Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 48 of 250
Found at i:15171527 original size:21 final size:19
Alignment explanation
Indices: 15171503--15171545 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
15171493 GAAAGTAAAA
15171503 TAAAACAAAAGAAAAAGGAAT
1 TAAAACAAAA-AAAAA-GAAT
* *
15171524 TAAAATAAAACAAAAGAAT
1 TAAAACAAAAAAAAAGAAT
15171543 TAA
1 TAA
15171546 GAAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.72, C:0.05, G:0.09, T:0.14
Consensus pattern (19 bp):
TAAAACAAAAAAAAAGAAT
Found at i:15180222 original size:37 final size:37
Alignment explanation
Indices: 15180172--15180250 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
15180162 TTATTACGAA
* *
15180172 GTCTTACCCGGACATAA-TCTCCACACAAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACAAAGTCATCGG
* **
15180209 GTCTTACTCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACAAAGTCATCGG
15180246 GTCTT
1 GTCTT
15180251 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 34 0.94
38 2 0.06
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACAAAGTCATCGG
Found at i:15190952 original size:29 final size:29
Alignment explanation
Indices: 15190919--15191038 Score: 147
Period size: 29 Copynumber: 4.1 Consensus size: 29
15190909 ACATACATGC
15190919 ATATGGCCCATCT-GGCCCAATTCACATTCT
1 ATATGGCCCAT-TAGGCCCAATTCACATT-T
* **
15190949 -TATGGCCTACCAGGCCCAATTCACATTT
1 ATATGGCCCATTAGGCCCAATTCACATTT
*
15190977 ATATGGCCTATTAGGCCCAATTCACATTT
1 ATATGGCCCATTAGGCCCAATTCACATTT
*
15191006 ATATGGCCCATTAGGCCCAGA-TCACATTC
1 ATATGGCCCATTAGGCCCA-ATTCACATTT
15191035 ATAT
1 ATAT
15191039 TCATGCTCAC
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
28 1 0.01
29 78 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAATTCACATTT
Found at i:15191119 original size:17 final size:18
Alignment explanation
Indices: 15191097--15191130 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15191087 TTCCTATTAT
15191097 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
15191114 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
15191131 TTAGGCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:15191140 original size:10 final size:10
Alignment explanation
Indices: 15191115--15191146 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
15191105 TAGCCCATCG
15191115 GGCCCATTTA
1 GGCCCATTTA
15191125 -GCCCATTTA
1 GGCCCATTTA
15191134 GGCCCATTT-
1 GGCCCATTTA
15191143 GGCC
1 GGCC
15191147 AATTCATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.16, C:0.34, G:0.22, T:0.28
Consensus pattern (10 bp):
GGCCCATTTA
Found at i:15191286 original size:8 final size:8
Alignment explanation
Indices: 15191249--15191291 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
15191239 GCAGCCAAAC
*
15191249 TTTCGACT
1 TTTCGGCT
*
15191257 TTTCGACT
1 TTTCGGCT
*
15191265 TTTCGGCA
1 TTTCGGCT
*
15191273 TGTCGGCT
1 TTTCGGCT
15191281 TTTCGGCT
1 TTTCGGCT
15191289 TTT
1 TTT
15191292 GCCGATCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.07, C:0.23, G:0.21, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:15206063 original size:39 final size:39
Alignment explanation
Indices: 15206020--15206266 Score: 406
Period size: 39 Copynumber: 6.3 Consensus size: 39
15206010 TAATGGAGAA
15206020 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
15206059 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
15206098 TTATATCCAGGCTAAGTCCCGATGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
15206137 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
15206176 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
15206215 CTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
15206254 TTATATCCGGGCT
1 TTATATCCGGGCT
15206267 TAAAGTCCTG
Statistics
Matches: 194, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 182 0.94
40 12 0.06
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:15231458 original size:20 final size:21
Alignment explanation
Indices: 15231418--15231458 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15231408 ACTTATATAA
* *
15231418 CTATCATCAAGCATTCAAAAT
1 CTATCATCAAACATCCAAAAT
15231439 CTATCATCAAACA-CCAAAAT
1 CTATCATCAAACATCCAAAAT
15231459 AATCATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.24
Consensus pattern (21 bp):
CTATCATCAAACATCCAAAAT
Found at i:15232402 original size:39 final size:39
Alignment explanation
Indices: 15232362--15232576 Score: 335
Period size: 39 Copynumber: 5.5 Consensus size: 39
15232352 GTTCACTTTT
* *
15232362 AAGCATATATCACATTACAT-ATATAATCACATAACATTT
1 AAGCATATATCACAATAC-TCATATAATCACATAACATTC
*
15232401 AAGCATATATCACAATACTCATATAATCATATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
15232440 -AGCATATATCACAATACTCATATAATCTCATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* **
15232478 AAACATATATCACAATACTCATATAATTGCATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
15232517 AAGCATATATCATAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
15232556 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
15232577 AAAACATGTT
Statistics
Matches: 161, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
38 37 0.23
39 124 0.77
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:15232412 original size:22 final size:22
Alignment explanation
Indices: 15232359--15232414 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 22
15232349 CATGTTCACT
*
15232359 TTTAAGCATATATCACATTACA
1 TTTAAGCATATATCACATAACA
*
15232381 --T-A-TATA-ATCACATAACA
1 TTTAAGCATATATCACATAACA
15232398 TTTAAGCATATATCACA
1 TTTAAGCATATATCACA
15232415 ATACTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 10
0.67 0.08 0.26
Matches are distributed among these distances:
17 10 0.38
18 3 0.12
19 2 0.08
20 2 0.08
21 3 0.12
22 6 0.23
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (22 bp):
TTTAAGCATATATCACATAACA
Found at i:15232452 original size:77 final size:78
Alignment explanation
Indices: 15232362--15232576 Score: 335
Period size: 77 Copynumber: 2.8 Consensus size: 78
15232352 GTTCACTTTT
* *
15232362 AAGCATATATCACATTACAT-ATATAATCACATAACATTTAAGCATATATCACAATACTCATATA
1 AAGCATATATCACAATAC-TCATATAATCACATAACATTCAAGCATATATCACAATACTCATATA
*
15232426 ATCATATAACATTC
65 ATCACATAACATTC
* *
15232440 -AGCATATATCACAATACTCATATAATCTCATAACATTCAAACATATATCACAATACTCATATAA
1 AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCATATAA
**
15232504 TTGCATAACATTC
66 TCACATAACATTC
*
15232517 AAGCATATATCATAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCA
15232577 AAAACATGTT
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
76 1 0.01
77 68 0.54
78 56 0.45
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (78 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCATATAA
TCACATAACATTC
Found at i:15232512 original size:116 final size:117
Alignment explanation
Indices: 15232365--15232576 Score: 347
Period size: 116 Copynumber: 1.8 Consensus size: 117
15232355 CACTTTTAAG
* *
15232365 CATATATCACATTACATATATAATCACATAACATTTAAGCATATATCACAATACTCATATAATCA
1 CATATATCACAATACATATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCA
*
15232430 TATAACATTC-AGCATATATCACAATACTCATATAATCTCATAACATTCAAA
66 CATAACATTCAAGCATATATCACAATACTCATATAATCTCATAACATTCAAA
** *
15232481 CATATATCACAATAC-TCATATAATTGCATAACATTCAAGCATATATCATAATACTCATATAATC
1 CATATATCACAATACAT-ATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATC
15232545 ACATAACATTCAAGCATATATCACAATACTCA
65 ACATAACATTCAAGCATATATCACAATACTCA
15232577 AAAACATGTT
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
115 1 0.01
116 67 0.76
117 20 0.23
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (117 bp):
CATATATCACAATACATATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCA
CATAACATTCAAGCATATATCACAATACTCATATAATCTCATAACATTCAAA
Found at i:15234953 original size:27 final size:27
Alignment explanation
Indices: 15234905--15235063 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
15234895 GCGAGGCTGC
* *
15234905 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
15234932 TAGATATTGTGGCAGAGGCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
15234958 CAGATATATGTGGCAGAGCCACCATAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
15234985 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
15235012 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
15235039 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
15235064 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.08
27 98 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:15235008 original size:54 final size:54
Alignment explanation
Indices: 15234923--15235063 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
15234913 GTGACGAAGT
* * * *
15234923 CACCAGATATAGAT-ATTGTGGCAGAGGCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
15234977 CACCATATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
15235031 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
15235064 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.05
54 75 0.95
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:15236697 original size:26 final size:26
Alignment explanation
Indices: 15236667--15236748 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
15236657 TGAAACTCCC
15236667 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
15236693 ATCATGAAACATTTACGTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15236719 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15236745 ATCA
1 ATCA
15236749 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15240202 original size:51 final size:51
Alignment explanation
Indices: 15240126--15240286 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
15240116 CTGATTACAT
*
15240126 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
15240177 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
15240228 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
15240279 TTGTCACT
1 TTATCACT
15240287 GATCAAAAGT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:15253433 original size:43 final size:43
Alignment explanation
Indices: 15253378--15253494 Score: 116
Period size: 43 Copynumber: 2.7 Consensus size: 43
15253368 ATATCATACA
* *
15253378 ATGCCAAC-GTCTCAGATGTGGTCTTACATGTAATCAC-ATGT-CG
1 ATGCC-ACTGTCTCAGAAGTGGTCTTACACG-AATCACAAT-TACG
*
15253421 ATGCCACTGTCTCAGACAG-GGTCATACACGAATCACAATTACG
1 ATGCCACTGTCTCAGA-AGTGGTCTTACACGAATCACAATTACG
* * *
15253464 ATGCCAATGTCCCAGACGTGGTCTTACACGA
1 ATGCCACTGTCTCAGAAGTGGTCTTACACGA
15253495 GAACACATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
42 10 0.16
43 51 0.82
44 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCTCAGAAGTGGTCTTACACGAATCACAATTACG
Found at i:15256957 original size:42 final size:43
Alignment explanation
Indices: 15256856--15256973 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
15256846 GTTACATGCC
* * **
