Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 181 of 410
Found at i:55186153 original size:71 final size:71
Alignment explanation
Indices: 55186037--55186178 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 71
55186027 TGCTTTATCA
*
55186037 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
55186102 CCCTTT
66 CCCTTT
* **
55186108 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCAATAACTGGGGCATA
55186171 AGCCCTTT
64 AGCCCTTT
55186179 GAACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
70 21 0.32
71 44 0.68
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:55186259 original size:11 final size:11
Alignment explanation
Indices: 55186229--55186282 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
55186219 TATGATTACC
55186229 TCATGTGCATA
1 TCATGTGCATA
*
55186240 TCA--TACATA
1 TCATGTGCATA
55186249 TCATGTGCATA
1 TCATGTGCATA
*
55186260 TCA--TACAT-
1 TCATGTGCATA
55186268 TCATGTGCATA
1 TCATGTGCATA
55186279 TCAT
1 TCAT
55186283 ACATACATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:55186273 original size:19 final size:20
Alignment explanation
Indices: 55186229--55186287 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
55186219 TATGATTACC
55186229 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
55186249 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
55186268 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
55186288 CATATTTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:55186361 original size:25 final size:25
Alignment explanation
Indices: 55186329--55186376 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55186319 ATACATAAAC
* * *
55186329 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
55186354 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
55186377 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:55200293 original size:23 final size:23
Alignment explanation
Indices: 55200263--55200310 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
55200253 AATCTGTGAC
55200263 GAAATAGAATTGATAAATGATTT
1 GAAATAGAATTGATAAATGATTT
55200286 GAAATAGAATTGATAAATGATTT
1 GAAATAGAATTGATAAATGATTT
55200309 GA
1 GA
55200311 GAACTACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (23 bp):
GAAATAGAATTGATAAATGATTT
Found at i:55203240 original size:26 final size:26
Alignment explanation
Indices: 55203184--55203243 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
55203174 CAATATGAAG
* * *
55203184 AATGACTGTTATACCTCTATGTGGTA
1 AATGACTGATATACCCCTATGTGATA
*
55203210 AATGACTGATATACCCCTATGTGATG
1 AATGACTGATATACCCCTATGTGATA
*
55203236 TATGACTG
1 AATGACTG
55203244 GTTGAGCATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (26 bp):
AATGACTGATATACCCCTATGTGATA
Found at i:55208794 original size:93 final size:93
Alignment explanation
Indices: 55208682--55208853 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55208672 CCGCCATAAG
* *
55208682 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55208747 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55208775 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55208840 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55208854 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55208850 original size:46 final size:46
Alignment explanation
Indices: 55208675--55208850 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55208665 ATGTAACCCG
* * *
55208675 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55208721 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55208771 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55208814 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55208851 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55216299 original size:93 final size:93
Alignment explanation
Indices: 55216187--55216358 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55216177 CGCCCATAAG
* *
55216187 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55216252 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55216280 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55216345 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55216359 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55216355 original size:46 final size:46
Alignment explanation
Indices: 55216180--55216355 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55216170 TGTAACCCGC
* * *
55216180 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55216226 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55216276 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55216319 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55216356 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55222786 original size:39 final size:39
Alignment explanation
Indices: 55222743--55222819 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
55222733 ATGCAAAACA
*
55222743 CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
1 CATATTAATCATGTGCAAACTATGACATAATTAAAGACT
*
55222782 CATATTAATCATGTTCAAACTATGACATAATTAAAGAC
1 CATATTAATCATGTGCAAACTATGACATAATTAAAGAC
55222820 ACAAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.31
Consensus pattern (39 bp):
CATATTAATCATGTGCAAACTATGACATAATTAAAGACT
Found at i:55222837 original size:9 final size:9
Alignment explanation
Indices: 55222823--55222848 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
55222813 TAAAGACACA
55222823 AACTAAAAT
1 AACTAAAAT
55222832 AACTAAAAT
1 AACTAAAAT
55222841 AACTAAAA
1 AACTAAAA
55222849 ATAAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:55224485 original size:27 final size:28
Alignment explanation
Indices: 55224455--55224514 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
55224445 TTTTTTGCTC
*
55224455 TCTTTCGTTCTTTTTTTCTTTTT-ATTT
1 TCTTTCATTCTTTTTTTCTTTTTCATTT
*
55224482 TCTTTCATTCTTTTTTTCTTTTTCTTTT
1 TCTTTCATTCTTTTTTTCTTTTTCATTT
55224510 TCTTT
1 TCTTT
55224515 TTTTTCACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (28 bp):
TCTTTCATTCTTTTTTTCTTTTTCATTT
Found at i:55226803 original size:13 final size:13
Alignment explanation
Indices: 55226777--55226811 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
55226767 CCAAAACAAC
*
55226777 TTAATAAGCTTAA
1 TTAATAAACTTAA
*
55226790 TTATTAAACTTAA
1 TTAATAAACTTAA
55226803 TTAATAAAC
1 TTAATAAAC
55226812 ACAATTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (13 bp):
TTAATAAACTTAA
Found at i:55229205 original size:68 final size:67
Alignment explanation
Indices: 55229133--55229282 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
55229123 CATCATGTGT
* * * *
55229133 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
55229195 ATGTAG
62 ATGTAG
** * *
55229201 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
55229266 AG
66 AG
55229268 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
55229283 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:55229238 original size:64 final size:64
Alignment explanation
Indices: 55229157--55229340 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
55229147 AGACATTATG
* *
55229157 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
55229221 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55229286 AA
63 AA
* * * *
55229288 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55229341 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55233724 original size:30 final size:30
Alignment explanation
Indices: 55233679--55233738 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
55233669 ATTTAATACG
55233679 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
55233709 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
55233739 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:55237425 original size:80 final size:80
Alignment explanation
Indices: 55237341--55237489 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55237331 TATGGTAACC
* * * *
55237341 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55237405 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55237421 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55237486 CCGG
66 CCGG
55237490 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55237431 original size:40 final size:38
Alignment explanation
Indices: 55237382--55237489 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55237372 ATCACGATTT
*
55237382 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55237422 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55237462 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55237490 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55245541 original size:80 final size:80
Alignment explanation
Indices: 55245457--55245605 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55245447 TATGGTAACC
* * * *
55245457 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55245521 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55245537 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55245602 CCGG
66 CCGG
55245606 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55245547 original size:40 final size:38
Alignment explanation
