCTCCC-TGAAGTT
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGTC-ACTAAT-CTTATC-CCCTTGAAGTT
** *
19280755 GCAGTGGAGCGGATTAAAACGAT-GAA-TCATATACT-TCTGAAGTTGCAGT
63 GCAGTGGAGCAAATT-AAA-GATACAAGTCATAT-CTCTCTGAAGTTGCAGT
19280804 AGGTCGAATT
Statistics
Matches: 96, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
132 1 0.01
133 80 0.83
134 12 0.12
135 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGTCACTAATCTTATCCCCTTGAAGTTGCA
GTGGAGCAAATTAAAGATACAAGTCATATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGT
GAG
Found at i:19281197 original size:10 final size:10
Alignment explanation
Indices: 19281170--19281199 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19281160 GCCCAATGCC
19281170 AAAACCAAAT
1 AAAACCAAAT
19281180 AAAA-CAAAT
1 AAAACCAAAT
19281189 AAAACCAAAT
1 AAAACCAAAT
19281199 A
1 A
19281200 CAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.73, C:0.17, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAACCAAAT
Found at i:19286441 original size:14 final size:13
Alignment explanation
Indices: 19286409--19286441 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
19286399 TTAAGTCGAG
19286409 TTAAATTTTTGAA
1 TTAAATTTTTGAA
19286422 TTAAATTTTTGAA
1 TTAAATTTTTGAA
19286435 TTCAAAT
1 TT-AAAT
19286442 AACTCGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (13 bp):
TTAAATTTTTGAA
Found at i:19286597 original size:15 final size:16
Alignment explanation
Indices: 19286569--19286601 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19286559 TATTCTACCG
*
19286569 CCCCTACCCTACCCCA
1 CCCCTACCCCACCCCA
19286585 CCCC-ACCCCACCCCA
1 CCCCTACCCCACCCCA
19286600 CC
1 CC
19286602 ATTTTCCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.18, C:0.76, G:0.00, T:0.06
Consensus pattern (16 bp):
CCCCTACCCCACCCCA
Found at i:19299189 original size:29 final size:28
Alignment explanation
Indices: 19299141--19299208 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
19299131 TAAATTGTAC
* *
19299141 AGGATGGATTTTGAGAAAATATTTTTGAA
1 AGGATGGGTTTTGAGAAAATAGTTTT-AA
19299170 AGGATGGGTTTTGA-AGAAATAGTTTTAA
1 AGGATGGGTTTTGAGA-AAATAGTTTTAA
*
19299198 CGAGATGGGTT
1 AG-GATGGGTT
19299209 GAGGTTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.34, C:0.01, G:0.29, T:0.35
Consensus pattern (28 bp):
AGGATGGGTTTTGAGAAAATAGTTTTAA
Found at i:19300607 original size:6 final size:6
Alignment explanation
Indices: 19300596--19300622 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19300586 TGAAGGGAGT
19300596 GATGAA GATGAA GATGAA GATGAA GAT
1 GATGAA GATGAA GATGAA GATGAA GAT
19300623 CCATGATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.19
Consensus pattern (6 bp):
GATGAA
Found at i:19306651 original size:29 final size:29
Alignment explanation
Indices: 19306608--19306786 Score: 268
Period size: 29 Copynumber: 6.2 Consensus size: 29
19306598 GTGTGTTAAA
19306608 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
**
19306637 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
** * *
19306666 CGATGGTTAAAACTATCCCTTTTTATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
**
19306695 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
19306724 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
19306753 CGATGGTCGTAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
19306782 CGATG
1 CGATG
19306787 AACGTCGATA
Statistics
Matches: 131, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 131 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:19306684 original size:58 final size:58
Alignment explanation
Indices: 19306608--19306786 Score: 313
Period size: 58 Copynumber: 3.1 Consensus size: 58
19306598 GTGTGTTAAA
*
19306608 CGATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATT
* * *
19306666 CGATGGTTAAAACTATCCCTTTTTATATTCGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATT
*
19306724 CGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTAACCATCCCTTTTCATATT
1 CGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATT
19306782 CGATG
1 CGATG
19306787 AACGTCGATA
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 113 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (58 bp):
CGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATT
Found at i:19319411 original size:489 final size:487
Alignment explanation
Indices: 19318495--19319474 Score: 1586
Period size: 489 Copynumber: 2.0 Consensus size: 487
19318485 CCTAAGAAGT
** * *
19318495 AGCCACATATTTTGCCTCCATAGTGGAGTCAGTAGTGCAACTTTGCTTTACACTTCTCTACATAA
1 AGCCACATATTTTGCCTCCATAGTGGAGTCAACAGTGCAACTTTGCTTTACACTACTCTACACAA
* * * * * *
19318560 TAGACTTGCCACCTAGGACAAAAACATAGTTCGCCGTCGATTTCCTCGAATCTCAACATGTTTGA
66 TAGACCTGCCACCTAGGACAAAAACACAGTTCGACGTCGATTTCCTCAAATCCCAACACGTTTGA
* * * * * * * **
19318625 AAGTTAGAATCAATATATTTGGTAGGTGTAATATCTCCTTTGCTACACTAGCATATAATCCCTTG
131 AAGTTAGAATCAATATATCTGATAGGAGTAATATCTCCTTAGATACACAAGCATATAATCCATCA
** * *
19318690 TTCTTTGTAAATACTTGAGTATATGCTTAACTGCTTGATAATGTCTTGGTCTAGGTTTCGCCTGA
196 TTCTCCGTAAATACTTGAGTATATGCTTAACTGCTTGATAATGTCTTGGTATAGGATTCGCCTGA
19318755 TACCAACTTACCAACCCCATTGCAAAATAGATATATGGGTGCGTGCATAACATAGCATACATGAG
261 TACCAACTTACCAACCCCATTGCAAAATAGATATATGGGTGCGTGCATAACATAGCATACATGAG
*
19318820 ACTTCCTACTGCCAAAGCATAAGGAACCTTTCTCATGTTCTCTCTTTCTTCCATTGTCTTAGGAT
326 ACTTCCTACTGCCAAAGCATAAGGAACCTTTCTCATGTTCTCTCTTTCTTCCATTGTCTTAGGAC
*
19318885 AGTCCTCCAAAGAGAGATGAAATCCCAATACGGAGGGTTGATTTCCCTTCTTCGAATTGGTCATT
391 AATCCTCCAAAGAGAGATGAAATCCCAATACGGAGGGTTGATTTCCCTTCTTCGAATTGGTCATT
19318950 CCATAACACTCCAATATCTTGTCTATGTATGA
456 CCATAACACTCCAATATCTTGTCTATGTATGA
* *
19318982 AGCCACATATTTTGCCTCCATAGTGGAGTCAACAGTGCAACTTTTCTTTACACTACTCTATACAA
1 AGCCACATATTTTGCCTCCATAGTGGAGTCAACAGTGCAACTTTGCTTTACACTACTCTACACAA
*
19319047 TGGACCTGCCACCTAGGACAAAAACACAG-TCTGACGTCGATTTCCTCAAATCCCAACACGTTTG
66 TAGACCTGCCACCTAGGACAAAAACACAGTTC-GACGTCGATTTCCTCAAATCCCAACACGTTTG
*
19319111 AAAGTTAGAATCAATATATCTGATAGGAGTAATATCTCCTCTAGAATAGACAAGCATATAATCCA
130 AAAGTTAGAATCAATATATCTGATAGGAGTAATATCTCCT-TAG-ATACACAAGCATATAATCCA
*
19319176 TCATTCTCCGTAAATACTTGAGTATATGCTTAACTGCTTGATAGTGTCTTGGTAT-GAGATTCGC
193 TCATTCTCCGTAAATACTTGAGTATATGCTTAACTGCTTGATAATGTCTTGGTATAG-GATTCGC
* * *
19319240 CTGATATCAACTTACCAACCCCATTGTAAAATAGATATATGGGTGTGTGCATAACATAGCATACA
257 CTGATACCAACTTACCAACCCCATTGCAAAATAGATATATGGGTGCGTGCATAACATAGCATACA
*
19319305 TGAGACTTCCTACTGCCGAAGCATAAGGAACCTTTCTCATGTTCTCTCTTTCTTCCATTGTCTTA
322 TGAGACTTCCTACTGCCAAAGCATAAGGAACCTTTCTCATGTTCTCTCTTTCTTCCATTGTCTTA
*
19319370 GGACAATCCTCCAAAGAGAGATGAATTCCCAATACGGAGGGTTGATTTCCCTTCTTCGAATTGGT
387 GGACAATCCTCCAAAGAGAGATGAAATCCCAATACGGAGGGTTGATTTCCCTTCTTCGAATTGGT
*
19319435 CATTCCATAACACTCCAATATCTTGTCTCTGTATGA
452 CATTCCATAACACTCCAATATCTTGTCTATGTATGA
19319471 AGCC
1 AGCC
19319475 TGAGATAGTG
Statistics
Matches: 453, Mismatches: 36, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
486 2 0.00
487 150 0.33
488 3 0.01
489 298 0.66
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (487 bp):
AGCCACATATTTTGCCTCCATAGTGGAGTCAACAGTGCAACTTTGCTTTACACTACTCTACACAA
TAGACCTGCCACCTAGGACAAAAACACAGTTCGACGTCGATTTCCTCAAATCCCAACACGTTTGA
AAGTTAGAATCAATATATCTGATAGGAGTAATATCTCCTTAGATACACAAGCATATAATCCATCA
TTCTCCGTAAATACTTGAGTATATGCTTAACTGCTTGATAATGTCTTGGTATAGGATTCGCCTGA
TACCAACTTACCAACCCCATTGCAAAATAGATATATGGGTGCGTGCATAACATAGCATACATGAG
ACTTCCTACTGCCAAAGCATAAGGAACCTTTCTCATGTTCTCTCTTTCTTCCATTGTCTTAGGAC
AATCCTCCAAAGAGAGATGAAATCCCAATACGGAGGGTTGATTTCCCTTCTTCGAATTGGTCATT
CCATAACACTCCAATATCTTGTCTATGTATGA
Found at i:19328805 original size:30 final size:30
Alignment explanation
Indices: 19328764--19328872 Score: 128
Period size: 30 Copynumber: 3.6 Consensus size: 30
19328754 CCATCGTTGT
*
19328764 CGGGCAACCCGGGATGACAGTGATCTTTAC
1 CGGGCAACCCGGGATGACAGTGATCGTTAC
* * *
19328794 CGGGTAACCCGGGATGATAGTGATCGTTGC
1 CGGGCAACCCGGGATGACAGTGATCGTTAC
* * **
19328824 TGGGCAACCCAGGATGACAGTGATCGTTGT
1 CGGGCAACCCGGGATGACAGTGATCGTTAC
* *
19328854 CGGGCAATCCGAGATGACA
1 CGGGCAACCCGGGATGACA
19328873 TCAAGTAATG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (30 bp):
CGGGCAACCCGGGATGACAGTGATCGTTAC
Found at i:19328870 original size:60 final size:60
Alignment explanation
Indices: 19328756--19328870 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
19328746 GTGGTAAGCC
* * * *
19328756 ATCGTTGTCGGGCAACCCGGGATGACAGTGATCTTTACCGGGTAACCCGGGATGATAGTG
1 ATCGTTGTCGGGCAACCCAGGATGACAGTGATCGTTACCGGGCAACCCGAGATGATAGTG
** *
19328816 ATCGTTG-CTGGGCAACCCAGGATGACAGTGATCGTTGTCGGGCAATCCGAGATGA
1 ATCGTTGTC-GGGCAACCCAGGATGACAGTGATCGTTACCGGGCAACCCGAGATGA
19328871 CATCAAGTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.23, C:0.22, G:0.33, T:0.23
Consensus pattern (60 bp):
ATCGTTGTCGGGCAACCCAGGATGACAGTGATCGTTACCGGGCAACCCGAGATGATAGTG
Found at i:19335594 original size:24 final size:23
Alignment explanation
Indices: 19335567--19335613 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
19335557 AACTCCAATG
19335567 AATGAATTGCATGTTGAAACCAAA
1 AATGAATTGCATGTT-AAACCAAA
*
19335591 AATGAATTGCATGTTAAATCAAA
1 AATGAATTGCATGTTAAACCAAA
19335614 TGAACATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.28
Consensus pattern (23 bp):
