Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 58 of 438
Found at i:15070531 original size:14 final size:13
Alignment explanation
Indices: 15070492--15070531 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
15070482 ATGTTTAAAA
15070492 ACTTTTATTTATT
1 ACTTTTATTTATT
15070505 A-TTTTATGTTATT
1 ACTTTTAT-TTATT
15070518 ACTTTTATTCTATT
1 ACTTTTATT-TATT
15070532 TTAAGACTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 6 0.25
13 8 0.33
14 10 0.42
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (13 bp):
ACTTTTATTTATT
Found at i:15074172 original size:24 final size:25
Alignment explanation
Indices: 15074144--15074191 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15074134 TGCTATGTAA
15074144 GAGCATG-T-TGAGTATATGTTATAC
1 GAGCATGATATGA-TATATGTTATAC
15074168 GAGCATGCATATGATATATGTTAT
1 GAGCATG-ATATGATATATGTTAT
15074192 TATGTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.33
26 11 0.52
27 3 0.14
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (25 bp):
GAGCATGATATGATATATGTTATAC
Found at i:15085886 original size:43 final size:42
Alignment explanation
Indices: 15085775--15085886 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 42
15085765 GTTTACCGAG
* *
15085775 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTAC-TGTAAGACCATATCTGGGACAATGGCATCATT
* * * * *
15085818 ATATTATTTACTATAAAACCCTATCTGGGACAATGGCATCGA-T
1 ATGTGA-TTACTGTAAGACCATATCTGGGACAATGGCATC-ATT
*
15085861 ATGTGATAACATGTAAGACCATATCT
1 ATGTGATTAC-TGTAAGACCATATCT
15085887 AGGATATGGC
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
42 3 0.06
43 45 0.85
44 5 0.09
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (42 bp):
ATGTGATTACTGTAAGACCATATCTGGGACAATGGCATCATT
Found at i:15095266 original size:46 final size:46
Alignment explanation
Indices: 15095216--15095344 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
15095206 TGGTTGAGCA
15095216 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15095262 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15095308 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15095345 GTGGATTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15102304 original size:46 final size:46
Alignment explanation
Indices: 15102254--15102428 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
15102244 TGGTTGAGCA
15102254 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
* *
15102300 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA-T-G
* * *
15102344 CATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
* * *
15102392 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15102429 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
45 2 0.02
46 91 0.83
47 2 0.02
48 1 0.01
49 4 0.04
50 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
Found at i:15102407 original size:92 final size:92
Alignment explanation
Indices: 15102250--15102421 Score: 290
Period size: 92 Copynumber: 1.9 Consensus size: 92
15102240 AGGATGGTTG
* * *
15102250 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
15102315 TTGAGTCCGAGTTCATGAAATGTAACT
66 TTGAGTCCGAGTTCATGAAATGTAACT
* * *
15102342 AGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAATGCCCGAGCTCTTTGAG
1 AGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
15102407 TTGAGTCCGAGTTCA
66 TTGAGTCCGAGTTCA
15102422 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (92 bp):
AGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCATGAAATGTAACT
Found at i:15116267 original size:25 final size:25
Alignment explanation
Indices: 15116239--15116289 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
15116229 AATATAAACG
15116239 TTGTAGTTAGCAGAGATGTTAGTTT
1 TTGTAGTTAGCAGAGATGTTAGTTT
*
15116264 TTGTGGTTAGCAGAGATGTTAGTTT
1 TTGTAGTTAGCAGAGATGTTAGTTT
15116289 T
1 T
15116290 GATGAAACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.45
Consensus pattern (25 bp):
TTGTAGTTAGCAGAGATGTTAGTTT
Found at i:15118222 original size:13 final size:13
Alignment explanation
Indices: 15118187--15118223 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15118177 CTATTATATA
15118187 ATTTTCTCTTTAG
1 ATTTTCTCTTTAG
**
15118200 ATTTAGTCTTTAG
1 ATTTTCTCTTTAG
15118213 ATTTTCTCTTT
1 ATTTTCTCTTT
15118224 TCTTAAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTTCTCTTTAG
Found at i:15120184 original size:29 final size:29
Alignment explanation
Indices: 15120142--15120199 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
15120132 GGGGTGTTAC
15120142 ACTCATCATTCAAATAAATCAAGTTTGAT
1 ACTCATCATTCAAATAAATCAAGTTTGAT
*
15120171 ACTCATCGTTCAAATAAATCAAGTTTGAT
1 ACTCATCATTCAAATAAATCAAGTTTGAT
15120200 CCATCTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (29 bp):
ACTCATCATTCAAATAAATCAAGTTTGAT
Found at i:15121854 original size:45 final size:45
Alignment explanation
Indices: 15121804--15121896 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
15121794 ATTGGTCATA
*
15121804 AAACATGCATTTAACACACATGACATATTACCAACCATGCATGGC
1 AAACATGCATTCAACACACATGACATATTACCAACCATGCATGGC
*
15121849 AAACATGCATTCAACACACATGACATATTACCAACGATGCATGGC
1 AAACATGCATTCAACACACATGACATATTACCAACCATGCATGGC
15121894 AAA
1 AAA
15121897 TAAACATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (45 bp):
AAACATGCATTCAACACACATGACATATTACCAACCATGCATGGC
Found at i:15123142 original size:50 final size:50
Alignment explanation
Indices: 15123067--15123254 Score: 232
Period size: 50 Copynumber: 3.7 Consensus size: 50
15123057 ACCGAAGCTC
* * *
15123067 TCTGGTACGCATAGTAGCCTACACTTAATACTACACATACAACCTAACAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACCTAACAA
** * * *
15123117 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGATCGAAGCTA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACCTAA-CAA
* ** *
15123168 TCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACCTAACAA
* * *
15123218 TCTGGTACACGTAGTAGCATGCACTTAGTACTACACA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACA
15123255 CGTGATCTAA
Statistics
Matches: 115, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
50 74 0.64
51 41 0.36
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACCTAACAA
Found at i:15123234 original size:101 final size:101
Alignment explanation
Indices: 15123059--15123261 Score: 316
Period size: 101 Copynumber: 2.0 Consensus size: 101
15123049 CCCTTGTAAC
* *
15123059 CGAAGCTCTCTGGTACGCATAGTAGCCTACACTTAATACTACACATACAACCTAACAATCTGGTA
1 CGAAGCTATCGGGTACGCATAGTAGCCTACACTTAATACTACACATACAACCTAACAATCTGGTA
* *
15123124 CACATAGTAGCCTACACTTAGTACTACACATGTGAT
66 CACATAGTAGCATACACTTAGTACTACACACGTGAT
* * * *
15123160 CGAAGCTATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTGGTA
1 CGAAGCTATCGGGTACGCATAGTAGCCTACACTTAATACTACACATACAACCTAACAATCTGGTA
* *
15123225 CACGTAGTAGCATGCACTTAGTACTACACACGTGAT
66 CACATAGTAGCATACACTTAGTACTACACACGTGAT
15123261 C
1 C
15123262 TAAAACTGTC
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CGAAGCTATCGGGTACGCATAGTAGCCTACACTTAATACTACACATACAACCTAACAATCTGGTA
CACATAGTAGCATACACTTAGTACTACACACGTGAT
Found at i:15135026 original size:30 final size:29
Alignment explanation
Indices: 15134992--15135081 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
15134982 ATTGACATTG
15134992 GCATCGACTGCTACATGGGCATCTACATC
1 GCATCGACTGCTACATGGGCATCTACATC
* *
15135021 AGCATCGACTACTGCATGGGCATCTACATC
1 -GCATCGACTGCTACATGGGCATCTACATC
* * ** *
15135051 GACATTGATTGCTACATCAGCATCTGCATC
1 G-CATCGACTGCTACATGGGCATCTACATC
15135081 G
1 G
15135082 ATATCGTCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (29 bp):
GCATCGACTGCTACATGGGCATCTACATC
Found at i:15136426 original size:22 final size:22
Alignment explanation
Indices: 15136401--15136444 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15136391 TAGTCATATA
15136401 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
15136423 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
15136445 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:15136480 original size:13 final size:14
Alignment explanation
Indices: 15136464--15136505 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15136454 TTTCAATTTT
15136464 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
15136477 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
15136492 ATTTTAAATAATAT
1 ATTTT-AATAATAT
15136506 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:15136490 original size:16 final size:16
Alignment explanation
Indices: 15136468--15136504 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15136458 AATTTTATTT
15136468 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
15136485 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
15136500 TAATA
1 TAATA
15136505 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:15136555 original size:15 final size:15
