Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 75 of 161
Found at i:23469141 original size:44 final size:43
Alignment explanation
Indices: 23469059--23469478 Score: 387
Period size: 44 Copynumber: 9.5 Consensus size: 43
23469049 GCAGATCAGT
* * *
23469059 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATC
* * * *
23469103 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATC
* * * *
23469147 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATC
* * * *
23469191 GAAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATC
* * * *
23469235 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATC
* * * *
23469279 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATC
* * * *
23469323 GAAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATC
* * *
23469367 GAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATC
* * * *
23469411 GAAGAAAGCAGATCTTGTCTTCATGTATTAGT-GTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATC
*
23469455 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGAT-GCAGATCTTGTCTTCCT
23469479 GCACCGACAG
Statistics
Matches: 301, Mismatches: 64, Indels: 22
0.78 0.17 0.06
Matches are distributed among these distances:
43 67 0.22
44 171 0.57
45 63 0.21
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATC
Found at i:23469229 original size:88 final size:90
Alignment explanation
Indices: 23469059--23469477 Score: 435
Period size: 88 Copynumber: 4.8 Consensus size: 90
23469049 GCAGATCAGT
* * * * * *
23469059 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTATCT
1 GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCT
23469122 TCCCATACTGGTGGCGAAGTAGATC
66 TCCCATACTGGTGGCGAAGTAGATC
* * * * *
23469147 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAAATAGCAGGTCCTGTCT
1 GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCT
* * * *
23469211 TCCTATATTGGTAG-GAAGTGGATC
66 TCCCATACTGGTGGCGAAGTAGATC
* * ** * * * *
23469235 GAAG-ATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCT
1 GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCT
*** * * *
23469299 TCATGTATTGG-CGTGAAGTAGATC
66 TCCCATACTGGTGGCGAAGTAGATC
* * * *
23469323 GAA-AATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTC
1 GAAGAA-AGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTC
23469385 TTCCCATACTGGTGGCGAAGTAGATC
65 TTCCCATACTGGTGGCGAAGTAGATC
* * *
23469411 GAAGAAAGCAGATCTTGTCTTCATGTATTAGT-GTGAAGTAGATCGAAGATAGCAGATCTTGCCT
1 GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCT
23469475 TCC
66 TCC
23469478 TGCACCGACA
Statistics
Matches: 268, Mismatches: 53, Indels: 19
0.79 0.16 0.06
Matches are distributed among these distances:
87 43 0.16
88 166 0.62
89 59 0.22
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (90 bp):
GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCT
TCCCATACTGGTGGCGAAGTAGATC
Found at i:23469478 original size:132 final size:132
Alignment explanation
Indices: 23469063--23469465 Score: 770
Period size: 132 Copynumber: 3.1 Consensus size: 132
23469053 ATCAGTGAAG
23469063 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCAT
1 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCAT
23469128 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
66 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
23469193 AA
131 AA
23469195 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCAT
1 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCAT
23469260 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
66 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
23469325 AA
131 AA
*
23469327 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
1 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCAT
* *
23469392 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGTGTGAAGTAGATCGA
66 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
*
23469457 AG
131 AA
23469459 ATAGCAG
1 ATAGCAG
23469466 ATCTTGCCTT
Statistics
Matches: 267, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 267 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (132 bp):
ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCAT
ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA
AA
Found at i:23469575 original size:44 final size:44
Alignment explanation
Indices: 23469512--23469711 Score: 242
Period size: 44 Copynumber: 4.5 Consensus size: 44
23469502 TGACCTCAGC
*
23469512 CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGAAT
** *
23469556 CCTATCTCCCTGGTCAGCAGTGGAATAGGGTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGAAT
* * * * * *
23469600 TCTATCTCCCTGGGCAGTAGCGGAATGGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGA-AT
* * * *
23469644 CCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGAAT
23469688 CCTATCTCCCTGAGT-AGCAGTGGA
1 CCTATCTCCCTG-GTCAGCAGTGGA
23469712 GTAGGTGGAA
Statistics
Matches: 130, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 126 0.97
45 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGAAT
Found at i:23469778 original size:132 final size:132
Alignment explanation
Indices: 23469459--23469781 Score: 311
Period size: 132 Copynumber: 2.4 Consensus size: 132
23469449 TAGATCGAAG
* * * * * *
23469459 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGATGACCTCAGCCCTATCTCCCTG
1 ATAGCAGATCTTGCCTCCCTGCACCGATAGCGAAGTAGATCGAAGACGTCAGTCCTATCTCCCTG
* *
23469524 GTCAGCAGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGGTGA
66 GTCAGCAGTGGAATAGATTAAAGATCGTGAACCCTATCTCCCTGGTCAGCAGTGGAATAGGGTGA
*
23469589 AG
131 AA
* ** * * * *
23469591 ATTG-AGAATTCTAT--CTCCCTGGGCAG-TAGCGGAA-TGGATTGAAGATTGT-AGGTCCTATC
1 ATAGCAG-A-TCT-TGCCTCCCTGCACCGATAGC-GAAGTAGATCGAAGA-CGTCA-GTCCTATC
* * * *
23469650 TCCCTGGTTAGCAGTGGAATAGGTTGAAGATCGTGAACCCTATCTCCCTGAGT-AGCAGTGGAGT
60 TCCCTGGTCAGCAGTGGAATAGATTAAAGATCGTGAACCCTATCTCCCTG-GTCAGCAGTGGAAT
23469714 A-GGTGGAAA
124 AGGGT-GAAA
* * *
23469723 ATAGCAGATCTTGCCTCCCTACACCGATAGTGAAGTAGATCGAGGACGTCAGTCCTATC
1 ATAGCAGATCTTGCCTCCCTGCACCGATAGCGAAGTAGATCGAAGACGTCAGTCCTATC
23469782 GCCTTGATGT
Statistics
Matches: 147, Mismatches: 30, Indels: 28
0.72 0.15 0.14
Matches are distributed among these distances:
130 1 0.01
131 19 0.13
132 107 0.73
133 19 0.13
134 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (132 bp):
ATAGCAGATCTTGCCTCCCTGCACCGATAGCGAAGTAGATCGAAGACGTCAGTCCTATCTCCCTG
GTCAGCAGTGGAATAGATTAAAGATCGTGAACCCTATCTCCCTGGTCAGCAGTGGAATAGGGTGA
AA
Found at i:23470592 original size:20 final size:21
Alignment explanation
Indices: 23470560--23470602 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
23470550 ATCTTCGAGG
23470560 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
23470581 ATATGC-ATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
23470601 AT
1 AT
23470603 GTAATCTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:23470611 original size:19 final size:19
Alignment explanation
Indices: 23470559--23470613 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
23470549 AATCTTCGAG
*
23470559 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* *
23470578 GATATATGCATCTTAGATAT
1 GATATGT-AATCTTAGATAT
23470598 GATATGTAATCTTAGA
1 GATATGTAATCTTAGA
23470614 AGATGTGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:23470646 original size:22 final size:23
Alignment explanation
Indices: 23470602--23470646 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23470592 AGATATGATA
* *
23470602 TGTAATCTTAGAAGATGTGATTT
1 TGTAACCTTAGAAGATGTAATTT
*
23470625 TGTAACCTTAG-AGATTTAATTT
1 TGTAACCTTAGAAGATGTAATTT
23470647 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (23 bp):
TGTAACCTTAGAAGATGTAATTT
Found at i:23472749 original size:42 final size:42
Alignment explanation
Indices: 23472675--23472754 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
23472665 ATGAAACAAT
* *
23472675 TATACTGGCACATAAGTGTACCATCAGATAAACCAAAGCAAA
1 TATACTAGCACATAAGTGAACCATCAGATAAACCAAAGCAAA
*
23472717 TATACTAGCACATAAGTGAATCATC-GACTAAACCAAAG
1 TATACTAGCACATAAGTGAACCATCAGA-TAAACCAAAG
23472755 TATAGGCTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (42 bp):
TATACTAGCACATAAGTGAACCATCAGATAAACCAAAGCAAA
Found at i:23474278 original size:14 final size:15
Alignment explanation
Indices: 23474253--23474281 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23474243 TTATTTTGTG
23474253 TTTACTATGTGTGAA
1 TTTACTATGTGTGAA
23474268 TTTAC-ATGTGTGAA
1 TTTACTATGTGTGAA
23474282 AGTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (15 bp):
TTTACTATGTGTGAA
Found at i:23475489 original size:43 final size:43
Alignment explanation
Indices: 23475428--23475551 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
23475418 ATTTTCGATA
*
23475428 TGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCATCAA-C
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATC
*
23475470 TTGTGTTTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATC
1 -TGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATC
** * *
23475514 TGTAATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
23475552 TGTACAAGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.03
43 65 0.93
44 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATC
Found at i:23483890 original size:45 final size:45
Alignment explanation
Indices: 23483834--23483928 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
23483824 TACTATGTGA
*
23483834 ACCGAACATCATTGATTAGTAAGCTGGTTGCTATGTGCTGATCAC
1 ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGATCAC
* * * *
23483879 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAACCC
1 ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGATCAC
23483924 ACCGA
1 ACCGA
23483929 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGATCAC
Found at i:23486605 original size:29 final size:29
Alignment explanation
Indices: 23486562--23486617 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
23486552 ATTTAAAAAA
* * *
23486562 AATTATATACGAAAATGGTATGTCAGCCC
1 AATTATATACCAAAATAGTATGCCAGCCC
*
23486591 AATTATGTACCAAAATAGTATGCCAGC
1 AATTATATACCAAAATAGTATGCCAGC
23486618 TGCAGTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (29 bp):
AATTATATACCAAAATAGTATGCCAGCCC
Found at i:23487323 original size:104 final size:105
Alignment explanation
Indices: 23487134--23487617 Score: 664
Period size: 104 Copynumber: 4.6 Consensus size: 105
23487124 TTACTAATTA
* * *
23487134 TTATAAATTATTTCTGTTTAGTTTA--GTTT-TTGTAATTTTTTTATGAATGTAATTT-TTTTTA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGA-TTTTTTATGAATGTAATTTATTTTTA
* *
