Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 72 of 75
Found at i:23433562 original size:27 final size:26
Alignment explanation
Indices: 23433523--23433573 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
23433513 CCTGATTTTT
*
23433523 AATAAACACAAAAAAATATTTTAAAAA
1 AATAAAAACAAAAAAAT-TTTTAAAAA
* *
23433550 AATAAAAATAAAAATATTTTTAAA
1 AATAAAAACAAAAAAATTTTTAAA
23433574 GTATTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (26 bp):
AATAAAAACAAAAAAATTTTTAAAAA
Found at i:23442135 original size:16 final size:17
Alignment explanation
Indices: 23442104--23442136 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23442094 TAAATGATTA
*
23442104 CAAATTTAAATACTCAC
1 CAAATTAAAATACTCAC
23442121 CAAATTAAAAT-CTCAC
1 CAAATTAAAATACTCAC
23442137 TTTTACATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (17 bp):
CAAATTAAAATACTCAC
Found at i:23444052 original size:4 final size:4
Alignment explanation
Indices: 23444043--23444073 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
23444033 TATAAACCAA
*
23444043 ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
23444074 TATGAACATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:23445800 original size:46 final size:44
Alignment explanation
Indices: 23445719--23445807 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 44
23445709 NNNNNNNNNN
*
23445719 CATTCAACCAAAACACAAGATACCATTACGCCTCTATTCCATTC
1 CATTCAACCAAAACAAAAGATACCATTACGCCTCTATTCCATTC
23445763 CATTCAACC-AAACAAAAGAATTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAAACAAAAG-A-TACC-ATTACGCCTCTATTCCATT
23445808 ACGCATCTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 8 0.20
44 10 0.24
45 4 0.10
46 19 0.46
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.27
Consensus pattern (44 bp):
CATTCAACCAAAACAAAAGATACCATTACGCCTCTATTCCATTC
Found at i:23445858 original size:16 final size:16
Alignment explanation
Indices: 23445789--23445857 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
23445779 AGAATTACCT
23445789 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
23445805 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
23445821 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
23445837 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
23445853 ATTAC
1 ATTAC
23445858 AGCGAACCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.23, C:0.35, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:23450628 original size:15 final size:16
Alignment explanation
Indices: 23450600--23450629 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23450590 TAAATTCATA
23450600 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
23450616 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
23450630 AATTATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:23450649 original size:18 final size:17
Alignment explanation
Indices: 23450622--23450655 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23450612 TTATTAAGAA
*
23450622 TTTTATTAAATTATATG
1 TTTTATTAAAATATATG
23450639 TTTTAATTAAAATATAT
1 TTTT-ATTAAAATATAT
23450656 TTAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTATTAAAATATATG
Found at i:23450862 original size:39 final size:41
Alignment explanation
Indices: 23450802--23450985 Score: 120
Period size: 44 Copynumber: 4.5 Consensus size: 41
23450792 TTTCCTTATG
* * * *
23450802 CTATTACACCTCTATTACATTCAACCAAACACAAGAA-TAT
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
23450842 C-ATTACGCCTTTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCC-----TCTATTCCATTCAACCAAACAAAAGAATTAC
***
23450887 CTATTACGCCTCTATTCCATT--A-C--AC--ATCTATT-C
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
23450920 C-ATTACACCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
23450965 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
23450986 ACACATCTAT
Statistics
Matches: 109, Mismatches: 14, Indels: 41
0.66 0.09 0.25
Matches are distributed among these distances:
32 9 0.08
33 2 0.02
34 4 0.04
35 1 0.01
36 2 0.02
37 8 0.07
38 1 0.01
39 9 0.08
40 2 0.02
41 18 0.17
42 2 0.02
43 1 0.01
44 28 0.26
45 5 0.05
46 17 0.16
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:23450882 original size:44 final size:46
Alignment explanation
Indices: 23450819--23450907 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 46
23450809 ACCTCTATTA
* * *
23450819 CATTCAACCAAACACAAGAA-TATC-ATTACGCCTTTATTCCATTC
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTC
23450863 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
23450908 ACACATCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.47
45 3 0.08
46 18 0.45
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.29
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTC
Found at i:23450916 original size:16 final size:16
Alignment explanation
Indices: 23450897--23451020 Score: 87
Period size: 16 Copynumber: 7.9 Consensus size: 16
23450887 CTATTACGCC
23450897 TCTATTCCATTACACA
1 TCTATTCCATTACACA
*
23450913 TCTATTCCATTACACC
1 TCTATTCCATTACACA
23450929 TCTATTCCATT-C-CA
1 TCTATTCCATTACACA
* * *
23450943 T-TCA-ACCA-AACAAA
1 TCT-ATTCCATTACACA
*** * *
23450957 AGAATTACCTATTACGCC
1 TCTATT-CC-ATTACACA
23450975 TCTATTCCATTACACA
1 TCTATTCCATTACACA
*
23450991 TCTATTCCATTACACC
1 TCTATTCCATTACACA
*
23451007 TCTATTTCATTACA
1 TCTATTCCATTACA
23451021 GCCAACCAAA
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
13 5 0.06
14 5 0.06
15 1 0.01
16 62 0.77
17 3 0.04
18 5 0.06
ACGTcount: A:0.31, C:0.31, G:0.02, T:0.35
Consensus pattern (16 bp):
TCTATTCCATTACACA
Found at i:23450925 original size:78 final size:78
Alignment explanation
Indices: 23450842--23451032 Score: 328
Period size: 78 Copynumber: 2.4 Consensus size: 78
23450832 ACAAGAATAT
* *
23450842 CATTACGCCTTTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAT
1 CATTACACCTCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAT
23450907 TACACATCTATTC
66 TACACATCTATTC
23450920 CATTACACCTCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAT
1 CATTACACCTCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAT
23450985 TACACATCTATTC
66 TACACATCTATTC
* * **
23450998 CATTACACCTCTATTTCATTACAGCCAACCAAACA
1 CATTACACCTCTATTCCATTCCATTCAACCAAACA
23451033 TGCCCTTAAA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 107 1.00
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (78 bp):
CATTACACCTCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCAT
TACACATCTATTC
Found at i:23453975 original size:45 final size:45
Alignment explanation
Indices: 23453922--23454126 Score: 171
Period size: 45 Copynumber: 4.6 Consensus size: 45
23453912 GTACTGGCGT
*
23453922 GAAGTAGATCAGTGATACCAGATCTTGCCTTCCCATACCGGTGGC
1 GAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACCGGTGGC
* * ** * *** * * *
23453967 GAAGTAGATCAAAGAAAATAGATCTTGTCTTCATGTACTGG-CGT
1 GAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACCGGTGGC
*
23454011 GAAGTAGATCAGAGATACCAGATCTTGCATTCCCATACCGGTGGC
1 GAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACCGGTGGC
* * * ** * *** * * *
23454056 GAAGCAGATCAAAGAAAATAGATCTTGTCTTCATGTACTGG-CGT
1 GAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACCGGTGGC
23454100 GAAGTAGATCAGAGATACCAGATCTTG
1 GAAGTAGATCAGAGATACCAGATCTTG
23454127 AGATCAAAGA
Statistics
Matches: 117, Mismatches: 42, Indels: 3
0.72 0.26 0.02
Matches are distributed among these distances:
44 55 0.47
45 62 0.53
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (45 bp):
GAAGTAGATCAGAGATACCAGATCTTGCCTTCCCATACCGGTGGC
Found at i:23454034 original size:44 final size:44
Alignment explanation
Indices: 23453896--23454126 Score: 221
Period size: 44 Copynumber: 5.2 Consensus size: 44
23453886 TGAAAAGCAG
*
23453896 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGTGATAC
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAC
* *** * * * * * *
23453940 CAGATCTTGCCTTCCCATACCGGTGGCGAAGTAGATCAAAGAAAA
1 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAGAGATAC
*
23453985 TAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAC
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAC
*** * * * * * * *
23454029 CAGATCTTG-CATTCCCATACCGGTGGCGAAGCAGATCAAAGAAAA
1 CAGATCTTGTC-TTCATGTACTGG-CGTGAAGTAGATCAGAGATAC
*
23454074 TAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAC
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAC
23454118 CAGATCTTG
1 CAGATCTTG
23454127 AGATCAAAGA
Statistics
Matches: 138, Mismatches: 45, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
43 1 0.01
44 73 0.53
45 63 0.46
46 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAC
Found at i:23454048 original size:89 final size:89
Alignment explanation
Indices: 23453897--23454126 Score: 433
Period size: 89 Copynumber: 2.6 Consensus size: 89
23453887 GAAAAGCAGC
* *
23453897 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGTGATACCAGATCTTGCCTTCCCATACCG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCATTCCCATACCG
*
23453962 GTGGCGAAGTAGATCAAAGAAAAT
66 GTGGCGAAGCAGATCAAAGAAAAT
23453986 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCATTCCCATACCG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCATTCCCATACCG
23454051 GTGGCGAAGCAGATCAAAGAAAAT
66 GTGGCGAAGCAGATCAAAGAAAAT
23454075 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTG
23454127 AGATCAAAGA