15256856 ATATCCCAGATATGGTCTTACATG-TGATCTCGTATCAATGTCA
1 ATATCCCAGATATGGTCTTACACGAAG-TCTTATATCAATGTCA
* * * *
15256899 ATAGCCCAGCTATGGTCTTACACGAAGTCTTATATCGATGT-T
1 ATATCCCAGATATGGTCTTACACGAAGTCTTATATCAATGTCA
*
15256941 ATATCCCAGATATGGTCTTACACGTAAATCTTA
1 ATATCCCAGATATGGTCTTACACG-AAGTCTTA
15256974 ATAACCCTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 22 0.35
43 39 0.63
44 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGAAGTCTTATATCAATGTCA
Found at i:15258932 original size:16 final size:15
Alignment explanation
Indices: 15258907--15258942 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
15258897 AACATCTCAT
*
15258907 AAAAATAAAGAATAC
1 AAAAATAAAGAAAAC
15258922 AAAACATAAAGAAAAC
1 AAAA-ATAAAGAAAAC
15258938 AAAAA
1 AAAAA
15258943 AACTCCTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (15 bp):
AAAAATAAAGAAAAC
Found at i:15273316 original size:3 final size:3
Alignment explanation
Indices: 15273308--15273334 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15273298 CCATGAAAAG
15273308 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
15273335 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:15281035 original size:26 final size:26
Alignment explanation
Indices: 15281006--15281065 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
15280996 CCCTCAGCTT
* *
15281006 AATTTTGACGATTTTACCCTTGGTAA
1 AATTTTGACGATTTTACCCCTAGTAA
*
15281032 AATTTTGACGATTTTGCCCCTAGTAA
1 AATTTTGACGATTTTACCCCTAGTAA
15281058 AATTTTGA
1 AATTTTGA
15281066 GAAAATATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (26 bp):
AATTTTGACGATTTTACCCCTAGTAA
Found at i:15286127 original size:6 final size:6
Alignment explanation
Indices: 15286116--15286158 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
15286106 AAAGGGCACA
15286116 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
15286159 TAATTTTGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:15297517 original size:5 final size:5
Alignment explanation
Indices: 15297501--15297539 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
15297491 CCAAAAGGAA
15297501 AAAAG -AAA- AAAAG AAAAG AAAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG
15297540 TAAGAAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 6 0.19
5 20 0.65
6 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:15297523 original size:21 final size:21
Alignment explanation
Indices: 15297493--15297539 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
15297483 CAACCACTCC
*
15297493 AAAAGGAAAAA-AGAAAAAAAG
1 AAAA-GAAAAAGAAAAAAAAAG
*
15297514 AAAAGAAAAAGAAAAGAAAAG
1 AAAAGAAAAAGAAAAAAAAAG
15297535 AAAAG
1 AAAAG
15297540 TAAGAAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAAAAAG
Found at i:15297524 original size:11 final size:11
Alignment explanation
Indices: 15297508--15297539 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
15297498 GAAAAAAGAA
15297508 AAAAAGAAAAG
1 AAAAAGAAAAG
15297519 AAAAAGAAAAG
1 AAAAAGAAAAG
15297530 -AAAAGAAAAG
1 AAAAAGAAAAG
15297540 TAAGAAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:15300830 original size:3 final size:3
Alignment explanation
Indices: 15300822--15300852 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15300812 CCCGCGTTGT
15300822 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15300853 AATAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15303203 original size:11 final size:10
Alignment explanation
Indices: 15303189--15303245 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 10
15303179 ATTTATGATT
15303189 TGAATATGAAA
1 TGAA-ATGAAA
15303200 TGAAATTGAAA
1 TGAAA-TGAAA
*
15303211 TGAGAATGATA
1 TGA-AATGAAA
15303222 TGAAAATGGAAA
1 TG-AAAT-GAAA
*
15303234 TGAAACGAAA
1 TGAAATGAAA
15303244 TG
1 TG
15303246 GATGTTACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.18
11 24 0.62
12 8 0.21
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (10 bp):
TGAAATGAAA
Found at i:15303234 original size:6 final size:5
Alignment explanation
Indices: 15303189--15303245 Score: 51
Period size: 5 Copynumber: 10.4 Consensus size: 5
15303179 ATTTATGATT
*
15303189 TGAATA TGAAA TGAAA TTGAAA TGAGAA TGATA TGAAAA TGGAAA TGAAA
1 TGAA-A TGAAA TGAAA -TGAAA TGA-AA TGAAA TG-AAA T-GAAA TGAAA
*
15303239 CGAAA TG
1 TGAAA TG
15303246 GATGTTACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
5 21 0.49
6 21 0.49
7 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (5 bp):
TGAAA
Found at i:15304951 original size:9 final size:9
Alignment explanation
Indices: 15304937--15304961 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15304927 CTAAATTGGA
15304937 AATTAAATT
1 AATTAAATT
15304946 AATTAAATT
1 AATTAAATT
15304955 AATTAAA
1 AATTAAA
15304962 AGATGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:15305957 original size:57 final size:58
Alignment explanation
Indices: 15305839--15305975 Score: 179
Period size: 57 Copynumber: 2.4 Consensus size: 58
15305829 GCTAACAGGG
* * * * **
15305839 TTTAGCCTGGACTGGTAATCCTGATATAATCTCTCTCGAGCATATGTTACAATTAGGA
1 TTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCAAGCATATATTACAAAAAGGA
* *
15305897 TTTAGCCTGGACTGATAATCCTAAT-TGAGCTCT-TCTAAGCATATATTACAAAAAGGA
1 TTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTC-AAGCATATATTACAAAAAGGA
15305954 TTTAGCCTGGACTGGTAATCCT
1 TTTAGCCTGGACTGGTAATCCT
15305976 GTTATATGTT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 2 0.03
57 44 0.64
58 23 0.33
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (58 bp):
TTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCAAGCATATATTACAAAAAGGA
Found at i:15308300 original size:14 final size:14
Alignment explanation
Indices: 15308281--15308315 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
15308271 TGGTGCGTCC
15308281 GCATACATACATCT
1 GCATACATACATCT
15308295 GCATACATACATCT
1 GCATACATACATCT
15308309 GCATACA
1 GCATACA
15308316 AAGCTTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.29, G:0.09, T:0.26
Consensus pattern (14 bp):
GCATACATACATCT
Found at i:15314157 original size:21 final size:21
Alignment explanation
Indices: 15314129--15314222 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
15314119 GTACATCATC
15314129 AACAGAAGCTCAT-AGAGCTG
1 AACAGAAGCTCATGAGAGCTG
* *
15314149 ATTCAGAAGCTCGTGAGAGCTG
1 A-ACAGAAGCTCATGAGAGCTG
* *
15314171 AACAGAAGCTCGTGAGAGCCG
1 AACAGAAGCTCATGAGAGCTG
* * *
15314192 AATAGAAGCTCGTGAGAGTTG
1 AACAGAAGCTCATGAGAGCTG
15314213 AACAGAAGCT
1 AACAGAAGCT
15314223 TGTAAGAACT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
20 1 0.02
21 55 0.86
22 8 0.12
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATGAGAGCTG
Found at i:15314199 original size:42 final size:42
Alignment explanation
Indices: 15314129--15314222 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
15314119 GTACATCATC
* *
15314129 AACAGAAGCTCATAGAGCTGATTCAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCATAGAGCCGAATCAGAAGCTCGTGAGAGCTG
* *
15314171 AACAGAAGCTCGTGAGAGCCGAAT-AGAAGCTCGTGAGAGTTG
1 AACAGAAGCTCAT-AGAGCCGAATCAGAAGCTCGTGAGAGCTG
15314213 AACAGAAGCT
1 AACAGAAGCT
15314223 TGTAAGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 39 0.83
43 8 0.17
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAGAGCCGAATCAGAAGCTCGTGAGAGCTG
Found at i:15316038 original size:44 final size:45
Alignment explanation
Indices: 15315950--15316038 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
15315940 AGAACAGAAA
*
15315950 TGAGCCATGTAAGTCCATATTAGAAATATGACTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGACATTGGAGACAGGAT
* *
15315996 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGA
15316039 AAAATTCATG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAT
Found at i:15316049 original size:44 final size:45
Alignment explanation
Indices: 15315952--15316057 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
15315942 AACAGAAATG
* ***
15315952 AGCCATGTAAGTCCATATTAGAAATATGACTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGACATTGGAGACAGGAAAA
* *
15315998 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAAAA
1 AGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAAAA
**
15316042 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
15316058 GTCAAAGACA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 33 0.63
46 19 0.37
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAAAA
Found at i:15320185 original size:55 final size:55
Alignment explanation
Indices: 15320112--15320274 Score: 182
Period size: 55 Copynumber: 3.0 Consensus size: 55
15320102 TCTTCTTAAT
* * * * * * *
15320112 TGTTAGAATACTGTTTCTTTTGATTTGATTTTTTATATGCTTAAATCTATTGTCA
1 TGTTGGAATACTGATTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCA
* * *
15320167 TGTTGGAATACTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTTA
1 TGTTGGAATACTGATTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCA
* * * * * *
15320222 TATTGAAATACTAATTCTTTTAAATAGATTGGTTATATGTTTAAATCGATTGT
1 TGTTGGAATACTGATTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGT
15320275 TACATAGCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (55 bp):
TGTTGGAATACTGATTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCA
Found at i:15325619 original size:32 final size:31
Alignment explanation
Indices: 15325583--15325645 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
15325573 GGATATAGCA
* *
15325583 GAGTAAAAATATGTATTTTCTAAT-GATGTTGT
1 GAGTAAAAAAATATATTTT-TAATAG-TGTTGT
15325615 GAGTAAAAAAATATATTTTTAATAGTGTTGT
1 GAGTAAAAAAATATATTTTTAATAGTGTTGT
15325646 CGTCACGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (31 bp):
GAGTAAAAAAATATATTTTTAATAGTGTTGT
Found at i:15330481 original size:19 final size:17
Alignment explanation
Indices: 15330449--15330500 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
15330439 ATTCGAGAAA
*
15330449 GCCTGATAAGTGATAAT
1 GCCTGATAAATGATAAT
15330466 GCCTGAAATAAATGATAAT
1 GCCTG--ATAAATGATAAT
*
15330485 GTCTGATAAATGATAA
1 GCCTGATAAATGATAA
15330501 ATGATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (17 bp):
GCCTGATAAATGATAAT
Found at i:15333223 original size:40 final size:41
Alignment explanation
Indices: 15333172--15333363 Score: 266
Period size: 40 Copynumber: 4.8 Consensus size: 41
15333162 GGATATAGCT
* *
15333172 ACTCGCTCAAATGCCTTCGGGACTTAGCCCAGATA-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
**
15333212 GTTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
* * *
15333252 ACTCACACAAATGCCTTTGGGACTTAGCCC-GAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
* *
15333292 ACTCACACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
*
15333332 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
15333364 TTATCATCCG
Statistics
Matches: 137, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 132 0.96
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATTAGTA
Found at i:15342622 original size:40 final size:40
Alignment explanation
Indices: 15342560--15342776 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
15342550 AAACCAAGTA
* * *
15342560 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
15342599 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15342639 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
15342679 CCTTTGTGACTTAGCCTGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* **
15342719 CCTTCGGGACTTAGCCCGGA-ATTAGTCACAAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
15342759 TCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
15342777 ATTATCATCC
Statistics
Matches: 158, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.09
40 144 0.91
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15345695 original size:17 final size:17
Alignment explanation
Indices: 15345675--15345731 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 17
15345665 ATTAATTTTT
15345675 AAAAATTAAAAATTATA
1 AAAAATTAAAAATTATA
15345692 AAAATTATTTAAAAATTA-A
1 AAAA--A-TTAAAAATTATA
**
15345711 AATTATT-AAAATTATA
1 AAAAATTAAAAATTATA
15345727 AAAAA
1 AAAAA
15345732 ATATTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
15 7 0.22
16 6 0.19
17 5 0.16
19 4 0.12
20 10 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATTAAAAATTATA
Found at i:15345705 original size:26 final size:26
Alignment explanation
Indices: 15345668--15345725 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
15345658 GCAATTAATT
15345668 AATT-TTTAAAAATTAAAAATTATAAA
1 AATTATTTAAAAATT-AAAATTATAAA
*
15345694 AATTATTTAAAAATTAAAATTATTAA
1 AATTATTTAAAAATTAAAATTATAAA
15345720 AATTAT
1 AATTAT
15345726 AAAAAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AATTATTTAAAAATTAAAATTATAAA
Found at i:15345706 original size:11 final size:10
Alignment explanation
Indices: 15345679--15345736 Score: 54
Period size: 9 Copynumber: 6.3 Consensus size: 10
15345669 ATTTTTAAAA
15345679 ATTAAAAATT
1 ATTAAAAATT
15345689 A-TAAAAATT
1 ATTAAAAATT
*
15345698 ATTTAAAA--
1 ATTAAAAATT
15345706 ATT-AAAATT
1 ATTAAAAATT
15345715 ATT-AAAATT
1 ATTAAAAATT
* *
15345724 ATAAAAAAAT
1 ATTAAAAATT
15345734 ATT
1 ATT
15345737 TTTTAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 4 0.10
8 3 0.08
9 20 0.50
10 13 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:15345732 original size:27 final size:27
Alignment explanation
Indices: 15345675--15345733 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
15345665 ATTAATTTTT
**
15345675 AAAAATTAAAAATTATAAAAATTATTT
1 AAAAATTAAAAATTATAAAAATTATAA
*
15345702 AAAAATT-AAAATTATTAAAATTATAA
1 AAAAATTAAAAATTATAAAAATTATAA
15345728 AAAAAT
1 AAAAAT
15345734 ATTTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAAATTAAAAATTATAAAAATTATAA
Found at i:15351524 original size:24 final size:24
Alignment explanation
Indices: 15351497--15351556 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
15351487 TCTCCCAAGA
* *
15351497 TTAGGATTTTTAATATTTTTAGGT
1 TTAGGATTTTTAATATTTCTACGT
*
15351521 TTAGGGTTTTTAATATTTCTACGT
1 TTAGGATTTTTAATATTTCTACGT
*
15351545 TTAAGGTTTTTT
1 TT-AGGATTTTT
15351557 TTAAATTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.58
Consensus pattern (24 bp):
TTAGGATTTTTAATATTTCTACGT
Found at i:15352679 original size:17 final size:16
Alignment explanation
Indices: 15352645--15352687 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
15352635 CATCAACCAA
*
15352645 AAATTTTTAGCAATAG
1 AAATTTTTAACAATAG
*
15352661 AAATTTTTAACACTGAG
1 AAATTTTTAACAAT-AG
15352678 AAATGTTTTA
1 AAAT-TTTTA
15352688 TAAATGAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 12 0.52
17 6 0.26
18 5 0.22
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (16 bp):
AAATTTTTAACAATAG
Found at i:15355267 original size:37 final size:37
Alignment explanation
Indices: 15355207--15355284 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
15355197 TATTACGAAC
* * *
15355207 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
15355244 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
15355281 TCTT
1 TCTT
15355285 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:15355670 original size:49 final size:49
Alignment explanation
Indices: 15355403--15355908 Score: 797
Period size: 49 Copynumber: 10.6 Consensus size: 49
15355393 CCCTTCGGGA
* * * *
15355403 CTTATCACAT-T-TATACACTTTCACATCCATCA-AGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
* *
15355450 CCTGT-AC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15355496 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15355543 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15355590 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15355637 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15355686 CCTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15355735 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15355784 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15355833 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15355882 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
15355909 ACCAACCCTT
Statistics
Matches: 437, Mismatches: 16, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
45 1 0.00
46 35 0.08
47 165 0.38
49 236 0.54
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15356254 original size:39 final size:40
Alignment explanation
Indices: 15356133--15356317 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
15356123 GCTACTCGTT
* *
15356133 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
15356173 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
15356213 CAAATGCCTTCGGG-CTTGGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
15356252 CAAATGCCTTC-AGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
15356293 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15356318 CATCATTCGA
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 31 0.26
40 74 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:15356277 original size:79 final size:82
Alignment explanation
Indices: 15356133--15356317 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
15356123 GCTACTCGTT
* * *
15356133 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAACCTG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGAGACTTAACCTG
* *
15356197 GATTTAGTAAC-TCGCA
66 GATATAGTAACTTAGCA
* * * **
15356213 CAAATGCCTTCGGG-CTTGGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGAGA-CTTAACCT
* *
15356275 GGATATGGTCACTTAGCA
65 GGATATAGTAACTTAGCA
15356293 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15356318 CATCATTCGA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 53 0.60
80 33 0.38
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGAGACTTAACCTG
GATATAGTAACTTAGCA
Found at i:15359914 original size:40 final size:40
Alignment explanation
Indices: 15359888--15360152 Score: 417
Period size: 40 Copynumber: 6.7 Consensus size: 40
15359878 TGATTACTCT
* * * *
15359888 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* * * *
15359928 TCGAGG-TTTAGCACGGATATATTACTAGCACGAATGCTCT
1 TCG-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
15359968 TCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
15360008 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
15360048 TC-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
15360087 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
15360127 TCGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
15360153 CTCAATTCTC
Statistics
Matches: 208, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 40 0.19
40 166 0.80
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:15360100 original size:119 final size:120
Alignment explanation
Indices: 15359888--15360152 Score: 424
Period size: 119 Copynumber: 2.2 Consensus size: 120
15359878 TGATTACTCT
* * * * ** *
15359888 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGAGGTTTAGCACGGATATATTAC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGAGACTTAGCACGGATATATCAC
*
15359953 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
66 TAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
*
15360008 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCG-GACTTAGCCCGGATATATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGAGACTTAGCACGGATATATCAC
* *
15360072 TAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
66 TAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
15360127 TCGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
15360153 CTCAATTCTC
Statistics
Matches: 134, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
119 95 0.71
120 39 0.29
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (120 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGAGACTTAGCACGGATATATCAC
TAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
Found at i:15361436 original size:36 final size:37
Alignment explanation
Indices: 15361364--15361441 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
15361354 TTATTACGAT
* *
15361364 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
15361401 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
15361437 GTCTT
1 GTCTT
15361442 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:15361638 original size:47 final size:47
Alignment explanation
Indices: 15361560--15362013 Score: 750
Period size: 47 Copynumber: 9.6 Consensus size: 47
15361550 CCCTTCGGGA
* * * * *
15361560 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15361607 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15361654 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15361701 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15361748 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15361795 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15361843 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15361889 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15361938 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15361987 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
15362014 ACCAACCCTT
Statistics
Matches: 390, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 45 0.12
47 205 0.53
48 46 0.12
49 94 0.24
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15362359 original size:39 final size:40
Alignment explanation
Indices: 15362238--15362422 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
15362228 GCTACTCGTT
*
15362238 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
15362278 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
15362318 CAAATGCCTTCGGG-CTTGGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
15362357 CAAATGCCTTC-AGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
15362398 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15362423 CATCATTCGA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 31 0.26