Indices: 55245498--55245605 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55245488 ATCACGATTT
*
55245498 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55245538 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55245578 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55245606 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55247848 original size:29 final size:30
Alignment explanation
Indices: 55247816--55247887 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
55247806 TTAAATGAAA
*
55247816 GAAAAAAAAGAAAATTGAGAAA-AAAA-GAG
1 GAAAAAAAAGAAAAGTGA-AAAGAAAATGAG
*
55247845 GAAAAACAAAAAAAAGTGAAAAGAAAATGAG
1 GAAAAA-AAAGAAAAGTGAAAAGAAAATGAG
*
55247876 AAAAGAAAAAGA
1 GAAA-AAAAAGA
55247888 TGAAAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 9 0.26
30 14 0.40
31 10 0.29
32 2 0.06
ACGTcount: A:0.74, C:0.01, G:0.19, T:0.06
Consensus pattern (30 bp):
GAAAAAAAAGAAAAGTGAAAAGAAAATGAG
Found at i:55247901 original size:15 final size:14
Alignment explanation
Indices: 55247855--55247902 Score: 64
Period size: 13 Copynumber: 3.5 Consensus size: 14
55247845 GAAAAACAAA
55247855 AAAAAG-TGAAAAG
1 AAAAAGATGAAAAG
*
55247868 AAAATGA-GAAAAG
1 AAAAAGATGAAAAG
55247881 AAAAAGATGAAAAAG
1 AAAAAGATG-AAAAG
55247896 AAAAAGA
1 AAAAAGA
55247903 ATGTGAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 17 0.57
14 1 0.03
15 12 0.40
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (14 bp):
AAAAAGATGAAAAG
Found at i:55250521 original size:46 final size:46
Alignment explanation
Indices: 55250453--55250579 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 46
55250443 TATATATACA
* * * *
55250453 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACG-TATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC-CGATATC
* * * *
55250499 CATCTCATACACGTTTTGCATTAGCCACTCGGCTTTACCTGATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCGATATC
55250545 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
55250580 CGCCACATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCGATATC
Found at i:55250621 original size:47 final size:45
Alignment explanation
Indices: 55250563--55250732 Score: 169
Period size: 47 Copynumber: 3.6 Consensus size: 45
55250553 ACACATTTCG
* ** * *
55250563 CATTAGCCATTCGGCTTCGCCACATATATACACTTCCACGTTCATCA
1 CATTGGCCATTCGGCTT-ATCACATATATGCA-TTCCACATTCATCA
** *
55250610 CATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTC-GGCTTATCACATATATGCAT-TCCACATTCATCA
* * *
55250657 CATTGCCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGG-CTTATCACATATATGCATTC-CACATTCATCA
*
55250704 CATTGGCCATTCGGCCTTATCACACATAT
1 CATTGGCCATTCGG-CTTATCACATATAT
55250733 TTGGCCTTAT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.01
47 100 0.96
48 3 0.03
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (45 bp):
CATTGGCCATTCGGCTTATCACATATATGCATTCCACATTCATCA
Found at i:55250746 original size:66 final size:66
Alignment explanation
Indices: 55250665--55250864 Score: 346
Period size: 66 Copynumber: 3.0 Consensus size: 66
55250655 CACATTGCCC
*
55250665 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
55250730 T
66 T
* *
55250731 ATTTGGCCTTATCACACATATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
55250796 T
66 T
* * *
55250797 ATTCAGCCTTATCATACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
55250862 T
66 T
55250863 AT
1 AT
55250865 GCATGCTCAC
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 126 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (66 bp):
ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
T
Found at i:55250805 original size:19 final size:19
Alignment explanation
Indices: 55250778--55250817 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
55250768 CACATTGGCC
*
55250778 ATTCGGCCTTATCACACAT
1 ATTCAGCCTTATCACACAT
*
55250797 ATTCAGCCTTATCATACAT
1 ATTCAGCCTTATCACACAT
55250816 AT
1 AT
55250818 GCATGTTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (19 bp):
ATTCAGCCTTATCACACAT
Found at i:55250852 original size:113 final size:117
Alignment explanation
Indices: 55250603--55250886 Score: 331
Period size: 113 Copynumber: 2.5 Consensus size: 117
55250593 CACTTCCACG
**
55250603 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCATCACATTGCCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGCCCATT
* *
55250668 CGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
66 CGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGACA
* * * * *
55250720 TT-ATCACA----CATATTTGGCCTTATCACACATATGCATATTCACATTCATCACATTGGCCAT
1 TTCATCACATTGGC-CATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGCCCAT
* **
55250780 TCGGCCTTATCACACATATTCA-GC-CTTA-TCAT-ACATAT-G-CATGTTC-ACA
65 TCGGCCTTATCACACATATGCATGCTCACATTCATCACAT-TGGCCA--TTCGACA
*
55250829 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATT
55250887 AAAATCCTAA
Statistics
Matches: 141, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
108 2 0.01
109 8 0.06
110 14 0.10
111 2 0.01
112 3 0.02
113 103 0.73
114 1 0.01
116 6 0.04
117 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (117 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGCCCATT
CGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGACA
Found at i:55250855 original size:47 final size:47
Alignment explanation
Indices: 55250797--55250886 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 47
55250787 TATCACACAT
* *
55250797 ATTCAGCCTTATCATACATATGCATGTTCACATTCATCACATTGGCC
1 ATTCAGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
* *
55250844 ATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 ATTCAGCCTTATCACACATATGCATGCTCACATTCATCACATT
55250887 AAAATCCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (47 bp):
ATTCAGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCC
Found at i:55266486 original size:40 final size:40
Alignment explanation
Indices: 55266441--55266610 Score: 200
Period size: 40 Copynumber: 4.2 Consensus size: 40
55266431 CGGAATACAA
**
55266441 CCGGATATAACCAGATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
55266481 CCGGATATAA-CATCTTGCACAAATGCCTTTGGGTATTAGC
1 CCGGATATAACCA-CTTGCACGAATGCCTTCGGGTCTTAGC
* *
55266521 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
55266561 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
55266601 CCGGATATAA
1 CCGGATATAA
55266611 TTACTAGCAT
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 4 0.04
40 104 0.95
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:55266581 original size:80 final size:80
Alignment explanation
Indices: 55266456--55266606 Score: 223
Period size: 80 Copynumber: 1.9 Consensus size: 80
55266446 TATAACCAGA
* * *
55266456 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACATCTTGCACAAATGCCTTTGGGTATTAGC
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACATCTAGCACAAATGCCTTCGGGTATTAAC
55266521 CCGGATTTAACAACT
66 CCGGATTTAACAACT
* * * *
55266536 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTCA-CTAGCACAATTGCCTTCGGGTCTTAA
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACATCTAGCACAAATGCCTTCGGGTATTAA
55266600 CCCGGAT
65 CCCGGAT
55266607 ATAATTACTA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
80 61 0.97
81 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (80 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACATCTAGCACAAATGCCTTCGGGTATTAAC
CCGGATTTAACAACT
Found at i:55266617 original size:40 final size:39
Alignment explanation
Indices: 55266457--55266648 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 39
55266447 ATAACCAGAT
*
55266457 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAA-CATCTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATCA-CTA
* * * *
55266497 GCACAAATGCCTTTGGGTATTAGCCCGGATTTAA-CAACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
* *
55266537 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATCACTA
* *
55266577 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTACTA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTA
* * ** *
55266617 GCATAAATGTCTTTAGGACTTAGCCCGGATAT
1 GCA-CAATGCCTTCGGGTCTTAGCCCGGATAT
55266649 CATTCAATTG
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 122 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAATCACTA
Found at i:55268974 original size:40 final size:40
Alignment explanation
Indices: 55268891--55269042 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
55268881 TCGAATGATG
* *
55268891 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* *
55268931 TCCGGACTAAGGT-CCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTGACCAAA
* * **
55268971 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
55269012 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
55269043 ACGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 79 0.85
41 12 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:55276977 original size:40 final size:39
Alignment explanation
Indices: 55276928--55277135 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 39
55276918 TCTTCGGAAT
* *
55276928 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
55276967 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
