Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 42 of 145
Found at i:13455316 original size:31 final size:31
Alignment explanation
Indices: 13455251--13455317 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
13455241 TTAATGGAGT
* **
13455251 GTGACCCAAATAGAAACGATCTAAAATGTAA
1 GTGACCAAAATAGAAACGATCTAAAACATAA
** *
13455282 GTGACCAAAATAGAAATTATCTAAAACATTA
1 GTGACCAAAATAGAAACGATCTAAAACATAA
13455313 GTGAC
1 GTGAC
13455318 TAAATTGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (31 bp):
GTGACCAAAATAGAAACGATCTAAAACATAA
Found at i:13456522 original size:25 final size:24
Alignment explanation
Indices: 13456494--13456556 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
13456484 CCCAACTCAA
13456494 AATATAAA-ATTTTAAAATTATATTT
1 AATATAAATATTTTAAAATT-T-TTT
* *
13456519 AATA-AAATATTTATGATATTTTTT
1 AATATAAATATTT-TAAAATTTTTT
13456543 AATATAAATATTTT
1 AATATAAATATTTT
13456557 TTTTTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 11 0.33
25 17 0.52
26 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AATATAAATATTTTAAAATTTTTT
Found at i:13463063 original size:3 final size:3
Alignment explanation
Indices: 13463055--13463115 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
13463045 TTAAACAATG
13463055 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
13463103 TCT TCT TCT TCT T
1 TCT TCT TCT TCT T
13463116 TGTTGTCGCC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:13470082 original size:2 final size:2
Alignment explanation
Indices: 13470075--13470113 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13470065 TTATTTTCTT
13470075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13470114 GTGAGGATAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13473156 original size:262 final size:266
Alignment explanation
Indices: 13472687--13473295 Score: 772
Period size: 262 Copynumber: 2.3 Consensus size: 266
13472677 AGATATCCTT
* * * * * *
13472687 AAATAATATAAATTATTTGAAATTCAAAATGATATTTTTGTAATTTTTCTAACCGAGTTGGTGTC
1 AAATAATATAAATTATTTTAAATTCAAAAGGATATTTTTGTAATTTTCCTAACCGAATTGATGCC
* ** * *
13472752 TGGTTGACTCATGATA-CAACTCAGTCAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAAT
66 CGGTTGACTTGTGACACCAACTCAGTAAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAAT
* * *
13472816 GTATTAAAATAACAAAATAAAGTTTTGGTTGAATGATAAATTTAAAGTTTTGTTTATGCAATTGA
131 GTATTAAAATAACAAAATAAAGCTTTGGTTGAAGGATAAATTTAAAGTTTTGTTAATGCAATTGA
* * * * *
13472881 TATGAGCTCAAATCCCACCATATGCATATTTTTATTAG-TTTTTT-AAATAAAAAGACTATAGT-
196 CATGAGATCAAATCCCACCATATGCATATTTTTATTAGTTTTTTTAAAAAAAAAAAACTAAAGTA
*
13472943 GCTCTC-
261 CCT-TCG
* * * *
13472949 AAATAATATGACTTATTTTAAATTCAAAAGGATATTTTTGTAATTTTCCTAACCGATTTGTTGCC
1 AAATAATATAAATTATTTTAAATTCAAAAGGATATTTTTGTAATTTTCCTAACCGAATTGATGCC
**
13473014 CGGTTGACTTGTGACACCAACTTGGTAAGG-GTTTAAATAATAGTATAGATACTAAAATAAAAAT
66 CGGTTGACTTGTGACACCAACTCAGTAAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAAT
*
13473078 GTATTAAAATAACAAAATAAAGCTTTGGTTGAAGGGTAAATTTAAAGTTTT-TCTAATGCAATT-
131 GTATTAAAATAACAAAATAAAGCTTTGGTTGAAGGATAAATTTAAAGTTTTGT-TAATGCAATTG
* * *
13473141 AGCATGAGATCAAATCTCACTATGTGCATATTTTTATTAGTTTTTTTTAAAAAAAAAAAACTAAA
195 A-CATGAGATCAAATCCCACCATATGCATATTTTTATTAG-TTTTTTTAAAAAAAAAAAACTAAA
13473206 GTACCTTCG
258 GTACCTTCG
* * **
13473215 AAA-AATATAAATTATTTTAAATTCAAAAGGACA-TTTT-TACAGTTTCTCTAACTAAATTGATG
1 AAATAATATAAATTATTTTAAATTCAAAAGGATATTTTTGTA-ATTTTC-CTAACCGAATTGATG
*
13473277 CCCGATTGACTTGTGACAC
64 CCCGGTTGACTTGTGACAC
13473296 AACCTAATGT
Statistics
Matches: 300, Mismatches: 37, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
261 2 0.01
262 193 0.64
263 12 0.04
264 15 0.05
265 73 0.24
266 5 0.02
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (266 bp):
AAATAATATAAATTATTTTAAATTCAAAAGGATATTTTTGTAATTTTCCTAACCGAATTGATGCC
CGGTTGACTTGTGACACCAACTCAGTAAGGAGTTTAAATAATAGTATAGATACTAAAATAAAAAT
GTATTAAAATAACAAAATAAAGCTTTGGTTGAAGGATAAATTTAAAGTTTTGTTAATGCAATTGA
CATGAGATCAAATCCCACCATATGCATATTTTTATTAGTTTTTTTAAAAAAAAAAAACTAAAGTA
CCTTCG
Found at i:13475746 original size:16 final size:17
Alignment explanation
Indices: 13475721--13475790 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 17
13475711 AAAAAATTAT
*
13475721 AAAATATATATTAATAA
1 AAAATATATAATAATAA
*
13475738 AAAAT-TATAATAGT-A
1 AAAATATATAATAATAA
* **
13475753 AAAATATAAAATTGTAA
1 AAAATATATAATAATAA
*
13475770 AAAATAT-T-ATAAAAA
1 AAAATATATAATAATAA
13475785 AAAATA
1 AAAATA
13475791 AAATCAAGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 16 0.37
16 14 0.33
17 13 0.30
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAATATATAATAATAA
Found at i:13475772 original size:31 final size:30
Alignment explanation
Indices: 13475735--13475794 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
13475725 TATATATTAA
* *
13475735 TAAAAAATTATAATAGTAAAAATATAAAATTG
1 TAAAAAA-TATAATA-AAAAAAAATAAAATTG
*
13475767 TAAAAAATATTATAAAAAAAAATAAAAT
1 TAAAAAATATAATAAAAAAAAATAAAAT
13475795 CAAGTAGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.48
31 6 0.24
32 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (30 bp):
TAAAAAATATAATAAAAAAAAATAAAATTG
Found at i:13476933 original size:19 final size:21
Alignment explanation
Indices: 13476908--13476951 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
13476898 TTTGATAATT
13476908 TTTTTTTTATGAATTTTAT-A
1 TTTTTTTTATGAATTTTATAA
*
13476928 TTTTTTTTAT-ATTTTTATAA
1 TTTTTTTTATGAATTTTATAA
13476948 TTTT
1 TTTT
13476952 CTTATGACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTTTTATGAATTTTATAA
Found at i:13477012 original size:10 final size:10
Alignment explanation
Indices: 13476910--13477068 Score: 68
Period size: 9 Copynumber: 16.6 Consensus size: 10
13476900 TGATAATTTT
13476910 TTTTTTATGAA
1 TTTTTTAT-AA
* *
13476921 TTTTATAT-T
1 TTTTTTATAA
13476930 TTTTTTAT-A
1 TTTTTTATAA
13476939 -TTTTTATAA
1 TTTTTTATAA
*
13476948 TTTTCTTATGA
1 TTTT-TTATAA
*
13476959 --CTTTATAA
1 TTTTTTATAA
**
13476967 AATTTTATAA
1 TTTTTTATAA
* *
13476977 TTTTTTTTTA
1 TTTTTTATAA
*
13476987 TATTTCTAT-A
1 T-TTTTTATAA
*
13476997 TATTTTATAA
1 TTTTTTATAA
*
13477007 TTTTTTATGA
1 TTTTTTATAA
* *
13477017 -TGTTCATAA
1 TTTTTTATAA
* *
13477026 -ATTTTACAA
1 TTTTTTATAA
13477035 TTTTTTAT-A
1 TTTTTTATAA
* *
13477044 TATTTTATGA
1 TTTTTTATAA
13477054 -TTTTTATAA
1 TTTTTTATAA
13477063 TTTTTT
1 TTTTTT
13477069 CCTCTAATTT
Statistics
Matches: 108, Mismatches: 30, Indels: 21
0.68 0.19 0.13
Matches are distributed among these distances:
8 12 0.11
9 40 0.37
10 39 0.36
11 17 0.16
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:13477029 original size:28 final size:29
Alignment explanation
Indices: 13476940--13477068 Score: 122
Period size: 28 Copynumber: 4.5 Consensus size: 29
13476930 TTTTTTATAT
*
13476940 TTTTATAATTTTCTTATGA-CTTT-ATAAAA
1 TTTTATAATTTT-TTATGATATTTCAT-AAA
* * *
13476969 TTTTATAATTTTTTTTTATATTTCTATATA
1 TTTTATAATTTTTTATGATATTTC-ATAAA
*
13476999 TTTTATAATTTTTTATGAT-GTTCATAAA
1 TTTTATAATTTTTTATGATATTTCATAAA
* * * *
13477027 TTTTACAATTTTTTAT-ATATTTTATGAT
1 TTTTATAATTTTTTATGATATTTCATAAA
13477055 TTTTATAATTTTTT
1 TTTTATAATTTTTT
13477069 CCTCTAATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
27 2 0.02
28 41 0.50
29 18 0.22
30 19 0.23
31 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTTATAATTTTTTATGATATTTCATAAA
Found at i:13477068 original size:19 final size:19
Alignment explanation
Indices: 13476910--13477068 Score: 94
Period size: 19 Copynumber: 8.3 Consensus size: 19
13476900 TGATAATTTT
* *
13476910 TTTTTTATGAATTTTATATT
1 TTTTTTATGATTTTTATA-A
13476930 TTTTTTAT-ATTTTTATAA
1 TTTTTTATGATTTTTATAA
*
13476948 TTTTCTTATGA-CTTTATAA
1 TTTT-TTATGATTTTTATAA
** * * *
13476967 AATTTTATAATTTTTTTTTA
1 TTTTTTATGA-TTTTTATAA
*
13476987 TATTTCTAT-ATATTTTATAA
1 T-TTTTTATGAT-TTTTATAA
* *
13477007 TTTTTTATGATGTTCATAA
1 TTTTTTATGATTTTTATAA
* **
13477026 -ATTTTACAATTTTT-TATA
1 TTTTTTATGATTTTTATA-A
*
13477044 TATTTTATGATTTTTATAA
1 TTTTTTATGATTTTTATAA
13477063 TTTTTT
1 TTTTTT
13477069 CCTCTAATTT
Statistics
Matches: 104, Mismatches: 25, Indels: 21
0.69 0.17 0.14
Matches are distributed among these distances:
17 2 0.02
18 19 0.18
19 52 0.50
20 26 0.25
21 5 0.05
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTTATGATTTTTATAA
Found at i:13477873 original size:34 final size:33
Alignment explanation
Indices: 13477834--13477932 Score: 144
Period size: 34 Copynumber: 2.9 Consensus size: 33
13477824 AATTTTTTTA
*
13477834 AAAATTAATTAAATTAGGTTTTAGGGGTTTTAAG
1 AAAATTAATTAAATTAGG-TTTAGGGTTTTTAAG
* *
13477868 TAAATTAACTAAATTAGGGTTTAGGGTTTTTAAG
1 AAAATTAATTAAATTA-GGTTTAGGGTTTTTAAG
13477902 AAAATTAATTAAATTAAGGTTTAGGGTTTTT
1 AAAATTAATTAAATT-AGGTTTAGGGTTTTT
13477933 TAAAAATAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
34 55 0.95
35 3 0.05
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.42
Consensus pattern (33 bp):
AAAATTAATTAAATTAGGTTTAGGGTTTTTAAG
Found at i:13478416 original size:9 final size:9
Alignment explanation
Indices: 13478404--13478551 Score: 55
Period size: 9 Copynumber: 15.4 Consensus size: 9
13478394 NNTCTATATA
13478404 TTTTATAAT
1 TTTTATAAT
*
13478413 TTTTATTAT
1 TTTTATAAT
*
13478422 TTTTATAAAA
1 TTTTAT-AAT
* *
13478432 GTTTACAATT
1 TTTTATAA-T
*
13478442 TTTTACAATTT
1 TTTTATAA--T
*
13478453 TTTTCTAAT
1 TTTTATAAT
13478462 TTTTAATAACT
1 TTTT-ATAA-T
* *
13478473 TTTAAATATT
1 TTT-TATAAT
*
13478483 TTTTATTAAAA
1 TTTTA-T-AAT
* *
13478494 CTTAATAAT
1 TTTTATAAT
13478503 TTTTATAAT
1 TTTTATAAT
* *
13478512 TTGTATAAA
1 TTTTATAAT
*
13478521 TTTTATTAGT
1 TTTTA-TAAT
*
13478531 TTTTAT-TT
1 TTTTATAAT
*
13478539 TTTTATCAT
1 TTTTATAAT
13478548 TTTT
1 TTTT
13478552 CGTCACATGC
Statistics
Matches: 102, Mismatches: 27, Indels: 20
0.68 0.18 0.13
Matches are distributed among these distances:
8 7 0.07
9 48 0.47
10 28 0.27
11 19 0.19
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:13485903 original size:29 final size:29
Alignment explanation
Indices: 13485871--13485989 Score: 113
Period size: 28 Copynumber: 4.2 Consensus size: 29
13485861 TAAAATTCTA
*
13485871 GGCAAAATTGTAAAATTTGTAAAGAAATG
1 GGCAAAATTGTAAAATTTGTAAAAAAATG
* * *
13485900 GGCAAAATTGCAAAA--TATAAAAAAGAGG
1 GGCAAAATTGTAAAATTTGTAAAAAA-ATG
* *
13485928 GGCAAAACTATAAAATTTG-AAAAATAAT-
1 GGCAAAATTGTAAAATTTGTAAAAA-AATG
* *
13485956 GGCAAAATTGTAAAATTTG-AAAAAGAGG
1 GGCAAAATTGTAAAATTTGTAAAAAAATG
13485984 GGCAAA
1 GGCAAA
13485990 GCTATAAAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
27 8 0.11
28 42 0.58
29 20 0.28
30 2 0.03
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.21
Consensus pattern (29 bp):
GGCAAAATTGTAAAATTTGTAAAAAAATG
Found at i:13485942 original size:28 final size:28
Alignment explanation
Indices: 13485919--13486013 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
13485909 GCAAAATATA
13485919 AAAAAGAGGGGCAAAACTATAAAATTTG
1 AAAAAGAGGGGCAAAACTATAAAATTTG
* ** * *
13485947 AAAAATAATGGCAAAATTGTAAAATTTG
1 AAAAAGAGGGGCAAAACTATAAAATTTG
*
13485975 AAAAAGAGGGGCAAAGCTATAAAATCTT-
1 AAAAAGAGGGGCAAAACTATAAAAT-TTG
*
13486003 AAAAACAGGGG
1 AAAAAGAGGGG
13486014 GCACGGCCGT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 52 0.96
29 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.21, T:0.19
Consensus pattern (28 bp):
AAAAAGAGGGGCAAAACTATAAAATTTG
Found at i:13485971 original size:56 final size:56
Alignment explanation
Indices: 13485871--13486007 Score: 170
Period size: 56 Copynumber: 2.4 Consensus size: 56