40 75 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:15366088 original size:44 final size:44
Alignment explanation
Indices: 15366025--15366113 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
15366015 TTTTACTAAA
15366025 AAGGACACGTCATTTGCCAATAACCTCGACTGTGAAAGAAACAT
1 AAGGACACGTCATTTGCCAATAACCTCGACTGTGAAAGAAACAT
* * *
15366069 AAGGACGCGTCATTTGCCAATAACCTTGATTGTGAAAGAAACAT
1 AAGGACACGTCATTTGCCAATAACCTCGACTGTGAAAGAAACAT
15366113 A
1 A
15366114 CTTTCACCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.22
Consensus pattern (44 bp):
AAGGACACGTCATTTGCCAATAACCTCGACTGTGAAAGAAACAT
Found at i:15378826 original size:96 final size:95
Alignment explanation
Indices: 15378660--15378945 Score: 473
Period size: 96 Copynumber: 3.0 Consensus size: 95
15378650 TTCTTTTTGT
*
15378660 TCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTCT
1 TCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTCT
*
15378725 ACTCCATCGTTCCCTGCGATGACAGACTTGC
66 GCTCCATCGTTCCCT-CGATGACAGACTTGC
15378756 TCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTCT
1 TCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTCT
15378821 GCTCCATCGTTCCCTTCGATGACAGACTTGC
66 GCTCCATCGTTCCC-TCGATGACAGACTTGC
* * *
15378852 TCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGTATCT
1 TCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTCT
* * *
15378917 GCTCGATCATTCCCATCGATAACAGACTT
66 GCTCCATCGTTCCC-TCGATGACAGACTT
15378946 CCTCAGACAC
Statistics
Matches: 180, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
96 179 0.99
97 1 0.01
ACGTcount: A:0.12, C:0.35, G:0.18, T:0.35
Consensus pattern (95 bp):
TCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTCT
GCTCCATCGTTCCCTCGATGACAGACTTGC
Found at i:15380732 original size:51 final size:51
Alignment explanation
Indices: 15380633--15380765 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 51
15380623 CCATCAAATC
* * *
15380633 TCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* ** * * * ** *
15380684 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
15380735 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
15380766 CATGTTTCCA
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:15383485 original size:6 final size:6
Alignment explanation
Indices: 15383475--15383506 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
15383465 TCAGGCCCTT
*
15383475 GCTCAT GCTCAA GCTCAA GCTCAA GCTCAA GC
1 GCTCAA GCTCAA GCTCAA GCTCAA GCTCAA GC
15383507 GCAGTTAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (6 bp):
GCTCAA
Found at i:15386800 original size:14 final size:14
Alignment explanation
Indices: 15386777--15386819 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
15386767 ACAAGAGAAT
15386777 GAAAGAAAAAAAAA
1 GAAAGAAAAAAAAA
15386791 GAAAGTAAAAAAAACA
1 GAAAG-AAAAAAAA-A
*
15386807 TAAAAGAAAAAAA
1 -GAAAGAAAAAAA
15386820 TTAAATTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 5 0.20
15 8 0.32
16 8 0.32
17 4 0.16
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (14 bp):
GAAAGAAAAAAAAA
Found at i:15389062 original size:46 final size:46
Alignment explanation
Indices: 15389012--15389240 Score: 282
Period size: 46 Copynumber: 5.0 Consensus size: 46
15389002 TTCGACATGA
* * * * * *
15389012 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
* * ** * ** *
15389058 TGCCACGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTATCAGGT
15389105 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
15389151 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
15389197 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
15389241 AGAGCACACT
Statistics
Matches: 161, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
45 1 0.01
46 120 0.75
47 40 0.25
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:15389171 original size:93 final size:92
Alignment explanation
Indices: 15389012--15389240 Score: 298
Period size: 93 Copynumber: 2.5 Consensus size: 92
15389002 TTCGACATGA
* * * * * *
15389012 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCACGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCACGGTATCATTCAAC
** * *
15389077 CATGGTCTTATTCATTTCCCCGTCACGT
66 CATGGTCTTACACATTT-CACATCACGT
* *
15389105 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCACGGTATCATTCAA
* * *
15389169 CCATGGTCTTACACGTTTCATATCAGGT
65 CCATGGTCTTACACATTTCACATCACGT
15389197 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
15389241 AGAGCACACT
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
92 49 0.41
93 70 0.59
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.38
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCACGGTATCATTCAAC
CATGGTCTTACACATTTCACATCACGT
Found at i:15400637 original size:36 final size:36
Alignment explanation
Indices: 15400590--15400661 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
15400580 CTTTCAAGAA
15400590 AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
1 AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
15400626 AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
1 AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
15400662 TAGGAACATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (36 bp):
AGATAAATGGAAGCATCTAATAGTGAAATCTAAAGC
Found at i:15403053 original size:48 final size:48
Alignment explanation
Indices: 15402991--15403330 Score: 540
Period size: 48 Copynumber: 7.0 Consensus size: 48
15402981 ATATACACAC
* * *
15402991 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
15403039 ATTTCATACATATTTCACACTAGCCACTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
15403087 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
15403135 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
15403183 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCAC--ATATACAT
15403233 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
15403281 ATCTCATACATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
15403329 AT
1 AT
15403331 TTTTCTTGTA
Statistics
Matches: 272, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 2 0.01
48 226 0.83
50 43 0.16
51 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:15410864 original size:50 final size:49
Alignment explanation
Indices: 15410746--15410875 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 49
15410736 CTGGTACGCA
* * **
15410746 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
15410795 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
15410845 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
15410876 TCACAGTTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 29 0.39
50 41 0.55
51 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:15410919 original size:101 final size:99
Alignment explanation
Indices: 15410746--15410932 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
15410736 CTGGTACGCA
* * * *
15410746 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTACACTTA
*
15410811 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
15410845 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTACAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTACAC
*
15410909 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
15410933 AATAGATCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 42 0.55
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:15414058 original size:75 final size:75
Alignment explanation
Indices: 15413894--15414241 Score: 565
Period size: 75 Copynumber: 4.6 Consensus size: 75
15413884 GGCCTAAAGA
*
15413894 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATAT
15413957 ATCCGGGTTAAAT
63 ATCCGGGTTAAAT
*
15413970 CCCGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATC
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATC
15414035 CGGGTTAAAT
66 CGGGTTAAAT
* *
15414045 CCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTTGTGCTGTAATATATC
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATC
*
15414110 TGGGTTAAAT
66 CGGGTTAAAT
* *
15414120 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCTGTAGGCTTCGTGCTGTAATATATC
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATC
15414185 CGGGTTAAAT
66 CGGGTTAAAT
* **
15414195 CCCACAGGCTTCGTGCTGGTAATATATCTAGGTTAAATCCCGCAGGC
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGC
15414242 CTAATGTTGG
Statistics
Matches: 254, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
75 204 0.80
76 48 0.19
77 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (75 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATC
CGGGTTAAAT
Found at i:15414253 original size:113 final size:113
Alignment explanation
Indices: 15413894--15414264 Score: 534
Period size: 113 Copynumber: 3.3 Consensus size: 113
15413884 GGCCTAAAGA
15413894 CCCGCAGG-CTATATGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATAT
1 CCCGCAGGCCTA-ATGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATAT
*
15413957 ATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAAT
64 ATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATATATCTGGGTTAAAT
* **
15414008 CCCGCAGGCTTCGTGCT-GTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
1 CCCGCAGGCCTAATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
* *
15414072 CCAGGTTAAATCCCGCAGGCTTTGTGCTGTAATATATCTGGGTTAAAT
66 CCGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATCTGGGTTAAAT
* ** * *
15414120 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCTGTAGGCTTCGTGCT-GTAATATAT
1 CCCGCAGGCCTAATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
* *
15414184 CCGGGTTAAATCCCACAGGCTTCGTGCTGGTAATATATCTAGGTTAAAT
66 CCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATATATCTGGGTTAAAT
* * *
15414233 CCCGCAGGCCTAATGTTGGTATTATATTCGGG
1 CCCGCAGGCCTAATGCTGGTAATATATCCGGG
15414265 CCTTCGTGCC
Statistics
Matches: 235, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
112 70 0.30
113 150 0.64
114 14 0.06
115 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (113 bp):
CCCGCAGGCCTAATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
CCGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATCTGGGTTAAAT
Found at i:15414259 original size:38 final size:38
Alignment explanation
Indices: 15413894--15414241 Score: 553
Period size: 38 Copynumber: 9.2 Consensus size: 38
15413884 GGCCTAAAGA
*
15413894 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAAT
15413932 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
15413970 CCCGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
15414008 CCCGCAGGCTTCGTGCT-GTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
15414045 CCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* *
15414083 CCCGCAGGCTTTGTGCT-GTAATATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
15414120 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* *