55277007 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
55277047 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* * * *
55277087 TTAGCCCAGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
55277127 TTAGCCCGG
1 TTAGCCCGG
55277136 GTATCATTCA
Statistics
Matches: 144, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.02
40 138 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:55280363 original size:40 final size:40
Alignment explanation
Indices: 55280266--55280406 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
55280256 TCGAATGATG
* * *
55280266 TCCGGGATAAGTCCCGAGGGCTTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAA
**
55280306 TCCGGACTAAGGT-CCGAAGGCTTTGTGCTAAGTGACCAAA
1 TCCGGGTTAA-GTCCCGAAGGCTTTGTGCTAAGTGACCAAA
* * * *
55280346 TCTGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACCAAA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAA
55280386 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
55280407 ATTCGTGCGA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
39 2 0.02
40 77 0.89
41 8 0.09
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAA
Found at i:55280431 original size:40 final size:40
Alignment explanation
Indices: 55280340--55280446 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
55280330 GTGCTAAGTG
* *
55280340 ACCAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT
1 ACCAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGCT
55280380 ACCAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGCT
1 ACCAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGCT
** * *
55280420 ATTATAA-CCGGGCTATGTCCCGAAGGC
1 ACCA-AATCCGGGTTAAGTCCCGAAGGC
55280447 TTTTGAGCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 58 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
ACCAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGCT
Found at i:55285016 original size:31 final size:31
Alignment explanation
Indices: 55284973--55285089 Score: 193
Period size: 31 Copynumber: 3.8 Consensus size: 31
55284963 TCAATCTCAG
55284973 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
55285003 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
55285034 CATATCA-TAGGGCCGAAGCCTTTTCATTATT
1 CATATCACT-GGGCCGAAGCCTTTACATTATT
55285065 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
55285090 TGTAACAATA
Statistics
Matches: 82, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
30 6 0.07
31 75 0.91
32 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:55291696 original size:28 final size:28
Alignment explanation
Indices: 55291627--55291727 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55291617 GACAAGATTG
* * * *
55291627 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
55291657 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55291685 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
55291714 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55291728 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55299619 original size:28 final size:28
Alignment explanation
Indices: 55299550--55299650 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55299540 GACAAGATTG
* * * *
55299550 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
55299580 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55299608 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
55299637 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55299651 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55302693 original size:55 final size:53
Alignment explanation
Indices: 55302606--55302860 Score: 270
Period size: 55 Copynumber: 4.8 Consensus size: 53
55302596 ATTAGGGTTT
*
55302606 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA-TTGGTAA-GTTTCTAAGGC
* * * * *
55302661 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * *
55302716 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * *
55302769 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT-TCA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * *
55302818 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
55302861 GTACCCACGT
Statistics
Matches: 171, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 42 0.25
54 9 0.05
55 69 0.40
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:55302812 original size:108 final size:110
Alignment explanation
Indices: 55302613--55302813 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
55302603 TTTAAGGATA
*
55302613 CCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
55302678 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
55302723 CCATGTAAGACCATGCCAAGGCATGGCA-TTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
55302785 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
55302814 TTCAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 6 0.07
110 28 0.33
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:55303073 original size:16 final size:16
Alignment explanation
Indices: 55303052--55303082 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55303042 ATAAATTTGA
55303052 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
55303068 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
55303083 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:55309764 original size:29 final size:29
Alignment explanation
Indices: 55309661--55309765 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 29
55309651 ACGGCATAAC
* *
55309661 GACGATCATCAACTATGAAAAGGGATAGCT
1 GACGACCATCAACTATGAAAAGGGAT-GGT
* * *
55309691 -TCGACTATCAATTATGAAAAGGGATGGT
1 GACGACCATCAACTATGAAAAGGGATGGT
***
55309719 GACGGTAATCAACTATGAAAAGGGATGGT
1 GACGACCATCAACTATGAAAAGGGATGGT
55309748 GACGACCATCGAA-TATGA
1 GACGACCATC-AACTATGA
55309766 GATAGCTTCG
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 2 0.03
29 56 0.93
30 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (29 bp):
GACGACCATCAACTATGAAAAGGGATGGT
Found at i:55314133 original size:49 final size:49
Alignment explanation
Indices: 55314077--55314321 Score: 312
Period size: 49 Copynumber: 4.9 Consensus size: 49
55314067 TAGCCAAAGC
55314077 TATCTGGTACGA-ATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTAC-ACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
** * *
55314126 TATCTGGTACATGTGGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * * * *
55314176 CATCTGATACACGTAGTAGCCTGCACTTAGTAATACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * *
55314227 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
55314276 TATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
55314322 TCACAATAGA
Statistics
Matches: 167, Mismatches: 25, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 84 0.50
50 45 0.27
51 37 0.22
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:55314261 original size:101 final size:98
Alignment explanation
Indices: 55314089--55314321 Score: 313
Period size: 100 Copynumber: 2.3 Consensus size: 98
55314079 TCTGGTACGA
* * ** *
55314089 ATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACATGTGGTAGCCTGCACTT
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCCTGCACTT
*
55314154 AGTACTACACATGTGACCTAACCATCTGATACAC
66 AGTACTACACATGCGACC-AACCATCTGATACAC
* * * *
55314188 GTAGTAGCCTGCACTTAGTAATACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGGGTACACATAGTAGCCTGCAC
** * *
55314253 TTAGTACTACACATGCGACCAATTATTTGGTACAC
64 TTAGTACTACACATGCGACCAACCATCTGATACAC
55314288 ATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACC
55314322 TCACAATAGA
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 30 0.26
100 44 0.38
101 41 0.36
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (98 bp):
ATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCCTGCACTT
AGTACTACACATGCGACCAACCATCTGATACAC
Found at i:55319000 original size:16 final size:16
Alignment explanation
Indices: 55318976--55319012 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
55318966 TAAAAAAAAG
*
55318976 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
*
55318992 AAAAAAAATGAGTCTT
1 AAAAAAAATGAATCTT
55319008 AAAAA
1 AAAAA
55319013 CTTAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:55331516 original size:32 final size:31
Alignment explanation
Indices: 55331479--55331541 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
55331469 AGGTTAATAT
55331479 TGTAACACCCCCGTACCCAAGACCATTGCCGG
1 TGTAAC-CCCCCGTACCCAAGACCATTGCCGG
* * *
55331511 TGTAACGCCCCGTACCCGAGACCGTTGCCGG
1 TGTAACCCCCCGTACCCAAGACCATTGCCGG
55331542 AGTCGAACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 22 0.79
32 6 0.21
ACGTcount: A:0.21, C:0.40, G:0.24, T:0.16
Consensus pattern (31 bp):
TGTAACCCCCCGTACCCAAGACCATTGCCGG
Found at i:55332939 original size:46 final size:48
Alignment explanation
Indices: 55332812--55332941 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 48
55332802 TGTAACCCGC
55332812 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * *
55332862 -C-TCA-CGAACACGGACTCAACTCAACGAGTTCGGA-C-A-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