13485861 TAAAATTCTA
* * *
13485871 GGCAAAATTGTAAAATTTGTAAAGAAATGGGCAAAATTGCAAAATATAAAAAAGAGG
1 GGCAAAACTATAAAATTTG-AAAAAAATGGGCAAAATTGCAAAATATAAAAAAGAGG
* * *
13485928 GGCAAAACTATAAAATTTGAAAAATAAT-GGCAAAATTGTAAAATTTGAAAAAGAGG
1 GGCAAAACTATAAAATTTGAAAAA-AATGGGCAAAATTGCAAAATATAAAAAAGAGG
*
13485984 GGCAAAGCTATAAAATCTT-AAAAA
1 GGCAAAACTATAAAAT-TTGAAAAA
13486008 CAGGGGGCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
56 49 0.69
57 22 0.31
ACGTcount: A:0.53, C:0.07, G:0.18, T:0.22
Consensus pattern (56 bp):
GGCAAAACTATAAAATTTGAAAAAAATGGGCAAAATTGCAAAATATAAAAAAGAGG
Found at i:13488179 original size:27 final size:27
Alignment explanation
Indices: 13488121--13488176 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
13488111 TAATGCCCGG
**
13488121 TAAATATTAAATCTTGTTTGAATACGA
1 TAAATATTAAATCCCGTTTGAATACGA
13488148 TAAATA-TAAATCCCGTTTGAATAC-A
1 TAAATATTAAATCCCGTTTGAATACGA
13488173 TAAA
1 TAAA
13488177 AATCGATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 5 0.19
26 16 0.59
27 6 0.22
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (27 bp):
TAAATATTAAATCCCGTTTGAATACGA
Found at i:13488422 original size:26 final size:25
Alignment explanation
Indices: 13488367--13488437 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
13488357 GCACACCTTA
13488367 GCTCTTTTGAGCTTCCCGATTAAAG
1 GCTCTTTTGAGCTTCCCGATTAAAG
* * * *
13488392 ACTCTTTGTGAGTTTCCTGATTAATG
1 GCTCTTT-TGAGCTTCCCGATTAAAG
* * *
13488418 GCTCTCTAGAGCTTCTCGAT
1 GCTCTTTTGAGCTTCCCGAT
13488438 ATGGCTCGCT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (25 bp):
GCTCTTTTGAGCTTCCCGATTAAAG
Found at i:13488441 original size:23 final size:23
Alignment explanation
Indices: 13488415--13488462 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13488405 TTCCTGATTA
* *
13488415 ATGGCTCTCTAGAGCTTCTCGAT
1 ATGGCTCGCTAGAACTTCTCGAT
*
13488438 ATGGCTCGCTTGAACTTCTCGAT
1 ATGGCTCGCTAGAACTTCTCGAT
13488461 AT
1 AT
13488463 ATGGCTATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (23 bp):
ATGGCTCGCTAGAACTTCTCGAT
Found at i:13498631 original size:21 final size:23
Alignment explanation
Indices: 13498607--13498650 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
13498597 GTTGAATGAT
*
13498607 TAAATTAAAAAAAT-TAA-TAAA
1 TAAATGAAAAAAATATAACTAAA
*
13498628 TAAATGACAAAAATATAACTAAA
1 TAAATGAAAAAAATATAACTAAA
13498651 ACTAGTTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 3 0.16
23 4 0.21
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (23 bp):
TAAATGAAAAAAATATAACTAAA
Found at i:13500124 original size:18 final size:18
Alignment explanation
Indices: 13500101--13500137 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13500091 TATCAAGAGA
*
13500101 ATAACTAACTAATAGAAG
1 ATAACTAACTAACAGAAG
13500119 ATAACTAACTAACAGAAG
1 ATAACTAACTAACAGAAG
13500137 A
1 A
13500138 ATGAACTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.11, T:0.19
Consensus pattern (18 bp):
ATAACTAACTAACAGAAG
Found at i:13506466 original size:25 final size:25
Alignment explanation
Indices: 13506405--13506466 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
13506395 GCTGAAGCTC
13506405 TAGTTG-AATTTCAAGAGGTATTTTA
1 TAGTTGCAA-TTCAAGAGGTATTTTA
13506430 TAGTTGCAATTCAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
13506455 TAGTTGCAATTC
1 TAGTTGCAATTC
13506467 CAGTAAATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 34 0.94
26 2 0.06
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (25 bp):
TAGTTGCAATTCAAGAGGTATTTTA
Found at i:13506736 original size:28 final size:29
Alignment explanation
Indices: 13506673--13506737 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 29
13506663 GCACTAGTAT
*
13506673 ATATTCATATACAACGCATTAATTAAATGTGT
1 ATATTCATATACAACGCATTAATTAAA---GA
13506705 ATATTCATATACAACGCATTAATTAAA-A
1 ATATTCATATACAACGCATTAATTAAAGA
13506733 ATATT
1 ATATT
13506738 TTAAATAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.16
32 27 0.84
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (29 bp):
ATATTCATATACAACGCATTAATTAAAGA
Found at i:13506906 original size:32 final size:33
Alignment explanation
Indices: 13506854--13506919 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
13506844 TAAAAATTGG
*
13506854 ATCATTAGATATAATCAAGTAAACAACTTGATT
1 ATCATTAGATATAATCAAGTAAACAAATTGATT
13506887 ATCATTAGAT-TAATCAAGTAAACAAATTGATT
1 ATCATTAGATATAATCAAGTAAACAAATTGATT
13506919 A
1 A
13506920 AAAAGCATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (33 bp):
ATCATTAGATATAATCAAGTAAACAAATTGATT
Found at i:13507049 original size:56 final size:56
Alignment explanation
Indices: 13506984--13507100 Score: 216
Period size: 56 Copynumber: 2.1 Consensus size: 56
13506974 AACTTGATTA
* *
13506984 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTGTAAAAATTGTTTAAAG
1 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAG
13507040 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAG
1 AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAG
13507096 AAAAA
1 AAAAA
13507101 TGTGGTTTGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (56 bp):
AAAAACAAATATTCATTGTTATTATGATTGAAAGTGCTTCTAAAAATTCTTTAAAG
Found at i:13507261 original size:49 final size:49
Alignment explanation
Indices: 13507206--13507309 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 49
13507196 TCATGTGCTA
* * ** * *
13507206 TAATTTTATACAGTATTGAGTTTTTGATTCGTGATATTGAACTCAATTT
1 TAATTTTATAAAGTATTCACCTTTTGATTCATGATATTAAACTCAATTT
* *
13507255 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTATTCACCTTTTGATTCATGATATTAAACTCAATTT
13507304 TAATTT
1 TAATTT
13507310 GTTTTTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTATTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:13509683 original size:21 final size:22
Alignment explanation
Indices: 13509643--13509683 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13509633 TATAAGTTTT
* *
13509643 TAAAATTTAGTCAAATTTAAAA
1 TAAAATTAAGTCAAAGTTAAAA
13509665 TAAAATTAAG-CAAAGTTAA
1 TAAAATTAAGTCAAAGTTAA
13509684 CGTGGTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
TAAAATTAAGTCAAAGTTAAAA
Found at i:13515587 original size:40 final size:40
Alignment explanation
Indices: 13515502--13515588 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
13515492 TCTTCAAAAA
*
13515502 AATTTACTTGATTAGTAGTGAAAAATCTTTTCGGAGTTTT
1 AATTTTCTTGATTAGTAGTGAAAAATCTTTTCGGAGTTTT
13515542 AATTTTCTTGATTAGTAGTGAAAAATCTTTTCGGAGTTTT
1 AATTTTCTTGATTAGTAGTGAAAAATCTTTTCGGAGTTTT
13515582 AATTTTC
1 AATTTTC
13515589 GAAAACCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (40 bp):
AATTTTCTTGATTAGTAGTGAAAAATCTTTTCGGAGTTTT
Found at i:13517382 original size:32 final size:32
Alignment explanation
Indices: 13517346--13517417 Score: 128
Period size: 32 Copynumber: 2.2 Consensus size: 32
13517336 GCCTATAATC
13517346 AATTC-CAGTCATCTATTTATACATCTAAGAAT
1 AATTCTCA-TCATCTATTTATACATCTAAGAAT
13517378 AATTCTCATCATCTATTTATACATCTAAGAAT
1 AATTCTCATCATCTATTTATACATCTAAGAAT
13517410 AATTCTCA
1 AATTCTCA
13517418 ACCCTCAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 37 0.95
33 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (32 bp):
AATTCTCATCATCTATTTATACATCTAAGAAT
Found at i:13518892 original size:9 final size:9
Alignment explanation
Indices: 13518863--13518899 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13518853 TGAGTTTTCG
13518863 AATTCGAAT
1 AATTCGAAT
*
13518872 AACTCGAAT
1 AATTCGAAT
13518881 AATTCGAAT
1 AATTCGAAT
*
13518890 AATTCAAAT
1 AATTCGAAT
13518899 A
1 A
13518900 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13521989 original size:29 final size:29
Alignment explanation
Indices: 13521941--13521997 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
13521931 TTTCCAAGTA
*
13521941 TATTTACGGAAATGGGCCAATTTCTGCAT
1 TATTTACGGAAATGGACCAATTTCTGCAT
*
13521970 TATTTACCGGAAA-GGACCAATTTTTGCA
1 TATTTA-CGGAAATGGACCAATTTCTGCA
13521998 AAATGCGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (29 bp):
TATTTACGGAAATGGACCAATTTCTGCAT
Found at i:13525854 original size:50 final size:50
Alignment explanation
Indices: 13525807--13526577 Score: 417
Period size: 50 Copynumber: 15.4 Consensus size: 50
13525797 TAAGGAAGTG
* * *
13525807 AGATTCTCCGTTGTGGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCG
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
* * ** ** * * *
13525857 AGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
* * * * *
13525907 AGATCCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGTAAGCA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
* * ** ** * * **
13525957 AGATTCACTGATGTGGCTTTAAT-TTGTTCCACTGCACCGCCAGGGAAATA
1 AGATTCACCGTTGTGGCTTTAATCTT-TTTAACTGCAATGTCGGGGAAGCA
* * *
13526007 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
* * ** ** * * *
13526057 AGATTCACCGATGTGGGTTTAATCTGCTCCACTGC-ATCGCCTGAGGAA-TA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAAT-GTC-GGGGAAGCA
*** * *
13526107 AGATTCGTTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
** * * ** ** * * *
13526157 AGATTCGTCGTTGTGGCATTAATCTGTTCCACTGCACCG-CTTGAGAAGTA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGGAAGCA
*** * * * *
13526207 AGAGTT-GTTGTGGTAGCTTTAGTCTTTTTAACTGCAATGTCGGGAAAGCA
1 AGA-TTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
* * * * ** * **** *
13526257 AGATTCGCCGTTGTGGCATTAATATGTTCCACTGCACTGTTTAAGAAGTA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
*** * * *
13526307 AGATTCGTTGTGGTAGCTTTAATCTTTTTAACTGC-ATGTCAGGGAAGCA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
* * * *** * *
13526356 AGTTTCACCGTTGTGGCATTAATCTGTTCCGCTGCACCACT-T--GAGAAGTA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCA--A-TGTCGGGGAAGCA
*** * * *
13526406 AGATTCGTTGTGGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
* * * * * ** * * *
13526456 AGATTCACCGATGTAGCTTTAACCTGTTTCACTGCACCGCCAGGGAAGTA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
*** * *
13526506 AGATTCGTTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
1 AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
*
13526556 AGATTCACCGATGTGGCTTTAA
1 AGATTCACCGTTGTGGCTTTAA
13526578 ACTACTCCAC
Statistics
Matches: 510, Mismatches: 194, Indels: 34
0.69 0.26 0.05
Matches are distributed among these distances:
47 1 0.00
48 2 0.00
49 44 0.09
50 448 0.88
51 12 0.02
52 2 0.00
53 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (50 bp):
AGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
Found at i:13525896 original size:100 final size:100
Alignment explanation
Indices: 13525723--13526610 Score: 1052
Period size: 100 Copynumber: 8.9 Consensus size: 100
13525713 TAACTCGTAA
* * * * * * * * * * *
13525723 CTTTAATCTATTTAACTGTAATTTTGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTGCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * * *
13525788 CTACACCGCTAAGGAAGTGAGATTC-TCCGTTGTGG
66 CTGCACCGCTAAGGAAGTAAGATTCGT-TGTGGTAG
* *
13525823 CTTTAATCTTTTTAACTGCAATATCGGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * * *
13525888 CTGCACCGCCAGGGAAGTAAGATCCGCTGTTGTAG
66 CTGCACCGCTAAGGAAGTAAGATTCGTTGTGGTAG
* * *
13525923 CTTTAATCTTTTTAACTGCAATGTCGGGTAAGCAAGATTCACTGATGTGGCTTTAATTTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * * *
13525988 CTGCACCGCCAGGGAAATAAGATTCGCTGTTGTAG
66 CTGCACCGCTAAGGAAGTAAGATTCGTTGTGGTAG
* *
13526023 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGGTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * *
13526088 CTGCATCGCCTGAGGAA-TAAGATTCGTTGTTGTAG
66 CTGCACCG-CTAAGGAAGTAAGATTCGTTGTGGTAG
* ** * *
13526123 CTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCGTCGTTGTGGCATTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
*
13526188 CTGCACCGCT-TGAGAAGTAAGAGTT-GTTGTGGTAG
66 CTGCACCGCTAAG-GAAGTAAGA-TTCGTTGTGGTAG
* * * * * *
13526223 CTTTAGTCTTTTTAACTGCAATGTCGGGAAAGCAAGATTCGCCGTTGTGGCATTAATATGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* *
13526288 CTGCACTGTTTAA-GAAGTAAGATTCGTTGTGGTAG
66 CTGCACCG-CTAAGGAAGTAAGATTCGTTGTGGTAG
* * * * *
13526323 CTTTAATCTTTTTAACTGC-ATGTCAGGGAAGCAAGTTTCACCGTTGTGGCATTAATCTGTTCCG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* *
13526387 CTGCACCACT-TGAGAAGTAAGATTCGTTGTGGTAG
66 CTGCACCGCTAAG-GAAGTAAGATTCGTTGTGGTAG
* * * *
13526422 CTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACCGATGTAGCTTTAACCTGTTTCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* *
13526487 CTGCACCGCCAGGGAAGTAAGATTCGTTGTGGTAG
66 CTGCACCGCTAAGGAAGTAAGATTCGTTGTGGTAG
* **
13526522 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAAACTACTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * *
13526587 CTGCACCTCCAAGGAAATAAGATT
66 CTGCACCGCTAAGGAAGTAAGATT
13526611 TCCTATTTTC
Statistics
Matches: 689, Mismatches: 87, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
98 2 0.00
99 92 0.13
100 586 0.85
101 9 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
CTGCACCGCTAAGGAAGTAAGATTCGTTGTGGTAG
Found at i:13529981 original size:24 final size:23
Alignment explanation
Indices: 13529954--13530010 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
13529944 CAATTAATAA
13529954 AATAAAAGTTATTTTAA-ATATTTT
1 AATAAAA-TTATTTTAATAT-TTTT
*
13529978 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTAATATTTTT
13530003 AATAAAAT
1 AATAAAAT
13530011 AGAAGTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 16 0.55
26 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
AATAAAATTATTTTAATATTTTT
Found at i:13530690 original size:127 final size:126
Alignment explanation
Indices: 13530431--13530827 Score: 539
Period size: 127 Copynumber: 3.2 Consensus size: 126
13530421 GGCCAAACAT
* **
13530431 GAACTACTGTAGAAAAAGAGCGTCAACGTTTGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAAAGCGTCAACGTGAGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* * *
13530495 CCTGCTTGAAGTGTTTTTGACAGTATTTGTTCAGAACCATCTTCTTAAAATTATTTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
* * * *
13530557 GAACTACTGTAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCACC
1 GAACTACTGTAGAAAAAAAGCGTCAACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * *
13530622 CTTTCTTGAAGCGTTTTTGACACTAGTTATTCAGAAACC-TCTTCTCAAAATTATTTTTTCAG
66 C-TGCTTGAAGCGTTTTTGACACTATTTGTTCAG-AACCATCTTCTCAAAATTATTTTTTCAG
* * * * *
13530684 GAACTACTATAGAAAAAAAGTGTCAATGTGAGAGCTTTTTTCAGTAATTTTACTGATAGTGCATC
1 GAACTACTGTAGAAAAAAAGCGTCAACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * *
13530749 CTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAACCGTATTCTC-AAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
*
13530809 GAACTATTGTAGAAAAAAA
1 GAACTACTGTAGAAAAAAA
13530828 AATCCTTATT
Statistics
Matches: 239, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
125 35 0.15
126 93 0.39
127 107 0.45
128 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAAAGCGTCAACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
Found at i:13530933 original size:34 final size:33
Alignment explanation
Indices: 13530884--13531014 Score: 122
Period size: 34 Copynumber: 3.8 Consensus size: 33
13530874 TAATATTATT
*
13530884 TTTTTTAAAAA-ACTAAACACTAATTTAATGAA
1 TTTTTTAAAAACACTAAACACTAATTTAATTAA
* *
13530916 TTTTCTTAAAAACACTAAACCCTAATTTAATTTA
1 TTTT-TTAAAAACACTAAACACTAATTTAATTAA
** * *
13530950 TTTATTTAAATCCCCTAAACTCTAATTTAATTAA
1 TTT-TTTAAAAACACTAAACACTAATTTAATTAA
*
13530984 TTTTTAGAAAAGAACACTAAATC-CTAATTTA
1 TTTTT--TAAA-AACACTAAA-CACTAATTTA
13531015 TTTTTAAAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
32 4 0.05
33 9 0.11
34 48 0.60
35 4 0.05
36 14 0.17
37 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.40
Consensus pattern (33 bp):
TTTTTTAAAAACACTAAACACTAATTTAATTAA
Found at i:13530951 original size:68 final size:70
Alignment explanation
Indices: 13530874--13531014 Score: 155
Period size: 68 Copynumber: 2.0 Consensus size: 70
13530864 AACCTAAACA
* *
13530874 TAATATTATTTTTTTTAAA-AAACTAAACACTAATTTAATGAATTTTCT-TAAA-AACACTAAAC
1 TAATATTA-TTTATTTAAATAAACTAAACACTAATTTAATGAATTTT-TAAAAAGAACACTAAAC
13530936 CCTAATT
64 CCTAATT
*** * * *
13530943 TAAT-TTATTTATTTAAATCCCCTAAACTCTAATTTAATTAATTTTTAGAAAAGAACACTAAATC
1 TAATATTATTTATTTAAATAAACTAAACACTAATTTAATGAATTTTTA-AAAAGAACACTAAACC
13531007 CTAATT
65 CTAATT
13531013 TA
1 TA
13531015 TTTTTAAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
67 10 0.17
68 25 0.42
69 7 0.12
70 18 0.30
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (70 bp):
TAATATTATTTATTTAAATAAACTAAACACTAATTTAATGAATTTTTAAAAAGAACACTAAACCC
TAATT
Found at i:13531123 original size:42 final size:42
Alignment explanation
Indices: 13531041--13531119 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
13531031 AACCCAAAAC
13531041 CCTAAATTATTTTAACAAAACCCTAAACCCTACAAACCTAAG
1 CCTAAATTATTTTAACAAAACCCTAAACCCTACAAACCTAAG
*
13531083 CCTAAATTATTTTAACAAAACCCT-AGCCCTACAAACC
1 CCTAAATTATTTTAACAAAACCCTAAACCCTACAAACC
13531120 CTAAAAACCC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 12 0.33
42 24 0.67
ACGTcount: A:0.43, C:0.30, G:0.03, T:0.24
Consensus pattern (42 bp):
CCTAAATTATTTTAACAAAACCCTAAACCCTACAAACCTAAG
Found at i:13534631 original size:15 final size:15
Alignment explanation
Indices: 13534611--13534649 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13534601 GTTTAGTCCC
* *
13534611 TAGGGTTTTTTGGTT
1 TAGGGTTTTTAGGGT
13534626 TAGGGTTTTTAGGGT
1 TAGGGTTTTTAGGGT
*
13534641 TAGAGTTTT
1 TAGGGTTTT
13534650 GTTAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (15 bp):
TAGGGTTTTTAGGGT
Found at i:13534692 original size:42 final size:41
Alignment explanation
Indices: 13534629--13534707 Score: 131
Period size: 42 Copynumber: 1.9 Consensus size: 41
13534619 TTTGGTTTAG
*
13534629 GGTTTTTAGGGTTAGAGTTTTGTTAAAATAATTTAGGCTTA
1 GGTTTGTAGGGTTAGAGTTTTGTTAAAATAATTTAGGCTTA
*
13534670 GGTTTGTAGGGTTTAGGGTTTTGTTAAAATAATTTAGG
1 GGTTTGTAGGG-TTAGAGTTTTGTTAAAATAATTTAGG
13534708 GTTCTGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 10 0.29
42 25 0.71
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (41 bp):
GGTTTGTAGGGTTAGAGTTTTGTTAAAATAATTTAGGCTTA
Found at i:13534783 original size:34 final size:34
Alignment explanation
Indices: 13534735--13534816 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
13534725 TTTTAAAAAA
13534735 TAAATT-AGGATTTAG-GGGTTTAAAATAAATTAAT
1 TAAATTAAGG-TTTAGTGGGTTTAAAA-AAATTAAT
** *
13534769 TAAATTAAGGTTTAGTGTTTTTAAGAAAATTAAT
1 TAAATTAAGGTTTAGTGGGTTTAAAAAAATTAAT
*
13534803 TAAATTAGGGTTTA
1 TAAATTAAGGTTTA
13534817 ATTTTTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 32 0.76
35 10 0.24
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (34 bp):
TAAATTAAGGTTTAGTGGGTTTAAAAAAATTAAT
Found at i:13534824 original size:34 final size:34
Alignment explanation
Indices: 13534761--13534826 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
13534751 GGTTTAAAAT
*
13534761 AAATTAATTAAATTAAGGTTTAGTGTTTTTAAGA
1 AAATTAATTAAATTAAGGTTTAATGTTTTTAAGA
* *
13534795 AAATTAATTAAATTAGGGTTTAATTTTTTTAA
1 AAATTAATTAAATTAAGGTTTAATGTTTTTAA
13534827 AATAATATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (34 bp):
AAATTAATTAAATTAAGGTTTAATGTTTTTAAGA
Found at i:13537617 original size:27 final size:27
Alignment explanation
Indices: 13537579--13537633 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
13537569 AAGGCCAAAT
*
13537579 GTAGGGAGGCCATGTATGGTTCTGAAA
1 GTAGGGAGGCCATGTATGGTTCCGAAA
13537606 GTAGGGAGGCCATGTATGGTTCCGAAA
1 GTAGGGAGGCCATGTATGGTTCCGAAA
13537633 G
1 G
13537634 CTATTGCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.38, T:0.24
Consensus pattern (27 bp):
GTAGGGAGGCCATGTATGGTTCCGAAA
Found at i:13538711 original size:18 final size:18
Alignment explanation
Indices: 13538685--13538726 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13538675 GATTGGGAAA
* *
13538685 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
13538703 AGGATACATATAAGTGCT
1 AGGATACATATAAGGGCT
13538721 AGGATA
1 AGGATA
13538727 AGTACCTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:13540529 original size:30 final size:30
Alignment explanation
Indices: 13540473--13540531 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
13540463 TAATTAAAGA
*
13540473 GAGCTTTGAGAAATTTAAAGAGAAATTTGT
1 GAGCTTTGAGAAATTTAAAGAAAAATTTGT
**
13540503 GAGCTTTGAGAAATTTAGGGAAAAATTTG
1 GAGCTTTGAGAAATTTAAAGAAAAATTTG
13540532 AGAGTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.32
Consensus pattern (30 bp):
GAGCTTTGAGAAATTTAAAGAAAAATTTGT
Found at i:13544217 original size:39 final size:39
Alignment explanation
Indices: 13544163--13544244 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
13544153 TCTCAAAAAC
*
13544163 GTCTTGCTTAAGAATACTTTTATCCCGAAAGCAATTTTT
1 GTCTTACTTAAGAATACTTTTATCCCGAAAGCAATTTTT
* *
13544202 GTCTTACTTAAGAATACTTTTATCTCGAAAGCAGTTTTT
1 GTCTTACTTAAGAATACTTTTATCCCGAAAGCAATTTTT
13544241 GTCT
1 GTCT
13544245 CAAAGCATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (39 bp):
GTCTTACTTAAGAATACTTTTATCCCGAAAGCAATTTTT
Found at i:13552338 original size:17 final size:17
Alignment explanation
Indices: 13552307--13552341 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13552297 TTAATAGATT
13552307 TAATATTATATTTAATA
1 TAATATTATATTTAATA
13552324 TAATACTTATA-TTAATA
1 TAATA-TTATATTTAATA
13552341 T
1 T
13552342 TAAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATTATATTTAATA
Found at i:13554251 original size:43 final size:43
Alignment explanation
Indices: 13554193--13554296 Score: 172
Period size: 43 Copynumber: 2.4 Consensus size: 43
13554183 AATCTACCTA
* *
13554193 AAAAAGAGGAAAAGATAATCTTGGGTTGTTGAAAAAATAATTT
1 AAAAAGAGGAGAAGATAATCTTGGGTTGTTGAAAAAAGAATTT
*
13554236 AAAAAGAGGAGAAGATAATCTTGGGTTGTTGACAAAAGAATTT
1 AAAAAGAGGAGAAGATAATCTTGGGTTGTTGAAAAAAGAATTT
*
13554279 AAAAAGAGAAGAAGATAA
1 AAAAAGAGGAGAAGATAA
13554297 ACATAAATTG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.51, C:0.03, G:0.23, T:0.23
Consensus pattern (43 bp):
AAAAAGAGGAGAAGATAATCTTGGGTTGTTGAAAAAAGAATTT
Found at i:13554308 original size:43 final size:43
Alignment explanation
Indices: 13554218--13554309 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
13554208 TAATCTTGGG
* * * * ***
13554218 TTGTTGAAAAAATAATTTAAAAAGAGGAGAAGATAATCTTGGG
1 TTGTTGAAAAAAGAATTTAAAAAGAGAAGAAGATAAACATAAA
*
13554261 TTGTTGACAAAAGAATTTAAAAAGAGAAGAAGATAAACATAAA
1 TTGTTGAAAAAAGAATTTAAAAAGAGAAGAAGATAAACATAAA
13554304 TTGTTG
1 TTGTTG
13554310 GATTTACCCT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.49, C:0.03, G:0.21, T:0.27
Consensus pattern (43 bp):
TTGTTGAAAAAAGAATTTAAAAAGAGAAGAAGATAAACATAAA
Found at i:13557469 original size:12 final size:12
Alignment explanation
Indices: 13557452--13557479 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13557442 TACACAACAC
13557452 CAGATTACTCAT
1 CAGATTACTCAT
13557464 CAGATTACTCAT
1 CAGATTACTCAT
13557476 CAGA
1 CAGA
13557480 ACAATAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.29