15414158 CCTGTAGGCTTCGTGCT-GTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* **
15414195 CCCACAGGCTTCGTGCTGGTAATATATCTAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
15414233 CCCGCAGGC
1 CCCGCAGGC
15414242 CTAATGTTGG
Statistics
Matches: 289, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
37 106 0.37
38 181 0.63
39 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:15414305 original size:43 final size:43
Alignment explanation
Indices: 15414257--15414411 Score: 274
Period size: 43 Copynumber: 3.6 Consensus size: 43
15414247 GTTGGTATTA
15414257 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
15414300 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
15414343 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
15414386 TATTCGGGTCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
15414412 GTAATGCCGT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:15417727 original size:20 final size:20
Alignment explanation
Indices: 15417685--15417731 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
15417675 TGACTCATGT
*
15417685 TTTCAAATTTTATATCTTT-
1 TTTCAAATATTATATCTTTG
*
15417704 TTTCCAAATATTATGT-TTTG
1 TTT-CAAATATTATATCTTTG
15417724 TTTCAAAT
1 TTTCAAAT
15417732 TAGTCCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTCAAATATTATATCTTTG
Found at i:15423516 original size:94 final size:92
Alignment explanation
Indices: 15423299--15423523 Score: 247
Period size: 94 Copynumber: 2.4 Consensus size: 92
15423289 TCTTATTTTA
* * * * *
15423299 AACATAAATGGGCAAAAACCAAAATTTTCACCACACTATTTTAATTTACCTATTTGATAATTTAG
1 AACATAAAT-GGCAAAAAACAGAATTTTCATCACACTATTTAAATTTACCTATTTGATAATTGAG
* *
15423364 CACGCCCCCTCCCTTACACTCTTTGTTT
65 CACGACCCCTCCCTTACACCCTTTGTTT
** *
15423392 AACATAAATGGCCAAAAAATGGAACTTTTCATCACACTCTTTAAATTTACCTATTTGATAATTGA
1 AACATAAATGG-CAAAAAACAGAA-TTTTCATCACACTATTTAAATTTACCTATTTGATAATTGA
* * *
15423457 GCAC-ACCTCTTCCTTA-ACCCTTTTTATT
64 GCACGACCCCTCCCTTACACCCTTTGT-TT
*
15423485 GAACATAAATGGTAAAAATACAGAATATTTCATCACACT
1 -AACATAAATGGCAAAAA-ACAGAAT-TTTCATCACACT
15423524 TTTTTTTTTG
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
92 9 0.08
93 34 0.31
94 67 0.61
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (92 bp):
AACATAAATGGCAAAAAACAGAATTTTCATCACACTATTTAAATTTACCTATTTGATAATTGAGC
ACGACCCCTCCCTTACACCCTTTGTTT
Found at i:15430310 original size:31 final size:31
Alignment explanation
Indices: 15430244--15430332 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 31
15430234 AATTATACAT
*
15430244 AAATTTTAATTTG-ATGT-AAT-TATACATGTG
1 AAATTTTAATTTGTATTTAAATATATAC-T-TG
15430274 AAATTTTAA-TTGTAGTTTAAATATATACTTG
1 AAATTTTAATTTGTA-TTTAAATATATACTTG
* *
15430305 AAATTTTAATTTTTATTTAATTATATAC
1 AAATTTTAATTTGTATTTAAATATATAC
15430333 ATTTAAAGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.06
30 10 0.20
31 25 0.49
32 8 0.16
33 5 0.10
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (31 bp):
AAATTTTAATTTGTATTTAAATATATACTTG
Found at i:15433118 original size:30 final size:30
Alignment explanation
Indices: 15433082--15433150 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
15433072 TTAGCCTTTG
*
15433082 CCACCACCAACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
15433112 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
15433142 CCACCACCA
1 CCACCACCA
15433151 CTTGTACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:15433717 original size:25 final size:26
Alignment explanation
Indices: 15433689--15433747 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
15433679 CTATATTACG
*
15433689 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* * *
15433714 TATATCT-TTAATATTATATTATTTA
1 TATATATATTAATACTATATTATGTA
15433739 TATATATAT
1 TATATATAT
15433748 ATATTTTCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.07
25 24 0.89
26 1 0.04
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:15433792 original size:22 final size:23
Alignment explanation
Indices: 15433736--15433827 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 23
15433726 ATTATATTAT
*
15433736 TTATA-TATATATATATTTTCTACA
1 TTATATTATGTATATA-TTT-TACA
*
15433760 TGTTATCTTATGTATATATTTTA-A
1 --TTATATTATGTATATATTTTACA
*
15433784 TTATATTATGTATGTATTTTTACA
1 TTATATTATGTATATA-TTTTACA
* *
15433808 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
15433828 TTTTATATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
22 14 0.25
23 9 0.16
24 15 0.27
25 2 0.04
26 7 0.12
27 9 0.16
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:15433792 original size:27 final size:28
Alignment explanation
Indices: 15433696--15433800 Score: 79
Period size: 30 Copynumber: 3.7 Consensus size: 28
15433686 ACGTATATAT
* *
15433696 ATTATACTATTTTATGTATATATCTTTAA
1 ATTATATTATTTTATGTATATATATTT-A
* *
15433725 TATTATATTATTTATATATATATATATTTT
1 -ATTATATTATTT-TATGTATATATATTTA
* * * *
15433755 CTACATGTTATCTTATGTATATAT-TTTA
1 AT-TATATTATTTTATGTATATATATTTA
*
15433783 ATTATATTA-TGTATGTAT
1 ATTATATTATTTTATGTAT
15433801 TTTTACACTA
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
26 7 0.12
27 5 0.09
28 4 0.07
29 11 0.19
30 18 0.31
31 13 0.22
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (28 bp):
ATTATATTATTTTATGTATATATATTTA
Found at i:15433817 original size:24 final size:23
Alignment explanation
Indices: 15433767--15433828 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
15433757 ACATGTTATC
*
15433767 TTATGTATATA-TTTTAATTATA
1 TTATGTATATATTTTTAACTATA
*
15433789 TTATGTATGTATTTTTACACTATA
1 TTATGTATATATTTTTA-ACTATA
*
15433813 TTATGTACATATTTTT
1 TTATGTATATATTTTT
15433829 TTTATATCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 10 0.29
23 5 0.15
24 19 0.56
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATGTATATATTTTTAACTATA
Found at i:15433919 original size:25 final size:24
Alignment explanation
Indices: 15433891--15433946 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
15433881 GTTATATTTT
*
15433891 CACTATTTTAT-GTATATACTTCTAA
1 CACTATTATATAGTATAT--TTCTAA
15433916 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCTAA
15433939 CACTATTA
1 CACTATTA
15433947 CTATTTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.39
24 6 0.21
25 11 0.39
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.45
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCTAA
Found at i:15445075 original size:12 final size:13
Alignment explanation
Indices: 15445057--15445090 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
15445047 GGCATCTTAA
15445057 AAAAAGAGAAAAG
1 AAAAAGAGAAAAG
*
15445070 -AAAAGAAAAAAG
1 AAAAAGAGAAAAG
15445082 AAAAAGAGA
1 AAAAAGAGA
15445091 GGGATCAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAG
Found at i:15446006 original size:31 final size:31
Alignment explanation
Indices: 15445968--15446026 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
15445958 AAAAATCAAC
* *
15445968 TCATATTGCGAGAGGTGAGTTGGGCCTCAGG
1 TCATATTGCGAGAGGTGAGCTGAGCCTCAGG
15445999 TCATATTGCGAGAGGTGAGCTGAGCCTC
1 TCATATTGCGAGAGGTGAGCTGAGCCTC
15446027 GGGGCACGCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.25
Consensus pattern (31 bp):
TCATATTGCGAGAGGTGAGCTGAGCCTCAGG
Found at i:15446064 original size:14 final size:14
Alignment explanation
Indices: 15446042--15446089 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
15446032 ACGCGAGGTA
*
15446042 TTTTTAATTTCTGC
1 TTTTCAATTTCTGC
15446056 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
*
15446070 TTTT-AATTTCTGT
1 TTTTCAATTTCTGC
15446083 TTTTCAA
1 TTTTCAA
15446090 AAATCAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 12 0.39
14 19 0.61
ACGTcount: A:0.17, C:0.15, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:15446086 original size:13 final size:13
Alignment explanation
Indices: 15446042--15446086 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
15446032 ACGCGAGGTA
15446042 TTTTTAATTTCTG
1 TTTTTAATTTCTG
*
15446055 CTTTTCAATTTCTG
1 -TTTTTAATTTCTG
*
15446069 CTTTTAATTTCTG
1 TTTTTAATTTCTG
15446082 TTTTT
1 TTTTT
15446087 CAAAAATCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:15446112 original size:99 final size:99
Alignment explanation
Indices: 15445999--15446264 Score: 367
Period size: 99 Copynumber: 2.7 Consensus size: 99
15445989 GGGCCTCAGG
* * *
15445999 TCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGC-GAGGTATTTTTAATTTCTGCTTTTCAA
1 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTTAATTTCTGTTTTTCAA
** * *
15446063 TTTCTG-CTTTTAATTTCTGTTTTTCAAAAATCAAC
66 TTTCTGCCTTACAAATTCTGCTTTTC--AAATCAAC
15446098 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTTAATTTCTGTTTTTCAA
1 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTTAATTTCTGTTTTTCAA
*
15446163 TTTTTGCCTTACAAATTCTGCTTTTCAAATCAAC
66 TTTCTGCCTTACAAATTCTGCTTTTCAAATCAAC
* * * * *
15446197 TCATATTGCAAGAGGTGAGTTGATCCTCAGGACACGCTGAGGT-TTTTTCAATTTTTGTTTTTTA
1 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT-AATTTCTGTTTTTCA
15446261 ATTT
65 ATTT
15446265 ATGTTTCTAA
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
98 5 0.03
99 100 0.66
100 31 0.21
101 15 0.10
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.41
Consensus pattern (99 bp):
TCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTTAATTTCTGTTTTTCAA
TTTCTGCCTTACAAATTCTGCTTTTCAAATCAAC
Found at i:15446263 original size:14 final size:15
Alignment explanation
Indices: 15446238--15446270 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15446228 ACACGCTGAG
*
15446238 GTTTTTTCAATTTTT
1 GTTTTTTCAATTTAT
15446253 GTTTTTT-AATTTAT
1 GTTTTTTCAATTTAT
15446267 GTTT
1 GTTT
15446271 CTAAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (15 bp):
GTTTTTTCAATTTAT
Found at i:15446385 original size:73 final size:72
Alignment explanation
Indices: 15446255--15446861 Score: 772
Period size: 73 Copynumber: 8.3 Consensus size: 72
15446245 CAATTTTTGT
* * * * *
15446255 TTTTTAATTTATGTTTCTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
15446320 CTGAGGTA
65 CTGAGGTA
* * * * *
15446328 ATTTCAGTTTTTGTTTGTCAAAAATCAACTCATATTGCAAGATGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
*
15446393 TTGAGGTA
65 CTGAGGTA
* * *
15446401 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCAATAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
15446466 GCTGAGGTA
64 GCTGAGGTA
* *
15446475 ATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
*
15446540 TTGAGGTA
65 CTGAGGTA
* * *
15446548 TTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
1 TTTTCAATTTCTGT-TTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
15446613 GTTGAGGTA
64 GCTGAGGTA
* * *
15446622 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
15446685 CGCTGAGGTA
63 CGCTGAGGTA
* *
15446695 ATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
*
15446760 TTGAGGTA
65 CTGAGGTA
* *