55332905 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55332942 TGCCCAAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 28 0.41
47 28 0.41
48 2 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:55332960 original size:46 final size:45
Alignment explanation
Indices: 55332817--55332947 Score: 140
Period size: 47 Copynumber: 2.8 Consensus size: 45
55332807 CCCGCCCATA
*
55332817 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * * * *
55332865 A-CGAACACGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCC
55332910 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
55332948 AATATCCCAG
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
44 5 0.07
45 1 0.01
46 27 0.39
47 31 0.45
48 1 0.01
49 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:55338267 original size:40 final size:39
Alignment explanation
Indices: 55338181--55338364 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
55338171 AAATTGAATG
* * * * *
55338181 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
55338221 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
*
55338261 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
55338301 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
55338340 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
55338365 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 110 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:55346390 original size:40 final size:39
Alignment explanation
Indices: 55346304--55346487 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
55346294 AAATTGAATG
* * * * *
55346304 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
55346344 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
*
55346384 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
55346424 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
55346463 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
55346488 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 110 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:55348483 original size:40 final size:40
Alignment explanation
Indices: 55348424--55348610 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
55348414 CATTGGAATG
* * * *
55348424 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
55348464 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
55348504 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
55348544 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
55348584 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
55348611 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:55348526 original size:80 final size:80
Alignment explanation
Indices: 55348424--55348577 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
55348414 CATTGGAATG
* * ** *
55348424 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
55348489 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
55348504 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
55348569 ATCGTGCGA
66 ATCGTGCGA
55348578 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:55348592 original size:80 final size:80
Alignment explanation
Indices: 55348428--55348610 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
55348418 GGAATGATAT
* ** * *
55348428 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
55348493 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
55348508 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
55348573 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
55348588 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
55348611 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:55348630 original size:80 final size:80
Alignment explanation
Indices: 55348428--55348645 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
55348418 GGAATGATAT
* * * * * * * *
55348428 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
55348492 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
55348508 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
55348573 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
55348588 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
55348646 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:55356517 original size:40 final size:40
Alignment explanation
Indices: 55356458--55356644 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
55356448 CATTGGAATG
* * * *
55356458 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
55356498 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
55356538 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
55356578 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
55356618 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
55356645 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:55356560 original size:80 final size:80
Alignment explanation
Indices: 55356458--55356611 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
55356448 CATTGGAATG
* * ** *
55356458 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
55356523 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
55356538 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
55356603 ATCGTGCGA
66 ATCGTGCGA
55356612 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:55356626 original size:80 final size:80
Alignment explanation
Indices: 55356462--55356644 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
55356452 GGAATGATAT
* ** * *
55356462 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
55356527 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
55356542 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
55356607 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
55356622 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
55356645 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:55356664 original size:80 final size:80
Alignment explanation
Indices: 55356462--55356679 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
55356452 GGAATGATAT
* * * * * * * *
55356462 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
55356526 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
55356542 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
55356607 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
55356622 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
55356680 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:55358291 original size:46 final size:46
Alignment explanation
Indices: 55358224--55358343 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
55358214 TGTAACCCGC
55358224 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGA-ATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCAGGACATTCGCAT
* * ** *
55358270 CCATAAGTGAAATCGGACTCAACTCAATGAGTTTGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTCAGGACATTCGCAT
* *
55358316 CCATAAGTGAACTCAGACTCAATTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
55358344 AAGTTCGGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 4 0.06
46 60 0.94
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTCAGGACATTCGCAT
Found at i:55360369 original size:2 final size:2
Alignment explanation
Indices: 55360362--55360389 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
55360352 TGCATGCTAC
55360362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55360390 GCATTAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55362018 original size:39 final size:39
Alignment explanation
Indices: 55361975--55362124 Score: 158
Period size: 39 Copynumber: 3.8 Consensus size: 39
55361965 ACTAGCACAA
* *
55361975 AGCCTGCGGGACTTTAGGCCCGGATAT-ATTCCAGCACGT
1 AGCCTGC-GGACCTTAAGCCCGGATATGATTCCAGCACGT
* *
55362014 AGCCTGCGGACCTTAAGTCCGGATATGTTTCCAGCACGT
1 AGCCTGCGGACCTTAAGCCCGGATATGATTCCAGCACGT
* * * * * *
55362053 AGCCTACAGACCTCAAGTCCGGATATGTTTCCGGCACGT
1 AGCCTGCGGACCTTAAGCCCGGATATGATTCCAGCACGT
* ** *
55362092 AGCCTGCGGACCTCAAATCCGGATATGTTTCCA
1 AGCCTGCGGACCTTAAGCCCGGATATGATTCCA
55362125 AATATCATGC
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
38 16 0.16
39 82 0.84
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGCCCGGATATGATTCCAGCACGT
Found at i:55366337 original size:50 final size:50
Alignment explanation
Indices: 55366273--55366656 Score: 410
Period size: 50 Copynumber: 7.6 Consensus size: 50
55366263 CTGGTATTCA
* *
55366273 TAGTAGCCTGCACTTAGTGCTACACATGAGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
*** * *
55366323 TAGTAGCCTGCACTTAGTACTACACCCATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * * * * ** *
55366373 TAGTAGCCTGCACTTATTACTACACACGTGATCGAAGCTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATCTGGTACACG
*
55366424 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * * ** *
55366474 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTAT-TGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATCT-GGTACACG
*
55366525 TAGTAGCCTGCACTTAGTACTACACATGAGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * *** *
55366575 TAGTAGCCTGCACTTAGTACTACACACGTGACCCAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CC-TAACAATCTGGTACACG
* *
55366627 TAGTAGCCTGCACATAGTGCTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
