Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 232 of 295
Found at i:80401789 original size:21 final size:19
Alignment explanation
Indices: 80401765--80401860 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 19
80401755 TTTAGAAATA
80401765 TTTATTTTATTATTTTATGTT
1 TTTATTTT-TTATTTTAT-TT
* * *
80401786 TTTAATTTTTATTCAAACTACTT
1 TTTATTTTTTATT----TTATTT
80401809 TTTATTTTTTATTTTTTATTT
1 TTTATTTTTTA--TTTTATTT
*
80401830 TTTATTTTTTATTTTTTATT
1 TTTATTTTTTATTTTAT-TT
80401850 TTTATTTTTTA
1 TTTATTTTTTA
80401861 GCAGATTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
19 5 0.08
20 18 0.30
21 22 0.36
23 12 0.20
24 2 0.03
25 2 0.03
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (19 bp):
TTTATTTTTTATTTTATTT
Found at i:80401819 original size:7 final size:7
Alignment explanation
Indices: 80401807--80401860 Score: 101
Period size: 7 Copynumber: 7.9 Consensus size: 7
80401797 TTCAAACTAC
80401807 TTTTTAT
1 TTTTTAT
80401814 TTTTTAT
1 TTTTTAT
80401821 TTTTTAT
1 TTTTTAT
80401828 TTTTTAT
1 TTTTTAT
80401835 TTTTTAT
1 TTTTTAT
80401842 TTTTTA-
1 TTTTTAT
80401848 TTTTTAT
1 TTTTTAT
80401855 TTTTTA
1 TTTTTA
80401861 GCAGATTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.13
7 40 0.87
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:80406442 original size:15 final size:15
Alignment explanation
Indices: 80406421--80406459 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
80406411 CAAGAACTTA
80406421 AACCCTAGGTCTAAC
1 AACCCTAGGTCTAAC
*
80406436 GACCCTAGGTCTAAC
1 AACCCTAGGTCTAAC
80406451 AACCCTAGG
1 AACCCTAGG
80406460 AAGTCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (15 bp):
AACCCTAGGTCTAAC
Found at i:80423109 original size:27 final size:27
Alignment explanation
Indices: 80423037--80423110 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 27
80423027 ACAAATGAAC
80423037 TTTAT-TATTATATT-TTTTTTGAAAT
1 TTTATATATTATATTATTTTTTGAAAT
80423062 TATT-TAT-TTATA-TATATTTTT-AAAT
1 T-TTATATATTATATTAT-TTTTTGAAAT
80423087 TTTATATATTATTATTATTTTTTG
1 TTTATATATTA-TATTATTTTTTG
80423111 TCAACAATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
24 3 0.08
25 16 0.40
26 11 0.28
27 7 0.17
28 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (27 bp):
TTTATATATTATATTATTTTTTGAAAT
Found at i:80423168 original size:17 final size:19
Alignment explanation
Indices: 80423131--80423171 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
80423121 TTTTTTATTC
*
80423131 TTATATATATTTAAATTTA
1 TTATATATATTTAAATATA
*
80423150 TTATATATATTAAAATAT-
1 TTATATATATTTAAATATA
80423168 TTAT
1 TTAT
80423172 GTATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATATATATTTAAATATA
Found at i:80426411 original size:19 final size:19
Alignment explanation
Indices: 80426387--80426424 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
80426377 TTGACAGATG
80426387 CACTTG-CATTACAAATTTT
1 CACTTGTCA-TACAAATTTT
*
80426406 CACTTGTCATATAAATTTT
1 CACTTGTCATACAAATTTT
80426425 AATATTTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (19 bp):
CACTTGTCATACAAATTTT
Found at i:80428462 original size:42 final size:42
Alignment explanation
Indices: 80428342--80428548 Score: 213
Period size: 43 Copynumber: 4.9 Consensus size: 42
80428332 TAAGATGCCA
* * * * *
80428342 ATGCCATATCCCAGATATGGTTTTACATG-GGATCACATATCG
1 ATGCCATATCCCAGATATGGTCTTATACGAAG-TCTCATATCG
* * *
80428384 ATGCCAATAGCCCAGCTATGGTCTTACAC-AATGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTATACGAA-GTCTCATATCG
*
80428427 ATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATTTTCG
1 ATGCCATATCCCAGATATGGTCTTATACGAAGTCTCA-TATCG
* * * * * *
80428470 AAGCCATGTCCCAGATATGGTCTTATACGAAATCACATGTTG
1 ATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATATCG
80428512 ATGCCATATCCCAGATATGGTCTTATAC-AAGATCTCA
1 ATGCCATATCCCAGATATGGTCTTATACGAAG-TCTCA
80428549 ATAACCCTAC
Statistics
Matches: 139, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.01
42 64 0.46
43 72 0.52
44 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATATCG
Found at i:80436335 original size:42 final size:42
Alignment explanation
Indices: 80436275--80436389 Score: 97
Period size: 43 Copynumber: 2.7 Consensus size: 42
80436265 GATTTAAGTT
* * * * *
80436275 TAAGACCATGTCTAGGACATTAGCATTGTATTTGATTTCGTG
1 TAAGACCCTGTTTGGGACATTAGCATTGTATTTGATTACATG
* * **
80436317 TAAGACCCTGTTTGGGACAGTGGCATCAATATTTGATTACATG
1 TAAGACCCTGTTTGGGACATTAGCAT-TGTATTTGATTACATG
* * *
80436360 TAAGACCAC-ATTTGGGCCATTTGCATTGTA
1 TAAGACC-CTGTTTGGGACATTAGCATTGTA
80436390 CGAGCTTTTT
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
42 23 0.41
43 32 0.57
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
TAAGACCCTGTTTGGGACATTAGCATTGTATTTGATTACATG
Found at i:80442278 original size:26 final size:26
Alignment explanation
Indices: 80442248--80442298 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
80442238 CACCATGAAC
*
80442248 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
80442274 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
80442299 CTTTTCACAT
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:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:80442423 original size:105 final size:105
Alignment explanation
Indices: 80442112--80442483 Score: 635
Period size: 103 Copynumber: 3.6 Consensus size: 105
80442102 TAACCGTTAT
* *
80442112 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
80442177 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
80442216 TGGTGGAT-ATCGCACTTAGCACCACC-ATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
80442278 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
80442319 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
80442384 AATCAGCACATAGCAACCCCCTTTTTACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
80442424 TGGTGGATCACGCACATAGCACCACCAATGAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCT
80442484 TTATATACAA
Statistics
Matches: 254, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
102 25 0.10
103 73 0.29
104 57 0.22
105 72 0.28
106 27 0.11
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:80449371 original size:26 final size:26
Alignment explanation
Indices: 80449341--80449391 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
80449331 ACCAATGAAC
*
80449341 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
80449367 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
80449392 CTTTCACATT
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:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:80449425 original size:103 final size:104
Alignment explanation
Indices: 80449204--80449574 Score: 638
Period size: 103 Copynumber: 3.6 Consensus size: 104
80449194 TAACCGTTAT
* * **
80449204 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
80449269 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
80449308 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
80449371 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
80449411 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
80449476 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
**
80449516 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
80449575 TTATATACAA
Statistics
Matches: 255, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
103 99 0.39
104 81 0.32
105 75 0.29
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:80451454 original size:46 final size:47
Alignment explanation
Indices: 80451377--80451600 Score: 212
Period size: 46 Copynumber: 4.8 Consensus size: 47
80451367 TGGGCAAGAT
* *
80451377 GCCGATGCCATTTACCAGACATGGTCTTACACT-GACTGC-CATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CT-CTCATCTCGTAG
* *
80451425 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACTTCTCG-AG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGTAG
** * * *
80451471 GCCGATGCATGTCCCAGACATGTCTTATGCTAGCTCTCGTCTC-AAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAG
* *
80451517 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GT-G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGTAG
*
80451565 GCCGATGCATGTCCCAGACATGTTTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
80451601 ACAAACAAAT
Statistics
Matches: 149, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.01
46 76 0.51
47 42 0.28
48 29 0.19
49 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAG
Found at i:80451598 original size:94 final size:92
Alignment explanation
Indices: 80451427--80451600 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 92
80451417 ATCTCGTAGC
* **
80451427 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACTTCTCGAGGCCGATGCATGTCCCAGACAT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACTAATCGAGGCCGATGCATGTCCCAGACAT
**
80451492 GTCTTATGCTAGCTCTCGTCTCAATGT
66 GTCTTACACTAGCTCTCGTCTCAATGT
*
80451519 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TAC-TAATCGAGGCCGATGCATGTCCCAG
*
80451582 ACATGTTTTACACTAGCTC
62 ACATGTCTTACACTAGCTC