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 138 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (89 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCATTCCCATACCG
GTGGCGAAGCAGATCAAAGAAAAT
Found at i:23454137 original size:22 final size:22
Alignment explanation
Indices: 23454105--23454148 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23454095 GGCGTGAAGT
*
23454105 AGATCAGAGATACCAGATCTTG
1 AGATCAAAGATACCAGATCTTG
23454127 AGATCAAAGATACCAGATCTTG
1 AGATCAAAGATACCAGATCTTG
23454149 TCTTCCCGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (22 bp):
AGATCAAAGATACCAGATCTTG
Found at i:23454210 original size:111 final size:111
Alignment explanation
Indices: 23454016--23454237 Score: 338
Period size: 111 Copynumber: 2.0 Consensus size: 111
23454006 GGCGTGAAGT
* * *
23454016 AGATCAGAGATACCAGATCTTGCATTCCCATACCGGTGGCGAAGCAGATCAAAGAAAATAGATCT
1 AGATCAAAGATACCAGATCTTGCATTCCCATACCGGTGGCGAAACAGATCAAAGAAAACAGATCT
*
23454081 TGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTG
66 TGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTG
* * * * * *
23454127 AGATCAAAGATACCAGATCTTGTC-TTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATC
1 AGATCAAAGATACCAGATCTTG-CATTCCCATACCGGTGGCGAAACAGATCAAAGAAAACAGATC
23454191 TTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTG
65 TTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTG
23454238 TCTTCCCGTA
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
111 99 0.99
112 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (111 bp):
AGATCAAAGATACCAGATCTTGCATTCCCATACCGGTGGCGAAACAGATCAAAGAAAACAGATCT
TGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTG
Found at i:23454278 original size:89 final size:89
Alignment explanation
Indices: 23454127--23455304 Score: 2182
Period size: 89 Copynumber: 13.2 Consensus size: 89
23454117 CCAGATCTTG
23454127 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454192 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23454216 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454281 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23454305 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454370 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23454394 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454459 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23454483 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454548 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23454572 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454637 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23454661 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454726 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23454750 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454815 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23454839 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454904 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23454928 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23454993 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
23455017 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
23455082 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATGTACTGGCGTGAAGT
* * * ***
23455106 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGG-CAAAGCAGATCGAAGAAAATAGATC
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAA-CAGATCGAAGAAAGCGGATC
23455170 TTGTCTTCATGTACTGGCGTGAAGT
65 TTGTCTTCATGTACTGGCGTGAAGT
* * * ***
23455195 AGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGG-CAAAGCAGATCGAAGAAAATAGATC
1 AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAA-CAGATCGAAGAAAGCGGATC
*
23455259 TTGTCTTCATGTACTGCCGTGAAGT
65 TTGTCTTCATGTACTGGCGTGAAGT
*
23455284 AGATCGAAGATTA-CAGATCTT
1 AGATCAAAGA-TACCAGATCTT
23455305 ATCTCCCTAA
Statistics
Matches: 1079, Mismatches: 8, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
88 3 0.00
89 1074 1.00
90 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (89 bp):
AGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAACAGATCGAAGAAAGCGGATCT
TGTCTTCATGTACTGGCGTGAAGT
Found at i:23456858 original size:18 final size:17
Alignment explanation
Indices: 23456835--23456883 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
23456825 TTTTTTTAAA
*
23456835 TATTTATCATTATATCAT
1 TATTTATTATTATAT-AT
*
23456853 TATTTATTATTGTTATAT
1 TATTTATTATT-ATATAT
23456871 TATTTATTATTAT
1 TATTTATTATTAT
23456884 GGTTATTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.85
19 3 0.11
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTTATTATTATATAT
Found at i:23456868 original size:21 final size:21
Alignment explanation
Indices: 23456844--23456900 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
23456834 ATATTTATCA
*
23456844 TTATATCATTATTTATTATTG
1 TTATATCATTATTTATTATGG
*
23456865 TTATATTATT-TATTATTATGG
1 TTATATCATTAT-TTATTATGG
23456886 TTATTATCATTATTT
1 TTA-TATCATTATTT
23456901 CTATATTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 20 0.67
22 8 0.27
23 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (21 bp):
TTATATCATTATTTATTATGG
Found at i:23457011 original size:17 final size:18
Alignment explanation
Indices: 23456989--23457025 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
23456979 TATATATAAT
*
23456989 ATATATGTATTTTTTTTAA
1 ATATATATA-TTTTTTTAA
23457008 ATATATATATTTTTTTAA
1 ATATATATATTTTTTTAA
23457026 GCTTTTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATATATATATTTTTTTAA
Found at i:23458744 original size:20 final size:19
Alignment explanation
Indices: 23458706--23458742 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
23458696 AACAATTTTC
23458706 TTTTTAAGTAGTAATAAAT
1 TTTTTAAGTAGTAATAAAT
23458725 TTTTTAAAGT-GTAATAAA
1 TTTTT-AAGTAGTAATAAA
23458743 ATAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTTTAAGTAGTAATAAAT
Found at i:23465899 original size:26 final size:26
Alignment explanation
Indices: 23465863--23465914 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
23465853 TTATTTAAAT
**
23465863 AATAAAAAATAATGTTATTTTAATTA
1 AATAAAAAATAACATTATTTTAATTA
* *
23465889 AATAATAAATAACATTATTTTCATTA
1 AATAAAAAATAACATTATTTTAATTA
23465915 TTTAAATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
AATAAAAAATAACATTATTTTAATTA
Found at i:23466165 original size:21 final size:18
Alignment explanation
Indices: 23466124--23466204 Score: 76
Period size: 18 Copynumber: 4.3 Consensus size: 18
23466114 TGTTTAGTAA
23466124 ATTTTTTATATTTTATATT
1 ATTTTTTA-ATTTTATATT
23466143 ATTTTTTAATTTTATAATGTT
1 ATTTTTTAATTTTAT-A--TT
* *
23466164 ATTTTTTAATTCTT-TGTA
1 ATTTTTTAATT-TTATATT
*
23466182 ATTTTTTATTTTTA-ATT
1 ATTTTTTAATTTTATATT
23466199 ATTTTT
1 ATTTTT
23466205 AAGGTTTTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
17 9 0.17
18 18 0.35
19 9 0.17
21 14 0.27
22 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.72
Consensus pattern (18 bp):
ATTTTTTAATTTTATATT
Found at i:23466212 original size:24 final size:24
Alignment explanation
Indices: 23466166--23466212 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
23466156 ATAATGTTAT
* **
23466166 TTTTTAATTCTTTGTAATTTTTTA
1 TTTTTAATTATTTGTAAGGTTTTA
*
23466190 TTTTTAATTATTTTTAAGGTTTT
1 TTTTTAATTATTTGTAAGGTTTT
23466213 TCGAATGATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTTTAATTATTTGTAAGGTTTTA
Found at i:23479898 original size:4 final size:5
Alignment explanation
Indices: 23479878--23479911 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
23479868 AAAAACCAAA
23479878 AAAAT AAAAT AAAAT -AAAT -AAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
23479912 TTAAAGTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:23479900 original size:13 final size:14
Alignment explanation
Indices: 23479875--23479908 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
23479865 AACAAAAACC
23479875 AAAA-AAATAAAAT
1 AAAATAAATAAAAT
23479888 AAAATAAAT-AAAT
1 AAAATAAATAAAAT
23479901 AAAATAAA
1 AAAATAAA
23479909 ATATTAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:23484449 original size:2 final size:2
Alignment explanation
Indices: 23484442--23484466 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23484432 ATAGTGCATG
23484442 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 T
23484467 TAAAAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23484581 original size:21 final size:21
Alignment explanation
Indices: 23484557--23484600 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
23484547 AATGCACGTG
23484557 TATATATATG-TATAATAATAA
1 TATATA-ATGTTATAATAATAA
23484578 TATATAATGTTATAATAATAA
1 TATATAATGTTATAATAATAA
23484599 TA
1 TA
23484601 GCAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TATATAATGTTATAATAATAA
Found at i:23495449 original size:23 final size:23
Alignment explanation
Indices: 23495423--23495473 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
23495413 GTAATTTTTT
* *
23495423 AAATTGGTTTTTTATATTAATAA
1 AAATAGGTTTTTTATATTAAGAA
*
23495446 AAATAGTTTTTTTATATTAAGAA
1 AAATAGGTTTTTTATATTAAGAA
23495469 AAATA
1 AAATA
23495474 AATAAGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (23 bp):
AAATAGGTTTTTTATATTAAGAA
Found at i:23501575 original size:19 final size:19
Alignment explanation
Indices: 23501543--23501585 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
23501533 TTCTTTTTCT
*
23501543 TTATT-CTTTCTTTTATTA
1 TTATTACTTTATTTTATTA
23501561 TTATTACTTTATTTTATTA
1 TTATTACTTTATTTTATTA