AATGAATTGCATGTTAAACCAAA
Found at i:19335881 original size:17 final size:17
Alignment explanation
Indices: 19335859--19335894 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
19335849 TAGAATTAGG
19335859 TTGAGAAAATTATTTAA
1 TTGAGAAAATTATTTAA
19335876 TTGAGAAAATTATTTAA
1 TTGAGAAAATTATTTAA
19335893 TT
1 TT
19335895 ATTTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (17 bp):
TTGAGAAAATTATTTAA
Found at i:19339533 original size:418 final size:413
Alignment explanation
Indices: 19338745--19339577 Score: 955
Period size: 418 Copynumber: 2.0 Consensus size: 413
19338735 GAGTCTATAT
* *
19338745 AAGTTAAAATGTTAAAAAATCATTTTTATTAGTTTAAAAAAAAATCTATTCCCTTTCATTTTTTT
1 AAGTTAAAATGTTAAAAAATCATTTTTATCAGTTTAAAAAAAAATCTATTCCCTTTCATTTTTCT
* * ** * * ** *
19338810 TCTCTCAAATCCCGTCTTTCCCTCCGGCCACAAGGCCGTCGCACACCGCTGTGGCCACTAGTCAT
66 TCTCTCAAATCCCCTCTTCCCCTCCGGCCACAAAACCGACGCACACCACTGCAGCCACCAGTCAT
** * **
19338875 CCGCGCCGGTGACCAGCACCTCCAGTGATTGGAAAATAATTTTTTTTAAAAATCCTTTCCAAACC
131 CCGCGCCGACGACCAGCACCTCCAGTGATCGGAAAATAAACTTTTTTAAAAATCCTTTCCAAACC
** * *
19338940 CTAAAGTTAGATCTAGGGTTAAAACACCCAAAAAATGCCAAGATTAGTGAAAAAAAAAGGGAAAA
196 CTAAAGTTAGATCTAGGGACAAAACACCCAAAAAAGGCCAAGATGAGTGAAAAAAAAAGGGAAAA
** *** *
19339005 AGAGACCATGCGATTTCTTCCCTATTTGGTGAGACCCTCAACAAAACCCCAAGGGGTTTCGAAAC
261 AGAGACCATGCGATTTCTTCCCTATCCGAAAAGACCCTCAACAAAACCCCAAAGGGTTTCGAAAC
* * * * * * *
19339070 TTTTCAAATCGGTCGTAGTTCTCGATGACACATCTTAAAAGGTAAAAATTTTAGCTTTGTTTTTA
326 TTCTCAAATCGGACGTAGCTCTCGACGACACATCTTAAAAGGTAAAAATTTAAACTTTATTTTTA
19339135 TTCTTATTTTTTCAAAATAAAAA
391 TTCTTATTTTTTCAAAATAAAAA
19339158 AAGTTAAAATGTTAAAAAATTTCATTTTTATCAGTTT-AAAAAAAA-CTATTCCCTTTC-TTTTT
1 AAGTTAAAATGTTAAAAAA--TCATTTTTATCAGTTTAAAAAAAAATCTATTCCCTTTCATTTTT
*
19339220 CTTCTCTCAAATCCCCTC-TCCACCTCCGGCCACAAAACTGACGCA-AGCCACTGCAGCCACCAG
64 CTTCTCTCAAATCCCCTCTTCC-CCTCCGGCCACAAAACCGACGCACA-CCACTGCAGCCACCAG
* * * *
19339283 TCATCGGCGCTGACGACCA-CTACCTCTAGTGGTCGGAAAATAAAAAAAACTTTTTT-AAAATCC
127 TCATCCGCGCCGACGACCAGC-ACCTCCAGTGATCGGAAAAT-----AAACTTTTTTAAAAATCC
* * **
19339346 TTTCGAAACCCTAGAGTTAGATCTAGGGACAAAACACCCAAAAAAGGCTGAGATCGA-TGAAAAA
186 TTTCCAAACCCTAAAGTTAGATCTAGGGACAAAACACCCAAAAAAGGCCAAGAT-GAGTG-AAAA
* ** * * * **
19339410 AGAAAAGGGAAGAAGAGACCATTTGATTTCTTCCCTCTCCGAAAAGGCCCTTAACGGAACCCCAA
249 A-AAAAGGGAAAAAGAGACCATGCGATTTCTTCCCTATCCGAAAAGACCCTCAACAAAACCCCAA
** * * * *
19339475 AGGGTTTCGAGGCTTCTCAAATCGGAGGTTGCTCTCGACGACGGC-TCTTAACAGGTAAAAATTT
313 AGGGTTTCGAAACTTCTCAAATCGGACGTAGCTCTCGACGAC-ACATCTTAAAAGGTAAAAATTT
**
19339539 AAACTTTATTTTTATTCTTATTTTTTCGTAATAAAAA
377 AAACTTTATTTTTATTCTTATTTTTTCAAAATAAAAA
19339576 AA
1 AA
19339578 TAAATAAAAT
Statistics
Matches: 348, Mismatches: 58, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
411 4 0.01
412 84 0.24
413 31 0.09
414 8 0.02
415 15 0.04
416 56 0.16
417 14 0.04
418 135 0.39
419 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (413 bp):
AAGTTAAAATGTTAAAAAATCATTTTTATCAGTTTAAAAAAAAATCTATTCCCTTTCATTTTTCT
TCTCTCAAATCCCCTCTTCCCCTCCGGCCACAAAACCGACGCACACCACTGCAGCCACCAGTCAT
CCGCGCCGACGACCAGCACCTCCAGTGATCGGAAAATAAACTTTTTTAAAAATCCTTTCCAAACC
CTAAAGTTAGATCTAGGGACAAAACACCCAAAAAAGGCCAAGATGAGTGAAAAAAAAAGGGAAAA
AGAGACCATGCGATTTCTTCCCTATCCGAAAAGACCCTCAACAAAACCCCAAAGGGTTTCGAAAC
TTCTCAAATCGGACGTAGCTCTCGACGACACATCTTAAAAGGTAAAAATTTAAACTTTATTTTTA
TTCTTATTTTTTCAAAATAAAAA
Found at i:19340055 original size:12 final size:11
Alignment explanation
Indices: 19340040--19340069 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
19340030 TTTAGTGGAC
19340040 TTTTATTATTAT
1 TTTTATTATT-T
19340052 TTTTATTATTT
1 TTTTATTATTT
19340063 TTTTATT
1 TTTTATT
19340070 TGGTTGGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTATTT
Found at i:19340433 original size:94 final size:93
Alignment explanation
Indices: 19340312--19341841 Score: 1438
Period size: 94 Copynumber: 16.3 Consensus size: 93
19340302 CTTGCTCCAT
* * * *
19340312 TGCAACTTCAAGGGTGTAGGATTTGTAGCTTCATCTTGCGCAACTACAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* ** *
19340377 TTCGCCATTGTAGTTTCATTTCAACCCAC
66 TTCGCTATTGTAACTTCA-TTCGACCCAC
* *
19340406 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTTCTCCACTACAACTTCAAGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * *
19340471 TTCGCTATTTTAGCTTCAATCTGACCCAC
66 TTCGCTATTGTAACTTCATTC-GACCCAC
* * * * * *
19340500 TACAACTTCAGGGGTATAGGATTTATAACTTTATCTTGTTCCACTACAACTTCAGTGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * * * *
19340565 TTCACTATTATAATTTCAATTCAACCAAC
66 TTCGCTATTGTAACTTC-ATTCGACCCAC
** * *
19340594 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGGAACTTTAGGGAGATAATA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * *
19340659 TTCGCTATTGTAGCTTCAATTTGACCCAT
66 TTCGCTATTGTAACTTC-ATTCGACCCAC
* * * *
19340688 TGCAACTTCAGGAGTATAGGATTTGTAGCTTCATCTTGCTCTACTGCAACTTTAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * *
19340753 TTCACTATTGTAGCTTCAATCTGACCCAC
66 TTCGCTATTGTAACTTCATTC-GACCCAC
* * * * * *
19340782 TACAACTTAAGGAGTATAGGATTTGTAGCTTTATCTTGCTCCACTGCAACTTTAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * * *
19340847 TTTGCTATTGTAGCTTTAATCTGACCCAC
66 TTCGCTATTGTAACTTCATTC-GACCCAC
* * * * * * *
19340876 TGCAACTTTAGGGGTATAGGATTTGTAGCTTTATCTTACTCTATTGCAACTTTAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * * * * *
19340941 TTCACTATGGTAACTTTAATCCAACCCAT
66 TTCGCTATTGTAAC-TTCATTCGACCCAC
* * * ** *
19340970 TGTAACTTC-CGGGTATAGGATTTGTAGCTTCATCTTGCTTCACTGTAACTTCAGGGAGATAGGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * * *
19341034 CTCGCTACTGTAATTTCAATCCGACCCAC
66 TTCGCTATTGTAACTTC-ATTCGACCCAC
* * * * * * * *
19341063 TGGAACTTCAAGGGTATAGAATTGGTAGCTTTATCTTACTCCACTGCAACTTCAGGGAGACAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * * *
19341128 TTTGCTATTGTAGCTTCAATCCGGCCCAC
66 TTCGCTATTGTAACTTC-ATTCGACCCAC
* * * * *
19341157 TCCAACTTCAAGGGTATAGGATTTGTAGCTTTATCTTGCTCCACTACAACTTCAGTGAGATGAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * * * * *
19341222 TTCGCTATGGCAACTTTAATCTAACCTAC
66 TTCGCTATTGTAACTTCATTC-GACCCAC
** * * *
19341251 TTTAA-TTCAGGGGTATAGGATTTGTAGCTTCATCTTCCTCC-TTACAACTTAAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * *
19341314 TTCACTATGGTAACTTCAATCTGACCCAC
66 TTCGCTATTGTAACTTCATTC-GACCCAC
* * * * * * * *
19341343 TACATCTTCAGGGGTATAGGATTTGTAGTTTCATATTGCTCTACTAGAAATTCATGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
** * *
19341408 TTTACT-TGGTAACTTCAATCTGACCCAC
66 TTCGCTATTGTAACTTCATTC-GACCCAC
* * * * * *
19341436 TGTAACTTCAGGGGTATAGGTTTTGTAGCTTCATCTTGTTCCACTCCAACTTTAGGGAGATTAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * *
19341501 TTCGCTATGGTAACTTCAATCTGATCCAC
66 TTCGCTATTGTAACTTCATTC-GACCCAC
* * * * **
19341530 TACAACTTTAGGGGTATAAGATTTGTAGCTTCATCTTGCTCCACTACAATTTCAATGACG-TAAG
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGA-GATAAG
* *
19341594 ATTTC-CTATGGTAACTTCAATCCGACCCAC
65 A-TTCGCTATTGTAACTTC-ATTCGACCCAC
* * * * * * **
19341624 TGTAACTTCAGGGGTATA-GATTTTGTAGCTTTATCTTGCTCCATTATAAGTTTAGCAAGATAAG
1 TGCAACTTCAGGGGTATAGGA-TTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAG
* * * *
19341688 ATTTGCTATGGTAACGTCAATCCGACCCAC
65 ATTCGCTATTGTAACTTC-ATTCGACCCAC
* * * *
19341718 TACAACTTCAGGGGTATAGGATTTGTAGTTTCATCTTG-TGCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
* * ** *
19341782 TTTGCCATTGTAGTTTCATTCTGACTCAC
66 TTCGCTATTGTAACTTCATTC-GACCCAC
* * *
19341811 TACAACTTCAAGGGTATAGGACTTGTAGCTT
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTT
19341842 GAATCCGACC
Statistics
Matches: 1196, Mismatches: 222, Indels: 37
0.82 0.15 0.03
Matches are distributed among these distances:
92 49 0.04
93 289 0.24
94 843 0.70
95 15 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (93 bp):
TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA
TTCGCTATTGTAACTTCATTCGACCCAC
Found at i:19340590 original size:188 final size:188
Alignment explanation
Indices: 19340312--19341867 Score: 1599
Period size: 188 Copynumber: 8.3 Consensus size: 188
19340302 CTTGCTCCAT
* * * * *
19340312 TGCAACTTCAAGGGTGTAGGATTTGTAGCTTCATCTTGCGCAACTACAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAGA
* * * ** * * *
19340377 TTCGCCATTGTAGTTTCATTTCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
66 TTCACTATGGTAACTTCAATTCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
* * * *
19340442 TTCTCCACTACAACTTCAAGGAGATAAGATTCGCTATTTTAGCTTCAATCTGACCCAC
131 TGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCTGACCCAC
* * * * * * *
19340500 TACAACTTCAGGGGTATAGGATTTATAACTTTATCTTGTTCCACTACAACTTCAGTGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAGA
** * * * *
19340565 TTCACTATTATAATTTCAATTCAACCAACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
66 TTCACTATGGTAACTTCAATTCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
** * * * * *
19340630 TGCTCCACTGGAACTTTAGGGAGATAATATTCGCTATTGTAGCTTCAATTTGACCCAT
131 TGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCTGACCCAC
* * *
19340688 TGCAACTTCAGGAGTATAGGATTTGTAGCTTCATCTTGCTCTACTGCAACTTTAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAGA
* * * * *