Consensus pattern (12 bp):
CAGATTACTCAT
Found at i:13559744 original size:123 final size:123
Alignment explanation
Indices: 13559525--13559750 Score: 362
Period size: 123 Copynumber: 1.8 Consensus size: 123
13559515 TCTGAAATCT
* * * **
13559525 CATTTCTCGACACCGACAAAAGTTGGGTCATTACAATTTATCCCTACATGACCCATCTTCCTTTG
1 CATTTCTCGACACCAAAAAAAGTCGGGTCATTACAATTTATCCCTACATGACCCATCTTCCTTCA
*
13559590 CATTGCCTAGTGTATCATCCATTTTCCTATTTGATTTCGAAATGGGGTTCCGAAACCG
66 CATTGCCTAATGTATCATCCATTTTCCTATTTGATTTCGAAATGGGGTTCCGAAACCG
* * * *
13559648 CATTTTTCGACACCAAAAAAAGTCGGGTCGTTACAATTTCTTCCTACATGACCCATCTTCCTTCA
1 CATTTCTCGACACCAAAAAAAGTCGGGTCATTACAATTTATCCCTACATGACCCATCTTCCTTCA
13559713 CATTGCCTAATGTATCATCCATTTTCCTATTTGATTTC
66 CATTGCCTAATGTATCATCCATTTTCCTATTTGATTTC
13559751 TCAAGCTCCC
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
123 93 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.36
Consensus pattern (123 bp):
CATTTCTCGACACCAAAAAAAGTCGGGTCATTACAATTTATCCCTACATGACCCATCTTCCTTCA
CATTGCCTAATGTATCATCCATTTTCCTATTTGATTTCGAAATGGGGTTCCGAAACCG
Found at i:13562644 original size:69 final size:69
Alignment explanation
Indices: 13562528--13562662 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 69
13562518 CTTCAAAAAG
* * * *
13562528 TCATATGATAGACCTCACAGCAAAAAGGGTAACAACCCAGAACTGAGAAAAATCTAATTTCACAA
1 TCATATGAGAGACCTCAAAGCAAAAAGGGCAACAACCCAGAACTGAGAAAAATCTAAATTCACAA
13562593 GAAA
66 GAAA
* *
13562597 TCATATGAGAGACCTCAAAGCTAAAAGGGCAACAACCCAGAATTGAGAAAAATCTAAATTCACAA
1 TCATATGAGAGACCTCAAAGCAAAAAGGGCAACAACCCAGAACTGAGAAAAATCTAAATTCACAA
13562662 G
66 G
13562663 GCAAAACCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.17
Consensus pattern (69 bp):
TCATATGAGAGACCTCAAAGCAAAAAGGGCAACAACCCAGAACTGAGAAAAATCTAAATTCACAA
GAAA
Found at i:13564153 original size:38 final size:38
Alignment explanation
Indices: 13564111--13564275 Score: 86
Period size: 42 Copynumber: 4.2 Consensus size: 38
13564101 TCTAATTAAT
13564111 AATTAACATCGTATATTATTAATTAATAAAATT-TTTTA
1 AATTAA-ATCGTATATTATTAATTAATAAAATTATTTTA
* * * * * * *
13564149 AATTAATTGGAAAAATTA-AAAATAATAAAAATTTAAGTTTTT
1 AATTAAATCG-TATATTATTAATTAAT-AAAA-TT-A-TTTTA
** * * * *
13564191 AATTAAATAAATATATT-TTTATCTAAAAAAATTCTAATTA
1 AATTAAAT-CGTATATTATTAAT-TAATAAAATTAT-TTTA
13564231 TAATTAACATCGTATATTATTAATTAATAAAATT-TTTTA
1 -AATTAA-ATCGTATATTATTAATTAATAAAATTATTTTA
13564270 AATTAA
1 AATTAA
13564276 TTGGAAAAAT
Statistics
Matches: 90, Mismatches: 24, Indels: 26
0.64 0.17 0.19
Matches are distributed among these distances:
37 8 0.09
38 21 0.23
39 6 0.07
40 3 0.03
41 23 0.26
42 26 0.29
43 3 0.03
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (38 bp):
AATTAAATCGTATATTATTAATTAATAAAATTATTTTA
Found at i:13564175 original size:64 final size:64
Alignment explanation
Indices: 13564107--13564297 Score: 208
Period size: 60 Copynumber: 3.1 Consensus size: 64
13564097 AAATTCTAAT
13564107 TAATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGGAAAAATTAAAAA
1 TAATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGGAAAAATTAAAAA
* *
13564171 TAATAA--AA-AT-TTA-AGTTTTTAATTAAATAAATATATTTTT--ATCTAA----AAAAATT-
1 TAATAATTAACATCGTATA-TTATTAATT-AATAAA-AT-TTTTTAAAT-TAATTGGAAAAATTA
**
13564224 CTAA
61 AAAA
*
13564228 TTATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGGAAAAATTAAAAA
1 TAATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGGAAAAATTAAAAA
13564292 TAATAA
1 TAATAA
13564298 AAATTTAAGT
Statistics
Matches: 100, Mismatches: 10, Indels: 34
0.69 0.07 0.24
Matches are distributed among these distances:
57 7 0.07
58 12 0.12
59 8 0.08
60 20 0.20
61 20 0.20
62 8 0.08
63 12 0.12
64 13 0.13
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (64 bp):
TAATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGGAAAAATTAAAAA
Found at i:13564240 original size:121 final size:122
Alignment explanation
Indices: 13564094--13564340 Score: 487
Period size: 121 Copynumber: 2.0 Consensus size: 122
13564084 TCATATTTTT
13564094 AAAAAATTCTAATTAATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGG
1 AAAAAATTCTAATTAATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGG
13564159 AAAAATTAAAAATAATAAAAATTTAAGTTTTTAATTAAATAAATATATTTTTATCTA
66 AAAAATTAAAAATAATAAAAATTTAAGTTTTTAATTAAATAAATATATTTTTATCTA
13564216 AAAAAATTCTAATT-ATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGG
1 AAAAAATTCTAATTAATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGG
13564280 AAAAATTAAAAATAATAAAAATTTAAGTTTTTAATTAAATAAATATATTTTTATCTA
66 AAAAATTAAAAATAATAAAAATTTAAGTTTTTAATTAAATAAATATATTTTTATCTA
13564337 AAAA
1 AAAA
13564341 TATCATTTTA
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 111 0.89
122 14 0.11
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (122 bp):
AAAAAATTCTAATTAATAATTAACATCGTATATTATTAATTAATAAAATTTTTTAAATTAATTGG
AAAAATTAAAAATAATAAAAATTTAAGTTTTTAATTAAATAAATATATTTTTATCTA
Found at i:13564263 original size:41 final size:39
Alignment explanation
Indices: 13564092--13564265 Score: 106
Period size: 41 Copynumber: 4.3 Consensus size: 39
13564082 GGTCATATTT
13564092 TTAA-AAAATTCTAATTAATAATTAACATCGTATATTATTAA
1 TTAATAAAATT-TAATT-ATAATTAA-ATCGTATATTATTAA
* * * * * *
13564133 TTAATAAAATTT-TTTA-AATTAATTGGAAAAATTA-AAA
1 TTAATAAAATTTAATTATAATTAAATCG-TATATTATTAA
* * ** *
13564170 ATAATAAAAATTTAAGTTTTTAATTAAATAAATATATT-TTTA
1 TTAAT-AAAATTTAA--TTATAATTAAAT-CGTATATTATTAA
*
13564212 TCTAAAAAAATTCTAATTATAATTAACATCGTATATTATTAA
1 T-TAATAAAATT-TAATTATAATTAA-ATCGTATATTATTAA
13564254 TTAATAAAATTT
1 TTAATAAAATTT
13564266 TTTAAATTAA
Statistics
Matches: 97, Mismatches: 23, Indels: 27
0.66 0.16 0.18
Matches are distributed among these distances:
37 8 0.08
38 18 0.19
39 1 0.01
40 3 0.03
41 31 0.32
42 30 0.31
43 6 0.06
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (39 bp):
TTAATAAAATTTAATTATAATTAAATCGTATATTATTAA
Found at i:13564316 original size:60 final size:63
Alignment explanation
Indices: 13564129--13564332 Score: 218
Period size: 60 Copynumber: 3.4 Consensus size: 63
13564119 TCGTATATTA
13564129 TTAATT-AATAAA-AT-TTTTTAAATTAATTGGAAAAATTAAAAATAATAAAAATTTAAGTTT
1 TTAATTAAATAAATATATTTTTAAATTAATTGGAAAAATTAAAAATAATAAAAATTTAAGTTT
** * * *
13564189 TTAATTAAATAAATATATTTTT--ATCTAA----AAAAATTCTAATTATAATTAACATCGTATA-
1 TTAATTAAATAAATATATTTTTAAAT-TAATTGGAAAAA-T-TAAAAATAATAAAAAT-TTA-AG
*
13564247 TTA
61 TTT
13564250 TTAATT-AATAAA-AT-TTTTTAAATTAATTGGAAAAATTAAAAATAATAAAAATTTAAGTTT
1 TTAATTAAATAAATATATTTTTAAATTAATTGGAAAAATTAAAAATAATAAAAATTTAAGTTT
13564310 TTAATTAAATAAATATATTTTTA
1 TTAATTAAATAAATATATTTTTA
13564333 TCTAAAAATA
Statistics
Matches: 114, Mismatches: 12, Indels: 33
0.72 0.08 0.21
Matches are distributed among these distances:
58 10 0.09
59 7 0.06
60 36 0.32
61 36 0.32
62 9 0.08
63 16 0.14
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (63 bp):
TTAATTAAATAAATATATTTTTAAATTAATTGGAAAAATTAAAAATAATAAAAATTTAAGTTT
Found at i:13564977 original size:20 final size:21
Alignment explanation
Indices: 13564941--13564985 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
13564931 AAAAAATAGA
13564941 AAAATAAAGAGAGAAATAATGT
1 AAAATAAAGAGAGAAATAAT-T
13564963 AAAATAAA-AGA-AAATAATT
1 AAAATAAAGAGAGAAATAATT
13564982 AAAA
1 AAAA
13564986 ATTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 3 0.13
22 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (21 bp):
AAAATAAAGAGAGAAATAATT
Found at i:13564986 original size:20 final size:23
Alignment explanation
Indices: 13564940--13564987 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
13564930 AAAAAAATAG
13564940 AAAAATAAAGAGAGAAATAATGT
1 AAAAATAAAGAGAGAAATAATGT
13564963 -AAAATAAA-AGA-AAATAAT-T
1 AAAAATAAAGAGAGAAATAATGT
13564982 AAAAAT
1 AAAAAT
13564988 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 3 0.12
22 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (23 bp):
AAAAATAAAGAGAGAAATAATGT
Found at i:13579692 original size:12 final size:12
Alignment explanation
Indices: 13579670--13579699 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13579660 TACAAATTTT
13579670 AAATT-TTAGTC
1 AAATTGTTAGTC
13579681 AAATTGTTAGTC
1 AAATTGTTAGTC
13579693 AAATTGT
1 AAATTGT
13579700 ATTTTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (12 bp):
AAATTGTTAGTC
Found at i:13580869 original size:27 final size:28
Alignment explanation
Indices: 13580827--13580882 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
13580817 TTCTTTTATT
13580827 TCTCTCTTTATTTTTTTCTAT-TTTTCC
1 TCTCTCTTTATTTTTTTCTATCTTTTCC
*
13580854 TCTCTCTATT-TTTTTTTCTTTCTTTTCC
1 TCTCTCT-TTATTTTTTTCTATCTTTTCC
13580882 T
1 T
13580883 TTATAATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.71
Consensus pattern (28 bp):
TCTCTCTTTATTTTTTTCTATCTTTTCC
Found at i:13606369 original size:9 final size:9
Alignment explanation
Indices: 13606352--13606388 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13606342 TGAGTTTTCG
13606352 AATTCGAAT
1 AATTCGAAT
*
13606361 AACTCGAAT
1 AATTCGAAT
13606370 AATTCGAAT
1 AATTCGAAT
13606379 AATTCGAAT
1 AATTCGAAT
13606388 A
1 A
13606389 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13621519 original size:49 final size:49
Alignment explanation
Indices: 13621377--13621614 Score: 275
Period size: 49 Copynumber: 4.8 Consensus size: 49
13621367 TGTTTTTTTA
*
13621377 TTTATTTATGTTTCATTGAATGTTTTGTTGCATTCATAAATAAAGTTGTGT
1 TTTATTTATGTTTCATTGATTGTTTTGTTGCATTCATAAATAAAG-T-TGT
* * * * *
13621428 TTTCTTTACT-TATGC-TTCATTG-ATTGTTGCATTCATAAATAAAATTGT
1 TTTATTTA-TGT-TTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTGT
*
13621476 TTTATTTATATTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTGT
1 TTTATTTATGTTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTGT
* *
13621525 TTTATTTATGCTTCATTGATTGTTTTGTTGTATTCATAAATAAAGTGGTGT
1 TTTATTTATGTTTCATTGATTGTTTTGTTGCATTCATAAATAAAGT--TGT
* * *
13621576 TTCTAATTATGCTTCATTGTTTGTTTTTGTTGCATTCAT
1 TT-TATTTATGTTTCATTGATTG-TTTTGTTGCATTCAT
13621615 TTTTTTCGGT
Statistics
Matches: 161, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
47 3 0.02
48 17 0.11
49 68 0.42
50 20 0.12
51 18 0.11
52 21 0.13
53 14 0.09
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54
Consensus pattern (49 bp):
TTTATTTATGTTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTGT
Found at i:13622774 original size:75 final size:75
Alignment explanation
Indices: 13622614--13622774 Score: 171
Period size: 75 Copynumber: 2.1 Consensus size: 75
13622604 GGCGTTTACT
* * * * * *
13622614 AAAAGCGCCACAAAATATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATTAGAATTAGT
1 AAAAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTCGATGTATAGTACAATTAGT
*
13622679 GGCGCTTAAT
66 GGCGCTTAAC
* * * * * *
13622689 AGAAGTGCCGCAAAAAATGTTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAGTACAGTTAGT
1 AAAAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTCGATGTATAGTACAATTAGT
*
13622754 GGCG-TTAGGC
66 GGCGCTTA-AC
*
13622764 AAAAACGCCGC
1 AAAAGCGCCGC
13622775 TAAAGTATAA
Statistics
Matches: 68, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
74 3 0.04
75 65 0.96
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (75 bp):
AAAAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTCGATGTATAGTACAATTAGT
GGCGCTTAAC
Found at i:13622887 original size:114 final size:112
Alignment explanation
Indices: 13622769--13623156 Score: 331
Period size: 114 Copynumber: 3.4 Consensus size: 112
13622759 TAGGCAAAAA