*
23501580 TAATTA
1 TTATTA
23501586 AAACACATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTACTTTATTTTATTA
Found at i:23503435 original size:16 final size:16
Alignment explanation
Indices: 23503414--23503446 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23503404 TCTTCTTTAA
23503414 TTTGGTTTAT-TCTTTT
1 TTTGGTTT-TCTCTTTT
23503430 TTTGGTTTTCTCTTTT
1 TTTGGTTTTCTCTTTT
23503446 T
1 T
23503447 GCTAAATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.03, C:0.09, G:0.12, T:0.76
Consensus pattern (16 bp):
TTTGGTTTTCTCTTTT
Found at i:23504140 original size:7 final size:7
Alignment explanation
Indices: 23504130--23504154 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23504120 TTTTCATATC
23504130 TATTAAA
1 TATTAAA
23504137 TATTAAA
1 TATTAAA
23504144 TATTAAA
1 TATTAAA
23504151 TATT
1 TATT
23504155 GTACATTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TATTAAA
Found at i:23504336 original size:15 final size:15
Alignment explanation
Indices: 23504312--23504343 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23504302 ATTTAGATAT
*
23504312 TATATGTAATTCATC
1 TATATATAATTCATC
23504327 TATATATAATTCATC
1 TATATATAATTCATC
23504342 TA
1 TA
23504344 GAACAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (15 bp):
TATATATAATTCATC
Found at i:23507576 original size:27 final size:28
Alignment explanation
Indices: 23507539--23507603 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
23507529 ATAAAAAATA
23507539 ACCAAAATATTATAA-TTTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTTATTT
**
23507566 ATTAAAATATTATAATTTTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTTATTT
23507594 ACCAAAATAT
1 ACCAAAATAT
23507604 ACTAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 13 0.39
28 20 0.61
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (28 bp):
ACCAAAATATTATAATTTTTTTTTATTT
Found at i:23508602 original size:21 final size:21
Alignment explanation
Indices: 23508550--23508613 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
23508540 AAAATTATTC
* **
23508550 AATATATTT-TTATTTTAGCT
1 AATATTTTTATTATTTTAAAT
*
23508570 AA-ATTATTATTATTTTAAAT
1 AATATTTTTATTATTTTAAAT
*
23508590 AATATTTTTATTATTTTTAAT
1 AATATTTTTATTATTTTAAAT
23508611 AAT
1 AAT
23508614 TTAACTTTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.11
20 13 0.36
21 19 0.53
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
AATATTTTTATTATTTTAAAT
Found at i:23508674 original size:28 final size:28
Alignment explanation
Indices: 23508641--23508695 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
23508631 TTAATCGTCT
*
23508641 ATTTAATTATAAATTA-TTATATAATAAA
1 ATTTAATT-TAAACTATTTATATAATAAA
*
23508669 ATTTAATTTAAACTATTTTTATAATAA
1 ATTTAATTTAAACTATTTATATAATAA
23508696 TTAAATTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTTAATTTAAACTATTTATATAATAAA
Found at i:23512486 original size:21 final size:21
Alignment explanation
Indices: 23512456--23512509 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
23512446 AACCTCCTAT
23512456 TGAGTTGGGGCAGTCTCTTAC
1 TGAGTTGGGGCAGTCTCTTAC
* * * *
23512477 TGATTTGGGGTAGTCTGTTGC
1 TGAGTTGGGGCAGTCTCTTAC
23512498 TGAGTTGGGGCA
1 TGAGTTGGGGCA
23512510 ACCACTTGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.13, C:0.13, G:0.39, T:0.35
Consensus pattern (21 bp):
TGAGTTGGGGCAGTCTCTTAC
Found at i:23516559 original size:20 final size:20
Alignment explanation
Indices: 23516531--23516622 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
23516521 AGATTTTAGA
* *
23516531 TTTAGGGTTTAGGTTTGTGG
1 TTTAAGGTTTAGGTTTATGG
*
23516551 TTTAAGGTTAAGGTTTATGG
1 TTTAAGGTTTAGGTTTATGG
*
23516571 TTTAAAGGTTTGGGATTTATGG
1 TTT-AAGGTTTAGG-TTTATGG
* *
23516593 TTTGA-GTTTAAGGTGTAATGG
1 TTTAAGGTTT-AGGT-TTATGG
*
23516614 TTTAGGGTT
1 TTTAAGGTT
23516623 ATGAGTTATG
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
20 25 0.44
21 19 0.33
22 13 0.23
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.47
Consensus pattern (20 bp):
TTTAAGGTTTAGGTTTATGG
Found at i:23516602 original size:35 final size:34
Alignment explanation
Indices: 23516541--23516663 Score: 117
Period size: 35 Copynumber: 3.5 Consensus size: 34
23516531 TTTAGGGTTT
* *
23516541 AGGTTTGTGGTTTAAGGTTAAG-GTTTATGGTTTAA
1 AGGTTTG-GGTTTATGGTTATGAGTTTA-GGTTTAA
*
23516576 AGGTTTGGGATTTATGGTT-TGAGTTTAAGGTGTAA
1 AGGTTTGGG-TTTATGGTTATGAGTTT-AGGTTTAA
* * *
23516611 TGGTTTAGGG-TTATGAGTTATGAGTTTAGGATTCA
1 AGGTTT-GGGTTTATG-GTTATGAGTTTAGGTTTAA
23516646 AGGTTTGGGTTTATGGTT
1 AGGTTTGGGTTTATGGTT
23516664 GAATGTGTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
34 14 0.19
35 48 0.66
36 11 0.15
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.45
Consensus pattern (34 bp):
AGGTTTGGGTTTATGGTTATGAGTTTAGGTTTAA
Found at i:23517170 original size:21 final size:21
Alignment explanation
Indices: 23516980--23517171 Score: 78
Period size: 21 Copynumber: 9.1 Consensus size: 21
23516970 GAGATTGTAT
* *
23516980 ATTTAGGGTTTATGGTTCATG
1 ATTTAGGGTTTATGGTTTAAG
23517001 ATTTAGGAG--TA-GGATTTAAGG
1 ATTTAGG-GTTTATGG-TTTAA-G
* * *
23517022 TTTTAGGTTTTA-GGTTTATGG
1 ATTTAGGGTTTATGGTTTA-AG
* **
23517043 GTTTATAGTTTATGGTTATTAA-
1 ATTTAGGGTTTATGGT--TTAAG
* *
23517065 TTTTAGGGTTTA-GGTTTTAG
1 ATTTAGGGTTTATGGTTTAAG
* *
23517085 AGTTT-GGGTATAAGGTTTAAGG
1 A-TTTAGGGTTTATGGTTTAA-G
* * *
23517107 GTTTAGTG-TTATGTGTTTGAG
1 ATTTAGGGTTTATG-GTTTAAG
* *
23517128 -TTTAGGGTTTATGTTTTTAG
1 ATTTAGGGTTTATGGTTTAAG
*
23517148 ATTTAGGGTTTGTGGTTTAAG
1 ATTTAGGGTTTATGGTTTAAG
23517169 ATT
1 ATT
23517172 CAAGGTTATG
Statistics
Matches: 126, Mismatches: 28, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
19 5 0.04
20 22 0.17
21 71 0.56
22 25 0.20
24 3 0.02
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (21 bp):
ATTTAGGGTTTATGGTTTAAG
Found at i:23517362 original size:20 final size:19
Alignment explanation
Indices: 23517304--23517362 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
23517294 ATGGGTTTGA
* * *
23517304 GTTTAGGGTTTGTACTTAAG
1 GTTTAGGGTTT-AAGTTATG
23517324 GTTTAGGGTTTAAGATTATG
1 GTTTAGGGTTTAAG-TTATG
23517344 GTTTAGGGTTTAAAGTTAT
1 GTTTAGGGTTT-AAGTTAT
23517363 ATGTTTGAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.88
21 3 0.09
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.46
Consensus pattern (19 bp):
GTTTAGGGTTTAAGTTATG
Found at i:23520587 original size:45 final size:44
Alignment explanation
Indices: 23520507--23520596 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
23520497 NNCTCTATTC
23520507 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* *
23520551 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
23520596 C
1 C
23520597 GCCTCTAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:23520597 original size:16 final size:16
Alignment explanation
Indices: 23520576--23520624 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
23520566 TTGATTTGCT
23520576 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
23520592 ATTACGCCTCTAATCC
1 ATTACGCCTCTATTCC
23520608 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
23520624 A
1 A
23520625 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.22, C:0.37, G:0.06, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:23521346 original size:14 final size:14
Alignment explanation
Indices: 23521316--23521390 Score: 57
Period size: 14 Copynumber: 5.2 Consensus size: 14
23521306 CTATATTTTT
*
23521316 ATTTAGGGTTT-GAG
1 ATTTAGTGTTTAG-G
23521330 ATTCTAG-GTTTAGG
1 ATT-TAGTGTTTAGG
23521344 ATTTAGTGTTTAGG
1 ATTTAGTGTTTAGG
* *
23521358 ATTTAATGTTATATG
1 ATTTAGTGTT-TAGG
23521373 -TTCTAGTGTTTATGG
1 ATT-TAGTGTTTA-GG
23521388 ATT
1 ATT
23521391 ATGATTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.06
14 31 0.62
15 14 0.28
16 2 0.04
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.49
Consensus pattern (14 bp):
ATTTAGTGTTTAGG
Found at i:23521454 original size:20 final size:19
Alignment explanation
Indices: 23521431--23521468 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
23521421 GATGTTAAGA
*
23521431 TTTAAGGTTATGTGTTTTAG
1 TTTAAGGTT-TGAGTTTTAG
23521451 TTTAAGGTTTGAGTTTTA
1 TTTAAGGTTTGAGTTTTA
23521469 AAGTTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (19 bp):
TTTAAGGTTTGAGTTTTAG
Found at i:23534126 original size:37 final size:37
Alignment explanation
Indices: 23534065--23534138 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
23534055 AATTGAAAAG
** *
23534065 AAATATTTTCTAGTTCATGACATTTATAAAATGTCAC
1 AAATATTTTCTAGCCCATGACATTTATAAAACGTCAC
* * *
23534102 AAATATTTTCTAGCCCGTGGCATTTCTAAAACGTCAC
1 AAATATTTTCTAGCCCATGACATTTATAAAACGTCAC
23534139 GAAAAACTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (37 bp):
AAATATTTTCTAGCCCATGACATTTATAAAACGTCAC
Found at i:23535602 original size:19 final size:18
Alignment explanation
Indices: 23535578--23535615 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23535568 TGCAAATGAA
*
23535578 TCATTTCTGATTTTCATTT
1 TCATTTCT-ATTTCCATTT
23535597 TCATTTCTATTTCCATTT
1 TCATTTCTATTTCCATTT
23535615 T
1 T
23535616 GAGAAAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.16, C:0.18, G:0.03, T:0.63
Consensus pattern (18 bp):
TCATTTCTATTTCCATTT
Found at i:23541176 original size:67 final size:67
Alignment explanation
Indices: 23541068--23541201 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
23541058 TTTGAGATGA
23541068 AAGATTTGGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTCAAAGATAGAAAAATAAGTAAA