55366657 TTCTTACAAC
Statistics
Matches: 274, Mismatches: 54, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
50 153 0.56
51 83 0.30
52 38 0.14
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
Found at i:55366447 original size:101 final size:100
Alignment explanation
Indices: 55366273--55366605 Score: 465
Period size: 101 Copynumber: 3.3 Consensus size: 100
55366263 CTGGTATTCA
* * * * * * * ** *
55366273 TAGTAGCCTGCACTTAGTGCTACACATGAGACCTAA-CAATCTGGTACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTATGCATAGTAGCCTGCACT
* *
55366337 TAGTACTACACCCATGACCTAACCATCTGATACACG
66 TAGTACTACA-CCATGACCTAACAATCTGGTACACG
*
55366373 TAGTAGCCTGCACTTATTACTACACACGTGATCGAAGCTATCGGGTATGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTATGCATAGTAGCCTGCACT
*
55366438 TAGTACTACA-CATGTGACCTAACAATCCGGTACACG
66 TAGTACTACACCA--TGACCTAACAATCTGGTACACG
*
55366474 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATTGGGTATGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTATGCATAGTAGCCTGCACT
55366539 TAGTACTACA-CATGAGACCTAACAATCTGGTACACG
66 TAGTACTACACCAT--GACCTAACAATCTGGTACACG
55366575 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
55366606 CCCAAAACCA
Statistics
Matches: 211, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
99 3 0.01
100 30 0.14
101 178 0.84
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTATGCATAGTAGCCTGCACT
TAGTACTACACCATGACCTAACAATCTGGTACACG
Found at i:55366579 original size:151 final size:151
Alignment explanation
Indices: 55366271--55366607 Score: 435
Period size: 151 Copynumber: 2.2 Consensus size: 151
55366261 CTCTGGTATT
* * *
55366271 CATAGTAGCCTGCACTTAGTGCTACACATGAGACCTAACAATCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGGTACACGTAGTAGCCTGCAC
* * * *
55366336 TTAGTACTACACCCATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTATTACTACACACG
66 TTAGTACTACACACATGACCGAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
* * * **
55366401 TGATCGAAGCTATCGGGTATG
131 AGACCGAAGCAATCGGGTACA
55366422 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGGTACACGTAGTAGCCTGCAC
* * * * **
55366487 TTAGTACTACACACGTGATCGAAGCTAT-TGGGTATGCATAGTAGCCTGCACTTAGTACTACACA
66 TTAGTACTACACACATGACCGAA-CCATCT-GATACACATAGTAGCCTGCACTTAGTACTACACA
* * *
55366551 TGAGACCTAA-CAATCTGGTACA
129 CGAGACCGAAGCAATCGGGTACA
* *
55366573 CGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACC
55366608 CAAAACCATC
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
151 123 0.76
152 38 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (151 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGGTACACGTAGTAGCCTGCAC
TTAGTACTACACACATGACCGAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
AGACCGAAGCAATCGGGTACA
Found at i:55367485 original size:30 final size:30
Alignment explanation
Indices: 55367428--55367486 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
55367418 CATAAATCAT
** *
55367428 ATTTTGATAAAATTACGTTTTTTCCCCTAA
1 ATTTTGATAAAATTACACTTTTGCCCCTAA
55367458 ATTTTG-TCAAAATTACACTTTTGCCCCTA
1 ATTTTGAT-AAAATTACACTTTTGCCCCTA
55367487 GACTCGTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (30 bp):
ATTTTGATAAAATTACACTTTTGCCCCTAA
Found at i:55370392 original size:38 final size:38
Alignment explanation
Indices: 55370350--55370427 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
55370340 TAAAAAGGAG
*
55370350 AAAATTTAGTTGCCGAGTGGACTAATCGATTATAGGCA
1 AAAATTTAGTTGCCGAGTGGACTAATCCATTATAGGCA
55370388 AAAATTTAGTTGCCGAGTGGACTAATCCATTATAGGCA
1 AAAATTTAGTTGCCGAGTGGACTAATCCATTATAGGCA
55370426 AA
1 AA
55370428 TTCGATATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (38 bp):
AAAATTTAGTTGCCGAGTGGACTAATCCATTATAGGCA
Found at i:55372740 original size:16 final size:15
Alignment explanation
Indices: 55372709--55372748 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
55372699 TTTCTCACCC
55372709 TCTTTTTCTTTTTCA
1 TCTTTTTCTTTTTCA
55372724 TCTTTTTC-TTTTC-
1 TCTTTTTCTTTTTCA
*
55372737 TCATTTTCTTTT
1 TCTTTTTCTTTT
55372749 CACTCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 8 0.35
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (15 bp):
TCTTTTTCTTTTTCA
Found at i:55372745 original size:13 final size:14
Alignment explanation
Indices: 55372712--55372750 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
55372702 CTCACCCTCT
*
55372712 TTTTCTTTTTCATCT
1 TTTTC-TTTTCATCA
55372727 TTTTCTTTTC-TCA
1 TTTTCTTTTCATCA
55372740 TTTTCTTTTCA
1 TTTTCTTTTCA
55372751 CTCTCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 5 0.23
15 5 0.23
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTTCATCA
Found at i:55376935 original size:40 final size:40
Alignment explanation
Indices: 55376889--55377073 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
55376879 CTTGCACAAG
*
55376889 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
55376929 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
55376969 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
55377009 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
55377050 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
55377074 CATTCGAACA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.76
41 29 0.23
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:55387368 original size:6 final size:6
Alignment explanation
Indices: 55387342--55387380 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
55387332 TAATTAAGAT
* * *
55387342 AAATAA AGATAA AAGTGA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
55387381 GTTTTTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:55394109 original size:17 final size:18
Alignment explanation
Indices: 55394087--55394120 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55394077 CACATTGAAG
55394087 TGTTTT-AGTGAAAATCT
1 TGTTTTCAGTGAAAATCT
*
55394104 TGTTTTCATTGAAAATC
1 TGTTTTCAGTGAAAATC
55394121 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTTTCAGTGAAAATCT
Found at i:55395216 original size:28 final size:27
Alignment explanation
Indices: 55395184--55395304 Score: 109
Period size: 28 Copynumber: 4.3 Consensus size: 27
55395174 ACATACATGC
*
55395184 ATATGGCCCACTTGGCCCAATCTCATTT
1 ATATGGCCCA-TTGGCCCAATCACATTT
* *
55395212 ATATGGCCCATCAGG-CCAATTCACATTC
1 ATATGGCCCAT-TGGCCCAA-TCACATTT
* * *
55395240 ATATGGCCCATCGGCCCAATTCATATTC
1 ATATGGCCCATTGGCCCAA-TCACATTT
* *
55395268 ATATGGCCTATTAGGCCCAAATCACCTTT
1 ATATGGCCCATT-GGCCC-AATCACATTT
55395297 ATATGGCC
1 ATATGGCC
55395305 TGTTAGGCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
27 7 0.09
28 51 0.65
29 18 0.23
30 2 0.03
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.29
Consensus pattern (27 bp):
ATATGGCCCATTGGCCCAATCACATTT
Found at i:55395272 original size:56 final size:57
Alignment explanation
Indices: 55395178--55395304 Score: 152
Period size: 56 Copynumber: 2.2 Consensus size: 57
55395168 ACCCCTACAT
* * *
55395178 ACATGCATATGGCCCACTTGGCCCAATCTCATTTATATGGCCCATCAGG-CCAATTC
1 ACATTCATATGGCCCACTCGGCCCAATCTCATTTATATGGCCCATCAGGCCCAAATC
* *
55395234 ACATTCATATGGCCCA-TCGGCCCAAT-TCATATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCACTCGGCCCAATCTCAT-TT-ATATGGCCCATCAGGCCCAAATC
* *
55395291 ACCTTTATATGGCC
1 ACATTCATATGGCC
55395305 TGTTAGGCCC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
54 4 0.07
55 11 0.18
56 28 0.46
57 18 0.30
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (57 bp):
ACATTCATATGGCCCACTCGGCCCAATCTCATTTATATGGCCCATCAGGCCCAAATC
Found at i:55395300 original size:29 final size:28
Alignment explanation
Indices: 55395210--55395328 Score: 107
Period size: 28 Copynumber: 4.2 Consensus size: 28
55395200 CCAATCTCAT
* * * *
55395210 TTATATGGCCCATCAGG-CCAATTCACA
1 TTATATGGCCTATTAGGCCCAAATCACC
* * * **
55395237 TTCATATGGCCCA-TCGGCCCAATTCATA
1 TT-ATATGGCCTATTAGGCCCAAATCACC
55395265 TTCATATGGCCTATTAGGCCCAAATCACC
1 TT-ATATGGCCTATTAGGCCCAAATCACC
*
55395294 TTTATATGGCCTGTTAGGCCCAAATCACC
1 -TTATATGGCCTATTAGGCCCAAATCACC
55395323 TTATAT
1 TTATAT
55395329 TCATGCTCAC
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
27 4 0.05
28 37 0.47
29 36 0.46
30 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (28 bp):
TTATATGGCCTATTAGGCCCAAATCACC
Found at i:55396866 original size:26 final size:27
Alignment explanation
Indices: 55396837--55396896 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
55396827 CTACATATAT
*
55396837 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
55396863 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
55396890 ATATCTG
1 ATATCTG
55396897 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:55400775 original size:77 final size:78
Alignment explanation
Indices: 55400694--55400845 Score: 216
Period size: 78 Copynumber: 2.0 Consensus size: 78
55400684 CAGTGATGTT
** * *
55400694 TATCTGAACTTAGGGTCCGCAGGCTATGTGC-GGAATTATATCCGGACTTAAGGTCTGCAGGCTA
1 TATCTGAACTTAACGTCCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCTGCAGGCTA
*
55400758 TGTGCTGGAATTA
66 CGTGCTGGAATTA
* * * *
55400771 TATCTGGACTTAACGTTCGCAGGCTATGTGCTGGAATTGTAACCGAACTTAAGGTCTGTAGGCTA
1 TATCTGAACTTAACGTCCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCTGCAGGCTA
55400836 CGTGCTGGAA
66 CGTGCTGGAA
55400846 ATATGTCCGG
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 27 0.42
78 38 0.58
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (78 bp):
TATCTGAACTTAACGTCCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCTGCAGGCTA
CGTGCTGGAATTA
Found at i:55400780 original size:39 final size:39
Alignment explanation
Indices: 55400694--55400854 Score: 182
Period size: 39 Copynumber: 4.2 Consensus size: 39
55400684 CAGTGATGTT
* * *
55400694 TATCTGAACTTAGGGTCCGCAGGCTATGTGC-GGAATTA
1 TATCCGAACTTAAGGTCTGCAGGCTATGTGCTGGAATTA
*
55400732 TATCCGGACTTAAGGTCTGCAGGCTATGTGCTGGAATTA
1 TATCCGAACTTAAGGTCTGCAGGCTATGTGCTGGAATTA
* * * *
55400771 TATCTGGACTTAACGT-TCGCAGGCTATGTGCTGGAATTG
1 TATCCGAACTTAAGGTCT-GCAGGCTATGTGCTGGAATTA
* * * *
55400810 TAACCGAACTTAAGGTCTGTAGGCTACGTGCTGGAAATA
1 TATCCGAACTTAAGGTCTGCAGGCTATGTGCTGGAATTA
*
55400849 TGTCCG
1 TATCCG
55400855 GGGTAAAGTC
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
38 28 0.27
39 74 0.72
40 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (39 bp):
TATCCGAACTTAAGGTCTGCAGGCTATGTGCTGGAATTA
Found at i:55400873 original size:78 final size:77
Alignment explanation
Indices: 55400708--55400873 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 77
55400698 TGAACTTAGG
* * * * *
55400708 GTCCGCAGGCTATGTGCGGAATTATATCCGGACTTAAGGTCTGCAGGCTATGTGCTGGAATTATA
1 GTCCGAAGGCTATGTGCGGAATTATAACCGAACTTAAGGTCTGCAGGCTACGTGCTGGAAATATA
* * *
55400773 TCTGGACTTAAC
66 TCCGGACGTAAA
* * * *
55400785 GTTCGCAGGCTATGTGCTGGAATTGTAACCGAACTTAAGGTCTGTAGGCTACGTGCTGGAAATAT
1 GTCCGAAGGCTATGTGC-GGAATTATAACCGAACTTAAGGTCTGCAGGCTACGTGCTGGAAATAT
* *
55400850 GTCCGG-GGTAAA
65 ATCCGGACGTAAA
55400862 GTCCCGAAGGCT
1 GT-CCGAAGGCT
55400874 TCGAGCTGGT
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
77 21 0.29
78 52 0.71
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (77 bp):
GTCCGAAGGCTATGTGCGGAATTATAACCGAACTTAAGGTCTGCAGGCTACGTGCTGGAAATATA
TCCGGACGTAAA
Found at i:55412484 original size:46 final size:47
Alignment explanation
Indices: 55412417--55412558 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 47
55412407 AGGACAGGAC
* *
55412417 AGACAGAAATGAGCCATGTAAGTCCATATCAG-ATATATGGCTTTGG
1 AGACAGGAATGAGCCATGTAAGTCCATATCAGAATATATGGCATTGG
* *
55412463 AGACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGG
1 AGACAGGAATGAGCCATGTAAGTCCATATCAG--A-ATATATGGCATTGG
* ** * * *
55412513 AGACAGGAATAATTCATGTAAGTCCATGTC-GAAGACATGGCATTGG
1 AGACAGGAATGAGCCATGTAAGTCCATATCAGAATATATGGCATTGG
55412559 CAGGATATTG
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
46 41 0.51
47 1 0.01
49 1 0.01
50 37 0.46
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (47 bp):
AGACAGGAATGAGCCATGTAAGTCCATATCAGAATATATGGCATTGG
Found at i:55413987 original size:21 final size:21
Alignment explanation
Indices: 55413961--55414003 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
55413951 ATATGTGTAA
55413961 GTGTATGTGTGAAAGTTTCAT
1 GTGTATGTGTGAAAGTTTCAT
55413982 GTGTATGTGTGAAAGTTTCAT
1 GTGTATGTGTGAAAGTTTCAT
55414003 G
1 G
55414004 CTTTGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.30, T:0.42
Consensus pattern (21 bp):
GTGTATGTGTGAAAGTTTCAT
Found at i:55416229 original size:25 final size:25
Alignment explanation
Indices: 55416185--55416242 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
55416175 GTAAGGAGGG
55416185 GATAAGGG-AGAAGATTTAGGAGCT
1 GATAAGGGAAGAAGATTTAGGAGCT
55416209 GATAAGGGAAGAAG-TTCTAGGAGCT
1 GATAAGGGAAGAAGATT-TAGGAGCT
*
55416234 GATTAGGGA
1 GATAAGGGA
55416243 GGGCAGTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 10 0.32
25 21 0.68
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.21
Consensus pattern (25 bp):
GATAAGGGAAGAAGATTTAGGAGCT
Found at i:55418136 original size:27 final size:28
Alignment explanation
Indices: 55418079--55418148 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55418069 AAATTTGTAC
**
55418079 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
55418107 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55418134 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55418149 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55418157 original size:27 final size:27
Alignment explanation
Indices: 55418079--55418160 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
55418069 AAATTTGTAC
* *
55418079 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
55418107 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
55418134 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
55418161 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:55426054 original size:27 final size:28
Alignment explanation
Indices: 55425997--55426066 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55425987 AAATTTGTAC
**
55425997 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
55426025 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55426052 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55426067 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55426075 original size:27 final size:27
Alignment explanation
Indices: 55425997--55426078 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
55425987 AAATTTGTAC
* *
55425997 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
55426025 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
55426052 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
55426079 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:55428601 original size:27 final size:26
Alignment explanation
Indices: 55428561--55428672 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
55428551 AGGAAGCGTC
* *
55428561 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
55428588 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
55428615 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
55428643 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
55428669 CTGG
1 CTGG
55428673 CAGCTATACT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 50 0.68
28 16 0.22
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:55428665 original size:54 final size:54
Alignment explanation
Indices: 55428564--55428670 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
55428554 AAGCGTCCTG
* *
55428564 GTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTA
* * *
55428618 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCT
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCT
55428671 GGCAGCTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTA
Found at i:55431051 original size:30 final size:30
Alignment explanation
Indices: 55431015--55431115 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 30
55431005 GACAAGATTG
* * *
55431015 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
55431045 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* * *
55431073 GTACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
55431102 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55431116 GATTCACTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
28 22 0.37
29 18 0.31
30 19 0.32
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:55435067 original size:29 final size:30
Alignment explanation
Indices: 55435019--55435078 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
55435009 GTGAACACCT
*
55435019 GAGGATAGTGTTGCGAATTTTACGGGATAA
1 GAGGATAGTGATGCGAATTTTACGGGATAA
55435049 GAGGATAGT-ATGCGAATTTTACGGGATAA
1 GAGGATAGTGATGCGAATTTTACGGGATAA
55435078 G
1 G
55435079 CAGTTATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.32, C:0.07, G:0.33, T:0.28
Consensus pattern (30 bp):
GAGGATAGTGATGCGAATTTTACGGGATAA
Found at i:55439022 original size:30 final size:30
Alignment explanation
Indices: 55438986--55439086 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
55438976 GACAAGATTG
* * *
55438986 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
55439016 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
55439044 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
55439073 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55439087 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:55441158 original size:39 final size:39
Alignment explanation
Indices: 55441102--55441254 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
55441092 CAGTGATGTT
*
55441102 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
55441141 TATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
55441180 TATCCAGACTTAAGGTTCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
55441219 TAACCGAACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
55441255 ATATGTCCAG
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 104 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:55441201 original size:78 final size:78
Alignment explanation
Indices: 55441102--55441291 Score: 247
Period size: 78 Copynumber: 2.4 Consensus size: 78
55441092 CAGTGATGTT
* * * * *
55441102 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGTAGGCTA
1 TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCCGCAGGCTA
* *