23487195 -AATTATTTTAAAGTTATTTTGTTAGTAATTTCTGATTAGG
65 TTATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
*
23487235 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTATTATTAT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTATTTTTAT
23487300 TATTATTTT-AAGTTATTTTGTTAGTAATTTATGATTAGG
66 TATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* *
23487339 TTATAAATTGTTTGTGCTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTATTATTAT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTATTTTTAT
23487404 TATTATTTT-AAGTTATTTTGTTAGTAATTTATGATTAGG
66 TATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* *
23487443 TTATAAATTGTTTGTGCTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTTTG
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAA----TTTATT-
* *
23487508 TTTTTTAAATTATTTTAAAGTTATTTTTTTAGTAATTTATGATTAGG
61 TTTATT--ATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * * * * *
23487555 TTATAAATT-ATT-TGTTTAGTTTAATGTGTATTTTGATTTATTATG-ATGTAATTTTTTTTTAT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTATTTTTAT
23487617 T
66 T
23487618 TCTTTGACAT
Statistics
Matches: 352, Mismatches: 18, Indels: 23
0.90 0.05 0.06
Matches are distributed among these distances:
101 23 0.07
103 23 0.07
104 201 0.57
105 14 0.04
108 5 0.01
109 10 0.03
110 28 0.08
111 10 0.03
112 38 0.11
ACGTcount: A:0.26, C:0.01, G:0.14, T:0.60
Consensus pattern (105 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTATTTTTAT
TATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
Found at i:23489681 original size:6 final size:6
Alignment explanation
Indices: 23489670--23489715 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
23489660 TCCTGCACCC
23489670 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGC
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGC
23489716 TAAAGCTACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.33, C:0.33, G:0.35, T:0.00
Consensus pattern (6 bp):
GAGCCA
Found at i:23490244 original size:48 final size:48
Alignment explanation
Indices: 23490183--23490291 Score: 148
Period size: 48 Copynumber: 2.3 Consensus size: 48
23490173 CTTTATATTT
* ** *
23490183 ATTT-AATTGAGATTTATTACAACATTAAAACTTGGAACAAATTTTGTA
1 ATTTAAATT-AGATTAATTACAACATTAAAACAAGGAACAAAATTTGTA
*
23490231 ATTTAAATTAGATTAATTGCAACATTAAAACAAGGAACAAAATTTGTA
1 ATTTAAATTAGATTAATTACAACATTAAAACAAGGAACAAAATTTGTA
*
23490279 ATATAAATTAGAT
1 ATTTAAATTAGAT
23490292 ACATTGGAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 50 0.93
49 4 0.07
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (48 bp):
ATTTAAATTAGATTAATTACAACATTAAAACAAGGAACAAAATTTGTA
Found at i:23494027 original size:23 final size:24
Alignment explanation
Indices: 23493969--23494027 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 24
23493959 AAATCTTATC
* *
23493969 CTTCTTTTTCTTC-TCCTCTCTTT
1 CTTCCTTTTCTTCTTCCTCTCTAT
* *
23493992 ATTTCTTTT-TTCTTCCTCTC-AT
1 CTTCCTTTTCTTCTTCCTCTCTAT
23494014 CTTCCTTTTCTTCT
1 CTTCCTTTTCTTCT
23494028 GCTATCTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.64
Consensus pattern (24 bp):
CTTCCTTTTCTTCTTCCTCTCTAT
Found at i:23497242 original size:32 final size:33
Alignment explanation
Indices: 23497175--23497242 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
23497165 TCTTGTTGGG
* * *
23497175 TTTGATTTTCCTTTGTGGTAGGTCTATGTCGGA
1 TTTGATTTTCCTTTGTGGTAGATCTATGCCAGA
23497208 TTTGA-TTTCCTTTGTGGTAGCATCTAT-CCAGA
1 TTTGATTTTCCTTTGTGGTAG-ATCTATGCCAGA
23497240 TTT
1 TTT
23497243 CATCAGCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (33 bp):
TTTGATTTTCCTTTGTGGTAGATCTATGCCAGA
Found at i:23499465 original size:16 final size:16
Alignment explanation
Indices: 23499444--23499477 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23499434 AGAAAATAAA
23499444 AAAATAGCACAAAGAG
1 AAAATAGCACAAAGAG
* *
23499460 AAAATAGGAGAAAGAG
1 AAAATAGCACAAAGAG
23499476 AA
1 AA
23499478 GAAAGATGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAATAGCACAAAGAG
Found at i:23501352 original size:43 final size:43
Alignment explanation
Indices: 23501303--23501388 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
23501293 AATAATCAAG
*
23501303 TAGGTACTAATTTTGGGCGTATCGAGGGTGCTAATCCTTCCTC
1 TAGGTACCAATTTTGGGCGTATCGAGGGTGCTAATCCTTCCTC
23501346 TAGGTACCAATTTTGGGCGTATCGAGGGTGCTAATCCTTCCTC
1 TAGGTACCAATTTTGGGCGTATCGAGGGTGCTAATCCTTCCTC
23501389 ATACGTAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.34
Consensus pattern (43 bp):
TAGGTACCAATTTTGGGCGTATCGAGGGTGCTAATCCTTCCTC
Found at i:23505283 original size:12 final size:12
Alignment explanation
Indices: 23505268--23505313 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
23505258 AAAAAAAATC
*
23505268 AAAATCAAAAAG
1 AAAAACAAAAAG
*
23505280 AAAAAGAAAAAG
1 AAAAACAAAAAG
*
23505292 AAAAAGAAAAAG
1 AAAAACAAAAAG
23505304 AAAAATCAAA
1 AAAAA-CAAA
23505314 GTCAAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 27 0.90
13 3 0.10
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.04
Consensus pattern (12 bp):
AAAAACAAAAAG
Found at i:23505289 original size:18 final size:19
Alignment explanation
Indices: 23505268--23505313 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
23505258 AAAAAAAATC
23505268 AAAATCAAAAAGAAAAAGA
1 AAAATCAAAAAGAAAAAGA
*
23505287 AAAA-GAAAAAGAAAAAGA
1 AAAATCAAAAAGAAAAAGA
23505305 AAAATCAAA
1 AAAATCAAA
23505314 GTCAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.04
Consensus pattern (19 bp):
AAAATCAAAAAGAAAAAGA
Found at i:23505326 original size:6 final size:6
Alignment explanation
Indices: 23505274--23505308 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
23505264 AATCAAAATC
23505274 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
23505309 TCAAAGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:23505342 original size:31 final size:30
Alignment explanation
Indices: 23505287--23505372 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 30
23505277 AAGAAAAAGA
23505287 AAAAGAAAAAGAAAAAGAAAAATCAAAGTC
1 AAAAGAAAAAGAAAAAGAAAAATCAAAGTC
23505317 AAAAGAAAAA-AAAGAA-AAATCAATCAAAGTC
1 AAAAGAAAAAGAAA-AAGAAA--AATCAAAGTC
*
23505348 AAAATAAAAGTATGAAAAAGAAAAA
1 AAAAGAAAA--A-GAAAAAGAAAAA
23505373 GAAAAGAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
29 6 0.13
30 12 0.26
31 18 0.38
33 3 0.06
34 2 0.04
35 6 0.13
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.09
Consensus pattern (30 bp):
AAAAGAAAAAGAAAAAGAAAAATCAAAGTC
Found at i:23507819 original size:44 final size:45
Alignment explanation
Indices: 23507761--23507952 Score: 130
Period size: 44 Copynumber: 4.3 Consensus size: 45
23507751 TTAAGATGAT
*
23507761 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGAA-AA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AAGAAGCA
* * ** **
23507805 AGTCTTATCCCCCTGAAGTCACAGT-GAGGCAGA-CCAAAGAAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAAGAAGCA
* * **
23507849 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTG-AAGCCG-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAGAAGCA
* * * * * *
23507892 TAATCTTATCTCCCTGAGGTTACAATGAAGCAGACTGAGAA-TAGCA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AAGAAGCA
23507938 AATCTTA-CTTCCCTG
1 AATCTTATC-TCCCTG
23507953 GCAATGCAAT
Statistics
Matches: 114, Mismatches: 24, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
44 87 0.76
45 16 0.14
46 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAGAAGCA
Found at i:23507899 original size:88 final size:88
Alignment explanation
Indices: 23507761--23507926 Score: 208
Period size: 88 Copynumber: 1.9 Consensus size: 88
23507751 TTAAGATGAT
23507761 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGAAAACAAGTCTTATCCCCCTGAAGTCA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGAAAACAAGTCTTATCCCCCTGAAGTCA
* *
23507826 CAGTGAGGCAGACCAAAGAAGCA
66 CAATGAAGCAGACCAAAGAAGCA
* * * *** * * * *
23507849 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGCCGATAA-TCTTATCTCCCTGAGGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGAAAACAAGTCTTATCCCCCTGAAGTC
23507913 ACAATGAAGCAGAC
65 ACAATGAAGCAGAC
23507927 TGAGAATAGC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
88 60 0.92
89 5 0.08
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (88 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGAAAACAAGTCTTATCCCCCTGAAGTCA
CAATGAAGCAGACCAAAGAAGCA
Found at i:23508117 original size:100 final size:100
Alignment explanation
Indices: 23507938--23508467 Score: 756
Period size: 100 Copynumber: 5.3 Consensus size: 100
23507928 GAGAATAGCA
** *
23507938 AATCTTACTTCCCTGGCAATGCAATGGAACAAGATTAACGCCACAACGGCGAACCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGGTGCAGTGGAAC-AGATTAACGCCACAACGGCGAACCTTGCTTCCCC
* * * *
23508003 GATATTGCAGTTAAAAAGATTAAACCTACCACAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAACAACG
* * ** * * * *
23508039 AATCGTACTTCTCAAGCGGTGCAGTGGAACAAATTAATGCCACAACGGTGAACCTTACTTCCCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
*
23508104 ACATTGCAGTTAAAAAGATTAAAGCTACAACAACA
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAACG
* * *
23508139 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAGGCCACAATGGCGAACCTTGCTTCCTCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
*
23508204 ACATTGCAGTTAAAAAGATTAAAGCTACAACAACA
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAACG
* * *
23508239 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAGGCCACAATGGCGAACCTTGCTTCCTCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
*
23508304 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAACG
* * * *
23508339 AATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTAACGCCACAACGGTGAATCTTGCTT-CCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
* *
23508403 AACATTGTAGTTAAAAATATTAAAGCTACAACAACG
66 -ACATTGCAGTTAAAAAGATTAAAGCTACAACAACG
*
23508439 AATCTTACTTCCCAGGCGGTGCAGTGGAA
1 AATCTTACTTCCCTGGCGGTGCAGTGGAA
23508468 GCAAGATTCA
Statistics
Matches: 387, Mismatches: 41, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
99 3 0.01
100 361 0.93
101 23 0.06
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAACAACG
Found at i:23508373 original size:50 final size:50
Alignment explanation
Indices: 23508016--23508467 Score: 275
Period size: 50 Copynumber: 9.0 Consensus size: 50
23508006 ATTGCAGTTA
* * * * *
23508016 AAAAGATTAAACCTACCACAGCGAATCGTACTTCTCAAGCGGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* * * * * * ** **
23508066 AACAA-ATTAATGCCACAACGGTGAACCTTACTTCCC-CGACATTGCAGTTA