19340753 TTCACTATTGTAGCTTCAA-TCTGACCCACTACAACTTAAGGAGTATAGGATTTGTAGCTTTATC
66 TTCACTATGGTAACTTCAATTC-GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATC
* * * * *
19340817 TTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATTGTAGCTTTAATCTGACCCAC
130 TTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCTGACCCAC
* * * * * *
19340876 TGCAACTTTAGGGGTATAGGATTTGTAGCTTTATCTTACTCTATTGCAACTTTAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAGA
* * * * ** *
19340941 TTCACTATGGTAACTTTAATCCAACCCATTGTAACTTC-CGGGTATAGGATTTGTAGCTTCATCT
66 TTCACTATGGTAACTTCAATTCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
* ** * * * * *
19341005 TGCTTCACTGTAACTTCAGGGAGATAGGACTCGCTACTGTAATTTCAATCCGACCCAC
131 TGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCTGACCCAC
* * * * * * * * *
19341063 TGGAACTTCAAGGGTATAGAATTGGTAGCTTTATCTTACTCCACTGCAACTTCAGGGAGACAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAGA
** * * * * * * *
19341128 TTTGCTATTGTAGCTTCAATCCGGCCCACTCCAACTTCAAGGGTATAGGATTTGTAGCTTTATCT
66 TTCACTATGGTAACTTCAATTCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
* * * * * * *
19341193 TGCTCCACTACAACTTCAGTGAGATGAGATTCGCTATGGCAACTTTAATCTAACCTAC
131 TGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCTGACCCAC
** * * *
19341251 TTTAA-TTCAGGGGTATAGGATTTGTAGCTTCATCTTCCTCC-TTACAACTTAAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAGA
* * *
19341314 TTCACTATGGTAACTTCAA-TCTGACCCACTACATCTTCAGGGGTATAGGATTTGTAGTTTCATA
66 TTCACTATGGTAACTTCAATTC-GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATC
* * * * ** *
19341378 TTGCTCTACTAGAAATTCATGGAGATAAGATTTACT-TGGTAACTTCAATCTGACCCAC
130 TTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCTGACCCAC
* * * * *
19341436 TGTAACTTCAGGGGTATAGGTTTTGTAGCTTCATCTTGTTCCACTCCAACTTTAGGGAGATTAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAGA
* * * *
19341501 TTCGCTATGGTAACTTCAA-TCTGATCCACTACAACTTTAGGGGTATAAGATTTGTAGCTTCATC
66 TTCACTATGGTAACTTCAATTC-GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATC
* ** * *
19341565 TTGCTCCACTACAATTTCAATGACG-TAAGATTTC-CTATGGTAACTTCAATCCGACCCAC
130 TTGCTCCACTACAACTTCAGGGA-GATAAGA-TTCGCTATTGTAACTTCAATCTGACCCAC
* * * * * **
19341624 TGTAACTTCAGGGGTATA-GATTTTGTAGCTTTATCTTGCTCCATTATAAGTTTAGCAAGATAAG
1 TGCAACTTCAGGGGTATAGGA-TTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAG
** * * *
19341688 ATTTGCTATGGTAACGTCAATCCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGTTTCATC
65 ATTCACTATGGTAACTTCAATTCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATC
* * * * ** * *
19341753 TTG-TGCACTGCAACTTCAGGGAGATAAGATTTGCCATTGTAGTTTCATTCTGACTCAC
130 TTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCTGACCCAC
* * * * *
19341811 TACAACTTCAAGGGTATAGGACTTGTAGCTTGAATC-CGAC-CCACTACAACTTTAGGG
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTT-CATCTTG-CTCCACTACAACTTTAGGG
19341868 GTATAGGATT
Statistics
Matches: 1140, Mismatches: 212, Indels: 33
0.82 0.15 0.02
Matches are distributed among these distances:
185 23 0.02
186 132 0.12
187 362 0.32
188 621 0.54
189 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (188 bp):
TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATAAGA
TTCACTATGGTAACTTCAATTCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
TGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCTGACCCAC
Found at i:19340695 original size:50 final size:51
Alignment explanation
Indices: 19340616--19340888 Score: 228
Period size: 50 Copynumber: 5.7 Consensus size: 51
19340606 GGTATAGGAT
*
19340616 TTGTAGCTTC-ATCTTGCTCCACTGGAACTTTAGGGAGATAATATTCGCTA
1 TTGTAGCTTCAATCTTGCTCCACTGCAACTTTAGGGAGATAATATTCGCTA
* * * *
19340666 TTGTAGCTTCAAT-TTGAC-CCATTGCAACTTCA-GGAG-T-ATA--GGAT-
1 TTGTAGCTTCAATCTTG-CTCCACTGCAACTTTAGGGAGATAATATTCGCTA
* * *
19340710 TTGTAGCTTC-ATCTTGCTCTACTGCAACTTTAGGGAGATAAGATTCACTA
1 TTGTAGCTTCAATCTTGCTCCACTGCAACTTTAGGGAGATAATATTCGCTA
* * * *
19340760 TTGTAGCTTCAATC-TGAC-CCACTACAAC-TTAAGGAG-T-ATA--GGAT-
1 TTGTAGCTTCAATCTTG-CTCCACTGCAACTTTAGGGAGATAATATTCGCTA
* * *
19340804 TTGTAGCTT-TATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTA
1 TTGTAGCTTCAATCTTGCTCCACTGCAACTTTAGGGAGATAATATTCGCTA
*
19340854 TTGTAGCTTTAATC-TGAC-CCACTGCAACTTTAGGG
1 TTGTAGCTTCAATCTTG-CTCCACTGCAACTTTAGGG
19340889 GTATAGGATT
Statistics
Matches: 175, Mismatches: 26, Indels: 44
0.71 0.11 0.18
Matches are distributed among these distances:
43 7 0.04
44 44 0.25
45 14 0.08
46 2 0.01
47 9 0.05
48 2 0.01
49 14 0.08
50 72 0.41
51 11 0.06
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGTAGCTTCAATCTTGCTCCACTGCAACTTTAGGGAGATAATATTCGCTA
Found at i:19340899 original size:50 final size:49
Alignment explanation
Indices: 19340634--19340961 Score: 198
Period size: 44 Copynumber: 6.9 Consensus size: 49
19340624 TCATCTTGCT
* * * *
19340634 CCACTGGAACTTTAGGGAGATAATATTCGCTATTGTAGCTTCAATTTGAC
1 CCACTGCAACTTTAGGGAGATAAGATT-GCTATTGTAGCTTTAATCTGAC
* * * *
19340684 CCATTGCAACTTCA-GGAG-TATAG---GAT-TTGTAGC-TTCATCTTG-C
1 CCACTGCAACTTTAGGGAGATA-AGATTGCTATTGTAGCTTTAATC-TGAC
* * *
19340727 TCTACTGCAACTTTAGGGAGATAAGATTCACTATTGTAGCTTCAATCTGAC
1 -CCACTGCAACTTTAGGGAGATAAGATT-GCTATTGTAGCTTTAATCTGAC
* * *
19340778 CCACTACAAC-TTAAGGAG-TATAG---GAT-TTGTAGCTTT-ATCTTG-C
1 CCACTGCAACTTTAGGGAGATA-AGATTGCTATTGTAGCTTTAATC-TGAC
19340821 TCCACTGCAACTTTAGGGAGATAAGATTTGCTATTGTAGCTTTAATCTGAC
1 -CCACTGCAACTTTAGGGAGATAAGA-TTGCTATTGTAGCTTTAATCTGAC
* *
19340872 CCACTGCAACTTTAGGG-G-TATAG---GAT-TTGTAGCTTT-ATCTTAC
1 CCACTGCAACTTTAGGGAGATA-AGATTGCTATTGTAGCTTTAATCTGAC
* * * * *
19340915 TCTATTGCAACTTTAGGGAGATAAGATTCACTATGGTAACTTTAATC
1 -CCACTGCAACTTTAGGGAGATAAGATT-GCTATTGTAGCTTTAATC
19340962 CAACCCATTG
Statistics
Matches: 212, Mismatches: 32, Indels: 67
0.68 0.10 0.22
Matches are distributed among these distances:
43 14 0.07
44 65 0.31
45 23 0.11
46 6 0.03
48 6 0.03
49 21 0.10
50 65 0.31
51 12 0.06
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (49 bp):
CCACTGCAACTTTAGGGAGATAAGATTGCTATTGTAGCTTTAATCTGAC
Found at i:19341487 original size:44 final size:44
Alignment explanation
Indices: 19341439--19341583 Score: 114
Period size: 44 Copynumber: 3.2 Consensus size: 44
19341429 GACCCACTGT
* *
19341439 AACTTCAGGGGTATAGGTTTTGTAGCTTCATCTTGTTCCACTCC
1 AACTTCAGGGGTATAGGTTTTGTAGCTTCATCTTGATCCACTAC
* * *
19341483 AACTTTAGGGAG-ATTAGATTCGCTATGGTAACTTCAATC-TGATCCACTAC
1 AACTTCAGGG-GTA-TAGGTT---T-T-GTAGCTTC-ATCTTGATCCACTAC
* * * *
19341533 AACTTTAGGGGTATAAGATTTGTAGCTTCATCTTGCTCCACTAC
1 AACTTCAGGGGTATAGGTTTTGTAGCTTCATCTTGATCCACTAC
*
19341577 AATTTCA
1 AACTTCA
19341584 ATGACGTAAG
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
43 3 0.04
44 32 0.41
45 7 0.09
46 1 0.01
48 1 0.01
49 5 0.06
50 27 0.34
51 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (44 bp):
AACTTCAGGGGTATAGGTTTTGTAGCTTCATCTTGATCCACTAC
Found at i:19341859 original size:281 final size:282
Alignment explanation
Indices: 19340312--19341841 Score: 1648
Period size: 281 Copynumber: 5.4 Consensus size: 282
19340302 CTTGCTCCAT
* * * * *
19340312 TGCAACTTCAAGGGTGTAGGATTTGTAGCTTCATCTTGCGCAACTACAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
19340377 TTCGCCATTGTAGTTTC-ATTTCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATC
66 TTCGCTATGGTAGTTTCAATCT-AACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATC
* * ** *
19340441 TTTCTCCACTACAACTTCAAGGAGATAAGATTCGCTATTTTAGCTTCAATCTGACCCACTACAAC
130 TTGCTCCACTACAACTTCAAGGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTACAAC
* * * * **
19340506 TTCAGGGGTATAGGATTTATAACTTTATCTTGTTCCACTACAACTTCAGTGAGATAAGATTCACT
195 TTCAGGGGTATAGGATTTGTAGCTTTATCTTGCTCCACTACAACTTCAGGGAGATAAGATTTGCT
* * * * *
19340571 ATTATAATTTCAATTCAACCAAC
260 ATTGTAACTTCAATCCGACCCAC
* * *
19340594 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGGAACTTTAGGGAGATAATA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * *
19340659 TTCGCTATTGTAGCTTCAATTTGACCCATTGCAACTTCAGGAGTATAGGATTTGTAGCTTCATCT
66 TTCGCTATGGTAGTTTCAATCTAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
* * * * * *
19340724 TGCTCTACTGCAACTTTAGGGAGATAAGATTCACTATTGTAGCTTCAATCTGACCCACTACAACT
131 TGCTCCACTACAACTTCAAGGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTACAACT
* * * *
19340789 TAAGGAGTATAGGATTTGTAGCTTTATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTA
196 TCAGGGGTATAGGATTTGTAGCTTTATCTTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTA
* * *
19340854 TTGTAGCTTTAATCTGACCCAC
261 TTGTAACTTCAATCCGACCCAC
* * * * * *
19340876 TGCAACTTTAGGGGTATAGGATTTGTAGCTTTATCTTACTCTATTGCAACTTTAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * *
19340941 TTCACTATGGTAACTTT-AATCCAACCCATTGTAACTTC-CGGGTATAGGATTTGTAGCTTCATC
66 TTCGCTATGGT-AGTTTCAATCTAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATC
* ** * * * * * * **
19341004 TTGCTTCACTGTAACTTCAGGGAGATAGGACTCGCTACT-GTAATTTCAATCCGACCCACTGGAA
130 TTGCTCCACTACAACTTCAAGGAGATAAGATTCACTA-TGGTAACTTCAATCTGACCCACTACAA
* * * * * *
19341068 CTTCAAGGGTATAGAATTGGTAGCTTTATCTTACTCCACTGCAACTTCAGGGAGACAAGATTTGC
194 CTTCAGGGGTATAGGATTTGTAGCTTTATCTTGCTCCACTACAACTTCAGGGAGATAAGATTTGC
* *
19341133 TATTGTAGCTTCAATCCGGCCCAC