55441167 TGTGCTGGAATTA
66 CGTGCTGGAAATA
*
55441180 TATCCAGACTTAAGGTTCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCCGCAGGCTA
1 TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCCGCAGGCTA
55441245 CGTGCTGGAAATA
66 CGTGCTGGAAATA
* * * * *
55441258 TGTCCAGGC-TAAAGTCCCGCAGGCTTTGAGCTGG
1 TATCCAGACTTAAGGT-CCGCAGGCTATGTGCTGG
55441292 TATCATACCG
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
77 5 0.05
78 92 0.95
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCCGCAGGCTA
CGTGCTGGAAATA
Found at i:55441518 original size:2 final size:2
Alignment explanation
Indices: 55441511--55441536 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55441501 TCAAAGAAGA
55441511 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
55441537 GATTGATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55449106 original size:47 final size:47
Alignment explanation
Indices: 55449040--55449211 Score: 138
Period size: 47 Copynumber: 3.7 Consensus size: 47
55449030 ATGAAACTTA
* *
55449040 GCCGATGCATGACCCAGACACGTCTTACACTGGCTAACATCATCGAG
1 GCCGATGCATGTCCAAGACACGTCTTACACTGGCTAACATCATCGAG
* * *
55449087 GCCGATGCATGTCCAAGACATGTCTTACACTGGC--AC-TCACCTCTAC
1 GCCGATGCATGTCCAAGACACGTCTTACACTGGCTAACATCA--TCGAG
*** * * * *
55449133 GCCGATGCCATGTCCCAA-ATGTGGTCTTACACGGGCTATCATGAT-GCG
1 GCCGATG-CATGT-CCAAGA-CACGTCTTACACTGGCTAACATCATCGAG
* *
55449181 GCTGATGCATGTCCCAGACACGTCTTACACT
1 GCCGATGCATGTCCAAGACACGTCTTACACT
55449212 AGCCCTCGTC
Statistics
Matches: 96, Mismatches: 20, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 22 0.23
47 43 0.45
48 22 0.23
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (47 bp):
GCCGATGCATGTCCAAGACACGTCTTACACTGGCTAACATCATCGAG
Found at i:55449200 original size:94 final size:91
Alignment explanation
Indices: 55448996--55449214 Score: 235
Period size: 94 Copynumber: 2.4 Consensus size: 91
55448986 GTGTATACGT
* *
55448996 GCTGATGCATGTCCTAGACATGTCTTACACTAGCATGAAACTTAGCCGATGCATGACCCAGACAC
1 GCTGATGCATGTCCAAGACATGTCTTACACTAGCATGAAACTTAGCCGATGCATGACCCAAACAC
*
55449061 GTCTTACACTGGCTAACATCATCGAG
66 GTCTTACACGGGCTAACATCATCGAG
* * * * *
55449087 GCCGATGCATGTCCAAGACATGTCTTACACTGGCACT-CACCTCTACGCCGATGCCATGTCCCAA
1 GCTGATGCATGTCCAAGACATGTCTTACACTAGCA-TGAAACT-TA-GCCGATG-CATGACCCAA
*** * * *
55449151 ATGTGGTCTTACACGGGCTATCATGAT-GCG
62 A-CACGTCTTACACGGGCTAACATCATCGAG
* *
55449181 GCTGATGCATGTCCCAGACACGTCTTACACTAGC
1 GCTGATGCATGTCCAAGACATGTCTTACACTAGC
55449215 CCTCGTCTCA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
91 35 0.33
92 3 0.03
93 7 0.07
94 41 0.39
95 19 0.18
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (91 bp):
GCTGATGCATGTCCAAGACATGTCTTACACTAGCATGAAACTTAGCCGATGCATGACCCAAACAC
GTCTTACACGGGCTAACATCATCGAG
Found at i:55449255 original size:94 final size:94
Alignment explanation
Indices: 55448999--55449255 Score: 227
Period size: 94 Copynumber: 2.8 Consensus size: 94
55448989 TATACGTGCT
* * * * * *
55448999 GATGCATGTCCTAGACATGTCTTACACTAGCA-TGAAACT-TA-GCCGATG-CATGACCCAGACA
1 GATGCATGTCCAAGACACGTCTTACACTAGCACT-CACCTCAACGCCGATGCCATGTCCCAGACA
* *
55449060 CGTCTTACACTGGCTAACATCATCGAGGCC
65 TGTCTTACACGGGCTAACATCATCGAGGCC
* * * * **
55449090 GATGCATGTCCAAGACATGTCTTACACTGGCACTCACCTCTACGCCGATGCCATGTCCCAAATGT
1 GATGCATGTCCAAGACACGTCTTACACTAGCACTCACCTCAACGCCGATGCCATGTCCCAGACAT
* * * *
55449155 GGTCTTACACGGGCTATCATGAT-GCGGCT
66 -GTCTTACACGGGCTAACATCATCGAGGCC
* * ** ** *
55449184 GATGCATGTCCCAGACACGTCTTACACTAGCCCTCGTCTCAATTCTGATGCCATGTCCCAGACAT
1 GATGCATGTCCAAGACACGTCTTACACTAGCACTCACCTCAACGCCGATGCCATGTCCCAGACAT
55449249 GATCTTA
66 G-TCTTA
55449256 TACTGGTTCT
Statistics
Matches: 133, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
91 33 0.25
92 3 0.02
93 8 0.06
94 70 0.53
95 19 0.14
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (94 bp):
GATGCATGTCCAAGACACGTCTTACACTAGCACTCACCTCAACGCCGATGCCATGTCCCAGACAT
GTCTTACACGGGCTAACATCATCGAGGCC
Found at i:55450540 original size:15 final size:15
Alignment explanation
Indices: 55450508--55450536 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55450498 ATTTTCTATG
55450508 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
55450523 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
55450537 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:55451699 original size:43 final size:43
Alignment explanation
Indices: 55451621--55451722 Score: 100
Period size: 43 Copynumber: 2.4 Consensus size: 43
55451611 CATAGGATTT
* * * * *
55451621 TCGATATGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATCTGATTACGTGTAAGACCACATCTGGGACATCGGCA
**
55451664 TCGATATCTGATTACGTGTAAGACCATGT-TAGGGACATCGGCA
1 TCGATATCTGATTACGTGTAAGACCACATCT-GGGACATCGGCA
* *
55451707 TCG-TATTTGGTTACGT
1 TCGATATCTGATTACGT
55451723 TGGCATTGTA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 12 0.24
43 37 0.76
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGATATCTGATTACGTGTAAGACCACATCTGGGACATCGGCA
Found at i:55452875 original size:26 final size:26
Alignment explanation
Indices: 55452846--55452896 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
55452836 ATTGAGTAGA
*
55452846 TAAAAATGCAAAATGAGTTATTGATG
1 TAAAAATACAAAATGAGTTATTGATG
55452872 TAAAAATACAAAATGAGTTATTGAT
1 TAAAAATACAAAATGAGTTATTGAT
55452897 TATGGAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (26 bp):
TAAAAATACAAAATGAGTTATTGATG
Found at i:55456404 original size:45 final size:45
Alignment explanation
Indices: 55456343--55456438 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
55456333 TAGGATTCTG
* *
55456343 ATATGTGATTTTGTGTAAAACCACATTTGGGACATTGGCATCGAT
1 ATATGTAATTTCGTGTAAAACCACATTTGGGACATTGGCATCGAT
* ** *
55456388 ATATGTAATTTCGTGTAAGACCATGTTTGGGACGTTGGCATCGAT
1 ATATGTAATTTCGTGTAAAACCACATTTGGGACATTGGCATCGAT
55456433 ATATGT
1 ATATGT
55456439 GGTTACGTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (45 bp):
ATATGTAATTTCGTGTAAAACCACATTTGGGACATTGGCATCGAT
Found at i:55456448 original size:45 final size:45
Alignment explanation
Indices: 55456368--55456467 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
55456358 TAAAACCACA
* *
55456368 TTTGGGACATTGGCATCGATATATGTAATTTCGTGTAAGACCATG
1 TTTGGGACATTGGCATCGATATATGTAATTACGTGTAAGACAATG
* **
55456413 TTTGGGACGTTGGCATCGATATATGTGGTTACGTGTAAGACAATG
1 TTTGGGACATTGGCATCGATATATGTAATTACGTGTAAGACAATG
*
55456458 TCTGGGACAT
1 TTTGGGACAT
55456468 CGACATCGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (45 bp):
TTTGGGACATTGGCATCGATATATGTAATTACGTGTAAGACAATG
Found at i:55459090 original size:43 final size:42
Alignment explanation
Indices: 55459042--55459203 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
55459032 TTTCGATGTG
* *
55459042 TGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATT
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGAATT
** * *
55459083 TGAGATTTACATGTAAGACCATGTCTGGGACACCGACATCGTATT
1 T--GATTT-CATGTAAGACCATGTCTGGGACATTGGCATCGAATT
* * * * *
55459128 TGATTTCTTGTAAGACCCTGTTTAGGACAATGGCATCGAAATT
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCG-AATT
* *
55459171 TGATTACATGTAAGACCACT-TCTGGGACGTTGG
1 TGATTTCATGTAAGACCA-TGTCTGGGACATTGG
55459204 TATTGTATGA
Statistics
Matches: 95, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 37 0.39
44 28 0.29
45 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGAATT
Found at i:55464389 original size:40 final size:40
Alignment explanation
Indices: 55464345--55464532 Score: 317
Period size: 40 Copynumber: 4.7 Consensus size: 40
55464335 GCTACTTGCT
55464345 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
55464385 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
55464425 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
55464465 CAAATGCCTTCGGGACTTAGCCCGGATTAT--TCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
55464504 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
55464533 CATCGAATAT
Statistics
Matches: 141, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
38 4 0.03
39 32 0.23
40 102 0.72
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:55464444 original size:80 final size:79
Alignment explanation
Indices: 55464322--55464532 Score: 329
Period size: 80 Copynumber: 2.7 Consensus size: 79
55464312 CCTTCGAAAT
* *
55464322 TTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 TTAGCCCGGTTATAG-TACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
55464386 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
*
55464401 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
1 TTAGCCCGGTTATAGT-ACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
55464466 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
*
55464481 TTAGCCCGGATTAT--TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 TTAGCCCGG-TTATAGT-ACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
55464533 CATCGAATAT
Statistics
Matches: 123, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
79 40 0.33
80 79 0.64
81 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
TTAGCCCGGTTATAGTACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:55472111 original size:40 final size:39
Alignment explanation