1 AAGATTTGGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTCAAAGATAGAAAAATAAGTAAA
23541133 TT
66 TT
*
23541135 AAGATTTGGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTCAGAGATAGAAAAATAAGTAAA
1 AAGATTTGGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTCAAAGATAGAAAAATAAGTAAA
23541200 TT
66 TT
23541202 GTACCTAAGT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (67 bp):
AAGATTTGGGACCAGCAAAGAAGATACTTGGTATGGAGATTCTCAAAGATAGAAAAATAAGTAAA
TT
Found at i:23542397 original size:6 final size:6
Alignment explanation
Indices: 23542386--23542438 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
23542376 GTGTGTTCTT
23542386 TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC
1 TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC
23542434 TATTT
1 TATTT
23542439 TCTTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTC
Found at i:23556235 original size:19 final size:18
Alignment explanation
Indices: 23556213--23556255 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
23556203 AATTACAAAA
23556213 AAAAATCAAAATAATTTAT
1 AAAAATCAAAAT-ATTTAT
*
23556232 AAAATTCAAAATATTTAT
1 AAAAATCAAAATATTTAT
23556250 AAAAAT
1 AAAAAT
23556256 TCCAAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:23556247 original size:18 final size:18
Alignment explanation
Indices: 23556213--23556288 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 18
23556203 AATTACAAAA
*
23556213 AAAAATCAAAATAATTTAT
1 AAAATTCAAAAT-ATTTAT
23556232 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
* *
23556250 AAAAATTCCAAA-ACTTAT
1 -AAAATTCAAAATATTTAT
* * *
23556268 ATATTTTAAAAT-TTTAT
1 AAAATTCAAAATATTTAT
23556285 AAAA
1 AAAA
23556289 GTTTAAAAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
17 13 0.29
18 11 0.24
19 21 0.47
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:23556256 original size:19 final size:20
Alignment explanation
Indices: 23556212--23556262 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
23556202 AAATTACAAA
*
23556212 AAAAAATCAAAATAATTTAT
1 AAAAATTCAAAATAATTTAT
23556232 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
23556250 AAAAATTCCAAAA
1 AAAAATT-CAAAA
23556263 CTTATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 6 0.21
19 17 0.61
20 5 0.18
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:23558829 original size:137 final size:134
Alignment explanation
Indices: 23558579--23558849 Score: 375
Period size: 137 Copynumber: 2.0 Consensus size: 134
23558569 GTTTTTCTTC
* *
23558579 ATGTTTGATAGCTTCTTGAACTGCATGATTTGTCATTGTGTTTTAATCCCTTGTTTGGATGCCTA
1 ATGTTTGATAGCTCCTTGAACTGCATGATTTGTCATTGTGTTTTAATCCATTGTTTGGATGCCTA
* *
23558644 GGCTAACTTTTGGACCAAAGTCTAGACATGCTTTCAGGAAAACTCAAGTGTAGCATAAAGTGAGC
66 GACTAACTTTTGGACCAAAATCTAGACATGCTTTCAGGAAAACTCAAGTGTAGCATAAAGTGAGC
23558709 ATTT
131 ATTT
* * *
23558713 ATGTTTGATAGCTCCTTGAATTGCATGTTTTGTCATTGTG-TTTAATCCATTGTTTGAACAGTTG
1 ATGTTTGATAGCTCCTTGAACTGCATGATTTGTCATTGTGTTTTAATCCATTGTTTG----GATG
* * * *
23558777 TCTAGACTAACTTTTGGA-CAACAATCTAGACATGTTTTCAGGACAACTCAAGTGTAGTATAAAG
62 CCTAGACTAACTTTTGGACCAA-AATCTAGACATGCTTTCAGGAAAACTCAAGTGTAGCATAAAG
*
23558841 TGAGTATTT
126 TGAGCATTT
23558850 TTTTACTTTG
Statistics
Matches: 120, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
133 15 0.12
134 37 0.31
136 3 0.03
137 65 0.54
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (134 bp):
ATGTTTGATAGCTCCTTGAACTGCATGATTTGTCATTGTGTTTTAATCCATTGTTTGGATGCCTA
GACTAACTTTTGGACCAAAATCTAGACATGCTTTCAGGAAAACTCAAGTGTAGCATAAAGTGAGC
ATTT
Found at i:23563080 original size:22 final size:22
Alignment explanation
Indices: 23563055--23563104 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
23563045 ATATTCAAAT
* *
23563055 AACAACAACAAAATAGTAGCAA
1 AACAACAACAAAACAATAGCAA
* *
23563077 AACAATAGCAAAACAATAGCAA
1 AACAACAACAAAACAATAGCAA
23563099 AACAAC
1 AACAAC
23563105 GGTAAACAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (22 bp):
AACAACAACAAAACAATAGCAA
Found at i:23563085 original size:11 final size:11
Alignment explanation
Indices: 23563071--23563103 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
23563061 AACAAAATAG
23563071 TAGCAAAACAA
1 TAGCAAAACAA
23563082 TAGCAAAACAA
1 TAGCAAAACAA
23563093 TAGCAAAACAA
1 TAGCAAAACAA
23563104 CGGTAAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.18, G:0.09, T:0.09
Consensus pattern (11 bp):
TAGCAAAACAA
Found at i:23566641 original size:18 final size:18
Alignment explanation
Indices: 23566604--23566951 Score: 126
Period size: 18 Copynumber: 19.0 Consensus size: 18
23566594 TTGAAACTTT
* * *
23566604 TTTTTTAACACACTAAAA
1 TTTTTTAAAACACGAGAA
23566622 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGAGAA
* *
23566640 --TTTTAGAGACACGAAAA
1 TTTTTTA-AAACACGAGAA
* * *
23566657 TTCTTAAAAACACGAAAA
1 TTTTTTAAAACACGAGAA
* *
23566675 TTTTTGAAAACACGACAA
1 TTTTTTAAAACACGAGAA
* *
23566693 --TTTTGAAACAGGAGAAA
1 TTTTTTAAAACACGAG-AA
*
23566710 TTTTTTGAAAACACGGAAAA
1 TTTTTT-AAAACAC-GAGAA
*
23566730 TTTTTTTAAAAAACCG-GAA
1 -TTTTTTAAAACA-CGAGAA
***
23566749 TTTAAAAAAAAAACACGA-AA
1 TTT---TTTAAAACACGAGAA
* * *
23566769 ATTTTTGATACACG-GAA
1 TTTTTTAAAACACGAGAA
* * *
23566786 GTTTTTAGAAAAAAACGAAAAA
1 -TTTTT--TAAAACACG-AGAA
* *
23566808 TTTCTTTGATAA-TC-AGAA
1 TTT-TTT-AAAACACGAGAA
* *
23566826 TTTTTGAAAACACGAAAA
1 TTTTTTAAAACACGAGAA
*
23566844 TTTTTTTGAAACACGA-AA
1 -TTTTTTAAAACACGAGAA
** *
23566862 GTTTTAAAAAACACGAGTA
1 -TTTTTTAAAACACGAGAA
* *
23566881 -TTTTTGAAACACGAAAA
1 TTTTTTAAAACACGAGAA
* *
23566898 GTTTTGAAAACACG-GAA
1 TTTTTTAAAACACGAGAA
23566915 TTTTTTTAAAACACGAGAA
1 -TTTTTTAAAACACGAGAA
*
23566934 TTTTTTGAAACACGAGAA
1 TTTTTTAAAACACGAGAA
23566952 AAATTATTTT
Statistics
Matches: 239, Mismatches: 62, Indels: 58
0.67 0.17 0.16
Matches are distributed among these distances:
16 18 0.08
17 36 0.15
18 110 0.46
19 26 0.11
20 25 0.10
21 20 0.08
22 4 0.02
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (18 bp):
TTTTTTAAAACACGAGAA
Found at i:23566657 original size:35 final size:36
Alignment explanation
Indices: 23566613--23566937 Score: 132
Period size: 35 Copynumber: 8.9 Consensus size: 36
23566603 TTTTTTTAAC
* * * *
23566613 ACACTAAAATTTTTTAAAACACGAGAATTTTAG-AG
1 ACACGAAAATTTTTAAAAACACGAAAATTTTAGAAA
* *
23566648 ACACGAAAATTCTTAAAAACACGAAAATTTTTGAAA
1 ACACGAAAATTTTTAAAAACACGAAAATTTTAGAAA
* * * *
23566684 ACACGACAA-TTTT-GAAACAGGAGAAATTTTTTGAAA
1 ACACGAAAATTTTTAAAAACACGA-AAA-TTTTAGAAA
* * *
23566720 ACACGGAAAATTTTTTTAAAAA-ACCG-GAATTTAAAAAAAAA
1 ACAC-GAAAA--TTTTTAAAAACA-CGAAAATTT---TAGAAA
* * **
23566761 ACACGAAAATTTTT-GATACACGGAAGTTTTTAGAAAA
1 ACACGAAAATTTTTAAAAACAC-GAAAATTTTAG-AAA
* * * *
23566798 AAACGAAAAATTTCTTTGATAATCA-G--AATTTTTGAAA
1 ACACG-AAAA-TT-TTT-AAAAACACGAAAATTTTAGAAA
** * *
23566835 ACACGAAAATTTTTTTGAAACACGAAAGTTTTAAAAA
1 ACACGAAAA-TTTTTAAAAACACGAAAATTTTAGAAA
** *
23566872 ACACGAGTATTTTT-GAAACACGAAAAGTTTT-GAAA
1 ACACGAAAATTTTTAAAAACACGAAAA-TTTTAGAAA
* * * *
23566907 ACACGGAATTTTTTTAAAACACGAGAATTTT
1 ACACGAAAATTTTTAAAAACACGAAAATTTT
23566938 TTGAAACACG
Statistics
Matches: 216, Mismatches: 48, Indels: 52
0.68 0.15 0.16
Matches are distributed among these distances:
34 11 0.05
35 66 0.31
36 49 0.23
37 36 0.17
38 19 0.09
39 7 0.03
40 14 0.06
41 11 0.05
42 3 0.01
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.30
Consensus pattern (36 bp):
ACACGAAAATTTTTAAAAACACGAAAATTTTAGAAA
Found at i:23566717 original size:19 final size:20
Alignment explanation
Indices: 23566618--23567020 Score: 118
Period size: 18 Copynumber: 21.6 Consensus size: 20
23566608 TTAACACACT
23566618 AAAATTTTTT-AAAACAC-G
1 AAAATTTTTTGAAAACACGG
* * *
23566636 AGAA-TTTTAG-AGACAC-G
1 AAAATTTTTTGAAAACACGG
* *
23566653 AAAA-TTCTTAAAAACAC-G
1 AAAATTTTTTGAAAACACGG
23566671 AAAA-TTTTTGAAAACAC-G
1 AAAATTTTTTGAAAACACGG
*
23566689 ACAA--TTTTG-AAACA-GG
1 AAAATTTTTTGAAAACACGG
23566705 AGAAATTTTTTGAAAACACGG
1 A-AAATTTTTTGAAAACACGG
* *
23566726 AAAATTTTTTTAAAAAACCGG
1 AAAATTTTTTGAAAACA-CGG
****
23566747 --AATTTAAAAAAAAAACAC-G
1 AAAATTT--TTTGAAAACACGG
*
23566766 AAAA-TTTTTG-ATACACGG
1 AAAATTTTTTGAAAACACGG
* * * *
23566784 -AAGTTTTTAGAAAAAAACGA
1 AAAATTTTTTG-AAAACACGG
*
23566804 AAAATTTCTTTGATAATCA--G
1 AAAATTT-TTTGA-AAACACGG
23566824 --AA-TTTTTGAAAACAC-G
1 AAAATTTTTTGAAAACACGG
23566840 AAAATTTTTTTG-AAACAC-G
1 AAAA-TTTTTTGAAAACACGG
* **
23566859 -AAAGTTTTAAAAAACAC-G
1 AAAATTTTTTGAAAACACGG
**
23566877 AGTA-TTTTTG-AAACAC-G
1 AAAATTTTTTGAAAACACGG
*
23566894 AAAA-GTTTTGAAAACACGG
1 AAAATTTTTTGAAAACACGG
*
23566913 --AATTTTTTTAAAACAC-G
1 AAAATTTTTTGAAAACACGG
*
23566930 AGAATTTTTTG-AAACACGAG
1 AAAATTTTTTGAAAACACG-G
**
23566950 AAAAATTATTTTGAAGCCAC-G
1 -AAAATT-TTTTGAAAACACGG
*
23566971 AAAA---TTTCAAAACACGG
1 AAAATTTTTTGAAAACACGG
*
23566988 AAATTTTTTGTGAAAACAC-G
1 AAAATTTTT-TGAAAACACGG
23567008 -AAATTTGTTTGAA
1 AAAATTT-TTTGAA
23567021 TATTTACAAT
Statistics
Matches: 285, Mismatches: 57, Indels: 85
0.67 0.13 0.20
Matches are distributed among these distances:
15 4 0.01
16 21 0.07
17 57 0.20
18 75 0.26
19 37 0.13
20 43 0.15
21 33 0.12
22 11 0.04
23 4 0.01
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (20 bp):
AAAATTTTTTGAAAACACGG
Found at i:23566747 original size:21 final size:21
Alignment explanation
Indices: 23566698--23566748 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
23566688 GACAATTTTG
*
23566698 AAACAGGAGAAATTTTTTGAAA