259 TATTGTAACTTCAATCCGACCCAC
* * * * * *
19341157 TCCAACTTCAAGGGTATAGGATTTGTAGCTTTATCTTGCTCCACTACAACTTCAGTGAGATGAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * **
19341222 TTCGCTATGGCAACTTT-AATCTAACCTACTTTAA-TTCAGGGGTATAGGATTTGTAGCTTCATC
66 TTCGCTATGG-TAGTTTCAATCTAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATC
* * *
19341285 TTCCTCC-TTACAACTT-AAGGGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTACAT
130 TTGCTCCACTACAACTTCAA-GGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTACAA
* * * * * *
19341348 CTTCAGGGGTATAGGATTTGTAG-TTTCATATTGCTCTACTAGAAATTCATGGAGATAAGATTTA
194 CTTCAGGGGTATAGGATTTGTAGCTTT-ATCTTGCTCCACTACAACTTCAGGGAGATAAGATTTG
* *
19341412 CT-TGGTAACTTCAATCTGACCCAC
258 CTATTGTAACTTCAATCCGACCCAC
* * * * * *
19341436 TGTAACTTCAGGGGTATAGGTTTTGTAGCTTCATCTTGTTCCACTCCAACTTTAGGGAGATTAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
** * * * * *
19341501 TTCGCTATGGTAACTTCAATCTGATCCACTACAACTTTAGGGGTATAAGATTTGTAGCTTCATCT
66 TTCGCTATGGTAGTTTCAATCTAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
* * * **
19341566 TGCTCCACTACAATTTCAATGACG-TAAGATTTC-CTATGGTAACTTCAATCCGACCCACTGTAA
131 TGCTCCACTACAACTTCAAGGA-GATAAGA-TTCACTATGGTAACTTCAATCTGACCCACTACAA
* * * * **
19341629 CTTCAGGGGTATA-GATTTTGTAGCTTTATCTTGCTCCATTATAAGTTTAGCAAGATAAGATTTG
194 CTTCAGGGGTATAGGA-TTTGTAGCTTTATCTTGCTCCACTACAACTTCAGGGAGATAAGATTTG
* *
19341693 CTATGGTAACGTCAATCCGACCCAC
258 CTATTGTAACTTCAATCCGACCCAC
* * *
19341718 TACAACTTCAGGGGTATAGGATTTGTAGTTTCATCTTG-TGCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * * * * *
19341782 TTTGCCATTGTAGTTTCATTCTGACTCACTACAACTTCAAGGGTATAGGACTTGTAGCTT
66 TTCGCTATGGTAGTTTCAATCTAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTT
19341842 GAATCCGACC
Statistics
Matches: 1046, Mismatches: 185, Indels: 35
0.83 0.15 0.03
Matches are distributed among these distances:
278 3 0.00
279 100 0.10
280 128 0.12
281 421 0.40
282 387 0.37
283 7 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (282 bp):
TGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
TTCGCTATGGTAGTTTCAATCTAACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCT
TGCTCCACTACAACTTCAAGGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTACAACT
TCAGGGGTATAGGATTTGTAGCTTTATCTTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTA
TTGTAACTTCAATCCGACCCAC
Found at i:19354720 original size:48 final size:48
Alignment explanation
Indices: 19354649--19354744 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
19354639 AGCATTATAA
19354649 CTTAGTCTACCGATGGGTGGGCTAGTCATCACGGGATCAACAGTGGTT
1 CTTAGTCTACCGATGGGTGGGCTAGTCATCACGGGATCAACAGTGGTT
*
19354697 CTTAGTCTACCGATGGGTGGGCTAGTCATCACGGGATCAGCAGTGGTT
1 CTTAGTCTACCGATGGGTGGGCTAGTCATCACGGGATCAACAGTGGTT
19354745 TCGAAGAAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.27
Consensus pattern (48 bp):
CTTAGTCTACCGATGGGTGGGCTAGTCATCACGGGATCAACAGTGGTT
Found at i:19363577 original size:21 final size:22
Alignment explanation
Indices: 19363548--19363588 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19363538 CTTTTCTCTC
* *
19363548 CTTTAACTTTTCTTTTTTTTTT
1 CTTTAACTTTCCTTTATTTTTT
19363570 CTTT-ACTTTCCTTTATTTT
1 CTTTAACTTTCCTTTATTTT
19363589 CCTTTACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (22 bp):
CTTTAACTTTCCTTTATTTTTT
Found at i:19363649 original size:13 final size:13
Alignment explanation
Indices: 19363631--19363656 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19363621 AAGTCGATTG
19363631 AAATGATAAAATT
1 AAATGATAAAATT
19363644 AAATGATAAAATT
1 AAATGATAAAATT
19363657 CATTATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AAATGATAAAATT
Found at i:19365967 original size:242 final size:249
Alignment explanation
Indices: 19365683--19366648 Score: 713
Period size: 235 Copynumber: 4.0 Consensus size: 249
19365673 AATAATATCT
* * *
19365683 AATGTACTCCTATTATATATAACTATTATTATAATATAGATTATAATAAAAGATATAATATAATA
1 AATGTACTACTATTATATATAACTATCATTATAATATAGATTATAATAAAAGATATAATATAACA
* *
19365748 TGATATTATAATGTTTAATCATAGCTGCATATATATAAACTA-T-TA-ATAT-T-T-GATATGAT
66 TGATATTATAATATTTAATCATAGATGCATATATATAAACTATTATATATATATATAGATATGAT
* * *
19365807 ATAACATTATATAATATAGTAGGAGGGCTAA-TCTTCAAATGTACGAAAAGTATAGGGACCT-AG
131 ATAACATTATATAATATAGTAGGAGAGATAACT-TTCAAATGTACGAAAAATATAGGGACCTAAG
*
19365870 AGCATATTTCAACTAGTATAATAATAAA-AATAATATATAATAATATGTAGTATAA
195 -GCATATTTCAACCAGTATAATAATAAACAATAATATATAATAATATGTAGTATAA
* *
19365925 AATGTACTACTATTATATATAACTATCATTATATTATAGATTATAATAAAAGATATAATATTACA
1 AATGTACTACTATTATATATAACTATCATTATAATATAGATTATAATAAAAGATATAATATAACA
** * *
19365990 TGATATTATAATATTTAATCATTTATGCATATGTATAAACTATTAATATTTTATATACTATACTA
66 TGATATTATAATATTTAATCATAGATGCATATATATAAACTATT-ATA---TATATA-TATA-GA
*
19366055 TATGATATACCATTATATAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAATATAGGGAC
125 TATGATATAACATTATATAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAATATAGGGAC
*
19366120 TTAAGGCATATTTCAACCAGTATAATAATAAAC----------AATAATA--T-G-----
190 CTAAGGCATATTTCAACCAGTATAATAATAAACAATAATATATAATAATATGTAGTATAA
* * * * * * *
19366162 --TGTACTATTATTATGTGTAACTATCATTATATTATAGATTATAATAAAATATATAGTATTACA
1 AATGTACTACTATTATATATAACTATCATTATAATATAGATTATAATAAAAGATATAATATAACA
* * * * * *
19366225 GGATATTATAATGTTTAATAATTGATACACATATATAAACTATTAATATATAATATACTATATGA
66 TGATATTATAATATTTAATCATAGATGCATATATATAAACTA-T--TATAT-ATATA-TATA-GA
* * * * * * *
19366290 TATAATATAATATTATACAATATTGTA-G-GA-CTAACTTTCAAATGTATGAAAAGTATAAGGG-
125 TATGATATAACATTATATAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAATAT-AGGGA
* * *
19366351 CAT-AGAGCATATTTCAACCGGTATAATAATAAACAATAATATA-ATATAATAAT-TAATAAATA
189 CCTAAG-GCATATTTCAACCAGTATAATAATAAACAATAATATATA-ATAAT-ATGTAGT--ATA
*
19366413 T
249 A
* * * * * * * *
19366414 AATGAACTACTATTATATTATAGAATAAC-GTA-AA-AT-GTATTGTATTACATGATAT--TATA
1 AATGTACTACTATTATA-TATA-ACTATCATTATAATATAG-ATTATAATAAAAGATATAATATA
* *
19366473 AC--G---TT-TAATCA-TTAATGCAT--ATGTATATATAAAAACTATTAATATATTATATACTA
63 ACATGATATTATAAT-ATTTAAT-CATAGATGCATATATATAAACTA-T--TATA-TATATA-TA
* *
19366529 TATGATATGATATAACATTATATAATATAGTAGGAG-GACTAACTTTCAAATGTAGGAAAAACAT
121 TA-GATATGATATAACATTATATAATATAGTAGGAGAGA-TAACTTTCAAATGTACGAAAAATAT
* * * * * * * * * *
19366593 AGAGACTTAAAGTATATTTCAATCAATAGATTAATAAACAACAATATATGATAATA
184 AGGGACCTAAGGCATATTTCAACCAGTATAATAATAAACAATAATATATAATAATA
19366649 ATTAATATAT
Statistics
Matches: 587, Mismatches: 81, Indels: 108
0.76 0.10 0.14
Matches are distributed among these distances:
231 2 0.00
232 52 0.09
233 6 0.01
234 2 0.00
235 126 0.21
236 1 0.00
237 3 0.01
238 1 0.00
241 1 0.00
242 103 0.18
243 3 0.01
244 59 0.10
245 20 0.03
246 9 0.02
247 59 0.10
248 1 0.00
249 5 0.01
251 6 0.01
252 2 0.00
253 14 0.02
254 100 0.17
255 8 0.01
256 4 0.01
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.37
Consensus pattern (249 bp):
AATGTACTACTATTATATATAACTATCATTATAATATAGATTATAATAAAAGATATAATATAACA
TGATATTATAATATTTAATCATAGATGCATATATATAAACTATTATATATATATATAGATATGAT
ATAACATTATATAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAATATAGGGACCTAAGG
CATATTTCAACCAGTATAATAATAAACAATAATATATAATAATATGTAGTATAA
Found at i:19366178 original size:15 final size:16
Alignment explanation
Indices: 19366158--19366191 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19366148 TAAACAATAA
*
19366158 TATGTGT-ACTATTAT
1 TATGTGTAACTATCAT
19366173 TATGTGTAACTATCAT
1 TATGTGTAACTATCAT
19366189 TAT
1 TAT
19366192 ATTATAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (16 bp):
TATGTGTAACTATCAT
Found at i:19366232 original size:235 final size:236
Alignment explanation
Indices: 19365925--19366640 Score: 808
Period size: 235 Copynumber: 3.0 Consensus size: 236
19365915 TGTAGTATAA
* * * *
19365925 AATGTACTACTATTATATATAACTATCATTATATTATAGATTATAATAAAAGATATAATATTACA
1 AATGTACTATTATTATATGTAACTATCATTATATTATAGATTATAATAAAATATATAGTATTACA
* * *
19365990 TGATATTATAATATTTAATCATTTATGCATATGTATAAACTATTAATATTTTATATACTATACT-
66 TGATATTATAATGTTTAATCATTAATGCATATGTATAAACTATTAATATATTATATACTATA-TG
*
19366054 ATATGATATACCATTATATAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAATATAGGGA
130 ATATGATATAACATTATATAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAATATAGGGA
19366119 CTTAAGGCATATTTCAACCAGTATAATAATAAACAATAATAT
195 CTTAAGGCATATTTCAACCAGTATAATAATAAACAATAATAT
* *
19366161 -GTGTACTATTATTATGTGTAACTATCATTATATTATAGATTATAATAAAATATATAGTATTACA
1 AATGTACTATTATTATATGTAACTATCATTATATTATAGATTATAATAAAATATATAGTATTACA
* * * * * * *
19366225 GGATATTATAATGTTTAATAATTGATACACATATATAAACTATTAATATATAATATACTATATGA
66 TGATATTATAATGTTTAATCATTAATGCATATGTATAAACTATTAATATATTATATACTATATGA
* * * * * * *
19366290 TATAATATAATATTATACAATATTGTA-G-GA-CTAACTTTCAAATGTATGAAAAGTATAAGGG-
131 TATGATATAACATTATATAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAATAT-AGGGA
* *
19366351 CAT-AGAGCATATTTCAACCGGTATAATAATAAACAATAATAT
195 CTTAAG-GCATATTTCAACCAGTATAATAATAAACAATAATAT
* * *
19366393 AATATAATAATTAATAAATATAATG-AACTA-CTATTATATTATAGA--ATAACGTAAAATGTAT
1 AATGTACT-ATT-AT---TAT-ATGTAACTATC-ATTATATTATAGATTATAA--TAAAATATAT
* *
19366454 TGTATTACATGATATTATAACGTTTAATCATTAATGCATATGTATATATAAAAACTATTAATATA