80451601 ACAAACAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 5 0.07
93 14 0.20
94 49 0.69
95 3 0.04
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACTAATCGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTCAATGT
Found at i:80456316 original size:43 final size:42
Alignment explanation
Indices: 80456198--80456319 Score: 113
Period size: 43 Copynumber: 2.9 Consensus size: 42
80456188 AATTTGAGAT
* * * * *
80456198 TTACATGTAAGGCCATGTTTGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGA
* * * * *
80456240 TTTCGTGTAAAACC-CTGTCTGTGATAG-TGGCATTGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGA-CGTTGGCATTG-TATTTGA
80456283 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTA
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTA
80456320 CGAGCTTTCC
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
42 26 0.43
43 33 0.55
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGA
Found at i:80458971 original size:23 final size:23
Alignment explanation
Indices: 80458941--80458988 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
80458931 ATGAGATCAC
80458941 ATATCGATGCCAATAGCCCAGTT
1 ATATCGATGCCAATAGCCCAGTT
80458964 ATATCGATGCCAATAGCCCAGTT
1 ATATCGATGCCAATAGCCCAGTT
80458987 AT
1 AT
80458989 GGTCTTACAC
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:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (23 bp):
ATATCGATGCCAATAGCCCAGTT
Found at i:80459131 original size:42 final size:42
Alignment explanation
Indices: 80459013--80459131 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
80459003 TCTGATATCA
* * **
80459013 ATGCCATATCCCATATATGGTCTTATATGAAGTCTCATTTTCG
1 ATGCCATATCCCAGATATGGTCTTATATGAA-TCACATACTCG
* * ** *
80459056 AAGCCATGTCCCAGACGTGGTCTTATACGGAATCACATACT-G
1 ATGCCATATCCCAGATATGGTCTTATA-TGAATCACATACTCG
*
80459098 ATGCCATATCCTAGATATGGTCTTATATAGAATC
1 ATGCCATATCCCAGATATGGTCTTATAT-GAATC
80459132 TCAATAACCC
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
42 28 0.47
43 28 0.47
44 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTATATGAATCACATACTCG
Found at i:80464422 original size:55 final size:55
Alignment explanation
Indices: 80464356--80464463 Score: 180
Period size: 55 Copynumber: 2.0 Consensus size: 55
80464346 TTATTTCATG
* * *
80464356 TTAAATTTTCGTCCTAAAGTTGATGTCGTGACAAACCAGGACCTGTGTCACGATT
1 TTAAATTTTCGTCCCAAAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGATT
*
80464411 TTAAATTTTCGTCCCAGAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGA
1 TTAAATTTTCGTCCCAAAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGA
80464464 CATAGCAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (55 bp):
TTAAATTTTCGTCCCAAAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGATT
Found at i:80465365 original size:16 final size:15
Alignment explanation
Indices: 80465344--80465377 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
80465334 AGAAAGTGTT
80465344 AAACAACATAAAAGAA
1 AAACAACA-AAAAGAA
*
80465360 AAACAATAAAAAGAA
1 AAACAACAAAAAGAA
80465375 AAA
1 AAA
80465378 ACTAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (15 bp):
AAACAACAAAAAGAA
Found at i:80465619 original size:28 final size:25
Alignment explanation
Indices: 80465559--80465622 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 25
80465549 CAACCCATGA
80465559 AATACTTTTTTATTTTTTCTTTTTCT
1 AATA-TTTTTTATTTTTTCTTTTTCT
*
80465585 CATATTTTTCTATTTTTCCTCTTTTTC-
1 AATATTTTT-TATTTTT--TCTTTTTCT
80465612 AATCATTTTTT
1 AAT-ATTTTTT
80465623 GTGGAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
25 5 0.16
26 10 0.31
27 3 0.09
28 14 0.44
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (25 bp):
AATATTTTTTATTTTTTCTTTTTCT
Found at i:80475952 original size:33 final size:33
Alignment explanation
Indices: 80475910--80475976 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
80475900 CAATGCAAAA
80475910 TAATACAAACCTAGAATGAATTAGAAAATTAAG
1 TAATACAAACCTAGAATGAATTAGAAAATTAAG
80475943 TAATACAAACCTAGAATGAATTAGAAAATTAAG
1 TAATACAAACCTAGAATGAATTAGAAAATTAAG
80475976 T
1 T
80475977 CCCATATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (33 bp):
TAATACAAACCTAGAATGAATTAGAAAATTAAG
Found at i:80479124 original size:49 final size:49
Alignment explanation
Indices: 80479048--80479235 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
80479038 TAGCTGAAGC
* *
80479048 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCCACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCCACCAAT
* * * *
80479097 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCA-CAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TG-CCACCAAT
* * ** * *
80479148 TTTCGGGTATGCATAATAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCCACCAAT
80479197 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
80479236 CGTGACCTCA
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 74 0.65
51 37 0.32
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCCACCAAT
Found at i:80479175 original size:100 final size:100
Alignment explanation
Indices: 80479053--80479240 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
80479043 GAAGCTATCT
* *
80479053 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCCACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAATAGCCTACACTTAGTACTACACATGCCACCAATAATCTGGTACACATAGTAGCC
80479118 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * * *
80479153 GGTATGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACATAGTAGCC
1 GGTACGCATAATAGCCTACACTTAGTACTACACATGCCACCAATAATCTGGTACACATAGTAGCC
80479218 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
80479241 CCTCACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
GGTACGCATAATAGCCTACACTTAGTACTACACATGCCACCAATAATCTGGTACACATAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:80483894 original size:46 final size:43
Alignment explanation
Indices: 80483751--80483886 Score: 132
Period size: 47 Copynumber: 3.0 Consensus size: 43
80483741 CCCGCCCCTA
80483751 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
80483798 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
80483844 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
80483887 CCTAGTGACA
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 29 0.39
47 30 0.40
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:80484331 original size:30 final size:30
Alignment explanation
Indices: 80484297--80484356 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
80484287 ATTTAATACG
80484297 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
80484327 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
80484357 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:80488918 original size:73 final size:75
Alignment explanation
Indices: 80488829--80488972 Score: 202
Period size: 80 Copynumber: 1.9 Consensus size: 75
80488819 GCTGGCACTC
*
80488829 GGTTTAACAAATCTCGTATTT-C-GCCGCAGTAGTCTGAGATTTAGGACCCACATTTCGCTTCTT
1 GGTTTAACAAATCTCGTATTTCCTGCCGCAGAAGTCTGAGATTTAGGACCCACATTTCGCTTCTT
80488892 ACTGATTGCG
66 ACTGATTGCG
* *
80488902 GGTTTAACAAATCTCGTATTTCCCACACTGGCGCAGAATTCTGAGATTTAGGACCCACATTTCGC
1 GGTTTAACAAATCTCGTATTT----C-CTGCCGCAGAAGTCTGAGATTTAGGACCCACATTTCGC
80488967 TTCTTA
61 TTCTTA
80488973 AAATTTCCAT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
73 21 0.34
79 1 0.02
80 39 0.64
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (75 bp):
GGTTTAACAAATCTCGTATTTCCTGCCGCAGAAGTCTGAGATTTAGGACCCACATTTCGCTTCTT
ACTGATTGCG
Found at i:80491689 original size:56 final size:56
Alignment explanation
Indices: 80491624--80491743 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
80491614 GACAAGGATG
80491624 ATGGGCAAAACATGTCATGAAACATGTTATGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTATGTTAATGGAAAAATAAAATAAGAAGC
* *
80491680 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTATGTTAATGGAAAAATAAAATAAGAAGC
80491736 ATGGGCAA
1 ATGGGCAA
80491744 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTATGTTAATGGAAAAATAAAATAAGAAGC
Found at i:80493325 original size:96 final size:96
Alignment explanation
Indices: 80493199--80494326 Score: 1708
Period size: 96 Copynumber: 11.8 Consensus size: 96
80493189 TATTTGAATA
80493199 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * *
80493262 TATGTGATAAGTCCTAATGACCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
80493293 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
80493358 TATGTGATAAGGCCTAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
80493389 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TA
* *
80493454 TATATGTGATAATGCCTAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
** *
80493487 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATAAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
80493552 TATGTGATAAAGCCTAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
80493583 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TA
*
80493648 TATATGTGATAAGGCCTAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
80493681 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
80493746 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
80493777 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
80493841 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
65 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
80493873 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCA
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTA
*
80493934 TATATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
*
80493967 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATAAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
80494032 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
80494063 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTAT
* *
80494127 ATGTGTGATAAGGCCGAATAGCCAATGTGATG
65 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
80494159 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCA
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTA
*
80494220 TATATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
80494253 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
80494316 AATGTGATAAG
66 TATGTGATAAG
80494327 TCCCGAAGGG
Statistics
Matches: 968, Mismatches: 50, Indels: 32
0.92 0.05 0.03
Matches are distributed among these distances:
93 3 0.00
94 236 0.24
95 1 0.00
96 537 0.55
97 4 0.00
98 187 0.19
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:80493338 original size:49 final size:47
Alignment explanation
Indices: 80493199--80494326 Score: 1611
Period size: 47 Copynumber: 23.6 Consensus size: 47
80493189 TATTTGAATA
80493199 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
80493246 AATGTGAAAGTGTATATATGTGATAAGTCCTAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
80493293 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
80493342 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
80493389 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
80493438 AATGTGAAAGTGTATATATATGTGATAATGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
** *
80493487 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
80493536 AATGTGAAAGTGTATATATGTGATAAAGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
80493583 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
80493632 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
80493681 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
80493730 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
80493777 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
80493826 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
80493873 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
80493920 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
80493967 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
80494016 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
80494063 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
80494112 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATAGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
80494159 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
80494206 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
80494253 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
80494300 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
80494327 TCCCGAAGGG
Statistics
Matches: 1013, Mismatches: 52, Indels: 32
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 555 0.55
49 454 0.45
50 2 0.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:80494204 original size:22 final size:22
Alignment explanation
Indices: 80494177--80494298 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
80494167 CATGTGTATG
80494177 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
80494199 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
80494224 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
80494246 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
80494271 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
80494293 TGTGAT
1 TGTGAT
80494299 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:80496306 original size:46 final size:46
Alignment explanation
Indices: 80496155--80496315 Score: 168
Period size: 46 Copynumber: 3.5 Consensus size: 46
80496145 GGGTGTTACA
* * *
80496155 GACTCAACTCAACGAGCTCGGGCATTTGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
* * * *
80496201 GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-CGAACTCG
1 GACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGTGAACTCG
* *
80496248 GACTCAATTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
80496294 GACTCAACTCAACGAGTTCGGA
1 GACTCAACTCAACGAGTTCGGA
80496316 TGCTCAACCA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 1 0.01
46 48 0.52
47 28 0.30
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
Found at i:80496771 original size:30 final size:30
Alignment explanation
Indices: 80496737--80496796 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
80496727 ATTTAATACG
80496737 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
80496767 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
80496797 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:80498374 original size:33 final size:31
Alignment explanation
Indices: 80498337--80498407 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
80498327 GTTGGGATAG
* * *
80498337 TAAACACAGAACAAAGATAGTCTGCTAGGACAA
1 TAAACACA-AA-AAAGACAATCTGCCAGGACAA
*
80498370 TAAACACAAAACAGACAATCTGCCAGGACAA
1 TAAACACAAAAAAGACAATCTGCCAGGACAA
80498401 TAAACAC
1 TAAACAC
80498408 GGGGTGGTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 24 0.71
32 2 0.06
33 8 0.24
ACGTcount: A:0.51, C:0.23, G:0.14, T:0.13
Consensus pattern (31 bp):
TAAACACAAAAAAGACAATCTGCCAGGACAA
Found at i:80508325 original size:22 final size:22
Alignment explanation
Indices: 80508283--80508330 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
80508273 TATAGTGTAA
*
80508283 AAAAACCATAAGAAAAAAATTT
1 AAAAACCATAAGAAAAAAATTG
80508305 AAAAACC-TAA-AATAAATAATTG
1 AAAAACCATAAGAA-AAA-AATTG
80508327 AAAA
1 AAAA
80508331 TTAAACGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.09
21 6 0.26
22 15 0.65
ACGTcount: A:0.69, C:0.08, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAAACCATAAGAAAAAAATTG
Found at i:80517286 original size:31 final size:31
Alignment explanation
Indices: 80517246--80517312 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
80517236 AATTTCAATT
*
80517246 AAGTTGTTGAACTATTCAAAAGTTTTTATTG
1 AAGTCGTTGAACTATTCAAAAGTTTTTATTG
* ** * *
80517277 AAGTCGTTGAATTATTTGAAATTTTTTATTT
1 AAGTCGTTGAACTATTCAAAAGTTTTTATTG
80517308 AAGTC
1 AAGTC
80517313 ACTAGGTTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (31 bp):
AAGTCGTTGAACTATTCAAAAGTTTTTATTG
Found at i:80518529 original size:43 final size:42
Alignment explanation
Indices: 80518468--80518548 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
80518458 GATGGTCATG
80518468 TTGGAAAATAATTATTGAGTTAAAGAATGATAATTGTATATTA
1 TTGGAAAATAATTATTGAG-TAAAGAATGATAATTGTATATTA
***
80518511 TTGGAAAATAATTATTGAGTGGTGAATGATAATTGTAT
1 TTGGAAAATAATTATTGAGTAAAGAATGATAATTGTAT
80518549 CTCTTAGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 16 0.46
43 19 0.54
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.40
Consensus pattern (42 bp):
TTGGAAAATAATTATTGAGTAAAGAATGATAATTGTATATTA
Found at i:80520043 original size:18 final size:18
Alignment explanation
Indices: 80520003--80520043 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
80519993 TTAATCTTTG
80520003 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
80520020 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
80520039 -TTTAT
1 ATTTAT
80520044 CTAACTAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:80523017 original size:18 final size:16
Alignment explanation
Indices: 80522977--80523030 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
80522967 ACAACAATAA
*
80522977 TAATAATGATAATAATAA
1 TAATAAT-ATAATAA-AC
80522995 TAATAATAATAATAAAC
1 TAATAAT-ATAATAAAC
80523012 TCAATAATATCAATAAAC
1 T-AATAATAT-AATAAAC
80523030 T
1 T
80523031 TAAAAGGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 4 0.12
18 28 0.88
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (16 bp):
TAATAATATAATAAAC
Found at i:80523020 original size:3 final size:3
Alignment explanation
Indices: 80522954--80523009 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
80522944 AAGAAAGATA
* * *
80522954 AAT AAT AAT AAT AAC AAC AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
80523002 AAT AAT AA
1 AAT AAT AA
80523010 ACTCAATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:80523070 original size:8 final size:8
Alignment explanation
Indices: 80523057--80523101 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
80523047 TGATAATAGT
80523057 AAAAAGAA
1 AAAAAGAA