* * *
13622769 CGCCGCTAAAGTATAAAATTAGCGGCGATTTTTTAGAATCGCCGCAAGATATGCACACCAAAACG
1 CGCCGCTAAAGTATAATATTAGCGGCG--TTTTCAGAAGCGCCGCAAGATATGCACACCAAAACG
* *
13622834 CAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCGTTTGTAGAAG
64 CAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCGTTTGAAGAAG
* * * * *
13622883 CGCCGCTAAAG-AGTATTATTAGCGGCGCGTTTTGAGAAGCGCCGCTATAT-TTCTTA-ACCAAA
1 CGCCGCTAAAGTA-TAATATTAGC-G-GCGTTTTCAGAAGCGCCGCAAGATATGC--ACACCAAA
* * * * * ** * *
13622945 ACTCA-ACGTTTTGGTCTTGATGTATAATATAATTACTGGCGC-TTACAACAAAA
61 ACGCAGA-G-TTTGGTCTTGAGGTATATTAGAATTAGTGGCGCGTTTGAA-GAAG
* * *
13622998 CGCCGCTAAA-TATCAGTATTCGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAAC
1 CGCCGCTAAAGTAT-AATATTAGCGGCGTTTTCAG--AAGCGCCGCAAGATATGCACACCAAAAC
* * *
13623062 GCAGGGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGTTTGGAGAAG
63 GCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCGTTTGAAGAAG
* **
13623112 CGCCGCTAAAG-AGTATTATTAGCGGCGCGTTTGGAGAAGCGCCGC
1 CGCCGCTAAAGTA-TAATATTAGC-G-GCGTTTTCAGAAGCGCCGC
13623157 TATATTTCTT
Statistics
Matches: 212, Mismatches: 42, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
113 12 0.06
114 110 0.52
115 78 0.37
116 12 0.06
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (112 bp):
CGCCGCTAAAGTATAATATTAGCGGCGTTTTCAGAAGCGCCGCAAGATATGCACACCAAAACGCA
GAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCGTTTGAAGAAG
Found at i:13623007 original size:115 final size:114
Alignment explanation
Indices: 13622883--13623373 Score: 406
Period size: 115 Copynumber: 4.3 Consensus size: 114
13622873 TTTGTAGAAG
13622883 CGCCGCTAAAGAGT-ATTATTAGCGGCGCGTTTTGAGAAGCGCCGCTATATTTCTTAACCAAAAC
1 CGCCGCTAAAGA-TCATTATTAGCGGCGC-TTTTGAGAAGCGCCGCTATATTTCTTAACCAAAAC
*
13622947 TCAACGTTTTGGTCTTGATGTATAATATAATTACTGGCGCTTACAACAAAA
64 TCAACGTTTTGGTCTTGATGTATAATATAATTAGTGGCGCTTACAACAAAA
* * * * * * *
13622998 CGCCGCTAAATATCAGTATTCGCGGCGC-TTTCAGTTAAGCGCCGCAAGATATGC--ACACCAAA
1 CGCCGCTAAAGATCATTATTAGCGGCGCTTTTGAG--AAGCGCCGCTATAT-TTCTTA-ACCAAA
* * * * * * * *** * *
13623060 ACGC-AGGGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGTTTGGA-GAAG
62 ACTCAACGTTTTGGTCTTGATGTATAATATAATTAGTGGCGC-TTACAACAAAA
*
13623112 CGCCGCTAAAGAGT-ATTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTCTTAACCAAAAC
1 CGCCGCTAAAGA-TCATTATTAGCGGCGC-TTTTGAGAAGCGCCGCTATATTTCTTAACCAAAAC
* *
13623176 TCAACGTTTTGGTCTTGATGTATAATATCATTAGTGGAGCTTACAACAAAA
64 TCAACGTTTTGGTCTTGATGTATAATATAATTAGTGGCGCTTACAACAAAA
* * ** * * * * * *
13623227 CGCCGCTAAATATCACTATTAGCGGCGCTTTATTTGAAGCGCCGCAAGATATATTAACCGAAACG
1 CGCCGCTAAAGATCATTATTAGCGGCGCTTT-TGAGAAGCGCCGCTATATTTCTTAACCAAAACT
** *** * ** * * * *
13623292 CTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGCGTTTACGAGAAAT
65 CAACGTTTTGGTCTTGATGTATAATATAATTAGTGGCGCTTACAACAAAA
13623342 CGCCGCT-AA-ATCATAATATTAGCGGCGCTTTT
1 CGCCGCTAAAGATCAT--TATTAGCGGCGCTTTT
13623374 TTATAAGCGC
Statistics
Matches: 291, Mismatches: 68, Indels: 35
0.74 0.17 0.09
Matches are distributed among these distances:
113 11 0.04
114 88 0.30
115 186 0.64
116 6 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (114 bp):
CGCCGCTAAAGATCATTATTAGCGGCGCTTTTGAGAAGCGCCGCTATATTTCTTAACCAAAACTC
AACGTTTTGGTCTTGATGTATAATATAATTAGTGGCGCTTACAACAAAA
Found at i:13623113 original size:229 final size:229
Alignment explanation
Indices: 13622765--13623278 Score: 836
Period size: 229 Copynumber: 2.2 Consensus size: 229
13622755 GCGTTAGGCA
** * * *
13622765 AAAACGCCGCTAAAGTAT-AAAATTAGCGGCGATTT-TTTAGAATCGCCGCAAGATATGCACACC
1 AAAACGCCGCTAAA-TATCACTATTAGCGGCGCTTTAGTT-GAAGCGCCGCAAGATATGCACACC
* * *
13622828 AAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCGTTTGTAGAAGCGCCGCTAAA
64 AAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGTTTGGAGAAGCGCCGCTAAA
*
13622893 GAGTATTATTAGCGGCGCGTTTTGAGAAGCGCCGCTATATTTCTTAACCAAAACTCAACGTTTTG
129 GAGTATTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTCTTAACCAAAACTCAACGTTTTG
*
13622958 GTCTTGATGTATAATATAATTACTGGCGCTTACAAC
194 GTCTTGATGTATAATATAATTACTGGAGCTTACAAC
* *
13622994 AAAACGCCGCTAAATATCAGTATTCGCGGCGCTTTCAGTT-AAGCGCCGCAAGATATGCACACCA
1 AAAACGCCGCTAAATATCACTATTAGCGGCGCTTT-AGTTGAAGCGCCGCAAGATATGCACACCA
*
13623058 AAACGCAGGGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGTTTGGAGAAGCGCCGCTAAAG
65 AAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGTTTGGAGAAGCGCCGCTAAAG
13623123 AGTATTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTCTTAACCAAAACTCAACGTTTTGG
130 AGTATTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTCTTAACCAAAACTCAACGTTTTGG
* *
13623188 TCTTGATGTATAATATCATTAGTGGAGCTTACAAC
195 TCTTGATGTATAATATAATTACTGGAGCTTACAAC
*
13623223 AAAACGCCGCTAAATATCACTATTAGCGGCGCTTTATTTGAAGCGCCGCAAGATAT
1 AAAACGCCGCTAAATATCACTATTAGCGGCGCTTTAGTTGAAGCGCCGCAAGATAT
13623279 ATTAACCGAA
Statistics
Matches: 264, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
228 6 0.02
229 256 0.97
231 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (229 bp):
AAAACGCCGCTAAATATCACTATTAGCGGCGCTTTAGTTGAAGCGCCGCAAGATATGCACACCAA
AACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGTTTGGAGAAGCGCCGCTAAAGA
GTATTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTCTTAACCAAAACTCAACGTTTTGGT
CTTGATGTATAATATAATTACTGGAGCTTACAAC
Found at i:13623172 original size:114 final size:113
Alignment explanation
Indices: 13622825--13623199 Score: 382
Period size: 115 Copynumber: 3.3 Consensus size: 113
13622815 AGATATGCAC
* * *
13622825 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCGTTTGTAGAAGCGCCGCT
1 ACCAAAACGCAGGGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCGTTTGAAGAAGCGCCGCT
13622890 AAAGAGTATTATTAGCGGCGCGTTTTGAGAAGCGCCGCTATATTTCTTA
66 AAAGAGTATTATTAGCGGCGCG-TTTGAGAAGCGCCGCTATATTTCTTA
* * * * * * * ** * *
13622939 ACCAAAACTCAACGTTTTGGTCTTGATGTATAATATAATTACTGGCGC-TTACAACAAAACGCCG
1 ACCAAAACGC-AGGGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCGTTTGAA-GAAGCGCCG
* * * * * * *
13623003 CTAAATA-TCAGTATTCGCGGCGC-TTTCAGTTAAGCGCCGCAAGATATGC--A
64 CTAAAGAGT-ATTATTAGCGGCGCGTTTGAG--AAGCGCCGCTATAT-TTCTTA
* *
13623053 CACCAAAACGCAGGGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCGTTTGGAGAAGCGCCGC
1 -ACCAAAACGCAGGGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCGTTTGAAGAAGCGCCGC
13623118 TAAAGAGTATTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTCTTA
65 TAAAGAGTATTATTAGCGGCGCGTTT-GAGAAGCGCCGCTATATTTCTTA
* * * *
13623168 ACCAAAACTCAACGTTTTGGTCTTGATGTATA
1 ACCAAAACGC-AGGGTTTGGTCTTGAGGTATA
13623200 ATATCATTAG
Statistics
Matches: 201, Mismatches: 46, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
113 7 0.03
114 90 0.45
115 100 0.50
116 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (113 bp):
ACCAAAACGCAGGGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCGTTTGAAGAAGCGCCGCT
AAAGAGTATTATTAGCGGCGCGTTTGAGAAGCGCCGCTATATTTCTTA
Found at i:13624474 original size:33 final size:33
Alignment explanation
Indices: 13624437--13624503 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
13624427 TCAGTGTTGG
*
13624437 CAAAAATTTTATAGTGGCGTTTTTGAAGGGAAA
1 CAAAAATTTTATAGTGGCATTTTTGAAGGGAAA
13624470 CAAAAATTTTATAGTGGCATTTTTGAAGGGAAA
1 CAAAAATTTTATAGTGGCATTTTTGAAGGGAAA
13624503 C
1 C
13624504 GCCGCAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (33 bp):
CAAAAATTTTATAGTGGCATTTTTGAAGGGAAA
Found at i:13624908 original size:44 final size:44
Alignment explanation
Indices: 13624818--13624911 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
13624808 AATTCCTGCG
* * *
13624818 TCCTTCTTGGCCAATTTCTTGAATTCCCAAATTCGTAAATCGCC
1 TCCTTCTTGGCCAATTTCTTGAAATCCCAAATCCGTAAATCACC
* * **
13624862 TCCTTCTT-GCCGAATTTCTTGAAATCCGAAATCCTTCCATCACC
1 TCCTTCTTGGCC-AATTTCTTGAAATCCCAAATCCGTAAATCACC
13624906 TCCTTC
1 TCCTTC
13624912 CAAAGAAGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.21, C:0.33, G:0.10, T:0.36
Consensus pattern (44 bp):
TCCTTCTTGGCCAATTTCTTGAAATCCCAAATCCGTAAATCACC
Found at i:13626996 original size:21 final size:21
Alignment explanation
Indices: 13626971--13627060 Score: 108
Period size: 21 Copynumber: 4.3 Consensus size: 21
13626961 CAACAACTTC
* *
13626971 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCCGCAACGAGAG
* *
13626992 AAGCAGAGGCTGCAACGAAAG
1 AAGCAGAGGCCGCAACGAGAG
*
13627013 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAACGAGAG
* **
13627034 AAACAGAGGCCGCAGTGAGAG
1 AAGCAGAGGCCGCAACGAGAG
13627055 AAGCAG
1 AAGCAG
13627061 CGAAAGAAGC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.38, C:0.20, G:0.40, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCCGCAACGAGAG
Found at i:13627068 original size:12 final size:12
Alignment explanation
Indices: 13627045--13627096 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
13627035 AACAGAGGCC
*
13627045 GCAGTGAGAGAA
1 GCAGTGAAAGAA
*
13627057 GCAGCGAAAGAA
1 GCAGTGAAAGAA
*
13627069 GCAGTGAGAGAA
1 GCAGTGAAAGAA
*
13627081 GCAGTGATAGAA
1 GCAGTGAAAGAA
13627093 GCAG
1 GCAG
13627097 AGGTTCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.38, T:0.08
Consensus pattern (12 bp):
GCAGTGAAAGAA
Found at i:13627075 original size:24 final size:24
Alignment explanation
Indices: 13627045--13627096 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
13627035 AACAGAGGCC
13627045 GCAGTGAGAGAAGCAGCGAAAGAA
1 GCAGTGAGAGAAGCAGCGAAAGAA
* *
13627069 GCAGTGAGAGAAGCAGTGATAGAA
1 GCAGTGAGAGAAGCAGCGAAAGAA
13627093 GCAG
1 GCAG
13627097 AGGTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.38, T:0.08
Consensus pattern (24 bp):
GCAGTGAGAGAAGCAGCGAAAGAA
Found at i:13627591 original size:42 final size:41
Alignment explanation
Indices: 13627533--13627762 Score: 207
Period size: 42 Copynumber: 5.5 Consensus size: 41
13627523 TTTTTGAAAT
*
13627533 AAGCGCCACTAAAGAACACTAAT-TTTAGCGGCG-TTTTTCACC
1 AAGCGCCGCTAAAGAACA-TAATCTTTAGCGGCGATTTTT--CC
* * *
13627575 AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTTCC
1 AAGCGCCGCTAAAGAACATAATC-TTTAGCGGCGATTT-TTCC
* *
13627617 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGATTTTTCC
1 -AAGCGCCGCTAAAGAACATAATCTTTAGCGGCGATTTTTCC
* * * *
13627659 AAACGCCGCTGAAGAACATGATCTTTAGCGGCG-TGTTTTACT
1 AAGCGCCGCTAAAGAACATAATCTTTAGCGGCGAT-TTTT-CC
* ** *
13627701 AAGCGCCGCTAAAGAATATGTTCTTTAGCGGCGTTTATTTCC
1 AAGCGCCGCTAAAGAACATAATCTTTAGCGGCGATT-TTTCC
*
13627743 TTAGCGCCGCTAAAGAACAT
1 -AAGCGCCGCTAAAGAACAT
13627763 GTTCTGTAGC
Statistics
Matches: 159, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
40 1 0.01
41 36 0.23
42 64 0.40
43 55 0.35
44 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATAATCTTTAGCGGCGATTTTTCC
Found at i:13627634 original size:43 final size:42
Alignment explanation
Indices: 13627532--13627800 Score: 237
Period size: 43 Copynumber: 6.4 Consensus size: 42
13627522 ATTTTTGAAA
* * *
13627532 TAAGCGCCACTAAAGAACACTAATTTTAGCGGCG-TTTTTCAC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTC-C
* *
13627574 CAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTT-TTCC
* * *
13627617 TAAGCGCCGCTAAAGAACATGA-TCTTTAGTGGCGATTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTCC
* * * * *
13627659 -AAACGCCGCTGAAGAACATGA-TCTTTAGCGGCGTGTTTTAC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTCC
* *
13627700 TAAGCGCCGCTAAAGAATATGTTC-TTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACAT-TACTTTTAGCGGCGTTT-TTTCC
* * * *
13627743 TTAGCGCCGCTAAAGAACATGTTC-TGTAGCAGC-TTTTTTCC
1 TAAGCGCCGCTAAAGAACAT-TACTTTTAGCGGCGTTTTTTCC