15446768 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
15446831 CGCTGAGGTG
63 CGCTGAGGTA
*
15446841 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTT-TTCAA
15446862 TTTCTGTGTT
Statistics
Matches: 473, Mismatches: 46, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
71 40 0.08
72 6 0.01
73 211 0.45
74 136 0.29
75 80 0.17
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
TGAGGTA
Found at i:15446540 original size:147 final size:146
Alignment explanation
Indices: 15446255--15446861 Score: 796
Period size: 147 Copynumber: 4.1 Consensus size: 146
15446245 CAATTTTTGT
* * * * *
15446255 TTTTTAATTTATG-TTTCTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * * *
15446319 GCTGAGGTAATTTCAGTTTTTGTTTGTC-AAAAATCAACTCATATTGCAAGATGTGAGTTGAGCC
66 GCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACC
*
15446383 TCAAGACACGTTGAGGTA
131 TCAAG--ACGCTGAGGTA
* * *
15446401 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCAATAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * *
15446466 GCTGAGGTAATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 GCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACC
*
15446530 TCAAGACACGTTGAGGTA
131 TCAAG--ACGCTGAGGTA
* *
15446548 TTTTCAATTTCTGTCTTT-AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
15446612 CGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAATAGGTGAGTTGAA
65 CGCTGAGGTAATTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAA
15446677 CCTCAAGACGCTGAGGTA
129 CCTCAAGACGCTGAGGTA
* *
15446695 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
15446758 CGTTGAGGTATTTTCAATTTCTGTCTT-TCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA
65 CGCTGAGGTAATTTCAATTTCTGT-TTGTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
*
15446822 ACCTCAAGACGCTGAGGTG
128 ACCTCAAGACGCTGAGGTA
*
15446841 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTT-TTCAA
15446862 TTTCTGTGTT
Statistics
Matches: 418, Mismatches: 33, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
146 145 0.35
147 232 0.56
148 3 0.01
149 38 0.09
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (146 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACC
TCAAGACGCTGAGGTA
Found at i:15446702 original size:220 final size:221
Alignment explanation
Indices: 15446260--15446861 Score: 955
Period size: 220 Copynumber: 2.7 Consensus size: 221
15446250 TTTGTTTTTT
* * * * * *
15446260 AATTTATGTTTCTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
* * * * * * * *
15446325 GTAATTTCAGTTTTTGT-TTGT-CAAAAATCAACTCATATTGCAAGATGTGAGTTGAGCCTCAAG
66 GTATTTTCAATTTCTGTCTT-TAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG
15446388 ACACGTTGAGGTATTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCAATAGGTGAGTT
130 ACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAATAGGTGAGTT
*
15446452 GAGCCTCAGGACACGCTGAGGTAATTTC
195 GAACCTCA-GACACGCTGAGGTAATTTC
15446480 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
15446545 GTATTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
66 GTATTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
15446610 CACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAATAGGTGAGTTG
131 CACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAATAGGTGAGTTG
*
15446675 AACCTCA-AGACGCTGAGGTAATTTC
196 AACCTCAGACACGCTGAGGTAATTTC
15446700 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
15446765 GTATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG
66 GTATTTTCAATTTCTGTCTTT-AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG
* * * *
15446830 --ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAA
130 ACACGTTGAGGTATTTTCAATTTCTGTTTTTCAA
15446862 TTTCTGTGTT
Statistics
Matches: 358, Mismatches: 20, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
219 28 0.08
220 177 0.49
221 108 0.30
222 45 0.13
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (221 bp):
AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
GTATTTTCAATTTCTGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
CACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAATAGGTGAGTTG
AACCTCAGACACGCTGAGGTAATTTC
Found at i:15447002 original size:90 final size:90
Alignment explanation
Indices: 15446830--15447316 Score: 375
Period size: 87 Copynumber: 5.3 Consensus size: 90
15446820 GAACCTCAAG
* * * * * *
15446830 ACGCTGAGGTGTTTTCCATTTCTGTTCTTC-AATTTCTGTGTTTCAAAAAAATCAGCTCATATTG
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-T-TTTTTCAAAAAAATCAACTCATATTG
*
15446894 CGAGTGGTGAGTTGAGCCTTGACTCAC
64 CGAGAGGTGAGTTGAGCCTTGACTCAC
*
15446921 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTTTTTTCCAAAAAATCAACTCATATTGCG
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTTTTTTCAAAAAAATCAACTCATATTGCG
* **
15446986 AGAGGTGAGTTCAGCC-T--CAGAC
66 AGAGGTGAGTTGAGCCTTGACTCAC
* * * *
15447008 ACGCTGAGATATTTTCAATTTCTTTTTTTTTC-AATTTATGTTTGTCAAAAAAATCAACTCATAT
1 ACGCTGAGGTATTTTCAAATTC--TGTTTTTCAAATTT-T-TTTTTCAAAAAAATCAACTCATAT
*
15447072 TGCGAGAGGTGAGTTGAGCCTCAGA-TCAC
62 TGCGAGAGGTGAGTTGAGCCT-TGACTCAC
* * * ** **
15447101 ACGCCGAGGTATTTTCAATTGATT-TTTTTTTTATTTTTTTTCAATTTATGCTTTGCAAAAATCA
1 ACGCTGAGGTATTTTCAA---ATTCTGTTTTTCA-AATTTTT---TTT-T-C---AAAAAAATCA
* * **
15447165 ACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
54 ACTCATATTGCGAGAGGTGAGTTGAGCCTTGACTCAC
** * * * *
15447202 ATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCG
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTTTTTTCAAAAAAATCAACTCATATTGCG
* *
15447264 AGAAGTGAGTTGAGCCTTGGCTCAC
66 AGAGGTGAGTTGAGCCTTGACTCAC
** * *
15447289 GTGCTGAGCTATTTTCAATTTCT-TTTTT
1 ACGCTGAGGTATTTTCAAATTCTGTTTTT
15447317 AATGTTTAGT
Statistics
Matches: 320, Mismatches: 52, Indels: 53
0.75 0.12 0.12
Matches are distributed among these distances:
86 4 0.01
87 81 0.25
88 5 0.02
89 9 0.03
90 80 0.25
91 27 0.08
92 5 0.02
93 26 0.08
94 2 0.01
95 6 0.02
96 4 0.01
97 1 0.00
98 7 0.02
99 6 0.02
100 1 0.00
101 56 0.17
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (90 bp):
ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTTTTTTCAAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTTGACTCAC
Found at i:15447075 original size:180 final size:177
Alignment explanation
Indices: 15446783--15447118 Score: 478
Period size: 180 Copynumber: 1.9 Consensus size: 177
15446773 AATTTCTGTC
* * * * * *
15446783 TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCA
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGATATTTTCAA
* * *
15446848 TTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT
66 TTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
15446913 -TGACTCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTTT
131 CAGA-TCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTTT
* *
15446960 TTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGACACGCTGAGATATTTTCA
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCA-ACACGCTGAGATATTTTCA
* *
15447025 ATTTCTTTTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
65 ATTTC--TGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
15447089 GCCTCAGATCACACGCCGAGGTATTTTCAA
127 GCCTCAGATCACACGCCGAGGTATTTTCAA
15447119 TTGATTTTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
177 41 0.29
178 20 0.14
179 2 0.01
180 74 0.53
181 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (177 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGATATTTTCAA
TTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGATCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTTT
Found at i:15447202 original size:101 final size:102
Alignment explanation
Indices: 15447031--15447219 Score: 301
Period size: 101 Copynumber: 1.9 Consensus size: 102
15447021 TTCAATTTCT
*
15447031 TTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
*
15447096 ATCACACGCCGAGGTATTTTCAATTGATTTTTTTTTTA
65 ATCACACACCGAGGTATTTTCAATTGATTTTTTTTTTA
*
15447134 TTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG
1 TTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
* *
15447197 GTCACATACCGAGGTATTTTCAA
65 ATCACACACCGAGGTATTTTCAA
15447220 AATCTGTTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
101 58 0.73
103 18 0.22
104 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (102 bp):
TTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
TCACACACCGAGGTATTTTCAATTGATTTTTTTTTTA
Found at i:15447238 original size:101 final size:101
Alignment explanation
Indices: 15447031--15447243 Score: 261
Period size: 101 Copynumber: 2.1 Consensus size: 101
15447021 TTCAATTTCT
*
15447031 TTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
* * ****
15447096 ATCACACGCCGAGGTATTTTCAATTGATTTTTTTTTTA
65 ATCACACACCGAGGTATTTTCAA-TAATTTTTTACAAA
*
15447134 TTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG
1 TTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
* *
15447197 GTCACATACCGAGGTATTTTCAA-AATCTGTTTTACAAA
65 ATCACACACCGAGGTATTTTCAATAAT-T-TTTTACAAA
15447235 TTTTGTTTT
1 TTTT-TTTT
15447244 AAAAATCAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
99 2 0.02
100 1 0.01
101 67 0.70
102 4 0.04
103 18 0.19
104 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.41
Consensus pattern (101 bp):
TTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
TCACACACCGAGGTATTTTCAATAATTTTTTACAAA
Found at i:15447272 original size:87 final size:86
Alignment explanation
Indices: 15447157--15447383 Score: 249
Period size: 87 Copynumber: 2.6 Consensus size: 86
15447147 TATGCTTTGC
* * * * *
15447157 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGCCGAGCTATTTTCAAAA
*
15447222 TCTGTTTTACAAATTTTGTTTT
66 TCTGTTTTA-AAATTTAGTTTT
* * * * **
15447244 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGCCGAGCTATTTTCAAAA
* **
15447309 TCTTTTTTAATGTTTAGTTTT
66 TCTGTTTTAAAATTTAGTTTT
* * * *
15447330 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGATCACATGCCGAG
15447384 TAAAGAATAA
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
86 14 0.12
87 102 0.88
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGCCGAGCTATTTTCAAAA
TCTGTTTTAAAATTTAGTTTT
Found at i:15448039 original size:13 final size:14
Alignment explanation
Indices: 15448015--15448111 Score: 60
Period size: 13 Copynumber: 6.6 Consensus size: 14
15448005 ACTCCACTAG
15448015 CCACACTTGCTCCA
1 CCACACTTGCTCCA
15448029 CCACA-TTGCTCCA
1 CCACACTTGCTCCA
*
15448042 CCAC-C-TACTCCACTA
1 CCACACTTGCT-C-C-A
15448057 GCCACACTTGCTCCA
1 -CCACACTTGCTCCA
*
15448072 CCAC-C-TACTCCATTA
1 CCACACTTGCTCC---A
15448087 GCCACACTTGCTCCA
1 -CCACACTTGCTCCA
15448102 CCACCACTTG
1 CCA-CACTTG
15448112 TACCTACAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 27
0.68 0.04 0.28
Matches are distributed among these distances:
12 8 0.12
13 14 0.22
14 13 0.20
15 10 0.15
16 9 0.14
17 3 0.05
18 8 0.12
ACGTcount: A:0.23, C:0.48, G:0.07, T:0.22
Consensus pattern (14 bp):
CCACACTTGCTCCA