Alignment explanation
Indices: 15136523--15136593 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
15136513 ATATTATTAA
15136523 AAAT-TTTTAA-AAT
1 AAATATTTTAATAAT
*
15136536 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
15136551 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
15136570 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
15136585 AAATGTTTT
1 AAATATTTT
15136594 GTAGTATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 3 0.07
14 6 0.13
15 19 0.42
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:15139752 original size:18 final size:17
Alignment explanation
Indices: 15139731--15139774 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
15139721 TTAAATAATA
*
15139731 TATAAATTTTGGAATTTT
1 TATAAATTTT-GAAATTT
*
15139749 TATAAATATTTTAAATTT
1 TATAAAT-TTTGAAATTT
15139767 TATAAATT
1 TATAAATT
15139775 ATTTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TATAAATTTTGAAATTT
Found at i:15139786 original size:19 final size:18
Alignment explanation
Indices: 15139743--15139786 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
15139733 TAAATTTTGG
15139743 AATTTTTATAAATATTTT
1 AATTTTTATAAATATTTT
*
15139761 AAATTTTATAAATTATTTT
1 AATTTTTATAAA-TATTTT
*
15139780 GATTTTT
1 AATTTTT
15139787 TTGTAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
AATTTTTATAAATATTTT
Found at i:15140839 original size:7 final size:7
Alignment explanation
Indices: 15140827--15140859 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
15140817 TTTGGGTAGA
15140827 TGGGAGG
1 TGGGAGG
15140834 TGGGAGG
1 TGGGAGG
15140841 TGGGAGG
1 TGGGAGG
15140848 TGGGAGG
1 TGGGAGG
15140855 TGGGA
1 TGGGA
15140860 TAGGAAGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.70, T:0.15
Consensus pattern (7 bp):
TGGGAGG
Found at i:15142899 original size:17 final size:17
Alignment explanation
Indices: 15142879--15142912 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15142869 AATAGAAAAT
15142879 GTAAATGTTGAGAGTTA
1 GTAAATGTTGAGAGTTA
15142896 GTAAATGTTGAGAGTTA
1 GTAAATGTTGAGAGTTA
15142913 AGTTATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (17 bp):
GTAAATGTTGAGAGTTA
Found at i:15145700 original size:31 final size:31
Alignment explanation
Indices: 15145641--15145716 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
15145631 ACACACATAT
*
15145641 ATATACTAAATAAAATAATAAAATAATAATAA
1 ATAT-CTAATTAAAATAATAAAATAATAATAA
* *
15145673 ATATCTTATTAAAAT-ATTAAATAAATAATAA
1 ATATCTAATTAAAATAATAAAAT-AATAATAA
*
15145704 TTATCTAATTAAA
1 ATATCTAATTAAA
15145717 TAACTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 6 0.16
31 28 0.74
32 4 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATCTAATTAAAATAATAAAATAATAATAA
Found at i:15145706 original size:23 final size:23
Alignment explanation
Indices: 15145647--15145706 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
15145637 ATATATATAC
15145647 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
15145667 T-AATAAATATCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
15145690 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
15145707 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:15150502 original size:18 final size:19
Alignment explanation
Indices: 15150464--15150504 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
15150454 TGGTTCATGT
15150464 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
15150483 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
15150501 TTTC
1 TTTC
15150505 TCATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:15150694 original size:39 final size:40
Alignment explanation
Indices: 15150651--15150762 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
15150641 TCGGATAGTT
* *
15150651 CGAAGCAATATTTGACACCCAGTATCTCATCG-GCCTAGC
1 CGAAGAAATATTTGACACCCAGTATCTCATCGAACCTAGC
* * ** * * *
15150690 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGTATCTCATCGAACCTAGC
* *
15150729 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTATCTCATCGA
15150763 CTCGAGGTCG
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
38 19 0.35
39 18 0.33
40 1 0.02
41 17 0.31
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTATCTCATCGAACCTAGC
Found at i:15151027 original size:18 final size:19
Alignment explanation
Indices: 15151001--15151039 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15150991 TTTCAATTCA
15151001 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
15151020 ATTC-AATAGTCAATATAT
1 ATTCAAATAATCAATATAT
15151038 AT
1 AT
15151040 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:15152355 original size:5 final size:5
Alignment explanation
Indices: 15152345--15152396 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
15152335 TTATGTTTAT
15152345 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
15152395 AT
1 AT
15152397 TAAAACATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:15153369 original size:70 final size:70
Alignment explanation
Indices: 15153267--15153900 Score: 671
Period size: 70 Copynumber: 9.1 Consensus size: 70
15153257 CCTTCAAATG
* * * * * * ***
15153267 GTTAGCAATAGTTAAAAGCTCCTAACTTTCATTCTAAGTCTCACAGGTTTAATACCATGGCCTCC
1 GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
15153332 AAACA
66 AAACA
* * * * * *
15153337 GTTACCAAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATATCG-TGCCCTT
1 GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAG-CCTC
* *
15153401 CATATA
65 CAAACA
** * * *
15153407 GTTTAGCAAGAGTTAAAAGCTCCCAATTGTCATTATAAGGCTCACAGGTTTAATACCGC-GACCT
1 G-TTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAG-CCT
15153471 CCAAACA
64 CCAAACA
* * * * *
15153478 ATTAGCAAGAGTTAAAAGCTCCCAACTTTCATTCTAAGGCTCGTAGGTTTAATACCGCAGCCTCT
1 GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
*
15153543 AAATA
66 AAACA
* * * *
15153548 GTTAACGAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTTGCAAGTTTAATACCGCAGCCTCC
1 GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
*
15153613 ATACA
66 AAACA
** * *
15153618 GTTAGTGAGAGTTAAAAGCTCCCAACTATCATTCTAAGGTTCGCAGGTTTAATACCGCAGCCTCC
1 GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
15153683 AAACA
66 AAACA
* * * * * * * * *
15153688 GTTAGCGAGAGTTAAAAGCTTCTAGTTTTCATTCTAAGGCTCGCAGGTTTAATATCGTAGCTTCT
1 GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
15153753 AAACA
66 AAACA
* ** * * ** * *
15153758 GTTAGCGAGAGTTAAAAGCTCTTAGGTGTCATTCTAAGGCTTACAGGTTTAATACTGCAGTCTCC
1 GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
*
15153823 AAATA
66 AAACA
* * * *
15153828 GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGTAGATTTGATACCGCAACC-CC
1 GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
*
15153892 AAATA
66 AAACA
15153897 GTTA
1 GTTA
15153901 ACGCGAGCTC
Statistics
Matches: 471, Mismatches: 89, Indels: 9
0.83 0.16 0.02
Matches are distributed among these distances:
69 12 0.03
70 403 0.86
71 56 0.12
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (70 bp):
GTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
AAACA
Found at i:15153726 original size:210 final size:210
Alignment explanation
Indices: 15153267--15153900 Score: 806
Period size: 210 Copynumber: 3.0 Consensus size: 210
15153257 CCTTCAAATG
* * * * * *
15153267 GTTAGCAATAGTTAAAAGCTCCTAACTTTCATTCTAAGTCTCACAGGTTTAATACCATGGCCTCC
1 GTTAGCAAGAGTTAAAAGCTCCTAACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTCT
* * * *
15153332 AAACAGTTACCAAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATATCG-TG
66 AAACAGTTAACGAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCAG
* * * * *
15153396 CCCTTCATATAGTTTAGCAAGAGTTAAAAGCTCCCAATTGTCATTATAAGGCTCACAGGTTTAAT
131 -CCTCCATATAG-TTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTTAAT
15153461 ACCGC-GACCTCCAAACA
194 ACCGCAG-CCTCCAAACA
* * * *
15153478 ATTAGCAAGAGTTAAAAGCTCCCAACTTTCATTCTAAGGCTCGTAGGTTTAATACCGCAGCCTCT
1 GTTAGCAAGAGTTAAAAGCTCCTAACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTCT
* * *
15153543 AAATAGTTAACGAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTTGCAAGTTTAATACCGCAG
66 AAACAGTTAACGAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCAG
* ** *
15153608 CCTCCATACAGTTAGTGAGAGTTAAAAGCTCCCAACTATCATTCTAAGGTTCGCAGGTTTAATAC
131 CCTCCATATAGTTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTTAATAC
15153673 CGCAGCCTCCAAACA
196 CGCAGCCTCCAAACA
* * ** * *
15153688 GTTAGCGAGAGTTAAAAGCTTCTAGTTTTCATTCTAAGGCTCGCAGGTTTAATATCGTAGCTTCT
1 GTTAGCAAGAGTTAAAAGCTCCTAACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTCT
* * * * * *
15153753 AAACAGTTAGCGAGAGTTAAAAGCTCTTAGGTGTCATTCTAAGGCTTACAGGTTTAATACTGCAG
66 AAACAGTTAACGAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCAG
* * * * * *
15153818 TCTCCAAATAGTTAGCAAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGTAGATTTGATAC
131 CCTCCATATAGTTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTTAATAC
* *
15153883 CGCAACC-CCAAATA
196 CGCAGCCTCCAAACA
15153897 GTTA
1 GTTA
15153901 ACGCGAGCTC
Statistics
Matches: 364, Mismatches: 57, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
209 10 0.03
210 232 0.64
211 121 0.33
212 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (210 bp):
GTTAGCAAGAGTTAAAAGCTCCTAACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTCT
AAACAGTTAACGAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCAG
CCTCCATATAGTTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTTAATAC
CGCAGCCTCCAAACA
Found at i:15154102 original size:18 final size:18
Alignment explanation
Indices: 15154081--15154129 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
15154071 TTCTTATGTC
* *
15154081 TAAAATTTTGCTTGAGTT
1 TAAAATTTTGCTTCAATT
* *
15154099 TAAAAGTTTACTTCAATT
1 TAAAATTTTGCTTCAATT
*
15154117 TCAAATTTTGCTT
1 TAAAATTTTGCTT
15154130 AAGTCAAGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (18 bp):
TAAAATTTTGCTTCAATT
Found at i:15157605 original size:3 final size:3
Alignment explanation
Indices: 15157597--15157634 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
15157587 TATAAAATAC
* *
15157597 TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15157635 GTATATGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:15157817 original size:22 final size:23
Alignment explanation
Indices: 15157792--15157854 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
15157782 ATGTTTTCAT
*
15157792 ATACTATTATGTATATATC-TTA
1 ATACTATTATGTATATACCTTTA
*
15157814 ATACTATTA-GTTATATACCTTTT
1 ATACTATTATG-TATATACCTTTA
15157837 ATACTATTGTATGTATAT
1 ATACTA-T-TATGTATAT
15157855 TTCTATATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 16 0.47
23 8 0.24
24 1 0.03
25 7 0.21
26 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (23 bp):
ATACTATTATGTATATACCTTTA
Found at i:15158192 original size:25 final size:22
Alignment explanation
Indices: 15158156--15158219 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 22
15158146 AGTTTCTCTA
15158156 ATATATTATGTATATATATTTTT
1 ATATATTATGTATATAT-TTTTT
* *
15158179 AGTCTTATTATGTATACATTTTTT
1 A-T-ATATTATGTATATATTTTTT
*
15158203 ATATATTACGTATATAT
1 ATATATTATGTATATAT
15158220 CGCTTTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 12 0.35
23 2 0.06
24 7 0.21
25 13 0.38
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (22 bp):
ATATATTATGTATATATTTTTT
Found at i:15158253 original size:2 final size:2
Alignment explanation
Indices: 15158240--15158277 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
15158230 ATTGTATTTT
15158240 TA TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15158278 TTCGAATACT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15158385 original size:25 final size:25
Alignment explanation
Indices: 15158311--15158387 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
15158301 TTATATTATC
* * *
15158311 TTATGGATATATCTTTTATAACTACA
1 TTATGCATATATCTTTAAT-ACTATA
** * **
15158337 TTATGCACGTATTTTTAACGCTATA
1 TTATGCATATATCTTTAATACTATA
*
15158362 TTATGTATATATCTTTAATACTATA
1 TTATGCATATATCTTTAATACTATA
15158387 T
1 T
15158388 ATACTTTTTT
Statistics
Matches: 37, Mismatches: 14, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
25 24 0.65
26 13 0.35
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (25 bp):
TTATGCATATATCTTTAATACTATA
Found at i:15160399 original size:7 final size:7
Alignment explanation
Indices: 15160379--15160414 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
15160369 TTATTAAACA
15160379 TAATATT
1 TAATATT
15160386 T-ATATT
1 TAATATT
15160392 TAATATT
1 TAATATT
15160399 TAATATT
1 TAATATT
15160406 TAATTATT
1 TAA-TATT
15160414 T
1 T
15160415 GATTCTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.22
7 16 0.59
8 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TAATATT
Found at i:15160406 original size:14 final size:13
Alignment explanation
Indices: 15160379--15160414 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 13
15160369 TTATTAAACA
15160379 TAATATTTATATT
1 TAATATTTATATT
15160392 TAATATTTAATATT
1 TAATATTT-ATATT
15160406 TAATTATTT
1 TAA-TATTT
15160415 GATTCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 8 0.38
15 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATATTTATATT
Found at i:15160724 original size:7 final size:7
Alignment explanation
Indices: 15160712--15160748 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
15160702 TAATGCTATT
15160712 TTTAGGG
1 TTTAGGG
*
15160719 TTTAGGA
1 TTTAGGG
15160726 TTTAGGG
1 TTTAGGG
15160733 TTTAGGG
1 TTTAGGG
15160740 TTTAGGG
1 TTTAGGG
15160747 TT
1 TT
15160749 GGTGACTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:15169233 original size:59 final size:59
Alignment explanation
Indices: 15169168--15169306 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 59
15169158 CCCAACTGTG
*
15169168 CTGATATAGGCAAGGCCCAATATA-TCTCG-ACTTGTATA-GGGCTACGGCCCAAATTAATA
1 CTGATATGGGCAAGGCCCAATATACTCT-GTAC-TGTA-AGGGGCTACGGCCCAAATTAATA
* * ** *
15169227 CTGATATGGGCTAGGCCCAGTATACTCTGTTACTGTAAGGGGCTGTGGCCCAGATTAATA
1 CTGATATGGGCAAGGCCCAATATACTCTG-TACTGTAAGGGGCTACGGCCCAAATTAATA
*
15169287 TTGATATGGGCTAAGGCCCA
1 CTGATATGGGC-AAGGCCCA
15169307 GTTAACACTA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
59 23 0.34
60 35 0.52
61 9 0.13
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (59 bp):
CTGATATGGGCAAGGCCCAATATACTCTGTACTGTAAGGGGCTACGGCCCAAATTAATA
Found at i:15171271 original size:14 final size:15
Alignment explanation
Indices: 15171222--15171271 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
15171212 GTATCTTGGG
*
15171222 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
15171237 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
15171252 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
15171266 TTTCTT
1 TTTCTT
15171272 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:15173713 original size:46 final size:46
Alignment explanation
Indices: 15173663--15173838 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
15173653 TGGTTGAGCA
*
15173663 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
15173709 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
15173756 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
15173802 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15173839 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:15173819 original size:93 final size:93
Alignment explanation
Indices: 15173660--15173831 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
15173650 GGATGGTTGA
* * *
15173660 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
15173725 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
15173753 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
15173818 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
15173832 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15176766 original size:2 final size:2
Alignment explanation
Indices: 15176761--15176815 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
15176751 ACACACACAC
15176761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15176803 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
15176816 TAATAGTGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15188053 original size:12 final size:12
Alignment explanation
Indices: 15188038--15188068 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15188028 TTCTCTTTTA
15188038 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
15188050 TTTTTCTTTCTC
1 TTTTTCTTTCCC
15188062 TTTTTCT
1 TTTTTCT
15188069 CCCCTGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:15188600 original size:3 final size:3
Alignment explanation
Indices: 15188592--15188661 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
15188582 TTAATTTATT
* * *
15188592 TAA TAA TAA TAC TAA TAA TAA TAA T-C TAA T-A TAA -AA TCA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *
15188638 TAA TTA TAA TAA TTA TATA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TA
15188662 TTTAAATATA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
2 5 0.10
3 41 0.79
4 6 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:15189851 original size:11 final size:11
Alignment explanation
Indices: 15189835--15189859 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15189825 CTGTGTGTTC
15189835 TTTATTTTATT
1 TTTATTTTATT
15189846 TTTATTTTATT
1 TTTATTTTATT
15189857 TTT
1 TTT
15189860 TTCACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:15194301 original size:5 final size:5