13627784 TGTAAGCGCCGCTAAAG
1 --TAAGCGCCGCTAAAG
13627801 TTAGCGACGT
Statistics
Matches: 190, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
41 40 0.21
42 65 0.34
43 82 0.43
44 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTCC
Found at i:13633247 original size:73 final size:73
Alignment explanation
Indices: 13633128--13633374 Score: 374
Period size: 73 Copynumber: 3.4 Consensus size: 73
13633118 TGCTCAGGGC
** *
13633128 TTTAGCGGCGTTTTTTGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACAG-CGTTTTTTGAGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAC-GCCGTTTTCTGAGC
13633192 TTTCGGGGA
65 TTTCGGGGA
*
13633201 TTTAGCGGCGTTTTT-GGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTAAG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
*
13633265 TTTTGGGGA
65 TTTCGGGGA
* * *
13633274 TTTAGCAGCGTTTTTAAGAAAGCGCCGC-AAGAAACCTAAGCCCAACGACGCCGTTTTCCCGAGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT-CTGAGC
13633338 TTTCGGGGA
65 TTTCGGGGA
13633347 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
13633375 TAATGCTCAG
Statistics
Matches: 162, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
72 31 0.19
73 130 0.80
74 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGA
Found at i:13633480 original size:114 final size:113
Alignment explanation
Indices: 13633274--13633508 Score: 321
Period size: 114 Copynumber: 2.1 Consensus size: 113
13633264 CTTTTGGGGA
* *
13633274 TTTAGCAGCGTTTTTAAGAAAGCGCCGCAAGAAACCTAAGCCCAACGACGCCGTTTTCCCGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCCCGAGCT
* *
13633339 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCAGGCATTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGCTCAGGGC
** * * * *
13633388 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAAGTCCAACGACGTCGTTTT-CTGAGTT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCCCGAG-C
* *
13633452 TTTTAGGCA-TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGT
65 TTTCAGGCATTTAGCGGCGTTTTT-AAGAAGCGCCGCTAATGCTCAGGGC
13633501 TTTAGCGG
1 TTTAGCGG
13633509 AGTACATAAT
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
113 47 0.44
114 60 0.56
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (113 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCCCGAGCT
TTCAGGCATTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGCTCAGGGC
Found at i:13634893 original size:105 final size:104
Alignment explanation
Indices: 13634707--13635018 Score: 317
Period size: 105 Copynumber: 2.9 Consensus size: 104
13634697 NNNNNNNNNN
* * * *
13634707 ACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGT
1 ACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATATTTAGAATAGCAAAACGGC
13634772 GTCATTTTGTTCAAAATGAATTAGCGGCGTTTATAAAAA
66 GTCATTTTGTTCAAAATGAATTAGCGGCGTTTATAAAAA
13634811 ACGCCGCAAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAATATTTAGAATAGCAAAACGG
1 ACGCCGCAAAAAATAAATCAATTTAT-AAAAAACAAAATAAAAAATATTTAGAATAGCAAAACGG
* * * * *
13634876 CGTCGTTTTGTTTAAAATGAAAAAAAATTTGTGGCGTTTTTATGAAAA
65 CGTCATTTTGTTCAAAATG------AATTAGCGGCG--TTTATAAAAA
****** * * *
13634924 ACGCCGCAAAAGAA-AAA--ACGCCGCAAAAAATAAAATAAAATAAT-TTTAGCATAGCAAAACA
1 ACGCCGCAAAA-AATAAATCAATTTATAAAAAACAAAATAAAA-AATATTTAGAATAGCAAAACG
* *
13634985 GTGTCATTTTGTTCAAAATGAAATAGCGGCGTTT
64 GCGTCATTTTGTTCAAAATGAATTAGCGGCGTTT
13635019 TATTTTTAGC
Statistics
Matches: 173, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
102 3 0.02
104 34 0.20
105 51 0.29
110 47 0.27
111 13 0.08
113 23 0.13
114 2 0.01
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (104 bp):
ACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATATTTAGAATAGCAAAACGGC
GTCATTTTGTTCAAAATGAATTAGCGGCGTTTATAAAAA
Found at i:13634958 original size:18 final size:17
Alignment explanation
Indices: 13634920--13634958 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
13634910 CGTTTTTATG
*
13634920 AAAAACGCCGCAAAAGA
1 AAAAACGCCGCAAAAAA
13634937 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCAAAAAA
*
13634954 TAAAA
1 AAAAA
13634959 TAAAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.21, G:0.13, T:0.03
Consensus pattern (17 bp):
AAAAACGCCGCAAAAAA
Found at i:13635031 original size:55 final size:55
Alignment explanation
Indices: 13634967--13635074 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
13634957 AATAAAATAA
*
13634967 TTTTAGCATAGCAAAACAGTGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTAT
1 TTTTAGCATAGCAAAACAGTGTCATTTTGTTCAAAATGAAATAGCGGAGTTTTAT
*
13635022 TTTTAGCATAGCAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGAGTTTT
1 TTTTAGCATAGCAAAACAGTGTCATTTTGTTCAAAATGAAATAGCGGAGTTTT
13635075 TTATAAAAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (55 bp):
TTTTAGCATAGCAAAACAGTGTCATTTTGTTCAAAATGAAATAGCGGAGTTTTAT
Found at i:13639284 original size:43 final size:43
Alignment explanation
Indices: 13639055--13639282 Score: 323
Period size: 43 Copynumber: 5.3 Consensus size: 43
13639045 CAAAAACGCT
** * * * *
13639055 GCTAAAGGTCATGTTCTTTAGTGGCGTTTGTAGAG-AAAGCGTC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTGT-GGGTAAAGCGCC
*
13639098 GCTAAAGAACATGATCTTTAGCGGCGTTTGTGGCTAAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTGTGGGTAAAGCGCC
*
13639141 GCTAAAGAACATGATCTTTAGCGGCGTTTGTGGCTAAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTGTGGGTAAAGCGCC
*
13639184 GCTAAAGAACATGATCTTTAGCGGCGTTTGTGGGTAATGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTGTGGGTAAAGCGCC
* * *
13639227 GCTAAAGATCATGTTCTTTAGCGGCATTTGTGGGTAAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTGTGGGTAAAGCGCC
*
13639270 GCTAAAGATCATG
1 GCTAAAGAACATG
13639283 TTAGCGGCGT
Statistics
Matches: 171, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 1 0.01
43 170 0.99
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
GCTAAAGAACATGATCTTTAGCGGCGTTTGTGGGTAAAGCGCC
Found at i:13640656 original size:9 final size:9
Alignment explanation
Indices: 13640642--13640671 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
13640632 AATATTATTC
13640642 ATTAAATTA
1 ATTAAATTA
13640651 ATTAAATTA
1 ATTAAATTA
*
13640660 ACTAAATTA
1 ATTAAATTA
13640669 ATT
1 ATT
13640672 TTTCAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTAAATTA
Found at i:13642880 original size:3 final size:3
Alignment explanation
Indices: 13642872--13642922 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
13642862 GGCAAAAATC
13642872 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13642920 TAT
1 TAT
13642923 GATGGATTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13646807 original size:15 final size:15
Alignment explanation
Indices: 13646787--13646815 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13646777 TGAGTTTTTG
13646787 ATTGCAACAGAAGAC
1 ATTGCAACAGAAGAC
13646802 ATTGCAACAGAAGA
1 ATTGCAACAGAAGA
13646816 GGTGTGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.14
Consensus pattern (15 bp):
ATTGCAACAGAAGAC
Found at i:13648574 original size:43 final size:43
Alignment explanation
Indices: 13648513--13648600 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
13648503 AAAAAAAAGA
13648513 AGAAAAAAGTAAACGAAACAAGCTTCTGCTCCTTCTAATACTT
1 AGAAAAAAGTAAACGAAACAAGCTTCTGCTCCTTCTAATACTT
13648556 AGAAAAAAGTAAACGAAACAAGCTTCTGCTCCTTCTAATACTT
1 AGAAAAAAGTAAACGAAACAAGCTTCTGCTCCTTCTAATACTT
13648599 AG
1 AG
13648601 TCGAGGGATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.25
Consensus pattern (43 bp):
AGAAAAAAGTAAACGAAACAAGCTTCTGCTCCTTCTAATACTT
Found at i:13649569 original size:16 final size:16
Alignment explanation
Indices: 13649548--13649579 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13649538 TCAATTAATC
*
13649548 TAATTAATCTAAAAAT
1 TAATTAAACTAAAAAT
13649564 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
13649580 CAACCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:13652455 original size:24 final size:24
Alignment explanation
Indices: 13652397--13652455 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
13652387 AAGTCCAAAC
13652397 AAAATAAAA-TCATCCAAAAATAAA
1 AAAATAAAAGTCA-CCAAAAATAAA
** *
13652421 AATTTACAAGTC-CCAAAAATTAAA
1 AAAATAAAAGTCACCAAAAA-TAAA
13652445 AAAATAAAAGT
1 AAAATAAAAGT
13652456 TTGGAAGTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
23 7 0.26
24 18 0.67
25 2 0.07
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.20
Consensus pattern (24 bp):
AAAATAAAAGTCACCAAAAATAAA
Found at i:13652546 original size:19 final size:19
Alignment explanation
Indices: 13652518--13652559 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
13652508 CTCCTTCCCT
13652518 CGACCCATGTTCGGTGTGA
1 CGACCCATGTTCGGTGTGA
*
13652537 CGACCTATGTTCGGTGTGA
1 CGACCCATGTTCGGTGTGA
13652556 CGAC
1 CGAC
13652560 GCTTGTATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (19 bp):
CGACCCATGTTCGGTGTGA
Found at i:13653463 original size:25 final size:25
Alignment explanation
Indices: 13653435--13653487 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
13653425 AATTAATATC
*
13653435 TAGCACGTCTAATGCATCAGAAACA
1 TAGCACGTCCAATGCATCAGAAACA
13653460 TAGCACGTCCAATGCATCAGAAACA
1 TAGCACGTCCAATGCATCAGAAACA
13653485 TAG
1 TAG
13653488 TATGGAGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (25 bp):
TAGCACGTCCAATGCATCAGAAACA
Found at i:13653638 original size:18 final size:18
Alignment explanation
Indices: 13653615--13653650 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13653605 GAGGCGTAAA
13653615 ACTCATACACTGTCGAGT
1 ACTCATACACTGTCGAGT
13653633 ACTCATACACTGTCGAGT
1 ACTCATACACTGTCGAGT
13653651 CGATCTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (18 bp):
ACTCATACACTGTCGAGT
Found at i:13657169 original size:22 final size:22
Alignment explanation
Indices: 13657141--13657185 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
13657131 GGCTCGATAG
13657141 AAAGAATTCCACTCCGAGTCAT
1 AAAGAATTCCACTCCGAGTCAT
*
13657163 AAAGAATTCCACTTCGAGTCAT
1 AAAGAATTCCACTCCGAGTCAT
13657185 A
1 A
13657186 CACTGAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (22 bp):
AAAGAATTCCACTCCGAGTCAT
Found at i:13657629 original size:16 final size:16
Alignment explanation
Indices: 13657608--13657639 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13657598 TCAATTAACC
*
13657608 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
13657624 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
13657640 AAACCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:13660136 original size:42 final size:42
Alignment explanation
Indices: 13660077--13660160 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
13660067 ATGAGTTCTT
13660077 TTATGACCTTAGGTGCCGAATGAGGCCTAAAGGTAGGCTAAC
1 TTATGACCTTAGGTGCCGAATGAGGCCTAAAGGTAGGCTAAC
13660119 TTATGACCTTAGGTGCCGAATGAGGCCTAAAGGTAGGCTAAC
1 TTATGACCTTAGGTGCCGAATGAGGCCTAAAGGTAGGCTAAC
13660161 ATACGATGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (42 bp):
TTATGACCTTAGGTGCCGAATGAGGCCTAAAGGTAGGCTAAC
Found at i:13667343 original size:19 final size:19
Alignment explanation
Indices: 13667319--13667372 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
13667309 AATTTTTGAG
13667319 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13667338 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
*
13667357 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
13667373 AGATATGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13668613 original size:98 final size:98