80523065 AAAAAGAA
1 AAAAAGAA
80523073 AAAAA-AGA
1 AAAAAGA-A
**
80523081 CGAAAGAA
1 AAAAAGAA
80523089 AAAAAGAA
1 AAAAAGAA
80523097 AAAAA
1 AAAAA
80523102 ATAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 1 0.03
8 29 0.94
9 1 0.03
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:80523085 original size:12 final size:11
Alignment explanation
Indices: 80523063--80523102 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
80523053 TAGTAAAAAG
80523063 AAAAAAAGAAA
1 AAAAAAAGAAA
*
80523074 AAAAAGACGAAA
1 AAAAA-AAGAAA
80523086 GAAAAAAAGAAA
1 -AAAAAAAGAAA
80523098 AAAAA
1 AAAAA
80523103 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 10 0.40
12 10 0.40
13 5 0.20
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:80523107 original size:17 final size:17
Alignment explanation
Indices: 80523057--80523162 Score: 58
Period size: 17 Copynumber: 6.2 Consensus size: 17
80523047 TGATAATAGT
80523057 AAAAAGAAAAAAAGA-AA
1 AAAAAGAAAAAAA-ATAA
** *
80523074 AAAAAG--ACGAAAGAA
1 AAAAAGAAAAAAAATAA
80523089 AAAAAGAAAAAAAATAA
1 AAAAAGAAAAAAAATAA
*
80523106 AAAATA-ATAAAAAATAA
1 AAAA-AGAAAAAAAATAA
* *
80523123 TAAAAGTATATAAAAAATTA
1 AAAAAG-A-A-AAAAAATAA
* * *
80523143 AAATATAAAAAAATTAA
1 AAAAAGAAAAAAAATAA
80523160 AAA
1 AAA
80523163 TATAAGTATA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
14 1 0.01
15 11 0.16
16 1 0.01
17 39 0.58
18 3 0.04
19 1 0.01
20 11 0.16
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (17 bp):
AAAAAGAAAAAAAATAA
Found at i:80523108 original size:10 final size:10
Alignment explanation
Indices: 80523063--80523127 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
80523053 TAGTAAAAAG
*
80523063 AAAAAAAGAA
1 AAAAAAATAA
*
80523073 AAAAAAGACGAA
1 AAAAAA-A-TAA
80523085 AGAAAAAA-AGA
1 A-AAAAAATA-A
80523096 AAAAAAATAA
1 AAAAAAATAA
*
80523106 AAAATAATAA
1 AAAAAAATAA
*
80523116 AAAATAATAA
1 AAAAAAATAA
80523126 AA
1 AA
80523128 GTATATAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
10 35 0.71
11 4 0.08
12 5 0.10
13 5 0.10
ACGTcount: A:0.83, C:0.02, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:80523117 original size:24 final size:24
Alignment explanation
Indices: 80523057--80523118 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
80523047 TGATAATAGT
80523057 AAAAAGAAAAAAAGAAAAAAAAGA
1 AAAAAGAAAAAAAGAAAAAAAAGA
** *
80523081 CGAAAGAAAAAAAGAAAAAAAATA
1 AAAAAGAAAAAAAGAAAAAAAAGA
*
80523105 AAAAATAATAAAAA
1 AAAAAGAA-AAAAA
80523119 ATAATAAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.05
Consensus pattern (24 bp):
AAAAAGAAAAAAAGAAAAAAAAGA
Found at i:80523124 original size:20 final size:20
Alignment explanation
Indices: 80523095--80523166 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
80523085 AGAAAAAAAG
80523095 AAAAAA-AATAAAAA-ATAAT
1 AAAAAATAATAAAAATAT-AT
*
80523114 AAAAAATAATAAAAGTATAT
1 AAAAAATAATAAAAATATAT
80523134 AAAAAAT--T-AAAATATA-
1 AAAAAATAATAAAAATATAT
80523150 AAAAAAT--TAAAAATATA
1 AAAAAATAATAAAAATATA
80523167 AGTATAAGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.17
17 15 0.31
18 1 0.02
19 6 0.12
20 16 0.33
21 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (20 bp):
AAAAAATAATAAAAATATAT
Found at i:80523163 original size:17 final size:17
Alignment explanation
Indices: 80523096--80523167 Score: 83
Period size: 17 Copynumber: 4.1 Consensus size: 17
80523086 GAAAAAAAGA
*
80523096 AAAAAAATAAAAAATAAT
1 AAAAAAATTAAAAAT-AT
* *
80523114 AAAAAATAATAAAAGTAT
1 AAAAAA-ATTAAAAATAT
80523132 ATAAAAAATT-AAAATAT
1 A-AAAAAATTAAAAATAT
80523149 AAAAAAATTAAAAATAT
1 AAAAAAATTAAAAATAT
80523166 AA
1 AA
80523168 GTATAAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
16 8 0.17
17 16 0.35
18 11 0.24
19 11 0.24
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (17 bp):
AAAAAAATTAAAAATAT
Found at i:80523218 original size:22 final size:20
Alignment explanation
Indices: 80523200--80523251 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
80523190 AATTAATTAG
80523200 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAATA
*
80523220 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAATA
80523242 TAAAATAAAA
1 TAAAATAAAA
80523252 CTAGGGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAATA
Found at i:80526133 original size:14 final size:15
Alignment explanation
Indices: 80526110--80526143 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
80526100 GATAAGTTAG
*
80526110 TAAATTATAATAAAA
1 TAAATAATAATAAAA
80526125 -AAATAATAATAAAA
1 TAAATAATAATAAAA
80526139 TAAAT
1 TAAAT
80526144 TTTCAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATAATAATAAAA
Found at i:80529070 original size:17 final size:18
Alignment explanation
Indices: 80529048--80529086 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
80529038 AGTGATTCCT
* *
80529048 ATAATT-AATTTATTAAA
1 ATAATTAAATTCATAAAA
80529065 ATAATTAAATTCATAAAA
1 ATAATTAAATTCATAAAA
80529083 ATAA
1 ATAA
80529087 AATATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTAAATTCATAAAA
Found at i:80529886 original size:47 final size:47
Alignment explanation
Indices: 80529829--80529927 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
80529819 TTCTAAATTA
* *
80529829 AAAAAATAAAATAATTATCACTTATGTAACAATAACATAAAGCATTT
1 AAAATATAAAATAACTATCACTTATGTAACAATAACATAAAGCATTT
80529876 AAAATATAAAATAACTATCACTTATGTAACAATAACATAAAGCATTT
1 AAAATATAAAATAACTATCACTTATGTAACAATAACATAAAGCATTT
80529923 AAAAT
1 AAAAT
80529928 TCTTGATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (47 bp):
AAAATATAAAATAACTATCACTTATGTAACAATAACATAAAGCATTT
Found at i:80529910 original size:26 final size:25
Alignment explanation
Indices: 80529833--80529915 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
80529823 AAATTAAAAA
80529833 AATAAAATAATTATCACTTATGTAAC
1 AATAAAATAA-TATCACTTATGTAAC
* * *
80529859 AATAACATAA-AGCA--T-T-TAAA
1 AATAAAATAATATCACTTATGTAAC
80529879 ATATAAAATAACTATCACTTATGTAAC
1 A-ATAAAATAA-TATCACTTATGTAAC
*
80529906 AATAACATAA
1 AATAAAATAA
80529916 AGCATTTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
20 4 0.09
21 9 0.21
22 1 0.02
23 3 0.07
24 3 0.07
25 1 0.02
26 18 0.42
27 4 0.09
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (25 bp):
AATAAAATAATATCACTTATGTAAC
Found at i:80531603 original size:29 final size:30
Alignment explanation
Indices: 80531566--80531623 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
80531556 GTGTACTAGG
* * *
80531566 CCATGTCCT-CACACGGTTGGGATACACGA
1 CCATATCCTCCACACGATTGGGACACACGA
*
80531595 CCATATCCTCCACATGATTGGGACACACG
1 CCATATCCTCCACACGATTGGGACACACG
80531624 GCCGTGTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (30 bp):
CCATATCCTCCACACGATTGGGACACACGA
Found at i:80532597 original size:48 final size:48
Alignment explanation
Indices: 80532532--80532815 Score: 315
Period size: 48 Copynumber: 5.9 Consensus size: 48
80532522 GGGTGAATTA
* * * * * *
80532532 CCGATGCCATGTTCCAAACATTGTCTTACACTGGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATG
* * *
80532580 CCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATG
*
80532628 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCGT-ACATATCAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGC-TCACATATCAATG
* * * *
80532676 CTGATGCCATGTCCCATACATGGTCTTACACTAGCTCTCAT-TACATTG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT-CAATG
* * * * *
80532724 TCGATGCCATGT-TCAAACATGGTCTTACACTAGCTCTCGTATC-GTGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAT-G
* * *
80532771 CAGATGCCATGTCCCAAACACGGTCTTACACTAGCACACATATCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
80532816 CCCAAATGTC
Statistics
Matches: 200, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
46 1 0.00
47 39 0.19
48 159 0.80
49 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATG
Found at i:80536283 original size:26 final size:26
Alignment explanation
Indices: 80536247--80536306 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
80536237 CTTAGCGAGT
*
80536247 TTGAGTTTAAGTGGGTTA-AAGGACCC
1 TTGAGTTTAAGTGGGTCACAA-GACCC
80536273 TTGAGTTTAAGTGGGTCACAAGACCC
1 TTGAGTTTAAGTGGGTCACAAGACCC
*
80536299 TTGTGTTT
1 TTGAGTTT
80536307 GTGTAACATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.35
Consensus pattern (26 bp):
TTGAGTTTAAGTGGGTCACAAGACCC
Found at i:80542556 original size:19 final size:19
Alignment explanation
Indices: 80542532--80542569 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
80542522 AATCAAGAGA
80542532 ACTCAACAAAATTAAATTT
1 ACTCAACAAAATTAAATTT
*
80542551 ACTCAACGAAATTAAATTT
1 ACTCAACAAAATTAAATTT
80542570 CTTTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (19 bp):
ACTCAACAAAATTAAATTT
Found at i:80547765 original size:21 final size:20
Alignment explanation
Indices: 80547724--80547766 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
80547714 CTCTTACCAT
***
80547724 TAATTTTAATCTCATTGCTA
1 TAATTTTAATCTCACCACTA
80547744 TAATATTTAATCTCACCACTA
1 TAAT-TTTAATCTCACCACTA
80547765 TA
1 TA