1 AA-AAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTGCAGTGG
* * *
23508116 AAAAGATTAAAGCTACAACAACAAATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* * * ** * * * ** **
23508166 AACAGATTAAGGCCACAATGGCGAACCTTGCTT-CCTCGACATTGCAGTTA
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTGCAGTGG
* * *
23508216 AAAAGATTAAAGCTACAACAACAAATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* * * ** * * * ** **
23508266 AACAGATTAAGGCCACAATGGCGAACCTTGCTT-CCTCGACATTGCAGTTA
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTGCAGTGG
*
23508316 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGTAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* * * * * * * * ** * **
23508366 AACAGATTAACGCCACAACGGTGAATCTTGCTTCCCGAACATTGTAGTTA
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* *
23508416 AAAATATTAAAGCTACAACAACGAATCTTACTTCCC-AGGCGGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTA-GCGGTGCAGTGG
23508466 AA
1 AA
23508468 GCAAGATTCA
Statistics
Matches: 286, Mismatches: 107, Indels: 18
0.70 0.26 0.04
Matches are distributed among these distances:
49 12 0.04
50 263 0.92
51 11 0.04
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
Found at i:23508577 original size:50 final size:50
Alignment explanation
Indices: 23508481--23508609 Score: 125
Period size: 50 Copynumber: 2.6 Consensus size: 50
23508471 AGATTCACCG
* ** * * *
23508481 ACATTGGCGTATCTTGCAATGTCGGACATTGTAGTTAAAAATATTAAAGCC
1 ACATTGGCGTATCTTGC-TTCCCCGACATTGCAATTAAAAATATTAAAGCC
*
23508532 ACATTGGCGTATCTTGCTTCCCCGACATTGCAATTAAAAGA-ATTAAAGCT
1 ACATTGGCGTATCTTGCTTCCCCGACATTGCAATTAAAA-ATATTAAAGCC
*** * *
23508582 ACAACAGCGAATCTTGCTTCCTCGACAT
1 ACATTGGCGTATCTTGCTTCCCCGACAT
23508610 CACAGTTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 47 0.72
51 18 0.28
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (50 bp):
ACATTGGCGTATCTTGCTTCCCCGACATTGCAATTAAAAATATTAAAGCC
Found at i:23509223 original size:16 final size:16
Alignment explanation
Indices: 23509202--23509235 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
23509192 AGAAAATAAA
23509202 AAAATAGGACAAAGAG
1 AAAATAGGACAAAGAG
*
23509218 AAAATAGGAGAAAGAG
1 AAAATAGGACAAAGAG
23509234 AA
1 AA
23509236 GAAAGATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.26, T:0.06
Consensus pattern (16 bp):
AAAATAGGACAAAGAG
Found at i:23514621 original size:18 final size:19
Alignment explanation
Indices: 23514588--23514624 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23514578 TGCTTATTTG
23514588 AATTATTAAATATATTTAA
1 AATTATTAAATATATTTAA
*
23514607 AATTATTAACT-TATTTAA
1 AATTATTAAATATATTTAA
23514625 CATTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTATTAAATATATTTAA
Found at i:23524290 original size:33 final size:33
Alignment explanation
Indices: 23524252--23524406 Score: 108
Period size: 33 Copynumber: 4.6 Consensus size: 33
23524242 ATGATACAGT
23524252 GGAATCAGCACTTAGCAACCACCAATGAATCAG
1 GGAATCAGCACTTAGCAACCACCAATGAATCAG
*
23524285 GGAATCAACACTTAGCAACC-CC--T---T-AGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCA-G
* * * * *
23524312 GGAATCATCACTTACCAACCCCCTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CAG
*
23524353 TGGAATCAGCACTTAGCAACCACCAATGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCAG
23524387 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
23524407 CCTTAGGGGA
Statistics
Matches: 97, Mismatches: 8, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
26 1 0.01
27 18 0.19
28 2 0.02
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.02
33 39 0.40
34 3 0.03
35 3 0.03
36 2 0.02
38 1 0.01
39 2 0.02
40 1 0.01
41 4 0.04
42 16 0.16
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCAG
Found at i:23524381 original size:102 final size:102
Alignment explanation
Indices: 23524207--23524475 Score: 457
Period size: 102 Copynumber: 2.6 Consensus size: 102
23524197 CCAGTGATTC
* * * *
23524207 GGGGAATCAACACTTAGCAACCCCTTTCACATTCAATGATACAGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAA-AATACGGTGGAATCAGCACTTAGCAACC
23524272 ACCAATGAATCAGGGAATCAACACTTAGCAACCCCTTA
65 ACCAATGAATCAGGGAATCAACACTTAGCAACCCCTTA
* *
23524310 GGGGAATCATCACTTACCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
23524375 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTA
66 CCAATGAATCAGGGAATCAACACTTAGCAACCCCTTA
23524412 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
23524476 CCTTGGGGGA
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
102 124 0.79
103 32 0.21
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (102 bp):
GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCAGGGAATCAACACTTAGCAACCCCTTA
Found at i:23524608 original size:51 final size:51
Alignment explanation
Indices: 23524528--23524672 Score: 204
Period size: 51 Copynumber: 2.8 Consensus size: 51
23524518 GATACTGGTT
* *
23524528 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
* * *
23524579 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATA
*
23524630 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
23524673 TTCACTTTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
50 3 0.04
51 76 0.93
52 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
Found at i:23526921 original size:8 final size:8
Alignment explanation
Indices: 23526908--23526932 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23526898 TATACTAAAC
23526908 AATAAAAT
1 AATAAAAT
23526916 AATAAAAT
1 AATAAAAT
23526924 AATAAAAT
1 AATAAAAT
23526932 A
1 A
23526933 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:23527156 original size:60 final size:60
Alignment explanation
Indices: 23527074--23527195 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
23527064 TTTTAAAATT
*
23527074 CCATCCTTGAGTCATCAGTTAATTTGGTAAAATTACAATTTAGTCCCTCAAAATTCATTA
1 CCATCCTTGAGTCATCACTTAATTTGGTAAAATTACAATTTAGTCCCTCAAAATTCATTA
23527134 CCATCCTTGAGTCATCACTTAATTTGGTAAAATTACAATTTAGTCCCTCAAAATTCATTA
1 CCATCCTTGAGTCATCACTTAATTTGGTAAAATTACAATTTAGTCCCTCAAAATTCATTA
23527194 CC
1 CC
23527196 TTTTTCAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (60 bp):
CCATCCTTGAGTCATCACTTAATTTGGTAAAATTACAATTTAGTCCCTCAAAATTCATTA
Found at i:23531447 original size:40 final size:40
Alignment explanation
Indices: 23531403--23531626 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
23531393 AAGTGAATAT
* * * * **
23531403 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
23531443 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
23531483 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
23531523 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
23531563 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
23531602 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
23531627 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:23531501 original size:80 final size:80
Alignment explanation
Indices: 23531364--23531626 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
23531354 TTGAATGCTG
* * * * *
23531364 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
23531426 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
23531444 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
23531509 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
23531524 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
23531588 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
23531603 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
23531627 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:23531578 original size:120 final size:120
Alignment explanation
Indices: 23531364--23531626 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
23531354 TTGAATGCTG
* * *
23531364 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
23531428 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
23531484 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
23531546 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
23531603 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
23531627 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:23539571 original size:31 final size:31
Alignment explanation
Indices: 23539536--23539602 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
23539526 TGAATAGAAG
* *
23539536 GCCTTCATGGCGGGTACTGACTGAAAAGGAT
1 GCCTTCATGGCGAGTACTAACTGAAAAGGAT
** * *
23539567 GCCTTTTTGGCGAGTACTAATTGAAAAGGGT
1 GCCTTCATGGCGAGTACTAACTGAAAAGGAT
23539598 GCCTT
1 GCCTT
23539603 TGTGGCAAAG
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:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (31 bp):
GCCTTCATGGCGAGTACTAACTGAAAAGGAT
Found at i:23539603 original size:31 final size:31
Alignment explanation
Indices: 23539543--23539608 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
23539533 AAGGCCTTCA
* * *
23539543 TGGCGGGTACTGACTGAAAAGGATGCCTTTT
1 TGGCGAGTACTAACTGAAAAGGATGCCTTTG
* *
23539574 TGGCGAGTACTAATTGAAAAGGGTGCCTTTG
1 TGGCGAGTACTAACTGAAAAGGATGCCTTTG
23539605 TGGC
1 TGGC
23539609 AAAGTTTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (31 bp):
TGGCGAGTACTAACTGAAAAGGATGCCTTTG
Found at i:23544960 original size:85 final size:85
Alignment explanation
Indices: 23544855--23545023 Score: 295
Period size: 85 Copynumber: 2.0 Consensus size: 85
23544845 TTATAGGGTA
*
23544855 GGTCTCTCCCTCTCAGCACACACCTTTTACTTCCTCA-TTTTCAGGGTGGTTTATCTGGTACAAA
1 GGTCTCTCCCTCTCAGCACACACCTTTTACTT-CTCATTTTTCAGAGTGGTTTATCTGGTACAAA
23544919 TATAGCTGGCTGAGAGTGACG
65 TATAGCTGGCTGAGAGTGACG
* *
23544940 GGTCTCTCCCTCTCAGCACACACCTTTTACTTCTTATTTTTCAGAGTGGTTTATCTGGTACAAGT
1 GGTCTCTCCCTCTCAGCACACACCTTTTACTTCTCATTTTTCAGAGTGGTTTATCTGGTACAAAT
23545005 ATAGCTGGCTGAGAGTGAC
66 ATAGCTGGCTGAGAGTGAC
23545024 ATGGACTGAG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
84 3 0.04
85 77 0.96
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (85 bp):
GGTCTCTCCCTCTCAGCACACACCTTTTACTTCTCATTTTTCAGAGTGGTTTATCTGGTACAAAT
ATAGCTGGCTGAGAGTGACG
Found at i:23548253 original size:18 final size:17
Alignment explanation
Indices: 23548224--23548262 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 17
23548214 AACACAGAAA
23548224 AAAAGAAAAAATTAGTGAG
1 AAAAGAAAAAA-TAGT-AG
23548243 AAAAG-AAAAATAGTAG
1 AAAAGAAAAAATAGTAG
23548259 AAAA
1 AAAA
23548263 ATTAGGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 5 0.25
19 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (17 bp):
AAAAGAAAAAATAGTAG
Found at i:23551832 original size:4 final size:4
Alignment explanation
Indices: 23551823--23551848 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23551813 TTAATAAACT