1 AAACCGGA-AAATTTTTTGAAA
* *
23566720 ACA-CGGAAAATTTTTTTAAA
1 AAACCGGAAAATTTTTTGAAA
23566740 AAACCGGAA
1 AAACCGGAA
23566749 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 14 0.58
21 8 0.33
22 2 0.08
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (21 bp):
AAACCGGAAAATTTTTTGAAA
Found at i:23566798 original size:37 final size:38
Alignment explanation
Indices: 23566613--23566943 Score: 150
Period size: 36 Copynumber: 9.0 Consensus size: 38
23566603 TTTTTTTAAC
* * *
23566613 ACACTAAAATTTTTTAAAACACGAGAA--TTTTAG--AG
1 ACACGAAAATTTTTTGAAACACGA-AAGTTTTTAGAAAA
* ** *
23566648 ACACGAAAATTCTTAAAAACACGAAAATTTTT-G-AAA
1 ACACGAAAATTTTTTGAAACACGAAAGTTTTTAGAAAA
* * * *
23566684 ACACGACAA--TTTTGAAACAGGAGAAATTTTTTG-AAA
1 ACACGAAAATTTTTTGAAACACGA-AAGTTTTTAGAAAA
* * * ** *
23566720 ACACGGAAAATTTTTTTAAAAAACCGGAA-TTTAAAAAAAAA
1 ACAC-GAAAA-TTTTTTGAAACA-CGAAAGTTT-TTAGAAAA
* *
23566761 ACACGAAAA-TTTTTGATACACGGAAGTTTTTAGAAAA
1 ACACGAAAATTTTTTGAAACACGAAAGTTTTTAGAAAA
*
23566798 AAACGAAAAATTTCTTTGATAATCA-G-AA-TTTTT-G-AAA
1 ACACG-AAAATTT-TTTGA-AA-CACGAAAGTTTTTAGAAAA
23566835 ACACGAAAATTTTTTTGAAACACGAAAG-TTTTA-AAAA
1 ACACGAAAA-TTTTTTGAAACACGAAAGTTTTTAGAAAA
**
23566872 ACACGAGTA-TTTTTGAAACACGAAAAG-TTTT-G-AAA
1 ACACGAAAATTTTTTGAAACACG-AAAGTTTTTAGAAAA
* * * *
23566907 ACACGGAATTTTTTTAAAACACGAGAA-TTTTTTGAAA
1 ACACGAAAATTTTTTGAAACACGA-AAGTTTTTAGAAA
23566944 CACGAGAAAA
Statistics
Matches: 231, Mismatches: 34, Indels: 59
0.71 0.10 0.18
Matches are distributed among these distances:
34 13 0.06
35 55 0.24
36 62 0.27
37 39 0.17
38 18 0.08
39 10 0.04
40 22 0.10
41 10 0.04
42 2 0.01
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.30
Consensus pattern (38 bp):
ACACGAAAATTTTTTGAAACACGAAAGTTTTTAGAAAA
Found at i:23567005 original size:21 final size:21
Alignment explanation
Indices: 23566979--23567018 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
23566969 CGAAAATTTC
23566979 AAAACACGGAAATTT-TTTGTG
1 AAAACAC-GAAATTTGTTTGTG
23567000 AAAACACGAAATTTGTTTG
1 AAAACACGAAATTTGTTTG
23567019 AATATTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (21 bp):
AAAACACGAAATTTGTTTGTG
Found at i:23567345 original size:10 final size:10
Alignment explanation
Indices: 23567330--23567410 Score: 91
Period size: 10 Copynumber: 8.5 Consensus size: 10
23567320 AATTGAACCA
23567330 TTTCTTTTTT
1 TTTCTTTTTT
23567340 TTTC---TTT
1 TTTCTTTTTT
23567347 TTTCTTTTTT
1 TTTCTTTTTT
23567357 CTTTC-TTTTT
1 -TTTCTTTTTT
23567367 TTTC-TTTTT
1 TTTCTTTTTT
23567376 TTTCTTTTTT
1 TTTCTTTTTT
* * *
23567386 TTCCTTCTCT
1 TTTCTTTTTT
23567396 TTTCTTTTTT
1 TTTCTTTTTT
23567406 TTTCT
1 TTTCT
23567411 GCTGGGCTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
7 7 0.12
9 13 0.22
10 36 0.60
11 4 0.07
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:23567349 original size:7 final size:7
Alignment explanation
Indices: 23567337--23567405 Score: 72
Period size: 7 Copynumber: 9.9 Consensus size: 7
23567327 CCATTTCTTT
23567337 TTTTTTC
1 TTTTTTC
23567344 TTTTTTC
1 TTTTTTC
23567351 TTTTTTC
1 TTTTTTC
*
23567358 TTTCTT-
1 TTTTTTC
23567364 TTTTTTC
1 TTTTTTC
23567371 TTTTTT-
1 TTTTTTC
23567377 TTCTTTT-
1 TT-TTTTC
23567384 TTTTCCTTC
1 TTTT--TTC
*
23567393 TCTTTTC
1 TTTTTTC
23567400 TTTTTT
1 TTTTTT
23567406 TTTCTGCTGG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
6 9 0.17
7 39 0.74
8 2 0.04
9 3 0.06
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:23567361 original size:18 final size:17
Alignment explanation
Indices: 23567330--23567410 Score: 87
Period size: 17 Copynumber: 4.9 Consensus size: 17
23567320 AATTGAACCA
23567330 TTTCTTTTTTTTTCTTT
1 TTTCTTTTTTTTTCTTT
23567347 TTTCTTTTTTCTTTCTTT
1 TTTCTTTTTT-TTTCTTT
* *
23567365 TTT-TTCTTTTTT-TTC
1 TTTCTTTTTTTTTCTTT
** *
23567380 TTT-TTTTTCCTTCTCT
1 TTTCTTTTTTTTTCTTT
23567396 TTTCTTTTTTTTTCT
1 TTTCTTTTTTTTTCT
23567411 GCTGGGCTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
15 11 0.21
16 7 0.13
17 24 0.46
18 10 0.19
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTCTTTTTTTTTCTTT
Found at i:23567375 original size:28 final size:27
Alignment explanation
Indices: 23567330--23567406 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 27
23567320 AATTGAACCA
23567330 TTTCTTTTTTTT-TCTTTTTTCTTTTTT
1 TTTCTTTTTTTTCT-TTTTTTCTTTTTT
23567357 CTTTCTTTTTTTTCTTTTTTTTCTTTTTT
1 -TTTCTTTTTTTTC-TTTTTTTCTTTTTT
* *
23567386 TTCCTTCTCTTTTCTTTTTTT
1 TTTCTT-TTTTTTCTTTTTTT
23567407 TTCTGCTGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
28 24 0.55
29 19 0.43
30 1 0.02
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (27 bp):
TTTCTTTTTTTTCTTTTTTTCTTTTTT
Found at i:23567376 original size:29 final size:28
Alignment explanation
Indices: 23567330--23567407 Score: 104
Period size: 29 Copynumber: 2.8 Consensus size: 28
23567320 AATTGAACCA
*
23567330 TTTCTTTTTTTT-TCTTTTTTCTTTTTT
1 TTTCTTTTTTTTCTTTTTTTTCTTTTTT
23567357 CTTTCTTTTTTTTCTTTTTTTTCTTTTTT
1 -TTTCTTTTTTTTCTTTTTTTTCTTTTTT
* *
23567386 TTCCTTCTCTTTTCTTTTTTTT
1 TTTCTT-TTTTTTCTTTTTTTT
23567408 TCTGCTGGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 17 0.38
29 28 0.62
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (28 bp):
TTTCTTTTTTTTCTTTTTTTTCTTTTTT
Found at i:23567397 original size:37 final size:38
Alignment explanation
Indices: 23567330--23567407 Score: 108
Period size: 36 Copynumber: 2.1 Consensus size: 38
23567320 AATTGAACCA
*
23567330 TTTCTTTTTTTTTCTTTTTTCTTTTTTC-TTTCTTTTT
1 TTTCTTTTTTTTTCTTTTTTCTTTTCTCTTTTCTTTTT
23567367 TTTC-TTTTTTTTCTTTTTT-TTCCTTCTCTTTTCTTTTT
1 TTTCTTTTTTTTTCTTTTTTCTT--TTCTCTTTTCTTTTT
23567405 TTT
1 TTT
23567408 TCTGCTGGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
35 2 0.05
36 15 0.41
37 8 0.22
38 12 0.32
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (38 bp):
TTTCTTTTTTTTTCTTTTTTCTTTTCTCTTTTCTTTTT
Found at i:23567407 original size:1 final size:1
Alignment explanation
Indices: 23567334--23567387 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
23567324 GAACCATTTC
* * * * * *
23567334 TTTTTTTTTCTTTTTTCTTTTTTCTTTCTTTTTTTTCTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23567388 CCTTCTCTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:23567502 original size:19 final size:19
Alignment explanation
Indices: 23567478--23567517 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
23567468 CTGCTGCTGG
23567478 TGGCCTGCTG-GCTTGGGCC
1 TGGCCTGCTGCG-TTGGGCC
23567497 TGGCCTGCTGCGTTGGGCC
1 TGGCCTGCTGCGTTGGGCC
23567516 TG
1 TG
23567518 CTGAAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.00, C:0.30, G:0.42, T:0.28
Consensus pattern (19 bp):
TGGCCTGCTGCGTTGGGCC
Found at i:23567561 original size:13 final size:13
Alignment explanation
Indices: 23567541--23567574 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
23567531 GCTATTATGA
23567541 TTTTTTTTCT-GT
1 TTTTTTTTCTGGT
23567553 TTCTTTTTTCTGGT
1 TT-TTTTTTCTGGT
23567567 TTTTTTTT
1 TTTTTTTT
23567575 TTTTGCTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 14 0.70
14 4 0.20
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (13 bp):
TTTTTTTTCTGGT
Found at i:23567561 original size:14 final size:14
Alignment explanation
Indices: 23567541--23567575 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
23567531 GCTATTATGA
23567541 TTTTTTTTCT-GTT
1 TTTTTTTTCTGGTT
*
23567554 TCTTTTTTCTGGTT
1 TTTTTTTTCTGGTT
23567568 TTTTTTTT
1 TTTTTTTT
23567576 TTTGCTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.83
Consensus pattern (14 bp):
TTTTTTTTCTGGTT
Found at i:23567698 original size:3 final size:3
Alignment explanation
Indices: 23567692--23567723 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
23567682 TATTTTTTCT
23567692 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
23567724 TCTTTAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:23568111 original size:30 final size:30
Alignment explanation
Indices: 23568077--23568171 Score: 140
Period size: 29 Copynumber: 3.2 Consensus size: 30
23568067 GGCCGAAACA
**
23568077 TAATTTTGGGAAAGTTTAGGGGTCAAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
*
23568107 TAA-TTTAAAAAAGTTTAGGGGT-AAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
*
23568135 TAATTTTGAAAAATTTTAGGGGTCAAAATG
1 TAATTTTGAAAAAGTTTAGGGGTCAAAATG
23568165 TAATTTT
1 TAATTTT
23568172 TTATTTTTGT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
28 9 0.16
29 33 0.57
30 16 0.28
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (30 bp):
TAATTTTGAAAAAGTTTAGGGGTCAAAATG
Found at i:23586471 original size:20 final size:21
Alignment explanation
Indices: 23586446--23586491 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
23586436 ATATATTTAT
23586446 TTTTTTTAATTTTAAAAT-AA
1 TTTTTTTAATTTTAAAATAAA
*
23586466 TTTTTTTATTTTTAAAATAAA
1 TTTTTTTAATTTTAAAATAAA
23586487 TTTTT
1 TTTTT
23586492 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTTAATTTTAAAATAAA
Found at i:23586499 original size:20 final size:20
Alignment explanation
Indices: 23586456--23586499 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
23586446 TTTTTTTAAT
* * *
23586456 TTTAAAATAATTTTTTTATT
1 TTTAAAATAAATTTTTGATG
*
23586476 TTTAAAATAAATTTTTGGTG
1 TTTAAAATAAATTTTTGATG
23586496 TTTA
1 TTTA
23586500 TTAAAAAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTAAAATAAATTTTTGATG
Found at i:23589405 original size:14 final size:14
Alignment explanation