80547767 GTAACTAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (20 bp):
TAATTTTAATCTCACCACTA
Found at i:80548067 original size:12 final size:12
Alignment explanation
Indices: 80548037--80548074 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
80548027 ATAGTGTTAT
* *
80548037 TATAAAAATACA
1 TATAATAATAAA
80548049 TAT-ATAATAAA
1 TATAATAATAAA
80548060 TATAATAATAAA
1 TATAATAATAAA
80548072 TAT
1 TAT
80548075 TACATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (12 bp):
TATAATAATAAA
Found at i:80548103 original size:21 final size:20
Alignment explanation
Indices: 80548049--80548114 Score: 80
Period size: 19 Copynumber: 3.3 Consensus size: 20
80548039 TAAAAATACA
* *
80548049 TATATAATAAATATAATAA-
1 TATATATTACATATAATAAT
*
80548068 TAAATATTACATATAATAAT
1 TATATATTACATATAATAAT
*
80548088 TATTTATTACCATATAATAAT
1 TATATATTA-CATATAATAAT
80548109 TATATA
1 TATATA
80548115 CAATTATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 16 0.41
20 7 0.18
21 16 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TATATATTACATATAATAAT
Found at i:80553841 original size:37 final size:37
Alignment explanation
Indices: 80553791--80553869 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
80553781 TTATTACGAA
* *
80553791 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
* *
80553828 GTCTTACTCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
80553865 GTCTT
1 GTCTT
80553870 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:80554066 original size:47 final size:47
Alignment explanation
Indices: 80553988--80554477 Score: 784
Period size: 47 Copynumber: 10.4 Consensus size: 47
80553978 CCCTTCGGGA
* * * * * * *
80553988 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
80554035 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80554082 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
80554129 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
80554176 CTTATCACATATGTACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80554223 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80554270 CTTATCACATAT-TACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80554316 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80554363 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80554412 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80554459 CTTATCACATATATACACT
1 CTTATCACATATATACACT
80554478 GTCTTGGCTG
Statistics
Matches: 415, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 45 0.11
47 325 0.78
49 45 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:80558010 original size:32 final size:32
Alignment explanation
Indices: 80557973--80558044 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
80557963 GCTCATAAAA
*
80557973 CAAACATAGAACATGCTTTATACATAACAAAT
1 CAAACATAAAACATGCTTTATACATAACAAAT
80558005 CAAACATAAAACATGCTTTATACATAACAAAT
1 CAAACATAAAACATGCTTTATACATAACAAAT
*
80558037 CATACATA
1 CAAACATA
80558045 TTGTATCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.25
Consensus pattern (32 bp):
CAAACATAAAACATGCTTTATACATAACAAAT
Found at i:80558031 original size:18 final size:18
Alignment explanation
Indices: 80557976--80558031 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
80557966 CATAAAACAA
*
80557976 ACATAGAACATGCTTTAT
1 ACATAAAACATGCTTTAT
*
80557994 ACATAACAA-AT-C---AA
1 ACATAA-AACATGCTTTAT
80558008 ACATAAAACATGCTTTAT
1 ACATAAAACATGCTTTAT
80558026 ACATAA
1 ACATAA
80558032 CAAATCATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
13 2 0.07
14 9 0.31
15 1 0.03
17 1 0.03
18 14 0.48
19 2 0.07
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (18 bp):
ACATAAAACATGCTTTAT
Found at i:80558360 original size:17 final size:17
Alignment explanation
Indices: 80558338--80558376 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
80558328 AGCCTAGACT
*
80558338 GTGTGTCATACACGACC
1 GTGTGTCACACACGACC
* *
80558355 GTGTGTCGCACACGGCC
1 GTGTGTCACACACGACC
80558372 GTGTG
1 GTGTG
80558377 GTGTTGACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.28, G:0.33, T:0.23
Consensus pattern (17 bp):
GTGTGTCACACACGACC
Found at i:80564641 original size:16 final size:17
Alignment explanation
Indices: 80564614--80564648 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
80564604 CAAAACTCTC
80564614 AAGTCAAAATTTAAAAT
1 AAGTCAAAATTTAAAAT
80564631 AAGTC-AAATTTAAAAT
1 AAGTCAAAATTTAAAAT
80564647 AA
1 AA
80564649 ACTGATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AAGTCAAAATTTAAAAT
Found at i:80565652 original size:31 final size:31
Alignment explanation
Indices: 80565614--80565675 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
80565604 ACCCATGTCT
80565614 AATCTAGCGAGCTTACTGACTTGGGTTACAC
1 AATCTAGCGAGCTTACTGACTTGGGTTACAC
80565645 AATCTAGCGAGCTTACTGACTTGGGTTACAC
1 AATCTAGCGAGCTTACTGACTTGGGTTACAC
80565676 GGCCAAGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (31 bp):
AATCTAGCGAGCTTACTGACTTGGGTTACAC
Found at i:80565764 original size:66 final size:65
Alignment explanation
Indices: 80565677--80565836 Score: 230
Period size: 66 Copynumber: 2.4 Consensus size: 65
80565667 GGGTTACACG
* *
80565677 GCCAAGCCACAAGCCCGTGTGCTAGGCCGTGTGAAAAATGGTGAGCATACTGACTTGTGACACAT
1 GCCAAGCCACATGCCCGTGTGCTAGGCCGTGTGAAAAATGGAGAGCATACTGACTTGTGACACA-
80565742 A
65 A
* * * * * *
80565743 GCCAAGCCATATGCCCGTGTGCTAGGCCGTGTGAAAACTGGAGGGTATACTGACTTGTGTCACAC
1 GCCAAGCCACATGCCCGTGTGCTAGGCCGTGTGAAAAATGGAGAGCATACTGACTTGTGACACAA
80565808 GACCAAGCCACATGCCCGTGTGCTAGGCC
1 G-CCAAGCCACATGCCCGTGTGCTAGGCC
80565837 TTGTAAGGCT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
65 1 0.01
66 83 0.99
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (65 bp):
GCCAAGCCACATGCCCGTGTGCTAGGCCGTGTGAAAAATGGAGAGCATACTGACTTGTGACACAA
Found at i:80576301 original size:70 final size:70
Alignment explanation
Indices: 80576188--80576329 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
80576178 CCAAAACTTG
80576188 AAAAGACTCCGTTAGCATTGAGAGGATCTCGTCATAGGAAGAGTTTACCCGTTTAGCTAGATGGA
1 AAAAGACTCCGTTAGCATTGAGAGGATCTCGTCATAGGAAGAGTTTACCCGTTTAGCTAGATGGA
80576253 GTATT
66 GTATT
80576258 AAAAGACTCCGTTAGCATTGAGAGGATCTCGTCATAGGAAGAGTTTACCCGTTTAGCTAGATGGA
1 AAAAGACTCCGTTAGCATTGAGAGGATCTCGTCATAGGAAGAGTTTACCCGTTTAGCTAGATGGA
80576323 GTATT
66 GTATT
80576328 AA
1 AA
80576330 TAAGTAAAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (70 bp):
AAAAGACTCCGTTAGCATTGAGAGGATCTCGTCATAGGAAGAGTTTACCCGTTTAGCTAGATGGA
GTATT
Found at i:80577548 original size:21 final size:21
Alignment explanation
Indices: 80577509--80577552 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
80577499 TAAATATTAG
**
80577509 ATTAAATTTAATACTAAATCTT
1 ATTAAATTTAATAAAAAAT-TT
80577531 ATTAAA-TTAATAAAAAATTT
1 ATTAAATTTAATAAAAAATTT
80577551 AT
1 AT
80577553 CTACAAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAAATTTAATAAAAAATTT
Found at i:80577589 original size:62 final size:59
Alignment explanation
Indices: 80577471--80577589 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 59
80577461 ATAACTTTAA
* * * *
80577471 TATTAAATTAATATAATTTTTATCAAGATAAATATTAGATTAAATTTAATACTAAATCT
1 TATTAAATTAATAAAATTTTTATCAAGATAAACATTAAATTAAATTAAATACTAAATCT
*
80577530 TATTAAATTAATAAAAAATTTATCTA-CAAGATAAACATTAAATTAAATTAAATATTAAAT
1 TATTAAATTAAT--AAAATTT-T-TATCAAGATAAACATTAAATTAAATTAAATACTAAAT
80577590 TAATAAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 12 0.24
61 6 0.12
62 31 0.61
63 2 0.04
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (59 bp):
TATTAAATTAATAAAATTTTTATCAAGATAAACATTAAATTAAATTAAATACTAAATCT
Found at i:80578050 original size:25 final size:26
Alignment explanation
Indices: 80578015--80578077 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 26
80578005 TCTGACTTGA
*
80578015 AAATTAATTTTCAAAAATATCATATT
1 AAATTTATTTTCAAAAATATCATATT
80578041 AATTTATTTTATTTTCAAAAATATCATATT
1 AA---A-TTTATTTTCAAAAATATCATATT
*
80578071 AATTTTA
1 AAATTTA
80578078 ATTAATTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
26 6 0.19
29 1 0.03
30 24 0.77
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.49
Consensus pattern (26 bp):
AAATTTATTTTCAAAAATATCATATT
Found at i:80581370 original size:14 final size:14
Alignment explanation
Indices: 80581351--80581383 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
80581341 TTGTCATGTT
80581351 AGTTATTCCATTAG
1 AGTTATTCCATTAG
80581365 AGTTATTCCATTAG
1 AGTTATTCCATTAG
80581379 AGTTA
1 AGTTA
80581384 GGAAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (14 bp):
AGTTATTCCATTAG
Found at i:80595126 original size:27 final size:27
Alignment explanation
Indices: 80595096--80595147 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
80595086 TTAATTGAGA
80595096 ATCTATACTACATT-TTTTTGAAAATTT
1 ATCTAT-CTACATTGTTTTTGAAAATTT
* *
80595123 ATCTATTTACATTGTTTTTGGAAAT
1 ATCTATCTACATTGTTTTTGAAAAT
80595148 AAAAAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.52
Consensus pattern (27 bp):
ATCTATCTACATTGTTTTTGAAAATTT