23551823 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
23551849 ATCACCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:23552279 original size:23 final size:23
Alignment explanation
Indices: 23552248--23552298 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
23552238 ACCTACTTTC
* *
23552248 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
23552271 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
23552294 TTACA
1 TTACA
23552299 CCGGCCACGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:23568171 original size:7 final size:7
Alignment explanation
Indices: 23568155--23568196 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
23568145 CCCCATATTC
23568155 TTCT-TT
1 TTCTCTT
23568161 TTCTCTT
1 TTCTCTT
23568168 TTCTCTT
1 TTCTCTT
23568175 TTCTCTT
1 TTCTCTT
23568182 TTCTCTT
1 TTCTCTT
23568189 TTCTCTT
1 TTCTCTT
23568196 T
1 T
23568197 CCTTGTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.11
7 31 0.89
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTCTCTT
Found at i:23568431 original size:15 final size:14
Alignment explanation
Indices: 23568401--23568434 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
23568391 CCTTTTCCTA
*
23568401 CTCTTTTTTCTTTT
1 CTCTTTTTTCTCTT
23568415 CTCTTTTCTTCTCTT
1 CTCTTTT-TTCTCTT
23568430 CTCTT
1 CTCTT
23568435 CTTCATTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
CTCTTTTTTCTCTT
Found at i:23575385 original size:20 final size:20
Alignment explanation
Indices: 23575360--23575398 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
23575350 ACATTGATAA
23575360 GGGATATGTCATTGTATGTT
1 GGGATATGTCATTGTATGTT
23575380 GGGATATGTCATTGTATGT
1 GGGATATGTCATTGTATGT
23575399 CTATGTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.31, T:0.44
Consensus pattern (20 bp):
GGGATATGTCATTGTATGTT
Found at i:23587218 original size:31 final size:31
Alignment explanation
Indices: 23587182--23587244 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
23587172 TTGCCAAATA
* *
23587182 ACTTAAATAAAAACTTTTT-AATAGTTTAATG
1 ACTTAAATAAAAA-TTTTTGAATAATTCAATG
*
23587213 ACTTAAATGAAAATTTTTGAATAATTCAATG
1 ACTTAAATAAAAATTTTTGAATAATTCAATG
23587244 A
1 A
23587245 TCAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (31 bp):
ACTTAAATAAAAATTTTTGAATAATTCAATG
Found at i:23591954 original size:41 final size:41
Alignment explanation
Indices: 23591897--23592012 Score: 173
Period size: 41 Copynumber: 2.9 Consensus size: 41
23591887 AGTAAGATGA
* *
23591897 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
*
23591938 TTCAGACTTTACGTCTAGCAAGCTTAATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
*
23591979 GTCAGACTTTACGTC-AGCAGGC-TAATTGCCGGTG
1 TTCAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTG
23592013 TACTGAATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.04
40 14 0.20
41 52 0.75
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
Found at i:23602239 original size:20 final size:20
Alignment explanation
Indices: 23602207--23602262 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
23602197 TCCTTTTACG
23602207 TTCCTCTCTTTTTTTTCTT-T
1 TTCCT-TCTTTTTTTTCTTCT
23602227 TTCCTTCTATTTTTTTCTTCT
1 TTCCTTCT-TTTTTTTCTTCT
23602248 TT-CTTCTTTTCTTTT
1 TTCCTTCTTTT-TTTT
23602263 TTTATCTCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.18
20 24 0.73
21 3 0.09
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (20 bp):
TTCCTTCTTTTTTTTCTTCT
Found at i:23602931 original size:63 final size:63
Alignment explanation
Indices: 23602807--23602931 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 63
23602797 GTAGGCTGTG
* * * * * * *
23602807 TAACTCACTATTTTGGAATTAGAATTATACGGGCCAGAGACACGGGCGTGTGTCCAGGCCATA
1 TAACTCACTATTTTGGAATCAAAATCATACAGGCCAAAGACACGAGCGTGTGTCCAAGCCATA
*
23602870 TAACTCACTATTTTGGAATCAAAATCATACAGGCCAAAGACACGAGCGTGTGTCTAAGCCAT
1 TAACTCACTATTTTGGAATCAAAATCATACAGGCCAAAGACACGAGCGTGTGTCCAAGCCAT
23602932 GTTAGAGGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (63 bp):
TAACTCACTATTTTGGAATCAAAATCATACAGGCCAAAGACACGAGCGTGTGTCCAAGCCATA
Found at i:23604623 original size:43 final size:43
Alignment explanation
Indices: 23604568--23604650 Score: 141
Period size: 43 Copynumber: 1.9 Consensus size: 43
23604558 TAGCACAACA
23604568 ATTAAATGAATGATATTCTAGGATCTTTAGCTATATTAGTGCG
1 ATTAAATGAATGATATTCTAGGATCTTTAGCTATATTAGTGCG
*
23604611 ATTAAA-GTAATGATATTCTAGGATTTTTAGCTATATTAGT
1 ATTAAATG-AATGATATTCTAGGATCTTTAGCTATATTAGT
23604651 AGATGTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (43 bp):
ATTAAATGAATGATATTCTAGGATCTTTAGCTATATTAGTGCG
Found at i:23616544 original size:20 final size:20
Alignment explanation
Indices: 23616512--23616567 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
23616502 TCCTTTTACG
23616512 TTCCTCTCTTTTTTTTCTT-T
1 TTCCT-TCTTTTTTTTCTTCT
23616532 TTCCTTCTATTTTTTTCTTCT
1 TTCCTTCT-TTTTTTTCTTCT
23616553 TT-CTTCTTTTCTTTT
1 TTCCTTCTTTT-TTTT
23616568 TTTATCTCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.18
20 24 0.73
21 3 0.09
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (20 bp):
TTCCTTCTTTTTTTTCTTCT
Found at i:23617236 original size:63 final size:63
Alignment explanation
Indices: 23617112--23617236 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 63
23617102 GTAGGCTGTG
* * * * * * *
23617112 TAACTCACTATTTTGGAATTAGAATTATACGGGCCAGAGACACGGGCGTGTGTCCAGGCCATA
1 TAACTCACTATTTTGGAATCAAAATCATACAGGCCAAAGACACGAGCGTGTGTCCAAGCCATA
*
23617175 TAACTCACTATTTTGGAATCAAAATCATACAGGCCAAAGACACGAGCGTGTGTCTAAGCCAT
1 TAACTCACTATTTTGGAATCAAAATCATACAGGCCAAAGACACGAGCGTGTGTCCAAGCCAT
23617237 GTTAGAGGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (63 bp):
TAACTCACTATTTTGGAATCAAAATCATACAGGCCAAAGACACGAGCGTGTGTCCAAGCCATA
Found at i:23618928 original size:43 final size:43
Alignment explanation
Indices: 23618873--23618955 Score: 141
Period size: 43 Copynumber: 1.9 Consensus size: 43
23618863 TAGCACAACA
23618873 ATTAAATGAATGATATTCTAGGATCTTTAGCTATATTAGTGCG
1 ATTAAATGAATGATATTCTAGGATCTTTAGCTATATTAGTGCG
*
23618916 ATTAAA-GTAATGATATTCTAGGATTTTTAGCTATATTAGT
1 ATTAAATG-AATGATATTCTAGGATCTTTAGCTATATTAGT
23618956 AGATGTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (43 bp):
ATTAAATGAATGATATTCTAGGATCTTTAGCTATATTAGTGCG
Found at i:23628547 original size:29 final size:29
Alignment explanation
Indices: 23628514--23628571 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
23628504 TCTGGTTCGC
*
23628514 TCATCTCTTTT-TCTTTCATTTCTTTTTCA
1 TCATCT-TTTTCTCTTTCAATTCTTTTTCA
*
23628543 TCATCTTTTTCTTTTTCAATTCTTTTTCA
1 TCATCTTTTTCTCTTTCAATTCTTTTTCA
23628572 ATCTCAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.12, C:0.22, G:0.00, T:0.66
Consensus pattern (29 bp):
TCATCTTTTTCTCTTTCAATTCTTTTTCA
Found at i:23628566 original size:17 final size:17
Alignment explanation
Indices: 23628532--23628570 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
23628522 TTTTCTTTCA
23628532 TTTCTTTTTCATCATCTT
1 TTTCTTTTTCAT-ATCTT
23628550 TTTCTTTTTCA-ATTCTT
1 TTTCTTTTTCATA-TCTT
23628567 TTTC
1 TTTC
23628571 AATCTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 8 0.40
18 11 0.55
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTTTTTCATATCTT
Found at i:23628584 original size:16 final size:17
Alignment explanation
Indices: 23628558--23628589 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23628548 TTTTTCTTTT
23628558 TCAATTCTTTTTCAATC
1 TCAATTCTTTTTCAATC
23628575 TCAATT-TTTTTCAAT
1 TCAATTCTTTTTCAAT
23628590 TTTCTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (17 bp):
TCAATTCTTTTTCAATC
Found at i:23628637 original size:6 final size:6
Alignment explanation
Indices: 23628628--23628673 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
23628618 ACTTTTTCGA
* **
23628628 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCTT TTTCTT TTTC
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC
23628674 ACATGCTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:23628640 original size:18 final size:18
Alignment explanation
Indices: 23628619--23628673 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
23628609 TTTTCCCTCA
*
23628619 CTTTTTCGATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
23628637 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
**
23628655 CTTTTTCTTTTTCTTTTT
1 CTTTTTCAATTTCTTTTT
23628673 C
1 C
23628674 ACATGCTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.05, C:0.18, G:0.04, T:0.73
Consensus pattern (18 bp):
CTTTTTCAATTTCTTTTT
Found at i:23640224 original size:39 final size:39
Alignment explanation
Indices: 23640153--23640230 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
23640143 TAATATGTCT
*
23640153 TTATGTCCTGTGTTATTACATAATTAATATGTGTGTTAA
1 TTATGTCCTGTGTTATTACATAATTAATATGTGTCTTAA
**
23640192 TTATGTCCTAGT-TTATTACATCTTTTAA-ATGTGTCTTAA
1 TTATGTCCT-GTGTTATTACAT-AATTAATATGTGTCTTAA
23640231 GCATGTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 28 0.82
40 6 0.18
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (39 bp):
TTATGTCCTGTGTTATTACATAATTAATATGTGTCTTAA
Found at i:23646611 original size:40 final size:40
Alignment explanation
Indices: 23646562--23646782 Score: 315
Period size: 40 Copynumber: 5.5 Consensus size: 40
23646552 CTCATACAAT
23646562 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
23646602 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
23646642 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
* * *
23646682 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAAT
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
** *
23646722 GCCTTC-GGATCTTAGTCCGG-ATATAGTCA-CTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCGGAAT-TAGT-ATC-TCGCACAAAG
*
23646762 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
23646783 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
39 5 0.03
40 150 0.90
41 12 0.07
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
Found at i:23654667 original size:40 final size:40
Alignment explanation
Indices: 23654613--23654700 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
23654603 CTCATACAAT
23654613 GCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTT-GTATCTCGCACAAAG
* * *
23654653 GCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCCCAAAT
1 GCCTTCGGGACTTAACCCGGAATTTGTATCTCGCACAAAG
23654693 GCCTTCGG
1 GCCTTCGG
23654701 ATCTTTGTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGAATTTGTATCTCGCACAAAG
Found at i:23654753 original size:40 final size:40
Alignment explanation