Indices: 23589382--23589433 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 14
23589372 TTTAATTAAT
23589382 TAAAAT-ATTATAA
1 TAAAATAATTATAA
23589395 TAAAATAATTATTAA
1 TAAAATAATTA-TAA
*
23589410 TAATAATATGATAATAA
1 TAA-AATA--ATTATAA
23589427 TAAAATA
1 TAAAATA
23589434 TTCCACCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 6 0.18
14 4 0.12
15 6 0.18
16 8 0.24
17 6 0.18
18 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TAAAATAATTATAA
Found at i:23591876 original size:97 final size:97
Alignment explanation
Indices: 23591710--23591911 Score: 404
Period size: 97 Copynumber: 2.1 Consensus size: 97
23591700 TTTGTGGACA
23591710 ACCTACCTGAGTAGAAGCAACAACTTCCTCGCATACTAAGCTCTGTCATCCATGGCGCTGGGCTT
1 ACCTACCTGAGTAGAAGCAACAACTTCCTCGCATACTAAGCTCTGTCATCCATGGCGCTGGGCTT
23591775 TATCTTTTCTTCTTGTCATCAGACACTTGTTT
66 TATCTTTTCTTCTTGTCATCAGACACTTGTTT
23591807 ACCTACCTGAGTAGAAGCAACAACTTCCTCGCATACTAAGCTCTGTCATCCATGGCGCTGGGCTT
1 ACCTACCTGAGTAGAAGCAACAACTTCCTCGCATACTAAGCTCTGTCATCCATGGCGCTGGGCTT
23591872 TATCTTTTCTTCTTGTCATCAGACACTTGTTT
66 TATCTTTTCTTCTTGTCATCAGACACTTGTTT
23591904 ACCTACCT
1 ACCTACCT
23591912 CACTATCTTC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 105 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.34
Consensus pattern (97 bp):
ACCTACCTGAGTAGAAGCAACAACTTCCTCGCATACTAAGCTCTGTCATCCATGGCGCTGGGCTT
TATCTTTTCTTCTTGTCATCAGACACTTGTTT
Found at i:23595422 original size:15 final size:16
Alignment explanation
Indices: 23595393--23595425 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23595383 TTAGTATTAC
23595393 TTTTAAAAATATATTT
1 TTTTAAAAATATATTT
*
23595409 TTTTTAAAAT-TATTT
1 TTTTAAAAATATATTT
23595424 TT
1 TT
23595426 CAAACTCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTAAAAATATATTT
Found at i:23595752 original size:18 final size:19
Alignment explanation
Indices: 23595723--23595778 Score: 96
Period size: 19 Copynumber: 2.9 Consensus size: 19
23595713 AAATAAACAT
23595723 TAAAAAATTATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
23595742 TAAAAAA-TATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
23595760 TAAAAAAATTATTTTAAAA
1 T-AAAAAATTATTTTAAAA
23595779 GTATTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.34
19 13 0.37
20 10 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAAATTATTTTAAAAA
Found at i:23595797 original size:19 final size:19
Alignment explanation
Indices: 23595716--23595778 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
23595706 ATTTTTAAAA
23595716 TAAACATTAAAAAATTATTT
1 TAAA-ATTAAAAAATTATTT
*
23595736 TAAAAATAAAAAA-TATTT
1 TAAAATTAAAAAATTATTT
*
23595754 TAAAAATAAAAAAATTATTT
1 T-AAAATTAAAAAATTATTT
23595774 TAAAA
1 TAAAA
23595779 GTATTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 6 0.16
19 22 0.58
20 10 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAATTAAAAAATTATTT
Found at i:23598325 original size:31 final size:31
Alignment explanation
Indices: 23598289--23598351 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
23598279 TTACAAATTT
23598289 AACTATTCTAACTAACAAAACAAATATTCTA
1 AACTATTCTAACTAACAAAACAAATATTCTA
23598320 AACTATTCTAACTAACAAAACAAATATTCTA
1 AACTATTCTAACTAACAAAACAAATATTCTA
23598351 A
1 A
23598352 GTTATCGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (31 bp):
AACTATTCTAACTAACAAAACAAATATTCTA
Found at i:23599209 original size:13 final size:13
Alignment explanation
Indices: 23599176--23599202 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23599166 TCTCTAACAA
23599176 TATGTTTACACAT
1 TATGTTTACACAT
23599189 TATGTTTACACAT
1 TATGTTTACACAT
23599202 T
1 T
23599203 TATTTTAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (13 bp):
TATGTTTACACAT
Found at i:23600255 original size:11 final size:11
Alignment explanation
Indices: 23600239--23600356 Score: 103
Period size: 11 Copynumber: 11.4 Consensus size: 11
23600229 TATTTTTTAA
23600239 TTTTAAAATAT
1 TTTTAAAATAT
23600250 TTTTAAAATAT
1 TTTTAAAATAT
23600261 TTTT---A-A-
1 TTTTAAAATAT
23600267 TTTTAAAATAT
1 TTTTAAAATAT
23600278 TTTTAAAATACT
1 TTTTAAAATA-T
*
23600290 TTTT-TAA-A-
1 TTTTAAAATAT
23600298 TTTTAAAATAT
1 TTTTAAAATAT
23600309 TTTTAAAATACT
1 TTTTAAAATA-T
** *
23600321 TTTT--TTTAA
1 TTTTAAAATAT
23600330 TTTTAAAATAT
1 TTTTAAAATAT
23600341 TTTTAAAATACT
1 TTTTAAAATA-T
23600353 TTTT
1 TTTT
23600357 TTAATTTTTA
Statistics
Matches: 86, Mismatches: 8, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
6 4 0.05
7 1 0.01
8 5 0.06
9 7 0.08
10 5 0.06
11 49 0.57
12 15 0.17
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:23600303 original size:20 final size:19
Alignment explanation
Indices: 23600237--23600317 Score: 76
Period size: 19 Copynumber: 4.2 Consensus size: 19
23600227 TTTATTTTTT
23600237 AATTTTAAAATATTTTTAA
1 AATTTTAAAATATTTTTAA
** *
23600256 AATATTT-TTA-ATTTTAAA
1 AAT-TTTAAAATATTTTTAA
*
23600274 ATATTTTTAAAATACTTTTTTA
1 A-A-TTTTAAAATA-TTTTTAA
23600296 AATTTTAAAATATTTTTAA
1 AATTTTAAAATATTTTTAA
23600315 AAT
1 AAT
23600318 ACTTTTTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
18 8 0.17
19 17 0.35
20 15 0.31
21 2 0.04
22 6 0.12
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTTAAAATATTTTTAA
Found at i:23600332 original size:32 final size:31
Alignment explanation
Indices: 23600191--23600371 Score: 238
Period size: 32 Copynumber: 6.1 Consensus size: 31
23600181 TAAATACATT
*
23600191 TATTTTTTAAAT--TTTTTTTAATTTTAAAA
1 TATTTTTAAAATACTTTTTTTAATTTTAAAA
*
23600220 TACTTTTT---TTA--TTTTTTAATTTTAAAA
1 TA-TTTTTAAAATACTTTTTTTAATTTTAAAA
23600247 TATTTTTAAAATA---TTTTTAATTTTAAAA
1 TATTTTTAAAATACTTTTTTTAATTTTAAAA
*
23600275 TATTTTTAAAATACTTTTTTAAATTTTAAAA
1 TATTTTTAAAATACTTTTTTTAATTTTAAAA
23600306 TATTTTTAAAATACTTTTTTTTAATTTTAAAA
1 TATTTTTAAAATAC-TTTTTTTAATTTTAAAA
23600338 TATTTTTAAAATACTTTTTTTAATTTTTAAAA
1 TATTTTTAAAATACTTTTTTTAA-TTTTAAAA
23600370 TA
1 TA
23600372 AANNNNNNNN
Statistics
Matches: 138, Mismatches: 4, Indels: 17
0.87 0.03 0.11
Matches are distributed among these distances:
26 5 0.04
27 19 0.14
28 28 0.20
29 4 0.03
30 5 0.04
31 37 0.27
32 40 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (31 bp):
TATTTTTAAAATACTTTTTTTAATTTTAAAA
Found at i:23600712 original size:23 final size:24
Alignment explanation
Indices: 23600665--23600710 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
23600655 AATAATTTTT
*
23600665 TAAAATCTAAAAATACATAACAAA
1 TAAAATCTAAAAATACATAAAAAA
23600689 TAAAAT-TAAAAATA-ATAAAAAA
1 TAAAATCTAAAAATACATAAAAAA
23600711 ATTCAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 8 0.38
24 6 0.29
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (24 bp):
TAAAATCTAAAAATACATAAAAAA
Found at i:23600870 original size:27 final size:27
Alignment explanation
Indices: 23600816--23600874 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
23600806 AACACCAATT
* *
23600816 TTTTTAATTTTTAAAATATTTTTTTAA
1 TTTTTAATTTTTAAAATATTCTTGTAA
*
23600843 TTTTTATATTTTTACAAT-TTCTTGTAA
1 TTTTTA-ATTTTTAAAATATTCTTGTAA
23600870 TTTTT
1 TTTTT
23600875 TTAAAAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTTAATTTTTAAAATATTCTTGTAA
Found at i:23600875 original size:28 final size:28
Alignment explanation
Indices: 23600815--23600875 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
23600805 CAACACCAAT
* *
23600815 TTTTTTAATTTTTAAAATATTTTTTTAA
1 TTTTTTAATTTTTAAAATATTCTTGTAA
*
23600843 -TTTTTATATTTTTACAAT-TTCTTGTAA
1 TTTTTTA-ATTTTTAAAATATTCTTGTAA
23600870 TTTTTT
1 TTTTTT
23600876 TAAAAATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTTTTAATTTTTAAAATATTCTTGTAA
Found at i:23600998 original size:20 final size:19
Alignment explanation
Indices: 23600957--23600998 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
23600947 TATTTTTAAC
*
23600957 AAATTTTAATTTTTTTTCA
1 AAATTTTAATTTTTCTTCA
23600976 AAATTTTAAGGTTTTTCTT-A
1 AAATTTTAA--TTTTTCTTCA
23600996 AAA
1 AAA
23600999 AAAATTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 4 0.20
21 7 0.35
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
AAATTTTAATTTTTCTTCA
Found at i:23605218 original size:16 final size:18
Alignment explanation
Indices: 23605197--23605229 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23605187 TTAAACACAA
23605197 AATTAA-AC-AAATTTAC
1 AATTAACACTAAATTTAC
23605213 AATTAACACTAAATTTA
1 AATTAACACTAAATTTA
23605230 TTCTATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAACACTAAATTTAC
Found at i:23616865 original size:7 final size:7
Alignment explanation
Indices: 23616853--23616877 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23616843 TTGAAAAACC
23616853 CAAATTT
1 CAAATTT
23616860 CAAATTT
1 CAAATTT
23616867 CAAATTT
1 CAAATTT
23616874 CAAA
1 CAAA
23616878 ACTTGACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (7 bp):
CAAATTT
Found at i:23621081 original size:13 final size:13
Alignment explanation
Indices: 23621063--23621088 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23621053 TTTTCTACAC
23621063 TTTTTCGTTGAAA
1 TTTTTCGTTGAAA
23621076 TTTTTCGTTGAAA
1 TTTTTCGTTGAAA
23621089 AAATAGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTTTCGTTGAAA
Found at i:23621319 original size:12 final size:11
Alignment explanation
Indices: 23621286--23621318 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
23621276 TTCTTATAAT
23621286 TTATAATTTTTA
1 TTAT-ATTTTTA
23621298 TTATATTTTTA
1 TTATATTTTTA
23621309 TTATATTTTT
1 TTATATTTTT
23621319 TTTCTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATATTTTTA
Found at i:23624878 original size:110 final size:110
Alignment explanation
Indices: 23624708--23624930 Score: 437
Period size: 110 Copynumber: 2.0 Consensus size: 110
23624698 CCTACGAAAA
*
23624708 CAAAAGAGGATTCAATAGAGGGTCCAGGTATGTCTTCTTCACCGAAAATTTTATGCTCTAAGAGT
1 CAAAAGAGGATTCAATAGAGGATCCAGGTATGTCTTCTTCACCGAAAATTTTATGCTCTAAGAGT
23624773 TAAAATCAAGTGGTTGTCGACAAATTTATGTAATAAGATAAACTG
66 TAAAATCAAGTGGTTGTCGACAAATTTATGTAATAAGATAAACTG
23624818 CAAAAGAGGATTCAATAGAGGATCCAGGTATGTCTTCTTCACCGAAAATTTTATGCTCTAAGAGT
1 CAAAAGAGGATTCAATAGAGGATCCAGGTATGTCTTCTTCACCGAAAATTTTATGCTCTAAGAGT
23624883 TAAAATCAAGTGGTTGTCGACAAATTTATGTAATAAGATAAACTG
66 TAAAATCAAGTGGTTGTCGACAAATTTATGTAATAAGATAAACTG
23624928 CAA
1 CAA
23624931 TGATTGCAGC
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 112 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (110 bp):
CAAAAGAGGATTCAATAGAGGATCCAGGTATGTCTTCTTCACCGAAAATTTTATGCTCTAAGAGT
TAAAATCAAGTGGTTGTCGACAAATTTATGTAATAAGATAAACTG
Found at i:23630795 original size:26 final size:28
Alignment explanation
Indices: 23630741--23630796 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
23630731 TACATATTTC
*
23630741 ATATGCTTTTATTATTTAGTTTCAAATT
1 ATATGCTTTCATTATTTAGTTTCAAATT
* *
23630769 ATATG-TTTCATTA-TTATTTTCATATT
1 ATATGCTTTCATTATTTAGTTTCAAATT
23630795 AT
1 AT
23630797 TTTTAAACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 13 0.52
27 7 0.28
28 5 0.20
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (28 bp):
ATATGCTTTCATTATTTAGTTTCAAATT
Found at i:23632549 original size:16 final size:16
Alignment explanation
Indices: 23632512--23632551 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
23632502 TTAATAAAAT
* *
23632512 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
23632528 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
23632544 TAAAATTA
1 TAAAATTA
23632552 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:23632621 original size:66 final size:67
Alignment explanation
Indices: 23632540--23632682 Score: 252
Period size: 68 Copynumber: 2.1 Consensus size: 67
23632530 AAATTAATTG
*
23632540 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
23632604 GA
66 GA
*
23632606 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
23632671 TGA
65 TGA
23632674 TTAGTAAAA
1 TTAGTAAAA
23632683 CAAACTTGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
66 26 0.36
68 46 0.64
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:23632636 original size:9 final size:9
Alignment explanation
Indices: 23632624--23632651 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
23632614 TTTATCAAAT
23632624 TATTAATTG
1 TATTAATTG
23632633 TATTAATTG
1 TATTAATTG
23632642 TATTAATTG
1 TATTAATTG
23632651 T
1 T
23632652 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:23632788 original size:22 final size:24
Alignment explanation
Indices: 23632748--23632791 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
23632738 AAATAAACTT
23632748 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
23632772 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
23632792 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:23637704 original size:22 final size:20
Alignment explanation
Indices: 23637657--23637723 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
23637647 TATTCTTTAG
*
23637657 AATTTTGTAAAAT-TTCTATA
1 AATTTTATAAAATATT-TATA
*
23637677 ATTTTTATAAAATATATATATA
1 AATTTTATAAAATAT-T-TATA
23637699 AATTTTAT-AAATATTT-TA
1 AATTTTATAAAATATTTATA
23637717 AATTTTA
1 AATTTTA
23637724 AAATTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.22
19 1 0.02
20 12 0.29
21 7 0.17
22 12 0.29
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (20 bp):
AATTTTATAAAATATTTATA
Found at i:23637707 original size:9 final size:9
Alignment explanation
Indices: 23637666--23637729 Score: 51
Period size: 9 Copynumber: 6.7 Consensus size: 9
23637656 GAATTTTGTA
23637666 AAATTTCTAT
1 AAATTT-TAT
*
23637676 AATTTTTAT
1 AAATTTTAT
23637685 AAAATATATATAT
1 -AAAT-T-T-TAT
23637698 AAATTTTAT
1 AAATTTTAT
23637707 AAATATTT-T
1 AAAT-TTTAT
23637716 AAATTTTA-
1 AAATTTTAT
23637724 AAATTT
1 AAATTT
23637730 ATTTTGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
8 9 0.20
9 15 0.33
10 12 0.26
11 2 0.04
12 5 0.11
13 3 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
AAATTTTAT
Found at i:23637707 original size:11 final size:10
Alignment explanation
Indices: 23637657--23637716 Score: 50
Period size: 11 Copynumber: 5.7 Consensus size: 10
23637647 TATTCTTTAG
*
23637657 AATTTTGTAA
1 AATTTTATAA
23637667 AATTTCTAT-A
1 AATTT-TATAA
*
23637677 ATTTTTATAA
1 AATTTTATAA
*
23637687 AATATATATATA
1 AAT-TTTATA-A
23637699 AATTTTATAA
1 AATTTTATAA
23637709 ATATTTTA
1 A-ATTTTA
23637717 AATTTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
9 3 0.08
10 15 0.38
11 18 0.45
12 4 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (10 bp):
AATTTTATAA
Found at i:23637734 original size:19 final size:18
Alignment explanation
Indices: 23637697--23637754 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 18
23637687 AATATATATA
23637697 TAAATTTTATAAA-TATTT
1 TAAATTTTA-AAATTATTT
23637715 TAAATTTTAAAATTTATTT
1 TAAATTTTAAAA-TTATTT
*
23637734 TGAATTTTTGAAAATTATTT
1 T-AAATTTT-AAAATTATTT
23637754 T
1 T
23637755 TTTTTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 6 0.17
20 13 0.37
21 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TAAATTTTAAAATTATTT
Found at i:23637913 original size:31 final size:29
Alignment explanation
Indices: 23637843--23637916 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
23637833 GGCTCAGGTT
*
23637843 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTA
* ***
23637872 ACGTTTTAGTCACTTATGTTATCGCGTTGTA
1 ACATTTTAGTCACTTATGTT-T-GAAATGTA
23637903 ACATTTTAGTCACT
1 ACATTTTAGTCACT
23637917 GAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 1 0.03
31 17 0.46
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTA
Found at i:23640158 original size:2 final size:2
Alignment explanation
Indices: 23640151--23640179 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23640141 TGTATATGCT
23640151 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 T
23640180 TCGTAAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23641901 original size:13 final size:13
Alignment explanation
Indices: 23641883--23641908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23641873 AAAGAGATTT
23641883 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
23641896 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
23641909 AAAATTGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:23643642 original size:63 final size:63
Alignment explanation
Indices: 23643543--23643669 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
23643533 GTAACTCGTC
23643543 TAGTGCAGGAAATCCGCTACCCAAACATGATTGATGATGGAGGGAATGCAATGAATGAAGAAG
1 TAGTGCAGGAAATCCGCTACCCAAACATGATTGATGATGGAGGGAATGCAATGAATGAAGAAG
23643606 TAGTGCAGGAAATCCGCTACCCAAACATGATTGATGATGGAGGGAATGCAATGAATGAAGAAG
1 TAGTGCAGGAAATCCGCTACCCAAACATGATTGATGATGGAGGGAATGCAATGAATGAAGAAG
23643669 T
1 T
23643670 GGTGAATAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (63 bp):
TAGTGCAGGAAATCCGCTACCCAAACATGATTGATGATGGAGGGAATGCAATGAATGAAGAAG
Found at i:23643925 original size:21 final size:21
Alignment explanation
Indices: 23643896--23643943 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
23643886 TGAGCAAATG
23643896 TTTTT-TCATTCTTTACA-ATT
1 TTTTTCTCATTCTTT-CAGATT
23643916 TTTTTCTCATTCTTTCAGATT
1 TTTTTCTCATTCTTTCAGATT
23643937 TTTTTCT
1 TTTTTCT
23643944 GCCAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTCTCATTCTTTCAGATT
Found at i:23644899 original size:7 final size:7
Alignment explanation
Indices: 23644874--23644915 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
23644864 AATGATGTGA
23644874 AAAAATG
1 AAAAATG
23644881 AAAAGATG
1 AAAA-ATG
23644889 -AAAATG
1 AAAAATG
23644895 AAAAATG
1 AAAAATG
23644902 AAAAA-G
1 AAAAATG
23644908 TAAAAATG
1 -AAAAATG
23644916 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:23644913 original size:21 final size:21
Alignment explanation
Indices: 23644874--23644915 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23644864 AATGATGTGA
*
23644874 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
23644895 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
23644916 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:23646256 original size:87 final size:87
Alignment explanation
Indices: 23646149--23646359 Score: 314
Period size: 87 Copynumber: 2.4 Consensus size: 87
23646139 CAGTGAAATT
* *
23646149 ATAAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAAGTTAAAGATAGCAAATCTTGCCTTCTTGCA
1 ATAAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAAGTTAAAGATAGCAAATCTTGCCTTCCTACA
*
23646214 TCGACAGTGAAGCAGATCGAAA
66 TCGACAGCGAAGCAGATCGAAA
*
23646236 ATAAAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAAGTTAAAGATAGCAAATCTTGCCTTCCTACA
1 ATAAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAAGTTAAAGATAGCAAATCTTGCCTTCCTACA
* * *
23646301 TTGACAGCGAAGCAGATTGAAG
66 TCGACAGCGAAGCAGATCGAAA
* * * *
23646323 ATACCAGCCTTACCTCCCTCGGTGGTAGTGGAGCAAG
1 ATA-AAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAAG
23646360 GATGGCGGAT
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
87 83 0.75
88 28 0.25