Alignment explanation
Indices: 13668493--13668689 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
13668483 TTAAAAATCA
*
13668493 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
* *
13668558 TTAAATATTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATATTGGATAAATGGATATTCTTTTAAAG
*
13668591 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
* *
13668656 TTAAATCTTTGATAAATGGATATTCTTTTAAAG
66 TTAAATATTGGATAAATGGATATTCTTTTAAAG
13668689 T
1 T
13668690 TTTATTGCAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATATTGGATAAATGGATATTCTTTTAAAG
Found at i:13670552 original size:24 final size:25
Alignment explanation
Indices: 13670513--13670567 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
13670503 AACAAGAACA
13670513 AAAATCTAAAACCTAAA-AAAAGAG
1 AAAATCTAAAACCTAAACAAAAGAG
** *
13670537 AAAATCTAAAGTCTAAATCTAAAGAG
1 AAAATCTAAAACCTAAA-CAAAAGAG
13670563 AAAAT
1 AAAAT
13670568 TATAAAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 15 0.58
26 11 0.42
ACGTcount: A:0.62, C:0.11, G:0.09, T:0.18
Consensus pattern (25 bp):
AAAATCTAAAACCTAAACAAAAGAG
Found at i:13678998 original size:15 final size:16
Alignment explanation
Indices: 13678969--13678998 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13678959 GAGAAGATTG
13678969 TGAATTGATGATTATT
1 TGAATTGATGATTATT
13678985 TGAATTGA-GATTAT
1 TGAATTGATGATTAT
13678999 GAAATGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (16 bp):
TGAATTGATGATTATT
Found at i:13682892 original size:50 final size:50
Alignment explanation
Indices: 13682831--13683868 Score: 1321
Period size: 50 Copynumber: 20.7 Consensus size: 50
13682821 TCATTCGTTA
* *
13682831 CACGTAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* *
13682881 CACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAATTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
13682931 CTCATAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* *
13682981 CACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAATTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
13683031 CTCATAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* *
13683081 CACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAATTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
13683131 CTCATAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* *
13683181 CACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAATTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
13683231 CTCATAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* *
13683281 CACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAATTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
13683331 CTCATAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* *
13683381 CACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAATTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
13683431 CTCATAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* *
13683481 CACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAATTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
13683531 CTCATAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * *
13683581 CACGTAGTAGCCTTTACATAGTACTACACGCGTGATCAAATTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * *
13683631 CACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTT
* * * * *** *
13683682 CACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATTTATCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTT
* * * *
13683733 CACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAACTTCTT--GGTAT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AAGTT-TTACGGT-T
* * * * * * * *
13683785 -ACATAGTAGCATTCACTTAGTACTACACATGTGA-CCATTATTTATCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
*
13683835 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
13683869 TTCATCGATA
Statistics
Matches: 852, Mismatches: 123, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
48 4 0.00
49 4 0.00
50 696 0.82
51 139 0.16
52 4 0.00
53 3 0.00
54 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
Found at i:13682955 original size:100 final size:100
Alignment explanation
Indices: 13682835--13683767 Score: 1663
Period size: 100 Copynumber: 9.3 Consensus size: 100
13682825 TCGTTACACG
13682835 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
13682900 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
66 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
13682935 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
13683000 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
66 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
13683035 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
13683100 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
66 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
13683135 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
13683200 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
66 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
13683235 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
13683300 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
66 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
13683335 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
13683400 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
66 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
13683435 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
13683500 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
66 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
13683535 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
1 TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
* *
13683600 AGTACTACACGCGTGATCAAATTTTACGGTTCACA
66 AGTACTACACACGTGATCAAATTTTACGGTTCTCA
** * * * *
13683635 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGTAGCCTTCAC
1 TAGTAGCCTTCACATAGTACTACACACGTGA-TGAAG-TTTTACGATTCACGTAGTAGCCTTTAC
* * * * * * *
13683699 TTAGTACTACACATGTGTTCATCA-TTTATCGGTACACG
64 ATAGTACTACACACGTGATCA-AATTTTA-CGGTTCTCA
* *
13683737 TAGTAGCCTTCACACAGTACTACACATGTGA
1 TAGTAGCCTTCACATAGTACTACACACGTGA
13683768 CCAAAACTTC
Statistics
Matches: 812, Mismatches: 17, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
100 729 0.90
101 42 0.05
102 41 0.05
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (100 bp):
TAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCTTTACAT
AGTACTACACACGTGATCAAATTTTACGGTTCTCA
Found at i:13686617 original size:26 final size:23
Alignment explanation
Indices: 13686574--13686650 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 23
13686564 GATTGTCATG
13686574 TTTAAAAA-AATTAA-TTAATATTT
1 TTTAAAAATAA-TAATTTAAT-TTT
13686597 TCGTTAAAAATAATAATTTAATTCTT
1 T--TTAAAAATAATAATTTAATT-TT
13686623 TTTAAAAGATTAATAATTTAATTTT
1 TTTAAAA-A-TAATAATTTAATTTT
13686648 TTT
1 TTT
13686651 TTAAATTGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
23 1 0.02
24 6 0.13
25 17 0.36
26 23 0.49
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (23 bp):
TTTAAAAATAATAATTTAATTTT
Found at i:13688534 original size:6 final size:6
Alignment explanation
Indices: 13688523--13688553 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
13688513 ACTGCTTTTC
13688523 TACCAG TACCAG TACCAG TACCAG TACCAG T
1 TACCAG TACCAG TACCAG TACCAG TACCAG T
13688554 CTATTTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (6 bp):
TACCAG
Found at i:13701008 original size:5 final size:5
Alignment explanation
Indices: 13700998--13701073 Score: 152
Period size: 5 Copynumber: 15.2 Consensus size: 5
13700988 GTAAGCTCAA
13700998 CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC
1 CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC
13701048 CGCAC CGCAC CGCAC CGCAC CGCAC C
1 CGCAC CGCAC CGCAC CGCAC CGCAC C
13701074 CAATCGCCCA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 71 1.00
ACGTcount: A:0.20, C:0.61, G:0.20, T:0.00
Consensus pattern (5 bp):
CGCAC
Found at i:13711958 original size:15 final size:14
Alignment explanation
Indices: 13711936--13711975 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
13711926 GCAAACTTGT
13711936 AATTAAATAAATAA
1 AATTAAATAAATAA
*
13711950 AACTTAAATAAATGA
1 AA-TTAAATAAATAA
*
13711965 AATAAAATAAA
1 AATTAAATAAA
13711976 AATAAGGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (14 bp):
AATTAAATAAATAA
Found at i:13712465 original size:28 final size:30
Alignment explanation
Indices: 13712407--13712465 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
13712397 GGAATTTCGG
*
13712407 GTTTAGGGACTAAATTGTGATAAATGTAAAA
1 GTTTAGGGAC-AAATTGTGATAAATATAAAA
13712438 GTTTAGGGA-AAA-TGTG-TAAATAATAAAA
1 GTTTAGGGACAAATTGTGATAAAT-ATAAAA
13712466 CTTAATGGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 5 0.19
28 9 0.35
29 3 0.12
31 9 0.35
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.31
Consensus pattern (30 bp):
GTTTAGGGACAAATTGTGATAAATATAAAA
Found at i:13712927 original size:40 final size:39
Alignment explanation
Indices: 13712878--13713019 Score: 167
Period size: 40 Copynumber: 3.6 Consensus size: 39
13712868 AGGAAAATGT
* * *
13712878 CCCTGAATGCACATATGTGCTCCTATTTATACTTCGGTAC
1 CCCTAAATGCACATACGTGC-CCTATTTGTACTTCGGTAC
* * *
13712918 CCCTAAATGCAAATGCGTGCCCCTATTTGTACTTCGGTAT
1 CCCTAAATGCACATACGTG-CCCTATTTGTACTTCGGTAC
* * *
13712958 CCCTAAATGCACATACATATCCCTATTTGTACTTTGGTAC
1 CCCTAAATGCACATACGT-GCCCTATTTGTACTTCGGTAC
*
13712998 CCCTGAATGCACATACGTGCCC
1 CCCTAAATGCACATACGTGCCC
13713020 CTGTTCTGCA
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.04
40 81 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (39 bp):
CCCTAAATGCACATACGTGCCCTATTTGTACTTCGGTAC
Found at i:13725251 original size:22 final size:23
Alignment explanation
Indices: 13725225--13725270 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
13725215 TAAAATATAG
13725225 TAAAAT-AATATATAACCTAAAA
1 TAAAATAAATATATAACCTAAAA
13725247 TAAAATAAAATATATAACCTAAAA
1 TAAAAT-AAATATATAACCTAAAA
13725271 AAAGAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
24 16 0.73
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (23 bp):
TAAAATAAATATATAACCTAAAA
Found at i:13726653 original size:679 final size:679
Alignment explanation
Indices: 13725356--13726715 Score: 2704
Period size: 679 Copynumber: 2.0 Consensus size: 679
13725346 CTAACCTAAT
13725356 ATTACGTTGATTTGAGACACGAAAATGACCCAAACAAAATCGGGATAAACATGTTTTTTGTTTCC
1 ATTACGTTGATTTGAGACACGAAAATGACCCAAACAAAATCGGGATAAACATGTTTTTTGTTTCC
13725421 AGATACAATTTATTATAATATTATGCTAAAAAATTGTTATTTGTAAATATAACAATTATTTTATT
66 AGATACAATTTATTATAATATTATGCTAAAAAATTGTTATTTGTAAATATAACAATTATTTTATT
13725486 ATTTATTAATAGTTTATATAATTTTTATAATTATAGTTTTGAAGTTAAATATTATATTATTAATC
131 ATTTATTAATAGTTTATATAATTTTTATAATTATAGTTTTGAAGTTAAATATTATATTATTAATC
13725551 ATTTAATTTTAGCTTACACGAGTGTAAATAAGAAGCAGGCAGTGGTCTTGCCTAAAAAATGTTTA
196 ATTTAATTTTAGCTTACACGAGTGTAAATAAGAAGCAGGCAGTGGTCTTGCCTAAAAAATGTTTA
13725616 GATATACATTTTAGTCCTTTAAATTTATGAAATTATAAATAGTATAATGTTAAAATTTTACTTTG
261 GATATACATTTTAGTCCTTTAAATTTATGAAATTATAAATAGTATAATGTTAAAATTTTACTTTG
13725681 CCCCCTCTTAATTTATGATTCATCTTTGGTCCTCTTAAAGTAATTTTTTAGCTTTGTCCTTGTTG
326 CCCCCTCTTAATTTATGATTCATCTTTGGTCCTCTTAAAGTAATTTTTTAGCTTTGTCCTTGTTG
13725746 GCTTGTATAATATTTTTAATAAAGATTTTTTTATACAAGGCCTATAACTATCTATAACCCCTCTT
391 GCTTGTATAATATTTTTAATAAAGATTTTTTTATACAAGGCCTATAACTATCTATAACCCCTCTT
13725811 CAACCATTAAATATGAGGATAAACACACTTTTACTCACTTGAATCGACGTCCTTTTACATTAACA