Found at i:15448069 original size:30 final size:30
Alignment explanation
Indices: 15448029--15448106 Score: 140
Period size: 30 Copynumber: 2.6 Consensus size: 30
15448019 ACTTGCTCCA
15448029 CCACA-TTGCTCCACCACCTACTCCACTAG
1 CCACACTTGCTCCACCACCTACTCCACTAG
*
15448058 CCACACTTGCTCCACCACCTACTCCATTAG
1 CCACACTTGCTCCACCACCTACTCCACTAG
15448088 CCACACTTGCTCCACCACC
1 CCACACTTGCTCCACCACC
15448107 ACTTGTACCT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 5 0.11
30 42 0.89
ACGTcount: A:0.23, C:0.50, G:0.06, T:0.21
Consensus pattern (30 bp):
CCACACTTGCTCCACCACCTACTCCACTAG
Found at i:15448668 original size:23 final size:25
Alignment explanation
Indices: 15448620--15448780 Score: 84
Period size: 25 Copynumber: 6.6 Consensus size: 25
15448610 TATTCTTTAA
* * *
15448620 TATATTAGGTATAT-TC-TAAATTC
1 TATATTATGTATATATCATTAATAC
*
15448643 TATATTACGTATATAT-ATT-ATAC
1 TATATTATGTATATATCATTAATAC
* *
15448666 TATTTTATGTATATATCTTTAATAC
1 TATATTATGTATATATCATTAATAC
* ** **
15448691 TATATTATTTATATATTTTCTACATGT
1 TATATTATGTATATATCAT-TA-ATAC
* *
15448718 TATCTTATGTATATAT-TTTAAT--
1 TATATTATGTATATATCATTAATAC
* ** * *
15448740 TATATTATGTATGTATTTTTTACAC
1 TATATTATGTATATATCATTAATAC
*
15448765 TATATTATGTACATAT
1 TATATTATGTATATAT
15448781 TTTTTATATC
Statistics
Matches: 110, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
22 14 0.13
23 34 0.31
24 6 0.05
25 36 0.33
26 4 0.04
27 16 0.15
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (25 bp):
TATATTATGTATATATCATTAATAC
Found at i:15448680 original size:25 final size:25
Alignment explanation
Indices: 15448642--15448797 Score: 108
Period size: 25 Copynumber: 6.4 Consensus size: 25
15448632 ATTCTAAATT
*
15448642 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
15448665 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* * *
15448690 CTATATTATTTATATATTTTCTACATG
1 CTATATTATGTATATATATT-TA-ATA
* *
15448717 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * * *
15448740 -TATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATTTAATA
* * *
15448764 CTATATTATGTACATATTTTTTATA
1 CTATATTATGTATATATATTTAATA
15448789 TCTAT-TTAT
1 -CTATATTAT
15448798 ACATATGTAT
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
22 14 0.13
23 19 0.18
24 4 0.04
25 47 0.44
26 8 0.07
27 16 0.15
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:15448878 original size:18 final size:18
Alignment explanation
Indices: 15448855--15448891 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15448845 ATATTTTATG
15448855 TATATACTTCAAACACTA
1 TATATACTTCAAACACTA
* *
15448873 TATATATTTCTAACACTA
1 TATATACTTCAAACACTA
15448891 T
1 T
15448892 TACTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (18 bp):
TATATACTTCAAACACTA
Found at i:15449676 original size:20 final size:21
Alignment explanation
Indices: 15449648--15449695 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
15449638 TGAGTTTAAA
15449648 AATTA-TTAATTAA-AAAT-T
1 AATTATTTAATTAATAAATAT
15449666 AATTTATTTAATTAATAAATAT
1 AA-TTATTTAATTAATAAATAT
15449688 AATTATTT
1 AATTATTT
15449696 TGAAAAGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 8 0.31
21 10 0.38
22 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTATTTAATTAATAAATAT
Found at i:15452782 original size:39 final size:40
Alignment explanation
Indices: 15452664--15452887 Score: 253
Period size: 39 Copynumber: 5.6 Consensus size: 40
15452654 GCTACTCGTT
*
15452664 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
15452704 CAAATGCCTTCGGGACTTAAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-AGCCCGGATTTAGTAACTCGCA
* *
15452745 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
15452784 CAAATGCCTTC--GATCTTAGTCCGGATTTAGTATCTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
15452823 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
15452864 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
15452888 GCATCATTCA
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
37 1 0.01
39 63 0.39
40 54 0.33
41 42 0.26
42 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:15452791 original size:80 final size:79
Alignment explanation
Indices: 15452664--15452874 Score: 225
Period size: 80 Copynumber: 2.7 Consensus size: 79
15452654 GCTACTCGTT
*
15452664 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAAACCC
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTC--GATCTT-AACCC
*
15452728 GGATTTAGTAACTCGCA
63 GGATTTAGTAACTCACA
* * **
15452745 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGATCTTAGTCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGATCTTAACCCGG
*
15452808 ATTTAGTATCTCACA
65 ATTTAGTAACTCACA
* * * * *
15452823 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCG
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCG
15452875 GGACTTAGCC
Statistics
Matches: 112, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
77 2 0.02
78 31 0.28
79 25 0.22
80 40 0.36
81 14 0.12
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGATCTTAACCCGGA
TTTAGTAACTCACA
Found at i:15460230 original size:22 final size:24
Alignment explanation
Indices: 15460172--15460266 Score: 79
Period size: 25 Copynumber: 3.9 Consensus size: 24
15460162 AATAGATATA
* *
15460172 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
15460196 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
15460220 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
* *
15460245 AGAAAAAATATATATAA-ATAAT
1 A-AAAATATATACATAATATAAT
15460267 ATTATATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
22 16 0.28
23 1 0.02
24 5 0.09
25 21 0.36
26 2 0.03
27 13 0.22
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:15460703 original size:16 final size:16
Alignment explanation
Indices: 15460665--15460703 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15460655 CTCCAAAAAA
*
15460665 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
15460681 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
15460697 AATAACT
1 AAAAACT
15460704 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:15460898 original size:30 final size:30
Alignment explanation
Indices: 15460862--15460989 Score: 220
Period size: 30 Copynumber: 4.3 Consensus size: 30
15460852 AGGTACAAGT
*
15460862 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
15460892 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
* *
15460922 GGTGGTGGAGCAAATGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
15460952 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
15460982 GGTGGTGG
1 GGTGGTGG
15460990 CAAAGGCTAG
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 94 1.00
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:15461950 original size:102 final size:98
Alignment explanation
Indices: 15461764--15462132 Score: 317
Period size: 102 Copynumber: 3.8 Consensus size: 98
15461754 AAAACAGATT
** * * *
15461764 TTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTT
1 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
15461827 G-CAAAGCATAAATTGAAAAAAAATAAAAATAAAAATCAA
66 GACAAA-CATAAATTG--AAAAAA-AAAAA-AAAAA--AA
15461866 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
15461931 GACAAACATAAATTG---AAAAAAAAAAAGAAA
66 GACAAACATAAATTGAAAAAAAAAAAAAAAAAA
* * * * * *
15461961 TTGAAAATATCTCAGCGTGT--TCTGAGTCTGAACTCACCTCTCGCAATATAAGTTGATTTTTTG
1 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
15462024 GA-AAA-ATAAAATTTG-------AAAAACAGAAT
66 GACAAACAT-AAA-TTGAAAAAAAAAAAAAAAAAA
* * * *
15462050 TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
1 TTGAAAATACCTCGGCGTGTGA-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
15462114 TTGA-AACACAGAAATTGAA
64 TTGACAA-ACATAAATTGAA
15462133 GAACAGAAAT
Statistics
Matches: 231, Mismatches: 23, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
89 28 0.12
91 29 0.13
92 21 0.09
93 48 0.21
94 1 0.00
95 20 0.09
97 4 0.02
98 5 0.02
99 3 0.01
102 53 0.23
104 15 0.06
105 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28
Consensus pattern (98 bp):
TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GACAAACATAAATTGAAAAAAAAAAAAAAAAAA
Found at i:15462006 original size:93 final size:90
Alignment explanation
Indices: 15461864--15462221 Score: 379
Period size: 93 Copynumber: 3.9 Consensus size: 90
15461854 AATAAAAATC
* *
15461864 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTG-TCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* *
15461929 TTGACAA-ACATAAATTGAAAAAAAAAAAGA
65 TTGA-AACACAGAAATTG----AAAAACAGA
* * * * *
15461959 AATTGAAAATATCTCAGCGTGT-TCTGAGTCTGAACTCACCTCTCGCAATATAAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
* * *
15462023 GGAAAAATA-AAATTTGAAAAACAGA
66 TGAAACACAGAAA-TTGAAAAACAGA
* * *
15462048 ATTTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAGCGTGT--GTCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT
*
15462112 TTTTGAAACACAGAAATTGAAGAACAGA
63 TTTTGAAACACAGAAATTGAAAAACAGA
* * * * *
15462140 AATGGAAAACACCTCAGC--GTCT-TAAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
*
15462202 TGAAAGACAGAAATTGAAAA
66 TGAAACACAGAAATTGAAAA
15462222 TACCTCAACG
Statistics
Matches: 227, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
87 24 0.11
88 32 0.14
89 28 0.12
90 2 0.01
91 27 0.12
92 45 0.20
93 49 0.22
95 20 0.09
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (90 bp):
AATTGAAAATACCTCAGCGTGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
TGAAACACAGAAATTGAAAAACAGA
Found at i:15462109 original size:91 final size:88
Alignment explanation
Indices: 15461864--15462221 Score: 355
Period size: 92 Copynumber: 3.9 Consensus size: 88
15461854 AATAAAAATC
* * *
15461864 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGT--TCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
*
15461929 TTGACAAACAT-AAATTGAAAAAAAAAAAGA
64 TTGA-AAA-ATAAAATTG----AAAAACAGA
* * * * * * *
15461959 AATTGAAAATATCTCAGCGTGTTCTGAGTCTGAACTCACCTCTCGCAATATAAGTTGATTTTTTG
1 AATTGAAAATACCTCAGCGTGTTCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
15462024 GAAAAATAAAATTTGAAAAACAGA
66 GAAAAATAAAA-TTGAAAAACAGA
* *
15462048 ATTTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAGCGTGT---TCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT
* * *
15462112 TTTTGAAACACAGAAATTGAAGAACAGA
62 TTTTGAAAAATA-AAATTGAAAAACAGA
* * * *
15462140 AATGGAAAACACCTCAGCGT-CT-TAAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGTTCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
* *
15462203 GAAAGACAGAAATTGAAAA
66 GAAAAATA-AAATTGAAAA
15462222 TACCTCAACG
Statistics
Matches: 228, Mismatches: 27, Indels: 24
0.82 0.10 0.09
Matches are distributed among these distances:
87 24 0.11
88 32 0.14
89 28 0.12
91 29 0.13
92 48 0.21
93 47 0.21
95 20 0.09
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (88 bp):
AATTGAAAATACCTCAGCGTGTTCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
GAAAAATAAAATTGAAAAACAGA
Found at i:15462275 original size:73 final size:73
Alignment explanation
Indices: 15462128--15462735 Score: 746
Period size: 73 Copynumber: 8.3 Consensus size: 73
15462118 AACACAGAAA
* * * * *
15462128 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTAAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
15462191 GCTGATTTTT
65 GTTGA-TTTT
15462201 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
15462266 GTTGA-TTT
65 GTTGATTTT
* * * * *
15462274 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
15462337 GTTGATTTTT
65 GTTGA-TTTT
*
15462347 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
15462412 GCTGATTTTT
65 GTTGA-TTTT
* * * *
15462422 TTTAAGACAGAAA-AGAAAATACCTCAACGTGTCTTGAGGCTCAACTTACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
15462486 TTGA-TTT
66 TTGATTTT
* * * * * *
15462493 TTAACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
15462558 GTTGATTTTT
65 GTTGA-TTTT
* *
15462568 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
15462633 GTTGA-GTT
65 GTTGATTTT
* * * * *
15462641 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
15462706 GTTGATTTT
65 GTTGATTTT
* * *
15462715 TTTAGAAACATAAATTAAAAA
1 TTGA-AAACAGAAATTGAAAA
15462736 AACGAAAATT
Statistics
Matches: 466, Mismatches: 53, Indels: 31
0.85 0.10 0.06
Matches are distributed among these distances:
71 43 0.09
72 9 0.02
73 235 0.50
74 38 0.08
75 141 0.30
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:15462561 original size:221 final size:221
Alignment explanation
Indices: 15462128--15462802 Score: 887
Period size: 221 Copynumber: 3.0 Consensus size: 221
15462118 AACACAGAAA
* * * * *
15462128 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTAAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
15462191 GCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GCTGATTTTTTT-AAAGACAGAAA-AGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* * *
15462256 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGTTCAAC
129 CGCAATATGAGTTGATTTTTAACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
15462319 TCACCTATCGCAATATGAGTTGATTTTT
194 TCACCTATCGCAATATGAGTTGATTTTT
15462347 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* *
15462412 GCTGATTTTTTTTAAGACAGAAAAGAAAATACCTCAACGTGTCTTGAGGCTCAACTTACCTCTCG
66 GCTGATTTTTTTAAAGACAGAAAAGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
15462477 CAATATGAGTTGATTTTTAACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
131 CAATATGAGTTGATTTTTAACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
15462542 ACCTATCGCAATATGAGTTGATTTTT
196 ACCTATCGCAATATGAGTTGATTTTT
* * * *
15462568 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * *
15462633 GTTGA-GTTTTGACAA-ACA-AAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTC
66 GCTGATTTTTTTA-AAGACAGAAAA--GAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
15462695 TCGCAATATGAGTTGATTTTTTTAGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGC
128 TCGCAATATGAGTTGA--TTTTT---AAC-----------AAACAAAAATTGAAATTACCTCAGC
*
15462760 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
177 GTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
15462803 GAAAAGCAGA
Statistics
Matches: 406, Mismatches: 27, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
219 113 0.28
220 18 0.04
221 202 0.50
223 5 0.01
226 3 0.01
237 65 0.16
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (221 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GCTGATTTTTTTAAAGACAGAAAAGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTAACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
ACCTATCGCAATATGAGTTGATTTTT
Found at i:15462940 original size:14 final size:13
Alignment explanation
Indices: 15462905--15462949 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
15462895 TTGATTTTTG
15462905 AAAAACAGAAATT
1 AAAAACAGAAATT
*
15462918 AAAAGCAGAAATT
1 AAAAACAGAAATT
15462931 GAAAAACAGAAATT
1 -AAAAACAGAAATT
15462945 AAAAA
1 AAAAA
15462950 TACCTCAGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:15462971 original size:100 final size:99
Alignment explanation
Indices: 15462733--15462993 Score: 400
Period size: 100 Copynumber: 2.6 Consensus size: 99
15462723 CATAAATTAA
*
15462733 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
15462797 TGATTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTGAAAAACAGAAATTGAAAAGCAAAAATTG
*
15462832 AAAAACAGAAATTGAAAATACCTCAGCGCGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
15462897 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GA--TTTGAAAAACAGAAATTGAAAAGCAAAAATTG
* *
15462932 AAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
15462994 CCTGAGGCCC
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
99 63 0.42
100 71 0.48
101 15 0.10
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (99 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTGAAAAACAGAAATTGAAAAGCAAAAATTG
Found at i:15463001 original size:31 final size:31
Alignment explanation
Indices: 15462966--15463024 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
15462956 AGCGTGCCCC
*
15462966 GAGGCTCAACTCACCTCTCGCAATATGACCT
1 GAGGCCCAACTCACCTCTCGCAATATGACCT
15462997 GAGGCCCAACTCACCTCTCGCAATATGA
1 GAGGCCCAACTCACCTCTCGCAATATGA
15463025 GTTGATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (31 bp):
GAGGCCCAACTCACCTCTCGCAATATGACCT
Found at i:15476130 original size:40 final size:40
Alignment explanation
Indices: 15476093--15476256 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
15476083 GCTACTCGTT
*
15476093 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
15476133 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
15476173 CAAATGCCTTCGGG-C-TTACCCGGA-TTAGT-ACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
15476209 CAAATG-CTTC-GG-C-TTAGCCGGA-TTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
15476244 CAAATGCCTTCGG
1 CAAATGCCTTCGG
15476257 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
34 16 0.14
35 16 0.14
36 17 0.15
37 6 0.05
38 8 0.07
39 1 0.01
40 49 0.43
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:15476245 original size:71 final size:80
Alignment explanation
Indices: 15476093--15476309 Score: 249
Period size: 76 Copynumber: 2.8 Consensus size: 80
15476083 GCTACTCGTT
*
15476093 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
15476158 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* *
15476173 CAAATGCCTTCGGG-CTTA-CCCGGAT-TAGT-ACTCGCACAAATG-CTTC-GG-CTT-AGCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
15476230 A-TTAGTATCTCGCA
66 ATTTAGTAACTCGCA
* * * * * *
15476244 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
15476307 GGA
64 GGA
15476310 CATCATTCAA
Statistics
Matches: 118, Mismatches: 9, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
70 2 0.02
71 23 0.19
72 10 0.08
73 9 0.08
74 5 0.04
75 7 0.06
76 25 0.21
77 6 0.05
78 9 0.08
79 8 0.07
80 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:15484039 original size:40 final size:39
Alignment explanation
Indices: 15484002--15484224 Score: 265
Period size: 40 Copynumber: 5.7 Consensus size: 39
15483992 GCTACTCGTT
* *
15484002 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
15484042 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
* *
15484082 CAAATGCCTTCGGG-CTTAGCCCGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* *
15484120 CAAATGCCTTC-GGATCTTAGTCCGGATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTAGTAACTCGCA
* * * *
15484159 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
15484200 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15484225 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
37 2 0.01
38 23 0.14
39 58 0.35
40 69 0.42
41 12 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:15484145 original size:78 final size:79
Alignment explanation
Indices: 15484002--15484224 Score: 249
Period size: 78 Copynumber: 2.8 Consensus size: 79
15483992 GCTACTCGTT
**
15484002 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
15484067 ATTTAGTAACTCGCA
66 A-TTAGTAACTCGCA
* * **
15484082 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
15484144 GATTAGTATCTCGCA
65 GATTAGTAACTCGCA
* * * * * * *
15484159 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
15484222 GGA
64 GGA
15484225 CATCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
76 2 0.02
77 26 0.21
78 41 0.33
79 29 0.24
80 25 0.20
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTAGTAACTCGCA
Found at i:15484209 original size:117 final size:119
Alignment explanation
Indices: 15484002--15484222 Score: 290
Period size: 117 Copynumber: 1.9 Consensus size: 119
15483992 GCTACTCGTT
*
15484002 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
15484067 ATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTATCTCGCA
* * * **
15484120 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
15484182 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCG
15484223 GACATCATTC
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
116 3 0.03
117 49 0.55
118 37 0.42
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTATCTCGCA
Found at i:15488968 original size:37 final size:35
Alignment explanation
Indices: 15488884--15488968 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
15488874 ATCATAGTGG
* *
15488884 CATGCTTAACATGCGAATCAGAATAAAAAATTTGA
1 CATGCTTAACATGCGAATCAGAACAAAAAATTTAA
* * *
15488919 CATGCTTAACATGCGAATCGGAACATCAGAATATTAA
1 CATGCTTAACATGCGAATCAGAACA-AAAAAT-TTAA
*
15488956 CATGTTTAACATG
1 CATGCTTAACATG
15488969 TAAATTAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 23 0.55
36 4 0.10
37 15 0.36
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (35 bp):
CATGCTTAACATGCGAATCAGAACAAAAAATTTAA
Found at i:15489893 original size:25 final size:25
Alignment explanation
Indices: 15489842--15489894 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
15489832 GGTGGTCGAT
* * *
15489842 GGCGGTGGTGCGACAGTGCAACGGA
1 GGCGATGGTGCGACAGTACAACAGA
* *
15489867 GGCGATGGTGCGATAGTATAACAGA
1 GGCGATGGTGCGACAGTACAACAGA
15489892 GGC
1 GGC
15489895 AGTGGTGACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.17, G:0.43, T:0.15
Consensus pattern (25 bp):
GGCGATGGTGCGACAGTACAACAGA
Found at i:15489900 original size:25 final size:24
Alignment explanation
Indices: 15489846--15489901 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
15489836 GTCGATGGCG
* *
15489846 GTGGTGCGACAGTGCAACGGAGGC
1 GTGGTGCGACAGTACAACAGAGGC
* *
15489870 GATGGTGCGATAGTATAACAGAGGC
1 G-TGGTGCGACAGTACAACAGAGGC
15489895 AGTGGTG
1 -GTGGTG
15489902 ACAGAAGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 24 0.92
26 1 0.04
ACGTcount: A:0.25, C:0.14, G:0.43, T:0.18
Consensus pattern (24 bp):
GTGGTGCGACAGTACAACAGAGGC
Done.