Alignment explanation
Indices: 15194279--15194315 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
15194269 CTGTGTGTTC
15194279 TTTAT TTT-T TTTATT TTTAT TTTAT TTTAT TTT-T TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
15194316 CACAATGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.27
5 17 0.57
6 5 0.17
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTAT
Found at i:15197162 original size:75 final size:75
Alignment explanation
Indices: 15197032--15197240 Score: 294
Period size: 75 Copynumber: 2.8 Consensus size: 75
15197022 TGCGCCCAAC
* * * * *
15197032 GCTAGTCGGATTAATCGACGGTAATGAATATGAGTCCAACTCTAGTTGGATAAACCAACAATATT
1 GCTAGTCGGATTAATCGATGATAATGAATGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATT
*
15197097 AGCACCTAGT
66 AGCACCCAGT
* *
15197107 GTTAGTTGGATTAATCGATGATAATGAATGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATT
1 GCTAGTCGGATTAATCGATGATAATGAATGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATT
* *
15197172 TGCACCCCGT
66 AGCACCCAGT
* *
15197182 GCTAGTCGGATTAACCAATGATAAT-AATTGTGAGCCCAGCTCTAGTTGGATAAACCAAC
1 GCTAGTCGGATTAATCGATGATAATGAA-TGTGAGCCCAGCTCTAGTTGGATAAACCAAC
15197241 GGTGAATTAC
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
74 2 0.02
75 117 0.98
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (75 bp):
GCTAGTCGGATTAATCGATGATAATGAATGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATT
AGCACCCAGT
Found at i:15197238 original size:40 final size:40
Alignment explanation
Indices: 15197109--15197239 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
15197099 CACCTAGTGT
* * *
15197109 TAGTTGGATTAATCGATGATAATGAA-TGTGAGCCCAGCTC
1 TAGTTGGATAAACCAATGATAAT-AATTGTGAGCCCAGCTC
* *
15197149 TAGTTGGATAAACC-A--ACAAT-ATT-TGCA-CCCCG-TGC
1 TAGTTGGATAAACCAATGATAATAATTGTG-AGCCCAGCT-C
* *
15197184 TAGTCGGATTAACCAATGATAATAATTGTGAGCCCAGCTC
1 TAGTTGGATAAACCAATGATAATAATTGTGAGCCCAGCTC
15197224 TAGTTGGATAAACCAA
1 TAGTTGGATAAACCAA
15197240 CGGTGAATTA
Statistics
Matches: 71, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
34 1 0.01
35 20 0.28
36 3 0.04
37 4 0.06
38 4 0.06
39 5 0.07
40 33 0.46
41 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGTTGGATAAACCAATGATAATAATTGTGAGCCCAGCTC
Found at i:15198245 original size:3 final size:3
Alignment explanation
Indices: 15198232--15198315 Score: 159
Period size: 3 Copynumber: 27.7 Consensus size: 3
15198222 ACTATATCTT
15198232 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15198278 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15198316 TATTTTCTAA
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 77 0.96
4 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15200483 original size:2 final size:2
Alignment explanation
Indices: 15200472--15200500 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15200462 ATGTAAGCCC
15200472 AT AT -T 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 AT
15200501 GGCATTGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:15203622 original size:21 final size:21
Alignment explanation
Indices: 15203597--15203638 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15203587 ATTATCAGTG
15203597 CAAAAGCAACCAA-AACACCAA
1 CAAAAGCAACCAAGAA-ACCAA
*
15203618 CAAAAGCACCCAAGAAACCAA
1 CAAAAGCAACCAAGAAACCAA
15203639 ATACCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.33, G:0.07, T:0.00
Consensus pattern (21 bp):
CAAAAGCAACCAAGAAACCAA
Found at i:15209702 original size:245 final size:243
Alignment explanation
Indices: 15209359--15209806 Score: 621
Period size: 246 Copynumber: 1.8 Consensus size: 243
15209349 ATCCTATCAC
* *
15209359 AAATTTAAAACACAAATGTCTATTTAAAATAACATATAATAAATAATAAAACATATGGTTTGAAA
1 AAATTTAAAACACAAATGTCTATTTAAAATAACATACAATAAAAAATAAAACATATGGTTTGAAA
* * *
15209424 CTAATTAATAATAACACATTAAATATATATGTTATTTAAAT-AAAAAATTAGATTAAATTGTTTA
66 CCAATTAATAATAACACATGAAATATATATGTTATTAAAATGAAAAAATTAGATTAAATTGTTTA
* * * *
15209488 TCACGGTATTGTTATCAATTTTGAGTCAGTGTCGAGTTAACTTGTAGGACA-AACTCAATCAAAT
131 TCACGGTATTGTCATCAATCTTAAGTCAGTGTCGAATTAACTTGT--GACACAACTCAATCAAAT
15209552 ACATTATTAATATTAAAAATCCTATCACACGTGTATGCATATGGAGACTT
194 ACATTATTAATATTAAAAATCCTATCACACGTGTATGCATATGGAGACTT
* * * * * *
15209602 AAATTTAGAAGACAAATTTTTATTTAAAAATAGCATACAATAAAAAATAAAACTTATGGTTTGAA
1 AAATTTAAAACACAAATGTCTATTT-AAAATAACATACAATAAAAAATAAAACATATGGTTTGAA
*
15209667 ACCAATTTAATAATAACACATGAAATATGTATGTTATTAAAATGAAAAAATTAGATTAAATTGTT
65 ACCAA-TTAATAATAACACATGAAATATATATGTTATTAAAATGAAAAAATTAGATTAAATTGTT
* * * ** * * *
15209732 TATTATGGTGTTGTCATCAATCTTAAGTTGGTGTCGAATTAATTTGTGACACGAACTTAATCGAA
129 TATCACGGTATTGTCATCAATCTTAAGTCAGTGTCGAATTAACTTGTGACAC-AACTCAATCAAA
15209797 TACATTATTA
193 TACATTATTA
15209807 GTCTATACAG
Statistics
Matches: 176, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
243 21 0.12
244 43 0.24
245 34 0.19
246 78 0.44
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (243 bp):
AAATTTAAAACACAAATGTCTATTTAAAATAACATACAATAAAAAATAAAACATATGGTTTGAAA
CCAATTAATAATAACACATGAAATATATATGTTATTAAAATGAAAAAATTAGATTAAATTGTTTA
TCACGGTATTGTCATCAATCTTAAGTCAGTGTCGAATTAACTTGTGACACAACTCAATCAAATAC
ATTATTAATATTAAAAATCCTATCACACGTGTATGCATATGGAGACTT
Found at i:15212289 original size:31 final size:30
Alignment explanation
Indices: 15212254--15212356 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 30
15212244 TAATTACATT
*
15212254 AATATTAAATTACTAAAATATTTTCTAAATA
1 AATATTAAATTAATAAAATA-TTTCTAAATA
** * *
15212285 AATATTAAATTAAATTTAATATTTC-ATATT
1 AATATTAAATT-AATAAAATATTTCTAAATA
* *
15212315 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATA-TTTCTAAATA
15212346 AATATTAAATT
1 AATATTAAATT
15212357 TAATTTAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 7 0.12
30 17 0.29
31 29 0.49
32 6 0.10
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (30 bp):
AATATTAAATTAATAAAATATTTCTAAATA
Found at i:15212326 original size:61 final size:61
Alignment explanation
Indices: 15212251--15212365 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
15212241 AATTAATTAC
* * *
15212251 ATTAATATTAAATTACTAAAATATTTTCTAAATAAATATTAAATTAAATTTAATATTTCAT
1 ATTAATATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATTTCAT
* *
15212312 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTTAATTTAAT
1 ATTAATATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAAT
15212366 TATAAATTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATTTCAT
Found at i:15217470 original size:25 final size:25
Alignment explanation
Indices: 15217421--15217554 Score: 92
Period size: 25 Copynumber: 5.4 Consensus size: 25
15217411 GTACATAATT
* *
15217421 GGGAAGCTCTTTCTCGAGCCATATAAC
1 GGGAAGCTC-ATC-CGAGCTATATAAC
* ** * *
15217448 GAGAAGCTCATGTGAGCTGTATAAT
1 GGGAAGCTCATCCGAGCTATATAAC
*
15217473 GGGAAGCTTATCCGAGCTATATAAC
1 GGGAAGCTCATCCGAGCTATATAAC
** * *
15217498 GGGAAGCTCATAAGAGCCATA-ATC
1 GGGAAGCTCATCCGAGCTATATAAC
* **
15217522 AGGAAGCTCATATGAGCTA-ATAAC
1 GGGAAGCTCATCCGAGCTATATAAC
*
15217546 GGGTAGCTC
1 GGGAAGCTC
15217555 CAAAGAGCCA
Statistics
Matches: 82, Mismatches: 24, Indels: 5
0.74 0.22 0.05
Matches are distributed among these distances:
23 1 0.01
24 27 0.33
25 45 0.55
26 1 0.01
27 8 0.10
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (25 bp):
GGGAAGCTCATCCGAGCTATATAAC
Found at i:15217530 original size:24 final size:24
Alignment explanation
Indices: 15217493--15217711 Score: 103
Period size: 25 Copynumber: 8.9 Consensus size: 24
15217483 TCCGAGCTAT
15217493 ATAA-CGGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCC
* * *
15217516 ATAATCAGGAAGCTCATATGAGCTA
1 ATAATCGGGAAGCTCATAAGAGC-C
*
15217541 ATAA-CGGGTAGCTCCA-AAGAGCC
1 ATAATCGGGAAGCT-CATAAGAGCC
* *
15217564 ATTAATCGGGAAGCTC-TGGATAGCC
1 A-TAATCGGGAAGCTCAT-AAGAGCC
* * *
15217589 ATATATTGGGAAGTTCA-AGCGAGCC
1 ATA-ATCGGGAAGCTCATA-AGAGCC
*
15217614 AT-ATCGGGAAGTTC-TGGAA-AGCC
1 ATAATCGGGAAGCTCAT--AAGAGCC
* *
15217637 ATTAATCAGGAAGCTCACAAAGAGCC
1 A-TAATCGGGAAGCTCA-TAAGAGCC
* * *
15217663 TTTAATCGGGAAGTTCACGAAGAGCC
1 -ATAATCGGGAAGCTCA-TAAGAGCC
* * *
15217689 ATATAACGGGACGCTTATAAGAG
1 ATA-ATCGGGAAGCTCATAAGAG
15217712 ATGCATTGTA
Statistics
Matches: 146, Mismatches: 30, Indels: 38
0.68 0.14 0.18
Matches are distributed among these distances:
23 21 0.14
24 35 0.24
25 56 0.38
26 34 0.23
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (24 bp):
ATAATCGGGAAGCTCATAAGAGCC
Found at i:15217548 original size:48 final size:50
Alignment explanation
Indices: 15217486--15217579 Score: 140
Period size: 49 Copynumber: 1.9 Consensus size: 50
15217476 AAGCTTATCC
15217486 GAGCTATATAACGGGAAGCT-CATAAGAGCCA-TAATCAGGAAGCTCATAT
1 GAGCTATATAACGGGAAGCTCCA-AAGAGCCATTAATCAGGAAGCTCATAT
* *
15217535 GAGCTA-ATAACGGGTAGCTCCAAAGAGCCATTAATCGGGAAGCTC