Found at i:80600003 original size:5 final size:5
Alignment explanation
Indices: 80599984--80600025 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
80599974 TAAAATATAT
*
80599984 TATTA GATTA TTATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA T
80600026 TAAATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:80600003 original size:8 final size:8
Alignment explanation
Indices: 80599979--80600027 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
80599969 TGTGTTAAAA
80599979 TATATTAT
1 TATATTAT
*
80599987 TAGATTAT
1 TATATTAT
80599995 TAT-TATAT
1 TATAT-TAT
80600003 TATATTA-
1 TATATTAT
80600010 TAT-TATAT
1 TATAT-TAT
80600018 TATATTAT
1 TATATTAT
80600026 TA
1 TA
80600028 AATAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
6 1 0.03
7 6 0.18
8 25 0.74
9 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:80601548 original size:26 final size:26
Alignment explanation
Indices: 80601519--80601600 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
80601509 TGGTACAAAT
*
80601519 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
80601545 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
80601571 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
80601597 TGAT
1 TGAT
80601601 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:80622537 original size:14 final size:15
Alignment explanation
Indices: 80622510--80622538 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
80622500 AAAAAAATCC
80622510 ATTATTTTTATTAAA
1 ATTATTTTTATTAAA
80622525 ATTATTTTT-TTAAA
1 ATTATTTTTATTAAA
80622539 TGTAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTTTTATTAAA
Found at i:80623838 original size:48 final size:48
Alignment explanation
Indices: 80623767--80623909 Score: 234
Period size: 48 Copynumber: 3.0 Consensus size: 48
80623757 CATTAGAGGA
*
80623767 TACATTGAGTTGGCTTCGGGCCATGTTATTGGCACTTCGGGTGTGAGT
1 TACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAGT
*
80623815 TACATTGAGTTGGCTTTGGGCCATGATATTGGCACTTCGGGTGTTG-GT
1 TACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTG-TGAGT
* *
80623863 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGTGAG
1 TACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAG
80623910 ACTCCCGAGT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 2 0.02
48 84 0.95
49 2 0.02
ACGTcount: A:0.16, C:0.15, G:0.33, T:0.36
Consensus pattern (48 bp):
TACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAGT
Found at i:80637518 original size:46 final size:48
Alignment explanation
Indices: 80637410--80637531 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 48
80637400 TGTCTTCGAC
** *
80637410 ATGGACTTACATGAATCATTCCTGTCTCCAATGCCATATACATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATA-ATATCTAAT
* *
80637460 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-AT-ATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATAATATCTAAT
*
80637506 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
80637532 CTGTCCTGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 32 0.49
48 2 0.03
50 31 0.48
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATAATATCTAAT
Found at i:80640135 original size:14 final size:14
Alignment explanation
Indices: 80640108--80640151 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 14
80640098 TAATATATAT
*
80640108 TATTTTTATC-TAA
1 TATTTTTTTCTTAA
80640121 TATTTTTTTCTTAA
1 TATTTTTTTCTTAA
80640135 TGCATTTTTTTCTTAA
1 T--ATTTTTTTCTTAA
80640151 T
1 T
80640152 GCATTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.33
14 4 0.15
16 14 0.52
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTTTTTTCTTAA
Found at i:80640142 original size:15 final size:16
Alignment explanation
Indices: 80640122--80640157 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
80640112 TTTATCTAAT
80640122 ATTTTTTTCTTAATGC
1 ATTTTTTTCTTAATGC
80640138 ATTTTTTTCTTAATGC
1 ATTTTTTTCTTAATGC
80640154 ATTT
1 ATTT
80640158 AATATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.11, G:0.06, T:0.64
Consensus pattern (16 bp):
ATTTTTTTCTTAATGC
Found at i:80640495 original size:23 final size:23
Alignment explanation
Indices: 80640469--80640520 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
80640459 TGATTTTTAA
*
80640469 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
80640492 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
80640515 ACTTAG
1 ATTTAG
80640521 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:80640496 original size:13 final size:13
Alignment explanation
Indices: 80640478--80640520 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
80640468 AATTTTGAAT
80640478 TATTTAGTGATAA
1 TATTTAGTGATAA
80640491 TATTTAG-GAT--
1 TATTTAGTGATAA
80640501 TATTTAGTGATAA
1 TATTTAGTGATAA
*
80640514 TACTTAG
1 TATTTAG
80640521 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:80640521 original size:23 final size:23
Alignment explanation
Indices: 80640476--80640522 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
80640466 TAAATTTTGA
*
80640476 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATACTTAGG
80640499 ATTATTTAGTGATAATACTTAGG
1 ATTATTTAGTGATAATACTTAGG
80640522 A
1 A
80640523 AAAATCTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (23 bp):
ATTATTTAGTGATAATACTTAGG
Found at i:80643041 original size:23 final size:23
Alignment explanation
Indices: 80643006--80643064 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
80642996 TATATAAAAA
*
80643006 AATATAAAA-AATAAGTAATATAG
1 AATA-AAAATAATAAATAATATAG
*
80643029 AATAAAAATAATAAATATTATAG
1 AATAAAAATAATAAATAATATAG
80643052 AATAAAACATAAT
1 AATAAAA-ATAAT
80643065 TTGAATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 4 0.12
23 23 0.72
24 5 0.16
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (23 bp):
AATAAAAATAATAAATAATATAG
Found at i:80643199 original size:22 final size:20
Alignment explanation
Indices: 80643166--80643208 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
80643156 TAATACAAGT
80643166 AAAATATATTAATAATATATA
1 AAAATATATTAATAATA-ATA
*
80643187 AAAATAATGTTAATAATAATA
1 AAAAT-ATATTAATAATAATA
80643208 A
1 A
80643209 TTTGTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATATATTAATAATAATA
Found at i:80643241 original size:20 final size:21
Alignment explanation
Indices: 80643218--80643258 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
80643208 ATTTGTGAAA
80643218 AATAATATACGAT-AAATAAT
1 AATAATATACGATAAAATAAT
* *
80643238 AATAATGTATGATAAAATAAT
1 AATAATATACGATAAAATAAT
80643259 CTTATAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (21 bp):
AATAATATACGATAAAATAAT
Found at i:80643330 original size:3 final size:3
Alignment explanation
Indices: 80643322--80643349 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
80643312 AAGAATATAT
80643322 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
80643350 AAAATGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:80645331 original size:210 final size:210
Alignment explanation
Indices: 80645060--80646056 Score: 1541
Period size: 210 Copynumber: 4.7 Consensus size: 210
80645050 CCCATTGAAT
* * * * *
80645060 GTGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAA-AAGAAAAATCATTTTAGATTTG
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACA-AAGACGACAAATCATCTTAGATTTG
* * * *
80645124 CTTCATCGTAAACACGTGAAGGCCAAATCAGCTATATCTTCAATCTGCTCCCCGTCGAATATAGA
65 CTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGA
* * *
80645189 GAGATAAGATCTGTCATATTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGGG
130 GAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTG
80645254 TCTGCCTTCCATCAAA
195 TCTGCCTTCCATCAAA
* * * *
80645270 GTGGAAATTCCAGACTTAGATTTGTTATCTGACAATACAAAGGCGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGC
* * * * *
80645335 TTCATCGTAAACACGTGAAAGCCAAATTAGCCATATCTTCGATCTGCTTCCTGCCGAATACAAAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAG
*
80645400 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
80645465 CTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
* * * *
80645480 GTGGAAATGCCAGACTTCAATTTGTTCTCTGACCATACAGAGATGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGC
* * *
80645545 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCACCAAATATAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAG
*
80645610 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTACTATGTGT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
80645675 CTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
* *
80645690 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCAA-A-AAGAGATGACAAATCATATTAGATTT
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGA-CAATACAA-AGACGACAAATCATCTTAGATTT
*
80645753 GCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCCCGCCGAATACAG
64 GCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAG
* * *
80645818 AGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTAAAGGTGAGATTTTCTATGT
129 AGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGT
80645883 GTCTGCCTTCCATCAAA
194 GTCTGCCTTCCATCAAA
* * * *
80645900 GTGGAAATGCCAGAGTTCGATATGTTCTCTGACCATACAGAGACGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGC
* * *
80645965 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATATTCGATCTGCTCCCTGCCGAATACAGAA
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAG
* *
80646030 AGATAAGATTTGTCACCTTGGATCTGC
131 AGATAAGATCTGTCATCTTGGATCTGC
80646057 CTTGATAATG
Statistics
Matches: 719, Mismatches: 63, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
209 5 0.01
210 711 0.99
211 3 0.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (210 bp):
GTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGC
TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAG
AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
CTGCCTTCCATCAAA
Found at i:80654221 original size:14 final size:14
Alignment explanation
Indices: 80654198--80654227 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
80654188 ATTCTGGTTT
80654198 AATTTCATTTAGAA
1 AATTTCATTTAGAA
*
80654212 AATTTTATTTAGAA
1 AATTTCATTTAGAA
80654226 AA
1 AA
80654228 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTCATTTAGAA
Found at i:80658127 original size:12 final size:12
Alignment explanation
Indices: 80658110--80658168 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 12
80658100 AAGGAATAGC
80658110 AAATAATATAAT
1 AAATAATATAAT
80658122 AAATAATATATACAT
1 AAAT-A-ATATA-AT
80658137 AACATATATATAA-
1 AA-ATA-ATATAAT
*
80658150 AAA-AATATAAA
1 AAATAATATAAT
80658161 AAATAATA
1 AAATAATA
80658169 AGTAATATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
10 6 0.15
11 4 0.10
12 9 0.22
13 3 0.07
14 6 0.15
15 11 0.27
16 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATAATATAAT
Found at i:80658223 original size:23 final size:20
Alignment explanation
Indices: 80658152--80658214 Score: 51
Period size: 23 Copynumber: 3.0 Consensus size: 20
80658142 ATATATAAAA
80658152 AAATATA-AA-AAATAATAAGT
1 AAATATAGAATAAA-AATAA-T
80658172 -AATATAGAATAAAAATAAT
1 AAATATAGAATAAAAATAAT
80658191 AAACGTTATAGAATAAAACATAAT
1 AAA---TATAGAATAAAA-ATAAT
80658215 TTAAATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 7 0.19
20 9 0.25
21 3 0.08
23 12 0.33
24 5 0.14
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (20 bp):
AAATATAGAATAAAAATAAT
Found at i:80658301 original size:15 final size:15
Alignment explanation
Indices: 80658283--80658339 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
80658273 ATGTAAGGGC
*
80658283 AATATATATATAATT
1 AATAAATATATAATT
*
80658298 AATAAATATATAATAC
1 AATAAATATATAAT-T
80658314 AAGTAAA-ATAT-ATT
1 AA-TAAATATATAATT
80658328 AAT-AATATATAA
1 AATAAATATATAA
80658340 AAATAATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
12 2 0.06
13 5 0.14
14 3 0.09
15 15 0.43
16 6 0.17
17 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AATAAATATATAATT
Found at i:80658351 original size:22 final size:20
Alignment explanation
Indices: 80658318--80658360 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
80658308 TAATACAAGT
80658318 AAAATATATTAATAATATATA
1 AAAATATATTAATAATA-ATA
*
80658339 AAAATAATGTTAATAATAATA
1 AAAAT-ATATTAATAATAATA
80658360 A
1 A
80658361 TTTGTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATATATTAATAATAATA
Found at i:80658393 original size:20 final size:19
Alignment explanation
Indices: 80658370--80658411 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
80658360 ATTTGTGAAA
80658370 AATAATATACGATAAATAAT
1 AATAATATACGATAAA-AAT
* *
80658390 AATAATGTATGATAAAAAT
1 AATAATATACGATAAAAAT
80658409 AAT
1 AAT
80658412 CTTATAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (19 bp):
AATAATATACGATAAAAAT
Found at i:80658492 original size:3 final size:3
Alignment explanation
Indices: 80658463--80658507 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
80658453 ATATCTACAT
* *
80658463 ATA AGA ATA TATA TATA ATA GTA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
80658508 ATGAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 30 0.81
4 7 0.19
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:80663868 original size:40 final size:40
Alignment explanation
Indices: 80663710--80663887 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
80663700 CGGATGATAA
* *
80663710 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATGT
*
80663750 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGT
*
80663790 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGT
*
80663830 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATGT
* *
80663870 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
80663888 TACTTGGTTG
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 20 0.16
40 108 0.84
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGT
Found at i:80668636 original size:11 final size:11
Alignment explanation
Indices: 80668558--80668642 Score: 59
Period size: 11 Copynumber: 7.5 Consensus size: 11
80668548 ATAATTATCA
80668558 TAATAAAAATTC
1 TAAT-AAAATTC
80668570 TAA-AAAATTC
1 TAATAAAATTC
*
80668580 TTAATAAAATCC
1 -TAATAAAATTC
80668592 TAATAAAA-TC
1 TAATAAAATTC
*
80668602 -AATTATAATTATC
1 TAA-TA-AAAT-TC
*
80668615 TTAATATAATTC
1 -TAATAAAATTC
*
80668627 TAATAAAATTT
1 TAATAAAATTC
80668638 TAATA
1 TAATA
80668643 CACTAAATTC
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
9 2 0.03
10 10 0.17
11 27 0.47
12 11 0.19
13 4 0.07
14 2 0.03
15 2 0.03
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (11 bp):
TAATAAAATTC
Found at i:80669230 original size:23 final size:23
Alignment explanation
Indices: 80669204--80669255 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
80669194 TAATTTTTAA
*
80669204 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
80669227 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
80669250 ACTTAG
1 ATTTAG
80669256 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:80669231 original size:13 final size:13
Alignment explanation
Indices: 80669213--80669255 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
80669203 AATTTTGAAT
80669213 TATTTAGTGATAA
1 TATTTAGTGATAA
80669226 TATTTAG-GAT--
1 TATTTAGTGATAA
80669236 TATTTAGTGATAA
1 TATTTAGTGATAA
*
80669249 TACTTAG
1 TATTTAG
80669256 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:80669256 original size:23 final size:23
Alignment explanation
Indices: 80669211--80669257 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
80669201 TAAATTTTGA
*
80669211 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATACTTAGG
80669234 ATTATTTAGTGATAATACTTAGG
1 ATTATTTAGTGATAATACTTAGG
80669257 A
1 A
80669258 AAAATCTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (23 bp):
ATTATTTAGTGATAATACTTAGG
Found at i:80670070 original size:22 final size:24
Alignment explanation
Indices: 80670029--80670085 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
80670019 GCTTAAAAAA
*
80670029 TATTTTATTTTCTTAAA-TTTATT
1 TATTTTATTTTCTGAAATTTTATT
*
80670052 T-TTTTATTTTC-GAATATTTTTTT
1 TATTTTATTTTCTGAA-ATTTTATT
80670075 TATTTTATTTT
1 TATTTTATTTT
80670086 TGTATTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 11 0.38
23 7 0.24
24 9 0.31
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (24 bp):
TATTTTATTTTCTGAAATTTTATT
Found at i:80670106 original size:24 final size:23
Alignment explanation
Indices: 80670046--80670106 Score: 54
Period size: 24 Copynumber: 2.5 Consensus size: 23
80670036 TTTTCTTAAA
80670046 TTTATTTTTTTATTTTCGAATATTT
1 TTTA-TTTTTTATTTTCG-ATATTT
*
80670071 TTT-TTATTTTATTTTTG-TATTT
1 TTTATT-TTTTATTTTCGATATTT
80670093 CTTTATTTTATTAT
1 -TTTATTTT-TTAT
80670107 CTTAATCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
22 5 0.16
23 7 0.23
24 16 0.52
25 3 0.10
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (23 bp):
TTTATTTTTTATTTTCGATATTT
Found at i:80674161 original size:39 final size:40
Alignment explanation
Indices: 80674060--80674282 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
80674050 TTGAATGATG
* * *
80674060 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
80674099 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
80674140 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
80674178 TCCGGGTTAAGTCCCG-AGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
80674217 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
80674256 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
80674283 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
38 30 0.19
39 47 0.29
40 75 0.46
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:80674304 original size:79 final size:78
Alignment explanation
Indices: 80674060--80674315 Score: 227
Period size: 79 Copynumber: 3.3 Consensus size: 78
80674050 TTGAATGATG
* * * * * * *
80674060 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCG-AGGCATT
** *
80674124 TGTGCGAGAT-ACTAAT
63 TGAACGAG-TGACTAAA
* * *