57 AGTATTACATGATATTATAATGTTTAATCATTAATGCATATG----TAT--AAACTATTAATATA
19366519 TTATATACTATATGATATGATATAACATTATATAATATAGTAGGAG-GACTAACTTTCAAATGTA
116 TTATATACTATATGATATGATATAACATTATATAATATAGTAGGAGAGA-TAACTTTCAAATGTA
* * * * * * * * * *
19366583 GGAAAAACATAGAGACTTAAAGTATATTTCAATCAATAGATTAATAAACAACAATAT
180 CGAAAAATATAGGGACTTAAGGCATATTTCAACCAGTATAATAATAAACAATAATAT
19366640 A
1 A
19366641 TGATAATAAT
Statistics
Matches: 398, Mismatches: 57, Indels: 39
0.81 0.12 0.08
Matches are distributed among these distances:
231 2 0.01
232 60 0.15
233 10 0.03
234 5 0.01
235 136 0.34
236 4 0.01
237 1 0.00
238 64 0.16
239 2 0.01
242 3 0.01
244 51 0.13
245 1 0.00
246 4 0.01
247 54 0.14
248 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (236 bp):
AATGTACTATTATTATATGTAACTATCATTATATTATAGATTATAATAAAATATATAGTATTACA
TGATATTATAATGTTTAATCATTAATGCATATGTATAAACTATTAATATATTATATACTATATGA
TATGATATAACATTATATAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAATATAGGGAC
TTAAGGCATATTTCAACCAGTATAATAATAAACAATAATAT
Found at i:19366401 original size:20 final size:21
Alignment explanation
Indices: 19366376--19366416 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
19366366 AACCGGTATA
19366376 ATAATAAACAAT-AATATAAT
1 ATAATAAACAATAAATATAAT
**
19366396 ATAATAATTAATAAATATAAT
1 ATAATAAACAATAAATATAAT
19366417 GAACTACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATAAACAATAAATATAAT
Found at i:19366577 original size:479 final size:472
Alignment explanation
Indices: 19365465--19366640 Score: 1275
Period size: 479 Copynumber: 2.5 Consensus size: 472
19365455 ATATTAATAC
* * * * **
19365465 ATATATAACTA-CTATTATAATATGGATTATAATAAAAGATATAGTATTACGTGATATTATAATG
1 ATATATAACTATC-ATTATATTATAGA-TATAATAAAAGATATAATATTACATGATATTATAACA
* * * * * * *
19365529 TTTAATCATCAATG--TATGTATATAC-A-CACTAT-TAATATATTATATGATATGATATAGCAT
64 TTTAATCATTAATGCATATGTATAAACTATTAATATATTATATACTATATGATATGATATAACAT
* * *
19365589 TATATAATAT-GTAGGAGGGCTAACTTTTAAATGTACGAAAATTATAGAGACTTAAAGCATATTT
129 TATATAATATAGTAGGAGGACTAACTTTCAAATGTACGAAAAATATAGAGACTTAAAGCATATTT
* * * *
19365653 CAACTAGTTTAATAATAAACAATAATATCTAATGTACTCCTATTATATATAACTATTATTATAAT
194 CAACCAGTATAATAATAAACAATAATA--TAATGTACTACTATTATATATAACTATCATTATAAT
* * * * * *
19365718 ATAGATTATAATAAAAGATATAATATAATATGATATTATAATGTTTAATCATAGCTGCATATATA
257 ATAGATTATAATAAAAGATATAATATAACAGGATATTATAATGTTTAATAATAGATACACATATA
* * * *
19365783 TAAACTATTAATATTTGATATGATATAACATTATATAATATAGTAGGAGGGCTAATCTTCAAATG
322 TAAACTATTAATATTTGATATGATATAACATAATATAATACAATAGGAGGACTAATCTTCAAATG
* * *
19365848 TACGAAAAGTATAGGGACCTAGAGCATATTTCAACTAGTATAATAATAAAAATAATATATAATAA
387 TACGAAAAGTATAGGGACATAGAGCATATTTCAACCAGTATAATAAT-AAAACAATATATAATAA
* *
19365913 TATGTAGTATAAAATGTACTACTATT
451 TA-GTAG-AT-AAATGTAATAC-AAT
*
19365939 ATATATAACTATCATTATATTATAGATTATAATAAAAGATATAATATTACATGATATTATAATAT
1 ATATATAACTATCATTATATTATAGA-TATAATAAAAGATATAATATTACATGATATTATAACAT
* * *
19366004 TTAATCATTTATGCATATGTATAAACTATTAATATTTTATATACTATACT-ATATGATATACCAT
65 TTAATCATTAATGCATATGTATAAACTATTAATATATTATATACTATA-TGATATGATATAACAT
* *
19366068 TATATAATATAGTAGGAGAGA-TAACTTTCAAATGTACGAAAAATATAGGGACTTAAGGCATATT
129 TATATAATATAGTAGGAG-GACTAACTTTCAAATGTACGAAAAATATAGAGACTTAAAGCATATT
* * * * *
19366132 TCAACCAGTATAATAATAAACAATAATAT-GTGTACTATTATTATGTGTAACTATCATTATATTA
193 TCAACCAGTATAATAATAAACAATAATATAATGTACTACTATTATATATAACTATCATTATAATA
* * * *
19366196 TAGATTATAATAAAATATATAGTATTACAGGATATTATAATGTTTAATAATTGATACACATATAT
258 TAGATTATAATAAAAGATATAATATAACAGGATATTATAATGTTTAATAATAGATACACATATAT
* * * *
19366261 AAACTATTAATATATAATATACTATATGATATAATATAATATTATACAATATTGTAGGACTAA-C
323 AAACTATT-A-ATAT--T-T--GATATGATATAACATAATATAATACAATA--GGAGGACTAATC
* *
19366325 TTTCAAATGTATGAAAAGTATAAGGG-CATAGAGCATATTTCAACCGGTATAATAAT-AAACAAT
379 -TTCAAATGTACGAAAAGTAT-AGGGACATAGAGCATATTTCAACCAGTATAATAATAAAACAAT
19366388 A-AT-ATAATA-TA-AT-AAT-TAATA-AAT
442 ATATAATAATAGTAGATAAATGTAATACAAT
**
19366412 ATA-ATGAACTA-CTATTATATTATAGA-ATAACGTAAAATG-TATTGTATTACATGATATTATA
1 ATATAT-AACTATC-ATTATATTATAGATATAA--TAAAA-GATATAATATTACATGATATTATA
*
19366473 ACGTTTAATCATTAATGCATATGTATATATAAAAACTATTAATATATTATATACTATATGATATG
61 ACATTTAATCATTAATGCATATG----TAT--AAACTATTAATATATTATATACTATATGATATG
* *
19366538 ATATAACATTATATAATATAGTAGGAGGACTAACTTTCAAATGTAGGAAAAACATAGAGACTTAA
120 ATATAACATTATATAATATAGTAGGAGGACTAACTTTCAAATGTACGAAAAATATAGAGACTTAA
* * * * * *
19366603 AGTATATTTCAATCAATAGATTAATAAACAACAATATA
185 AGCATATTTCAACCAGTATAATAATAAACAATAATATA
19366641 TGATAATAAT
Statistics
Matches: 599, Mismatches: 69, Indels: 62
0.82 0.09 0.08
Matches are distributed among these distances:
471 4 0.01
472 3 0.01
473 68 0.11
474 70 0.12
475 5 0.01
476 13 0.02
477 95 0.16
478 11 0.02
479 155 0.26
480 75 0.13
481 2 0.00
482 7 0.01
483 2 0.00
484 30 0.05
485 1 0.00
486 54 0.09
487 4 0.01
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (472 bp):
ATATATAACTATCATTATATTATAGATATAATAAAAGATATAATATTACATGATATTATAACATT
TAATCATTAATGCATATGTATAAACTATTAATATATTATATACTATATGATATGATATAACATTA
TATAATATAGTAGGAGGACTAACTTTCAAATGTACGAAAAATATAGAGACTTAAAGCATATTTCA
ACCAGTATAATAATAAACAATAATATAATGTACTACTATTATATATAACTATCATTATAATATAG
ATTATAATAAAAGATATAATATAACAGGATATTATAATGTTTAATAATAGATACACATATATAAA
CTATTAATATTTGATATGATATAACATAATATAATACAATAGGAGGACTAATCTTCAAATGTACG
AAAAGTATAGGGACATAGAGCATATTTCAACCAGTATAATAATAAAACAATATATAATAATAGTA
GATAAATGTAATACAAT
Found at i:19368943 original size:42 final size:42
Alignment explanation
Indices: 19368896--19369030 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 42
19368886 GATTTAGCCA
* * *
19368896 ATGATGCATTTATGTGCCAATATAATTGCTTTGGTATATCTG
1 ATGATGCATTTACGTGCCAATATAATTGCTTCGGTACATCTG
* * * * *
19368938 ATGATGCAATTACGTGTCAGTATATTTTCTTCGGTACATCTG
1 ATGATGCATTTACGTGCCAATATAATTGCTTCGGTACATCTG
* * * * *
19368980 ATGATGCATTTTGCGTGCCAGTATGATTGTTTCGGTTA-ATCCG
1 ATGATGCA-TTTACGTGCCAATATAATTGCTTCGG-TACATCTG
19369023 ATGATGCA
1 ATGATGCA
19369031 CTACGTGTGT
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 42 0.56
43 31 0.41
44 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (42 bp):
ATGATGCATTTACGTGCCAATATAATTGCTTCGGTACATCTG
Found at i:19369155 original size:43 final size:41
Alignment explanation
Indices: 19369018--19369162 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 41
19369008 GTTTCGGTTA
*
19369018 ATCCGATGATGCACTACGTGTGTTAGTATGA-TTGCTTCTT-TTT
1 ATCCGATGATGCACTA--TGTGTTAGTAT-ACTTTCTT-TTGTTT
* * * **
19369061 GTCCGATGATGCATTATGTGTTCTAGTATACATTT-TTTGGTAC
1 ATCCGATGATGCACTATGTG-T-TAGTATAC-TTTCTTTTGTTT
**
19369104 ATTTGATGATGCACTATGCATGTTAGTATACTTTCTTTTGTTT
1 ATCCGATGATGCACTATG--TGTTAGTATACTTTCTTTTGTTT
19369147 ATCCGATGATGCACTA
1 ATCCGATGATGCACTA
19369163 CGGTGCAAGT
Statistics
Matches: 79, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
41 4 0.05
42 6 0.08
43 64 0.81
44 3 0.04
45 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.44
Consensus pattern (41 bp):
ATCCGATGATGCACTATGTGTTAGTATACTTTCTTTTGTTT
Found at i:19369932 original size:26 final size:23
Alignment explanation
Indices: 19369889--19369940 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 23
19369879 TAAGTTTCTA
19369889 TTTGGTTTTTATTTTTCCCAAAT
1 TTTGGTTTTTATTTTTCCCAAAT
*
19369912 TTTGGTATTCTTATATTTTCCCCAAT
1 TTTGGT-TT-TTAT-TTTTCCCAAAT
19369938 TTT
1 TTT
19369941 TTTGTCGTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 6 0.24
24 2 0.08
25 4 0.16
26 13 0.52
ACGTcount: A:0.17, C:0.15, G:0.08, T:0.60
Consensus pattern (23 bp):
TTTGGTTTTTATTTTTCCCAAAT
Found at i:19372441 original size:25 final size:25
Alignment explanation
Indices: 19372413--19372479 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
19372403 AACTATCTTT
* *
19372413 GATAGTATATCCTGAAACTGCTATA
1 GATAGTATATACTGAAACTACTATA
*
19372438 GATAGTATATACTGAGACTACTATA
1 GATAGTATATACTGAAACTACTATA
19372463 GATAG-ACTATACTGAAA
1 GATAGTA-TATACTGAAA
19372480 ACACTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (25 bp):
GATAGTATATACTGAAACTACTATA
Found at i:19377347 original size:25 final size:25
Alignment explanation
Indices: 19377317--19377370 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
19377307 GGAAACTTTA
19377317 AAGAATAAAATATACTATTTGGCTC
1 AAGAATAAAATATACTATTTGGCTC
19377342 AAGAATAAAATATACTATTTGGCTC
1 AAGAATAAAATATACTATTTGGCTC
19377367 AAGA
1 AAGA
19377371 CAGCAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (25 bp):
AAGAATAAAATATACTATTTGGCTC
Found at i:19379245 original size:13 final size:13
Alignment explanation
Indices: 19379178--19379243 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
19379168 TTTAAACCAA
19379178 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
19379191 ACTTCTCAAATGC
1 ACTTTTCAAAAGC
* *
19379204 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
19379217 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
19379230 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
19379243 A
1 A
19379244 TTGCCAAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:19381407 original size:19 final size:17
Alignment explanation
Indices: 19381381--19381423 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