1 GAGCTATATAACGGGAAGCTCCAAAGAGCCATTAATCAGGAAGCTC
15217580 TGGATAGCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
48 20 0.49
49 21 0.51
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (50 bp):
GAGCTATATAACGGGAAGCTCCAAAGAGCCATTAATCAGGAAGCTCATAT
Found at i:15217636 original size:23 final size:23
Alignment explanation
Indices: 15217568--15217638 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
15217558 AGAGCCATTA
* *
15217568 ATCGGGAAGCTCTGGATAGCCATAT
1 ATCGGGAAGTTCTGGAAAGCC--AT
* ** **
15217593 ATTGGGAAGTTCAAGCGAGCCAT
1 ATCGGGAAGTTCTGGAAAGCCAT
15217616 ATCGGGAAGTTCTGGAAAGCCAT
1 ATCGGGAAGTTCTGGAAAGCCAT
15217639 TAATCAGGAA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
23 20 0.57
25 15 0.43
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (23 bp):
ATCGGGAAGTTCTGGAAAGCCAT
Found at i:15217698 original size:26 final size:26
Alignment explanation
Indices: 15217585--15217699 Score: 80
Period size: 26 Copynumber: 4.6 Consensus size: 26
15217575 AGCTCTGGAT
** * *
15217585 AGCCATATATTGGGAAGTTCAAG-CG
1 AGCCATATAACGGGAAGTTCACGAAG
**
15217610 AGCCATAT--CGGGAAGTTCTGGAA-
1 AGCCATATAACGGGAAGTTCACGAAG
* * *
15217633 AGCCAT-TAATCAGGAAGCTCACAAAG
1 AGCCATATAA-CGGGAAGTTCACGAAG
*
15217659 AGCC-TTTAATCGGGAAGTTCACGAAG
1 AGCCATATAA-CGGGAAGTTCACGAAG
15217685 AGCCATATAACGGGA
1 AGCCATATAACGGGA
15217700 CGCTTATAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
22 1 0.01
23 16 0.23
25 19 0.27
26 30 0.43
27 4 0.06
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (26 bp):
AGCCATATAACGGGAAGTTCACGAAG
Found at i:15226225 original size:63 final size:63
Alignment explanation
Indices: 15226147--15226272 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
15226137 AGAAACCAAA
15226147 TCAAATCAAGTCAAACCAAACACTAAAACTCATCTTTGTAAACCACATCCTATGGTGAACAAG
1 TCAAATCAAGTCAAACCAAACACTAAAACTCATCTTTGTAAACCACATCCTATGGTGAACAAG
15226210 TCAAATCAAGTCAAACCAAACACTAAAACTCATCTTTGTAAACCACATCCTATGGTGAACAAG
1 TCAAATCAAGTCAAACCAAACACTAAAACTCATCTTTGTAAACCACATCCTATGGTGAACAAG
15226273 AATTAGTTAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.22
Consensus pattern (63 bp):
TCAAATCAAGTCAAACCAAACACTAAAACTCATCTTTGTAAACCACATCCTATGGTGAACAAG
Found at i:15227570 original size:5 final size:5
Alignment explanation
Indices: 15227536--15227569 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
15227526 ACTAATGCTA
*
15227536 GACAT GACAT GACAT GACAT GACAT GACAC GACA
1 GACAT GACAT GACAT GACAT GACAT GACAT GACA
15227570 CACATATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.15
Consensus pattern (5 bp):
GACAT
Found at i:15228968 original size:5 final size:5
Alignment explanation
Indices: 15228955--15228999 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
15228945 TGAATAGGGA
* * *
15228955 CTTTC CTTTT CTTTT CTTTT CTTTT CTCTT CTCTTT CTCTT CTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CT-TTT CTTTT CTTT
15229000 GTTTTGGTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (5 bp):
CTTTT
Found at i:15230078 original size:9 final size:9
Alignment explanation
Indices: 15230064--15230088 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15230054 CAAAATTATC
15230064 TGAAGAAGT
1 TGAAGAAGT
15230073 TGAAGAAGT
1 TGAAGAAGT
15230082 TGAAGAA
1 TGAAGAA
15230089 ATTTTGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (9 bp):
TGAAGAAGT
Found at i:15239712 original size:22 final size:22
Alignment explanation
Indices: 15239684--15239725 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
15239674 CGTTGACGAG
15239684 TTCCACACACGAGCAGCCTATA
1 TTCCACACACGAGCAGCCTATA
15239706 TTCCACACACGAGCAGCCTA
1 TTCCACACACGAGCAGCCTA
15239726 CAATCGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.38, G:0.14, T:0.17
Consensus pattern (22 bp):
TTCCACACACGAGCAGCCTATA
Found at i:15240480 original size:25 final size:22
Alignment explanation
Indices: 15240426--15240480 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
15240416 TTTTGGCTAG
15240426 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
15240448 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
15240473 AGGAAGAA
1 A-GAAGAA
15240481 TTTGGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:15242001 original size:22 final size:21
Alignment explanation
Indices: 15241971--15242017 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
15241961 CATAAAATAT
*
15241971 AAATTTATAAAAATATATTACA
1 AAATCTATAAAAATATATTA-A
* *
15241993 AAATCTATAAATATGTATTAA
1 AAATCTATAAAAATATATTAA
15242014 AAAT
1 AAAT
15242018 ATATTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATCTATAAAAATATATTAA
Found at i:15242022 original size:11 final size:11
Alignment explanation
Indices: 15241978--15242028 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
15241968 TATAAATTTA
15241978 TAAAAATATAT
1 TAAAAATATAT
*
15241989 TACAAAATCTA-
1 TA-AAAATATAT
* *
15242000 TAAATATGTAT
1 TAAAAATATAT
15242011 TAAAAATATAT
1 TAAAAATATAT
15242022 TATAAAA
1 TA-AAAA
15242029 ATTGTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 6 0.19
11 15 0.47
12 11 0.34
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (11 bp):
TAAAAATATAT
Found at i:15242086 original size:22 final size:20
Alignment explanation
Indices: 15242060--15242123 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
15242050 TAAAACATAT
15242060 ATTATTAAAATCTATATTATA
1 ATTATTAAAAT-TATATTATA
*
15242081 ATT-TATGAAATTATATTATA
1 ATTAT-TAAAATTATATTATA
**
15242101 AAAATTATAAATATATATTATA
1 ATTATTA-AAAT-TATATTATA
15242123 A
1 A
15242124 AAATTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 12 0.34
21 13 0.37
22 10 0.29
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTATTAAAATTATATTATA
Found at i:15242095 original size:20 final size:20
Alignment explanation
Indices: 15242063--15242141 Score: 72
Period size: 22 Copynumber: 3.8 Consensus size: 20
15242053 AACATATATT
*
15242063 ATTA-AAATCTATATTATAA
1 ATTATAAATATATATTATAA
*
15242082 TTTATGAAAT-TATATTATAAAA
1 ATTAT-AAATATATATTAT--AA
15242104 ATTATAAATATATATTATAAAA
1 ATTATAAATATATATTAT--AA
*
15242126 ATTATAAATACATATT
1 ATTATAAATATATATT
15242142 TTTATAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.06
20 8 0.15
21 8 0.15
22 33 0.63
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (20 bp):
ATTATAAATATATATTATAA
Found at i:15242140 original size:22 final size:22
Alignment explanation
Indices: 15242093--15242141 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
15242083 TTATGAAATT
*
15242093 ATATTATAAAAATTATAAATAT
1 ATATTATAAAAATTATAAATAC
15242115 ATATTATAAAAATTATAAATAC
1 ATATTATAAAAATTATAAATAC
15242137 ATATT
1 ATATT
15242142 TTTATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATTATAAAAATTATAAATAC
Found at i:15242158 original size:22 final size:23
Alignment explanation
Indices: 15242092--15242162 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 23
15242082 TTTATGAAAT
*
15242092 TATATTATAAAA-ATTATAAATA
1 TATATTATAAAATATTATACATA
*
15242114 TATATTATAAAA-ATTATAAATACA
1 TATATTATAAAATATTATACAT--A
*
15242138 TATTTTTATAAAATATTATAC-TA
1 TA-TATTATAAAATATTATACATA
15242161 TA
1 TA
15242163 ACAACTTACG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 21 0.49
23 3 0.07
24 3 0.07
25 10 0.23
26 6 0.14
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
TATATTATAAAATATTATACATA
Found at i:15244232 original size:42 final size:42
Alignment explanation
Indices: 15244172--15244282 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
15244162 ATGCCAATAG
* * * *
15244172 CCCAACTATAGTCTTACACGAAA-TCTCACATCGATACTATAT
1 CCCAAATATGGTCTTACAC-AAAGTCTCACATCGACACCATAT
* * * *
15244214 CCCAGATATGGTCTTACACAAAGTCTCATATTGACGCCATAT
1 CCCAAATATGGTCTTACACAAAGTCTCACATCGACACCATAT
* *
15244256 CCCAAATATGTTCTTACACATAGTCTC
1 CCCAAATATGGTCTTACACAAAGTCTC
15244283 GGTAACCCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 3 0.05
42 54 0.95
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (42 bp):
CCCAAATATGGTCTTACACAAAGTCTCACATCGACACCATAT
Found at i:15247877 original size:30 final size:30
Alignment explanation
Indices: 15247841--15247901 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
15247831 CTCTACAACT
*
15247841 TTCTCTTGAATTCAAGTGTGTAAAAAATAA
1 TTCTCTTAAATTCAAGTGTGTAAAAAATAA
15247871 TTCTCTTAAATTCAAGTGTGTAAAAAATAA
1 TTCTCTTAAATTCAAGTGTGTAAAAAATAA
15247901 T
1 T
15247902 AACCCAAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (30 bp):
TTCTCTTAAATTCAAGTGTGTAAAAAATAA
Found at i:15247983 original size:11 final size:11
Alignment explanation
Indices: 15247967--15247993 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15247957 TTAATCACTT
15247967 TAATATTAAAA
1 TAATATTAAAA
15247978 TAATATTAAAA
1 TAATATTAAAA
15247989 TAATA
1 TAATA