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (87 bp):
ATAAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAAGTTAAAGATAGCAAATCTTGCCTTCCTACA
TCGACAGCGAAGCAGATCGAAA
Found at i:23646293 original size:44 final size:44
Alignment explanation
Indices: 23646156--23646293 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
23646146 ATTATAAAGC
*
23646156 CTTGCCTCCCTCAGTTGTAGTGGAGCAAGTTAAAGATAGCAAAT
1 CTTGCCTCCCTCAGTTGCAGTGGAGCAAGTTAAAGATAGCAAAT
* * * * * **
23646200 CTTGCCTTCTTGCA-TCGACAGTGAAGC-AGATCGAAA-ATA--AAGC
1 CTTGCCTCCCT-CAGTTG-CAGTGGAGCAAG-T-TAAAGATAGCAAAT
23646243 CTTGCCTCCCTCAGTTGCAGTGGAGCAAGTTAAAGATAGCAAAT
1 CTTGCCTCCCTCAGTTGCAGTGGAGCAAGTTAAAGATAGCAAAT
23646287 CTTGCCT
1 CTTGCCT
23646294 TCCTACATTG
Statistics
Matches: 70, Mismatches: 15, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
41 3 0.04
42 14 0.20
43 15 0.21
44 22 0.31
45 13 0.19
46 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (44 bp):
CTTGCCTCCCTCAGTTGCAGTGGAGCAAGTTAAAGATAGCAAAT
Found at i:23646480 original size:44 final size:45
Alignment explanation
Indices: 23646416--23646605 Score: 162
Period size: 44 Copynumber: 4.3 Consensus size: 45
23646406 CCAGTAATTC
23646416 TATCTCCCT-GAGCAACAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGAGCAACAGTGGAATAGATTGAAGATTACAGATCT
* * ** * ** *
23646460 TATCTCCCTAGA-CAATAGTGGAGTAGATCAAATATGGCAGATTT
1 TATCTCCCTAGAGCAACAGTGGAATAGATTGAAGATTACAGATCT
* ** * * * *
23646504 TACCTCCCTA-AGGTTACAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCTAGA-GCAACAGTGGAATAGATTGAAG--ATTACAGATCT
23646548 TATCTCCCT-GAGCAACAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGAGCAACAGTGGAATAGATTGAAGATTACAGATCT
23646592 TATCTCCCTA-AGCA
1 TATCTCCCTAGAGCA
23646606 GTAATGGAGA
Statistics
Matches: 108, Mismatches: 28, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 21 0.19
44 64 0.59
45 17 0.16
46 1 0.01
47 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (45 bp):
TATCTCCCTAGAGCAACAGTGGAATAGATTGAAGATTACAGATCT
Found at i:23646510 original size:132 final size:132
Alignment explanation
Indices: 23646360--23647197 Score: 1228
Period size: 132 Copynumber: 6.3 Consensus size: 132
23646350 GTGGAGCAAG
*
23646360 GATGGCGGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* *
23646425 GAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT-AGACAATAGTGGAGTAGATC
66 GAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATC
*
23646489 AAA
130 GAA
* * *
23646492 TATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
23646557 GAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAATGGAGAAGATCA
66 GAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
23646622 AA
131 AA
* * *
23646624 GATGGTGGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAACCAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
23646689 GAGCAACAGTGGAATAAATTGAAGATTGCAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCG
66 GAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
23646754 AA
131 AA
**
23646756 GATGGCGGATGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTGGTAATTCTAT
1 GATGGC------GGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
* * * * *
23646821 CTCCCTGGGCAGCAGTTGAATAGATTGAAGATTACAGATTTTATCTTCCTAAGCAGTAGTGGAGC
60 CTCCCTGAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
*
23646886 GGATCGAA
125 AGATCGAA
* **
23646894 GATGGCGGATGTGGATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCTGGTAATTCTAT
1 GATGGC------GGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
* * * * *
23646959 CTCCCTGGGCAGCAGTTGAATAGATTGAAGATTACAGATTTTATCTTCCTAAGCAGTAGTGGAGC
60 CTCCCTGAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
23647024 AGATCGAA
125 AGATCGAA
* *
23647032 GATGGCGGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCAT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*
23647097 GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
23647162 AA
131 AA
*
23647164 GATGGCGGATTTTACCTCTCTGAGGTTACAGTGG
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGG
23647198 NNNNNNNNNN
Statistics
Matches: 653, Mismatches: 46, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
132 396 0.61
133 2 0.00
138 255 0.39
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AA
Found at i:23647004 original size:44 final size:44
Alignment explanation
Indices: 23646818--23647140 Score: 118
Period size: 44 Copynumber: 7.2 Consensus size: 44
23646808 CTGGTAATTC
*
23646818 TATCTCCCTGGGCAGCAGTTGAATAGATTGAAGATTACAGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATTT
* ** * *** * **
23646862 TATCTTCCTAAGCAGTAGTGGAGCGGATCGAAGATGGCGGATGTGGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTAC--A----GATTT
* ** * * * *** *
23646912 TACCTCCCTGAAGTTA-CAGTGGAGTACATTGAAGCTGGTA-ATTC
1 TATCTCCCTG--GGCAGCAGTGGAATAGATTGAAGATTACAGATTT
*
23646956 TATCTCCCTGGGCAGCAGTTGAATAGATTGAAGATTACAGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATTT
* ** * ** * ** *
23647000 TATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATTT
* ** * * * *
23647044 TACCTCCCTAAGGTTA-CAGTGGAGTACATTGAAG---CCAGTAATTC
1 TATCTCCCT--GGGCAGCAGTGGAATAGATTGAAGATTACAG--ATTT
* * *
23647088 TATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATTT
23647132 TATCTCCCT
1 TATCTCCCT
23647141 AAGCAGTAGT
Statistics
Matches: 191, Mismatches: 70, Indels: 36
0.64 0.24 0.12
Matches are distributed among these distances:
42 7 0.04
43 33 0.17
44 102 0.53
45 14 0.07
46 5 0.03
49 1 0.01
50 12 0.06
51 16 0.08
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATTT
Found at i:23647165 original size:44 final size:44
Alignment explanation
Indices: 23646980--23647166 Score: 114
Period size: 44 Copynumber: 4.2 Consensus size: 44
23646970 GCAGTTGAAT
* *
23646980 AGATTGAAGATTACAGATTTTATCTTCCTAAGCAGTAGTGGAGC
1 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
* ** * * * *
23647024 AGATCGAAGATGGCGGATTTTACCTCCCTAAG--GTTACAGTGGAGT
1 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAG-T--AGTGGAGC
* * * * ** ** **
23647069 ACATTGAAGCCAGTA-A-TTC-TATCTCCATGGGCAACAGTGGAAT
1 AGATTGAAG--ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
23647112 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
*
23647156 AGATCGAAGAT
1 AGATTGAAGAT
23647167 GGCGGATTTT
Statistics
Matches: 100, Mismatches: 33, Indels: 20
0.65 0.22 0.13
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 18 0.18
44 61 0.61
45 15 0.15
47 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
Found at i:23647506 original size:45 final size:44
Alignment explanation
Indices: 23647440--23647557 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
23647430 NNNNNNTCTT
*
23647440 ATCTCCCTGAAGTTGCAGTGGAGCGGA-CAGAAGAAAGCAGATCTC
1 ATCTCCCTGAAGTTACAGTGGAGCGGATCA-AA-AAAGCAGATCTC
* * * **
23647485 ATCTCCCTGAAGTTACTGTGGAGTGGATTAAAATCGCAGATCTC
1 ATCTCCCTGAAGTTACAGTGGAGCGGATCAAAAAAGCAGATCTC
* * *
23647529 ATCTCTCTGAAGTTGCAGTAGAGCGGATC
1 ATCTCCCTGAAGTTACAGTGGAGCGGATC
23647558 GCATCAGATG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 33 0.55
45 26 0.43
46 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
ATCTCCCTGAAGTTACAGTGGAGCGGATCAAAAAAGCAGATCTC
Found at i:23648542 original size:45 final size:44
Alignment explanation
Indices: 23648485--23648602 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
23648475 ACCCAGTCTT
23648485 ATCTCCCTGAAGTTGCAGTGGAGCGGA-CAGAAGAAAGCAGATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCGGATCA-AA-AAAGCAGATCTC
* * * * **
23648530 ATCTCCCTGAAGTTACTGTGGAGTGGATTAAAATCGCAGATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAAAAGCAGATCTC
* *
23648574 ATCTCTCTGAAGTTGCAGTAGAGCGGATC
1 ATCTCCCTGAAGTTGCAGTGGAGCGGATC
23648603 GCATCAGATG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 33 0.55
45 26 0.43
46 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAAAAGCAGATCTC
Found at i:23655182 original size:56 final size:59
Alignment explanation
Indices: 23655058--23655213 Score: 146
Period size: 56 Copynumber: 2.7 Consensus size: 59
23655048 TTGAGACCTA
* * *
23655058 AACTTGGCAATTGTTCGCACATTGAGATCTGAACTTTTTTTTGTCTAAGTTAGTCTCTG
1 AACTTGACAATTGTTCCCACATTGAGATCTGAACTTTTTTTTGTCTAAGTTACTCTCTG
* *
23655117 AA-TTCGACAATTGTTCCCATATTG-GAGCTTGAA-TTTTTTTT-TC-AAGTTACTC-CATG
1 AACTT-GACAATTGTTCCCACATTGAGATC-TGAACTTTTTTTTGTCTAAGTTACTCTC-TG
* * * *
23655173 AACTTGACAATTATTCTCACATT-AGTGTTTGAACTTTTTTT
1 AACTTGACAATTGTTCCCACATTGAG-ATCTGAACTTTTTTT
23655214 GGCCCACGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
55 1 0.01
56 32 0.41
57 11 0.14
58 13 0.16
59 22 0.28
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (59 bp):
AACTTGACAATTGTTCCCACATTGAGATCTGAACTTTTTTTTGTCTAAGTTACTCTCTG
Found at i:23659552 original size:49 final size:49
Alignment explanation
Indices: 23659496--23659644 Score: 289
Period size: 49 Copynumber: 3.0 Consensus size: 49
23659486 TTTGGTTCAC
23659496 TTACATAATAGCTCTTTCTTTTCTTCTTTGGATTAGACTATTGCAACTA
1 TTACATAATAGCTCTTTCTTTTCTTCTTTGGATTAGACTATTGCAACTA
23659545 TTACATAATAGCTCTTTCTTTTCTTCTTTGGATTAGACTATTGCAACTA
1 TTACATAATAGCTCTTTCTTTTCTTCTTTGGATTAGACTATTGCAACTA
*
23659594 TTACATAATAGCTCTTTCTTTTCTTCTTTGGATTAGACTATTACAACTA
1 TTACATAATAGCTCTTTCTTTTCTTCTTTGGATTAGACTATTGCAACTA
23659643 TT
1 TT
23659645 TAGCTAAGAC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 99 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (49 bp):
TTACATAATAGCTCTTTCTTTTCTTCTTTGGATTAGACTATTGCAACTA
Done.