Indices: 23654574--23654753 Score: 120
Period size: 40 Copynumber: 4.5 Consensus size: 40
23654564 TCGTTCAAGT
* * * * *
23654574 GCCTTCGGGACATAGCCCGGTTATAGTAACT--CATACAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTATCTAGCACA-AAG
* * *
23654613 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATAGTATCTAGCACAAAG
* * * * * *
23654653 GCCTTCGGGGCTTAACCCGGA-ATTTGTATCTCGCCCAAAT
1 GCCTTCGGGACTTAGCCCGGATA-TAGTATCTAGCACAAAG
* * *
23654693 GCCTTC-GGATCTTTGTCCGGATATATTCA-CTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGATATAGT-ATC-TAGCACAAAG
23654733 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
23654754 CAGCATTCAA
Statistics
Matches: 111, Mismatches: 22, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
39 28 0.25
40 68 0.61
41 15 0.14
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTATCTAGCACAAAG
Found at i:23660208 original size:29 final size:29
Alignment explanation
Indices: 23660139--23660309 Score: 143
Period size: 29 Copynumber: 5.9 Consensus size: 29
23660129 GATGGCCGAA
* ** *
23660139 ACCATCCCTTTTCATTAATCCATTGTCGTC
1 ACCATCCCTTTTCA-TAGTTGATGGTCGTC
*
23660169 ACCATCCCTTTTCATAGTTGATGGTTGTC
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* * ** * **
23660198 ACAATCCCTTTTCATTAATCAATAGTCGAA
1 ACCATCCCTTTTCA-TAGTTGATGGTCGTC
*
23660228 ACTATCCCTTTTCATA-TTCGATGGTCGTC
1 ACCATCCCTTTTCATAGTT-GATGGTCGTC
*
23660257 ACCATCCTTTTTCATAGTTGATGGT--T-
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* *
23660283 ACCATCCCTTTTCATAGTCGATAGTCG
1 ACCATCCCTTTTCATAGTTGATGGTCG
23660310 AAACTATTCG
Statistics
Matches: 112, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
26 22 0.20
27 1 0.01
28 1 0.01
29 51 0.46
30 37 0.33
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATAGTTGATGGTCGTC
Found at i:23660208 original size:59 final size:59
Alignment explanation
Indices: 23660142--23660271 Score: 172
Period size: 59 Copynumber: 2.2 Consensus size: 59
23660132 GGCCGAAACC
* * ** *
23660142 ATCCCTTTTCATTAATCCATTGTCGTCACCATCCCTTTTCATAGTT-GATGGTTGTCACA
1 ATCCCTTTTCATTAATCAATAGTCGAAACCATCCCTTTTCATA-TTCGATGGTCGTCACA
* *
23660201 ATCCCTTTTCATTAATCAATAGTCGAAACTATCCCTTTTCATATTCGATGGTCGTCACC
1 ATCCCTTTTCATTAATCAATAGTCGAAACCATCCCTTTTCATATTCGATGGTCGTCACA
*
23660260 ATCCTTTTTCAT
1 ATCCCTTTTCAT
23660272 AGTTGATGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 2 0.03
59 60 0.97
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (59 bp):
ATCCCTTTTCATTAATCAATAGTCGAAACCATCCCTTTTCATATTCGATGGTCGTCACA
Found at i:23660269 original size:88 final size:84
Alignment explanation
Indices: 23660135--23660340 Score: 259
Period size: 84 Copynumber: 2.4 Consensus size: 84
23660125 AAACGATGGC
* * * *
23660135 CGAAACCATCCCTTTTCATTAATCCATTGTCGTCACCATCCCTTTTCATAGTTGATGGTTGTCAC
1 CGAAACTATCCCTTTTCA-TATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGG-T-T-AC
23660200 AATCCCTTTTCATTAATCAATAGT
62 AATCCCTTTTCA-TAATCAATAGT
* * *
23660224 CGAAACTATCCCTTTTCATATTCGATGGTCGTCACCATCCTTTTTCATAGTTGATGGTTACCATC
1 CGAAACTATCCCTTTTCATATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTTACAATC
* *
23660289 CCTTTTCATAGTCGATAGT
66 CCTTTTCATAATCAATAGT
* * *
23660308 CGAAACTATTCGTTTTCATATTCAACGGTCGTC
1 CGAAACTATCCCTTTTCATATTCAATGGTCGTC
23660341 GATACGTCAT
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
84 38 0.36
85 13 0.12
86 1 0.01
87 1 0.01
88 35 0.33
89 17 0.16
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (84 bp):
CGAAACTATCCCTTTTCATATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTTACAATC
CCTTTTCATAATCAATAGT
Found at i:23665765 original size:139 final size:137
Alignment explanation
Indices: 23665507--23665782 Score: 315
Period size: 139 Copynumber: 2.0 Consensus size: 137
23665497 GAGCCATAAA
*
23665507 TGGGTCTGCTCACACAAGCTAAAGGTCGAAATATAACTACACAATGCCACTCATACAAGCTGACG
1 TGGGTCTGCTCACACAAGCTAAAGGTCGAAATATAACTACACAATGCCACTCACACAAGCTGACG
* * * *
23665572 ATTATCCATAACAAATGTCGAAACTCAGCCATTGATTGGACATTCAGGACTAGCACCCTG-AACA
66 AGTATCCACAACAAATGTCGAAACTCAGCCATTGATAGGACATTCAAGACTAGCACCC-GAAACA
23665636 TGGTAACC
130 TGGTAACC
* * * * **
23665644 TGGGTCTGCTCACACAAGCTGATGGTC-AGAATGTAAGCTACACGATGCTGCTCACACAAGCTGA
1 TGGGTCTGCTCACACAAGCTAAAGGTCGA-AATATAA-CTACACAATGCCACTCACACAAGCTGA
* * * * * * *
23665708 TGAGTATCCGCAACAAAATGTCTAACCTTAGCCATCT-ATAGGACATTCAAGATTAGCAGCCGAA
64 CGAGTATCCACAAC-AAATGTCGAAACTCAGCCAT-TGATAGGACATTCAAGACTAGCACCCGAA
*
23665772 ACATTGTAACC
127 ACATGGTAACC
23665783 CTAAACATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
136 1 0.01
137 31 0.27
138 34 0.30
139 48 0.42
140 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (137 bp):
TGGGTCTGCTCACACAAGCTAAAGGTCGAAATATAACTACACAATGCCACTCACACAAGCTGACG
AGTATCCACAACAAATGTCGAAACTCAGCCATTGATAGGACATTCAAGACTAGCACCCGAAACAT
GGTAACC
Found at i:23667062 original size:37 final size:37
Alignment explanation
Indices: 23667012--23667085 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
23667002 GAATTAGTCT
23667012 TGGTGATCAAAGTTTAAGGAAAAATACAAAAGATGTA
1 TGGTGATCAAAGTTTAAGGAAAAATACAAAAGATGTA
* *
23667049 TGGTGATCAAAGTTTGAGGAAAAATAGAAAAGATGTA
1 TGGTGATCAAAGTTTAAGGAAAAATACAAAAGATGTA
23667086 CATGCTCTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (37 bp):
TGGTGATCAAAGTTTAAGGAAAAATACAAAAGATGTA
Found at i:23671177 original size:18 final size:19
Alignment explanation
Indices: 23671142--23671181 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
23671132 TTTAATAATA
*
23671142 TATTCATATATATATATAC
1 TATTAATATATATATATAC
23671161 TATTAATATAT-TATATAC
1 TATTAATATATATATATAC
23671179 TAT
1 TAT
23671182 ATGATATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTAATATATATATATAC
Found at i:23671186 original size:248 final size:243
Alignment explanation
Indices: 23670647--23671524 Score: 770
Period size: 248 Copynumber: 3.6 Consensus size: 243
23670637 AAGAAAAATA
* * * * *
23670647 ATTGATGCATGTATATAT--ACTATTAATAAATTATATGATAGGATATATCATTATATAATATAG
1 ATTGATGCATATATATATAAACTATTAATATATTATATGATATGATATAGCATTATATAATATAA
* * * * * ** * *
23670710 TAAGATGACTAACTTTCAAATTTACGAAAAGTATAAGGACTTAGAGCATATTTCAATTAGTAGAA
66 TAGGAGGACTAACTTTCAAATGTACGAAAATTATAAGGACTTAAAGCATATTTCAACCAATATAA
* * * * * * * *
23670775 TAATAAACAAAAATATGTAAAAATATGTAATATATAATGCACTACTATTTATAT-AACTATTATT
131 TAATAAACAATAATA--T-ATAATAT-T-TTTTATAAT-AACTAATATATATATGTACTATTATT
* * *
23670839 ATATTATAGATTATAATAAAAAAATATAACATTACATGATATTATAATGTTTAATC
190 ATATTATAGA-TATAAT-AAAAGATATAATATTACATTATATTATAATGTTTAATC
*
23670895 ATTGATGCATAT-T-TATAAACTATTAACATATTATATGATATGATATAGCATTATATAATATAA
1 ATTGATGCATATATATATAAACTATTAATATATTATATGATATGATATAGCATTATATAATATAA
* * *
23670958 TAGGAGGATTAACTTTGAAATGTA-GAAAAATTATAGGGACTTAAAGCATATTTCAACCAATATA
66 TAGGAGGACTAACTTTCAAATGTACG-AAAATTATAAGGACTTAAAGCATATTTCAACCAATATA
23671022 ATAATAAACAATAATATATAATATTTTTTTTATAATAACTAATATATATAATGTACTATTATTAT
130 ATAATAAACAATAATATATAATA--TTTTTTATAATAACTAATATATAT-ATGTACTATTATTAT
* *
23671087 ATTATAGATATAATAAAAGATATAGTATTACATTATATTATAATGTTTAATA
192 ATTATAGATATAATAAAAGATATAATATTACATTATATTATAATGTTTAATC
* * * *
23671139 ATAT-ATTCATATATATATATACTATTAATATATTATATACTATATGATATTGTATGGTATTATA
1 AT-TGATGCATATATATATAAACTATTAATATATTATAT--GATATGATA---TA--GCATTATA
* * * * * *
23671203 TAATATAGTAGGATGG-CTAACTTTCAAA--T----ATATGA-AGGGATTTAGAGCATATTTCAA
58 TAATATAATAGGA-GGACTAACTTTCAAATGTACGAAAATTATAAGGACTTAAAGCATATTTCAA
* * * * *
23671260 CCAGTATAATAAT--A-AAT-A-A-A-AATA--TATGATAATAATTAATATATAT-TGTACTACT
122 CCAATATAATAATAAACAATAATATATAATATTTTTTATAATAACTAATATATATATGTACTATT
* *
23671315 ATTATATTATAGAATGTAATAAAAGATGTAATATTACATTATATTATAATGTTTAATC
187 ATTATATTATAG-ATATAATAAAAGATATAATATTACATTATATTATAATGTTTAATC
* *
23671373 ATTGATGCATATATATATAAACTATTAATATATTATATACTATATGATATAATATAGAATTATAT
1 ATTGATGCATATATATATAAACTA-T--TA-A-TATAT--TATATGATATGATATAGCATTATAT
* ** * * *
23671438 AATA-AAGTAGAAGGGTTAACTTTCAAATGTAGGAAAAATATAAGTACTTAAAGCATATTTCAAC
59 AATATAA-TAGGAGGACTAACTTTCAAATGTACGAAAATTATAAGGACTTAAAGCATATTTCAAC
*
23671502 C-A-A-CATAATAAACAATAATATAT
123 CAATATAATAATAAACAATAATATAT
23671525 GATAATAATG
Statistics
Matches: 518, Mismatches: 69, Indels: 89
0.77 0.10 0.13
Matches are distributed among these distances:
233 24 0.05
234 88 0.17
235 20 0.04
236 3 0.01
237 2 0.00
238 6 0.01
239 17 0.03
240 5 0.01
241 29 0.06
242 2 0.00
243 4 0.01
244 54 0.10
245 22 0.04
246 77 0.15
247 7 0.01
248 124 0.24
251 3 0.01
253 29 0.06
254 2 0.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (243 bp):
ATTGATGCATATATATATAAACTATTAATATATTATATGATATGATATAGCATTATATAATATAA
TAGGAGGACTAACTTTCAAATGTACGAAAATTATAAGGACTTAAAGCATATTTCAACCAATATAA
TAATAAACAATAATATATAATATTTTTTATAATAACTAATATATATATGTACTATTATTATATTA
TAGATATAATAAAAGATATAATATTACATTATATTATAATGTTTAATC
Found at i:23671254 original size:246 final size:231
Alignment explanation
Indices: 23670830--23671532 Score: 696
Period size: 234 Copynumber: 2.9 Consensus size: 231
23670820 TATTTATATA
* * *
23670830 ACTATTATTATATTATAGATTATAATAAAAAAATATAACATTACATGATATTATAATGTTTAATC
1 ACTATTATTATATTATAGA-TATAAT-AAAAGATATAATATTACATTATATTATAATGTTTAATC
* * *
23670895 ATTGATGCATAT-T-TATAAACTATTAACATATTATAT--GATATGATA-TA-GCATTATATAAT
64 ATTGATGCATATATATATAAACTATTAATATATTATATACTATATGATATTATGAATTATATAAT
* * *
23670954 ATAATAGGAGGATTAACTTTGAAATGTAGAAAAATTATAGGGACTTAAAGCATATTTCAACCAAT
129 ATAGTAGGAGG-TTAACTTTCAAA--T---AAAATGATAGGGACTTAAAGCATATTTCAACCAAT
* *
23671019 ATAATAATAAACAATAATATATAATATTTTTTTTATAATAACTAATATATATAATGT
188 ATAATAAT--A-AAT-A-A-A-AATA----TATGATAATAACTAATATATAT--TGT
* *
23671076 ACTATTATTATATTATAGATATAATAAAAGATATAGTATTACATTATATTATAATGTTTAATAAT
1 ACTATTATTATATTATAGATATAATAAAAGATATAATATTACATTATATTATAATGTTTAATCAT
* * *
23671141 AT-ATTCATATATATATATACTATTAATATATTATATACTATATGATATTGTATGGTATTATATA
66 -TGATGCATATATATATAAACTATTAATATATTATATACTATATGATA-T-TAT-GAATTATATA
* * * * *
23671205 ATATAGTAGGATGGCTAACTTTCAAAT-ATATGA-AGGGATTTAGAGCATATTTCAACCAGTATA
127 ATATAGTAGGA-GGTTAACTTTCAAATAAAATGATAGGGACTTAAAGCATATTTCAACCAATATA
*
23671268 ATAATAAATAAAAATATATGATAATAATTAATATATATTGT
191 ATAATAAATAAAAATATATGATAATAACTAATATATATTGT
* * *
23671309 ACTACTATTATATTATAGAATGTAATAAAAGATGTAATATTACATTATATTATAATGTTTAATCA
1 ACTATTATTATATTATAG-ATATAATAAAAGATATAATATTACATTATATTATAATGTTTAATCA
23671374 TTGATGCATATATATATAAACTATTAATATATTATATACTATATGATATAATATAGAATTATATA
65 TTGATGCATATATATATAAACTATTAATATATTATATACTATATGATAT--TAT-GAATTATATA
* * * *
23671439 ATAAAGTAGAAGGGTTAACTTTCAAATGTAGGAAAAAT-ATAAGTACTTAAAGCATATTTCAACC
127 ATATAGTAGGA-GGTTAACTTTCAAA--T----AAAATGATAGGGACTTAAAGCATATTTCAACC