15247994 GAATGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:15248056 original size:16 final size:16
Alignment explanation
Indices: 15248037--15248104 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
15248027 TAATTACTTT
15248037 AATATTAAATTAATAA
1 AATATTAAATTAATAA
15248053 AATATT-AA-TAA-AA
1 AATATTAAATTAATAA
**
15248066 TAAGTATTAAATTAAATTT
1 -AA-TATTAAATT-AATAA
* *
15248085 AATATTAAACTATTAA
1 AATATTAAATTAATAA
15248101 AATA
1 AATA
15248105 ATATTATTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
13 2 0.05
14 5 0.12
15 6 0.15
16 14 0.35
17 9 0.22
18 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (16 bp):
AATATTAAATTAATAA
Found at i:15251246 original size:28 final size:28
Alignment explanation
Indices: 15251161--15251250 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 28
15251151 GAAAGCATGT
* *
15251161 ATATGAATGTGATTTGGGCCTTATGGGTC
1 ATATGAATGAGATTTGGGCC-TATGGGCC
* *
15251190 ATACGAAT-ATGATTTAGGCCTAATGGGCC
1 ATATGAATGA-GATTTGGGCCT-ATGGGCC
15251219 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTA-TGGGCC
15251247 ATAT
1 ATAT
15251251 TTATATATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
27 1 0.02
28 18 0.35
29 31 0.61
30 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
ATATGAATGAGATTTGGGCCTATGGGCC
Found at i:15258985 original size:29 final size:29
Alignment explanation
Indices: 15258920--15258985 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
15258910 GAAAGCTTGT
* * * * *
15258920 ATACAAATGTGATTTGGGCCTTATGGGCC
1 ATACGAATATGATTTGGGCCTAATAGGCA
15258949 ATACGAATATGATTTGGGCCTAATAGGCA
1 ATACGAATATGATTTGGGCCTAATAGGCA
*
15258978 ATATGAAT
1 ATACGAAT
15258986 GAGATGGGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (29 bp):
ATACGAATATGATTTGGGCCTAATAGGCA
Found at i:15263146 original size:16 final size:16
Alignment explanation
Indices: 15263125--15263155 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15263115 CTATGCACGC
*
15263125 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
15263141 AAAATACAAAAGACA
1 AAAATACAAAAGACA
15263156 TAATAGTGAA
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:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:15267330 original size:27 final size:27
Alignment explanation
Indices: 15267286--15267438 Score: 162
Period size: 27 Copynumber: 5.7 Consensus size: 27
15267276 ATCAAATAGA
* * *
15267286 GGCAAAACAATCAATTTATCATATAAG
1 GGCAAAACAGTCATTTTACCATATAAG
* * *
15267313 GGCGAAACAGTAATTTTACCACATAAG
1 GGCAAAACAGTCATTTTACCATATAAG
* * * *
15267340 GGCAAAATAGCCATTTTACTACATAAG
1 GGCAAAACAGTCATTTTACCATATAAG
* *
15267367 GCCAAAATAGTCATTTTACCATATAAG
1 GGCAAAACAGTCATTTTACCATATAAG
* *
15267394 GGCAAAACAGTAATTTTACCATATTAG
1 GGCAAAACAGTCATTTTACCATATAAG
* *
15267421 AGCAAAACAATCATTTTA
1 GGCAAAACAGTCATTTTA
15267439 TCAATTAGGG
Statistics
Matches: 104, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (27 bp):
GGCAAAACAGTCATTTTACCATATAAG
Found at i:15271694 original size:14 final size:15
Alignment explanation
Indices: 15271666--15271694 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15271656 CAAACATGTT
15271666 TTAACACATTATCAA
1 TTAACACATTATCAA
15271681 TTAACACA-TATCAA
1 TTAACACATTATCAA
15271695 CAATGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAACACATTATCAA
Found at i:15274696 original size:45 final size:46
Alignment explanation
Indices: 15274620--15274712 Score: 161
Period size: 45 Copynumber: 2.0 Consensus size: 46
15274610 ATACAAGGTT
15274620 TTTTATCCCAAATTTCAAGAATGATTATACAATAGTTCTAGTGACA
1 TTTTATCCCAAATTTCAAGAATGATTATACAATAGTTCTAGTGACA
* *
15274666 TTTTATCCCAAATTT-TAGAATGATTATACAATAGTTCTAGTGGCA
1 TTTTATCCCAAATTTCAAGAATGATTATACAATAGTTCTAGTGACA
15274711 TT
1 TT
15274713 CTTACCTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 30 0.67
46 15 0.33
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (46 bp):
TTTTATCCCAAATTTCAAGAATGATTATACAATAGTTCTAGTGACA
Found at i:15275109 original size:9 final size:9
Alignment explanation
Indices: 15275095--15275123 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
15275085 CATTACATAA
15275095 TATAAATAT
1 TATAAATAT
15275104 TATAAATAT
1 TATAAATAT
15275113 TATAAATAT
1 TATAAATAT
15275122 TA
1 TA
15275124 CAAAACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TATAAATAT
Found at i:15276165 original size:20 final size:19
Alignment explanation
Indices: 15276140--15276209 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
15276130 AATTAAATTA
15276140 AATTTAATATTAAGATAAT
1 AATTTAATATTAAGATAAT
15276159 CAATTTAATATTAA-ATTAAT
1 -AATTTAATATTAAGA-TAAT
**
15276179 AAAATAATATTAAGATAAGT
1 AATTTAATATTAAGATAA-T
15276199 -ATTTAAT-TTAA
1 AATTTAATATTAA
15276210 TTTAATATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 4 0.09
19 20 0.47
20 19 0.44
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (19 bp):
AATTTAATATTAAGATAAT
Found at i:15276173 original size:37 final size:35
Alignment explanation
Indices: 15276131--15276238 Score: 94
Period size: 37 Copynumber: 2.9 Consensus size: 35
15276121 ACAAGATAAA
15276131 ATTAAATTAAATTTAATATTAAGATAATCAATTTAAT
1 ATTAAATTAAATTTAATATTAAGATAAT--ATTTAAT
**
15276168 ATTAAATTAATAAAATAATATTAAGATAAGTATTTAAT
1 ATTAAATT-A-AATTTAATATTAAGATAA-TATTTAAT
* * *
15276206 -TTAATTTAATATTAAACTATTAAAATAAT-TTTA
1 ATTAAATTAA-ATTTAA-TATTAAGATAATATTTA
15276239 TTTTTGAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
35 5 0.08
36 5 0.08
37 24 0.41
38 8 0.14
39 16 0.27
40 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (35 bp):
ATTAAATTAAATTTAATATTAAGATAATATTTAAT
Found at i:15276192 original size:39 final size:37
Alignment explanation
Indices: 15276144--15276216 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
15276134 AAATTAAATT
15276144 TAATATTAAGATAA-TCAATTTAATATTAAATTAATAAAA
1 TAATATTAAGATAAGT--ATTTAAT-TTAAATTAATAAAA
*
15276183 TAATATTAAGATAAGTATTTAATTTAATTTAATA
1 TAATATTAAGATAAGTATTTAATTTAAATTAATA
15276217 TTAAACTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 10 0.31
38 7 0.22
39 14 0.44
40 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (37 bp):
TAATATTAAGATAAGTATTTAATTTAAATTAATAAAA
Found at i:15291541 original size:43 final size:42
Alignment explanation
Indices: 15291476--15291619 Score: 155
Period size: 42 Copynumber: 3.4 Consensus size: 42
15291466 GTCATTTCCT
* *** *
15291476 AGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCC
1 AGATATGGTTTTACACAAAATCTCATATCGATGCC-ATATCCC
* *
15291519 AGCTATGGTTTTACACAAAATCTCATATCGATGCCATATCCT
1 AGATATGGTTTTACACAAAATCTCATATCGATGCCATATCCC
* * * *
15291561 AGATATGATTTTACACGAAGTCTCACA-CTGATGCCATATCCC
1 AGATATGGTTTTACACAAAATCTCATATC-GATGCCATATCCC
*
15291603 AGATATGGTCTTACACA
1 AGATATGGTTTTACACA
15291620 TAAACTTAGT
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
41 1 0.01
42 53 0.63
43 30 0.36
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
AGATATGGTTTTACACAAAATCTCATATCGATGCCATATCCC
Found at i:15295955 original size:219 final size:219
Alignment explanation
Indices: 15295576--15295996 Score: 709
Period size: 219 Copynumber: 1.9 Consensus size: 219
15295566 AACAAAGTCG
* * * *
15295576 GTGTCATGACATAAAACCCCTATGTTGTAATATCGGTGTACTGCCAGGGATGTCGCGACATGGAA
1 GTGTCATGACACAAAACCCCTATGTTGCAATATCGGTGTACTACCAAGGATGTCGCGACATGGAA
* *
15295641 CCCCTGTGTCGTGACTTCGCTACAATTTTCTGCAGGGTTGACGCGACCCAATCGCGTAACCCGAT
66 CCCCTGTGTCGTGACTTCGCTACAATTTTCTGCAAGGTTGACCCGACCCAATCGCGTAACCCGAT
* *
15295706 GACTTACTCTTTATTTAACCCGATTTTTAACACTTTAAATCCCATTTTATAACCTAAAACCATAT
131 GACTTACTCTTCATTTAACCCGACTTTTAACACTTTAAATCCCATTTTATAACCTAAAACCATAT
15295771 ATACTTCCTATAAAATTGACAGAC
196 ATACTTCCTATAAAATTGACAGAC
* *
15295795 GTGTCATGACACAAAACCCCTATGTTGCAATATCGGTGTACTACCAAGGATGTCTCGATATGGAA
1 GTGTCATGACACAAAACCCCTATGTTGCAATATCGGTGTACTACCAAGGATGTCGCGACATGGAA
* * *
15295860 CCCCTGTGTCGTGACTTTGCTACAATTTTCTGCAAGGTTGACCC-AGCCCAATTGCGTAACTCGA
66 CCCCTGTGTCGTGACTTCGCTACAATTTTCTGCAAGGTTGACCCGA-CCCAATCGCGTAACCCGA
15295924 TGACTTACTCTTCATTTAACCCGACTTTTAACACTTTAAATCCCATTTTATAACCTAAAACCATA
130 TGACTTACTCTTCATTTAACCCGACTTTTAACACTTTAAATCCCATTTTATAACCTAAAACCATA
15295989 TATACTTC
195 TATACTTC
15295997 TAATTAAAAC
Statistics
Matches: 188, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
218 1 0.01
219 187 0.99
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (219 bp):
GTGTCATGACACAAAACCCCTATGTTGCAATATCGGTGTACTACCAAGGATGTCGCGACATGGAA
CCCCTGTGTCGTGACTTCGCTACAATTTTCTGCAAGGTTGACCCGACCCAATCGCGTAACCCGAT
GACTTACTCTTCATTTAACCCGACTTTTAACACTTTAAATCCCATTTTATAACCTAAAACCATAT
ATACTTCCTATAAAATTGACAGAC
Found at i:15300247 original size:27 final size:27
Alignment explanation
Indices: 15300217--15300714 Score: 680
Period size: 27 Copynumber: 18.3 Consensus size: 27
15300207 AATCAGGTGT
*
15300217 GAATTACCGGAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