Indices: 55472066--55472195 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
55472056 CGGAATATAA
55472066 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
55472106 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55472146 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
55472186 CCGGATATAA
1 CCGGATATAA
55472196 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:55472210 original size:40 final size:40
Alignment explanation
Indices: 55472082--55472233 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
55472072 ATAACCATGT
* * *
55472082 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
55472122 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
55472162 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
55472202 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
55472234 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:55472216 original size:80 final size:80
Alignment explanation
Indices: 55472082--55472231 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
55472072 ATAACCATGT
*
55472082 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
55472146 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
55472162 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
55472225 CCCGGAT
64 CCCGGAT
55472232 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:55480059 original size:40 final size:39
Alignment explanation
Indices: 55480014--55480143 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
55480004 CGGAATATAA
55480014 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
55480054 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55480094 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
55480134 CCGGATATAA
1 CCGGATATAA
55480144 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:55480158 original size:40 final size:40
Alignment explanation
Indices: 55480030--55480180 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
55480020 ATAACCATGT
* * *
55480030 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
55480070 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
55480110 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
55480150 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55480181 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:55480164 original size:80 final size:79
Alignment explanation
Indices: 55480030--55480178 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
55480020 ATAACCATGT
* *
55480030 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
55480095 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
55480110 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
55480173 CCGGAT
64 CCGGAT
55480179 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:55487984 original size:40 final size:39
Alignment explanation
Indices: 55487939--55488068 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
55487929 CGGAATATAA
55487939 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
55487979 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55488019 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
55488059 CCGGATATAA
1 CCGGATATAA
55488069 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:55488083 original size:40 final size:40
Alignment explanation
Indices: 55487955--55488106 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
55487945 ATAACCATGT
* * *
55487955 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
55487995 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
55488035 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
55488075 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
55488107 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:55488089 original size:80 final size:80
Alignment explanation
Indices: 55487955--55488104 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
55487945 ATAACCATGT
*
55487955 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
55488019 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
55488035 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
55488098 CCCGGAT
64 CCCGGAT
55488105 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:55493298 original size:40 final size:41
Alignment explanation
Indices: 55493238--55493410 Score: 185
Period size: 40 Copynumber: 4.3 Consensus size: 41
55493228 AGCATTTGAA
* *
55493238 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGAT
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
* * *
55493278 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-T
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
* * *
55493318 CATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-AC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
* * * * * *
55493358 CAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGGT
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
55493398 TATATCC-GGCTAA
1 TATATCCGGGCTAA
55493411 ATTCCGAAGA
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 6 0.05
40 103 0.93
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
Found at i:55493403 original size:80 final size:80
Alignment explanation
Indices: 55493238--55493410 Score: 208
Period size: 80 Copynumber: 2.2 Consensus size: 80
55493228 AGCATTTGAA
* * ** *
55493238 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGC
*
55493303 ATTCGTGCGAGTTGT
66 ATTCGTGCGAGTGGT
* * *
55493318 CATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAATCCGGGTTAAGACCCGAAGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCGAAGG
**
55493382 CAATT-GTGCTTGTGGT
65 C-ATTCGTGCGAGTGGT
55493398 TATATCC-GGCTAA
1 TATATCCGGGCTAA
55493411 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
79 6 0.08
80 69 0.87
81 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGC
ATTCGTGCGAGTGGT
Found at i:55501352 original size:40 final size:41
Alignment explanation
Indices: 55501290--55501444 Score: 183
Period size: 40 Copynumber: 3.9 Consensus size: 41
55501280 GAGCATTTGA
* *
55501290 ATCATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TG
1 ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATG
* * * *
55501330 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATG
*
55501371 -TCATATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAGAT-
1 ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATG
* * * *
55501409 ACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGCT
55501445 TGTGGTTATA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 32 0.33
40 64 0.65
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (41 bp):
ATCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATG
Found at i:55501456 original size:79 final size:80
Alignment explanation
Indices: 55501291--55501472 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 80
55501281 AGCATTTGAA
* * ** *
55501291 TCATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGG
1 TCATATCCGGGCTAAGTACCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGG
*
55501356 CATTCGTGCGAGTTG
66 CATTCGTGCGAGTGG
* *
55501371 TCATATCCGGGCTAAG-ACCGAAGGCATTTGTGCAAGAT-ACCAAATCCGGGTTAAGACCCGAAG
1 TCATATCCGGGCTAAGTACCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCGAAG
**
55501434 GCAATT-GTGCTTGTGG
65 GC-ATTCGTGCGAGTGG
* * *
55501450 TTATATCC-GGCTAAATTCCGAAG
1 TCATATCCGGGCTAAGTACCGAAG
55501473 AAGCTCGGTT
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
78 6 0.07
79 60 0.70
80 20 0.23
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCATATCCGGGCTAAGTACCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGG
CATTCGTGCGAGTGG
Found at i:55501458 original size:40 final size:40
Alignment explanation
Indices: 55501290--55501463 Score: 169
Period size: 40 Copynumber: 4.4 Consensus size: 40
55501280 GAGCATTTGA
* * *
55501290 ATCATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTG
1 ATCATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG
* *
55501330 ATTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG
1 ATCATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TG
* *
55501371 -TCATATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAGAT-
1 ATCATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TG
* * * *
55501409 ACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTG
1 ATCATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG
* *
55501449 GTTATATCC-GGCTAA
1 ATCATATCCGGGCTAA
55501464 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
39 37 0.34
40 69 0.64
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG
Found at i:55502847 original size:40 final size:40
Alignment explanation
Indices: 55502803--55502951 Score: 246
Period size: 40 Copynumber: 3.7 Consensus size: 40
55502793 CATACTTGCT
*
55502803 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
55502843 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
55502883 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
55502923 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
55502952 CATCCGAATA
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
39 2 0.02
40 98 0.96
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Done.