*
23671503 AACATAATAA-ACAAT---AATATATGATAATAA
185 AATATAATAATA-AATAAAAATATATGATAATAA
23671533 TGATTATATT
Statistics
Matches: 392, Mismatches: 42, Indels: 54
0.80 0.09 0.11
Matches are distributed among these distances:
233 22 0.06
234 120 0.31
235 19 0.05
236 1 0.00
238 15 0.04
239 4 0.01
240 3 0.01
241 35 0.09
242 1 0.00
243 3 0.01
244 43 0.11
245 8 0.02
246 72 0.18
247 4 0.01
248 8 0.02
251 3 0.01
253 29 0.07
254 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (231 bp):
ACTATTATTATATTATAGATATAATAAAAGATATAATATTACATTATATTATAATGTTTAATCAT
TGATGCATATATATATAAACTATTAATATATTATATACTATATGATATTATGAATTATATAATAT
AGTAGGAGGTTAACTTTCAAATAAAATGATAGGGACTTAAAGCATATTTCAACCAATATAATAAT
AAATAAAAATATATGATAATAACTAATATATATTGT
Found at i:23672805 original size:51 final size:53
Alignment explanation
Indices: 23672738--23672841 Score: 144
Period size: 51 Copynumber: 2.0 Consensus size: 53
23672728 AATTATTTTC
23672738 TCAATTTGCTCTCAA-TTTC-CTTCCAAATTTCTCTCAAA-TCC-ATATTTAATT
1 TCAATTTGCTCTCAATTTTCTCTT-C-AATTTCTCTCAAATTCCTATATTTAATT
* *
23672789 TCAATTTGCTCTCAATTTTCTCTTCAATTTCTCTTAAATTCCTATTTTTAATT
1 TCAATTTGCTCTCAATTTTCTCTTCAATTTCTCTCAAATTCCTATATTTAATT
23672842 ATTTAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
51 27 0.57
52 8 0.17
53 12 0.26
ACGTcount: A:0.25, C:0.23, G:0.02, T:0.50
Consensus pattern (53 bp):
TCAATTTGCTCTCAATTTTCTCTTCAATTTCTCTCAAATTCCTATATTTAATT
Found at i:23672817 original size:12 final size:12
Alignment explanation
Indices: 23672788--23672828 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
23672778 CATATTTAAT
*
23672788 TTCAATTTGCTC
1 TTCAATTTTCTC
23672800 -TCAATTTTCTC
1 TTCAATTTTCTC
23672811 TTCAA-TTTCTC
1 TTCAATTTTCTC
*
23672822 TTAAATT
1 TTCAATT
23672829 CCTATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.54
Consensus pattern (12 bp):
TTCAATTTTCTC
Found at i:23674201 original size:124 final size:125
Alignment explanation
Indices: 23674044--23674360 Score: 512
Period size: 126 Copynumber: 2.5 Consensus size: 125
23674034 CCCAAACATG
*
23674044 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
23674109 TTGAAGC-GTTTTTATACTATTTTCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAACAGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* *
23674168 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTTTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
23674233 TTGAAACATTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
66 TTGAAACA-GTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * *
23674294 CTATTGTAGCAAAAGCGCGTCCACGTGGGCGTGACTTT-AGAAATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTCAGAAATTCTTCTGATAAAGCATCCTG
23674358 CTT
65 CTT
23674361 TGAGTTTATC
Statistics
Matches: 178, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
124 68 0.38
126 107 0.60
127 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAACAGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
Found at i:23674723 original size:5 final size:5
Alignment explanation
Indices: 23674715--23674751 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
23674705 TATATACTAC
* *
23674715 ATGAT ATGAT ATGAT ATGAT ATGAT ATAAT ATTAT AT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT AT
23674752 AATGTAGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (5 bp):
ATGAT
Found at i:23675819 original size:29 final size:29
Alignment explanation
Indices: 23675785--23675840 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
23675775 ATAAACTAGG
* *
23675785 AATCTAAAATCTTGAAATATAATATATAC
1 AATCTAAAACCTTAAAATATAATATATAC
*
23675814 AATCTAATACCTTAAAATATAATATAT
1 AATCTAAAACCTTAAAATATAATATAT
23675841 GGTATAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (29 bp):
AATCTAAAACCTTAAAATATAATATATAC
Found at i:23679955 original size:30 final size:30
Alignment explanation
Indices: 23679919--23679975 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
23679909 CGATCTAATG
*
23679919 GATCTTAAAAATAAATCTGAATCATTATTA
1 GATCTTAAAAATAAATCCGAATCATTATTA
*
23679949 GATCTTAAAAATAATTCCGAATCATTA
1 GATCTTAAAAATAAATCCGAATCATTA
23679976 AAGCACGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (30 bp):
GATCTTAAAAATAAATCCGAATCATTATTA
Found at i:23686238 original size:29 final size:29
Alignment explanation
Indices: 23686200--23686275 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
23686190 CGGAATTAAA
* *
23686200 AAAAAGTTCTCTCCTTTTTGGGGTAAAAAT
1 AAAAA-TTCTCTCCTTTTTGGGATAAAAAC
*
23686230 AAAAATTCTCTCCTTTTTGGGATGAAAAC
1 AAAAATTCTCTCCTTTTTGGGATAAAAAC
*
23686259 GAAAATTCTCT-CTTTTT
1 AAAAATTCTCTCCTTTTT
23686276 AATAGAAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 6 0.14
29 31 0.74
30 5 0.12
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (29 bp):
AAAAATTCTCTCCTTTTTGGGATAAAAAC
Found at i:23690663 original size:41 final size:41
Alignment explanation
Indices: 23690575--23690694 Score: 113
Period size: 41 Copynumber: 3.0 Consensus size: 41
23690565 TTTAAACAGA
* * * * *
23690575 TTCACCGGCACTTAGCCTACTAGGCTTAAAGCCTG--ATTT
1 TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGAAATGT
*
23690614 TGTACACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATGT
1 T-T-CACCGGCACTTAGCCTGCTAGACATAAAGTCTGAAATGT
* *
23690657 TTCACCGGCA-TCAAGCCTGCTAGACGTAAAGTCT-AAAT
1 TTCACCGGCACT-TAGCCTGCTAGACATAAAGTCTGAAAT
23690695 TATTTCACTA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
39 1 0.01
40 6 0.09
41 55 0.82
42 1 0.01
43 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACATAAAGTCTGAAATGT
Found at i:23691209 original size:76 final size:77
Alignment explanation
Indices: 23691120--23691262 Score: 198
Period size: 76 Copynumber: 1.9 Consensus size: 77
23691110 CAATACAAAA
* * * *
23691120 ACTTATACATGTATATACATACATATTCGAATTTACATATAC-ATACATAATATTCATACCTTTA
1 ACTTATACATGTATATACATACATATTCCAACTCACATATACAATACATAACATTCATACCTTTA
23691184 AATATATTCAAG
66 AATATATTCAAG
* * * *
23691196 ACTTATTCATGTATATACATATATGTTCCAACTCACATATACATATATATAACATTCATACCTTT
1 ACTTATACATGTATATACATACATATTCCAACTCACATATACA-ATACATAACATTCATACCTTT
23691261 AA
65 AA
23691263 CCAAGTCCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 36 0.63
78 21 0.37
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.38
Consensus pattern (77 bp):
ACTTATACATGTATATACATACATATTCCAACTCACATATACAATACATAACATTCATACCTTTA
AATATATTCAAG
Found at i:23694681 original size:163 final size:163
Alignment explanation
Indices: 23694411--23694729 Score: 584
Period size: 163 Copynumber: 2.0 Consensus size: 163
23694401 TTGAAAGGTT
23694411 TAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAGAAATGATATGGATGTGTTATGATTATTGA
1 TAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAGAAATGATATGGATGTGTTATGATTATTGA
*
23694476 TATATGTGTGCATGAGCATTGGAATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTGAT
66 TATATGTGTGCATGAGCATTGGAATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTGAT
*
23694541 ATATCCGGGCTATGACCCGAAGGCAATTATGCG
131 ATATCCGGGCTAAGACCCGAAGGCAATTATGCG
23694574 TAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAGAAATGATATGGATGTGTTATGATTATTGA
1 TAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAGAAATGATATGGATGTGTTATGATTATTGA
* *
23694639 TATATGTGTGCATGAGCATTGGGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGAT
66 TATATGTGTGCATGAGCATTGGAATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTGAT
* *
23694704 ATGTCCGGGTTAAGACCCGAAGGCAA
131 ATATCCGGGCTAAGACCCGAAGGCAA
23694730 ATGTGTTTGC
Statistics
Matches: 150, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
163 150 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (163 bp):
TAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAGAAATGATATGGATGTGTTATGATTATTGA
TATATGTGTGCATGAGCATTGGAATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTGAT
ATATCCGGGCTAAGACCCGAAGGCAATTATGCG
Found at i:23696596 original size:27 final size:27
Alignment explanation
Indices: 23696565--23696742 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23696555 TAAATTGTAC
23696565 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23696592 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23696618 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23696646 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
23696674 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23696701 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23696728 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23696743 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23696679 original size:82 final size:81
Alignment explanation
Indices: 23696566--23696721 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23696556 AAATTGTACA
* *
23696566 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23696630 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23696647 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
23696712 TGCGAGTTGA
65 TGCGAATTGA
23696722 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23696733 original size:82 final size:81
Alignment explanation
Indices: 23696562--23696742 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
23696552 GATTAAATTG
* *
23696562 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23696627 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23696643 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
23696707 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23696725 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23696743 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23696753 original size:27 final size:27
Alignment explanation
Indices: 23696647--23696753 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
23696637 TGACCATGCG
* * * *
23696647 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
23696675 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
23696702 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
23696729 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
23696754 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:23702466 original size:17 final size:17
Alignment explanation
Indices: 23702444--23702476 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23702434 GCATTGAAGC
23702444 AAGTGTCAAACTCTAAA
1 AAGTGTCAAACTCTAAA
23702461 AAGTGTCAAACTCTAA
1 AAGTGTCAAACTCTAA
23702477 GTCTGCGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
AAGTGTCAAACTCTAAA
Found at i:23705523 original size:6 final size:6
Alignment explanation
Indices: 23705514--23705543 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