* *
15300244 GAATTACC-AGAATACCCTTATAGGGTA
1 GAATTACCGA-AATACCCCTGTAGGGTA
*
15300271 GAATTACCGGAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
*
15300298 GAATTACCGGAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
*
15300325 GAATTACCGCAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
*
15300352 GAATTATCGAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
*
15300379 GAATTACCGGAATACCCCTGT-GAGGTA
1 GAATTACCGAAATACCCCTGTAG-GGTA
15300406 GAATTACCGAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
*
15300433 GAATTACCGGAATACCCCTGTAGGGTAGGGTA
1 GAATTACCGAAATACCCC--T---GTAGGGTA
* * *
15300465 GAATTATCGCAATACCCCTGTGGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
15300492 GAATTACCGAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
15300519 GAATTACCGAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
*
15300546 GAATTATCGAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
* *
15300573 GAATTATCAAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
* * *
15300600 GAATTATCGTAATACCCCTGTAAGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
15300627 GAATTACCGAAATACCCCTGTAGGGTA
1 GAATTACCGAAATACCCCTGTAGGGTA
** *
15300654 GAATTACTAAAATACCCCTGTAGGGTG
1 GAATTACCGAAATACCCCTGTAGGGTA
* *
15300681 GAATTACC-AAGATA-CCTTGTGGGGTA
1 GAATTACCGAA-ATACCCCTGTAGGGTA
*
15300707 AAATTACC
1 GAATTACC
15300715 ATTTTGCCCC
Statistics
Matches: 426, Mismatches: 35, Indels: 21
0.88 0.07 0.04
Matches are distributed among these distances:
26 19 0.04
27 380 0.89
28 1 0.00
29 1 0.00
30 1 0.00
32 24 0.06
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (27 bp):
GAATTACCGAAATACCCCTGTAGGGTA
Found at i:15301193 original size:22 final size:22
Alignment explanation
Indices: 15301141--15301202 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
15301131 TTAAAGCCTT
* *
15301141 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
15301163 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
15301185 CTGATTATGGCTGTGTGC
1 CTGATTATGGCTCTGTGC
15301203 TAAACGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:15301465 original size:27 final size:26
Alignment explanation
Indices: 15301371--15301465 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
15301361 TAAGCGGCTT
* * * * *
15301371 TGCCACATTATCTATTTCTGATGGCTA
1 TGCCACAATATCT-GTTCTGGTGACTC
* *
15301398 TGCCACAAATATCTATTCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTGGTGACTC
15301425 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
15301452 TGTCACAATATCTG
1 TGCCACAATATCTG
15301466 ATAACTGAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 8 0.14
27 45 0.76
28 6 0.10
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:15301640 original size:6 final size:6
Alignment explanation
Indices: 15301602--15301721 Score: 95
Period size: 6 Copynumber: 19.3 Consensus size: 6
15301592 TTGCATTCAC
* * *
15301602 ATTCTG ATTTTTG ATTCTG -TTACATG ATACTG ATTCTG ATTTTG ATTCT-
1 ATTCTG A-TTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
15301651 ATTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TTACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
15301702 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
15301722 AATGTTTCTT
Statistics
Matches: 92, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
5 8 0.09
6 66 0.72
7 13 0.14
8 5 0.05
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:15301648 original size:31 final size:31
Alignment explanation
Indices: 15301602--15301737 Score: 159
Period size: 31 Copynumber: 4.4 Consensus size: 31
15301592 TTGCATTCAC
* *
15301602 ATTCTGATTTTTGATTCTGTTACATGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
* *
15301634 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
15301665 ATTCTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
15301696 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
15301726 TTTCTTATTCTG
1 ATTCTGATTCTG
15301738 TAATGGGTTA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
30 16 0.17
31 66 0.72
32 10 0.11
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:15302672 original size:14 final size:14
Alignment explanation
Indices: 15302653--15302682 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15302643 GATCGAGTTG
15302653 CGTAGAAGTATTTT
1 CGTAGAAGTATTTT
15302667 CGTAGAAGTATTTT
1 CGTAGAAGTATTTT
15302681 CG
1 CG
15302683 AACATTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (14 bp):
CGTAGAAGTATTTT
Found at i:15305409 original size:13 final size:13
Alignment explanation
Indices: 15305391--15305511 Score: 84
Period size: 13 Copynumber: 9.3 Consensus size: 13
15305381 TAAATGTGTA
15305391 ATATGAAATGATT
1 ATATGAAATGATT
* * *
15305404 ATATGAGACGGTT
1 ATATGAAATGATT
*
15305417 ATACT--AATGGTT
1 ATA-TGAAATGATT
* *
15305429 ATATAAAATGAAT
1 ATATGAAATGATT
15305442 ATATGAAATGATT
1 ATATGAAATGATT
* * *
15305455 GTTTGAATTGATT
1 ATATGAAATGATT
*
15305468 ATATGGAAATAATT
1 ATAT-GAAATGATT
* *
15305482 ATATGAAGTGTTT
1 ATATGAAATGATT
* *
15305495 ATACGAAATGTTT
1 ATATGAAATGATT
15305508 ATAT
1 ATAT
15305512 AGATAGATAT
Statistics
Matches: 82, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
11 1 0.01
12 8 0.10
13 61 0.74
14 12 0.15
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (13 bp):
ATATGAAATGATT
Found at i:15306591 original size:20 final size:20
Alignment explanation
Indices: 15306566--15306606 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15306556 AAGTCAGAAT
15306566 AATAAGTGAAGTCTAGGTGG
1 AATAAGTGAAGTCTAGGTGG
15306586 AATAAGTGAAGTCTAGGTGG
1 AATAAGTGAAGTCTAGGTGG
15306606 A
1 A
15306607 TTCTTCCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.34, T:0.24
Consensus pattern (20 bp):
AATAAGTGAAGTCTAGGTGG
Found at i:15308960 original size:27 final size:26
Alignment explanation
Indices: 15308922--15309005 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
15308912 AAATGTATTG
15308922 TACTAGTGGCTTTGCCACATATACTGT
1 TACTAGTGGCTTTGCCACAT-TACTGT
*
15308949 TACTAGTGGCTTTGCCACATGTACTGA
1 TACTAGTGGCTTTGCCACAT-TACTGT
** * *
15308976 TACTAGCAGCTTTGCTACGTTACTGT
1 TACTAGTGGCTTTGCCACATTACTGT
15309002 TACT
1 TACT
15309006 GGTAACTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 9 0.18
27 41 0.82
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (26 bp):
TACTAGTGGCTTTGCCACATTACTGT
Found at i:15314274 original size:27 final size:26
Alignment explanation
Indices: 15314225--15314298 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
15314215 GGAGAAAGTG
* * *
15314225 TACTGTACTGATGGTTTTACCACATA
1 TACTGTACTGGTGGCTTTGCCACATA
15314251 TACTGTTACTGGTGGCTTTGCCACATA
1 TACTG-TACTGGTGGCTTTGCCACATA
**
15314278 TACTGATACTGGCAGCTTTGC
1 TACTG-TACTGGTGGCTTTGC
15314299 TGCGTTACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 5 0.12
27 36 0.88
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
TACTGTACTGGTGGCTTTGCCACATA
Found at i:15314358 original size:26 final size:26
Alignment explanation
Indices: 15314284--15314359 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
15314274 CATATACTGA
* *
15314284 TACTGGCAGCTTTGCTGCGTTACTAT
1 TACTGGCAGCTTTGCTGCGATATTAT
*
15314310 TACTGGCAGCTTTGCTGTGATATTAT
1 TACTGGCAGCTTTGCTGCGATATTAT
*
15314336 TTCTGGCAGCTTTGCTGCGATATT
1 TACTGGCAGCTTTGCTGCGATATT
15314360 GGTGTGTTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.41
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTAT
Found at i:15318402 original size:22 final size:20
Alignment explanation
Indices: 15318344--15318395 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
15318334 ATCACCCCAA
*
15318344 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
15318364 TTTTAATTGTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
15318386 TTTTATTTTA
1 TTTTATTTTA
15318396 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:15318450 original size:17 final size:17
Alignment explanation
Indices: 15318428--15318482 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
15318418 ATTCTTATAC
15318428 TTATATTTTTAATTTTT
1 TTATATTTTTAATTTTT
*
15318445 TTATATTTTAAATTTTT
1 TTATATTTTTAATTTTT
* *
15318462 ATATACTTTT-ATTATTT
1 TTATATTTTTAATT-TTT
15318479 TTAT
1 TTAT
15318483 TTTGCTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 3 0.09
17 29 0.91
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATTTTTAATTTTT
Found at i:15318462 original size:15 final size:16
Alignment explanation
Indices: 15318428--15318465 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15318418 ATTCTTATAC
*
15318428 TTATATTTTTAATTTTT
1 TTATA-TTTTAATATTT
15318445 TTATATTTTAA-ATTT
1 TTATATTTTAATATTT
15318460 TTATAT
1 TTATAT
15318466 ACTTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 6 0.30