80674140 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAGGCATTTGT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAGGCATTTGA
* *
80674204 GCGAGTTACTAAA
66 ACGAGTGACTAAA
*
80674217 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCG-AGGCATT
*
80674281 TGAACGAG-GAGCTATA
63 TGAACGAGTGA-CTAAA
* *
80674297 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
80674316 TACGTGATTT
Statistics
Matches: 152, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
76 1 0.01
77 31 0.20
78 29 0.19
79 58 0.38
80 33 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAGGCATTTGA
ACGAGTGACTAAA
Found at i:80681940 original size:40 final size:40
Alignment explanation
Indices: 80681856--80682079 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
80681846 TTGAATGATG
* * * *
80681856 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
80681896 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
80681936 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
80681974 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
80682014 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
80682055 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
80682080 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:80682074 original size:80 final size:80
Alignment explanation
Indices: 80681856--80682079 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
80681846 TTGAATGATG
* * * * *
80681856 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
80681919 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
80681936 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
80681998 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
80682014 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
80682079 G
66 G
80682080 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:80687734 original size:23 final size:23
Alignment explanation
Indices: 80687708--80687759 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
80687698 TGATTTTTAA
*
80687708 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
80687731 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
80687754 ATTTAG
1 ATTTAG
80687760 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:80687735 original size:13 final size:13
Alignment explanation
Indices: 80687717--80687759 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
80687707 AATTTTGAAT
80687717 TATTTAGTGATAA
1 TATTTAGTGATAA
80687730 TATTTAG-GAT--
1 TATTTAGTGATAA
80687740 TATTTAGTGATAA
1 TATTTAGTGATAA
80687753 TATTTAG
1 TATTTAG
80687760 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:80687760 original size:23 final size:23
Alignment explanation
Indices: 80687715--80687761 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
80687705 TAAATTTTGA
80687715 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
80687738 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
80687761 A
1 A
80687762 AAAATCTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:80689823 original size:4 final size:4
Alignment explanation
Indices: 80689816--80689880 Score: 60
Period size: 4 Copynumber: 15.2 Consensus size: 4
80689806 TTTAAGTTTA
*
80689816 TATT TATT TACTT T-TT TAATT TTTT TATT TATCCT TATT TATT TATT
1 TATT TATT TA-TT TATT T-ATT TATT TATT TAT--T TATT TATT TATT
*
80689863 TATTT TAAT TATT TATT T
1 TA-TT TATT TATT TATT T
80689881 TATTATTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 34 0.67
5 10 0.20
6 4 0.08
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:80689846 original size:13 final size:13
Alignment explanation
Indices: 80689816--80689894 Score: 76
Period size: 13 Copynumber: 6.2 Consensus size: 13
80689806 TTTAAGTTTA
80689816 TATTTATTTACTTT
1 TATTTATTTA-TTT
*
80689830 T-TTAATTT-TTT
1 TATTTATTTATTT
80689841 TATTTATCCTTA-TT
1 TATTTAT--TTATTT
80689855 TATTTATTTATTT
1 TATTTATTTATTT
*
80689868 TAATTATTTATTT
1 TATTTATTTATTT
*
80689881 TA-TTATTAATTT
1 TATTTATTTATTT
80689893 TA
1 TA
80689895 AAAAACTTGA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
11 4 0.07
12 18 0.32
13 22 0.39
14 12 0.21
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTTATTTATTT
Found at i:80689847 original size:31 final size:29
Alignment explanation
Indices: 80689789--80689884 Score: 77
Period size: 31 Copynumber: 3.0 Consensus size: 29
80689779 AATTGTCTTA
*
80689789 TTACTTTTTTCTTTCTTTTTAAGTTTATATTTAT
1 TTACTTTTTT-ATT-TTTTT-A-TTTAT-TTTAT
*
80689823 TTACTTTTTTAATTTTTTTATTTATCCTTAT
1 TTACTTTTTT-ATTTTTTTATTTAT-TTTAT
*
80689854 TTA-TTTATTTATTTTAATTATTTATTTTAT
1 TTACTTT-TTTATTTT-TTTATTTATTTTAT
80689884 T
1 T
80689885 ATTAATTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 13 0.24
31 23 0.43
32 1 0.02
33 5 0.09
34 12 0.22
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (29 bp):
TTACTTTTTTATTTTTTTATTTATTTTAT
Found at i:80689860 original size:18 final size:17
Alignment explanation
Indices: 80689816--80689880 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
80689806 TTTAAGTTTA
80689816 TATTTATTTACTTT-T-T
1 TATTTATTTA-TTTATCT
*
80689832 TAATTTTTTTATTTATCCT
1 T-ATTTATTTATTTAT-CT
*
80689851 TATTTATTTATTTATTT
1 TATTTATTTATTTATCT
*
80689868 TAATTATTTATTT
1 TATTTATTTATTT
80689881 TATTATTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.10
17 22 0.54
18 13 0.32
19 2 0.05
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTATTTATTTATCT
Found at i:80689980 original size:21 final size:21
Alignment explanation
Indices: 80689956--80689995 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
80689946 AAATATATAT
80689956 TTTTGAAAT-TATTTTTTAAAA
1 TTTT-AAATATATTTTTTAAAA
80689977 TTTTAAATATATTTTTTAA
1 TTTTAAATATATTTTTTAA
80689996 TAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTAAATATATTTTTTAAAA
Found at i:80690004 original size:21 final size:20
Alignment explanation
Indices: 80689961--80690004 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
80689951 TATATTTTTG
*
80689961 AAATTATTTTTTAAAATTTT
1 AAATTATTTTTTAAAATTAT
80689981 AAATATATTTTTTAATAA-TAT
1 AAAT-TATTTTTTAA-AATTAT
80690002 AAA
1 AAA
80690005 ACATTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 15 0.71
22 2 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTATTTTTTAAAATTAT
Found at i:80690085 original size:8 final size:9
Alignment explanation
Indices: 80690050--80690120 Score: 54
Period size: 9 Copynumber: 7.3 Consensus size: 9
80690040 TTATTATTAG
80690050 TTTATAATAT
1 TTTA-AATAT
80690060 TTTAAATGTAT
1 TTTAAA--TAT
80690071 ATTTAAA-AT
1 -TTTAAATAT
80690080 TTTAAATAT
1 TTTAAATAT
* *
80690089 TTTTAATTT
1 TTTAAATAT
80690098 ATTTATAATAT
1 -TTTA-AATAT
*
80690109 TTTTAATAT
1 TTTAAATAT
80690118 TTT
1 TTT
80690121 TAAAATATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
8 6 0.12
9 21 0.42
10 10 0.20
11 7 0.14
12 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTAAATAT
Found at i:80690101 original size:20 final size:20
Alignment explanation
Indices: 80690056--80690124 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
80690046 TTAGTTTATA
*
80690056 ATATTTTAAATGTATATTTAA-
1 ATATTTTAAA--TATTTTTAAT
80690077 A-ATTTTAAATATTTTTAAT
1 ATATTTTAAATATTTTTAAT
*
80690096 TTA-TTTATAATATTTTTAAT
1 ATATTTTA-AATATTTTTAAT
80690116 AT-TTTTAAA
1 ATATTTTAAA
80690125 ATATATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 8 0.20
19 6 0.15
20 26 0.63
21 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (20 bp):
ATATTTTAAATATTTTTAAT
Found at i:80690120 original size:9 final size:9
Alignment explanation
Indices: 80690072--80690123 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
80690062 TAAATGTATA
*
80690072 TTTAAAATT
1 TTTAATATT
*
80690081 TTAAATATT
1 TTTAATATT
80690090 TTTAATTTATT
1 TTTAA--TATT
*
80690101 TATAATATT
1 TTTAATATT
80690110 TTTAATATT
1 TTTAATATT
80690119 TTTAA
1 TTTAA
80690124 AATATATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 28 0.78
11 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTAATATT
Found at i:80690121 original size:29 final size:29
Alignment explanation
Indices: 80690054--80690123 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
80690044 TATTAGTTTA
*
80690054 TAATATTTTAAATGTATATTTAAAATTTT
1 TAATATTTTTAATGTATATTTAAAATTTT
*
80690083 AAATATTTTTAAT-T-TATTTATAATATTTT
1 TAATATTTTTAATGTATATTTA-AA-ATTTT
80690112 TAATATTTTTAA
1 TAATATTTTTAA
80690124 AATATATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 6 0.17
28 3 0.08
29 27 0.75
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (29 bp):
TAATATTTTTAATGTATATTTAAAATTTT
Found at i:80690127 original size:20 final size:19
Alignment explanation
Indices: 80690079--80690128 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
80690069 ATATTTAAAA
80690079 TTTT-AAATATTTTTAATT
1 TTTTAAAATATTTTTAATT
*
80690097 TATTTATAATATTTTTAATAT
1 T-TTTAAAATATTTTTAAT-T
80690118 TTTTAAAATAT
1 TTTTAAAATAT
80690129 ATTATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 21 0.78
21 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAATATTTTTAATT
Done.