19381371 AAAAAAAGGT
19381381 TTTGAAATTGAATAATGA
1 TTTGAAA-TGAATAATGA
*
19381399 TTTGTAAATGAATAATGT
1 TTTG-AAATGAATAATGA
19381417 TTTGAAA
1 TTTGAAA
19381424 ACGAACGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (17 bp):
TTTGAAATGAATAATGA
Found at i:19385966 original size:23 final size:23
Alignment explanation
Indices: 19385936--19385982 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
19385926 CAAGCAGACT
19385936 TGGTTGACACATTATTTAGAATA
1 TGGTTGACACATTATTTAGAATA
19385959 TGGTTGACACATTATTTAGAATA
1 TGGTTGACACATTATTTAGAATA
19385982 T
1 T
19385983 AGCAAGCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (23 bp):
TGGTTGACACATTATTTAGAATA
Found at i:19391156 original size:26 final size:26
Alignment explanation
Indices: 19391127--19391188 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
19391117 AAATTTTCTC
*
19391127 AAAATTTTATCAAGGGTAAA-ATCGTT
1 AAAATTTTACCAAGGGTAAATATC-TT
* * *
19391153 AAAATTTTGCCAGGGGTAAATTTCTT
1 AAAATTTTACCAAGGGTAAATATCTT
19391179 AAAATTTTAC
1 AAAATTTTAC
19391189 TGAAGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (26 bp):
AAAATTTTACCAAGGGTAAATATCTT
Found at i:19400227 original size:28 final size:28
Alignment explanation
Indices: 19400195--19400294 Score: 146
Period size: 28 Copynumber: 3.6 Consensus size: 28
19400185 TAATGAGATT
* * * *
19400195 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGATTGATTATTA
*
19400223 AGCACTAAGTGTGTGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTGATTATTA
*
19400251 AGCACTAAGTGTGCGAGGTTGATTATTA
1 AGCACTAAGTGTGCGAGATTGATTATTA
19400279 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
19400295 AGTTATTAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTGATTATTA
Found at i:19407056 original size:18 final size:17
Alignment explanation
Indices: 19407030--19407136 Score: 69
Period size: 18 Copynumber: 6.1 Consensus size: 17
19407020 CAACAGAAAC
*
19407030 TATTTTATACATATATTT
1 TATTATATA-ATATATTT
19407048 TATTATATAATATTATTT
1 TATTATATAATA-TATTT
* * *
19407066 TAAGTGT-TAACAT-TTT
1 T-ATTATATAATATATTT
*
19407082 TATGTATATGCAT-TATTT
1 TAT-TATAT-AATATATTT
*
19407100 TATTATATGCAT-TATTT
1 TATTATAT-AATATATTT
19407117 TATTATATAATATTATTT
1 TATTATATAATA-TATTT
19407135 TA
1 TA
19407137 AGTGTTAACA
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
15 1 0.01
16 8 0.11
17 28 0.39
18 32 0.44
19 3 0.04
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.58
Consensus pattern (17 bp):
TATTATATAATATATTT
Found at i:19407108 original size:17 final size:17
Alignment explanation
Indices: 19407079--19407124 Score: 83
Period size: 17 Copynumber: 2.6 Consensus size: 17
19407069 GTGTTAACAT
19407079 TTTTATGTATATGCATTA
1 TTTTAT-TATATGCATTA
19407097 TTTTATTATATGCATTA
1 TTTTATTATATGCATTA
19407114 TTTTATTATAT
1 TTTTATTATAT
19407125 AATATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 22 0.79
18 6 0.21
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (17 bp):
TTTTATTATATGCATTA
Found at i:19407176 original size:69 final size:68
Alignment explanation
Indices: 19407043--19407168 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 68
19407033 TTTATACATA
* *
19407043 TATTTTATTATATAATATTATTTTAAGTGTTAACATTTTTATGTATATGCATTATTTTATTATAT
1 TATTTTATTATATAATATTATTTTAAGTGTTAACATTTTTATGTAGAT-CACTATTTTATTATAT
19407108 GCAT
65 GCAT
19407112 TATTTTATTATATAATATTATTTTAAGTGTTAACA-TTTT-TGTACGAT-ACTATTTTAT
1 TATTTTATTATATAATATTATTTTAAGTGTTAACATTTTTATGTA-GATCACTATTTTAT
19407169 ACATATATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
66 9 0.17
67 4 0.07
68 6 0.11
69 35 0.65
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (68 bp):
TATTTTATTATATAATATTATTTTAAGTGTTAACATTTTTATGTAGATCACTATTTTATTATATG
CAT
Found at i:19407362 original size:12 final size:13
Alignment explanation
Indices: 19407326--19407367 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
19407316 TTCAACTTTA
19407326 ATATATTATTATGT
1 ATATATTATTAT-T
19407340 ATATACGTTATTATT
1 ATATA--TTATTATT
19407355 -TATATTATTATT
1 ATATATTATTATT
19407367 A
1 A
19407368 AATCTTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 8 0.32
14 9 0.36
15 1 0.04
16 7 0.28
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (13 bp):
ATATATTATTATT
Found at i:19407452 original size:21 final size:21
Alignment explanation
Indices: 19407409--19407461 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
19407399 TAATATATGT
**
19407409 ATATAAT-TTTATGTATTTTG
1 ATATAATATTTATGTATTGGG
*
19407429 ATATAATATTTATTTATTGGG
1 ATATAATATTTATGTATTGGG
*
19407450 ATACTATTATTT
1 ATA-TAATATTT
19407462 TATGAAGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.26
21 13 0.48
22 7 0.26
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (21 bp):
ATATAATATTTATGTATTGGG
Found at i:19416876 original size:15 final size:15
Alignment explanation
Indices: 19416847--19416875 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19416837 TATTATATAA
19416847 CAACACTTATATTTT
1 CAACACTTATATTTT
19416862 CAACACTTAT-TTTT
1 CAACACTTATATTTT
19416876 TAATTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (15 bp):
CAACACTTATATTTT
Found at i:19417474 original size:24 final size:25
Alignment explanation
Indices: 19417414--19417470 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
19417404 ATTTTTAAAT
*
19417414 TATTTAAAATTATTAAAATATTATA
1 TATTTAATATTATTAAAATATTATA
*
19417439 TTTTTCAATATTATTAAAA-A-TATA
1 TATTT-AATATTATTAAAATATTATA
19417463 TATTTAAT
1 TATTTAAT
19417471 TATTTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 3 0.11
24 8 0.29
25 5 0.18
26 12 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTTAATATTATTAAAATATTATA
Found at i:19417570 original size:13 final size:14
Alignment explanation
Indices: 19417554--19417595 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
19417544 TTTCAATTTT
19417554 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
19417567 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
19417582 ATTTTAAATAATAT
1 ATTTT-AATAATAT
19417596 TATTCACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:19417580 original size:16 final size:16
Alignment explanation
Indices: 19417558--19417594 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
19417548 AATTTTATTT
19417558 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
19417575 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
19417590 TAATA
1 TAATA
19417595 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:19424922 original size:3 final size:3
Alignment explanation
Indices: 19424914--19424956 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
19424904 TATCAAACAC
19424914 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
19424957 TAAAATATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:19426487 original size:16 final size:17
Alignment explanation
Indices: 19426460--19426492 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19426450 AAGAATTGGG
*
19426460 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
19426477 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
19426493 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:19431630 original size:99 final size:99
Alignment explanation
Indices: 19431503--19431690 Score: 313
Period size: 99 Copynumber: 1.9 Consensus size: 99
19431493 ACTTCTCACT
*
19431503 TTAAGTCCCTCATATTTCTCCACTTATTCAATTTGGTCCCTACACACCAATCTCATGTTACAAGA
1 TTAAGTCCCTCATATTTCTCCACTTATTCAATTTGGTCCCTACACACCAATCCCATGTTACAAGA
*
19431568 AATTGGGTTATTTTTACTCTTGGTAAAATTACAA
66 AATTGGGTTATTTTCACTCTTGGTAAAATTACAA
* * * *
19431602 TTAAGTCCGTTATATTTCTCCACTTATTCAATTTGGTCCTTACACACTAATCCCATGTTACAAGA
1 TTAAGTCCCTCATATTTCTCCACTTATTCAATTTGGTCCCTACACACCAATCCCATGTTACAAGA
*
19431667 AATTGGGTTATTTTCACTTTTGGT
66 AATTGGGTTATTTTCACTCTTGGT
19431691 CCTTCAATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (99 bp):
TTAAGTCCCTCATATTTCTCCACTTATTCAATTTGGTCCCTACACACCAATCCCATGTTACAAGA
AATTGGGTTATTTTCACTCTTGGTAAAATTACAA
Found at i:19434433 original size:18 final size:17
Alignment explanation
Indices: 19434410--19434445 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
19434400 TAAATATTTA
19434410 ATTTAAAATAACATAAAT
1 ATTTAAAATAA-ATAAAT
19434428 ATTTAAAATAAATAAAT
1 ATTTAAAATAAATAAAT
19434445 A
1 A
19434446 ATAACATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTTAAAATAAATAAAT
Found at i:19434439 original size:23 final size:21
Alignment explanation
Indices: 19434400--19434446 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
19434390 ATAAATTTAT
**
19434400 TAAATATTTAATTTAAAATAACA
1 TAAATATTTAAAAT-AAATAA-A
19434423 TAAATATTTAAAATAAATAAA
1 TAAATATTTAAAATAAATAAA
19434444 TAA
1 TAA
19434447 TAACATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 6 0.27
23 12 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAATATTTAAAATAAATAAA
Found at i:19435040 original size:21 final size:21
Alignment explanation
Indices: 19434997--19435041 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
19434987 GTTTAGACTC
* *
19434997 TCAACTCCCATATGTTTACAA
1 TCAACTCCCAAATCTTTACAA
19435018 TCAACTCCCAAACTCTTTA-AA
1 TCAACTCCCAAA-TCTTTACAA
19435039 TCA
1 TCA
19435042 TTAATTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (21 bp):