17 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATATTTTAATATTT
Found at i:15318526 original size:9 final size:10
Alignment explanation
Indices: 15318490--15318529 Score: 57
Period size: 9 Copynumber: 4.1 Consensus size: 10
15318480 TATTTTGCTA
15318490 TTTCTATTTT
1 TTTCTATTTT
15318500 TTTCT-TTTT
1 TTTCTATTTT
15318509 TTTCATATTTT
1 TTTC-TATTTT
15318520 TTT-TATTTT
1 TTTCTATTTT
15318529 T
1 T
15318530 ACTATTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 15 0.54
10 6 0.21
11 7 0.25
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTATTTT
Found at i:15318528 original size:20 final size:19
Alignment explanation
Indices: 15318490--15318535 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
15318480 TATTTTGCTA
15318490 TTTCTATTTTTTTCTTTTT
1 TTTCTATTTTTTTCTTTTT
*
15318509 TTTCATATTTTTTT-TATTT
1 TTTC-TATTTTTTTCTTTTT
*
15318528 TTACTATT
1 TTTCTATT
15318536 ATCATTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 11 0.46
20 9 0.38
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTCTATTTTTTTCTTTTT
Found at i:15318535 original size:18 final size:19
Alignment explanation
Indices: 15318493--15318535 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
15318483 TTTGCTATTT
* *
15318493 CTATTTTTTTCTTTTTTTT
1 CTATTTTTTTCTATTTTTA
15318512 CATATTTTTTT-TATTTTTA
1 C-TATTTTTTTCTATTTTTA
15318531 CTATT
1 CTATT
15318536 ATCATTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 8 0.38
20 9 0.43
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (19 bp):
CTATTTTTTTCTATTTTTA
Found at i:15318603 original size:24 final size:23
Alignment explanation
Indices: 15318566--15318643 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 23
15318556 AGTTTATTGA
*
15318566 TATTATTGAGTTTATTATTATTTTT
1 TATTA-TGATTTTATT-TTATTTTT
15318591 TATTATGATTTTATTTTTATCTTTCT
1 TATTATGATTTTA-TTTTAT-TTT-T
*
15318617 T-TT-TAATTTTATTTTAGTTGTTT
1 TATTATGATTTTATTTTA-TT-TTT
15318640 TATT
1 TATT
15318644 TTTTTTCTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
23 8 0.18
24 23 0.51
25 12 0.27
26 2 0.04
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (23 bp):
TATTATGATTTTATTTTATTTTT
Found at i:15321529 original size:16 final size:16
Alignment explanation
Indices: 15321508--15321547 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
15321498 ATCATCACAA
15321508 ATGTATTTACTTGTAT
1 ATGTATTTACTTGTAT
15321524 ATGTATTTACTTGTAT
1 ATGTATTTACTTGTAT
15321540 ATGT-TTTA
1 ATGTATTTA
15321548 TATCATGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.57
Consensus pattern (16 bp):
ATGTATTTACTTGTAT
Found at i:15326109 original size:11 final size:11
Alignment explanation
Indices: 15326093--15326118 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15326083 TTGAGGTGTG
15326093 TATGACATTTA
1 TATGACATTTA
15326104 TATGACATTTA
1 TATGACATTTA
15326115 TATG
1 TATG
15326119 TTATGGAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (11 bp):
TATGACATTTA
Found at i:15327276 original size:30 final size:30
Alignment explanation
Indices: 15327223--15327290 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
15327213 CTACTTGAAA
15327223 TACAT-GAAAATGATGATACATGATAATTG
1 TACATGGAAAATGATGATACATGATAATTG
* *
15327252 ATATATGGAAATATGA-GATA-ATGATACTTG
1 -TACATGGAAA-ATGATGATACATGATAATTG
15327282 TACATGGAA
1 TACATGGAA
15327291 TTTATTTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 8 0.24
30 13 0.39
31 8 0.24
32 4 0.12
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (30 bp):
TACATGGAAAATGATGATACATGATAATTG
Found at i:15333275 original size:19 final size:17
Alignment explanation
Indices: 15333247--15333294 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
15333237 GAAAAAGCCC
* *
15333247 GATAAGTGATAATGTCT
1 GATAAATGATAATGCCT
15333264 GAAATAAATGATAATGCCT
1 G--ATAAATGATAATGCCT
15333283 GATAAATGATAA
1 GATAAATGATAA
15333295 ATGACATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.44
19 15 0.56
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (17 bp):
GATAAATGATAATGCCT
Found at i:15342622 original size:21 final size:21
Alignment explanation
Indices: 15342598--15342639 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15342588 ATTTTCAAAT
*
15342598 TAATTACACATTGATTTGTAA
1 TAATTACACATTAATTTGTAA
* *
15342619 TAATTGCATATTAATTTGTAA
1 TAATTACACATTAATTTGTAA
15342640 ATTTTTGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (21 bp):
TAATTACACATTAATTTGTAA
Found at i:15344107 original size:32 final size:32
Alignment explanation
Indices: 15344066--15344146 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
15344056 TTGAAATTAG
* *
15344066 TTTGTTAGATTTTGAAATTATTATGTTTTAAA
1 TTTGTTAGATATTGAAATTATAATGTTTTAAA
* *
15344098 TTTGTTAGATATTGAATTTATAATGTTTTAAG
1 TTTGTTAGATATTGAAATTATAATGTTTTAAA
* *
15344130 CTTGTTGGATATTGAAA
1 TTTGTTAGATATTGAAA
15344147 CAATTAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (32 bp):
TTTGTTAGATATTGAAATTATAATGTTTTAAA
Found at i:15348777 original size:6 final size:6
Alignment explanation
Indices: 15348766--15348791 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15348756 TGTCAAGGAT
15348766 AGGGGA AGGGGA AGGGGA AGGGGA AG
1 AGGGGA AGGGGA AGGGGA AGGGGA AG
15348792 CAGAAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:15358186 original size:36 final size:37
Alignment explanation
Indices: 15358110--15358187 Score: 86
Period size: 40 Copynumber: 2.1 Consensus size: 37
15358100 CACCATGTGG
* *
15358110 GGATAAAATTGACCCACCCATCCCTGCACACCATATATAA
1 GGATAAAATTGACCCACCCAACCCTACACACC--A-ATAA
* *
15358150 GGATATAATTGACCCATCCAACCCTACACACC-ATAA
1 GGATAAAATTGACCCACCCAACCCTACACACCAATAA
15358186 GG
1 GG
15358188 TACTGCATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
36 6 0.18
40 28 0.82
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.19
Consensus pattern (37 bp):
GGATAAAATTGACCCACCCAACCCTACACACCAATAA
Found at i:15372483 original size:23 final size:23
Alignment explanation
Indices: 15372427--15372473 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15372417 TATTAGATAC
15372427 ATATATAAATGAAACATAGATTT
1 ATATATAAATGAAACATAGATTT
15372450 ATATATAAATGAAACATAGATTT
1 ATATATAAATGAAACATAGATTT
15372473 A
1 A
15372474 CTTTGGAATG
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:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (23 bp):
ATATATAAATGAAACATAGATTT
Found at i:15374610 original size:17 final size:18
Alignment explanation
Indices: 15374588--15374621 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15374578 TATCCTAACC
15374588 TCCCACAAAC-CACTAAA
1 TCCCACAAACTCACTAAA
*
15374605 TCCCACTAACTCACTAA
1 TCCCACAAACTCACTAA
15374622 CTCTTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (18 bp):
TCCCACAAACTCACTAAA
Found at i:15375635 original size:28 final size:28
Alignment explanation
Indices: 15375603--15375690 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
15375593 ACATAATTTT
15375603 ATAAATATTATTTGAATCATTCAAACTC
1 ATAAATATTATTTGAATCATTCAAACTC
* * * * * *
15375631 ATAAAAATAAAATT-AAT-ATAGCTAGC-C
1 ATAAATAT-TATTTGAATCAT-TCAAACTC
15375658 ATAAATATTATTTGAATCATTCAAACTC
1 ATAAATATTATTTGAATCATTCAAACTC
15375686 ATAAA
1 ATAAA
15375691 AATAAAATTA
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
26 3 0.07
27 16 0.37
28 21 0.49
29 3 0.07
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (28 bp):
ATAAATATTATTTGAATCATTCAAACTC
Found at i:15375667 original size:55 final size:55
Alignment explanation
Indices: 15375603--15375707 Score: 210
Period size: 55 Copynumber: 1.9 Consensus size: 55
15375593 ACATAATTTT
15375603 ATAAATATTATTTGAATCATTCAAACTCATAAAAATAAAATTAATATAGCTAGCC
1 ATAAATATTATTTGAATCATTCAAACTCATAAAAATAAAATTAATATAGCTAGCC
15375658 ATAAATATTATTTGAATCATTCAAACTCATAAAAATAAAATTAATATAGC
1 ATAAATATTATTTGAATCATTCAAACTCATAAAAATAAAATTAATATAGC
15375708 ATATTAGCAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.33
Consensus pattern (55 bp):
ATAAATATTATTTGAATCATTCAAACTCATAAAAATAAAATTAATATAGCTAGCC
Found at i:15377419 original size:22 final size:20
Alignment explanation
Indices: 15377379--15377419 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
15377369 TTGCTTAAAA
*
15377379 ATATTTAAAATTTATATTTC
1 ATATTTAAAATTTAAATTTC
15377399 ATATATTAAAATATTAAATTT
1 ATAT-TTAAAAT-TTAAATTT
15377420 TTTTATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTTAAAATTTAAATTTC
Found at i:15378124 original size:20 final size:20
Alignment explanation
Indices: 15378079--15378124 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
15378069 GCTAAACATC
* *
15378079 AATTT-AATTAAGTTTAATT
1 AATTTAAATTAAGATTAAGT
15378098 AGA-TTAAATTAAGATTAAGT
1 A-ATTTAAATTAAGATTAAGT
15378118 AATTTAA
1 AATTTAA
15378125 TTATAAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (20 bp):
AATTTAAATTAAGATTAAGT
Done.