23705504 AGTTTTACCA
23705514 TCTTTT TCTTTT T-TTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
23705544 GCCACAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TCTTTT
Found at i:23705530 original size:11 final size:12
Alignment explanation
Indices: 23705514--23705543 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
23705504 AGTTTTACCA
23705514 TCTTTTTCTTTT
1 TCTTTTTCTTTT
23705526 T-TTTTTCTTTT
1 TCTTTTTCTTTT
23705537 TCTTTTT
1 TCTTTTT
23705544 GCCACAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TCTTTTTCTTTT
Found at i:23707653 original size:53 final size:55
Alignment explanation
Indices: 23707595--23707703 Score: 168
Period size: 53 Copynumber: 2.0 Consensus size: 55
23707585 GATCAGACTC
* *
23707595 GGCATTTAGAGAATCAACTTGGACCTC-G-GATTATTATTTAATTAAGTATTATT
1 GGCATTCAGAGAATCAACTTGAACCTCAGAGATTATTATTTAATTAAGTATTATT
*
23707648 GGCATTCAGAGAATCAACTTGAACCTCAGATTATTATTATTTAATTAAGTATTATT
1 GGCATTCAGAGAATCAACTTGAACCTCAGA-GATTATTATTTAATTAAGTATTATT
23707704 AAGTATTTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
53 25 0.50
54 1 0.02
56 24 0.48
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (55 bp):
GGCATTCAGAGAATCAACTTGAACCTCAGAGATTATTATTTAATTAAGTATTATT
Found at i:23710445 original size:33 final size:32
Alignment explanation
Indices: 23710397--23710461 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
23710387 CGATGGACTA
*
23710397 TCTGTTATGTGTTTACTGTCCCAGCAGACTATC
1 TCTGTTATGTATTTACTGTCCCAGCAGA-TATC
*
23710430 TCTGTTCTGTATTTACTGTCCCAGCAGATATC
1 TCTGTTATGTATTTACTGTCCCAGCAGATATC
23710462 CTTATTTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (32 bp):
TCTGTTATGTATTTACTGTCCCAGCAGATATC
Found at i:23710494 original size:26 final size:25
Alignment explanation
Indices: 23710439--23710487 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23710429 CTCTGTTCTG
* *
23710439 TATTTACTGTCCCAGCAGATATCCT
1 TATTTACTGCCCCAACAGATATCCT
*
23710464 TATTTACTGCCCCAATAGACTATC
1 TATTTACTGCCCCAACAGA-TATC
23710488 TCTATTTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (25 bp):
TATTTACTGCCCCAACAGATATCCT
Found at i:23721548 original size:79 final size:81
Alignment explanation
Indices: 23721412--23721596 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
23721402 TTGAATGATG
*
23721412 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
23721476 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
23721491 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
23721553 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
23721571 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23721597 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:23721610 original size:40 final size:40
Alignment explanation
Indices: 23721413--23721596 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
23721403 TGAATGATGT
* * * *
23721413 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
23721453 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
23721493 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
23721531 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
23721572 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23721597 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:23721618 original size:79 final size:79
Alignment explanation
Indices: 23721465--23721629 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
23721455 GGACTAAGAT
* **
23721465 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
23721530 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
23721544 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
23721607 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23721623 CCGAAGG
1 CCGAAGG
23721630 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23731242 original size:12 final size:12
Alignment explanation
Indices: 23731225--23731249 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23731215 TTCTTTTTAT
23731225 ACAAAAAAAAAA
1 ACAAAAAAAAAA
23731237 ACAAAAAAAAAA
1 ACAAAAAAAAAA
23731249 A
1 A
23731250 AGAAAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAAAA
Found at i:23731255 original size:12 final size:13
Alignment explanation
Indices: 23731227--23731257 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23731217 CTTTTTATAC
23731227 AAAAAAAAAAACA
1 AAAAAAAAAAACA
*
23731240 AAAAAAAAAAAGA
1 AAAAAAAAAAACA
23731253 AAAAA
1 AAAAA
23731258 GGAAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:23741400 original size:50 final size:50
Alignment explanation
Indices: 23741290--23741413 Score: 135
Period size: 50 Copynumber: 2.5 Consensus size: 50
23741280 GGGAATGAGA
* * **
23741290 TCCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCGTGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGCAGTGGGCACCGTGATGAGAAC
**
23741340 TCCCCCGTAAGACCATGTCTGGGACATGCCA-TGGGCACCGAT-ATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATG-CAGTGGGCACCG-TGATGAGAAC
* **
23741390 TCTCATGTAAGACCAAATCTGGGA
1 TCCCATGTAAGACCATGTCTGGGA
23741414 TATGACATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
50 59 0.97
51 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGCAGTGGGCACCGTGATGAGAAC
Found at i:23742933 original size:213 final size:213
Alignment explanation
Indices: 23742560--23742985 Score: 834
Period size: 213 Copynumber: 2.0 Consensus size: 213
23742550 GTGCATCTTG
23742560 TAGTTTCTTCCAAAACCGCGATGTGAACCTCGGATCTCTATCCAAAACAATAGATAGAGGTACTC
1 TAGTTTCTTCCAAAACCGCGATGTGAACCTCGGATCTCTATCCAAAACAATAGATAGAGGTACTC
23742625 CGTGCAATCTCACAACCTCGGAAATATACAACTCAGCTAATTTATCAAGCGAATAGTCCGTTTGT
66 CGTGCAATCTCACAACCTCGGAAATATACAACTCAGCTAATTTATCAAGCGAATAGTCCGTTTGT
23742690 ACTGGAATGAAATGAGCTGATTTCGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTT
131 ACTGGAATGAAATGAGCTGATTTCGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTT
23742755 CAGAGATAGGGGCAATCC
196 CAGAGATAGGGGCAATCC
23742773 TAGTTTCTTCCAAAACCGCGATGTGAACCTCGGATCTCTATCCAAAACAATAGATAGAGGTACTC
1 TAGTTTCTTCCAAAACCGCGATGTGAACCTCGGATCTCTATCCAAAACAATAGATAGAGGTACTC
23742838 CGTGCAATCTCACAACCTCGGAAATATACAACTCAGCTAATTTATCAAGCGAATAGTCCGTTTGT
66 CGTGCAATCTCACAACCTCGGAAATATACAACTCAGCTAATTTATCAAGCGAATAGTCCGTTTGT
* *
23742903 ACTGGAATGAAATGAGTTGATTTTGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTT
131 ACTGGAATGAAATGAGCTGATTTCGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTT
23742968 CAGAGATAGGGGCAATCC
196 CAGAGATAGGGGCAATCC
23742986 CGACACAAAA
Statistics
Matches: 211, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 211 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (213 bp):
TAGTTTCTTCCAAAACCGCGATGTGAACCTCGGATCTCTATCCAAAACAATAGATAGAGGTACTC
CGTGCAATCTCACAACCTCGGAAATATACAACTCAGCTAATTTATCAAGCGAATAGTCCGTTTGT
ACTGGAATGAAATGAGCTGATTTCGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTT
CAGAGATAGGGGCAATCC
Found at i:23743082 original size:139 final size:139
Alignment explanation
Indices: 23742908--23743187 Score: 560
Period size: 139 Copynumber: 2.0 Consensus size: 139
23742898 TTTGTACTGG
23742908 AATGAAATGAGTTGATTTTGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTTCAGAG
1 AATGAAATGAGTTGATTTTGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTTCAGAG
23742973 ATAGGGGCAATCCCGACACAAAATCCTTAGTCATTCTATCCCATTTCCACTCAAGAATCATAATC
66 ATAGGGGCAATCCCGACACAAAATCCTTAGTCATTCTATCCCATTTCCACTCAAGAATCATAATC
23743038 GGCTGTAAT
131 GGCTGTAAT
23743047 AATGAAATGAGTTGATTTTGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTTCAGAG
1 AATGAAATGAGTTGATTTTGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTTCAGAG
23743112 ATAGGGGCAATCCCGACACAAAATCCTTAGTCATTCTATCCCATTTCCACTCAAGAATCATAATC
66 ATAGGGGCAATCCCGACACAAAATCCTTAGTCATTCTATCCCATTTCCACTCAAGAATCATAATC
23743177 GGCTGTAAT
131 GGCTGTAAT
23743186 AA
1 AA
23743188 ACCAGATGGT
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 141 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (139 bp):
AATGAAATGAGTTGATTTTGTTAATCTGTTAACTATAACCCAGATCGCATCTTTCTTTTTCAGAG
ATAGGGGCAATCCCGACACAAAATCCTTAGTCATTCTATCCCATTTCCACTCAAGAATCATAATC
GGCTGTAAT
Found at i:23747944 original size:22 final size:22
Alignment explanation
Indices: 23747916--23747961 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
23747906 GCTGAGATTG
23747916 TTCATCTTCATGGATCTTAAGT
1 TTCATCTTCATGGATCTTAAGT
23747938 TTCATCTTCATGGATCTTAAGT
1 TTCATCTTCATGGATCTTAAGT
23747960 TT
1 TT
23747962 ACTTCAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (22 bp):
TTCATCTTCATGGATCTTAAGT
Found at i:23750541 original size:20 final size:19
Alignment explanation
Indices: 23750518--23750643 Score: 99
Period size: 20 Copynumber: 6.3 Consensus size: 19
23750508 TACTTCAGAA
*
23750518 CCCCTGAATGCACATTTGTG
1 CCCCTGATTGCAC-TTTGTG
* * * *
23750538 CCCCTGTTTGTACTTCGATA
1 CCCCTGATTGCACTTTG-TG
* * *
23750558 CCCCTAAATGCACATTTGTT
1 CCCCTGATTGCAC-TTTGTG
23750578 CCCCTGATTGCACTTTGGTG
1 CCCCTGATTGCACTTT-GTG
*
23750598 CCCCTGATTGCACATTCGTG
1 CCCCTGATTGCAC-TTTGTG
* *
23750618 CTCTTGATTGCACTTTGATG
1 CCCCTGATTGCACTTTG-TG
23750638 CCCCTG
1 CCCCTG
23750644 TTATGCATCT
Statistics
Matches: 81, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
19 9 0.11
20 67 0.83
21 5 0.06
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.35
Consensus pattern (19 bp):
CCCCTGATTGCACTTTGTG
Found at i:23750550 original size:40 final size:40
Alignment explanation
Indices: 23750495--23750592 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
23750485 AAATGAAGAA
*
23750495 GTGCCCCTGTTTGTACTTCAGA-ACCCCTGAATGCACATTT
1 GTGCCCCTGTTTGTACTTC-GATACCCCTAAATGCACATTT
23750535 GTGCCCCTGTTTGTACTTCGATACCCCTAAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGATACCCCTAAATGCACATTT
* * *
23750575 GTTCCCCTGATTGCACTT
1 GTGCCCCTGTTTGTACTT
23750593 TGGTGCCCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.04
40 51 0.96
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (40 bp):
GTGCCCCTGTTTGTACTTCGATACCCCTAAATGCACATTT
Found at i:23750602 original size:40 final size:40
Alignment explanation
Indices: 23750518--23750643 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 40
23750508 TACTTCAGAA
* * * *
23750518 CCCCTGAATGCACATTTGTGCCCCTGTTTGTACTTCGATA
1 CCCCTGAATGCACATTTGTGCCCCTGATTGCACTTTGATG
* * *
23750558 CCCCTAAATGCACATTTGTTCCCCTGATTGCACTTTGGTG
1 CCCCTGAATGCACATTTGTGCCCCTGATTGCACTTTGATG
* * * *
23750598 CCCCTGATTGCACATTCGTGCTCTTGATTGCACTTTGATG
1 CCCCTGAATGCACATTTGTGCCCCTGATTGCACTTTGATG
23750638 CCCCTG
1 CCCCTG
23750644 TTATGCATCT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.35
Consensus pattern (40 bp):