TCAACTCCCAAATCTTTACAA
Found at i:19436601 original size:13 final size:14
Alignment explanation
Indices: 19436566--19436603 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
19436556 GACTAAATTA
19436566 ATTTGTAAATTTATT
1 ATTT-TAAATTTATT
19436581 ATTTTAAATTTATT
1 ATTTTAAATTTATT
*
19436595 ATTTAAAAT
1 ATTTTAAAT
19436604 ATTTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
ATTTTAAATTTATT
Found at i:19445191 original size:131 final size:132
Alignment explanation
Indices: 19444856--19445816 Score: 1502
Period size: 131 Copynumber: 7.3 Consensus size: 132
19444846 GCCGTCATGA
* * *
19444856 CTTCAATCTATTCCACTACACTACCAGAGA-AGTAAGAATTACTGGCTTCAATGTACTCCACTGT
1 CTTCAATCTATTCCACTGC-CGACCAGGGAGA-T-AGAATTACTGGCTTCAATGTACTCCACTGT
*
19444920 AACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTAATGCCTAGGGAGATAAGATCT
63 AACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCT
*
19444985 GTAAT
128 GAAAT
*
19444990 CTTCAATCTATTCCACTGCTG-CCTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 CTTCAATCTATTCCACTGCCGACC-AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* **
19445054 CCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGAAG-TAAGATCTTT
65 CCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGA
19445118 AAT
130 AAT
* *
19445121 CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
19445186 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGTCTAGGGAGATAAGATCTGTA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
19445251 AT
131 AT
* * * *
19445253 CTTCAAACTATTCCACTGCTGCCCAGGG-GATAGAATTACTGGCTTCAATGTACTCCACTGTAAT
1 CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * * * *
19445317 CTCAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTAACGCTTAAGGAGATAAGATCTGAA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
19445382 AT
131 AT
* *
19445384 CTTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
19445449 CTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
19445514 AT
131 AT
* *
19445516 CTTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
19445581 CACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATG-CTAGGGAGATAAGATCTGAA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
19445645 AT
131 AT
**
19445647 CTTCAATCTATTCCACTGAGGACCAGGGAGATAGAATTAC-GGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
19445711 CACAGGGAGGTAAAATCTGTCATCTTCGATCTCCTCCACTAATGCCTAGGGAGATAAGATCTGAA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
19445776 AT
131 AT
*
19445778 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA
1 CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTA
19445817 GTATCTTCGA
Statistics
Matches: 776, Mismatches: 45, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
130 66 0.09
131 358 0.46
132 328 0.42
133 5 0.01
134 19 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
AT
Found at i:19445255 original size:44 final size:44
Alignment explanation
Indices: 19444951--19445794 Score: 292
Period size: 44 Copynumber: 19.3 Consensus size: 44
19444941 GCCATCTTTG
19444951 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCA
* ** * *
19444995 ATCTATTCCACTGCTGCCTAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * ** *
19445038 ATGTACTCCACTGTAA--CCTCAGGGAGGTAAAATCTGCCATCTTCG
1 ATCTACTCCAC--TAATGCCT-AGGGAGATAAGATCTGTAATCTTCA
* *
19445083 ATCTACTCCACTAATGCCTAGGAAG-TAAGATCTTTAATCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCA
* ** * * *
19445126 ATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * ** *
19445169 ATGTACTCCACTGTAA--CCTCAGGGAGGTAAAATCTGCCATCTTCG
1 ATCTACTCCAC--TAATGCCT-AGGGAGATAAGATCTGTAATCTTCA
* *
19445214 ATCTGCTCCACTAATGTCTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCA
* * ** * * *
19445258 AACTATTCCACTGCTGCCCAGGG-GAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * *** *
19445300 ATGTACTCCACTGTAAT--CTCAGGGAGGTAAAATCTACCATCTTCG
1 ATCTACTCCAC--TAATGCCT-AGGGAGATAAGATCTGTAATCTTCA
* * * * *
19445345 ATCTGCTCCACTAACGCTTAAGGAGATAAGATCTGAAATCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * *
19445389 ATCTATTCCACTGCCAA--CC-AAGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACT---AATGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * ** **
19445432 ATGTACTCCACTGTAA--CCTCAGGGAGGTAAAATCTGCCATCTTTG
1 ATCTACTCCAC--TAATGCCT-AGGGAGATAAGATCTGTAATCTTCA
* * *
19445477 ATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * *
19445521 ATCTATTCCACTGCCAA--CC-AAGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACT---AATGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * * ** *
19445564 ATGTACTCCACTGTAA--CCACAGGGAGGTAAAATCTGCCATCTTCG
1 ATCTACTCCAC--TAATGCC-TAGGGAGATAAGATCTGTAATCTTCA
* *
19445609 ATCTGCTCCACTAATG-CTAGGGAGATAAGATCTGAAATCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * * **
19445652 ATCTATTCCACTGAGGACC-AGGGAGAT-AGA-AT-TACGGCTTCA
1 ATCTACTCCACTAATG-CCTAGGGAGATAAGATCTGTA-ATCTTCA
* * * * * *
19445694 ATGTACTCCACTGTAA--CCACAGGGAGGTAAAATCTGTCATCTTCG
1 ATCTACTCCAC--TAATGCC-TAGGGAGATAAGATCTGTAATCTTCA
* *
19445739 ATCTCCTCCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCA
1 ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCA
*
19445783 ATCTATTCCACT
1 ATCTACTCCACT
19445795 GCCAACCAGG
Statistics
Matches: 568, Mismatches: 160, Indels: 144
0.65 0.18 0.17
Matches are distributed among these distances:
40 3 0.01
41 14 0.02
42 44 0.08
43 173 0.30
44 211 0.37
45 108 0.19
46 6 0.01
47 9 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCA
Found at i:19445377 original size:263 final size:263
Alignment explanation
Indices: 19444856--19445816 Score: 1500
Period size: 263 Copynumber: 3.7 Consensus size: 263
19444846 GCCGTCATGA
* * *
19444856 CTTCAATCTATTCCACTACACTACCAGAGA-AGTAAGAATTACTGGCTTCAATGTACTCCACTGT
1 CTTCAATCTATTCCACTGC-CGACCAGGGAGA-T-AGAATTACTGGCTTCAATGTACTCCACTGT
*
19444920 AACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTAATGCCTAGGGAGATAAGATCT
63 AACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCT
* * *
19444985 GTAATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT
128 GAAATCTTCAATCTATTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT
*
19445050 GTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCT-AGGA-AGTAAGA
193 GTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATG-CTAAGGAGA-TAAGA
**
19445113 TCTTTAAT
256 TCTGAAAT
* *
19445121 CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
19445186 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGTCTAGGGAGATAAGATCTGTA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
* *
19445251 ATCTTCAAACTATTCCACTGCTGCCCAGGG-GATAGAATTACTGGCTTCAATGTACTCCACTGTA
131 ATCTTCAATCTATTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
* * *
19445315 ATCTCAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTAACGCTTAAGGAGATAAGATCTG
196 ACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGC-TAAGGAGATAAGATCTG
19445380 AAAT
260 AAAT
* *
19445384 CTTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
19445449 CTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
* * *
19445514 ATCTTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
131 ATCTTCAATCTATTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
* *
19445579 ACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCTAGGGAGATAAGATCTGA
196 ACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCTAAGGAGATAAGATCTGA
19445644 AAT
261 AAT
**
19445647 CTTCAATCTATTCCACTGAGGACCAGGGAGATAGAATTAC-GGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
19445711 CACAGGGAGGTAAAATCTGTCATCTTCGATCTCCTCCACTAATGCCTAGGGAGATAAGATCTGAA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
* *
19445776 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA
131 ATCTTCAATCTATTCCACTGCTACCCAGGGAGATAGAATTA
19445817 GTATCTTCGA
Statistics
Matches: 644, Mismatches: 47, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
261 1 0.00
262 200 0.31
263 339 0.53
264 85 0.13
265 19 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (263 bp):
CTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGAA
ATCTTCAATCTATTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
ACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCTAAGGAGATAAGATCTGA
AAT
Found at i:19445631 original size:394 final size:395
Alignment explanation
Indices: 19444890--19445816 Score: 1540
Period size: 394 Copynumber: 2.4 Consensus size: 395
19444880 CAGAGAAGTA
*
19444890 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
* **
19444955 ACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG-CTGCCTAGGGA
66 ACTCCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACC-AGGGA
19445019 GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGA
130 GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGA
** *** *
19445084 TCTACTCCACTAATGCCTAGGAAGTAAGATCTTTAATCTTCAATCTATTCCACTGCTGCCCAGGG
195 TCTACTCCACTAATGCCTAGGAAGTAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAAGG
*
19445149 AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCG
260 AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCG
* ** *
19445214 ATCTGCTCCACTAATGTCTAGGGAGATAAGATCTGTAATCTTCAAACTATTCCACTGCTGCCCAG