456 CAACCATTAAATATGAGGATAAACACACTTTTACTCACTTGAATCGACGTCCTTTTACATTAACA
13725876 TCAAAATTTGATACAACTAATGTAATACCCCGAAAATTACTACAGTAAGAAAGTAAGATAATATC
521 TCAAAATTTGATACAACTAATGTAATACCCCGAAAATTACTACAGTAAGAAAGTAAGATAATATC
13725941 ATTGATATAGTAAAATAAGGAAATAAAGTGATAAAAAGGGTAATATTGAGTTATGTCAACATTGG
586 ATTGATATAGTAAAATAAGGAAATAAAGTGATAAAAAGGGTAATATTGAGTTATGTCAACATTGG
13726006 GAAGTATATTATGACATATTAATTCAAGA
651 GAAGTATATTATGACATATTAATTCAAGA
13726035 ATTACGTTGATTTGAGACACGAAAATGACCCAAACAAAATCGGGATAAACATGTTTTTTGTTTCC
1 ATTACGTTGATTTGAGACACGAAAATGACCCAAACAAAATCGGGATAAACATGTTTTTTGTTTCC
13726100 AGATACAATTTATTATAATATTATGCTAAAAAATTGTTATTTGTAAATATAACAAATTATTTTA-
66 AGATACAATTTATTATAATATTATGCTAAAAAATTGTTATTTGTAAATATAAC-AATTATTTTAT
13726164 TATTTATTAATAGTTTATATAATTTTTATAATTATAGTTTTGAAGTTAAATATTATATTATTAAT
130 TATTTATTAATAGTTTATATAATTTTTATAATTATAGTTTTGAAGTTAAATATTATATTATTAAT
13726229 CATTTAATTTTAGCTTACACGAGTGTAAATAAGAAGCAGGCAGTGGTCTTGCCTAAAAAATGTTT
195 CATTTAATTTTAGCTTACACGAGTGTAAATAAGAAGCAGGCAGTGGTCTTGCCTAAAAAATGTTT
13726294 AGATATACATTTTAGTCCTTTAAATTTATGAAATTATAAATAGTATAATGTTAAAATTTTACTTT
260 AGATATACATTTTAGTCCTTTAAATTTATGAAATTATAAATAGTATAATGTTAAAATTTTACTTT
13726359 GCCCCCTCTTAATTTATGATTCATCTTTGGTCCTCTTAAAGTAATTTTTTAGCTTTGTCCTTGTT
325 GCCCCCTCTTAATTTATGATTCATCTTTGGTCCTCTTAAAGTAATTTTTTAGCTTTGTCCTTGTT
13726424 GGCTTGTATAATATTTTTAATAAAGATTTTTTTATACAAGGCCTATAACTATCTATAACCCCTCT
390 GGCTTGTATAATATTTTTAATAAAGATTTTTTTATACAAGGCCTATAACTATCTATAACCCCTCT
13726489 TCAACCATTAAATATGAGGATAAACACACTTTTACTCACTTGAATCGACGTCCTTTTACATTAAC
455 TCAACCATTAAATATGAGGATAAACACACTTTTACTCACTTGAATCGACGTCCTTTTACATTAAC
13726554 ATCAAAATTTGATACAACTAATGTAATACCCCGAAAATTACTACAGTAAGAAAGTAAGATAATAT
520 ATCAAAATTTGATACAACTAATGTAATACCCCGAAAATTACTACAGTAAGAAAGTAAGATAATAT
13726619 CATTGATATAGTAAAATAAGGAAATAAAGTGATAAAAAGGGTAATATTGAGTTATGTCAACATTG
585 CATTGATATAGTAAAATAAGGAAATAAAGTGATAAAAAGGGTAATATTGAGTTATGTCAACATTG
13726684 GGAAGTATATTATGACATATTAATTCAAGA
650 GGAAGTATATTATGACATATTAATTCAAGA
13726714 AT
1 AT
13726716 GGATTAAATT
Statistics
Matches: 680, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
679 670 0.99
680 10 0.01
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (679 bp):
ATTACGTTGATTTGAGACACGAAAATGACCCAAACAAAATCGGGATAAACATGTTTTTTGTTTCC
AGATACAATTTATTATAATATTATGCTAAAAAATTGTTATTTGTAAATATAACAATTATTTTATT
ATTTATTAATAGTTTATATAATTTTTATAATTATAGTTTTGAAGTTAAATATTATATTATTAATC
ATTTAATTTTAGCTTACACGAGTGTAAATAAGAAGCAGGCAGTGGTCTTGCCTAAAAAATGTTTA
GATATACATTTTAGTCCTTTAAATTTATGAAATTATAAATAGTATAATGTTAAAATTTTACTTTG
CCCCCTCTTAATTTATGATTCATCTTTGGTCCTCTTAAAGTAATTTTTTAGCTTTGTCCTTGTTG
GCTTGTATAATATTTTTAATAAAGATTTTTTTATACAAGGCCTATAACTATCTATAACCCCTCTT
CAACCATTAAATATGAGGATAAACACACTTTTACTCACTTGAATCGACGTCCTTTTACATTAACA
TCAAAATTTGATACAACTAATGTAATACCCCGAAAATTACTACAGTAAGAAAGTAAGATAATATC
ATTGATATAGTAAAATAAGGAAATAAAGTGATAAAAAGGGTAATATTGAGTTATGTCAACATTGG
GAAGTATATTATGACATATTAATTCAAGA
Found at i:13729303 original size:31 final size:30
Alignment explanation
Indices: 13729250--13729308 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
13729240 TTCTAGACAC
* *
13729250 TCATACATGATTTAATTTTAAAAAATTATTT
1 TCATACAAGATTTAATTAT-AAAAATTATTT
13729281 TCATACAAG-TTTAAGTTATAAAAATTAT
1 TCATACAAGATTTAA-TTATAAAAATTAT
13729309 ATTATAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (30 bp):
TCATACAAGATTTAATTATAAAAATTATTT
Found at i:13731993 original size:23 final size:22
Alignment explanation
Indices: 13731967--13732028 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 22
13731957 ATTCTGTTAA
13731967 TTTAATTTTTATATTTTAATTT
1 TTTAATTTTTATATTTTAATTT
* * * *
13731989 GTTTAAATTTAATTTTTTTATTT
1 -TTTAATTTTTATATTTTAATTT
* *
13732012 TTTTATTTTTTTATTTT
1 TTTAATTTTTATATTTT
13732029 TTGAATTTTA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTAATTTTTATATTTTAATTT
Found at i:13732037 original size:9 final size:8
Alignment explanation
Indices: 13732000--13732030 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
13731990 TTTAAATTTA
13732000 ATTTTTTT
1 ATTTTTTT
13732008 ATTTTTTT
1 ATTTTTTT
13732016 ATTTTTTT
1 ATTTTTTT
13732024 ATTTTTT
1 ATTTTTT
13732031 GAATTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
ATTTTTTT
Found at i:13732037 original size:16 final size:16
Alignment explanation
Indices: 13732002--13732037 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13731992 TAAATTTAAT
* *
13732002 TTTTTTATTTTTTTAT
1 TTTTTTATTTTTTGAA
13732018 TTTTTTATTTTTTGAA
1 TTTTTTATTTTTTGAA
13732034 TTTT
1 TTTT
13732038 AGTTTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTTATTTTTTGAA
Found at i:13732044 original size:39 final size:39
Alignment explanation
Indices: 13731972--13732054 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
13731962 GTTAATTTAA
*
13731972 TTTTTATATTTTAATTTGTTTAAATTTAATTTTTTTATT
1 TTTTTATATTTTAATTTGTTTAAATTTAATTTTTATATT
* * * *
13732011 TTTTTATTTTTTTATTT-TTTGAATTTTAGTTTTTATATT
1 TTTTTATATTTTAATTTGTTT-AAATTTAATTTTTATATT
13732050 TTTTT
1 TTTTT
13732055 CAAAATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 3 0.08
39 35 0.92
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (39 bp):
TTTTTATATTTTAATTTGTTTAAATTTAATTTTTATATT
Found at i:13733757 original size:27 final size:28
Alignment explanation
Indices: 13733727--13733788 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
13733717 ATATTAGTGC
*
13733727 TTAGGGTTTTGAAAAAA-AAATTAGGGT
1 TTAGGGTTTTGAAAAAATAAATTAAGGT
* *
13733754 TTAGGATTTTTAAAAAATAAATTAAGGT
1 TTAGGGTTTTGAAAAAATAAATTAAGGT
13733782 TTAGGGT
1 TTAGGGT
13733789 CTATGGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (28 bp):
TTAGGGTTTTGAAAAAATAAATTAAGGT
Found at i:13734162 original size:155 final size:157
Alignment explanation
Indices: 13733962--13734261 Score: 430
Period size: 156 Copynumber: 1.9 Consensus size: 157
13733952 CCAACTGGAC
* * *
13733962 TTTTTCTGTACTGTTGAATCTGAAAATATAATTTTGTGAAGATGGTTTCG-AAAAAATAT-CTCG
1 TTTTTCTGTAATGTTGAATCTGAAAATATAATTTTGAGAAGATGGTTTCGAAAAAAAAATCCT-G
* *
13734025 GGATTC-CTGGGAAATCTGATAATT-GAGGTTGAAAAACGTTTCAAGTAGGATGTACTGTCAGCA
65 GGATTCAC-GGGAAATCTGATAATTAG-GGTTGAAAAACGCTTCAAGTAGGATGCACTGTCAGCA
*
13734088 AAAGTACTAAAAAAGCTCTCACCTAGACGT
128 AAAATACTAAAAAAGCTCTCACCTAGACGT
* * * * *
13734118 TTTTTTTGTAATGTTGATTTTGAAAA-ATATTTTTGAGAAGATGGTTTTGAAAAAAAAATCCTGG
1 TTTTTCTGTAATGTTGAATCTGAAAATATAATTTTGAGAAGATGGTTTCGAAAAAAAAATCCTGG
*
13734182 GATTCACGGGAAATCTGATAGTTAGGGTTGAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAA
66 GATTCACGGGAAATCTGATAATTAGGGTTGAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAA
13734247 ATACTAAAAAAGCTC
131 ATACTAAAAAAGCTC
13734262 CTAGCTGGAT
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
155 20 0.16
156 104 0.81
157 4 0.03
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (157 bp):
TTTTTCTGTAATGTTGAATCTGAAAATATAATTTTGAGAAGATGGTTTCGAAAAAAAAATCCTGG
GATTCACGGGAAATCTGATAATTAGGGTTGAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAA
ATACTAAAAAAGCTCTCACCTAGACGT
Found at i:13734576 original size:22 final size:23
Alignment explanation
Indices: 13734542--13734585 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
13734532 CAACCAATCC
**
13734542 ATTTCAACATATTTTTAAGATAG
1 ATTTCAACATATTCATAAGATAG
*
13734565 ATTT-AACGTATTCATAAGATA
1 ATTTCAACATATTCATAAGATA
13734586 ACCTCATCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATTTCAACATATTCATAAGATAG
Found at i:13736211 original size:43 final size:43
Alignment explanation
Indices: 13736175--13736331 Score: 237
Period size: 43 Copynumber: 3.7 Consensus size: 43
13736165 AAGGTCAGGG
*
13736175 TCTTTAGCGGCGCT-TTTCCTACAAACGCCACTAAAGGTCATGT
1 TCTTTAGCGGCGCTCTTTCC-ACAAACGCCACTAAAGATCATGT
* * *
13736218 TCTTTAGCGGCGCTCTTTCTAGAAACGCCACTAAAGATCATGA
1 TCTTTAGCGGCGCTCTTTCCACAAACGCCACTAAAGATCATGT
*
13736261 TCTTTAGCGGCGCTCTTTCCACAAACGCCGCTAAAGATCATGT
1 TCTTTAGCGGCGCTCTTTCCACAAACGCCACTAAAGATCATGT
*
13736304 TCTTTAGCGGCACTC-TTCCACAAACGCC
1 TCTTTAGCGGCGCTCTTTCCACAAACGCC
13736332 GCTATTTGTT
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
42 13 0.12
43 87 0.84
44 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (43 bp):
TCTTTAGCGGCGCTCTTTCCACAAACGCCACTAAAGATCATGT
Found at i:13736875 original size:243 final size:243
Alignment explanation
Indices: 13736447--13736933 Score: 974
Period size: 243 Copynumber: 2.0 Consensus size: 243
13736437 AAATCAAAAG
13736447 CAGCCAAATTTAAACCAGCCAAAAGCAATAACTTTATATAATATTTCAAATTAAACGAATAATAT
1 CAGCCAAATTTAAACCAGCCAAAAGCAATAACTTTATATAATATTTCAAATTAAACGAATAATAT
13736512 AATATTAATATCAATAAATAAAATATAATTCATATTATTTTCACAAAAATGTAAAAAAGTTAAAA
66 AATATTAATATCAATAAATAAAATATAATTCATATTATTTTCACAAAAATGTAAAAAAGTTAAAA
13736577 TGATAAAAATATTTATGCAATACACTATGACGGCGGAAGTTGCGACTGAAACAACTTCATCATAG
131 TGATAAAAATATTTATGCAATACACTATGACGGCGGAAGTTGCGACTGAAACAACTTCATCATAG
13736642 TCTGAAGTTGCTGCTGGAGTTCGTCGTACTTTTTGCTCTGCTCTGCTT
196 TCTGAAGTTGCTGCTGGAGTTCGTCGTACTTTTTGCTCTGCTCTGCTT
13736690 CAGCCAAATTTAAACCAGCCAAAAGCAATAACTTTATATAATATTTCAAATTAAACGAATAATAT
1 CAGCCAAATTTAAACCAGCCAAAAGCAATAACTTTATATAATATTTCAAATTAAACGAATAATAT
13736755 AATATTAATATCAATAAATAAAATATAATTCATATTATTTTCACAAAAATGTAAAAAAGTTAAAA
66 AATATTAATATCAATAAATAAAATATAATTCATATTATTTTCACAAAAATGTAAAAAAGTTAAAA
13736820 TGATAAAAATATTTATGCAATACACTATGACGGCGGAAGTTGCGACTGAAACAACTTCATCATAG
131 TGATAAAAATATTTATGCAATACACTATGACGGCGGAAGTTGCGACTGAAACAACTTCATCATAG
13736885 TCTGAAGTTGCTGCTGGAGTTCGTCGTACTTTTTGCTCTGCTCTGCTT
196 TCTGAAGTTGCTGCTGGAGTTCGTCGTACTTTTTGCTCTGCTCTGCTT
13736933 C
1 C
13736934 TCTCGCTGCA
Statistics
Matches: 244, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
243 244 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (243 bp):
CAGCCAAATTTAAACCAGCCAAAAGCAATAACTTTATATAATATTTCAAATTAAACGAATAATAT
AATATTAATATCAATAAATAAAATATAATTCATATTATTTTCACAAAAATGTAAAAAAGTTAAAA
TGATAAAAATATTTATGCAATACACTATGACGGCGGAAGTTGCGACTGAAACAACTTCATCATAG
TCTGAAGTTGCTGCTGGAGTTCGTCGTACTTTTTGCTCTGCTCTGCTT
Found at i:13736951 original size:21 final size:21
Alignment explanation
Indices: 13736925--13736995 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
13736915 TTTTGCTCTG
*
13736925 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
13736946 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
13736967 CGCTACTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
13736988 CTCTGCTT
1 CTCTGCTT
13736996 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.04, C:0.46, G:0.18, T:0.31
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:13752947 original size:21 final size:22
Alignment explanation
Indices: 13752923--13752971 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
13752913 AACTATAAAC
*
13752923 CCCTAAACCCCT-AACACC-TAA
1 CCCTAAACCCATAAAC-CCTTAA
*
13752944 CCCTTAACCCATAAACCCTTAA
1 CCCTAAACCCATAAACCCTTAA
13752966 CCCTAA
1 CCCTAA
13752972 CTTTTAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (22 bp):
CCCTAAACCCATAAACCCTTAA
Found at i:13752960 original size:15 final size:14
Alignment explanation
Indices: 13752923--13752971 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
13752913 AACTATAAAC
*
13752923 CCCTAAACCCCTAA
1 CCCTAAACCCTTAA
13752937 CACCT-AACCCTTAA
1 C-CCTAAACCCTTAA
13752951 CCCATAAACCCTTAA
1 CCC-TAAACCCTTAA
13752966 CCCTAA
1 CCCTAA
13752972 CTTTTAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 2 0.06
14 14 0.45
15 15 0.48
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (14 bp):
CCCTAAACCCTTAA
Done.