CCCCTGAATGCACATTTGTGCCCCTGATTGCACTTTGATG
Found at i:23753383 original size:75 final size:77
Alignment explanation
Indices: 23753296--23753448 Score: 274
Period size: 77 Copynumber: 2.0 Consensus size: 77
23753286 ATATTTTATT
*
23753296 ATTTTATTAGTATTTTATTT-A-GTATATATAAGAAAAGGAAGATGAAGAATCATCCATTCCACC
1 ATTTTATTAGTATTTTATTTAATATATATATAAGAAAAGGAAGATGAAGAATCATCCATTCCACC
23753359 ATATTTCCATGC
66 ATATTTCCATGC
*
23753371 ATTTTATTAGTATTTTATTTAATATATATATAAGAAAAGGAAGATGAAGAATCATCCATTTCACC
1 ATTTTATTAGTATTTTATTTAATATATATATAAGAAAAGGAAGATGAAGAATCATCCATTCCACC
23753436 ATATTTCCATGC
66 ATATTTCCATGC
23753448 A
1 A
23753449 ACTAACGTGA
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 20 0.27
76 1 0.01
77 53 0.72
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (77 bp):
ATTTTATTAGTATTTTATTTAATATATATATAAGAAAAGGAAGATGAAGAATCATCCATTCCACC
ATATTTCCATGC
Found at i:23755575 original size:13 final size:13
Alignment explanation
Indices: 23755557--23755581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23755547 ACATATTTGA
23755557 GTAAGTAAATATG
1 GTAAGTAAATATG
23755570 GTAAGTAAATAT
1 GTAAGTAAATAT
23755582 ACACAAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
GTAAGTAAATATG
Found at i:23756021 original size:50 final size:50
Alignment explanation
Indices: 23755952--23756283 Score: 459
Period size: 50 Copynumber: 6.6 Consensus size: 50
23755942 TGTGAGCCAG
*
23755952 TGTAAGACCATGTCAGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * *
23756002 TGTAAGACCTTGTCTGGGACATTGCGTTGGCACTGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * *
23756052 TGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATAAGAAGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* *
23756102 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCACA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * *
23756152 TGTAAGACCATGTCTAGGACATAGCGTTGGCACCGAGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * * * **
23756202 CGTAAGACTATGTCTGGGACATGGC-ATGGACACCGATATGAGAACTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGG-CACCGAGATGAGAGGTCCCA
* * *
23756252 TGTAAGACCATATCTGGGATATGGCATTGGCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCA
23756284 ATATAGAAAA
Statistics
Matches: 246, Mismatches: 34, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
49 3 0.01
50 240 0.98
51 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
Found at i:23756317 original size:49 final size:48
Alignment explanation
Indices: 23756047--23756322 Score: 150
Period size: 50 Copynumber: 5.6 Consensus size: 48
23756037 AGATGAGAGG
* * * * *
23756047 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGG-CACCGAGAT-AAGAAG
1 TCCCATGTAAGACTATGTCTGGGACATGGC-ATGGACA-C-ATATGAA-AAC
* * * **
23756097 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAGATGAGAGG
1 TCCCATGTAAGACTATGTCTGGGACATGGCA-TGGACA-C-ATATGAAAAC
* * * * * * * **
23756147 TCACATGTAAGACCATGTCTAGGACATAGCGTTGG-CACCGAGATGAGAGG
1 TCCCATGTAAGACTATGTCTGGGACATGGC-ATGGACA-C-ATATGAAAAC
** *
23756197 TCCCCCGTAAGACTATGTCTGGGACATGGCATGGACACCGATATGAGAAC
1 TCCCATGTAAGACTATGTCTGGGACATGGCATGGACA-C-ATATGAAAAC
* * *
23756247 TCCCATGTAAGACCATATCTGGGATATGGCATTGG-CA-ATATAGAAAAC
1 TCCCATGTAAGACTATGTCTGGGACATGGCA-TGGACACATAT-GAAAAC
23756295 ATCCCATGTAAGACTATGTCTGGGACAT
1 -TCCCATGTAAGACTATGTCTGGGACAT
23756323 AGCTTTGGAA
Statistics
Matches: 192, Mismatches: 27, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
47 4 0.02
48 5 0.03
49 27 0.14
50 152 0.79
51 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (48 bp):
TCCCATGTAAGACTATGTCTGGGACATGGCATGGACACATATGAAAAC
Found at i:23758029 original size:30 final size:31
Alignment explanation
Indices: 23757995--23758062 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
23757985 TTGCCCAAGA
** * **
23757995 GTAAATAATCAAAATTTGAGGGATTAA-AGT
1 GTAAATAAAAAAAATTTGAAGGACCAATAGT
23758025 GTAAATAAAAAAAATTTGAAGGACCAATAGT
1 GTAAATAAAAAAAATTTGAAGGACCAATAGT
23758056 GTAAATA
1 GTAAATA
23758063 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAAATAAAAAAAATTTGAAGGACCAATAGT
Found at i:23765442 original size:130 final size:130
Alignment explanation
Indices: 23765209--23765464 Score: 379
Period size: 130 Copynumber: 2.0 Consensus size: 130
23765199 AATCATCGAG
* * *
23765209 AATCACTTGACCGGCTAAACCTAAAAAACTTCTAACCTCAAATACATTTCTCGGAGGCTTCTAAT
1 AATCACTTGACCGGCTAAACCCAAAAAACTTCTAACCTCAAATACATTTCTCAGAGGCTTCCAAT
* * * ** *
23765274 CAACAATAGCTGAAATTTTTCTTGGATCAACTCTAATGCCTTCAACTGATACAACATGTCCAATA
66 CAACAACAGCTAAAATATTTCTAAGATCAACTCTAATGCCTTCAACCGATACAACATGTCCAATA
* * *
23765339 AATCACTTGACCGGCTAAACCCAGAAAACTTCTAACCTCTAATACATTTCTCAGATGCTTCCAAT
1 AATCACTTGACCGGCTAAACCCAAAAAACTTCTAACCTCAAATACATTTCTCAGAGGCTTCCAAT
*
23765404 CAACAACAGCTAAAATATTTCTCAAG-TCAACTCTAATGCCTTCGACCGATACAACATGTCC
66 CAACAACAGCTAAAATATTTCT-AAGATCAACTCTAATGCCTTCAACCGATACAACATGTCC
23765465 CAGAAATCTG
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
130 111 0.99
131 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (130 bp):
AATCACTTGACCGGCTAAACCCAAAAAACTTCTAACCTCAAATACATTTCTCAGAGGCTTCCAAT
CAACAACAGCTAAAATATTTCTAAGATCAACTCTAATGCCTTCAACCGATACAACATGTCCAATA
Found at i:23767603 original size:21 final size:20
Alignment explanation
Indices: 23767566--23767608 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
23767556 CGTGAGGGTT
*
23767566 TTTTTAATTTGAATATTATAA
1 TTTTTAAATTGAATATT-TAA
23767587 TTTTTAAATT-AATTATTTAA
1 TTTTTAAATTGAA-TATTTAA
23767607 TT
1 TT
23767609 AGGCTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTTAAATTGAATATTTAA
Found at i:23768764 original size:18 final size:18
Alignment explanation
Indices: 23768725--23768769 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
23768715 ATTTTTCAAA
*
23768725 AAATAATTTGTTTTTTTC
1 AAATAATTTGTTTTTATC
23768743 AAATAATTTGTTTTGTAT-
1 AAATAATTTGTTTT-TATC
*
23768761 AAATTATTT
1 AAATAATTT
23768770 TATTCCACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (18 bp):
AAATAATTTGTTTTTATC
Found at i:23770798 original size:79 final size:82
Alignment explanation
Indices: 23770687--23770871 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
23770677 GCTACTCGTT
* * *
23770687 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
23770750 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
23770767 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
23770830 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
23770847 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23770872 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:23770871 original size:40 final size:40
Alignment explanation
Indices: 23770668--23770871 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
23770658 CGGAATTTAA
** *
23770668 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
23770708 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
23770748 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23770787 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
23770827 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
23770867 CCGGA
1 CCGGA
23770872 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23780345 original size:49 final size:49
Alignment explanation
Indices: 23780290--23780384 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
23780280 CACAGAGTAA
23780290 GCATTTAAACTTAGGAAGTTCATATAAAATAGAATTTAACTTACCATTG
1 GCATTTAAACTTAGGAAGTTCATATAAAATAGAATTTAACTTACCATTG
* *
23780339 GCATTTAAACTTAGTAAGTTCATATAACATAGAATTTAACTTACCA
1 GCATTTAAACTTAGGAAGTTCATATAAAATAGAATTTAACTTACCA
23780385 GTAGTCATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (49 bp):
GCATTTAAACTTAGGAAGTTCATATAAAATAGAATTTAACTTACCATTG
Found at i:23794883 original size:42 final size:42
Alignment explanation
Indices: 23794745--23794971 Score: 228
Period size: 42 Copynumber: 5.4 Consensus size: 42
23794735 CTCGGTGGAT
* *
23794745 TCAGCACTTAGCAACCACC-TTA-AATTTAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAATGATACGGGGAA
* * * *
23794786 TCAACACATAGCAACC-CCTTTCACAATCAAAGATACGGTAGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GGAA
* * *
23794829 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
* *
23794871 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GGAA
* * * * *
23794914 TCAGCACTTAGTAACCACCTTTAGAGTCAATAATTCGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
*
23794956 TCAGCACTTAGTAACC
1 TCAGCACTTAGCAACC
23794972 CCTCGGGGAA
Statistics
Matches: 153, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.01
41 21 0.14
42 60 0.39
43 60 0.39
44 10 0.07
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
Found at i:23794887 original size:85 final size:85
Alignment explanation
Indices: 23794745--23794974 Score: 345
Period size: 85 Copynumber: 2.7 Consensus size: 85
23794735 CTCGGTGGAT
* *
23794745 TCAGCACTTAGCAACCACC-TTAAATTTAGTGATACGGGGAATCAACACATAGCAACCCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
23794809 CAATCAAAGATACGGTAGAA
66 CAATCAAAGATACGGTAGAA
*
23794829 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
*
23794894 CAATCAAAGATACGGTGGAA
66 CAATCAAAGATACGGTAGAA
* * * * * * * *
23794914 TCAGCACTTAGTAACCACCTTTAGAGTCAATAATTCGGGGAATCAGCACTTAGTAACCCCT
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCT
23794975 CGGGGAATTT
Statistics
Matches: 133, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 19 0.14
85 114 0.86
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (85 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
CAATCAAAGATACGGTAGAA
Found at i:23794998 original size:26 final size:26
Alignment explanation
Indices: 23794948--23794998 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23794938 AGTCAATAAT
*
23794948 TCGGGGAATCAGCACTTAGTAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
** *
23794974 TCGGGGAATTTGCACTTAGCGACCC
1 TCGGGGAATCAGCACTTAGCAACCC
23794999 ATTTTTATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAGCAACCCC
Found at i:23798223 original size:38 final size:38
Alignment explanation
Indices: 23798173--23798262 Score: 155
Period size: 38 Copynumber: 2.4 Consensus size: 38
23798163 TATTTTATTT
*
23798173 GCATA-CATAAATGTGTAAATTTTAGCAAAGTGTATGA
1 GCATACCATAAATGTGCAAATTTTAGCAAAGTGTATGA
*
23798210 GCATACCATAAATGTGCAAATTTTAGCGAAGTGTATGA
1 GCATACCATAAATGTGCAAATTTTAGCAAAGTGTATGA
23798248 GCATACCATAAATGT
1 GCATACCATAAATGT
23798263 ACAACAATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 5 0.10
38 45 0.90
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (38 bp):
GCATACCATAAATGTGCAAATTTTAGCAAAGTGTATGA
Done.