325 ATCTGCTCCACTAATGTCTAGGGAGATAAGATCTGAAATCTTCAAACTATTCCACTGAGGACCAG
19445279 GG-GAT
390 GGAGAT
* *
19445284 AGAATTACTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTACCATCTTCGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
* * * * *
19445349 GCTCCACTAACGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAAGGAG
66 ACTCCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAG
*
19445414 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGAT
131 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGAT
*
19445479 CTACTCTACTAATGCCTAAGG-AGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAAG
196 CTACTCCACTAATGCCT-AGGAAG-TAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAAG
19445543 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTC
259 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTC
*
19445608 GATCTGCTCCACTAATG-CTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGAGGACCA
324 GATCTGCTCCACTAATGTCTAGGGAGATAAGATCTGAAATCTTCAAACTATTCCACTGAGGACCA
19445672 GGGAGAT
389 GGGAGAT
* *
19445679 AGAATTAC-GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATCTTCGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
*
19445743 CCTCCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAG
66 ACTCCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAG
19445808 ATAGAATTA
131 ATAGAATTA
19445817 GTATCTTCGA
Statistics
Matches: 495, Mismatches: 34, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
394 363 0.73
395 132 0.27
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (395 bp):
AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
ACTCCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAG
ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGAT
CTACTCCACTAATGCCTAGGAAGTAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAAGGA
GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGA
TCTGCTCCACTAATGTCTAGGGAGATAAGATCTGAAATCTTCAAACTATTCCACTGAGGACCAGG
GAGAT
Found at i:19447141 original size:24 final size:24
Alignment explanation
Indices: 19447109--19447160 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
19447099 AGCCTCTCCA
*
19447109 TTTTACTTTTCCATTTTTCAT-TT
1 TTTTACTTTTCCATTTCTCATCTT
*
19447132 TTTTCACTTTTTCATTTCTCATCTT
1 TTTT-ACTTTTCCATTTCTCATCTT
19447157 TTTT
1 TTTT
19447161 TTTTTTTGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 15 0.60
25 6 0.24
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTACTTTTCCATTTCTCATCTT
Found at i:19447655 original size:1 final size:1
Alignment explanation
Indices: 19447640--19447718 Score: 68
Period size: 1 Copynumber: 79.0 Consensus size: 1
19447630 CCAGTGGAAG
* * * * * * * * *
19447640 TTTTTTGTTTCTTTTTGTTTTTGTGTTTTTTTTCTTTTTTTTTCTTTTTTTTTTGTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
19447705 TTTTTTATTTTTTT
1 TTTTTTTTTTTTTT
19447719 GGATTGAATC
Statistics
Matches: 58, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.01, C:0.04, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:19447656 original size:10 final size:9
Alignment explanation
Indices: 19447640--19447719 Score: 76
Period size: 9 Copynumber: 8.8 Consensus size: 9
19447630 CCAGTGGAAG
19447640 TTTTTTGTT
1 TTTTTTGTT
19447649 TCTTTTTG-T
1 T-TTTTTGTT
*
19447658 TTTTGTGTT
1 TTTTTTGTT
*
19447667 TTTTTTCTT
1 TTTTTTGTT
19447676 TTTTTT-TCT
1 TTTTTTGT-T
*
19447685 TTTTTTTTT
1 TTTTTTGTT
19447694 GTTTTTTGTT
1 -TTTTTTGTT
19447704 TTTTTT-TAT
1 TTTTTTGT-T
19447713 TTTTTTG
1 TTTTTTG
19447720 GATTGAATCT
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
8 7 0.12
9 38 0.63
10 15 0.25
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:19447692 original size:37 final size:36
Alignment explanation
Indices: 19447647--19447718 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 36
19447637 AAGTTTTTTG
*
19447647 TTTCTTTTTGTTTTTGTGTTTTTTTTCTTTTTTTTTCT
1 TTTCTTTTTGTTTTT-TGTTTTTTTT-TATTTTTTTCT
*
19447685 TTTTTTTTTGTTTTTTGTTTTTTTTTATTTTTTT
1 TTTCTTTTTGTTTTTTGTTTTTTTTTATTTTTTT
19447719 GGATTGAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 8 0.25
37 10 0.31
38 14 0.44
ACGTcount: A:0.01, C:0.04, G:0.07, T:0.88
Consensus pattern (36 bp):
TTTCTTTTTGTTTTTTGTTTTTTTTTATTTTTTTCT
Found at i:19447716 original size:18 final size:17
Alignment explanation
Indices: 19447640--19447719 Score: 88
Period size: 18 Copynumber: 4.4 Consensus size: 17
19447630 CCAGTGGAAG
*
19447640 TTTTTTGTTTCTTTTTGT
1 TTTTTTGTTT-TTTTTTT
*
19447658 TTTTGTGTTTTTTTTCTTT
1 TTTTTTG-TTTTTTT-TTT
*
19447677 TTTTTTCTTTTTTTTTT
1 TTTTTTGTTTTTTTTTT
19447694 GTTTTTTGTTTTTTTTTAT
1 -TTTTTTGTTTTTTTTT-T
19447713 TTTTTTG
1 TTTTTTG
19447720 GATTGAATCT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.06
18 39 0.74
19 11 0.21
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.86
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTTT
Found at i:19456652 original size:19 final size:19
Alignment explanation
Indices: 19456628--19456665 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19456618 TGGGCCACGT
19456628 TGGGCTGAAATGGG-TCGTG
1 TGGGCT-AAATGGGCTCGTG
*
19456647 TGGGCTCAATGGGCTCGTG
1 TGGGCTAAATGGGCTCGTG
19456666 AGGCCCATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.13, C:0.16, G:0.45, T:0.26
Consensus pattern (19 bp):
TGGGCTAAATGGGCTCGTG
Found at i:19456933 original size:27 final size:27
Alignment explanation
Indices: 19456896--19457110 Score: 141
Period size: 27 Copynumber: 8.0 Consensus size: 27
19456886 GAGAGCCCAA
* *
19456896 AATA-GGTAAAATAACTAAAATACCTT
1 AATAGGGTAAAATAACTGAAATACCCT
*
19456922 AATAGGGTAAAATGA-TCGAAATACCCT
1 AATAGGGTAAAATAACT-GAAATACCCT
* * *
19456949 TATAGGGTAAAATGACTGAAATACCCC
1 AATAGGGTAAAATAACTGAAATACCCT
* *
19456976 CATAGGGTAAAATAACCGAAATACCCT
1 AATAGGGTAAAATAACTGAAATACCCT
* * * *
19457003 CATAGGGTAAAATGA-TCAAAATGTCCC-
1 AATAGGGTAAAATAACT-GAAAT-ACCCT
* * * * *
19457030 CATAGGGTAGAATGACCGAAATACCCC
1 AATAGGGTAAAATAACTGAAATACCCT
* * * * *
19457057 CATAGGATAAAATGACAGAAATACCCC
1 AATAGGGTAAAATAACTGAAATACCCT
* * **
19457084 GATAGGGTAAAATGACTGTTATACCCT
1 AATAGGGTAAAATAACTGAAATACCCT
19457111 TAGGAGATGA
Statistics
Matches: 156, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
26 8 0.05
27 144 0.92
28 4 0.03
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
AATAGGGTAAAATAACTGAAATACCCT
Found at i:19456959 original size:54 final size:54
Alignment explanation
Indices: 19456900--19457099 Score: 242
Period size: 54 Copynumber: 3.7 Consensus size: 54
19456890 GCCCAAAATA
* *** * *
19456900 GGTAAAATAACTAAAATACCTTAATAGGGTAAAATGATCGAAATACCCTTATAG
1 GGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAG
* *
19456954 GGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACCGAAATACCCTCATAG
1 GGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAG
** * *
19457008 GGTAAAATGA-TCAAAATGTCCCCATAGGGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACT-AAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAG
* *
19457062 GATAAAATGAC-AGAAATACCCCGATAGGGTAAAATGAC
1 GGTAAAATGACTA-AAATACCCCCATAGGGTAAAATGAC
19457100 TGTTATACCC
Statistics
Matches: 124, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.02
54 122 0.98
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (54 bp):
GGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAG
Found at i:19457035 original size:81 final size:81
Alignment explanation
Indices: 19456900--19457098 Score: 260
Period size: 81 Copynumber: 2.5 Consensus size: 81
19456890 GCCCAAAATA
* * * *
19456900 GGTAAAATAACTA-AAATACCTTAATAGGGTAAAATGATCGAAATACCCTTATAGGGTAAAATGA
1 GGTAAAATAAC-AGAAATACCCTCATAGGGTAAAATGATCAAAATACCCTCATAGGGTAAAATGA
*
19456964 CTGAAATACCCCCATAG
65 CCGAAATACCCCCATAG
* * *
19456981 GGTAAAATAACCGAAATACCCTCATAGGGTAAAATGATCAAAATGTCCC-CATAGGGTAGAATGA
1 GGTAAAATAACAGAAATACCCTCATAGGGTAAAATGATCAAAAT-ACCCTCATAGGGTAAAATGA
19457045 CCGAAATACCCCCATAG
65 CCGAAATACCCCCATAG
* *
19457062 GATAAAATGACAGAAATACCC-CGATAGGGTAAAATGA
1 GGTAAAATAACAGAAATACCCTC-ATAGGGTAAAATGA
19457099 CTGTTATACC
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.01
81 100 0.96
82 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (81 bp):
GGTAAAATAACAGAAATACCCTCATAGGGTAAAATGATCAAAATACCCTCATAGGGTAAAATGAC
CGAAATACCCCCATAG
Found at i:19464534 original size:6 final size:6
Alignment explanation
Indices: 19464525--19464568 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
19464515 GGTTTTTCTT
* * *
19464525 TTTTTC TTTTTC TTTTTC TTTTTC TTCTTC TTCTTC TTCTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT
19464569 CCTTTTCCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:19464569 original size:6 final size:6
Alignment explanation
Indices: 19464528--19464599 Score: 58
Period size: 6 Copynumber: 12.0 Consensus size: 6
19464518 TTTTCTTTTT
* * *
19464528 TTCTTT TTCTTT TTCTTT TTCTTC TTCTTC TTCTTC TTCTTCC TT-TTC
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTT-C TTCTTC
* * *
19464576 CTCTT- TCTCTTC CTCTTC CTCTTC
1 TTCTTC T-TCTTC TTCTTC TTCTTC
19464600 CTTAAGTGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
5 2 0.03
6 53 0.91
7 3 0.05
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCTTC
Done.